Repeat Table

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Repeat Table for Human herpesvirus 1 17

The tandem repeats listed in the table were identified using the Tandem Repeat Finder by G. Genson
"Tandem repeats finder: a program to analyze DNA sequences" Nucleic Acids Research (1999) Vol. 27, No. 2, pp. 573-580.

Repeat Name Copy # Location Length Gene & Intergenic Id(s) Definitions-Comments
tan1 18.60 98,320 HHVONE000 , IGR1 latency associated transcript, 5' segment
intergenic region [This region contains one tandem nucleotide repeat with genomic coordinates 98-320, period 12, copy # 18.6, with 100% matches and no inserts/deletes.]
tan2 5.90 988,1040 HHVONE001 , HHVONE001.1 , HHVONE001.2 , HHVONE000 anti-host defense factor, ICP34.5
unknown
unknown
latency associated transcript, 5' segment
tan3 3.20 2341,2388 HHVONE002 , HHVONE000 promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11)
latency associated transcript, 5' segment
tan4 2.20 2453,2482 HHVONE002 , HHVONE000 promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11)
latency associated transcript, 5' segment
tan5 2.40 2465,2590 HHVONE002 , HHVONE000 promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11)
latency associated transcript, 5' segment
tan6 4.20 4137,4161 HHVONE002 , HHVONE000 promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11)
latency associated transcript, 5' segment
tan7 9.50 5726,5877 HHVONE000 , IGR2 latency associated transcript, 5' segment
intergenic region [This region contains four tandem nucleotide repeats with genomic coordinates 1) 5726-5877, period 16, copy # 9.5, with 99% matches and no inserts/deletes, 2) 7903-7928, period 9, copy # 2.9, with 100% matches and no inserts/deletes, 3) 8552-8583, period 5, copy # 6.4, with 100% matches and no inserts/deletes and 4) 9032-9212, period 17, copy # 10.6, with 100% matches and no inserts/deletes. ]
tan8 2.90 7903,7928 IGR2 intergenic region [This region contains four tandem nucleotide repeats with genomic coordinates 1) 5726-5877, period 16, copy # 9.5, with 99% matches and no inserts/deletes, 2) 7903-7928, period 9, copy # 2.9, with 100% matches and no inserts/deletes, 3) 8552-8583, period 5, copy # 6.4, with 100% matches and no inserts/deletes and 4) 9032-9212, period 17, copy # 10.6, with 100% matches and no inserts/deletes. ]
tan9 6.40 8552,8583 IGR2 intergenic region [This region contains four tandem nucleotide repeats with genomic coordinates 1) 5726-5877, period 16, copy # 9.5, with 99% matches and no inserts/deletes, 2) 7903-7928, period 9, copy # 2.9, with 100% matches and no inserts/deletes, 3) 8552-8583, period 5, copy # 6.4, with 100% matches and no inserts/deletes and 4) 9032-9212, period 17, copy # 10.6, with 100% matches and no inserts/deletes. ]
tan10 10.60 9032,9212 IGR2 intergenic region [This region contains four tandem nucleotide repeats with genomic coordinates 1) 5726-5877, period 16, copy # 9.5, with 99% matches and no inserts/deletes, 2) 7903-7928, period 9, copy # 2.9, with 100% matches and no inserts/deletes, 3) 8552-8583, period 5, copy # 6.4, with 100% matches and no inserts/deletes and 4) 9032-9212, period 17, copy # 10.6, with 100% matches and no inserts/deletes. ]
tan11 2.20 30195,30220 HHVONE017 , HHVONE018 DNA cleavage/packaging protein (VTER_HSV11)
virion protein (UL16_HSV11)
tan12 35.00 71605,71814 HHVONE039 very large tegument protein, ICP1/2 (TEGU_HSV11)
tan13 3.10 79393,79439 HHVONE039 very large tegument protein, ICP1/2 (TEGU_HSV11)
tan14 10.76 117158,117340 IGR47 intergenic region [This region contains four tandem nucleotide repeats at genome coordinates 1) 117158-117340, period 17, copy # 10.8, with 100% matches and no inserts/deletes, 2) 117788-117819, period 5, copy # 6.4 with 100% matches and no inseerts/deletes, 3) 118443-118468, period 9 copy # 2.9, with 100% matches and no inserts/deletes and 4) 120494-120645, period 16, copy # 9.4 with 99% matches and no inserts/deletes.]
tan15 6.40 117788,117819 IGR47 intergenic region [This region contains four tandem nucleotide repeats at genome coordinates 1) 117158-117340, period 17, copy # 10.8, with 100% matches and no inserts/deletes, 2) 117788-117819, period 5, copy # 6.4 with 100% matches and no inseerts/deletes, 3) 118443-118468, period 9 copy # 2.9, with 100% matches and no inserts/deletes and 4) 120494-120645, period 16, copy # 9.4 with 99% matches and no inserts/deletes.]
tan16 2.90 118443,118468 IGR47 intergenic region [This region contains four tandem nucleotide repeats at genome coordinates 1) 117158-117340, period 17, copy # 10.8, with 100% matches and no inserts/deletes, 2) 117788-117819, period 5, copy # 6.4 with 100% matches and no inseerts/deletes, 3) 118443-118468, period 9 copy # 2.9, with 100% matches and no inserts/deletes and 4) 120494-120645, period 16, copy # 9.4 with 99% matches and no inserts/deletes.]
tan17 9.40 120494,120645 HHVONE060.1 , IGR47 latency associated transcript, LAT
intergenic region [This region contains four tandem nucleotide repeats at genome coordinates 1) 117158-117340, period 17, copy # 10.8, with 100% matches and no inserts/deletes, 2) 117788-117819, period 5, copy # 6.4 with 100% matches and no inseerts/deletes, 3) 118443-118468, period 9 copy # 2.9, with 100% matches and no inserts/deletes and 4) 120494-120645, period 16, copy # 9.4 with 99% matches and no inserts/deletes.]
tan18 4.20 122210,122234 HHVONE061 , HHVONE060.1 promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11)
latency associated transcript, LAT
tan19 2.40 123780,123906 HHVONE061 , HHVONE060.1 promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11)
latency associated transcript, LAT
tan20 2.20 123889,123918 HHVONE061 , HHVONE060.1 promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11)
latency associated transcript, LAT
tan21 2.40 123903,123999 HHVONE061 , HHVONE060.1 promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11)
latency associated transcript, LAT
tan22 4.10 123983,124043 HHVONE061 , HHVONE060.1 promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11)
latency associated transcript, LAT
tan23 5.90 125331,125383 HHVONE062 , HHVONE061.1 , HHVONE061.2 , HHVONE060.1 anti-host defense factor, ICP34.5
unknown
unknown
latency associated transcript, LAT
tan24 18.60 126051,126273 HHVONE060.1 , IGR49 latency associated transcript, LAT
intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 126051-126273, period 12, copy # 18.6 with 100% matches and no inserts/deletes, 2) 126571-126709, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 126810-127142, period 17, copy # 19.6 with 100% matches and no inserts/deletes.]
tan25 8.70 126571,126709 HHVONE060.1 , IGR49 latency associated transcript, LAT
intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 126051-126273, period 12, copy # 18.6 with 100% matches and no inserts/deletes, 2) 126571-126709, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 126810-127142, period 17, copy # 19.6 with 100% matches and no inserts/deletes.]
tan26 19.60 126810,127142 HHVONE060.1 , IGR49 latency associated transcript, LAT
intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 126051-126273, period 12, copy # 18.6 with 100% matches and no inserts/deletes, 2) 126571-126709, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 126810-127142, period 17, copy # 19.6 with 100% matches and no inserts/deletes.]
tan27 2.20 130976,131001 HHVONE063 positive and negative gene regulator, ICP4 (ICP4_HSV11)
tan28 5.70 132388,132513 IGR50 intergenic region [This region contains a tandem nucleotide repeat at genome coordinates 132388-132513, period 22, copy # 5.7 with 99% matches and no inserts/deletes.]
tan29 1.90 132760,132816 HHVONE064 transcription factor, ICP22 (IE68_HSV11)
tan30 3.10 140404,140469 HHVONE070 glycoprotein I, gI (VGLI_HSV11)
tan31 10.20 143712,143864 IGR59 intergenic region [This region contains two tandem nucleotide repeats superimposed at genome coordinates 143712-143858, period 4, copy # 39.0 with 76% matches and 17 inserts/deletes and 143712-143864, period 15, copy # 10.2 with 100% matches and no inserts/deletes.]
tan32 3.30 144809,144868 HHVONE074 , HHVONE075 tegument protein (US10_HSV11)
RNA-binding tegument protein (DNB_HSV11)
tan33 7.70 145676,145845 IGR61 intergenic region [This region contains one tandem nucleotide repeat at genome coordinates 145676-145845, period 22, copy # 7.7 with 97% matches and no inserts/deletes. ]
tan34 2.20 147232,147257 HHVONE077 positive and negative gene regulator, ICP4 (ICP4_HSV11)
tan35 19.60 151091,151423 HHVONE078 , IGR62 latency associated transcript, 3' segment
intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 151091-151423, period 17, copy # 19.6 with 100% matches and no inserts/deletes, 2) 151524-151662, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 151960-152182, period 12, copy # 18.6 with 100% matches and no inserts/deletes. ]
tan36 8.70 151524,151662 HHVONE078 , IGR62 latency associated transcript, 3' segment
intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 151091-151423, period 17, copy # 19.6 with 100% matches and no inserts/deletes, 2) 151524-151662, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 151960-152182, period 12, copy # 18.6 with 100% matches and no inserts/deletes. ]
tan37 18.60 151960,152182 HHVONE078 , IGR62 latency associated transcript, 3' segment
intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 151091-151423, period 17, copy # 19.6 with 100% matches and no inserts/deletes, 2) 151524-151662, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 151960-152182, period 12, copy # 18.6 with 100% matches and no inserts/deletes. ]

Los Alamos National Laboratory • Est 1943

Repeat Name	Copy #	Location	Length	Gene & Intergenic Id(s)	Definitions-Comments
tan1	18.60	98,320		HHVONE000 , IGR1	latency associated transcript, 5' segment intergenic region [This region contains one tandem nucleotide repeat with genomic coordinates 98-320, period 12, copy # 18.6, with 100% matches and no inserts/deletes.]
tan2	5.90	988,1040		HHVONE001 , HHVONE001.1 , HHVONE001.2 , HHVONE000	anti-host defense factor, ICP34.5 unknown unknown latency associated transcript, 5' segment
tan3	3.20	2341,2388		HHVONE002 , HHVONE000	promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11) latency associated transcript, 5' segment
tan4	2.20	2453,2482		HHVONE002 , HHVONE000	promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11) latency associated transcript, 5' segment
tan5	2.40	2465,2590		HHVONE002 , HHVONE000	promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11) latency associated transcript, 5' segment
tan6	4.20	4137,4161		HHVONE002 , HHVONE000	promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11) latency associated transcript, 5' segment
tan7	9.50	5726,5877		HHVONE000 , IGR2	latency associated transcript, 5' segment intergenic region [This region contains four tandem nucleotide repeats with genomic coordinates 1) 5726-5877, period 16, copy # 9.5, with 99% matches and no inserts/deletes, 2) 7903-7928, period 9, copy # 2.9, with 100% matches and no inserts/deletes, 3) 8552-8583, period 5, copy # 6.4, with 100% matches and no inserts/deletes and 4) 9032-9212, period 17, copy # 10.6, with 100% matches and no inserts/deletes. ]
tan8	2.90	7903,7928		IGR2	intergenic region [This region contains four tandem nucleotide repeats with genomic coordinates 1) 5726-5877, period 16, copy # 9.5, with 99% matches and no inserts/deletes, 2) 7903-7928, period 9, copy # 2.9, with 100% matches and no inserts/deletes, 3) 8552-8583, period 5, copy # 6.4, with 100% matches and no inserts/deletes and 4) 9032-9212, period 17, copy # 10.6, with 100% matches and no inserts/deletes. ]
tan9	6.40	8552,8583		IGR2	intergenic region [This region contains four tandem nucleotide repeats with genomic coordinates 1) 5726-5877, period 16, copy # 9.5, with 99% matches and no inserts/deletes, 2) 7903-7928, period 9, copy # 2.9, with 100% matches and no inserts/deletes, 3) 8552-8583, period 5, copy # 6.4, with 100% matches and no inserts/deletes and 4) 9032-9212, period 17, copy # 10.6, with 100% matches and no inserts/deletes. ]
tan10	10.60	9032,9212		IGR2	intergenic region [This region contains four tandem nucleotide repeats with genomic coordinates 1) 5726-5877, period 16, copy # 9.5, with 99% matches and no inserts/deletes, 2) 7903-7928, period 9, copy # 2.9, with 100% matches and no inserts/deletes, 3) 8552-8583, period 5, copy # 6.4, with 100% matches and no inserts/deletes and 4) 9032-9212, period 17, copy # 10.6, with 100% matches and no inserts/deletes. ]
tan11	2.20	30195,30220		HHVONE017 , HHVONE018	DNA cleavage/packaging protein (VTER_HSV11) virion protein (UL16_HSV11)
tan12	35.00	71605,71814		HHVONE039	very large tegument protein, ICP1/2 (TEGU_HSV11)
tan13	3.10	79393,79439		HHVONE039	very large tegument protein, ICP1/2 (TEGU_HSV11)
tan14	10.76	117158,117340		IGR47	intergenic region [This region contains four tandem nucleotide repeats at genome coordinates 1) 117158-117340, period 17, copy # 10.8, with 100% matches and no inserts/deletes, 2) 117788-117819, period 5, copy # 6.4 with 100% matches and no inseerts/deletes, 3) 118443-118468, period 9 copy # 2.9, with 100% matches and no inserts/deletes and 4) 120494-120645, period 16, copy # 9.4 with 99% matches and no inserts/deletes.]
tan15	6.40	117788,117819		IGR47	intergenic region [This region contains four tandem nucleotide repeats at genome coordinates 1) 117158-117340, period 17, copy # 10.8, with 100% matches and no inserts/deletes, 2) 117788-117819, period 5, copy # 6.4 with 100% matches and no inseerts/deletes, 3) 118443-118468, period 9 copy # 2.9, with 100% matches and no inserts/deletes and 4) 120494-120645, period 16, copy # 9.4 with 99% matches and no inserts/deletes.]
tan16	2.90	118443,118468		IGR47	intergenic region [This region contains four tandem nucleotide repeats at genome coordinates 1) 117158-117340, period 17, copy # 10.8, with 100% matches and no inserts/deletes, 2) 117788-117819, period 5, copy # 6.4 with 100% matches and no inseerts/deletes, 3) 118443-118468, period 9 copy # 2.9, with 100% matches and no inserts/deletes and 4) 120494-120645, period 16, copy # 9.4 with 99% matches and no inserts/deletes.]
tan17	9.40	120494,120645		HHVONE060.1 , IGR47	latency associated transcript, LAT intergenic region [This region contains four tandem nucleotide repeats at genome coordinates 1) 117158-117340, period 17, copy # 10.8, with 100% matches and no inserts/deletes, 2) 117788-117819, period 5, copy # 6.4 with 100% matches and no inseerts/deletes, 3) 118443-118468, period 9 copy # 2.9, with 100% matches and no inserts/deletes and 4) 120494-120645, period 16, copy # 9.4 with 99% matches and no inserts/deletes.]
tan18	4.20	122210,122234		HHVONE061 , HHVONE060.1	promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11) latency associated transcript, LAT
tan19	2.40	123780,123906		HHVONE061 , HHVONE060.1	promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11) latency associated transcript, LAT
tan20	2.20	123889,123918		HHVONE061 , HHVONE060.1	promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11) latency associated transcript, LAT
tan21	2.40	123903,123999		HHVONE061 , HHVONE060.1	promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11) latency associated transcript, LAT
tan22	4.10	123983,124043		HHVONE061 , HHVONE060.1	promiscuous transactivator, cellular homolog, ICP0, VMW110, IE110 (ICP0_HSV11) latency associated transcript, LAT
tan23	5.90	125331,125383		HHVONE062 , HHVONE061.1 , HHVONE061.2 , HHVONE060.1	anti-host defense factor, ICP34.5 unknown unknown latency associated transcript, LAT
tan24	18.60	126051,126273		HHVONE060.1 , IGR49	latency associated transcript, LAT intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 126051-126273, period 12, copy # 18.6 with 100% matches and no inserts/deletes, 2) 126571-126709, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 126810-127142, period 17, copy # 19.6 with 100% matches and no inserts/deletes.]
tan25	8.70	126571,126709		HHVONE060.1 , IGR49	latency associated transcript, LAT intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 126051-126273, period 12, copy # 18.6 with 100% matches and no inserts/deletes, 2) 126571-126709, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 126810-127142, period 17, copy # 19.6 with 100% matches and no inserts/deletes.]
tan26	19.60	126810,127142		HHVONE060.1 , IGR49	latency associated transcript, LAT intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 126051-126273, period 12, copy # 18.6 with 100% matches and no inserts/deletes, 2) 126571-126709, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 126810-127142, period 17, copy # 19.6 with 100% matches and no inserts/deletes.]
tan27	2.20	130976,131001		HHVONE063	positive and negative gene regulator, ICP4 (ICP4_HSV11)
tan28	5.70	132388,132513		IGR50	intergenic region [This region contains a tandem nucleotide repeat at genome coordinates 132388-132513, period 22, copy # 5.7 with 99% matches and no inserts/deletes.]
tan29	1.90	132760,132816		HHVONE064	transcription factor, ICP22 (IE68_HSV11)
tan30	3.10	140404,140469		HHVONE070	glycoprotein I, gI (VGLI_HSV11)
tan31	10.20	143712,143864		IGR59	intergenic region [This region contains two tandem nucleotide repeats superimposed at genome coordinates 143712-143858, period 4, copy # 39.0 with 76% matches and 17 inserts/deletes and 143712-143864, period 15, copy # 10.2 with 100% matches and no inserts/deletes.]
tan32	3.30	144809,144868		HHVONE074 , HHVONE075	tegument protein (US10_HSV11) RNA-binding tegument protein (DNB_HSV11)
tan33	7.70	145676,145845		IGR61	intergenic region [This region contains one tandem nucleotide repeat at genome coordinates 145676-145845, period 22, copy # 7.7 with 97% matches and no inserts/deletes. ]
tan34	2.20	147232,147257		HHVONE077	positive and negative gene regulator, ICP4 (ICP4_HSV11)
tan35	19.60	151091,151423		HHVONE078 , IGR62	latency associated transcript, 3' segment intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 151091-151423, period 17, copy # 19.6 with 100% matches and no inserts/deletes, 2) 151524-151662, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 151960-152182, period 12, copy # 18.6 with 100% matches and no inserts/deletes. ]
tan36	8.70	151524,151662		HHVONE078 , IGR62	latency associated transcript, 3' segment intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 151091-151423, period 17, copy # 19.6 with 100% matches and no inserts/deletes, 2) 151524-151662, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 151960-152182, period 12, copy # 18.6 with 100% matches and no inserts/deletes. ]
tan37	18.60	151960,152182		HHVONE078 , IGR62	latency associated transcript, 3' segment intergenic region [This region contains three tandem nucleotide repeats at genome coordinates 1) 151091-151423, period 17, copy # 19.6 with 100% matches and no inserts/deletes, 2) 151524-151662, period 16, copy # 8.7 with 99% matches and no inserts/deletes and 3) 151960-152182, period 12, copy # 18.6 with 100% matches and no inserts/deletes. ]