genome.fa.s7.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   

This is table  3  of  79  ( 9388 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
913699--913968	134	2.0	136	85	6	370	32	29	5	32	1.81
924635--924796	69	2.3	69	88	1	234	37	19	13	30	1.90
925194--925234	6	6.8	6	91	0	55	17	43	2	36	1.62
925932--926394	230	2.0	231	99	0	910	34	9	7	48	1.63
927684--927734	21	2.4	21	83	3	66	64	1	0	33	1.05
931005--931056	27	1.9	27	84	7	70	55	0	1	42	1.10
931767--931842	24	3.2	24	67	14	66	28	43	9	18	1.81
939155--939212	19	3.2	18	80	9	64	62	1	0	36	1.06
939198--939367	84	2.0	85	98	1	333	47	7	9	36	1.63
942941--942988	19	2.5	20	82	3	62	64	2	0	33	1.05
953497--954445	50	19.0	50	65	3	429	22	24	23	29	1.99
953440--954518	100	10.8	100	87	0	1433	22	24	22	29	1.99
953433--954515	50	21.6	50	66	2	396	22	24	23	29	1.99
954717--955291	88	6.5	88	87	1	704	24	24	22	28	2.00
955005--955152	45	3.3	45	63	12	115	27	22	25	24	2.00
956564--956596	13	2.3	15	90	10	52	12	15	0	72	1.12
956564--956596	7	4.7	7	88	11	50	12	15	0	72	1.12
961839--961885	18	2.7	18	78	21	55	63	2	0	34	1.06
972670--973447	394	2.0	394	99	0	1538	26	19	22	30	1.98
974724--974765	22	1.9	22	90	0	66	9	19	26	45	1.80
974852--975045	43	4.5	43	91	0	289	31	26	17	24	1.97
983694--983970	9	30.0	9	69	15	129	36	2	16	45	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
983696--983845	51	2.9	51	89	8	209	37	0	17	45	1.49
983873--983988	54	2.1	56	87	7	166	35	1	16	46	1.57
984153--984235	27	3.1	27	75	6	87	33	0	16	49	1.46
984175--984258	9	9.6	9	77	12	77	32	0	19	48	1.49
984153--984258	54	2.0	52	90	3	167	33	0	17	49	1.48
985903--985975	23	3.2	23	78	12	71	42	0	2	54	1.14
985937--985975	21	1.9	21	89	5	62	43	0	0	56	0.99
986121--986189	7	9.7	7	72	20	54	40	40	0	18	1.51
986123--986162	14	2.8	14	88	3	62	37	47	0	15	1.45
986121--986189	21	3.2	22	83	6	72	40	40	0	18	1.51
986557--986671	41	2.9	39	77	3	122	28	24	19	27	1.98
986749--986850	39	2.6	39	82	1	123	29	26	19	24	1.98
993377--993416	5	8.0	5	94	0	62	35	20	25	20	1.96
993767--993834	27	2.5	26	76	6	64	41	0	2	55	1.15
993787--993831	18	2.6	18	83	13	58	40	0	4	55	1.20
993941--993984	19	2.6	16	80	19	54	38	0	4	56	1.20
993787--994093	153	2.0	154	99	0	607	34	7	7	50	1.60
993946--993985	19	2.3	18	87	12	57	35	0	5	60	1.19
1024213--1024291	39	2.0	39	100	0	158	29	27	10	32	1.89
1028262--1028288	10	2.7	10	100	0	54	70	0	0	29	0.88
1035660--1035698	16	2.5	15	87	8	51	35	0	10	53	1.35
1046282--1046312	6	5.2	6	92	0	53	12	35	0	51	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1051548--1051595	25	1.9	25	86	0	69	62	6	8	22	1.46
1057780--1057816	16	2.2	18	85	9	51	13	21	0	64	1.27
1063505--1063532	12	2.3	12	100	0	56	10	35	21	32	1.88
1063518--1064399	361	2.4	364	95	2	1564	39	19	14	27	1.90
1075458--1075515	17	3.5	16	72	13	55	32	1	5	60	1.29
1075460--1075530	33	2.2	33	92	0	115	36	1	4	57	1.27
1078954--1079031	22	3.6	22	74	8	61	65	6	8	19	1.42
1086410--1086474	31	2.1	31	83	11	80	46	13	20	20	1.84
1086706--1086741	15	2.4	15	90	0	54	22	33	5	38	1.77
1097527--1097577	9	5.7	9	75	9	50	70	1	0	27	0.98
1099117--1099179	30	2.1	30	93	0	108	57	11	3	28	1.49
1105002--1105035	17	2.0	17	100	0	68	47	5	0	47	1.26
1111505--1111547	22	2.0	21	86	4	59	25	6	0	67	1.15
1111978--1112018	3	13.7	3	100	0	82	68	0	31	0	0.90
1122088--1122130	22	1.9	23	86	13	63	11	25	51	11	1.72
1123343--1123581	76	3.1	76	92	0	379	41	26	7	25	1.81
1124797--1124848	17	3.1	16	83	5	59	63	1	1	32	1.16
1130973--1131027	17	3.1	17	74	23	58	34	3	16	45	1.65
1134880--1134924	23	2.0	23	81	0	54	20	24	6	48	1.73
1137544--1137711	89	1.9	89	92	2	284	27	11	20	39	1.88
1144759--1144925	73	2.3	73	89	3	246	26	21	21	29	1.99
1145105--1145130	12	2.2	12	100	0	52	46	30	15	7	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145318--1145632	76	4.1	76	92	2	508	40	25	8	25	1.83
1153405--1153719	76	4.1	76	92	0	531	41	26	7	24	1.82
1153772--1153909	42	3.3	42	89	0	168	14	29	10	44	1.79
1158758--1158844	34	2.5	34	78	9	95	31	21	19	27	1.98
1163983--1164056	38	1.9	39	88	2	114	36	10	10	41	1.75
1165436--1165477	11	3.7	11	82	14	50	50	0	7	42	1.30
1165803--1165843	20	2.0	20	95	0	73	14	36	9	39	1.79
1166387--1166444	28	2.1	28	84	9	75	25	6	15	51	1.68
1166619--1166704	33	2.7	33	79	15	83	39	1	3	55	1.24
1166644--1166672	14	2.0	15	93	6	51	37	0	0	62	0.96
1168508--1168580	36	2.0	36	84	5	94	30	20	21	27	1.98
1172505--1172592	42	2.1	42	87	4	124	42	7	36	13	1.74
1177853--1177892	17	2.4	17	91	4	64	32	2	10	55	1.47
1178474--1178527	28	1.9	28	81	7	65	38	9	1	50	1.45
1183356--1183471	57	2.0	57	98	0	223	25	12	35	25	1.92
1189229--1189272	21	2.0	22	86	4	63	31	29	11	27	1.91
1190168--1190304	42	3.3	42	92	0	211	43	13	27	14	1.84
1190357--1190551	74	2.6	75	90	1	302	25	8	26	38	1.85
1191127--1191468	170	2.0	171	90	2	535	33	15	13	36	1.87
1191452--1191493	21	2.0	22	85	4	59	35	2	0	61	1.09
1192826--1192965	55	2.5	55	86	4	210	50	17	9	22	1.74
1193946--1194020	21	3.7	20	75	5	60	56	16	6	21	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1194163--1194393	55	4.2	55	84	1	275	46	16	9	26	1.78
1199313--1199409	47	2.1	47	82	7	117	27	7	15	49	1.71
1210555--1210615	19	3.2	19	67	4	50	26	1	29	42	1.65
1210958--1211182	112	2.0	113	99	0	443	43	7	17	32	1.76
1222052--1222230	89	2.0	90	98	1	351	36	12	17	33	1.87
1223106--1223161	29	1.9	29	85	0	76	33	12	1	51	1.50
1223290--1223348	22	2.5	24	78	13	70	42	6	1	49	1.39
1229123--1229198	40	1.9	39	83	2	98	35	22	26	15	1.94
1229300--1229578	42	6.7	41	89	1	360	15	25	26	32	1.95
1229400--1229470	25	3.2	25	59	29	59	15	29	26	28	1.96
1235805--1235843	20	2.0	20	100	0	78	20	0	33	46	1.51
1239617--1239654	20	2.0	19	90	10	60	47	0	5	47	1.24
1248128--1248168	16	2.5	16	88	4	64	56	4	14	24	1.58
1249166--1249259	47	2.0	47	89	0	143	29	14	22	32	1.94
1249899--1249940	22	1.9	22	90	0	66	47	11	0	40	1.40
1249898--1250026	31	3.9	31	75	20	118	47	13	0	38	1.44
1249930--1250021	9	10.2	9	73	23	61	46	16	0	36	1.47
1249932--1250021	38	2.2	41	84	9	114	46	16	0	36	1.47
1255489--1255533	21	2.1	21	91	0	72	37	17	42	2	1.62
1255423--1255615	87	2.2	87	87	5	275	38	18	31	10	1.86
1255589--1255628	21	1.9	21	85	10	55	40	12	37	10	1.77
1255991--1256168	43	4.1	43	79	10	143	23	24	25	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256953--1257598	43	15.1	43	89	0	755	22	21	26	30	1.99
1257811--1257953	42	3.4	42	88	1	169	44	13	28	13	1.81
1258009--1258275	76	3.5	76	95	1	457	24	8	26	40	1.83
1259012--1259053	21	2.0	22	85	4	59	35	2	0	61	1.09
1259270--1259330	30	2.0	31	87	12	90	37	4	3	54	1.39
1260111--1260250	29	5.3	29	60	22	83	29	23	0	46	1.58
1260086--1260257	51	3.4	51	96	0	308	27	25	0	46	1.57
1262070--1262104	18	1.9	18	100	0	70	20	28	5	45	1.73
1262667--1263244	23	26.3	23	82	7	611	48	23	1	26	1.59
1262667--1263234	44	13.0	44	81	6	622	48	23	1	26	1.58

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79