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: chr7
Parameters: 2 7 7 80 10 50 1000
Length:  21614486

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   

This is table  3  of  54  ( 6420 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)
1007539--1007585	21	2.3	20	85	10	60	25	0	0	74	0.82
1015213--1015490	149	1.9	149	85	1	387	39	22	8	28	1.84
1040181--1040226	4	11.5	4	90	0	74	50	2	0	47	1.13
1040181--1040226	6	7.7	6	95	0	74	50	2	0	47	1.13
1042502--1042527	12	2.2	12	100	0	52	30	0	0	69	0.89
1057130--1057161	15	2.1	15	100	0	64	46	18	0	34	1.49
1074286--1074328	2	21.5	2	100	0	86	51	0	0	48	1.00
1077125--1077274	72	2.1	72	98	0	291	36	22	10	31	1.87
1078979--1079034	27	2.1	27	89	0	85	25	26	17	30	1.97
1079879--1079904	12	2.2	12	100	0	52	42	0	7	50	1.31
1089667--1089722	27	2.1	27	93	0	94	25	28	17	28	1.98
1094848--1094981	51	2.6	51	84	0	178	34	6	18	40	1.77
1095104--1095187	22	3.8	22	83	0	96	25	9	20	45	1.81
1095219--1095271	23	2.3	23	83	3	72	24	9	26	39	1.86
1111812--1111876	2	33.0	2	82	11	73	3	49	0	46	1.17
1113416--1113466	15	3.3	16	72	8	52	52	1	37	7	1.42
1117712--1117741	2	15.0	2	100	0	60	50	0	0	50	1.00
1118749--1118788	8	5.0	8	90	0	62	82	0	0	17	0.67
1118749--1118799	10	5.6	9	84	13	52	80	0	0	19	0.71
1122781--1122818	20	1.9	20	94	0	67	26	7	15	50	1.72
1141362--1141449	39	2.2	40	86	6	117	61	0	7	30	1.25
1141636--1141679	15	2.9	15	82	0	52	38	20	0	40	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1147517--1147550	12	2.8	12	83	16	52	64	0	2	32	1.08
1147927--1147961	2	17.5	2	100	0	70	48	0	0	51	1.00
1149106--1149239	35	3.8	35	81	7	155	35	10	34	20	1.87
1153814--1153911	2	50.5	2	83	6	130	48	0	2	46	1.13
1163952--1164058	36	2.9	36	79	8	99	19	16	24	39	1.92
1165507--1165555	22	2.2	22	82	13	57	10	14	2	73	1.18
1173321--1173536	72	3.0	71	81	5	263	33	31	6	28	1.84
1176691--1176728	18	2.1	18	90	0	58	39	13	15	31	1.86
1184469--1184507	18	2.2	18	90	0	60	41	15	10	33	1.81
1184566--1184609	15	2.9	15	86	6	54	68	6	0	25	1.14
1192184--1192229	23	2.0	23	82	0	56	6	34	17	41	1.75
1203023--1203194	46	3.8	46	80	6	170	39	8	15	36	1.79
1205781--1205834	15	3.6	15	76	0	54	25	22	9	42	1.83
1208980--1209194	72	3.0	72	82	4	290	33	33	6	26	1.83
1216555--1216653	46	2.2	46	83	10	139	36	10	15	38	1.81
1227390--1227433	22	2.0	22	86	8	63	47	9	4	38	1.56
1256508--1256583	39	1.9	39	86	5	109	15	2	7	73	1.17
1259982--1260032	21	2.4	21	100	0	102	35	19	13	31	1.91
1265294--1265822	268	2.0	270	90	1	839	33	13	14	37	1.87
1274419--1274521	2	51.5	2	96	3	190	49	0	49	0	1.00
1301959--1301983	2	12.5	2	100	0	50	52	0	48	0	1.00
1317612--1317664	2	26.5	2	76	0	52	43	5	5	45	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1317612--1317665	12	4.5	12	85	0	72	42	5	7	44	1.55
1325888--1325943	2	28.0	2	96	0	103	48	0	1	50	1.11
1329433--1329474	12	3.4	12	81	18	59	38	2	0	59	1.10
1330981--1331036	29	1.9	29	82	7	69	28	14	5	51	1.64
1332749--1332782	2	17.0	2	100	0	68	0	50	0	50	1.00
1339683--1339776	31	3.0	31	100	0	188	31	25	17	25	1.97
1343923--1343965	23	1.9	23	85	4	61	53	0	2	44	1.13
1351981--1352166	65	2.9	65	79	0	210	48	10	11	29	1.72
1354237--1354294	29	2.0	29	89	0	89	20	15	29	34	1.94
1354777--1354807	2	15.5	2	100	0	62	48	0	0	51	1.00
1362650--1362687	20	1.9	20	88	0	58	13	15	15	55	1.70
1368018--1368239	45	4.9	45	90	0	327	29	28	27	15	1.96
1368249--1368295	24	2.0	24	91	0	76	19	27	17	36	1.93
1374928--1374976	22	2.2	22	85	0	62	28	12	12	46	1.77
1374988--1375576	26	24.9	24	71	16	244	39	24	11	24	1.89
1375127--1375307	69	2.6	70	86	4	269	38	25	13	22	1.90
1375222--1375375	43	3.3	43	69	16	128	39	24	12	23	1.90
1375061--1375486	95	4.5	96	81	9	433	39	24	11	24	1.88
1375369--1375565	69	2.8	68	76	6	180	40	24	11	23	1.87
1375101--1375578	260	1.8	260	86	3	685	40	24	11	24	1.87
1375303--1375614	164	1.9	165	84	5	427	41	24	10	24	1.86
1375456--1375630	95	1.8	95	80	2	208	41	22	10	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1411520--1411578	30	2.0	30	86	0	82	35	5	3	55	1.38
1415598--1415653	6	9.3	6	78	5	60	25	0	0	75	0.81
1415596--1415653	29	2.0	28	87	9	82	24	0	0	75	0.80
1415598--1415653	23	2.3	24	93	6	96	25	0	0	75	0.81
1415614--1415653	17	2.5	16	84	11	55	22	0	0	77	0.77
1415655--1415679	10	2.5	10	100	0	50	20	8	8	64	1.46
1423414--1423514	50	2.0	50	94	0	175	34	24	21	18	1.96
1423764--1423810	2	25.0	2	87	12	73	53	0	0	46	1.00
1432414--1432461	25	2.0	24	84	12	62	37	4	4	54	1.39
1434955--1434998	22	2.0	22	100	0	88	45	9	4	40	1.56
1437627--1437666	17	2.4	17	84	15	57	32	5	5	57	1.42
1439809--1439879	33	2.2	32	87	2	97	26	5	0	67	1.12
1440084--1440130	24	1.9	25	87	12	71	31	8	10	48	1.68
1444733--1444775	22	2.0	22	90	4	70	74	9	11	4	1.20
1445362--1445431	2	36.0	2	82	5	90	57	0	0	42	0.99
1446093--1446140	2	25.0	2	91	8	82	50	0	0	50	1.00
1451686--1451740	25	2.2	25	80	6	67	50	1	0	47	1.11
1451901--1451953	2	28.5	2	85	14	78	47	0	0	52	1.00
1453793--1453827	17	2.1	17	100	0	70	31	5	17	45	1.71
1459841--1460001	76	2.2	75	82	6	193	36	3	8	52	1.47
1461555--1461599	21	2.1	21	84	8	56	77	2	17	2	0.97
1461551--1461602	25	2.1	25	85	7	70	78	1	17	1	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1472413--1472468	26	2.1	27	90	3	87	25	14	19	41	1.89
1479561--1479805	123	2.0	122	100	0	481	23	22	19	34	1.96
1481280--1481340	29	2.1	29	100	0	122	45	6	24	22	1.76
1482537--1482581	23	1.9	24	86	4	65	51	6	0	42	1.28
1488413--1488536	3	41.3	3	91	0	203	37	0	29	33	1.58
1490971--1491017	24	2.0	24	83	8	60	51	6	0	42	1.27
1492997--1493040	19	2.3	19	88	7	63	79	2	18	0	0.83
1503774--1504006	2	114.5	2	89	4	351	49	4	45	0	1.23
1533104--1533143	19	2.1	18	86	13	53	55	0	0	45	0.99
1533191--1533234	21	2.2	20	83	4	52	43	6	0	50	1.29
1534256--1534298	2	21.5	2	100	0	86	51	0	0	48	1.00
1541021--1541067	23	2.0	23	95	0	85	44	10	12	31	1.77
1542304--1542331	2	14.0	2	100	0	56	50	0	50	0	1.00
1545561--1545598	19	2.0	19	85	10	51	36	39	10	13	1.79
1560339--1560425	42	2.1	42	95	0	156	36	19	21	21	1.95
1572644--1572675	2	16.0	2	100	0	64	0	50	0	50	1.00
1572689--1572715	2	13.5	2	100	0	54	0	51	0	48	1.00
1572648--1572728	41	2.0	40	95	2	144	7	41	8	40	1.64
1581400--1581427	14	2.0	14	100	0	56	35	0	42	21	1.53
1583936--1583982	23	2.1	23	84	11	62	51	0	2	46	1.13
1586750--1586793	14	2.8	16	90	10	65	22	4	0	72	1.02
1587290--1587360	23	3.2	22	78	8	72	35	4	0	60	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1587697--1587749	23	2.3	24	87	6	74	41	0	0	58	0.98
1591496--1591538	20	2.2	20	87	8	61	2	11	11	74	1.17
1598683--1598720	16	2.4	16	86	4	51	18	0	7	73	1.06
1599470--1599513	9	4.9	9	88	0	52	18	2	63	15	1.41
1611307--1611376	36	1.9	36	91	0	113	25	18	21	34	1.96
1612883--1612926	20	2.3	19	84	4	52	27	0	15	56	1.40
1621464--1621502	20	1.9	20	84	5	51	66	10	10	12	1.44
1628508--1628551	23	1.9	23	90	0	70	52	0	0	47	1.00
1628579--1628613	16	2.2	16	89	0	52	42	14	5	37	1.69
1633765--1633790	9	2.9	9	100	0	52	65	0	0	34	0.93

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