genome.fa.s7.2.7.7.80.10.50.1000.4.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  4  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)
1262669--1263211	21	24.9	21	81	7	408	48	23	1	26	1.58
1262669--1263211	175	3.1	175	85	5	724	48	23	1	26	1.58
1263779--1263818	18	2.3	18	86	4	55	10	10	2	77	1.08
1264511--1264582	3	23.0	3	78	16	67	30	2	2	63	1.22
1264631--1264664	16	2.1	17	88	5	52	17	2	5	73	1.16
1268845--1269215	123	3.0	123	90	1	571	32	22	15	29	1.95
1270252--1270413	55	2.9	55	80	6	200	50	17	8	23	1.73
1270372--1270449	37	2.2	36	84	6	97	48	19	11	20	1.79
1271372--1271420	21	2.4	20	79	3	53	57	16	2	24	1.50
1271602--1271832	55	4.2	55	83	1	257	46	17	9	26	1.77
1285922--1286140	55	4.0	55	84	1	269	47	17	9	26	1.77
1288526--1288573	15	3.3	14	77	8	51	60	0	2	37	1.09
1288526--1288584	22	2.8	21	82	7	66	66	0	1	32	1.02
1288532--1288586	22	2.6	21	88	2	74	67	0	1	30	1.01
1288526--1288573	7	6.6	7	81	9	51	60	0	2	37	1.09
1288539--1288586	21	2.2	22	88	3	71	68	0	2	29	1.01
1289104--1289256	74	2.1	74	93	0	261	32	26	17	23	1.97
1290801--1290857	28	2.0	28	96	0	105	36	3	10	49	1.55
1290801--1290874	28	2.7	29	85	8	82	36	4	12	47	1.60
1299568--1299593	13	2.0	13	100	0	52	38	15	23	23	1.92
1302130--1302163	12	2.8	12	90	4	50	0	14	0	85	0.60
1302113--1302162	19	2.6	19	84	6	57	4	10	2	84	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302130--1302163	11	3.0	11	91	4	50	0	14	0	85	0.60
1306673--1306729	21	2.5	23	80	13	73	75	7	14	3	1.14
1307186--1307237	15	3.3	15	76	12	52	82	3	9	3	0.91
1307562--1307770	108	1.9	107	85	6	289	25	17	9	47	1.77
1308446--1308584	45	3.1	45	87	4	226	28	15	23	32	1.95
1308671--1309067	84	4.6	84	69	11	216	30	23	20	24	1.98
1308579--1309468	128	7.0	128	93	0	1413	31	22	20	24	1.98
1308627--1309557	44	21.6	44	67	11	309	31	22	20	25	1.98
1308799--1309167	84	4.3	84	67	13	243	31	23	20	24	1.98
1309390--1309556	45	3.7	43	76	9	156	29	22	21	26	1.99
1310322--1310369	9	5.1	9	82	7	60	4	10	2	83	0.87
1311196--1311265	32	2.2	32	85	10	90	38	11	4	45	1.60
1312678--1312723	9	5.3	9	84	10	69	56	0	2	41	1.11
1312682--1312752	3	22.7	3	77	8	54	61	0	2	35	1.10
1312683--1312738	16	3.4	16	81	15	62	62	0	1	35	1.06
1312678--1312738	25	2.5	25	91	2	97	60	0	1	37	1.07
1312695--1312752	29	2.0	29	83	12	75	65	0	1	32	1.03
1313229--1313269	16	2.6	16	80	3	57	78	7	9	4	1.10
1319772--1319796	2	12.5	2	100	0	50	0	48	0	52	1.00
1324465--1324511	19	2.5	19	96	3	87	19	14	25	40	1.90
1325814--1325855	20	2.1	20	90	0	66	40	11	16	30	1.85
1325864--1325894	15	2.1	15	100	0	62	22	12	25	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344132--1344156	13	1.9	13	100	0	50	68	0	24	8	1.16
1344941--1345137	44	4.5	44	68	13	120	28	20	20	29	1.98
1344889--1345136	129	1.9	129	80	3	293	29	21	18	30	1.97
1345191--1345543	87	4.1	87	91	0	553	24	25	23	26	2.00
1350210--1350528	46	6.9	46	92	2	534	23	16	29	30	1.96
1350514--1350569	28	2.0	28	82	0	67	33	10	30	25	1.90
1350468--1350615	74	2.0	74	86	2	208	27	13	29	29	1.94
1350542--1350735	46	4.2	46	88	3	257	26	14	26	31	1.95
1350422--1350641	120	1.8	120	91	3	363	24	14	29	31	1.95
1350376--1350694	166	1.9	166	90	3	509	25	14	29	30	1.95
1350560--1350737	92	1.9	92	90	0	284	26	15	25	32	1.95
1350347--1350733	212	1.8	212	90	2	625	25	15	28	31	1.96
1352457--1352515	3	19.3	3	76	10	57	32	3	3	61	1.29
1352815--1352845	16	1.9	16	93	0	53	32	16	9	41	1.80
1353352--1353431	30	2.7	30	88	0	115	47	6	23	22	1.74
1359233--1359312	30	2.7	30	92	0	124	47	5	22	25	1.71
1362668--1362807	55	2.5	55	85	4	210	50	15	9	25	1.74
1363580--1363609	15	2.0	15	100	0	60	46	0	0	53	1.00
1380761--1380812	24	2.2	24	89	0	77	55	9	1	32	1.43
1393887--1393914	2	14.0	2	100	0	56	50	0	0	50	1.00
1400205--1400302	50	1.9	51	95	2	180	38	5	12	43	1.64
1400587--1400655	33	2.1	34	91	2	113	34	23	5	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1404263--1404361	49	2.0	48	98	1	189	47	9	8	35	1.65
1404677--1404734	27	2.1	27	96	0	107	43	22	10	24	1.84
1412089--1412310	111	2.0	111	98	1	428	31	16	21	31	1.95
1416845--1416888	23	1.9	23	81	9	54	52	9	9	29	1.64
1426783--1426814	15	2.1	15	100	0	64	25	6	31	37	1.81
1432510--1432543	17	2.1	17	88	5	52	64	2	0	32	1.08
1436318--1436389	5	15.2	5	81	11	89	61	1	0	37	1.05
1441417--1441456	16	2.4	16	83	4	53	57	7	7	27	1.53
1441784--1441814	8	3.9	8	100	0	62	51	0	0	48	1.00
1455068--1455134	33	2.1	33	86	8	93	14	11	26	46	1.80
1455085--1455134	16	3.1	16	72	16	57	12	8	30	50	1.68
1455085--1455131	17	2.9	16	73	17	51	12	8	27	51	1.69
1456139--1456216	36	2.2	36	95	0	138	25	3	24	46	1.70
1456456--1456494	1	39.0	1	100	0	78	0	0	0	100	0.00
1463423--1463482	31	1.9	31	86	6	86	40	11	11	36	1.78
1481552--1481594	14	2.9	15	75	10	52	44	2	4	48	1.36
1484887--1484919	15	2.2	15	100	0	66	12	12	18	57	1.64
1497858--1497904	16	2.9	16	81	9	51	40	2	4	53	1.32
1503747--1503984	119	2.0	119	84	3	309	28	14	11	45	1.79
1525584--1525635	20	2.5	22	76	17	58	30	5	3	59	1.39
1526478--1526519	20	2.2	19	86	4	57	35	4	2	57	1.33
1538516--1538567	26	2.0	26	100	0	104	42	0	19	38	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1538519--1538580	26	2.4	26	89	5	81	45	1	17	35	1.59
1545959--1546167	110	1.9	110	87	2	303	22	20	15	42	1.89
1547085--1547117	16	2.1	16	94	0	57	42	0	18	39	1.50
1552782--1552897	33	3.2	37	63	20	98	29	9	12	49	1.71
1552754--1552901	73	2.0	74	98	1	289	31	9	11	47	1.71
1561894--1561963	20	3.5	20	80	9	79	45	4	18	31	1.69
1561916--1561963	21	2.3	20	89	3	69	45	2	18	33	1.61
1562222--1562256	2	18.0	2	88	5	54	48	0	2	48	1.16
1563090--1563143	21	2.5	22	77	14	67	48	0	1	50	1.11
1565136--1565466	164	2.0	164	100	0	662	31	25	13	29	1.94
1576017--1576046	12	2.5	12	94	0	51	56	6	10	26	1.57
1580204--1580518	103	3.1	103	100	0	630	20	19	26	33	1.97
1593137--1593243	48	2.2	48	81	9	119	70	3	0	25	1.10
1593197--1593253	20	3.0	18	78	16	62	66	1	1	29	1.12
1593181--1593246	20	3.3	20	79	12	75	71	1	1	25	1.04
1593624--1593683	27	2.2	27	85	11	79	25	1	3	70	1.12
1596713--1596767	28	2.0	28	100	0	110	7	25	14	52	1.67
1611498--1611522	10	2.5	10	100	0	50	36	0	0	64	0.94
1612608--1612663	27	2.0	28	86	3	78	55	0	0	44	0.99
1612615--1612660	23	2.0	24	83	12	60	56	0	0	43	0.99
1614877--1615144	43	6.2	43	75	10	208	26	29	20	23	1.99
1614877--1615144	86	3.1	86	78	2	243	26	29	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615465--1615524	21	2.9	21	82	0	75	8	45	11	35	1.71
1615504--1615646	60	2.3	60	83	9	162	15	29	16	39	1.89
1617172--1617401	117	2.0	118	95	0	417	33	16	17	32	1.93
1618596--1618662	5	13.8	5	76	17	61	0	23	0	76	0.79
1618593--1618662	14	5.3	13	77	14	72	0	22	0	77	0.78
1618596--1618662	20	3.5	19	86	8	91	0	23	0	76	0.79
1631486--1631550	31	2.1	32	82	8	80	43	4	16	35	1.69
1635722--1635754	13	2.5	13	95	5	57	39	0	12	48	1.40
1635808--1635860	21	2.6	21	82	11	56	60	3	5	30	1.37
1639954--1639978	2	12.5	2	100	0	50	52	0	0	48	1.00

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