genome.fa.s6.2.7.7.80.10.50.1000.4.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: chr6
Parameters: 2 7 7 80 10 50 1000
Length:  26303135

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   

This is table  4  of  66  ( 7821 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)
1285212--1285388	86	2.1	86	88	2	257	23	23	22	29	1.99
1286282--1286308	7	3.9	7	100	0	54	74	0	0	25	0.83
1286279--1286329	19	2.5	20	79	14	52	72	0	1	25	0.95
1286274--1286330	7	8.8	6	83	7	51	71	0	1	26	0.95
1307203--1307228	2	13.0	2	100	0	52	50	0	0	50	1.00
1318703--1318736	2	17.0	2	100	0	68	50	0	0	50	1.00
1318914--1318987	29	2.5	30	91	4	114	31	24	8	36	1.84
1319226--1319342	15	8.2	15	66	21	65	52	1	0	44	1.16
1319293--1319340	7	7.3	7	76	19	50	47	0	0	52	1.00
1319820--1319868	11	4.5	11	76	7	55	16	4	0	79	0.88
1321422--1321468	24	2.0	24	83	8	60	31	23	14	29	1.95
1323024--1323235	107	2.0	107	91	0	343	26	21	12	39	1.89
1330133--1330160	2	14.0	2	100	0	56	0	50	0	50	1.00
1330160--1330194	2	17.0	2	94	5	61	48	0	0	48	1.01
1330195--1330220	2	13.0	2	100	0	52	0	50	0	50	1.00
1330220--1330251	2	16.0	2	100	0	64	50	0	0	50	1.00
1335862--1335895	13	2.8	12	91	8	59	91	0	8	0	0.43
1337191--1337240	20	2.5	19	81	12	64	38	34	8	20	1.82
1337233--1337552	167	1.9	166	84	3	428	31	18	11	37	1.87
1337648--1337693	21	2.2	21	92	0	74	39	30	6	23	1.80
1337372--1337705	145	2.3	144	79	8	363	32	19	10	36	1.87
1338648--1338724	38	2.0	38	100	0	154	62	7	5	24	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1338648--1338713	22	3.3	22	65	30	65	62	7	6	24	1.45
1350020--1350059	2	19.5	2	94	5	71	47	2	0	50	1.14
1350161--1350200	2	20.0	2	100	0	80	50	0	0	50	1.00
1352982--1353031	6	8.5	6	80	10	59	80	0	0	20	0.72
1352981--1353026	24	1.9	24	90	0	74	76	0	0	23	0.79
1354042--1354087	2	23.5	2	91	4	76	47	2	0	50	1.13
1373498--1373559	27	2.3	27	83	5	81	3	56	1	38	1.25
1374679--1375114	84	5.2	84	87	1	531	14	30	11	42	1.81
1382675--1382748	33	2.2	33	80	4	78	40	10	6	41	1.66
1382803--1382865	30	2.1	31	82	8	76	49	4	11	34	1.59
1382821--1382907	29	3.0	29	80	8	95	52	1	10	35	1.43
1382986--1383029	22	2.0	22	82	13	54	56	2	4	36	1.32
1384231--1384333	47	2.2	47	92	0	170	35	24	14	25	1.93
1385230--1385270	15	2.6	15	84	7	55	75	0	17	7	1.02
1400516--1400555	12	3.3	12	82	10	55	35	0	0	65	0.93
1400617--1400659	18	2.2	20	88	8	63	46	0	2	51	1.13
1402696--1402726	6	5.2	6	100	0	62	16	67	0	16	1.23
1405954--1406008	25	2.2	25	83	3	65	54	1	1	41	1.21
1405963--1406029	35	2.0	35	82	5	84	55	1	1	41	1.18
1410334--1410400	33	2.0	33	97	0	125	31	25	11	31	1.92
1412436--1412472	16	2.2	17	90	4	58	40	2	0	56	1.13
1412452--1412500	13	3.7	13	80	2	53	34	2	4	59	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1418106--1418135	6	4.8	6	92	8	51	3	0	13	83	0.77
1433244--1433272	2	14.5	2	100	0	58	0	51	0	48	1.00
1433423--1433906	237	2.0	239	92	2	803	23	14	25	36	1.93
1441669--1441693	5	5.0	5	100	0	50	20	0	0	80	0.72
1441822--1441848	4	6.8	4	100	0	54	48	0	0	51	1.00
1443361--1443475	54	2.1	54	78	9	119	53	3	5	38	1.41
1443578--1443609	15	2.1	15	94	0	55	40	0	0	59	0.97
1453212--1453255	20	2.2	20	88	11	65	61	2	0	36	1.09
1454466--1454499	2	17.0	2	100	0	68	50	0	0	50	1.00
1463828--1463856	10	2.9	10	100	0	58	72	0	0	27	0.85
1469563--1469629	26	2.6	25	78	17	73	55	2	0	41	1.15
1470157--1470203	22	2.2	21	88	11	69	51	0	0	48	1.00
1473931--1473984	28	2.0	28	85	10	76	64	3	24	7	1.35
1477148--1477202	16	3.7	15	73	14	51	27	5	10	56	1.56
1484024--1484078	15	3.4	16	78	12	60	41	5	0	52	1.24
1497584--1497617	17	1.9	18	88	5	52	2	8	2	85	0.80
1497668--1497700	10	3.4	10	87	4	50	90	3	0	6	0.52
1497667--1497700	17	1.9	18	88	5	52	88	2	0	8	0.62
1499443--1499491	3	16.3	3	100	0	98	32	0	0	67	0.91
1513321--1513345	13	1.9	13	100	0	50	52	0	16	32	1.44
1514124--1514195	25	2.7	26	77	16	76	59	1	0	38	1.06
1514289--1514378	40	2.2	40	90	3	137	32	20	8	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1517194--1517228	14	2.6	13	86	8	52	48	0	51	0	1.00
1520073--1520102	3	10.0	3	100	0	60	66	0	0	33	0.92
1522906--1523579	135	5.0	135	87	1	893	45	12	23	18	1.84
1524736--1524777	15	2.9	15	82	13	52	45	0	2	52	1.13
1536125--1536181	29	2.0	29	92	0	96	42	12	8	36	1.74
1566847--1566889	19	2.3	19	91	0	68	41	0	0	58	0.98
1568854--1568890	3	11.7	3	88	11	56	35	2	0	62	1.10
1571296--1571357	12	5.2	12	75	14	65	56	8	17	17	1.64
1571296--1571357	24	2.6	24	97	0	115	56	8	17	17	1.64
1572161--1572261	51	2.0	52	82	9	127	27	9	16	45	1.79
1574508--1574534	2	13.5	2	100	0	54	51	48	0	0	1.00
1574534--1574561	2	14.0	2	100	0	56	50	0	0	50	1.00
1574545--1574632	43	2.1	44	81	10	103	39	7	1	51	1.39
1575642--1575737	2	51.0	2	79	15	107	48	1	1	47	1.15
1575643--1575737	19	5.5	19	79	17	84	48	1	1	48	1.15
1575642--1575737	17	5.3	19	82	17	109	48	1	1	47	1.15
1575642--1575737	46	2.1	46	88	3	140	48	1	1	47	1.15
1575642--1575737	23	4.2	23	85	10	117	48	1	1	47	1.15
1581090--1581346	129	2.0	129	92	0	433	22	18	30	28	1.97
1583962--1584015	17	3.2	16	79	10	54	83	1	3	11	0.85
1584270--1584314	17	2.5	19	78	10	58	44	0	2	53	1.13
1584741--1584771	2	16.0	2	93	6	55	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1588926--1589030	51	2.1	50	81	10	117	33	6	13	46	1.69
1589846--1589898	17	3.0	16	77	20	52	39	0	3	56	1.17
1590258--1590353	43	2.2	43	85	3	122	43	10	19	26	1.83
1590646--1590685	18	2.2	18	86	0	53	52	2	2	42	1.28
1606624--1606677	19	2.9	19	76	15	51	74	3	3	18	1.12
1612948--1612983	18	2.0	18	94	0	63	38	8	5	47	1.57
1612984--1613014	14	2.2	14	94	0	53	61	3	0	35	1.12
1615322--1615365	18	2.4	18	82	17	56	36	0	0	63	0.95
1622560--1622630	2	36.5	2	74	16	60	43	1	50	2	1.25
1622556--1622639	45	1.9	42	95	4	141	42	2	50	3	1.32
1639730--1639780	22	2.5	20	78	18	59	33	0	0	66	0.92
1639743--1639781	19	2.1	19	85	9	53	33	0	0	66	0.92
1642902--1642932	15	2.0	16	93	6	55	77	0	16	6	0.97
1642945--1642983	19	2.1	18	85	4	51	76	0	5	17	0.96
1643929--1644011	42	2.0	42	85	4	114	32	18	8	40	1.80
1645133--1645169	2	18.5	2	88	0	56	51	43	0	5	1.24
1647963--1648668	351	2.0	351	82	4	845	30	17	19	32	1.95
1650339--1650536	66	3.0	65	92	2	324	26	18	22	32	1.97
1655266--1655323	26	2.2	26	84	6	73	53	1	0	44	1.10
1655406--1655606	78	2.6	78	87	1	278	42	4	8	44	1.55
1656961--1657169	27	7.7	27	80	3	195	44	14	6	34	1.71
1656956--1657243	82	3.6	81	78	5	269	43	13	7	36	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1657171--1657242	28	2.6	28	80	2	74	40	11	9	38	1.74
1657593--1657775	92	2.0	91	98	0	348	28	23	25	21	1.99
1657808--1657861	16	3.2	16	75	14	56	66	1	0	31	1.02
1657811--1657861	18	2.9	18	77	16	63	68	1	0	29	1.00
1667294--1667322	9	3.0	10	90	10	51	41	0	6	51	1.28
1671491--1671590	47	2.2	46	82	12	125	71	0	25	4	1.04
1672693--1672773	42	1.9	42	87	5	119	34	17	8	39	1.80
1673038--1673083	21	2.2	22	81	14	62	45	4	19	30	1.70
1673642--1673685	2	22.0	2	100	0	88	50	0	0	50	1.00
1673685--1673711	2	13.5	2	100	0	54	0	0	48	51	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