genome.fa.s11.2.7.7.80.10.50.1000.11.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

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   

This is table  11  of  29  ( 3461 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)
1488631--1488759	64	2.0	64	87	0	186	51	2	6	38	1.42
1488704--1488743	19	2.2	18	86	4	53	60	0	2	37	1.11
1488645--1488788	64	2.2	64	84	4	166	54	2	6	37	1.38
1489217--1489260	15	3.0	15	81	15	56	56	0	0	43	0.99
1496173--1496206	17	2.0	17	100	0	68	47	0	0	52	1.00
1496505--1496554	24	2.2	22	82	13	57	40	2	0	58	1.10
1497536--1497586	15	3.7	13	76	19	50	43	0	1	54	1.11
1502158--1502256	46	2.1	47	83	10	123	40	0	2	57	1.10
1505508--1505552	21	2.0	21	83	8	54	42	0	0	57	0.98
1505563--1505612	21	2.4	21	83	3	57	48	0	0	52	1.00
1505594--1505642	21	2.4	20	76	6	62	48	0	2	48	1.12
1505670--1505703	16	2.2	15	89	5	50	52	8	0	38	1.33
1506034--1506126	27	3.7	24	73	16	73	49	3	6	40	1.44
1506804--1506830	7	3.9	7	100	0	54	55	0	0	44	0.99
1508649--1508770	52	2.4	53	86	10	166	39	4	9	45	1.59
1508649--1508766	26	4.6	27	74	15	106	39	5	8	46	1.56
1508913--1508949	16	2.3	17	81	13	51	48	0	0	51	1.00
1508915--1508957	20	2.2	20	86	0	59	48	0	0	51	1.00
1509456--1509508	2	27.0	2	84	3	72	52	1	1	43	1.23
1509621--1509684	27	2.3	27	84	15	87	45	0	1	53	1.10
1509713--1509774	24	2.5	24	77	12	72	29	1	0	69	0.98
1509695--1509774	41	2.0	40	87	7	117	30	1	0	68	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1510219--1510268	12	4.2	12	73	16	50	60	0	2	38	1.09
1512648--1512675	2	14.0	2	100	0	56	50	0	0	50	1.00
1513029--1513053	6	4.2	6	100	0	50	32	0	16	52	1.44
1513807--1513850	15	3.0	14	86	6	61	65	0	2	31	1.05
1515001--1515085	28	3.0	28	78	10	102	34	1	2	62	1.16
1515001--1515109	57	1.9	56	81	5	130	36	1	3	57	1.27
1515734--1515758	8	3.1	8	100	0	50	24	0	0	76	0.80
1515800--1515883	26	3.3	24	77	19	82	50	1	1	47	1.16
1521206--1521262	25	2.3	24	82	5	78	35	0	3	61	1.13
1521224--1521266	20	2.2	20	87	8	61	37	0	4	58	1.19
1521231--1521273	20	2.1	21	86	4	61	37	0	2	60	1.10
1521262--1521316	23	2.3	24	81	9	69	63	0	0	36	0.95
1525929--1525962	17	2.0	17	88	0	50	38	17	5	38	1.74
1532839--1532879	14	2.9	15	78	10	50	51	0	0	48	1.00
1532848--1532878	16	1.9	16	93	0	53	58	0	0	41	0.98
1532896--1532933	20	1.9	20	84	10	51	57	2	2	36	1.26
1535590--1535649	23	2.7	23	78	17	63	30	0	0	70	0.88
1536653--1536706	18	2.9	19	81	13	60	37	5	1	55	1.34
1536847--1536932	30	2.8	30	79	8	111	43	0	13	43	1.44
1543610--1543694	13	6.2	13	70	17	55	47	4	0	48	1.23
1543620--1543653	12	2.8	12	87	12	52	44	0	0	55	0.99
1543936--1543990	24	2.4	23	77	11	60	29	0	1	69	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1544382--1544429	24	1.9	23	87	12	60	25	0	6	68	1.12
1545438--1545466	14	2.1	14	100	0	58	58	0	0	41	0.98
1545559--1545596	15	2.7	14	84	8	51	36	0	0	63	0.95
1549033--1549071	19	2.1	19	100	0	78	20	33	10	35	1.86
1550104--1550140	11	3.6	11	79	20	53	35	0	0	64	0.94
1550104--1550223	30	3.9	30	68	18	84	38	0	1	60	1.07
1550128--1550203	16	4.8	16	74	23	54	39	0	1	59	1.06
1550112--1550203	18	5.5	18	73	22	76	39	0	1	59	1.04
1550104--1550208	9	11.1	10	65	25	50	39	0	0	60	1.04
1550210--1550251	17	2.4	18	84	11	52	21	0	7	71	1.09
1550219--1550252	18	2.0	16	88	11	50	17	0	5	76	0.98
1550662--1550703	2	22.0	2	88	9	61	50	0	2	47	1.14
1553927--1553951	3	8.3	3	100	0	50	64	0	0	36	0.94
1555034--1555116	41	2.2	40	83	16	106	51	0	2	45	1.14
1555077--1555120	14	3.0	16	75	21	51	52	0	0	47	1.00
1555067--1555122	19	2.8	20	78	10	60	50	0	1	48	1.11
1562019--1562065	2	23.5	2	100	0	94	48	0	0	51	1.00
1562727--1562760	2	17.0	2	100	0	68	50	0	0	50	1.00
1562984--1563039	30	1.9	30	85	10	80	46	1	7	44	1.41
1563113--1563157	13	3.1	16	75	21	53	53	2	0	44	1.13
1563911--1563978	29	2.3	29	80	7	75	45	4	0	50	1.22
1564373--1564472	52	2.0	49	82	7	119	47	1	1	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1565279--1565313	18	1.9	17	88	11	52	20	0	2	77	0.90
1566326--1566363	20	1.9	20	94	0	67	42	2	0	55	1.14
1566442--1566485	19	2.4	19	85	11	56	43	6	0	50	1.29
1566512--1566559	22	2.1	23	88	3	71	45	0	2	52	1.12
1566548--1566572	9	2.8	9	100	0	50	76	0	0	24	0.80
1566832--1566866	16	2.2	16	90	10	54	54	0	0	45	0.99
1566914--1566941	14	2.0	14	100	0	56	21	14	7	57	1.61
1567500--1567538	4	10.0	4	84	15	55	48	0	0	51	1.00
1568531--1568646	10	11.9	10	67	23	61	38	1	0	58	1.14
1568517--1568595	26	3.1	25	79	15	83	48	0	0	51	1.00
1568523--1568601	27	3.0	27	77	18	71	48	0	0	51	1.00
1568526--1568606	32	2.5	30	82	11	90	46	0	0	53	1.00
1568586--1568657	19	3.7	19	79	17	76	27	2	1	68	1.12
1568587--1568657	10	7.2	10	76	19	69	26	2	1	69	1.11
1581033--1581077	22	2.0	22	82	0	54	35	0	2	62	1.08
1582006--1582044	13	3.0	13	80	0	51	51	0	0	48	1.00
1582007--1582066	23	2.5	25	86	13	90	50	0	0	50	1.00
1582365--1582406	14	3.1	14	75	3	50	61	0	0	38	0.96
1582376--1582413	18	2.1	19	85	14	53	57	0	0	42	0.98
1582385--1582433	17	3.0	17	77	16	50	48	0	2	48	1.12
1582411--1582461	17	2.7	19	82	17	63	41	0	1	56	1.10
1582577--1582638	32	1.9	33	86	3	90	40	1	1	56	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1582591--1582638	8	6.0	8	79	15	55	35	0	2	62	1.07
1587294--1587332	21	1.9	20	84	5	51	56	0	2	41	1.13
1587866--1587914	2	24.5	2	100	0	98	51	0	0	48	1.00
1588065--1588108	22	2.0	23	82	13	56	59	0	4	36	1.18
1588138--1588188	21	2.5	21	78	12	61	41	9	1	47	1.48
1589147--1589180	12	2.8	12	86	0	50	67	0	0	32	0.91
1589219--1589251	17	1.9	17	93	0	57	48	6	0	45	1.27
1589720--1589756	19	1.9	19	94	0	65	40	2	0	56	1.13
1590228--1590278	11	4.6	11	78	7	50	29	0	1	68	1.00
1590247--1590326	16	5.1	16	77	11	78	33	1	0	65	1.01
1593155--1593179	2	12.5	2	100	0	50	48	0	0	52	1.00
1593234--1593267	2	17.0	2	100	0	68	50	0	0	50	1.00
1595612--1595646	13	2.6	14	90	4	54	45	0	0	54	0.99
1595815--1595860	24	1.9	24	86	8	67	47	2	0	50	1.13
1596031--1596062	5	6.8	5	92	7	50	78	0	0	21	0.76
1596640--1596674	15	2.4	14	86	9	52	51	0	0	48	1.00
1596707--1596742	14	2.7	13	91	4	54	55	13	0	30	1.39
1596735--1596766	13	2.3	15	89	10	50	46	0	3	50	1.17
1597235--1597360	20	6.2	20	73	17	73	44	2	0	53	1.13
1597240--1597310	25	2.7	26	80	10	74	45	4	0	50	1.21
1597285--1597521	5	46.8	5	63	19	64	40	1	0	57	1.15
1597285--1597339	9	5.8	9	77	10	56	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1597389--1597521	31	4.3	31	73	22	93	38	0	0	61	0.96
1597454--1597518	21	3.1	21	76	12	71	36	0	0	63	0.95
1599039--1599085	19	2.5	19	80	16	53	44	0	0	55	0.99
1601763--1601797	18	1.9	18	88	0	52	51	2	0	45	1.16
1607524--1607554	4	7.5	4	92	7	53	22	3	0	74	0.96
1607658--1607706	22	2.2	22	85	7	64	59	0	0	40	0.98
1607689--1607725	16	2.2	16	90	4	56	40	0	0	59	0.97
1611689--1611731	16	2.7	16	79	13	52	34	0	2	62	1.08
1612943--1612990	23	2.0	24	84	4	62	52	4	2	41	1.32
1613567--1613617	19	2.7	20	79	14	63	49	0	1	49	1.12

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