genome.fa.s10.2.7.7.80.10.50.1000.10.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: Scaffold10
Parameters: 2 7 7 80 10 50 1000
Length:  3842500

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   

This is table  10  of  25  ( 2970 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)
1386443--1386478	13	2.8	13	86	0	54	58	0	0	41	0.98
1386782--1386842	32	1.9	31	83	9	79	31	0	3	65	1.09
1386865--1386900	18	2.0	18	88	0	54	27	2	0	69	1.02
1387398--1387456	16	3.8	16	81	2	66	37	1	1	59	1.18
1390041--1390073	14	2.4	14	90	5	50	60	0	0	39	0.97
1390311--1390372	23	2.9	21	72	11	63	66	0	4	29	1.12
1390639--1390706	17	3.8	17	74	14	57	55	2	1	39	1.24
1393007--1393062	18	2.9	19	84	10	62	44	1	1	51	1.22
1394183--1394240	16	3.7	15	77	6	62	10	5	31	53	1.57
1394183--1394250	16	4.3	16	78	9	59	13	4	27	54	1.58
1394163--1394251	32	2.8	31	81	3	88	12	6	29	51	1.65
1394773--1394872	17	6.3	17	67	21	65	69	0	1	30	0.96
1394815--1394873	14	4.1	15	76	22	54	69	0	0	30	0.89
1394831--1394894	8	8.0	8	74	6	58	67	1	0	31	1.00
1394823--1394927	32	3.4	31	77	12	99	63	0	0	35	1.01
1395121--1395216	32	3.2	31	75	18	89	40	0	1	58	1.05
1398029--1398083	25	2.2	25	93	0	92	36	1	1	60	1.18
1398029--1398091	25	2.5	25	89	0	81	34	3	1	60	1.22
1401235--1401261	13	2.1	13	100	0	54	29	14	0	55	1.40
1402762--1402803	19	2.2	20	87	8	61	45	0	0	54	0.99
1402833--1402868	13	2.7	14	91	8	58	66	0	0	33	0.92
1403427--1403472	23	2.1	22	84	8	58	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403461--1403493	16	1.9	17	88	11	50	57	0	0	42	0.98
1404115--1405422	334	3.9	332	90	3	1971	44	6	10	38	1.64
1404115--1405422	669	2.0	654	91	3	2091	44	6	10	38	1.64
1405422--1405463	14	2.8	15	85	10	59	54	0	0	45	0.99
1405453--1405485	13	2.5	13	90	9	50	45	6	3	45	1.43
1406553--1406587	2	17.5	2	93	0	61	51	45	2	0	1.16
1406594--1406626	2	16.5	2	100	0	66	48	0	0	51	1.00
1406756--1406845	33	2.7	33	91	0	144	33	18	13	34	1.90
1412268--1412348	28	2.7	31	75	16	89	39	2	0	58	1.12
1413298--1413338	18	2.3	18	86	0	55	70	2	7	19	1.22
1416383--1416422	15	2.5	17	80	16	57	67	0	7	25	1.16
1416389--1416424	15	2.4	15	95	0	63	61	0	8	30	1.26
1422976--1423029	20	2.7	20	97	0	99	31	9	20	38	1.84
1424046--1424080	17	2.1	16	89	5	52	14	2	0	82	0.77
1424234--1424291	30	1.9	30	82	6	73	36	6	20	36	1.80
1424512--1424555	17	2.6	17	78	7	54	25	6	4	63	1.38
1424598--1424638	17	2.4	17	80	19	50	41	2	0	56	1.13
1425219--1425335	60	2.0	60	94	3	209	36	9	11	42	1.73
1428914--1428944	2	15.5	2	93	0	53	0	45	3	51	1.17
1428960--1429029	2	37.0	2	79	11	76	55	2	0	41	1.14
1439324--1439707	201	1.9	200	83	2	502	38	7	6	47	1.58
1440837--1440926	39	2.4	39	83	10	116	41	5	2	51	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1444483--1444510	2	14.0	2	100	0	56	50	0	0	50	1.00
1449137--1449284	80	1.9	78	85	2	206	35	9	27	27	1.88
1449211--1449330	52	2.3	52	83	0	141	34	8	29	28	1.86
1449263--1449483	80	2.8	80	81	4	223	34	9	26	30	1.87
1451408--1451451	17	2.6	17	100	0	88	36	20	9	34	1.84
1452215--1452239	12	2.1	12	100	0	50	52	8	16	24	1.70
1453754--1453790	2	18.5	2	88	0	56	51	5	0	43	1.24
1454162--1454215	16	3.3	16	78	2	63	1	18	0	79	0.82
1455460--1455987	32	16.5	32	93	0	894	15	18	34	32	1.92
1455971--1456003	16	2.1	16	94	0	57	15	15	33	36	1.88
1455939--1456035	48	2.0	48	97	0	185	15	17	34	32	1.91
1455987--1456282	32	9.2	32	96	0	547	15	18	33	31	1.93
1455907--1456067	80	2.0	80	97	0	304	15	17	34	32	1.91
1455875--1456099	112	2.0	112	97	0	423	14	18	34	32	1.91
1456280--1457102	27	30.1	27	91	2	1286	28	14	34	23	1.93
1456280--1457102	82	10.0	81	91	2	1286	28	14	34	23	1.93
1456280--1457102	219	3.8	219	91	0	1319	28	14	34	23	1.93
1458377--1458426	22	2.3	22	83	13	59	6	12	8	74	1.22
1458407--1458449	15	2.8	16	79	13	54	4	18	11	65	1.42
1462934--1462958	12	2.1	12	100	0	50	52	8	16	24	1.70
1464473--1464517	2	22.5	2	86	0	63	51	6	0	42	1.28
1464893--1464922	10	3.0	10	95	0	51	0	13	0	86	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1464896--1464949	24	2.5	22	80	16	67	1	20	0	77	0.86
1466192--1468115	32	60.2	32	93	0	3305	14	18	34	32	1.92
1468113--1469154	27	38.1	27	91	2	1688	28	14	34	22	1.93
1468113--1469154	219	4.8	217	92	1	1701	28	14	34	22	1.93
1468113--1469154	492	2.1	492	98	0	2005	28	14	34	22	1.93
1472586--1473583	32	31.2	32	94	0	1755	15	18	34	32	1.92
1473581--1474129	27	20.1	27	89	2	830	29	13	33	23	1.93
1473581--1474129	109	5.0	108	90	2	839	29	13	33	23	1.93
1474207--1475411	27	44.0	27	90	2	1845	23	34	14	28	1.93
1474207--1475411	82	14.7	81	91	2	1845	23	34	14	28	1.93
1474207--1475411	137	8.8	135	90	2	1845	23	34	14	28	1.93
1475403--1475783	32	11.9	32	94	1	640	30	33	18	17	1.95
1476358--1476432	20	3.8	20	78	0	78	34	12	12	41	1.79
1476358--1476435	40	2.0	39	84	2	102	34	11	12	41	1.80
1477960--1477989	10	3.0	10	95	0	51	0	13	0	86	0.57
1477963--1478016	24	2.5	22	80	16	67	1	20	0	77	0.86
1479380--1479419	20	2.0	20	85	5	53	30	12	10	47	1.74
1483480--1483515	18	2.1	18	89	5	56	58	2	16	22	1.51
1489470--1489523	20	2.7	20	91	2	81	35	18	9	37	1.83
1491233--1491347	38	3.1	38	81	7	135	37	16	17	28	1.92
1491323--1491444	62	2.0	62	86	3	174	35	17	13	33	1.89
1491324--1491444	31	3.9	31	75	5	93	35	17	14	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1492891--1493084	64	3.0	64	96	0	343	45	20	4	29	1.70
1494667--1494691	2	12.5	2	100	0	50	52	0	0	48	1.00
1496573--1496619	2	23.5	2	100	0	94	48	0	0	51	1.00
1496800--1496824	13	1.9	13	100	0	50	20	0	0	80	0.72
1502110--1502162	20	2.7	20	84	0	61	35	16	7	39	1.78
1503192--1503223	12	2.7	12	95	0	55	31	21	9	37	1.85
1514380--1514429	3	16.7	3	100	0	100	32	0	0	68	0.90
1514980--1515050	16	4.4	16	72	21	58	38	0	1	60	1.06
1515253--1515299	20	2.3	20	82	10	60	38	0	2	59	1.09
1515423--1515455	11	3.1	11	91	4	50	69	0	0	30	0.88
1515647--1515672	11	2.4	11	100	0	52	42	0	0	57	0.98
1516982--1517015	14	2.4	15	85	14	54	70	0	0	29	0.87
1517656--1517691	11	3.3	11	100	0	72	27	0	0	72	0.85
1518015--1518050	18	2.1	18	89	5	56	25	0	5	69	1.10
1517977--1518036	32	1.9	32	86	10	88	33	0	6	60	1.23
1518152--1518229	32	2.4	31	81	12	86	46	1	1	51	1.17
1519185--1519230	19	2.4	19	100	0	92	58	0	0	41	0.98
1525378--1525443	32	2.0	35	88	8	102	43	0	3	53	1.16
1525464--1525493	14	2.1	14	93	0	51	33	3	3	60	1.30
1525579--1525627	13	3.5	14	80	8	64	36	0	0	63	0.95
1527819--1527856	18	2.1	18	85	14	51	28	0	0	71	0.87
1527812--1527863	24	2.2	23	80	12	61	26	0	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1527962--1527998	18	2.2	18	90	9	60	18	0	8	72	1.08
1528354--1528440	16	5.2	17	70	25	62	50	3	1	44	1.26
1528365--1528403	20	2.0	20	89	0	60	43	2	0	53	1.14
1530506--1530554	2	24.0	2	95	4	89	0	2	48	48	1.12
1531673--1531848	98	1.8	97	90	3	282	44	2	1	52	1.21
1531733--1531784	16	3.0	18	75	18	65	46	1	0	51	1.12
1531757--1531837	29	2.8	27	76	12	81	43	2	0	54	1.13
1531725--1531858	62	2.2	62	81	12	152	42	2	0	54	1.15
1531689--1531858	36	5.1	34	73	18	99	41	2	1	54	1.20
1532016--1532072	22	2.6	23	83	10	75	40	0	0	59	0.97

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