genome.fa.s19.2.7.7.80.10.50.1000.6.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: scaffold337
Parameters: 2 7 7 80 10 50 1000
Length:  2178121

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 806 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)
1441959--1442045	43	2.0	43	97	0	165	33	27	17	21	1.96
1443860--1443910	27	1.9	27	84	4	68	58	1	1	37	1.20
1446247--1446283	3	12.3	3	100	0	74	32	35	0	32	1.58
1450700--1450808	49	2.3	46	85	4	137	42	11	11	33	1.79
1455014--1455056	2	21.5	2	100	0	86	48	0	0	51	1.00
1458090--1458135	24	2.0	23	83	12	58	47	6	6	39	1.55
1460000--1460040	22	2.0	21	85	9	57	31	12	0	56	1.36
1463420--1463478	31	1.9	31	86	6	84	38	10	8	42	1.69
1465092--1465137	24	2.0	23	83	12	58	45	6	8	39	1.61
1467857--1468014	46	3.5	46	95	2	277	27	22	15	34	1.94
1470560--1470641	33	2.4	35	87	8	114	32	2	4	59	1.31
1470765--1470807	18	2.5	17	80	3	50	30	4	2	62	1.28
1470910--1471085	87	2.0	88	97	2	336	32	7	5	53	1.52
1474950--1475071	64	2.0	61	81	4	145	31	10	12	45	1.76
1475532--1475583	24	2.2	24	82	0	59	51	9	5	32	1.58
1478895--1478943	21	2.3	21	89	0	80	32	2	12	53	1.50
1478838--1478962	61	2.0	61	82	8	148	34	1	10	53	1.45
1479062--1479099	19	2.0	19	89	0	58	36	5	7	50	1.54
1479106--1479159	27	2.0	26	92	3	90	31	0	11	57	1.34
1479128--1479196	19	3.4	19	83	14	93	31	0	14	53	1.41
1479189--1479310	60	2.0	60	87	3	174	31	0	13	54	1.46
1481428--1481526	27	3.7	27	89	7	139	17	21	39	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1481815--1482128	49	6.4	49	93	2	519	52	13	1	32	1.51
1481868--1482110	27	9.7	27	79	16	265	53	12	1	32	1.48
1482564--1482588	5	5.0	5	100	0	50	20	60	20	0	1.37
1482616--1482647	12	2.8	12	86	13	50	71	0	0	28	0.86
1485622--1485669	13	3.7	13	77	0	51	39	18	2	39	1.63
1486060--1486220	31	5.3	31	79	2	164	31	8	15	45	1.75
1486058--1486220	61	2.7	61	78	3	186	31	7	15	44	1.75
1515618--1515643	3	8.7	3	100	0	52	65	0	0	34	0.93
1517483--1517514	9	3.4	10	91	8	50	59	6	0	34	1.23
1526919--1526973	23	2.4	24	75	9	69	58	1	0	40	1.09
1531474--1531747	123	2.2	124	96	0	496	25	17	19	38	1.93
1533054--1533102	20	2.5	19	83	3	53	28	2	6	63	1.30
1533176--1533290	23	4.9	22	66	20	63	35	5	4	54	1.43
1533564--1533590	2	13.5	2	100	0	54	48	0	0	51	1.00
1533098--1534045	484	2.0	483	94	1	1650	31	7	10	50	1.63
1541396--1541450	16	3.2	16	80	17	58	65	0	0	34	0.93
1541396--1541433	8	4.6	8	84	15	51	63	0	0	36	0.95
1541388--1541458	34	2.1	33	84	2	88	63	1	1	33	1.12
1542031--1542073	16	2.7	15	85	10	50	72	2	0	25	0.97
1547714--1547780	28	2.4	28	97	0	125	38	16	13	31	1.87
1547714--1547815	28	3.6	29	85	7	104	43	13	11	31	1.80
1548922--1549105	95	1.9	95	94	0	323	32	20	17	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1550273--1550310	19	2.0	19	85	10	51	10	42	0	47	1.38
1550565--1550849	154	1.8	155	97	0	545	46	11	8	34	1.70
1552280--1554088	906	2.0	905	99	0	3566	39	11	11	37	1.79
1554071--1554112	22	1.9	22	95	0	75	42	0	2	54	1.13
1557332--1557419	44	2.0	44	95	0	158	39	10	11	38	1.75
1563792--1563879	40	2.2	40	84	9	110	37	18	7	36	1.80
1564600--1564625	11	2.4	11	100	0	52	0	42	7	50	1.31
1566858--1567348	245	2.0	246	99	0	975	41	6	10	41	1.67
1585226--1585482	127	2.0	128	96	1	471	28	16	14	40	1.88
1590121--1590175	27	2.1	27	83	12	71	67	3	0	29	1.08
1590514--1590574	18	3.3	18	80	8	70	26	1	0	72	0.94
1590514--1590574	9	6.7	9	72	9	52	26	1	0	72	0.94
1590510--1590566	20	2.9	20	79	10	64	26	3	0	70	1.03
1592993--1593052	30	2.0	30	81	9	70	26	28	30	15	1.96
1593290--1593325	18	2.0	18	100	0	72	33	16	5	44	1.71
1595600--1596196	298	2.0	299	99	0	1187	41	11	6	41	1.66
1600580--1600980	200	2.0	201	99	0	795	41	7	6	43	1.60
1608270--1608305	2	19.0	2	88	11	58	50	0	0	50	1.00
1609562--1609617	28	2.1	27	83	9	71	25	0	3	71	1.02
1610257--1610306	26	1.9	26	84	8	66	62	2	2	34	1.18
1625573--1625605	13	2.5	13	90	9	50	84	0	0	15	0.61
1625676--1625715	16	2.6	16	80	4	55	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1626723--1626752	3	9.7	3	92	7	51	0	33	0	66	0.92
1632281--1632310	4	7.5	4	100	0	60	50	23	0	26	1.50
1635547--1635621	28	2.7	28	75	2	80	30	0	8	61	1.25
1635776--1635819	13	3.3	13	96	3	79	54	0	0	45	0.99
1636762--1636836	3	25.3	3	97	2	143	34	0	0	65	0.93
1637322--1637393	21	3.6	21	88	5	105	56	0	30	12	1.36
1638165--1638226	29	2.1	31	90	6	101	19	46	0	33	1.50
1641494--1641600	53	2.0	53	100	0	214	28	11	22	37	1.89
1653802--1653863	30	2.1	30	87	6	90	41	1	1	54	1.19
1669626--1669650	12	2.1	12	100	0	50	16	24	8	52	1.70
1676430--1676456	14	1.9	14	100	0	54	25	0	0	74	0.83
1676492--1676555	33	1.9	34	83	3	85	32	0	9	57	1.30
1676623--1676682	22	2.9	20	76	13	68	46	1	13	38	1.53
1678866--1678895	15	2.0	15	93	0	51	86	0	3	10	0.67
1682017--1682057	20	2.0	20	100	0	82	29	4	21	43	1.73
1689917--1689964	6	9.0	5	90	9	53	18	8	0	72	1.08
1689922--1689965	14	2.8	15	86	13	54	18	9	0	72	1.10
1700173--1700201	12	2.3	13	94	5	51	17	0	3	79	0.87
1701112--1701160	17	2.9	17	77	17	50	34	0	2	63	1.06
1701129--1701170	22	1.9	22	85	0	57	30	0	7	61	1.22
1708931--1708999	16	4.2	16	96	3	129	24	0	37	37	1.56
1708931--1708999	33	2.1	32	97	2	129	24	0	37	37	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1708980--1709070	45	2.0	45	85	2	121	27	6	28	37	1.82
1725221--1725272	12	4.4	12	81	9	63	76	0	23	0	0.78
1726860--1726956	45	2.2	45	90	0	149	19	32	16	30	1.94
1727669--1727757	42	2.1	42	85	0	115	20	25	19	34	1.96
1727678--1727844	42	4.0	42	82	2	156	21	19	20	38	1.94
1742545--1742735	72	2.7	72	87	3	269	28	18	16	36	1.93
1748620--1748662	16	2.7	15	85	10	50	72	2	0	25	0.97
1758490--1758514	11	2.3	11	100	0	50	64	0	0	36	0.94
1768299--1768331	12	2.8	12	90	4	50	42	33	18	6	1.75
1770281--1770325	12	3.8	11	80	13	54	28	4	0	66	1.11
1776681--1776719	19	2.1	19	90	4	62	66	7	10	15	1.43
1776775--1776799	11	2.3	11	100	0	50	24	0	0	76	0.80
1783899--1784212	24	13.6	24	66	18	123	32	6	6	54	1.52
1783951--1783988	11	3.4	11	80	20	51	34	2	2	60	1.24
1784009--1784179	66	2.6	67	89	6	267	32	7	7	52	1.58
1787516--1787542	12	2.2	12	100	0	54	22	18	18	40	1.91
1791354--1791550	44	4.5	44	68	5	128	30	21	22	24	1.99
1791363--1792050	132	5.3	132	85	4	822	29	20	25	25	1.99
1792553--1792606	19	2.8	19	94	0	90	37	11	18	33	1.86
1792566--1792629	19	3.0	22	84	8	71	40	7	17	34	1.78
1793036--1793101	33	2.0	33	100	0	132	27	18	3	51	1.60
1807351--1807394	21	2.1	21	100	0	88	31	13	15	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809597--1809635	20	2.1	19	85	9	53	69	7	17	5	1.32
1813785--1813830	17	2.6	18	76	13	51	67	2	0	30	1.03
1813813--1813837	11	2.3	11	100	0	50	64	0	0	36	0.94
1819781--1819830	15	3.3	15	76	15	57	40	8	24	28	1.83
1819999--1820035	19	2.0	19	89	5	58	40	0	5	54	1.24
1820017--1820187	80	2.1	80	96	2	317	38	7	14	39	1.73
1820425--1820708	139	2.0	139	95	2	518	36	8	10	45	1.69
1828980--1829017	18	2.1	18	100	0	76	39	10	10	39	1.74
1829398--1829446	9	5.6	9	81	13	66	42	2	0	55	1.11
1829637--1829683	19	2.4	19	82	3	58	76	4	10	8	1.13

Tables:   1   2   3   4   5   6   7