genome.fa.s94.2.7.7.80.10.50.1000.9.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: Scaffold94
Parameters: 2 7 7 80 10 50 1000
Length:  2274668

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  9  of  13  ( 1461 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)
1474845--1474931	35	2.5	35	81	5	95	68	11	13	5	1.36
1476263--1477381	27	41.0	27	93	1	1860	22	34	14	27	1.93
1476263--1477381	82	13.7	81	93	1	1860	22	34	14	27	1.93
1477364--1477549	32	5.8	32	90	3	268	32	33	16	17	1.92
1478797--1478845	14	3.4	15	78	21	52	75	0	22	2	0.90
1479199--1479235	2	18.5	2	88	0	56	43	0	5	51	1.24
1486866--1486910	18	2.6	18	74	25	51	46	0	0	53	1.00
1488518--1488569	25	2.0	26	89	10	81	36	3	1	57	1.28
1489406--1489482	31	2.4	31	86	4	109	49	2	3	44	1.34
1489462--1489549	38	2.3	38	84	3	115	36	0	1	62	1.03
1490127--1490200	38	1.9	38	86	0	103	44	1	0	54	1.08
1492481--1492534	25	2.2	25	86	6	74	29	0	1	68	1.00
1492525--1492594	17	4.2	17	75	14	65	28	4	0	67	1.10
1492525--1492595	29	2.5	27	84	11	81	29	4	0	66	1.11
1492548--1492605	16	3.7	15	82	11	62	32	3	0	63	1.11
1495768--1495800	16	2.1	16	94	0	57	39	0	27	33	1.57
1496788--1496835	22	2.2	22	85	7	62	50	8	8	33	1.63
1504791--1504875	30	2.8	30	80	7	91	43	5	1	49	1.34
1504936--1504982	21	2.3	21	82	17	55	48	0	0	51	1.00
1504987--1505024	15	2.6	15	87	4	51	47	0	0	52	1.00
1505413--1505443	16	1.9	16	100	0	62	58	0	0	41	0.98
1505484--1505526	16	2.7	16	82	7	52	53	0	2	44	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1505679--1505747	25	2.7	26	75	8	70	59	4	2	33	1.32
1505797--1505835	18	2.0	20	85	9	55	35	0	2	61	1.10
1507882--1507918	19	1.9	19	88	0	56	40	2	8	48	1.47
1508650--1508702	21	2.4	22	78	15	56	52	3	5	37	1.43
1508650--1508702	22	2.4	21	78	12	54	52	3	5	37	1.43
1513904--1513947	22	2.0	21	83	12	54	9	20	0	70	1.14
1514998--1515152	78	2.0	78	90	0	247	43	18	18	20	1.89
1531272--1531304	3	11.3	3	87	6	50	30	0	3	66	1.06
1531376--1531419	3	14.7	3	100	0	88	34	0	0	65	0.93
1532153--1532199	20	2.5	19	80	10	60	55	2	8	34	1.42
1532719--1532779	19	3.4	17	74	14	52	42	1	0	55	1.09
1532703--1532760	27	2.1	27	81	6	64	41	1	1	55	1.20
1532796--1532871	29	2.6	28	76	13	75	39	1	0	59	1.06
1533495--1533533	6	6.3	6	85	5	51	76	2	0	20	0.90
1534388--1534440	21	2.6	21	77	13	58	52	0	0	47	1.00
1534787--1534816	2	15.0	2	100	0	60	50	0	0	50	1.00
1539532--1539588	27	2.1	28	83	9	73	54	0	1	43	1.10
1541131--1541201	33	2.2	32	79	16	76	38	1	0	60	1.06
1541990--1542089	37	2.7	36	79	10	98	42	7	0	51	1.29
1542701--1542735	16	2.2	16	89	0	52	62	0	0	37	0.95
1548597--1548639	18	2.4	18	88	7	61	44	2	51	2	1.27
1553285--1553334	23	2.0	26	85	11	70	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557740--1557781	12	3.2	13	78	18	50	35	2	0	61	1.09
1558204--1558244	20	2.2	19	86	8	57	65	0	34	0	0.93
1558234--1558277	10	4.4	10	82	5	54	79	0	15	4	0.89
1558557--1558595	19	2.0	19	85	5	51	20	2	7	69	1.26
1559600--1559648	11	4.5	11	80	14	57	32	2	8	57	1.40
1559610--1559649	21	2.0	20	90	5	62	35	2	7	55	1.42
1559898--1559940	15	2.9	15	86	10	54	58	0	0	41	0.98
1559896--1559956	13	4.4	14	80	12	63	57	1	0	40	1.08
1560874--1560932	16	3.0	21	69	25	56	35	0	3	61	1.13
1562409--1562456	17	2.5	19	78	15	55	41	0	0	58	0.98
1563536--1563584	17	2.9	17	87	6	64	46	2	0	51	1.12
1563536--1563604	16	4.2	16	76	7	59	47	2	0	49	1.16
1564378--1564422	15	3.0	15	83	0	63	0	51	0	48	1.00
1564377--1564421	20	2.2	20	85	11	65	0	48	0	51	1.00
1564378--1564422	10	4.5	10	80	0	54	0	51	0	48	1.00
1564386--1564429	20	2.2	20	83	0	52	2	52	0	45	1.13
1565462--1565503	14	3.0	14	92	0	75	40	0	2	57	1.12
1565632--1565688	29	2.0	28	82	3	69	35	7	5	52	1.51
1566846--1566893	3	16.0	3	100	0	96	66	0	0	33	0.92
1570846--1570885	21	1.9	21	84	0	53	30	7	15	47	1.72
1571720--1571760	21	1.9	22	85	5	57	36	4	4	53	1.44
1571826--1571918	32	2.9	32	84	4	100	25	12	21	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571865--1571918	16	3.4	16	82	5	56	29	12	16	40	1.86
1573147--1573194	25	1.9	25	87	8	71	41	2	0	56	1.11
1573247--1573316	20	3.6	19	77	9	70	64	0	0	35	0.94
1573248--1573323	19	3.9	20	75	11	59	65	0	0	34	0.93
1574681--1574712	3	10.7	3	93	0	55	65	0	0	34	0.93
1579122--1579150	4	7.2	4	100	0	58	24	0	0	75	0.80
1579517--1579551	16	2.2	16	90	10	54	20	8	0	71	1.11
1583343--1583428	16	5.3	16	85	1	91	39	24	17	18	1.92
1583355--1583428	32	2.3	32	85	2	103	41	24	17	16	1.89
1583440--1583478	15	2.6	15	83	0	51	43	28	12	15	1.83
1583868--1583936	34	2.0	34	97	0	129	18	5	14	60	1.53
1585320--1585370	20	2.5	21	87	9	70	50	3	11	33	1.57
1585429--1585568	52	2.7	52	89	0	199	30	13	10	45	1.78
1587259--1587284	13	2.0	13	100	0	52	30	23	15	30	1.95
1587374--1587429	21	2.6	22	94	5	105	37	10	25	26	1.88
1587417--1587447	10	3.1	10	90	0	53	41	6	29	22	1.78
1587542--1587595	20	2.7	21	82	8	76	31	11	16	40	1.84
1587634--1587674	21	2.0	21	85	9	57	39	9	12	39	1.76
1591311--1591353	21	2.0	21	95	0	77	30	25	4	39	1.76
1598001--1598050	12	4.3	12	80	16	61	0	0	18	82	0.68
1598001--1598050	22	2.2	24	86	10	70	0	0	18	82	0.68
1598010--1598057	24	2.1	22	84	7	60	2	2	18	77	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1598002--1598064	32	2.0	32	81	6	74	1	3	17	77	0.97
1609540--1609579	2	20.0	2	100	0	80	50	0	0	50	1.00
1609668--1609951	139	2.0	139	86	1	408	38	9	10	41	1.71
1610284--1610316	2	16.5	2	100	0	66	51	0	0	48	1.00
1611697--1611784	43	2.0	43	97	0	167	48	10	2	38	1.50
1616934--1616963	2	15.0	2	100	0	60	50	0	0	50	1.00
1617094--1617128	2	17.5	2	100	0	70	48	0	0	51	1.00
1618766--1618795	4	7.5	4	100	0	60	23	0	0	76	0.78
1620417--1620478	11	5.9	11	73	21	53	50	0	0	50	1.00
1620402--1620495	32	3.0	33	79	13	85	51	0	1	47	1.07
1620824--1620923	10	10.1	10	69	17	57	56	1	0	43	1.06
1620829--1620865	19	2.0	18	89	5	56	56	0	0	43	0.99
1622827--1622905	29	2.8	28	70	19	65	51	12	7	27	1.66
1622806--1623062	58	4.4	58	77	10	235	49	13	9	27	1.74
1622797--1623061	117	2.3	116	83	7	306	49	13	10	27	1.74
1624441--1624495	21	2.7	20	81	10	67	38	7	12	41	1.71
1625477--1625609	34	4.0	33	79	9	119	31	21	9	36	1.86
1625477--1625571	34	2.9	33	84	7	124	31	22	11	34	1.90
1627357--1627404	23	2.1	23	96	0	87	27	16	12	43	1.84
1631174--1631382	50	4.2	50	95	1	357	28	21	19	30	1.97
1635721--1635880	50	3.2	50	91	3	252	29	18	19	32	1.96
1636800--1636831	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638571--1638659	43	2.1	43	97	0	169	25	17	19	37	1.94
1642380--1642410	16	2.0	15	93	6	53	19	0	3	77	0.90
1646956--1646980	13	1.9	13	100	0	50	36	16	16	32	1.90
1647042--1647066	13	1.9	13	100	0	50	32	16	16	36	1.90
1647021--1647086	32	2.0	33	88	2	98	36	13	12	37	1.82
1648450--1649283	83	10.0	83	81	3	832	37	19	29	13	1.90
1648443--1649284	42	20.1	42	79	4	781	38	18	29	13	1.89
1653768--1653802	17	2.1	17	88	0	52	82	0	14	2	0.77
1653780--1653805	9	2.9	9	100	0	52	88	0	11	0	0.52
1661952--1661992	18	2.5	15	85	14	55	19	0	2	78	0.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13