genome.fa.s10.2.7.7.80.10.50.1000.11.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: 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  11  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)
1534872--1534913	17	2.3	19	80	8	52	16	4	2	76	1.07
1535513--1535543	2	15.5	2	100	0	62	48	0	0	51	1.00
1537563--1537628	27	2.4	29	82	7	75	63	4	3	28	1.29
1538008--1538082	20	3.8	20	78	0	87	34	13	12	40	1.81
1538008--1538085	40	2.0	39	87	2	111	34	12	12	39	1.82
1538995--1539050	22	2.5	23	97	2	105	19	10	8	60	1.55
1538995--1539057	23	2.9	21	86	6	65	22	11	9	57	1.62
1541433--1541471	19	2.0	20	90	5	62	74	15	0	10	1.07
1542305--1542362	29	2.0	28	80	12	64	51	1	0	46	1.11
1542518--1542614	28	3.4	27	72	12	79	56	1	1	41	1.13
1542543--1542580	17	2.2	18	90	4	60	68	0	0	31	0.90
1542573--1542686	28	4.0	28	79	11	110	56	0	0	43	0.99
1542547--1542679	20	7.1	19	68	20	75	56	0	0	43	0.99
1545005--1545088	38	2.2	38	80	2	96	30	14	15	39	1.87
1547305--1547350	2	23.0	2	95	0	83	47	0	2	50	1.13
1547306--1547356	8	6.4	8	95	0	57	43	0	3	52	1.19
1549530--1549615	45	1.9	45	88	4	129	53	15	8	23	1.68
1551996--1552026	16	1.9	16	93	0	53	29	9	3	58	1.46
1561292--1561330	16	2.5	16	87	4	53	56	0	0	43	0.99
1562168--1562226	30	2.0	30	89	0	91	30	1	5	62	1.26
1563248--1563278	3	10.3	3	100	0	62	67	0	0	32	0.91
1563614--1563711	26	3.7	26	73	15	83	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1563621--1563678	30	1.9	30	86	13	84	46	0	0	53	1.00
1563617--1563688	30	2.5	28	76	19	76	43	0	0	56	0.99
1563674--1563724	21	2.4	22	84	15	72	41	0	0	58	0.98
1565646--1565682	2	18.5	2	100	0	74	48	0	0	51	1.00
1568149--1568186	2	19.0	2	100	0	76	50	0	0	50	1.00
1568485--1568534	10	4.9	10	75	4	55	48	0	2	50	1.12
1568514--1568562	14	3.2	16	78	18	52	38	0	6	55	1.25
1568523--1568562	12	2.8	15	75	25	50	35	0	7	57	1.27
1569332--1569384	19	2.7	18	80	16	52	62	1	0	35	1.06
1571094--1571144	14	3.5	14	76	15	50	52	5	1	39	1.37
1571835--1571868	11	3.3	11	88	12	54	55	0	0	44	0.99
1571837--1571879	16	2.6	17	85	7	54	62	0	0	37	0.95
1571829--1571879	11	5.1	10	82	13	52	62	0	0	37	0.95
1572765--1572838	39	1.9	38	83	8	96	58	4	0	37	1.17
1575643--1575671	14	2.0	15	93	6	51	55	3	0	41	1.17
1575742--1575788	22	2.1	22	84	7	60	63	0	0	36	0.94
1576263--1576295	17	1.9	17	93	0	57	57	6	9	27	1.53
1580565--1580606	21	1.9	23	85	9	61	38	0	0	61	0.96
1580955--1580994	11	3.8	11	81	18	50	42	0	2	55	1.13
1581907--1581934	3	9.3	3	100	0	56	32	0	0	67	0.91
1582071--1582133	31	2.0	31	87	0	90	41	4	11	42	1.61
1582076--1582141	31	2.1	31	82	0	78	45	4	6	43	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1582460--1582509	25	2.0	26	84	11	68	60	0	0	40	0.97
1582967--1582995	6	4.8	6	100	0	58	34	17	0	48	1.47
1584148--1584231	24	3.7	24	85	6	97	27	42	13	16	1.85
1584760--1584827	19	3.9	19	78	21	85	35	11	14	38	1.83
1584762--1584824	32	2.0	32	96	0	117	34	12	15	36	1.86
1584781--1584805	13	1.9	13	100	0	50	36	16	16	32	1.90
1584867--1584892	13	2.0	13	100	0	52	30	15	15	38	1.88
1584849--1584913	33	2.0	33	87	0	94	26	15	15	43	1.86
1587248--1587372	51	2.4	50	81	6	160	34	24	9	32	1.87
1587356--1587432	28	2.8	28	87	0	100	23	33	19	23	1.97
1592591--1592651	20	2.9	23	76	18	69	40	0	1	57	1.08
1592592--1592652	23	2.6	24	80	17	74	42	0	1	55	1.09
1598023--1598069	16	2.7	18	78	18	55	29	0	4	65	1.11
1598021--1598069	15	3.0	16	82	17	57	28	0	4	67	1.09
1598144--1598181	13	2.9	13	85	11	51	42	0	2	55	1.14
1598546--1598595	24	2.1	25	85	7	68	60	0	0	40	0.97
1600117--1600495	146	2.6	144	80	7	440	53	11	2	31	1.52
1600146--1600495	73	4.8	72	81	6	348	54	11	2	31	1.49
1600864--1600906	3	14.3	3	100	0	86	32	0	0	67	0.91
1602226--1602279	20	2.7	20	88	5	74	33	14	16	35	1.90
1603133--1603205	20	3.6	20	81	3	101	35	13	19	31	1.91
1603133--1603227	41	2.3	42	96	1	174	40	12	17	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1603266--1603291	13	2.0	13	100	0	52	38	15	15	30	1.88
1607355--1607393	15	2.6	15	91	0	60	51	15	20	12	1.76
1609401--1609478	20	3.6	21	73	15	70	25	12	16	44	1.83
1609465--1609503	13	3.0	13	96	0	69	30	17	15	35	1.91
1611309--1611354	16	2.8	16	93	6	74	28	2	39	30	1.69
1611961--1612033	20	3.6	20	81	3	101	35	13	19	31	1.91
1611961--1612055	41	2.3	42	96	1	174	40	12	17	29	1.87
1612094--1612119	13	2.0	13	100	0	52	38	15	15	30	1.88
1613905--1613939	15	2.3	15	95	0	61	42	0	28	28	1.56
1615859--1615894	17	2.1	17	89	0	54	27	27	11	33	1.91
1615865--1615903	17	2.3	17	86	0	51	25	33	12	28	1.93
1617054--1617084	16	1.9	16	93	0	53	54	0	9	35	1.33
1620619--1620644	13	2.0	13	100	0	52	38	15	15	30	1.88
1624451--1624507	19	2.9	19	86	2	78	31	17	14	36	1.89
1624557--1624581	13	1.9	13	100	0	50	36	16	16	32	1.90
1626854--1626879	13	2.0	13	100	0	52	30	15	15	38	1.88
1626918--1626993	21	3.7	21	80	3	100	28	17	11	42	1.84
1626939--1627011	20	3.6	20	81	3	101	31	19	13	35	1.91
1626918--1627011	41	2.3	41	98	0	179	29	18	12	39	1.88
1627635--1627706	36	2.0	36	97	0	135	40	23	2	33	1.69
1629489--1629527	13	3.0	13	96	0	69	35	15	17	30	1.91
1629513--1629591	20	3.7	20	75	18	70	45	15	13	25	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1631603--1631640	15	2.5	15	91	0	58	13	21	15	50	1.78
1635695--1635720	13	2.0	13	100	0	52	30	15	15	38	1.88
1635759--1635834	21	3.7	21	80	3	100	28	17	11	42	1.84
1635780--1635852	20	3.6	20	81	3	101	31	19	13	35	1.91
1635759--1635852	41	2.3	41	98	0	179	29	18	12	39	1.88
1637330--1637354	13	1.9	13	100	0	50	36	16	16	32	1.90
1638328--1638530	79	2.6	78	82	5	221	29	16	28	25	1.97
1638482--1638553	28	2.6	28	88	0	99	23	19	34	22	1.96
1638542--1638878	52	6.4	52	69	17	203	31	12	26	29	1.93
1638698--1638768	27	2.6	27	88	2	97	22	21	32	23	1.98
1638428--1638820	107	3.7	106	72	11	343	30	14	27	27	1.95
1638475--1638880	212	1.9	212	90	3	647	31	13	27	27	1.94
1638757--1638875	51	2.3	53	85	7	154	33	11	22	31	1.90
1641229--1641254	13	2.0	13	100	0	52	38	15	15	30	1.88
1641208--1641274	33	2.0	33	88	0	98	43	16	14	25	1.86
1641294--1641361	19	3.9	18	76	23	83	38	14	11	35	1.83
1641316--1641340	13	1.9	13	100	0	50	32	16	16	36	1.90
1641297--1641359	32	2.0	32	96	0	117	36	15	12	34	1.86
1641417--1641473	21	2.7	21	97	0	105	36	19	10	33	1.86
1641489--1641514	13	2.0	13	100	0	52	23	7	0	69	1.14
1642026--1642957	55	16.5	55	89	6	1179	21	20	30	27	1.98
1642562--1642644	27	3.0	27	60	16	62	21	19	30	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642055--1642956	396	2.3	396	94	2	1550	21	19	31	27	1.98
1649018--1649220	79	2.6	78	82	5	221	29	16	28	25	1.97
1649172--1649243	28	2.6	28	88	0	99	23	19	34	22	1.96
1649232--1649568	52	6.4	52	68	17	194	31	12	25	29	1.93
1649388--1649458	27	2.6	27	88	2	97	22	21	32	23	1.98
1649118--1649510	107	3.7	106	72	11	343	30	14	27	27	1.95
1649165--1649570	212	1.9	212	89	3	638	31	13	27	27	1.94
1651917--1651942	13	2.0	13	100	0	52	38	15	15	30	1.88
1651962--1652029	19	3.9	18	76	23	83	38	14	11	35	1.83
1651984--1652008	13	1.9	13	100	0	50	32	16	16	36	1.90

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