genome.fa.s230.2.7.7.80.10.50.1000.12.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: Scaffold230
Parameters: 2 7 7 80 10 50 1000
Length:  2055625

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  12  of  14  ( 1594 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)
1448954--1449006	24	2.2	25	82	3	63	62	0	1	35	1.06
1449025--1449067	20	2.2	20	87	8	61	60	0	0	39	0.97
1451944--1451970	4	6.8	4	100	0	54	51	22	0	25	1.48
1451941--1452012	8	8.8	8	89	6	72	50	9	0	40	1.36
1451941--1452008	12	5.5	12	82	6	73	50	10	0	39	1.37
1451968--1452012	2	22.5	2	95	0	81	51	2	0	46	1.13
1459399--1459429	2	15.5	2	100	0	62	51	0	0	48	1.00
1459662--1459691	12	2.4	13	94	5	53	80	3	16	0	0.85
1460486--1460566	17	4.6	17	70	18	51	56	0	0	43	0.99
1460757--1460783	14	1.9	14	100	0	54	33	0	0	66	0.92
1460796--1460821	11	2.4	11	100	0	52	84	0	0	15	0.62
1462437--1462481	19	2.4	19	88	0	72	37	0	0	62	0.96
1462444--1462491	19	2.7	18	87	9	64	41	0	0	58	0.98
1474024--1474058	13	2.7	13	86	0	52	62	0	0	37	0.95
1474566--1474672	44	2.5	43	82	12	125	48	1	0	48	1.18
1474574--1474675	43	2.4	44	75	14	108	50	0	0	49	1.07
1474596--1474731	60	2.3	56	75	14	125	48	1	0	50	1.10
1474675--1474744	26	2.9	24	68	27	58	51	1	0	47	1.09
1474705--1474758	23	2.4	22	81	9	56	53	0	0	46	1.00
1474955--1474981	2	13.5	2	100	0	54	48	0	0	51	1.00
1475100--1475169	27	2.6	25	78	12	77	65	0	0	34	0.93
1475106--1475178	36	2.1	36	85	10	98	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1475547--1475576	15	1.9	16	93	6	53	73	0	0	26	0.84
1476347--1476384	2	19.5	2	89	5	60	47	2	0	50	1.15
1480609--1480634	2	13.0	2	100	0	52	50	0	50	0	1.00
1483573--1483630	31	1.9	30	86	10	82	51	1	1	44	1.21
1483567--1483638	31	2.3	32	76	13	78	51	1	1	45	1.18
1484036--1484065	2	15.0	2	100	0	60	50	0	0	50	1.00
1484136--1484214	19	4.3	19	75	10	60	63	1	2	32	1.16
1484131--1484204	32	2.3	31	75	6	76	64	1	2	31	1.15
1484257--1484321	24	2.6	25	75	22	66	40	1	1	56	1.18
1484385--1484417	15	2.1	16	88	5	50	60	0	3	36	1.12
1485087--1485148	28	2.3	28	83	10	76	40	3	3	53	1.33
1485385--1485432	2	24.0	2	100	0	96	0	50	0	50	1.00
1487801--1487836	17	2.1	17	89	0	54	58	0	0	41	0.98
1488264--1488290	3	9.0	3	100	0	54	33	0	0	66	0.92
1504304--1504403	38	2.6	39	88	3	141	37	25	10	28	1.88
1506789--1506841	27	2.0	27	85	10	74	56	0	0	43	0.99
1506785--1506885	33	3.1	33	81	7	107	59	0	0	39	1.04
1506785--1506878	32	3.0	31	83	10	102	58	0	1	40	1.05
1507846--1507915	14	5.1	14	73	16	67	55	0	0	44	0.99
1507836--1507917	27	3.0	27	82	7	94	54	0	0	45	0.99
1507846--1507930	27	3.2	26	76	17	86	57	0	0	42	0.98
1509004--1509040	14	2.5	15	83	16	51	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1508952--1509040	29	3.1	28	72	13	83	42	0	0	57	0.98
1509532--1509576	23	2.0	22	86	8	63	48	0	0	51	1.00
1509562--1509594	17	2.0	17	88	5	50	51	0	0	48	1.00
1509532--1509690	24	6.4	23	66	22	65	46	0	1	52	1.08
1509606--1509642	17	2.4	17	86	13	53	37	0	2	59	1.12
1511639--1511664	13	2.0	13	100	0	52	38	0	0	61	0.96
1511619--1511664	23	2.0	22	87	4	65	43	0	0	56	0.99
1521622--1521662	2	20.5	2	100	0	82	0	51	0	48	1.00
1522116--1522155	2	20.0	2	100	0	80	50	0	0	50	1.00
1522833--1522887	28	2.0	27	93	6	94	40	5	0	54	1.23
1527137--1527164	2	14.0	2	100	0	56	50	0	0	50	1.00
1528693--1528727	2	17.5	2	100	0	70	48	0	51	0	1.00
1529636--1529668	2	16.5	2	93	0	57	51	3	0	45	1.16
1535726--1535778	23	2.3	23	81	9	56	60	0	0	39	0.97
1535735--1535805	30	2.4	30	92	2	117	60	1	1	36	1.14
1536360--1536413	22	2.4	22	82	11	65	44	0	0	55	0.99
1548189--1548234	22	2.1	22	91	0	74	45	6	13	34	1.69
1551455--1551488	13	2.4	15	90	9	54	14	20	32	32	1.93
1555103--1555156	26	2.2	24	90	6	81	48	0	0	51	1.00
1555974--1556011	9	4.1	9	81	18	51	52	2	2	42	1.29
1562183--1562210	2	14.0	2	100	0	56	50	0	0	50	1.00
1562721--1562763	16	2.6	17	82	10	54	58	2	2	37	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1564571--1564654	13	6.5	13	74	14	68	40	0	1	58	1.06
1568877--1568915	20	1.9	21	84	5	53	53	10	2	33	1.48
1569615--1569648	2	17.0	2	100	0	68	50	0	50	0	1.00
1571411--1572574	337	3.5	334	81	7	1303	34	21	17	27	1.95
1571425--1572588	338	3.5	330	80	8	1255	34	21	17	27	1.95
1575357--1575383	13	2.1	13	100	0	54	37	14	7	40	1.74
1588498--1588540	20	2.2	20	87	8	61	60	0	0	39	0.97
1588991--1589073	13	6.0	13	72	17	60	55	0	0	44	0.99
1588984--1589070	43	2.2	41	82	13	110	57	0	0	42	0.98
1588991--1589071	28	2.9	27	77	12	76	56	0	0	43	0.99
1588995--1589091	50	2.0	47	82	15	117	52	1	0	46	1.07
1589199--1589273	25	3.2	23	76	20	75	53	0	4	42	1.19
1591000--1591044	14	3.3	14	81	12	58	62	0	0	37	0.96
1591917--1591966	24	2.1	25	85	7	68	46	6	0	48	1.27
1592038--1592084	23	2.0	24	84	8	62	53	0	2	44	1.12
1592043--1592121	23	3.4	22	78	11	77	58	0	0	41	0.98
1592473--1592571	30	3.3	30	81	12	116	53	2	6	38	1.37
1592728--1592772	20	2.2	20	88	7	65	11	0	17	71	1.14
1592741--1592783	19	2.2	20	84	12	54	11	0	16	72	1.13
1592728--1592768	21	2.0	21	95	0	73	12	0	14	73	1.11
1597460--1597492	16	2.0	17	88	5	50	54	0	0	45	0.99
1599915--1599980	27	2.4	27	84	2	78	27	4	19	48	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1604828--1604854	2	13.5	2	100	0	54	48	0	0	51	1.00
1605236--1605291	27	2.2	25	83	6	67	48	0	1	50	1.11
1605243--1605304	21	3.0	21	81	9	74	41	0	1	56	1.09
1609083--1609463	189	2.0	189	100	0	762	38	16	12	32	1.85
1609729--1609804	15	5.0	15	77	7	73	55	0	0	44	0.99
1614005--1614054	23	2.2	22	80	13	57	22	16	16	46	1.84
1616626--1616669	12	3.7	12	78	9	54	38	0	2	59	1.10
1616710--1616741	15	2.1	15	94	0	55	50	0	0	50	1.00
1619693--1619717	2	12.5	2	100	0	50	52	0	0	48	1.00
1622063--1622134	25	2.8	26	77	12	69	50	1	0	48	1.09
1622070--1622133	26	2.4	25	82	7	65	50	1	0	48	1.10
1624310--1624351	2	21.0	2	95	0	75	47	0	0	52	1.00
1630636--1630685	21	2.4	21	93	0	82	34	36	12	18	1.87
1641036--1641127	46	2.0	45	97	2	175	30	26	15	28	1.96
1641471--1641498	2	14.0	2	100	0	56	50	0	0	50	1.00
1642266--1642310	21	2.1	22	87	4	65	51	0	0	48	1.00
1647111--1647158	21	2.2	21	88	3	69	50	2	0	47	1.12
1647467--1647514	25	1.9	25	95	0	87	43	18	12	25	1.85
1653407--1653437	2	15.5	2	100	0	62	51	0	0	48	1.00
1656607--1656645	2	19.5	2	89	0	60	2	48	0	48	1.15
1658061--1658179	52	2.3	52	92	1	195	31	4	24	39	1.74
1663607--1663745	68	2.0	68	92	0	233	25	23	23	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1664377--1664412	15	2.4	15	95	0	63	91	0	8	0	0.41
1664377--1664405	9	3.3	9	95	4	51	93	0	6	0	0.36
1670320--1670461	3	48.7	3	70	13	82	60	4	0	34	1.18
1671105--1671143	2	19.5	2	100	0	78	0	51	0	48	1.00
1675282--1675311	2	15.0	2	100	0	60	50	0	0	50	1.00
1675311--1675337	2	13.5	2	100	0	54	51	0	48	0	1.00
1690731--1690765	15	2.4	14	85	4	52	54	0	0	45	0.99
1690699--1690775	29	2.5	30	80	14	77	50	2	1	45	1.23
1691108--1691149	13	3.5	12	81	9	50	71	2	0	26	0.98
1710363--1710393	15	2.1	15	93	0	53	58	6	22	12	1.58

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14