genome.fa.s196.2.7.7.80.10.50.1000.12.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  12  of  47  ( 5587 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)
1601245--1601290	19	2.5	19	86	6	60	60	4	0	34	1.16
1602035--1602090	21	2.8	20	86	5	85	48	3	7	41	1.48
1602129--1602170	14	2.8	16	75	14	52	45	2	0	52	1.13
1602449--1602491	11	3.9	11	87	9	61	60	0	0	39	0.97
1602450--1602491	10	4.1	10	84	12	50	61	0	0	38	0.96
1602450--1602491	21	2.0	22	90	4	68	61	0	0	38	0.96
1608168--1608236	33	2.2	33	82	7	81	59	0	0	40	0.97
1608211--1608253	21	2.0	21	82	8	52	58	0	0	41	0.98
1608219--1608266	21	2.3	20	75	10	51	52	0	0	47	1.00
1608945--1608990	20	2.5	18	82	10	58	65	0	0	34	0.93
1611264--1611300	3	12.3	3	100	0	74	67	0	0	32	0.91
1612961--1613001	21	2.0	21	85	0	55	29	19	19	31	1.96
1615505--1615938	89	4.9	87	75	10	308	29	24	10	34	1.89
1621864--1622519	72	9.0	73	77	8	182	24	23	14	38	1.91
1621813--1622760	71	13.0	72	76	9	649	24	22	14	39	1.91
1621853--1622395	73	7.4	74	77	8	234	24	22	13	38	1.91
1621813--1622761	147	6.5	146	73	12	452	24	22	14	39	1.91
1622362--1622635	150	1.8	148	82	4	354	23	23	13	39	1.90
1622518--1622713	68	2.8	69	84	2	241	24	19	14	40	1.90
1622073--1622760	289	2.4	286	79	7	719	24	22	14	39	1.91
1624457--1624487	13	2.4	13	100	0	62	38	12	16	32	1.86
1629285--1629483	76	2.6	78	82	4	224	28	16	29	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1629348--1629401	28	1.9	28	88	7	83	31	16	27	24	1.96
1629435--1629510	28	2.7	28	87	0	98	22	21	35	21	1.96
1631922--1631947	13	2.0	13	100	0	52	38	15	15	30	1.88
1631901--1631967	33	2.0	33	88	0	98	43	16	14	25	1.86
1631987--1632033	19	2.5	19	96	0	85	36	14	10	38	1.81
1632668--1633235	55	10.3	55	90	3	819	20	20	30	28	1.98
1632964--1633052	27	3.2	29	62	20	71	19	20	33	26	1.96
1632934--1633023	26	3.3	26	64	19	67	18	20	34	26	1.96
1633099--1633188	26	3.3	26	65	14	74	22	17	31	28	1.97
1634217--1634278	1	62.0	1	75	0	52	0	4	8	87	0.68
1634214--1634279	25	2.7	24	79	6	80	0	7	9	83	0.82
1634227--1634262	7	5.4	7	90	9	58	0	0	8	91	0.41
1634217--1634276	12	4.8	12	85	8	75	0	5	8	86	0.69
1634217--1634279	16	3.9	16	79	8	65	0	4	9	85	0.72
1634227--1634278	20	2.7	19	85	8	61	0	3	7	88	0.62
1640129--1640195	33	2.0	33	88	0	98	34	11	13	40	1.81
1640149--1640173	13	1.9	13	100	0	50	36	16	16	32	1.90
1640239--1640263	13	1.9	13	100	0	50	32	16	16	36	1.90
1640272--1640392	52	2.3	52	95	0	215	34	18	18	28	1.94
1650329--1650527	76	2.6	78	81	4	224	28	16	29	26	1.96
1650392--1650445	28	1.9	28	88	7	83	31	16	27	24	1.96
1650479--1650554	28	2.7	28	87	0	98	22	21	35	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1652966--1652991	13	2.0	13	100	0	52	38	15	15	30	1.88
1652945--1653011	33	2.0	33	88	0	98	43	16	14	25	1.86
1653031--1653098	19	3.9	18	76	23	83	38	14	11	35	1.83
1653053--1653077	13	1.9	13	100	0	50	32	16	16	36	1.90
1653034--1653096	32	2.0	32	96	0	117	36	15	12	34	1.86
1653154--1653210	21	2.7	21	97	0	105	36	19	10	33	1.86
1653216--1653251	18	2.0	18	100	0	72	11	5	0	83	0.80
1656942--1656976	3	11.7	3	93	0	61	28	34	0	37	1.58
1656939--1656978	9	4.4	9	93	0	62	25	32	0	42	1.55
1658697--1658739	20	2.0	22	91	8	72	20	13	18	46	1.83
1661239--1661430	88	2.2	87	78	6	201	27	25	14	33	1.94
1668699--1668752	21	2.7	21	85	5	76	37	12	16	33	1.87
1673121--1673248	65	2.0	65	87	3	186	38	21	10	29	1.87
1673210--1673867	71	9.4	71	76	5	432	29	23	12	34	1.92
1673255--1673667	141	2.9	141	80	4	499	29	24	13	33	1.93
1673250--1673701	212	2.1	214	84	4	576	28	24	13	33	1.93
1677102--1677435	88	3.8	87	79	6	291	29	26	11	32	1.91
1689098--1689149	20	2.6	20	75	0	59	48	7	7	36	1.61
1691871--1691941	20	3.5	20	75	11	74	42	18	9	29	1.82
1694165--1694211	2	23.5	2	100	0	94	0	48	0	51	1.00
1694211--1694255	2	22.5	2	100	0	90	48	0	0	51	1.00
1697283--1697332	19	2.6	19	93	3	82	8	34	4	54	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1702893--1702952	19	3.5	19	70	29	71	53	3	0	43	1.17
1703000--1703026	12	2.2	12	100	0	54	85	0	0	14	0.61
1704334--1704382	24	2.0	24	100	0	98	38	12	20	28	1.89
1706462--1706503	2	21.0	2	100	0	84	0	50	0	50	1.00
1706503--1706536	2	17.0	2	100	0	68	50	0	0	50	1.00
1706685--1706714	13	2.3	13	94	0	51	90	3	6	0	0.56
1706820--1706855	2	18.0	2	100	0	72	50	0	0	50	1.00
1707473--1707567	11	8.2	11	69	16	50	51	2	2	44	1.25
1707735--1707772	20	2.0	20	89	5	60	26	7	0	65	1.19
1711625--1711845	34	6.5	33	81	9	248	41	25	7	25	1.81
1711625--1711845	102	2.2	101	86	3	327	41	25	7	25	1.81
1716251--1716468	34	6.5	33	80	8	233	41	25	6	25	1.80
1716253--1716468	68	3.2	67	81	3	263	41	25	6	25	1.80
1716251--1716468	102	2.1	101	84	3	303	41	25	6	25	1.80
1718086--1718149	27	2.3	27	89	7	94	25	7	21	45	1.78
1721843--1722690	426	2.0	427	98	0	1644	32	15	24	28	1.95
1725206--1725257	4	13.0	4	100	0	104	25	25	0	50	1.50
1729068--1729101	2	17.0	2	100	0	68	50	0	0	50	1.00
1729122--1729212	45	2.0	45	100	0	182	28	10	40	19	1.86
1729399--1729448	16	2.9	18	76	11	59	58	0	0	42	0.98
1729932--1730007	37	2.1	37	92	0	125	51	7	6	34	1.57
1731168--1731270	29	3.6	29	79	7	93	36	22	2	37	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1733028--1733056	11	2.7	11	94	5	51	0	13	0	86	0.58
1735492--1735573	22	3.7	22	76	10	78	47	18	2	31	1.61
1735588--1735632	16	2.8	16	96	0	81	57	2	0	40	1.11
1735588--1735648	32	1.9	32	83	6	79	57	3	0	39	1.15
1736721--1736861	41	3.3	41	71	15	133	45	17	12	24	1.83
1737252--1737278	2	13.5	2	100	0	54	51	48	0	0	1.00
1740637--1740702	31	2.2	31	91	2	107	54	15	12	18	1.71
1745264--1745300	2	18.5	2	100	0	74	51	0	0	48	1.00
1745670--1745703	10	3.3	10	87	4	50	0	11	0	88	0.52
1745663--1745703	21	2.0	21	85	9	57	4	12	0	82	0.81
1745671--1745706	17	2.1	17	94	0	63	0	13	0	86	0.58
1745673--1745706	11	3.2	11	87	8	52	0	14	0	85	0.60
1745675--1745723	17	2.9	17	84	0	53	2	22	0	75	0.90
1750227--1750319	47	2.0	48	82	10	115	54	1	2	41	1.19
1750251--1750326	16	4.9	16	70	17	54	57	1	1	39	1.15
1752259--1752302	2	22.0	2	100	0	88	50	0	0	50	1.00
1754398--1754432	6	5.8	6	96	0	52	71	0	0	28	0.86
1755418--1755473	2	28.5	2	81	3	69	50	1	0	48	1.11
1755422--1755480	29	2.0	29	93	0	100	47	3	0	49	1.18
1755431--1755486	29	1.9	29	92	0	94	44	7	0	48	1.30
1756573--1756608	18	1.9	20	88	11	58	66	0	0	33	0.92
1756581--1756657	37	2.1	36	81	13	86	57	0	1	41	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1757411--1757452	15	2.8	15	79	13	50	59	4	0	35	1.19
1757414--1757504	16	5.8	16	73	18	57	62	5	0	31	1.18
1757826--1757902	8	9.8	8	69	23	56	48	0	0	51	1.00
1757831--1757913	28	2.9	29	75	21	86	45	0	0	54	0.99
1757932--1757970	20	2.0	20	94	0	69	35	0	0	64	0.94
1757923--1758034	44	2.6	44	75	12	106	34	1	0	62	1.12
1758018--1758055	2	19.0	2	100	0	76	50	0	0	50	1.00
1761050--1761099	22	2.3	22	83	10	66	32	12	14	42	1.82
1761050--1761098	23	2.2	22	85	7	64	32	12	14	40	1.83
1762519--1762570	25	2.0	26	82	14	63	25	19	13	42	1.87

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47