genome.fa.s72.2.7.7.80.10.50.1000.12.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  12  of  39  ( 4596 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)
1575055--1575147	19	4.9	19	91	0	150	23	16	21	38	1.92
1575055--1575147	38	2.4	38	98	0	177	23	16	21	38	1.92
1575055--1575167	57	2.0	58	89	1	174	27	15	20	36	1.93
1575197--1575259	33	1.9	32	84	12	83	33	9	19	38	1.84
1581420--1581506	20	4.8	18	72	23	67	29	16	14	39	1.88
1581420--1581484	33	2.0	33	93	0	112	26	16	16	40	1.90
1581447--1581511	20	3.2	20	84	0	94	35	15	12	36	1.85
1581480--1581533	27	2.0	27	88	0	81	38	14	9	37	1.79
1581507--1581551	20	2.2	20	96	0	81	28	17	11	42	1.84
1581461--1581556	47	2.0	47	89	0	147	32	15	10	41	1.81
1581689--1581749	31	1.9	32	83	3	79	37	21	0	40	1.53
1583061--1583129	33	2.1	33	91	0	111	20	21	21	36	1.95
1583900--1583949	21	2.3	22	80	10	59	28	8	16	48	1.74
1584176--1584226	20	2.5	20	90	6	77	37	13	17	31	1.89
1586558--1586646	31	2.9	31	91	1	135	34	24	10	30	1.88
1586571--1586676	31	3.3	31	89	7	142	34	24	9	31	1.87
1587821--1588034	34	6.2	34	72	13	147	31	2	1	63	1.19
1587826--1588034	102	2.0	102	96	0	382	32	2	1	63	1.20
1587946--1587977	11	2.8	12	86	13	50	28	0	0	71	0.86
1587957--1588041	40	2.1	40	81	12	95	35	1	0	63	1.02
1588018--1588059	21	2.0	22	85	4	59	40	0	0	59	0.97
1587863--1588100	102	2.3	101	85	7	268	37	2	0	60	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1589243--1589282	17	2.2	18	86	13	55	55	0	0	45	0.99
1589233--1589292	25	2.3	25	81	13	68	48	0	0	51	1.00
1589237--1589330	30	3.3	28	77	15	86	51	1	0	47	1.07
1591801--1591830	9	3.3	9	90	0	51	73	0	26	0	0.84
1592952--1593005	22	2.3	23	87	6	74	35	3	3	57	1.34
1595243--1595308	19	3.4	19	72	13	62	28	9	7	54	1.59
1595245--1595308	22	3.1	21	73	11	69	29	9	7	53	1.61
1597528--1597602	39	1.9	38	86	2	105	54	5	2	37	1.37
1597608--1597871	87	3.0	87	84	4	318	44	5	4	45	1.48
1597972--1598010	2	19.5	2	100	0	78	51	0	0	48	1.00
1600285--1600354	22	3.2	21	86	11	88	47	11	7	34	1.67
1600709--1600847	52	2.9	45	78	13	152	40	1	7	50	1.40
1600736--1601131	54	7.8	51	76	15	365	40	1	3	54	1.27
1600950--1601029	40	2.0	40	90	4	126	37	2	3	56	1.31
1600897--1601080	94	2.0	90	85	6	244	40	1	2	54	1.24
1600955--1601040	40	2.2	40	87	4	120	38	2	3	55	1.29
1600991--1601148	52	3.1	51	77	10	153	42	0	1	55	1.15
1603928--1603961	11	3.1	11	91	0	59	61	0	0	38	0.96
1605233--1605560	162	2.0	164	92	1	552	28	11	21	39	1.87
1605795--1605837	12	3.8	11	84	12	52	88	2	9	0	0.60
1605806--1605840	1	35.0	1	88	0	52	94	0	5	0	0.32
1605796--1605842	7	6.1	8	82	12	55	87	2	10	0	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1605801--1605842	15	2.9	15	86	13	61	88	2	9	0	0.61
1606628--1606740	59	1.9	59	87	3	165	27	7	13	51	1.68
1611073--1611097	11	2.3	11	100	0	50	64	0	0	36	0.94
1611578--1611614	19	1.9	19	88	0	56	54	10	8	27	1.63
1613149--1613183	10	3.5	10	92	0	52	0	14	0	85	0.59
1613149--1613189	19	2.2	19	86	0	55	0	14	2	82	0.76
1613584--1613629	22	2.1	22	84	8	58	0	19	2	78	0.86
1615875--1616100	76	2.9	75	76	6	202	39	15	11	32	1.84
1615962--1616345	79	5.0	78	74	11	231	36	18	14	31	1.90
1617227--1617301	11	6.6	11	77	17	73	4	24	0	72	1.02
1617227--1617275	22	2.3	22	92	3	82	2	24	0	73	0.94
1617228--1617301	12	6.4	12	79	16	68	4	22	0	72	1.01
1617224--1617277	21	2.7	20	86	11	74	1	25	0	72	0.95
1620460--1620580	59	2.1	59	100	0	242	36	13	20	29	1.91
1621594--1621618	13	1.9	13	100	0	50	36	16	16	32	1.90
1623245--1623285	21	2.0	21	85	9	57	41	12	7	39	1.70
1623325--1623395	20	3.6	19	77	7	70	39	16	14	29	1.88
1623365--1623501	53	2.6	53	96	1	247	37	18	17	27	1.93
1623526--1623556	10	3.1	10	90	0	53	22	29	6	41	1.78
1623544--1623599	21	2.6	22	94	5	105	26	25	10	37	1.88
1623673--1623698	13	2.0	13	100	0	52	30	15	23	30	1.95
1624177--1624243	37	1.9	35	88	11	102	32	11	25	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1625670--1625721	21	2.5	21	100	0	104	55	9	15	19	1.67
1626622--1626696	20	3.7	20	76	13	71	38	9	16	36	1.80
1626723--1626748	13	2.0	13	100	0	52	30	15	15	38	1.88
1627480--1627726	52	4.8	52	71	8	180	34	15	25	24	1.95
1627468--1627721	103	2.5	104	81	5	311	35	14	25	24	1.94
1627687--1627761	39	1.9	39	86	0	105	24	18	29	28	1.98
1627726--1628088	49	7.8	49	73	11	325	30	15	25	28	1.96
1627637--1628088	137	3.3	137	89	1	699	29	16	26	27	1.97
1627912--1628077	88	1.9	88	93	2	289	29	18	25	26	1.98
1628141--1628196	27	2.1	27	86	6	78	26	12	37	23	1.90
1628263--1628361	27	3.7	27	79	2	101	38	13	25	23	1.91
1628349--1628587	34	7.2	33	77	13	208	35	10	31	23	1.88
1628356--1628553	68	2.9	66	82	8	229	36	9	31	21	1.86
1628329--1628558	101	2.3	101	83	10	267	37	10	30	22	1.87
1628499--1628639	30	4.4	30	76	14	113	34	14	30	20	1.93
1628495--1628723	33	7.1	32	77	12	148	34	15	30	20	1.93
1629717--1629746	10	3.0	10	90	0	51	0	0	13	86	0.57
1630242--1630301	19	2.9	21	80	11	63	38	11	13	36	1.81
1630252--1630301	19	2.5	21	90	6	77	38	12	16	34	1.85
1630356--1630381	13	2.0	13	100	0	52	30	15	15	38	1.88
1633189--1633478	51	5.7	48	78	10	240	31	24	10	34	1.88
1633204--1633474	102	2.7	103	82	6	295	30	25	10	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1633559--1633637	28	2.8	28	94	0	140	20	27	21	30	1.98
1633446--1633631	101	1.9	100	84	5	250	26	28	16	28	1.97
1641410--1641476	33	2.0	33	85	0	89	32	10	14	41	1.80
1641517--1641541	13	1.9	13	100	0	50	32	16	16	36	1.90
1655468--1655529	6	10.7	6	77	19	51	82	16	1	0	0.75
1655468--1655517	12	4.4	11	87	7	73	86	12	2	0	0.67
1655468--1655534	12	5.5	12	78	18	68	82	16	1	0	0.75
1655470--1655526	18	3.0	18	82	17	71	84	14	1	0	0.71
1655470--1655535	23	3.0	22	84	8	80	83	15	1	0	0.72
1656969--1657221	28	8.6	29	75	10	167	30	28	16	24	1.96
1656969--1657203	30	7.9	29	75	10	154	28	28	17	25	1.97
1656969--1657175	59	3.4	59	72	10	177	28	28	16	26	1.97
1657103--1657249	28	5.1	28	84	2	159	37	26	14	21	1.92
1657271--1657512	52	4.8	51	79	9	250	22	25	19	32	1.97
1657272--1657512	95	2.4	99	81	8	260	22	25	19	31	1.98
1658347--1658371	13	1.9	13	100	0	50	36	16	16	32	1.90
1658327--1658393	33	2.0	33	88	0	98	32	11	14	40	1.83
1664620--1664644	13	1.9	13	100	0	50	36	16	16	32	1.90
1664600--1664666	33	2.0	33	88	0	98	32	11	14	40	1.83
1673945--1673995	5	9.3	6	85	10	58	86	11	1	0	0.66
1673945--1674003	22	2.7	21	89	5	82	86	10	3	0	0.68
1673946--1674001	10	5.9	9	78	21	53	85	10	3	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673945--1674003	26	2.2	26	90	6	91	86	10	3	0	0.68
1674972--1675515	55	9.5	59	83	9	641	26	26	20	25	1.99
1675554--1675789	61	3.9	61	84	3	300	25	26	20	27	1.99
1675375--1675666	154	1.9	158	85	7	416	25	27	20	27	1.99
1675259--1675789	276	1.9	276	84	5	716	25	26	20	27	1.99
1675314--1675728	215	1.9	217	85	8	585	24	26	20	27	1.99
1675772--1675905	42	3.1	42	81	5	126	16	26	14	41	1.87
1676649--1676700	19	2.6	21	90	6	81	38	13	15	32	1.86
1679142--1679381	51	4.6	51	84	3	320	29	27	11	31	1.92
1679360--1679435	27	2.8	27	88	8	109	23	32	21	22	1.98

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