genome.fa.s144.2.7.7.80.10.50.1000.11.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  11  of  21  ( 2468 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)
1548838--1548889	13	3.5	13	73	26	50	36	17	13	32	1.89
1548846--1548910	19	3.7	19	73	23	70	40	16	10	32	1.84
1548838--1548908	32	2.2	32	94	0	124	38	18	11	32	1.86
1551137--1551180	21	2.1	21	83	8	54	25	31	4	38	1.76
1558094--1558124	15	2.1	15	93	0	53	12	22	16	48	1.80
1559923--1559971	21	2.3	22	82	3	55	22	16	4	57	1.56
1562193--1562218	13	2.0	13	100	0	52	30	15	15	38	1.88
1562173--1562236	32	2.0	33	90	3	103	28	14	18	39	1.90
1562173--1562243	19	4.0	18	72	25	62	26	12	21	39	1.89
1563398--1563460	33	1.9	33	87	6	92	33	15	14	36	1.88
1563492--1563545	19	2.8	19	85	2	72	37	14	16	31	1.89
1565043--1565199	20	7.8	20	70	22	96	29	15	14	41	1.86
1565130--1565182	13	4.5	13	69	26	55	28	15	15	41	1.87
1565110--1565182	33	2.2	33	97	0	137	28	15	13	42	1.85
1567475--1567915	79	5.6	79	82	4	500	28	24	13	34	1.92
1567475--1567885	159	2.6	157	84	4	517	27	24	14	33	1.94
1571722--1571793	20	3.6	19	77	7	81	41	9	13	34	1.78
1571719--1571797	40	2.0	39	92	2	131	40	11	12	35	1.79
1573562--1573621	13	5.1	13	69	22	60	43	15	13	28	1.84
1573576--1573640	20	3.6	19	73	26	70	43	15	13	27	1.85
1573563--1573640	33	2.4	33	97	0	147	42	15	14	28	1.85
1574169--1574198	14	2.1	14	100	0	60	23	26	6	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1577001--1577025	3	8.3	3	100	0	50	32	36	0	32	1.58
1579168--1579279	27	4.1	28	72	19	101	58	0	0	39	1.10
1579168--1579266	11	9.5	11	67	24	54	59	0	1	39	1.04
1580646--1580718	14	4.8	16	73	19	59	34	1	1	63	1.12
1580645--1580714	30	2.3	31	82	7	90	34	1	1	62	1.13
1580672--1580710	16	2.2	17	86	13	53	28	2	0	69	1.02
1581586--1581656	33	2.1	36	82	12	87	60	0	0	39	0.97
1581637--1581684	16	2.9	18	79	17	59	66	0	0	33	0.92
1582045--1582074	15	2.0	15	100	0	60	40	0	0	60	0.97
1582470--1582513	16	2.8	16	83	13	56	65	0	2	31	1.05
1582454--1582518	26	2.5	24	79	16	67	70	1	1	26	1.04
1582702--1582735	11	3.2	11	91	8	61	61	0	0	38	0.96
1582913--1582992	36	2.1	38	84	13	103	15	10	8	66	1.44
1582911--1582992	37	2.1	38	86	6	112	14	9	9	65	1.46
1583663--1583694	15	2.1	15	94	0	55	53	0	0	46	1.00
1585728--1585785	6	10.2	6	77	22	63	31	0	0	68	0.89
1585731--1585789	23	2.4	25	88	8	86	30	0	0	69	0.89
1585729--1585804	15	4.6	17	75	13	61	30	0	0	69	0.88
1585902--1585952	23	2.2	23	82	6	59	15	0	11	72	1.12
1586333--1586375	16	2.7	16	77	0	50	74	0	23	2	0.93
1587445--1587470	13	2.0	13	100	0	52	38	15	15	30	1.88
1587427--1587490	33	2.0	33	90	3	103	42	17	14	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1587524--1587567	20	2.1	22	91	8	74	40	20	9	29	1.83
1593654--1593680	13	2.1	13	100	0	54	29	14	14	40	1.86
1593637--1593705	33	2.2	33	94	5	124	24	17	13	44	1.84
1596147--1596201	20	2.8	19	88	5	74	41	16	12	29	1.85
1596254--1596304	20	2.6	20	90	3	77	43	15	13	27	1.85
1596338--1596381	20	2.1	22	91	8	74	40	20	9	29	1.83
1597601--1597661	22	2.7	22	77	10	61	59	0	0	40	0.98
1597624--1597657	17	2.0	17	88	0	50	58	0	0	41	0.98
1598410--1598436	14	1.9	14	100	0	54	81	0	11	7	0.87
1599065--1599356	62	4.6	62	75	11	200	55	2	2	40	1.25
1599098--1599356	62	4.1	61	82	7	293	54	2	2	41	1.26
1599325--1599369	21	2.1	21	84	15	58	53	0	0	46	1.00
1599127--1599368	130	1.9	129	87	4	337	54	2	2	40	1.23
1600154--1600201	21	2.4	18	80	16	51	47	0	4	47	1.21
1601282--1601316	2	17.5	2	93	0	61	0	45	0	54	0.99
1605114--1605167	19	2.7	21	82	5	76	40	12	14	31	1.84
1622261--1622304	16	2.4	19	78	21	58	45	0	0	54	0.99
1623421--1623470	21	2.4	21	83	6	57	56	2	0	42	1.11
1623414--1623469	11	5.2	11	72	12	53	51	1	1	44	1.22
1623473--1623506	17	2.0	17	88	0	50	38	2	8	50	1.49
1629422--1629454	2	16.5	2	100	0	66	51	0	0	48	1.00
1631588--1631620	15	2.1	16	88	5	50	63	3	0	33	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1631655--1631694	21	2.0	21	85	5	55	42	5	2	50	1.37
1634871--1634906	6	6.2	6	87	6	56	30	2	0	66	1.06
1636459--1636501	20	2.2	19	84	12	52	27	13	18	39	1.89
1636515--1636714	29	6.9	29	76	1	132	39	4	21	35	1.72
1636829--1637382	154	3.6	153	76	8	471	26	14	17	41	1.88
1637664--1637710	16	2.9	16	83	0	67	44	25	10	19	1.82
1637641--1637740	32	3.1	32	82	1	110	43	21	14	22	1.87
1638600--1638671	16	4.6	16	70	15	51	45	29	11	13	1.78
1641713--1641746	10	3.3	10	88	8	50	47	8	0	44	1.34
1643555--1643677	65	1.9	66	87	1	185	41	13	16	29	1.85
1644063--1644102	18	2.2	18	86	8	55	62	2	5	30	1.29
1657524--1657586	20	3.1	20	72	9	56	52	0	1	46	1.10
1657836--1657914	40	2.0	39	87	7	115	49	0	0	50	1.00
1658656--1658722	33	2.0	33	88	0	98	34	11	13	40	1.81
1658676--1658700	13	1.9	13	100	0	50	36	16	16	32	1.90
1658763--1658787	13	1.9	13	100	0	50	32	16	16	36	1.90
1658796--1658920	52	2.4	52	94	0	214	35	18	18	28	1.94
1664060--1664106	25	1.9	24	86	4	67	46	2	2	48	1.25
1668416--1668665	126	2.0	126	97	0	473	38	16	15	30	1.89
1671524--1671557	3	11.3	3	93	0	59	70	0	0	29	0.87
1676238--1676280	21	2.0	21	86	8	61	41	0	0	58	0.98
1676246--1676310	26	2.5	27	71	14	64	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1678515--1678739	112	2.0	112	90	0	351	25	10	21	42	1.84
1681690--1681728	20	2.0	20	100	0	78	41	15	17	25	1.89
1682210--1682276	27	2.2	32	82	15	90	49	0	2	47	1.16
1683608--1683657	15	3.4	15	86	2	66	40	12	10	38	1.76
1683608--1683673	14	4.4	14	77	17	62	40	10	12	36	1.77
1684944--1685014	36	2.0	34	89	5	106	42	2	11	43	1.55
1685987--1686036	26	2.0	26	84	11	68	50	4	0	46	1.20
1686660--1686690	16	1.9	16	93	0	53	48	0	3	48	1.17
1686997--1687049	17	3.0	17	86	10	63	67	0	1	30	1.01
1689221--1689260	12	3.4	12	80	19	57	25	7	0	67	1.16
1689223--1689268	23	2.0	23	87	8	67	26	8	0	65	1.21
1689423--1689447	2	12.5	2	100	0	50	48	0	0	52	1.00
1689707--1689780	21	3.6	21	67	18	57	43	0	0	56	0.99
1689862--1689897	17	2.1	17	90	10	56	38	8	0	52	1.32
1690516--1690574	16	3.4	16	72	27	50	55	0	0	44	0.99
1690514--1690562	19	2.7	19	84	6	66	55	0	0	44	0.99
1690538--1690583	23	2.0	23	84	12	60	63	0	0	36	0.95
1691114--1691167	27	2.0	28	85	10	76	38	0	0	61	0.96
1691172--1691204	15	2.1	16	94	5	59	69	0	0	30	0.88
1692344--1692388	22	2.1	22	88	12	67	51	6	0	42	1.28
1694040--1694624	305	1.9	306	89	2	908	32	18	9	39	1.83
1695137--1695178	21	2.1	21	91	8	70	69	0	2	28	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1695168--1695230	18	3.6	18	73	16	69	63	3	0	33	1.10
1695145--1695204	21	2.8	20	80	9	57	66	1	1	30	1.11
1695172--1695272	34	3.0	34	91	5	152	64	2	0	31	1.15
1695790--1695823	13	2.5	13	85	4	50	64	0	0	35	0.94
1698228--1698280	27	2.0	27	92	0	88	35	9	7	47	1.64
1702941--1702992	27	1.9	27	88	0	77	38	5	3	51	1.44
1705262--1705354	35	2.6	35	78	11	91	54	0	0	45	0.99
1705303--1705343	21	1.9	22	90	5	66	43	0	0	56	0.99
1705303--1705343	22	1.9	20	85	14	55	43	0	0	56	0.99
1705803--1705850	23	2.0	24	88	4	71	64	0	0	35	0.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21