genome.fa.s283.2.7.7.80.10.50.1000.9.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: Scaffold283
Parameters: 2 7 7 80 10 50 1000
Length:  2945114

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  9  of  15  ( 1700 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)
1466887--1466924	20	1.9	19	89	5	58	44	0	0	55	0.99
1466932--1466974	22	1.9	23	86	13	63	41	0	0	58	0.98
1467434--1467501	27	2.4	28	82	9	75	41	0	0	58	0.98
1467404--1467506	35	2.9	35	76	13	95	39	0	0	60	0.97
1467458--1467545	45	2.0	45	81	4	106	40	1	0	57	1.06
1468072--1468109	18	2.2	17	86	9	51	36	2	0	60	1.11
1468063--1468133	27	2.6	28	78	12	76	39	2	0	57	1.13
1468408--1468470	9	7.0	9	73	20	51	55	0	0	44	0.99
1474985--1475039	26	2.1	27	83	10	69	58	0	1	40	1.09
1478785--1478873	23	4.0	21	77	11	81	52	2	0	44	1.13
1484006--1484081	29	2.7	28	82	8	91	34	7	1	56	1.37
1484006--1484074	28	2.4	29	83	11	81	36	8	1	53	1.41
1484032--1484107	31	2.5	30	83	8	84	36	10	3	48	1.56
1484948--1485012	28	2.3	29	76	15	73	55	4	3	36	1.36
1491646--1491775	36	3.6	36	77	0	143	40	35	7	16	1.77
1492532--1492556	13	1.9	13	100	0	50	48	0	0	52	1.00
1492764--1492801	13	2.8	14	84	8	51	42	0	2	55	1.14
1492771--1492800	15	2.0	15	93	0	51	36	0	3	60	1.14
1492764--1492815	23	2.3	23	83	6	70	40	0	1	57	1.10
1498099--1498163	32	2.0	32	93	0	112	32	24	15	27	1.95
1498718--1498802	37	2.3	37	80	8	93	42	22	9	25	1.83
1506349--1506465	58	2.0	58	96	0	216	38	17	17	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1514035--1514114	30	2.7	30	90	0	124	31	13	21	33	1.92
1514677--1514703	3	9.0	3	100	0	54	33	0	0	66	0.92
1519344--1519375	2	16.0	2	100	0	64	50	0	0	50	1.00
1519412--1519469	7	8.6	7	81	7	66	29	1	0	68	0.99
1523024--1523080	23	2.6	21	75	20	53	64	1	0	33	1.04
1524217--1524343	64	2.0	63	98	1	245	39	17	17	25	1.91
1537131--1537169	10	3.8	10	86	6	51	38	0	2	58	1.12
1537462--1537503	22	1.9	22	90	9	68	38	0	0	61	0.96
1537778--1537857	27	2.9	27	81	10	90	51	0	0	48	1.00
1537811--1537854	23	2.0	22	82	13	54	52	0	0	47	1.00
1541197--1541265	7	9.7	7	73	14	52	52	0	0	47	1.00
1556408--1556449	14	3.1	13	78	21	50	30	0	2	66	1.04
1557583--1557625	11	3.7	11	76	11	50	34	0	4	60	1.17
1557728--1557763	17	2.1	18	89	5	56	36	0	0	63	0.94
1559298--1559410	5	23.2	5	70	20	71	56	1	0	41	1.09
1559322--1559384	24	2.6	23	79	20	58	55	1	0	42	1.09
1559324--1559404	18	4.6	18	70	23	64	53	2	0	44	1.14
1559297--1559411	25	4.5	24	76	16	99	56	1	0	41	1.09
1566559--1566595	2	18.5	2	100	0	74	0	48	0	51	1.00
1568902--1568941	2	20.0	2	100	0	80	0	50	0	50	1.00
1572042--1572098	30	1.9	30	85	7	80	43	0	0	56	0.99
1572055--1572089	14	2.6	13	90	4	52	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1572973--1573019	14	3.4	14	74	8	51	53	0	0	46	1.00
1573215--1573251	20	1.9	18	89	10	56	48	5	5	40	1.49
1578993--1579020	14	2.0	14	100	0	56	64	0	0	35	0.94
1585337--1585379	13	3.5	13	75	18	56	34	0	0	65	0.93
1585342--1585394	23	2.2	25	90	6	83	37	0	0	62	0.96
1589759--1589807	21	2.3	20	76	10	53	46	2	2	48	1.25
1589803--1589844	21	2.1	21	86	8	61	50	0	0	50	1.00
1596027--1596069	14	3.0	15	83	10	54	53	0	0	46	1.00
1597061--1597112	8	7.1	8	75	18	51	61	1	0	36	1.07
1597061--1597110	14	3.5	14	86	10	66	62	2	0	36	1.07
1599090--1599142	2	26.5	2	100	0	106	49	0	0	50	1.00
1602068--1602115	2	24.0	2	100	0	96	50	0	50	0	1.00
1602812--1602854	22	1.9	23	85	4	61	62	0	0	37	0.95
1602811--1602881	17	4.2	17	70	22	60	61	0	0	38	0.96
1602820--1602915	37	2.6	36	80	18	101	59	0	1	39	1.04
1606738--1606778	21	2.0	21	90	4	66	43	0	0	56	0.99
1610826--1610882	2	28.5	2	100	0	114	49	0	0	50	1.00
1611857--1611910	17	3.3	17	74	25	62	55	0	3	40	1.17
1619619--1619660	14	2.9	15	80	13	52	45	0	0	54	0.99
1619713--1619773	24	2.4	25	83	8	88	34	0	0	65	0.93
1619755--1619789	16	2.2	16	90	5	54	45	0	2	51	1.16
1619953--1620001	18	2.6	19	84	12	57	26	0	2	71	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1619970--1620007	14	2.6	15	83	8	51	26	2	2	68	1.16
1621187--1621223	16	2.3	16	90	9	58	54	0	0	45	1.00
1621468--1621536	20	3.7	20	75	13	74	36	0	1	62	1.04
1623709--1623742	17	2.0	17	88	0	50	35	0	0	64	0.94
1624452--1624479	5	5.6	5	100	0	56	82	0	0	17	0.68
1625970--1625995	7	3.7	7	100	0	52	57	26	0	15	1.38
1626822--1627041	71	3.2	69	94	3	388	25	10	20	44	1.82
1630383--1630421	2	19.5	2	100	0	78	51	0	0	48	1.00
1631889--1631931	16	2.6	17	82	10	54	69	0	0	30	0.88
1631919--1631998	32	2.6	32	77	13	78	51	1	1	46	1.17
1637114--1637165	24	2.1	26	78	10	63	50	0	1	48	1.12
1640128--1640186	21	2.8	21	86	0	73	40	0	20	38	1.53
1640149--1640192	21	2.1	21	91	0	70	40	0	13	45	1.44
1643624--1643992	184	2.0	184	98	0	720	34	22	18	24	1.96
1645718--1645751	15	2.2	16	89	5	52	55	0	0	44	0.99
1646493--1646761	128	2.1	124	82	9	337	55	1	2	41	1.19
1650484--1650535	23	2.2	25	83	13	74	63	0	1	34	1.06
1651031--1651071	12	2.9	14	79	20	50	56	0	0	43	0.99
1651031--1651073	14	3.0	15	80	10	54	55	0	0	44	0.99
1651292--1651339	10	5.0	9	83	16	53	72	0	4	22	1.01
1651292--1651340	18	2.5	19	84	12	64	73	0	4	22	1.00
1659392--1659442	2	25.5	2	100	0	102	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1660470--1660516	16	2.6	17	78	18	51	38	0	0	61	0.96
1660483--1660523	17	2.5	17	81	14	50	41	0	0	58	0.98
1660901--1660944	17	2.4	18	81	11	54	27	0	0	72	0.85
1666460--1666494	16	2.1	17	89	5	54	57	0	0	42	0.99
1666966--1667002	19	1.9	19	88	0	56	48	2	2	45	1.30
1666988--1667017	13	2.2	14	94	5	53	50	0	0	50	1.00
1667002--1667038	19	1.9	19	88	0	56	37	0	2	59	1.12
1666971--1667036	33	2.1	32	83	11	82	43	1	3	51	1.26
1667507--1667562	22	2.6	21	82	5	58	58	1	0	39	1.08
1668256--1668285	2	15.5	2	93	6	53	50	0	0	50	1.00
1668469--1668495	2	13.5	2	100	0	54	48	0	51	0	1.00
1678238--1678285	23	2.1	23	100	0	96	58	4	20	16	1.55
1681349--1681414	28	2.3	29	84	10	91	60	0	0	39	0.97
1681875--1681908	15	2.1	16	89	10	52	47	0	0	52	1.00
1681971--1682000	3	10.0	3	100	0	60	33	0	0	66	0.92
1682028--1682075	18	2.8	17	84	12	55	39	2	2	56	1.23
1684637--1684696	17	3.5	17	74	19	54	53	1	0	45	1.10
1684628--1684674	16	3.0	15	77	17	51	53	0	0	46	1.00
1685755--1685780	4	6.5	4	100	0	52	76	0	0	23	0.78
1685873--1685952	30	2.6	30	78	9	74	52	2	1	43	1.22
1693295--1693319	7	3.6	7	100	0	50	28	0	0	72	0.86
1715216--1715254	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1717778--1717819	16	2.7	15	82	10	57	40	0	0	59	0.97
1717891--1717917	3	9.0	3	100	0	54	33	0	0	66	0.92
1719329--1719358	6	5.0	6	100	0	60	50	16	0	33	1.46
1719360--1719384	3	8.3	3	100	0	50	32	0	0	68	0.90
1722021--1722099	24	3.0	25	78	15	81	46	0	0	53	1.00
1722394--1722511	23	4.8	26	68	24	76	59	0	0	39	1.03
1722433--1722505	6	12.8	6	72	16	57	61	1	0	36	1.05
1722402--1722505	11	9.8	11	69	25	73	59	0	0	39	1.04
1722402--1722513	40	2.7	39	75	19	104	59	0	0	39	1.03
1724510--1724546	16	2.2	18	85	9	51	56	0	2	40	1.13

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15