genome.fa.s31.2.7.7.80.10.50.1000.10.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: Scaffold31
Parameters: 2 7 7 80 10 50 1000
Length:  2401195

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  10  of  16  ( 1858 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)
1469325--1469511	20	8.8	20	80	12	203	46	9	12	31	1.74
1470523--1470559	2	18.5	2	100	0	74	48	0	0	51	1.00
1471757--1471864	54	2.0	54	94	3	191	50	7	6	36	1.56
1474437--1474472	18	1.9	19	94	5	65	63	0	0	36	0.94
1475609--1475649	11	3.6	12	80	9	50	34	0	0	65	0.93
1482742--1482890	79	1.9	79	83	5	194	36	12	22	28	1.90
1482825--1482924	51	2.0	51	89	0	155	36	9	26	29	1.87
1482825--1482940	51	2.3	51	85	5	146	34	9	26	29	1.88
1482876--1483110	78	3.0	78	83	6	278	36	12	22	28	1.91
1483114--1483298	79	2.3	79	84	2	228	38	14	20	26	1.91
1487260--1487334	20	3.8	20	73	16	77	36	8	13	42	1.73
1487351--1487400	20	2.5	20	100	0	100	30	14	12	44	1.81
1487211--1487400	91	2.1	89	84	5	240	31	13	11	43	1.80
1488266--1488312	21	2.4	21	86	10	64	23	23	10	42	1.85
1489236--1489615	79	4.8	79	81	4	383	35	12	23	28	1.91
1489236--1489615	158	2.4	157	83	4	453	35	12	23	28	1.91
1489551--1489664	51	2.2	51	85	3	158	35	9	22	31	1.87
1489602--1489877	107	2.6	106	79	5	331	33	13	25	27	1.93
1489756--1489829	28	2.6	29	87	6	116	24	17	33	24	1.96
1492324--1492353	13	2.3	13	94	0	51	40	10	16	33	1.82
1492275--1492432	62	2.5	61	89	4	228	39	13	17	29	1.87
1492275--1492446	33	5.5	33	69	17	132	40	13	16	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1492386--1492446	13	5.2	13	75	22	71	40	13	16	29	1.86
1499148--1499220	20	3.7	19	85	1	92	42	13	13	30	1.83
1502908--1502989	42	2.0	41	85	2	110	37	9	9	42	1.71
1504550--1504617	2	36.5	2	75	19	67	48	1	2	47	1.26
1506888--1506956	33	2.1	33	86	5	95	62	2	27	7	1.36
1507246--1507281	18	2.0	18	88	0	54	44	0	11	44	1.39
1508945--1508971	2	13.5	2	100	0	54	48	0	0	51	1.00
1509088--1509113	12	2.2	12	100	0	52	57	0	0	42	0.98
1509180--1509289	16	6.9	16	68	19	61	61	0	0	38	0.96
1509166--1509295	44	3.0	44	75	14	117	61	0	0	38	0.96
1509171--1509298	61	2.0	65	83	8	167	60	0	0	39	0.97
1509181--1509307	24	5.0	25	73	14	109	60	0	0	39	0.97
1509169--1509318	16	9.9	14	68	22	56	60	0	0	39	1.02
1509427--1509460	16	2.1	16	89	10	52	32	0	0	67	0.91
1509415--1509485	19	3.5	20	71	22	58	39	0	0	60	0.97
1509415--1509496	42	1.9	43	82	7	105	42	0	0	57	0.98
1509757--1509812	10	5.6	10	79	8	51	35	0	1	62	1.06
1510148--1510221	18	4.3	16	72	20	53	55	1	1	41	1.17
1510153--1510222	32	2.1	34	89	5	108	55	1	1	41	1.17
1510192--1510250	20	2.9	19	73	11	55	50	3	0	45	1.18
1513826--1513850	12	2.1	12	100	0	50	32	16	16	36	1.90
1513806--1513868	31	2.0	31	90	6	101	30	14	15	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1513898--1513951	20	2.7	20	100	0	108	35	20	14	29	1.93
1515936--1515982	23	2.0	24	84	12	62	61	19	4	14	1.49
1516829--1516988	84	1.9	84	82	7	200	25	19	3	51	1.63
1519026--1519077	19	2.7	20	84	6	70	28	11	15	44	1.81
1519106--1519159	20	2.7	20	97	0	99	37	20	12	29	1.90
1520527--1520580	20	2.7	20	88	2	81	38	7	18	35	1.79
1524181--1524303	58	2.1	58	82	4	151	33	13	9	43	1.77
1525393--1525469	37	2.1	37	90	0	118	46	11	11	29	1.76
1525507--1525601	50	1.9	49	81	10	113	47	13	11	27	1.78
1525580--1525697	49	2.4	49	81	2	132	39	13	14	32	1.85
1527128--1527166	20	2.0	20	85	10	53	15	7	7	69	1.35
1527862--1527892	2	15.5	2	100	0	62	51	0	0	48	1.00
1537623--1537713	24	3.2	29	68	25	79	40	3	5	50	1.42
1538391--1538444	23	2.4	22	75	25	58	62	1	0	35	1.06
1538394--1538441	23	2.0	24	84	15	64	66	2	0	31	1.03
1538976--1539012	3	12.3	3	100	0	74	32	0	0	67	0.91
1552967--1553030	25	2.8	22	80	17	76	51	6	9	32	1.59
1552982--1553031	25	2.0	25	100	0	100	52	8	8	32	1.60
1553896--1553956	23	2.6	23	82	15	63	55	8	8	27	1.58
1554625--1554656	16	2.0	16	93	0	55	46	6	15	31	1.71
1556505--1556546	21	2.0	21	90	4	66	50	14	14	21	1.78
1556559--1556589	3	10.3	3	100	0	62	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1563398--1563497	49	2.0	49	98	0	191	44	13	18	25	1.85
1568049--1568073	1	25.0	1	100	0	50	100	0	0	0	0.00
1568641--1568691	26	2.0	26	96	0	93	33	17	13	35	1.89
1569191--1569380	99	1.9	99	84	0	254	33	17	14	34	1.91
1571567--1571605	12	3.3	12	89	7	62	64	0	0	35	0.94
1580136--1580266	11	10.7	12	66	25	53	3	24	1	70	1.09
1580140--1580266	36	3.4	36	87	7	159	3	24	1	70	1.10
1580405--1580437	10	3.3	10	84	16	50	18	18	9	54	1.69
1581193--1581275	28	3.0	28	76	16	91	26	16	22	33	1.96
1581139--1581434	56	5.3	56	70	8	174	27	17	22	32	1.96
1581490--1581637	28	5.5	28	74	15	116	23	20	23	32	1.98
1581498--1581544	24	2.0	24	86	0	67	23	25	19	31	1.98
1581422--1581627	106	1.9	106	82	0	250	23	19	24	32	1.98
1581562--1581669	28	3.9	28	77	0	90	30	20	20	28	1.97
1581536--1581676	56	2.6	56	80	2	142	26	20	23	29	1.99
1582351--1582405	20	2.8	20	80	0	65	36	10	10	41	1.75
1582323--1582455	71	1.9	71	90	0	212	30	15	10	43	1.81
1590861--1590888	13	2.2	13	100	0	56	39	17	14	28	1.89
1591842--1592012	53	3.2	52	75	9	159	33	16	25	23	1.96
1592016--1592230	66	3.2	66	95	2	376	36	11	26	25	1.90
1592185--1592331	55	2.8	52	78	4	143	32	17	27	23	1.96
1592058--1592665	293	2.1	274	82	7	718	34	16	26	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1592625--1593810	92	12.9	89	84	9	1335	29	18	25	26	1.98
1592525--1593820	184	7.0	180	92	3	1648	29	18	25	26	1.98
1593058--1593169	22	5.2	21	63	26	56	29	18	25	25	1.98
1593808--1593879	30	2.5	29	84	15	96	18	15	36	30	1.91
1593808--1593879	28	2.5	30	86	13	98	18	15	36	30	1.91
1593848--1594153	35	8.8	34	82	7	339	33	11	33	20	1.89
1593848--1594153	69	4.4	69	84	4	368	33	11	33	20	1.89
1594142--1594270	30	4.3	30	85	5	129	26	17	29	27	1.97
1594167--1594270	30	3.5	30	89	1	138	25	17	28	27	1.97
1598705--1598757	19	2.6	21	88	8	83	45	15	11	28	1.80
1602804--1602835	15	2.1	15	94	0	55	46	15	21	15	1.83
1604917--1604954	13	2.9	13	96	0	67	34	18	15	31	1.92
1607366--1607406	20	2.2	19	86	8	57	43	19	12	24	1.85
1607373--1607428	20	2.8	19	89	5	76	37	16	17	28	1.91
1607479--1607531	19	2.6	21	88	8	83	45	15	11	28	1.80
1611078--1611203	52	2.4	52	94	0	216	26	16	19	37	1.93
1611078--1611223	52	2.8	52	89	2	186	28	15	18	36	1.92
1611277--1611343	19	3.8	19	77	22	92	35	17	11	34	1.87
1611299--1611323	13	1.9	13	100	0	50	32	16	16	36	1.90
1611280--1611342	32	2.0	32	100	0	126	34	19	12	33	1.89
1624765--1624854	7	12.7	7	74	12	51	81	10	8	0	0.89
1624780--1624879	21	4.8	20	89	9	146	80	14	6	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1624780--1624882	17	6.4	16	76	11	86	79	13	6	0	0.92
1624776--1624881	25	4.5	23	78	15	101	80	13	6	0	0.90
1624780--1624879	42	2.4	42	93	3	166	80	14	6	0	0.90
1626313--1626451	28	4.9	28	79	8	145	31	30	17	19	1.95
1626316--1626429	29	3.9	30	84	6	146	29	32	18	19	1.96
1626317--1626429	59	1.9	58	89	1	172	29	32	18	19	1.96
1626315--1626458	58	2.5	58	81	4	157	30	30	17	21	1.96
1626438--1626526	34	2.6	34	87	0	124	17	30	12	39	1.87
1626494--1626565	27	2.6	27	82	4	81	23	34	15	26	1.94
1626504--1626596	27	3.3	29	82	7	95	29	31	17	22	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16