genome.fa.s126.2.7.7.80.10.50.1000.9.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: Scaffold126
Parameters: 2 7 7 80 10 50 1000
Length:  2080828

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

This is table  9  of  13  ( 1448 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)
1430825--1430907	28	2.9	28	74	15	80	57	15	4	21	1.56
1445482--1445828	52	6.8	51	82	4	418	34	16	24	24	1.95
1445482--1445834	101	3.5	99	77	9	381	34	16	25	24	1.95
1445484--1445836	153	2.3	151	90	2	557	34	16	25	24	1.95
1445845--1446246	28	14.4	28	84	5	465	18	18	30	32	1.95
1445845--1446255	84	4.9	83	88	4	535	18	18	30	32	1.95
1445845--1446252	111	3.6	111	89	4	565	18	18	30	32	1.95
1447627--1447696	4	18.8	4	78	19	55	0	0	17	82	0.66
1447642--1447730	1	89.0	1	70	0	61	0	2	12	85	0.69
1447625--1447730	20	5.3	19	78	13	97	0	1	14	83	0.72
1447634--1447730	25	3.7	27	83	10	107	0	2	13	84	0.71
1447627--1447730	52	2.0	54	87	11	153	0	1	14	83	0.73
1447625--1447730	41	2.7	39	80	13	119	0	1	14	83	0.72
1447644--1447730	36	2.4	34	83	14	113	0	2	12	85	0.70
1457603--1457739	52	2.6	51	87	4	202	32	16	18	32	1.93
1457728--1457752	13	1.9	13	100	0	50	36	16	16	32	1.90
1457793--1457859	33	2.0	33	88	0	98	38	14	11	34	1.84
1457815--1457839	13	1.9	13	100	0	50	32	16	16	36	1.90
1465800--1465829	15	2.0	15	100	0	60	33	26	0	40	1.57
1468278--1468336	25	2.4	25	83	8	68	37	1	5	55	1.32
1473677--1473837	12	13.2	12	67	20	50	43	0	0	55	1.04
1472313--1473707	709	2.0	694	91	3	2266	31	18	18	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1473719--1473833	18	6.3	19	68	21	59	43	0	0	55	1.05
1473684--1473847	45	3.8	44	72	14	126	43	1	0	55	1.07
1473737--1473805	27	2.5	28	81	11	88	43	1	0	55	1.08
1473751--1473824	17	4.4	17	75	21	59	44	0	0	55	0.99
1473760--1473850	17	5.8	16	69	23	59	42	1	0	56	1.06
1474248--1474307	31	1.9	31	86	10	86	30	1	3	65	1.19
1476209--1476250	12	3.6	12	80	6	50	35	2	0	61	1.09
1476395--1476428	16	2.1	17	88	5	52	29	20	17	32	1.96
1476759--1476795	17	2.2	16	90	4	56	13	0	16	70	1.17
1476791--1476816	7	3.7	7	100	0	52	0	0	11	88	0.52
1476827--1476900	38	2.0	37	86	2	103	39	2	8	50	1.46
1480195--1480234	15	2.7	15	92	0	62	30	10	5	55	1.54
1482220--1482276	20	2.8	20	83	0	78	33	12	12	42	1.80
1482170--1482324	71	2.2	71	90	1	249	29	16	11	42	1.84
1483181--1483220	21	1.9	22	85	10	57	22	15	10	52	1.71
1486068--1486092	10	2.5	10	100	0	50	64	0	16	20	1.30
1485953--1486239	154	1.9	153	83	6	375	52	7	13	26	1.68
1488313--1488350	20	1.9	20	100	0	76	31	18	10	39	1.85
1491795--1492057	89	3.0	89	85	2	332	38	13	17	30	1.88
1493275--1493339	28	2.3	28	91	0	103	29	20	23	27	1.98
1493299--1493850	79	6.8	79	78	5	534	34	12	24	28	1.92
1494256--1494410	51	3.0	53	89	5	219	40	14	18	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494994--1495678	66	10.6	65	73	12	506	35	16	23	25	1.95
1499369--1499436	23	2.8	24	82	6	93	33	11	4	50	1.59
1499556--1499584	10	3.0	10	95	5	51	0	27	0	72	0.85
1499938--1499991	23	2.2	24	90	9	83	24	18	20	37	1.94
1500037--1500103	30	2.2	30	91	0	107	16	17	13	52	1.75
1500175--1500216	12	3.3	12	81	12	57	9	21	14	54	1.68
1500870--1501043	42	4.2	42	78	4	165	33	18	32	15	1.92
1501295--1501535	134	1.8	131	82	5	313	41	13	21	23	1.88
1501296--1501534	44	5.4	44	74	6	191	42	13	20	23	1.88
1502311--1502543	88	2.7	88	76	4	238	45	13	17	23	1.83
1508476--1508560	23	3.7	23	95	0	134	8	7	21	63	1.46
1508498--1508574	23	3.4	23	89	1	66	10	11	19	58	1.61
1508568--1508618	7	7.7	7	79	16	56	1	15	27	54	1.52
1509250--1509301	23	2.3	23	89	0	77	25	21	17	36	1.94
1509674--1509700	14	1.9	14	100	0	54	44	7	22	25	1.79
1509874--1509911	20	1.9	20	88	0	58	23	2	0	73	0.95
1509893--1509922	16	1.9	16	93	6	53	20	0	0	80	0.72
1511474--1511525	20	2.5	20	81	3	68	32	17	11	38	1.85
1512223--1512325	31	3.3	31	73	2	100	15	27	30	27	1.96
1512014--1512411	180	2.2	180	85	0	526	21	23	24	30	1.99
1512633--1512884	37	6.8	36	73	13	136	38	13	24	23	1.91
1512683--1512927	116	2.1	113	81	3	285	39	12	26	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1515274--1515518	122	2.0	121	95	0	445	18	23	19	39	1.93
1518523--1518586	19	3.7	18	75	25	75	31	12	17	39	1.87
1518525--1518591	32	2.1	33	94	2	118	32	11	17	37	1.87
1518544--1518568	13	1.9	13	100	0	50	36	16	16	32	1.90
1518634--1518658	13	1.9	13	100	0	50	32	16	16	36	1.90
1532355--1532408	20	2.6	21	91	5	92	31	18	11	38	1.86
1532718--1532953	61	3.8	60	77	7	242	35	19	19	26	1.95
1532718--1532950	124	1.9	123	87	8	348	34	19	19	26	1.95
1532956--1533024	31	2.2	31	84	0	84	37	13	26	23	1.91
1535286--1535370	23	3.7	23	95	0	134	8	7	21	63	1.46
1535308--1535384	23	3.4	23	89	1	66	10	11	19	58	1.61
1535378--1535428	7	7.7	7	79	16	56	1	15	27	54	1.52
1536051--1536102	23	2.3	23	89	0	77	25	21	17	36	1.94
1536475--1536501	14	1.9	14	100	0	54	44	7	22	25	1.79
1536675--1536712	20	1.9	20	88	0	58	23	2	0	73	0.95
1536694--1536723	16	1.9	16	93	6	53	20	0	0	80	0.72
1538273--1538324	21	2.5	21	83	0	77	30	17	11	40	1.85
1539022--1539123	31	3.3	31	71	5	91	15	26	30	27	1.96
1538814--1539210	180	2.2	180	84	3	505	21	23	24	30	1.99
1539447--1539684	37	6.4	37	73	13	139	39	13	25	22	1.90
1539468--1539563	33	2.8	34	75	12	97	35	13	22	28	1.92
1539481--1539727	116	2.2	112	80	4	280	38	12	26	21	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1540479--1540512	17	2.0	17	88	0	50	32	14	0	52	1.42
1545318--1545381	19	3.7	18	75	25	75	31	12	17	39	1.87
1545320--1545386	32	2.1	33	94	2	118	32	11	17	37	1.87
1545339--1545363	13	1.9	13	100	0	50	36	16	16	32	1.90
1545429--1545453	13	1.9	13	100	0	50	32	16	16	36	1.90
1559149--1559202	20	2.6	21	91	5	92	31	18	11	38	1.86
1559515--1559756	127	1.9	126	88	7	366	36	18	19	25	1.94
1559516--1559751	62	3.8	62	77	6	269	35	19	19	26	1.95
1559757--1559825	31	2.2	31	86	0	93	37	13	27	21	1.90
1565698--1565746	23	2.2	22	81	3	53	65	16	4	14	1.42
1566052--1566344	79	3.7	80	82	4	317	34	10	25	29	1.90
1566052--1566359	158	1.9	160	80	3	363	33	11	25	29	1.90
1567960--1568125	51	3.3	51	80	7	151	30	12	26	30	1.93
1568110--1568186	28	2.8	28	82	11	79	28	20	29	20	1.98
1568252--1568367	51	2.3	51	80	8	130	32	13	25	28	1.94
1570754--1570823	20	3.5	20	84	7	97	41	11	15	31	1.83
1570839--1570868	13	2.3	13	94	0	51	40	10	16	33	1.82
1570850--1570906	20	2.8	20	78	0	69	45	14	14	26	1.82
1572797--1572926	51	2.5	51	84	0	170	40	11	16	30	1.84
1572965--1573017	20	2.6	21	81	6	63	32	18	7	41	1.79
1576596--1576639	19	2.3	19	88	0	61	75	9	4	11	1.19
1576676--1576720	24	1.9	24	86	4	65	68	4	0	26	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1576748--1576850	18	5.6	17	72	18	50	72	3	2	20	1.13
1576814--1576846	9	3.7	9	95	0	57	72	0	6	21	1.05
1577789--1577991	41	4.9	40	76	14	169	52	5	6	35	1.51
1577839--1577998	86	1.9	85	81	7	198	56	4	5	33	1.43
1577976--1578012	15	2.5	15	91	4	58	75	2	0	21	0.92
1578933--1578998	32	2.0	33	97	2	125	31	16	12	39	1.85
1580356--1580438	38	2.2	38	80	10	89	45	8	9	36	1.67
1580368--1580448	39	2.1	39	84	9	103	40	7	9	41	1.66
1581222--1581308	22	3.7	24	79	14	85	55	2	3	39	1.30
1581219--1581288	24	3.0	23	74	17	63	55	1	2	40	1.23

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