genome.fa.s89.2.7.7.80.10.50.1000.10.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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   

This is table  10  of  27  ( 3236 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)
1385357--1385391	2	17.5	2	93	0	61	48	2	0	48	1.16
1388486--1388537	27	2.0	26	85	7	70	23	1	1	73	1.04
1392772--1392800	9	3.0	10	90	10	51	41	0	0	58	0.98
1392804--1392853	21	2.5	20	74	6	55	28	0	4	68	1.08
1392953--1392981	15	1.9	15	100	0	58	37	0	0	62	0.96
1392989--1393035	24	2.0	24	86	0	67	46	0	0	53	1.00
1395625--1395682	11	4.9	12	73	14	50	63	1	0	34	1.04
1396839--1396903	11	6.5	11	71	20	61	66	0	1	32	1.01
1396831--1396931	25	4.0	25	76	11	89	61	0	0	37	1.03
1396855--1396903	19	2.6	19	84	15	66	69	0	0	30	0.89
1396861--1396953	16	5.8	16	69	17	50	62	0	0	37	0.96
1396920--1396985	18	3.6	18	76	13	64	62	0	1	36	1.05
1397528--1397560	15	2.2	15	94	0	57	27	12	3	57	1.49
1398364--1398428	30	2.2	30	94	0	112	23	3	15	58	1.51
1401799--1401825	2	13.5	2	100	0	54	48	51	0	0	1.00
1405770--1405845	23	3.3	23	71	21	59	44	0	2	52	1.14
1405986--1406026	22	1.9	22	85	14	59	51	0	2	46	1.14
1406843--1406872	5	6.0	5	92	0	51	63	0	0	36	0.95
1407104--1407161	29	2.0	30	89	3	91	43	6	1	48	1.40
1407183--1407225	15	2.8	16	77	22	56	69	0	0	30	0.88
1407148--1407225	30	2.6	31	80	9	90	62	0	0	37	0.95
1418070--1418100	14	2.2	14	100	0	62	19	0	6	74	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1418874--1418915	18	2.3	18	84	8	50	33	2	0	64	1.07
1419023--1419068	5	9.2	5	86	11	51	34	0	0	65	0.93
1419062--1419129	16	4.2	17	73	14	63	45	0	0	54	0.99
1419033--1419159	45	2.8	45	76	15	127	41	0	0	57	1.04
1419073--1419135	17	3.7	18	73	26	66	46	0	0	53	1.00
1419085--1419136	14	3.4	14	76	19	59	48	0	0	51	1.00
1419662--1419731	29	2.3	32	85	11	103	35	4	0	60	1.17
1422069--1422111	18	2.4	18	96	0	77	39	6	0	53	1.28
1430787--1430826	2	20.0	2	100	0	80	50	0	0	50	1.00
1432413--1432458	20	2.2	20	85	11	58	34	2	2	60	1.21
1436427--1436489	20	3.5	20	68	31	70	39	0	3	57	1.15
1436431--1436480	16	3.1	16	73	21	59	38	0	4	58	1.17
1438247--1438351	50	2.1	48	81	13	124	49	0	0	49	1.07
1438330--1438372	21	2.0	22	86	4	61	51	0	0	48	1.00
1445707--1445752	24	1.9	24	95	0	83	13	10	10	65	1.48
1449263--1449297	2	18.0	2	88	5	54	45	0	2	51	1.16
1453704--1453746	23	1.9	23	85	4	61	32	2	20	44	1.65
1453916--1453941	9	2.9	9	100	0	52	11	0	0	88	0.52
1454023--1454058	2	18.0	2	100	0	72	50	0	0	50	1.00
1455501--1455534	2	17.0	2	93	0	59	47	0	2	50	1.16
1462020--1462051	16	1.9	17	93	6	57	28	0	0	71	0.86
1462016--1462052	16	2.2	16	85	4	56	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1462200--1462253	26	2.1	26	100	0	108	33	18	18	29	1.95
1462408--1462538	42	3.0	42	70	19	99	41	0	0	58	0.98
1462446--1462524	27	2.7	27	70	22	70	44	0	0	55	0.99
1462471--1462529	13	4.4	14	73	23	56	44	0	0	55	0.99
1462435--1462528	16	5.7	16	72	20	68	44	0	0	55	0.99
1462478--1462537	27	2.3	26	80	5	68	43	0	0	56	0.99
1467148--1467175	2	14.0	2	100	0	56	50	0	0	50	1.00
1467867--1467900	2	17.5	2	93	6	61	50	0	0	50	1.00
1467959--1468003	23	2.0	21	83	8	54	42	0	4	53	1.21
1468144--1468216	38	1.9	38	83	5	94	46	5	1	46	1.34
1468168--1468227	28	2.1	28	90	6	95	45	1	1	51	1.21
1468939--1469015	30	2.6	29	82	10	84	55	2	0	41	1.13
1468961--1469002	22	2.0	21	85	4	57	61	0	0	38	0.96
1469313--1469346	2	17.0	2	93	0	59	47	0	2	50	1.16
1478457--1478492	2	18.0	2	100	0	72	0	50	0	50	1.00
1480220--1480250	2	15.5	2	100	0	62	48	0	0	51	1.00
1485392--1485446	18	2.8	19	83	10	67	52	1	5	40	1.35
1486984--1487022	20	2.0	20	85	5	53	64	2	0	33	1.08
1488479--1488699	34	6.5	33	81	9	257	40	26	7	25	1.82
1488481--1488695	68	3.2	67	86	3	288	40	26	7	25	1.83
1488479--1488699	102	2.2	101	88	1	343	40	26	7	25	1.82
1493107--1493314	34	6.2	33	80	9	240	40	27	8	24	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1493109--1493313	68	3.0	67	85	2	275	40	27	8	24	1.83
1493110--1493309	102	2.0	102	92	0	337	40	26	8	25	1.84
1493956--1494000	21	2.1	21	87	0	63	60	0	2	37	1.09
1494233--1494470	21	11.4	21	66	13	66	50	7	7	34	1.59
1494363--1494471	21	5.3	21	77	7	116	48	6	6	38	1.54
1494372--1494471	41	2.4	41	81	4	121	49	6	7	38	1.55
1494553--1494659	11	10.4	11	66	18	61	58	5	3	31	1.39
1494562--1494660	19	4.9	19	75	16	83	57	6	4	32	1.42
1494562--1494614	22	2.6	20	88	8	72	52	5	5	35	1.49
1494560--1494783	21	10.9	21	70	14	137	54	8	4	33	1.50
1494971--1495064	21	4.6	21	68	22	74	54	5	1	39	1.30
1494945--1495064	42	2.9	42	78	18	135	53	8	0	37	1.37
1494986--1495075	30	3.0	29	78	15	85	53	6	1	38	1.35
1495235--1495286	15	3.4	15	78	2	59	32	0	9	57	1.31
1498192--1498227	2	18.0	2	88	0	54	44	0	0	55	0.99
1498732--1498767	12	2.9	12	95	4	63	38	0	0	61	0.96
1502375--1502447	33	2.4	31	80	15	80	30	4	9	56	1.50
1502784--1502845	21	3.0	21	80	0	70	50	1	0	48	1.10
1502783--1502847	26	2.5	26	71	14	62	49	1	0	49	1.10
1502746--1502837	32	2.9	33	76	9	93	51	2	1	45	1.20
1502841--1502880	17	2.4	17	86	0	53	55	2	2	40	1.27
1502939--1503019	16	6.0	13	74	17	60	51	0	1	46	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1502925--1502989	15	4.4	14	76	18	53	53	3	1	41	1.25
1502925--1502989	30	2.2	30	83	10	80	53	3	1	41	1.25
1502978--1503021	17	2.4	18	85	14	56	47	0	0	52	1.00
1502993--1503041	21	2.5	21	81	15	61	48	0	0	51	1.00
1515679--1515704	2	13.0	2	100	0	52	50	0	0	50	1.00
1515857--1515893	15	2.3	17	86	9	51	62	0	0	37	0.96
1517083--1517131	22	2.2	23	85	10	75	55	0	0	44	0.99
1517083--1517139	22	2.6	22	81	13	73	56	0	0	43	0.99
1518259--1518317	19	3.2	18	77	15	66	30	5	0	64	1.15
1518279--1518315	12	3.3	12	85	14	53	32	0	0	67	0.91
1518848--1518892	23	2.0	23	86	0	63	42	4	4	48	1.43
1519560--1519616	23	2.5	21	83	13	60	52	0	0	47	1.00
1519725--1519754	15	1.9	16	93	6	53	36	0	0	63	0.95
1521690--1521788	38	2.6	35	76	19	92	43	0	1	55	1.06
1522146--1522187	20	2.1	20	90	0	66	42	0	0	57	0.99
1522228--1522299	12	5.7	13	71	17	62	33	0	0	66	0.92
1522228--1522312	17	5.2	16	70	16	52	31	0	0	68	0.90
1522274--1522312	14	2.6	15	92	8	62	25	0	0	74	0.82
1522264--1522317	14	3.5	15	78	16	58	25	0	0	74	0.83
1523039--1523078	21	2.0	21	90	5	64	47	2	0	50	1.14
1524192--1524256	23	2.8	23	71	15	62	53	3	1	41	1.25
1525959--1525992	17	2.0	17	88	11	52	32	0	2	64	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1528449--1528484	2	18.0	2	94	0	63	47	0	0	52	1.00
1528687--1528730	20	2.2	20	84	4	54	59	6	0	34	1.24
1530261--1530287	2	13.5	2	100	0	54	48	0	51	0	1.00
1534546--1534575	5	6.0	5	92	0	51	0	23	0	76	0.78
1534546--1534591	15	3.0	15	84	6	56	0	23	2	73	0.94
1534544--1534608	25	2.6	24	79	11	69	1	21	3	73	1.05
1534546--1534591	16	2.9	16	87	3	58	0	23	2	73	0.94
1534742--1534775	12	2.6	13	90	9	52	41	2	0	55	1.15
1535126--1535159	13	2.4	14	90	9	52	58	0	0	41	0.98
1535136--1535168	13	2.4	14	90	5	50	57	0	0	42	0.98

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