genome.fa.s33.2.7.7.80.10.50.1000.9.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: Scaffold33
Parameters: 2 7 7 80 10 50 1000
Length:  2032796

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

This is table  9  of  13  ( 1521 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)
1282024--1282050	13	2.1	13	100	0	54	40	14	14	29	1.86
1288937--1288989	21	2.6	21	88	5	74	35	16	11	35	1.85
1296755--1296795	17	2.4	18	84	11	52	21	7	4	65	1.37
1298122--1298161	9	4.4	9	81	12	55	7	5	0	87	0.66
1298277--1298306	15	1.9	16	93	6	53	10	13	0	76	1.01
1298648--1299150	155	3.3	152	78	9	496	53	9	6	31	1.59
1300467--1300492	13	2.0	13	100	0	52	30	15	15	38	1.88
1300553--1300625	20	3.6	20	81	3	101	31	19	13	35	1.91
1300531--1300625	41	2.3	42	96	1	174	29	17	12	40	1.87
1301250--1301321	36	2.0	36	97	0	135	40	23	2	33	1.69
1303104--1303142	13	3.0	13	96	0	69	35	15	17	30	1.91
1305230--1305260	15	2.1	15	93	0	53	12	22	16	48	1.80
1309321--1309346	13	2.0	13	100	0	52	30	15	15	38	1.88
1309407--1309479	20	3.6	20	81	3	101	31	19	13	35	1.91
1309385--1309479	41	2.3	42	96	1	174	29	17	12	40	1.87
1310219--1310273	27	2.0	27	96	0	101	34	23	3	38	1.73
1312031--1312066	5	7.4	5	87	6	56	0	19	0	80	0.71
1312030--1312059	14	2.2	13	94	5	51	0	23	0	76	0.78
1312031--1312093	24	2.6	24	85	7	74	3	15	3	77	1.02
1312031--1312068	19	2.1	19	95	5	69	0	18	0	81	0.69
1313051--1313091	22	1.9	21	85	14	57	53	4	0	41	1.22
1323282--1323330	21	2.3	22	89	3	73	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1323404--1323469	33	2.0	33	93	0	114	28	1	4	65	1.21
1323762--1323828	16	4.2	15	77	19	64	46	0	0	53	1.00
1323798--1323852	22	2.4	24	77	20	64	49	0	0	50	1.00
1323803--1323852	24	2.1	23	92	3	82	48	0	0	52	1.00
1328691--1328720	2	15.0	2	100	0	60	50	0	0	50	1.00
1333568--1333603	1	36.0	1	88	0	54	0	5	0	94	0.31
1335150--1335192	16	2.5	17	82	17	54	34	0	2	62	1.08
1335158--1335217	16	3.8	16	80	8	61	31	1	5	61	1.27
1335199--1335235	18	2.0	19	89	5	58	29	0	2	67	1.04
1335298--1335377	13	6.0	14	72	18	64	51	8	1	38	1.41
1335426--1335484	16	3.7	16	81	4	66	44	5	3	47	1.42
1335474--1335598	5	23.8	5	66	19	51	51	2	0	46	1.14
1335881--1335910	12	2.4	13	94	5	53	43	0	0	56	0.99
1351079--1351126	2	24.0	2	100	0	96	50	0	0	50	1.00
1351236--1351271	18	1.9	18	94	5	63	83	0	11	5	0.80
1364057--1364174	51	2.3	50	87	7	159	42	11	15	30	1.83
1364892--1365157	98	2.7	97	76	9	281	42	9	18	30	1.82
1364892--1365187	97	3.1	94	77	10	303	41	9	18	30	1.82
1366148--1366245	20	4.9	20	86	5	144	32	16	11	39	1.84
1373213--1373266	16	3.2	17	80	17	60	72	9	12	5	1.27
1373203--1373282	38	2.1	38	81	9	92	71	10	13	5	1.29
1374609--1375456	28	29.4	28	84	5	411	29	30	17	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374605--1374782	54	3.3	55	79	8	220	25	32	13	28	1.94
1374605--1374770	55	3.1	54	84	4	210	24	31	13	30	1.94
1374733--1375475	28	25.4	28	84	4	605	29	29	18	22	1.98
1374825--1375260	32	14.4	32	85	5	411	30	30	18	20	1.96
1376034--1376111	20	3.9	20	83	6	113	33	16	12	37	1.87
1378842--1378908	33	2.0	33	88	0	98	34	11	13	40	1.81
1378862--1378886	13	1.9	13	100	0	50	36	16	16	32	1.90
1378953--1378977	13	1.9	13	100	0	50	32	16	16	36	1.90
1378986--1379106	52	2.3	52	97	0	224	34	18	18	28	1.94
1384317--1384370	19	2.8	19	88	0	72	55	12	9	22	1.65
1384412--1384462	20	2.5	21	87	3	68	33	17	7	41	1.79
1384421--1384462	21	2.0	20	90	4	66	30	19	9	40	1.83
1386749--1386801	21	2.6	21	79	8	56	52	0	0	47	1.00
1388726--1388797	32	2.2	33	85	7	94	52	2	1	43	1.24
1390018--1390062	18	2.5	17	79	10	54	51	0	0	48	1.00
1390587--1390654	36	1.9	35	81	3	82	45	4	2	47	1.38
1390707--1390762	24	2.3	24	80	14	62	21	3	10	64	1.40
1390695--1390762	25	2.8	24	78	10	75	20	2	8	67	1.31
1392405--1392439	2	17.5	2	100	0	70	48	0	0	51	1.00
1392661--1392723	22	3.1	19	77	20	56	38	1	0	60	1.07
1396702--1396764	21	3.0	20	74	14	65	46	1	4	47	1.33
1397651--1397682	3	10.7	3	100	0	64	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1402361--1402391	2	15.5	2	93	0	53	51	3	0	45	1.17
1405911--1405956	24	1.9	24	91	8	76	71	0	0	28	0.86
1405922--1405961	8	5.0	8	82	11	55	67	0	0	32	0.91
1408667--1408700	2	17.0	2	93	0	59	47	0	0	52	1.00
1408911--1408944	9	3.8	9	84	0	50	32	8	2	55	1.45
1408984--1409042	13	4.5	13	75	14	50	38	1	3	55	1.26
1410697--1411020	14	23.3	14	66	8	106	28	20	22	29	1.98
1410923--1411020	27	3.5	27	78	12	90	27	20	24	27	1.99
1411276--1411331	28	2.0	28	92	0	94	35	17	21	25	1.95
1411583--1411778	64	3.0	63	77	11	157	33	14	23	28	1.94
1411664--1411791	68	1.9	67	83	1	166	34	14	22	28	1.93
1411754--1412105	67	5.3	66	72	9	230	31	15	27	24	1.96
1414743--1414792	15	3.5	15	73	15	52	36	26	16	22	1.94
1414789--1414841	27	2.0	27	84	0	70	24	16	26	32	1.97
1414805--1414928	56	2.3	54	80	4	140	25	19	23	31	1.98
1414925--1414988	14	4.5	15	79	16	75	42	17	10	29	1.83
1414931--1414984	27	2.0	27	89	7	83	38	18	11	31	1.86
1414908--1414994	41	2.1	43	89	4	133	36	18	13	31	1.90
1419161--1419190	15	2.0	15	93	0	51	50	0	0	50	1.00
1420454--1420501	23	2.2	24	79	20	61	43	0	0	56	0.99
1420418--1420497	25	3.5	23	73	11	74	46	2	0	51	1.14
1420623--1420667	16	2.8	16	96	0	81	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1420644--1420696	25	2.2	23	83	6	61	45	0	0	54	0.99
1422223--1422297	22	3.5	22	73	10	84	65	2	1	30	1.15
1422602--1422661	25	2.4	25	86	13	79	43	0	1	55	1.10
1424885--1424934	4	12.5	4	95	0	64	42	8	0	50	1.32
1427742--1427771	2	15.0	2	100	0	60	50	0	0	50	1.00
1428873--1428909	15	2.4	16	91	8	60	59	0	0	40	0.97
1429891--1429933	14	3.0	14	82	3	50	72	4	0	23	1.04
1431364--1431408	23	2.0	23	82	8	56	51	8	2	37	1.46
1433527--1433585	28	2.1	27	84	12	82	33	1	0	64	1.04
1433547--1433608	22	2.9	21	78	17	74	30	0	1	67	1.00
1433538--1433617	24	3.3	23	73	18	65	32	0	1	66	1.00
1433697--1433830	72	1.9	67	82	10	162	54	1	0	43	1.14
1433708--1434056	128	2.9	115	79	14	377	53	1	2	42	1.22
1433845--1434089	128	1.9	130	89	4	390	53	1	2	43	1.22
1436236--1436339	19	5.7	19	78	15	112	36	12	17	33	1.87
1436260--1436320	32	1.9	32	96	0	113	36	13	18	32	1.89
1436369--1436423	20	2.8	20	88	5	76	32	16	12	38	1.86
1442022--1442072	25	2.0	25	92	7	86	41	3	0	54	1.19
1442439--1442471	15	2.3	15	89	5	50	39	3	3	54	1.31
1451190--1451222	15	2.1	16	88	5	50	69	3	0	27	1.03
1451569--1451600	15	2.1	16	94	5	57	65	0	15	18	1.27
1451917--1451985	23	3.0	22	77	12	59	72	4	1	21	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452618--1452692	35	2.1	35	95	0	132	25	38	18	17	1.92
1457814--1457862	19	2.4	19	80	13	53	30	20	4	44	1.70
1458063--1458089	9	3.0	9	100	0	54	55	22	11	11	1.66
1466089--1469975	42	92.5	42	85	3	4492	12	33	19	34	1.89
1467737--1467795	30	2.0	30	86	0	82	15	27	28	28	1.96
1470476--1470527	3	16.7	3	82	4	59	69	1	1	26	1.10
1472009--1472055	19	2.5	19	76	10	53	74	2	4	19	1.09
1474871--1474931	30	2.1	29	82	14	72	36	3	6	54	1.43
1478351--1478397	23	2.0	23	100	0	94	31	12	17	38	1.87
1481464--1481519	26	2.2	27	84	9	73	51	0	0	48	1.00

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