genome.fa.s293.2.7.7.80.10.50.1000.9.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: Scaffold293
Parameters: 2 7 7 80 10 50 1000
Length:  1704560

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

This is table  9  of  12  ( 1341 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)
1239188--1239219	2	16.0	2	93	0	55	50	3	0	46	1.17
1239591--1239622	16	2.1	16	88	11	50	56	0	3	40	1.15
1244637--1244687	22	2.4	21	83	6	68	54	7	0	37	1.29
1244741--1244781	3	13.7	3	100	0	82	34	0	0	65	0.93
1246181--1246222	2	21.0	2	95	0	75	47	0	2	50	1.14
1246806--1246853	2	24.0	2	100	0	96	0	50	0	50	1.00
1249589--1249659	18	3.8	19	70	9	58	46	0	0	53	1.00
1250100--1250125	3	8.7	3	100	0	52	65	0	0	34	0.93
1250137--1250175	2	19.0	2	85	15	53	48	2	2	46	1.29
1251741--1251820	8	9.9	8	70	24	53	47	1	2	48	1.23
1251742--1251820	15	4.9	15	74	21	54	48	1	2	48	1.23
1252256--1252282	12	2.2	12	100	0	54	77	0	22	0	0.76
1255963--1255992	2	15.0	2	92	0	51	50	3	0	46	1.18
1257670--1257723	5	10.8	5	77	15	58	66	0	0	33	0.92
1257678--1257725	9	4.9	10	82	14	64	68	0	0	31	0.90
1257670--1257725	20	2.5	21	83	16	69	67	0	0	32	0.91
1257670--1257725	11	5.0	11	78	20	62	67	0	0	32	0.91
1258241--1258265	2	12.5	2	100	0	50	52	0	0	48	1.00
1259307--1259337	2	15.5	2	100	0	62	51	0	0	48	1.00
1265083--1265144	27	2.4	24	75	17	61	56	0	0	43	0.99
1266021--1266064	5	8.8	5	89	0	70	22	0	0	77	0.77
1266124--1266161	14	2.5	15	87	8	51	21	0	7	71	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266530--1266604	38	2.0	36	85	10	98	48	0	0	52	1.00
1266588--1266621	15	2.2	16	89	5	52	55	0	0	44	0.99
1273560--1273630	35	2.0	35	86	0	97	32	11	18	38	1.86
1277312--1277337	3	8.7	3	100	0	52	0	30	0	69	0.89
1278560--1278602	16	2.7	16	77	0	50	16	13	2	67	1.33
1278550--1278616	32	2.0	33	91	5	109	17	11	2	67	1.35
1285080--1285130	26	2.0	26	84	7	68	60	0	0	39	0.97
1285132--1285196	6	11.0	6	73	15	55	35	3	0	61	1.12
1285305--1285429	43	3.1	41	70	22	104	52	0	0	47	1.06
1285383--1285440	20	3.0	20	73	12	57	56	0	0	43	0.99
1285765--1285818	2	27.0	2	85	14	76	46	1	1	50	1.23
1285995--1286042	12	3.4	14	78	16	55	66	0	0	33	0.92
1286003--1286043	3	13.3	3	85	14	57	65	0	0	34	0.93
1286178--1286236	32	1.9	29	86	10	82	38	1	0	59	1.08
1286575--1287122	270	2.0	267	90	5	863	39	8	9	42	1.66
1287203--1287230	14	2.0	14	100	0	56	0	21	0	78	0.75
1287631--1287661	4	7.8	4	100	0	62	77	0	0	22	0.77
1287746--1287964	34	6.5	33	85	4	276	25	7	26	40	1.82
1287746--1287962	102	2.1	101	89	1	335	25	7	26	40	1.82
1292374--1292594	34	6.5	33	85	4	280	25	7	26	40	1.82
1292374--1292592	102	2.2	101	89	1	339	25	7	26	40	1.82
1293262--1293333	29	2.5	28	78	10	74	44	2	1	51	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1293744--1293785	12	3.2	12	81	18	57	33	0	0	66	0.92
1293744--1293786	13	3.2	13	75	18	52	32	0	0	67	0.91
1293744--1293788	14	3.3	14	75	6	56	33	0	0	66	0.92
1296794--1296823	2	15.0	2	100	0	60	50	0	0	50	1.00
1298628--1298670	21	2.1	20	82	4	50	32	4	25	37	1.77
1302976--1303050	20	3.8	20	92	3	116	28	14	13	44	1.83
1305339--1305707	79	4.7	79	78	4	350	27	23	14	34	1.93
1305339--1305707	157	2.3	156	77	5	393	27	23	14	34	1.93
1307542--1307597	18	3.1	18	82	5	60	78	1	16	3	0.97
1308237--1308274	16	2.4	16	100	0	76	21	13	5	60	1.52
1309166--1309222	17	3.0	19	85	10	64	57	0	0	42	0.98
1309642--1309674	17	1.9	18	88	11	52	57	6	0	36	1.23
1309910--1309957	26	1.9	24	87	8	69	60	0	0	39	0.97
1310796--1310839	3	14.3	3	80	4	52	31	0	4	63	1.14
1311618--1311647	2	15.5	2	93	6	53	0	50	0	50	1.00
1311647--1311675	2	14.5	2	100	0	58	48	0	0	51	1.00
1317419--1317449	3	10.3	3	100	0	62	35	0	0	64	0.94
1318297--1318400	18	5.6	18	66	20	61	38	0	0	61	0.96
1318326--1318370	24	1.9	24	86	4	65	42	0	0	57	0.98
1318326--1318371	23	2.0	23	83	8	58	43	0	0	56	0.99
1319062--1319112	20	2.5	22	75	21	56	54	0	0	45	0.99
1319098--1319148	12	4.4	13	75	25	60	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1319069--1319148	34	2.4	34	83	6	92	43	0	0	56	0.99
1319106--1319150	21	2.1	22	88	12	67	40	0	0	60	0.97
1319255--1319307	14	3.6	14	80	14	54	62	0	0	37	0.96
1319267--1319312	21	2.0	21	84	12	56	56	0	0	43	0.99
1319314--1319361	18	2.6	19	75	21	57	37	2	2	58	1.22
1319714--1319743	7	4.3	7	95	0	51	3	0	50	46	1.18
1319889--1319937	25	1.9	25	84	12	64	57	0	0	42	0.99
1319886--1319943	30	2.0	29	86	10	82	53	0	0	46	1.00
1320382--1320419	18	2.1	19	85	14	53	68	0	0	31	0.90
1320596--1320636	21	2.0	20	85	4	55	43	2	0	53	1.13
1320815--1320852	2	19.0	2	100	0	76	50	0	0	50	1.00
1321343--1321413	19	3.8	19	75	7	65	43	1	1	53	1.18
1321780--1321822	15	2.8	15	85	3	59	51	0	0	48	1.00
1326285--1326326	2	21.5	2	95	4	77	52	0	0	47	1.00
1328952--1328979	2	14.0	2	100	0	56	50	0	0	50	1.00
1333484--1333542	28	2.1	28	84	6	75	49	0	0	50	1.00
1335751--1335791	12	3.2	12	89	6	55	68	2	0	29	1.03
1335759--1335803	15	3.2	15	85	14	53	66	0	0	33	0.92
1336638--1336690	16	3.4	16	72	17	58	47	9	0	43	1.36
1337589--1337618	4	7.2	4	96	3	51	26	0	0	73	0.84
1340084--1340121	19	2.0	19	100	0	76	42	0	15	42	1.47
1341361--1341413	24	2.3	22	81	12	61	39	5	0	54	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1349422--1349467	18	2.4	20	82	10	60	30	2	2	65	1.16
1351377--1351437	32	1.9	32	86	6	88	45	0	1	52	1.10
1351393--1351442	23	2.1	23	88	3	73	44	0	0	56	0.99
1351377--1351443	15	4.2	16	72	16	50	43	0	1	55	1.09
1351420--1351460	15	2.8	16	82	10	52	36	0	0	63	0.95
1351425--1351471	17	2.7	19	78	21	59	34	0	0	65	0.93
1351728--1351866	8	16.1	9	69	18	57	40	0	1	58	1.07
1351732--1351845	17	6.8	17	70	13	65	40	0	1	57	1.09
1351745--1351807	27	2.4	25	77	12	65	36	0	3	60	1.13
1351775--1351836	32	1.9	33	86	3	90	45	0	1	53	1.10
1351782--1351851	32	2.2	32	80	12	83	45	0	1	52	1.09
1351801--1351856	17	3.6	16	79	15	55	46	0	0	53	1.00
1351815--1351881	34	2.0	34	82	5	82	43	0	0	56	0.99
1355011--1355054	2	22.0	2	100	0	88	50	0	0	50	1.00
1361770--1361797	2	14.0	2	100	0	56	50	0	0	50	1.00
1363523--1363589	32	2.1	32	91	0	107	34	4	1	59	1.26
1364151--1364198	21	2.2	21	92	3	78	60	2	0	37	1.09
1364668--1364727	28	2.1	29	84	9	79	40	0	0	60	0.97
1366887--1366923	16	2.2	16	90	4	56	43	0	0	56	0.99
1366877--1366926	17	2.8	18	79	11	59	46	0	0	54	1.00
1366869--1366940	13	4.9	15	71	17	53	43	0	0	56	0.99
1367064--1367107	21	2.1	21	87	8	63	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1367070--1367124	24	2.4	24	85	11	71	47	0	0	52	1.00
1367660--1367698	10	4.1	10	87	9	55	43	0	0	56	0.99
1367664--1367702	2	20.0	2	89	5	62	46	0	0	53	1.00
1367722--1367767	23	2.0	24	83	12	60	50	2	0	47	1.13
1374123--1374307	93	2.0	93	94	0	325	32	25	17	23	1.97
1379349--1379385	17	2.2	17	90	0	56	45	0	0	54	1.00
1381505--1381548	9	4.8	9	81	13	54	34	0	0	65	0.93
1382960--1382991	5	6.4	5	96	0	55	65	0	0	34	0.93
1382960--1383004	15	3.0	15	87	6	56	68	0	0	31	0.89
1382998--1383055	26	2.2	26	81	9	64	50	0	5	44	1.24

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