genome.fa.s173.2.7.7.80.10.50.1000.10.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

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

This is table  10  of  16  ( 1814 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)
1242236--1242262	14	1.9	14	100	0	54	37	22	22	18	1.95
1243120--1243203	18	4.7	18	90	0	123	40	8	8	42	1.65
1243088--1243210	36	3.6	35	82	6	130	40	9	9	39	1.71
1243088--1243251	18	9.8	16	79	11	75	40	8	9	42	1.67
1244972--1245025	20	2.7	20	100	0	108	48	5	0	46	1.25
1245385--1245417	17	1.9	17	88	11	50	63	0	0	36	0.95
1246133--1246174	19	2.3	18	91	4	66	28	0	0	71	0.86
1246133--1246169	11	3.6	11	79	20	53	27	0	0	72	0.84
1246660--1246695	2	18.0	2	100	0	72	50	0	0	50	1.00
1250408--1250448	20	2.0	20	90	4	64	43	4	4	46	1.46
1254522--1254552	3	10.3	3	100	0	62	67	0	0	32	0.91
1254939--1254972	6	5.7	6	89	0	50	11	29	2	55	1.50
1254975--1254999	12	2.1	12	100	0	50	16	0	0	84	0.63
1254995--1255043	8	6.0	8	78	21	57	36	2	0	61	1.08
1254975--1255042	7	9.1	7	76	20	50	29	1	0	69	0.98
1255218--1255255	20	1.9	20	89	10	60	44	0	0	55	0.99
1255217--1255271	16	3.1	17	77	17	51	41	0	0	58	0.98
1255647--1255695	20	2.6	18	78	12	53	73	0	0	26	0.83
1257072--1257288	34	6.4	34	86	2	285	24	7	26	40	1.82
1257072--1257288	102	2.1	101	90	1	344	24	7	26	40	1.82
1261697--1261915	34	6.5	34	85	2	280	25	7	26	40	1.82
1261697--1261915	102	2.2	101	89	1	339	25	7	26	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1262447--1262522	25	3.0	24	72	20	66	59	1	7	31	1.34
1262542--1262596	8	7.0	8	74	12	51	61	0	3	34	1.13
1262575--1262614	12	3.2	12	82	6	53	77	0	0	22	0.77
1262612--1262664	24	2.2	24	79	0	61	64	15	18	1	1.38
1262613--1262677	30	2.2	30	86	5	87	60	13	21	4	1.52
1262619--1262670	24	2.2	24	89	0	77	61	13	21	3	1.48
1263062--1263093	12	2.7	12	95	0	55	34	0	25	40	1.56
1273423--1273481	1	59.0	1	82	0	64	0	5	5	89	0.58
1273425--1273481	30	1.9	30	92	0	96	0	5	5	89	0.59
1273425--1273483	29	2.0	30	90	3	93	0	8	5	86	0.70
1281742--1281793	15	3.6	14	76	7	50	21	9	1	67	1.29
1282628--1282654	2	13.5	2	100	0	54	48	0	0	51	1.00
1285792--1285862	27	2.6	28	88	6	101	46	25	5	22	1.73
1287742--1287787	21	2.1	22	88	4	67	19	28	19	32	1.96
1290234--1290282	20	2.5	20	82	0	62	36	4	48	10	1.56
1290359--1290429	27	2.6	28	88	6	101	46	25	5	22	1.73
1292384--1292416	17	1.9	17	88	11	50	33	0	3	63	1.10
1294357--1294392	18	2.0	18	88	0	54	38	2	19	38	1.66
1295873--1295985	34	3.4	34	86	1	156	25	5	24	44	1.75
1296292--1296345	19	2.8	19	91	0	81	33	14	14	37	1.88
1296291--1296353	19	3.3	19	86	0	63	30	15	17	36	1.91
1300420--1300536	34	3.5	34	86	1	155	24	5	27	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302075--1302108	17	2.1	17	88	5	52	23	8	2	64	1.36
1304468--1304505	2	19.0	2	100	0	76	50	0	0	50	1.00
1307783--1307839	24	2.3	25	87	6	89	61	3	7	28	1.39
1307874--1307901	2	14.0	2	100	0	56	50	0	0	50	1.00
1308923--1309055	38	3.4	39	76	8	121	42	12	7	37	1.72
1308998--1309103	39	2.7	40	80	8	112	41	12	3	42	1.60
1310613--1310676	17	3.5	20	70	20	59	53	0	0	46	1.00
1310596--1310679	35	2.4	36	81	12	97	54	0	0	45	0.99
1310876--1310910	2	17.5	2	100	0	70	48	0	0	51	1.00
1313772--1313800	9	3.0	10	90	10	51	51	10	6	31	1.62
1315038--1315131	31	3.1	29	82	10	100	51	7	12	28	1.67
1316313--1316369	15	3.7	15	76	6	51	54	7	3	35	1.45
1317054--1317115	27	2.3	27	85	0	79	25	6	17	50	1.70
1317159--1317186	13	2.2	13	100	0	56	21	46	7	25	1.76
1319620--1319687	19	3.9	19	78	21	85	35	11	14	38	1.83
1319641--1319665	13	1.9	13	100	0	50	36	16	16	32	1.90
1319622--1319684	32	2.0	32	96	0	117	34	12	15	36	1.86
1319707--1319773	33	2.0	33	85	0	89	26	13	14	44	1.83
1322221--1322296	27	2.8	28	89	2	109	23	34	21	21	1.97
1322317--1322764	52	8.5	51	70	16	222	30	25	11	32	1.91
1322485--1322560	27	2.8	25	88	9	98	25	34	19	21	1.96
1322544--1322764	52	4.3	51	81	2	226	30	26	11	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322138--1322874	264	2.8	264	92	1	1178	29	26	12	31	1.93
1322747--1322823	28	2.8	28	78	7	77	25	32	18	23	1.97
1322777--1322981	79	2.6	79	82	3	216	25	27	16	30	1.97
1326182--1326243	27	2.3	27	82	0	70	24	8	17	50	1.73
1331841--1332066	115	2.0	115	81	7	264	47	7	23	20	1.75
1331957--1342779	88	124.5	86	75	11	7176	45	9	22	22	1.80
1334121--1342445	91	95.6	81	71	16	1473	45	9	22	22	1.80
1336889--1337037	79	1.9	79	85	5	210	40	9	24	25	1.85
1342836--1342884	16	3.1	15	75	18	55	59	2	0	38	1.09
1343110--1343152	20	2.2	20	83	8	52	72	4	0	23	1.04
1343604--1343633	3	10.0	3	100	0	60	66	0	0	33	0.92
1345363--1345401	21	2.0	18	85	14	51	53	0	2	43	1.14
1345703--1345774	26	2.7	27	86	2	101	23	5	22	48	1.71
1345703--1345787	27	3.2	26	79	12	84	22	5	22	49	1.71
1345858--1345898	13	3.2	13	89	6	66	21	41	7	29	1.80
1345858--1345894	12	3.0	12	92	4	56	24	40	8	27	1.83
1350267--1350356	27	3.5	25	80	8	101	24	5	23	46	1.73
1350267--1350339	26	2.7	27	87	2	103	23	4	24	47	1.69
1350418--1350462	13	3.5	13	87	6	65	15	40	6	37	1.74
1351073--1351100	2	14.0	2	100	0	56	50	0	0	50	1.00
1351534--1351560	2	13.5	2	100	0	54	51	0	0	48	1.00
1352089--1352135	23	2.0	24	83	4	60	36	2	0	61	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1352090--1352122	17	1.9	17	88	11	50	36	0	0	63	0.95
1356320--1356358	19	2.1	19	85	0	51	30	2	2	64	1.21
1357268--1357293	2	13.0	2	100	0	52	50	0	0	50	1.00
1359176--1359202	2	13.5	2	100	0	54	48	0	0	51	1.00
1360279--1360377	39	2.5	39	82	11	112	43	12	4	40	1.61
1361759--1361829	27	2.6	27	88	6	99	22	7	23	46	1.76
1361906--1361951	20	2.3	20	88	0	65	10	50	4	34	1.57
1366332--1366402	27	2.6	27	86	6	90	23	7	22	46	1.76
1367554--1367579	13	2.0	13	100	0	52	53	0	7	38	1.30
1368464--1368499	11	3.5	11	85	14	51	66	0	0	33	0.92
1368441--1368519	27	2.8	26	79	12	70	56	1	1	40	1.15
1368619--1368677	22	2.6	22	75	17	59	61	0	5	33	1.18
1368617--1368684	24	2.7	25	77	13	68	63	0	4	32	1.14
1368768--1368798	7	4.4	7	100	0	62	87	0	0	12	0.55
1370157--1370193	18	2.0	19	89	5	58	62	0	2	35	1.10
1374140--1378199	140	29.0	139	91	2	6396	36	13	6	43	1.71
1378359--1378391	16	2.0	17	88	5	50	75	0	3	21	0.93
1379334--1379376	20	2.2	20	83	8	52	37	0	0	62	0.95
1380191--1380230	20	2.0	20	90	4	64	52	0	0	47	1.00
1380709--1380754	24	1.9	24	95	0	83	45	28	6	19	1.75
1380759--1380841	28	3.0	28	96	0	148	49	19	10	20	1.78
1382745--1382785	21	2.0	21	85	0	55	19	29	21	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385336--1385381	24	1.9	24	95	0	83	45	28	6	19	1.75
1385386--1385468	28	3.0	28	96	0	148	49	19	10	20	1.78
1385670--1385734	22	3.0	21	71	20	60	55	0	4	40	1.21
1385713--1385755	15	2.6	16	85	10	52	48	0	4	46	1.22
1385814--1385844	12	2.5	13	94	5	55	67	0	0	32	0.91
1386309--1386382	31	2.3	31	75	15	78	40	1	4	54	1.28
1393487--1393652	20	7.8	19	69	19	89	42	11	14	31	1.81
1393437--1393662	90	2.5	90	86	3	310	42	11	15	30	1.82
1397376--1397435	19	3.4	18	84	8	79	48	0	1	50	1.11
1399006--1399052	20	2.3	20	78	7	51	51	0	4	44	1.21

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