genome.fa.s46.2.7.7.80.10.50.1000.8.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: Scaffold46
Parameters: 2 7 7 80 10 50 1000
Length:  2524624

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

This is table  8  of  15  ( 1780 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)
1214513--1214686	21	8.3	21	73	19	116	35	2	1	60	1.17
1214543--1214686	32	4.5	32	93	4	247	37	1	1	59	1.15
1214494--1214678	96	1.9	96	86	9	261	33	2	1	62	1.16
1214543--1214723	96	1.9	94	85	10	255	38	1	1	59	1.12
1215891--1215966	10	6.4	11	74	25	66	2	23	0	73	0.95
1215898--1215969	11	5.6	14	73	20	61	2	22	0	75	0.94
1215896--1215961	25	2.6	25	97	2	123	3	25	0	71	1.01
1216606--1217040	165	2.6	167	82	5	490	51	7	10	30	1.64
1217984--1218184	43	4.7	42	75	10	149	39	17	24	18	1.92
1218006--1218150	43	3.4	43	80	8	154	39	16	25	18	1.91
1217981--1218184	86	2.4	86	82	8	263	38	18	24	18	1.93
1219433--1219539	51	2.1	50	86	5	144	21	19	13	45	1.84
1225464--1225582	52	2.3	51	92	4	195	30	16	18	34	1.93
1225464--1225602	52	2.7	50	84	13	167	31	16	18	33	1.94
1225591--1225615	13	1.9	13	100	0	50	36	16	16	32	1.90
1225656--1225722	33	2.0	33	88	0	98	40	13	11	34	1.81
1225678--1225702	13	1.9	13	100	0	50	32	16	16	36	1.90
1226519--1227042	43	11.0	52	84	8	401	30	17	26	25	1.97
1226627--1229744	43	69.1	43	75	15	2057	31	17	26	24	1.97
1226583--1227043	97	4.9	95	88	8	607	29	18	26	25	1.98
1227124--1227584	97	4.9	96	87	9	611	29	19	26	24	1.98
1226452--1229858	541	6.3	541	99	0	6670	31	17	26	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227665--1228666	97	10.4	96	76	16	704	30	18	26	24	1.98
1228747--1229750	97	10.5	97	76	16	725	30	18	26	24	1.97
1229864--1230031	32	5.2	32	93	4	293	17	17	38	26	1.92
1229862--1230031	65	2.7	63	93	4	295	17	17	37	27	1.92
1230030--1230431	34	12.0	34	79	12	404	35	12	31	20	1.90
1230031--1230436	33	12.1	33	81	12	436	36	12	31	20	1.89
1230031--1230436	70	6.0	68	85	8	473	36	12	31	20	1.89
1230315--1230369	28	2.0	28	85	3	76	27	14	34	23	1.94
1230215--1230585	31	11.7	31	78	9	187	30	15	30	23	1.95
1230408--1230587	94	1.9	94	93	0	306	26	17	31	25	1.97
1230407--1230587	31	5.8	30	85	8	238	27	17	30	24	1.97
1230377--1230588	63	3.4	63	85	5	279	28	16	30	24	1.96
1238752--1238870	52	2.3	51	92	4	195	30	16	18	34	1.93
1238752--1238890	52	2.7	50	84	13	167	31	16	18	33	1.94
1238879--1238903	13	1.9	13	100	0	50	36	16	16	32	1.90
1238944--1239010	33	2.0	33	88	0	98	40	13	11	34	1.81
1238966--1238990	13	1.9	13	100	0	50	32	16	16	36	1.90
1244959--1245580	161	3.9	162	83	4	744	41	11	9	36	1.74
1246181--1246232	11	4.6	11	79	13	61	0	25	0	75	0.81
1246705--1246747	19	2.3	19	83	0	50	62	11	0	25	1.29
1246876--1247308	167	2.6	165	81	6	426	51	6	10	31	1.61
1248069--1248102	2	17.5	2	93	6	61	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)
1255865--1255891	2	13.5	2	100	0	54	48	0	0	51	1.00
1256970--1257000	2	15.5	2	100	0	62	51	0	0	48	1.00
1262304--1262377	32	2.3	34	79	13	84	36	2	8	52	1.45
1263617--1263673	7	7.3	7	76	20	51	75	1	17	5	1.07
1274794--1274880	1	87.0	1	76	0	66	86	5	8	0	0.71
1274808--1274867	16	3.8	16	80	12	79	85	5	10	0	0.75
1274792--1274880	31	2.9	31	93	6	148	84	5	10	0	0.78
1279076--1279224	70	2.1	70	88	2	228	29	18	12	39	1.87
1280654--1280707	26	2.1	26	85	0	72	42	18	9	29	1.81
1283251--1283301	21	2.4	21	100	0	102	15	15	17	50	1.78
1290457--1290755	162	1.8	163	89	5	469	39	8	12	39	1.74
1291049--1291233	58	3.2	58	79	3	149	46	16	10	26	1.79
1291344--1291398	11	4.9	11	76	10	58	54	9	16	20	1.68
1291328--1291401	24	3.4	22	80	14	82	54	8	17	20	1.68
1292900--1292938	16	2.4	17	86	4	53	33	0	5	61	1.18
1293123--1293160	18	2.1	18	85	9	51	65	7	0	26	1.19
1294347--1294387	17	2.3	18	80	16	50	68	4	12	14	1.36
1294546--1294656	50	2.2	51	88	1	170	32	22	18	27	1.97
1299055--1299165	50	2.2	51	88	1	170	31	21	18	27	1.97
1311110--1311143	16	2.1	16	88	0	50	38	41	8	11	1.73
1314089--1314159	36	2.0	34	81	10	81	66	2	0	30	1.06
1314221--1314277	20	2.9	21	78	21	61	63	1	0	35	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314099--1314289	18	11.4	18	65	25	59	58	2	0	38	1.14
1315082--1315121	12	3.2	13	86	13	57	55	0	0	45	0.99
1316165--1316205	21	2.0	21	90	0	64	51	0	2	46	1.14
1316589--1316634	23	1.9	25	82	8	60	54	4	0	41	1.20
1317359--1317418	26	2.3	27	80	13	72	43	0	0	56	0.99
1317378--1317435	19	2.8	20	74	7	55	51	0	0	48	1.00
1322400--1322428	3	9.7	3	100	0	58	68	0	0	31	0.89
1323097--1323157	31	2.0	31	83	6	79	36	11	4	47	1.61
1323953--1324002	14	3.4	15	70	13	50	56	2	0	42	1.11
1324599--1324635	18	2.0	20	89	10	60	56	0	2	40	1.13
1324809--1324864	29	1.9	29	82	13	71	33	3	0	62	1.12
1325637--1325664	3	9.3	3	100	0	56	64	0	0	35	0.94
1328332--1328358	5	5.4	5	100	0	54	0	18	0	81	0.69
1328355--1328596	133	1.8	134	83	6	330	26	17	16	39	1.91
1330993--1331060	25	2.8	24	79	16	68	33	1	4	60	1.26
1331046--1331105	22	2.6	23	81	5	59	53	0	5	41	1.23
1331358--1331542	90	2.1	89	84	4	237	34	21	9	35	1.86
1335751--1335783	4	8.2	4	100	0	66	75	0	0	24	0.80
1337588--1337618	2	15.5	2	93	0	53	45	0	3	51	1.17
1341580--1341625	16	2.9	16	80	6	58	63	0	2	34	1.07
1342520--1342551	5	6.4	5	100	0	64	0	37	21	40	1.54
1343998--1344027	15	2.0	15	93	0	51	50	6	0	43	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344224--1344251	2	14.0	2	100	0	56	50	0	0	50	1.00
1344364--1344418	21	2.6	23	80	11	64	54	0	0	45	0.99
1344363--1344406	23	1.9	23	86	9	63	54	0	0	45	0.99
1344378--1344431	17	3.4	17	71	21	53	59	0	0	40	0.98
1344392--1344471	29	2.9	27	80	12	74	57	0	1	41	1.07
1344401--1344475	18	4.1	18	70	23	59	60	0	1	38	1.06
1352156--1352931	415	1.9	415	82	3	999	42	8	6	42	1.61
1353287--1353353	36	1.9	35	85	11	93	31	25	10	32	1.89
1353832--1353857	13	2.0	13	100	0	52	30	23	15	30	1.95
1353942--1353998	21	2.6	22	88	5	98	36	8	24	29	1.86
1353986--1354016	10	3.1	10	90	0	53	41	6	29	22	1.78
1354093--1354163	20	3.5	20	77	11	74	29	12	16	40	1.86
1354203--1354243	21	2.0	21	85	9	57	39	9	12	39	1.76
1356099--1356282	91	2.0	89	80	6	201	43	5	4	46	1.48
1358879--1358930	16	3.4	15	82	10	52	46	0	3	50	1.20
1359174--1359211	18	2.1	18	90	0	58	50	0	0	50	1.00
1359454--1359504	16	3.2	16	94	0	84	39	0	0	60	0.97
1359475--1359528	22	2.5	22	90	0	81	40	1	1	55	1.21
1359475--1359512	6	6.7	6	82	11	53	42	0	0	57	0.98
1359501--1359537	16	2.3	15	86	13	56	37	5	5	51	1.48
1359735--1359790	18	2.9	19	84	10	62	44	1	1	51	1.22
1360807--1360846	5	8.0	5	88	0	62	57	2	2	37	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1364725--1364780	22	2.5	22	82	0	67	50	1	0	48	1.11
1364755--1364821	25	2.6	26	77	11	66	43	4	0	52	1.21
1365596--1365624	2	14.5	2	100	0	58	51	0	0	48	1.00
1366287--1366339	24	2.2	24	93	3	90	50	16	9	22	1.74
1366840--1366970	51	2.6	51	85	2	174	34	25	12	27	1.93
1372258--1372402	52	2.8	51	90	4	227	29	17	17	35	1.93
1372391--1372415	13	1.9	13	100	0	50	36	16	16	32	1.90
1372480--1372504	13	1.9	13	100	0	50	32	16	16	36	1.90
1372458--1372524	33	2.0	33	88	0	98	40	13	11	34	1.81
1376173--1376197	13	1.9	13	100	0	50	36	16	16	32	1.90

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