genome.fa.s156.2.7.7.80.10.50.1000.6.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: Scaffold156
Parameters: 2 7 7 80 10 50 1000
Length:  2697547

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

This is table  6  of  14  ( 1602 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)
1138433--1138461	2	14.5	2	100	0	58	51	0	0	48	1.00
1138727--1138771	17	2.6	17	83	10	56	35	2	2	60	1.22
1140050--1140088	20	2.0	20	89	0	60	46	0	2	51	1.14
1140244--1140298	17	3.3	17	77	7	60	61	0	3	34	1.13
1140385--1140443	14	4.6	14	74	23	51	69	1	0	28	0.98
1150540--1150593	27	1.9	29	92	7	94	40	0	0	59	0.98
1150540--1150593	28	2.0	26	89	10	81	40	0	0	59	0.98
1151694--1151724	2	15.5	2	100	0	62	48	0	0	51	1.00
1152015--1152099	21	4.2	21	66	21	56	32	1	22	43	1.61
1156701--1156801	37	2.9	34	78	8	112	32	2	25	38	1.71
1156815--1156853	20	2.0	20	84	0	51	71	2	0	25	0.98
1160216--1160247	3	10.3	3	93	6	55	34	0	0	65	0.93
1160533--1160645	32	3.7	29	76	16	113	43	0	0	55	1.05
1160792--1160822	16	1.9	16	93	0	53	45	0	0	54	0.99
1160970--1161010	14	2.9	14	81	3	55	80	0	12	7	0.90
1161178--1161235	25	2.4	25	80	8	75	62	1	0	36	1.06
1161667--1161694	2	14.0	2	100	0	56	50	0	0	50	1.00
1167498--1167558	24	2.5	24	89	0	86	36	18	9	36	1.84
1172898--1172928	16	1.9	16	93	0	53	41	0	0	58	0.98
1172868--1172989	38	3.4	33	72	21	95	47	1	0	50	1.10
1172923--1172973	26	1.9	27	84	4	68	49	0	0	50	1.00
1173203--1173239	3	12.3	3	100	0	74	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175127--1175179	7	7.1	7	81	10	52	54	0	0	45	0.99
1177572--1177601	6	5.0	6	95	0	51	46	16	0	36	1.47
1178023--1178055	3	11.0	3	100	0	66	66	0	0	33	0.92
1178143--1178191	24	2.0	25	88	11	75	32	6	4	57	1.42
1181499--1181547	23	2.2	22	85	7	64	30	0	0	69	0.89
1184804--1184834	15	2.1	15	100	0	62	38	35	12	12	1.82
1192869--1192907	21	1.9	19	85	10	51	25	0	5	69	1.09
1193601--1193655	26	2.1	26	82	0	65	29	5	18	47	1.71
1198252--1198282	5	6.2	5	100	0	62	61	0	38	0	0.96
1207548--1207655	48	2.2	48	81	0	126	40	8	9	41	1.67
1207575--1207652	32	2.4	32	80	4	86	39	8	10	41	1.71
1207550--1207658	16	6.8	16	74	2	76	40	8	9	42	1.67
1207700--1207825	16	7.8	16	77	0	108	45	2	5	46	1.39
1208217--1208253	2	18.5	2	88	0	56	48	5	0	45	1.25
1212220--1212261	13	3.2	13	83	6	50	40	7	2	50	1.43
1216955--1216994	5	8.6	5	97	2	59	80	0	0	20	0.72
1217897--1217927	2	15.5	2	93	0	53	48	3	0	48	1.17
1218158--1218190	15	2.4	14	90	10	50	48	3	3	45	1.33
1219233--1219287	20	2.8	21	78	15	55	61	1	0	36	1.06
1223516--1223550	16	2.2	16	100	0	70	17	5	34	42	1.73
1223589--1223633	3	15.0	3	100	0	90	0	33	0	66	0.92
1226646--1226672	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227073--1227113	18	2.3	18	83	4	57	68	2	2	26	1.15
1227542--1227625	31	2.8	28	81	15	89	45	2	11	40	1.54
1238148--1238184	19	2.1	19	90	10	51	72	2	5	18	1.15
1247981--1248023	23	1.9	23	85	4	61	20	20	9	48	1.77
1248118--1248297	89	2.0	89	91	0	288	25	23	26	24	2.00
1255010--1255060	20	2.5	21	71	6	52	41	0	0	58	0.98
1258648--1258680	14	2.4	14	89	0	57	60	0	0	39	0.97
1262127--1262164	16	2.6	14	81	18	51	57	0	0	42	0.98
1262260--1262315	25	2.3	24	90	3	85	44	0	0	55	0.99
1262291--1262324	17	2.0	17	88	0	50	41	0	0	58	0.98
1266306--1266443	71	1.9	71	97	0	258	42	11	22	23	1.86
1269055--1269085	2	15.5	2	100	0	62	51	0	0	48	1.00
1271637--1272936	228	5.7	227	81	5	1086	24	25	20	29	1.99
1271569--1272935	456	3.0	452	80	3	1445	24	24	21	29	1.99
1273138--1273208	35	2.0	35	97	0	133	52	16	7	23	1.69
1275184--1276004	228	3.6	227	84	2	962	22	24	24	29	1.99
1280473--1280620	59	2.5	59	83	3	165	18	15	29	37	1.91
1287907--1287945	18	2.2	18	85	0	51	33	0	0	66	0.92
1287916--1287966	18	2.9	18	88	2	68	37	0	0	62	0.95
1288354--1288382	2	14.5	2	100	0	58	48	0	0	51	1.00
1290398--1290454	21	2.6	22	83	8	73	50	0	0	49	1.00
1290530--1290595	34	2.0	33	81	3	78	30	25	9	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1294232--1294292	23	2.7	24	72	20	60	42	0	0	57	0.98
1298509--1298574	22	3.0	22	97	0	123	45	15	4	34	1.66
1300639--1300670	2	16.0	2	93	0	55	50	3	0	46	1.17
1302350--1302404	7	8.7	7	73	26	52	40	0	0	60	0.97
1302345--1302407	11	5.7	11	73	19	51	39	0	0	60	0.97
1302353--1302408	20	2.9	20	86	5	71	39	0	0	60	0.97
1302669--1302694	2	13.0	2	100	0	52	50	0	0	50	1.00
1303290--1303316	2	13.5	2	100	0	54	48	0	0	51	1.00
1303396--1303428	16	1.9	18	88	11	52	9	15	3	72	1.21
1303740--1303776	3	12.3	3	94	0	65	32	2	0	64	1.07
1316296--1316336	12	3.4	12	89	0	64	34	39	2	24	1.69
1320575--1320609	11	3.2	11	87	0	52	8	28	2	60	1.41
1338396--1338443	19	2.5	21	80	16	59	70	0	0	29	0.87
1338396--1338440	23	2.0	23	91	8	74	71	0	0	28	0.87
1338518--1338556	19	2.1	19	85	9	53	61	7	0	30	1.24
1343848--1343909	29	2.1	29	90	0	97	37	9	29	24	1.87
1345948--1346103	78	2.0	78	94	0	276	37	16	20	26	1.93
1350974--1351027	20	2.7	20	83	11	67	44	0	3	51	1.19
1351981--1352013	10	3.4	10	91	4	50	75	0	0	24	0.80
1358738--1358766	15	1.9	15	100	0	58	48	6	17	27	1.72
1360455--1360500	20	2.3	20	96	3	85	50	0	0	50	1.00
1368857--1368888	2	16.0	2	100	0	64	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1370721--1370760	19	2.2	19	86	4	55	45	2	10	42	1.51
1370960--1370984	11	2.3	11	100	0	50	72	0	0	28	0.86
1370977--1371023	23	2.0	23	87	4	67	40	0	0	59	0.97
1371603--1371645	19	2.5	17	85	11	52	58	4	0	37	1.19
1371603--1371675	23	2.9	24	78	15	76	58	4	0	36	1.17
1371639--1371694	21	2.7	21	77	0	58	60	3	0	35	1.14
1373020--1373050	2	15.5	2	100	0	62	51	0	0	48	1.00
1373447--1373488	2	21.0	2	100	0	84	50	0	50	0	1.00
1373707--1373751	24	2.0	21	87	12	63	66	4	0	28	1.11
1374527--1374556	13	2.4	13	94	5	53	46	0	0	53	1.00
1374627--1374678	19	2.6	21	78	9	63	26	3	0	69	1.06
1374895--1374946	21	2.6	19	75	16	52	63	0	5	30	1.18
1374884--1374942	31	1.9	30	86	6	82	59	0	8	32	1.28
1375678--1375724	2	24.0	2	86	4	69	46	0	4	48	1.21
1384328--1384610	144	2.0	144	90	4	455	44	10	9	34	1.72
1384786--1384814	3	9.7	3	100	0	58	68	0	0	31	0.89
1385065--1385096	2	16.0	2	100	0	64	50	0	0	50	1.00
1387634--1387658	11	2.3	11	100	0	50	36	0	16	48	1.46
1392131--1392181	26	2.0	24	85	14	68	41	0	0	58	0.98
1392139--1392210	16	4.4	16	76	11	65	40	0	2	56	1.13
1392141--1392225	15	5.4	16	72	18	63	42	0	2	55	1.12
1399785--1399823	20	2.0	20	90	5	62	58	7	0	33	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1401885--1401997	36	3.1	35	71	17	88	49	0	0	50	1.00
1401924--1401980	28	2.0	27	83	6	69	54	0	0	45	0.99
1402281--1402334	25	2.2	26	86	6	76	46	3	0	50	1.19
1404463--1404523	31	1.9	32	87	9	90	49	3	1	45	1.28
1404457--1404529	31	2.5	27	76	21	76	47	2	1	47	1.24
1404925--1404982	21	2.9	21	82	7	68	62	0	1	36	1.06
1404927--1404966	21	1.9	21	94	0	71	62	0	2	35	1.09
1405361--1405404	20	2.2	20	84	12	54	61	0	6	31	1.22
1406735--1406783	24	2.0	24	100	0	98	51	0	0	48	1.00
1407992--1408031	11	3.5	12	83	13	57	45	0	0	55	0.99

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