genome.fa.s47.2.7.7.80.10.50.1000.9.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: Scaffold47
Parameters: 2 7 7 80 10 50 1000
Length:  2157611

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

This is table  9  of  15  ( 1735 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)
1132996--1133108	29	4.0	28	81	10	99	72	9	0	17	1.11
1132988--1133034	20	2.5	18	74	19	51	70	6	0	23	1.10
1133009--1133108	29	3.6	29	84	7	120	74	9	0	17	1.07
1133038--1133144	8	12.6	8	73	11	61	75	8	1	14	1.11
1133838--1133877	20	2.0	20	90	0	62	32	15	17	35	1.91
1133912--1133966	21	2.7	21	80	5	69	34	12	14	38	1.84
1133991--1134032	21	2.0	21	90	0	66	42	9	19	28	1.82
1136442--1136640	79	2.6	78	79	12	214	28	23	12	35	1.91
1136574--1136693	51	2.4	51	87	5	163	29	25	12	33	1.92
1136496--1136771	130	2.1	130	94	0	480	28	23	12	35	1.91
1136625--1136830	79	2.6	78	82	6	261	29	24	12	34	1.91
1137941--1138059	41	3.2	41	64	24	107	31	36	19	12	1.89
1137897--1138059	71	2.3	72	86	3	222	31	35	18	14	1.90
1139913--1140048	69	2.0	69	92	0	227	37	16	14	30	1.89
1141427--1141456	2	15.0	2	100	0	60	50	0	0	50	1.00
1141593--1141661	31	2.2	31	92	0	111	47	10	5	36	1.61
1142129--1142226	34	2.9	33	75	13	92	36	2	1	60	1.15
1142153--1142190	20	1.9	19	94	5	67	36	0	0	63	0.95
1142156--1142225	19	3.8	19	70	20	60	38	1	0	60	1.06
1143054--1143090	2	18.5	2	94	0	65	54	0	0	45	1.00
1144580--1144648	20	3.3	20	78	11	68	40	0	1	57	1.07
1144846--1144871	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145125--1145168	16	2.8	17	80	13	58	43	6	6	43	1.57
1147469--1147505	2	18.5	2	100	0	74	51	0	0	48	1.00
1147647--1147716	24	2.7	25	80	10	79	64	0	0	35	0.94
1147674--1147717	18	2.5	17	85	10	61	68	0	0	31	0.90
1147726--1147769	16	2.9	15	80	16	54	50	2	0	47	1.13
1147751--1147792	21	2.0	21	86	13	61	57	0	0	42	0.99
1147736--1147806	14	5.0	14	73	14	56	59	1	0	39	1.06
1147736--1147810	28	2.7	28	83	4	80	57	1	0	41	1.07
1149022--1149103	5	16.4	5	71	14	53	58	2	0	39	1.11
1149025--1149104	20	4.0	19	73	15	63	57	2	0	40	1.12
1149010--1149103	26	3.7	27	78	12	92	59	2	0	38	1.09
1149686--1149731	11	4.6	10	76	17	51	63	0	0	36	0.95
1150003--1150082	40	2.0	41	85	11	112	46	0	1	52	1.08
1150103--1150139	16	2.2	17	90	9	67	51	10	0	37	1.37
1150107--1150145	16	2.4	16	95	0	69	48	12	0	38	1.42
1150578--1150662	17	5.4	17	68	21	51	50	1	1	47	1.16
1151010--1151053	22	2.0	22	90	0	70	72	4	11	11	1.25
1151122--1151255	5	27.4	5	65	15	57	41	0	0	58	1.03
1151131--1151268	54	2.8	51	74	20	139	42	0	0	57	1.04
1151121--1151202	27	3.1	26	83	11	87	39	0	1	59	1.05
1151140--1151268	36	3.6	36	76	14	97	41	0	0	57	1.04
1151705--1151755	13	4.0	13	80	12	61	62	1	0	35	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1152421--1152467	24	1.9	25	82	4	60	46	2	0	51	1.13
1159824--1159855	15	2.2	15	94	5	57	50	3	0	46	1.17
1159922--1159967	21	2.2	20	85	11	65	32	4	0	63	1.14
1159901--1159968	10	6.7	10	73	9	57	38	4	0	57	1.19
1159927--1159979	21	2.5	22	90	9	83	33	1	0	64	1.05
1160975--1161036	31	2.0	31	100	0	124	32	32	9	25	1.88
1163081--1163263	34	5.4	34	88	0	260	25	7	26	39	1.83
1163568--1163627	19	3.1	20	85	7	88	31	18	18	31	1.95
1167699--1167883	34	5.5	34	88	0	264	25	7	26	40	1.82
1170021--1170088	31	2.3	29	80	10	75	41	4	11	42	1.61
1170351--1170481	25	4.9	25	71	25	65	42	0	0	56	1.04
1170325--1170462	47	2.9	46	72	20	115	42	0	0	57	1.04
1170318--1170456	7	18.9	7	70	19	61	41	0	0	58	1.03
1170313--1170483	32	5.2	32	68	20	113	40	0	0	58	1.02
1170897--1170950	13	4.3	12	81	13	65	61	0	0	38	0.96
1171582--1171606	13	1.9	13	100	0	50	40	0	0	60	0.97
1174245--1174317	39	1.9	39	81	15	91	56	0	2	41	1.14
1174341--1174371	14	2.1	15	94	5	55	51	3	0	45	1.17
1174442--1174517	10	7.7	10	73	12	50	36	1	1	60	1.13
1174482--1174521	17	2.4	16	84	12	53	25	0	0	75	0.81
1175084--1175113	12	2.5	12	94	0	51	46	0	0	53	1.00
1175832--1175865	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1179983--1180053	20	3.5	20	86	0	106	33	14	12	39	1.83
1183298--1183369	25	2.9	25	76	0	81	48	0	6	44	1.29
1185933--1186000	18	3.8	18	84	3	84	52	23	11	11	1.70
1186808--1186977	52	3.2	52	87	3	234	29	10	12	47	1.74
1189152--1189229	27	2.9	27	84	1	93	24	25	16	33	1.96
1192741--1192797	30	1.9	30	96	0	105	42	24	8	24	1.83
1195757--1195798	22	1.9	22	90	9	68	61	0	0	38	0.96
1195980--1196022	12	3.7	12	84	3	52	4	9	0	86	0.71
1200528--1200586	31	1.9	31	86	13	86	50	0	0	49	1.00
1202086--1202131	17	2.6	18	82	3	67	78	0	0	21	0.76
1202879--1202919	2	20.5	2	100	0	82	48	0	0	51	1.00
1204986--1205060	20	3.8	20	80	0	96	33	13	12	41	1.81
1204986--1205063	40	2.0	39	89	2	120	33	12	12	41	1.82
1206022--1206069	22	2.2	21	82	14	53	27	14	10	47	1.76
1208867--1208907	20	2.0	20	85	0	55	12	9	7	70	1.33
1218593--1218648	11	4.8	11	80	12	60	83	10	1	3	0.83
1218594--1218637	9	4.9	9	83	8	54	88	6	0	4	0.62
1219876--1220744	29	29.9	29	87	4	1191	29	30	16	23	1.96
1219874--1220744	115	7.5	116	86	5	1179	29	30	16	23	1.96
1221310--1221360	20	2.5	20	77	0	57	35	9	13	41	1.78
1221310--1221387	40	2.0	39	82	7	95	34	10	11	43	1.75
1224674--1224707	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224944--1224970	2	13.5	2	100	0	54	51	0	0	48	1.00
1225579--1225666	33	2.7	33	89	3	124	19	32	9	38	1.83
1230011--1230077	24	2.7	24	77	13	82	44	0	0	55	0.99
1230037--1230095	16	3.5	17	76	13	59	45	0	0	54	0.99
1230062--1230103	22	1.9	22	85	9	59	45	0	0	54	0.99
1230264--1230294	14	2.2	14	94	0	53	51	0	0	48	1.00
1230896--1230934	19	2.1	18	90	4	60	51	0	2	46	1.14
1231556--1231633	21	3.8	20	68	21	54	43	7	5	43	1.55
1231588--1231629	22	2.0	21	90	4	66	45	2	4	47	1.36
1231600--1231639	21	1.9	21	84	0	53	50	2	2	45	1.28
1231627--1231983	21	17.0	20	71	12	116	49	9	5	36	1.58
1231737--1231815	10	7.6	10	70	23	56	50	8	2	37	1.47
1231738--1231983	42	5.9	42	72	15	179	51	9	4	34	1.54
1231796--1231983	84	2.2	85	81	10	226	51	9	4	34	1.56
1232548--1232604	28	2.1	28	87	9	82	38	3	0	57	1.16
1232649--1232713	31	2.2	31	86	8	91	61	0	3	35	1.12
1232640--1232724	30	2.8	29	82	12	91	58	0	4	36	1.19
1233091--1233139	17	2.8	18	79	20	59	55	6	2	36	1.37
1234501--1234576	20	3.8	20	82	0	98	34	13	11	40	1.81
1238734--1238777	19	2.4	19	80	3	54	13	11	6	68	1.39
1243539--1244014	57	8.4	57	86	5	360	28	29	17	24	1.97
1243588--1244063	29	16.8	28	85	4	548	28	30	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1243588--1244014	28	15.1	28	89	3	590	28	30	18	23	1.97
1243588--1244097	57	8.9	56	83	7	571	28	29	17	23	1.97
1243624--1244106	28	16.7	32	85	7	147	29	29	17	24	1.97
1244182--1244272	49	1.9	48	84	8	125	21	27	17	32	1.96
1249290--1249799	29	17.8	28	84	5	544	28	29	17	23	1.97
1249290--1249799	57	8.9	57	86	4	611	28	29	17	23	1.97
1249290--1249716	28	15.1	28	89	3	581	28	30	18	23	1.97
1249884--1249974	49	1.9	48	84	8	125	21	27	17	32	1.96
1255049--1255081	18	1.9	17	88	11	50	21	12	12	54	1.69
1255079--1255117	2	19.5	2	100	0	78	48	0	0	51	1.00

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