genome.fa.s46.2.7.7.80.10.50.1000.7.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  7  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)
1024535--1024578	21	2.0	23	82	8	56	59	2	18	20	1.49
1025761--1025815	28	1.9	28	85	10	76	58	18	3	20	1.54
1027377--1027416	14	2.9	14	84	0	53	40	5	25	30	1.77
1031221--1031260	21	1.9	21	84	0	53	22	30	2	45	1.66
1032855--1032908	20	2.7	20	88	11	76	33	18	14	33	1.92
1039971--1040005	15	2.3	15	95	0	61	28	28	0	42	1.56
1041086--1041423	98	3.5	96	85	4	446	31	12	27	28	1.93
1045887--1045911	13	1.9	13	100	0	50	32	20	16	32	1.94
1045946--1045991	23	2.0	23	86	0	65	34	4	28	32	1.77
1045989--1046029	21	2.0	21	100	0	82	34	9	26	29	1.88
1046079--1046215	53	2.6	53	94	1	238	27	17	17	37	1.92
1046185--1046255	20	3.5	20	77	11	74	29	14	16	39	1.88
1046295--1046335	21	2.0	21	85	9	57	39	9	12	39	1.76
1046787--1046841	20	2.8	20	91	0	83	34	12	10	41	1.78
1051821--1051860	21	1.9	21	84	0	53	22	30	2	45	1.66
1053499--1053524	13	2.0	13	100	0	52	53	15	7	23	1.67
1053534--1053560	14	1.9	14	100	0	54	44	3	22	29	1.70
1053642--1053706	32	2.0	33	90	3	105	40	13	15	30	1.86
1055314--1055422	37	2.9	36	77	14	107	44	3	0	52	1.19
1055388--1055439	28	1.9	26	84	7	68	44	7	0	48	1.31
1055782--1055836	20	2.8	20	97	0	101	36	16	10	36	1.84
1055867--1055929	33	1.9	32	84	12	83	33	11	20	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064353--1064392	13	3.1	13	96	0	71	32	15	12	40	1.84
1067189--1067213	13	1.9	13	100	0	50	36	16	16	32	1.90
1067169--1067235	33	2.0	33	88	0	98	32	11	14	40	1.83
1067276--1067300	13	1.9	13	100	0	50	32	16	16	36	1.90
1067309--1067437	52	2.5	52	93	0	213	34	17	17	31	1.93
1069549--1069617	27	2.6	27	97	0	129	23	39	20	17	1.92
1076156--1076230	20	3.8	20	76	0	78	41	12	12	34	1.79
1076782--1077231	28	15.3	29	81	7	475	22	17	30	28	1.97
1076783--1077227	89	5.0	87	85	6	490	22	17	30	28	1.97
1078462--1078517	27	2.1	26	90	3	85	0	3	8	87	0.65
1078469--1078506	16	2.4	16	95	4	69	0	0	10	89	0.49
1078472--1078517	11	4.3	11	88	2	67	0	2	8	89	0.57
1088229--1088272	20	2.2	20	84	4	54	65	9	11	13	1.46
1092493--1092564	20	3.6	20	76	0	81	41	9	13	34	1.78
1092814--1092998	50	3.7	50	86	2	257	27	18	12	42	1.86
1092814--1092998	100	1.9	100	88	4	284	27	18	12	42	1.86
1095737--1095808	31	2.3	31	88	4	110	22	20	6	50	1.72
1096021--1096234	78	2.7	78	84	5	279	26	21	14	36	1.93
1096024--1096264	78	3.1	77	78	8	247	27	22	15	34	1.94
1102326--1102385	30	2.1	30	84	6	79	21	28	16	33	1.95
1102414--1103020	62	9.8	62	87	2	765	23	24	19	32	1.97
1103007--1103328	43	7.6	42	80	6	337	21	24	13	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103007--1103328	129	2.5	124	85	5	421	21	24	13	41	1.88
1103294--1103383	35	2.5	36	80	7	94	16	28	11	43	1.82
1106631--1106655	13	1.9	13	100	0	50	32	16	16	36	1.90
1106709--1106755	19	2.4	19	82	3	58	40	14	12	31	1.84
1110305--1110355	19	2.6	18	82	14	57	29	17	11	41	1.85
1110395--1110433	21	1.9	20	94	5	69	35	12	15	35	1.86
1114346--1114371	13	2.0	13	100	0	52	38	15	15	30	1.88
1120348--1120427	20	3.8	20	70	15	70	28	13	16	41	1.86
1120414--1120451	13	2.9	13	88	11	60	31	18	18	31	1.95
1120572--1120617	21	2.2	20	81	11	58	32	19	4	43	1.71
1122243--1122267	11	2.3	11	100	0	50	40	0	8	52	1.31
1123022--1123047	13	2.0	13	100	0	52	38	15	15	30	1.88
1128669--1128733	33	2.0	33	90	6	105	35	18	12	33	1.88
1128689--1128713	13	1.9	13	100	0	50	32	16	16	36	1.90
1128762--1128811	19	2.5	20	90	3	75	34	16	18	32	1.92
1132935--1133008	32	2.2	34	83	9	89	72	9	13	4	1.23
1134460--1134889	33	13.6	33	71	17	247	20	27	13	39	1.89
1134462--1134567	34	3.2	34	85	10	148	20	27	11	40	1.87
1134474--1134720	93	2.6	94	83	4	284	22	28	12	36	1.91
1134606--1134924	61	5.1	61	79	9	306	20	27	14	37	1.91
1134606--1134848	121	2.0	122	82	2	301	20	27	14	37	1.92
1134782--1134912	34	3.9	34	79	6	142	16	28	12	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134920--1134990	32	2.3	31	82	2	79	32	36	12	18	1.88
1134942--1135062	64	1.9	64	91	3	199	28	28	19	23	1.98
1134937--1135075	31	4.4	32	84	5	201	29	30	17	22	1.96
1135231--1136037	52	15.6	52	73	5	350	24	20	16	38	1.92
1135762--1135894	50	2.6	52	78	4	137	25	24	15	34	1.95
1135438--1136014	258	2.2	257	84	3	748	24	21	15	38	1.92
1135438--1136037	259	2.3	257	83	4	733	24	20	16	39	1.92
1136699--1136769	20	3.4	21	82	9	83	42	14	18	25	1.87
1136802--1136848	20	2.3	21	85	10	71	46	10	10	31	1.73
1144498--1144551	21	2.6	21	88	2	74	37	18	11	33	1.86
1144589--1144641	20	2.6	20	79	8	54	45	11	13	30	1.78
1145132--1145164	13	2.5	14	85	14	52	54	36	0	9	1.32
1151495--1151522	14	2.0	14	100	0	56	14	14	7	64	1.48
1152883--1152957	20	3.8	20	87	0	114	32	14	13	40	1.85
1153864--1153918	22	2.5	22	90	0	92	16	12	9	61	1.55
1153864--1153925	22	2.9	21	85	4	72	19	11	9	59	1.58
1156738--1156778	3	13.7	3	84	0	55	2	31	0	65	1.05
1157346--1157370	8	3.1	8	100	0	50	28	0	0	72	0.86
1157889--1157914	11	2.4	11	100	0	52	92	0	7	0	0.39
1161385--1161513	52	2.5	52	97	0	240	27	17	19	34	1.95
1161522--1161546	13	1.9	13	100	0	50	36	16	16	32	1.90
1161589--1161686	19	5.8	18	71	28	90	36	17	12	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161608--1161664	13	3.9	13	76	24	60	33	17	14	35	1.90
1161587--1161684	32	3.0	32	96	1	178	35	17	12	34	1.87
1162180--1162333	20	7.7	20	77	8	161	34	12	12	40	1.81
1162185--1162330	40	3.7	40	99	0	283	34	11	13	39	1.81
1162348--1162398	20	2.5	20	93	0	84	31	13	11	43	1.80
1175312--1176578	59	21.5	59	91	3	1993	24	28	21	25	1.99
1179136--1179459	52	6.4	51	74	12	254	31	23	10	35	1.88
1179135--1179460	99	3.2	103	76	9	330	30	23	10	35	1.88
1179448--1179524	28	2.8	27	81	13	77	23	29	16	29	1.96
1191907--1191966	1	60.0	1	76	0	57	88	8	3	0	0.62
1191906--1191966	8	7.8	8	82	10	72	86	9	3	0	0.67
1191910--1191966	13	4.4	12	86	8	69	87	8	3	0	0.64
1191909--1191960	14	3.8	13	89	2	77	88	9	1	0	0.59
1191906--1191965	22	2.7	22	89	5	86	86	10	3	0	0.67
1192929--1194114	59	20.3	59	90	3	1689	25	27	20	26	1.99
1194962--1195016	20	2.8	20	82	0	74	23	14	16	45	1.84
1196666--1196691	13	2.0	13	100	0	52	38	15	15	30	1.88
1196648--1196711	32	2.0	33	87	3	94	40	17	14	28	1.88
1202861--1202886	13	2.0	13	100	0	52	30	15	15	38	1.88
1203007--1203052	21	2.2	20	81	11	58	32	19	4	43	1.71
1205434--1205459	13	2.0	13	100	0	52	38	15	15	30	1.88
1205416--1205479	32	2.0	33	87	3	94	40	17	14	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1207258--1207547	52	5.7	51	77	11	265	30	24	11	33	1.90
1207257--1207581	98	3.2	100	79	8	320	30	25	10	33	1.90
1207257--1207581	52	6.4	50	77	9	239	30	25	10	33	1.90
1208922--1208995	20	3.7	20	87	0	112	32	14	13	39	1.86
1211152--1211398	97	2.5	97	89	0	386	27	28	12	30	1.94
1212579--1212617	19	2.1	19	85	0	51	51	2	0	46	1.14
1213281--1213659	158	2.4	158	85	5	543	40	12	8	37	1.74
1214454--1214495	21	2.0	21	95	0	75	33	11	0	54	1.37
1214458--1214548	21	4.3	20	77	20	71	28	7	0	63	1.22
1214505--1214548	10	4.4	10	83	11	63	25	6	0	68	1.14

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