genome.fa.s262.2.7.7.80.10.50.1000.8.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: Scaffold262
Parameters: 2 7 7 80 10 50 1000
Length:  1141274

Tables:   1   2   3   4   5   6   7   8   

This is table  8  of  8  ( 957 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)
971004--971036	6	5.5	6	100	0	66	15	66	0	18	1.25
977274--977306	2	16.5	2	93	0	57	51	3	0	45	1.16
980230--980284	27	2.0	27	92	0	92	7	14	7	70	1.31
982311--982375	34	1.9	34	96	0	121	49	7	6	36	1.57
987769--987796	4	7.0	4	100	0	56	50	0	50	0	1.00
990196--990250	22	2.3	22	84	12	65	58	3	16	21	1.54
991027--991187	86	1.9	81	90	8	252	29	14	15	40	1.86
997588--997628	19	2.2	19	86	4	57	26	0	4	68	1.10
997638--997671	17	1.9	18	88	5	52	38	0	2	58	1.13
998206--998257	21	2.4	21	84	9	61	26	1	1	69	1.10
998226--998257	10	3.0	11	90	9	57	25	0	0	75	0.81
998225--998266	21	2.0	22	90	4	68	26	2	0	71	0.98
998411--998457	16	2.8	17	80	9	60	31	0	0	68	0.90
998411--998462	18	3.0	18	81	16	65	32	0	0	67	0.91
998966--998990	6	4.2	6	100	0	50	0	16	52	32	1.44
1002823--1002864	18	2.3	18	84	12	50	52	0	0	47	1.00
1004035--1004112	36	2.3	34	79	18	90	58	1	2	37	1.20
1003112--1006828	870	4.3	873	93	1	6253	38	8	10	42	1.70
1007464--1007517	28	2.0	26	89	7	81	31	0	3	64	1.11
1008258--1008282	2	12.5	2	100	0	50	52	0	48	0	1.00
1008484--1008525	22	1.9	22	85	0	57	50	0	0	50	1.00
1008494--1008536	22	2.0	21	86	13	61	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1008785--1009265	159	3.0	159	100	0	962	40	13	17	28	1.87
1010050--1010090	19	2.2	19	86	8	57	2	41	0	56	1.13
1010708--1010802	24	3.8	22	76	19	73	45	0	0	54	0.99
1010719--1010802	24	3.4	24	83	8	105	44	0	0	55	0.99
1012264--1012329	17	3.9	17	75	13	55	66	1	1	30	1.10
1012320--1012371	19	2.6	19	79	14	52	53	1	0	44	1.11
1012792--1012838	13	3.6	13	80	13	53	51	0	0	48	1.00
1014355--1014462	54	2.0	54	98	1	209	23	12	11	52	1.71
1015194--1015405	106	2.0	105	98	0	406	26	16	17	39	1.91
1017950--1017977	2	14.0	2	100	0	56	50	0	50	0	1.00
1018829--1018856	2	14.0	2	100	0	56	50	0	0	50	1.00
1022693--1022736	16	2.8	16	79	3	54	61	0	2	36	1.09
1023063--1023093	3	10.3	3	92	0	53	0	35	29	35	1.58
1023191--1023215	4	6.2	4	100	0	50	24	52	0	24	1.48
1038519--1038579	25	2.5	24	81	7	61	62	4	4	27	1.37
1040501--1040622	1	122.0	1	75	0	82	0	8	6	85	0.75
1040501--1040616	32	3.6	32	91	5	198	0	7	6	85	0.75
1040501--1040623	34	3.7	34	93	4	193	0	8	6	84	0.77
1049702--1049742	16	2.5	16	88	11	57	36	0	0	63	0.95
1049774--1049818	20	2.3	19	85	14	56	48	0	0	51	1.00
1050531--1050561	15	2.1	15	100	0	62	48	19	6	25	1.72
1051840--1051878	6	6.5	6	90	0	51	23	46	0	30	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052693--1052730	2	19.0	2	94	0	67	47	0	0	52	1.00
1053379--1053608	114	2.0	114	100	0	460	40	20	7	31	1.81
1058386--1058410	2	12.5	2	100	0	50	52	0	0	48	1.00
1058596--1058629	3	11.3	3	100	0	68	67	32	0	0	0.91
1063212--1063251	18	2.2	18	100	0	80	30	27	22	20	1.98
1063346--1063382	4	9.2	4	87	0	56	0	18	5	75	0.99
1063998--1064028	16	1.9	16	100	0	62	51	16	0	32	1.44
1064002--1064036	8	4.4	8	88	0	52	51	11	0	37	1.38
1063996--1064036	12	3.4	12	86	0	55	51	12	0	36	1.40
1065309--1065343	12	2.9	12	91	0	52	42	8	22	25	1.82
1066258--1066294	8	4.2	9	90	10	51	48	21	0	29	1.50
1066262--1066294	12	2.5	13	90	9	50	51	21	0	27	1.48
1066526--1066555	2	15.0	2	100	0	60	50	50	0	0	1.00
1067590--1067658	35	1.9	36	85	2	95	46	7	13	33	1.70
1068159--1068213	2	27.5	2	96	0	101	49	0	0	50	1.00
1070020--1070193	21	8.2	21	71	12	115	51	5	3	39	1.43
1070021--1070234	42	5.1	41	73	12	148	50	6	3	38	1.46
1070031--1070240	21	10.0	21	70	15	87	50	6	4	39	1.47
1071272--1071337	28	2.4	29	80	12	68	48	1	0	50	1.10
1071561--1071586	4	6.5	4	100	0	52	50	23	0	26	1.50
1073745--1073793	24	2.0	24	100	0	98	42	16	0	40	1.48
1077520--1077614	37	2.6	36	81	9	104	42	2	4	51	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077520--1077652	36	3.6	36	79	10	119	39	1	3	55	1.27
1077716--1077755	21	1.9	21	90	10	64	32	5	0	62	1.17
1077956--1077993	3	12.7	3	94	0	67	68	2	0	28	1.03
1079313--1079350	18	2.1	19	85	5	51	81	0	15	2	0.80
1079709--1079764	26	2.2	26	80	6	60	42	5	7	44	1.54
1079790--1079835	22	2.1	22	91	0	74	82	2	2	13	0.85
1079790--1079832	6	7.5	6	84	10	54	83	2	2	11	0.83
1079787--1079835	16	3.2	15	80	11	55	81	2	2	14	0.87
1082407--1082446	16	2.5	16	83	0	53	67	10	2	20	1.31
1082768--1082812	3	15.0	3	100	0	90	33	0	0	66	0.92
1086279--1086327	21	2.4	21	82	3	64	24	16	8	51	1.71
1089697--1089737	21	2.0	21	95	0	73	36	9	14	39	1.79
1089868--1089904	2	18.5	2	88	0	56	51	0	2	45	1.15
1090613--1090645	2	16.5	2	93	0	57	48	0	0	51	1.00
1104830--1104865	17	2.1	17	89	0	54	25	19	16	38	1.92
1105122--1105171	24	2.1	24	92	0	82	36	10	8	46	1.67
1109973--1110016	2	22.0	2	95	0	79	0	52	0	47	1.00
1111102--1111131	2	15.0	2	100	0	60	50	0	50	0	1.00
1111302--1111335	16	2.1	17	88	5	52	55	0	0	44	0.99
1111795--1111850	25	2.3	25	84	9	71	48	0	1	50	1.11
1111805--1111860	29	2.0	27	82	6	67	53	1	1	42	1.21
1112053--1112120	14	4.6	14	77	15	66	64	0	1	33	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112053--1112099	16	3.1	14	87	9	58	65	0	2	31	1.04
1112065--1112104	16	2.4	16	83	4	53	67	0	2	30	1.04
1112107--1112165	30	2.0	30	87	12	86	54	0	0	45	0.99
1112098--1112189	46	1.9	47	84	6	123	56	0	0	43	0.99
1112160--1112218	29	2.0	29	84	12	77	52	0	0	47	1.00
1112167--1112236	29	2.5	27	77	6	68	55	0	0	44	0.99
1112996--1113084	42	2.1	42	91	0	142	34	7	2	55	1.42
1113980--1114005	3	8.7	3	100	0	52	69	0	0	30	0.89
1114522--1114554	2	16.5	2	100	0	66	48	0	0	51	1.00
1115532--1115595	30	2.1	32	88	5	96	32	0	3	64	1.10
1115836--1115861	2	13.0	2	100	0	52	50	0	0	50	1.00
1121373--1121411	5	7.4	5	86	11	51	58	17	20	2	1.50
1125065--1125089	7	3.6	7	100	0	50	24	0	28	48	1.52
1128918--1128961	17	2.8	17	86	10	58	52	0	0	47	1.00
1131687--1131714	2	14.0	2	100	0	56	50	50	0	0	1.00
1132405--1132493	44	2.0	45	93	2	153	33	7	14	43	1.74
1136188--1136318	68	1.9	69	96	1	246	29	22	14	32	1.94
1138539--1138585	21	2.3	20	82	13	60	8	0	46	44	1.33
1138810--1138925	50	2.4	48	78	14	132	0	1	61	37	1.07
1139314--1140579	39	32.6	41	72	21	163	1	3	51	43	1.25
1139307--1139403	41	2.5	39	77	16	105	0	6	45	48	1.27
1138666--1140590	7	262.1	7	73	19	1234	1	4	52	42	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1140674--1140978	15	21.2	14	77	16	263	13	2	39	44	1.58
1140674--1140978	7	42.4	7	76	17	263	13	2	39	44	1.58
1140916--1140973	22	2.7	21	84	10	73	15	1	41	41	1.57
1140979--1141271	7	38.0	7	67	27	111	2	6	50	41	1.40
1141026--1141271	8	30.0	8	67	21	77	2	5	49	42	1.40
1141072--1141115	18	2.5	17	85	14	63	2	6	45	45	1.42
1140979--1141270	15	18.9	15	69	25	100	2	6	50	41	1.40

Tables:   1   2   3   4   5   6   7   8

The End!