genome.fa.s132.2.7.7.80.10.50.1000.6.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: Scaffold132
Parameters: 2 7 7 80 10 50 1000
Length:  2458301

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

This is table  6  of  15  ( 1722 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)
996309--996354	2	23.0	2	90	0	74	2	47	0	50	1.13
997091--997155	20	3.2	20	76	12	69	12	7	4	75	1.17
997091--997161	21	3.5	19	72	12	61	12	8	4	74	1.19
997092--997165	20	3.7	19	75	12	67	13	8	4	74	1.19
998376--998411	2	18.0	2	100	0	72	50	0	0	50	1.00
1001864--1002083	34	6.5	33	81	9	248	40	25	7	25	1.82
1001866--1002079	68	3.2	67	85	4	279	40	25	7	25	1.83
1001867--1002083	102	2.2	100	90	1	335	41	25	7	25	1.82
1006490--1006709	34	6.5	33	80	9	246	41	26	7	25	1.81
1006492--1006709	68	3.2	67	83	3	276	41	26	7	25	1.81
1006490--1006709	102	2.2	101	87	1	332	41	26	7	25	1.81
1008977--1009001	9	2.8	9	100	0	50	80	0	0	20	0.72
1012502--1012557	27	2.1	27	83	6	69	48	0	3	48	1.19
1012689--1012741	23	2.3	23	83	0	61	37	3	7	50	1.49
1012699--1012760	23	2.8	22	85	7	72	35	3	11	50	1.55
1013348--1013399	26	2.0	26	85	3	70	15	5	11	67	1.40
1017460--1017675	103	2.1	104	96	3	400	34	12	12	41	1.79
1017981--1018051	27	2.6	27	88	0	106	49	18	5	26	1.69
1021513--1021591	38	2.1	38	95	0	140	29	29	7	34	1.85
1022502--1022613	27	4.3	26	78	7	111	54	3	1	40	1.28
1022532--1022616	26	3.2	26	80	3	98	54	4	1	40	1.29
1022502--1022614	53	2.2	53	82	6	133	54	3	1	39	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1022543--1022630	27	3.3	27	84	6	108	48	3	2	45	1.31
1024235--1024277	22	2.0	22	86	9	61	48	0	0	51	1.00
1026015--1026042	3	9.3	3	100	0	56	67	32	0	0	0.91
1027864--1028080	109	2.0	109	90	0	344	30	8	19	41	1.82
1029074--1029144	31	2.3	31	87	0	97	25	15	23	35	1.94
1032256--1032295	14	2.9	15	82	14	50	42	7	0	50	1.30
1037481--1037549	29	2.3	30	80	9	79	40	1	0	57	1.07
1038158--1038199	18	2.4	17	85	14	59	33	0	2	64	1.07
1038167--1038208	19	2.3	19	87	4	59	38	0	0	61	0.96
1038196--1038268	23	3.4	21	75	14	69	43	0	0	56	0.99
1038183--1038273	42	2.2	43	84	6	123	45	0	0	54	0.99
1038219--1038258	19	2.1	18	86	9	53	40	0	0	60	0.97
1038436--1038486	20	2.6	19	78	9	57	31	0	1	66	1.03
1038782--1038825	2	22.0	2	90	0	70	2	47	0	50	1.13
1039561--1039625	20	3.2	20	76	12	69	12	7	4	75	1.17
1039561--1039631	21	3.5	19	72	12	61	12	8	4	74	1.19
1039562--1039635	20	3.7	19	75	12	67	13	8	4	74	1.19
1040847--1040896	2	25.0	2	87	0	73	44	0	6	50	1.26
1040856--1040903	16	3.1	16	88	11	82	39	0	10	50	1.37
1042525--1042553	2	14.5	2	100	0	58	48	0	0	51	1.00
1044331--1044373	16	2.6	16	85	3	59	60	2	0	37	1.10
1044761--1044790	14	2.1	15	93	6	53	43	13	10	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045148--1045182	2	17.5	2	100	0	70	51	0	0	48	1.00
1045377--1045424	2	24.0	2	100	0	96	50	0	0	50	1.00
1049817--1049843	13	2.1	13	100	0	54	25	14	7	51	1.68
1050131--1050169	19	2.1	19	90	4	62	46	0	0	53	1.00
1050131--1050177	18	2.7	18	84	12	62	46	0	0	53	1.00
1050134--1050186	14	3.2	16	82	15	56	50	0	0	49	1.00
1050345--1050372	14	2.0	14	100	0	56	50	0	0	50	1.00
1050341--1050380	8	5.4	8	82	14	50	52	0	2	45	1.14
1051417--1051441	2	12.5	2	100	0	50	48	0	0	52	1.00
1052478--1052513	18	2.0	18	94	0	63	80	0	2	16	0.83
1052896--1053035	41	3.4	41	71	5	113	45	12	12	29	1.78
1053856--1053884	13	2.1	14	93	6	51	41	0	0	58	0.98
1053844--1053892	20	2.5	20	75	0	53	46	4	0	48	1.20
1054960--1054999	3	13.3	3	100	0	80	67	0	0	32	0.91
1062578--1062698	62	2.0	62	88	3	181	33	14	17	34	1.90
1067277--1067319	21	2.0	21	86	0	59	25	27	20	25	1.99
1069570--1069638	26	2.7	25	76	14	77	57	5	0	36	1.22
1069570--1069641	27	2.8	26	76	4	83	58	5	0	36	1.22
1080139--1080179	15	2.5	17	88	7	59	51	0	2	46	1.14
1085589--1085761	86	2.0	86	92	2	285	50	9	14	26	1.72
1087454--1087525	35	2.0	35	84	12	94	41	4	0	54	1.20
1088492--1088525	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)
1088883--1088924	22	1.9	22	90	9	68	38	0	0	61	0.96
1088906--1088959	25	2.1	25	86	3	72	46	1	0	51	1.11
1093206--1094199	505	2.0	502	93	1	1713	43	8	7	40	1.64
1094458--1094496	20	2.0	20	84	0	51	46	2	0	51	1.14
1094641--1094669	3	10.0	3	92	7	51	34	0	0	65	0.93
1095214--1095254	22	1.9	21	90	5	64	43	0	0	56	0.99
1096234--1096388	83	1.9	83	82	5	197	53	10	3	31	1.54
1097056--1097085	12	2.4	13	94	5	53	0	10	0	90	0.47
1097056--1097097	15	2.8	15	85	0	57	2	9	2	85	0.77
1106313--1106359	21	2.2	22	81	11	62	57	0	0	42	0.98
1106330--1106363	10	3.3	10	84	8	50	50	0	0	50	1.00
1108893--1108967	26	3.2	26	66	25	74	45	1	0	53	1.08
1108897--1109028	45	2.8	45	85	5	147	43	5	0	50	1.30
1119001--1119039	3	13.0	3	94	0	69	30	2	66	0	1.05
1119735--1119791	5	11.6	5	78	14	57	38	0	0	61	0.96
1119692--1119791	43	2.3	44	83	11	125	41	0	1	58	1.05
1119735--1119791	9	5.8	10	74	17	57	38	0	0	61	0.96
1120106--1120195	12	7.2	13	66	15	55	36	3	0	60	1.14
1120419--1120523	2	52.5	2	88	0	147	45	0	1	52	1.11
1121106--1121139	6	5.3	6	86	13	50	38	0	0	61	0.96
1121105--1121138	7	5.1	7	86	13	54	41	0	0	58	0.98
1121105--1121139	13	2.7	13	100	0	70	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1121523--1121560	19	2.0	19	100	0	76	52	5	5	36	1.47
1122713--1122744	2	16.0	2	100	0	64	50	0	0	50	1.00
1123701--1123752	19	2.8	19	77	13	63	40	0	0	59	0.97
1125749--1125776	2	14.0	2	100	0	56	50	0	0	50	1.00
1127937--1127969	2	16.5	2	100	0	66	48	0	0	51	1.00
1132300--1132329	7	4.3	7	95	0	51	50	3	0	46	1.18
1141771--1141798	2	14.0	2	100	0	56	50	0	0	50	1.00
1148657--1148689	16	2.1	16	94	0	57	30	18	21	30	1.97
1151847--1151876	2	15.0	2	100	0	60	50	0	0	50	1.00
1152964--1153031	27	2.5	26	74	23	68	42	0	1	55	1.08
1156773--1156812	20	2.0	20	85	0	53	32	10	2	55	1.47
1159057--1159097	19	2.3	19	80	19	52	48	0	0	51	1.00
1159054--1159104	20	2.2	24	77	22	65	54	0	0	45	0.99
1159102--1159149	14	3.5	15	83	13	59	37	0	0	62	0.95
1165319--1165367	13	3.9	12	80	17	55	63	0	0	36	0.95
1165320--1165443	15	9.0	14	69	25	54	54	0	0	43	1.11
1165359--1165448	14	5.8	16	70	25	59	53	1	1	44	1.15
1165394--1165448	18	3.3	18	74	23	50	54	0	0	45	0.99
1165322--1165451	32	3.9	33	72	15	99	55	0	0	43	1.10
1166694--1166739	24	1.9	24	86	0	65	52	10	23	13	1.71
1182427--1182474	17	2.9	16	75	9	51	60	0	0	39	0.97
1182461--1182512	27	1.9	27	84	7	70	50	1	0	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188009--1188092	41	2.0	40	86	8	116	38	1	0	60	1.04
1189183--1189243	23	2.6	24	79	5	72	54	0	0	45	1.00
1190141--1190188	22	2.1	23	81	11	55	60	6	4	29	1.40
1190429--1190472	2	22.0	2	95	0	79	50	0	2	47	1.13
1190699--1190742	21	2.1	21	91	0	70	38	2	0	59	1.10
1194357--1194403	24	2.0	23	84	12	60	48	0	8	42	1.33
1196334--1196471	32	4.0	33	78	9	118	55	0	0	44	1.05
1196370--1196435	17	3.8	18	71	19	50	50	0	0	50	1.00
1196401--1196470	20	3.6	20	76	16	67	54	0	0	45	0.99
1196435--1196481	6	8.2	6	77	17	55	63	0	0	36	0.94

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