genome.fa.s162.2.7.7.80.10.50.1000.7.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: Scaffold162
Parameters: 2 7 7 80 10 50 1000
Length:  1959167

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

This is table  7  of  12  ( 1418 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)
985681--985734	21	2.7	20	77	8	65	37	14	11	37	1.82
985678--985734	19	2.9	19	76	7	69	35	14	10	40	1.80
988551--988613	32	2.0	32	93	3	110	34	14	19	31	1.91
988558--988630	31	2.3	32	83	2	94	39	16	13	30	1.87
990701--990770	20	3.5	20	96	0	131	27	14	14	44	1.83
990759--990783	13	1.9	13	100	0	50	36	16	16	32	1.90
993122--993251	51	2.6	49	83	7	163	28	26	10	34	1.89
993319--993388	27	2.6	27	82	8	90	24	28	17	30	1.97
993373--993492	51	2.4	51	84	8	165	33	29	9	28	1.88
993455--993655	80	2.5	81	75	7	198	27	26	14	31	1.95
995150--995179	4	7.5	4	92	0	51	23	3	0	73	0.98
1006561--1006744	55	3.3	55	81	5	212	30	27	17	24	1.97
1006791--1006973	61	3.0	62	88	4	282	25	25	18	30	1.98
1006615--1006907	155	1.9	151	82	6	367	27	29	17	25	1.98
1006944--1007139	42	4.5	43	76	8	175	19	25	15	38	1.92
1006944--1007139	87	2.3	85	82	6	225	19	25	15	38	1.92
1007146--1007244	41	2.4	41	81	6	112	21	27	8	43	1.80
1010383--1010469	28	3.1	28	80	8	88	22	27	16	33	1.95
1010444--1010559	51	2.3	49	84	7	144	31	27	11	30	1.91
1010492--1010725	79	2.9	77	79	5	261	26	27	14	31	1.95
1011693--1011805	60	1.9	59	89	7	176	16	9	21	52	1.72
1011693--1011823	59	2.2	60	85	9	173	18	12	19	49	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1012298--1012372	20	3.8	20	78	0	87	33	13	13	40	1.83
1012298--1012375	40	2.0	39	87	2	111	33	12	14	39	1.84
1013241--1013292	23	2.3	23	96	3	97	19	11	9	59	1.59
1026317--1026376	9	7.0	9	82	3	54	85	10	3	1	0.79
1026320--1026356	8	4.9	8	80	12	51	89	10	0	0	0.49
1026317--1026376	17	3.5	17	75	6	59	85	10	3	1	0.79
1026319--1026381	20	3.0	20	84	6	72	84	7	4	3	0.87
1027597--1029003	28	49.0	29	87	5	1814	27	31	18	22	1.97
1027596--1029003	343	4.1	341	90	2	2013	27	31	18	22	1.97
1029565--1029639	20	3.8	20	78	0	87	33	13	13	40	1.83
1029565--1029642	40	2.0	39	87	2	111	33	12	14	39	1.84
1030544--1030594	22	2.3	22	100	0	102	19	11	9	58	1.60
1033447--1033856	66	6.2	66	74	2	254	17	24	13	44	1.85
1035240--1035268	11	2.5	12	94	5	51	31	0	0	68	0.89
1035240--1035268	6	5.0	6	91	8	51	31	0	0	68	0.89
1038603--1038646	21	2.1	21	83	8	54	31	22	4	40	1.74
1042633--1042673	2	20.5	2	92	0	64	2	0	43	53	1.13
1046342--1046378	6	6.2	6	93	0	65	29	0	32	37	1.58
1046858--1046882	7	3.6	7	100	0	50	28	24	16	32	1.96
1047307--1047394	29	3.0	30	81	6	117	14	13	13	57	1.65
1052481--1052518	2	19.0	2	100	0	76	50	0	0	50	1.00
1055471--1055505	3	11.7	3	100	0	70	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056170--1056662	249	2.0	250	90	4	780	31	6	9	52	1.60
1057072--1057112	17	2.5	17	80	7	50	43	2	0	53	1.13
1057217--1057258	9	4.4	9	88	11	66	85	0	14	0	0.59
1057217--1057258	20	2.2	18	91	8	66	85	0	14	0	0.59
1057284--1057404	24	5.1	24	69	20	85	33	0	2	63	1.08
1057308--1057364	13	4.1	13	74	22	53	24	0	3	71	1.01
1057294--1057362	29	2.3	32	78	12	74	30	0	2	66	1.06
1057283--1057345	17	3.6	17	75	21	67	28	0	0	71	0.86
1057371--1057434	19	3.5	19	77	14	62	35	1	4	57	1.29
1057632--1057658	2	13.5	2	100	0	54	51	0	0	48	1.00
1061554--1061625	23	3.2	23	84	2	92	50	18	2	29	1.61
1061583--1061637	23	2.4	23	81	6	58	60	20	3	16	1.51
1061645--1061692	21	2.2	22	82	10	55	66	6	6	20	1.36
1067875--1067920	21	2.1	22	84	4	58	19	30	19	30	1.97
1076246--1076276	2	15.5	2	100	0	62	48	0	0	51	1.00
1076544--1076614	22	3.0	25	80	13	71	64	0	5	29	1.16
1076551--1076621	24	3.0	24	84	11	94	60	0	5	33	1.20
1076620--1076660	17	2.4	17	84	11	57	53	0	0	46	1.00
1076567--1076657	27	3.4	28	74	20	79	57	0	3	39	1.15
1076957--1076995	7	5.6	7	96	0	69	15	25	15	43	1.86
1077303--1077349	15	2.8	17	81	18	62	46	0	0	53	1.00
1079329--1079353	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1079313--1079374	33	1.9	32	90	3	97	40	17	14	27	1.89
1080876--1081023	79	1.9	79	85	0	206	40	14	17	27	1.89
1081032--1081499	79	5.9	78	77	7	397	33	11	25	29	1.91
1080913--1081198	132	2.2	131	80	6	294	36	13	23	26	1.92
1081070--1081499	161	2.7	157	80	7	465	33	11	25	29	1.90
1090794--1090827	3	11.3	3	100	0	68	32	32	0	35	1.58
1092509--1092557	19	2.5	20	86	3	64	36	16	16	30	1.91
1096283--1096339	20	2.8	20	86	2	69	24	10	14	50	1.73
1098743--1099233	79	6.2	79	81	1	507	28	23	12	35	1.91
1098743--1099235	237	2.1	239	83	4	611	28	23	12	35	1.91
1102138--1102169	2	16.0	2	100	0	64	50	0	0	50	1.00
1103073--1103123	21	2.4	21	81	12	61	23	1	0	74	0.92
1103091--1103128	20	1.9	20	84	10	51	26	2	0	71	1.00
1103149--1103212	31	2.1	30	85	8	85	57	10	6	25	1.56
1116822--1116938	40	2.9	40	98	0	225	11	29	11	47	1.73
1116837--1116940	20	5.2	20	66	25	76	12	30	10	46	1.76
1130257--1130298	18	2.2	19	83	8	50	50	2	14	33	1.56
1130777--1130822	25	1.9	23	83	16	58	39	2	6	52	1.40
1131911--1131958	20	2.4	21	79	10	55	77	0	16	6	0.97
1131957--1132029	14	5.2	14	71	17	53	36	0	0	63	0.95
1131961--1132001	19	2.0	20	86	13	57	29	0	0	70	0.87
1131972--1132049	36	2.2	34	80	10	86	33	0	1	65	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132591--1132617	10	2.7	10	100	0	54	81	0	18	0	0.69
1133495--1133531	15	2.3	17	86	9	51	37	0	0	62	0.96
1142117--1142146	14	2.1	14	100	0	60	36	6	30	26	1.82
1154914--1154943	7	4.3	7	91	0	51	0	23	16	60	1.36
1157450--1157601	76	2.0	78	82	7	186	36	20	11	31	1.88
1162900--1163020	52	2.3	52	94	0	206	29	17	17	35	1.93
1162900--1163040	52	2.7	51	87	4	194	31	17	17	34	1.93
1163009--1163074	20	3.7	20	73	26	83	39	15	18	27	1.90
1163029--1163086	13	4.9	13	72	23	65	37	15	17	29	1.90
1163008--1163086	33	2.4	33	100	0	158	39	15	17	27	1.90
1163127--1163185	13	4.1	13	76	23	64	33	16	13	35	1.88
1163142--1163225	19	4.7	19	81	18	117	35	19	11	33	1.88
1163129--1163204	32	2.4	32	100	0	152	34	18	13	34	1.89
1164295--1164357	29	2.3	25	76	21	72	46	19	7	26	1.77
1165548--1165600	13	4.2	13	83	4	65	0	18	0	81	0.70
1165559--1165600	14	3.1	14	76	13	52	0	14	0	85	0.59
1165559--1165600	20	2.1	21	86	8	61	0	14	0	85	0.59
1166903--1167020	32	3.7	32	79	3	123	22	18	29	29	1.97
1166903--1167608	28	24.2	30	79	8	246	24	17	29	28	1.97
1166934--1167683	56	12.9	61	79	9	294	24	16	29	29	1.97
1167085--1167200	61	1.9	61	85	3	162	31	17	20	31	1.96
1167011--1167683	143	4.7	141	82	4	699	24	16	29	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1167011--1167683	28	23.5	28	82	5	713	24	16	29	29	1.97
1168963--1169002	13	3.1	13	85	0	53	5	5	2	87	0.73
1168959--1169002	15	3.0	14	80	9	52	4	4	4	86	0.79
1172510--1172576	37	1.9	35	88	11	102	29	25	11	32	1.92
1173055--1173080	13	2.0	13	100	0	52	30	23	15	30	1.95
1173177--1173218	21	2.0	21	95	0	75	38	9	21	30	1.85
1173268--1173404	53	2.6	53	95	1	247	27	17	18	37	1.93
1173374--1173444	20	3.5	20	77	11	74	29	14	16	39	1.88
1173484--1173524	21	2.0	21	85	9	57	39	9	12	39	1.76
1175155--1175179	13	1.9	13	100	0	50	32	16	16	36	1.90

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