genome.fa.s142.2.7.7.80.10.50.1000.6.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: Scaffold142
Parameters: 2 7 7 80 10 50 1000
Length:  1427168

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 953 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)
1021772--1021802	11	2.8	11	95	0	53	87	3	0	9	0.66
1025173--1025680	255	2.0	257	90	1	797	36	11	14	37	1.82
1025956--1026014	23	2.5	24	83	13	77	79	3	0	16	0.86
1025938--1026016	11	6.5	11	72	21	59	77	3	1	17	0.99
1029959--1030010	8	6.2	8	78	8	50	50	0	0	50	1.00
1029963--1030012	17	2.9	17	78	0	55	52	0	0	48	1.00
1030042--1030083	15	2.9	14	89	7	57	50	2	0	47	1.14
1032994--1033045	2	27.0	2	81	14	65	48	1	0	50	1.12
1032999--1033055	28	2.0	28	96	0	105	43	3	0	52	1.18
1033493--1033531	19	2.0	20	85	5	53	25	17	2	53	1.56
1033774--1033818	21	2.1	21	84	8	56	44	4	2	48	1.35
1035863--1035894	2	16.0	2	100	0	64	50	0	0	50	1.00
1035980--1036017	17	2.3	16	86	8	58	47	0	0	52	1.00
1036170--1036227	2	29.0	2	96	0	107	51	0	0	48	1.00
1036769--1036822	20	2.5	21	79	8	56	66	1	0	31	1.02
1037543--1037575	12	2.6	13	90	4	50	51	0	0	48	1.00
1037593--1037617	12	2.1	12	100	0	50	76	0	0	24	0.80
1043383--1043430	22	2.3	21	76	20	55	43	0	0	56	0.99
1043398--1043458	31	2.0	29	84	6	77	36	0	0	63	0.94
1044669--1044713	19	2.4	19	82	10	58	53	0	0	46	1.00
1044698--1044730	11	3.2	11	83	16	52	45	0	0	54	0.99
1045147--1045205	18	3.1	18	77	17	57	66	1	0	32	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045147--1045211	22	3.2	21	81	12	57	67	1	0	30	1.00
1045143--1045210	31	2.3	29	84	5	82	66	1	0	32	1.01
1045475--1045586	28	4.1	27	69	18	79	43	0	0	55	1.05
1045485--1045526	19	2.3	18	91	4	66	38	0	0	61	0.96
1045487--1045551	19	3.4	19	79	14	62	38	0	0	61	0.96
1045458--1045548	9	9.7	10	70	18	54	39	0	0	60	0.97
1045496--1045598	18	5.9	17	71	18	61	43	0	0	55	1.06
1045846--1045887	19	2.1	19	86	8	57	40	0	0	59	0.97
1046100--1046144	22	2.1	21	87	4	63	64	2	0	33	1.06
1046468--1046519	21	2.4	21	84	9	61	38	0	1	59	1.08
1052214--1052240	13	2.1	13	100	0	54	44	18	14	22	1.86
1052688--1052738	25	2.0	26	96	3	95	43	3	0	52	1.19
1052876--1052914	18	2.2	18	86	9	53	28	0	5	66	1.12
1052876--1052927	18	3.0	17	81	10	52	34	0	3	61	1.14
1057984--1058030	16	2.9	16	82	14	53	42	0	0	57	0.98
1057982--1058092	49	2.3	49	76	17	115	46	0	0	52	1.06
1065690--1065726	19	2.0	20	89	10	60	29	0	0	70	0.88
1069715--1069749	8	4.2	8	89	7	52	40	0	0	60	0.97
1069715--1069749	17	2.1	16	89	5	52	40	0	0	60	0.97
1070041--1070080	21	2.0	20	85	14	55	55	0	2	42	1.13
1070155--1070179	8	3.1	8	100	0	50	24	0	0	76	0.80
1070127--1070216	41	2.2	41	83	13	107	36	1	2	60	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1071282--1071318	2	18.5	2	100	0	74	51	0	0	48	1.00
1071978--1072018	14	2.9	14	82	10	57	53	0	0	46	1.00
1072023--1072084	30	2.1	30	93	0	106	48	9	4	37	1.57
1076860--1077191	170	2.0	169	87	3	488	46	23	6	22	1.75
1079838--1079862	12	2.1	12	100	0	50	48	0	0	52	1.00
1083312--1083352	14	2.9	15	78	7	50	39	0	2	58	1.11
1085465--1085517	23	2.5	21	75	9	54	33	1	5	58	1.32
1085523--1085634	25	4.5	25	71	15	72	41	0	0	57	1.11
1085587--1085640	25	2.2	25	83	6	65	33	1	1	62	1.16
1087297--1087324	7	4.0	7	100	0	56	57	0	28	14	1.38
1088028--1088054	2	13.5	2	100	0	54	51	0	0	48	1.00
1092268--1092299	2	16.0	2	100	0	64	50	50	0	0	1.00
1094127--1094163	2	18.5	2	100	0	74	51	0	48	0	1.00
1095050--1095139	12	7.0	12	75	17	74	10	68	1	20	1.24
1095051--1095139	6	13.8	6	82	11	61	8	69	1	20	1.21
1095087--1095139	18	2.9	18	91	5	81	11	69	0	18	1.17
1097403--1097457	24	2.4	24	79	11	62	45	0	0	54	0.99
1097883--1097913	2	15.5	2	93	0	53	51	3	0	45	1.17
1098254--1098395	70	2.0	71	83	5	178	45	11	7	35	1.67
1105664--1105701	15	2.5	15	87	8	51	31	0	0	68	0.90
1105665--1105735	21	3.3	22	72	16	60	36	0	0	63	0.95
1105673--1105801	29	4.4	27	74	15	89	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)
1105682--1105794	59	1.9	58	86	10	160	42	0	0	57	0.98
1105727--1105836	22	5.2	21	71	20	70	40	0	0	58	1.04
1106075--1106113	11	3.5	11	83	10	53	61	0	2	35	1.10
1106735--1106785	20	2.5	20	78	15	68	54	0	0	45	0.99
1112055--1112102	25	1.9	25	83	8	62	45	0	6	47	1.27
1112073--1112150	27	3.0	26	75	14	70	37	1	3	57	1.25
1112108--1112158	5	9.6	5	81	12	57	33	0	1	64	1.05
1112110--1112158	17	2.9	17	85	8	66	32	0	2	65	1.04
1112108--1112161	12	4.3	12	83	4	63	33	0	1	64	1.04
1112672--1112726	27	2.0	28	83	16	71	47	0	1	50	1.11
1113428--1113466	18	2.2	18	86	9	53	43	0	2	53	1.14
1113827--1113870	18	2.5	17	81	7	52	50	0	0	50	1.00
1116155--1116201	24	2.0	24	86	0	67	17	21	6	55	1.64
1116920--1116977	22	2.6	24	84	13	79	34	0	0	65	0.93
1116920--1116990	17	3.8	19	76	14	67	35	0	0	64	0.94
1116906--1117000	12	8.4	12	72	18	55	37	0	1	61	1.03
1116881--1117003	22	5.8	22	70	18	75	40	0	0	58	1.04
1118780--1118817	17	2.1	19	90	9	62	28	5	10	55	1.56
1122893--1122937	15	2.9	15	83	3	54	62	0	0	37	0.96
1123141--1123232	49	1.9	47	84	4	121	50	2	7	40	1.43
1123974--1124031	10	5.9	9	79	16	62	1	17	0	81	0.78
1123982--1124031	15	3.5	14	76	12	57	2	18	0	80	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1123974--1124031	19	2.9	19	80	16	64	1	17	0	81	0.78
1124383--1124446	23	2.5	24	82	14	67	64	1	0	34	1.03
1124392--1124453	23	2.6	24	80	12	74	66	0	0	33	0.92
1124392--1124446	24	2.3	24	84	12	69	65	0	0	34	0.93
1124470--1124509	11	3.7	10	84	15	53	0	15	0	85	0.61
1126420--1126448	14	2.1	14	100	0	58	86	0	0	13	0.58
1126467--1126524	20	3.0	20	80	10	66	44	0	0	55	0.99
1129723--1129748	4	6.5	4	100	0	52	23	0	0	76	0.78
1135453--1135504	17	2.9	18	82	5	61	63	0	0	36	0.95
1135682--1135715	18	1.9	17	88	5	50	26	8	2	61	1.40
1136796--1136820	8	3.1	8	100	0	50	40	0	0	60	0.97
1137151--1137254	28	3.6	28	76	17	97	56	0	0	43	0.99
1137259--1137302	23	2.0	22	86	4	61	63	2	2	31	1.19
1137738--1137778	17	2.5	17	84	4	57	51	0	2	46	1.14
1138113--1138137	8	3.1	8	100	0	50	84	0	16	0	0.63
1141788--1141858	36	2.0	36	83	2	90	43	0	0	56	0.99
1142802--1142833	2	16.0	2	100	0	64	50	0	0	50	1.00
1143188--1143219	7	4.6	7	96	0	55	50	0	0	50	1.00
1145528--1145601	22	3.3	22	72	23	64	51	0	2	45	1.15
1145800--1145871	27	2.6	28	75	18	80	45	0	0	54	0.99
1145838--1145887	16	3.1	16	97	0	91	48	0	0	52	1.00
1145838--1145900	32	2.0	32	84	6	83	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145951--1145993	22	2.0	22	90	4	70	55	0	0	44	0.99
1146538--1146585	24	2.0	24	84	12	62	50	0	0	50	1.00
1146542--1146595	20	2.8	19	89	10	83	55	0	0	44	0.99
1147082--1147127	13	3.4	13	82	11	56	56	0	0	43	0.99
1147223--1147294	19	3.6	19	73	14	54	52	6	2	37	1.43
1147238--1147285	23	2.1	23	88	0	69	50	4	2	43	1.33
1149332--1149477	30	4.9	30	90	0	229	40	6	32	20	1.79
1149348--1149424	15	5.1	15	64	17	52	37	9	32	20	1.84
1149457--1149496	21	1.9	21	94	0	71	37	0	35	27	1.57
1150968--1151030	13	4.8	12	75	21	56	69	3	0	26	1.03

Tables:   1   2   3   4   5   6   7   8