genome.fa.s123.2.7.7.80.10.50.1000.7.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: Scaffold123
Parameters: 2 7 7 80 10 50 1000
Length:  1422801

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1028 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)
1060836--1060862	10	2.7	10	100	0	54	0	18	0	81	0.69
1061165--1061707	168	3.3	167	87	2	770	50	9	10	29	1.67
1063964--1063989	13	2.0	13	100	0	52	38	15	15	30	1.88
1070160--1070198	13	3.0	13	96	0	69	30	17	15	35	1.91
1072039--1072134	48	2.0	48	100	0	192	37	8	29	25	1.85
1072686--1072758	20	3.6	20	81	3	101	36	13	17	31	1.89
1072703--1072779	21	3.7	21	77	6	86	42	11	16	28	1.84
1072686--1072779	41	2.3	41	94	3	163	39	12	18	29	1.88
1072818--1072843	13	2.0	13	100	0	52	38	15	15	30	1.88
1073720--1073860	52	2.7	52	85	1	183	28	14	14	42	1.85
1076250--1076681	80	5.4	79	76	4	341	30	25	10	33	1.89
1078683--1078755	20	3.6	20	81	3	101	35	13	19	31	1.91
1078701--1078776	21	3.7	21	78	3	91	40	11	17	30	1.85
1078683--1078776	41	2.3	41	96	0	170	38	12	18	30	1.88
1078815--1078840	13	2.0	13	100	0	52	38	15	15	30	1.88
1082903--1082933	15	2.1	15	93	0	53	48	16	22	12	1.80
1084947--1085026	20	3.7	21	73	16	74	26	15	15	43	1.85
1085013--1085050	13	2.9	13	88	11	60	31	21	15	31	1.94
1086841--1086907	35	1.9	35	100	0	134	26	2	23	46	1.67
1087525--1087597	20	3.6	20	81	3	101	35	13	19	31	1.91
1087543--1087618	21	3.7	21	78	3	91	40	11	17	30	1.85
1087525--1087618	41	2.3	41	96	0	170	38	12	18	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1087657--1087682	13	2.0	13	100	0	52	38	15	15	30	1.88
1089451--1089716	79	3.4	78	82	4	329	41	10	18	28	1.84
1089667--1089785	51	2.3	51	86	0	166	39	12	21	26	1.89
1089588--1089858	130	2.1	129	84	4	350	40	9	21	28	1.85
1089725--1089875	78	1.9	78	89	4	232	39	12	19	28	1.89
1091782--1091856	35	2.2	33	90	4	123	34	17	18	29	1.94
1093850--1093916	33	2.0	33	88	0	98	34	11	13	40	1.81
1093870--1093894	13	1.9	13	100	0	50	36	16	16	32	1.90
1093960--1093986	13	2.1	13	100	0	54	29	14	14	40	1.86
1093939--1094005	33	2.0	34	88	2	100	35	16	10	37	1.83
1099333--1099376	16	2.6	18	79	20	58	18	0	20	61	1.35
1099333--1099392	16	3.6	16	76	15	50	16	0	21	61	1.34
1101234--1101273	16	2.5	16	83	0	53	12	22	7	57	1.60
1101479--1101513	18	1.9	18	94	0	61	48	5	8	37	1.58
1102251--1102275	13	1.9	13	100	0	50	32	16	20	32	1.94
1104033--1104087	19	2.8	19	77	2	56	32	18	10	38	1.85
1104116--1104176	31	2.0	31	87	6	88	32	8	22	36	1.84
1109198--1109238	18	2.2	19	86	4	57	24	0	19	56	1.42
1111841--1111891	19	2.6	19	84	3	66	29	17	13	39	1.88
1111940--1112002	33	1.9	33	90	6	101	33	11	23	31	1.90
1114893--1114930	16	2.4	16	95	0	67	21	0	52	26	1.47
1116336--1117084	48	15.8	48	78	11	609	30	18	26	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116687--1116944	87	2.9	87	88	2	372	29	20	25	25	1.99
1116775--1117084	135	2.3	135	92	0	503	28	20	25	25	1.99
1116911--1117084	87	2.0	87	91	0	285	28	21	24	25	1.99
1117106--1117230	29	4.3	29	82	9	148	18	16	32	33	1.93
1117244--1117893	27	21.7	27	78	14	499	32	14	32	21	1.93
1117152--1117778	88	6.9	89	83	9	673	31	13	32	22	1.93
1117239--1117893	238	2.8	229	82	11	782	32	14	32	21	1.92
1117242--1117872	61	10.5	60	79	13	544	32	13	32	21	1.92
1119097--1119128	10	3.1	10	95	4	55	0	0	12	87	0.54
1126108--1126160	21	2.7	20	85	8	72	33	16	15	33	1.90
1129033--1129173	75	1.9	76	86	4	205	39	10	19	30	1.85
1129144--1129226	28	2.9	28	77	12	78	39	8	22	28	1.83
1129207--1129499	158	1.9	158	86	2	419	41	8	18	31	1.80
1129206--1129543	78	4.3	79	80	5	337	40	9	19	30	1.83
1132064--1132139	31	2.5	31	93	0	125	40	14	15	28	1.87
1144133--1144367	97	2.4	97	85	2	321	29	14	28	28	1.95
1145362--1145411	22	2.3	22	100	0	100	38	4	4	54	1.38
1147183--1147994	28	28.4	27	83	6	771	24	16	28	29	1.97
1147183--1147994	56	14.2	56	84	5	898	24	16	28	29	1.97
1147183--1147994	200	4.1	201	87	3	1090	24	16	28	29	1.97
1157624--1157658	15	2.3	15	100	0	70	17	5	20	57	1.60
1160930--1161076	52	2.8	52	92	1	249	27	17	19	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161065--1161089	13	1.9	13	100	0	50	36	16	16	32	1.90
1161043--1161110	34	2.0	34	94	0	118	35	11	19	33	1.88
1162002--1162202	29	6.9	29	80	3	224	21	17	28	31	1.96
1162002--1162162	88	1.8	88	95	0	295	22	17	29	30	1.97
1162002--1162202	59	3.4	58	86	2	242	21	17	28	31	1.96
1162187--1162372	34	5.5	34	80	5	225	30	10	36	23	1.89
1162187--1162380	68	2.9	68	92	0	316	30	10	36	22	1.88
1163805--1163866	1	62.0	1	77	0	52	0	1	11	87	0.62
1163793--1163874	13	6.2	13	80	10	87	0	2	13	84	0.73
1163793--1163874	17	5.0	16	80	18	73	0	2	13	84	0.73
1163793--1163866	28	2.7	26	80	13	87	0	1	13	85	0.67
1163806--1163874	9	7.4	9	76	15	61	0	2	11	85	0.70
1166796--1166945	52	2.9	52	89	2	221	29	17	18	35	1.93
1166986--1167037	13	3.5	13	73	26	50	32	21	13	32	1.92
1166986--1167056	32	2.2	32	97	0	133	33	21	12	32	1.91
1166994--1167057	19	3.7	19	76	23	77	34	20	12	32	1.90
1166993--1167078	19	4.8	18	76	22	74	31	19	11	37	1.88
1167960--1167986	13	2.1	13	100	0	54	40	14	14	29	1.86
1169694--1169742	27	1.9	24	88	12	71	0	30	0	69	0.89
1173928--1174052	52	2.4	52	93	0	205	28	16	17	36	1.92
1173928--1174072	52	2.8	51	87	4	193	30	16	17	35	1.93
1174061--1174085	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)
1174149--1174173	13	1.9	13	100	0	50	32	16	16	36	1.90
1174127--1174193	33	2.0	33	88	0	98	40	14	11	32	1.83
1174872--1175267	65	6.2	63	80	7	424	24	21	15	38	1.93
1174874--1175318	129	3.4	127	80	8	441	24	21	15	37	1.93
1174875--1175238	194	1.9	189	85	5	507	24	22	16	36	1.94
1174840--1175317	65	7.3	65	78	9	409	25	21	15	37	1.93
1175856--1175928	21	3.5	21	77	7	69	45	12	12	30	1.78
1175855--1175907	20	2.6	21	84	3	72	43	11	15	30	1.81
1175964--1176103	52	2.7	53	83	2	151	30	15	12	42	1.83
1178485--1178654	52	3.3	52	82	7	213	30	25	10	34	1.90
1178676--1178907	80	2.9	79	78	6	245	31	24	9	34	1.87
1180524--1180812	150	1.9	151	81	2	350	42	12	8	36	1.74
1180693--1180940	127	2.0	127	92	0	415	43	12	9	34	1.75
1182989--1183166	71	2.5	71	96	0	320	34	19	16	28	1.94
1183169--1183195	13	2.1	13	100	0	54	29	14	14	40	1.86
1183179--1183233	19	2.8	19	88	2	83	32	16	16	34	1.91
1185241--1185283	21	2.1	20	83	12	52	53	9	13	23	1.69
1185241--1185283	20	2.1	21	83	12	54	53	9	13	23	1.69
1189975--1189999	13	1.9	13	100	0	50	32	20	16	32	1.94
1190146--1190170	13	1.9	13	100	0	50	36	16	16	32	1.90
1192551--1192597	23	2.0	24	84	12	62	61	19	4	14	1.49
1193490--1193544	21	2.6	21	85	0	65	18	21	0	60	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193505--1193548	21	2.1	21	91	0	70	20	18	0	61	1.35
1195636--1195660	13	1.9	13	100	0	50	32	20	16	32	1.94
1195651--1195714	33	1.9	33	100	0	128	37	9	21	31	1.85
1197979--1198020	22	1.9	22	100	0	84	38	2	35	23	1.68
1198654--1198706	13	4.5	13	69	26	55	30	13	18	37	1.89
1200971--1201268	43	7.0	43	72	8	169	33	15	28	22	1.94
1200969--1201210	85	2.8	85	77	3	227	31	14	28	24	1.95
1202018--1202043	13	2.0	13	100	0	52	30	15	15	38	1.88
1202103--1202195	20	4.6	20	84	5	125	32	18	13	35	1.90
1202082--1202195	41	2.8	41	91	1	176	31	17	13	37	1.88

Tables:   1   2   3   4   5   6   7   8   9