genome.fa.s83.2.7.7.80.10.50.1000.7.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: Scaffold83
Parameters: 2 7 7 80 10 50 1000
Length:  1211110

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 847 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)
1053581--1053636	20	2.7	21	86	5	78	39	14	17	28	1.89
1056230--1056264	16	2.2	16	90	5	54	28	17	17	37	1.92
1056511--1056561	25	2.2	21	86	13	66	52	1	1	43	1.23
1056618--1056670	19	2.8	18	76	21	54	37	3	3	54	1.36
1057687--1057729	19	2.3	19	84	11	54	39	2	0	58	1.11
1057811--1057857	20	2.2	22	85	7	62	65	0	2	31	1.04
1058880--1058923	2	22.0	2	100	0	88	50	0	0	50	1.00
1059808--1059859	18	3.1	18	81	10	65	28	3	3	63	1.30
1060379--1060414	2	18.0	2	100	0	72	50	0	0	50	1.00
1061884--1061909	13	2.0	13	100	0	52	30	15	15	38	1.88
1061969--1062041	20	3.6	20	81	3	101	31	19	13	35	1.91
1061948--1062041	41	2.3	41	96	0	170	30	18	12	38	1.88
1061948--1062023	21	3.7	21	78	3	91	30	17	11	40	1.85
1062410--1062458	20	2.4	21	86	3	64	40	8	24	26	1.83
1071672--1071724	1	53.0	1	82	0	61	1	3	3	90	0.59
1071673--1071724	19	2.8	18	85	8	68	1	3	3	90	0.60
1071671--1071724	27	2.0	26	86	13	74	1	5	3	88	0.67
1071672--1071724	28	1.9	27	88	3	79	1	3	3	90	0.59
1081058--1081086	13	2.2	13	100	0	58	27	13	17	41	1.87
1082966--1083021	21	2.6	21	75	10	51	51	1	23	23	1.57
1083564--1083625	19	3.1	20	81	9	81	35	12	16	35	1.87
1083540--1083602	32	1.9	33	90	3	101	28	17	14	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1085367--1085393	13	2.1	13	100	0	54	29	14	14	40	1.86
1093370--1093403	10	3.5	10	92	4	52	14	2	0	82	0.79
1095207--1095245	17	2.2	17	86	4	51	87	5	7	0	0.68
1095287--1095316	11	2.7	11	94	0	51	93	3	0	3	0.42
1096251--1096431	31	5.9	30	81	6	184	24	29	17	29	1.97
1096245--1096419	93	1.9	94	84	5	239	24	28	16	31	1.96
1096248--1096451	93	2.2	94	81	6	227	24	30	15	29	1.96
1096407--1096581	27	5.8	27	74	20	134	22	36	13	27	1.91
1096390--1096721	34	10.3	33	79	13	320	20	33	12	33	1.90
1096411--1096721	95	3.2	95	91	5	466	20	34	12	32	1.90
1096497--1096688	61	3.0	61	82	12	253	20	32	12	34	1.90
1096390--1096721	68	5.2	66	78	13	354	20	33	12	33	1.90
1096731--1096828	33	2.9	33	95	1	169	29	31	18	20	1.96
1096872--1097143	43	6.0	43	82	9	346	25	25	19	30	1.98
1096823--1097191	92	4.0	92	93	1	603	24	25	18	31	1.97
1097101--1097254	55	2.9	53	81	3	193	26	23	14	35	1.93
1098625--1098665	8	5.1	8	83	16	50	87	4	7	0	0.65
1098619--1098665	16	2.9	17	78	9	53	85	8	6	0	0.75
1098707--1098736	11	2.7	11	94	0	51	93	3	0	3	0.42
1099670--1099850	31	5.9	30	81	6	184	24	29	17	29	1.97
1099664--1099838	93	1.9	94	84	5	239	24	28	16	31	1.96
1099667--1099870	93	2.2	94	81	6	227	24	30	15	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099826--1100000	27	5.8	27	74	20	134	22	36	13	27	1.91
1099809--1100073	34	8.4	33	77	14	247	21	33	12	32	1.91
1099830--1100068	95	2.5	95	95	1	428	21	35	12	30	1.91
1099916--1100074	61	2.5	61	85	10	196	20	32	12	33	1.90
1103430--1103473	21	2.1	21	87	8	63	25	6	29	38	1.81
1105081--1105208	20	5.8	20	71	21	105	29	17	11	40	1.86
1105074--1105256	51	3.8	51	75	15	208	28	18	12	40	1.86
1105081--1105256	91	1.9	91	94	0	307	28	17	11	42	1.85
1115786--1115850	22	3.0	22	70	17	73	29	15	16	38	1.90
1116365--1116473	49	2.2	48	85	3	146	32	16	27	23	1.96
1116499--1117040	30	18.5	30	78	8	458	23	17	29	29	1.97
1116483--1117040	58	9.5	58	75	9	459	23	17	29	29	1.97
1116483--1116827	88	3.9	88	93	1	561	20	18	29	31	1.96
1116864--1117036	29	5.9	29	81	6	170	25	18	29	26	1.98
1116661--1117031	121	3.1	116	77	9	295	25	17	28	27	1.98
1118478--1118566	1	89.0	1	79	0	79	2	2	7	87	0.70
1118478--1118566	35	2.5	35	83	7	108	2	2	7	87	0.70
1118478--1118571	39	2.4	39	84	10	122	2	2	9	86	0.75
1128258--1128284	10	2.7	10	100	0	54	77	22	0	0	0.76
1132465--1132529	22	3.0	22	70	17	73	29	15	16	38	1.90
1134303--1134345	9	4.7	9	88	2	59	83	13	2	0	0.74
1135568--1136453	28	30.9	28	83	6	927	29	29	16	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1135568--1136444	57	15.3	57	85	3	1059	29	30	16	23	1.96
1135568--1136444	85	10.2	85	84	3	994	29	30	16	23	1.96
1137343--1137439	20	4.8	20	82	5	124	30	17	11	40	1.85
1140735--1140777	18	2.4	18	88	3	61	44	2	0	53	1.13
1142605--1142630	13	2.0	13	100	0	52	30	15	15	38	1.88
1142669--1142741	20	3.6	20	81	9	76	30	16	13	39	1.87
1142689--1142744	20	2.8	20	89	5	78	30	16	14	39	1.88
1143227--1143314	38	2.3	39	80	7	92	31	22	5	39	1.78
1143315--1143358	21	2.1	21	83	8	54	25	31	4	38	1.76
1145164--1145202	13	3.0	13	100	0	78	38	15	15	30	1.88
1147284--1147314	15	2.1	15	93	0	53	12	22	16	48	1.80
1149118--1149162	21	2.1	21	84	8	56	22	20	4	53	1.63
1151379--1151404	13	2.0	13	100	0	52	30	15	15	38	1.88
1152150--1152214	4	15.2	4	78	12	67	69	0	27	3	1.03
1152148--1152211	22	3.0	22	75	11	69	67	0	29	3	1.06
1152150--1152214	26	2.6	25	80	9	78	69	0	27	3	1.03
1152146--1152214	18	3.9	17	79	9	68	69	0	27	2	1.02
1154529--1155352	218	3.8	217	86	2	1136	38	9	7	44	1.64
1157290--1157334	23	2.0	23	82	8	56	48	4	2	44	1.35
1157835--1157877	9	4.6	9	82	5	50	55	0	0	44	0.99
1158332--1158368	17	2.2	18	85	9	51	35	0	0	64	0.94
1158547--1158581	15	2.3	15	90	0	52	45	2	2	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1158569--1158626	24	2.5	24	78	13	66	44	3	1	50	1.29
1158886--1158925	20	2.0	20	85	5	53	37	0	10	52	1.35
1163319--1163486	20	7.8	20	67	16	93	32	14	12	41	1.83
1163319--1163396	40	2.0	39	87	2	111	33	12	14	39	1.84
1163306--1163499	93	2.1	92	97	1	363	29	15	11	42	1.83
1177287--1177322	15	2.5	14	86	8	54	88	8	2	0	0.59
1178546--1180245	28	58.9	29	84	6	2035	28	31	17	22	1.97
1178543--1180246	201	8.4	199	85	5	2095	28	31	17	22	1.97
1180811--1180885	20	3.8	20	78	0	87	33	13	13	40	1.83
1180811--1180888	40	2.0	39	87	2	111	33	12	14	39	1.84
1180903--1180977	20	3.8	19	78	7	78	33	13	13	40	1.83
1180798--1181047	92	2.7	92	91	4	382	32	14	12	40	1.84
1180993--1181044	20	2.6	20	100	0	104	40	9	15	34	1.80
1182934--1183138	77	2.6	78	82	3	243	27	16	30	25	1.96
1183002--1183056	28	1.9	29	88	3	85	32	20	27	20	1.97
1183090--1183166	28	2.8	28	86	4	93	22	18	35	24	1.96
1183149--1183536	52	7.4	52	71	13	235	32	12	25	29	1.92
1183243--1183371	51	2.5	52	85	6	147	33	13	25	27	1.94
1183355--1183429	27	2.7	28	89	2	107	21	20	34	24	1.96
1183413--1183535	51	2.4	51	87	6	167	34	11	21	32	1.89
1185899--1185924	13	2.0	13	100	0	52	38	15	15	30	1.88
1185878--1185944	33	2.0	33	88	0	98	43	14	14	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185964--1186031	19	3.9	18	76	23	83	38	14	11	35	1.83
1185986--1186010	13	1.9	13	100	0	50	32	16	16	36	1.90
1185967--1186029	32	2.0	32	96	0	117	36	15	12	34	1.86
1189730--1189775	16	2.8	17	80	9	60	50	4	8	36	1.53
1197117--1197165	23	2.1	23	100	0	98	34	22	16	26	1.95
1200062--1200178	51	2.3	51	85	5	148	29	13	28	28	1.94
1200162--1200234	28	2.6	27	85	8	85	26	19	31	23	1.98
1206795--1208118	27	48.7	27	73	15	940	23	32	15	28	1.95
1208110--1208845	33	23.2	31	72	19	442	28	34	17	19	1.94
1208127--1208845	31	22.8	32	74	14	520	28	34	17	18	1.94

Tables:   1   2   3   4   5   6   7   8