genome.fa.s320.2.7.7.80.10.50.1000.8.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: Scaffold320
Parameters: 2 7 7 80 10 50 1000
Length:  2598547

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  8  of  17  ( 1971 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)
1095064--1095888	32	26.6	32	87	3	1090	30	31	18	19	1.96
1096500--1096574	20	3.8	20	78	0	87	34	13	12	40	1.81
1096500--1096577	40	2.0	39	87	2	111	34	12	12	39	1.82
1100286--1100338	21	2.5	21	79	8	63	49	0	0	50	1.00
1100703--1100731	2	14.5	2	100	0	58	51	0	0	48	1.00
1105413--1105441	2	14.5	2	100	0	58	48	0	0	51	1.00
1106917--1106963	21	2.2	21	84	3	58	36	2	10	51	1.49
1110817--1110883	21	3.0	22	70	12	55	53	4	1	40	1.30
1113462--1113503	22	1.9	22	90	9	68	38	0	0	61	0.96
1114613--1114670	29	2.0	30	89	3	91	39	1	0	58	1.08
1116818--1116881	32	2.0	33	93	3	112	35	14	12	37	1.83
1118958--1119013	20	2.7	22	84	13	66	46	0	0	53	1.00
1119487--1119524	19	1.9	19	89	5	58	36	0	10	52	1.36
1119729--1119787	22	2.6	22	75	17	59	50	0	0	49	1.00
1119818--1119931	13	8.6	13	64	23	51	50	4	1	43	1.32
1120175--1120217	21	2.0	22	95	4	79	39	0	0	60	0.97
1120170--1120226	21	3.1	17	79	20	69	45	0	0	54	0.99
1120099--1120420	177	1.8	175	91	2	529	48	4	4	42	1.44
1120352--1120394	21	2.0	22	90	4	70	44	0	2	53	1.13
1120349--1120404	18	2.9	20	76	10	71	50	0	1	48	1.11
1120800--1120833	17	1.9	18	94	5	61	35	0	0	64	0.94
1120801--1120839	17	2.3	17	86	8	53	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1121829--1121858	2	15.0	2	100	0	60	50	0	0	50	1.00
1125587--1125619	8	4.0	8	96	4	57	36	3	0	60	1.12
1130051--1130081	2	15.5	2	93	0	53	51	3	0	45	1.17
1130856--1130885	15	1.9	16	93	6	53	13	0	0	86	0.57
1133018--1133066	20	2.4	21	83	12	59	51	4	0	44	1.20
1133448--1133503	21	2.6	21	77	2	58	44	0	1	53	1.11
1133747--1133777	2	15.5	2	100	0	62	48	0	0	51	1.00
1136232--1136256	1	25.0	1	100	0	50	0	100	0	0	0.00
1137083--1137107	2	12.5	2	100	0	50	48	0	0	52	1.00
1139259--1139326	26	2.6	26	80	0	73	32	26	13	27	1.93
1140426--1140453	2	14.0	2	100	0	56	50	0	0	50	1.00
1147675--1147707	2	16.5	2	100	0	66	51	0	48	0	1.00
1149715--1149740	3	8.7	3	100	0	52	34	0	30	34	1.58
1153299--1153336	18	2.1	18	90	0	58	52	0	0	47	1.00
1153418--1153473	26	2.2	26	83	6	69	48	0	3	48	1.19
1153710--1153743	17	2.0	17	94	0	59	58	8	0	32	1.29
1153759--1153800	16	2.6	16	84	3	57	21	2	4	71	1.16
1155582--1155625	2	22.0	2	100	0	88	50	0	0	50	1.00
1156179--1156220	22	2.0	21	90	4	66	35	9	0	54	1.33
1156585--1156614	3	10.0	3	100	0	60	66	0	0	33	0.92
1157810--1157847	13	3.0	13	88	3	51	65	0	2	31	1.06
1158936--1158960	12	2.1	12	100	0	50	40	0	16	44	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159762--1159799	20	1.9	20	84	10	51	31	2	2	63	1.22
1161340--1161366	2	13.5	2	100	0	54	51	0	0	48	1.00
1162185--1162209	13	1.9	13	100	0	50	48	0	4	48	1.20
1162404--1162459	24	2.3	24	79	8	69	25	1	0	73	0.93
1162640--1162687	17	3.1	16	88	11	66	66	0	0	33	0.92
1162628--1162752	41	3.1	39	68	17	96	62	1	0	36	1.05
1162704--1162759	10	5.5	10	75	12	51	58	0	0	41	0.98
1163006--1163059	16	3.6	16	76	19	62	42	0	0	57	0.98
1163041--1163083	17	2.5	18	74	11	54	39	2	2	55	1.25
1163216--1163253	17	2.2	17	86	9	51	28	2	13	55	1.51
1169086--1169126	21	2.0	20	85	4	55	48	2	2	46	1.28
1169608--1169644	3	12.3	3	100	0	74	67	0	0	32	0.91
1169926--1169991	23	3.0	22	73	8	62	54	0	0	45	0.99
1170313--1170349	10	3.7	10	85	0	56	78	0	10	10	0.97
1170508--1170546	2	19.5	2	89	0	60	43	0	5	51	1.24
1170773--1170856	29	2.9	28	76	13	89	29	2	1	66	1.11
1170767--1170864	28	3.4	28	73	12	81	30	4	3	62	1.29
1170773--1170886	57	2.0	60	85	5	162	31	4	2	61	1.29
1170851--1170907	30	1.9	30	85	0	78	38	12	5	43	1.65
1171599--1171650	14	3.6	14	82	10	52	50	0	1	48	1.12
1171692--1171742	20	2.6	19	81	3	57	52	0	3	43	1.19
1171721--1171784	24	2.5	25	74	20	62	51	3	3	42	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171817--1171906	44	2.0	43	81	10	101	51	6	1	41	1.35
1172138--1172233	15	6.4	15	73	18	76	56	2	1	40	1.18
1172138--1172233	30	3.2	30	78	12	108	56	2	1	40	1.18
1172155--1172236	21	3.7	21	66	9	56	56	2	0	41	1.13
1173176--1173213	14	2.7	15	84	12	53	68	2	2	26	1.16
1173589--1173627	19	2.1	19	85	9	53	23	2	15	58	1.49
1183502--1183562	26	2.3	26	97	0	113	47	18	9	24	1.78
1186489--1186533	23	1.9	24	81	4	56	44	6	4	44	1.50
1186615--1186694	8	9.4	8	74	17	54	68	0	2	28	1.02
1186615--1186694	17	4.6	17	75	15	67	68	0	2	28	1.02
1186599--1186696	44	2.2	45	78	12	112	61	0	3	35	1.12
1187266--1187362	40	2.5	39	79	17	112	29	2	3	64	1.20
1187253--1187363	18	5.8	18	65	27	50	31	1	2	63	1.18
1187606--1187700	43	2.2	43	92	1	154	49	2	5	43	1.37
1187626--1187694	20	3.3	20	68	18	59	49	2	4	43	1.37
1187617--1187712	43	2.2	42	86	3	111	47	4	7	40	1.50
1188883--1188912	2	15.0	2	100	0	60	50	0	0	50	1.00
1190037--1190099	26	2.4	25	73	19	65	50	0	0	49	1.00
1191128--1191154	14	1.9	14	100	0	54	51	0	0	48	1.00
1193185--1193212	4	7.0	4	100	0	56	25	0	0	75	0.81
1193447--1193500	23	2.5	22	82	14	69	57	0	0	42	0.98
1193542--1193596	17	3.5	16	78	12	51	47	3	0	49	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193557--1193605	23	2.2	22	81	3	53	48	2	0	48	1.12
1194598--1194627	14	2.1	15	93	6	53	90	0	10	0	0.47
1196419--1196471	15	3.2	16	84	13	63	45	1	0	52	1.11
1203226--1203276	23	2.2	23	86	10	77	49	0	0	50	1.00
1208214--1208341	64	2.0	64	92	0	211	37	22	17	21	1.94
1211512--1211563	26	2.0	26	96	0	95	50	13	7	28	1.69
1215409--1215470	23	2.6	26	73	19	71	37	0	0	62	0.95
1215442--1215472	16	2.0	16	93	6	55	32	0	0	67	0.91
1215474--1215503	15	2.0	15	100	0	60	53	0	0	46	1.00
1215781--1215821	20	2.0	20	90	0	64	31	2	2	63	1.20
1217488--1217517	3	10.0	3	92	0	51	30	0	3	66	1.07
1218688--1218748	21	2.9	21	85	0	77	32	6	9	50	1.61
1218734--1218787	20	2.7	20	82	2	63	50	1	3	44	1.30
1218838--1218881	10	4.2	10	85	8	52	31	0	2	65	1.05
1218843--1218881	10	3.6	11	86	13	55	35	0	0	64	0.94
1218838--1218881	22	2.1	20	87	8	61	31	0	2	65	1.05
1218846--1218892	20	2.3	21	81	3	60	34	2	0	63	1.06
1219056--1219488	21	20.9	21	67	11	133	33	6	10	50	1.60
1219487--1219688	21	9.8	21	64	19	68	32	4	10	51	1.58
1219576--1219681	11	10.1	11	68	16	73	35	3	7	52	1.48
1223637--1223662	2	13.0	2	100	0	52	0	50	0	50	1.00
1223662--1223686	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223821--1223888	34	2.1	34	83	10	88	39	2	1	55	1.24
1223993--1224044	26	2.0	26	81	7	61	42	7	1	48	1.43
1227576--1227635	29	2.1	29	83	0	75	60	3	3	33	1.30
1229252--1229314	19	3.6	18	74	18	53	34	0	9	55	1.32
1229438--1229478	19	2.2	18	86	8	55	43	0	0	56	0.99
1230319--1230411	38	2.4	39	91	8	145	59	11	5	23	1.53
1231206--1231253	2	24.0	2	95	0	87	50	2	0	47	1.12
1232376--1232493	60	2.0	61	96	1	220	23	27	11	38	1.88
1238604--1238668	30	2.2	30	91	0	103	26	3	30	40	1.71
1241480--1241515	11	3.3	11	84	0	54	5	8	0	86	0.72

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17