genome.fa.s488.2.7.7.80.10.50.1000.8.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: Scaffold488
Parameters: 2 7 7 80 10 50 1000
Length:  2093548

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

This is table  8  of  14  ( 1614 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)
1048944--1049377	222	2.0	222	97	0	823	20	32	16	31	1.94
1049305--1049473	27	5.7	27	71	20	122	17	34	14	33	1.91
1049268--1049507	62	3.9	62	90	2	362	17	33	14	34	1.91
1049379--1049547	34	5.2	34	75	13	167	18	32	11	37	1.87
1048945--1049439	97	5.2	96	74	14	386	19	32	16	31	1.94
1049579--1050551	97	10.0	97	95	0	1703	26	26	16	30	1.97
1049579--1050551	49	20.0	49	88	2	1444	26	26	16	30	1.97
1051345--1051410	19	3.8	19	77	22	90	33	12	18	36	1.88
1051346--1051408	32	2.0	32	100	0	126	33	12	19	34	1.89
1051365--1051389	13	1.9	13	100	0	50	36	16	16	32	1.90
1051450--1051476	13	2.1	13	100	0	54	33	14	14	37	1.88
1051485--1051610	52	2.4	52	90	0	198	33	19	20	26	1.96
1055335--1055385	20	2.6	20	87	3	68	27	13	19	39	1.90
1055440--1055489	20	2.5	20	86	0	64	38	16	16	30	1.90
1056813--1057327	168	3.1	164	80	6	511	50	7	13	28	1.70
1063336--1063370	17	2.0	18	94	5	63	31	0	0	68	0.90
1063336--1063388	17	3.3	17	82	15	60	33	0	0	66	0.92
1071762--1071826	21	3.6	19	73	26	70	44	15	12	27	1.82
1071780--1071805	13	2.0	13	100	0	52	38	15	15	30	1.88
1071762--1071826	34	2.0	33	93	6	114	44	15	12	27	1.82
1074025--1074074	21	2.3	21	80	10	57	56	4	18	22	1.58
1077997--1078036	13	3.1	13	92	0	62	40	17	12	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1078148--1078193	21	2.2	20	81	11	58	32	19	4	43	1.71
1080561--1080586	13	2.0	13	100	0	52	38	15	15	30	1.88
1080543--1080607	34	2.0	33	90	6	105	44	13	12	29	1.81
1081927--1081978	17	3.2	16	79	15	54	36	1	0	61	1.07
1084139--1084187	15	3.4	14	78	10	55	44	0	0	55	0.99
1084417--1084461	22	2.0	23	82	4	56	37	2	0	60	1.09
1085014--1085052	19	2.1	19	90	4	62	46	0	7	46	1.31
1085022--1085061	19	2.1	19	95	0	71	42	0	7	50	1.30
1088219--1088247	13	2.2	13	100	0	58	34	0	0	65	0.93
1088268--1088322	16	3.5	16	82	5	58	52	0	1	45	1.11
1088295--1088323	15	1.9	15	100	0	58	48	0	0	51	1.00
1088540--1088568	12	2.3	13	94	5	51	48	0	0	51	1.00
1088538--1088569	13	2.4	14	85	15	50	46	0	0	53	1.00
1088699--1088727	3	9.7	3	100	0	58	65	0	0	34	0.93
1093251--1093283	13	2.4	14	80	10	50	69	0	0	30	0.88
1093247--1093278	15	2.1	16	94	5	57	75	0	0	25	0.81
1093278--1093313	17	2.2	16	90	9	56	38	2	0	58	1.13
1093500--1093544	2	22.5	2	86	0	63	46	0	4	48	1.22
1097787--1097857	20	3.5	20	76	0	70	39	14	14	32	1.85
1101716--1101761	4	11.5	4	95	0	56	50	0	8	41	1.33
1102538--1102689	76	2.0	76	100	0	304	38	10	13	38	1.79
1102683--1102738	20	2.7	21	80	5	69	41	12	16	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105204--1105581	78	4.8	78	78	11	294	28	21	11	38	1.88
1110733--1111257	88	6.0	88	73	6	375	20	23	14	41	1.90
1110748--1111257	132	3.9	132	80	3	544	21	23	15	40	1.90
1110748--1111257	44	11.6	44	71	9	306	21	23	15	40	1.90
1124775--1124915	47	3.0	48	78	3	133	41	22	10	24	1.85
1126572--1126596	13	1.9	13	100	0	50	36	16	16	32	1.90
1126552--1126618	33	2.0	33	88	0	98	32	11	14	40	1.83
1126660--1126684	13	1.9	13	100	0	50	32	16	16	36	1.90
1126673--1126821	52	2.9	52	96	0	271	32	20	16	30	1.95
1131123--1131165	22	1.9	23	85	4	61	18	30	18	32	1.95
1131799--1131831	2	16.5	2	87	12	50	48	0	3	48	1.17
1134664--1134872	104	2.0	105	97	0	393	33	18	14	33	1.91
1141856--1142064	90	2.3	91	82	5	248	33	7	4	54	1.50
1142566--1142600	17	2.1	16	89	5	52	74	0	11	14	1.08
1142556--1142619	18	3.6	18	75	8	51	67	0	9	23	1.20
1143071--1143120	14	3.5	14	80	2	55	48	0	10	42	1.37
1146465--1146709	135	1.8	136	80	7	300	39	14	11	34	1.82
1149667--1149728	27	2.3	27	100	0	124	16	16	45	22	1.85
1151936--1151960	13	1.9	13	100	0	50	36	16	16	32	1.90
1152001--1152098	32	3.0	32	92	1	160	35	17	12	34	1.87
1152003--1152099	19	5.7	19	66	27	74	36	17	12	34	1.87
1152054--1152078	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153039--1153063	12	2.1	12	100	0	50	40	16	8	36	1.77
1157252--1157307	19	2.8	19	78	7	67	30	16	12	41	1.85
1157397--1157454	13	4.0	13	76	23	62	32	17	13	36	1.89
1157411--1157473	19	3.6	19	76	24	84	34	19	12	33	1.89
1157398--1157475	32	2.4	32	100	0	156	33	17	12	35	1.88
1158648--1158672	13	1.9	13	100	0	50	36	16	16	32	1.90
1160962--1161742	79	9.9	78	79	7	677	29	23	12	34	1.91
1160962--1161742	158	4.9	158	81	3	784	29	23	12	34	1.91
1160962--1161743	237	3.3	235	81	3	899	29	23	12	35	1.91
1163039--1163100	32	1.9	33	87	9	92	32	16	12	38	1.86
1164049--1164073	13	1.9	13	100	0	50	32	16	16	36	1.90
1164123--1164178	19	2.9	19	91	2	85	35	16	17	30	1.92
1164163--1164189	13	2.1	13	100	0	54	40	14	14	29	1.86
1173092--1173147	21	2.6	22	75	8	62	41	7	7	44	1.59
1177596--1177814	109	2.0	109	94	0	384	34	16	22	26	1.95
1182069--1182119	20	2.6	20	81	3	59	37	17	7	37	1.79
1182065--1182118	19	2.8	19	82	2	63	37	16	7	38	1.77
1182920--1182973	22	2.6	19	85	11	63	38	16	16	27	1.90
1194420--1194445	13	2.0	13	100	0	52	30	15	15	38	1.88
1194400--1194463	32	2.0	33	87	3	94	28	14	17	40	1.88
1196977--1197014	13	2.9	13	96	0	67	31	15	18	34	1.92
1199096--1199126	15	2.1	15	93	0	53	12	22	16	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1200928--1200972	21	2.1	21	84	8	56	22	20	4	53	1.63
1202853--1202911	32	1.9	30	83	13	75	59	10	10	20	1.58
1203192--1203217	13	2.0	13	100	0	52	30	15	15	38	1.88
1203172--1203235	32	2.0	33	87	3	94	28	14	17	40	1.88
1204157--1204637	79	6.1	79	83	5	548	34	13	24	27	1.93
1204577--1204756	51	3.5	51	82	2	211	33	11	25	28	1.91
1209380--1209406	13	2.1	13	100	0	54	29	14	14	40	1.86
1211261--1211337	22	3.5	22	82	1	93	38	1	31	28	1.65
1211966--1212013	13	4.2	13	70	29	54	31	12	18	37	1.88
1211945--1212013	33	2.1	33	89	5	104	33	11	18	36	1.87
1212747--1212797	20	2.5	20	83	0	66	41	15	9	33	1.80
1213726--1214194	58	8.2	56	79	6	444	23	18	29	28	1.98
1213726--1214194	28	16.4	28	80	7	424	23	18	29	28	1.98
1213723--1214194	143	3.3	142	83	6	557	23	18	29	29	1.98
1215439--1215502	25	2.5	26	85	10	78	1	1	14	82	0.81
1215450--1215516	18	3.6	18	78	13	73	1	2	13	82	0.86
1215440--1215505	9	6.9	9	77	16	62	1	1	13	83	0.79
1219946--1219989	20	2.1	22	91	8	74	29	9	20	40	1.83
1222577--1222615	13	3.0	13	96	0	69	35	15	17	30	1.91
1228710--1228753	20	2.1	22	91	8	74	29	9	20	40	1.83
1228809--1228834	13	2.0	13	100	0	52	30	15	15	38	1.88
1236746--1236874	52	2.5	52	94	0	231	28	18	17	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236883--1236907	13	1.9	13	100	0	50	36	16	16	32	1.90
1236950--1237002	20	2.7	20	91	2	90	39	16	11	32	1.85
1246598--1246798	52	3.9	52	94	1	332	29	17	19	33	1.95
1246787--1246811	13	1.9	13	100	0	50	36	16	16	32	1.90
1246852--1246918	33	2.0	33	88	0	98	40	14	11	32	1.83
1246874--1246898	13	1.9	13	100	0	50	32	16	16	36	1.90
1247728--1247939	52	4.2	52	76	12	208	33	16	25	24	1.96
1247835--1247924	43	2.1	43	93	0	153	31	17	24	26	1.97
1247929--1248136	30	7.0	30	87	5	253	25	17	26	29	1.97
1247935--1248127	87	2.2	88	85	4	246	24	18	27	30	1.98

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