genome.fa.s164.2.7.7.80.10.50.1000.7.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: Scaffold164
Parameters: 2 7 7 80 10 50 1000
Length:  2248410

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

This is table  7  of  15  ( 1726 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)
1011779--1011852	20	3.7	20	81	3	103	31	20	13	35	1.91
1011759--1011852	41	2.3	41	100	0	188	29	19	12	38	1.89
1012654--1012711	22	2.7	22	81	7	66	41	0	3	55	1.17
1012672--1012711	14	2.9	14	85	3	55	45	0	2	52	1.14
1016721--1016795	20	3.8	20	80	3	80	40	12	13	34	1.81
1016718--1016795	40	2.0	39	87	2	111	39	12	12	34	1.82
1017309--1018122	115	7.1	115	89	3	1108	22	17	31	28	1.96
1017309--1018124	287	2.8	286	89	3	1212	22	17	31	28	1.96
1017338--1018124	29	27.4	29	88	4	1098	22	17	32	28	1.96
1019353--1019402	1	50.0	1	79	0	55	0	2	8	90	0.54
1019338--1019401	10	6.2	10	82	7	56	3	4	7	84	0.86
1033071--1033145	20	3.8	20	80	3	80	40	12	13	34	1.81
1033068--1033145	40	2.0	39	87	2	111	39	12	12	34	1.82
1036091--1036147	23	2.5	23	88	2	89	63	0	28	8	1.24
1038272--1038317	20	2.3	20	92	0	83	34	4	23	36	1.75
1042668--1042731	13	5.4	13	70	21	59	35	15	14	34	1.88
1042663--1042744	33	2.5	33	84	6	112	34	18	14	32	1.91
1042775--1042851	20	3.9	20	91	6	122	33	14	14	37	1.86
1042775--1042851	39	1.9	39	89	7	120	33	14	14	37	1.86
1042820--1042881	32	1.9	33	90	3	99	41	14	12	30	1.83
1043405--1043460	22	2.5	22	91	0	85	23	33	3	39	1.72
1046120--1046220	50	2.0	50	98	0	193	30	26	9	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1048432--1048498	33	2.0	33	88	0	98	34	11	13	40	1.81
1048452--1048476	13	1.9	13	100	0	50	36	16	16	32	1.90
1048540--1048564	13	1.9	13	100	0	50	32	16	16	36	1.90
1048573--1048689	52	2.2	52	93	0	198	36	17	15	29	1.91
1053565--1053605	20	2.0	20	95	0	73	36	14	12	36	1.84
1053563--1053631	33	2.1	33	86	5	95	36	17	13	33	1.88
1053659--1053732	20	3.8	20	80	8	80	36	16	16	31	1.91
1053660--1053712	19	2.7	19	88	2	70	33	16	16	32	1.92
1054611--1054651	22	1.9	21	85	5	55	82	0	9	7	0.83
1059733--1059763	15	2.0	16	93	6	55	38	22	0	38	1.54
1065712--1065840	52	2.5	52	98	0	249	27	18	18	34	1.95
1065849--1065873	13	1.9	13	100	0	50	36	16	16	32	1.90
1071812--1071861	19	2.5	20	90	3	75	38	18	14	30	1.89
1071828--1071878	19	2.6	19	87	9	68	41	15	15	27	1.88
1073233--1073351	48	2.5	49	77	8	129	22	14	11	51	1.74
1073417--1073730	116	2.7	114	84	5	373	28	8	14	47	1.75
1073412--1073727	174	1.8	173	85	6	442	28	8	14	47	1.75
1073417--1073730	58	5.4	58	78	6	323	28	8	14	47	1.75
1073375--1073801	116	3.7	116	77	7	325	29	9	13	47	1.75
1073465--1073797	174	1.9	174	81	7	408	29	9	13	47	1.75
1075069--1075122	19	2.8	20	77	2	65	42	12	12	31	1.81
1077596--1077645	13	3.8	13	97	0	91	42	16	10	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1079571--1079739	51	3.3	51	80	4	203	33	10	26	30	1.89
1079673--1079851	79	2.3	79	98	0	340	30	13	26	28	1.95
1079803--1079878	27	2.8	28	84	9	86	21	17	34	27	1.95
1082343--1082368	13	2.0	13	100	0	52	38	15	15	30	1.88
1082325--1082388	33	1.9	33	87	0	92	42	17	15	25	1.88
1082408--1082475	19	3.9	18	76	23	83	38	14	11	35	1.83
1082430--1082454	13	1.9	13	100	0	50	32	16	16	36	1.90
1082411--1082473	32	2.0	32	96	0	117	36	15	12	34	1.86
1082531--1082587	21	2.7	21	97	0	105	36	19	10	33	1.86
1082597--1082624	14	2.0	14	100	0	56	7	7	0	85	0.73
1088810--1088874	19	3.8	18	75	24	77	32	12	16	38	1.86
1088812--1088887	32	2.4	32	95	0	134	32	14	17	35	1.90
1088831--1088888	13	4.0	13	74	23	53	34	15	15	34	1.89
1088927--1088954	13	2.2	13	100	0	56	28	14	17	39	1.89
1088960--1089088	52	2.5	52	92	0	213	35	16	17	30	1.92
1093501--1093545	18	2.6	18	82	10	58	26	11	0	62	1.29
1094670--1094741	16	4.3	15	74	17	54	66	5	0	27	1.13
1094669--1094762	36	2.7	34	82	12	102	64	4	0	30	1.12
1094704--1094765	16	3.6	16	72	19	54	66	0	0	33	0.92
1094729--1094783	20	2.7	21	81	15	62	65	0	0	34	0.93
1094716--1094790	28	2.7	27	77	4	78	66	0	0	33	0.92
1095386--1095432	20	2.3	20	81	0	58	59	0	2	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1095553--1095608	28	2.0	27	86	3	76	50	0	0	50	1.00
1095583--1095622	19	2.0	21	85	9	57	57	0	0	42	0.98
1096718--1096753	18	1.9	19	88	5	56	52	0	0	47	1.00
1096718--1096767	27	1.9	25	88	8	73	54	0	0	46	1.00
1096725--1096774	27	1.9	27	84	8	68	54	2	0	44	1.11
1096998--1097028	16	2.0	16	93	6	55	51	6	0	41	1.27
1097904--1097928	7	3.6	7	100	0	50	48	0	0	52	1.00
1099451--1099862	88	4.6	91	72	11	275	22	25	15	36	1.93
1101058--1101210	32	4.7	32	90	4	236	33	11	16	38	1.85
1101127--1101182	13	3.8	13	75	24	58	35	14	16	33	1.88
1101058--1101210	66	2.4	64	90	5	236	33	11	16	38	1.85
1101139--1101201	19	3.6	19	76	24	84	33	12	15	38	1.86
1108927--1108951	13	1.9	13	100	0	50	36	16	16	32	1.90
1108996--1109111	13	7.5	13	68	29	61	37	16	12	33	1.85
1109004--1109131	19	7.7	18	69	28	97	38	15	11	34	1.84
1108996--1109146	32	4.7	32	94	0	266	39	15	11	33	1.85
1109740--1109941	82	2.4	83	77	9	216	43	13	22	19	1.87
1110283--1110922	44	14.6	44	69	10	339	38	14	25	21	1.92
1110286--1110949	88	7.6	88	82	2	699	38	14	25	21	1.91
1110812--1110947	44	3.1	43	76	10	132	38	14	26	20	1.91
1110953--1111183	48	4.9	48	79	8	226	41	18	20	19	1.90
1110982--1111158	91	2.0	90	84	3	230	41	18	19	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112383--1112420	6	6.5	6	85	14	53	2	0	10	86	0.66
1112383--1112420	18	2.2	18	95	4	69	2	0	10	86	0.66
1112964--1112994	16	1.9	16	93	0	53	3	12	0	83	0.75
1115195--1115238	22	2.0	22	95	0	79	29	22	20	27	1.99
1116448--1116484	18	2.1	17	90	5	56	54	5	8	32	1.53
1117399--1117434	16	2.3	15	90	4	54	22	2	0	75	0.94
1118648--1118693	11	4.0	11	83	10	65	0	17	0	82	0.67
1118648--1118693	12	3.9	12	86	13	69	0	17	0	82	0.67
1119778--1119827	22	2.3	22	89	0	73	38	8	18	36	1.80
1120204--1120244	21	2.0	21	85	9	57	39	12	9	39	1.76
1120281--1120337	21	2.8	20	81	5	69	40	15	14	29	1.87
1120325--1120461	53	2.6	53	92	1	220	37	17	17	27	1.92
1120485--1120572	31	2.8	32	89	5	135	23	27	10	38	1.87
1120581--1120619	13	3.0	13	84	0	60	33	15	15	35	1.89
1124170--1124210	21	2.0	21	90	0	64	19	26	0	53	1.45
1125926--1125950	13	1.9	13	100	0	50	28	16	16	40	1.89
1125985--1126047	33	1.9	33	90	6	101	36	14	15	33	1.88
1132199--1132238	13	3.1	13	96	0	71	30	12	15	42	1.83
1132365--1132404	20	2.0	20	85	14	55	32	22	0	45	1.53
1134725--1134781	19	2.9	19	82	5	69	35	14	14	36	1.86
1134730--1134780	20	2.6	20	81	3	59	35	13	13	37	1.85
1134843--1134874	10	3.2	10	100	0	64	31	9	21	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1135751--1135848	36	3.0	34	80	16	109	29	26	12	31	1.92
1136996--1137518	165	3.2	166	80	8	573	50	8	9	30	1.65
1138422--1138487	20	3.2	20	84	6	60	16	25	1	56	1.49
1138438--1138494	20	2.8	20	89	0	78	15	26	0	57	1.38
1141214--1141257	20	2.4	19	82	17	58	18	25	0	56	1.41
1142920--1142959	19	2.1	19	90	9	64	20	20	12	47	1.81
1144534--1144591	22	2.7	22	81	7	66	41	0	3	55	1.17
1144552--1144591	14	2.9	14	85	3	55	45	0	2	52	1.14
1148098--1148153	23	2.3	24	84	9	78	62	1	26	8	1.35
1148105--1148157	23	2.3	23	93	3	90	62	0	26	11	1.29

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