genome.fa.s3047.2.7.7.80.10.50.1000.4.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: scaffold333
Parameters: 2 7 7 80 10 50 1000
Length:  1398653

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 563 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)
913810--913869	23	2.6	23	86	7	77	66	3	1	28	1.17
913887--913927	21	2.0	21	85	0	55	56	4	7	31	1.48
914478--914611	19	6.5	21	79	14	84	41	14	6	37	1.73
914478--914535	22	2.6	22	84	7	73	43	17	3	36	1.66
914491--914611	21	5.9	19	85	7	125	39	14	7	38	1.75
914525--914608	21	4.1	21	89	6	136	39	13	8	39	1.74
914507--914608	40	2.6	40	82	11	140	38	14	7	39	1.75
914988--915630	44	14.6	43	78	7	603	29	25	15	29	1.96
914988--915632	132	4.9	132	90	1	943	29	25	15	29	1.96
919900--919939	6	6.8	6	94	5	73	0	15	0	85	0.61
923348--923405	22	2.6	22	81	7	64	43	17	1	37	1.59
923361--923460	21	4.8	19	78	14	83	40	15	5	40	1.68
923395--923459	21	3.1	21	90	0	103	40	12	6	41	1.67
926010--926063	27	2.0	27	92	0	90	18	18	18	44	1.87
929344--929820	50	9.7	50	80	8	516	21	31	20	26	1.97
929302--929829	97	5.4	98	80	8	531	22	31	19	26	1.98
929344--929829	147	3.3	147	89	1	758	21	32	19	26	1.97
929393--929820	197	2.2	195	84	6	551	20	31	20	27	1.97
942123--942279	56	2.8	56	94	0	260	45	15	8	30	1.77
957578--957644	26	2.6	27	81	9	86	16	22	23	37	1.94
957562--957720	25	6.4	25	71	15	109	17	25	23	33	1.96
957567--957706	48	2.8	51	78	11	137	17	25	21	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
957614--957753	72	1.9	73	82	7	178	17	25	22	33	1.96
957587--957767	72	2.5	71	75	8	175	18	25	21	34	1.96
964072--964143	32	2.2	32	97	2	135	26	26	9	37	1.87
965971--966073	54	1.9	54	88	7	156	18	29	21	31	1.97
967919--967993	32	2.3	32	82	8	91	44	20	2	33	1.65
968093--968151	16	3.7	16	71	10	50	38	16	8	35	1.80
968738--968793	28	2.0	28	92	0	94	58	1	16	23	1.47
974289--974658	181	2.0	181	97	0	695	26	15	19	38	1.92
975869--975896	3	9.3	3	100	0	56	35	0	0	64	0.94
977098--977239	69	2.1	69	94	2	250	38	5	16	38	1.73
977947--977996	24	2.1	24	92	0	82	14	34	14	38	1.85
977983--978041	24	2.6	22	77	12	66	22	33	11	32	1.90
978061--978103	9	4.8	9	91	0	68	32	32	23	11	1.90
978346--978407	30	2.0	32	84	9	83	17	20	41	19	1.90
980909--981024	56	2.1	56	88	3	171	44	10	20	24	1.82
981325--981370	22	2.1	22	100	0	92	17	17	4	60	1.51
987839--987927	42	2.1	41	81	8	99	42	15	23	17	1.88
990649--990710	22	2.8	23	78	11	67	17	27	17	37	1.93
991711--991770	30	2.0	30	100	0	120	30	6	30	33	1.83
995077--995132	22	2.5	23	85	8	80	14	25	19	41	1.89
1004393--1004473	21	3.9	21	68	12	67	40	13	28	17	1.87
1011249--1011330	36	2.3	36	89	0	119	30	7	18	43	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011386--1011588	95	2.1	95	89	0	307	31	16	14	37	1.89
1011551--1012012	64	7.1	63	65	16	197	32	13	12	41	1.83
1011484--1012123	131	4.9	130	87	1	742	31	14	12	40	1.84
1011615--1011824	67	3.2	67	66	11	198	29	11	14	44	1.81
1011314--1011719	226	1.8	223	86	0	515	32	14	14	39	1.86
1026110--1026164	26	2.1	26	83	6	67	58	3	0	38	1.16
1026559--1026598	17	2.3	17	86	4	53	25	2	0	72	0.97
1028214--1028248	7	4.9	7	93	6	61	14	0	40	45	1.45
1028216--1028247	15	2.1	15	100	0	64	12	0	37	50	1.41
1028438--1028851	202	2.0	202	93	0	702	30	14	20	34	1.92
1031690--1031752	13	4.8	13	76	7	65	28	4	28	38	1.77
1031956--1032003	17	2.8	17	75	12	53	45	0	2	52	1.12
1031928--1032003	34	2.4	34	81	16	83	48	0	2	48	1.15
1031978--1032030	24	2.2	24	83	6	63	41	3	3	50	1.38
1036670--1036701	6	5.5	6	96	3	57	0	12	53	34	1.39
1036790--1036824	16	2.2	16	89	0	52	37	2	60	0	1.12
1042135--1042176	17	2.5	17	80	11	50	38	7	4	50	1.51
1055694--1055806	51	2.2	51	87	6	158	29	24	13	32	1.93
1056744--1056833	44	2.0	44	97	0	171	28	23	7	40	1.82
1059206--1059245	19	2.1	19	95	0	71	42	17	22	17	1.89
1068343--1068406	29	2.3	26	78	21	69	42	1	3	53	1.26
1069514--1069540	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069572--1069628	15	3.5	15	71	17	51	49	1	1	47	1.22
1070866--1070892	2	13.5	2	100	0	54	48	0	0	51	1.00
1073755--1073787	11	2.8	12	81	9	50	54	15	15	15	1.71
1078596--1078725	41	3.2	41	86	1	163	36	20	20	23	1.95
1078927--1078978	23	2.2	24	89	3	79	13	28	7	50	1.69
1083071--1083117	19	2.6	18	86	3	58	21	0	4	74	0.99
1085203--1085295	29	3.2	29	78	4	98	34	20	2	43	1.64
1085548--1085586	10	3.8	10	86	13	53	53	0	46	0	1.00
1085643--1085677	3	12.0	3	93	6	63	68	0	31	0	0.90
1085875--1085917	23	1.9	23	85	4	61	30	32	30	6	1.84
1086010--1086056	20	2.2	20	85	7	58	78	0	21	0	0.75
1086177--1086237	31	1.9	31	87	9	88	19	6	11	62	1.50
1087875--1087928	20	2.7	19	83	11	63	27	12	22	37	1.91
1088083--1088119	17	2.1	18	90	5	58	45	16	5	32	1.70
1089044--1089100	26	2.1	27	80	3	62	31	0	0	68	0.90
1089076--1090613	774	2.0	774	100	0	3076	35	12	16	36	1.86
1094604--1094655	26	2.0	25	82	10	61	51	7	5	34	1.54
1097869--1097912	22	2.0	22	100	0	88	27	31	0	40	1.56
1097934--1097976	11	4.0	10	80	16	50	25	30	0	44	1.55
1101968--1102318	126	2.8	125	96	1	623	33	21	15	29	1.94
1102914--1102964	23	2.3	22	80	12	59	19	7	3	68	1.30
1103124--1103432	107	3.0	106	90	5	467	28	15	19	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103236--1103432	98	2.0	97	93	1	331	28	16	20	35	1.94
1112397--1112452	26	2.2	25	87	6	85	44	8	0	46	1.34
1112956--1113003	19	2.5	18	86	10	60	56	0	4	39	1.19
1112968--1113009	19	2.2	19	83	8	50	59	0	2	38	1.10
1120017--1120078	21	3.0	21	80	4	63	75	4	1	17	1.05
1125254--1125299	24	1.9	25	86	8	69	30	10	0	58	1.32
1125288--1125355	29	2.3	30	80	10	86	33	1	0	64	1.02
1129364--1129389	3	8.7	3	100	0	52	30	69	0	0	0.89
1134170--1134215	14	3.3	14	93	0	83	41	0	2	56	1.11
1134337--1134387	3	16.7	3	91	4	84	37	0	0	62	0.95
1139066--1139095	15	2.0	15	93	0	51	53	10	26	10	1.66
1139309--1139348	19	2.2	19	86	13	57	15	0	42	42	1.46
1140132--1140176	23	2.0	23	91	4	74	46	17	4	31	1.68
1140129--1140186	22	2.6	22	86	7	82	43	18	3	34	1.68
1140142--1140199	19	2.8	20	84	10	64	39	17	6	36	1.76
1146100--1146162	1	63.0	1	93	0	108	96	3	0	0	0.20
1146594--1146640	23	2.0	24	84	12	62	53	8	17	21	1.70
1153018--1153042	3	8.3	3	100	0	50	0	0	68	32	0.90
1153171--1153216	22	2.2	21	88	7	67	23	15	19	41	1.89
1153405--1153777	197	1.9	192	87	3	541	22	23	20	34	1.97
1154568--1154654	24	3.9	24	74	22	75	35	2	1	60	1.17
1154571--1154642	20	3.5	20	78	14	74	33	2	0	63	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154614--1154651	20	1.9	20	84	10	51	36	0	2	60	1.11
1161529--1161594	31	2.1	31	97	0	123	59	15	6	19	1.57
1163798--1163834	18	2.1	18	94	0	65	48	18	16	16	1.81
1166300--1166352	10	5.6	10	75	18	51	62	0	0	37	0.96
1166300--1166349	18	2.8	18	82	14	59	62	0	0	38	0.96
1169271--1169296	2	13.0	2	100	0	52	50	0	0	50	1.00
1170107--1170224	59	2.0	59	91	0	191	31	19	4	44	1.70
1170235--1170291	5	11.8	5	75	20	59	59	1	0	38	1.08
1170235--1170291	14	4.3	13	82	6	62	59	1	0	38	1.08
1177345--1177686	152	2.2	151	85	5	465	51	8	8	31	1.63

Tables:   1   2   3   4   5