genome.fa.s173.2.7.7.80.10.50.1000.8.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

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

This is table  8  of  16  ( 1814 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)
983709--983772	21	3.1	21	77	4	76	51	6	6	35	1.52
983711--983769	20	2.9	21	79	5	66	52	6	6	33	1.54
988001--988060	32	2.0	32	84	12	83	36	3	13	46	1.60
990548--990581	16	2.1	16	94	0	59	70	0	0	29	0.87
991122--991175	20	2.7	20	79	2	63	46	0	0	53	1.00
992492--992527	2	18.0	2	100	0	72	50	0	0	50	1.00
992796--992873	20	3.7	21	77	17	74	50	6	1	42	1.36
992828--992886	31	1.9	31	82	6	75	49	10	3	37	1.54
992987--993092	21	5.4	21	72	17	77	52	9	3	33	1.52
993106--993250	21	7.1	20	71	15	64	53	8	5	32	1.54
993111--993252	40	3.5	38	75	15	106	53	8	5	32	1.54
993165--993252	41	2.1	42	85	8	117	54	7	6	30	1.55
993158--993252	21	4.5	22	78	11	101	52	9	6	31	1.59
993289--993359	21	3.5	21	72	14	60	42	12	8	36	1.73
993506--993578	21	3.5	20	77	7	65	56	9	1	32	1.40
993580--994080	21	24.2	21	68	11	146	48	10	7	32	1.66
993955--994067	41	2.7	42	83	2	140	53	8	5	32	1.55
994070--994132	25	2.4	26	78	7	65	53	9	4	31	1.54
994999--995049	14	3.5	15	78	7	61	43	5	0	50	1.26
996509--996553	20	2.2	20	96	0	81	48	0	0	51	1.00
997100--997140	20	2.0	20	95	0	73	51	0	0	48	1.00
996463--997358	285	3.0	293	86	4	1304	37	11	10	41	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
998641--998713	14	5.6	14	75	13	59	46	1	0	52	1.09
998728--998784	21	2.8	21	86	10	82	56	5	0	38	1.22
998836--998881	20	2.4	19	86	13	60	60	0	0	39	0.97
998967--999066	20	4.8	21	79	7	96	58	6	6	30	1.46
998977--999043	20	3.3	20	83	4	98	56	5	7	29	1.51
998965--999066	41	2.4	42	91	4	170	57	6	5	29	1.48
998985--999052	20	3.3	20	83	4	100	60	7	5	26	1.46
1003541--1003625	38	2.2	38	85	0	107	30	24	10	34	1.89
1008208--1008296	38	2.4	39	86	3	112	28	26	13	31	1.94
1008279--1008370	38	2.4	38	90	0	148	31	20	13	34	1.91
1009945--1010010	13	5.2	13	71	16	50	3	22	0	74	0.96
1013520--1013574	17	3.4	17	70	25	55	54	1	1	41	1.21
1015498--1015537	18	2.2	18	86	8	55	45	0	0	55	0.99
1021897--1021946	22	2.1	24	85	10	68	38	2	0	60	1.09
1023702--1023733	14	2.3	15	89	10	50	31	0	3	65	1.08
1030448--1030516	2	33.5	2	75	2	57	44	8	4	42	1.55
1030942--1030967	7	3.7	7	100	0	52	30	11	0	57	1.34
1032553--1032586	16	2.1	16	89	10	52	35	2	0	61	1.11
1034692--1034733	21	2.0	21	90	0	66	47	0	2	50	1.14
1036726--1036776	26	1.9	26	84	4	66	23	3	5	66	1.30
1037115--1037190	32	2.5	31	83	12	102	44	0	0	55	0.99
1037110--1037167	15	3.8	14	75	18	53	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1037176--1037208	15	2.3	15	90	10	52	30	0	0	69	0.88
1038318--1038368	26	2.0	26	88	7	77	45	0	0	54	0.99
1038316--1038406	32	2.8	33	80	17	109	41	0	0	58	0.98
1038352--1038403	11	4.5	11	76	9	50	42	0	0	57	0.98
1038280--1038406	16	7.7	17	68	24	76	40	0	0	58	1.09
1038761--1038790	5	6.2	5	92	7	53	40	0	0	60	0.97
1039506--1039540	17	2.0	18	88	5	54	51	0	2	45	1.16
1039506--1039544	15	2.4	17	87	12	55	51	0	2	46	1.14
1041942--1041991	23	2.1	24	88	3	75	16	0	6	78	0.95
1041933--1041991	7	8.1	7	72	20	50	16	0	5	77	0.93
1042184--1042219	15	2.4	15	90	0	54	47	0	2	50	1.15
1042201--1042284	35	2.4	35	76	20	95	40	0	0	59	0.97
1042219--1042267	26	2.0	26	84	11	68	42	0	0	57	0.99
1042247--1042288	20	2.1	20	82	8	50	40	0	0	59	0.97
1042419--1042498	37	2.0	40	86	9	112	57	3	0	38	1.17
1043021--1043059	12	3.2	12	88	0	51	58	5	0	35	1.20
1043576--1043621	23	2.0	23	84	16	60	45	0	0	54	0.99
1045210--1045273	30	2.2	30	86	8	87	60	3	3	32	1.28
1045354--1045391	3	12.7	3	100	0	76	65	0	0	34	0.93
1046448--1046570	51	2.5	49	83	7	124	34	9	8	47	1.66
1046474--1046571	51	1.9	51	97	0	187	32	9	9	48	1.66
1049155--1049179	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)
1057385--1057920	268	2.0	268	99	0	1054	31	19	14	34	1.92
1062793--1062850	21	2.8	21	81	5	73	36	15	15	32	1.89
1062886--1062953	19	3.9	19	75	25	78	35	11	13	39	1.81
1062907--1062931	13	1.9	13	100	0	50	36	16	16	32	1.90
1062888--1062950	32	2.0	32	93	6	110	34	12	14	38	1.84
1062993--1063018	13	2.0	13	100	0	52	30	15	15	38	1.88
1062973--1063039	33	2.0	33	88	0	98	25	14	16	43	1.86
1063581--1063658	27	2.9	27	100	0	156	25	33	19	21	1.97
1063584--1063679	27	3.5	28	92	1	106	25	32	20	21	1.98
1063635--1063852	79	2.7	80	76	6	228	25	26	15	33	1.95
1063635--1063920	79	3.6	80	74	9	226	25	27	15	31	1.95
1074240--1074333	15	6.9	14	73	14	72	82	7	9	0	0.83
1074246--1074333	8	10.8	8	73	17	56	82	6	10	0	0.82
1074241--1074331	10	8.8	10	73	15	62	83	6	9	0	0.81
1074241--1074316	1	76.0	1	74	0	53	85	7	6	0	0.74
1075282--1076300	59	17.3	59	90	3	1332	25	27	20	26	1.99
1077036--1077093	21	2.8	21	81	5	73	36	15	15	32	1.89
1077129--1077196	19	3.9	19	78	21	85	35	11	14	38	1.83
1077150--1077174	13	1.9	13	100	0	50	36	16	16	32	1.90
1077131--1077193	32	2.0	32	96	0	117	34	12	15	36	1.86
1077236--1077261	13	2.0	13	100	0	52	30	15	15	38	1.88
1077216--1077282	33	2.0	33	88	0	98	25	14	16	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077936--1078006	28	2.6	27	84	8	81	23	33	18	23	1.96
1077803--1077999	108	1.8	108	87	4	299	28	28	14	27	1.95
1077803--1078061	108	2.4	108	82	5	294	28	28	14	28	1.95
1078041--1078094	28	1.9	28	88	7	83	20	24	20	35	1.96
1083157--1083211	20	2.8	20	88	5	76	38	12	16	32	1.86
1083227--1083284	13	4.0	13	74	23	53	32	17	15	34	1.91
1083241--1083303	19	3.6	19	74	24	75	36	17	12	33	1.88
1083228--1083305	32	2.4	32	95	0	138	34	16	14	34	1.89
1084365--1084418	20	2.7	20	85	0	63	31	11	14	42	1.81
1085350--1085388	20	1.9	21	84	5	53	20	10	10	58	1.59
1088946--1089031	42	2.0	42	82	12	106	22	18	3	55	1.57
1094015--1094054	18	2.0	21	86	13	59	27	0	2	70	1.01
1094126--1094188	18	3.6	18	70	24	53	42	0	0	57	0.99
1094119--1094196	38	2.1	38	85	9	106	44	0	0	55	0.99
1094683--1094744	29	2.1	30	82	8	74	48	0	1	50	1.10
1094679--1094745	21	3.2	21	74	4	55	46	0	1	52	1.09
1095264--1095364	40	2.5	40	80	11	107	52	0	0	47	1.00
1095258--1095356	39	2.6	38	79	7	103	52	0	0	47	1.00
1102471--1102524	28	2.0	28	85	10	76	16	0	14	68	1.21
1102745--1102786	18	2.3	18	84	12	50	42	0	0	57	0.99
1105877--1105935	29	2.0	29	83	6	73	57	0	3	38	1.15
1108872--1108898	3	9.0	3	100	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109474--1109631	53	2.9	54	70	13	126	43	1	0	55	1.07
1109806--1109854	18	2.7	19	84	6	59	48	0	0	51	1.00
1109790--1109851	24	2.6	25	72	10	67	46	0	0	53	1.00
1109900--1109926	9	3.0	9	100	0	54	44	0	0	55	0.99
1110529--1110576	21	2.3	21	78	7	53	66	2	6	25	1.26
1111734--1111788	28	2.0	28	85	7	76	50	0	0	49	1.00
1111734--1111791	29	2.0	28	83	9	73	51	0	0	48	1.00
1113192--1113224	10	3.3	10	95	0	57	87	0	12	0	0.53
1113191--1113220	15	2.0	15	93	0	51	90	0	10	0	0.47
1113369--1113403	2	17.5	2	93	0	61	0	2	48	48	1.16

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