genome.fa.s136.2.7.7.80.10.50.1000.1.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: Scaffold136
Parameters: 2 7 7 80 10 50 1000
Length:  1039917

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 665 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)
6662--7465	27	30.0	27	84	8	1015	23	34	14	27	1.93
6922--6959	18	2.1	18	100	0	76	21	36	15	26	1.93
6894--7253	53	6.9	45	77	15	157	23	35	14	27	1.94
7462--7987	32	16.4	32	94	2	894	31	33	18	16	1.94
8008--8138	45	2.8	47	80	7	133	21	26	21	30	1.98
9226--9260	16	2.1	17	89	5	54	82	0	17	0	0.66
9232--9261	10	3.0	10	95	0	51	86	0	13	0	0.57
12120--12154	3	11.7	3	87	0	52	65	2	0	31	1.07
12437--12485	25	1.9	26	83	4	64	32	0	6	61	1.21
12456--12502	17	2.7	17	75	15	51	38	0	0	61	0.96
12472--12566	46	2.2	42	81	12	111	44	1	0	54	1.07
12563--12593	16	2.0	16	93	6	55	32	6	0	61	1.21
12925--12972	25	2.0	24	83	4	60	60	0	0	39	0.97
12946--13019	32	2.3	32	77	15	80	48	1	0	50	1.09
13354--13383	3	10.0	3	100	0	60	33	0	0	66	0.92
21457--21558	2	51.0	2	86	0	96	40	0	10	48	1.45
21457--21582	30	4.3	30	86	4	175	37	1	13	47	1.53
21457--21582	28	4.3	30	84	10	161	37	1	13	47	1.53
21809--21834	2	13.0	2	100	0	52	50	0	0	50	1.00
23631--23681	2	25.5	2	87	0	75	47	0	3	49	1.20
30988--31032	22	2.0	22	82	0	54	44	0	0	55	0.99
31473--31541	13	4.7	13	72	27	50	52	0	2	44	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31472--31540	14	4.6	14	72	19	50	52	0	2	44	1.16
31889--31932	18	2.4	18	84	3	52	45	0	0	54	0.99
32071--32099	7	4.3	7	95	4	51	72	0	0	27	0.85
32545--32709	8	21.2	8	66	22	68	57	0	1	41	1.06
32564--32719	46	3.4	47	75	17	118	55	0	1	43	1.08
33758--33818	18	3.2	18	83	6	68	44	1	0	54	1.10
46358--46405	4	12.0	4	86	8	71	25	2	0	72	0.95
46714--46747	2	17.0	2	100	0	68	50	0	0	50	1.00
46763--46819	12	4.7	13	68	14	50	49	0	0	50	1.00
46763--46819	25	2.4	25	85	5	73	49	0	0	50	1.00
46782--46829	25	2.0	25	83	4	62	50	4	2	43	1.33
47380--47431	27	1.9	27	84	7	70	36	0	1	61	1.07
53892--53932	11	3.7	11	83	9	57	78	2	0	19	0.87
53890--53939	21	2.3	22	75	6	57	72	2	0	26	0.96
54634--54681	14	3.3	14	75	11	51	43	0	2	54	1.12
55290--55353	24	3.0	21	72	24	55	40	0	0	59	0.97
60593--60675	32	2.9	28	74	20	89	46	0	0	53	1.00
60599--60681	33	2.5	32	86	7	105	46	0	0	53	1.00
60604--60655	16	3.2	16	77	22	63	46	0	0	53	1.00
60592--60687	19	5.1	19	69	23	69	45	0	0	54	0.99
60592--60706	25	4.8	24	68	22	73	44	0	0	55	0.99
60623--60688	17	3.9	17	70	20	57	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60643--60706	19	3.3	19	70	25	53	42	0	0	57	0.98
60616--60706	40	2.3	40	85	7	116	45	0	0	54	0.99
60655--60722	32	2.1	33	81	13	79	42	0	1	55	1.08
61324--61354	3	10.3	3	100	0	62	32	0	0	67	0.91
64737--64786	24	2.1	24	88	3	75	18	18	30	34	1.94
65072--65218	61	2.4	63	85	5	210	41	12	2	44	1.53
65478--65558	27	3.1	27	73	10	78	37	3	4	54	1.40
65515--65566	27	2.0	26	84	3	68	36	3	9	50	1.54
65587--65696	43	2.6	43	95	0	193	45	9	8	37	1.66
65587--65714	43	3.0	43	89	2	141	45	9	7	37	1.66
70705--70744	20	2.0	21	90	5	64	37	5	0	57	1.21
70711--70756	20	2.3	20	82	10	58	39	2	0	58	1.10
78531--78584	14	3.9	14	80	9	67	44	0	0	55	0.99
78536--78616	9	8.7	10	68	14	57	39	1	0	59	1.05
78527--78588	23	2.6	24	80	10	65	43	0	0	56	0.99
78535--78603	28	2.4	30	79	13	83	37	0	0	62	0.96
78847--78903	29	1.9	30	86	10	82	56	0	0	43	0.99
78905--78960	20	2.7	20	82	15	69	55	1	0	42	1.10
80484--80528	16	2.9	16	80	16	58	53	0	0	46	1.00
80605--80671	23	2.9	23	84	8	75	55	1	0	43	1.09
80609--80655	12	3.9	12	75	10	51	55	0	0	44	0.99
81224--81265	20	2.1	20	86	0	57	47	0	2	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
81241--81331	14	6.9	14	70	15	59	40	1	1	57	1.13
81241--81299	28	2.1	29	84	9	77	44	1	0	54	1.10
81422--81468	23	2.1	22	88	4	67	38	8	4	48	1.53
82155--82201	13	3.4	14	79	8	60	46	0	0	53	1.00
82338--82406	35	2.0	34	86	8	95	53	0	0	46	1.00
82646--82688	21	2.1	21	83	8	54	55	0	2	41	1.12
83123--83157	15	2.2	17	90	10	56	48	0	0	51	1.00
83399--83438	21	2.0	20	85	5	53	67	0	0	32	0.91
83413--83446	18	1.9	18	88	5	52	61	0	0	38	0.96
83410--83452	17	2.6	17	79	13	54	62	0	0	37	0.95
86551--86587	2	19.0	2	88	5	58	48	0	0	51	1.00
96828--96877	25	2.0	25	92	3	84	54	0	2	44	1.11
98523--98570	23	2.0	23	84	8	60	52	0	0	47	1.00
98551--98620	33	2.0	34	84	13	90	45	1	0	52	1.09
102966--103041	16	4.8	16	73	12	66	56	0	0	43	0.99
102959--103046	33	2.7	31	81	10	106	59	0	0	40	0.98
103557--103593	18	2.1	18	90	10	58	29	0	10	59	1.31
104459--104523	32	2.0	33	84	3	87	52	0	0	47	1.00
104472--104535	34	1.9	32	84	6	83	46	0	0	53	1.00
105538--105587	14	3.6	14	76	10	57	52	0	2	46	1.12
106160--106184	12	2.1	12	100	0	50	52	8	0	40	1.31
109719--109758	17	2.2	19	91	8	66	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
109719--109761	18	2.4	19	84	11	63	60	0	0	39	0.97
109773--109802	14	2.1	14	93	0	51	40	6	0	53	1.27
109805--109845	5	8.4	5	79	15	50	34	0	0	65	0.93
109799--109842	20	2.2	21	80	12	56	34	0	2	63	1.07
109807--109837	14	2.2	14	94	0	53	32	0	0	67	0.91
109805--109845	20	2.1	19	90	4	64	34	0	0	65	0.93
110607--110696	28	2.9	33	70	21	86	44	1	0	54	1.07
110659--110691	13	2.4	14	90	5	50	45	0	0	54	0.99
112258--112296	19	2.1	19	90	0	60	41	5	0	53	1.23
112609--112641	13	2.3	15	90	10	52	45	0	0	54	0.99
114280--114304	13	1.9	13	100	0	50	64	4	0	32	1.12
121982--122054	14	4.9	15	77	17	80	47	1	15	35	1.54
121982--122058	30	2.6	30	93	0	127	48	1	14	36	1.52
127981--128012	3	10.7	3	100	0	64	31	0	0	68	0.90
128205--128244	12	3.3	12	80	13	55	62	0	2	35	1.09
128631--128662	16	1.9	16	93	6	55	25	0	0	75	0.81
133171--133202	4	8.0	4	100	0	64	25	50	0	25	1.50
135283--135311	14	2.0	15	93	6	51	68	13	13	3	1.33
135812--135892	34	2.4	34	75	8	85	48	0	3	48	1.19
136137--136161	6	4.2	6	100	0	50	80	0	0	20	0.72
136894--136935	15	2.8	15	85	7	50	54	0	0	45	0.99
136903--136948	15	3.1	15	83	0	56	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
161986--162039	18	3.2	18	75	17	53	51	0	0	48	1.00
162005--162085	41	2.0	41	83	9	103	43	0	0	56	0.99
162075--162107	9	3.3	10	87	12	50	30	3	0	66	1.06
162969--163007	18	2.2	18	86	9	53	43	0	0	56	0.99
162972--163019	22	2.1	22	85	11	62	50	0	0	50	1.00
164384--164422	2	20.0	2	89	5	62	48	0	2	48	1.15
169327--169386	28	2.1	28	87	6	84	36	0	0	63	0.95
169306--169392	19	4.6	19	71	13	63	35	1	0	63	1.02
169345--169398	21	2.5	20	82	8	54	31	0	0	68	0.90
170690--170740	14	3.6	14	82	12	52	27	1	1	68	1.11

Tables:   1   2   3   4   5   6