genome.fa.s82.2.7.7.80.10.50.1000.3.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: Scaffold82
Parameters: 2 7 7 80 10 50 1000
Length:  2626005

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  3  of  17  ( 2012 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)
251905--251960	22	2.5	23	80	13	64	58	0	0	41	0.98
253129--253344	34	6.4	34	86	1	283	25	7	26	40	1.83
253129--253346	67	3.2	67	86	1	310	24	7	27	40	1.82
257758--257975	34	6.5	34	87	1	287	25	7	26	40	1.82
257758--257977	67	3.3	67	87	1	314	25	7	26	40	1.82
265974--266006	3	10.7	3	93	6	57	66	0	0	33	0.92
265953--266056	50	2.0	49	87	10	147	55	0	0	43	1.06
266899--266925	14	1.9	14	100	0	54	66	0	0	33	0.92
269795--269859	28	2.3	28	75	19	64	44	10	0	44	1.39
270124--270178	21	2.7	20	83	13	67	45	0	0	54	0.99
271249--271302	25	2.1	26	86	3	74	48	1	0	50	1.11
271514--271546	17	2.0	17	88	5	50	57	0	0	42	0.98
271664--271695	16	1.9	17	93	6	57	78	0	0	21	0.76
271751--271838	28	3.1	27	80	15	90	55	0	0	44	0.99
278423--278461	20	2.0	20	90	10	62	58	0	0	41	0.98
287577--287649	20	3.7	20	92	0	110	43	12	15	28	1.82
295584--295640	17	3.2	17	79	15	62	42	0	0	57	0.98
295584--295634	19	2.8	18	82	11	59	41	0	0	58	0.98
295807--295869	21	2.9	23	79	9	62	44	1	3	50	1.27
295865--295920	30	2.0	30	83	16	75	44	0	0	55	0.99
303157--303215	29	2.0	29	100	0	118	49	30	3	16	1.63
304866--304890	5	5.0	5	100	0	50	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)
304934--304973	18	2.2	18	90	0	62	50	0	0	50	1.00
304937--305014	17	4.6	17	69	15	63	46	1	0	52	1.08
304924--305009	18	4.9	18	70	22	60	44	0	0	55	0.99
304924--305053	50	2.6	49	78	14	122	40	2	0	56	1.17
305280--305322	19	2.3	18	88	7	68	34	2	0	62	1.08
305274--305328	21	2.7	19	80	8	56	38	1	0	60	1.08
305349--305388	19	2.1	19	85	0	53	32	5	0	62	1.17
305457--305502	16	3.1	14	82	17	58	45	0	0	54	0.99
305461--305491	7	4.6	7	92	8	55	38	0	0	61	0.96
306318--306374	30	1.9	30	92	0	96	42	1	3	52	1.28
306405--306430	13	2.0	13	100	0	52	61	7	0	30	1.24
306810--306864	15	3.7	15	75	18	53	34	0	0	65	0.93
306835--306884	17	2.8	18	85	11	68	42	0	0	58	0.98
306813--306881	19	3.6	20	75	15	65	37	0	0	62	0.96
306845--306894	21	2.5	19	84	12	64	48	0	0	52	1.00
307572--307627	18	3.1	18	77	10	60	39	1	1	57	1.20
309012--309101	40	2.1	43	82	8	105	42	2	0	55	1.12
309030--309101	20	3.5	20	75	16	67	43	2	0	54	1.15
321383--321425	19	2.1	21	91	8	72	67	2	30	0	1.03
325476--325534	31	1.9	31	82	0	73	64	5	0	30	1.15
331474--331517	22	2.0	21	83	12	54	43	0	4	52	1.22
332024--332057	10	3.4	10	92	8	52	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
332065--332138	34	2.2	33	85	7	96	48	2	0	48	1.15
332065--332118	16	3.2	17	73	19	51	51	1	0	46	1.11
332076--332150	27	2.6	28	73	23	68	49	2	0	48	1.15
335420--335448	2	14.5	2	100	0	58	51	0	48	0	1.00
337583--337615	15	2.1	16	88	5	50	12	3	27	57	1.49
341632--341669	18	2.2	18	90	9	62	18	5	5	71	1.25
344274--344325	14	3.7	14	82	10	61	42	1	1	53	1.23
344375--344415	15	2.7	15	88	7	57	56	0	0	43	0.99
345896--345935	20	2.0	20	90	0	62	55	0	0	45	0.99
347683--347709	3	9.0	3	100	0	54	33	0	0	66	0.92
351067--351106	2	20.5	2	94	5	73	47	0	0	52	1.00
358927--358968	21	1.9	22	85	9	59	47	0	0	52	1.00
358978--359017	12	3.2	12	82	6	53	52	0	0	47	1.00
358975--359017	13	3.3	13	83	6	52	53	0	0	46	1.00
360057--360111	17	3.4	17	70	25	55	54	0	1	43	1.10
361275--361363	6	14.3	6	80	6	52	51	3	13	31	1.57
361323--361363	3	13.7	3	94	0	73	63	0	2	34	1.08
361507--361549	9	4.7	9	80	5	50	60	2	0	37	1.10
361510--361597	17	5.1	17	72	12	54	55	1	1	42	1.14
364790--364883	16	6.0	15	73	11	82	11	17	29	41	1.84
364776--364876	32	3.2	31	76	10	89	13	14	25	45	1.82
364791--364879	32	2.8	32	82	1	108	12	16	29	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365267--365586	167	1.9	166	84	3	428	28	10	8	53	1.63
366171--366216	19	2.3	20	78	17	51	76	2	6	15	1.09
367491--367549	30	2.0	30	96	0	109	44	16	3	35	1.65
369728--370349	334	1.9	333	85	3	876	53	7	10	28	1.63
369634--370352	166	4.4	165	83	5	817	52	8	10	27	1.65
370626--370669	22	2.0	23	90	4	72	40	25	9	25	1.84
370756--370793	16	2.4	16	90	0	58	44	23	13	18	1.85
370798--370861	16	4.0	15	82	8	74	40	26	17	15	1.89
370798--370861	32	2.0	32	87	6	94	40	26	17	15	1.89
373552--373586	2	17.5	2	87	0	52	51	0	2	45	1.16
374054--374113	28	2.1	28	81	3	66	46	1	6	45	1.39
374071--374126	25	2.2	25	83	3	67	55	0	5	39	1.23
374969--375010	21	2.0	21	85	0	57	47	2	11	38	1.53
378349--378393	21	2.1	21	87	0	63	35	4	26	33	1.77
378358--378401	21	2.1	21	82	0	52	36	4	20	38	1.73
380040--380082	20	2.2	20	87	8	61	53	2	0	44	1.13
380784--380816	17	1.9	17	100	0	66	42	18	21	18	1.89
381326--381360	2	17.5	2	100	0	70	48	0	0	51	1.00
381448--381487	19	2.1	19	90	9	64	40	0	7	52	1.30
385898--386001	24	4.3	23	70	12	75	54	0	0	44	1.06
387299--387323	2	12.5	2	100	0	50	52	0	0	48	1.00
390110--390178	5	14.6	5	73	19	51	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390108--390167	11	5.2	11	78	13	59	61	0	0	38	0.96
390110--390178	18	3.8	18	73	9	52	62	0	0	37	0.96
390100--390179	23	3.3	25	76	16	87	60	0	0	40	0.97
390197--390238	21	2.0	21	86	9	59	50	0	0	50	1.00
390714--390751	3	12.7	3	100	0	76	68	0	0	31	0.90
394092--394130	19	2.0	20	85	5	53	46	0	0	53	1.00
395593--395622	2	15.0	2	92	0	51	46	0	3	50	1.18
398322--398352	2	15.5	2	100	0	62	48	0	0	51	1.00
407113--407148	17	2.1	17	94	5	63	52	0	0	47	1.00
407279--407330	17	3.2	17	73	10	56	46	0	0	53	1.00
407118--407416	151	2.0	152	89	3	462	46	2	1	49	1.26
407133--407378	76	3.3	73	74	14	250	45	3	1	49	1.28
407280--407417	73	1.9	72	80	14	149	45	1	2	50	1.22
407574--407608	12	2.8	12	91	4	52	40	0	0	60	0.97
414151--414247	51	1.9	51	84	0	131	46	12	13	27	1.79
414100--414235	71	1.9	72	92	1	229	44	11	16	27	1.83
416489--416518	13	2.3	13	100	0	60	40	16	6	36	1.75
419413--419457	2	22.5	2	90	0	72	51	4	0	44	1.21
419413--419455	16	2.7	16	100	0	86	51	4	0	44	1.22
419924--419950	13	2.1	13	100	0	54	48	0	0	51	1.00
420837--420876	21	1.9	21	100	0	80	55	5	10	30	1.54
422460--422497	13	3.0	13	88	3	51	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422472--422530	17	3.4	17	72	13	57	64	0	0	35	0.94
422457--422513	30	2.0	28	89	6	87	64	0	0	35	0.93
422587--422647	23	2.7	23	82	2	61	36	3	8	52	1.48
423052--423090	17	2.3	17	86	8	53	76	0	23	0	0.78
424386--424438	19	2.7	20	73	8	54	49	0	0	50	1.00
424436--424502	6	11.2	6	73	12	57	62	0	1	35	1.04
424379--424490	15	7.5	15	69	19	65	56	0	0	42	1.05
424369--424454	32	2.8	30	80	16	88	53	0	0	46	1.00
424456--424524	27	2.5	28	84	11	81	65	1	2	30	1.16
424470--424510	19	2.1	20	90	4	66	70	0	0	29	0.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17