genome.fa.s246.2.7.7.80.10.50.1000.3.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: Scaffold246
Parameters: 2 7 7 80 10 50 1000
Length:  1425817

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 935 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)
253042--253086	19	2.4	19	85	3	65	35	0	0	64	0.94
253004--253083	34	2.5	34	80	11	80	38	0	0	61	0.96
253513--253555	21	2.0	22	86	4	61	51	0	2	46	1.13
253512--253555	22	1.9	22	86	9	61	50	0	2	47	1.13
259169--259288	64	1.9	63	91	1	195	47	5	10	35	1.63
259532--259559	3	9.3	3	100	0	56	64	0	0	35	0.94
261399--261465	19	3.3	19	69	30	50	47	0	0	52	1.00
262253--262282	2	15.0	2	92	0	51	46	0	3	50	1.18
262852--262905	15	3.7	15	78	14	51	31	1	7	59	1.36
267171--267240	29	2.4	29	75	13	72	37	2	0	60	1.12
268475--268508	11	3.2	11	87	8	52	55	0	0	44	0.99
268768--268795	2	14.0	2	100	0	56	50	0	0	50	1.00
269958--270003	14	3.4	14	81	6	58	36	2	2	58	1.22
270433--270524	30	2.9	30	72	15	71	42	3	2	52	1.30
270605--270658	15	3.7	14	78	14	56	57	0	1	40	1.09
270615--270676	13	5.0	13	75	16	60	61	0	0	38	0.96
270617--270676	23	2.8	21	78	14	68	61	0	0	38	0.96
270616--270672	29	2.0	28	83	16	73	59	0	0	40	0.97
271684--271715	2	16.0	2	100	0	64	50	0	0	50	1.00
271991--272207	111	1.9	112	89	4	341	23	26	12	36	1.91
272456--272508	19	2.8	20	77	11	58	49	0	0	50	1.00
273512--273560	22	2.1	24	85	7	66	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)
273624--273673	19	2.6	19	90	0	73	62	2	0	36	1.07
273623--273673	25	2.0	25	88	7	77	60	1	0	37	1.08
273509--273656	45	3.4	43	72	17	119	59	0	0	39	1.02
273623--273673	6	8.2	6	75	16	50	60	1	0	37	1.08
278474--278884	205	2.0	205	97	0	768	33	12	16	37	1.86
279799--279841	11	4.1	11	82	11	54	53	0	0	46	1.00
279803--279843	20	2.0	20	95	0	73	56	0	0	43	0.99
281027--281088	23	2.7	23	77	7	63	48	0	0	51	1.00
290045--290077	15	2.2	15	89	10	50	9	9	15	66	1.43
290569--290645	36	2.1	36	81	11	86	48	2	0	49	1.15
294225--294268	23	1.9	23	100	0	88	40	4	15	38	1.68
298797--298870	20	3.7	21	76	18	61	39	0	4	56	1.18
299465--299511	22	2.2	23	82	17	66	40	0	0	59	0.97
299789--299836	20	2.3	21	82	7	62	68	0	0	31	0.90
299972--300009	16	2.4	16	91	8	60	36	0	0	63	0.95
300492--300556	30	2.2	29	83	2	76	63	1	0	35	1.04
300506--300570	29	2.2	29	86	8	96	53	4	0	41	1.21
300521--300607	13	6.5	13	70	17	54	48	4	0	47	1.22
300552--300597	14	3.5	13	85	11	58	43	6	0	50	1.28
300504--300640	29	4.8	29	72	16	88	50	2	0	46	1.16
300873--300901	15	2.0	15	93	6	51	41	0	0	58	0.98
304758--304821	33	1.9	34	93	3	112	43	7	39	9	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
304862--304910	25	1.9	26	83	4	64	40	0	2	57	1.10
304891--304938	22	2.1	23	84	3	62	39	0	6	54	1.26
306346--306398	20	3.0	16	79	17	52	49	0	0	50	1.00
306363--306401	20	2.0	20	94	0	69	51	0	0	48	1.00
306426--306486	23	2.7	23	85	9	74	49	0	3	47	1.18
306419--306502	21	4.3	18	70	22	62	48	0	2	48	1.14
306428--306497	22	3.2	21	76	13	61	48	0	2	48	1.16
306423--306486	21	3.0	21	80	13	67	50	0	3	46	1.17
306660--306689	10	3.0	10	95	0	51	53	0	0	46	1.00
306671--306717	24	2.0	24	83	8	60	55	0	2	42	1.12
306649--306717	35	2.0	35	83	11	88	56	0	1	42	1.08
306971--306997	2	13.5	2	100	0	54	48	0	0	51	1.00
308227--308299	14	5.4	14	69	22	50	45	1	1	52	1.18
308538--308562	13	1.9	13	100	0	50	32	0	0	68	0.90
310439--310479	19	2.1	20	86	4	57	26	7	9	56	1.58
313005--313053	22	2.3	21	86	10	64	40	2	0	57	1.10
321453--321518	22	2.9	23	79	20	77	53	0	0	46	1.00
321685--321751	29	2.3	29	86	0	89	44	1	0	53	1.09
324370--324395	13	2.0	13	100	0	52	61	0	0	38	0.96
324982--325010	2	14.5	2	100	0	58	48	0	0	51	1.00
326685--326724	19	2.0	21	85	9	57	45	5	0	50	1.23
327146--327190	24	2.0	24	91	8	76	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
327125--327192	22	3.0	22	75	25	63	55	0	0	44	0.99
328149--328183	18	1.9	18	88	0	52	74	11	8	5	1.22
329255--329333	21	3.9	21	73	14	67	55	1	0	43	1.07
329225--329316	46	2.0	46	81	8	107	51	1	0	47	1.07
330182--330226	16	2.8	16	75	0	54	42	2	0	55	1.12
332754--332813	16	3.9	15	75	18	52	50	0	0	50	1.00
332751--332815	14	4.3	14	74	20	51	49	0	0	50	1.00
333157--333217	31	1.9	32	83	3	79	36	0	1	62	1.05
341519--341546	2	14.0	2	100	0	56	50	0	0	50	1.00
347895--348037	19	7.8	18	68	22	84	34	0	3	61	1.13
347911--348001	8	11.4	8	70	20	66	37	0	4	58	1.18
347896--348040	28	5.2	29	70	20	103	34	0	3	62	1.12
347892--348002	56	2.0	56	81	10	129	37	0	4	57	1.19
347904--348011	21	4.8	20	67	27	51	36	0	3	60	1.15
347951--348045	24	3.9	24	72	19	72	31	0	5	63	1.17
351763--351787	2	12.5	2	100	0	50	48	0	0	52	1.00
354818--354844	2	13.5	2	100	0	54	48	0	0	51	1.00
354847--354871	2	12.5	2	100	0	50	0	0	52	48	1.00
363299--363369	33	2.1	34	89	2	108	53	2	5	38	1.39
365540--365638	49	2.0	49	88	0	144	32	14	19	34	1.91
366533--366563	15	2.1	15	93	0	53	54	0	0	45	0.99
367067--367193	11	10.8	12	67	27	53	58	0	0	40	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367094--367191	33	2.9	34	71	14	60	59	1	0	39	1.04
367115--367179	26	2.6	25	81	11	73	56	0	0	43	0.99
367139--367195	20	2.8	20	79	15	62	64	0	0	35	0.93
370959--371040	28	2.9	29	78	12	91	51	0	0	48	1.00
376884--376926	20	2.2	20	83	8	52	37	2	0	60	1.10
378461--378507	24	1.9	24	86	4	67	48	0	0	51	1.00
384101--384128	2	14.0	2	100	0	56	50	0	0	50	1.00
384618--384651	2	17.0	2	100	0	68	50	0	0	50	1.00
389356--389429	19	3.7	21	71	20	68	56	0	0	43	0.99
389846--389906	29	2.1	30	84	9	81	37	1	0	60	1.07
390066--390106	21	2.1	19	86	9	55	46	0	0	53	1.00
390145--390169	3	8.3	3	100	0	50	36	0	0	64	0.94
390500--390547	24	2.0	24	88	8	71	45	0	0	54	0.99
391052--391090	18	2.0	20	85	9	55	43	0	0	56	0.99
391062--391140	18	4.4	17	70	24	56	43	0	1	55	1.07
391059--391152	28	3.6	25	70	14	66	43	0	1	55	1.06
391056--391118	26	2.4	26	78	10	74	47	0	0	52	1.00
391056--391137	28	3.0	26	74	13	85	45	0	1	53	1.08
391107--391153	17	2.6	19	78	15	55	38	0	2	59	1.09
394248--394330	31	2.6	31	81	9	96	43	0	0	56	0.99
394927--394968	6	7.0	6	100	0	84	33	16	33	16	1.92
395125--395164	20	2.0	21	90	5	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395726--395841	30	3.9	28	80	9	108	39	6	2	51	1.40
395738--395836	30	3.3	29	82	13	112	42	6	2	49	1.39
396290--396331	20	2.0	20	86	4	57	59	0	0	40	0.97
397134--397174	20	2.0	20	85	0	55	51	0	0	48	1.00
397422--397449	2	14.0	2	100	0	56	50	0	50	0	1.00
397906--397966	27	2.2	28	77	8	72	45	0	0	54	1.00
397880--397962	36	2.3	35	78	13	89	42	1	0	56	1.07
397912--397973	26	2.4	26	82	12	74	43	1	0	54	1.09
398376--398424	20	2.3	23	86	10	68	38	0	2	59	1.09
399392--399417	2	13.0	2	100	0	52	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8