genome.fa.s41.2.7.7.80.10.50.1000.4.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: Scaffold41
Parameters: 2 7 7 80 10 50 1000
Length:  2798036

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  4  of  21  ( 2447 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)
317558--317611	19	2.7	20	77	13	58	48	0	1	50	1.11
317558--317618	21	3.0	20	79	9	63	52	0	1	45	1.10
317749--317807	22	2.6	22	79	17	68	42	1	0	55	1.09
318604--318636	2	17.0	2	93	6	59	51	0	0	48	1.00
320313--320355	22	2.0	22	86	4	61	60	0	6	32	1.23
320422--320463	11	3.8	11	83	0	57	57	0	4	38	1.20
321807--321875	36	2.0	35	83	11	88	40	0	4	55	1.20
321941--321997	22	2.6	22	80	0	60	38	14	21	26	1.91
324624--324683	29	2.0	30	87	9	88	43	5	16	35	1.70
324673--324709	19	2.0	18	89	5	56	32	0	5	62	1.18
326191--326260	32	2.2	33	84	2	88	38	2	4	54	1.35
326587--326629	2	22.0	2	86	13	63	48	2	0	48	1.14
326729--326791	31	2.0	31	100	0	126	19	39	6	34	1.77
327469--327500	2	16.0	2	100	0	64	50	0	0	50	1.00
327971--328033	23	2.8	22	79	9	74	44	3	1	50	1.27
332035--332074	6	6.7	6	83	11	55	30	0	0	70	0.88
332283--332328	17	2.8	17	80	3	58	28	0	0	71	0.86
332559--332596	16	2.4	16	86	8	51	78	0	0	21	0.74
332695--332747	24	2.1	27	82	10	67	52	1	1	43	1.23
333743--333783	19	2.0	22	86	13	61	58	0	2	39	1.11
334328--334431	29	3.9	28	76	21	98	50	0	0	48	1.07
334345--334395	21	2.5	20	76	17	61	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
334328--334426	50	2.0	49	84	11	130	50	1	0	48	1.07
334416--334456	5	8.2	5	84	10	57	53	2	0	43	1.13
334416--334456	11	4.1	10	81	12	57	53	2	0	43	1.13
334339--334460	25	4.6	28	75	18	95	54	1	0	44	1.10
334347--334451	50	2.1	48	80	13	115	51	1	0	46	1.12
335263--335298	3	12.0	3	100	0	72	66	0	0	33	0.92
337336--337370	2	17.5	2	100	0	70	51	0	0	48	1.00
338709--338766	16	3.6	16	76	0	62	20	5	24	50	1.69
339741--339770	13	2.3	13	94	0	51	80	0	10	10	0.92
340692--340743	16	3.5	15	80	10	54	51	7	3	36	1.49
340891--340922	16	1.9	17	93	6	57	50	0	0	50	1.00
341564--341616	21	2.6	19	85	11	61	49	1	0	49	1.12
341821--341877	21	2.8	19	84	10	69	50	0	1	47	1.11
341457--341975	261	2.0	257	92	1	858	46	7	8	37	1.63
342751--342809	30	2.0	30	86	0	82	54	1	5	38	1.33
343003--343063	32	1.9	31	83	9	79	52	0	0	47	1.00
342976--343042	35	1.9	35	82	11	84	56	0	0	43	0.99
342945--343032	42	2.1	43	83	10	112	54	0	1	44	1.07
343295--343330	2	18.0	2	94	0	63	50	2	47	0	1.15
343481--343518	14	2.8	14	88	4	51	42	0	2	55	1.14
344838--344881	3	14.7	3	100	0	88	31	0	0	68	0.90
348715--348742	3	9.3	3	100	0	56	32	0	32	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
349308--349375	9	7.8	9	75	19	56	51	1	4	42	1.31
349360--349398	11	3.1	14	75	24	50	46	0	0	53	1.00
349359--349412	24	2.2	24	83	9	65	42	1	1	53	1.22
350754--350778	13	1.9	13	100	0	50	40	0	0	60	0.97
351004--351039	12	2.9	12	88	8	54	22	5	2	69	1.22
353088--353153	26	2.5	26	82	4	89	68	4	6	21	1.30
356036--356065	15	1.9	16	93	6	53	66	0	0	33	0.92
356702--356739	18	2.2	18	86	13	53	57	0	0	42	0.98
356702--356752	17	3.1	17	82	17	56	58	0	0	41	0.98
356704--356751	23	2.0	24	84	11	64	60	0	0	39	0.97
356720--356752	14	2.3	15	89	5	50	57	0	0	42	0.98
358560--358621	16	3.9	16	89	6	83	59	1	1	37	1.17
363884--363924	16	2.5	16	88	11	57	34	0	0	65	0.93
363991--364031	20	2.1	19	86	4	55	24	4	2	68	1.22
364000--364051	10	5.1	10	80	15	54	25	1	0	73	0.94
364008--364052	11	4.4	11	81	8	51	22	0	0	77	0.76
364015--364059	21	2.1	21	84	8	56	22	0	4	73	1.01
364126--364174	2	24.5	2	100	0	98	51	0	0	48	1.00
364520--364562	11	4.2	10	82	11	52	60	0	0	39	0.97
364523--364562	19	2.0	21	86	13	59	60	0	0	40	0.97
364500--364608	48	2.3	48	77	14	120	55	1	0	43	1.10
364721--364747	4	6.8	4	100	0	54	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365924--365969	24	1.9	24	82	8	58	23	2	8	65	1.32
366720--366765	23	2.0	23	91	0	74	67	4	6	21	1.32
367653--367690	13	2.8	14	84	8	51	63	0	2	34	1.09
368961--369046	36	2.4	36	79	9	95	50	1	0	48	1.08
369154--369214	32	1.9	31	83	3	77	60	3	0	36	1.13
369985--370014	13	2.3	13	94	0	51	40	0	0	60	0.97
370037--370124	10	8.4	10	70	15	54	38	1	0	60	1.04
370059--370103	17	2.7	16	83	10	63	46	2	0	51	1.13
370178--370228	24	2.1	24	81	3	57	64	1	0	33	1.05
373764--373817	26	2.1	26	82	6	65	53	0	1	44	1.11
375657--375681	2	12.5	2	100	0	50	48	0	0	52	1.00
381172--381523	186	1.9	187	89	2	548	36	15	12	35	1.86
383119--383151	17	1.9	17	100	0	66	48	6	0	45	1.27
383620--383672	27	2.0	26	85	10	72	69	1	0	28	0.99
383752--383781	15	2.1	15	93	6	53	56	0	6	36	1.26
383719--383774	29	2.0	28	86	10	78	58	0	1	39	1.08
384931--384959	14	2.1	14	93	6	51	55	0	0	44	0.99
384937--384988	18	2.9	18	78	13	54	50	1	0	48	1.12
385055--385083	3	9.7	3	100	0	58	68	0	0	31	0.89
385525--385599	30	2.5	30	84	4	89	34	14	2	48	1.58
385720--385766	22	2.1	23	88	4	69	46	4	0	48	1.21
388758--388786	13	2.1	14	93	6	51	75	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389618--389702	24	3.8	24	66	15	72	51	2	2	43	1.27
391519--391565	20	2.3	20	88	0	67	40	10	2	46	1.50
391790--391841	27	2.0	27	82	14	65	44	1	7	46	1.43
392177--392203	2	13.5	2	100	0	54	48	0	0	51	1.00
393849--393887	20	2.0	20	89	0	60	56	2	2	38	1.27
394682--394725	14	3.1	14	80	3	52	43	0	2	54	1.12
395587--395612	13	2.0	13	100	0	52	69	0	0	30	0.89
398430--398465	2	18.0	2	100	0	72	50	0	0	50	1.00
399486--399517	2	16.0	2	100	0	64	50	0	0	50	1.00
399866--400328	154	3.0	155	96	1	860	41	6	7	44	1.58
402414--402445	16	2.0	16	100	0	64	43	0	6	50	1.27
402529--402609	19	4.3	19	74	18	64	66	2	0	30	1.05
402529--402628	20	5.3	19	70	14	64	64	2	0	34	1.05
404463--404495	12	3.0	11	91	8	50	48	0	0	51	1.00
406442--406524	32	2.4	36	77	15	95	45	2	0	51	1.14
407078--407125	23	2.0	24	84	4	62	60	2	0	37	1.09
408298--408352	23	2.4	24	75	9	60	56	1	0	41	1.10
408556--408588	17	1.9	17	88	11	50	24	0	3	72	0.98
410044--410084	17	2.6	16	88	7	57	48	0	0	51	1.00
412239--412304	33	1.9	35	87	6	100	62	4	4	28	1.35
413693--413734	20	2.0	22	86	9	61	57	0	0	42	0.99
413669--413727	31	1.9	30	82	3	73	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413721--413783	22	2.9	22	76	11	67	44	1	0	53	1.10
413745--413785	19	2.0	20	86	9	57	41	2	0	56	1.13
413776--413809	9	3.6	9	88	11	50	58	0	0	41	0.98
413768--413814	20	2.3	20	78	10	51	55	4	0	40	1.19
413749--413809	29	2.0	31	84	6	81	52	1	0	45	1.10
414419--414481	29	2.2	29	83	11	76	55	4	0	39	1.21
415326--415397	35	2.1	34	94	2	126	34	8	22	34	1.84
416357--416393	18	2.1	18	100	0	74	32	10	27	29	1.90
423687--423715	2	14.5	2	100	0	58	0	0	48	51	1.00
426595--426643	2	24.5	2	100	0	98	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21