genome.fa.s133.2.7.7.80.10.50.1000.4.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: Scaffold133
Parameters: 2 7 7 80 10 50 1000
Length:  2564099

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

This is table  4  of  17  ( 1989 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)
366979--367009	15	2.1	15	93	0	53	16	35	0	48	1.46
374926--374986	32	2.0	30	83	6	77	55	0	0	44	0.99
375857--375911	25	2.1	25	83	6	65	40	1	3	54	1.28
375871--375946	31	2.5	31	82	8	84	47	0	1	51	1.09
375884--375946	30	2.1	30	84	3	81	46	0	1	52	1.10
376432--376478	15	3.1	15	76	8	51	48	0	0	51	1.00
376437--376481	16	2.9	16	78	15	51	44	0	0	55	0.99
376606--376663	12	4.8	12	77	16	57	55	0	0	44	0.99
377533--377598	32	2.1	30	81	10	71	53	1	0	45	1.09
377612--377650	16	2.4	16	86	0	60	56	7	0	35	1.28
381529--381560	16	2.0	16	93	0	55	40	0	6	53	1.26
382166--382194	12	2.4	12	100	0	58	17	0	0	82	0.66
382310--382361	16	3.3	16	74	12	54	48	0	1	50	1.12
383303--383336	11	2.9	12	82	8	52	73	0	0	26	0.83
383278--383336	23	2.6	23	81	2	75	71	1	1	25	1.05
384099--384163	31	2.1	32	85	2	87	58	1	4	35	1.28
384305--384367	32	1.9	33	81	9	76	65	4	0	30	1.13
384742--384818	31	2.4	32	78	8	84	50	2	1	45	1.23
384776--384845	26	2.7	27	80	8	65	51	1	0	47	1.09
384802--384867	28	2.3	29	84	5	80	50	0	0	50	1.00
384805--384885	40	2.0	42	85	9	114	49	1	0	49	1.08
384874--384930	29	1.9	30	89	3	89	47	1	0	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
385352--385427	17	4.5	18	77	19	67	51	0	2	46	1.15
386053--386080	12	2.3	12	100	0	56	14	0	25	60	1.34
386896--386934	10	3.9	10	82	0	51	74	0	0	25	0.82
386896--386933	20	1.9	20	88	0	58	76	0	0	23	0.79
388196--388239	22	2.0	23	90	4	72	38	27	9	25	1.86
388296--388341	17	2.8	17	90	3	67	47	17	10	23	1.79
388595--388620	9	2.9	9	100	0	52	92	0	7	0	0.39
403225--403256	2	16.0	2	100	0	64	50	0	0	50	1.00
405044--405074	2	15.5	2	100	0	62	51	0	48	0	1.00
405143--405176	17	1.9	18	94	5	61	23	2	2	70	1.15
405564--405623	21	3.1	19	72	27	54	30	0	1	68	0.99
407664--407731	12	5.4	13	78	18	56	38	1	2	57	1.23
407739--407794	25	2.2	25	90	0	85	41	14	5	39	1.68
408254--408301	22	2.2	22	96	0	87	54	0	8	37	1.31
409542--409567	6	4.3	6	100	0	52	15	30	15	38	1.88
410473--410559	43	2.0	43	84	6	115	42	0	0	57	0.98
417044--417111	34	2.0	34	97	0	127	36	4	14	44	1.66
418649--418682	14	2.3	15	85	10	52	50	8	0	41	1.34
419523--419588	18	3.7	17	78	11	62	37	4	6	51	1.47
419545--419585	17	2.4	17	87	4	55	36	4	2	56	1.34
419545--419594	18	2.8	18	84	3	66	42	4	4	50	1.40
420402--420435	8	4.1	8	85	7	50	20	2	0	76	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420405--420438	9	3.9	9	84	7	52	20	2	0	76	0.92
420402--420443	17	2.4	17	84	4	57	23	4	0	71	1.05
425537--425566	15	2.0	15	93	0	51	70	10	0	20	1.16
426046--426095	26	1.9	26	84	15	68	36	4	0	60	1.16
428867--428910	20	2.3	19	84	11	54	47	0	9	43	1.35
429377--431254	928	2.0	913	93	2	3199	38	8	7	45	1.63
433289--433319	3	10.3	3	100	0	62	64	0	0	35	0.94
441346--441434	40	2.3	41	82	7	105	40	2	1	56	1.19
441432--441513	37	2.3	36	82	12	91	37	0	1	60	1.04
441509--441565	15	3.5	17	70	20	50	38	1	1	57	1.19
442157--442203	11	4.0	12	81	10	53	72	0	0	27	0.85
442148--442199	13	4.2	13	80	9	63	71	1	0	26	0.97
442148--442203	24	2.3	24	85	11	71	69	1	0	28	0.98
442158--442248	19	4.9	19	70	18	57	64	1	1	32	1.08
442240--442300	16	3.7	16	78	12	54	47	0	0	52	1.00
442249--442306	25	2.4	25	85	2	73	48	0	0	51	1.00
442322--442360	2	20.5	2	89	10	64	48	0	0	51	1.00
442739--442766	2	14.0	2	100	0	56	50	0	0	50	1.00
444015--444046	16	2.0	16	100	0	64	37	6	0	56	1.25
445793--445830	14	2.5	16	91	8	62	52	0	0	47	1.00
446427--446479	24	2.2	24	83	6	63	41	0	5	52	1.25
446436--446480	13	3.8	12	77	11	56	37	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446436--446480	24	1.9	23	90	4	72	37	0	2	60	1.09
446540--446596	17	3.1	18	74	16	55	56	0	0	43	0.99
446499--446601	24	4.5	24	71	11	72	52	0	0	47	1.00
448204--448255	11	4.5	11	77	13	50	32	0	0	67	0.91
448205--448255	21	2.5	20	78	12	59	33	0	0	66	0.92
448210--448253	22	2.0	22	86	4	63	31	0	0	68	0.90
449369--449395	2	13.5	2	100	0	54	48	0	0	51	1.00
452408--452480	25	2.9	26	73	15	73	43	0	0	56	0.99
452419--452481	16	3.9	15	75	17	63	47	0	0	52	1.00
452461--452526	29	2.3	28	71	19	64	56	0	1	42	1.08
453937--453998	18	3.4	18	81	18	76	46	1	0	51	1.10
453937--454007	18	3.9	18	78	12	65	47	1	0	50	1.09
456800--456828	15	1.9	15	100	0	58	6	6	0	86	0.72
457569--457628	16	3.8	16	70	22	54	15	21	25	38	1.92
457968--458053	2	46.0	2	72	21	53	46	2	3	47	1.32
458443--458485	21	2.2	19	80	19	52	34	0	0	65	0.93
459454--459496	17	2.5	17	84	0	59	44	2	0	53	1.13
460115--460151	19	1.9	19	88	0	56	59	0	8	32	1.27
462537--462572	2	18.0	2	94	0	63	52	0	0	47	1.00
467937--467973	13	2.6	14	87	12	58	43	0	0	56	0.99
467967--468008	22	1.9	22	85	9	59	66	0	0	33	0.92
468298--468327	16	1.9	15	93	6	51	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)
469252--469291	18	2.2	18	95	0	71	42	47	5	5	1.47
470872--470918	17	2.9	16	74	20	53	53	2	0	44	1.12
470854--470928	33	2.3	33	84	6	100	48	1	0	50	1.09
470908--470947	20	2.0	20	90	5	62	37	0	0	62	0.95
470920--470958	15	2.7	14	84	4	51	33	0	0	66	0.92
471324--471402	34	2.3	34	78	6	88	37	0	1	60	1.05
473528--473566	17	2.3	17	90	0	60	46	0	0	53	1.00
475933--475957	13	1.9	13	100	0	50	16	8	0	76	1.02
476256--476295	19	2.1	19	95	0	71	45	22	0	32	1.53
478562--478594	1	33.0	1	93	0	57	0	3	0	96	0.20
479216--479252	2	19.0	2	94	5	67	51	0	0	48	1.00
488990--489031	21	2.0	21	85	4	57	11	19	26	42	1.85
492488--492532	2	22.5	2	90	0	72	44	0	4	51	1.21
495978--496005	3	9.3	3	100	0	56	67	0	32	0	0.91
501580--501613	2	17.0	2	87	0	50	50	5	0	44	1.26
501880--501937	17	3.4	17	77	22	59	58	0	0	41	0.98
503346--503391	23	2.0	23	95	0	83	65	6	0	28	1.17
503353--503394	12	3.6	12	74	6	50	61	4	0	33	1.17
503686--503752	29	2.2	30	77	17	68	71	1	13	13	1.21
505346--505372	13	2.1	13	100	0	54	22	0	0	77	0.76
508607--508639	15	2.2	15	89	10	50	48	6	6	39	1.53
510446--510473	2	14.0	2	100	0	56	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)
510759--510798	17	2.4	16	84	8	53	67	2	0	30	1.04
511934--511963	2	15.0	2	100	0	60	50	0	50	0	1.00
512701--512735	2	17.5	2	93	0	61	51	0	2	45	1.16
513115--513189	29	2.6	28	84	14	84	41	0	0	58	0.98
513142--513191	14	3.5	14	81	5	64	36	0	0	64	0.94
513141--513204	29	2.1	31	88	5	96	42	0	0	57	0.98
513197--513243	20	2.4	20	82	13	62	61	0	0	38	0.96
513197--513256	19	3.1	19	85	9	68	60	1	0	38	1.07
513647--513688	13	3.3	13	80	12	52	73	2	0	23	0.94
515110--515161	22	2.4	22	72	18	54	55	0	0	44	0.99

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