genome.fa.s43.2.7.7.80.10.50.1000.4.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: Scaffold43
Parameters: 2 7 7 80 10 50 1000
Length:  2559314

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

This is table  4  of  19  ( 2200 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)
455213--455247	16	2.1	17	94	5	63	62	8	0	28	1.24
455827--455861	18	2.1	17	89	10	54	28	5	11	54	1.59
456918--456981	16	4.1	16	78	8	60	20	17	25	37	1.93
456928--456968	15	2.6	16	88	3	57	19	19	29	31	1.96
457334--457411	38	2.1	36	85	9	102	50	2	6	41	1.42
458042--458070	2	14.5	2	100	0	58	51	0	0	48	1.00
460680--460731	23	2.3	23	79	0	59	53	3	1	40	1.30
461065--461108	23	1.9	23	90	0	70	50	0	2	47	1.13
461065--461114	23	2.1	23	85	3	64	50	2	2	46	1.24
462634--462659	2	13.0	2	100	0	52	50	0	0	50	1.00
463269--463360	46	2.0	46	97	0	175	53	6	6	33	1.53
464437--464516	28	2.7	27	81	14	79	40	1	1	57	1.15
465007--465035	14	2.0	15	93	6	51	6	89	0	3	0.57
465468--465525	30	2.0	28	83	10	71	39	0	0	60	0.97
465597--465644	17	2.9	16	79	11	60	35	0	0	64	0.94
469233--469277	20	2.2	20	80	0	54	40	4	4	51	1.42
469835--469864	2	15.0	2	100	0	60	50	0	0	50	1.00
470069--470264	96	2.0	97	88	2	288	21	37	10	30	1.87
475238--475290	20	2.5	22	82	14	67	50	3	0	45	1.19
476302--476355	25	2.2	24	83	3	63	33	0	1	64	1.04
476938--477014	15	5.0	15	68	9	57	50	1	0	48	1.09
476929--477014	30	2.8	31	91	3	138	47	1	0	51	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476934--477032	30	3.3	29	81	8	108	48	1	0	50	1.07
477309--477354	6	7.7	6	90	0	65	52	4	43	0	1.21
477309--477354	10	4.6	10	91	0	65	52	4	43	0	1.21
477309--477354	8	5.8	8	89	0	65	52	4	43	0	1.21
477438--477475	5	7.8	5	83	16	53	78	0	18	2	0.86
477438--477476	19	2.1	19	90	9	62	76	0	20	2	0.90
478964--479006	3	14.3	3	85	0	59	2	30	4	62	1.28
479766--479812	18	2.6	19	78	15	55	55	0	0	44	0.99
480395--480452	19	3.0	20	80	9	59	34	3	0	62	1.12
481142--481184	15	3.0	14	83	13	52	51	0	6	41	1.29
481673--481728	15	3.6	15	73	21	53	33	1	0	64	1.04
482144--482213	21	3.2	21	76	13	70	52	1	1	44	1.18
482502--482566	21	3.3	21	76	22	61	58	0	0	41	0.98
482524--482576	15	3.4	16	79	5	56	62	0	0	37	0.96
489011--489099	17	4.9	17	76	17	65	40	1	1	57	1.13
489042--489085	20	2.2	20	87	0	61	31	0	0	68	0.90
489053--489107	16	3.5	16	76	11	60	40	0	0	60	0.97
489036--489107	31	2.2	33	85	9	96	40	0	0	59	0.97
489071--489118	20	2.4	20	82	0	60	37	0	0	62	0.95
490976--491331	179	2.0	180	89	1	554	37	7	10	44	1.67
491434--491472	18	2.1	18	85	9	51	58	5	5	30	1.41
491906--491952	22	2.1	22	84	7	60	31	0	4	63	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492207--492287	15	5.3	15	71	7	65	55	7	7	29	1.55
492215--492287	31	2.4	30	84	6	85	57	5	8	28	1.50
492544--492615	34	2.2	34	85	9	96	43	0	1	55	1.08
492571--492621	18	2.6	19	78	12	59	41	0	0	58	0.98
493375--493423	22	2.2	22	89	7	73	48	2	2	46	1.25
493628--493661	15	2.4	14	90	5	50	35	0	0	64	0.94
493664--493700	19	1.9	20	94	5	67	48	0	0	51	1.00
493870--493914	5	8.8	5	95	4	81	42	0	0	57	0.98
493873--493915	21	2.0	21	100	0	86	44	0	0	55	0.99
493870--493921	26	2.0	26	92	0	86	44	1	0	53	1.11
493876--493931	26	2.2	26	83	0	67	46	1	3	48	1.30
494331--494355	2	12.5	2	100	0	50	48	0	0	52	1.00
494493--494540	3	16.0	3	100	0	96	33	0	0	66	0.92
497857--497902	16	2.7	18	78	18	53	67	13	2	17	1.33
499138--499164	2	13.5	2	100	0	54	48	0	0	51	1.00
502614--502695	25	3.3	25	75	18	73	41	0	0	58	0.98
502657--502708	23	2.3	22	83	9	61	46	0	0	53	1.00
503380--503420	22	1.9	21	85	5	55	39	4	0	56	1.21
503748--503788	11	3.7	11	84	9	57	58	0	0	41	0.98
503998--504032	18	1.9	18	88	0	52	48	0	2	48	1.16
504292--504345	5	10.6	5	86	13	51	40	0	0	59	0.98
504680--504729	18	2.7	18	81	3	55	58	4	0	38	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504686--504730	18	2.4	20	82	14	60	60	2	0	37	1.09
504959--504997	18	2.2	17	90	4	60	33	0	0	66	0.92
504982--505064	44	1.9	43	83	11	107	50	0	0	49	1.00
508914--508950	15	2.5	15	95	0	65	27	2	5	64	1.28
511065--511107	20	2.1	21	91	8	72	62	0	2	34	1.08
513628--513669	21	2.0	20	86	4	57	38	2	0	59	1.10
513626--513669	20	2.1	22	84	16	58	38	2	0	59	1.10
513875--513926	26	2.0	27	85	11	72	40	1	1	55	1.22
513921--513979	23	2.4	25	69	11	59	49	1	0	49	1.11
514285--514354	22	3.3	21	75	9	63	54	0	0	45	0.99
514285--514345	19	3.1	19	77	13	68	54	0	0	45	1.00
514768--514822	21	2.6	21	82	2	65	49	0	0	50	1.00
515664--515727	20	3.2	20	74	21	53	56	1	0	42	1.09
516058--516089	2	16.0	2	100	0	64	50	0	0	50	1.00
516163--516195	17	1.9	17	93	0	57	48	3	3	45	1.33
517875--517951	15	5.3	15	74	14	63	54	0	0	45	0.99
517875--517955	28	2.9	29	75	12	96	55	0	0	44	0.99
518373--518425	22	2.4	22	75	6	54	52	1	0	45	1.11
518658--518734	39	2.0	39	82	12	97	50	0	0	49	1.00
518689--518737	25	2.0	25	83	0	62	51	0	0	48	1.00
521462--521497	2	18.0	2	100	0	72	0	0	50	50	1.00
524044--524078	17	2.1	17	100	0	70	28	31	17	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525260--525296	2	18.5	2	100	0	74	48	0	0	51	1.00
525850--526261	205	2.0	205	100	0	824	41	11	10	35	1.76
527128--527170	4	10.8	4	100	0	86	74	0	0	25	0.82
528312--528358	16	2.8	17	79	20	55	51	8	0	40	1.33
529955--529998	20	2.2	21	84	12	65	65	0	0	34	0.93
529954--529993	18	2.3	18	83	8	57	67	0	0	32	0.91
529951--530005	20	3.2	17	75	20	53	61	0	0	38	0.96
533843--533871	2	14.5	2	100	0	58	48	0	0	51	1.00
534665--534708	15	3.0	15	78	15	56	36	2	4	56	1.32
535246--535289	2	22.5	2	95	4	81	50	0	0	50	1.00
535824--535873	22	2.3	22	79	6	57	54	2	0	44	1.11
537262--537289	2	14.0	2	100	0	56	50	0	0	50	1.00
537289--537313	2	12.5	2	100	0	50	0	0	48	52	1.00
540398--540441	16	2.5	18	78	17	56	40	0	2	56	1.11
541154--541186	17	1.9	17	88	11	50	63	0	0	36	0.95
544774--544802	14	2.1	14	100	0	58	41	6	20	31	1.79
545306--545421	39	3.0	39	97	0	214	55	3	3	37	1.34
545818--545871	27	2.0	28	85	3	74	50	0	0	50	1.00
548576--548619	19	2.3	19	88	11	63	65	0	2	31	1.05
550376--550417	22	1.9	22	90	9	68	38	0	0	61	0.96
550500--550545	20	2.3	20	81	11	58	39	0	0	60	0.97
550561--550617	24	2.4	24	82	8	71	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550611--550655	19	2.3	19	85	11	56	57	0	0	42	0.98
550916--550980	15	4.3	15	86	3	94	33	0	3	63	1.10
550916--550980	30	2.1	31	91	2	105	33	0	3	63	1.10
550979--551038	28	2.2	27	82	8	68	31	0	1	66	1.01
552356--552399	22	2.0	22	86	4	63	52	4	0	43	1.22
552546--552607	26	2.5	24	76	18	74	53	0	0	46	1.00
552554--552614	26	2.3	27	82	8	79	54	0	0	45	1.00
552546--552614	26	2.8	24	75	14	68	53	0	0	46	1.00
552784--552828	6	7.5	6	89	0	72	15	28	22	33	1.95
552784--552827	18	2.4	18	100	0	88	15	27	22	34	1.95

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