genome.fa.s142.2.7.7.80.10.50.1000.2.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: Scaffold142
Parameters: 2 7 7 80 10 50 1000
Length:  1427168

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 953 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)
289405--289439	6	5.7	6	96	3	61	17	0	0	82	0.66
293761--293790	2	15.0	2	100	0	60	50	50	0	0	1.00
294712--294771	20	2.9	21	80	14	79	43	0	0	56	0.99
294713--294802	14	6.5	14	65	11	51	46	2	0	51	1.13
294733--294787	29	1.9	29	85	3	76	41	3	0	54	1.18
294857--294948	37	2.6	36	81	11	93	57	1	0	41	1.06
294987--295049	16	3.9	16	80	12	65	57	0	0	42	0.99
295026--295114	42	2.1	41	81	8	99	53	0	2	43	1.13
313851--313885	10	3.4	10	88	4	52	48	0	0	51	1.00
314095--314121	2	13.5	2	100	0	54	51	0	0	48	1.00
320356--320434	33	2.4	34	81	8	92	56	0	2	40	1.12
321482--321597	44	2.6	44	88	0	160	48	12	13	25	1.78
321972--322044	14	5.4	14	75	18	73	46	6	1	45	1.38
321959--322032	13	5.6	12	74	17	58	50	5	1	43	1.33
321955--322044	27	3.3	27	93	0	144	44	6	2	46	1.42
322134--322168	6	5.8	6	86	0	52	45	2	34	17	1.63
322536--322576	2	20.5	2	100	0	82	51	0	48	0	1.00
340624--340649	13	2.0	13	100	0	52	46	7	0	46	1.31
346764--346810	16	2.8	17	70	6	51	65	0	0	34	0.93
346831--346878	25	1.9	25	87	8	71	43	6	0	50	1.27
346855--346909	20	2.9	19	79	10	69	47	3	0	49	1.19
347816--347888	24	3.4	22	75	14	64	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347842--347925	37	2.2	38	79	8	91	54	0	0	45	0.99
347912--347945	14	2.4	14	90	5	50	73	0	0	26	0.83
347898--347945	11	4.3	11	75	15	53	70	0	0	29	0.87
349967--350014	2	24.5	2	95	4	89	50	0	0	50	1.00
350355--350405	20	2.6	19	82	11	59	62	0	0	37	0.95
360269--360314	24	2.0	24	86	4	67	23	8	4	63	1.42
360534--360581	17	2.8	18	84	6	55	50	0	0	50	1.00
360605--360662	11	5.1	12	75	24	54	37	0	0	62	0.96
360954--361119	82	2.0	82	100	0	332	42	8	10	37	1.70
361100--361124	2	12.5	2	100	0	50	52	0	0	48	1.00
366271--366307	19	1.9	19	88	0	56	48	5	5	40	1.49
373713--373750	19	2.0	19	94	0	67	47	7	36	7	1.62
374780--374826	20	2.3	20	82	7	60	46	0	0	53	1.00
375844--375880	2	18.5	2	100	0	74	51	0	0	48	1.00
376920--376954	18	1.9	19	88	11	56	48	0	0	51	1.00
376942--377001	19	3.2	19	71	21	54	40	1	0	58	1.08
377282--377347	23	2.8	22	74	22	62	57	1	1	39	1.17
377882--377907	1	26.0	1	100	0	52	0	0	0	100	0.00
378830--378859	4	7.5	4	100	0	60	23	0	0	76	0.78
379079--379119	13	2.9	15	78	14	50	63	0	0	36	0.95
379117--379171	20	2.5	22	75	11	60	50	1	0	47	1.11
379847--379896	26	1.9	26	83	0	64	36	2	0	62	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380346--380387	21	2.0	22	85	4	59	47	0	0	52	1.00
380372--380451	43	1.9	43	82	5	101	55	0	1	43	1.08
382886--382928	22	1.9	23	85	4	61	27	11	11	48	1.74
385754--385782	3	9.7	3	100	0	58	0	31	0	68	0.89
391701--391725	2	12.5	2	100	0	50	48	0	0	52	1.00
391828--391906	24	3.4	24	81	8	85	39	0	3	56	1.17
395324--395357	2	17.0	2	100	0	68	50	0	0	50	1.00
399229--399263	14	2.5	14	90	0	52	51	2	0	45	1.16
399694--399739	13	3.8	13	77	13	53	60	0	0	39	0.97
399706--399768	28	2.2	29	86	8	85	69	0	0	30	0.88
399705--399791	38	2.2	40	85	6	115	65	0	0	34	0.93
399706--399783	28	2.7	27	80	9	84	67	0	0	32	0.90
399764--399834	32	2.3	31	87	4	106	52	1	1	45	1.18
399720--399830	10	11.2	10	72	15	70	60	0	0	37	1.09
399772--399852	32	2.4	35	76	16	89	50	2	1	45	1.22
399836--399892	22	2.7	21	76	15	64	52	0	1	45	1.11
400158--400207	21	2.5	20	78	15	57	52	0	0	48	1.00
400514--400561	23	2.1	23	84	7	62	27	6	4	62	1.38
400724--400776	14	3.7	15	75	14	58	58	0	0	41	0.98
402191--402458	145	1.8	145	84	4	362	33	15	14	36	1.89
402747--402792	24	1.9	24	100	0	92	32	13	13	41	1.82
411344--411373	13	2.3	13	100	0	60	50	26	13	10	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
416651--416747	49	2.0	49	95	0	176	29	19	12	38	1.88
417016--417048	16	2.1	16	100	0	66	39	6	18	36	1.75
424448--424510	20	3.3	20	69	8	51	50	3	3	42	1.34
425398--425463	34	2.0	33	82	14	82	48	0	0	51	1.00
426110--426146	2	18.5	2	100	0	74	51	0	0	48	1.00
426253--426291	2	19.5	2	100	0	78	48	0	0	51	1.00
426750--426783	2	17.0	2	100	0	68	0	0	50	50	1.00
427446--427473	2	14.0	2	100	0	56	50	0	0	50	1.00
430266--430303	12	3.0	13	84	7	60	36	0	0	63	0.95
430497--430536	17	2.3	18	83	12	57	70	7	0	22	1.12
430588--430646	16	3.8	16	77	8	59	61	0	0	38	0.96
430617--430651	17	2.1	16	89	5	52	65	0	0	34	0.93
431269--431305	16	2.2	17	90	4	58	75	0	0	24	0.80
431574--431612	3	13.0	3	100	0	78	33	0	0	66	0.92
434501--434552	15	3.7	14	77	7	52	32	1	7	57	1.38
434580--434633	26	2.0	28	85	7	76	35	3	1	59	1.26
435494--435574	34	2.3	34	81	8	83	54	1	0	44	1.08
435503--435563	27	2.2	27	82	8	70	52	1	0	45	1.10
436396--436438	13	3.1	14	83	6	52	60	4	0	34	1.17
436823--436891	31	2.3	29	80	14	77	65	0	0	34	0.93
439654--439684	5	6.2	5	92	0	53	38	0	3	58	1.15
448015--448048	17	2.0	17	88	0	50	29	23	14	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
448939--449011	17	4.3	17	77	17	55	57	1	0	41	1.07
450894--450935	21	2.0	22	85	4	59	47	0	4	47	1.23
451632--451665	2	17.0	2	93	0	59	50	2	0	47	1.16
454056--454086	16	1.9	16	93	0	53	67	3	0	29	1.06
454354--454383	15	2.0	15	93	0	51	50	0	0	50	1.00
455255--455304	24	2.0	25	84	3	66	56	6	6	32	1.48
456233--456262	2	15.0	2	100	0	60	50	0	0	50	1.00
456897--456957	32	1.9	32	90	6	97	24	29	6	39	1.80
462260--462323	26	2.4	25	84	10	74	53	3	0	43	1.16
466871--466930	20	3.0	21	75	7	61	36	1	1	60	1.17
483189--483223	2	17.5	2	100	0	70	48	0	0	51	1.00
483495--483539	21	2.1	22	91	4	74	33	0	0	66	0.92
483496--483537	10	4.1	10	77	17	50	35	0	0	64	0.94
483739--483831	19	4.7	20	72	22	72	64	2	0	33	1.06
483776--483869	17	5.4	17	70	20	61	60	0	0	39	0.97
483808--483878	32	2.2	32	87	5	108	59	0	0	40	0.98
484161--484210	3	15.3	3	91	4	55	72	0	0	28	0.86
485604--485649	23	1.9	25	82	8	60	58	0	0	41	0.98
485614--485683	24	3.0	22	74	15	68	50	0	0	50	1.00
485605--485700	16	6.0	16	76	11	81	47	0	0	52	1.00
485641--485710	16	4.7	15	81	11	74	42	0	0	57	0.99
490597--490714	60	2.0	60	89	3	184	37	23	16	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493216--493242	7	3.9	7	100	0	54	59	0	0	40	0.98
498562--498595	16	2.1	16	94	0	59	44	0	0	55	0.99
498781--498833	11	5.0	11	72	23	51	71	0	0	28	0.86
498784--498831	20	2.4	19	80	10	60	72	0	0	27	0.84
498781--498833	21	2.5	20	80	17	63	71	0	0	28	0.86
498859--498888	9	3.3	9	90	0	51	36	0	0	63	0.95
498857--498934	11	6.6	11	70	21	52	41	0	1	57	1.07
498895--498991	48	2.0	49	82	6	117	45	0	3	51	1.17
503826--503898	21	3.4	21	69	10	67	56	4	6	32	1.45
503829--503914	43	2.0	43	97	0	163	50	6	10	32	1.64

Tables:   1   2   3   4   5   6   7   8