genome.fa.s43.2.7.7.80.10.50.1000.3.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: 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  3  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)
304683--304750	18	3.7	18	72	7	66	50	1	8	39	1.43
304779--304829	24	2.2	23	82	10	59	62	5	0	31	1.19
304777--304835	23	2.6	23	76	12	59	55	6	0	37	1.26
304858--304897	21	1.9	21	94	0	71	52	0	2	45	1.14
304911--304945	15	2.3	15	90	0	52	74	0	5	20	1.02
307798--307849	16	3.2	16	71	17	54	28	5	9	55	1.55
307796--307857	32	1.9	32	93	0	106	32	6	9	51	1.60
307797--307851	17	3.4	17	71	19	53	29	5	10	54	1.57
312052--312097	18	2.5	18	78	21	51	30	0	0	69	0.89
312043--312115	24	3.0	24	69	11	60	31	0	0	68	0.90
312287--312324	6	6.5	6	84	6	51	21	0	0	78	0.74
312286--312325	16	2.4	17	83	8	55	25	0	0	75	0.81
312286--312325	11	3.5	11	90	6	62	25	0	0	75	0.81
313154--313204	24	2.1	26	86	13	74	37	0	0	62	0.95
313158--313200	19	2.5	17	88	11	61	37	0	0	62	0.95
313161--313209	24	2.0	24	84	7	64	40	2	0	57	1.10
313188--313239	19	2.8	19	83	11	63	40	1	0	57	1.10
313180--313239	17	3.6	16	74	22	52	40	1	0	58	1.08
313595--313634	17	2.4	17	86	0	62	67	0	0	32	0.91
314928--314994	30	2.2	31	81	7	84	37	1	0	61	1.05
316043--316078	2	18.0	2	100	0	72	50	0	0	50	1.00
316485--316530	24	1.9	24	86	0	65	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)
316489--316527	18	2.2	18	85	0	51	64	0	0	35	0.94
316663--316701	17	2.2	18	86	4	53	38	0	0	61	0.96
316743--316874	36	3.5	36	70	22	90	64	3	1	31	1.18
316807--316856	23	2.1	24	85	10	68	68	2	2	28	1.12
317513--317556	3	14.7	3	100	0	88	34	0	0	65	0.93
317676--317728	19	2.7	19	80	8	54	33	0	5	60	1.20
318159--318195	2	19.0	2	88	5	58	45	0	2	51	1.15
318644--318692	6	8.7	6	79	18	52	44	0	0	55	0.99
318738--318791	21	2.6	21	78	18	60	37	1	0	61	1.07
320432--320466	17	2.1	17	88	0	52	57	2	0	40	1.14
320430--320468	17	2.4	16	83	8	51	61	2	0	35	1.10
320197--320590	206	1.9	206	87	4	580	47	10	6	36	1.63
320761--320837	38	2.2	37	84	13	101	62	0	0	37	0.96
320768--320847	20	4.2	20	69	22	64	60	0	0	40	0.97
321754--321802	25	2.0	25	95	0	89	32	20	16	30	1.94
324099--324160	20	3.2	18	75	22	54	61	0	0	38	0.96
324910--324943	12	2.8	12	90	0	50	50	8	0	41	1.34
325603--325642	21	1.9	21	90	10	64	60	0	0	40	0.97
327103--327136	13	2.6	13	85	0	50	47	0	5	47	1.26
327848--327892	2	22.5	2	95	0	54	51	8	0	40	1.33
328080--328127	17	2.9	16	79	11	53	41	0	0	58	0.98
328458--328488	16	2.0	15	93	6	53	51	0	3	45	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
328497--328548	16	3.2	16	83	2	59	26	5	11	55	1.58
328816--328840	13	1.9	13	100	0	50	28	0	0	72	0.86
330133--330185	23	2.2	25	84	15	69	33	5	3	56	1.41
336325--336393	26	2.6	27	72	9	70	39	2	0	57	1.13
336537--336642	32	3.6	29	73	20	94	38	0	0	60	1.03
336548--336591	22	1.9	22	81	9	52	36	0	0	63	0.95
336561--336634	14	4.9	15	73	25	66	40	1	0	58	1.07
336537--336642	29	3.6	31	78	16	118	38	0	0	60	1.03
336726--336775	16	3.2	16	75	13	50	40	2	0	58	1.10
337143--337180	17	2.2	18	85	4	51	39	2	0	57	1.12
338159--338188	11	2.8	11	95	5	53	0	6	0	93	0.35
338156--338186	14	2.1	15	94	5	55	0	9	0	90	0.46
338501--338526	2	13.0	2	100	0	52	50	0	0	50	1.00
338618--338716	50	2.0	51	95	2	182	34	25	11	29	1.90
340521--340549	2	14.5	2	100	0	58	51	0	0	48	1.00
342081--342145	22	3.0	22	73	10	62	41	1	1	55	1.18
342131--342184	19	2.8	19	75	13	56	35	0	1	62	1.06
343076--343162	22	4.0	21	72	19	72	59	1	0	39	1.05
343116--343174	22	2.6	23	75	8	66	52	3	0	44	1.17
343490--343637	16	8.9	16	69	22	67	41	0	0	57	1.03
343489--343625	22	6.2	20	69	23	57	42	0	0	56	1.04
343484--343563	26	3.0	25	77	10	88	42	0	1	56	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
343498--343658	7	21.0	8	69	22	80	40	0	0	59	1.02
344688--344751	15	4.3	15	87	0	83	50	32	12	4	1.61
344678--344751	15	4.4	18	73	16	70	48	33	12	5	1.63
348767--348792	3	8.7	3	100	0	52	65	0	0	34	0.93
350501--350535	8	4.5	8	96	3	63	20	0	80	0	0.72
350494--350535	16	2.7	15	89	7	66	16	0	83	0	0.65
351541--351677	67	2.0	67	98	0	265	44	15	14	25	1.84
352796--352833	9	4.2	9	93	0	67	7	26	10	55	1.61
352774--352842	27	2.6	27	83	0	84	5	33	13	47	1.66
354479--354525	19	2.4	20	82	13	62	27	0	0	72	0.85
354715--354751	18	2.0	19	85	15	51	40	0	0	59	0.97
357514--357563	13	3.8	13	78	5	55	66	0	0	34	0.92
359646--359671	13	2.0	13	100	0	52	53	0	0	46	1.00
360824--360871	23	2.1	22	88	3	69	50	0	0	50	1.00
363293--363319	3	9.0	3	100	0	54	33	0	33	33	1.58
363921--363973	20	2.6	19	77	11	52	64	0	0	35	0.94
364079--364170	29	3.1	28	84	7	112	32	1	3	63	1.18
364457--364533	28	2.7	29	77	6	84	44	1	6	48	1.37
364610--364636	3	9.0	3	100	0	54	66	0	0	33	0.92
365827--365864	19	2.0	20	89	5	60	50	0	0	50	1.00
372424--372473	26	1.9	26	84	8	66	38	10	0	52	1.35
374019--374048	15	2.0	15	93	0	51	23	40	16	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376729--376826	50	2.0	50	89	4	153	41	19	9	29	1.82
392731--393561	400	2.0	409	80	7	940	41	6	7	43	1.60
393571--393600	2	15.0	2	100	0	60	50	0	0	50	1.00
395247--395272	3	8.7	3	100	0	52	69	0	0	30	0.89
395472--395513	13	3.4	13	74	12	52	42	0	0	57	0.99
396250--396296	18	2.6	18	80	6	60	55	0	0	44	0.99
396251--396320	37	1.9	36	82	8	88	57	0	0	42	0.99
396280--396345	33	2.0	33	82	11	82	57	0	0	42	0.98
397380--397424	23	1.9	24	86	4	65	51	0	2	46	1.13
397880--397914	5	7.2	5	93	6	63	60	0	0	40	0.97
399200--399250	2	25.5	2	100	0	102	49	0	0	50	1.00
400467--400496	2	15.0	2	100	0	60	0	50	0	50	1.00
403616--403698	32	2.5	33	82	9	105	44	0	1	54	1.08
404233--404547	117	2.7	116	80	9	311	48	2	6	42	1.41
406559--406583	2	12.5	2	100	0	50	48	0	0	52	1.00
406909--406947	18	2.2	18	86	9	53	53	0	0	46	1.00
407078--407166	16	5.9	15	68	22	53	56	1	3	39	1.23
407100--407164	29	2.2	31	86	10	91	58	1	3	36	1.23
407688--407721	2	17.0	2	100	0	68	50	0	0	50	1.00
408523--408561	19	2.1	19	90	0	60	46	2	0	51	1.14
410266--410302	16	2.2	17	86	13	51	43	0	0	56	0.99
410266--410302	17	2.2	17	86	13	51	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)
410467--410497	16	1.9	16	93	0	53	64	0	0	35	0.94
410766--410795	6	4.8	6	95	4	51	80	0	0	20	0.72
410921--410966	18	2.4	19	89	7	67	45	2	0	52	1.13
412222--412271	24	2.1	24	88	0	73	10	44	4	42	1.56
412222--412271	12	4.2	12	78	0	55	10	44	4	42	1.56
416264--416295	2	16.0	2	100	0	64	50	0	0	50	1.00
439423--439495	33	2.2	33	100	0	146	35	41	5	17	1.73
447787--447816	2	15.0	2	100	0	60	50	0	0	50	1.00
452483--452580	41	2.4	40	86	1	133	46	8	3	41	1.49
453693--453736	19	2.3	19	80	0	52	29	6	4	59	1.44

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