genome.fa.s341.2.7.7.80.10.50.1000.3.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: Scaffold341
Parameters: 2 7 7 80 10 50 1000
Length:  1349338

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1050 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)
303751--303829	38	2.1	38	88	7	115	17	82	0	0	0.67
304647--304716	7	9.6	7	76	14	70	18	81	0	0	0.69
304675--304723	10	5.0	10	78	11	57	12	87	0	0	0.54
304649--304722	23	3.1	25	84	9	100	18	81	0	0	0.70
304943--305046	19	5.3	19	79	5	109	86	10	1	0	0.70
304942--305029	1	88.0	1	81	0	86	88	10	0	1	0.56
304942--305046	25	4.2	27	74	15	82	86	10	1	0	0.69
304944--305046	49	2.1	49	89	1	154	86	10	1	0	0.70
305444--305476	16	2.0	17	94	5	59	21	78	0	0	0.75
305439--305484	17	2.6	18	80	13	60	21	78	0	0	0.76
305480--305513	13	2.5	13	85	4	50	47	52	0	0	1.00
309711--309758	13	3.8	13	83	5	71	87	12	0	0	0.54
309715--309775	10	5.6	10	79	12	50	85	9	3	1	0.78
309713--309758	12	3.8	12	88	5	74	89	10	0	0	0.50
309712--309765	17	3.1	17	83	2	72	88	9	1	0	0.58
309710--309758	25	2.0	25	95	0	89	85	14	0	0	0.59
309712--309765	1	54.0	1	81	0	54	88	9	1	0	0.58
310992--311962	29	33.9	29	91	2	1445	28	32	17	21	1.96
310994--311974	86	11.4	86	90	2	1460	28	32	17	21	1.96
312488--312562	20	3.8	20	78	0	87	34	13	12	40	1.81
312488--312565	40	2.0	39	87	2	111	34	12	12	39	1.82
313473--313524	22	2.3	23	93	6	97	19	11	9	59	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
318696--318777	39	2.1	39	81	4	94	42	13	8	35	1.75
320287--320340	23	2.3	23	83	3	63	38	5	5	50	1.49
320885--320925	3	13.7	3	100	0	82	68	0	0	31	0.90
321108--321148	19	2.2	20	91	8	68	51	0	0	48	1.00
327311--327354	16	2.8	16	86	6	54	52	2	2	43	1.26
327461--327487	4	6.8	4	100	0	54	22	0	0	77	0.76
328043--328083	3	13.7	3	100	0	82	34	0	0	65	0.93
328335--328377	23	1.9	22	90	4	68	74	2	9	13	1.16
340555--340597	21	2.0	21	86	9	59	41	0	4	53	1.21
341446--341502	3	19.0	3	96	0	105	66	1	0	31	1.02
347649--347687	12	3.2	12	100	0	78	48	33	17	0	1.48
353263--353385	5	23.6	5	68	17	56	48	4	0	46	1.23
353259--353360	37	2.8	35	85	8	125	49	6	0	44	1.29
353295--353383	22	3.7	22	80	18	81	48	4	0	47	1.22
353318--353374	13	4.3	13	77	18	55	47	3	0	49	1.18
353300--353400	16	6.1	16	74	13	80	48	3	0	47	1.20
353243--353400	16	10.1	16	68	16	73	48	6	0	44	1.32
353707--353750	2	22.0	2	100	0	88	50	0	0	50	1.00
360287--360327	21	2.0	21	85	4	57	41	7	0	51	1.30
360996--361026	4	7.8	4	100	0	62	51	25	0	22	1.48
363119--363202	29	2.9	29	89	0	114	45	0	1	53	1.08
363218--363258	21	2.0	21	90	0	64	43	4	0	51	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
363315--363360	13	3.6	12	86	13	65	84	0	15	0	0.62
363313--363384	16	4.6	16	77	8	76	79	0	20	0	0.74
363308--363372	18	3.7	17	79	10	69	75	0	24	0	0.81
363313--363384	30	2.4	30	83	2	92	79	0	20	0	0.74
363386--363424	12	3.2	12	89	7	53	10	0	12	76	1.01
363481--363527	17	2.7	18	79	20	55	23	0	4	72	1.02
371262--371286	6	4.2	6	100	0	50	48	20	0	32	1.50
373246--373274	14	2.1	14	100	0	58	44	6	27	20	1.77
373910--373992	29	3.0	27	82	8	87	57	0	0	42	0.98
373937--373992	29	2.0	29	90	10	91	51	0	0	48	1.00
373937--373987	26	2.0	26	88	3	77	52	0	0	47	1.00
378798--378947	47	3.2	46	76	1	147	34	8	17	39	1.80
378798--378967	47	3.6	47	77	4	130	35	8	17	38	1.81
379144--379206	33	1.9	33	87	6	92	46	7	9	36	1.66
389813--389981	39	4.2	39	76	12	155	59	7	7	25	1.50
390653--390718	33	2.0	33	93	0	114	40	21	12	25	1.88
391219--391254	10	3.3	11	88	11	56	0	11	0	88	0.50
391219--391254	6	6.5	6	81	18	51	0	11	0	88	0.50
391217--391255	16	2.5	15	91	4	60	0	12	0	87	0.55
393083--393138	28	2.0	29	82	10	71	42	8	12	35	1.74
393552--393578	2	13.5	2	100	0	54	48	0	0	51	1.00
398390--398453	33	1.9	33	87	0	92	42	10	14	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398492--398559	21	3.2	22	85	8	79	38	13	8	39	1.75
399533--399972	132	3.2	133	84	10	554	42	15	7	33	1.75
399964--399988	2	12.5	2	100	0	50	48	0	0	52	1.00
400436--400482	21	2.2	21	85	7	60	59	2	0	38	1.09
400513--400575	23	2.7	23	82	9	65	60	0	3	36	1.13
400545--400590	18	2.6	17	83	12	58	56	2	6	34	1.37
400544--400588	23	2.0	23	86	0	63	55	2	6	35	1.38
400860--400905	17	2.9	16	87	6	58	36	0	0	63	0.95
401744--401786	19	2.3	19	88	8	61	60	9	2	27	1.40
402092--402268	11	16.1	11	66	26	74	61	0	1	37	1.04
402068--402277	72	2.9	73	77	13	200	61	0	1	35	1.14
402185--402313	6	22.3	6	69	19	78	65	0	0	33	1.04
402183--402288	5	21.6	5	71	19	64	63	0	0	35	1.01
402230--402303	31	2.5	29	78	8	78	63	1	0	35	1.03
402607--402659	28	1.9	27	88	3	79	54	0	0	45	0.99
402740--402781	18	2.2	18	87	8	57	50	0	0	50	1.00
402761--402811	25	2.1	24	81	3	57	54	1	0	43	1.11
403004--403043	2	20.0	2	100	0	80	50	0	0	50	1.00
404544--404600	29	2.0	29	83	13	73	31	1	1	64	1.13
405104--405151	18	2.7	18	80	6	53	37	0	0	62	0.95
405499--405535	2	18.5	2	94	0	65	48	0	2	48	1.15
405964--406132	59	2.8	60	80	10	202	46	15	21	15	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406711--406738	14	2.0	14	100	0	56	57	7	21	14	1.61
409656--409752	46	2.1	45	88	5	142	27	14	19	38	1.91
410189--410247	30	2.0	30	89	0	91	35	20	11	32	1.89
410256--410292	2	18.5	2	100	0	74	51	0	0	48	1.00
410642--410845	105	1.9	105	95	0	372	23	20	18	37	1.94
413982--414021	21	1.9	21	94	0	71	12	20	25	42	1.86
416843--416871	14	2.1	14	100	0	58	27	31	0	41	1.56
420785--420822	15	2.6	15	83	4	51	31	2	0	65	1.06
421590--421621	16	2.0	16	93	0	55	50	0	3	46	1.17
421939--421973	14	2.6	14	90	4	54	17	2	0	80	0.84
424923--424967	23	2.0	23	100	0	90	40	4	8	46	1.55
429371--429693	166	1.9	166	92	1	540	22	18	16	42	1.89
433612--433649	17	2.2	17	86	9	51	57	5	15	21	1.57
433611--433650	18	2.3	17	82	4	53	60	5	15	20	1.53
435194--435979	52	15.1	52	73	8	404	37	13	22	26	1.91
435193--435965	156	5.0	156	76	6	645	37	13	22	26	1.91
435710--435734	9	2.8	9	100	0	50	64	0	12	24	1.27
435992--436107	32	3.6	33	79	8	121	23	18	26	31	1.97
436098--436235	30	4.6	30	78	7	136	36	12	25	25	1.91
436109--436233	60	2.1	61	83	4	155	40	12	23	24	1.89
436139--436203	31	2.1	30	88	2	94	40	13	26	20	1.89
437067--437132	33	2.0	33	82	5	80	31	9	21	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437637--437746	56	2.0	55	89	1	166	7	20	8	64	1.44
445035--445154	52	2.3	52	84	2	152	45	7	14	33	1.73
445194--445251	20	2.9	20	81	0	71	29	20	12	37	1.89
447787--447813	13	2.1	13	100	0	54	29	7	14	48	1.71
448651--448717	35	1.9	35	82	11	84	46	0	2	50	1.16
450408--450437	15	2.0	15	93	0	51	50	3	46	0	1.18
457826--457854	2	14.5	2	100	0	58	48	0	51	0	1.00
477848--478179	162	2.0	164	83	4	422	37	18	15	28	1.91
479895--479929	15	2.4	15	90	4	54	60	0	0	40	0.97
482977--483030	21	2.7	20	80	8	65	38	12	11	37	1.79

Tables:   1   2   3   4   5   6   7   8   9