genome.fa.s11.2.7.7.80.10.50.1000.4.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  4  of  29  ( 3461 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)
450540--450642	32	3.2	32	98	0	197	35	18	12	33	1.89
450699--450761	21	3.0	21	93	4	92	34	15	15	33	1.90
452042--452114	27	2.7	27	89	0	101	24	6	21	46	1.76
455194--455234	12	3.5	12	83	12	50	75	17	2	4	1.08
455201--455238	12	3.2	12	81	11	51	81	15	0	2	0.80
456544--456738	31	6.5	29	81	9	173	25	30	15	28	1.96
456544--456718	31	5.7	31	82	6	187	25	29	16	28	1.97
456722--457087	33	10.9	34	78	8	369	20	30	12	36	1.90
456722--457087	68	5.5	67	83	7	431	20	30	12	36	1.90
457057--457112	27	2.1	27	82	0	67	25	25	12	37	1.91
457180--462077	49	99.9	49	82	7	5382	23	25	18	32	1.97
457169--462077	98	50.1	98	87	4	5936	23	25	18	32	1.97
457169--462077	147	33.4	147	86	4	6011	23	25	18	32	1.97
462812--462881	19	3.7	19	94	0	113	31	11	17	40	1.85
462934--462958	13	1.9	13	100	0	50	32	16	16	36	1.90
466362--466422	22	2.7	23	82	10	81	37	3	6	52	1.44
466542--466579	16	2.4	16	86	8	51	26	0	10	63	1.27
467540--467692	34	4.5	33	79	8	173	41	25	6	26	1.79
467540--467692	68	2.3	67	82	6	202	41	25	6	26	1.79
471710--471751	19	2.2	19	87	8	59	35	14	19	30	1.91
472051--472205	34	4.6	33	77	7	143	44	24	4	26	1.73
473826--473865	21	1.9	21	90	10	64	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476346--476382	2	18.5	2	100	0	74	51	0	0	48	1.00
477637--477687	26	2.0	26	88	0	75	41	13	9	35	1.78
480378--480428	27	1.9	27	92	4	86	27	19	33	19	1.96
482724--482795	20	3.6	19	77	3	72	41	9	12	36	1.76
482721--482798	40	2.0	39	87	7	113	41	11	11	35	1.78
483385--484751	28	47.9	29	80	10	565	25	16	29	27	1.97
483469--484050	64	9.7	63	83	8	463	21	18	29	30	1.97
483486--483793	96	3.3	96	86	2	412	20	20	28	30	1.98
483372--484115	144	5.0	145	80	8	692	21	19	29	29	1.97
483691--485065	28	49.5	28	80	8	667	27	15	30	26	1.96
483980--485067	303	3.6	304	89	3	1499	29	14	30	26	1.95
483952--485037	27	39.6	28	83	5	1001	28	14	30	26	1.95
484825--484865	21	2.0	21	95	0	73	14	19	34	31	1.92
493468--493539	20	3.6	20	75	7	74	38	12	13	34	1.83
493465--493542	40	2.0	39	87	2	111	38	14	12	34	1.84
497771--497820	24	2.1	24	85	7	66	30	4	6	60	1.39
501884--501926	20	2.1	20	86	4	59	9	30	44	16	1.79
502201--502247	21	2.3	21	82	10	62	44	4	19	31	1.70
504464--504493	15	2.0	15	93	0	51	13	13	16	56	1.67
508582--508607	13	2.0	13	100	0	52	30	15	15	38	1.88
510224--510282	26	2.3	26	81	0	73	49	15	1	33	1.55
510476--510500	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510642--510675	2	17.0	2	100	0	68	50	0	0	50	1.00
513251--513280	13	2.2	14	94	5	53	73	0	0	26	0.84
513254--513310	22	2.6	22	81	15	73	75	3	0	21	0.95
513254--513310	9	6.6	9	77	16	50	75	3	0	21	0.95
514236--514320	29	3.0	29	77	5	75	55	5	4	34	1.45
518495--518536	5	7.3	6	91	8	54	16	0	2	80	0.81
518495--518537	22	2.0	22	90	9	70	18	0	2	79	0.85
519435--519471	19	2.0	20	89	10	60	56	2	2	37	1.28
520931--521038	40	2.7	40	77	12	114	41	4	1	51	1.33
520966--521054	14	5.7	16	73	11	62	43	2	0	53	1.13
520967--521047	16	5.0	16	69	19	53	45	2	0	51	1.14
520966--521045	29	2.7	30	83	9	85	43	2	0	53	1.14
520933--521061	40	3.3	38	76	16	106	41	3	1	53	1.26
526052--526117	31	2.3	28	78	16	73	51	0	1	46	1.10
526099--526378	118	2.4	112	84	8	352	53	2	2	41	1.26
526350--526409	23	2.5	24	78	10	70	60	5	3	31	1.35
526174--526405	112	2.1	111	83	5	283	53	1	3	40	1.29
526787--526816	15	2.0	15	93	0	51	33	3	0	63	1.11
526652--527010	125	2.9	120	82	12	410	42	1	1	53	1.23
526835--526901	22	3.1	21	72	10	64	37	0	4	58	1.19
526972--527021	26	1.9	26	84	8	66	48	0	2	50	1.12
526708--527074	120	3.0	117	73	18	286	42	2	1	53	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527600--528176	87	6.4	89	85	5	741	40	9	16	33	1.80
527600--528176	268	2.1	266	90	2	895	40	9	16	33	1.80
528114--528251	70	2.0	70	87	7	199	42	8	18	29	1.80
531906--531965	11	5.5	11	81	0	75	61	0	1	36	1.06
531906--531965	22	2.7	22	97	0	111	61	0	1	36	1.06
531906--531972	22	3.2	20	84	12	59	61	0	2	35	1.12
535222--535253	2	16.0	2	100	0	64	50	0	0	50	1.00
534952--535228	152	1.8	150	82	4	353	39	15	15	29	1.89
535415--535456	18	2.3	18	91	0	66	30	4	2	61	1.29
542974--543023	21	2.4	21	86	0	64	34	16	14	36	1.88
543372--543598	59	3.8	59	85	0	301	27	11	33	27	1.91
543383--543604	118	1.9	118	90	0	354	27	11	32	27	1.92
548026--548119	6	16.2	6	72	20	51	2	20	1	76	0.95
548019--548074	16	3.4	16	81	18	55	3	23	0	73	0.99
548029--548119	17	5.7	15	73	22	62	2	19	1	76	0.95
548026--548082	21	2.8	21	76	5	64	1	24	0	73	0.92
548027--548119	23	4.3	22	71	22	63	2	20	1	76	0.95
548053--548102	21	2.4	21	83	12	59	2	20	2	76	0.99
548028--548120	16	5.8	16	67	16	66	2	19	1	77	0.93
549114--549161	20	2.3	20	83	13	62	37	2	0	60	1.09
549114--549161	21	2.3	21	86	10	64	37	2	0	60	1.09
551803--551866	22	3.0	20	75	13	56	42	1	0	56	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
552289--552334	24	1.9	24	81	0	56	45	2	0	52	1.13
552899--552939	21	2.0	21	85	9	57	60	0	0	39	0.96
553046--553267	50	4.3	50	81	11	245	54	4	2	38	1.35
553047--553264	51	4.2	51	80	13	209	54	5	2	38	1.35
553066--553264	104	1.9	103	86	5	285	53	5	2	39	1.36
553614--553672	22	2.7	23	82	10	70	37	10	10	42	1.73
553783--553888	55	1.9	54	87	9	153	55	6	1	35	1.37
554260--554433	51	3.4	51	80	5	181	39	1	5	54	1.30
554263--554430	52	3.2	50	82	6	176	38	1	5	54	1.31
554416--554440	13	1.9	13	100	0	50	44	0	0	56	0.99
554538--554572	18	1.9	18	94	0	61	31	0	5	62	1.18
554716--554818	43	2.4	41	80	10	109	37	0	4	56	1.27
559720--559758	10	4.0	10	83	3	53	74	0	23	2	0.94
559722--559772	20	2.5	20	84	6	59	72	0	23	3	1.01
560805--560851	19	2.6	18	83	6	58	12	78	0	8	0.95
561106--561192	41	2.1	41	82	2	102	6	78	1	13	1.01
561042--561192	57	2.6	57	79	13	139	5	77	0	15	1.00
561123--561203	42	2.0	41	82	2	99	6	77	1	14	1.02
561157--561208	18	2.9	18	83	8	63	3	80	1	13	0.93
561097--561215	8	14.2	8	69	13	53	6	78	1	12	1.01
561290--561349	18	3.4	17	82	15	68	5	83	0	11	0.80
561290--561957	20	33.2	19	67	20	94	8	78	0	11	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561359--561430	1	72.0	1	80	0	54	6	86	0	6	0.72
561358--561436	25	3.0	28	76	12	87	8	82	0	8	0.85
561482--561513	1	32.0	1	93	0	55	3	96	0	0	0.20
561409--561639	65	3.5	68	72	20	168	7	77	0	14	1.02
561539--561957	1	419.0	1	70	0	109	9	80	1	8	0.95
561482--561952	21	21.5	21	68	16	156	8	80	1	9	0.98
561540--561952	50	8.3	47	70	19	179	9	80	1	8	0.96
562086--562165	20	3.8	20	75	6	61	68	5	21	5	1.28
563435--563475	21	2.0	21	95	0	73	36	12	19	31	1.89
680974--681126	50	3.1	49	73	18	129	53	5	3	37	1.41

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29