genome.fa.s168.2.7.7.80.10.50.1000.4.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: Scaffold168
Parameters: 2 7 7 80 10 50 1000
Length:  2098754

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

This is table  4  of  16  ( 1854 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)
363033--363083	25	2.0	25	100	0	102	41	15	23	19	1.90
364375--364566	104	1.8	104	86	4	280	48	16	8	26	1.74
365302--365354	17	3.0	18	76	17	58	43	0	0	56	0.99
365546--365597	19	2.6	19	80	17	52	42	1	1	53	1.23
365735--365794	20	2.9	21	73	9	61	51	0	1	46	1.10
365777--365819	16	2.6	16	82	14	52	58	0	0	41	0.98
366146--366181	15	2.3	15	90	9	54	41	0	0	58	0.98
366145--366219	18	4.3	18	77	11	77	45	0	0	54	0.99
366145--366244	50	2.0	52	82	7	125	45	2	3	50	1.28
366436--366483	22	2.2	22	81	7	53	41	0	4	54	1.20
366557--366595	20	2.0	20	85	10	53	35	2	0	61	1.10
367152--367225	22	3.2	22	72	22	62	44	0	0	55	0.99
367146--367228	22	3.7	21	73	20	60	46	0	0	53	1.00
368424--368467	22	2.0	22	90	0	70	20	20	15	43	1.88
368517--368582	35	1.9	33	82	14	80	56	0	1	42	1.08
368935--369007	26	2.8	24	74	13	65	53	0	0	46	1.00
368959--368999	22	1.9	21	85	5	55	58	0	0	41	0.98
368982--369021	14	2.9	14	76	0	53	57	0	0	42	0.98
370355--370393	19	1.9	19	85	10	51	38	5	7	48	1.54
370763--370809	23	2.0	23	84	12	60	61	0	6	31	1.21
373190--373238	19	2.4	21	80	10	57	44	0	0	55	0.99
374623--374652	16	1.9	15	93	6	51	10	13	0	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
374731--374761	2	15.5	2	93	0	53	48	0	48	3	1.17
374957--375001	24	2.0	22	86	8	63	35	0	0	64	0.94
375188--375217	2	15.0	2	100	0	60	50	0	0	50	1.00
375398--375460	6	11.2	6	75	11	62	77	3	1	17	0.97
375398--375456	11	5.2	12	80	10	70	77	3	1	16	0.98
375399--375460	17	3.6	17	79	16	83	77	3	1	17	0.98
375556--375593	2	19.5	2	94	5	69	50	0	0	50	1.00
383259--383303	16	2.8	17	80	10	58	51	0	0	48	1.00
385546--385717	83	2.1	83	95	0	308	29	11	23	35	1.89
387574--387626	21	2.4	21	81	6	61	58	0	0	41	0.98
388483--388536	19	2.8	19	75	13	65	46	1	0	51	1.11
389601--389627	2	13.5	2	100	0	54	48	0	0	51	1.00
391254--391306	26	2.0	28	92	7	92	58	0	0	41	0.98
391540--391568	2	14.5	2	100	0	58	48	0	0	51	1.00
391925--391952	3	9.3	3	100	0	56	0	32	0	67	0.91
392335--392366	2	16.0	2	100	0	64	50	0	0	50	1.00
398029--398067	2	19.0	2	89	5	60	46	2	0	51	1.14
398428--398458	13	2.5	13	94	5	55	61	0	0	38	0.96
399125--399208	32	2.6	32	75	1	78	46	9	7	36	1.64
401502--401547	3	15.3	3	100	0	92	32	0	0	67	0.91
401687--401732	22	2.1	22	88	8	67	60	2	0	36	1.09
402362--402407	3	15.3	3	100	0	92	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404159--404218	27	2.2	27	96	0	111	35	10	38	16	1.82
405689--405922	84	2.8	84	79	3	238	36	17	26	19	1.94
407928--407952	13	1.9	13	100	0	50	64	0	0	36	0.94
407946--407970	10	2.5	10	100	0	50	52	0	0	48	1.00
407978--408025	14	3.3	15	77	8	55	54	2	0	43	1.12
408275--408309	13	2.8	13	91	8	56	60	0	0	40	0.97
408792--408838	20	2.5	19	76	10	51	65	0	0	34	0.93
409945--409984	21	1.9	21	85	10	55	62	0	0	37	0.95
410043--410077	3	11.7	3	100	0	70	68	0	0	31	0.90
410467--410506	19	2.1	19	85	0	53	45	0	0	55	0.99
410792--410838	13	3.7	13	85	2	60	65	2	0	31	1.04
411540--411590	24	2.1	25	81	3	59	49	0	0	50	1.00
413774--413823	11	4.8	10	80	9	55	48	0	10	42	1.37
413764--413809	21	2.1	22	88	4	67	63	0	4	32	1.14
413890--413921	15	2.1	16	94	5	57	50	0	3	46	1.17
414055--414087	6	5.5	6	89	10	50	33	0	0	66	0.92
415124--415152	3	9.7	3	100	0	58	31	0	0	68	0.89
417017--417070	20	2.7	20	91	0	81	57	0	7	35	1.27
426303--426332	2	15.0	2	100	0	60	0	50	0	50	1.00
431457--431502	21	2.2	21	100	0	92	52	13	19	15	1.75
432810--432850	19	2.1	20	86	4	57	43	0	0	56	0.99
433328--433398	36	2.0	36	81	10	83	54	8	8	28	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434490--434535	14	3.0	15	84	12	58	36	0	0	63	0.95
434490--434536	15	2.9	16	85	14	62	36	0	0	63	0.94
434518--434592	35	2.1	34	83	9	89	50	0	0	49	1.00
434571--434649	19	4.3	19	70	4	72	51	0	1	46	1.08
434494--434606	34	3.5	33	69	17	85	43	0	0	56	0.99
434563--434623	28	2.2	28	80	11	72	44	0	1	54	1.10
434616--434660	22	2.1	21	84	12	56	62	0	0	37	0.96
434582--434656	36	2.0	38	84	5	100	53	0	1	45	1.08
436854--437055	100	2.0	100	93	1	343	26	24	23	25	2.00
437343--437434	22	3.9	24	78	18	79	53	0	0	46	1.00
439458--439493	13	2.7	13	95	4	63	55	0	0	44	0.99
442669--442757	30	2.9	30	68	18	76	52	0	0	47	1.00
442739--442793	28	2.0	28	85	7	76	61	7	1	29	1.33
443029--443067	19	2.1	19	90	4	62	51	0	0	48	1.00
443481--443520	20	2.2	17	86	13	53	27	0	2	70	1.01
444069--444096	14	2.0	14	100	0	56	35	21	14	28	1.92
444302--444341	17	2.4	17	82	0	53	60	0	0	40	0.97
444528--444580	18	2.9	18	80	11	63	64	0	0	35	0.94
444516--444602	29	3.2	28	81	12	85	62	0	1	36	1.03
444955--444993	3	13.0	3	94	0	69	30	2	0	66	1.05
445517--445562	22	2.1	22	84	8	58	43	2	4	50	1.34
445893--445986	6	15.8	6	80	10	68	51	7	2	39	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
445915--445986	2	36.0	2	85	0	99	50	5	1	43	1.34
445900--445986	8	11.2	8	78	11	74	51	5	2	40	1.38
447810--447837	3	9.3	3	100	0	56	67	0	0	32	0.91
447986--448025	21	1.9	21	90	10	64	37	0	0	62	0.95
448252--448294	19	2.4	17	79	20	52	48	0	2	48	1.14
449866--449904	20	2.0	20	90	10	62	38	0	0	61	0.96
450505--450549	21	2.3	19	88	7	63	33	0	0	66	0.92
450699--450724	9	2.9	9	100	0	52	0	0	30	69	0.89
451009--451075	34	2.0	34	96	0	125	31	8	10	49	1.68
455680--456096	143	3.0	142	85	2	556	39	8	11	40	1.73
456745--456773	2	14.5	2	100	0	58	0	51	0	48	1.00
456860--456921	32	1.9	32	90	6	99	53	1	0	45	1.10
456889--456948	19	2.9	21	80	16	72	56	0	0	43	0.99
457092--457132	3	14.0	3	94	5	75	31	0	0	68	0.90
457958--458006	22	2.3	21	75	10	55	36	2	2	59	1.21
458662--458709	21	2.3	20	82	10	53	43	0	2	54	1.12
461859--461936	7	11.6	7	72	15	58	32	0	0	67	0.90
461844--461939	26	3.7	26	76	23	87	32	0	1	66	0.99
461844--461937	32	3.1	32	85	10	126	31	0	1	67	0.98
462138--462206	24	2.8	26	72	14	65	33	1	0	65	1.02
463335--463369	14	2.5	14	90	0	52	45	8	0	45	1.34
463397--463440	23	1.9	23	100	0	88	43	11	9	36	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474997--475029	2	16.5	2	100	0	66	51	0	48	0	1.00
479102--479157	2	30.5	2	75	22	52	48	0	3	48	1.19
484430--484473	17	2.6	17	82	10	54	43	0	0	56	0.99
484611--484654	19	2.3	20	84	7	56	45	2	2	50	1.27
484626--484678	19	2.8	18	83	13	63	47	0	0	52	1.00
486042--486087	24	1.9	24	86	8	67	47	0	0	52	1.00
486264--486306	21	2.0	21	86	8	61	41	0	0	58	0.98
486239--486313	22	3.4	21	74	17	64	45	0	1	53	1.08
486253--486323	29	2.5	29	73	8	67	45	0	0	54	0.99
487296--487364	33	2.1	34	81	13	81	43	0	1	55	1.08

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