oyster.v9_M.fa.s20.2.7.7.80.10.50.500.2.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.04

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: scaffold481
Parameters: 2 7 7 80 10 50 500
Length:  1334154

Tables:   1   2   3   4   

This is table  2  of  4  ( 385 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)
355604--355833	67	3.4	67	94	0	388	26	35	13	24	1.92
355698--355794	25	4.2	25	64	28	61	26	37	12	23	1.91
360463--360514	2	26.0	2	92	0	86	53	0	46	0	1.00
365055--365450	51	7.7	50	86	5	517	41	21	16	21	1.90
365069--365447	157	2.4	152	86	7	546	41	20	16	21	1.90
365055--365449	208	1.9	208	94	0	691	41	21	16	21	1.90
365416--365599	37	5.0	37	87	0	251	40	16	20	22	1.91
365564--365735	51	3.4	51	93	0	281	38	19	22	19	1.93
373920--374224	157	1.9	157	91	0	493	36	9	14	39	1.79
376518--376661	72	2.0	72	100	0	288	50	12	6	30	1.66
377302--377340	18	2.2	18	100	0	78	46	5	5	43	1.48
377333--377890	176	3.1	178	89	2	863	31	14	17	37	1.89
381707--381793	24	3.9	22	73	13	63	47	17	8	27	1.75
382022--382079	26	2.4	24	83	11	73	43	13	15	27	1.85
382025--382074	26	1.9	26	91	0	82	44	16	14	26	1.85
383018--383061	2	22.0	2	100	0	88	0	50	0	50	1.00
394754--394784	2	15.5	2	100	0	62	51	0	48	0	1.00
394782--394824	4	10.8	4	94	0	77	48	23	27	0	1.51
397359--397437	2	39.5	2	97	0	149	50	0	49	0	1.00
400090--400183	2	47.0	2	89	4	145	50	3	46	0	1.17
404643--404667	11	2.3	11	100	0	50	60	8	16	16	1.58
406884--406925	2	21.0	2	100	0	84	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
416525--416565	20	2.0	20	100	0	82	29	7	14	48	1.71
421690--422082	156	2.5	159	79	10	392	30	23	15	31	1.95
422182--423099	166	5.5	166	88	1	1292	27	22	15	34	1.94
424222--425345	166	6.8	165	90	1	1640	38	15	16	28	1.90
425369--425427	8	7.4	8	86	0	64	38	25	35	0	1.56
425369--425427	4	14.8	4	89	0	55	38	25	35	0	1.56
425369--425422	12	4.5	12	88	0	81	37	25	37	0	1.57
426306--426623	63	4.9	63	83	5	411	26	21	18	34	1.96
429269--429309	21	2.0	21	90	0	64	24	31	9	34	1.88
430775--430819	2	22.5	2	100	0	90	0	48	0	51	1.00
435693--435734	4	10.5	4	94	0	66	0	42	26	30	1.55
435758--436666	166	5.5	167	86	4	1266	29	16	15	38	1.89
435758--436715	332	2.9	332	92	1	1543	28	17	15	38	1.90
442695--442752	25	2.3	25	81	3	71	81	17	1	0	0.78
446667--446723	2	28.5	2	100	0	114	50	0	49	0	1.00
448545--448585	2	20.5	2	100	0	82	48	0	51	0	1.00
450260--450287	12	2.3	12	100	0	56	46	7	17	28	1.75
456545--456614	13	5.5	12	77	17	70	85	11	0	2	0.69
456544--456616	7	10.1	7	76	16	69	83	13	0	2	0.75
456556--456615	15	3.9	15	91	6	84	88	11	0	0	0.52
456556--456615	24	2.5	24	87	10	88	88	11	0	0	0.52
456556--456615	1	60.0	1	83	0	57	88	11	0	0	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456558--456617	16	4.0	14	85	12	75	85	15	0	0	0.61
457585--457637	2	26.5	2	100	0	106	49	0	50	0	1.00
464543--464591	22	2.2	23	85	3	64	18	18	6	57	1.61
464542--464592	23	2.2	24	79	10	61	17	17	5	58	1.57
471291--471338	19	2.5	20	90	6	73	62	4	10	22	1.44
482812--482842	7	4.4	7	100	0	62	0	0	12	87	0.55
491659--491689	15	2.1	15	93	0	53	38	9	6	45	1.63
495935--495963	15	1.9	15	100	0	58	27	17	0	55	1.42
503918--503946	12	2.4	12	100	0	58	27	34	0	37	1.57
503930--504018	21	4.2	21	92	0	142	24	42	7	24	1.81
504065--504106	18	2.3	18	87	0	57	35	45	0	19	1.50
504627--504722	21	4.6	21	92	0	147	23	43	7	25	1.79
504769--504810	18	2.3	18	87	0	57	35	45	0	19	1.50
511400--511441	18	2.3	18	87	0	57	35	45	0	19	1.50
511628--511704	36	2.2	36	79	6	88	35	40	12	11	1.80
514267--514295	1	29.0	1	100	0	58	0	0	0	100	0.00
515003--515028	2	13.0	2	100	0	52	50	0	50	0	1.00
519679--519763	2	42.5	2	95	0	152	0	49	0	50	1.00
527171--527195	12	2.1	12	100	0	50	28	40	0	32	1.57
527442--527493	2	26.0	2	100	0	104	0	50	0	50	1.00
529529--529605	32	2.4	32	95	0	136	23	11	31	33	1.91
530830--530855	10	2.6	10	100	0	52	30	19	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535610--537183	41	38.6	41	85	3	1978	27	24	14	33	1.94
544752--544817	28	2.4	28	94	0	114	22	6	15	56	1.61
548889--548953	21	3.1	21	88	0	85	44	15	10	29	1.80
549422--549453	2	16.0	2	100	0	64	0	50	0	50	1.00
565019--565149	38	3.5	38	88	5	203	35	22	12	29	1.91
577116--577918	32	25.3	32	83	5	844	18	29	26	25	1.98
577925--578280	32	11.3	32	87	4	440	15	28	27	28	1.96
577846--577997	79	1.9	79	85	5	209	15	26	28	28	1.96
577925--578280	95	3.8	95	83	8	438	15	28	27	28	1.96
579813--580154	185	1.8	185	88	1	524	31	18	16	33	1.93
583201--583247	4	11.8	4	90	0	76	2	2	25	70	1.10
584337--584647	35	8.9	35	87	0	424	38	17	14	28	1.90
589780--589812	2	16.5	2	100	0	66	48	0	51	0	1.00
599437--600961	20	75.8	20	78	6	1436	12	12	26	48	1.76
599466--599525	31	1.9	31	96	0	111	11	15	30	43	1.82
599446--599545	51	2.0	51	91	0	164	11	14	30	45	1.79
599437--599667	10	22.5	11	64	28	57	12	11	27	48	1.75
604702--604839	70	2.0	70	92	0	231	38	15	10	35	1.82
610056--610094	12	3.1	12	88	7	51	43	7	7	41	1.62
610776--610815	17	2.4	17	86	0	53	0	0	20	80	0.72
623486--623572	2	43.5	2	100	0	174	0	50	0	49	1.00
624010--624081	2	36.0	2	97	0	135	0	50	1	48	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631949--631992	15	2.7	17	75	13	56	38	11	15	34	1.84
638836--638870	16	2.1	17	89	5	54	40	2	22	34	1.69
650153--650313	28	5.8	28	89	2	254	25	11	22	40	1.87
655057--655088	1	32.0	1	93	0	55	0	3	96	0	0.20
657457--657573	42	3.0	40	86	13	156	17	18	27	36	1.93
657444--657593	36	4.0	36	81	13	169	18	20	27	34	1.96
658276--658418	77	1.9	77	93	0	250	30	20	18	30	1.97
661040--661191	78	1.9	79	86	4	218	26	19	17	35	1.95
670304--670570	44	6.1	44	95	0	489	20	11	22	44	1.84
672355--672383	12	2.4	12	100	0	58	13	0	34	51	1.42
674343--674388	2	23.0	2	100	0	92	50	0	50	0	1.00
677817--677863	2	23.5	2	100	0	94	48	0	51	0	1.00
681548--681582	2	17.5	2	100	0	70	0	48	0	51	1.00
684723--684760	20	1.9	20	88	0	58	47	13	2	36	1.56
684679--684761	35	2.4	35	79	0	94	43	10	8	37	1.70
688436--688891	104	4.4	104	94	1	765	33	11	11	42	1.78
689878--690119	79	3.1	79	89	0	378	30	13	14	40	1.85
693417--693450	1	34.0	1	100	0	68	0	0	100	0	0.00
698080--698104	2	12.5	2	100	0	50	48	0	52	0	1.00
708821--708870	25	2.0	25	96	0	91	28	26	12	34	1.92
722346--722387	1	42.0	1	95	0	75	0	97	0	0	0.03
725735--725772	6	6.3	6	88	11	60	0	31	50	18	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
726097--726136	19	2.1	19	90	0	62	22	2	37	37	1.68
725818--726603	177	4.4	177	84	5	910	23	16	25	33	1.96
725806--726603	353	2.2	354	82	5	943	24	16	25	33	1.96
727268--727310	20	2.1	20	91	0	68	39	4	13	41	1.66
727549--727695	15	9.3	15	72	15	73	38	4	12	44	1.63
727566--727733	50	3.4	46	76	10	156	37	4	12	45	1.63
727620--727654	18	1.9	18	94	0	61	40	0	8	51	1.33
727532--727738	98	2.1	97	89	4	310	38	5	11	45	1.62
727611--727740	15	8.1	15	72	18	93	37	3	12	46	1.60
727604--727755	50	3.1	50	73	17	156	36	5	11	46	1.63

Tables:   1   2   3   4