oyster.v9_M.fa.s41.2.7.7.80.10.50.500.3.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: scaffold334
Parameters: 2 7 7 80 10 50 500
Length:  1116604

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 617 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)
433041--433229	62	3.0	62	96	0	351	34	20	17	28	1.95
435307--436216	168	5.4	168	90	0	1347	30	18	19	31	1.96
435307--436123	335	2.4	336	93	0	1375	30	18	19	32	1.96
436579--436620	4	10.8	4	89	5	59	0	42	26	30	1.55
436579--436623	12	3.8	12	88	2	65	0	40	26	33	1.57
436793--437091	166	1.8	166	95	0	544	38	20	16	24	1.92
437269--437310	4	10.8	4	89	5	59	0	42	26	30	1.55
437269--437313	12	3.8	12	88	2	65	0	40	26	33	1.57
437483--438337	167	5.1	167	91	2	1369	38	18	16	26	1.92
440112--440156	20	2.2	20	96	0	81	17	28	22	31	1.97
440375--440546	37	4.6	37	96	0	317	22	11	26	39	1.88
442244--442787	104	5.2	104	94	0	935	32	21	18	27	1.97
443246--443309	32	2.0	33	87	3	94	29	25	18	26	1.98
443517--443769	32	7.9	32	93	0	398	28	27	14	30	1.95
446524--446603	27	3.0	27	75	0	79	45	8	17	28	1.78
447557--447604	21	2.3	21	85	0	60	22	27	18	31	1.97
447603--447872	43	6.2	43	94	1	434	35	14	19	30	1.91
451396--451444	15	3.1	16	88	8	73	20	28	14	36	1.92
451398--451446	17	3.0	17	88	8	75	18	26	16	38	1.91
454132--455123	45	22.4	45	83	4	1140	33	13	19	32	1.91
454132--456071	135	14.4	135	74	13	1405	33	14	19	32	1.92
455070--455183	60	1.9	60	82	7	142	36	14	19	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455130--455445	45	7.2	45	82	7	355	33	13	21	31	1.92
454980--455269	150	1.9	150	85	1	393	34	14	19	30	1.92
454935--455317	195	2.0	195	82	4	477	33	14	20	31	1.92
455347--455409	19	3.3	19	64	24	51	33	14	20	31	1.92
455425--455463	17	2.2	18	90	4	62	38	12	25	23	1.90
455382--455508	62	2.0	63	89	4	195	33	14	21	30	1.93
455443--456071	45	14.2	44	79	7	650	32	14	20	32	1.93
455624--455697	38	1.9	38	86	5	105	36	14	18	29	1.91
455443--456071	134	4.7	134	79	7	683	32	14	20	32	1.93
459039--459620	24	24.1	24	72	9	317	22	12	18	47	1.81
459542--459772	84	2.8	80	83	6	293	21	16	15	46	1.84
462665--462935	67	4.1	67	97	0	492	35	19	17	27	1.94
462896--463615	73	9.9	73	78	9	675	34	16	20	29	1.94
462697--463615	149	6.5	140	79	8	608	34	16	19	28	1.94
462831--463615	149	5.5	146	79	7	715	34	16	20	29	1.94
463931--464292	182	2.0	178	96	2	679	36	13	8	40	1.76
465974--466128	31	4.9	31	79	12	165	35	26	23	14	1.94
465974--466361	62	6.1	62	68	18	178	35	24	23	16	1.95
466247--466384	31	4.4	31	80	12	147	39	28	21	10	1.87
466240--466384	64	2.3	62	83	7	168	37	28	21	11	1.89
466346--466422	38	2.1	37	83	9	95	33	27	24	14	1.94
466247--466432	31	5.7	31	75	17	137	36	27	23	12	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466624--466711	31	2.8	31	84	5	115	37	27	20	14	1.92
468694--468862	43	4.0	43	76	5	182	13	27	10	48	1.75
468699--468862	86	1.9	85	91	3	267	13	26	10	49	1.75
468891--469066	93	1.9	92	86	10	250	17	31	10	40	1.83
468883--469095	43	4.7	42	80	13	228	16	32	8	41	1.79
475983--476023	20	2.0	20	100	0	82	39	0	9	51	1.35
477595--477766	41	4.2	41	98	0	326	23	18	18	38	1.93
478456--478945	22	22.9	22	77	7	474	26	24	6	42	1.79
478456--478945	42	11.5	41	74	10	337	26	24	6	42	1.79
478456--478945	64	7.7	63	79	5	445	26	24	6	42	1.79
480725--480850	61	2.1	61	86	5	175	14	11	24	48	1.77
481951--482002	9	6.0	9	77	8	63	73	0	26	0	0.84
482064--483568	25	58.6	25	79	9	1414	42	28	13	14	1.84
482061--483477	180	7.9	171	76	11	557	42	28	13	15	1.84
482473--482575	30	3.5	31	74	15	94	47	26	10	15	1.78
482073--483535	155	9.5	156	75	12	863	42	28	13	14	1.84
489426--489556	43	3.0	43	97	0	244	29	19	18	32	1.96
489956--490085	54	2.4	54	78	0	143	35	12	22	30	1.91
492231--492267	15	2.4	16	90	4	58	32	5	18	43	1.73
492670--492751	42	2.0	42	100	0	164	19	19	21	39	1.93
493031--493199	66	2.6	66	91	0	257	43	15	12	28	1.83
493551--493613	31	2.0	31	93	0	108	36	11	20	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502880--503792	26	35.1	26	85	3	1092	34	16	33	15	1.91
505293--505334	16	2.6	16	88	0	66	45	16	26	11	1.82
509273--509847	288	2.0	287	99	0	1123	21	22	20	35	1.96
515046--515083	20	1.9	20	94	0	67	10	26	18	44	1.82
515046--515098	20	2.6	19	85	5	61	13	26	18	41	1.87
518595--518739	37	3.9	37	98	0	272	17	22	17	42	1.89
519869--520040	63	2.7	63	98	0	326	33	12	26	27	1.92
519853--520041	95	2.0	94	83	8	240	31	11	28	28	1.92
519849--520044	32	6.2	32	81	7	247	31	11	28	29	1.91
522187--522946	43	17.7	43	93	0	1216	36	11	17	33	1.87
526976--527101	60	2.1	60	96	0	234	26	13	18	41	1.87
527451--527490	20	2.0	20	90	0	62	32	12	17	37	1.87
527641--527702	32	1.9	32	86	0	88	35	27	14	22	1.93
527798--528082	16	18.0	16	76	3	137	35	28	13	23	1.92
527832--528072	63	3.8	63	72	8	179	36	26	12	24	1.91
530246--531516	61	20.9	61	91	2	1982	31	10	28	30	1.90
530246--531516	181	7.0	183	91	2	2018	31	10	28	30	1.90
532637--532841	37	5.6	37	90	4	301	20	12	17	49	1.79
532637--532842	75	2.8	72	90	3	299	20	12	17	49	1.79
533430--535162	43	39.8	43	90	3	2619	19	12	21	46	1.83
534061--534126	22	3.0	22	63	12	55	21	10	24	43	1.83
534523--534591	22	3.2	22	61	19	54	23	11	15	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536011--536086	39	2.0	39	82	7	93	27	31	11	28	1.92
536143--536241	34	2.9	34	70	0	99	25	10	20	44	1.82
536156--536281	34	3.7	34	72	4	112	26	10	20	42	1.84
536136--536289	68	2.3	68	84	4	195	25	11	20	42	1.85
536644--536806	54	3.0	54	96	0	299	34	12	33	20	1.90
537007--537562	54	10.3	54	97	0	1031	33	12	34	19	1.90
538899--538985	31	2.8	31	98	0	165	41	12	14	31	1.84
539024--539222	34	6.0	34	91	1	289	37	7	21	33	1.81
547740--547866	43	3.2	42	76	21	164	40	17	13	29	1.87
547776--547840	33	2.0	33	96	0	121	40	16	15	27	1.89
548187--548652	30	15.0	30	80	13	491	12	12	37	37	1.80
548187--548652	60	7.5	60	83	11	575	12	12	37	37	1.80
548294--548347	24	2.3	23	87	6	72	11	12	35	40	1.79
548435--548521	42	2.1	41	87	6	124	9	8	44	37	1.66
548187--548643	132	3.7	129	81	15	566	12	12	37	37	1.80
549470--549514	13	3.5	13	85	14	67	13	0	31	55	1.38
551505--551613	47	2.3	47	98	0	209	29	21	22	27	1.99
552821--552857	2	18.5	2	100	0	74	51	0	48	0	1.00
552951--554038	135	8.4	133	78	11	890	41	20	11	26	1.87
552951--554038	45	24.1	44	76	13	463	41	20	11	26	1.87
553356--553425	30	2.3	31	92	2	115	42	21	10	25	1.84
553221--554038	165	4.9	165	83	8	936	41	20	11	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553521--553590	30	2.3	31	90	2	115	42	21	10	25	1.84
563975--564091	56	2.1	56	96	3	218	43	15	18	22	1.87
568795--569278	55	8.8	55	97	0	887	30	23	16	28	1.96
568795--569709	110	8.4	110	93	4	1532	31	23	16	29	1.96
568795--569709	165	5.6	165	92	4	1541	31	23	16	29	1.96
569233--569320	42	2.1	42	100	0	176	31	20	15	31	1.94
569275--569709	55	7.8	55	96	2	780	31	23	15	30	1.95
569566--569707	27	5.2	26	64	21	76	31	23	16	28	1.96
569275--569709	169	2.6	169	96	1	806	31	23	15	30	1.95
569540--569681	27	5.1	29	63	22	97	30	24	16	28	1.96

Tables:   1   2   3   4   5   6