oyster.v9_M.fa.s36.2.7.7.80.10.50.500.2.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: scaffold867
Parameters: 2 7 7 80 10 50 500
Length:  1160077

Tables:   1   2   3   4   

This is table  2  of  4  ( 392 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)
319627--319709	32	2.6	31	77	11	87	30	36	10	22	1.89
319859--319900	21	2.0	21	90	0	66	38	28	14	19	1.90
319869--319908	21	1.9	21	89	0	62	40	30	15	15	1.87
319879--319957	31	2.5	31	83	0	104	41	30	8	18	1.81
325466--326301	38	22.2	38	87	3	1057	28	22	15	32	1.95
325466--326301	75	11.1	76	88	2	1057	28	22	15	32	1.95
326949--327095	78	1.9	78	81	5	181	40	9	14	36	1.78
326968--327096	39	3.3	39	83	2	161	38	10	14	35	1.82
336797--336848	26	2.0	26	100	0	104	38	19	19	23	1.93
338841--338925	2	42.5	2	97	0	161	49	0	50	0	1.00
341221--341261	2	20.5	2	100	0	82	0	48	0	51	1.00
341949--341984	17	2.1	17	89	0	54	72	19	2	5	1.17
350396--350436	2	20.5	2	100	0	82	0	48	0	51	1.00
351337--351394	2	29.0	2	94	0	98	51	1	46	0	1.11
361125--361451	46	7.1	46	91	2	460	23	28	18	29	1.98
361125--361451	138	2.4	138	91	1	512	23	28	18	29	1.98
361549--361598	2	25.0	2	100	0	100	0	50	0	50	1.00
367474--367558	2	42.5	2	97	0	161	48	1	50	0	1.08
380739--380765	6	4.5	6	100	0	54	85	14	0	0	0.61
383273--383302	15	1.9	16	93	6	53	53	6	0	40	1.27
386541--386596	15	3.7	15	82	0	67	12	8	19	58	1.60
390029--390056	11	2.5	11	100	0	56	28	32	7	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395192--395228	17	2.2	17	90	0	56	51	13	21	13	1.75
397849--397891	21	2.0	21	95	0	77	41	20	23	13	1.88
397941--397983	21	2.0	21	91	8	70	44	20	20	13	1.86
397829--398013	92	2.0	92	95	0	334	37	10	22	29	1.88
403130--403170	20	2.0	20	100	0	82	46	9	9	34	1.70
406459--406492	4	8.5	4	100	0	68	50	0	0	50	1.00
406943--407120	89	2.0	88	92	3	295	30	28	15	25	1.96
420204--420297	2	47.0	2	97	0	179	50	0	48	1	1.07
421095--421120	11	2.4	11	100	0	52	26	7	34	30	1.85
421918--421998	1	81.0	1	76	0	54	85	11	3	0	0.73
421917--422000	28	2.9	27	80	8	87	83	13	3	0	0.77
425469--425510	22	1.9	22	95	0	75	16	19	23	40	1.91
437305--437398	32	2.9	32	90	0	152	29	27	17	25	1.97
437755--437809	29	1.9	28	82	10	67	38	16	38	7	1.76
438380--438414	16	2.2	16	100	0	70	25	22	22	28	1.99
438380--438425	16	3.0	16	90	6	60	26	26	17	30	1.97
439965--440483	177	2.9	175	84	2	641	32	23	16	26	1.96
440446--440485	19	2.1	19	85	0	53	40	35	2	22	1.68
444642--445256	177	3.4	179	86	6	868	38	12	18	30	1.87
448556--448914	180	2.0	179	99	0	700	32	15	21	30	1.94
454164--454725	145	3.9	146	85	2	749	28	22	18	30	1.97
455354--455388	18	1.9	18	88	0	52	71	28	0	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456095--456139	8	5.8	8	84	2	56	2	33	26	37	1.69
456288--456312	1	25.0	1	100	0	50	100	0	0	0	0.00
471186--471351	80	2.1	79	94	2	296	31	9	15	43	1.79
478470--479262	146	5.4	146	85	3	994	29	17	21	30	1.97
478470--479262	293	2.7	292	85	3	1035	29	17	21	30	1.97
484223--484322	37	2.7	36	87	6	139	39	15	22	24	1.92
484302--484334	14	2.4	14	100	0	66	24	21	24	30	1.99
485030--485764	175	4.2	177	85	6	980	39	12	17	31	1.87
486039--486147	42	2.6	42	82	7	134	55	23	12	8	1.64
486019--486136	62	1.9	63	87	1	175	55	22	13	8	1.65
485980--486147	20	8.2	20	76	3	138	53	24	13	8	1.67
494219--494247	3	9.7	3	100	0	58	0	34	0	65	0.93
494282--495166	443	2.0	442	100	0	1761	29	22	15	33	1.94
500611--500639	11	2.6	11	100	0	58	0	0	31	68	0.89
500731--500779	24	2.0	24	96	0	89	8	4	26	61	1.42
501355--501408	4	13.5	4	92	0	90	0	27	25	46	1.53
511572--511622	26	2.0	26	92	0	84	31	7	29	31	1.86
511599--511703	35	3.0	35	88	2	131	37	6	24	31	1.81
513627--513672	4	11.8	4	90	4	76	0	45	26	28	1.54
513622--513675	12	4.7	12	88	6	76	0	42	25	31	1.55
514875--514908	17	2.1	17	94	5	61	29	14	35	20	1.93
520568--520619	2	26.0	2	100	0	104	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)
524451--524480	14	2.1	14	100	0	60	33	20	6	40	1.78
527467--527528	2	31.0	2	100	0	124	0	50	0	50	1.00
539060--539129	2	35.0	2	97	0	131	51	0	48	0	1.00
542308--542343	5	7.8	5	96	3	51	77	22	0	0	0.76
560066--560101	18	2.0	18	100	0	72	55	16	5	22	1.62
560021--560185	85	2.0	84	85	6	226	40	16	13	30	1.87
560482--560673	53	3.6	53	80	3	201	32	13	16	36	1.88
560901--561084	53	3.5	53	87	3	255	38	15	10	35	1.81
561435--561583	67	2.2	66	91	1	235	32	14	14	38	1.86
561566--561600	17	2.1	17	100	0	70	22	5	17	54	1.64
566972--568751	96	18.6	94	79	7	1435	26	21	16	36	1.94
585025--585073	2	24.5	2	100	0	98	51	0	48	0	1.00
585413--585488	21	3.6	21	73	8	64	43	11	19	25	1.85
585458--585508	22	2.4	21	86	3	66	37	9	23	29	1.87
585577--585617	11	3.7	11	86	0	64	24	34	9	31	1.88
588744--588800	20	2.9	20	70	0	51	45	5	7	42	1.53
589590--590236	177	3.7	174	80	4	652	33	24	16	25	1.96
589744--590229	176	2.8	173	84	6	609	32	25	16	26	1.96
591932--591998	7	9.6	7	76	0	71	26	19	14	38	1.91
596513--596575	24	2.6	24	85	5	83	39	3	36	20	1.69
602204--602241	5	7.4	5	91	8	51	0	0	15	84	0.63
602204--602241	11	3.7	10	83	16	51	0	0	15	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
602207--602245	6	6.8	6	91	2	55	0	0	15	84	0.62
602207--602242	16	2.2	16	90	9	56	0	0	13	86	0.58
610523--610553	3	10.3	3	92	0	53	64	0	3	32	1.09
622018--622646	172	3.6	172	91	2	985	37	14	18	29	1.91
623350--623409	31	1.9	32	89	3	95	10	38	15	36	1.80
623351--623417	31	2.2	31	81	5	73	10	38	16	34	1.83
623391--623472	42	1.9	43	82	2	103	17	41	17	24	1.89
623479--623561	20	4.0	20	80	9	78	14	45	16	22	1.84
631786--631833	3	16.7	3	78	8	55	68	0	0	31	0.90
632582--632841	135	2.0	131	82	4	315	35	14	15	35	1.87
633549--633723	40	4.4	40	90	0	251	34	17	16	30	1.93
634488--634517	14	2.1	15	93	6	53	30	10	6	53	1.60
645141--645316	21	8.7	20	78	6	176	36	22	13	27	1.92
645141--645381	82	3.0	82	81	7	251	36	23	12	27	1.91
646857--646902	13	3.7	12	85	5	56	82	13	4	0	0.81
648255--648308	2	27.0	2	100	0	108	50	0	50	0	1.00
652051--652086	18	2.0	18	94	0	63	27	19	2	50	1.62
654773--654798	2	13.0	2	100	0	52	50	0	0	50	1.00
663104--663142	17	2.4	17	87	8	55	20	25	20	33	1.97
668963--668999	2	18.5	2	100	0	74	0	51	0	48	1.00
669189--669228	2	20.0	2	86	0	53	0	42	2	55	1.13
669179--669222	12	3.7	12	82	11	54	0	40	6	52	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669172--669225	24	2.2	24	86	0	81	0	40	5	53	1.24
669172--669228	10	5.3	10	82	12	60	0	42	5	52	1.24
669869--669938	35	2.0	35	100	0	140	25	31	20	22	1.98
670184--670503	61	5.2	61	93	0	496	30	14	38	17	1.89
685684--685725	18	2.3	18	84	12	50	47	4	9	38	1.57
694584--694630	2	23.5	2	100	0	94	51	0	48	0	1.00
697516--697545	15	2.0	15	93	0	51	83	0	3	13	0.77
702616--702665	25	2.0	25	96	0	91	46	6	12	36	1.66
706598--706871	150	1.8	151	93	2	480	27	24	18	28	1.98
715052--715099	16	3.0	16	100	0	96	43	25	25	6	1.77

Tables:   1   2   3   4