oyster.v9_M.fa.s37.2.7.7.80.10.50.500.2.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: scaffold1154
Parameters: 2 7 7 80 10 50 500
Length:  1159333

Tables:   1   2   3   

This is table  2  of  3  ( 307 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)
527439--527602	83	2.0	84	92	2	276	37	8	10	42	1.71
531250--531293	4	11.0	4	100	0	88	50	0	25	25	1.50
531291--531322	2	16.0	2	100	0	64	50	0	0	50	1.00
534470--534513	2	22.0	2	100	0	88	50	0	0	50	1.00
549205--549270	21	3.2	21	68	6	55	28	13	10	46	1.76
549283--549335	21	2.5	21	70	11	54	33	11	13	41	1.80
549317--549356	21	1.9	21	84	0	53	40	15	7	37	1.75
573686--574143	30	15.3	30	90	0	684	49	22	17	11	1.78
575873--575911	2	19.5	2	89	0	60	0	51	0	48	1.00
576077--576289	47	4.8	45	73	18	169	36	10	11	41	1.76
576075--576343	22	11.8	22	70	21	125	36	9	11	42	1.74
576201--576345	21	6.6	21	76	19	111	38	8	11	41	1.72
576201--576345	49	3.3	41	80	16	141	38	8	11	41	1.72
576271--576349	27	3.2	26	78	21	105	39	7	10	43	1.67
577024--577153	22	5.7	22	76	12	129	39	9	10	40	1.72
577040--577092	27	1.9	28	84	3	72	45	7	11	35	1.69
577023--577162	49	3.0	46	83	9	185	40	9	10	40	1.72
577257--577325	21	3.3	21	80	8	77	42	8	7	42	1.63
577291--577330	20	2.0	20	95	0	71	37	5	5	52	1.45
577226--577368	42	3.4	40	77	10	124	36	7	10	45	1.67
577296--577356	20	2.9	19	76	19	59	37	6	8	47	1.59
577291--577368	22	3.7	20	75	10	75	34	6	7	51	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577909--577977	21	3.3	21	83	4	68	39	10	11	39	1.75
578751--578789	19	2.1	19	85	0	51	41	30	5	23	1.76
579222--579262	20	2.1	20	91	8	68	53	12	12	21	1.70
583245--583294	16	3.1	16	91	0	82	44	26	24	6	1.76
587416--587580	47	3.5	47	87	1	224	33	24	16	26	1.96
587416--587651	47	5.0	47	82	6	192	33	23	16	27	1.95
589952--590381	51	8.5	51	68	14	169	22	16	21	39	1.92
591036--591094	8	7.4	8	84	0	64	1	35	25	37	1.66
591045--591091	12	3.9	12	94	0	85	2	38	25	34	1.68
591037--591087	4	12.8	4	80	0	57	1	39	25	33	1.67
591099--591900	146	5.5	146	88	4	1149	29	18	21	29	1.97
594132--594174	15	2.7	15	78	7	50	18	2	0	79	0.85
594136--594173	5	7.8	5	85	2	51	18	2	0	78	0.86
597024--597085	13	4.8	13	75	16	67	41	0	22	35	1.54
597026--597084	19	3.1	19	76	13	68	42	0	22	35	1.54
598806--598843	4	9.8	4	88	5	51	0	42	26	31	1.56
598806--598846	16	2.6	16	92	3	66	0	39	26	34	1.57
599013--600183	333	3.6	331	92	3	1888	38	19	16	25	1.92
599013--600183	166	7.1	165	91	2	1814	38	19	16	25	1.92
607351--607392	4	11.0	4	85	10	61	47	23	28	0	1.52
607349--607387	18	2.2	18	95	0	69	48	20	30	0	1.50
607345--607391	22	2.1	22	92	0	76	48	19	31	0	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
625272--625329	8	7.4	8	88	3	82	0	34	25	39	1.56
625273--625329	12	4.8	12	84	2	62	0	35	26	38	1.57
633976--634343	41	9.0	41	90	0	529	25	31	15	27	1.95
636115--636168	19	2.8	19	82	0	81	37	16	22	24	1.94
645596--645931	167	2.0	167	100	0	672	28	17	22	31	1.96
651342--651968	166	3.8	166	86	3	852	38	16	17	27	1.90
651995--652030	12	3.0	12	87	0	54	41	25	30	2	1.69
651992--652025	16	2.1	16	94	0	59	38	26	32	2	1.71
657504--657989	160	3.0	158	84	3	589	35	20	14	29	1.92
659839--659880	13	3.5	13	81	18	63	42	0	11	45	1.41
659834--659888	23	2.5	22	91	8	94	41	0	12	45	1.42
665949--666034	45	1.9	45	92	0	145	37	24	19	18	1.94
667011--668010	44	23.3	44	85	8	1334	33	25	13	27	1.93
667011--668010	90	11.6	88	84	9	1334	33	25	13	27	1.93
667418--667494	26	3.3	26	66	27	80	31	25	14	28	1.95
667589--667649	21	3.1	21	64	22	60	31	22	16	29	1.96
667626--667702	26	3.3	26	63	32	73	31	23	14	31	1.94
667696--667759	18	3.4	18	68	19	58	35	28	14	21	1.92
667714--667780	21	3.3	21	68	19	70	32	23	16	26	1.96
667832--667935	21	5.2	21	65	21	80	31	24	15	28	1.95
667855--667918	18	3.4	18	68	19	58	35	28	14	21	1.92
668775--669009	128	1.8	128	93	1	409	43	14	7	35	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
668775--669043	128	2.1	128	88	2	398	43	14	7	34	1.74
669869--670303	180	2.4	180	98	0	845	37	17	15	29	1.91
673334--673415	41	2.0	41	92	4	139	51	10	17	20	1.75
673383--673891	161	3.2	158	82	5	574	36	19	14	30	1.91
682044--682089	2	23.0	2	100	0	92	50	0	50	0	1.00
685409--685442	1	34.0	1	100	0	68	0	0	0	100	0.00
685861--685885	2	12.5	2	100	0	50	52	0	0	48	1.00
697597--697668	2	36.0	2	100	0	144	50	0	50	0	1.00
701573--701616	1	44.0	1	100	0	88	0	0	0	100	0.00
705734--705768	10	3.4	10	88	7	52	22	0	0	77	0.78
711278--711306	4	7.2	4	100	0	58	24	0	0	75	0.80
720276--720389	53	2.1	54	91	4	185	41	7	14	37	1.72
722315--722362	22	2.2	22	100	0	96	47	18	8	25	1.76
726619--726681	22	2.9	22	100	0	126	26	17	14	41	1.88
726619--726678	13	5.2	13	70	29	64	26	18	13	41	1.87
726841--727021	21	8.6	21	73	8	118	44	18	13	23	1.86
727058--727129	21	3.5	21	84	3	92	43	19	11	26	1.84
727131--727161	16	1.9	16	93	0	53	22	25	12	38	1.90
735167--735214	2	24.0	2	100	0	96	50	0	50	0	1.00
739543--739573	16	1.9	16	93	0	53	58	6	16	19	1.59
746566--746623	4	14.8	4	85	3	73	0	41	25	32	1.56
746572--746623	12	4.3	12	95	0	86	0	42	25	32	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
750993--751086	31	3.2	31	74	11	88	37	27	12	22	1.91
753652--753706	25	2.2	25	96	0	101	50	16	1	30	1.55
756339--756365	13	2.1	13	100	0	54	33	0	14	51	1.43
763363--763477	22	6.3	17	89	10	126	35	33	13	17	1.88
763386--763451	22	3.0	22	100	0	132	36	31	13	18	1.90
763366--763477	39	2.9	40	78	12	135	36	33	12	17	1.88
768790--768819	15	2.0	15	93	0	51	23	6	13	56	1.60
774795--774824	16	1.9	16	93	6	53	46	23	16	13	1.82
777659--777707	2	24.5	2	100	0	98	51	0	48	0	1.00
791240--791274	18	2.0	18	94	5	63	51	0	5	42	1.25
800965--800994	2	15.0	2	100	0	60	50	0	50	0	1.00
803141--803191	3	17.0	3	100	0	102	66	0	33	0	0.92
803762--803821	2	30.5	2	96	3	113	0	48	0	51	1.00
806938--806969	7	4.9	7	96	3	50	90	9	0	0	0.45
817013--817065	2	26.5	2	100	0	106	49	0	50	0	1.00
817459--817493	18	1.9	18	100	0	70	28	14	17	40	1.88
826499--826532	2	17.0	2	100	0	68	0	0	50	50	1.00
826532--826588	2	28.5	2	100	0	114	49	0	50	0	1.00
828132--828187	22	2.5	22	72	11	53	51	1	12	33	1.50
828247--828273	2	13.5	2	100	0	54	48	0	0	51	1.00
835174--835475	151	2.0	153	88	6	454	37	10	15	36	1.82
837889--837938	2	25.0	2	100	0	100	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
838071--838112	18	2.3	19	80	12	52	83	14	0	2	0.75
838082--838114	9	3.8	9	96	4	59	90	9	0	0	0.44
848071--848097	2	13.5	2	100	0	54	48	0	0	51	1.00
848119--848150	2	16.0	2	100	0	64	50	0	0	50	1.00
850976--851034	2	29.5	2	89	6	75	6	49	0	44	1.29
851207--851307	5	20.4	5	81	9	118	3	16	21	57	1.56
853933--853959	2	13.5	2	100	0	54	0	48	0	51	1.00
862744--862788	15	3.1	14	84	9	54	4	2	13	80	0.97
862742--862786	19	2.3	19	80	3	54	2	2	13	82	0.86
867226--867424	106	1.9	106	97	0	380	32	17	21	28	1.96

Tables:   1   2   3