oyster.v9_M.fa.s49.2.7.7.80.10.50.500.2.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: scaffold1188
Parameters: 2 7 7 80 10 50 500
Length:  1075576

Tables:   1   2   3   

This is table  2  of  3  ( 317 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)
502386--503096	146	4.9	146	89	1	996	28	21	18	31	1.97
503103--503149	8	5.9	8	89	0	58	34	25	40	0	1.56
503100--503150	12	4.2	12	89	0	57	37	25	37	0	1.56
503107--503145	4	9.8	4	88	0	60	30	25	43	0	1.55
503892--503921	15	2.0	15	93	0	51	63	0	6	30	1.20
506294--506321	1	28.0	1	100	0	56	0	100	0	0	0.00
516686--516728	16	2.7	16	88	0	68	0	37	30	32	1.58
517524--517556	4	8.2	4	100	0	66	24	0	27	48	1.51
518154--518191	10	3.8	10	92	0	67	44	31	13	10	1.77
518154--518191	20	1.9	20	100	0	76	44	31	13	10	1.77
518640--518679	10	4.0	10	93	0	71	10	17	30	42	1.82
525845--525879	17	2.1	16	89	5	52	20	37	17	25	1.94
525936--525970	17	2.1	16	89	5	52	25	17	37	20	1.94
526520--526553	2	17.0	2	93	0	59	50	2	0	47	1.16
532979--533263	4	71.2	4	81	0	273	24	6	25	43	1.77
538698--538731	17	2.0	17	100	0	68	41	5	11	41	1.66
540852--540917	4	16.5	4	80	0	69	3	19	22	54	1.58
540855--540911	12	4.8	12	84	0	78	1	19	22	56	1.51
540852--540930	16	5.1	16	84	3	72	2	20	22	54	1.56
540993--541035	4	10.8	4	89	0	59	0	20	20	58	1.40
544407--544557	44	3.5	44	75	10	168	36	14	23	25	1.93
544405--544557	22	7.1	22	67	16	88	36	14	22	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544413--544566	84	1.8	84	92	0	263	36	14	24	25	1.93
544769--544861	39	2.4	39	89	10	154	37	21	7	33	1.82
545861--546306	44	10.1	44	100	0	892	33	20	13	32	1.91
546832--546987	18	8.7	18	85	0	179	39	12	16	32	1.85
546832--546979	54	2.8	54	91	1	244	40	11	16	31	1.84
547248--547427	30	5.9	30	93	3	281	32	17	17	32	1.93
547250--547486	60	3.9	61	85	6	218	32	16	17	32	1.93
558201--558523	39	8.3	39	92	4	555	37	22	8	32	1.83
560115--560190	18	4.5	16	83	6	80	44	15	9	30	1.78
560135--560194	18	3.3	18	92	0	102	45	15	10	30	1.78
560119--560203	36	2.4	36	88	3	129	43	15	11	29	1.82
560442--560587	64	2.3	63	84	5	177	28	15	19	36	1.92
560470--560587	32	3.8	32	87	2	159	31	15	16	36	1.90
568097--568121	13	1.9	13	100	0	50	16	0	8	76	1.02
569654--569694	20	2.0	20	100	0	82	19	24	26	29	1.98
570488--570579	21	4.4	21	85	8	116	27	15	18	39	1.90
570775--570933	21	7.7	21	79	2	151	28	13	17	39	1.88
570988--571078	42	2.2	43	86	4	123	38	19	18	23	1.93
570987--571078	21	4.4	21	78	5	87	38	19	18	23	1.93
577404--577680	55	5.1	55	90	4	447	32	19	15	31	1.93
577370--577680	108	2.8	108	92	2	489	33	19	15	31	1.93
581332--581364	13	2.5	13	100	0	66	54	0	15	30	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584827--585044	20	11.0	20	85	2	296	34	15	19	29	1.93
585984--586016	16	2.1	16	94	0	57	21	27	12	39	1.88
588540--588604	17	3.5	17	70	22	58	38	12	20	29	1.89
588553--588667	23	5.5	23	70	23	110	39	7	21	31	1.82
588527--588862	40	8.0	40	83	12	399	40	8	21	30	1.82
588576--588730	17	8.7	17	70	21	79	41	9	19	30	1.82
588527--588876	131	2.8	131	88	7	503	40	8	21	29	1.82
588804--588844	14	2.9	14	82	17	57	36	7	19	36	1.80
588914--589078	16	10.4	16	72	3	127	33	19	15	31	1.93
591328--591577	42	6.0	42	91	1	353	37	7	37	18	1.79
591328--591577	83	3.0	84	88	2	353	37	7	37	18	1.79
591336--591604	42	6.5	42	90	3	194	38	7	36	17	1.78
592679--592721	19	2.3	19	100	0	86	0	9	20	69	1.15
592688--592725	10	3.9	10	79	6	51	0	13	21	65	1.26
594657--594958	138	2.2	138	86	2	410	22	13	24	39	1.90
594652--594984	27	12.0	27	86	3	380	22	14	24	39	1.91
597341--597440	50	2.0	50	98	0	191	35	18	29	18	1.94
597391--597470	37	2.2	37	95	0	142	33	18	30	17	1.94
597338--597520	87	2.1	87	94	0	321	36	18	27	16	1.93
597425--597570	50	2.9	50	97	0	274	38	18	26	16	1.92
598637--598692	20	2.8	21	83	10	89	44	16	5	33	1.70
600607--600640	15	2.4	14	85	9	50	38	5	2	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
602702--602905	29	6.8	29	80	9	214	39	23	12	24	1.89
602895--602942	20	2.4	20	85	0	69	31	18	20	29	1.97
603963--604142	96	1.9	96	84	4	247	40	7	20	32	1.79
603964--604175	46	4.5	46	83	5	239	39	7	20	32	1.81
606486--608206	39	43.8	39	86	6	2008	24	5	49	21	1.70
606486--608206	58	29.2	58	87	4	2024	24	5	49	21	1.70
606486--608233	20	88.8	19	84	8	1772	24	5	49	21	1.70
608358--608402	20	2.3	20	96	3	83	20	4	51	24	1.66
608358--608408	20	2.6	20	90	3	68	21	3	49	25	1.67
610787--610962	68	2.6	68	88	0	246	30	21	12	35	1.90
611329--612327	27	36.5	27	79	7	1005	21	13	25	39	1.90
611712--611835	33	3.9	33	75	12	107	25	12	25	35	1.92
611699--611851	60	2.5	60	88	0	234	22	13	26	37	1.92
613651--614056	50	8.1	50	96	0	751	34	17	28	18	1.94
623517--623558	2	21.0	2	100	0	84	50	0	50	0	1.00
627436--627490	26	2.1	26	82	0	65	25	45	14	14	1.83
627459--627574	57	2.0	59	86	5	164	29	42	16	12	1.84
627801--627834	15	2.3	15	100	0	68	32	5	41	20	1.76
635417--635449	14	2.4	14	100	0	66	27	24	21	27	1.99
640953--640987	14	2.5	14	100	0	70	28	22	22	25	1.99
640916--641020	51	2.1	51	89	3	158	24	21	17	36	1.95
640967--641061	37	2.6	37	83	3	120	25	22	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640912--641080	88	1.9	88	95	0	302	24	22	15	37	1.93
643900--644766	449	1.9	448	97	0	1653	45	15	16	22	1.85
657959--658100	55	2.4	58	82	11	184	40	8	12	38	1.74
669615--670253	321	2.0	321	96	0	1181	40	16	15	26	1.89
673231--673301	2	35.5	2	100	0	142	0	0	50	49	1.00
676429--676456	3	9.3	3	100	0	56	32	0	32	35	1.58
682211--682236	4	6.5	4	100	0	52	0	50	23	26	1.50
682831--682865	15	2.4	15	90	4	54	45	0	5	48	1.26
682965--683003	10	3.9	10	86	0	51	46	15	2	35	1.60
683369--683410	15	2.9	14	83	16	50	26	14	30	28	1.95
683375--683410	16	2.3	16	90	4	56	25	16	27	30	1.97
685637--685698	25	2.5	25	86	5	90	38	20	0	40	1.53
690871--690938	34	2.0	34	94	0	118	26	14	8	50	1.72
693052--693836	62	12.7	62	92	0	1196	35	28	19	15	1.93
695198--695236	2	19.5	2	100	0	78	48	0	51	0	1.00
701455--701482	13	2.2	13	100	0	56	25	21	21	32	1.98
707276--707313	15	2.4	16	86	4	51	42	18	26	13	1.87
711856--711921	33	2.0	33	100	0	132	24	21	21	33	1.97
712219--712333	43	2.7	43	82	2	142	33	10	14	41	1.80
712270--712333	21	3.0	21	77	4	74	34	9	15	40	1.80
723892--723918	13	2.1	13	100	0	54	40	22	7	29	1.81
724331--724546	70	3.1	70	97	0	405	22	18	22	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
726230--726337	31	3.8	29	75	20	102	30	40	14	13	1.85
726217--726343	54	2.3	55	90	1	202	32	40	14	13	1.84
726261--726308	23	2.1	23	96	0	87	33	43	14	8	1.75
726315--726383	23	3.0	23	76	2	77	33	39	14	13	1.85
726362--726487	31	4.1	31	92	0	207	27	38	17	16	1.91
726273--726417	78	1.9	78	91	1	238	31	37	15	15	1.88
737195--737695	31	17.7	31	83	13	560	14	17	39	27	1.90
737256--737324	23	3.0	23	100	0	138	8	17	43	30	1.79
737280--737695	85	4.9	85	86	10	625	15	17	39	27	1.90
737365--737409	23	2.0	23	91	8	74	8	15	46	28	1.76

Tables:   1   2   3