oyster.v9_M.fa.s12.2.7.7.80.10.50.500.2.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: scaffold198
Parameters: 2 7 7 80 10 50 500
Length:  1589021

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 568 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)
422968--423033	22	3.0	22	86	4	89	22	21	39	16	1.92
422968--423033	33	2.0	33	81	0	78	22	21	39	16	1.92
423249--423334	20	4.3	20	94	1	147	33	19	3	43	1.68
423341--423391	21	2.4	21	96	0	93	45	3	23	27	1.70
423311--423527	82	2.6	82	77	9	226	42	12	11	33	1.79
423414--423491	21	3.8	21	96	1	140	46	14	10	29	1.77
423481--423536	21	2.7	21	68	0	58	37	16	7	39	1.76
423394--423536	42	3.5	41	81	3	155	41	15	8	34	1.77
423541--423607	21	3.2	21	86	0	98	38	7	17	35	1.78
423845--423878	17	2.0	17	94	0	59	23	5	44	26	1.76
424154--424254	21	4.6	21	77	11	94	29	19	6	43	1.77
424230--424319	43	2.1	42	85	6	119	37	11	14	36	1.82
424249--424394	64	2.3	63	83	4	170	39	6	19	33	1.79
424294--424403	21	5.3	21	93	1	170	40	4	21	32	1.74
424965--425130	45	3.8	45	79	9	218	35	12	23	28	1.91
424955--425130	84	2.1	84	94	2	309	34	11	25	29	1.91
426061--426312	45	5.6	45	90	4	377	37	11	20	29	1.89
439448--439481	2	17.0	2	100	0	68	0	50	0	50	1.00
440246--440280	17	2.1	17	88	0	52	20	2	20	57	1.54
440196--440369	84	2.1	85	86	3	244	31	12	14	41	1.84
444339--444383	23	2.0	23	86	8	65	64	2	24	8	1.34
455129--455177	2	24.5	2	100	0	98	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457659--457702	2	22.0	2	95	0	79	0	47	0	52	1.00
458654--458707	21	2.6	21	88	2	83	37	16	12	33	1.87
458739--458793	22	2.5	22	76	2	58	25	10	12	50	1.73
469267--470723	166	8.8	166	89	1	2066	39	14	15	29	1.88
470747--470784	16	2.4	16	90	0	58	34	28	36	0	1.58
470747--470785	8	4.9	8	83	0	51	35	28	35	0	1.58
478382--478432	2	25.5	2	100	0	102	49	0	50	0	1.00
479007--479040	10	3.4	10	87	0	50	32	0	67	0	0.91
479035--479060	2	13.0	2	100	0	52	50	0	50	0	1.00
483594--483634	2	20.5	2	100	0	82	51	0	48	0	1.00
492838--492899	2	31.0	2	100	0	124	50	0	50	0	1.00
493706--493789	2	42.0	2	100	0	168	50	0	50	0	1.00
494934--494985	2	26.0	2	100	0	104	50	0	50	0	1.00
508628--508702	2	37.5	2	97	0	141	50	1	48	0	1.09
513026--513057	10	3.2	10	90	0	55	40	28	9	21	1.84
514592--514625	17	2.0	17	94	0	59	44	20	0	35	1.52
528281--528336	2	28.0	2	100	0	112	0	50	0	50	1.00
535404--535429	2	13.0	2	100	0	52	0	50	0	50	1.00
537068--537109	2	21.0	2	90	0	66	54	0	45	0	0.99
558021--558049	3	9.7	3	100	0	58	65	0	34	0	0.93
567461--567508	2	24.0	2	91	0	78	45	50	4	0	1.21
568365--568401	17	2.2	17	95	0	65	54	5	18	21	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576379--576440	2	31.0	2	96	0	115	0	51	0	48	1.00
584502--584529	4	7.0	4	100	0	56	25	0	25	50	1.50
586661--586883	43	5.2	43	88	1	261	31	14	16	37	1.89
586663--586871	107	2.0	107	94	0	364	32	14	17	35	1.90
586868--586897	14	2.1	14	100	0	60	20	16	16	46	1.84
586893--586937	21	2.1	21	100	0	90	35	15	17	31	1.92
587603--587883	21	13.2	21	82	4	339	32	17	13	36	1.89
587603--587885	43	6.6	43	84	3	358	32	16	13	36	1.89
587603--587883	64	4.4	64	93	1	458	32	17	13	36	1.89
591330--591373	21	2.1	21	83	8	54	38	13	11	36	1.81
594108--594231	61	2.0	61	100	0	248	32	8	9	49	1.67
608643--608667	2	12.5	2	100	0	50	48	0	0	52	1.00
610933--610973	20	2.0	20	95	0	73	41	4	21	31	1.74
613609--613814	95	2.2	95	92	1	342	38	12	11	37	1.80
616559--616600	1	42.0	1	100	0	84	0	0	0	100	0.00
619284--619352	33	2.1	33	94	0	120	34	15	10	39	1.82
623479--623504	2	13.0	2	100	0	52	50	0	0	50	1.00
624918--624958	2	20.5	2	100	0	82	0	48	0	51	1.00
625423--625480	2	29.0	2	100	0	116	0	50	0	50	1.00
627912--627939	2	14.0	2	100	0	56	0	50	0	50	1.00
630111--630151	18	2.3	18	87	8	57	58	7	12	21	1.58
630171--630219	4	12.2	4	95	0	80	28	0	44	26	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
630205--630288	4	21.0	4	97	0	159	48	0	26	25	1.51
635716--635741	2	13.0	2	100	0	52	50	0	50	0	1.00
635730--635788	22	2.7	22	78	5	75	35	0	59	5	1.20
635716--635811	20	4.8	20	70	12	63	41	0	53	5	1.23
638507--639599	437	2.5	438	90	1	1674	36	16	17	29	1.92
641737--641774	4	9.5	4	100	0	76	26	23	0	50	1.50
645132--645280	41	3.6	41	84	7	178	34	13	32	20	1.91
645087--645281	83	2.3	84	81	4	225	32	13	32	21	1.92
645847--646136	134	2.2	136	84	4	383	26	25	20	27	1.99
646187--646554	162	2.3	162	86	5	510	30	17	14	36	1.90
647251--647277	12	2.2	12	100	0	54	40	22	11	25	1.87
653583--653719	70	2.0	70	95	0	247	37	18	18	24	1.93
654148--654194	16	2.9	16	100	0	94	31	10	25	31	1.90
656537--656695	84	1.9	84	81	2	194	23	40	5	30	1.76
656626--656749	42	3.0	42	84	4	153	22	41	4	30	1.74
656584--656749	84	2.0	84	81	9	196	22	42	5	30	1.76
656843--656906	19	3.2	19	66	30	51	12	53	6	28	1.62
656805--656953	42	3.6	42	92	1	237	16	49	5	28	1.67
689778--689810	2	16.5	2	100	0	66	48	0	0	51	1.00
706351--706402	19	2.7	19	78	3	59	34	5	17	42	1.73
709185--709577	165	2.4	166	93	1	646	26	25	15	32	1.96
716300--716449	36	4.2	36	93	0	257	26	14	16	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
717187--717224	14	2.7	14	87	0	58	52	2	44	0	1.14
717185--717223	12	3.1	12	82	13	51	56	2	41	0	1.13
718067--718148	33	2.5	33	95	2	146	29	28	17	25	1.97
739850--739889	2	20.0	2	100	0	80	0	50	0	50	1.00
751884--751915	10	3.1	10	91	8	55	50	9	18	21	1.75
758086--758523	171	2.6	167	91	4	707	25	26	15	32	1.95
770164--770326	64	2.5	64	92	1	281	44	11	19	24	1.83
773973--774029	21	2.7	21	80	0	69	43	12	15	28	1.83
774933--775455	165	3.1	165	85	5	655	33	14	24	27	1.94
775387--775616	116	2.0	115	83	4	295	29	15	33	21	1.94
775218--775786	287	2.0	283	86	3	786	31	14	28	24	1.95
775503--775855	171	2.1	171	89	4	543	31	15	26	26	1.96
776256--776288	16	1.9	18	88	11	52	0	15	0	84	0.61
786367--786415	24	2.0	24	100	0	98	48	24	22	4	1.67
788495--788573	39	2.0	39	90	0	122	41	1	17	39	1.58
788757--790227	34	43.4	34	92	1	2353	25	19	18	35	1.95
808842--808883	20	2.1	20	100	0	84	47	14	9	28	1.75
810066--810191	50	2.5	50	84	0	162	34	14	23	27	1.94
811126--811440	33	9.3	33	86	6	400	39	11	20	28	1.87
812348--812446	34	2.9	34	85	5	119	30	10	22	37	1.87
815929--816171	59	4.1	59	98	0	468	32	13	21	32	1.92
817308--817659	53	6.5	53	88	5	501	38	21	20	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
817308--817659	110	3.2	106	87	7	510	38	21	20	19	1.94
817308--817660	163	2.2	163	96	0	661	38	21	20	19	1.94
817827--818102	67	4.2	67	79	4	319	25	22	17	35	1.95
818703--820014	165	7.9	166	78	3	1308	24	24	14	30	1.93
821987--822032	8	5.8	8	89	0	74	36	26	36	0	1.57
821994--822039	12	3.9	12	91	2	76	36	26	36	0	1.57
821990--822040	4	13.0	4	81	4	50	39	25	35	0	1.56
823032--823097	20	3.5	17	78	17	60	57	22	15	4	1.56
823006--823080	23	3.4	22	85	10	100	60	22	13	4	1.50
824664--824772	48	2.3	48	98	0	209	35	20	9	34	1.84

Tables:   1   2   3   4   5