oyster.v9_M.fa.s51.2.7.7.80.10.50.500.2.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: scaffold226
Parameters: 2 7 7 80 10 50 500
Length:  1071921

Tables:   1   2   3   

This is table  2  of  3  ( 262 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)
417076--417102	8	3.4	8	100	0	54	0	88	0	11	0.50
425575--425625	6	8.7	6	80	10	61	0	21	31	47	1.51
425587--425625	12	3.2	12	96	0	69	0	20	33	46	1.51
425797--426474	166	4.1	166	88	3	957	33	15	22	27	1.95
425844--426474	338	1.9	337	90	1	1014	33	15	23	27	1.95
433929--434273	171	2.0	170	86	7	486	31	16	25	26	1.96
437748--438666	37	24.7	37	89	2	1277	19	25	22	31	1.98
443112--443750	320	2.0	319	100	0	1269	27	22	19	30	1.98
444623--444654	14	2.1	16	88	11	50	9	12	9	68	1.39
451354--451412	2	29.5	2	100	0	118	0	50	0	49	1.00
454223--454255	17	1.9	17	93	0	57	36	15	18	30	1.91
457135--457203	22	3.2	21	72	11	61	82	4	1	11	0.87
458075--458111	16	2.2	16	90	4	56	72	21	5	0	1.04
462263--462325	2	31.5	2	100	0	126	50	0	49	0	1.00
465292--465326	15	2.4	14	85	4	52	28	0	14	57	1.38
474033--474070	2	19.0	2	94	0	67	52	0	47	0	1.00
482868--483043	88	2.0	88	98	0	343	40	13	12	33	1.81
490854--490891	5	8.0	5	88	8	53	0	2	18	78	0.86
491332--491357	2	13.0	2	100	0	52	0	50	0	50	1.00
492797--492847	2	25.5	2	100	0	102	0	49	0	50	1.00
495160--495212	27	2.0	27	88	7	81	33	15	16	33	1.90
495498--495579	39	2.1	39	81	6	94	24	13	19	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496658--496807	49	3.1	49	83	1	176	28	18	14	38	1.91
496676--496856	49	3.6	48	84	4	200	25	18	16	39	1.91
497582--497633	2	26.0	2	92	0	86	0	48	1	50	1.12
506670--506697	1	28.0	1	100	0	56	0	0	0	100	0.00
509064--509088	12	2.1	12	100	0	50	0	0	16	84	0.63
517673--517748	38	2.0	38	86	0	107	36	17	17	28	1.92
519244--519291	2	24.0	2	100	0	96	0	50	0	50	1.00
520354--520396	2	21.5	2	100	0	86	0	48	0	51	1.00
535905--535932	2	14.0	2	100	0	56	50	0	50	0	1.00
555774--556034	131	2.0	130	100	0	513	21	22	21	33	1.97
563590--563632	16	2.7	16	92	0	68	25	23	32	18	1.97
589140--589523	199	1.9	196	95	1	687	42	15	13	28	1.84
602045--602757	166	4.3	166	96	0	1250	34	16	21	26	1.95
609938--610001	19	3.3	19	75	16	69	45	0	0	54	0.99
611821--611860	16	2.5	16	91	0	62	22	30	25	22	1.99
615197--615231	12	2.9	12	95	0	61	0	42	22	34	1.54
615239--615804	147	3.9	146	88	3	843	28	18	22	29	1.98
619931--620104	95	1.8	95	94	0	312	27	16	11	44	1.82
628989--629197	108	1.9	107	100	0	409	37	14	12	34	1.84
631574--631618	2	22.5	2	100	0	90	51	0	48	0	1.00
638727--638764	20	1.9	20	84	10	51	60	5	5	28	1.40
644442--644481	17	2.5	17	88	8	57	42	10	0	47	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644551--644575	13	1.9	13	100	0	50	60	8	8	24	1.52
654007--654316	62	5.0	62	93	0	521	32	14	12	40	1.84
656026--656081	4	14.0	4	88	0	67	1	30	25	42	1.65
656030--656084	20	2.8	20	97	0	101	1	30	25	41	1.66
656108--656726	167	3.8	165	90	3	947	29	17	14	38	1.90
656422--656726	154	2.0	154	95	0	547	28	17	15	39	1.90
656757--657100	163	2.1	165	89	3	525	29	15	15	40	1.88
670105--670141	16	2.3	16	90	0	56	21	13	27	37	1.91
676002--676062	8	7.6	8	81	0	68	0	34	36	29	1.58
676074--676695	172	3.6	172	93	0	1028	29	19	14	36	1.92
677040--677089	4	12.8	4	91	4	75	0	44	26	30	1.55
677272--677296	11	2.3	11	100	0	50	40	28	20	12	1.87
677316--677807	166	3.0	166	97	0	930	38	19	17	25	1.93
681030--681088	30	2.0	30	100	0	118	16	45	23	13	1.83
700589--700635	3	15.3	3	78	12	51	61	31	4	2	1.27
703526--703663	34	4.1	33	74	12	118	28	18	13	38	1.90
704975--705496	34	15.4	34	76	5	371	31	19	11	37	1.87
705060--705245	70	2.7	70	81	5	191	33	16	11	38	1.85
709196--709253	2	29.0	2	100	0	116	0	50	0	50	1.00
729304--729346	2	21.5	2	100	0	86	0	48	0	51	1.00
742422--742754	110	3.0	110	98	0	630	26	19	28	26	1.99
744962--745015	27	2.0	27	100	0	108	44	18	3	33	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
752869--752897	13	2.1	14	93	6	51	27	10	17	44	1.81
755374--756131	379	2.0	378	99	0	1507	37	13	16	31	1.88
757111--757889	390	2.0	389	99	0	1540	28	15	27	27	1.96
763417--763441	12	2.1	12	100	0	50	36	32	16	16	1.90
778495--778559	2	33.0	2	92	3	96	0	52	0	47	1.00
782202--782963	380	2.0	379	99	0	1506	30	18	20	30	1.96
786620--786691	37	1.9	37	100	0	144	34	8	12	44	1.72
787377--787403	4	6.8	4	100	0	54	25	22	0	51	1.48
792596--792622	14	1.9	14	100	0	54	37	7	25	29	1.83
815261--815296	18	2.0	18	94	0	63	41	11	16	30	1.83
824298--824325	14	2.0	14	100	0	56	21	7	7	64	1.43
824330--824866	268	2.0	267	97	0	1011	25	19	18	35	1.95
824866--824965	8	13.7	7	74	21	73	31	16	43	10	1.80
824866--824966	14	7.0	13	73	20	62	30	15	43	9	1.80
824881--824965	43	2.0	43	90	0	134	30	16	43	9	1.79
824873--824964	22	4.2	22	85	2	123	30	16	43	9	1.80
825703--825764	22	2.8	22	85	0	79	29	14	43	12	1.83
825779--825881	8	14.1	7	70	20	52	9	42	16	31	1.80
825773--825805	14	2.3	15	89	5	50	3	42	18	36	1.66
825779--825818	21	1.9	21	94	0	71	5	42	20	32	1.73
825800--825857	30	1.9	30	92	0	98	8	43	17	31	1.79
826923--826965	2	21.5	2	95	0	77	2	46	0	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
834583--834763	53	3.4	52	92	3	308	47	11	10	30	1.73
837501--837534	18	1.9	17	88	5	50	44	14	0	41	1.45
838288--838475	97	1.9	97	93	0	322	31	5	9	53	1.56
839563--839785	45	5.0	45	95	0	401	36	20	11	32	1.88
840136--840568	107	4.0	111	83	5	535	37	9	13	38	1.78
841212--841285	36	2.0	37	89	2	114	39	10	18	31	1.86
842725--842770	2	23.0	2	100	0	92	0	50	0	50	1.00
843904--843930	4	6.8	4	100	0	54	0	0	22	77	0.76
845217--845268	20	2.7	19	80	8	61	42	17	11	28	1.84
859814--859859	2	23.0	2	100	0	92	0	50	0	50	1.00
864048--864096	20	2.5	20	83	6	55	2	6	20	71	1.18
867820--867870	26	2.0	25	88	3	75	21	25	15	37	1.93
867857--867917	21	2.9	21	80	4	61	21	21	16	40	1.91
868914--869030	42	2.8	42	90	0	180	16	23	18	41	1.90
868906--869046	21	6.7	21	75	0	120	17	25	16	41	1.89
868912--869046	42	3.2	42	87	0	171	17	25	17	40	1.90
888822--889252	43	10.0	42	88	2	547	22	23	28	26	1.99
888822--889252	86	5.0	86	89	1	641	22	23	28	26	1.99
888822--889252	129	3.3	129	88	2	634	22	23	28	26	1.99
892125--892639	161	3.2	160	91	1	780	29	13	18	38	1.90
893178--893215	16	2.5	15	87	8	58	71	0	5	23	1.07
894275--894314	2	20.0	2	89	0	62	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)
894702--894733	2	16.0	2	100	0	64	0	50	0	50	1.00
918937--919041	6	18.0	6	70	8	74	20	0	40	37	1.59
918937--919042	23	4.3	24	77	14	101	20	0	40	37	1.59
918946--919003	30	1.9	30	100	0	116	18	0	43	37	1.51
919041--919076	9	4.0	9	88	0	54	38	22	11	27	1.88
919116--919329	92	2.2	100	82	14	327	34	24	13	28	1.93
919135--919326	92	2.1	92	97	0	357	35	25	13	26	1.92
939106--939153	11	4.4	11	91	0	78	25	10	12	52	1.71
942116--942183	33	2.1	33	100	0	136	39	14	20	25	1.91
948749--948799	2	25.5	2	100	0	102	49	0	50	0	1.00

Tables:   1   2   3