oyster.v9_M.fa.s38.2.7.7.80.10.50.500.2.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: scaffold204
Parameters: 2 7 7 80 10 50 500
Length:  1152859

Tables:   1   2   3   

This is table  2  of  3  ( 357 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)
352074--353111	431	2.4	428	86	3	1398	30	19	16	33	1.94
355444--355493	2	25.0	2	100	0	100	50	0	50	0	1.00
356020--356053	10	3.4	10	87	0	50	44	26	8	20	1.81
356020--356053	15	2.3	15	89	0	50	44	26	8	20	1.81
356071--356150	21	3.8	21	88	0	115	41	25	8	25	1.83
358180--358301	21	5.8	21	95	0	208	23	23	16	36	1.94
378270--378315	19	2.6	18	83	10	58	28	13	15	43	1.83
405621--405856	22	10.7	22	75	5	190	26	21	13	38	1.90
405646--405822	33	5.4	33	75	5	151	28	20	13	37	1.91
411811--411836	13	2.0	13	100	0	52	38	15	15	30	1.88
412662--412686	10	2.5	10	100	0	50	36	12	8	44	1.71
422715--423035	21	15.6	21	75	8	198	33	17	12	37	1.87
422715--423014	42	7.2	42	77	7	238	33	18	12	36	1.87
422715--423020	63	4.9	62	73	9	230	33	17	12	36	1.87
423599--423870	42	6.5	42	91	0	436	36	13	19	30	1.90
423590--423870	21	13.4	21	79	1	303	37	13	19	30	1.90
435572--435649	31	2.5	31	97	2	149	29	14	12	43	1.82
436327--436358	16	2.0	16	93	0	55	21	12	15	50	1.77
436752--436997	123	2.0	123	97	0	465	28	14	26	30	1.95
439216--439268	2	27.0	2	96	3	99	50	0	49	0	1.00
441931--441971	21	2.0	21	90	0	64	46	9	4	39	1.58
448487--448511	7	3.6	7	100	0	50	16	32	28	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
448512--448617	56	1.9	56	100	0	212	32	16	19	32	1.94
459387--459610	86	2.6	86	99	0	439	32	19	17	30	1.95
459561--459666	56	1.9	56	96	0	194	32	18	15	33	1.92
459667--459691	7	3.6	7	100	0	50	24	28	32	16	1.96
467016--467081	21	3.1	21	70	12	62	40	13	15	30	1.85
467011--467175	43	3.8	42	77	9	168	35	13	16	34	1.88
467012--467082	22	3.3	22	73	11	65	42	12	14	30	1.82
467097--467217	21	5.7	21	67	7	82	35	13	17	33	1.88
467514--467597	21	4.0	21	75	3	87	29	14	15	40	1.87
467603--467676	21	3.5	21	90	1	103	44	13	16	25	1.84
467707--467756	21	2.4	21	89	0	73	26	16	14	44	1.85
468028--468128	48	2.0	49	86	5	141	40	19	10	28	1.86
470678--470743	2	33.0	2	96	0	123	0	50	1	48	1.10
475321--475463	46	3.1	46	98	0	277	17	21	15	45	1.85
489039--489369	19	17.4	19	72	12	100	28	9	21	41	1.84
489039--489394	57	6.2	57	74	6	256	28	9	21	40	1.84
489063--489394	38	8.7	38	73	1	243	27	9	21	40	1.85
489852--489893	21	2.1	19	91	8	66	28	21	4	45	1.72
499733--499763	2	15.5	2	100	0	62	51	0	0	48	1.00
501234--501281	24	2.0	24	100	0	96	33	25	16	25	1.96
509401--509455	2	27.5	2	96	0	101	0	47	0	52	1.00
510783--510840	2	29.0	2	96	0	107	0	50	1	48	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513023--513099	38	2.1	38	92	2	129	36	9	6	48	1.61
514213--514241	1	29.0	1	100	0	58	100	0	0	0	0.00
519289--519357	36	1.9	36	82	5	86	24	15	15	43	1.87
519377--519674	30	9.9	30	90	2	463	25	16	18	39	1.91
519381--519674	153	1.9	149	92	2	489	24	16	19	39	1.91
527442--527479	14	2.7	14	87	0	58	55	28	5	10	1.56
528764--528927	52	3.0	52	77	11	132	25	17	21	34	1.96
528822--528940	52	2.3	52	91	0	184	22	17	24	35	1.95
534078--534107	12	2.5	12	100	0	60	56	6	20	16	1.62
550227--550261	16	2.2	16	94	0	61	0	34	25	40	1.56
550226--550264	20	1.9	20	100	0	78	0	33	25	41	1.56
550288--551209	166	5.6	165	89	2	1375	28	17	15	38	1.91
559848--560507	179	3.7	179	90	4	981	30	14	18	36	1.91
560482--560531	24	2.1	24	92	7	84	20	12	20	48	1.80
562479--562606	38	3.4	37	86	4	175	35	17	21	25	1.95
565167--565199	17	1.9	17	100	0	66	30	24	21	24	1.99
569778--569807	4	7.5	4	92	0	51	0	23	46	30	1.52
569818--570455	162	3.9	163	93	1	1084	28	14	21	35	1.92
569818--570479	161	4.1	162	93	0	1080	28	14	21	36	1.92
576350--576392	19	2.3	19	88	8	61	23	0	39	37	1.55
580322--580412	5	18.4	5	79	10	98	56	23	16	4	1.58
580650--580688	2	19.5	2	100	0	78	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581510--581545	15	2.3	16	90	4	56	5	19	30	44	1.73
582451--582490	21	1.9	21	89	0	62	17	5	0	77	0.94
583876--583911	14	2.5	14	95	4	63	16	0	2	80	0.83
601741--602032	145	2.0	145	89	4	446	30	15	16	37	1.90
602107--602367	131	2.0	129	90	1	405	31	13	16	38	1.87
609149--609175	11	2.5	11	100	0	54	55	7	7	29	1.55
620816--620848	12	2.8	12	95	4	59	0	36	27	36	1.57
621018--621660	166	3.9	166	95	1	1125	31	16	26	24	1.97
621018--621660	331	1.9	332	93	2	1125	31	16	26	24	1.97
622947--623026	40	2.0	40	97	0	151	15	18	22	43	1.87
626281--627054	166	4.7	166	88	3	1110	39	14	17	28	1.89
628720--628829	47	2.3	47	89	6	177	27	17	22	32	1.96
631058--631087	15	2.0	15	100	0	60	13	13	33	40	1.83
632109--632170	31	2.0	31	96	0	115	22	24	25	27	2.00
632178--632225	16	3.0	16	100	0	96	6	25	25	43	1.77
637424--637904	161	3.0	161	83	2	581	31	13	18	36	1.90
637935--637982	1	48.0	1	91	0	78	0	0	4	95	0.25
637919--637976	26	2.2	27	81	3	64	1	1	10	86	0.73
637933--637982	26	1.9	26	95	0	91	0	0	6	94	0.33
640131--640208	38	2.0	39	87	2	113	42	5	8	43	1.58
644480--644567	46	1.9	46	97	0	167	46	12	9	31	1.73
644860--644897	20	1.9	20	94	0	67	34	26	23	15	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653523--653579	2	28.5	2	100	0	114	49	0	50	0	1.00
660263--660315	6	8.8	6	97	0	79	50	0	9	39	1.35
660824--660891	2	34.5	2	91	2	111	0	47	0	52	1.00
663645--663883	79	3.0	79	99	0	471	30	10	12	46	1.75
671547--671633	30	2.9	30	92	0	147	25	24	24	26	2.00
671550--671648	30	3.3	29	83	5	117	29	23	21	26	1.99
683931--684009	2	39.5	2	97	0	149	49	0	50	0	1.00
684176--684223	2	26.5	2	80	19	61	45	0	54	0	0.99
684176--684223	9	4.7	10	85	15	55	45	0	54	0	0.99
685775--685849	2	37.5	2	91	0	123	50	1	48	0	1.09
697308--697386	41	1.9	41	92	5	133	34	8	30	26	1.87
697311--697528	42	5.2	41	75	7	147	35	9	27	27	1.87
700938--700979	2	21.0	2	100	0	84	50	0	50	0	1.00
704025--704061	2	18.5	2	100	0	74	48	0	51	0	1.00
711622--711676	12	4.2	13	77	13	60	56	7	7	29	1.53
713051--713085	2	17.5	2	100	0	70	51	0	48	0	1.00
717414--717509	49	2.0	49	100	0	192	29	12	12	45	1.78
725945--725983	2	19.5	2	100	0	78	48	0	51	0	1.00
731934--732008	36	2.1	36	97	0	141	41	10	18	29	1.84
732514--732593	21	3.8	21	86	4	99	26	7	25	41	1.81
732792--732825	10	3.4	10	91	0	50	23	8	26	41	1.83
732791--732825	15	2.3	15	90	0	52	22	8	28	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
732850--732904	21	2.6	21	88	0	83	25	14	21	38	1.92
735772--735808	17	2.2	17	100	0	74	56	10	5	27	1.55
746258--746349	21	4.4	21	81	10	107	23	17	18	40	1.91
746258--746349	42	2.2	42	90	3	141	23	17	18	40	1.91
746426--746585	21	7.7	21	82	1	187	38	19	15	27	1.91
746637--746721	42	2.0	42	93	0	143	27	12	17	42	1.86
746637--746721	21	4.0	21	80	6	100	27	12	17	42	1.86
746815--746908	21	4.5	21	80	5	100	42	15	14	26	1.86
746815--746908	42	2.2	42	86	0	125	42	15	14	26	1.86
747402--747433	12	2.8	11	90	9	55	71	3	9	15	1.24

Tables:   1   2   3