oyster.v9_M.fa.s58.2.7.7.80.10.50.500.2.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: scaffold1017
Parameters: 2 7 7 80 10 50 500
Length:  1024007

Tables:   1   2   3   4   

This is table  2  of  4  ( 364 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)
329699--329737	17	2.3	17	100	0	78	20	17	10	51	1.74
334398--335549	165	7.0	163	88	5	1599	25	26	16	32	1.96
334398--335549	327	3.5	327	88	5	1676	25	26	16	32	1.96
340997--341032	2	18.5	2	94	5	65	0	50	0	50	1.00
345885--345924	21	1.9	21	84	0	53	30	35	5	30	1.79
348949--349025	2	38.5	2	84	5	102	1	46	2	49	1.23
356051--356075	1	25.0	1	100	0	50	0	100	0	0	0.00
357742--357776	2	17.5	2	100	0	70	48	0	51	0	1.00
360101--360132	2	16.0	2	100	0	64	0	50	0	50	1.00
366970--367011	18	2.4	17	96	4	75	16	2	16	64	1.40
372565--372608	23	1.9	23	85	0	61	45	4	4	45	1.44
385276--385317	19	2.2	19	91	0	66	35	33	7	23	1.82
388176--388237	30	2.1	30	96	0	115	24	12	38	24	1.90
388665--388711	2	23.5	2	100	0	94	0	51	0	48	1.00
390048--390097	21	2.4	21	79	0	55	40	10	16	34	1.81
390106--390180	38	1.9	39	86	2	107	37	9	18	34	1.83
390919--391094	22	7.9	22	68	12	90	27	18	16	38	1.92
390921--391094	67	2.6	67	82	2	215	27	18	16	38	1.91
393879--394420	172	3.2	172	89	3	796	32	15	26	25	1.96
417503--417578	2	38.0	2	100	0	152	0	50	0	50	1.00
427053--427113	2	31.0	2	96	3	115	49	0	50	0	1.00
427534--427593	28	2.1	28	96	0	111	35	53	0	10	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433168--433219	2	26.0	2	96	0	95	51	0	48	0	1.00
433438--433500	21	3.0	21	95	0	108	22	26	23	26	2.00
434344--434377	12	2.8	12	86	0	50	0	32	26	41	1.56
436163--436501	167	2.0	166	90	2	538	31	15	26	26	1.96
442482--442507	1	26.0	1	100	0	52	0	100	0	0	0.00
446049--446182	48	2.8	49	84	10	177	46	14	14	23	1.83
453577--453672	26	3.7	25	72	13	70	35	13	21	29	1.92
453556--454122	52	10.8	52	78	7	301	37	13	20	28	1.90
453587--454119	78	6.7	75	76	8	282	37	13	20	28	1.90
453603--453764	26	6.2	26	79	0	135	37	16	19	27	1.92
453715--453790	26	2.9	25	78	7	71	34	18	21	26	1.96
453818--454132	26	12.1	26	83	4	377	38	11	21	28	1.88
454965--456251	165	7.8	163	79	8	1188	28	22	15	33	1.94
456383--456643	127	2.0	130	92	5	440	37	21	24	17	1.94
460063--460095	12	2.8	12	86	4	50	36	27	36	0	1.57
464460--464506	4	12.0	4	84	4	51	40	25	34	0	1.56
464457--464506	20	2.5	20	90	3	84	40	26	34	0	1.56
468369--469276	35	26.0	34	87	3	1077	39	18	19	22	1.92
468369--469276	70	13.0	70	89	1	1259	39	18	19	22	1.92
468369--469276	105	8.7	105	88	2	1252	39	18	19	22	1.92
469883--469918	17	2.1	17	100	0	72	25	27	19	27	1.99
471339--471422	35	2.5	33	84	5	107	23	32	17	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472998--473353	183	1.9	184	97	0	669	38	17	14	30	1.89
475412--475547	30	4.5	30	87	1	139	23	23	19	33	1.97
475415--475547	60	2.2	60	86	0	176	22	24	18	34	1.96
475452--475576	60	2.1	60	86	0	169	24	21	18	35	1.96
475452--475547	30	3.2	30	90	0	147	23	20	19	35	1.96
475452--475576	30	4.2	30	81	6	128	24	21	18	35	1.96
476317--476350	3	11.3	3	87	0	50	2	0	70	26	1.01
480864--480919	3	19.3	3	81	7	53	32	7	30	30	1.84
493019--493523	253	2.0	252	100	0	1001	31	20	16	30	1.95
499753--499821	28	2.5	28	82	0	84	39	2	26	31	1.71
499746--499862	59	2.0	57	80	9	128	36	3	29	30	1.74
499933--499965	17	1.9	17	100	0	66	30	6	6	57	1.47
504777--505043	133	2.0	134	97	0	509	35	9	12	41	1.75
505363--505389	11	2.5	11	100	0	54	37	7	0	55	1.28
506903--506972	2	35.0	2	97	0	131	50	0	48	1	1.09
508330--508423	36	2.7	37	80	16	103	25	9	26	38	1.87
508330--508433	33	3.0	33	78	14	95	25	8	25	39	1.85
516644--516927	72	3.9	72	95	1	489	36	14	16	33	1.89
519526--519643	52	2.5	47	79	15	134	39	13	9	37	1.77
524039--524135	23	4.2	23	71	10	56	34	8	18	39	1.81
524055--524151	23	4.2	23	70	10	81	32	9	16	41	1.80
523970--524152	69	2.7	69	92	1	287	34	9	16	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527436--527682	83	3.0	82	86	6	327	42	10	16	31	1.81
527434--527561	41	3.1	41	68	9	116	50	10	14	24	1.75
527535--527669	42	3.2	42	68	12	123	40	8	19	32	1.81
527436--527713	84	3.3	82	83	7	330	43	10	15	29	1.81
536770--536807	19	2.0	19	94	0	67	36	18	10	34	1.85
537366--537483	21	5.6	21	79	7	123	39	16	14	29	1.88
537348--537437	42	2.1	42	85	0	117	43	15	12	28	1.83
537366--537486	42	2.9	42	82	2	145	39	16	14	29	1.88
537532--537585	21	2.6	21	72	0	54	40	14	16	27	1.88
537850--537951	21	4.8	21	87	1	105	33	19	13	33	1.91
538002--538058	22	2.7	21	83	5	78	31	10	10	47	1.72
547650--547992	112	3.1	112	96	0	616	32	16	20	30	1.94
550525--550579	2	27.5	2	100	0	110	0	50	0	49	1.00
557806--557882	30	2.6	30	91	0	127	37	16	19	25	1.93
570627--570678	25	2.1	26	82	13	65	28	5	9	55	1.55
576397--576459	31	2.0	31	96	0	117	49	12	9	28	1.72
578689--578713	12	2.1	12	100	0	50	36	32	16	16	1.90
590653--590708	18	3.1	18	78	0	76	26	8	14	50	1.72
591981--592009	2	14.5	2	100	0	58	0	0	48	51	1.00
592060--592145	23	3.6	23	83	11	118	37	11	18	32	1.87
596265--596386	56	2.2	56	91	4	192	18	17	15	48	1.82
598935--600445	437	3.4	438	91	2	2331	36	15	17	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607613--607687	16	4.9	14	93	3	60	49	20	30	0	1.49
607630--607687	4	14.5	4	100	0	116	50	24	25	0	1.50
609466--609642	87	2.0	87	95	0	318	39	16	13	29	1.88
612020--612048	15	1.9	15	100	0	58	93	0	6	0	0.36
616435--616490	2	28.0	2	96	0	103	1	48	0	50	1.11
624021--624060	9	4.4	9	87	0	62	25	30	20	25	1.99
624315--624359	21	2.1	21	95	0	81	35	11	26	26	1.90
624759--624808	4	12.8	4	82	4	66	0	42	26	32	1.56
624765--624811	12	3.9	12	88	0	76	0	40	25	34	1.56
626022--627266	166	7.5	166	85	4	1624	33	16	24	25	1.96
626022--627266	326	3.8	328	86	5	1568	33	16	24	25	1.96
629869--629909	11	3.6	11	83	3	55	24	7	14	53	1.66
631382--631413	13	2.3	15	89	10	50	28	15	9	46	1.77
632056--632091	11	3.3	11	92	0	54	47	19	11	22	1.80
635033--635061	14	2.1	14	100	0	58	86	0	13	0	0.58
635033--635065	14	2.2	16	89	10	52	84	0	15	0	0.61
637339--637400	2	31.0	2	96	0	115	51	0	48	0	1.00
643560--643651	21	4.4	21	83	5	114	23	16	20	39	1.92
643560--643651	42	2.2	42	90	0	139	23	16	20	39	1.92
643729--643887	21	7.7	21	78	4	171	35	21	14	28	1.93
643729--643896	41	4.0	41	83	6	187	35	20	13	30	1.91
643729--643884	62	2.5	61	81	2	168	35	21	14	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
643938--644025	21	4.2	21	97	1	160	25	13	20	40	1.89
644105--644198	21	4.5	21	77	5	82	38	17	15	28	1.90
645647--646295	65	10.1	64	89	3	927	23	24	18	32	1.97
651136--651181	2	23.0	2	100	0	92	50	0	50	0	1.00
651831--651874	19	2.3	19	88	0	61	40	9	50	0	1.34
651811--651840	2	15.0	2	100	0	60	50	0	50	0	1.00
656447--656482	18	2.0	18	94	0	63	16	22	36	25	1.94
659532--659623	43	2.1	43	95	0	166	39	19	18	22	1.93
661345--661393	1	49.0	1	83	0	62	91	2	0	6	0.47
661328--661381	15	3.2	17	82	15	60	85	1	1	11	0.76

Tables:   1   2   3   4