oyster.v9_M.fa.s2.2.7.7.80.10.50.500.2.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: scaffold1009
Parameters: 2 7 7 80 10 50 500
Length:  1861391

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 553 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)
441739--441780	11	3.6	11	90	6	57	11	16	28	42	1.84
441790--441840	11	4.5	11	78	14	50	47	27	17	7	1.75
441790--441841	22	2.2	24	87	12	74	46	26	19	7	1.77
441899--441944	22	2.1	22	83	0	56	45	28	13	13	1.80
468041--468073	16	2.1	16	100	0	66	21	6	18	54	1.64
469796--469850	18	3.4	18	68	31	61	43	27	3	25	1.71
469749--469868	29	4.1	29	95	0	204	44	28	5	22	1.74
476387--476731	44	7.8	44	92	1	548	31	27	19	21	1.97
476387--476731	178	1.9	177	93	1	593	31	27	19	21	1.97
477759--477783	12	2.1	12	100	0	50	16	0	24	60	1.36
479529--479885	179	2.0	178	100	0	705	25	26	22	25	2.00
491464--491518	2	27.5	2	100	0	110	49	50	0	0	1.00
494003--494042	19	2.1	19	86	9	55	27	12	20	40	1.88
496210--496254	20	2.2	20	92	0	72	46	35	2	15	1.58
496288--496347	30	2.0	30	96	0	111	38	30	13	18	1.89
496329--496371	20	2.1	20	95	0	77	34	39	13	11	1.82
497174--497278	37	2.8	37	95	0	192	17	6	41	34	1.75
499034--499079	24	1.9	23	91	8	74	30	17	4	47	1.67
510770--510808	11	3.5	11	78	0	51	41	10	23	25	1.86
510908--510944	19	1.9	19	100	0	74	54	5	29	10	1.57
515249--515274	7	3.7	7	100	0	52	11	0	30	57	1.34
517031--517082	2	26.0	2	92	0	86	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)
517511--517565	18	3.1	17	87	7	74	32	16	12	38	1.86
517511--517576	18	3.8	17	82	9	71	30	16	10	42	1.82
517697--517742	9	5.3	9	79	10	60	15	17	19	47	1.82
517696--517746	16	3.1	16	82	5	66	19	15	19	45	1.86
522418--523211	165	4.8	166	90	2	1218	38	15	17	28	1.90
522418--523211	332	2.4	331	91	1	1279	38	15	17	28	1.90
523236--523285	4	12.5	4	91	0	55	36	26	38	0	1.57
523236--523293	20	2.9	20	94	0	107	37	25	36	0	1.57
523243--523294	24	2.2	24	96	0	95	40	25	34	0	1.56
523236--523277	16	2.6	16	96	0	75	38	26	35	0	1.57
523243--523294	4	13.0	4	91	0	59	40	25	34	0	1.56
523905--523939	18	1.9	18	94	0	61	68	14	8	8	1.38
527653--527687	17	2.1	16	89	5	52	20	37	17	25	1.94
529154--529190	16	2.2	17	86	13	51	72	2	8	16	1.19
529589--529644	19	2.9	19	86	2	76	48	25	12	14	1.78
530343--530971	166	3.8	167	89	0	947	27	16	16	39	1.90
531790--531820	2	16.0	2	93	6	55	48	0	51	0	1.00
532116--532146	12	2.6	12	100	0	62	0	41	25	32	1.56
533831--533971	21	6.7	21	75	0	129	40	17	24	17	1.90
533847--533951	42	2.5	42	93	0	183	40	20	22	17	1.92
534668--534706	16	2.4	16	86	0	51	35	48	7	7	1.61
535156--535198	16	2.7	16	77	0	50	13	9	44	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535492--535625	21	6.4	21	72	10	94	39	16	23	20	1.92
535502--535605	42	2.5	42	87	3	156	39	18	22	20	1.92
545928--545979	5	10.2	5	79	4	59	3	17	21	57	1.55
551306--551338	16	2.1	16	94	0	57	15	6	15	63	1.49
556914--556954	13	3.2	13	80	12	50	70	19	0	9	1.14
556940--556974	19	1.9	17	88	11	52	77	14	2	5	1.07
577939--577999	31	2.0	31	100	0	122	44	9	29	16	1.80
580962--580998	18	2.1	18	100	0	74	40	10	27	21	1.86
581589--581616	14	2.0	14	100	0	56	28	35	14	21	1.92
588072--588127	21	2.7	21	75	5	60	37	8	14	39	1.77
609952--610276	166	2.0	166	94	0	578	33	16	24	25	1.96
612565--612599	16	2.3	15	85	9	52	42	14	5	37	1.69
612571--612602	16	2.0	16	100	0	64	37	18	6	37	1.76
614480--615136	328	2.0	327	99	0	1305	33	14	16	35	1.90
615206--615573	37	9.9	37	92	0	556	36	14	22	26	1.93
621554--622128	162	3.6	161	77	6	622	38	16	13	31	1.87
622220--622251	2	16.0	2	100	0	64	50	0	50	0	1.00
627711--627780	21	3.3	21	66	6	61	21	20	24	34	1.97
630372--630701	31	10.6	31	72	8	213	47	30	7	14	1.72
630378--630701	63	5.2	60	74	12	219	47	30	7	14	1.72
631014--631060	21	2.2	21	96	0	85	31	10	23	34	1.89
642209--642377	46	3.7	45	75	7	169	20	27	13	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642206--642377	23	7.5	22	75	7	119	20	27	13	38	1.90
642419--642454	16	2.3	16	90	4	56	19	27	13	38	1.90
642428--642719	23	12.8	23	85	3	331	20	26	13	39	1.90
642999--643029	16	1.9	16	93	0	53	22	32	6	38	1.80
643086--643121	15	2.3	16	95	4	65	19	30	8	41	1.81
643101--643180	36	2.2	36	97	0	151	25	22	8	43	1.81
643199--643244	22	2.0	23	87	4	67	19	30	8	41	1.82
643219--643254	15	2.3	16	95	4	65	19	30	8	41	1.81
643004--643526	133	3.8	133	80	10	604	23	24	8	43	1.81
643101--643419	169	1.9	162	92	4	539	24	23	7	44	1.80
643231--643400	72	2.3	75	87	7	242	25	21	7	45	1.78
643234--643349	36	3.2	36	100	0	232	24	22	8	44	1.80
643378--643416	15	2.5	15	91	4	60	23	28	5	43	1.75
643400--643452	23	2.3	23	86	0	70	20	32	9	37	1.85
643309--643503	59	3.4	58	68	14	161	23	24	7	44	1.79
643481--643548	22	3.0	22	97	2	127	22	26	8	42	1.82
652291--652960	163	4.1	161	85	3	828	30	13	20	35	1.92
676218--676246	1	29.0	1	100	0	58	0	0	0	100	0.00
684264--684341	2	40.0	2	92	5	133	51	0	48	0	1.00
688481--688576	48	2.0	48	81	4	113	44	22	7	25	1.78
689191--689564	35	10.6	33	79	13	324	38	28	8	24	1.85
689191--689564	70	5.3	70	79	9	418	38	28	8	24	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
689134--689488	178	2.0	177	100	0	701	40	27	9	23	1.85
690102--690822	35	20.5	35	79	9	682	34	29	7	28	1.85
690147--690822	179	3.8	179	78	11	554	34	29	7	28	1.86
690112--690710	214	2.9	209	83	8	690	34	29	8	28	1.86
690108--690822	132	5.1	134	75	12	444	34	29	7	28	1.85
693800--693838	19	2.1	19	95	0	69	48	12	10	28	1.74
694737--694843	52	2.1	52	87	3	153	36	5	15	42	1.71
696603--696636	17	2.1	17	89	10	54	38	0	23	38	1.55
700659--700697	2	19.5	2	100	0	78	51	0	48	0	1.00
703852--703917	32	2.1	32	88	0	96	33	27	15	24	1.95
704875--704948	34	2.2	34	95	0	130	44	6	13	35	1.70
705596--705665	35	2.0	35	94	0	122	27	8	20	44	1.80
707497--707604	34	3.2	34	98	0	207	45	6	13	34	1.70
708247--708351	35	3.0	35	94	0	183	26	8	21	42	1.82
710954--711176	32	7.0	32	96	2	403	14	14	27	43	1.84
714498--714543	6	8.0	6	83	9	60	13	0	47	39	1.42
714498--714543	11	4.0	12	77	11	60	13	0	47	39	1.42
714498--714543	17	2.7	17	86	10	67	13	0	47	39	1.42
716328--716691	34	10.6	34	85	5	457	29	18	16	35	1.94
716328--716691	142	2.6	136	85	5	475	29	18	16	35	1.94
729673--729763	33	2.8	33	88	3	130	30	14	18	36	1.91
732193--732372	70	2.6	70	84	1	245	28	19	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
732352--732389	17	2.2	17	90	0	58	10	13	26	50	1.73
732415--732585	94	1.8	94	88	0	261	31	19	16	32	1.94
732499--733342	71	12.0	70	83	4	862	29	17	18	34	1.93
732499--735337	142	19.9	142	71	14	1589	29	16	18	35	1.93
732499--735337	213	13.3	213	76	9	2354	29	16	18	35	1.93
733261--733426	84	2.0	84	86	2	235	30	16	19	33	1.94
733344--734510	71	16.2	71	73	12	470	28	17	18	35	1.94
733601--733642	17	2.5	17	92	3	68	11	9	23	54	1.66
733535--733713	87	2.0	87	82	5	218	23	16	18	41	1.90
734336--734510	70	2.5	71	86	2	228	25	16	20	38	1.92

Tables:   1   2   3   4   5