oyster.v9_M.fa.s60.2.7.7.80.10.50.500.2.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: scaffold146
Parameters: 2 7 7 80 10 50 500
Length:  1000955

Tables:   1   2   3   

This is table  2  of  3  ( 254 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)
538952--539083	26	5.1	26	89	0	174	23	19	15	40	1.90
538848--539044	93	2.1	92	84	2	252	22	16	15	45	1.85
538956--539099	26	5.5	26	85	5	139	24	18	13	43	1.87
538952--539099	52	2.8	50	82	9	161	23	18	14	42	1.88
538952--539104	78	1.9	80	83	7	197	24	18	14	41	1.88
541681--541715	16	2.2	16	94	0	61	25	25	22	25	2.00
542089--542127	10	3.9	10	86	0	51	35	2	15	46	1.60
543130--543163	16	2.1	16	94	0	59	26	29	5	38	1.80
545925--546344	178	2.5	168	76	11	436	34	25	16	24	1.95
546026--546377	178	2.0	177	84	3	467	34	23	17	25	1.96
554278--554341	31	2.1	31	96	0	119	32	9	15	42	1.79
555298--555420	34	3.6	34	76	2	138	36	21	19	22	1.95
555304--555434	69	1.9	68	85	1	165	39	19	20	20	1.92
555490--555552	33	1.9	33	90	0	99	57	11	3	28	1.49
556595--556629	14	2.5	14	85	0	52	45	11	0	42	1.40
556818--556874	27	2.1	27	83	0	69	45	10	10	33	1.73
558563--559361	177	4.5	176	81	4	903	35	24	16	24	1.95
558558--559342	353	2.2	353	87	2	1094	35	24	15	23	1.94
560346--560381	17	2.1	17	89	0	54	50	13	36	0	1.43
560335--560371	12	3.1	12	92	0	65	43	16	40	0	1.48
563463--563487	5	5.0	5	100	0	50	40	0	40	20	1.52
573555--573595	21	2.0	21	90	4	66	9	14	31	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576697--576746	11	4.6	11	82	2	66	2	0	18	80	0.82
576697--576746	21	2.3	21	82	3	64	2	0	18	80	0.82
576586--576903	171	1.9	170	100	0	627	15	5	20	58	1.56
580528--580576	21	2.3	21	96	0	89	24	2	30	42	1.66
593933--593963	15	2.1	15	94	5	55	6	0	9	83	0.79
613775--613853	4	19.8	4	94	0	77	50	0	11	37	1.38
613775--613851	12	6.4	12	90	0	91	50	0	11	37	1.39
614349--614807	172	2.8	166	85	4	597	25	25	16	32	1.96
616127--616172	12	3.9	12	88	2	67	36	26	36	0	1.57
616130--616171	4	10.8	4	84	5	50	33	26	40	0	1.56
619152--619190	2	20.0	2	89	5	62	0	46	0	53	1.00
632223--632268	22	2.0	23	83	8	58	13	19	28	39	1.89
635117--635143	14	1.9	14	100	0	54	37	7	33	22	1.82
637874--638000	37	3.4	36	79	8	139	36	16	23	23	1.94
643217--643251	17	2.1	17	100	0	70	22	5	28	42	1.76
646532--646571	2	20.0	2	94	0	71	50	0	47	2	1.14
650095--650140	21	2.2	21	84	7	58	32	26	32	8	1.87
650572--650607	18	2.0	18	88	0	54	36	8	2	52	1.46
659360--659435	12	6.3	12	93	0	125	28	3	40	26	1.74
659360--659435	36	2.1	36	97	0	143	28	3	40	26	1.74
659367--659447	24	3.4	24	83	6	101	29	4	39	25	1.77
661788--661843	2	29.0	2	87	7	80	51	0	46	1	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
662983--663085	21	4.8	21	72	17	86	26	33	8	32	1.87
662982--663110	65	2.0	65	92	3	215	26	33	9	31	1.88
663154--663228	29	2.6	29	93	2	134	24	22	30	22	1.99
675155--675198	2	22.0	2	100	0	88	50	0	50	0	1.00
679557--679597	19	2.2	19	86	0	55	21	21	21	34	1.97
682438--682493	2	28.0	2	96	0	103	0	51	0	48	1.00
687974--688017	2	22.0	2	100	0	88	50	0	50	0	1.00
699737--699774	2	19.0	2	100	0	76	0	50	0	50	1.00
709286--709325	20	2.0	20	95	0	71	47	10	17	25	1.78
709789--710034	18	13.6	18	78	4	219	28	21	16	33	1.95
722553--722590	18	2.1	19	85	5	51	39	26	2	31	1.70
724033--724083	2	25.5	2	100	0	102	50	0	49	0	1.00
726406--726444	19	2.1	19	100	0	78	28	10	20	41	1.85
733355--733391	12	3.2	12	82	17	51	27	32	0	40	1.57
735632--735730	21	4.7	21	79	7	103	39	16	12	32	1.85
735632--735736	42	2.5	42	85	3	131	39	17	11	32	1.85
738550--738593	3	14.7	3	95	0	79	36	31	0	31	1.58
742132--742186	21	2.6	21	88	0	74	18	21	9	50	1.74
744529--744579	2	25.5	2	87	0	75	0	45	0	54	0.99
744529--744579	14	3.6	14	94	0	84	0	45	0	54	0.99
757744--757772	15	1.9	15	100	0	58	31	6	13	48	1.69
761674--761709	2	17.5	2	94	5	63	47	0	0	50	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
764776--764852	2	38.5	2	100	0	154	49	0	50	0	1.00
765495--765904	173	2.4	167	80	6	436	33	15	21	29	1.94
779395--779446	1	52.0	1	92	0	77	5	94	0	0	0.32
779395--779450	20	3.0	19	90	10	89	8	91	0	0	0.43
779407--779453	24	2.0	24	91	0	76	14	85	0	0	0.61
779405--779455	26	2.0	26	88	0	75	15	84	0	0	0.63
779403--779457	28	2.0	28	85	0	74	16	83	0	0	0.64
781229--781327	33	3.2	33	67	26	97	32	21	14	32	1.93
781179--781367	60	3.4	55	79	11	199	31	19	14	34	1.92
782511--782540	15	2.0	15	93	0	51	50	6	6	36	1.55
793656--793753	26	3.8	26	83	0	115	24	20	29	25	1.99
793684--793918	26	8.8	26	75	8	150	26	19	24	29	1.98
798046--798127	24	3.4	24	91	0	137	43	25	9	20	1.82
799891--799969	4	19.8	4	84	0	95	3	44	21	30	1.70
830119--830151	17	1.9	17	100	0	66	30	24	21	24	1.99
833284--833318	14	2.5	14	90	0	52	25	11	28	34	1.91
834738--834781	2	22.0	2	100	0	88	50	50	0	0	1.00
837124--837158	2	17.5	2	100	0	70	0	51	0	48	1.00
843790--844147	27	13.2	27	86	2	475	43	18	18	18	1.88
846336--846373	20	1.9	20	94	0	67	31	5	28	34	1.80
853208--853265	2	30.5	2	86	10	86	48	1	50	0	1.11
853208--853265	13	4.4	13	85	10	82	48	1	50	0	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
853210--853265	15	3.9	15	86	9	89	48	1	50	0	1.11
855185--855216	9	3.4	9	91	8	55	0	0	12	87	0.54
855369--855436	32	2.1	32	94	0	118	30	16	8	44	1.78
855837--855869	16	2.1	16	100	0	66	39	24	6	30	1.79
856346--856371	1	26.0	1	100	0	52	0	100	0	0	0.00
863784--863827	21	2.1	21	100	0	88	18	29	18	34	1.94
869804--869833	11	2.7	11	94	0	51	66	33	0	0	0.92
869803--869837	12	2.8	12	86	4	52	65	34	0	0	0.93
886207--887755	36	43.5	36	90	2	2306	47	18	13	20	1.82
886208--887755	71	21.7	71	94	1	2309	47	18	13	20	1.82
897006--897135	65	2.0	65	93	3	226	37	10	11	40	1.77
901143--901277	44	3.1	44	98	0	261	26	9	22	40	1.85
902986--903259	42	6.5	42	86	8	362	24	5	27	43	1.75
902962--903259	22	14.1	22	87	5	377	24	5	27	43	1.76
902962--903259	84	3.5	84	92	0	452	24	5	27	43	1.76
910157--910196	18	2.2	18	86	0	53	37	10	25	27	1.88
912766--914259	166	9.0	165	83	5	1645	34	15	22	27	1.94
912766--914259	340	4.5	330	84	6	1713	34	15	22	27	1.94
919690--920579	150	5.9	150	93	1	1388	16	19	37	26	1.93
920978--921693	150	4.8	150	95	0	1218	16	20	35	27	1.94
922878--922903	1	26.0	1	100	0	52	0	100	0	0	0.00
922906--922932	2	13.5	2	100	0	54	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
924248--924278	16	1.9	16	93	0	53	80	19	0	0	0.71
928872--928912	15	2.7	15	88	0	64	14	9	0	75	1.04
928891--928920	9	3.3	9	90	0	51	20	10	0	70	1.16
938734--939180	134	3.3	134	83	2	565	39	12	13	34	1.82
939004--939359	180	2.0	179	80	3	394	40	12	12	33	1.81
938736--939578	448	1.9	447	83	2	1104	40	11	12	35	1.79
939189--939660	134	3.5	133	82	3	565	40	10	11	37	1.75
939690--940314	166	3.8	166	90	0	912	23	22	18	35	1.96
940532--940747	63	3.5	63	79	9	273	45	16	20	17	1.86
940505--940751	123	2.0	124	91	0	397	47	14	19	17	1.82

Tables:   1   2   3