oyster.v9_M.fa.s53.2.7.7.80.10.50.500.2.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: scaffold82
Parameters: 2 7 7 80 10 50 500
Length:  1057086

Tables:   1   2   3   

This is table  2  of  3  ( 323 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)
481856--482495	166	3.9	163	81	7	628	35	18	22	23	1.96
482648--484011	134	10.3	134	80	4	1242	34	13	12	39	1.83
488389--488442	2	27.0	2	100	0	108	0	50	0	50	1.00
500511--500535	12	2.1	12	100	0	50	52	0	0	48	1.00
502181--502958	166	4.7	165	81	4	812	35	17	21	24	1.95
502209--502958	331	2.3	330	81	6	820	35	17	22	24	1.95
502969--504200	134	9.3	133	80	5	1043	34	13	12	39	1.82
502994--504204	402	3.0	399	81	3	1331	34	13	12	39	1.83
503924--504154	123	1.9	123	88	1	347	30	16	13	38	1.88
507249--507298	2	25.0	2	100	0	100	0	50	0	50	1.00
509817--509855	15	2.6	15	84	8	53	33	12	10	43	1.77
511173--511207	16	2.2	16	94	0	61	31	22	20	25	1.98
515164--515201	19	2.0	20	90	10	62	60	21	18	0	1.36
515244--515300	22	2.6	22	91	0	87	43	17	14	24	1.86
516060--516097	19	2.0	20	90	10	62	60	21	18	0	1.36
516140--516196	22	2.6	22	91	0	87	43	17	14	24	1.86
517223--517437	88	2.4	88	97	0	403	38	13	12	35	1.83
519905--519982	21	3.7	21	89	3	122	16	12	30	39	1.86
519917--519996	42	1.9	42	82	10	101	18	13	31	36	1.90
522573--522666	32	2.9	32	85	0	134	27	15	25	30	1.96
526446--526509	2	32.0	2	93	0	101	51	3	45	0	1.17
538602--538641	21	1.9	21	94	0	71	47	10	12	30	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545322--545687	48	7.6	48	83	7	268	36	15	25	22	1.93
545363--545687	96	3.4	95	81	9	401	36	14	25	23	1.93
545363--545627	144	1.8	144	89	3	417	36	14	25	23	1.93
545365--545669	144	2.1	144	85	6	404	36	14	26	22	1.93
545365--545707	144	2.4	140	79	12	347	35	14	25	23	1.94
550383--550417	17	2.0	18	94	5	63	34	14	0	51	1.42
551354--551722	180	2.0	180	91	3	591	36	18	15	29	1.92
556005--556060	21	2.7	21	85	0	76	14	39	14	32	1.86
568425--568487	23	2.8	22	75	13	65	34	6	14	44	1.70
576589--576675	30	2.9	30	87	3	104	34	19	21	24	1.96
580069--580101	16	2.1	16	100	0	66	45	12	18	24	1.83
580331--580366	8	4.5	8	85	0	54	33	25	38	2	1.70
580326--580366	16	2.6	16	92	0	64	34	24	39	2	1.69
586432--586564	69	1.9	69	87	3	196	39	11	10	38	1.76
591593--591659	7	9.6	7	83	0	89	35	14	22	26	1.93
594329--594357	4	7.2	4	100	0	58	0	24	24	51	1.48
594355--594398	2	22.0	2	100	0	88	0	50	0	50	1.00
594893--594959	7	9.6	7	76	0	71	25	20	14	38	1.91
594893--594959	21	3.2	21	80	0	80	25	20	14	38	1.91
603889--603946	2	31.0	2	85	13	79	0	46	0	53	1.00
605325--605404	21	3.8	21	79	0	88	38	15	20	26	1.91
605947--605993	21	2.2	21	88	0	67	21	17	19	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609934--610463	165	3.2	165	86	3	674	26	24	14	34	1.94
610257--610719	256	1.8	255	90	2	750	26	25	15	33	1.95
610462--610796	166	2.0	166	86	4	462	28	22	15	33	1.94
610969--611008	12	3.5	12	93	6	66	45	32	22	0	1.53
611206--611299	24	3.9	24	91	2	154	43	13	24	18	1.86
622647--622678	2	16.0	2	100	0	64	50	0	50	0	1.00
639714--639794	21	3.9	21	76	0	72	37	14	17	30	1.90
639875--640115	21	11.5	21	80	3	236	32	14	15	38	1.87
640142--640334	42	4.6	42	81	1	181	37	13	16	32	1.88
640142--640334	21	9.2	20	75	7	161	37	13	16	32	1.88
640402--640482	42	1.9	42	87	0	117	27	19	16	37	1.93
640400--640482	21	4.0	21	82	0	103	26	19	15	38	1.91
643656--643736	2	40.5	2	100	0	162	49	0	50	0	1.00
668251--668751	251	2.0	252	94	1	889	38	12	15	32	1.86
670789--670840	2	26.5	2	96	3	97	0	48	0	51	1.00
671988--672249	145	1.8	144	91	1	427	25	12	19	41	1.87
682219--682257	1	39.0	1	94	0	69	2	0	0	97	0.17
685173--685199	4	6.8	4	100	0	54	0	25	25	48	1.52
685479--685503	11	2.3	11	100	0	50	28	8	28	36	1.85
691513--691788	144	1.9	146	85	5	382	36	25	17	20	1.94
703536--704007	166	2.8	163	88	3	667	27	24	16	32	1.96
704176--704215	15	2.6	15	96	4	71	47	32	20	0	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
704857--704896	15	2.6	15	96	4	71	47	32	20	0	1.50
705537--705588	21	2.5	21	77	0	59	30	13	19	36	1.90
706517--706930	167	2.5	167	87	1	560	42	17	16	22	1.88
714387--714767	193	2.0	193	98	0	744	30	11	23	34	1.90
714836--715228	166	2.4	161	83	4	459	35	14	18	31	1.91
715263--715553	134	2.2	133	83	6	354	27	18	25	28	1.98
722003--722062	29	2.1	29	87	6	86	18	21	13	46	1.83
724365--724456	21	4.4	21	75	5	78	33	17	8	40	1.80
724365--724445	42	1.9	42	87	0	117	34	16	9	39	1.81
724364--724456	42	2.2	42	82	0	114	33	17	8	40	1.80
727573--727700	50	2.6	48	82	5	130	39	16	16	27	1.90
735363--735680	161	2.0	161	88	2	478	32	16	16	35	1.90
739782--739898	39	3.0	39	100	0	234	41	30	10	17	1.83
743039--743110	34	2.1	34	92	0	117	43	22	6	27	1.79
745263--745296	4	8.5	4	93	0	59	2	50	20	26	1.63
749034--749068	16	2.2	16	94	0	61	40	5	17	37	1.73
750693--750724	3	10.7	3	93	0	55	31	0	34	34	1.58
753044--753083	16	2.5	16	91	0	62	40	25	35	0	1.56
753052--753083	8	4.0	8	91	0	55	40	25	34	0	1.56
766215--766249	2	17.5	2	100	0	70	0	51	0	48	1.00
766379--766483	44	2.4	44	98	0	201	11	32	3	52	1.55
766557--766588	2	16.0	2	93	0	55	0	46	3	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
766730--766769	2	20.0	2	94	0	71	2	47	0	50	1.14
766860--766902	2	21.5	2	100	0	86	0	51	0	48	1.00
768302--768379	38	2.1	38	97	0	147	46	14	10	29	1.77
768581--768631	19	2.7	19	100	0	102	43	5	25	25	1.77
768631--768664	17	2.0	17	100	0	68	5	41	23	29	1.78
769371--769409	16	2.4	16	83	8	53	30	15	17	35	1.91
769995--770206	42	5.0	42	97	0	388	28	25	21	23	1.99
778294--778366	2	36.5	2	100	0	146	50	49	0	0	1.00
782526--782602	2	38.5	2	100	0	154	49	0	50	0	1.00
787107--787138	15	2.1	15	100	0	64	25	25	0	50	1.50
788447--788517	2	35.5	2	100	0	142	0	49	0	50	1.00
790952--790996	20	2.2	20	88	0	63	40	22	15	22	1.91
791205--791316	20	5.8	20	72	14	92	38	21	16	24	1.93
791203--791365	75	2.2	75	87	0	227	36	23	16	22	1.94
791428--791523	20	4.8	20	77	10	97	40	20	15	22	1.90
791346--791523	40	4.6	40	71	12	138	39	21	15	24	1.91
791248--791486	95	2.5	95	78	0	271	38	23	15	22	1.93
795373--795407	1	35.0	1	88	0	52	94	5	0	0	0.32
795375--795407	12	2.8	12	100	0	66	93	6	0	0	0.33
800999--801104	4	26.8	4	97	1	196	48	0	26	25	1.52
802505--802589	3	28.3	3	100	0	170	0	32	0	67	0.91
804273--804313	17	2.3	18	83	8	57	41	12	14	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
808355--808984	166	3.8	166	88	1	854	28	16	15	39	1.89
813500--813587	21	3.9	21	72	22	70	37	7	12	42	1.72
814017--814390	22	17.0	22	74	11	266	40	8	10	41	1.68
814033--814086	27	2.0	28	88	3	83	44	5	12	37	1.66
814017--814389	43	8.5	43	81	8	337	40	8	10	41	1.68
814061--814389	135	2.5	125	80	10	360	40	7	10	41	1.68
825034--825119	5	17.6	5	73	13	72	56	20	16	5	1.60
825170--825216	2	23.5	2	100	0	94	51	0	48	0	1.00
825553--825596	3	14.7	3	95	0	79	34	34	0	31	1.58
825685--825730	2	23.0	2	100	0	92	0	50	0	50	1.00

Tables:   1   2   3