oyster.v9_M.fa.s32.2.7.7.80.10.50.500.2.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: scaffold156
Parameters: 2 7 7 80 10 50 500
Length:  1175753

Tables:   1   2   3   

This is table  2  of  3  ( 333 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)
409055--409113	2	29.5	2	100	0	118	49	0	50	0	1.00
409338--410315	161	6.1	160	88	2	1442	35	20	14	29	1.92
422656--422747	39	2.5	38	86	10	120	44	16	16	22	1.86
424755--424966	49	4.3	49	94	0	352	23	32	15	29	1.95
425567--425736	69	2.5	67	83	8	211	28	20	14	37	1.91
425567--425736	33	5.0	34	79	6	184	28	20	14	37	1.91
425650--425823	88	2.0	89	90	3	280	27	18	16	37	1.93
425622--425850	122	1.9	122	87	5	338	27	18	16	37	1.92
425754--425850	34	2.9	34	87	3	133	25	18	17	38	1.93
427923--427947	1	25.0	1	100	0	50	0	0	100	0	0.00
431480--431537	2	29.0	2	96	0	107	51	0	48	0	1.00
432245--432274	14	2.1	15	93	6	53	23	10	20	46	1.80
434983--435053	2	35.5	2	100	0	142	50	0	49	0	1.00
437813--437843	2	15.5	2	100	0	62	0	48	0	51	1.00
440744--440785	2	21.0	2	100	0	84	0	50	0	50	1.00
441668--441695	14	2.0	14	100	0	56	28	7	7	57	1.52
450400--450452	2	26.5	2	100	0	106	49	0	50	0	1.00
462945--462987	1	43.0	1	95	0	77	0	97	0	2	0.16
463023--463047	11	2.3	11	100	0	50	28	16	8	48	1.74
467081--467152	2	37.5	2	91	8	123	47	0	52	0	1.00
468092--468116	5	5.0	5	100	0	50	40	20	0	40	1.52
468166--468206	18	2.3	18	86	0	55	56	21	2	19	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468273--468305	12	2.9	12	91	8	52	39	0	9	51	1.34
469871--470023	23	6.4	25	75	11	126	35	16	11	35	1.85
469905--470023	48	2.5	46	82	4	139	36	15	10	37	1.81
470317--470455	24	6.1	24	77	13	150	29	12	15	42	1.84
470317--470443	65	1.9	66	84	4	168	29	11	15	43	1.83
470320--470471	48	3.3	47	79	16	192	30	11	15	41	1.84
471907--471941	3	11.7	3	87	0	52	31	0	40	28	1.57
485916--485967	2	26.0	2	100	0	104	50	0	50	0	1.00
486297--486347	26	2.0	26	92	0	84	50	1	29	17	1.57
493656--493695	2	20.0	2	100	0	80	0	50	0	50	1.00
497267--497310	14	3.0	14	90	6	61	43	11	6	38	1.67
507079--507493	164	2.5	164	86	3	575	25	23	17	33	1.96
508210--508270	2	30.5	2	93	0	104	47	52	0	0	1.00
513055--513114	29	2.1	29	100	0	120	45	20	3	31	1.67
514210--514895	146	4.7	146	96	1	1232	28	22	20	29	1.98
514906--514940	4	8.8	4	87	0	52	31	25	42	0	1.55
514903--514941	12	3.2	12	85	0	60	35	25	38	0	1.56
520360--520394	18	1.9	18	94	0	61	54	8	28	8	1.60
525074--525099	11	2.4	11	100	0	52	26	7	26	38	1.83
525919--525965	14	3.4	14	91	5	69	34	23	12	29	1.92
534159--534189	2	15.5	2	100	0	62	51	0	0	48	1.00
538455--538518	20	3.2	20	68	4	67	32	18	10	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538430--538524	39	2.4	40	92	1	156	33	17	12	35	1.88
539123--539212	39	2.3	40	88	5	130	36	11	16	35	1.84
539123--539212	20	4.5	20	71	15	71	36	11	16	35	1.84
539436--539485	20	2.5	20	84	12	59	38	12	12	38	1.80
539436--539531	21	4.7	20	78	15	81	37	12	12	37	1.81
541204--541255	20	2.6	20	93	0	95	38	9	9	42	1.70
542008--542078	29	2.5	29	95	2	126	30	26	15	26	1.96
544420--544822	200	2.0	200	100	0	806	33	14	18	33	1.91
546203--546237	15	2.3	15	95	0	61	60	5	0	34	1.21
551570--551912	28	12.2	28	76	9	315	16	23	20	38	1.92
551518--551914	56	7.1	56	74	6	322	17	22	21	39	1.92
551520--551912	83	4.7	83	75	9	264	17	22	20	39	1.92
555200--555371	56	3.0	56	84	9	231	33	14	13	38	1.86
555900--555955	21	2.6	22	81	16	64	48	25	12	14	1.78
556890--556949	21	2.9	21	79	18	63	15	13	25	46	1.81
558405--558429	1	25.0	1	100	0	50	0	100	0	0	0.00
559737--559836	44	2.2	46	84	8	125	17	15	13	55	1.70
571203--571433	62	3.7	62	92	2	374	29	29	16	25	1.96
587224--587258	13	2.7	13	95	0	61	60	2	0	37	1.12
589773--589824	25	2.1	25	100	0	104	36	11	21	30	1.89
590894--590919	13	2.0	13	100	0	52	30	30	15	23	1.95
599875--599931	28	2.0	28	93	0	96	31	8	26	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610585--610894	107	2.9	107	84	4	428	24	24	24	25	2.00
612044--612119	2	38.0	2	94	0	134	48	0	48	2	1.15
613624--613665	2	21.0	2	100	0	84	50	0	50	0	1.00
617093--617125	2	16.5	2	100	0	66	48	0	51	0	1.00
632600--632624	1	25.0	1	100	0	50	0	100	0	0	0.00
633233--633299	12	5.6	12	90	0	62	25	32	8	32	1.87
633256--633304	3	16.3	3	100	0	98	32	32	0	34	1.58
634006--634059	4	13.5	4	100	0	108	75	0	0	24	0.80
634171--634219	2	24.5	2	82	0	62	53	2	42	2	1.24
639668--639722	2	27.5	2	96	0	101	50	0	47	1	1.11
642839--642909	35	2.0	35	97	0	133	32	11	26	29	1.91
642999--643067	35	2.0	35	94	0	120	26	18	20	34	1.96
649445--649490	2	23.0	2	100	0	92	50	0	50	0	1.00
655802--655840	2	19.5	2	100	0	78	48	0	51	0	1.00
656448--657168	180	4.0	180	96	0	1327	37	17	16	29	1.91
659234--659266	2	16.5	2	100	0	66	0	51	0	48	1.00
667609--667747	66	2.1	68	91	4	228	33	19	7	40	1.79
675831--675855	11	2.3	11	100	0	50	52	8	8	32	1.60
680176--680594	47	8.8	47	89	3	608	39	12	15	31	1.86
680164--680594	143	3.0	141	89	5	625	38	12	16	32	1.86
680176--680594	190	2.2	189	95	1	750	39	12	15	31	1.86
689740--690777	298	3.6	296	94	3	1735	30	21	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
705810--705839	11	2.7	11	94	0	51	26	30	10	33	1.89
706210--706254	2	22.5	2	100	0	90	0	48	0	51	1.00
706471--706697	111	2.0	112	94	0	402	32	19	17	30	1.95
730434--730500	5	13.4	5	76	14	50	41	0	13	44	1.43
733150--733536	198	1.9	199	94	0	686	29	18	17	34	1.94
735764--735799	8	4.5	8	85	0	54	33	25	36	5	1.79
738680--739228	273	2.0	267	94	2	956	41	14	9	34	1.78
768016--768052	16	2.2	17	90	4	58	13	0	16	70	1.17
769261--769300	20	2.0	20	90	0	62	37	25	10	27	1.88
769258--769308	20	2.7	19	79	8	59	39	21	11	27	1.88
769277--769374	20	4.9	21	69	15	55	31	16	14	37	1.88
769592--769900	169	1.8	170	90	2	496	35	18	16	30	1.92
772289--772375	42	2.0	43	95	2	158	41	28	9	20	1.83
776787--777006	111	2.0	112	95	0	397	28	17	17	36	1.92
787720--787959	115	2.0	118	88	7	353	35	11	10	42	1.76
790236--790266	16	1.9	16	100	0	62	19	19	16	45	1.86
814699--814767	29	2.4	29	77	0	84	23	18	30	27	1.98
814773--814851	29	2.7	29	78	0	95	25	16	25	32	1.96
815016--816153	29	39.2	29	97	0	2168	14	17	34	34	1.90
819010--819084	38	2.0	38	84	5	98	44	6	14	34	1.72
823527--823619	11	7.7	11	69	21	62	38	10	16	34	1.83
827647--827682	2	18.0	2	100	0	72	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
831224--831265	3	14.0	3	94	0	66	38	0	28	33	1.58
852970--853004	17	2.1	17	94	0	61	14	0	2	82	0.77
860452--860507	2	28.0	2	100	0	112	0	50	0	50	1.00
862350--862387	2	19.0	2	94	0	67	0	47	0	52	1.00
873271--873301	13	2.4	13	94	0	53	3	12	0	83	0.75
874417--874443	1	27.0	1	100	0	54	0	100	0	0	0.00
880787--880837	3	17.0	3	87	0	75	60	0	3	35	1.15
880787--880837	12	4.2	12	94	0	84	60	0	3	35	1.15
881519--881580	2	31.0	2	100	0	124	0	50	0	50	1.00
888427--888479	2	26.5	2	100	0	106	0	49	0	50	1.00

Tables:   1   2   3