oyster.v9_M.fa.s54.2.7.7.80.10.50.500.2.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: scaffold885
Parameters: 2 7 7 80 10 50 500
Length:  1053811

Tables:   1   2   3   

This is table  2  of  3  ( 264 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)
517657--517689	16	2.1	16	100	0	66	36	24	39	0	1.56
518670--518715	7	6.4	7	95	5	83	0	28	41	30	1.56
518670--518715	22	2.1	21	96	4	83	0	28	41	30	1.56
518920--519841	168	5.5	168	90	3	1347	31	19	18	30	1.96
518928--519841	335	2.7	334	88	4	1333	31	19	18	30	1.96
524600--524629	14	2.1	14	93	0	51	56	10	20	13	1.65
527549--527601	2	26.5	2	100	0	106	0	49	0	50	1.00
529111--529148	2	19.0	2	100	0	76	0	50	0	50	1.00
532209--532268	22	2.7	22	77	10	68	40	16	8	35	1.79
532920--532948	10	3.0	10	95	5	51	62	6	10	20	1.50
540911--540986	4	19.0	4	83	0	71	59	2	38	0	1.12
540911--540986	14	5.6	14	82	6	93	59	2	38	0	1.12
540912--540986	10	7.7	10	78	11	68	60	2	37	0	1.11
546473--546563	30	3.0	30	96	0	164	25	26	25	23	2.00
546687--546868	90	2.0	90	100	0	364	34	19	12	34	1.89
553096--553246	76	2.0	76	94	0	266	32	17	8	41	1.80
571762--571817	3	18.7	3	96	0	103	33	0	0	66	0.92
572091--572159	7	9.9	7	80	0	84	37	14	21	26	1.92
573349--573487	21	6.7	21	87	2	192	58	7	7	25	1.53
573349--573487	41	3.4	41	88	3	199	58	7	7	25	1.53
573348--573482	62	2.2	62	93	2	227	57	8	8	25	1.55
576783--576810	13	2.2	13	100	0	56	14	0	25	60	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581121--582657	333	4.6	329	86	5	2019	25	25	15	32	1.96
581121--582657	165	9.2	165	86	5	1981	25	25	15	32	1.96
581121--582623	496	3.0	490	86	5	2056	25	26	15	32	1.96
582819--582848	8	3.8	8	90	0	51	33	26	40	0	1.57
582819--582849	16	1.9	16	100	0	62	32	25	41	0	1.56
585311--585845	169	3.1	174	82	7	631	23	17	25	34	1.96
587654--587684	15	2.1	15	93	0	53	45	3	6	45	1.45
587784--587822	10	3.9	10	86	0	51	46	15	2	35	1.60
588546--588577	16	2.0	16	100	0	64	50	18	12	18	1.78
588843--588877	15	2.3	15	90	9	54	85	14	0	0	0.59
588846--588870	13	1.9	13	100	0	50	88	12	0	0	0.53
591369--591417	6	8.3	6	84	11	66	2	18	30	48	1.59
591742--593405	166	10.2	165	82	7	1829	33	15	22	28	1.94
592247--593039	163	5.0	153	84	6	930	33	15	23	27	1.94
592396--593377	163	6.1	163	79	8	983	33	15	22	28	1.94
591593--593161	482	3.2	479	88	4	2173	33	15	23	27	1.95
594237--594751	260	2.0	252	87	5	730	30	20	16	32	1.95
607238--607275	16	2.4	17	82	13	53	63	0	7	28	1.23
609809--611048	335	3.7	335	86	1	1585	30	18	19	31	1.95
609809--611052	168	7.4	168	88	1	1582	30	18	19	31	1.95
613412--613492	41	2.0	41	92	0	135	48	14	9	27	1.76
613756--613801	2	23.0	2	100	0	92	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)
616212--616276	31	2.1	31	97	0	121	29	0	24	46	1.53
621669--621723	2	27.5	2	100	0	110	0	50	0	49	1.00
626417--626465	17	2.9	17	96	0	89	42	12	8	36	1.72
633578--633610	17	1.9	17	100	0	66	27	18	30	24	1.98
634575--634639	2	32.5	2	96	0	121	1	47	0	50	1.10
644840--644868	14	2.1	14	100	0	58	13	44	0	41	1.44
645613--645858	117	2.1	116	81	6	282	34	14	18	32	1.91
645570--645871	116	2.6	117	81	4	333	32	13	19	34	1.91
647908--647933	12	2.2	12	100	0	52	42	7	15	34	1.75
655565--655613	2	24.5	2	100	0	98	51	0	48	0	1.00
681631--681674	21	2.1	21	91	0	70	29	6	6	56	1.51
685680--685734	26	2.1	26	96	0	101	29	9	10	50	1.68
689562--689599	17	2.2	17	86	9	51	10	10	0	78	0.95
693414--693457	18	2.5	17	82	10	52	13	0	11	75	1.06
706167--706218	26	2.0	26	92	0	86	46	7	11	34	1.69
709089--709509	180	2.3	180	98	0	806	30	15	17	36	1.91
714803--714844	19	2.3	19	92	8	70	21	7	9	61	1.50
716868--716893	12	2.2	12	100	0	52	42	7	0	50	1.31
722679--722735	28	2.0	28	83	6	71	42	10	10	36	1.74
723717--723763	12	4.1	12	81	10	53	36	4	19	40	1.71
732270--732320	2	25.5	2	100	0	102	50	0	49	0	1.00
732762--732816	2	27.5	2	100	0	110	50	0	49	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
734425--734467	9	4.8	9	82	8	52	44	23	11	20	1.84
742010--742034	12	2.1	12	100	0	50	60	16	8	16	1.58
742380--742409	15	2.0	15	100	0	60	33	13	26	26	1.93
763486--763764	39	7.1	39	87	8	404	26	22	18	31	1.98
763642--763764	45	2.9	44	89	8	175	26	21	19	31	1.97
768198--768225	1	28.0	1	100	0	56	0	0	0	100	0.00
769915--769949	13	2.7	13	90	0	52	25	2	14	57	1.51
770216--770245	2	15.0	2	100	0	60	50	0	50	0	1.00
771219--771276	31	1.9	30	83	13	75	48	1	0	50	1.11
771454--771610	21	7.7	20	84	5	190	26	12	24	36	1.91
771459--771615	61	2.5	62	90	2	262	28	12	24	35	1.91
771455--771610	41	3.8	41	82	2	188	26	12	24	35	1.92
776487--776521	13	2.7	13	90	0	52	25	2	14	57	1.51
776788--776817	2	15.0	2	100	0	60	50	0	50	0	1.00
779104--779140	1	37.0	1	100	0	74	0	0	100	0	0.00
782115--782149	2	17.5	2	100	0	70	0	48	0	51	1.00
783997--784031	1	35.0	1	100	0	70	100	0	0	0	0.00
796942--796987	19	2.4	19	77	0	56	23	26	21	28	1.99
800986--801253	92	2.8	92	92	5	421	41	11	12	33	1.79
803340--803400	14	4.4	14	83	2	61	50	13	36	0	1.41
805413--805441	12	2.4	12	100	0	58	13	65	6	13	1.45
805549--805579	15	2.1	15	93	0	53	25	9	35	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
807118--807181	2	32.0	2	100	0	128	0	50	0	50	1.00
821728--821788	2	30.5	2	100	0	122	50	0	49	0	1.00
822882--823114	27	8.4	27	73	11	177	31	34	8	25	1.85
822912--822986	35	2.1	34	85	4	96	32	37	6	24	1.81
822945--823114	53	3.2	52	78	9	164	31	31	8	27	1.87
826792--826835	3	14.7	3	100	0	88	65	0	34	0	0.93
826833--826882	2	25.0	2	100	0	100	50	0	50	0	1.00
834914--834991	2	39.5	2	85	12	108	51	1	44	2	1.23
838215--838268	26	2.1	26	92	0	90	44	35	3	16	1.66
838191--838382	76	2.8	64	78	17	240	44	32	3	19	1.68
838241--838391	38	4.0	38	97	0	284	45	31	3	19	1.67
838684--838756	29	2.5	29	86	0	101	56	23	2	17	1.54
841678--841861	92	2.0	91	93	3	316	30	15	13	40	1.85
844639--844674	19	2.0	19	89	10	58	27	11	11	50	1.72
845551--845683	33	4.0	33	95	0	221	42	16	12	28	1.85
845770--845803	12	2.8	12	86	0	50	29	47	20	2	1.65
848869--848909	21	1.9	21	85	5	55	36	7	9	46	1.65
855369--855470	2	52.0	2	90	3	163	0	48	0	51	1.00
864030--864060	16	1.9	16	93	0	53	25	19	12	41	1.87
870075--870128	4	13.5	4	92	0	90	25	1	0	72	0.95
877395--877456	29	2.1	29	90	0	97	46	12	9	30	1.74
877744--877768	13	1.9	13	100	0	50	48	8	8	36	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
879090--879153	31	2.1	31	96	0	119	39	10	23	26	1.88
884857--885057	90	2.2	90	83	1	242	28	30	21	19	1.97
890833--891901	438	2.4	435	87	5	1518	30	16	16	37	1.91
920774--920811	19	2.0	19	94	0	67	60	18	10	10	1.57
922202--922235	14	2.4	14	95	0	59	26	2	0	70	1.01
924320--924397	29	2.8	28	74	3	77	25	11	33	29	1.91
924325--924370	23	2.0	24	86	4	67	26	8	32	32	1.87
924207--924432	118	1.9	119	88	3	348	25	9	33	31	1.88
924503--924541	18	2.2	18	85	0	51	23	2	38	35	1.68
961528--961560	15	2.1	17	88	11	52	39	30	15	15	1.88

Tables:   1   2   3