oyster.v9_M.fa.s35.2.7.7.80.10.50.500.2.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: scaffold1836
Parameters: 2 7 7 80 10 50 500
Length:  1164857

Tables:   1   2   3   4   

This is table  2  of  4  ( 374 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)
446155--446208	4	13.8	4	84	3	74	0	42	25	31	1.55
448197--448580	49	7.8	49	93	0	615	23	18	32	25	1.97
449623--449718	49	2.0	49	93	0	165	22	16	36	23	1.94
451920--452019	39	2.5	40	90	3	157	27	13	10	50	1.72
458716--458784	2	35.5	2	85	5	79	4	42	2	50	1.37
460778--460814	11	3.4	11	92	7	58	40	2	8	48	1.47
461080--461104	13	1.9	13	100	0	50	0	8	0	92	0.40
467061--467087	2	13.5	2	100	0	54	51	0	48	0	1.00
472911--473128	106	2.1	106	100	0	436	29	18	14	37	1.91
483799--483827	14	2.0	15	93	6	51	41	0	6	51	1.28
485226--485277	2	26.0	2	100	0	104	50	0	50	0	1.00
486411--486786	42	9.1	42	72	10	215	19	19	17	43	1.88
486411--486789	84	4.6	83	73	7	260	18	20	17	43	1.88
490529--490605	36	2.1	36	90	4	120	10	24	10	54	1.65
498481--498511	15	2.1	15	93	0	53	19	22	16	41	1.89
501068--501123	29	1.9	29	85	7	78	3	28	3	64	1.27
504959--505027	34	2.0	34	97	0	129	33	17	11	37	1.86
510554--510595	21	2.0	21	95	0	75	23	21	28	26	1.99
510753--510948	16	12.2	16	85	0	257	30	34	4	30	1.78
510753--510948	32	6.1	32	91	0	311	30	34	4	30	1.78
516828--517461	35	18.3	35	80	9	654	33	10	28	27	1.90
516826--517424	106	5.7	105	83	8	645	33	10	28	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516828--517424	141	4.3	138	83	8	673	33	10	28	27	1.89
517233--517285	26	2.0	26	96	0	97	33	11	28	26	1.91
517370--517528	69	2.3	70	85	6	216	32	12	25	30	1.92
526460--526822	35	11.3	35	77	14	292	34	20	28	16	1.95
526460--526822	62	5.6	70	73	18	238	34	20	28	16	1.95
526595--526769	27	6.2	27	80	10	188	33	19	29	17	1.94
526560--526773	89	2.4	89	90	1	331	34	19	28	16	1.94
526745--526822	34	2.3	35	88	6	115	35	21	26	15	1.93
529603--529715	24	4.6	24	70	6	84	22	16	31	29	1.96
547213--547295	41	2.0	41	97	0	157	28	19	21	30	1.98
548503--549167	22	30.2	22	82	2	654	42	13	16	26	1.86
548504--548980	44	10.8	44	93	0	801	43	15	16	23	1.86
548559--549304	66	11.3	66	78	5	349	42	13	16	28	1.85
549000--549321	22	14.6	22	79	1	331	39	9	16	34	1.81
549461--549861	22	18.2	22	83	5	479	42	17	19	19	1.89
552646--553102	45	10.1	45	85	6	564	31	28	15	24	1.95
552646--553102	88	5.0	89	85	5	587	31	28	15	24	1.95
552646--553102	133	3.4	133	87	4	635	31	28	15	24	1.95
553939--554086	45	3.3	45	96	0	271	31	31	14	23	1.94
554092--554228	56	2.4	56	88	0	202	24	21	21	32	1.98
555919--556639	26	27.5	26	82	3	712	32	33	4	29	1.78
555920--556639	262	2.7	258	81	6	831	32	33	4	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558734--558766	16	2.1	16	94	0	57	45	21	6	27	1.75
561440--561580	34	4.1	34	78	3	115	27	25	9	36	1.88
561414--561580	68	2.4	68	77	4	176	28	26	9	34	1.88
561883--561967	34	2.5	34	90	3	136	28	30	10	30	1.90
563905--563983	38	2.1	38	95	0	140	37	13	20	27	1.91
565871--567067	32	37.6	32	92	2	1966	21	13	24	41	1.89
567087--567147	32	1.9	32	93	0	104	16	16	26	40	1.89
567890--567990	32	3.3	31	71	12	100	18	14	24	41	1.89
567890--567978	28	3.0	29	74	9	90	19	12	25	42	1.86
569549--569614	32	2.1	32	100	0	132	33	19	16	30	1.94
572946--573015	21	3.3	21	83	0	95	38	27	18	15	1.91
574398--574433	2	18.5	2	94	5	65	0	52	0	47	1.00
578596--578642	24	2.0	24	95	0	85	36	27	21	14	1.93
579101--579353	127	2.0	127	100	0	506	31	18	21	27	1.97
583678--584303	38	16.5	37	85	4	689	22	19	15	42	1.88
583678--584303	114	5.5	114	85	1	774	22	19	15	42	1.88
583678--584303	152	4.1	152	88	1	860	22	19	15	42	1.88
583678--584303	76	8.2	76	86	0	779	22	19	15	42	1.88
598902--599014	38	3.0	38	96	0	199	32	15	18	33	1.92
604853--604892	16	2.5	16	95	0	71	52	2	12	32	1.52
610579--610631	2	26.5	2	96	0	97	0	47	0	52	1.00
616579--616613	17	2.1	17	94	5	63	22	17	11	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624199--624827	317	2.0	312	98	1	1195	30	13	16	39	1.86
630575--630997	167	2.5	167	94	1	724	37	16	17	29	1.91
631028--631083	8	7.0	8	87	0	67	42	23	33	0	1.54
631028--631083	12	4.7	12	81	0	67	42	23	33	0	1.54
633989--634211	112	2.0	113	95	0	403	50	3	19	26	1.64
635189--635264	2	39.0	2	92	5	129	0	50	0	50	1.00
652195--652375	91	2.0	90	98	0	344	25	21	16	36	1.93
663291--663403	21	5.4	21	78	11	108	33	19	19	27	1.96
663298--663403	42	2.5	41	81	13	119	34	18	19	26	1.95
664270--664519	21	11.9	21	79	5	263	24	18	20	36	1.95
664280--664519	42	5.7	41	84	4	309	23	18	20	36	1.95
664280--664519	84	2.9	84	89	1	347	23	18	20	36	1.95
670505--671380	37	24.4	37	92	4	1334	39	21	8	31	1.82
670520--671380	145	6.0	148	92	3	1334	39	21	8	31	1.82
670505--671380	71	12.2	71	91	5	1220	39	21	8	31	1.82
671066--671127	21	3.2	21	62	29	55	33	22	9	33	1.87
673485--673609	34	3.6	34	79	10	137	29	17	20	32	1.96
673685--673880	44	4.4	44	88	2	302	27	13	19	39	1.89
673682--673873	90	2.2	88	93	1	321	27	13	19	40	1.88
675026--675070	22	2.0	23	86	4	65	46	8	8	35	1.66
675108--675167	24	2.5	25	83	8	79	40	13	6	40	1.71
675125--675249	11	10.2	12	70	21	64	38	14	10	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
680872--680901	11	2.8	11	95	5	53	93	0	6	0	0.35
687946--687998	15	2.9	19	71	23	51	39	9	7	43	1.65
687953--687986	15	2.3	15	94	0	59	41	8	5	44	1.60
688432--688476	23	2.0	23	86	0	63	20	31	26	22	1.98
688413--688531	59	2.0	60	96	1	222	19	27	25	27	1.99
689342--689366	6	4.2	6	100	0	50	36	16	16	32	1.90
690327--690356	15	2.0	15	93	0	51	13	23	33	30	1.93
690911--690974	27	2.4	27	100	0	128	34	31	14	20	1.92
691201--691244	17	2.6	17	88	0	70	27	13	6	52	1.66
692541--692566	1	26.0	1	100	0	52	0	0	100	0	0.00
696465--697408	19	51.3	19	79	7	1009	50	25	11	11	1.72
696755--696783	13	2.2	13	100	0	58	62	17	6	13	1.52
697068--697163	32	2.8	32	81	15	104	52	25	13	9	1.70
697855--697898	21	2.1	21	91	0	70	15	34	22	27	1.95
702857--702886	12	2.5	12	100	0	60	33	20	16	30	1.94
703519--703859	174	2.0	174	98	0	664	27	25	16	30	1.97
705258--705457	99	2.0	99	96	0	364	31	9	13	45	1.75
706639--707221	30	19.4	29	80	4	470	43	27	15	13	1.84
706637--707221	90	6.5	90	82	2	629	43	28	15	13	1.84
707208--707234	13	2.1	13	100	0	54	55	37	0	7	1.28
707178--707264	43	2.0	43	97	0	165	45	32	10	11	1.74
707144--707293	73	2.1	73	96	0	273	43	32	12	12	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
707217--707314	30	3.2	30	85	4	133	42	31	11	14	1.80
708051--708203	79	1.9	79	89	2	236	39	16	14	29	1.88
708122--708543	166	2.5	166	88	2	580	37	13	16	31	1.88
718370--718764	42	9.2	42	85	6	499	34	17	25	23	1.96
718643--718696	28	1.9	28	96	0	99	31	20	22	25	1.98
726571--726804	32	7.1	32	80	7	263	38	25	17	17	1.92
726571--726804	65	3.6	65	79	11	210	38	25	17	17	1.92
726693--726751	19	3.4	18	71	22	54	37	23	20	18	1.94
726571--726804	97	2.4	99	83	5	285	38	25	17	17	1.92
726707--726760	14	3.2	17	69	21	51	40	24	18	16	1.90

Tables:   1   2   3   4