oyster.v9_M.fa.s30.2.7.7.80.10.50.500.1.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: scaffold313
Parameters: 2 7 7 80 10 50 500
Length:  1192932

Tables:   1   2   3   

This is table  1  of  3  ( 315 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)
14670--14696	1	27.0	1	100	0	54	0	0	100	0	0.00
49286--49454	52	3.3	52	85	4	209	38	24	13	23	1.91
49701--49904	25	8.1	25	84	5	241	36	22	8	32	1.84
50089--50116	14	2.0	14	100	0	56	28	21	21	28	1.99
50100--50195	37	2.6	37	83	0	111	37	16	22	22	1.94
50175--50207	14	2.4	14	94	0	57	27	18	24	30	1.98
50082--50254	88	2.0	88	90	0	274	38	16	21	23	1.93
50140--50246	51	2.1	51	82	3	126	34	18	21	25	1.96
51875--52531	177	3.7	176	80	6	675	38	12	16	32	1.87
52076--52640	178	3.2	177	81	5	473	36	13	17	32	1.89
53047--53090	21	2.1	21	95	0	79	25	25	22	27	2.00
53108--53140	14	2.4	14	100	0	66	27	21	24	27	1.99
62791--62830	2	20.0	2	100	0	80	50	0	50	0	1.00
64787--64881	49	1.9	49	82	6	120	40	11	13	34	1.81
68233--68278	3	15.3	3	86	8	67	0	30	0	69	0.89
72263--72292	13	2.3	13	100	0	60	86	13	0	0	0.57
72260--72293	18	1.9	17	94	5	59	85	14	0	0	0.60
85176--85245	35	2.0	35	94	0	122	37	8	14	40	1.76
88381--88409	12	2.4	12	100	0	58	31	6	27	34	1.83
108870--108902	13	2.5	13	95	5	57	45	6	3	45	1.43
114991--115058	2	35.0	2	92	5	113	0	51	0	48	1.00
125826--126131	121	2.5	122	87	3	422	29	27	13	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
132508--132554	2	23.5	2	100	0	94	0	48	0	51	1.00
138208--138235	12	2.3	12	100	0	56	32	25	42	0	1.55
141875--141907	17	1.9	17	100	0	66	24	21	24	30	1.99
143497--143675	90	2.0	90	89	0	277	22	29	18	30	1.97
144635--144742	57	1.9	57	90	0	171	15	40	14	28	1.87
146958--147027	31	2.3	31	89	0	104	20	32	10	37	1.85
147239--147269	12	2.5	13	89	10	55	32	6	0	61	1.21
158222--158258	16	2.3	16	90	0	56	18	29	27	24	1.98
160351--160477	64	2.0	63	96	0	227	31	15	15	36	1.90
164515--164565	21	2.5	21	83	3	68	50	1	5	41	1.37
170055--170154	30	3.3	30	85	0	128	36	21	22	21	1.96
173795--173864	31	2.2	32	82	7	81	45	15	21	17	1.85
176970--177330	178	2.0	179	92	2	609	36	17	14	31	1.89
188555--188619	31	2.1	31	82	0	76	36	10	13	38	1.80
207045--207679	327	1.9	326	95	0	1153	32	13	16	37	1.88
208448--208473	2	13.0	2	100	0	52	50	0	50	0	1.00
210600--210647	9	5.3	9	80	16	55	37	0	10	52	1.36
210596--210637	18	2.4	18	85	14	61	38	0	9	52	1.34
211843--211901	21	2.6	22	80	17	59	1	50	1	45	1.21
215248--215306	21	2.6	22	80	17	59	1	50	1	45	1.21
221607--221979	161	2.3	161	85	0	505	28	15	19	35	1.93
223121--223673	150	3.5	162	83	7	572	30	15	16	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
227435--227469	15	2.3	15	90	0	52	17	31	28	22	1.96
230393--230439	3	15.7	3	100	0	94	34	0	31	34	1.58
236587--236618	16	2.0	16	93	0	55	21	6	6	65	1.38
239857--240008	48	3.2	48	97	0	277	19	23	21	35	1.96
243444--243492	15	3.0	17	79	11	57	38	12	20	28	1.89
244386--244410	13	1.9	13	100	0	50	40	8	16	36	1.77
246916--246943	2	14.0	2	100	0	56	50	50	0	0	1.00
247947--247977	15	2.1	15	93	0	53	29	6	16	48	1.70
255376--255891	37	13.7	37	84	4	622	35	12	20	31	1.90
255454--255891	74	5.9	74	92	0	687	35	12	20	32	1.89
255959--256095	37	3.7	37	94	0	229	27	18	26	27	1.98
255938--256095	74	2.1	74	89	2	237	27	19	25	26	1.99
255987--256268	129	2.2	129	94	0	483	27	18	26	27	1.98
256116--256222	37	2.9	37	92	0	178	26	18	28	26	1.98
256036--256303	129	2.1	129	88	0	392	30	17	23	28	1.97
256333--256414	37	2.2	37	86	4	112	32	9	21	35	1.87
256368--256460	37	2.5	37	83	0	105	31	11	24	32	1.91
256500--256539	2	20.0	2	94	0	71	52	0	47	0	1.00
265920--266040	37	3.3	36	73	6	109	36	8	22	33	1.84
265937--266857	37	24.9	37	75	8	628	35	11	23	29	1.90
265953--266869	111	8.3	111	75	7	745	35	11	23	29	1.90
294516--294585	19	3.6	19	84	1	86	27	25	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
296754--296795	17	2.5	17	76	7	50	35	7	11	45	1.69
298067--298113	2	23.5	2	100	0	94	0	51	0	48	1.00
299530--299574	2	23.0	2	95	4	83	51	0	48	0	1.00
303856--303906	2	26.0	2	96	4	95	49	0	50	0	1.00
305186--305210	11	2.3	11	100	0	50	36	8	8	48	1.62
307519--307765	25	9.7	25	77	11	173	17	12	19	51	1.76
307545--307602	28	2.1	28	90	0	89	22	6	20	50	1.72
307608--307740	24	5.5	25	80	11	127	14	12	18	54	1.71
307611--307740	49	2.7	48	82	9	158	13	12	19	54	1.70
307711--307778	25	2.7	25	88	0	91	20	7	20	51	1.71
308031--308098	31	2.2	31	100	0	136	42	8	32	16	1.79
309419--309476	29	2.0	29	100	0	116	37	6	27	27	1.82
321812--321859	24	2.0	24	83	4	60	47	6	8	37	1.59
325846--326334	245	2.0	244	99	0	951	24	21	19	34	1.96
357866--357915	21	2.4	22	80	10	59	14	2	2	82	0.86
357875--357914	10	4.0	10	87	6	55	10	2	0	87	0.63
357881--357912	16	1.9	17	93	6	57	9	3	0	87	0.64
357881--357923	18	2.3	19	80	8	52	16	4	0	79	0.90
359965--360362	200	2.0	200	98	1	780	27	14	16	41	1.88
360359--360399	1	41.0	1	90	0	64	0	2	2	95	0.33
362526--362564	3	13.0	3	88	0	60	66	30	2	0	1.05
377630--377654	1	25.0	1	100	0	50	0	0	0	100	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
383772--383996	40	5.6	40	80	1	227	40	20	14	24	1.90
383769--383996	120	1.9	120	82	5	291	40	20	14	24	1.90
390243--390281	19	2.1	19	100	0	78	53	10	10	25	1.66
394411--394467	2	28.5	2	96	0	105	50	0	49	0	1.00
407823--407863	2	20.5	2	100	0	82	0	48	0	51	1.00
408652--408696	3	15.0	3	95	0	81	0	2	33	64	1.06
410022--410060	6	6.3	6	91	8	53	5	0	15	79	0.90
416624--416657	14	2.4	14	95	0	59	41	17	8	32	1.80
419164--419200	11	3.4	11	84	0	56	27	18	0	54	1.44
419742--419803	32	1.9	33	90	3	99	43	4	11	40	1.62
423639--424451	99	8.3	96	79	7	719	24	16	16	42	1.88
423649--424451	194	4.1	195	83	3	886	24	16	16	42	1.88
423616--424451	293	2.8	291	81	7	890	24	16	16	42	1.88
428884--428935	2	26.0	2	100	0	104	0	50	0	50	1.00
431334--431383	24	2.1	24	85	7	66	44	40	12	4	1.60
431331--431620	69	4.2	69	93	1	424	35	46	8	9	1.67
432262--432377	21	5.2	21	88	9	169	50	41	4	4	1.42
432262--432377	24	5.1	24	85	12	181	50	41	4	4	1.42
432262--432377	45	2.6	45	97	0	223	50	41	4	4	1.42
435920--436010	2	45.5	2	100	0	182	0	49	0	50	1.00
437169--437228	2	30.0	2	96	0	111	50	0	48	1	1.11
437318--437346	2	14.5	2	100	0	58	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
448815--448910	29	3.3	28	91	5	147	34	17	11	36	1.86
454897--454938	18	2.3	18	91	0	66	35	9	0	54	1.33
455710--455775	26	2.3	30	80	17	86	81	16	1	0	0.76
455720--455778	16	3.5	16	84	11	82	83	16	0	0	0.66
458787--458838	2	26.0	2	100	0	104	0	50	0	50	1.00
473049--473425	28	13.4	28	86	1	459	22	16	23	36	1.94
473049--473434	84	4.6	84	89	0	529	22	17	23	36	1.94
474206--474236	1	31.0	1	93	0	53	3	0	96	0	0.21
476063--476638	47	12.0	47	81	6	640	28	19	25	26	1.99
480353--480381	15	1.9	15	100	0	58	34	20	13	31	1.92

Tables:   1   2   3