oyster.v9_M.fa.s9.2.7.7.80.10.50.500.1.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: scaffold337
Parameters: 2 7 7 80 10 50 500
Length:  1638316

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 594 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)
32618--32749	5	26.8	5	96	3	250	40	40	0	18	1.51
42993--43044	22	2.4	22	86	0	77	42	30	15	11	1.82
43074--43099	13	2.0	13	100	0	52	53	23	15	7	1.67
50903--50936	17	1.9	18	88	5	52	38	2	5	52	1.41
51205--51273	3	23.0	3	90	0	111	62	0	33	4	1.15
57761--57810	11	4.5	11	92	0	73	40	4	32	24	1.73
64684--64729	3	15.7	3	86	13	69	2	0	30	67	1.03
71320--71401	42	1.9	43	85	2	112	17	41	17	24	1.89
71408--71494	20	4.2	20	77	11	86	14	44	16	24	1.85
72000--72062	2	31.5	2	96	0	117	50	0	49	0	1.00
72587--72845	140	1.9	137	85	7	362	27	20	20	32	1.97
73104--73138	2	17.5	2	100	0	70	0	48	0	51	1.00
73316--73356	2	20.5	2	94	0	73	0	48	0	51	1.00
74322--74382	10	5.8	11	73	22	51	22	13	45	18	1.83
74323--74409	20	4.2	20	80	14	97	22	16	43	17	1.87
74335--74409	10	7.3	10	72	11	55	22	17	44	16	1.87
74405--74495	23	4.2	22	70	13	73	26	18	38	16	1.92
74481--74540	10	5.9	10	72	16	52	33	10	45	11	1.74
76550--76998	225	2.0	224	100	0	889	44	11	12	30	1.78
77071--77137	7	9.6	7	83	0	89	35	14	22	26	1.93
79257--79297	2	20.5	2	100	0	82	48	0	51	0	1.00
80060--80126	7	9.6	7	81	0	80	28	20	14	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
83595--83668	3	24.7	3	100	0	148	67	0	32	0	0.91
83800--83838	19	2.1	19	100	0	78	38	25	15	20	1.92
90323--90724	200	2.0	200	100	0	804	26	15	19	38	1.91
105361--105385	13	1.9	13	100	0	50	24	28	8	40	1.83
106835--106871	15	2.6	14	91	4	56	35	35	2	27	1.71
117938--118160	34	6.6	34	91	0	338	19	17	23	39	1.91
117938--118301	68	5.2	68	78	11	333	20	16	23	39	1.92
117938--118160	102	2.2	102	93	0	374	19	17	23	39	1.91
118187--118250	32	1.9	33	87	6	94	25	14	20	40	1.89
118187--118272	34	2.6	32	85	3	109	23	16	23	37	1.94
118917--118977	10	5.9	10	71	5	50	9	44	11	34	1.74
118922--119134	32	6.8	31	70	13	80	14	42	16	26	1.86
118971--119053	23	3.8	22	75	12	82	16	39	19	24	1.91
118961--119042	42	1.9	43	90	2	130	17	41	17	24	1.89
119049--119102	10	5.4	10	75	0	54	14	44	16	24	1.85
119049--119135	20	4.2	20	76	11	86	14	44	16	24	1.85
119383--119414	7	4.6	7	92	0	55	31	15	21	31	1.95
122676--122742	7	9.6	7	83	0	89	26	22	14	35	1.93
122676--122742	21	3.2	21	86	0	98	26	22	14	35	1.93
123526--123571	2	23.0	2	100	0	92	50	0	50	0	1.00
124017--124055	19	2.1	19	95	0	69	28	10	28	33	1.90
130635--130675	18	2.3	18	95	0	73	24	21	34	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
141736--141768	17	1.9	17	100	0	66	30	24	21	24	1.99
153610--153679	2	35.5	2	91	2	115	54	0	45	0	0.99
184585--184643	2	30.5	2	89	6	95	1	47	0	50	1.11
189884--190229	174	2.0	173	99	0	683	29	17	16	35	1.92
199901--199952	2	26.0	2	96	0	95	51	0	48	0	1.00
201287--201316	2	15.0	2	100	0	60	50	50	0	0	1.00
201346--201371	2	13.0	2	100	0	52	50	0	0	50	1.00
202436--202481	23	2.0	23	100	0	92	30	13	21	34	1.91
205750--205827	21	3.7	21	87	0	102	34	29	10	25	1.89
205839--205876	3	12.7	3	100	0	76	0	65	0	34	0.93
215860--215884	12	2.1	12	100	0	50	48	0	24	28	1.52
218503--218596	42	2.2	42	84	0	125	15	23	20	40	1.91
218527--218602	21	3.6	21	75	7	73	15	27	18	38	1.91
222881--223134	51	5.0	51	92	3	440	35	7	17	39	1.79
222881--223134	104	2.5	102	94	2	440	35	7	17	39	1.79
232999--233132	72	1.9	72	98	0	259	29	16	18	35	1.93
239014--239224	34	6.2	34	96	0	386	30	14	17	37	1.90
239752--239792	12	3.4	12	86	0	55	2	39	24	34	1.69
239761--239792	16	2.0	16	100	0	64	0	37	25	37	1.56
242947--242990	12	3.7	12	87	0	70	52	29	13	4	1.60
246738--247252	255	2.0	256	90	2	822	26	21	17	34	1.95
270538--270598	12	4.9	12	78	6	59	37	0	60	1	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
276163--276210	2	24.0	2	100	0	96	0	50	0	50	1.00
278687--278803	62	1.9	62	83	3	155	38	11	19	30	1.87
279835--279913	41	2.0	39	90	5	122	26	3	48	21	1.67
280676--280720	2	22.5	2	100	0	90	0	48	0	51	1.00
280837--280882	2	23.0	2	100	0	92	0	50	0	50	1.00
283006--283052	15	3.1	16	88	11	64	0	0	21	78	0.75
287434--287496	1	63.0	1	96	0	117	1	0	98	0	0.12
289044--289108	2	32.5	2	100	0	130	0	49	0	50	1.00
293923--293978	2	28.0	2	100	0	112	50	0	50	0	1.00
301093--301132	19	2.0	20	85	4	55	25	7	7	60	1.50
301203--301236	3	11.3	3	100	0	68	32	0	32	35	1.58
301974--302024	23	2.2	23	89	6	77	33	27	7	31	1.85
304739--304770	11	2.9	11	95	0	55	28	28	9	34	1.88
304779--304831	22	2.4	22	83	0	70	39	11	28	20	1.87
304885--304927	11	3.9	11	93	0	77	27	32	9	30	1.88
311069--311112	4	11.0	4	90	0	70	50	25	25	0	1.50
311164--311220	2	28.5	2	92	0	96	49	1	47	1	1.22
313288--313320	15	2.2	15	89	10	50	9	48	6	36	1.60
314214--314404	36	5.3	36	73	7	129	23	34	12	30	1.91
314771--314811	11	3.7	11	90	0	64	31	12	31	24	1.92
314821--314850	11	2.7	11	100	0	60	26	33	10	30	1.89
315080--315117	11	3.5	11	89	7	60	42	10	18	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
315159--315206	22	2.2	22	88	3	71	43	10	29	16	1.81
315209--315238	11	2.8	11	95	5	53	30	30	10	30	1.90
315270--315323	11	4.9	11	81	4	65	29	29	9	31	1.88
315270--315322	22	2.4	23	81	9	74	28	30	9	32	1.88
318019--318043	11	2.3	11	100	0	50	32	8	20	40	1.81
318335--318443	36	3.0	36	100	0	218	30	22	19	28	1.98
318848--318900	27	2.0	27	84	0	70	30	22	20	26	1.98
321613--321662	2	25.0	2	100	0	100	50	0	50	0	1.00
325183--325377	102	1.9	102	96	0	363	33	24	12	29	1.92
326543--326583	21	1.9	22	95	5	75	14	85	0	0	0.60
329891--330195	166	1.8	166	87	2	452	22	15	26	36	1.94
330344--330414	10	6.8	10	92	7	115	1	16	39	42	1.57
330344--330414	21	3.4	21	98	0	133	1	16	39	42	1.57
333541--333604	19	3.2	22	62	25	59	28	10	15	45	1.80
333526--333642	38	3.1	38	97	0	216	29	10	15	45	1.79
333537--333635	19	5.2	19	63	26	57	28	11	16	44	1.81
365551--365779	114	2.0	114	100	0	458	30	18	18	32	1.95
372343--372432	20	4.5	20	91	0	135	35	17	12	34	1.87
373941--374020	8	10.5	8	68	12	53	27	12	36	23	1.91
373950--374012	22	2.9	22	87	0	90	26	12	36	23	1.91
373981--374073	30	3.1	30	88	0	132	26	16	36	20	1.93
373950--374163	8	28.5	8	64	20	61	28	15	35	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
373985--374097	30	3.7	30	84	4	129	27	16	36	19	1.93
374076--374163	22	3.9	22	78	3	95	29	15	32	21	1.95
375047--375134	22	3.9	22	84	3	113	18	35	18	28	1.94
375130--375188	16	3.8	16	73	8	59	16	33	18	30	1.94
375145--375194	14	3.4	14	76	10	55	18	38	18	26	1.93
375130--375194	30	2.2	30	91	0	103	16	35	18	29	1.93
375176--375253	22	3.5	22	85	0	111	21	41	15	21	1.90
375144--375210	30	2.2	30	83	0	80	17	40	17	23	1.91
376951--377146	65	3.0	65	100	0	392	32	16	12	38	1.86
381159--381190	14	2.3	14	94	0	55	43	12	12	31	1.80

Tables:   1   2   3   4   5