oyster.v9_M.fa.s28.2.7.7.80.10.50.500.1.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: scaffold301
Parameters: 2 7 7 80 10 50 500
Length:  1229110

Tables:   1   2   3   4   

This is table  1  of  4  ( 385 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)
313--1167	428	2.0	427	99	0	1674	22	18	12	45	1.84
6083--7329	483	2.6	485	95	1	2240	34	15	12	38	1.84
15142--15171	10	2.9	10	95	5	51	46	0	0	53	1.00
15140--15188	21	2.3	22	79	10	57	42	4	0	53	1.20
22813--22866	17	3.1	17	76	15	56	37	0	14	48	1.45
29735--29784	2	25.0	2	91	0	82	0	46	0	54	1.00
29925--29974	2	25.0	2	91	0	82	0	46	0	54	1.00
29661--30036	190	2.0	189	98	1	718	24	24	6	43	1.78
31891--31927	17	2.2	17	90	9	58	0	0	13	86	0.57
31892--31941	14	3.6	13	84	10	55	4	2	10	84	0.84
31906--31946	14	2.9	14	88	0	55	9	2	4	82	0.89
38454--39103	339	1.9	337	86	3	932	32	18	18	30	1.95
38454--39103	168	3.8	167	88	3	901	32	18	18	30	1.95
46407--46488	21	3.9	21	88	6	112	26	14	17	41	1.88
46412--46500	42	2.1	42	85	0	115	28	13	19	39	1.89
46573--46666	21	4.5	21	79	0	89	27	13	15	42	1.85
46573--46666	42	2.2	42	84	0	116	27	13	15	42	1.85
46391--46712	166	1.9	166	92	0	536	31	15	16	36	1.90
46758--46822	22	3.0	21	80	4	76	41	18	15	24	1.89
46874--47012	21	6.7	21	78	1	136	28	15	18	38	1.91
47089--47180	21	4.4	21	80	0	103	41	18	16	23	1.90
47089--47180	42	2.2	42	90	0	139	41	18	16	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47258--47326	21	3.3	21	75	0	75	52	13	10	24	1.71
47239--47332	42	2.3	42	88	1	145	45	14	11	27	1.80
47395--47495	21	4.8	21	82	0	112	27	12	16	42	1.85
47567--47665	21	4.7	21	75	0	99	44	14	11	30	1.79
47567--47665	42	2.4	42	87	0	135	44	14	11	30	1.79
47703--47876	21	8.3	21	85	1	215	27	14	18	39	1.90
47942--48033	21	4.4	21	85	0	121	39	19	18	22	1.93
47942--48033	42	2.2	42	90	3	141	39	19	18	22	1.93
48084--48222	21	6.7	21	81	1	163	27	15	19	37	1.92
48299--48369	21	3.4	21	90	0	97	42	18	14	25	1.87
50928--51026	21	4.7	21	75	0	99	44	14	11	30	1.79
50928--51026	42	2.4	42	87	0	135	44	14	11	30	1.79
51064--51237	21	8.3	21	85	1	215	27	14	18	39	1.90
51303--51394	21	4.4	21	85	0	121	39	19	18	22	1.93
51303--51394	42	2.2	42	90	3	141	39	19	18	22	1.93
51445--51583	21	6.7	21	81	1	163	27	15	19	37	1.92
51660--51730	21	3.4	21	90	0	97	42	18	14	25	1.87
57244--57272	2	15.0	2	92	7	51	51	0	0	48	1.00
57883--58182	161	1.9	161	89	0	474	38	17	14	29	1.89
61520--61550	2	15.5	2	100	0	62	48	0	0	51	1.00
62812--62848	17	2.2	17	100	0	74	59	5	18	16	1.55
68563--68589	2	13.5	2	100	0	54	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69511--69574	2	32.0	2	100	0	128	0	50	0	50	1.00
83041--83081	21	2.0	21	90	9	66	48	0	7	43	1.30
83041--83081	11	3.8	11	84	15	59	48	0	7	43	1.30
97386--97443	2	29.0	2	100	0	116	0	50	0	50	1.00
98553--98604	24	2.2	24	92	0	86	36	7	21	34	1.82
98816--98858	19	2.2	20	83	4	52	34	4	16	44	1.68
101728--101765	2	19.0	2	100	0	76	50	0	50	0	1.00
102002--102046	23	1.9	23	86	4	63	37	11	15	35	1.83
104577--104652	10	7.4	10	88	5	116	48	31	10	9	1.69
104577--104652	21	3.7	21	91	1	127	48	31	10	9	1.69
108033--108117	10	8.3	10	88	5	125	11	11	28	48	1.75
125071--125156	2	43.0	2	85	0	109	52	2	41	3	1.31
129089--129113	12	2.1	12	100	0	50	8	36	24	32	1.84
129733--130190	227	2.0	228	97	0	873	40	13	15	30	1.86
133913--133946	1	34.0	1	93	0	50	94	5	0	0	0.32
133919--133951	15	2.2	15	100	0	66	87	12	0	0	0.53
133950--133984	3	11.7	3	88	11	54	71	28	0	0	0.86
133912--133992	12	6.9	12	75	17	57	80	19	0	0	0.72
135631--135669	2	19.5	2	100	0	78	51	0	48	0	1.00
136410--136457	2	24.0	2	100	0	96	0	50	0	50	1.00
166377--166456	4	20.0	4	100	0	160	50	0	25	25	1.50
167212--167263	2	26.0	2	100	0	104	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)
171391--171738	165	2.1	165	98	0	678	31	16	23	28	1.96
172191--172313	2	61.0	2	90	1	183	0	47	0	48	1.07
176405--176436	9	3.6	9	95	0	55	56	15	0	28	1.40
184029--184065	8	4.9	8	83	12	51	37	32	13	16	1.87
184029--184077	14	3.1	16	82	11	57	34	32	12	20	1.90
184008--184175	70	2.4	70	92	2	275	27	22	19	30	1.98
185131--185184	2	27.0	2	100	0	108	0	50	0	50	1.00
185819--185847	9	3.2	9	100	0	58	10	31	34	24	1.89
188214--188263	2	25.0	2	100	0	100	0	50	0	50	1.00
207677--207720	18	2.5	17	81	7	52	84	4	11	0	0.77
207671--207720	8	5.4	9	86	9	50	86	4	10	0	0.71
230517--230552	3	12.0	3	87	0	54	61	2	2	33	1.25
235580--235662	4	20.8	4	73	9	71	67	1	4	26	1.18
241253--241283	7	4.4	7	91	0	53	25	41	32	0	1.56
252162--252460	156	1.9	155	100	0	589	30	15	24	29	1.95
254947--254995	2	24.5	2	100	0	98	48	0	51	0	1.00
255856--255967	2	58.5	2	87	8	162	50	0	50	0	1.00
259544--259575	2	16.0	2	100	0	64	0	50	0	50	1.00
260539--260582	2	22.0	2	100	0	88	50	0	50	0	1.00
297511--297554	2	22.0	2	100	0	88	50	0	50	0	1.00
299876--299950	2	37.5	2	97	0	141	1	49	0	49	1.09
300258--300309	26	2.0	26	92	0	86	32	21	23	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302304--302355	25	2.1	25	100	0	104	44	21	7	26	1.79
310569--310687	6	19.5	6	66	21	52	5	1	17	75	1.06
310589--310681	19	5.1	18	78	16	95	4	1	20	74	1.05
310634--310691	5	12.0	5	77	20	61	0	0	18	81	0.70
310599--310681	37	2.3	35	86	12	114	3	1	19	75	1.01
310634--310689	24	2.4	24	87	3	78	0	0	17	82	0.68
310598--310687	11	7.5	11	70	15	63	3	1	17	77	0.96
310569--310689	19	6.2	19	70	12	75	4	1	17	76	1.05
315828--315882	24	2.3	23	79	14	58	1	1	23	72	1.04
315850--315890	19	2.2	19	86	8	57	0	2	19	78	0.87
315912--315940	1	29.0	1	100	0	58	0	0	100	0	0.00
325090--325114	2	12.5	2	100	0	50	52	0	0	48	1.00
333590--333646	17	3.0	20	61	23	50	29	24	3	42	1.71
333520--333720	110	1.8	111	90	1	323	29	24	4	41	1.76
333520--333721	37	5.5	37	91	1	316	29	24	5	41	1.77
335324--335350	2	13.5	2	100	0	54	0	48	0	51	1.00
342331--342356	2	13.0	2	100	0	52	50	0	0	50	1.00
344809--344850	2	21.0	2	100	0	84	50	0	50	0	1.00
351859--351942	35	2.5	33	84	5	107	27	15	29	27	1.96
351926--351959	17	2.0	17	88	0	50	32	11	35	20	1.89
357195--357657	235	2.0	231	86	2	649	33	17	12	35	1.88
359059--359103	18	2.6	16	82	10	54	40	11	22	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360862--360928	7	9.6	7	83	0	89	35	14	22	26	1.93
363267--363333	7	9.6	7	83	0	89	26	22	14	35	1.93
363267--363333	21	3.2	21	86	0	98	26	22	14	35	1.93
366620--366660	2	20.5	2	100	0	82	0	51	0	48	1.00
368585--368651	7	9.6	7	83	0	89	35	14	22	26	1.93
371030--371080	2	25.5	2	100	0	102	49	0	50	0	1.00
371268--371300	4	8.2	4	100	0	66	0	24	24	51	1.48
371298--371331	2	17.0	2	100	0	68	0	50	0	50	1.00
371826--371892	7	9.6	7	83	0	89	26	22	14	35	1.93
371826--371892	21	3.2	21	86	0	98	26	22	14	35	1.93

Tables:   1   2   3   4