oyster.v9_M.fa.s17.2.7.7.80.10.50.500.1.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: scaffold1213
Parameters: 2 7 7 80 10 50 500
Length:  1372454

Tables:   1   2   3   

This is table  1  of  3  ( 346 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)
13844--14395	276	2.0	275	99	0	1095	29	17	18	33	1.95
28270--28302	16	2.1	16	94	0	57	30	30	12	27	1.92
28595--28655	20	3.0	20	79	9	70	52	9	3	34	1.51
28859--28957	15	6.3	15	68	19	58	48	11	3	37	1.54
28888--28931	20	2.2	20	87	0	61	50	9	2	38	1.47
30013--30365	178	2.0	178	81	2	413	33	25	16	25	1.96
30320--30360	19	2.2	19	90	0	64	36	39	2	21	1.67
46485--46732	50	5.0	50	84	6	319	30	16	9	43	1.80
47915--47952	2	19.0	2	100	0	76	0	50	0	50	1.00
52284--52325	18	2.3	18	91	0	66	35	9	0	54	1.33
52284--52343	6	10.0	6	79	0	57	35	10	0	55	1.34
55350--55453	53	2.0	53	100	0	208	38	9	7	44	1.66
58311--58376	2	33.0	2	96	0	123	1	48	0	50	1.10
61967--62115	64	2.3	64	87	4	199	32	16	18	32	1.93
67497--67557	2	30.5	2	100	0	122	0	49	0	50	1.00
74134--74543	200	2.0	200	99	0	811	23	29	17	30	1.97
74518--74551	2	17.0	2	100	0	68	0	50	0	50	1.00
81917--81969	3	17.7	3	100	0	106	33	0	0	66	0.92
85584--85629	20	2.4	19	85	7	58	2	36	23	36	1.68
85783--86687	167	5.4	167	92	0	1503	38	19	17	24	1.92
85786--86687	333	2.7	334	93	0	1533	38	19	17	24	1.92
93073--93118	12	3.8	12	80	5	56	13	4	0	82	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
95555--95580	13	2.0	13	100	0	52	38	7	7	46	1.61
104628--104669	15	2.8	15	82	13	59	0	0	16	83	0.65
104635--104669	17	2.0	17	88	5	52	0	0	17	82	0.66
104628--104665	5	7.8	5	86	13	53	0	0	15	84	0.63
104816--104855	16	2.5	16	88	8	55	85	0	15	0	0.61
104816--104863	20	2.3	20	85	7	60	83	0	14	2	0.74
105681--105725	21	2.1	21	88	12	65	35	17	22	24	1.95
109106--109911	168	4.8	168	89	1	1103	32	18	17	31	1.95
109002--109911	168	5.4	168	88	1	1101	31	18	18	31	1.95
111291--112096	168	4.8	168	89	1	1103	32	18	17	31	1.95
111187--112096	168	5.4	168	88	1	1101	31	18	18	31	1.95
114465--114556	47	1.9	48	88	2	141	22	14	18	44	1.86
118199--118278	41	2.0	41	100	0	160	36	10	17	36	1.83
127280--127327	25	1.9	25	86	0	69	22	29	14	33	1.94
132777--132821	2	22.5	2	100	0	90	0	48	0	51	1.00
148862--149142	65	4.3	66	79	3	284	33	20	20	25	1.97
148863--149142	131	2.1	131	83	3	359	33	20	20	25	1.97
149439--149703	27	9.9	27	79	0	253	29	20	18	32	1.96
152935--153179	21	11.8	22	75	11	189	40	22	12	24	1.88
152974--153179	82	2.5	83	79	9	213	41	21	11	24	1.87
152935--153154	103	2.1	103	95	0	395	40	23	12	24	1.89
162243--163028	33	24.0	33	79	4	804	38	24	16	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
164299--164397	33	3.0	33	96	0	180	33	29	20	17	1.95
166322--167799	166	9.0	164	80	8	1369	28	22	14	34	1.94
180483--180517	11	2.9	12	91	8	54	48	25	17	8	1.75
180576--180614	2	19.5	2	100	0	78	0	51	0	48	1.00
184262--184747	166	2.9	166	93	2	830	37	18	18	24	1.93
189802--189850	20	2.5	20	93	0	80	22	8	0	69	1.14
195758--195820	2	31.5	2	100	0	126	49	0	50	0	1.00
205452--205519	33	2.1	33	100	0	136	29	14	25	30	1.95
205513--205846	169	2.0	169	82	3	415	33	13	23	30	1.93
215076--215122	21	2.2	21	88	0	67	29	23	23	23	1.99
220870--220906	14	2.6	14	91	0	56	27	10	29	32	1.90
225132--225162	15	2.1	15	100	0	62	0	0	83	16	0.64
228816--228862	2	23.5	2	100	0	94	0	48	0	51	1.00
249104--249147	20	2.2	20	100	0	88	18	22	15	43	1.88
263128--263196	2	35.0	2	88	2	104	50	0	46	2	1.16
264892--264953	32	1.9	33	93	3	108	45	4	9	40	1.58
264903--264971	32	2.3	31	80	9	81	46	5	7	40	1.55
285898--286378	241	2.0	243	96	2	885	44	8	13	34	1.74
290595--290964	40	9.2	40	91	3	573	25	5	31	37	1.79
292800--292891	47	2.0	47	95	0	166	33	14	18	33	1.91
293920--294692	30	25.3	30	79	6	766	41	15	18	24	1.89
294497--294577	42	1.9	42	92	0	135	37	16	22	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294375--294692	161	2.0	164	87	1	471	41	15	18	24	1.88
300613--300661	4	12.2	4	84	0	62	28	22	46	2	1.63
300600--300647	12	4.0	12	88	0	60	31	18	50	0	1.48
301071--301101	15	2.0	16	93	6	55	51	16	0	32	1.44
301078--301116	20	1.9	20	94	0	69	48	12	0	38	1.42
301041--301201	50	3.3	50	73	14	145	44	12	3	39	1.60
301590--301704	56	2.1	56	93	0	194	21	19	15	43	1.88
302450--302620	53	3.0	57	77	11	199	23	17	16	42	1.88
303052--304040	436	2.3	435	89	2	1514	37	16	17	29	1.91
317081--317109	2	14.5	2	100	0	58	48	0	51	0	1.00
321512--321537	2	13.0	2	100	0	52	50	0	50	0	1.00
322717--322741	4	6.2	4	100	0	50	24	24	0	52	1.48
322743--322786	2	22.0	2	100	0	88	0	50	0	50	1.00
322776--322813	19	2.0	19	100	0	76	15	42	10	31	1.81
323401--323467	33	2.0	33	100	0	134	31	35	2	29	1.73
327098--327161	33	1.9	33	100	0	128	50	12	12	25	1.75
327475--327510	18	2.0	18	94	0	63	22	11	13	52	1.72
330698--330722	12	2.1	12	100	0	50	40	24	12	24	1.88
332420--332863	170	2.6	166	78	9	495	29	20	20	29	1.97
332925--333103	90	2.0	90	97	0	340	32	23	17	26	1.96
334301--334348	2	24.0	2	100	0	96	50	0	50	0	1.00
335150--335207	2	29.0	2	100	0	116	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)
339264--339899	66	9.7	65	83	8	708	34	19	21	24	1.96
339271--339899	131	4.8	131	85	5	815	34	20	21	24	1.97
341505--341548	19	2.3	19	88	0	61	18	4	36	40	1.71
341319--341879	178	3.2	176	83	4	648	23	16	25	33	1.96
342704--342757	4	13.5	4	96	0	81	0	42	25	31	1.55
342781--343896	166	6.8	166	88	3	1596	28	17	15	39	1.89
342781--343896	488	2.3	489	90	3	1697	28	17	15	39	1.89
343241--343896	165	4.0	165	87	3	915	28	16	14	39	1.89
344166--344211	15	3.1	15	87	3	67	32	6	15	45	1.71
344276--344329	20	2.7	20	76	0	54	44	9	3	42	1.54
344677--344716	16	2.7	15	85	11	55	35	10	30	25	1.88
346304--346348	12	3.8	12	91	2	74	0	31	26	42	1.56
346310--346345	8	4.5	8	85	0	54	0	36	25	38	1.56
346546--347378	166	5.0	166	85	6	1118	33	15	24	25	1.95
346579--347378	322	2.4	324	86	6	1090	33	15	25	26	1.95
348420--348452	12	2.6	13	90	4	50	27	15	18	39	1.90
357168--357221	8	7.4	8	74	17	55	0	35	24	40	1.55
358340--358371	15	2.1	15	94	0	55	46	3	0	50	1.17
359829--359955	63	2.0	63	100	0	254	26	18	11	43	1.84
363257--363291	2	17.5	2	93	0	61	48	0	48	2	1.16
363588--363668	33	2.5	33	93	0	135	28	18	23	29	1.98
365074--365106	10	3.2	11	91	8	52	36	18	18	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370975--371182	59	3.6	58	82	8	262	21	17	18	42	1.89
388635--388669	15	2.4	15	90	4	54	42	0	8	48	1.33
390158--390189	2	16.0	2	100	0	64	0	50	0	50	1.00
391249--391280	16	2.0	16	93	0	55	46	21	12	18	1.82
396308--396341	10	3.4	10	100	0	68	88	0	0	11	0.52
396458--396483	2	13.0	2	100	0	52	50	50	0	0	1.00
400035--400076	15	2.6	16	92	7	68	0	19	30	50	1.48
400246--401436	166	7.2	166	83	5	1346	34	15	21	28	1.94
400246--401436	329	3.6	327	83	6	1404	34	15	21	28	1.94
400246--401436	495	2.4	488	83	6	1418	34	15	21	28	1.94

Tables:   1   2   3