oyster.v9_M.fa.s37.2.7.7.80.10.50.500.1.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: scaffold1154
Parameters: 2 7 7 80 10 50 500
Length:  1159333

Tables:   1   2   3   

This is table  1  of  3  ( 307 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)
8406--8802	199	2.0	198	100	0	785	33	12	17	36	1.87
9127--9167	11	3.7	11	84	15	50	82	0	0	17	0.66
10159--10186	2	14.0	2	100	0	56	50	0	0	50	1.00
14319--14349	2	15.5	2	100	0	62	48	0	51	0	1.00
18888--18912	12	2.1	12	100	0	50	84	8	0	8	0.79
19744--19835	23	4.0	23	87	5	132	46	11	2	39	1.53
23542--23590	2	24.5	2	100	0	98	0	51	0	48	1.00
26690--26744	28	2.0	28	100	0	110	36	3	27	32	1.74
29742--29780	12	3.2	12	96	0	69	43	2	7	46	1.46
32143--32167	13	1.9	13	100	0	50	0	0	8	92	0.40
54823--54889	31	2.2	29	82	12	82	37	7	7	47	1.60
54822--54884	29	2.2	27	76	15	65	36	9	7	46	1.66
55348--55374	13	2.1	13	100	0	54	37	7	0	55	1.28
60768--60813	2	23.0	2	100	0	92	0	50	0	50	1.00
76131--76210	21	3.8	21	94	0	133	41	26	7	25	1.81
76134--76219	21	3.8	24	89	9	96	44	24	8	23	1.80
78772--78863	46	2.0	46	82	0	112	33	29	9	27	1.89
79160--79226	26	2.6	26	87	0	98	17	13	29	38	1.88
80101--80172	1	72.0	1	97	0	126	0	0	2	97	0.18
88760--88816	12	4.8	12	84	2	80	0	33	26	40	1.56
88759--88816	4	14.8	4	90	3	64	0	32	25	41	1.56
88985--89812	166	5.1	165	87	7	1128	33	15	24	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
89048--89828	315	2.4	315	86	7	1047	33	15	24	26	1.95
92844--97676	166	29.2	166	87	3	6446	28	22	15	33	1.94
97846--97893	18	2.5	19	86	6	62	43	35	20	0	1.52
107152--107264	2	56.5	2	96	0	208	1	48	0	49	1.11
107553--107603	2	25.5	2	95	0	93	50	0	49	0	1.00
107858--107907	2	25.0	2	95	0	91	48	0	52	0	1.00
108527--108569	2	21.5	2	100	0	86	51	0	48	0	1.00
109394--109470	2	38.5	2	97	0	145	0	50	0	49	1.00
113513--113721	76	2.8	76	83	4	244	45	9	17	27	1.79
116649--116691	16	2.7	16	82	7	52	58	0	6	34	1.25
117198--117248	20	2.5	21	87	3	68	33	13	3	49	1.61
122015--122056	2	21.0	2	100	0	84	50	0	0	50	1.00
124250--124312	32	2.0	32	100	0	126	41	4	12	41	1.64
126001--126175	90	1.9	90	87	0	251	39	13	14	32	1.85
132063--132096	16	2.1	16	88	0	50	29	26	14	29	1.95
132676--132776	53	1.9	53	81	0	121	43	11	6	37	1.68
132713--132769	15	3.6	15	80	7	51	43	12	5	38	1.65
132829--132862	15	2.3	15	89	0	50	44	11	5	38	1.65
132954--133002	20	2.5	20	82	0	62	53	10	0	36	1.35
133774--134380	177	3.5	163	80	11	581	34	25	16	23	1.96
133858--134528	177	3.8	180	87	4	837	33	25	17	23	1.96
134276--134315	19	2.1	19	85	0	53	40	35	2	22	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
133917--134582	360	1.8	358	83	5	867	33	25	17	23	1.96
133861--134606	177	4.2	175	83	5	759	33	24	17	23	1.96
143124--143592	168	2.9	159	86	5	624	31	18	18	31	1.96
147593--148151	166	3.4	166	83	3	619	30	17	14	37	1.89
157274--157340	31	2.2	31	97	2	127	14	32	8	43	1.77
157520--157557	16	2.4	16	95	0	67	36	21	42	0	1.53
170360--170514	70	2.2	69	94	1	265	37	18	16	27	1.92
170460--170545	30	2.9	30	89	0	118	39	18	15	26	1.90
185901--186004	44	2.4	44	91	0	172	34	6	6	51	1.54
216417--216592	51	3.5	51	96	0	307	39	13	21	26	1.89
225713--225766	21	2.6	21	93	0	90	12	16	33	37	1.87
229640--229726	21	3.6	24	79	13	90	36	19	13	29	1.91
229646--229702	21	2.7	21	97	0	105	36	19	14	29	1.91
229905--229938	10	3.4	10	83	0	50	44	26	11	17	1.83
229966--230020	21	2.6	20	80	8	65	43	21	9	25	1.82
245366--245403	3	12.7	3	100	0	76	34	0	34	31	1.58
275045--275103	5	11.2	5	87	10	75	18	37	1	42	1.61
275264--275338	21	3.6	21	92	3	116	54	25	18	1	1.51
275264--275338	11	7.1	11	80	7	93	54	25	18	1	1.51
276467--276545	15	5.2	15	74	7	70	29	17	21	31	1.96
278394--278452	20	3.0	20	80	11	68	38	22	30	8	1.83
279087--279225	67	2.0	67	84	8	179	41	10	9	39	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
293367--293473	21	5.1	21	81	0	124	34	27	20	17	1.95
293604--293652	21	2.3	21	96	0	89	38	22	20	18	1.93
296820--296854	16	2.2	16	94	0	61	37	20	40	2	1.67
296821--296866	20	2.3	20	84	0	56	36	19	36	6	1.78
296829--296868	20	2.0	20	90	0	62	32	17	40	10	1.83
298395--298657	131	2.0	130	99	0	517	36	9	11	41	1.75
305290--305318	11	2.7	11	94	5	51	34	13	10	41	1.79
305682--306143	164	2.8	164	92	2	777	26	22	21	29	1.99
320325--320391	31	2.2	31	88	0	98	41	16	11	29	1.84
323767--323795	2	14.5	2	100	0	58	51	0	0	48	1.00
349746--349770	13	1.9	13	100	0	50	24	12	0	64	1.27
351023--351081	2	29.5	2	100	0	118	0	0	49	50	1.00
373455--373479	13	1.9	13	100	0	50	0	0	96	4	0.24
373454--373480	14	1.9	14	100	0	54	0	0	96	3	0.23
374018--374054	17	2.2	17	100	0	74	32	10	24	32	1.90
374636--374719	2	42.0	2	100	0	168	0	50	0	50	1.00
383970--384009	20	2.0	20	90	0	62	27	30	10	32	1.89
384270--384324	2	27.5	2	100	0	110	50	49	0	0	1.00
393297--393326	1	30.0	1	93	0	51	3	96	0	0	0.21
394597--394627	1	31.0	1	100	0	62	0	100	0	0	0.00
396213--396261	8	6.1	8	90	0	80	16	0	34	48	1.46
396213--396258	4	11.5	4	85	0	65	17	0	32	50	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396213--396258	16	2.9	16	100	0	92	17	0	32	50	1.47
407219--407245	14	1.9	14	100	0	54	0	40	0	59	0.98
408690--408721	17	2.0	17	88	11	50	50	3	12	34	1.56
409747--409778	17	2.0	17	88	11	50	50	3	12	34	1.56
412584--412674	45	2.0	45	100	0	182	28	17	25	28	1.98
418543--418594	26	2.0	26	100	0	104	50	11	15	23	1.76
424356--424403	4	12.5	4	84	8	64	29	20	0	50	1.49
424352--424401	26	1.9	26	95	0	91	28	22	0	50	1.49
424537--424636	52	1.9	52	89	0	155	46	26	11	17	1.81
429027--429072	20	2.3	20	84	0	65	30	28	15	26	1.96
432464--432496	17	1.9	17	100	0	66	24	21	24	30	1.99
442584--442939	178	2.0	178	95	1	642	42	16	12	28	1.84
448249--448648	178	2.2	179	95	0	712	30	14	17	38	1.90
450835--450903	22	3.1	22	89	0	93	49	33	7	10	1.64
463339--463371	4	8.2	4	100	0	66	51	24	0	24	1.48
463333--463387	12	4.6	12	84	4	58	52	27	1	18	1.55
468505--468596	45	2.1	45	91	6	152	28	15	11	44	1.81
469129--469165	18	2.1	18	100	0	74	29	27	10	32	1.90
470047--470507	176	2.6	175	91	5	750	34	14	19	31	1.93
476394--476441	4	12.0	4	90	0	60	0	33	25	41	1.55
476403--476448	16	2.9	16	90	0	74	0	36	26	36	1.57
476395--476445	12	4.2	12	87	0	75	0	35	25	39	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476472--477765	166	7.8	166	92	1	1925	28	17	15	38	1.91
476472--477765	499	2.6	498	91	1	2056	28	17	15	38	1.91
482407--482801	200	2.0	200	99	0	781	34	17	13	34	1.90
482806--482831	1	26.0	1	100	0	52	0	100	0	0	0.00
492970--493005	18	2.1	18	89	5	56	33	13	13	38	1.85
511412--511575	20	8.2	20	97	0	310	40	15	19	24	1.90
511966--512548	42	13.6	42	90	4	932	39	23	11	26	1.88
511966--512548	174	3.4	174	94	1	1016	39	23	11	26	1.88
516432--516891	41	11.5	41	92	5	773	32	17	21	29	1.96
516803--516860	29	2.0	29	100	0	116	34	13	17	34	1.89

Tables:   1   2   3