oyster.v9_M.fa.s11.2.7.7.80.10.50.500.2.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: scaffold257
Parameters: 2 7 7 80 10 50 500
Length:  1615106

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 556 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)
299993--300195	21	9.7	21	75	4	158	33	16	14	35	1.89
300289--300375	21	4.2	21	88	1	131	26	16	12	44	1.83
305735--305778	15	2.7	17	82	13	65	34	18	11	36	1.86
314884--314925	12	3.6	12	80	3	50	38	2	7	52	1.42
325505--325549	11	4.1	11	85	0	63	51	24	15	8	1.72
327368--327443	21	3.6	21	80	7	100	36	21	14	27	1.92
327696--327746	21	2.4	21	90	0	75	45	23	3	27	1.70
332175--332232	7	8.3	7	76	0	62	39	13	20	25	1.90
332175--332232	14	4.1	14	88	0	80	39	13	20	25	1.90
349148--349816	168	4.0	167	85	2	840	33	17	18	31	1.94
350752--350794	2	21.5	2	100	0	86	51	0	48	0	1.00
350928--350971	2	22.5	2	95	4	81	50	0	50	0	1.00
350752--351103	177	2.0	175	99	0	686	36	15	22	24	1.93
351551--351578	11	2.5	11	100	0	56	10	10	7	71	1.31
367515--367546	15	2.1	16	94	5	57	6	12	18	62	1.50
368253--368290	20	1.9	20	100	0	76	36	31	2	28	1.71
378231--378315	36	2.5	32	88	9	125	25	30	15	28	1.96
379179--379405	108	2.0	108	89	5	283	36	12	10	40	1.77
382277--382324	25	1.9	25	83	8	62	54	4	27	14	1.59
385182--385208	12	2.2	12	100	0	54	37	7	7	48	1.59
387043--387097	2	27.5	2	89	7	85	49	0	47	3	1.19
389554--389608	20	2.8	21	78	15	64	47	7	18	27	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392549--392670	17	7.2	17	93	0	208	49	4	22	22	1.69
393736--393766	3	10.3	3	92	0	53	35	0	29	35	1.58
403296--403793	135	3.7	134	83	5	619	26	24	21	27	1.99
404129--404227	48	2.1	48	90	0	153	34	14	21	30	1.93
404505--404705	40	5.0	40	93	0	348	44	8	13	33	1.74
407999--408226	75	3.0	74	82	5	278	37	25	14	23	1.92
408299--408384	43	2.0	42	97	2	163	15	34	9	39	1.79
418070--418128	24	2.5	24	78	13	59	54	6	15	23	1.65
418827--418888	4	15.8	4	86	3	81	32	25	41	0	1.56
431354--431388	14	2.5	13	86	13	52	62	2	0	34	1.10
432371--432401	16	1.9	16	93	0	53	32	9	25	32	1.88
441736--441796	20	3.0	20	87	0	86	45	14	18	21	1.84
442110--442278	52	3.2	52	78	0	185	34	20	8	37	1.82
442260--442300	21	2.0	21	90	9	66	17	17	4	60	1.52
442351--442518	52	3.2	52	96	0	300	27	26	12	32	1.93
444059--444189	42	3.1	40	76	7	136	36	10	21	31	1.88
452402--452438	11	3.3	11	92	7	65	8	0	0	91	0.41
452402--452438	12	3.2	12	96	3	67	8	0	0	91	0.41
452402--452452	23	2.2	23	82	0	57	11	5	0	82	0.83
467307--467346	19	2.1	19	86	9	55	35	12	0	52	1.39
468611--468708	31	3.2	31	88	0	142	28	18	9	43	1.80
470667--470694	2	14.0	2	100	0	56	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
477396--477897	252	2.0	252	96	0	923	23	24	16	36	1.94
478791--479292	252	2.0	252	94	1	891	23	24	16	36	1.94
491244--491406	66	2.4	66	85	8	213	35	21	11	31	1.89
492343--492406	6	10.7	6	91	0	74	1	40	7	50	1.41
492346--492404	12	4.9	12	89	0	91	1	38	8	50	1.43
492346--492404	24	2.5	24	97	0	109	1	38	8	50	1.43
507860--507903	16	2.8	16	89	0	70	31	0	56	11	1.35
507859--507928	18	4.1	18	83	10	94	28	1	60	10	1.38
507867--507942	18	4.5	18	85	11	90	30	2	57	9	1.43
508060--508103	16	2.8	16	89	0	70	31	0	56	11	1.35
507772--508171	200	2.0	200	100	0	800	29	17	32	21	1.96
508200--508326	55	2.4	51	83	10	164	27	4	61	6	1.40
508062--508488	184	2.4	177	90	6	653	29	3	57	9	1.48
508384--508423	13	2.8	15	77	14	57	22	7	62	7	1.47
508406--509326	20	47.1	21	67	21	351	28	4	57	9	1.49
508445--508486	16	2.6	16	88	7	59	28	2	61	7	1.35
508406--509123	154	4.6	150	71	17	376	29	4	57	8	1.48
508912--508940	14	2.1	14	93	6	51	24	10	58	6	1.55
508908--509020	35	3.1	35	77	13	113	24	5	59	10	1.51
509014--509147	38	3.5	37	78	11	144	29	4	58	6	1.43
509217--509245	14	2.1	14	93	6	51	24	10	58	6	1.55
509285--509397	35	3.3	35	67	12	90	20	4	62	12	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509335--509417	21	4.0	21	81	7	82	18	3	65	13	1.41
509398--509436	13	3.1	13	77	7	53	23	2	53	20	1.57
509398--509449	25	2.1	24	89	10	79	23	3	53	19	1.61
509355--509527	11	15.2	12	65	20	52	23	4	58	13	1.52
509419--509479	25	2.3	27	86	11	81	26	3	55	14	1.55
509473--509655	33	5.3	34	72	17	110	30	3	56	10	1.49
509574--509898	37	8.8	36	71	19	156	29	4	56	10	1.52
509556--509687	57	2.3	57	96	0	237	29	4	56	9	1.52
509611--509734	35	3.6	35	74	15	107	26	4	58	11	1.51
508406--509880	20	74.0	20	66	21	249	27	4	57	10	1.50
509768--509902	55	2.5	53	83	10	157	29	3	56	10	1.50
509841--509885	22	2.0	22	91	8	74	26	4	55	13	1.57
509867--509896	15	1.9	16	93	6	53	26	6	56	10	1.57
509845--509898	22	2.5	22	81	6	56	29	5	55	9	1.54
508067--509903	18	99.6	18	67	21	533	28	4	57	10	1.51
510057--510124	18	3.8	18	84	5	75	29	4	55	10	1.52
510046--510114	18	3.7	18	72	16	59	31	4	53	10	1.54
518599--518630	16	2.0	16	100	0	64	43	25	25	6	1.77
518638--518699	31	2.0	31	90	0	97	27	22	24	25	2.00
519247--519295	16	3.1	16	100	0	98	6	24	26	42	1.78
522297--522336	17	2.5	16	88	8	55	25	20	12	42	1.86
529429--529491	19	3.3	19	90	0	99	44	14	23	17	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532038--532119	41	2.0	42	90	2	130	31	8	4	54	1.52
534905--534942	12	3.2	12	84	0	58	0	34	26	39	1.57
541589--541628	9	4.3	9	90	3	62	0	22	35	42	1.54
541798--542689	166	5.5	163	80	7	864	33	15	22	28	1.95
541798--542604	322	2.5	308	81	8	911	33	15	23	27	1.95
541798--542721	322	2.9	318	82	7	805	33	16	23	27	1.95
551600--551638	2	19.5	2	94	0	69	46	0	53	0	1.00
552119--552170	2	26.0	2	100	0	104	0	50	0	50	1.00
553991--554037	23	2.0	24	87	4	69	29	10	17	42	1.82
556093--556121	8	3.6	8	100	0	58	89	0	0	10	0.48
556093--556126	14	2.3	14	90	10	50	88	0	0	11	0.52
558508--558564	19	3.0	19	84	5	80	45	14	10	29	1.78
558688--558727	20	2.0	20	85	0	53	35	17	12	35	1.88
558685--558735	20	2.7	19	76	8	50	37	17	13	31	1.89
560413--560461	2	24.5	2	100	0	98	51	0	48	0	1.00
560957--561018	2	31.0	2	96	0	115	51	0	48	0	1.00
562669--562695	10	2.7	10	100	0	54	92	0	0	7	0.38
564673--564707	16	2.2	16	100	0	70	48	11	17	22	1.79
566714--566765	2	26.0	2	100	0	104	50	0	50	0	1.00
571505--571575	21	3.4	21	92	0	115	8	11	60	19	1.56
572801--572835	18	1.9	18	88	0	52	14	11	22	51	1.74
572831--573062	21	11.3	21	79	10	225	25	5	24	44	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572831--573062	41	5.6	42	76	12	232	25	5	24	44	1.75
572943--572995	18	3.0	17	83	8	70	11	9	26	52	1.67
573486--573677	21	9.7	18	78	12	79	46	26	4	22	1.71
573498--573565	33	2.1	33	94	0	118	51	19	5	23	1.68
573531--573681	42	3.5	42	87	3	230	43	27	3	24	1.72
573531--573691	65	2.5	64	89	4	243	44	26	4	24	1.72
581717--581756	2	20.0	2	100	0	80	0	50	0	50	1.00
582080--582387	16	19.7	15	87	7	351	39	12	3	43	1.61
582080--582387	32	9.9	32	86	5	425	39	12	3	43	1.61
582080--582387	48	6.6	47	87	8	441	39	12	3	43	1.61

Tables:   1   2   3   4   5