oyster.v9_M.fa.s18.2.7.7.80.10.50.500.2.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: scaffold1179
Parameters: 2 7 7 80 10 50 500
Length:  1367275

Tables:   1   2   3   4   

This is table  2  of  4  ( 402 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)
292098--292169	36	2.0	36	91	0	117	33	11	18	37	1.86
293993--294037	12	3.8	12	79	2	56	86	13	0	0	0.57
293993--294034	14	3.1	14	86	3	50	88	11	0	0	0.53
299015--299072	2	29.0	2	100	0	116	0	50	0	50	1.00
300234--300309	27	2.8	27	82	7	84	48	14	9	27	1.74
301087--301188	54	1.9	53	86	6	143	47	16	8	27	1.76
301501--301534	4	8.2	4	96	3	59	23	0	2	73	0.97
304000--304025	1	26.0	1	100	0	52	0	0	100	0	0.00
307466--307504	2	19.5	2	100	0	78	48	0	51	0	1.00
308178--308216	21	1.9	20	85	15	53	28	12	0	58	1.34
310889--310958	2	35.0	2	100	0	140	50	0	50	0	1.00
320033--320081	18	2.7	18	84	6	55	55	0	42	2	1.11
325492--325545	2	27.0	2	100	0	108	0	50	0	50	1.00
326254--326278	13	1.9	13	100	0	50	56	8	4	32	1.47
330209--331078	166	5.3	166	89	4	1300	32	16	24	26	1.96
334778--334809	15	2.1	15	94	0	55	46	0	15	37	1.46
340581--340812	22	10.7	22	72	9	118	34	14	20	30	1.93
340582--340812	85	2.7	85	77	2	239	34	14	20	30	1.93
344161--344222	29	2.1	29	90	0	97	27	9	22	40	1.85
351375--351407	11	3.0	11	95	0	57	36	21	9	33	1.85
351360--351414	29	1.9	28	88	3	83	43	20	9	27	1.81
352109--352141	11	3.0	11	95	0	57	36	21	9	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352094--352148	29	1.9	28	88	3	83	43	20	9	27	1.81
359617--359651	16	2.2	16	89	0	52	37	14	14	34	1.86
361251--361276	13	2.0	13	100	0	52	38	23	15	23	1.92
362504--362543	2	20.0	2	100	0	80	0	50	0	50	1.00
362708--362748	2	20.5	2	100	0	82	48	0	51	0	1.00
367003--367081	40	1.9	41	82	10	99	44	3	24	27	1.71
367085--367427	42	8.2	42	92	2	550	26	9	30	33	1.87
368203--369811	44	35.8	44	77	10	1156	30	21	28	19	1.97
368203--369811	132	11.9	132	76	10	1281	30	21	28	19	1.97
374136--374270	52	2.6	51	82	5	153	28	9	41	20	1.84
375503--375670	33	5.1	33	92	0	264	45	8	10	36	1.68
385201--385263	2	31.5	2	100	0	126	0	50	0	49	1.00
392057--392137	2	40.5	2	100	0	162	0	49	0	50	1.00
395881--396260	189	2.0	190	96	1	710	36	14	16	32	1.90
398002--398047	4	11.8	4	90	4	76	0	45	26	28	1.54
417189--417234	23	2.0	23	86	0	65	56	2	2	39	1.24
418738--418774	11	3.4	11	84	0	56	27	13	0	59	1.35
426237--426270	17	1.9	18	88	5	52	64	2	0	32	1.08
432375--432434	2	30.0	2	100	0	120	0	50	0	50	1.00
432804--432846	14	3.1	14	96	0	77	27	6	13	51	1.67
439370--439414	2	23.0	2	95	4	83	48	0	51	0	1.00
439719--439775	2	28.5	2	100	0	114	0	49	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439816--440011	70	2.8	70	85	0	266	42	10	17	29	1.83
441387--441432	20	2.3	20	78	17	51	50	13	13	23	1.76
441393--441435	21	2.0	21	91	8	70	44	13	16	25	1.85
441486--441532	20	2.4	19	83	13	60	34	8	21	36	1.84
447292--447368	40	1.9	40	97	0	145	49	14	12	23	1.78
451465--451489	9	2.8	9	100	0	50	12	12	24	52	1.72
454706--454746	20	2.0	20	95	0	73	29	7	9	53	1.60
454708--454757	11	4.7	11	76	16	52	30	6	8	56	1.52
456233--456278	21	2.1	22	92	8	76	32	10	4	52	1.56
459032--459056	9	2.8	9	100	0	50	68	0	0	32	0.90
459116--459151	4	9.0	4	100	0	72	75	25	0	0	0.81
459408--459443	16	2.2	16	95	0	63	22	13	27	36	1.92
460151--460200	16	3.1	16	85	2	64	36	12	30	22	1.90
460248--460297	15	3.1	15	85	8	55	28	22	28	22	1.99
462590--463041	25	18.0	25	78	12	437	45	17	19	17	1.85
462590--463041	123	3.6	124	81	9	483	45	17	19	17	1.85
462621--463041	148	2.8	147	88	4	569	45	17	19	18	1.86
465182--465226	2	22.5	2	95	0	72	53	0	46	0	1.00
465176--465219	14	3.1	14	90	3	61	59	0	38	2	1.10
472460--472518	30	2.0	30	93	0	100	10	22	40	27	1.85
482341--482366	13	2.0	13	100	0	52	53	15	0	30	1.42
484686--484733	18	2.6	17	78	12	51	37	10	20	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485605--485669	2	32.5	2	93	0	112	50	1	47	0	1.10
485832--485887	27	2.1	27	100	0	112	25	19	28	26	1.99
489758--489792	18	1.9	18	88	0	52	48	28	5	17	1.69
492175--492655	60	8.0	60	90	0	593	38	16	19	24	1.92
494790--494825	18	2.0	18	94	0	63	33	2	25	38	1.70
496897--496938	2	21.0	2	100	0	84	0	50	0	50	1.00
497236--497290	2	27.5	2	100	0	110	0	49	0	50	1.00
498090--498842	28	27.0	28	94	0	1235	45	24	7	22	1.77
498793--498839	14	3.4	14	71	11	51	44	29	8	17	1.78
499167--499862	31	22.7	30	79	7	620	35	16	9	37	1.82
499167--499861	123	5.7	123	76	8	553	35	16	9	37	1.82
499167--499862	154	4.5	154	89	3	980	35	16	9	37	1.82
502116--502246	55	2.4	56	87	6	178	30	20	23	25	1.99
503735--503865	55	2.4	56	87	6	178	30	20	23	25	1.99
504512--504559	24	2.0	24	100	0	96	20	0	29	50	1.49
505634--505678	2	22.5	2	100	0	90	51	0	48	0	1.00
509215--509349	51	2.6	51	97	0	252	32	36	14	17	1.89
509606--509740	51	2.6	51	97	0	252	32	36	14	17	1.89
509072--509854	391	2.0	390	99	0	1557	29	29	21	19	1.97
515290--515358	2	34.5	2	100	0	138	0	50	0	49	1.00
515363--515398	12	3.0	12	83	0	54	33	13	0	52	1.41
526557--526656	45	2.2	45	89	0	155	36	15	19	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526604--526742	56	2.5	56	89	0	215	38	15	15	29	1.89
527956--527992	14	2.6	15	83	8	51	0	32	2	64	1.07
528708--528851	78	1.8	78	83	2	191	39	12	13	34	1.82
542633--543184	302	1.8	302	92	1	924	28	16	22	32	1.96
545823--546179	54	6.7	53	76	7	310	32	19	22	24	1.97
545814--546162	109	3.2	109	89	3	526	32	19	22	25	1.98
545924--546073	51	2.9	52	78	6	178	33	20	22	24	1.97
564311--564667	54	6.7	53	76	7	310	32	19	22	24	1.97
564302--564650	109	3.2	109	89	3	526	32	19	22	25	1.98
564412--564561	51	2.9	52	78	6	178	33	20	22	24	1.97
574296--574355	29	2.1	29	87	0	84	38	15	8	38	1.77
576059--576228	40	4.3	40	80	8	195	34	30	4	31	1.78
575973--576135	87	1.9	88	87	6	242	30	31	4	33	1.79
578618--578936	40	8.2	40	72	9	214	34	30	6	28	1.83
579344--579889	180	3.0	180	92	0	941	36	17	15	30	1.91
580774--581266	43	11.2	42	76	13	422	24	24	11	38	1.89
580774--581266	86	5.6	85	79	10	476	24	24	11	38	1.89
581115--581182	21	3.2	21	62	25	52	20	27	10	41	1.85
580774--581236	228	2.1	214	82	7	552	25	25	11	38	1.88
587943--587976	2	17.0	2	100	0	68	50	0	50	0	1.00
590196--590226	10	3.1	10	90	0	53	61	25	0	12	1.32
590198--590254	25	2.2	25	81	9	62	56	29	1	12	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593792--593818	14	1.9	14	100	0	54	74	0	18	7	1.05
594080--594158	24	3.3	24	92	0	131	24	29	22	24	1.99
594187--594263	36	2.1	37	90	2	120	42	16	19	20	1.89
595796--595948	2	77.0	2	89	1	227	2	45	2	49	1.30
596318--596390	3	24.3	3	100	0	146	34	32	0	32	1.58
604100--604147	22	2.2	22	81	7	53	31	14	45	8	1.74
604170--604232	22	2.9	22	80	2	65	11	42	17	28	1.83
606422--606465	4	11.0	4	85	0	61	4	25	22	47	1.70
606492--607121	167	3.8	168	86	4	848	28	16	15	39	1.90
606492--607121	333	1.9	333	87	3	921	28	16	15	39	1.90

Tables:   1   2   3   4