oyster.v9_M.fa.s60.2.7.7.80.10.50.500.1.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: scaffold146
Parameters: 2 7 7 80 10 50 500
Length:  1000955

Tables:   1   2   3   

This is table  1  of  3  ( 254 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)
4773--4825	2	26.5	2	100	0	106	0	50	0	49	1.00
7237--7263	5	5.4	5	100	0	54	37	18	0	44	1.50
7236--7270	15	2.3	15	85	0	52	34	17	0	48	1.47
7447--7471	9	2.8	9	100	0	50	24	0	12	64	1.27
10701--10748	2	24.0	2	100	0	96	0	50	0	50	1.00
17125--17162	2	19.0	2	94	0	67	50	0	47	2	1.15
19081--19130	2	25.0	2	100	0	100	50	0	50	0	1.00
19350--19683	65	5.1	65	84	7	404	35	10	20	33	1.87
19350--19683	136	2.5	129	85	5	411	35	10	20	33	1.87
19749--19807	2	29.5	2	100	0	118	0	49	0	50	1.00
24021--24057	19	1.9	19	89	10	58	37	10	13	37	1.80
28531--28564	2	17.0	2	100	0	68	0	50	0	50	1.00
41930--41957	2	14.0	2	100	0	56	50	0	0	50	1.00
47549--47596	2	24.0	2	100	0	96	0	50	0	50	1.00
52042--52239	109	1.8	109	97	0	378	37	12	15	34	1.85
54478--54553	37	2.1	37	90	5	118	46	14	6	32	1.70
54942--54992	23	2.1	23	82	7	57	7	0	13	78	0.96
60751--60868	59	2.0	59	100	0	236	22	16	27	33	1.95
67217--67627	22	18.9	22	75	7	295	40	10	27	21	1.86
67240--67673	44	9.8	44	76	7	294	40	10	27	21	1.86
69500--69582	2	41.5	2	100	0	166	49	0	50	0	1.00
82928--83128	97	2.1	97	99	0	393	45	13	19	21	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
85067--85979	177	5.2	177	85	5	1105	22	16	25	34	1.95
85254--85293	19	2.1	19	90	0	62	22	2	37	37	1.68
85607--85653	19	2.5	19	82	3	60	21	4	36	38	1.73
85067--85979	352	2.6	354	85	4	1157	22	16	25	34	1.95
97213--97252	2	20.0	2	100	0	80	0	0	50	50	1.00
103103--103164	2	31.5	2	96	3	117	50	0	50	0	1.00
103936--103962	11	2.5	11	100	0	54	40	22	7	29	1.81
105494--105551	6	9.7	6	82	14	75	0	0	15	84	0.62
105492--105551	24	2.5	24	89	5	86	0	0	15	85	0.61
122766--122828	22	3.0	21	65	4	54	36	12	15	34	1.86
134760--134810	25	2.1	25	82	10	61	33	7	9	49	1.65
140927--140958	16	2.0	16	100	0	64	0	37	25	37	1.56
140984--141383	167	2.4	166	90	4	630	30	16	14	38	1.89
148518--148566	21	2.3	22	89	3	73	18	2	20	59	1.48
150883--150924	2	21.5	2	95	4	77	50	0	50	0	1.00
150923--150956	3	11.3	3	100	0	68	32	0	35	32	1.58
158969--159003	14	2.5	14	90	0	52	25	11	28	34	1.91
178176--178634	41	11.2	41	90	1	659	22	19	17	40	1.91
178704--179490	55	14.4	54	85	5	1028	20	8	21	49	1.75
178704--179489	165	4.8	165	92	2	1201	20	8	21	49	1.75
179778--179818	15	2.7	15	96	3	73	46	2	7	43	1.44
181969--182005	19	1.9	19	88	0	56	24	16	10	48	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
201786--201836	16	3.2	16	94	0	84	39	15	9	35	1.81
202425--202453	12	2.3	13	94	5	51	55	0	6	37	1.27
210206--210248	2	21.5	2	100	0	86	0	48	0	51	1.00
213669--213694	11	2.4	11	100	0	52	34	11	11	42	1.77
213772--213799	1	28.0	1	100	0	56	0	0	100	0	0.00
219504--219866	69	5.2	69	81	4	379	33	21	22	22	1.97
219504--219687	71	2.6	71	94	1	318	32	25	22	19	1.97
219502--219864	140	2.6	140	80	3	383	33	22	21	22	1.97
229563--230052	256	1.9	256	85	5	677	36	13	18	30	1.90
229825--230385	164	3.4	164	84	4	727	36	13	20	29	1.91
240569--241435	168	5.3	165	80	6	915	32	14	23	28	1.94
255135--255206	2	36.0	2	94	0	126	1	48	0	50	1.09
262568--262990	212	2.0	212	97	0	792	28	16	20	35	1.94
271232--271265	12	2.9	12	95	4	61	0	47	26	26	1.53
288494--288519	5	5.2	5	100	0	52	0	38	23	38	1.55
294134--294167	17	2.0	17	94	0	59	29	26	20	23	1.99
307184--307216	2	16.5	2	100	0	66	0	0	48	51	1.00
316049--316104	23	2.3	24	85	11	71	0	1	28	69	0.98
316054--316104	24	2.2	24	89	3	77	0	1	27	70	0.98
316142--316167	13	2.0	13	100	0	52	30	0	0	69	0.89
317916--317955	12	3.3	12	89	0	62	0	37	25	37	1.56
327474--327560	42	2.1	42	100	0	174	25	27	26	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
330551--330617	7	9.6	7	76	0	71	38	14	19	26	1.91
331132--331168	2	18.5	2	100	0	74	48	0	51	0	1.00
348651--348761	21	5.3	21	87	2	152	8	9	44	37	1.68
348651--348761	42	2.6	42	94	2	188	8	9	44	37	1.68
348651--348781	63	2.1	62	80	5	138	9	10	41	38	1.73
350673--350736	21	3.0	21	67	0	65	37	10	17	34	1.85
350736--350894	21	7.6	21	81	0	156	35	14	18	31	1.91
350738--350894	63	2.5	63	79	0	179	35	14	19	31	1.92
350985--351064	21	3.9	21	80	1	90	28	18	15	37	1.91
350985--351064	42	1.9	42	89	2	126	28	18	15	37	1.91
354149--354179	10	3.1	10	90	0	53	29	22	9	38	1.86
354266--354306	21	2.0	21	85	9	57	9	2	51	36	1.48
355601--355645	2	22.5	2	86	0	63	55	0	42	2	1.12
362002--362044	15	2.6	17	82	10	63	27	18	30	23	1.98
377362--377392	16	1.9	16	93	0	53	25	19	12	41	1.87
394324--394370	21	2.2	22	78	17	55	48	4	19	27	1.67
397691--397733	20	2.1	21	91	4	70	25	18	11	44	1.84
403659--403703	3	15.0	3	90	0	72	68	0	28	2	1.01
404646--404677	15	2.1	15	94	0	55	37	6	15	40	1.73
416408--416730	166	2.0	164	94	0	556	39	14	15	30	1.87
416856--417266	205	2.0	204	99	0	813	32	14	13	39	1.84
417917--417969	27	2.0	26	92	3	88	35	7	13	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422810--422862	22	2.4	22	90	0	79	28	3	18	49	1.65
423790--423819	2	15.0	2	92	0	51	50	3	0	46	1.18
433327--433354	2	14.0	2	100	0	56	0	50	0	50	1.00
434148--434188	2	20.5	2	94	0	73	51	0	46	2	1.14
438182--438219	3	12.7	3	100	0	76	34	31	0	34	1.58
446206--446245	15	2.7	15	88	7	55	50	5	2	42	1.37
447843--447904	24	2.5	25	77	12	65	48	19	14	17	1.81
447892--447941	25	2.0	26	96	4	93	44	20	6	30	1.75
458465--458916	171	2.6	170	96	1	814	29	19	15	36	1.92
468463--468539	38	2.0	38	94	0	136	33	10	14	41	1.80
475479--475737	23	11.3	23	89	1	394	33	9	29	26	1.88
475479--475781	69	4.4	69	86	1	392	34	10	28	26	1.90
487458--487536	21	3.8	20	75	9	77	25	34	18	21	1.96
487544--487916	142	2.6	142	92	1	615	27	21	15	35	1.94
488142--488261	64	1.9	64	98	0	231	47	15	17	20	1.83
488192--488289	52	1.9	52	89	8	157	42	18	19	19	1.89
491189--491469	140	2.0	141	92	2	467	34	15	14	36	1.87
507764--507801	2	19.0	2	100	0	76	0	50	0	50	1.00
519886--519931	2	23.0	2	100	0	92	0	0	50	50	1.00
520492--520555	14	4.2	14	77	16	56	1	3	12	82	0.85
520490--520556	5	13.4	5	78	12	66	1	2	14	80	0.90
520492--520555	36	1.9	31	84	15	83	1	3	12	82	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520503--520556	21	2.6	20	82	5	72	1	1	12	83	0.81
520497--520545	26	1.9	25	87	4	71	2	4	12	81	0.91
522621--522688	29	2.4	29	87	7	95	19	10	23	47	1.80
526146--526188	2	21.5	2	100	0	86	51	0	48	0	1.00
528252--528292	2	20.5	2	100	0	82	51	0	48	0	1.00
537256--537291	15	2.3	16	90	4	56	30	27	16	25	1.97
537256--537297	15	2.9	14	86	10	50	28	30	14	26	1.95
537404--537446	4	10.8	4	100	0	86	51	0	23	25	1.49
538938--538966	15	1.9	15	100	0	58	6	10	20	62	1.50
538886--539018	67	2.0	67	91	2	214	24	16	15	44	1.86

Tables:   1   2   3