oyster.v9_M.fa.s54.2.7.7.80.10.50.500.1.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: scaffold885
Parameters: 2 7 7 80 10 50 500
Length:  1053811

Tables:   1   2   3   

This is table  1  of  3  ( 264 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)
2107--2171	2	32.5	2	100	0	130	0	50	0	49	1.00
3214--3255	2	21.0	2	100	0	84	0	50	0	50	1.00
5517--5602	21	4.2	21	74	4	86	29	16	10	44	1.81
8487--8520	2	17.5	2	87	6	52	52	0	0	47	1.00
8488--8512	13	1.9	13	100	0	50	48	0	0	52	1.00
9404--9450	21	2.2	21	88	7	69	21	23	21	34	1.97
18880--18955	37	2.1	37	100	0	152	31	21	15	31	1.94
37422--37503	31	2.6	31	81	7	87	37	12	20	29	1.89
37557--37780	25	9.0	25	95	0	412	25	12	23	38	1.89
40299--40329	11	2.8	11	90	0	53	45	19	6	29	1.75
54228--54297	22	3.2	22	91	0	104	30	15	42	11	1.82
54221--54291	8	9.4	7	74	22	56	32	14	40	12	1.83
54221--54291	14	4.7	14	75	20	56	32	14	40	12	1.83
54237--54312	22	3.5	22	89	1	91	31	17	40	10	1.83
62559--62599	18	2.3	18	91	0	64	36	0	21	41	1.54
65501--65530	1	30.0	1	100	0	60	0	100	0	0	0.00
66844--66890	18	2.5	19	86	3	60	31	25	23	19	1.98
66844--66915	37	1.9	38	83	8	94	33	22	26	18	1.96
75192--75225	17	2.0	17	88	0	50	58	0	8	32	1.29
83317--83354	2	19.0	2	100	0	76	50	0	50	0	1.00
91822--91849	2	14.0	2	100	0	56	50	0	50	0	1.00
99817--99848	2	16.0	2	100	0	64	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)
120492--120525	10	3.5	10	88	8	52	55	2	0	41	1.15
137183--137231	2	24.5	2	100	0	98	0	48	0	51	1.00
137243--137275	14	2.4	14	100	0	66	30	0	12	57	1.35
140795--140840	2	23.0	2	100	0	92	50	0	50	0	1.00
141410--141463	2	27.0	2	100	0	108	0	50	0	50	1.00
158562--158599	2	19.0	2	100	0	76	50	0	50	0	1.00
161726--161760	3	11.7	3	93	0	61	0	62	0	37	0.95
163461--163517	2	28.5	2	100	0	114	49	0	50	0	1.00
168970--169017	17	3.1	17	72	27	61	41	10	10	37	1.74
173327--173418	21	4.4	21	83	0	94	26	16	18	39	1.91
173327--173418	42	2.2	42	90	0	139	26	16	18	39	1.91
173496--173612	21	5.7	20	77	4	117	34	22	15	28	1.94
173493--173612	61	1.9	63	84	3	163	33	21	15	30	1.94
173653--173707	21	2.6	20	80	2	56	32	14	12	40	1.84
173788--173877	21	4.3	21	75	8	67	41	16	14	27	1.87
177511--177535	13	1.9	13	100	0	50	0	0	20	80	0.72
177531--177617	40	2.2	40	85	0	111	6	0	55	37	1.27
178436--178494	2	30.0	2	96	3	111	50	0	49	0	1.00
190176--190261	4	21.5	4	95	0	100	50	9	40	0	1.35
198618--198642	1	25.0	1	100	0	50	0	100	0	0	0.00
199257--199294	14	2.8	14	81	18	53	21	7	0	71	1.11
199677--199720	2	22.0	2	100	0	88	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)
202588--202808	21	11.1	20	75	12	179	23	5	25	45	1.74
202636--202673	18	2.1	18	90	0	58	13	7	28	50	1.69
202761--202807	18	2.6	18	93	0	76	8	8	25	57	1.57
203507--204500	21	47.4	21	80	6	1016	44	23	6	25	1.77
214575--214823	44	5.7	44	88	1	367	31	18	10	38	1.86
240263--240289	14	1.9	14	100	0	54	44	25	0	29	1.54
243602--243718	53	2.2	53	82	10	139	48	22	10	18	1.78
243632--243724	26	3.5	26	74	8	80	48	24	8	18	1.76
244768--245092	175	1.9	170	90	3	515	36	18	16	29	1.92
247373--247405	16	2.1	16	94	0	57	21	30	3	45	1.67
253240--253301	30	2.1	30	93	6	108	29	14	9	46	1.76
254315--254376	30	2.1	30	93	6	108	29	14	9	46	1.76
259761--259805	3	15.0	3	80	0	54	35	6	0	57	1.25
259746--259787	18	2.3	18	88	8	59	38	9	0	52	1.34
263490--263601	42	2.9	36	79	14	143	35	13	15	35	1.86
276663--276758	2	49.0	2	95	4	178	0	51	0	48	1.00
278599--278625	11	2.5	11	100	0	54	0	7	0	92	0.38
282969--282999	16	1.9	16	93	0	53	38	25	35	0	1.56
295539--295594	2	28.0	2	96	0	103	0	48	0	51	1.00
297183--297265	2	41.5	2	95	0	148	2	48	0	49	1.14
310227--310267	2	20.5	2	100	0	82	0	48	0	51	1.00
309799--310735	467	2.0	466	99	0	1865	26	19	16	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310694--310742	2	24.5	2	100	0	98	0	48	0	51	1.00
316782--316817	16	2.1	17	90	10	56	44	16	11	27	1.82
316773--316814	9	4.9	9	80	11	52	47	16	11	23	1.80
319079--319113	15	2.4	14	95	4	61	8	0	0	91	0.42
320706--320734	12	2.3	13	94	5	51	10	0	89	0	0.48
322493--322528	18	1.9	19	88	5	56	25	19	5	50	1.69
323257--323292	18	1.9	19	88	5	56	25	19	5	50	1.69
327944--328446	161	3.1	160	83	1	621	36	19	14	30	1.91
329822--329848	14	1.9	14	100	0	54	51	0	7	40	1.30
330079--330112	16	2.1	16	88	0	50	50	14	14	20	1.78
344178--344308	5	25.4	5	79	16	135	57	19	16	6	1.60
344178--344308	20	6.3	20	86	8	167	57	19	16	6	1.60
344545--344592	2	24.0	2	100	0	96	50	0	50	0	1.00
345480--345512	2	16.5	2	100	0	66	0	51	0	48	1.00
345757--345882	5	25.4	5	77	16	120	5	15	21	57	1.58
345757--345871	20	5.6	20	84	7	151	5	14	21	58	1.56
352836--352875	21	1.9	21	89	0	62	30	17	12	40	1.86
353055--353111	21	2.7	21	83	0	69	40	10	22	26	1.86
357137--357217	4	20.2	4	100	0	162	50	0	24	24	1.49
358579--358653	4	18.8	4	100	0	150	50	0	25	24	1.49
373330--374315	436	2.3	435	88	2	1426	31	17	16	34	1.93
380097--380467	186	2.0	185	100	0	733	33	12	16	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390728--390876	49	3.0	49	100	0	298	37	22	16	24	1.93
399023--399910	166	5.3	166	90	4	1379	32	14	25	27	1.95
402352--402402	2	25.5	2	100	0	102	49	0	50	0	1.00
410653--410693	22	1.9	22	85	5	57	70	4	21	2	1.18
410699--410851	56	2.7	57	93	4	263	41	17	16	24	1.89
414038--414078	2	20.5	2	100	0	82	51	0	0	48	1.00
414770--414804	1	35.0	1	94	0	61	2	0	97	0	0.19
417400--417451	2	26.0	2	100	0	104	0	50	0	50	1.00
417781--417816	16	2.2	17	95	5	65	38	27	11	22	1.88
418664--418735	36	2.0	36	100	0	144	25	16	33	25	1.96
418753--418788	1	36.0	1	94	0	54	0	0	94	5	0.31
437279--437325	25	1.9	24	95	4	85	31	19	31	17	1.94
438309--438373	31	2.1	31	100	0	130	27	29	21	21	1.99
447244--447461	115	1.9	119	95	4	399	31	15	11	41	1.83
454389--454429	21	1.9	23	85	14	61	41	7	4	46	1.53
460941--460975	18	2.0	17	88	5	52	48	11	5	34	1.63
461829--461892	2	32.0	2	100	0	128	0	50	0	50	1.00
463068--463128	2	31.5	2	91	6	99	52	0	45	1	1.10
470799--470862	2	32.5	2	96	3	121	0	51	0	48	1.00
474202--474252	2	25.5	2	100	0	102	0	50	0	49	1.00
474946--475125	72	2.5	72	90	1	272	25	21	27	25	1.99
477224--477274	2	26.0	2	88	4	77	0	47	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487462--487524	19	3.3	18	72	12	54	1	0	47	50	1.10
487459--487524	21	3.3	20	80	14	66	1	0	46	51	1.10
487589--487629	18	2.3	18	80	20	50	9	2	43	43	1.50
487604--487652	21	2.3	21	89	0	71	6	2	40	51	1.38
487625--487695	15	4.8	14	75	17	63	1	4	39	54	1.28
490368--490403	2	18.0	2	100	0	72	0	50	0	50	1.00
492337--492470	63	2.1	63	98	0	259	17	19	13	49	1.80
492911--494338	437	3.3	437	95	0	2579	37	15	16	30	1.90
500596--500652	21	2.7	21	81	8	62	15	21	5	57	1.57
505655--505691	2	18.5	2	100	0	74	0	48	0	51	1.00

Tables:   1   2   3