oyster.v9_M.fa.s43.2.7.7.80.10.50.500.1.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: scaffold1583
Parameters: 2 7 7 80 10 50 500
Length:  1104062

Tables:   1   2   3   

This is table  1  of  3  ( 312 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)
1647--1714	4	17.5	4	87	6	104	29	26	44	0	1.55
5779--5863	44	1.9	44	92	4	145	54	3	10	31	1.52
6014--6054	21	2.0	21	100	0	82	48	7	14	29	1.71
28218--28313	21	4.5	22	71	13	76	40	19	12	27	1.88
30670--30702	2	16.5	2	93	0	57	51	0	48	0	1.00
31132--31188	18	3.1	18	80	14	62	52	8	1	36	1.43
31364--31393	15	2.0	15	93	0	51	43	6	0	50	1.28
31398--31552	15	9.8	16	70	18	67	47	12	5	35	1.63
31415--31591	50	3.6	49	77	11	177	46	12	4	36	1.62
31503--31537	18	1.9	18	94	0	61	51	8	0	40	1.33
31398--31625	98	2.4	98	86	7	308	46	11	5	36	1.63
31462--31608	15	9.3	15	71	15	73	44	12	4	37	1.64
31584--31650	32	2.1	32	82	0	80	46	7	8	37	1.64
31851--31903	20	2.6	20	84	0	70	41	15	3	39	1.65
38382--38427	21	2.2	21	92	0	74	26	10	28	34	1.90
38424--38502	21	3.8	21	86	0	113	30	12	13	43	1.82
40104--40167	12	5.3	12	88	0	56	32	18	40	7	1.80
40105--40139	16	2.2	16	89	0	52	40	17	34	8	1.80
40128--40159	4	8.0	4	92	0	55	28	25	46	0	1.53
40112--40168	12	4.8	12	88	0	69	31	19	42	7	1.78
47858--48146	160	1.8	160	83	0	389	33	13	16	36	1.88
55758--55797	19	2.1	19	90	0	62	22	2	37	37	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55748--56306	177	3.2	177	85	2	728	23	16	26	34	1.95
57102--57151	15	3.4	15	91	2	75	36	4	12	48	1.59
57186--57248	33	1.9	33	87	6	92	36	4	12	46	1.63
57183--57317	15	8.2	15	70	16	56	38	5	11	45	1.62
65608--66023	36	11.2	36	81	6	427	37	24	9	28	1.86
65602--66024	72	5.7	72	84	6	490	37	24	9	28	1.87
65611--66023	114	3.7	111	79	5	406	37	24	9	28	1.86
65608--65951	150	2.3	150	94	0	598	37	24	8	29	1.85
67210--67297	21	4.2	21	80	2	97	32	17	29	20	1.95
67210--67297	42	2.1	42	85	4	115	32	17	29	20	1.95
67299--67424	21	6.3	21	67	17	70	42	16	18	22	1.88
67316--67536	36	6.0	36	76	5	158	40	17	19	23	1.91
67358--67536	72	2.5	72	85	0	241	40	16	19	23	1.91
92849--93043	94	2.0	97	87	5	279	37	17	15	29	1.91
96077--96115	18	2.2	17	90	4	60	43	41	0	15	1.46
108681--108786	54	2.0	53	85	7	142	16	20	50	13	1.78
109648--109753	54	2.0	53	85	7	142	16	20	50	13	1.78
111306--111366	24	2.8	21	79	13	68	44	9	3	42	1.54
114618--114656	2	19.5	2	100	0	78	0	51	0	48	1.00
125267--125341	37	2.0	37	100	0	150	28	26	13	32	1.94
132865--132915	15	3.4	15	68	10	50	23	27	27	21	1.99
132855--132928	30	2.5	30	97	0	139	22	25	25	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
133373--133458	43	2.0	43	100	0	172	20	27	25	25	1.99
136504--136743	36	6.7	36	75	5	191	29	19	23	28	1.98
136489--136743	72	3.5	70	74	9	219	28	18	24	28	1.98
136480--136743	108	2.4	108	73	2	251	28	18	23	28	1.98
137571--137656	5	17.4	5	73	11	70	55	20	17	5	1.62
137878--137920	2	21.5	2	100	0	86	51	0	48	0	1.00
138251--138300	3	16.7	3	91	0	82	36	30	0	34	1.58
141019--141046	14	2.0	14	100	0	56	28	14	28	28	1.95
141082--141330	21	11.9	21	89	0	372	37	14	6	40	1.72
141912--141953	21	2.0	21	90	0	66	45	7	11	35	1.69
142623--142742	30	4.0	30	96	0	222	43	29	4	23	1.72
151716--151765	2	26.0	2	92	8	86	52	0	48	0	1.00
151716--151765	21	2.4	21	100	0	100	52	0	48	0	1.00
164109--164157	24	2.0	24	84	7	64	71	2	6	20	1.18
167071--167103	15	2.2	15	100	0	66	36	6	21	36	1.78
168641--168745	52	2.0	51	96	3	201	42	11	15	29	1.81
181632--181694	32	2.0	31	87	3	90	36	14	9	39	1.78
181700--181934	32	6.9	32	79	12	229	44	14	4	37	1.64
181549--181892	106	3.2	106	76	6	300	43	13	5	37	1.66
181823--181852	13	2.3	13	100	0	60	40	13	6	40	1.71
181700--181934	67	3.5	64	81	11	220	44	14	4	37	1.64
187059--187122	30	2.1	29	83	11	76	28	9	18	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
200096--200144	2	24.5	2	100	0	98	0	48	0	51	1.00
200477--200519	22	2.0	22	100	0	86	27	20	27	23	1.99
200499--200626	53	2.4	54	85	2	168	28	27	24	19	1.98
200434--200719	129	2.3	126	85	3	369	27	29	23	18	1.98
200632--200965	53	6.3	53	78	9	297	29	29	20	20	1.98
200632--200984	105	3.3	103	75	11	300	28	30	20	20	1.98
206015--206080	31	2.1	31	88	0	96	28	10	16	43	1.81
206782--206859	32	2.5	31	85	6	95	24	10	17	47	1.79
210780--210819	13	3.0	14	78	14	57	55	12	7	25	1.63
231381--231519	40	3.5	40	82	7	165	33	7	34	24	1.84
233039--233068	1	30.0	1	100	0	60	0	100	0	0	0.00
245119--245166	16	3.0	16	96	0	87	43	25	22	8	1.81
248134--248291	76	2.1	76	95	0	280	29	25	8	36	1.85
285616--285653	2	19.0	2	94	0	67	52	0	47	0	1.00
286183--286619	145	3.0	145	98	0	847	36	16	11	36	1.84
289895--289927	13	2.6	13	95	4	59	21	9	12	57	1.62
291769--292176	135	3.0	135	89	0	600	25	23	24	26	2.00
292705--292739	16	2.2	16	94	0	61	22	22	22	31	1.98
293070--293118	20	2.5	20	80	16	57	40	4	12	42	1.61
293070--293119	10	5.0	10	77	15	50	40	4	12	44	1.60
293102--293134	15	2.2	15	94	0	57	24	0	18	57	1.40
293249--293287	20	2.0	19	90	5	60	46	10	0	43	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
304774--304838	2	32.5	2	100	0	130	49	0	50	0	1.00
304901--304931	2	15.5	2	100	0	62	48	0	51	0	1.00
308767--308800	9	3.9	9	84	7	52	0	0	11	88	0.52
308764--308802	17	2.4	16	88	12	62	0	0	10	89	0.48
318680--318716	19	1.9	19	94	0	65	35	5	8	51	1.55
325337--325420	16	4.8	16	72	21	69	27	22	22	27	1.99
325408--325534	68	1.9	68	86	3	184	34	11	9	44	1.74
326451--326526	16	4.5	16	79	12	89	23	27	25	23	2.00
327749--327807	2	29.5	2	96	0	100	54	0	45	0	0.99
333666--333718	26	2.0	26	96	0	97	37	11	20	30	1.88
347333--347376	22	2.2	21	84	15	58	4	18	2	75	1.09
365736--365779	22	2.2	21	84	15	58	4	20	2	72	1.13
381309--381352	2	22.0	2	100	0	88	50	0	50	0	1.00
390301--390341	2	20.5	2	100	0	82	48	0	51	0	1.00
390435--390462	2	14.0	2	100	0	56	50	0	50	0	1.00
397956--397991	15	2.4	15	90	0	54	13	2	13	69	1.30
411932--412081	74	2.0	74	94	0	264	44	14	10	30	1.78
415788--415905	33	3.6	33	97	0	218	19	25	15	39	1.90
417030--417080	24	2.1	24	96	0	93	50	21	13	13	1.76
422803--422927	8	17.1	7	69	21	62	29	15	44	11	1.81
422805--422870	22	3.0	22	80	4	71	30	15	43	10	1.80
422803--422913	14	7.6	14	71	19	50	29	16	44	9	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422827--422884	30	1.9	30	92	0	80	31	17	43	8	1.79
422857--422913	21	2.6	22	81	10	73	31	17	42	8	1.80
422857--422926	22	3.2	22	79	4	79	31	15	41	11	1.83
423561--423609	22	2.2	22	96	0	89	30	14	42	12	1.82
423642--423758	22	5.3	21	71	15	69	11	41	16	30	1.83
423677--423757	30	2.7	30	85	11	96	9	43	17	29	1.81
423657--423723	14	4.6	15	75	15	61	8	41	17	31	1.81
423715--423763	16	3.2	16	80	16	59	12	42	14	30	1.82
426804--426873	2	35.0	2	100	0	140	50	0	50	0	1.00
427123--427177	2	27.5	2	100	0	110	49	0	50	0	1.00

Tables:   1   2   3