oyster.v9_M.fa.s44.2.7.7.80.10.50.500.1.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: scaffold619
Parameters: 2 7 7 80 10 50 500
Length:  1099986

Tables:   1   2   3   

This is table  1  of  3  ( 300 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)
8451--8513	2	31.5	2	96	0	117	52	0	47	0	1.00
25118--25160	2	21.5	2	100	0	86	51	0	48	0	1.00
25240--25282	22	2.0	22	85	0	59	46	0	39	13	1.44
25266--25306	2	20.5	2	94	0	73	53	0	46	0	1.00
25120--25492	146	2.6	146	95	0	678	40	7	28	23	1.81
25412--25460	2	24.5	2	100	0	98	51	0	48	0	1.00
42749--42816	2	34.0	2	90	0	109	1	50	0	48	1.10
45168--45662	163	3.0	164	88	3	726	39	18	15	25	1.90
47889--47954	21	3.2	21	80	4	80	40	22	7	28	1.81
47988--48188	21	9.7	21	66	12	76	40	22	8	28	1.83
47980--48075	41	2.3	41	80	3	113	41	22	7	28	1.80
47895--48075	20	8.8	20	74	6	121	41	21	7	29	1.81
51698--51801	50	2.1	50	91	7	167	37	9	12	40	1.76
52645--52678	2	16.5	2	87	6	50	50	0	0	47	1.01
59978--60002	13	1.9	13	100	0	50	48	0	16	36	1.46
61105--62864	439	4.0	440	95	1	3071	36	16	14	33	1.88
67137--67286	2	75.0	2	93	0	255	0	46	1	51	1.14
83551--83639	33	2.7	32	84	6	115	43	15	13	26	1.84
88027--88057	12	2.5	13	94	5	55	9	0	0	90	0.46
88029--88068	17	2.3	17	91	4	62	12	0	5	82	0.82
90092--90172	42	1.9	42	85	5	110	23	13	17	45	1.84
90094--90346	20	11.8	20	73	13	143	33	14	18	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
90255--90346	24	3.9	24	85	7	118	36	16	15	31	1.90
90091--90482	22	18.1	21	73	13	201	33	14	17	34	1.90
90230--90482	64	3.9	64	78	11	205	35	15	15	33	1.89
90230--90477	43	5.7	41	80	9	203	35	14	16	33	1.89
91134--91193	21	2.8	22	79	5	68	36	13	10	40	1.78
91546--91879	22	15.4	22	74	12	237	32	17	15	33	1.92
91546--91879	44	7.7	43	77	10	288	32	17	15	33	1.92
91646--91879	64	3.6	64	80	8	233	32	17	15	34	1.92
91582--91881	64	4.6	64	75	13	224	32	17	16	34	1.92
91546--91882	42	7.8	42	73	10	225	32	17	15	33	1.92
92082--92197	58	2.0	58	96	0	214	27	13	27	31	1.94
96092--96345	136	1.9	135	85	6	325	32	11	11	44	1.75
109720--109774	2	27.5	2	96	0	101	0	49	0	50	1.00
111247--111648	200	2.0	200	100	0	804	35	16	15	32	1.91
118814--118873	2	30.0	2	100	0	120	0	50	0	50	1.00
119560--119658	21	4.8	21	96	1	173	29	22	5	43	1.74
119635--119724	43	2.1	42	83	6	110	36	13	11	38	1.80
119563--119703	64	2.2	63	83	5	169	32	19	6	41	1.76
119707--119800	21	4.2	21	83	12	125	43	5	22	28	1.75
120243--120276	17	2.0	17	88	0	50	29	44	5	20	1.75
120499--120567	21	3.3	21	87	0	102	34	17	7	40	1.77
120549--120637	42	2.1	42	87	4	126	37	12	13	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
120572--120687	21	5.6	21	75	4	83	36	8	15	39	1.78
120694--120747	21	2.6	21	93	0	99	29	24	3	42	1.72
120745--120817	20	3.6	20	90	1	110	43	5	19	31	1.73
124770--125149	48	7.8	48	89	4	519	23	23	15	37	1.93
135082--135128	17	3.0	15	79	11	58	44	12	10	31	1.77
137238--137273	9	4.1	9	85	7	56	0	11	0	88	0.50
137234--137275	10	4.2	10	87	6	59	0	11	0	88	0.53
137242--137274	17	1.9	17	100	0	66	0	9	0	90	0.44
137238--137274	17	2.1	19	90	10	60	0	10	0	89	0.49
143165--143211	4	11.8	4	90	0	76	27	23	0	48	1.51
150847--150872	1	26.0	1	100	0	52	100	0	0	0	0.00
150950--151572	172	3.6	172	96	0	1133	35	15	18	30	1.92
151581--151620	4	10.0	4	88	0	62	25	30	45	0	1.54
157603--157635	17	1.9	17	100	0	66	24	6	48	21	1.72
157675--157714	10	4.0	10	93	0	71	40	17	20	22	1.92
159234--159266	17	1.9	17	100	0	66	24	6	48	21	1.72
159306--159345	10	4.0	10	93	0	71	40	17	20	22	1.92
160959--160996	10	3.8	10	85	0	58	15	18	21	44	1.86
161068--161103	6	6.0	6	100	0	72	33	33	16	16	1.92
165282--165322	19	2.2	19	86	0	55	43	17	19	19	1.88
167207--167267	30	2.0	30	93	0	104	21	26	26	26	1.99
167224--167270	15	3.1	15	73	11	51	21	23	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
167597--167803	21	9.9	21	84	5	217	34	19	21	24	1.96
169042--169106	31	2.1	30	83	8	78	44	15	12	27	1.82
172088--172114	11	2.5	11	100	0	54	18	14	29	37	1.91
172178--172208	4	7.8	4	92	0	53	25	3	0	70	1.02
176134--176163	16	1.9	15	93	6	51	46	26	6	20	1.75
178196--178231	17	2.1	17	89	0	54	72	11	5	11	1.28
187511--187539	11	2.7	11	94	5	51	0	0	24	75	0.80
201004--201087	2	42.5	2	97	2	161	0	50	0	50	1.00
206009--206066	2	29.0	2	100	0	116	0	50	0	50	1.00
223925--224057	50	2.7	50	85	0	158	34	17	13	34	1.89
224232--224263	1	32.0	1	100	0	64	0	0	100	0	0.00
226440--226491	2	26.0	2	100	0	104	0	50	0	50	1.00
227082--227109	2	14.0	2	100	0	56	0	50	0	50	1.00
227918--227981	24	2.7	24	97	0	119	28	9	34	28	1.88
230537--230571	14	2.5	14	90	0	52	20	11	8	60	1.57
232234--232258	1	25.0	1	100	0	50	100	0	0	0	0.00
233935--234339	64	6.3	64	88	0	513	23	17	16	43	1.88
233935--234339	192	2.1	192	87	0	594	23	17	16	43	1.88
234425--234624	64	3.1	64	91	1	294	24	16	15	44	1.86
234142--234709	285	2.0	284	99	0	1127	27	16	13	42	1.86
236149--236175	14	1.9	14	100	0	54	0	11	0	88	0.50
238716--238774	21	2.8	21	81	0	82	18	18	27	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
239861--239897	19	1.9	19	88	0	56	43	16	21	18	1.88
252628--252664	19	2.0	19	89	5	58	75	0	8	16	1.02
256264--256656	197	2.0	196	100	0	777	31	23	19	25	1.98
267540--267576	18	2.1	18	89	0	56	45	21	5	27	1.73
275698--275730	15	2.2	15	94	0	57	21	21	27	30	1.98
275713--275843	57	2.3	58	82	5	167	23	22	19	34	1.97
276943--277008	4	16.8	4	88	3	89	0	30	25	43	1.55
277178--278694	166	9.1	166	92	1	2153	32	16	24	27	1.96
277178--278710	333	4.6	330	91	3	2194	32	16	24	26	1.96
277178--278694	499	3.0	496	89	4	2257	32	16	24	27	1.96
280818--280871	2	27.0	2	100	0	108	0	50	0	50	1.00
290281--290899	166	3.8	165	78	9	559	32	14	24	28	1.95
292436--292474	17	2.4	16	88	12	62	28	12	12	46	1.79
298651--298790	48	2.9	48	96	1	255	22	6	18	52	1.67
303336--303394	18	3.3	18	100	0	118	50	18	20	10	1.75
307421--307445	1	25.0	1	100	0	50	0	0	100	0	0.00
310714--310903	42	4.5	43	77	2	186	35	15	16	32	1.90
310949--311086	43	3.2	43	76	6	136	34	16	14	34	1.89
311027--311207	86	2.1	87	79	3	195	32	16	13	38	1.87
311097--311149	22	2.4	22	77	0	61	32	16	15	35	1.90
311181--311237	20	2.7	21	72	8	53	40	12	15	31	1.85
322564--322599	17	2.0	19	89	10	58	55	38	0	5	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324148--324186	16	2.5	16	87	4	53	33	35	12	17	1.88
334523--334552	13	2.3	13	100	0	60	46	0	0	53	1.00
338555--338593	2	19.5	2	100	0	78	0	51	0	48	1.00
342269--342299	2	15.5	2	100	0	62	0	48	0	51	1.00
346940--346984	15	2.8	16	83	10	56	17	31	13	37	1.89
347687--347717	16	1.9	16	93	0	53	19	29	9	41	1.83
350338--350440	2	51.5	2	96	0	188	0	48	1	49	1.12
366007--366044	15	2.5	15	95	0	67	57	10	15	15	1.64
369571--369619	2	24.5	2	100	0	98	51	0	48	0	1.00
377394--377452	2	29.5	2	100	0	118	49	0	50	0	1.00

Tables:   1   2   3