oyster.v9_M.fa.s55.2.7.7.80.10.50.500.1.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: scaffold1267
Parameters: 2 7 7 80 10 50 500
Length:  1050379

Tables:   1   2   3   4   

This is table  1  of  4  ( 449 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)
22117--22150	15	2.2	16	89	5	52	26	8	2	61	1.40
25612--25646	11	2.9	12	87	12	54	57	22	11	8	1.61
29647--31034	21	65.0	21	83	3	1493	42	41	6	9	1.63
45177--45389	26	8.2	26	93	2	365	26	8	25	38	1.85
48596--48808	105	2.0	106	98	0	410	18	13	13	54	1.71
51589--51658	5	14.0	5	75	11	54	41	22	11	24	1.87
51589--51657	10	6.9	10	83	0	75	42	23	10	24	1.85
60524--60584	2	30.5	2	100	0	122	0	50	0	49	1.00
61894--61942	4	12.2	4	86	0	62	32	24	42	0	1.55
61894--61942	16	3.1	16	87	0	71	32	24	42	0	1.55
61895--61933	20	1.9	20	94	0	69	35	25	38	0	1.56
62210--62241	10	3.3	10	91	8	57	40	18	18	21	1.91
62209--62238	9	3.2	9	90	9	51	43	20	16	20	1.88
63905--64038	3	43.7	3	75	12	112	0	5	33	60	1.24
63909--64014	16	6.6	16	95	0	194	0	6	34	57	1.31
64620--64650	13	2.4	13	100	0	62	54	38	0	6	1.26
64767--65161	204	1.9	203	100	0	781	32	12	26	27	1.93
66165--66488	21	15.2	21	85	3	396	30	16	14	38	1.88
66165--66488	85	3.8	85	92	2	499	30	16	14	38	1.88
66165--66490	43	7.6	43	90	2	455	30	16	14	38	1.88
66779--66835	2	28.0	2	92	3	96	3	49	0	47	1.18
69368--69410	2	21.5	2	100	0	86	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70560--70599	2	20.0	2	100	0	80	0	50	0	50	1.00
72233--72279	2	23.5	2	100	0	94	0	51	0	48	1.00
74007--74032	1	26.0	1	100	0	52	0	0	100	0	0.00
79721--79787	2	33.5	2	100	0	134	49	0	50	0	1.00
80534--80558	11	2.3	11	100	0	50	0	0	8	92	0.40
81005--81166	40	4.1	40	80	7	188	33	7	12	45	1.71
81012--81166	79	1.9	80	83	3	197	33	7	12	46	1.69
81853--81881	13	2.2	13	100	0	58	17	31	20	31	1.96
87167--87262	4	24.0	4	100	0	192	50	0	25	25	1.50
89843--89880	11	3.5	11	88	0	58	39	26	23	10	1.87
90087--90221	11	12.0	11	73	4	92	48	25	14	11	1.78
90163--90221	13	4.8	13	86	12	81	54	25	13	6	1.64
90045--90266	80	2.8	79	86	8	312	45	24	14	15	1.83
90269--90293	11	2.3	11	100	0	50	8	8	48	36	1.62
108196--108250	12	4.6	12	81	0	74	27	5	52	14	1.63
109436--109462	3	9.0	3	100	0	54	0	33	0	66	0.92
117416--117728	168	1.9	168	94	0	554	29	19	18	32	1.95
117416--117771	168	2.1	167	89	1	516	30	17	18	32	1.95
119519--119544	2	13.0	2	100	0	52	0	50	0	50	1.00
119584--119648	2	32.5	2	100	0	130	0	50	0	49	1.00
120448--120493	22	2.1	22	100	0	92	34	13	13	39	1.83
129381--129414	12	2.9	11	87	12	50	50	2	0	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
131909--131970	2	31.5	2	85	3	72	0	40	0	59	0.97
132010--132050	2	20.5	2	100	0	82	0	48	0	51	1.00
134185--134443	113	2.3	113	98	0	500	34	27	16	21	1.95
137443--137647	112	1.8	113	93	1	358	24	14	17	43	1.86
165335--165384	2	25.0	2	100	0	100	0	50	0	50	1.00
165462--166292	416	2.0	415	98	0	1601	34	16	19	29	1.93
167757--167782	12	2.2	12	100	0	52	23	0	34	42	1.54
172331--172414	39	2.1	40	82	2	98	33	19	17	29	1.95
187857--187974	46	2.6	44	75	7	121	31	16	6	44	1.74
192628--192741	26	4.4	26	72	12	99	36	17	5	40	1.72
196792--196905	26	4.4	25	72	12	79	35	18	4	41	1.71
196792--196905	52	2.2	52	81	12	128	35	18	4	41	1.71
201147--201194	21	2.3	21	88	0	69	37	16	27	18	1.92
203056--203219	84	2.0	84	93	0	283	34	12	12	40	1.81
208669--208707	19	2.1	19	100	0	78	30	12	20	35	1.90
211348--211374	4	6.8	4	100	0	54	48	0	0	51	1.00
212310--212496	73	2.5	72	88	4	268	19	20	23	36	1.95
219535--219648	52	2.2	52	83	12	137	36	17	4	41	1.70
219535--219646	26	4.3	26	75	10	104	37	17	4	40	1.70
227013--227064	27	1.9	27	84	7	70	38	9	11	40	1.74
228461--228511	20	2.7	18	77	11	57	29	11	19	39	1.87
228632--228689	20	3.0	19	80	9	64	27	10	15	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
229511--229774	73	3.6	73	95	0	465	18	20	21	39	1.93
250903--251016	52	2.2	52	83	12	137	36	17	4	41	1.70
250903--251014	26	4.3	26	75	10	104	37	17	4	40	1.70
252826--252867	14	3.0	14	89	0	57	45	7	28	19	1.76
262666--262705	10	4.0	10	81	12	55	45	20	17	17	1.86
263704--263745	10	4.2	10	93	0	75	21	21	16	40	1.91
264009--264060	7	7.4	7	82	8	61	42	9	26	21	1.83
264009--264060	21	2.5	21	84	6	70	42	9	26	21	1.83
265429--265479	20	2.5	20	78	15	61	39	13	11	35	1.82
269001--269079	21	3.8	20	75	9	77	25	34	18	21	1.96
269087--269568	141	3.4	141	94	2	810	27	20	15	36	1.93
270012--270040	14	2.0	15	93	6	51	51	13	0	34	1.42
272950--273492	105	5.2	105	96	0	980	19	18	39	22	1.92
274526--274718	68	2.9	66	92	5	325	51	13	15	19	1.76
275822--275865	20	2.1	22	87	8	65	59	9	0	31	1.29
279283--279455	44	3.9	43	80	10	186	30	14	8	47	1.73
279275--279447	90	1.9	90	86	2	249	29	13	8	48	1.72
279820--279926	21	5.1	21	81	0	115	33	27	21	17	1.96
281597--281658	21	2.8	22	87	4	81	20	32	22	24	1.98
281652--281742	21	4.3	21	85	0	137	37	25	18	18	1.94
286533--286647	26	4.4	26	73	6	106	33	18	5	42	1.72
286533--286647	53	2.2	53	83	7	146	33	18	5	42	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294354--294415	21	3.0	20	83	4	70	40	17	25	16	1.90
296000--296181	44	4.1	43	75	9	152	31	14	8	45	1.75
296004--296165	87	1.9	87	85	2	227	29	13	8	48	1.72
296545--296630	21	4.1	21	86	0	109	38	25	19	16	1.92
296545--296630	42	2.0	42	88	0	127	38	25	19	16	1.92
298352--298418	21	3.2	21	95	0	125	37	23	20	17	1.94
299612--299673	2	30.5	2	96	3	115	50	0	48	0	1.01
300009--300059	2	25.5	2	95	0	93	0	47	0	52	1.00
304407--304432	11	2.4	11	100	0	52	50	19	15	15	1.79
308069--308113	19	2.3	20	88	3	65	26	31	33	8	1.87
308329--308357	10	2.9	10	100	0	58	20	10	48	20	1.79
308291--308407	43	2.7	42	84	5	128	26	11	35	26	1.90
308349--308407	21	2.8	21	80	12	75	30	11	32	25	1.92
308349--308418	21	3.3	21	77	15	74	31	12	30	25	1.93
308324--308407	42	2.0	41	88	2	114	29	10	35	23	1.89
317774--317833	8	7.5	8	80	0	57	35	25	38	1	1.66
317787--317834	4	12.0	4	81	0	51	31	25	41	2	1.67
317783--317833	12	4.2	12	84	0	66	33	25	39	1	1.67
335834--335883	21	2.4	21	86	0	64	48	12	12	28	1.76
346419--347415	496	2.0	495	99	0	1949	32	15	22	28	1.95
352609--352688	24	3.4	24	92	1	126	20	35	2	42	1.65
380097--380147	22	2.3	22	86	0	66	15	13	21	49	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380984--381031	18	2.7	18	74	3	53	27	22	14	35	1.93
381172--381234	4	15.8	4	100	0	126	50	23	0	25	1.49
384333--384404	21	3.4	21	87	11	94	19	27	15	37	1.92
389887--389919	16	2.1	16	100	0	66	24	24	21	30	1.99
392031--392373	172	2.0	171	100	0	677	38	11	13	35	1.82
411066--411117	21	2.5	21	87	6	70	44	15	7	32	1.75
411066--411124	21	2.8	21	84	5	57	40	16	10	32	1.82
414602--414639	2	19.0	2	100	0	76	0	50	0	50	1.00
414984--415025	12	3.6	12	83	3	50	38	7	19	35	1.79
419385--419421	16	2.3	15	86	13	56	27	16	32	24	1.96

Tables:   1   2   3   4