oyster.v9_M.fa.s12.2.7.7.80.10.50.500.1.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: scaffold198
Parameters: 2 7 7 80 10 50 500
Length:  1589021

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 568 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)
4329--4367	21	1.9	21	89	5	62	43	5	10	41	1.61
15227--15290	2	32.0	2	100	0	128	0	50	0	50	1.00
18116--18144	3	9.7	3	100	0	58	65	0	0	34	0.93
28388--28438	21	2.4	22	77	9	61	35	13	13	37	1.85
29305--29358	20	2.6	20	82	8	65	40	12	14	31	1.84
30121--30148	11	2.5	11	100	0	56	28	32	7	32	1.84
35470--35603	2	67.0	2	75	21	113	6	42	0	50	1.28
47636--47685	2	25.0	2	100	0	100	0	50	0	50	1.00
50786--50844	2	29.5	2	96	0	109	49	0	49	1	1.11
54758--54798	21	2.0	21	85	0	55	41	4	12	41	1.64
54860--54917	21	2.8	21	81	0	71	41	12	15	31	1.84
54960--55007	20	2.4	20	79	10	53	35	12	12	39	1.81
62228--62276	9	5.4	9	80	7	55	73	0	0	26	0.83
62236--62272	19	1.9	19	94	0	65	72	0	0	27	0.84
62270--62299	14	2.1	14	93	0	51	66	6	3	23	1.30
62843--62876	2	17.0	2	87	0	50	47	2	2	47	1.32
62876--62927	2	26.5	2	96	3	97	51	0	48	0	1.00
69628--69691	2	33.5	2	90	9	107	51	0	48	0	1.00
70122--70224	2	51.5	2	88	11	158	47	0	49	2	1.16
80437--80468	12	2.7	12	90	0	55	37	25	37	0	1.56
80437--80473	8	4.6	8	86	0	56	37	24	37	0	1.56
81242--81277	15	2.3	15	95	4	63	27	19	47	5	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
83952--84025	20	3.6	20	78	7	69	31	12	9	47	1.73
100537--100576	15	2.7	15	92	0	62	15	37	12	35	1.85
101556--101639	11	8.3	10	69	19	50	7	2	16	73	1.15
101556--101639	5	16.6	5	70	19	50	7	2	16	73	1.15
101556--101594	16	2.4	16	87	8	53	2	0	20	76	0.90
101568--101593	12	2.2	12	100	0	52	0	0	23	76	0.78
105766--105819	18	3.0	18	76	13	58	7	14	14	62	1.51
107855--107905	24	2.2	24	82	3	59	9	17	11	60	1.57
108834--108884	22	2.3	22	80	12	68	19	13	23	43	1.87
109799--109886	44	2.0	44	88	4	133	28	12	23	35	1.91
113140--113427	144	2.0	144	100	0	576	39	10	20	29	1.86
113463--113553	10	8.8	10	90	7	146	41	38	17	2	1.62
113463--113553	21	4.4	21	94	1	157	41	38	17	2	1.62
113463--113553	31	2.9	30	91	6	146	41	38	17	2	1.62
113537--113913	195	1.9	196	83	3	492	35	26	16	21	1.95
113813--113847	11	3.3	11	88	8	54	37	37	14	11	1.82
127420--127447	4	7.0	4	100	0	56	50	0	25	25	1.50
127535--127561	5	5.4	5	100	0	54	18	40	0	40	1.51
139025--139365	162	2.1	162	89	3	510	36	14	18	30	1.91
147490--147553	21	3.0	21	75	8	67	28	23	17	31	1.97
147490--147573	42	2.0	42	83	0	105	30	22	17	28	1.97
147501--147601	21	4.9	21	76	1	78	29	22	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
147626--147665	21	1.9	21	89	0	62	22	10	20	47	1.79
147679--147720	21	2.0	21	90	0	66	21	21	11	45	1.84
156063--156097	17	2.1	17	100	0	70	40	11	11	37	1.77
156557--156599	18	2.5	17	80	3	50	25	18	11	44	1.84
161541--161566	13	2.0	13	100	0	52	53	23	7	15	1.67
166221--167845	166	9.8	166	84	3	1943	39	15	15	30	1.88
166223--167845	332	4.9	332	89	2	2325	39	15	15	30	1.88
169107--169149	22	2.0	22	90	0	68	37	6	13	41	1.72
169117--169235	19	5.7	20	71	15	89	39	9	13	37	1.77
169118--169235	41	2.8	41	82	7	132	39	9	13	37	1.77
169130--169266	42	3.3	41	77	5	132	37	10	13	37	1.79
169288--169369	40	2.0	41	95	2	148	43	8	9	37	1.68
171676--171741	21	3.1	20	80	8	69	24	19	27	28	1.99
171547--171828	84	3.4	84	71	7	284	26	21	22	29	1.99
171534--171898	168	2.2	166	80	4	376	26	21	21	29	1.99
172332--172435	21	5.0	21	75	9	70	23	24	24	28	1.99
172322--172435	42	2.7	43	71	10	101	21	22	24	30	1.99
172403--172455	21	2.5	21	84	6	63	24	22	30	22	1.99
172930--173368	177	2.5	179	92	1	702	24	17	24	33	1.96
180236--180261	2	13.0	2	100	0	52	50	0	0	50	1.00
180263--180357	22	4.4	22	71	7	68	44	15	14	25	1.85
194042--194066	1	25.0	1	100	0	50	0	100	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
222161--222199	19	2.1	19	100	0	78	30	30	5	33	1.79
245918--245952	18	2.0	18	88	5	54	20	8	11	60	1.57
248384--248420	2	18.5	2	94	0	65	48	0	2	48	1.15
250628--250662	2	17.5	2	100	0	70	51	0	48	0	1.00
263688--263771	2	42.5	2	82	7	100	51	0	45	3	1.18
277078--277133	21	2.7	21	83	5	69	37	10	23	28	1.88
277160--277203	21	2.0	22	86	4	63	40	11	13	34	1.81
277543--277599	28	2.0	28	89	0	87	28	15	22	33	1.95
282914--282974	23	2.8	22	77	5	70	37	9	13	39	1.77
283000--283098	43	2.3	42	81	8	112	38	17	12	32	1.86
282940--283112	21	8.2	21	74	3	96	36	14	14	34	1.87
283000--283112	42	2.6	44	80	6	117	37	15	13	33	1.87
283211--283300	21	4.2	21	78	4	92	28	14	12	44	1.81
287733--288016	142	2.0	141	99	0	559	36	14	14	33	1.88
298503--298578	2	38.5	2	84	7	102	51	0	46	2	1.15
310947--311013	34	2.0	34	88	5	100	28	14	13	43	1.84
322784--322830	9	5.1	9	80	14	60	0	0	14	85	0.61
322784--322828	5	9.6	5	85	9	60	0	0	15	84	0.62
323892--323923	2	16.0	2	100	0	64	50	0	50	0	1.00
326684--326720	2	18.5	2	100	0	74	0	48	0	51	1.00
329881--329998	22	5.3	22	83	5	148	18	19	19	42	1.90
329881--329998	44	2.7	44	88	4	166	18	19	19	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
330157--330196	20	1.9	21	85	10	55	10	22	27	40	1.86
332733--332789	24	2.4	24	85	2	80	38	19	7	35	1.79
333286--335281	25	80.0	25	87	0	2519	20	20	14	43	1.87
339570--339620	24	2.1	25	92	3	86	27	15	11	45	1.81
347584--347623	18	2.3	18	95	4	73	52	0	0	47	1.00
350486--350517	13	2.5	13	94	0	55	21	28	31	18	1.97
352828--352852	13	1.9	13	100	0	50	40	8	4	48	1.51
356950--356991	22	1.9	22	95	0	75	19	19	30	30	1.96
360199--360268	21	3.3	21	66	6	61	21	20	24	34	1.97
363011--363049	17	2.4	16	87	8	53	20	28	23	28	1.99
363096--363145	16	3.1	16	88	5	73	22	30	12	36	1.90
363099--363145	17	2.8	17	90	3	69	21	29	12	36	1.91
367881--369391	438	3.5	437	96	1	2688	34	16	17	31	1.92
370167--371448	437	2.9	436	88	2	1844	36	16	17	29	1.92
375162--375243	26	3.2	26	92	0	128	36	8	19	35	1.82
388582--388609	13	2.2	13	100	0	56	42	0	39	17	1.50
389659--389691	2	16.5	2	100	0	66	0	48	0	51	1.00
396923--396959	10	3.7	10	92	0	65	2	40	0	56	1.13
405506--405564	21	2.8	21	76	10	66	30	13	15	40	1.86
405509--405576	21	3.2	20	78	12	57	29	14	16	39	1.88
405544--405605	29	2.1	29	88	5	90	25	20	16	37	1.93
409148--409209	7	9.8	6	74	22	56	0	1	14	83	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409146--409212	13	5.3	13	79	13	61	0	1	13	85	0.68
409145--409212	33	2.2	31	89	7	102	0	1	13	85	0.67
409149--409209	19	3.2	19	82	13	72	0	1	14	83	0.72
412304--412360	2	28.5	2	100	0	114	0	49	0	50	1.00
420311--420343	2	16.5	2	100	0	66	0	51	0	48	1.00
420868--420916	22	2.3	22	75	3	55	28	12	10	48	1.73
421406--421459	27	1.9	29	85	14	78	44	7	9	38	1.65
422431--422471	2	20.5	2	100	0	82	0	48	0	51	1.00
422548--422617	2	35.0	2	100	0	140	50	0	50	0	1.00
422974--423033	11	5.5	11	79	0	66	21	21	40	16	1.92

Tables:   1   2   3   4   5