oyster.v9_M.fa.s27.2.7.7.80.10.50.500.4.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: scaffold142
Parameters: 2 7 7 80 10 50 500
Length:  1252394

Tables:   1   2   3   4   

This is table  4  of  4  ( 420 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)
1046149--1046186	2	19.0	2	100	0	76	50	0	50	0	1.00
1046568--1046616	17	2.9	17	90	0	80	44	18	12	24	1.84
1047100--1047186	2	43.5	2	93	4	149	47	0	51	1	1.08
1051841--1051867	2	13.5	2	100	0	54	51	0	48	0	1.00
1057167--1057203	2	18.5	2	94	0	65	51	45	0	2	1.15
1065884--1065927	2	22.5	2	95	4	81	50	0	50	0	1.00
1071486--1071515	2	15.0	2	100	0	60	50	0	0	50	1.00
1075620--1075648	2	14.5	2	100	0	58	48	0	51	0	1.00
1082145--1082385	94	2.6	94	85	7	330	22	17	13	46	1.83
1082368--1082401	16	2.1	16	100	0	68	14	17	11	55	1.68
1083542--1083583	22	1.9	22	85	9	59	69	11	7	11	1.37
1086969--1087006	12	3.2	12	88	7	51	2	0	7	89	0.57
1086975--1087006	14	2.3	14	94	0	55	3	0	3	93	0.40
1090971--1091181	44	5.1	44	78	13	248	17	31	19	31	1.95
1091077--1091140	32	2.0	32	93	0	110	14	32	17	35	1.89
1091033--1091181	76	2.0	76	90	0	235	17	31	18	32	1.94
1091814--1091849	2	18.0	2	94	0	54	0	44	0	55	0.99
1107310--1107342	17	1.9	17	93	0	57	30	21	9	39	1.84
1107443--1107469	2	13.5	2	100	0	54	0	48	0	51	1.00
1109850--1109875	12	2.2	12	100	0	52	26	30	7	34	1.85
1113018--1113364	21	16.5	21	88	1	480	29	18	10	42	1.82
1113018--1113342	85	3.8	85	91	0	526	29	18	10	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1114438--1114469	16	1.9	17	93	6	57	75	0	15	9	1.05
1122213--1122378	59	2.7	61	91	5	255	21	18	21	39	1.93
1135795--1135995	92	2.2	92	80	8	214	27	13	20	37	1.91
1139578--1139607	1	30.0	1	93	0	51	3	0	96	0	0.21
1142093--1142124	16	2.0	16	93	0	55	34	21	0	43	1.53
1161460--1161498	14	2.8	14	84	0	51	30	7	7	53	1.57
1174088--1174166	32	2.4	32	93	2	140	25	17	29	27	1.98
1174204--1174232	11	2.6	11	100	0	58	27	20	17	34	1.95
1174283--1174307	13	1.9	13	100	0	50	28	16	24	32	1.96
1176124--1176302	39	4.6	39	98	0	340	12	17	30	39	1.87
1176124--1176341	78	2.8	78	90	1	258	14	16	29	39	1.88
1176124--1176341	117	1.9	117	86	1	312	14	16	29	39	1.88
1176126--1176380	117	2.2	117	81	2	271	15	16	29	39	1.89
1181457--1181487	2	15.5	2	100	0	62	51	0	0	48	1.00
1181806--1181837	11	2.9	11	95	0	55	37	18	18	25	1.94
1186024--1186056	16	2.0	17	94	5	59	48	15	36	0	1.45
1186673--1186707	16	2.2	16	100	0	70	37	20	5	37	1.76
1196720--1196749	15	2.0	15	100	0	60	66	6	20	6	1.38
1198591--1198688	33	2.9	34	86	10	130	23	27	17	31	1.97
1199735--1199764	2	15.0	2	100	0	60	0	50	0	50	1.00
1204966--1205013	24	2.0	24	95	0	87	25	18	16	39	1.91
1205315--1205339	13	1.9	13	100	0	50	8	12	16	64	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217636--1217677	18	2.3	18	87	4	57	21	4	4	69	1.26
1228360--1228399	17	2.4	17	95	4	73	37	17	15	30	1.90
1230411--1230449	16	2.4	16	86	0	60	0	28	38	33	1.57
1230463--1230915	172	2.6	172	94	1	784	29	19	15	35	1.92
1234675--1234728	2	27.0	2	100	0	108	50	0	0	50	1.00
1234996--1235059	31	2.1	31	100	0	128	34	31	10	23	1.89
1235050--1235097	20	2.3	21	85	3	71	52	20	12	14	1.74
1236914--1236950	13	2.7	15	80	20	53	32	0	0	67	0.91
1236920--1236950	13	2.4	13	100	0	62	32	0	0	67	0.91
1238490--1238575	20	4.3	19	67	20	59	34	16	16	32	1.91
1238489--1238616	30	4.2	30	88	3	177	31	18	17	32	1.94
1239599--1239736	51	2.7	51	96	0	249	23	20	34	22	1.97
1239776--1239949	58	3.0	58	95	0	312	25	26	25	22	2.00
1240199--1240372	58	3.0	58	95	0	312	25	26	25	22	2.00
1239671--1240515	423	2.0	422	100	0	1681	26	21	23	27	1.99
1251225--1251258	9	3.8	9	92	0	59	26	0	23	50	1.50

Tables:   1   2   3   4

The End!