genome.fa.s431.2.7.7.80.10.50.1000.1.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

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: Scaffold431
Parameters: 2 7 7 80 10 50 1000
Length:  404915

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)
188--224	19	1.9	19	89	10	58	64	0	0	35	0.94
188--238	15	3.3	15	76	23	52	64	0	0	35	0.94
218--270	25	2.0	28	89	10	85	66	0	0	33	0.92
3330--3382	2	26.5	2	100	0	106	49	0	0	50	1.00
5537--5562	13	2.0	13	100	0	52	7	38	7	46	1.61
5603--5642	3	13.3	3	89	0	62	67	0	2	30	1.04
8171--8386	34	6.4	34	86	1	274	25	7	26	40	1.82
8171--8388	67	3.2	67	86	1	301	24	7	27	40	1.81
12797--13014	34	6.5	34	87	1	287	25	7	26	40	1.82
12797--13016	67	3.3	67	87	1	314	25	7	26	40	1.82
14623--14647	12	2.1	12	100	0	50	32	8	24	36	1.84
16551--16594	22	2.0	22	81	0	52	43	2	15	38	1.60
17901--17973	19	3.8	20	77	13	64	41	1	1	56	1.16
17913--17973	19	3.2	19	82	11	70	40	1	1	55	1.19
21764--21788	13	1.9	13	100	0	50	48	8	0	44	1.32
24673--24706	15	2.1	16	89	10	52	8	0	2	88	0.62
24753--24797	21	2.1	21	84	8	56	51	0	0	48	1.00
26007--26075	18	3.8	18	67	16	52	43	1	0	55	1.08
26357--26399	10	4.6	9	80	11	50	53	0	0	46	1.00
26357--26401	19	2.4	19	85	7	56	53	0	0	46	1.00
26333--26401	9	7.9	9	75	21	51	50	0	0	49	1.00
28742--28801	27	2.3	27	85	5	79	61	3	3	31	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30533--30573	18	2.2	19	91	4	66	19	2	2	75	1.03
30981--31035	17	3.4	17	70	25	55	54	0	1	43	1.10
42464--42584	52	2.3	52	97	0	224	28	18	18	34	1.94
42464--42604	52	2.7	51	90	4	212	30	17	18	33	1.94
42593--42617	13	1.9	13	100	0	50	36	16	16	32	1.90
42681--42705	13	1.9	13	100	0	50	32	16	16	36	1.90
42659--42725	33	2.0	33	88	0	98	40	13	11	34	1.81
43602--44220	49	12.7	49	87	2	876	29	18	26	25	1.98
44213--44324	33	3.5	32	89	7	174	19	16	35	27	1.94
44307--44882	34	17.4	34	80	12	557	32	12	33	20	1.90
44360--44882	131	4.0	126	79	14	516	33	12	33	20	1.90
44596--44840	61	3.9	61	89	5	321	30	13	35	20	1.91
44700--44812	27	3.9	27	81	15	145	24	15	37	22	1.93
44859--44941	30	2.8	30	81	5	96	31	16	26	25	1.97
45885--45923	13	3.0	13	84	0	51	2	5	7	84	0.84
53163--53283	52	2.3	52	97	0	224	28	18	18	34	1.94
53163--53303	52	2.7	51	90	4	212	30	17	18	33	1.94
53292--53316	13	1.9	13	100	0	50	36	16	16	32	1.90
53380--53404	13	1.9	13	100	0	50	32	16	16	36	1.90
53358--53424	33	2.0	33	88	0	98	40	13	11	34	1.81
54642--54716	20	3.8	20	80	3	80	40	12	13	34	1.81
54639--54716	40	2.0	39	87	2	111	39	12	12	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55275--55807	32	16.7	32	93	0	845	18	18	33	29	1.95
55790--56528	27	27.0	27	93	2	1172	27	14	34	23	1.94
55790--56528	82	9.0	81	91	2	1172	27	14	34	23	1.94
55790--56528	109	6.8	109	92	1	1194	27	14	34	23	1.94
58116--58176	30	2.0	30	96	0	113	27	26	18	27	1.98
64968--65042	20	3.8	20	80	3	80	40	12	13	34	1.81
64965--65042	40	2.0	39	87	2	111	39	12	12	34	1.82
65906--65949	18	2.5	18	88	3	63	56	2	0	40	1.11
66372--66416	17	2.6	17	86	6	56	37	0	0	62	0.96
67452--67483	11	2.8	12	90	9	57	0	15	0	84	0.63
67979--68015	11	3.5	11	82	17	51	35	0	2	62	1.10
67962--68041	27	3.0	27	75	14	85	41	0	2	56	1.13
67986--68024	21	2.0	21	85	10	55	38	0	2	58	1.12
68158--68201	14	2.9	15	80	10	54	54	2	0	43	1.12
71523--71565	19	2.4	18	81	11	52	46	0	2	51	1.13
72054--72094	19	2.1	19	86	4	55	75	2	0	21	0.92
72262--72296	11	3.1	11	88	8	52	37	0	0	62	0.95
72262--72297	18	2.0	18	89	10	56	36	0	0	63	0.94
74966--75025	26	2.4	25	83	5	68	40	0	1	58	1.08
78079--78144	15	4.4	16	76	17	63	69	3	0	27	1.03
78081--78163	27	3.1	28	75	17	79	69	2	0	27	1.00
78508--78534	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
80041--80235	53	3.6	52	85	11	186	33	9	3	53	1.48
80147--80246	30	3.5	30	67	20	88	37	8	3	52	1.46
80072--80235	53	3.0	54	95	1	285	34	8	3	53	1.47
80557--80636	32	2.4	32	85	10	99	51	0	1	47	1.08
80584--80637	17	3.3	17	69	25	53	55	0	0	44	0.99
81158--81192	17	2.0	18	88	5	54	45	0	11	42	1.40
81936--82004	21	3.3	21	80	17	81	57	1	0	40	1.07
81957--81999	13	3.2	13	87	9	52	60	2	0	37	1.10
81957--82017	6	8.7	7	80	19	58	57	1	0	40	1.08
81957--82017	14	4.4	14	78	21	58	57	1	0	40	1.08
84173--84225	22	2.5	22	84	9	65	47	0	0	52	1.00
84206--84246	18	2.3	18	80	15	50	46	0	0	53	1.00
84528--84561	17	2.1	17	94	5	61	47	0	0	52	1.00
85130--85169	20	1.9	22	90	10	66	22	7	5	65	1.38
85738--85767	2	15.0	2	100	0	60	50	0	0	50	1.00
86317--86368	2	26.0	2	100	0	104	50	0	0	50	1.00
86749--86810	21	2.9	21	75	20	65	51	1	4	41	1.33
87169--87238	27	2.6	27	80	12	74	52	0	1	45	1.09
88177--88247	20	3.6	19	79	7	70	35	9	14	40	1.79
91925--91981	27	2.1	27	87	6	80	52	0	0	47	1.00
91939--91987	22	2.3	21	80	16	57	53	0	0	46	1.00
92077--92146	11	6.1	11	75	15	70	67	1	0	31	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92075--92141	25	2.6	24	86	11	80	68	1	0	29	0.98
92417--92467	25	2.1	25	85	3	68	70	3	1	23	1.14
92733--92783	22	2.5	21	78	9	52	72	5	0	21	1.05
93540--93589	9	5.4	9	79	13	57	46	0	0	54	1.00
93518--93575	22	2.6	22	75	2	53	53	0	0	46	1.00
93617--93682	36	1.9	32	82	11	78	40	0	1	57	1.08
93632--93683	11	4.4	12	80	17	56	40	0	1	57	1.10
93655--93729	30	2.5	29	77	12	73	50	0	0	49	1.00
93868--93910	21	2.0	21	86	0	59	51	0	0	48	1.00
94105--94149	23	2.0	22	83	12	56	68	6	0	24	1.13
94338--94389	12	4.3	12	78	7	61	42	3	0	53	1.19
94337--94428	13	7.0	13	72	15	73	50	2	0	47	1.13
94376--94434	30	2.0	30	93	6	104	57	0	0	42	0.98
94735--94779	14	3.2	14	80	20	58	62	0	2	35	1.08
95650--95730	42	1.9	43	80	12	96	55	12	2	29	1.50
96169--96203	11	3.1	11	91	4	52	80	0	5	14	0.89
96169--96202	16	2.1	17	94	5	61	79	0	5	14	0.91
97594--97622	14	2.1	14	93	6	51	55	3	0	41	1.17
104228--104275	15	3.3	15	78	18	57	52	2	0	45	1.12
105177--105208	16	1.9	17	93	6	57	68	0	0	31	0.90
105970--106020	13	3.8	13	80	10	66	29	0	5	64	1.17
105969--106020	15	3.5	15	73	21	56	30	0	5	63	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
106194--106238	23	2.0	23	82	8	56	57	0	0	42	0.98
106838--106875	17	2.2	17	86	9	51	63	0	2	34	1.09
109786--109897	51	2.2	51	93	0	197	29	27	9	33	1.89
109833--110377	80	6.9	79	79	4	566	29	24	11	34	1.90
109665--110049	210	1.8	207	81	3	477	28	24	14	32	1.94
109833--110395	157	3.6	155	81	4	605	29	24	11	34	1.90
109833--110377	236	2.3	236	83	4	699	29	24	11	34	1.90
111396--111437	21	2.0	21	81	9	50	64	0	2	33	1.07
112645--112696	24	2.2	23	89	3	77	38	11	1	48	1.51
113172--113211	21	1.9	21	85	10	55	37	7	7	47	1.60

Tables:   1   2   3