genome.fa.s94.2.7.7.80.10.50.1000.2.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: Scaffold94
Parameters: 2 7 7 80 10 50 1000
Length:  2274668

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  2  of  13  ( 1461 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)
154388--154417	16	1.9	15	93	6	51	70	6	6	16	1.31
161065--161094	2	15.0	2	92	0	51	50	3	0	46	1.18
161061--161091	14	2.2	14	100	0	62	51	6	0	41	1.27
162076--162107	3	10.7	3	100	0	64	31	0	0	68	0.90
162149--162185	2	18.5	2	88	0	56	54	2	43	0	1.14
162268--162307	18	2.3	17	86	4	62	25	0	0	75	0.81
162682--162716	17	2.1	17	100	0	70	37	0	0	62	0.95
163896--163925	7	4.3	7	95	0	51	56	0	0	43	0.99
163976--164012	12	3.1	12	84	0	56	40	0	5	54	1.24
163975--164010	18	2.0	18	88	0	54	41	0	2	55	1.14
164646--164697	21	2.4	23	75	21	58	40	0	0	59	0.97
165603--165627	12	2.1	12	100	0	50	24	32	0	44	1.54
170720--170770	20	2.5	20	87	6	68	37	17	11	33	1.86
171327--172215	29	30.3	29	84	6	1039	22	17	31	28	1.96
171328--172211	293	3.0	290	88	4	1235	22	17	31	28	1.97
173443--173502	10	5.8	10	80	11	68	1	3	11	83	0.84
173465--173500	9	3.9	9	85	7	54	0	0	11	88	0.50
173454--173499	19	2.4	18	86	13	65	0	2	10	86	0.64
173454--173499	14	3.5	13	83	13	51	0	2	10	86	0.64
187501--187551	20	2.5	20	87	6	68	37	17	11	33	1.86
189050--189195	75	1.9	75	84	0	193	31	2	15	50	1.58
189132--189311	93	1.9	94	86	5	258	38	1	9	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
190417--190454	20	1.9	20	94	0	67	34	10	13	42	1.78
192089--192131	20	2.1	20	82	4	50	11	25	41	20	1.86
192569--192607	13	3.0	13	96	0	69	30	20	15	33	1.94
194689--194719	15	2.1	15	93	0	53	12	22	16	48	1.80
196508--196552	21	2.1	21	84	8	56	22	20	4	53	1.63
198444--198481	20	1.9	20	94	0	67	34	10	13	42	1.78
198537--198562	13	2.0	13	100	0	52	30	15	15	38	1.88
198516--198580	19	3.6	19	73	26	70	29	12	15	43	1.83
198516--198580	32	2.0	34	93	6	116	29	12	15	43	1.83
198654--198700	16	2.7	18	93	6	80	23	12	19	44	1.85
208384--208417	2	17.0	2	87	0	50	0	47	2	50	1.16
215627--215725	52	1.9	52	85	4	137	41	16	15	27	1.88
221422--221463	19	2.2	19	95	0	75	14	19	45	21	1.85
224088--224131	17	2.5	17	77	3	52	59	0	0	40	0.98
227285--227358	31	2.5	31	89	6	118	27	17	6	48	1.72
232014--232048	2	17.5	2	100	0	70	48	0	0	51	1.00
232454--232626	81	2.2	81	80	7	185	44	4	5	45	1.48
235643--235793	75	2.0	75	98	0	293	25	6	29	38	1.81
240538--240562	12	2.1	12	100	0	50	28	0	32	40	1.57
244788--244822	3	11.7	3	100	0	70	68	0	0	31	0.90
250338--250463	57	2.2	57	82	4	153	34	9	10	46	1.71
250367--250495	57	2.2	58	86	5	172	33	10	9	47	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
250514--250625	59	1.9	58	85	1	152	30	10	10	48	1.72
250530--250653	58	2.1	59	79	7	137	30	10	10	48	1.71
254453--254491	20	1.9	21	85	15	55	33	2	0	64	1.08
255984--256025	19	2.2	19	86	0	57	59	0	23	16	1.37
257674--257713	20	2.0	20	85	0	53	17	2	17	62	1.44
260046--260081	15	2.3	17	81	18	51	38	0	0	61	0.96
260165--260198	17	2.0	17	94	0	59	55	0	0	44	0.99
260580--260626	16	2.8	17	84	9	53	55	0	4	40	1.19
260600--260633	16	2.1	16	94	0	59	52	0	8	38	1.33
261037--261069	10	3.1	11	86	8	50	72	3	0	24	0.98
261073--261114	20	2.3	18	84	15	52	54	0	4	40	1.21
261142--261197	6	8.5	6	75	24	51	37	0	3	58	1.15
261146--261197	17	3.0	17	75	16	54	36	0	3	59	1.16
261332--261392	22	2.7	23	87	12	92	49	0	0	50	1.00
266346--266412	33	2.0	33	88	8	100	43	7	13	35	1.72
273233--273275	22	2.0	22	81	9	52	18	27	13	39	1.89
276965--276989	1	25.0	1	100	0	50	0	0	100	0	0.00
280082--280121	20	2.0	20	95	0	71	37	15	22	25	1.93
284447--284485	2	20.5	2	89	10	64	48	0	0	51	1.00
285036--285075	21	1.9	21	84	0	53	37	5	15	42	1.68
285903--285957	15	3.6	16	73	7	51	21	0	20	58	1.40
286032--286158	46	2.7	46	86	2	182	38	3	6	51	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
286046--286187	46	3.0	49	83	11	142	40	3	4	51	1.41
286214--286253	18	2.2	18	86	0	53	50	2	10	37	1.50
288440--288480	2	20.5	2	94	0	73	48	0	2	48	1.14
289519--289595	39	2.0	39	92	0	127	37	18	12	31	1.88
289648--289687	20	2.0	20	85	0	53	42	2	2	52	1.28
291292--291334	12	3.7	12	78	3	52	46	2	0	51	1.13
292507--292551	8	5.5	8	78	5	54	82	2	2	13	0.86
292963--293023	21	2.9	22	75	7	63	49	0	3	47	1.18
292963--293021	20	3.0	20	75	7	66	49	0	3	47	1.18
292963--293022	15	3.9	16	75	16	56	50	0	3	46	1.18
293395--293442	3	16.0	3	86	0	69	60	0	6	33	1.22
295001--295045	24	2.0	23	83	12	58	37	2	4	55	1.32
295629--295674	4	11.5	4	100	0	92	50	23	0	26	1.50
296469--296524	23	2.3	24	79	14	62	44	1	0	53	1.11
296927--296991	22	3.1	22	70	20	59	60	0	7	32	1.25
298493--298539	6	8.3	6	79	11	55	44	0	2	53	1.12
298568--298620	21	2.6	21	80	11	58	56	0	0	43	0.99
298570--298647	20	3.8	20	77	14	63	55	1	0	43	1.08
300026--300059	2	17.0	2	100	0	68	50	0	0	50	1.00
301368--301397	2	15.0	2	100	0	60	0	50	0	50	1.00
305613--305681	24	3.0	24	76	19	74	56	2	0	40	1.14
306155--306188	18	1.9	17	88	5	50	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
307037--307071	15	2.3	15	90	5	52	80	0	2	17	0.84
307031--307075	17	2.8	16	80	6	56	80	0	2	17	0.82
307032--307077	9	5.3	9	82	7	51	78	0	2	19	0.86
307031--307077	24	2.0	24	91	0	76	78	0	2	19	0.85
308097--308169	34	2.1	34	94	0	128	41	16	26	16	1.89
309165--309464	163	1.8	165	84	3	410	35	9	12	43	1.73
325497--325542	22	2.1	22	100	0	92	26	26	4	43	1.73
326211--326255	22	2.1	21	84	8	56	22	17	4	55	1.60
326202--326255	21	2.6	20	80	11	56	24	14	3	57	1.54
328137--328195	32	1.9	30	83	13	75	59	10	10	20	1.58
328475--328500	13	2.0	13	100	0	52	30	15	15	38	1.88
328455--328518	32	2.0	33	93	3	112	28	12	15	43	1.83
328455--328518	19	3.6	19	72	25	68	28	12	15	43	1.83
338545--338575	2	16.0	2	93	6	55	48	0	0	51	1.00
340978--341020	21	2.0	21	86	0	59	27	0	23	48	1.51
343678--343720	20	2.2	20	92	8	72	46	0	0	53	1.00
343826--343872	25	1.9	24	87	12	69	48	0	0	51	1.00
343827--343933	34	3.2	32	75	13	101	51	1	0	46	1.11
344029--344105	40	1.9	40	81	5	93	53	2	2	41	1.28
352151--352290	70	2.0	70	91	0	226	20	20	17	41	1.91
352223--352360	57	2.4	57	97	0	258	20	19	18	42	1.90
352104--352347	127	1.9	128	88	4	364	20	20	17	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
353007--353049	19	2.3	18	80	4	50	79	9	9	2	1.03
353009--353081	29	2.5	28	82	6	92	75	6	15	2	1.13
353186--353231	21	2.1	22	84	8	58	52	23	17	6	1.68
353190--353238	21	2.4	20	77	16	55	46	28	18	6	1.72
359237--359271	17	2.1	17	88	0	52	85	2	8	2	0.79
359560--359733	88	2.0	88	82	2	215	22	16	14	45	1.84
360565--360725	42	3.8	40	72	12	101	16	25	19	37	1.93
360600--360705	41	2.5	41	78	6	115	16	22	20	39	1.92
360816--361877	42	25.6	41	67	13	281	18	28	16	36	1.93
360856--361079	83	2.7	82	73	10	213	18	26	18	36	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13