genome.fa.s169.2.7.7.80.10.50.1000.1.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: Scaffold169
Parameters: 2 7 7 80 10 50 1000
Length:  2015121

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  1  of  14  ( 1635 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)
4496--4520	7	3.6	7	100	0	50	32	28	0	40	1.57
9177--9201	11	2.3	11	100	0	50	0	16	0	84	0.63
9586--9642	23	2.6	21	72	22	53	49	0	0	50	1.00
9614--9697	35	2.5	35	78	7	93	46	1	0	52	1.08
11327--11376	26	1.9	26	83	0	64	78	8	6	8	1.11
11321--11380	17	3.5	17	70	17	52	76	10	5	8	1.14
11854--11918	27	2.4	26	80	14	69	46	3	0	50	1.17
18287--18334	14	3.2	15	79	8	53	14	6	33	45	1.70
20715--20832	61	2.0	60	84	5	157	38	13	14	33	1.85
22026--22199	96	1.8	96	88	2	269	54	2	4	39	1.32
22026--22216	46	4.1	46	82	7	240	55	2	4	37	1.33
22088--22211	25	5.3	24	62	14	71	55	2	5	36	1.37
22026--22223	96	2.1	96	83	3	247	54	2	5	38	1.34
26133--26166	17	2.1	16	88	5	50	70	2	0	26	1.01
29656--29689	5	6.8	5	100	0	68	41	0	0	58	0.98
31155--31186	2	16.0	2	100	0	64	50	0	0	50	1.00
31845--31877	2	16.5	2	93	0	57	0	0	45	54	0.99
32625--32663	3	13.0	3	100	0	78	33	0	0	66	0.92
32854--32897	2	22.0	2	100	0	88	50	0	0	50	1.00
37287--37325	2	19.5	2	100	0	78	51	0	48	0	1.00
42298--42335	3	12.7	3	100	0	76	34	0	0	65	0.93
42918--43016	21	4.8	21	71	17	66	60	0	3	36	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43283--43359	27	2.9	27	82	7	95	50	22	5	22	1.68
43305--43370	27	2.4	28	80	10	82	60	15	3	21	1.48
56376--56436	32	1.9	32	83	3	79	24	9	13	52	1.70
65362--65439	40	2.0	40	81	0	93	39	11	11	37	1.78
69129--69185	23	2.5	23	88	0	87	42	8	8	40	1.67
72626--72665	2	20.0	2	94	0	71	50	2	0	47	1.14
73496--73551	7	8.0	7	89	0	76	30	25	25	19	1.98
77522--77820	150	2.0	149	91	1	483	36	16	18	28	1.92
79273--79595	160	2.0	160	100	0	646	40	18	12	28	1.87
83922--83946	12	2.1	12	100	0	50	8	8	32	52	1.60
86949--86978	10	3.0	10	95	0	51	0	66	0	33	0.92
88723--88752	2	15.0	2	100	0	60	50	0	0	50	1.00
94525--94549	12	2.1	12	100	0	50	60	0	40	0	0.97
94862--94909	2	24.0	2	95	0	87	50	2	0	47	1.12
96042--96072	15	2.1	15	93	0	53	0	19	9	70	1.14
96351--96396	11	4.2	11	79	20	51	63	2	0	34	1.07
105320--105361	21	2.0	21	90	0	66	30	2	16	50	1.58
110551--110615	25	2.7	24	79	9	62	53	0	0	46	1.00
110585--110634	23	2.2	23	85	7	66	52	0	0	48	1.00
110633--110685	22	2.4	23	81	9	65	58	1	0	39	1.09
110598--110676	18	4.4	18	68	25	60	54	1	0	44	1.08
110595--110694	53	2.0	53	86	9	147	57	2	0	41	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111735--111778	2	22.0	2	100	0	88	50	50	0	0	1.00
111778--111826	2	24.5	2	100	0	98	51	0	0	48	1.00
117080--117114	17	2.1	17	100	0	70	40	5	17	37	1.73
119702--119726	13	1.9	13	100	0	50	36	16	16	32	1.90
119789--119813	13	1.9	13	100	0	50	32	16	16	36	1.90
119768--119833	32	2.0	33	94	2	116	36	16	12	34	1.86
126185--126227	12	3.4	12	81	18	52	79	20	0	0	0.74
126189--126230	11	3.7	11	84	12	50	80	19	0	0	0.70
126193--126230	18	2.2	17	90	4	58	84	15	0	0	0.63
127637--127661	13	1.9	13	100	0	50	0	4	0	96	0.24
128282--128843	285	2.0	282	88	4	835	33	18	13	34	1.89
137732--137764	2	16.5	2	100	0	66	48	0	51	0	1.00
139721--139745	1	25.0	1	100	0	50	100	0	0	0	0.00
148757--148787	3	10.3	3	100	0	62	32	0	0	67	0.91
150956--151011	22	2.5	22	97	0	103	39	26	1	32	1.67
155439--155482	22	2.0	22	86	4	61	45	9	2	43	1.48
158089--158137	18	2.6	20	78	15	59	61	0	4	34	1.15
158089--158133	21	2.2	20	84	11	56	64	0	4	31	1.13
158155--158203	26	1.9	25	87	4	71	53	0	0	46	1.00
159463--159487	2	12.5	2	100	0	50	52	0	0	48	1.00
160647--160672	3	8.7	3	100	0	52	30	0	0	69	0.89
163158--163207	14	4.0	13	73	26	54	44	0	2	54	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
163154--163205	23	2.3	23	96	0	95	40	0	1	57	1.10
164075--164105	15	2.1	15	93	0	53	70	3	0	25	1.02
164654--164690	3	12.3	3	88	0	56	59	2	2	35	1.26
165036--165061	3	8.7	3	100	0	52	0	30	0	69	0.89
165640--165670	2	15.5	2	100	0	62	0	48	0	51	1.00
166207--166247	2	20.5	2	100	0	82	51	0	0	48	1.00
169496--169577	41	2.0	41	100	0	164	39	17	17	26	1.91
177576--177638	31	2.1	30	85	8	83	58	0	0	41	0.98
180351--180395	23	2.0	23	90	0	72	60	0	0	40	0.97
181411--181445	3	11.7	3	100	0	70	34	0	0	65	0.93
181531--181555	5	5.0	5	100	0	50	80	0	0	20	0.72
183007--183047	18	2.3	18	87	8	57	51	0	0	48	1.00
183270--183309	17	2.3	18	84	16	57	45	0	0	55	0.99
183323--183364	5	8.4	5	84	10	59	40	2	0	57	1.12
183306--183364	19	2.9	21	82	9	61	44	1	0	54	1.10
183323--183367	14	3.2	13	87	9	54	42	2	0	55	1.12
189133--189160	2	14.0	2	100	0	56	50	0	0	50	1.00
191725--191749	13	1.9	13	100	0	50	44	0	0	56	0.99
192679--192714	17	2.2	16	90	5	54	0	69	0	30	0.89
193031--193064	3	11.3	3	100	0	68	35	0	32	32	1.58
195577--195603	2	13.5	2	100	0	54	51	0	48	0	1.00
197660--197697	3	12.7	3	100	0	76	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
198677--198750	12	5.8	12	75	20	51	24	0	2	72	0.97
198725--198754	3	10.3	3	92	7	53	33	0	0	66	0.92
198679--198733	28	2.0	27	82	10	67	21	0	3	74	0.97
198683--198753	8	9.4	8	76	23	50	25	0	1	73	0.92
202931--202980	2	26.0	2	92	8	86	0	50	0	50	1.00
210662--210691	2	15.0	2	100	0	60	50	0	0	50	1.00
216827--216893	19	3.0	23	79	14	79	37	0	1	61	1.05
226783--226815	14	2.4	14	94	0	57	45	0	0	54	0.99
226779--226821	21	2.1	20	86	4	59	44	0	0	55	0.99
227093--227149	29	2.0	29	96	0	105	42	12	7	38	1.70
228444--228482	16	2.3	18	91	8	64	23	0	20	56	1.42
233886--233937	19	2.7	20	84	6	70	28	13	17	40	1.87
233886--233943	19	3.0	18	80	12	62	25	12	20	41	1.87
234626--234669	21	2.1	21	83	8	54	25	31	4	38	1.76
236472--236510	13	3.0	13	100	0	78	38	15	15	30	1.88
238589--238619	15	2.1	15	93	0	53	12	22	16	48	1.80
240423--240467	21	2.1	21	84	8	56	22	20	4	53	1.63
242682--242707	13	2.0	13	100	0	52	30	15	15	38	1.88
242662--242725	32	2.0	33	87	3	94	28	14	17	40	1.88
245405--245471	25	2.4	27	72	25	68	58	7	1	32	1.35
245956--245995	8	5.0	8	87	0	62	82	0	0	17	0.67
245961--246002	16	2.8	16	80	20	54	78	0	0	21	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
245977--246070	27	3.4	27	74	21	88	68	2	0	29	1.02
246397--246452	22	2.7	20	76	10	58	60	0	1	37	1.07
247119--247184	29	2.3	28	82	17	82	54	4	1	39	1.30
247278--247351	38	2.0	36	82	10	87	70	5	0	24	1.08
247771--247796	2	13.0	2	100	0	52	50	0	0	50	1.00
249262--249305	2	22.0	2	100	0	88	50	0	0	50	1.00
249585--249619	16	2.2	16	89	0	52	45	5	0	48	1.26
250183--250257	20	3.8	20	78	0	78	34	12	12	41	1.79
251165--251220	23	2.6	23	86	10	75	16	12	8	62	1.53
254528--254565	19	2.0	20	84	5	51	15	7	7	68	1.37

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14