genome.fa.s253.2.7.7.80.10.50.1000.3.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: Scaffold253
Parameters: 2 7 7 80 10 50 1000
Length:  2064896

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

This is table  3  of  13  ( 1496 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)
236359--236612	34	7.5	33	86	4	337	41	25	7	25	1.81
236359--236612	102	2.5	101	87	1	375	41	25	7	25	1.81
238494--238676	34	5.4	34	83	3	217	40	24	8	26	1.83
240355--240795	230	1.9	229	91	1	715	38	9	6	45	1.63
240789--240849	32	1.9	32	86	6	88	47	1	1	49	1.21
240785--240910	67	1.9	64	81	10	148	42	3	0	53	1.22
241457--241504	17	2.8	17	78	12	53	62	0	0	37	0.95
241869--241939	21	3.5	20	67	19	58	54	0	0	45	0.99
242900--243024	5	25.2	5	64	16	55	57	0	0	41	1.04
242900--243023	16	7.3	16	70	14	63	58	0	0	41	1.04
242920--243030	26	3.9	26	71	22	64	55	0	0	43	1.05
243408--243435	9	3.1	9	100	0	56	21	0	0	78	0.75
243401--243457	25	2.3	25	75	0	60	33	0	3	63	1.12
249491--249538	14	3.5	14	77	5	53	64	25	2	8	1.32
250078--250103	2	13.0	2	100	0	52	50	0	50	0	1.00
251319--251353	17	2.1	17	88	0	52	42	0	0	57	0.99
251336--251375	20	2.0	20	85	9	55	50	0	0	50	1.00
252218--252262	21	2.1	22	84	8	58	44	0	2	53	1.13
253101--253178	26	3.0	25	80	17	72	55	1	1	42	1.16
253287--253330	22	1.9	24	86	9	65	43	2	2	52	1.26
253281--253337	24	2.5	21	81	13	60	42	3	1	52	1.28
256627--256723	8	12.4	8	69	16	60	38	4	1	56	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
257318--257517	103	1.9	103	89	2	312	42	11	4	43	1.59
258461--258511	3	17.0	3	95	0	93	33	0	1	64	1.05
260162--260195	16	2.1	16	88	0	50	29	0	0	70	0.87
261536--261571	8	4.5	8	92	0	63	25	0	0	75	0.81
261783--261923	45	3.1	45	85	2	203	33	0	10	56	1.34
261983--262038	22	2.5	22	80	8	69	41	1	0	57	1.09
262626--262716	41	2.1	43	78	15	100	46	4	0	49	1.22
263143--263169	2	13.5	2	100	0	54	48	0	0	51	1.00
264587--264625	19	2.1	19	95	0	69	15	17	33	33	1.92
267307--267350	23	1.9	23	85	0	61	15	0	13	70	1.17
268680--268704	13	1.9	13	100	0	50	56	4	0	40	1.18
269416--269452	13	2.8	14	84	8	51	48	0	2	48	1.15
269447--269493	18	2.8	18	87	9	64	57	0	0	42	0.98
269587--269654	15	4.6	14	75	17	57	51	0	1	47	1.09
269589--269623	17	2.1	18	89	10	56	62	0	2	34	1.10
269591--269654	9	7.0	9	76	15	51	51	0	1	46	1.10
269590--269654	5	14.0	5	76	15	50	52	0	1	46	1.10
269608--269648	19	2.2	19	91	4	66	48	0	0	51	1.00
270013--270055	22	2.0	22	100	0	86	46	25	0	27	1.53
270016--270063	22	2.2	22	92	0	78	50	20	0	29	1.49
273382--273427	20	2.3	20	84	0	56	34	4	47	13	1.62
273505--273574	27	2.5	28	84	13	92	44	24	7	24	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
277953--277998	20	2.3	20	84	0	56	34	4	47	13	1.62
279806--279859	28	1.9	28	92	0	90	22	20	22	35	1.96
280320--280383	33	1.9	33	87	0	92	46	17	18	17	1.84
280723--280756	17	2.0	17	100	0	68	29	0	0	70	0.87
287501--287646	34	4.1	35	71	20	103	53	0	2	43	1.20
287510--287641	72	1.9	70	90	3	210	53	0	3	42	1.21
287595--287692	17	6.1	17	65	20	66	48	1	1	48	1.14
287667--287723	26	2.2	26	78	6	62	57	0	0	42	0.98
290000--290051	22	2.4	22	87	3	70	46	0	0	53	1.00
290247--290280	13	2.6	13	85	0	50	47	0	0	52	1.00
290598--290622	3	8.3	3	100	0	50	0	32	0	68	0.90
296134--296167	17	2.1	17	88	5	52	8	11	2	76	1.12
299126--299172	23	2.0	24	84	8	62	51	0	0	48	1.00
299212--299254	23	2.0	21	81	9	50	39	9	2	48	1.48
305918--305956	20	1.9	20	84	5	51	38	0	7	53	1.30
306575--306620	22	2.1	22	84	8	58	71	0	0	28	0.86
306582--306630	22	2.3	22	78	3	55	69	0	4	26	1.06
306918--307006	24	3.7	23	69	22	65	58	0	1	40	1.05
308371--308403	14	2.4	14	94	0	57	60	6	3	30	1.36
308453--308525	28	2.5	30	80	14	82	56	1	0	42	1.08
308503--308541	14	2.8	14	84	11	53	56	0	0	43	0.99
308860--308884	12	2.1	12	100	0	50	32	24	0	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310563--310607	19	2.4	18	85	10	63	40	4	4	51	1.42
311266--311299	15	2.4	15	90	9	54	52	0	0	47	1.00
312658--312716	24	2.4	25	77	8	68	59	3	6	30	1.40
312753--312793	18	2.4	18	84	11	52	63	0	0	36	0.95
313905--314016	41	2.8	39	72	6	107	52	0	0	46	1.06
314425--314482	23	2.7	21	79	10	71	46	0	0	53	1.00
314423--314491	21	3.2	21	78	8	75	44	0	0	55	0.99
314498--314536	17	2.4	17	82	4	53	43	0	0	56	0.99
314655--314703	17	2.8	18	81	3	55	20	2	2	75	1.00
315017--315120	29	3.4	30	67	21	74	56	0	0	43	0.99
314970--315102	61	2.1	62	80	10	144	53	0	1	45	1.09
315101--315127	12	2.2	12	100	0	54	66	0	0	33	0.92
315043--315142	35	2.8	36	75	15	91	57	0	0	43	0.99
316931--317001	32	2.2	33	82	10	83	39	2	5	52	1.40
325559--325603	2	22.5	2	100	0	90	51	0	48	0	1.00
328526--328568	23	1.9	23	86	13	63	46	2	0	51	1.13
330093--330130	14	2.8	14	88	4	51	68	0	5	26	1.11
330209--330241	5	7.0	5	96	3	52	15	0	0	84	0.61
330718--330771	22	2.6	21	75	18	60	40	0	0	59	0.98
330729--330778	22	2.3	22	89	6	75	40	0	0	60	0.97
330763--330855	40	2.2	39	78	12	96	47	2	0	50	1.13
330749--330844	42	2.4	39	76	20	92	45	1	0	53	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331399--331492	16	5.8	16	73	13	61	29	1	12	56	1.44
331399--331471	32	2.2	33	83	7	87	30	1	9	58	1.38
331509--331552	16	2.9	14	83	12	52	22	13	18	45	1.84
332376--332414	14	2.9	14	84	3	53	48	0	0	51	1.00
332355--332430	31	2.4	31	80	10	84	48	0	1	50	1.09
342882--342912	2	15.5	2	100	0	62	0	0	48	51	1.00
347023--347047	13	1.9	13	100	0	50	40	4	0	56	1.18
347666--347690	2	12.5	2	100	0	50	48	0	0	52	1.00
347910--347945	3	12.0	3	100	0	72	66	0	0	33	0.92
365105--365150	21	2.1	22	84	4	58	19	30	19	30	1.97
368782--368835	23	2.4	22	90	6	90	61	1	0	37	1.07
368793--368841	23	2.2	23	88	3	73	65	2	0	32	1.04
370640--370672	3	11.0	3	100	0	66	33	0	0	66	0.92
370940--370979	21	2.0	20	85	5	53	55	0	2	42	1.13
371790--371827	17	2.2	17	95	0	67	57	0	0	42	0.98
387395--387419	2	12.5	2	100	0	50	52	0	0	48	1.00
388877--388934	30	2.0	29	90	6	91	63	6	0	29	1.20
389365--389424	13	4.4	13	80	16	59	55	0	3	41	1.16
389416--389453	14	2.6	16	84	16	55	71	0	2	26	1.00
390090--390142	27	2.0	27	85	7	72	71	0	0	28	0.86
390092--390149	16	3.4	18	74	11	61	74	0	0	25	0.82
390099--390176	33	2.4	33	87	8	106	71	1	0	26	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390099--390148	8	6.1	8	81	4	55	76	0	0	24	0.80
390134--390192	29	2.1	27	87	12	84	66	3	0	30	1.08
390100--390216	33	3.8	31	76	18	102	69	2	0	27	1.07
390101--390216	60	1.9	60	83	10	148	68	2	0	27	1.08
390257--390290	17	2.0	17	88	0	50	11	0	17	70	1.16
390812--390887	30	2.6	28	76	10	82	32	0	3	63	1.13
391743--391781	20	2.0	19	85	5	51	28	5	51	15	1.64
391824--391893	24	2.8	25	77	14	72	47	22	8	21	1.78
391826--391922	27	3.7	27	78	8	94	46	23	8	21	1.78
391910--391967	26	2.3	25	88	5	82	25	13	25	34	1.93

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