genome.fa.s109.2.7.7.80.10.50.1000.4.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: Scaffold109
Parameters: 2 7 7 80 10 50 1000
Length:  1855911

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

This is table  4  of  13  ( 1516 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)
453137--453649	240	2.1	240	85	0	686	36	7	15	39	1.77
454105--454148	23	1.9	23	90	9	72	50	0	0	50	1.00
454780--454867	31	2.8	32	74	10	90	47	2	6	43	1.42
455546--455576	16	1.9	16	93	0	53	41	0	0	58	0.98
455549--455586	20	1.9	20	84	10	51	39	0	0	60	0.97
455616--455671	23	2.4	23	85	5	60	39	14	8	37	1.77
456228--456258	10	3.0	10	95	4	53	67	12	0	19	1.22
456304--456338	18	1.9	18	94	0	61	51	11	0	37	1.38
456304--456340	19	2.0	18	89	5	56	51	13	0	35	1.41
456808--456837	2	15.0	2	100	0	60	50	0	0	50	1.00
456965--457052	15	5.9	15	69	15	58	56	0	0	43	0.99
456992--457020	6	5.0	6	95	4	51	51	0	0	48	1.00
457012--457076	9	7.9	9	77	19	54	55	1	0	43	1.09
456980--457042	27	2.4	25	77	15	63	55	0	0	44	0.99
456984--457070	31	2.6	33	82	12	90	52	1	0	45	1.08
456988--457076	44	1.9	48	84	8	123	53	1	0	44	1.07
457375--457413	13	2.9	14	85	14	55	61	0	0	38	0.96
457393--457446	22	2.4	23	85	14	69	57	0	0	42	0.98
457952--458000	14	3.8	13	86	8	64	59	0	0	40	0.98
457952--458000	6	7.5	6	82	13	53	59	0	0	40	0.98
458054--458082	12	2.3	13	94	5	51	41	6	0	51	1.28
458287--458337	16	3.2	15	78	15	50	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458311--458351	17	2.4	18	84	11	52	46	0	0	53	1.00
459898--459959	26	2.3	26	83	8	72	32	0	11	56	1.35
459924--459992	28	2.4	28	83	13	79	34	0	14	50	1.43
459924--459986	31	2.1	28	83	13	74	33	0	15	50	1.45
460295--460425	8	15.9	8	70	23	51	42	0	1	54	1.14
461698--461725	2	14.0	2	100	0	56	50	0	0	50	1.00
461855--461884	9	3.2	9	90	9	51	33	10	10	46	1.71
462035--462074	12	3.2	12	83	13	53	52	0	0	47	1.00
462035--462068	12	2.6	14	90	9	54	50	0	0	50	1.00
462035--462099	26	2.6	26	83	9	73	50	0	1	47	1.10
462015--462107	21	4.3	21	69	15	55	48	0	1	50	1.07
462708--462808	32	3.2	32	86	8	145	48	5	3	41	1.46
464749--464779	2	15.0	2	93	6	53	48	3	0	48	1.17
464962--465011	21	2.5	20	77	6	55	52	0	0	48	1.00
465329--465430	31	3.3	31	75	13	93	49	1	5	43	1.38
467294--467346	2	26.5	2	84	0	61	41	1	7	49	1.42
467459--467511	17	2.9	18	80	11	54	50	0	0	49	1.00
468334--468360	14	1.9	14	100	0	54	59	0	0	40	0.98
468308--468371	18	3.8	18	72	16	55	59	0	0	40	0.97
468899--468936	16	2.2	18	81	13	53	68	0	0	31	0.90
469238--469284	16	3.1	16	76	20	55	55	2	0	42	1.12
469570--469620	25	2.0	25	88	7	77	47	1	0	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469989--470464	161	3.0	158	78	8	423	41	10	10	37	1.74
470155--470537	161	2.3	163	80	4	396	43	9	10	36	1.72
470840--470909	9	7.2	10	74	22	53	44	1	0	54	1.09
470856--470947	49	1.9	49	82	12	120	45	1	0	53	1.07
471304--471342	19	2.1	19	85	0	51	41	0	0	58	0.98
471311--471355	19	2.4	19	85	10	58	35	0	0	64	0.94
472287--472372	27	3.1	27	77	11	93	46	0	0	53	1.00
472586--472659	29	2.6	28	82	8	78	31	1	1	66	1.09
483667--483701	17	2.1	17	88	0	52	40	11	14	34	1.82
485449--485480	16	2.0	16	93	0	55	34	0	3	62	1.11
485508--485564	27	2.2	26	81	9	62	40	3	3	52	1.35
486314--486352	2	19.5	2	100	0	78	51	0	48	0	1.00
491889--491925	3	12.7	3	88	5	58	0	32	0	67	0.91
492135--492196	6	9.7	6	75	19	54	37	0	1	61	1.06
492135--492196	12	4.8	12	79	14	61	37	0	1	61	1.06
492151--492192	21	2.0	20	90	4	66	35	0	0	64	0.94
493227--493446	50	4.5	50	87	5	313	26	16	24	32	1.96
493237--493445	98	2.1	98	87	5	305	27	17	22	32	1.97
497812--497979	50	3.4	49	86	2	228	29	17	20	32	1.96
500593--500715	44	2.8	44	85	9	171	25	20	26	27	1.99
501079--501140	27	2.3	26	78	15	63	48	1	3	46	1.28
501183--501218	18	2.0	18	88	0	54	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504214--504273	20	3.0	21	83	9	72	56	0	5	38	1.21
504291--504328	20	1.9	19	94	5	67	63	0	2	34	1.09
504785--504838	16	3.4	16	77	10	65	48	0	0	51	1.00
504794--504848	17	3.4	17	72	22	55	54	0	0	45	0.99
504831--504894	25	2.9	22	74	17	60	50	0	4	45	1.22
505041--505088	21	2.4	19	74	16	51	41	4	0	54	1.20
505069--505126	30	2.0	29	87	9	84	50	3	0	46	1.18
505278--505319	22	1.9	22	85	9	59	42	0	0	57	0.99
505283--505327	23	2.0	21	83	8	54	44	0	0	55	0.99
505671--505733	29	2.3	27	83	8	81	57	0	1	41	1.08
506088--506146	24	2.5	23	75	8	55	42	0	3	54	1.17
506474--506506	6	5.7	6	96	3	59	0	45	18	36	1.49
506696--506730	2	17.5	2	100	0	70	51	0	0	48	1.00
506798--506839	14	2.8	15	85	7	50	64	0	0	35	0.94
512580--512649	34	2.1	34	88	0	104	47	17	10	25	1.78
515259--515325	2	33.5	2	95	0	116	52	1	0	46	1.09
515559--515606	23	2.1	23	88	0	69	68	2	2	27	1.11
515970--515997	2	14.0	2	100	0	56	50	0	50	0	1.00
516767--516803	19	1.9	19	88	0	56	32	2	8	56	1.43
517241--517277	13	2.8	13	87	0	56	35	0	0	64	0.94
517378--517417	2	20.0	2	89	0	62	47	2	2	47	1.29
517818--517971	81	1.9	81	84	5	204	42	11	10	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526532--526572	2	20.5	2	100	0	82	51	0	48	0	1.00
527846--527951	20	5.3	20	67	13	74	40	0	2	55	1.21
527846--527967	40	3.0	40	81	0	154	40	1	4	53	1.30
533815--533872	30	1.9	30	86	6	82	34	17	22	25	1.96
535828--535894	31	2.2	31	83	5	82	50	1	0	47	1.10
535987--536027	18	2.3	18	86	0	55	31	0	0	68	0.90
537378--537452	17	4.5	15	70	23	53	46	1	0	52	1.09
537389--537464	32	2.5	29	83	10	89	43	1	0	55	1.08
537445--537473	11	2.7	11	94	5	51	34	0	0	65	0.93
537957--538016	20	3.4	18	72	27	58	58	1	0	40	1.08
537918--538019	52	1.9	53	83	13	131	59	0	1	37	1.15
537985--538061	28	2.8	26	77	13	84	58	0	0	41	0.98
537985--538091	54	2.0	55	83	9	139	57	0	0	41	1.05
537986--538093	27	4.2	26	73	17	91	58	0	0	40	1.04
538307--538368	32	1.9	33	87	9	92	46	1	0	51	1.10
538612--538652	20	2.1	19	86	13	57	53	2	0	43	1.13
542206--542230	3	8.3	3	100	0	50	68	0	0	32	0.90
573409--573441	16	2.1	16	88	5	50	48	0	0	51	1.00
573391--573426	9	3.9	9	85	7	54	50	0	0	50	1.00
573473--573521	23	2.2	23	88	3	73	51	2	2	44	1.24
573630--573712	33	2.4	35	78	13	93	50	2	6	40	1.40
573630--573691	32	1.9	33	83	9	83	50	3	8	38	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574035--574076	18	2.4	18	84	4	50	57	0	0	42	0.99
579535--579577	19	2.2	20	88	12	72	55	0	0	44	0.99
580223--580268	23	2.0	23	83	8	58	56	2	0	41	1.11
582141--582165	13	1.9	13	100	0	50	64	0	0	36	0.94
582233--582270	16	2.3	16	83	16	51	42	0	0	57	0.98
582971--582998	2	14.0	2	100	0	56	50	0	0	50	1.00
587947--588193	79	3.1	78	81	5	264	34	14	25	25	1.94
588065--588316	128	2.0	128	88	1	380	32	15	25	26	1.95
588195--588386	79	2.4	80	86	3	264	32	14	26	27	1.94
588317--588751	51	8.4	51	73	10	317	30	12	27	28	1.93

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