genome.fa.s145.2.7.7.80.10.50.1000.2.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: Scaffold145
Parameters: 2 7 7 80 10 50 1000
Length:  2608604

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  2  of  15  ( 1729 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)
316855--316949	22	4.4	21	68	21	54	53	2	7	36	1.41
317476--317512	14	2.5	15	84	16	51	51	2	0	45	1.15
317480--317513	15	2.2	16	94	5	61	47	2	0	50	1.16
322468--322493	3	8.7	3	100	0	52	69	0	30	0	0.89
330690--330755	16	4.1	17	72	14	50	36	1	0	62	1.05
330728--330795	21	3.1	21	73	17	57	44	1	0	54	1.09
330697--330799	45	2.4	44	77	15	108	42	1	0	55	1.11
341434--341496	19	3.2	20	72	25	62	57	4	0	38	1.20
341477--341507	16	1.9	16	93	0	53	48	0	0	51	1.00
342534--342610	39	2.1	36	75	18	86	49	0	0	50	1.00
342539--342583	20	2.2	21	92	4	74	48	0	0	51	1.00
342552--342670	18	6.4	18	66	18	57	51	0	0	48	1.00
342544--342678	40	3.4	40	67	18	93	51	0	0	48	1.00
342544--342691	59	2.5	60	71	15	135	51	0	0	48	1.00
345296--345344	22	2.2	22	78	7	55	28	6	0	65	1.16
347234--347261	2	14.0	2	100	0	56	50	0	0	50	1.00
348241--348271	14	2.2	14	94	0	53	48	9	41	0	1.36
354905--354956	22	2.5	22	81	12	56	40	0	1	57	1.10
356132--356170	14	2.7	14	84	4	51	5	23	0	71	1.05
356132--356165	15	2.3	15	90	5	52	2	23	0	73	0.97
357857--357882	1	26.0	1	100	0	52	0	100	0	0	0.00
360012--360062	25	2.0	25	100	0	102	27	0	19	52	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360269--360300	2	16.0	2	100	0	64	50	0	0	50	1.00
365047--365089	16	2.7	16	82	10	52	53	0	0	46	1.00
365410--365458	12	4.2	12	81	5	55	65	2	2	30	1.15
365398--365456	23	2.7	23	81	5	68	67	1	1	28	1.10
365734--365778	20	2.3	20	84	3	56	64	0	0	35	0.94
365746--365803	19	3.0	20	70	19	59	60	0	0	39	0.97
365745--365799	22	2.4	24	75	6	60	63	0	0	36	0.95
365803--365861	14	4.2	14	77	14	59	3	18	0	77	0.90
365969--366053	36	2.3	35	80	11	91	52	0	2	44	1.13
369474--369504	10	3.2	10	90	9	55	19	0	0	80	0.71
369459--369534	18	3.8	19	76	15	66	27	1	0	71	0.95
369459--369523	18	3.5	18	79	12	69	26	1	0	72	0.94
369474--369524	9	5.6	9	79	11	59	27	0	0	72	0.85
372404--372434	14	2.3	13	94	5	53	29	38	0	32	1.57
372632--372661	14	2.1	14	93	0	51	40	0	13	46	1.43
373124--373176	27	2.0	27	85	7	72	56	13	22	7	1.62
376066--376091	1	26.0	1	100	0	52	0	100	0	0	0.00
376988--377018	2	15.5	2	100	0	62	51	0	0	48	1.00
378161--378195	2	17.5	2	100	0	70	48	0	0	51	1.00
381502--381553	14	3.6	14	79	5	59	36	0	3	59	1.16
381501--381561	29	2.1	30	84	9	81	40	0	3	55	1.16
381780--381829	15	3.4	15	77	5	66	66	0	0	34	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
381783--381832	14	3.5	14	83	5	73	66	0	0	34	0.92
381770--381833	29	2.1	31	91	5	105	59	0	0	40	0.97
393860--393885	3	8.7	3	100	0	52	69	0	30	0	0.89
401898--401946	2	25.0	2	83	4	64	44	2	2	51	1.24
403536--403565	2	15.0	2	100	0	60	50	0	0	50	1.00
404741--404817	14	5.5	14	75	14	70	40	0	0	59	0.97
405451--405486	2	18.5	2	94	5	65	50	0	0	50	1.00
417760--417860	2	50.5	2	80	3	60	49	7	2	39	1.47
419940--419976	10	3.6	10	89	7	56	5	24	0	70	1.08
427703--427731	2	14.5	2	100	0	58	51	0	0	48	1.00
433516--433543	3	9.3	3	100	0	56	0	32	0	67	0.91
437437--437475	20	2.0	20	100	0	78	35	5	43	15	1.69
440894--440938	2	22.5	2	100	0	90	48	0	0	51	1.00
449781--449814	2	17.0	2	100	0	68	50	0	0	50	1.00
449814--449840	2	13.5	2	100	0	54	0	0	48	51	1.00
450052--450076	5	5.0	5	100	0	50	60	0	0	40	0.97
451286--451315	6	4.8	6	95	4	51	83	0	0	16	0.65
461865--461891	14	1.9	14	100	0	54	33	0	0	66	0.92
462701--462734	2	17.0	2	100	0	68	50	0	0	50	1.00
462883--462911	8	3.8	8	95	4	51	24	0	0	75	0.80
464597--464651	25	2.2	25	77	6	58	49	0	0	50	1.00
464584--464653	36	1.9	36	88	5	106	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466694--466733	20	2.1	19	85	4	53	45	2	7	45	1.45
467658--467688	2	15.5	2	100	0	62	0	48	0	51	1.00
467688--467712	2	12.5	2	100	0	50	48	0	0	52	1.00
478624--478654	2	15.5	2	100	0	62	0	48	0	51	1.00
482277--482305	7	4.1	7	100	0	58	41	0	0	58	0.98
483257--483313	22	2.5	22	81	13	55	57	0	0	42	0.98
483743--483782	19	2.2	19	90	4	64	50	0	2	47	1.14
483968--483997	3	10.0	3	100	0	60	66	0	0	33	0.92
484047--484102	23	2.4	22	77	11	58	51	1	0	46	1.11
484306--484331	12	2.2	12	100	0	52	69	0	0	30	0.89
486011--486048	20	1.9	20	94	0	67	28	26	13	31	1.93
493562--493658	24	4.0	24	78	12	92	41	1	1	56	1.13
493825--493854	3	10.0	3	100	0	60	66	0	0	33	0.92
493948--493996	2	24.5	2	100	0	98	0	51	0	48	1.00
494071--494114	23	1.9	23	85	0	61	4	36	4	54	1.41
500431--500458	2	14.0	2	100	0	56	50	0	50	0	1.00
503055--503087	8	4.2	8	92	3	50	39	0	0	60	0.97
509611--509712	50	2.0	50	98	0	195	37	15	14	32	1.88
516684--516743	7	8.1	7	74	17	50	43	1	0	55	1.10
516739--516806	30	2.3	30	79	5	75	52	0	1	45	1.09
516776--516836	22	2.8	22	75	12	63	57	0	1	40	1.08
518225--518264	2	20.0	2	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525707--525732	3	8.7	3	100	0	52	34	0	0	65	0.93
533812--533857	17	2.8	17	87	9	60	45	2	0	52	1.13
533804--533871	16	4.1	17	75	5	50	48	1	0	50	1.10
536617--536692	28	2.6	30	76	12	86	44	0	1	53	1.08
536647--536699	19	2.6	21	77	13	58	39	0	0	60	0.97
537470--537510	20	2.0	20	95	0	73	48	2	0	48	1.14
537470--537531	20	2.9	22	83	9	67	46	1	0	51	1.10
537701--537756	14	4.0	14	72	9	51	60	1	0	37	1.07
537692--537731	13	3.0	13	82	7	53	55	0	0	45	0.99
538561--538597	3	12.3	3	94	0	65	29	0	0	70	0.88
538693--538733	21	1.9	21	85	5	55	56	0	0	43	0.99
544721--544751	16	1.9	16	93	0	53	54	0	0	45	0.99
545463--545522	12	4.9	12	70	11	50	43	0	0	56	0.99
545481--545546	27	2.5	27	73	11	64	50	0	0	50	1.00
545592--545653	32	2.0	32	93	3	108	40	0	0	59	0.97
545595--545662	32	2.2	31	86	7	93	44	0	0	55	0.99
546324--546405	16	4.6	17	70	15	60	43	1	0	54	1.07
546436--546489	23	2.3	23	84	6	65	53	3	0	42	1.18
546533--546569	3	12.3	3	100	0	74	32	0	0	67	0.91
546940--546981	20	2.0	21	82	13	52	50	0	2	47	1.14
546954--547051	29	3.4	27	72	20	67	56	0	1	42	1.06
547096--547131	17	2.2	16	90	5	54	47	0	2	50	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547155--547205	26	1.9	26	84	11	68	54	3	3	37	1.37
548285--548430	10	14.8	10	67	23	62	35	1	0	62	1.09
548299--548412	19	6.3	18	69	18	76	37	0	0	61	1.02
548320--548373	26	2.1	25	86	3	72	37	1	0	61	1.07
548352--548436	36	2.4	36	77	20	90	38	1	0	60	1.05
548328--548437	38	2.8	41	75	21	112	37	1	0	60	1.07
548776--548841	34	1.9	35	84	9	91	42	1	0	56	1.08
548796--548885	21	4.3	22	71	12	64	46	0	0	53	1.00
548849--548899	15	3.2	15	72	22	50	52	0	0	47	1.00
548841--548905	33	2.1	33	85	8	91	53	0	0	46	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15