genome.fa.s109.2.7.7.80.10.50.1000.5.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  5  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)
588321--588916	263	2.3	262	93	1	1012	31	11	27	29	1.92
591339--591390	13	3.5	13	73	26	50	34	19	13	32	1.90
591346--591410	19	3.8	17	75	24	66	33	16	12	36	1.87
591339--591409	32	2.2	32	94	0	124	33	18	12	35	1.89
591495--591523	10	2.7	11	94	5	51	17	0	0	82	0.66
591737--591764	2	14.0	2	100	0	56	50	0	0	50	1.00
593988--594019	2	16.5	2	93	6	57	46	0	0	53	1.00
593988--594017	15	2.0	15	100	0	60	46	0	0	53	1.00
593988--594021	17	2.0	17	100	0	68	47	0	0	52	1.00
594175--594211	11	3.1	12	88	11	58	32	10	8	48	1.67
594406--594485	40	2.0	39	92	2	133	8	12	32	46	1.72
594524--594573	19	2.7	19	76	14	59	42	0	0	58	0.98
594568--594614	20	2.4	20	86	10	62	57	0	0	42	0.98
594650--594678	7	4.1	7	100	0	58	41	0	0	58	0.98
594992--595060	33	2.0	36	83	13	92	53	0	1	44	1.09
595335--595439	7	15.0	7	68	12	56	53	0	0	44	1.13
595336--595439	21	4.9	21	71	9	77	52	0	0	45	1.13
595621--595660	21	1.9	21	85	10	55	62	0	0	37	0.95
595660--595719	24	2.4	24	73	15	59	45	0	1	53	1.10
600773--600812	12	3.2	12	83	16	55	60	0	0	40	0.97
600754--600818	24	2.6	25	78	4	78	50	0	0	49	1.00
600775--600813	18	2.2	18	95	0	69	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601715--601765	17	2.9	17	81	13	59	45	0	0	54	0.99
602035--602081	24	2.0	24	95	0	85	48	19	0	31	1.49
607137--607164	3	9.3	3	100	0	56	32	0	0	67	0.91
607474--607530	26	2.1	28	83	6	73	47	0	0	52	1.00
607572--607618	22	2.2	20	85	14	60	57	12	8	21	1.62
608108--608155	18	2.7	18	80	20	57	72	0	2	25	0.95
609719--609760	22	2.0	21	85	4	57	35	0	0	64	0.94
610631--610687	23	2.4	24	77	8	64	52	1	0	45	1.11
610976--611013	19	2.1	19	85	14	53	50	0	2	47	1.15
611508--611549	18	2.2	20	83	8	52	42	2	4	50	1.36
611605--611642	15	2.4	16	82	8	51	52	0	0	47	1.00
612369--612399	2	15.5	2	100	0	62	51	0	48	0	1.00
613447--613498	25	2.1	25	100	0	104	50	3	11	34	1.57
618213--618249	18	2.1	18	100	0	74	32	16	5	45	1.70
620211--620258	24	2.0	24	100	0	96	41	12	8	37	1.73
623939--623972	15	2.3	15	85	5	52	70	0	0	29	0.87
624410--624440	14	2.2	14	94	0	53	35	0	0	64	0.94
624404--624442	15	2.6	14	84	8	51	33	0	0	66	0.92
625033--625113	29	2.7	30	80	1	83	53	1	3	41	1.27
625251--625293	24	1.9	24	86	13	65	37	0	0	62	0.95
625252--625310	18	3.1	18	76	13	55	40	0	0	59	0.97
625458--625536	35	2.2	35	78	14	83	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631729--631803	25	3.1	25	79	14	77	45	1	0	53	1.08
631742--631783	22	1.9	22	90	9	68	38	0	0	61	0.96
632745--632787	22	2.0	22	90	9	70	60	0	0	39	0.97
637415--637479	31	2.1	31	100	0	130	44	27	6	21	1.76
641043--641103	25	2.4	25	76	17	63	42	0	1	55	1.09
641057--641139	41	2.0	40	84	9	105	51	0	0	48	1.00
641770--641804	11	3.0	12	87	8	54	25	0	0	74	0.82
642311--642361	22	2.3	23	79	3	59	49	0	0	50	1.00
643116--643169	2	27.0	2	84	0	72	42	1	0	55	1.10
644448--644510	20	3.1	20	77	15	67	38	1	0	60	1.07
644448--644506	22	2.8	22	68	21	54	37	1	0	61	1.07
644649--644706	23	2.8	20	82	10	55	37	0	1	60	1.07
644674--644719	12	3.9	11	86	11	56	47	0	0	52	1.00
645445--645487	23	2.0	23	86	9	63	60	0	0	39	0.97
648926--648973	25	1.9	25	100	0	96	29	12	20	37	1.90
652522--652572	20	2.7	18	76	11	57	41	0	0	58	0.98
652520--652609	19	4.7	19	67	15	51	46	0	0	53	1.00
653114--653171	21	3.0	20	76	14	61	56	0	1	41	1.09
653100--653178	38	2.3	34	79	16	90	54	0	1	44	1.08
654360--654397	3	12.7	3	100	0	76	65	0	0	34	0.93
654541--654603	31	2.0	31	81	6	74	49	0	1	49	1.10
655512--655551	21	1.9	21	85	10	55	55	2	5	37	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
660650--660680	3	10.7	3	93	6	55	70	0	0	29	0.87
662169--662201	2	16.5	2	100	0	66	48	0	51	0	1.00
662542--662574	8	4.1	8	92	0	57	57	0	3	39	1.14
662593--662640	16	3.1	15	78	6	51	39	0	0	60	0.97
663134--663192	20	3.0	20	73	16	61	40	1	8	49	1.43
664786--664827	19	2.2	20	87	8	61	64	0	2	33	1.07
666143--666215	19	3.7	21	77	14	75	56	0	0	43	0.99
666136--666184	26	1.9	25	84	12	64	61	0	0	38	0.96
666151--666205	21	2.8	20	79	15	53	54	0	0	45	0.99
666196--666234	20	1.9	21	84	5	53	61	0	0	38	0.96
666490--666536	23	2.0	23	87	8	67	53	0	0	46	1.00
666488--666545	14	3.9	14	80	13	62	50	0	0	50	1.00
666678--666753	30	2.6	28	74	13	73	56	1	0	42	1.07
666853--666947	49	2.0	46	82	10	111	58	0	1	40	1.05
671358--671408	21	2.4	22	77	9	61	35	1	0	62	1.06
671833--671887	17	3.3	17	73	16	53	45	0	0	54	0.99
672353--672388	2	18.0	2	100	0	72	50	0	0	50	1.00
677094--677134	3	13.7	3	100	0	82	68	0	0	31	0.90
679339--679408	27	2.6	27	79	6	70	71	2	1	24	1.08
679455--679495	11	3.8	11	81	15	50	58	2	0	39	1.11
679424--679509	10	8.9	10	72	12	54	59	2	0	38	1.10
679424--679509	9	9.0	9	75	17	59	59	2	0	38	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679738--679777	3	13.3	3	100	0	80	32	0	0	67	0.91
680026--680107	34	2.4	33	84	8	101	53	0	1	45	1.08
680282--680337	17	3.2	18	71	16	55	41	5	3	50	1.43
680345--680387	2	21.5	2	95	0	77	51	0	2	46	1.13
682989--683043	18	3.0	18	79	12	67	50	0	0	49	1.00
684054--684099	16	2.8	17	75	15	51	58	2	2	36	1.22
684324--684384	9	6.1	9	75	17	50	49	0	1	49	1.10
684324--684384	19	3.0	20	80	7	70	49	0	1	49	1.10
684549--684584	2	18.0	2	100	0	72	50	0	0	50	1.00
684907--684945	2	19.5	2	100	0	78	48	0	0	51	1.00
686815--687292	238	2.0	238	95	0	850	44	10	7	36	1.69
688127--688153	2	13.5	2	100	0	54	48	0	0	51	1.00
691977--692026	23	2.1	24	81	3	57	58	0	0	42	0.98
695337--695372	2	18.0	2	94	0	63	0	50	2	47	1.15
695587--695630	19	2.5	17	78	10	52	45	0	0	54	0.99
696074--696130	19	2.8	20	76	7	71	36	1	0	61	1.07
696202--696258	22	2.6	21	78	13	62	57	1	0	40	1.09
698539--698578	19	2.1	18	86	9	53	50	2	2	45	1.28
699593--699636	18	2.4	18	92	0	70	36	15	27	20	1.93
700760--701117	179	2.0	178	93	0	617	29	14	15	40	1.87
706298--706364	25	2.5	27	76	9	75	43	0	2	53	1.16
706360--706394	12	2.8	13	82	8	54	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
706890--706914	7	3.6	7	100	0	50	44	0	12	44	1.41
707726--707764	18	2.2	17	86	9	51	30	0	2	66	1.05
724550--724579	2	15.0	2	100	0	60	50	0	0	50	1.00
726886--726923	17	2.3	17	86	13	53	34	0	0	65	0.93
727160--727188	3	9.7	3	100	0	58	68	0	0	31	0.89
733904--733942	20	2.0	20	85	10	53	33	7	5	53	1.51
734139--734526	197	2.0	195	82	10	472	42	5	5	46	1.49
735562--735613	26	2.0	26	88	7	79	50	5	5	38	1.51
736732--736757	10	2.6	10	100	0	52	34	0	0	65	0.93
742177--742214	13	3.0	13	80	7	51	23	0	2	73	0.95

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