genome.fa.s211.2.7.7.80.10.50.1000.5.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: Scaffold211
Parameters: 2 7 7 80 10 50 1000
Length:  2157208

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

This is table  5  of  15  ( 1763 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)
476617--476721	27	4.2	24	70	23	74	53	0	0	46	1.00
479716--479757	7	6.0	7	97	0	75	54	0	0	45	0.99
479704--479764	7	8.3	7	87	8	59	49	1	0	49	1.10
479866--479895	2	15.0	2	100	0	60	50	0	0	50	1.00
480054--480089	3	12.0	3	100	0	72	33	0	0	66	0.92
480120--480164	13	3.5	13	78	6	56	64	0	2	33	1.06
481533--481559	2	13.5	2	100	0	54	48	0	0	51	1.00
482014--482044	16	1.9	16	93	0	53	70	0	0	29	0.87
482267--482306	17	2.4	17	91	0	62	50	0	0	50	1.00
482665--482750	9	7.7	10	72	25	50	43	0	3	53	1.18
482664--482742	25	3.2	25	75	22	78	43	0	2	54	1.14
483426--483457	12	2.7	12	95	0	55	18	25	37	18	1.94
488326--488357	13	2.4	14	85	15	50	40	0	0	59	0.97
488330--488386	12	4.5	13	78	20	59	45	0	1	52	1.11
488343--488390	25	1.9	26	83	8	64	47	0	2	50	1.12
491664--491709	24	1.9	24	86	0	65	32	8	13	45	1.73
491841--491931	25	3.5	25	78	11	94	10	17	5	65	1.42
491823--491929	51	2.0	55	84	10	143	11	19	4	64	1.43
500688--500764	20	3.8	20	82	0	100	40	11	15	32	1.84
505153--505196	13	3.3	13	76	17	54	2	9	4	84	0.85
513273--513719	80	5.6	80	75	10	274	30	23	9	36	1.86
513273--513767	242	2.1	238	80	7	529	30	24	10	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517478--517612	52	2.6	52	89	3	184	42	13	14	28	1.84
518118--518144	14	1.9	14	100	0	54	3	0	22	74	0.98
519240--519283	22	2.0	22	90	0	70	47	6	4	40	1.50
522668--522727	23	2.6	23	91	0	93	38	15	6	40	1.73
523404--523459	20	2.9	19	82	10	62	51	3	1	42	1.29
524792--524822	16	1.9	16	93	0	53	22	0	3	74	0.96
524906--525037	28	4.9	28	87	10	197	47	0	0	51	1.06
524906--525037	54	2.5	54	89	9	193	47	0	0	51	1.06
524951--525027	14	5.5	14	74	0	73	50	0	0	49	1.00
525186--525234	24	2.0	24	81	14	57	44	0	0	55	0.99
525210--525252	22	1.9	23	85	4	61	46	2	0	51	1.13
525192--525243	16	3.3	16	76	10	54	46	0	0	53	1.00
525548--525644	5	20.6	5	68	19	57	56	0	1	42	1.06
525536--525611	19	4.0	19	73	14	59	59	1	1	38	1.14
525537--525649	38	3.1	36	80	8	102	55	0	0	42	1.12
525564--525649	24	3.8	23	75	15	83	55	0	0	44	0.99
525548--525655	14	7.9	14	71	18	68	54	0	0	44	1.06
526497--526529	17	1.9	17	93	0	57	48	0	0	51	1.00
527802--527832	3	10.3	3	92	0	53	32	3	0	64	1.09
528127--528231	52	2.1	52	84	8	137	40	0	1	57	1.10
528223--528258	17	2.1	17	89	0	54	41	0	0	58	0.98
528693--528746	20	2.7	19	80	5	63	29	1	1	66	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528693--528746	9	5.6	9	77	14	54	29	1	1	66	1.12
528732--528780	15	3.3	15	78	18	57	24	0	4	71	1.03
529264--529331	12	5.7	12	72	11	50	48	0	0	51	1.00
530195--530242	21	2.2	22	85	3	62	64	0	0	35	0.94
538739--538791	22	2.6	21	77	11	58	47	7	13	32	1.70
539105--539153	14	3.5	14	80	5	55	57	0	0	42	0.99
543786--543815	2	15.0	2	100	0	60	50	0	0	50	1.00
545121--545453	166	2.0	166	83	6	424	31	10	8	50	1.66
549561--549600	12	3.2	12	89	3	62	77	0	20	2	0.88
549569--549612	13	2.9	16	75	25	51	77	2	15	4	1.04
553375--553400	13	2.0	13	100	0	52	38	15	15	30	1.88
555613--555657	21	2.1	21	84	8	56	53	4	20	22	1.63
559505--559583	20	3.7	21	75	15	72	26	13	15	44	1.84
559570--559608	13	3.0	13	96	0	69	30	17	15	35	1.91
562153--562178	13	2.0	13	100	0	52	38	15	15	30	1.88
563146--563207	32	1.9	33	86	3	90	51	3	1	43	1.27
563575--563612	16	2.4	16	95	0	67	31	15	18	34	1.92
563816--563899	23	3.9	22	74	11	75	57	1	1	40	1.14
564293--564349	21	2.6	22	83	8	64	36	0	3	59	1.14
564379--564409	9	3.4	9	90	0	53	35	0	0	64	0.94
565845--565870	13	2.0	13	100	0	52	30	15	15	38	1.88
567109--567175	33	2.0	33	88	0	98	34	11	13	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567129--567153	13	1.9	13	100	0	50	36	16	16	32	1.90
567216--567240	13	1.9	13	100	0	50	32	16	16	36	1.90
567249--567372	52	2.4	52	93	4	207	34	18	17	29	1.94
571973--572018	15	3.1	14	81	9	56	28	2	0	69	1.00
572371--572419	13	3.6	13	78	10	53	42	0	0	57	0.99
572913--572957	20	2.2	21	84	7	58	53	4	0	42	1.21
573363--573414	27	2.0	27	88	11	81	51	0	1	46	1.12
573750--573813	32	1.9	34	87	12	98	54	1	0	43	1.09
574575--574608	2	17.0	2	100	0	68	50	0	0	50	1.00
574614--574667	3	17.7	3	96	3	99	64	0	0	35	0.94
574947--575172	113	2.0	113	94	1	400	38	15	10	34	1.82
575422--575453	14	2.3	14	94	0	55	31	9	15	43	1.78
582353--582439	27	3.4	24	74	13	57	45	20	5	27	1.74
582369--582441	27	2.7	27	82	4	94	46	23	4	26	1.70
584264--584309	21	2.1	22	88	4	67	19	28	19	32	1.96
586879--586946	27	2.5	27	88	4	93	50	17	1	30	1.55
587915--587966	14	3.5	15	85	10	63	40	5	1	51	1.37
587971--588047	32	2.4	32	86	2	109	50	1	2	45	1.23
587985--588063	34	2.4	32	83	8	88	46	0	2	50	1.14
589007--589077	27	2.6	27	88	6	99	46	23	7	22	1.76
590961--591006	21	2.1	22	84	4	58	19	30	19	30	1.97
593580--593650	27	2.6	27	84	6	90	45	23	8	22	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595206--595251	20	2.3	20	84	0	56	32	4	52	10	1.56
597277--597322	21	2.1	22	84	4	58	19	30	19	30	1.97
599786--599840	20	2.8	20	97	0	101	27	3	54	14	1.57
601792--601943	75	2.0	75	100	0	304	34	15	13	36	1.87
602017--602098	37	2.2	37	76	8	87	54	2	1	41	1.21
605130--605165	2	18.0	2	100	0	72	50	0	0	50	1.00
606534--606580	12	3.7	13	78	13	53	51	2	2	44	1.25
606721--606773	20	2.7	20	85	8	72	45	5	0	49	1.26
607021--607087	33	2.0	33	100	0	134	35	11	23	28	1.91
609901--609945	22	2.0	22	82	0	54	2	13	2	82	0.86
609902--609945	17	2.6	17	85	0	52	2	13	2	81	0.88
610342--610372	2	15.5	2	100	0	62	48	0	0	51	1.00
610519--610550	14	2.1	16	88	11	50	53	0	3	43	1.16
616235--616287	14	3.6	14	80	14	63	37	1	1	58	1.20
616716--616749	18	1.9	17	88	5	50	50	0	0	50	1.00
617406--617535	68	1.9	68	96	0	242	32	24	9	33	1.87
619011--619087	36	2.1	36	83	4	93	55	3	0	40	1.18
623077--623134	21	2.7	21	91	2	98	37	6	5	50	1.52
623647--623699	21	2.5	20	79	8	61	47	0	5	47	1.26
623824--623872	18	2.8	18	82	14	50	40	2	10	46	1.49
626859--626890	7	4.6	7	92	0	55	50	0	0	50	1.00
626859--626901	21	2.0	21	86	0	59	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
628212--628236	13	1.9	13	100	0	50	36	0	0	64	0.94
628740--628867	67	1.9	67	91	0	211	32	21	18	27	1.97
630414--630466	21	2.5	21	93	0	97	56	1	0	41	1.10
633616--633650	2	18.0	2	94	5	63	51	0	0	48	1.00
634930--634980	25	2.0	25	85	7	68	17	17	13	50	1.77
635011--635045	6	5.8	6	86	0	52	60	0	0	40	0.97
635877--635928	26	2.0	27	85	11	72	67	3	3	25	1.25
636997--637038	19	2.2	19	83	8	50	59	0	2	38	1.10
636991--637031	15	2.7	15	80	20	50	58	0	4	36	1.20
637107--637144	16	2.3	17	90	4	60	73	0	2	23	0.95

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