genome.fa.s60.2.7.7.80.10.50.1000.5.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: Scaffold60
Parameters: 2 7 7 80 10 50 1000
Length:  3815296

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  5  of  21  ( 2419 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)
621545--621617	18	3.9	18	77	13	76	56	0	1	42	1.08
623021--623070	16	3.2	16	73	23	52	60	0	0	40	0.97
630119--630170	26	2.0	26	100	0	104	46	15	7	30	1.74
633355--633412	12	5.0	12	81	8	59	34	0	0	65	0.93
637647--637696	16	3.2	16	76	18	52	54	2	0	44	1.11
637645--637710	15	4.2	16	74	16	50	54	1	0	43	1.09
638293--638330	18	2.1	19	90	5	60	52	0	0	47	1.00
639690--639723	10	3.3	10	91	4	50	38	11	0	50	1.39
639775--639835	29	2.1	29	82	11	72	50	1	0	47	1.10
639763--639860	46	2.1	46	83	7	119	46	2	0	51	1.12
641683--641755	37	1.9	38	94	2	130	35	0	0	64	0.94
641683--641772	37	2.5	36	87	8	123	37	0	0	62	0.96
641813--641855	22	2.0	22	90	9	70	39	0	0	60	0.97
642785--642809	12	2.1	12	100	0	50	24	28	32	16	1.96
647914--647949	2	18.0	2	100	0	72	50	0	0	50	1.00
652842--652939	13	8.3	13	67	28	51	37	37	0	24	1.56
652812--652905	47	2.0	47	89	0	143	38	35	0	26	1.57
652855--652946	34	2.7	34	93	0	157	41	36	0	21	1.54
653752--653796	23	2.0	24	86	8	67	35	8	0	55	1.31
654478--654545	30	2.2	31	84	10	86	42	1	2	52	1.25
654571--654610	18	2.1	20	86	9	57	52	0	0	47	1.00
657858--657911	28	1.9	28	81	7	65	55	3	11	29	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657952--657987	16	2.2	17	90	5	56	50	5	0	44	1.25
658163--658192	14	2.1	14	93	6	51	73	0	0	26	0.84
658719--658776	26	2.2	26	84	6	73	55	0	1	43	1.10
658631--658774	56	2.6	56	78	11	168	53	2	2	41	1.27
658991--659015	2	12.5	2	100	0	50	52	0	0	48	1.00
659389--659428	17	2.4	17	83	4	55	55	5	5	35	1.44
660570--660679	53	2.0	54	96	3	204	36	12	4	46	1.63
662951--662994	22	2.0	22	86	8	63	65	0	0	34	0.93
663812--663841	15	1.9	16	93	6	53	26	0	6	66	1.16
663911--663935	13	1.9	13	100	0	50	96	0	4	0	0.24
664976--665016	16	2.5	16	88	4	64	70	2	0	26	0.99
664984--665104	12	9.4	12	67	19	50	61	1	0	37	1.06
665020--665100	28	2.8	28	76	14	69	59	0	0	40	0.98
664971--665119	14	9.8	16	68	21	56	61	2	0	36	1.13
664973--665130	27	6.4	25	71	17	75	60	2	0	36	1.15
665718--665775	14	4.1	15	74	17	52	50	0	0	50	1.00
665740--665780	14	3.2	13	86	10	57	46	0	0	53	1.00
665721--665776	19	3.1	18	80	12	62	48	0	0	51	1.00
665740--665773	6	5.3	6	86	13	50	50	0	0	50	1.00
667816--667864	23	2.1	23	100	0	98	34	18	4	42	1.69
668224--668260	10	3.5	10	86	13	56	67	0	0	32	0.91
669441--669465	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
671889--671936	13	3.7	14	76	15	50	45	0	0	54	0.99
671919--671958	21	2.0	20	85	5	53	42	0	2	55	1.13
672495--672532	17	2.2	17	86	9	51	15	0	10	73	1.09
672495--672539	18	2.5	18	85	7	56	17	0	11	71	1.14
672556--672643	33	2.6	34	78	12	92	46	0	0	53	1.00
672544--672627	26	3.2	26	78	10	82	46	0	0	53	1.00
672627--672682	6	8.8	6	75	24	53	33	0	1	64	1.04
672613--672682	14	5.1	14	73	22	60	35	0	1	62	1.04
672619--672682	20	3.2	20	79	16	71	34	0	1	64	1.03
673238--673361	63	2.0	63	96	0	230	38	16	21	22	1.93
674857--674901	20	2.2	20	84	0	54	53	2	0	44	1.13
675121--675190	27	2.5	28	79	9	72	27	4	21	47	1.69
680387--680421	2	17.5	2	100	0	70	51	0	0	48	1.00
680609--680668	28	2.1	30	81	6	70	58	0	0	41	0.98
682942--682982	20	2.0	22	85	9	59	48	0	0	51	1.00
683687--683727	19	2.2	19	86	4	57	31	0	17	51	1.46
684646--684691	23	2.1	21	92	8	74	71	2	0	26	0.97
685471--685514	11	4.1	11	85	5	63	34	0	0	65	0.93
685458--685535	27	2.9	27	73	17	81	39	0	0	60	0.97
685466--685514	21	2.5	20	86	6	64	34	0	0	65	0.93
685522--685568	20	2.3	20	82	10	60	44	0	0	55	0.99
685510--685590	33	2.5	34	82	11	107	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)
686754--686833	6	13.3	6	86	0	79	16	1	55	27	1.49
686829--686859	12	2.6	12	94	0	53	6	6	54	32	1.51
686838--686884	18	2.6	18	80	6	51	2	2	59	36	1.21
686894--686934	15	2.7	15	88	0	55	17	0	51	31	1.46
688010--688076	19	3.5	19	78	17	68	65	0	0	34	0.93
687993--688079	38	2.4	38	84	5	117	65	0	0	34	0.93
688031--688080	5	10.0	5	78	8	57	72	0	0	28	0.86
688857--688911	5	10.8	5	81	18	69	38	0	0	61	0.96
688866--688930	11	6.1	11	81	15	75	33	1	0	64	1.03
688813--688884	36	2.0	37	83	2	92	40	2	2	54	1.29
688857--688920	16	4.1	16	92	7	98	37	1	0	60	1.06
688857--688930	21	3.6	20	79	13	71	35	1	0	63	1.03
689333--689364	15	2.1	16	94	5	57	40	0	0	59	0.97
689809--689839	3	10.3	3	100	0	62	64	0	0	35	0.94
691530--691564	17	2.2	16	90	10	54	34	5	0	60	1.21
692231--692259	8	3.6	8	100	0	58	37	0	0	62	0.96
693067--693091	12	2.1	12	100	0	50	32	0	0	68	0.90
693778--693817	21	1.9	21	90	10	64	40	0	0	60	0.97
697416--697482	17	3.9	17	73	18	59	53	0	0	46	1.00
697776--697825	21	2.4	22	80	16	61	46	0	0	54	1.00
697750--697802	27	2.0	27	82	14	65	45	1	0	52	1.11
697791--697860	30	2.5	28	82	17	92	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
697751--697864	49	2.2	50	83	11	135	44	0	0	54	1.06
698243--698283	3	13.3	3	89	5	55	60	0	4	34	1.18
698566--698605	2	20.0	2	89	0	62	47	2	0	50	1.14
704307--704358	19	2.7	20	75	25	58	42	0	0	57	0.98
704307--704390	17	5.0	17	72	12	68	44	0	0	55	0.99
704343--704401	31	2.0	30	83	12	77	49	0	0	50	1.00
704390--704457	26	2.5	26	77	11	66	48	0	2	48	1.16
707319--707357	3	13.0	3	100	0	78	66	0	0	33	0.92
709029--709065	2	19.0	2	94	5	67	48	0	0	51	1.00
709863--709898	2	18.0	2	94	0	63	52	0	47	0	1.00
709898--709926	2	14.5	2	100	0	58	51	0	0	48	1.00
712911--712938	2	14.0	2	100	0	56	50	0	0	50	1.00
714042--714113	23	3.0	23	70	11	65	37	1	0	61	1.05
718177--718203	2	13.5	2	100	0	54	48	0	0	51	1.00
720148--720184	11	3.2	12	81	14	51	62	0	0	37	0.96
720353--720382	1	30.0	1	93	0	51	3	96	0	0	0.21
722208--722243	2	18.0	2	100	0	72	0	50	0	50	1.00
722243--722277	2	17.5	2	93	0	61	45	0	0	54	0.99
723366--723466	27	3.8	27	69	17	84	41	0	0	57	1.05
726948--726974	12	2.2	12	100	0	54	29	0	7	62	1.22
729412--729445	2	17.0	2	100	0	68	50	0	0	50	1.00
730595--730754	79	2.0	79	98	0	311	25	10	18	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
730855--730950	47	2.0	47	93	0	165	27	13	16	42	1.86
733631--733700	17	4.3	17	77	13	67	58	1	0	40	1.07
733725--733768	14	3.2	14	78	15	56	45	2	0	52	1.13
734362--734387	3	8.7	3	100	0	52	69	0	0	30	0.89
734751--734802	5	10.2	5	91	4	59	71	1	26	0	0.97
734751--734802	15	3.4	15	83	2	68	71	1	26	0	0.97
735550--735645	48	2.0	48	100	0	192	33	22	16	27	1.96
735716--735746	2	15.5	2	93	0	53	54	0	0	45	0.99
735740--735773	15	2.3	15	94	0	59	64	11	5	17	1.45
736212--736246	3	11.7	3	93	0	61	62	0	0	37	0.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21