genome.fa.s88.2.7.7.80.10.50.1000.5.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: Scaffold88
Parameters: 2 7 7 80 10 50 1000
Length:  1260485

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 920 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)
551458--551499	2	21.0	2	95	0	75	47	0	2	50	1.14
562713--562750	17	2.1	19	85	9	53	36	5	18	39	1.73
563764--563882	59	2.0	60	95	1	213	37	19	24	18	1.94
564793--564826	2	17.0	2	93	0	59	0	52	0	47	1.00
564958--564982	2	12.5	2	100	0	50	48	0	0	52	1.00
570467--570504	3	12.7	3	88	0	58	65	2	2	28	1.19
570464--570504	15	2.7	15	92	0	64	65	4	2	26	1.25
587697--587731	2	17.5	2	100	0	70	51	0	0	48	1.00
588114--588147	16	2.1	16	94	0	59	17	29	8	44	1.79
591074--591111	17	2.2	18	90	4	60	68	0	0	31	0.90
593200--593272	11	6.5	12	70	17	50	38	0	1	60	1.06
593220--593275	20	2.9	19	80	15	62	46	0	0	53	1.00
593244--593355	10	11.6	10	76	17	76	42	3	0	53	1.18
593229--593280	16	3.1	17	77	20	56	42	0	0	57	0.98
593216--593278	22	2.9	22	72	13	58	42	0	0	57	0.99
593310--593355	2	23.0	2	100	0	92	50	0	0	50	1.00
598835--598885	25	2.0	25	88	7	77	49	9	11	29	1.72
598930--598954	2	12.5	2	100	0	50	52	48	0	0	1.00
599788--599813	2	13.0	2	100	0	52	0	50	0	50	1.00
600240--600321	28	2.9	29	77	17	100	37	0	1	60	1.04
607470--607571	50	2.0	50	100	0	204	37	17	9	35	1.83
613037--613075	6	6.7	6	88	11	55	0	84	0	15	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
614090--614155	5	12.4	5	72	12	51	63	0	0	36	0.95
614074--614156	12	7.6	12	73	18	83	65	0	0	34	0.93
615055--615139	15	5.7	15	79	16	54	62	2	0	35	1.08
615055--615126	16	4.8	15	79	12	60	61	2	0	36	1.11
615052--615185	31	4.3	31	75	13	96	63	2	0	33	1.10
615083--615158	16	4.9	16	85	4	102	63	1	0	35	1.03
618861--618901	6	6.8	6	97	0	64	4	34	0	60	1.18
621100--621348	125	2.0	121	94	3	435	29	34	10	25	1.89
625194--625237	21	2.1	21	83	8	54	43	0	0	56	0.99
630860--630910	24	2.1	24	88	0	75	54	0	3	41	1.19
631046--631122	11	7.0	11	73	13	52	57	0	0	42	0.99
631058--631113	19	3.1	18	75	12	53	62	0	0	37	0.95
634044--634068	12	2.1	12	100	0	50	44	0	0	56	0.99
635429--635512	39	2.2	39	86	0	114	60	7	17	14	1.55
636786--636848	21	2.9	22	75	13	58	50	3	1	44	1.27
637929--637995	29	2.3	29	80	12	68	34	0	0	65	0.93
637941--637995	18	3.0	20	75	17	57	34	0	0	65	0.93
639015--639040	2	13.0	2	100	0	52	50	0	0	50	1.00
640080--640142	2	31.5	2	93	0	81	42	0	7	49	1.32
643809--643836	14	2.0	14	100	0	56	50	0	0	50	1.00
643853--643906	22	2.5	22	80	13	60	50	0	0	50	1.00
643860--643924	32	2.0	33	84	3	87	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
643867--643950	32	2.6	32	78	9	91	47	0	0	52	1.00
643936--643984	6	8.8	6	76	17	52	46	2	0	51	1.12
643937--643966	15	2.0	15	93	0	51	43	0	0	56	0.99
643933--643972	21	2.0	20	95	5	71	42	0	0	57	0.98
643923--643988	27	2.6	24	80	15	78	42	1	0	56	1.08
643991--644040	20	2.5	22	78	18	63	68	2	0	30	1.01
644412--645006	201	3.0	199	86	2	838	24	25	20	29	1.99
647531--647560	2	15.0	2	100	0	60	50	0	0	50	1.00
647849--647903	24	2.2	25	83	3	67	63	1	1	32	1.15
648845--648944	36	2.9	33	78	10	87	42	2	2	54	1.23
649909--649956	9	5.1	9	76	18	53	83	0	14	2	0.74
649911--649956	21	2.2	20	88	3	65	84	0	13	2	0.71
650499--650543	19	2.3	20	85	11	67	53	0	0	46	1.00
652166--652208	21	2.0	21	100	0	86	34	4	9	51	1.55
652170--652216	21	2.3	21	88	3	69	36	2	8	53	1.44
652907--652954	22	2.1	23	88	3	71	41	0	0	58	0.98
655800--655834	17	2.1	17	94	0	61	14	22	37	25	1.92
656550--656600	26	2.0	26	96	0	93	37	7	25	29	1.84
656622--656654	2	16.0	2	93	6	57	48	0	3	48	1.17
659441--659472	2	16.0	2	100	0	64	0	50	0	50	1.00
659293--659648	176	2.0	176	86	5	497	19	29	9	41	1.83
659617--659656	2	20.0	2	100	0	80	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659957--659992	2	18.5	2	88	5	56	47	0	2	50	1.15
661460--661504	2	22.5	2	95	0	81	46	2	0	51	1.13
662571--662613	20	2.2	20	82	0	50	41	0	0	58	0.98
666843--666888	2	23.0	2	100	0	92	50	0	0	50	1.00
667058--667085	2	14.0	2	100	0	56	50	0	0	50	1.00
667863--667905	14	3.0	14	83	6	59	37	0	0	62	0.95
669758--669794	19	1.9	19	94	0	65	13	24	24	37	1.91
672744--672778	18	1.9	18	88	0	52	60	5	0	34	1.21
672765--672803	18	2.1	19	86	13	55	43	0	0	56	0.99
673766--673828	17	3.8	16	72	16	56	60	11	0	28	1.31
673769--673830	16	3.7	16	80	8	63	61	11	0	27	1.30
680876--680900	5	5.0	5	100	0	50	20	0	80	0	0.72
691799--691850	21	2.5	21	75	22	56	44	0	1	53	1.11
691994--692036	20	2.1	21	83	8	54	48	0	4	46	1.22
693462--693501	14	2.9	14	85	11	55	57	0	0	42	0.98
693480--693516	19	1.9	19	88	0	56	64	0	2	32	1.07
694060--694105	22	2.0	25	83	12	62	50	4	0	45	1.21
694835--694876	22	1.9	22	90	0	66	59	0	0	40	0.97
699319--699385	32	2.1	32	83	5	82	62	0	1	35	1.04
699487--699535	19	2.4	21	86	10	66	51	0	0	48	1.00
699947--700012	33	1.9	35	82	11	84	28	10	7	53	1.63
703054--703096	16	2.7	16	81	0	50	46	2	0	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
703044--703116	32	2.2	32	85	7	94	43	2	4	49	1.36
703102--703141	12	3.4	12	86	6	55	52	0	0	47	1.00
703110--703165	12	4.6	12	74	10	51	50	1	5	42	1.35
703173--703212	20	1.9	22	85	10	57	45	0	0	55	0.99
703446--703475	12	2.6	11	90	10	51	50	0	0	50	1.00
703444--703508	29	2.3	27	89	10	96	49	0	0	50	1.00
706060--706110	21	2.5	20	81	15	59	62	0	0	37	0.95
706064--706105	19	2.1	21	86	8	61	61	0	0	38	0.96
707156--707190	2	17.5	2	100	0	70	48	0	0	51	1.00
712972--713006	17	2.1	17	94	5	63	71	0	0	28	0.86
714859--714888	10	3.0	10	95	0	51	46	0	0	53	1.00
714910--714972	24	2.6	25	75	9	78	49	0	0	50	1.00
716944--717005	32	1.9	33	86	3	90	48	3	1	46	1.28
717437--717478	19	2.4	19	80	11	54	57	0	0	42	0.99
717498--717536	20	2.0	20	89	0	60	46	0	0	53	1.00
719079--719115	19	1.9	19	94	0	65	67	0	2	29	1.04
719095--719139	24	2.0	23	82	8	56	68	0	2	28	1.01
719132--719170	16	2.5	16	91	4	62	66	7	0	25	1.18
719545--719600	16	3.5	16	75	18	62	30	1	0	67	1.01
723185--723238	24	2.2	24	80	0	63	44	0	0	55	0.99
723234--723285	21	2.5	22	84	12	74	50	0	0	50	1.00
723221--723281	32	1.9	32	83	6	79	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
723276--723317	20	2.3	17	88	12	57	42	0	0	57	0.99
723264--723327	17	3.6	17	72	15	58	48	0	0	51	1.00
724342--724381	18	2.4	17	87	8	55	55	0	7	37	1.29
724450--724489	16	2.5	15	84	11	53	65	0	0	35	0.93
724445--724493	17	2.8	18	78	12	66	63	0	0	36	0.95
724479--724520	16	2.6	16	88	7	59	64	2	0	33	1.07
727759--727848	1	90.0	1	75	0	63	0	7	6	85	0.74
727762--727850	30	3.0	30	91	3	144	0	10	6	83	0.82
736703--736755	27	1.9	28	88	3	81	37	1	5	54	1.35
738884--738999	57	2.0	57	96	0	214	26	23	11	38	1.88

Tables:   1   2   3   4   5   6   7   8