genome.fa.s55.2.7.7.80.10.50.1000.17.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: Scaffold55
Parameters: 2 7 7 80 10 50 1000
Length:  4293517

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  17  of  21  ( 2443 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)
3583693--3594298	159	67.0	158	63	15	1226	36	13	18	31	1.90
3595388--3595440	20	2.7	20	87	0	70	30	20	13	35	1.91
3595469--3595521	19	2.7	20	88	2	81	35	13	18	32	1.90
3596349--3596394	24	1.9	24	100	0	92	23	36	13	26	1.91
3595882--3596866	500	2.0	497	84	3	1277	35	14	18	31	1.91
3601915--3602033	42	2.8	42	92	0	193	8	46	2	42	1.47
3601948--3602023	12	6.9	11	75	15	52	9	48	2	39	1.49
3601939--3602024	24	3.8	24	72	17	85	10	45	2	41	1.51
3601930--3602000	18	3.6	18	69	20	52	9	43	2	43	1.52
3604337--3613603	475	19.5	475	84	2	11421	35	13	18	32	1.90
3604337--3613603	951	9.8	950	85	2	11493	35	13	18	32	1.90
3615817--3616118	129	2.3	131	92	1	500	46	16	13	23	1.83
3617523--3617579	19	3.1	18	77	22	57	15	1	7	75	1.10
3618462--3618560	32	3.1	31	88	5	135	26	17	28	28	1.97
3618534--3620953	61	39.6	61	83	4	2685	29	17	26	26	1.97
3618534--3620944	306	7.9	301	86	3	2717	29	17	26	26	1.97
3621853--3621883	11	2.8	11	95	0	53	6	6	6	80	1.02
3622124--3622180	21	2.7	22	81	13	66	3	14	8	73	1.20
3626548--3626850	131	2.3	131	93	0	507	45	17	14	23	1.84
3628468--3629644	472	2.5	473	88	2	1691	35	13	19	31	1.91
3630410--3630435	13	2.0	13	100	0	52	30	15	15	38	1.88
3630390--3630453	33	2.0	32	90	3	101	26	15	20	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3633023--3633047	13	1.9	13	100	0	50	36	16	16	32	1.90
3633082--3633121	20	2.0	21	95	5	73	35	15	15	35	1.88
3633250--3633275	8	3.2	8	100	0	52	61	23	0	15	1.33
3638439--3638464	13	2.0	13	100	0	52	30	15	15	38	1.88
3638419--3638482	33	2.0	32	90	3	101	26	14	20	39	1.90
3639311--3641372	159	13.1	159	65	13	410	36	12	18	31	1.89
3638900--3647637	476	18.4	476	81	4	9716	35	14	18	31	1.91
3641853--3641914	31	2.0	31	100	0	124	22	19	19	38	1.93
3648391--3648458	33	2.1	33	91	2	111	33	13	16	36	1.87
3648491--3648543	20	2.7	20	87	0	70	30	15	11	43	1.81
3653808--3653833	13	2.0	13	100	0	52	38	15	15	30	1.88
3653786--3653853	33	2.1	32	94	2	118	32	13	17	36	1.89
3653886--3653938	20	2.7	20	87	0	70	30	13	13	43	1.82
3654395--3658426	475	8.5	474	85	2	5394	35	14	17	32	1.91
3654400--3658426	953	4.2	950	95	1	6896	35	14	17	32	1.91
3654605--3658229	159	22.9	158	65	12	855	34	14	18	32	1.91
3663405--3663523	42	2.8	42	92	0	193	8	46	2	42	1.47
3663438--3663513	12	6.9	11	75	15	52	9	48	2	39	1.49
3663429--3663514	24	3.8	24	72	17	85	10	45	2	41	1.51
3663420--3663490	18	3.6	18	69	20	52	9	43	2	43	1.52
3664634--3664706	20	3.6	20	81	3	92	36	12	17	32	1.87
3664651--3664727	21	3.7	21	77	6	86	42	11	16	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3664634--3664727	41	2.3	41	92	3	154	39	11	18	30	1.86
3664766--3664791	13	2.0	13	100	0	52	38	15	15	30	1.88
3664748--3664811	32	2.0	33	87	3	94	42	14	15	28	1.86
3668853--3668883	15	2.1	15	93	0	53	48	16	22	12	1.80
3670962--3670987	13	2.0	13	100	0	52	30	15	15	38	1.88
3672828--3672923	48	2.0	48	100	0	192	37	8	29	25	1.85
3673475--3673547	20	3.6	20	81	3	92	36	12	17	32	1.87
3673492--3673568	21	3.7	21	77	6	86	42	11	16	28	1.84
3673475--3673568	41	2.3	41	92	3	154	39	11	18	30	1.86
3673607--3673632	13	2.0	13	100	0	52	38	15	15	30	1.88
3673589--3673652	32	2.0	33	87	3	94	42	14	15	28	1.86
3675184--3676838	159	10.4	159	66	10	655	34	14	17	32	1.91
3675184--3676834	475	3.5	476	87	2	2512	34	15	17	32	1.91
3681461--3681508	25	1.9	25	91	0	78	31	2	29	37	1.69
3682140--3682237	20	5.6	20	66	30	80	33	15	12	38	1.84
3682161--3682247	13	7.6	13	64	35	58	34	14	11	39	1.83
3682141--3682269	33	3.9	33	93	1	206	31	14	12	41	1.83
3683185--3685856	159	17.0	157	65	13	683	34	14	18	32	1.91
3683107--3686143	476	6.4	474	85	3	3730	34	14	18	32	1.91
3686368--3686502	71	1.9	70	84	4	182	29	14	14	41	1.85
3687476--3687530	20	2.7	21	85	2	76	41	14	16	27	1.87
3693331--3693356	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3695867--3695905	13	3.0	13	96	0	69	35	15	17	30	1.91
3695891--3695929	20	2.0	20	94	0	69	51	10	15	23	1.73
3697984--3698014	15	2.1	15	93	0	53	12	22	16	48	1.80
3699818--3699862	21	2.1	21	84	8	56	22	20	4	53	1.63
3702074--3702099	13	2.0	13	100	0	52	30	15	15	38	1.88
3703619--3703672	19	2.8	19	86	10	74	33	12	18	35	1.89
3703619--3703671	20	2.7	20	88	8	74	32	13	18	35	1.90
3703700--3703765	20	3.7	20	73	26	83	30	15	19	34	1.93
3703716--3703778	13	5.3	13	75	21	66	31	15	19	33	1.93
3703701--3703779	33	2.4	33	100	0	158	30	15	20	34	1.93
3707528--3707563	15	2.4	15	95	0	63	22	0	22	55	1.44
3712361--3712434	20	3.8	19	87	8	96	29	13	18	37	1.90
3712555--3712607	20	2.7	20	100	0	106	33	11	15	39	1.83
3718064--3718088	13	1.9	13	100	0	50	92	0	8	0	0.40
3718169--3718234	19	3.8	18	77	22	79	37	12	15	34	1.84
3718187--3718212	13	2.0	13	100	0	52	38	15	15	30	1.88
3718169--3718231	32	2.0	32	93	6	110	36	12	15	34	1.86
3718274--3718299	13	2.0	13	100	0	52	30	15	15	38	1.88
3718254--3718320	33	2.0	33	88	0	98	25	14	16	43	1.86
3720656--3720779	51	2.4	52	85	6	162	33	20	10	34	1.87
3720656--3720779	54	2.4	51	85	6	160	33	20	10	34	1.87
3720763--3720837	27	2.7	28	89	2	107	24	34	20	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3720792--3720994	78	2.6	79	84	2	248	24	29	16	30	1.96
3723516--3723556	10	4.1	10	93	0	55	82	0	9	7	0.83
3725713--3726339	157	4.0	155	80	4	643	25	16	19	39	1.92
3725713--3726332	312	2.0	313	82	4	752	25	16	19	38	1.92
3729384--3729427	8	5.4	8	89	5	70	0	13	0	86	0.57
3729390--3729427	9	4.2	9	90	10	60	0	13	0	86	0.56
3729375--3729438	17	3.8	17	85	8	78	1	17	1	79	0.89
3729375--3729427	25	2.1	25	89	0	79	0	15	1	83	0.74
3729375--3729438	25	2.6	25	80	9	69	1	17	1	79	0.89
3729650--3729696	20	2.3	21	74	3	51	10	23	17	48	1.77
3730609--3730666	8	6.4	9	79	16	50	20	1	5	72	1.13
3731610--3731712	52	2.0	52	88	3	154	37	11	22	28	1.89
3731767--3732096	32	10.4	31	79	2	291	22	16	30	31	1.95
3731767--3732104	64	5.3	63	80	4	349	22	16	29	31	1.95
3731771--3732096	31	10.3	32	79	4	304	22	16	30	31	1.95
3732056--3732118	32	2.0	32	83	0	81	19	17	33	30	1.95
3732143--3732244	31	3.3	32	78	6	86	18	19	25	36	1.95
3732261--3732353	48	1.9	49	86	2	134	27	12	29	30	1.93
3732310--3733444	28	39.5	28	77	8	737	23	19	29	27	1.98
3732728--3732957	31	7.4	32	77	9	151	18	22	32	26	1.97
3732870--3733017	31	4.8	31	75	5	104	18	26	27	27	1.98
3733723--3733785	26	2.4	26	97	0	117	30	7	22	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3740685--3740724	15	2.7	15	80	0	53	17	0	37	45	1.49
3747530--3747585	20	2.8	20	100	0	112	26	16	14	42	1.86
3747530--3747608	20	4.1	20	90	1	99	30	16	13	39	1.88
3754047--3754089	21	2.1	20	82	4	50	25	11	6	55	1.60
3754678--3754711	3	11.3	3	87	0	50	29	32	0	38	1.58
3756375--3756430	19	2.9	19	83	2	67	35	12	14	37	1.84
3764028--3764068	19	2.1	19	86	4	55	78	4	14	2	1.03
3764035--3764079	24	1.9	23	86	13	65	80	2	15	2	0.92
3765076--3765254	58	2.9	65	83	9	198	28	24	16	30	1.97
3768646--3769271	79	7.9	78	80	9	555	27	24	12	35	1.91

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