genome.fa.s71.2.7.7.80.10.50.1000.22.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: Scaffold71
Parameters: 2 7 7 80 10 50 1000
Length:  5741892

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   

This is table  22  of  33  ( 3929 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)
3517741--3517797	20	3.1	19	78	9	64	52	0	0	47	1.00
3517780--3517842	16	3.9	16	74	0	63	42	0	0	57	0.99
3517778--3517849	32	2.2	33	95	2	128	48	0	0	51	1.00
3517789--3517860	32	2.2	32	87	2	99	45	0	0	54	0.99
3518050--3518097	17	2.9	16	79	11	53	77	0	22	0	0.78
3518057--3518105	18	2.8	17	75	9	53	79	0	20	0	0.73
3518126--3518204	23	3.2	26	69	18	71	34	0	0	65	0.93
3518145--3518204	18	3.4	17	71	17	50	33	0	0	66	0.92
3518621--3518677	20	2.9	20	71	10	55	28	0	5	66	1.13
3520585--3520618	17	1.9	18	88	5	52	50	0	0	50	1.00
3520763--3520821	17	3.4	17	83	4	64	64	1	0	33	1.04
3520761--3520853	8	10.8	9	71	12	54	61	2	0	36	1.08
3521713--3521749	2	18.5	2	100	0	74	48	0	0	51	1.00
3522511--3522535	12	2.1	12	100	0	50	16	24	40	20	1.91
3538444--3538567	55	2.3	55	80	2	142	25	37	18	19	1.94
3543115--3543157	14	3.4	13	87	12	63	60	0	0	39	0.97
3547032--3547107	18	4.4	18	83	4	95	36	23	6	32	1.81
3554607--3554695	27	3.0	27	80	16	90	53	2	0	43	1.13
3555029--3555078	26	2.0	25	85	11	68	40	0	0	60	0.97
3555787--3555855	20	3.3	20	76	9	66	39	0	0	60	0.97
3555801--3555856	12	5.0	12	73	22	50	37	0	0	62	0.95
3556626--3556668	22	2.0	21	86	4	59	39	2	0	58	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3556671--3556732	32	1.9	33	86	3	90	43	0	1	54	1.09
3557490--3557551	30	2.0	31	81	9	74	46	0	1	51	1.10
3559524--3559552	13	2.2	13	100	0	58	48	0	0	51	1.00
3560356--3560381	2	13.0	2	100	0	52	50	0	0	50	1.00
3560434--3560493	14	4.2	14	77	12	59	36	0	1	61	1.06
3560499--3560544	19	2.5	19	86	10	60	52	0	0	47	1.00
3560525--3560557	16	2.0	17	88	5	50	60	3	0	36	1.12
3560525--3560568	17	2.7	16	82	6	52	59	6	0	34	1.24
3560530--3560586	17	3.4	17	80	7	55	59	10	0	29	1.31
3560834--3560892	23	2.5	23	86	10	84	37	0	0	62	0.95
3567907--3567980	33	2.2	32	84	13	96	44	1	1	52	1.17
3568238--3568311	29	2.6	29	80	8	80	44	2	1	51	1.24
3568636--3568679	3	14.7	3	100	0	88	65	0	0	34	0.93
3568795--3568827	2	16.5	2	100	0	66	51	0	0	48	1.00
3569005--3569162	59	2.7	58	69	15	126	62	0	0	37	1.00
3569067--3569110	17	2.6	18	76	23	51	52	0	0	47	1.00
3569069--3569137	20	3.5	20	68	14	54	55	0	0	44	0.99
3569087--3569162	28	2.8	28	84	11	88	63	0	0	36	0.95
3569097--3569175	29	2.7	30	79	13	83	64	2	0	32	1.07
3569097--3569177	30	2.6	29	77	14	74	65	2	0	32	1.06
3569356--3569384	15	1.9	15	100	0	58	55	3	0	41	1.17
3570547--3570584	2	19.0	2	94	0	67	47	0	2	50	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3573864--3573903	10	3.9	10	86	3	53	55	0	2	42	1.13
3574921--3574947	3	9.0	3	100	0	54	0	33	0	66	0.92
3576017--3576069	3	17.7	3	92	0	88	64	1	1	32	1.15
3582535--3582561	4	6.8	4	100	0	54	77	0	0	22	0.76
3582559--3582591	17	1.9	17	88	11	50	72	0	9	18	1.10
3582889--3582981	8	11.6	8	91	0	123	41	0	7	50	1.30
3582889--3582981	12	7.8	12	88	0	123	41	0	7	50	1.30
3582889--3582981	20	4.8	20	90	5	136	41	0	7	50	1.30
3583824--3583869	20	2.3	20	78	17	51	45	6	0	47	1.28
3585320--3585346	3	9.0	3	100	0	54	66	0	33	0	0.92
3586146--3586186	21	2.0	21	85	9	57	68	4	24	2	1.22
3589040--3589082	22	1.9	23	85	4	61	37	0	9	53	1.33
3589742--3589780	20	2.0	19	90	5	60	46	0	0	53	1.00
3589711--3589793	36	2.3	36	81	6	96	38	1	1	59	1.13
3589747--3589822	18	4.2	19	77	17	81	35	0	0	64	0.94
3589733--3589822	16	5.2	16	74	12	63	37	0	0	62	0.96
3589775--3589807	11	3.1	11	91	4	50	27	0	0	72	0.85
3591229--3591297	29	2.4	29	73	4	77	53	0	0	46	1.00
3591776--3592112	142	2.4	134	93	4	557	37	17	10	34	1.84
3594454--3594486	11	3.1	11	91	4	50	24	0	0	75	0.80
3596112--3596155	22	2.0	22	82	13	54	59	2	0	38	1.10
3611325--3611398	38	2.0	37	84	10	98	55	0	2	41	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3611476--3611517	18	2.3	19	84	12	61	54	0	0	45	0.99
3611474--3611547	28	2.5	30	80	12	91	54	0	1	44	1.08
3611470--3611550	30	2.5	33	76	19	89	54	0	1	44	1.08
3612467--3612498	2	16.0	2	93	0	55	3	0	46	50	1.17
3613570--3613630	25	2.5	26	81	10	74	57	0	0	42	0.98
3613579--3613634	26	2.2	25	87	6	78	57	0	0	42	0.99
3613579--3613634	25	2.2	26	87	6	80	57	0	0	42	0.99
3613562--3613634	12	6.0	12	68	9	58	58	0	0	41	0.98
3613568--3613645	24	3.2	23	79	13	77	52	2	0	44	1.14
3614127--3614183	17	2.7	22	70	30	61	63	1	0	35	1.05
3614128--3614175	17	2.9	17	82	11	64	64	0	0	35	0.94
3614408--3614441	15	2.3	15	90	5	52	55	2	0	41	1.15
3614408--3614441	7	4.7	7	85	7	50	55	2	0	41	1.15
3615474--3615542	36	2.0	33	86	8	93	43	0	1	55	1.08
3615520--3615556	16	2.2	17	86	13	51	40	0	2	56	1.13
3615720--3615789	21	3.1	22	66	15	54	58	0	0	41	0.98
3616313--3616367	21	2.7	20	83	8	67	49	0	0	50	1.00
3616362--3616401	20	2.0	20	85	0	53	47	0	0	52	1.00
3616374--3616442	34	2.1	32	86	10	95	43	2	0	53	1.15
3616315--3616433	47	2.5	47	76	14	120	47	0	0	52	1.06
3617840--3617881	20	2.1	20	86	8	59	35	4	2	57	1.33
3619220--3619258	21	1.9	20	94	5	69	53	2	0	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3619400--3619453	21	2.5	22	84	6	74	42	0	0	57	0.98
3619788--3619825	13	2.8	14	84	8	60	44	0	5	50	1.24
3621433--3621487	26	2.1	27	83	6	69	40	0	0	60	0.97
3623238--3623276	20	2.0	20	90	10	62	66	0	0	33	0.92
3623799--3623835	16	2.3	16	90	0	56	67	0	0	32	0.91
3623875--3623918	7	6.3	7	79	10	54	70	0	0	29	0.88
3623875--3623917	13	3.7	12	82	14	54	69	0	0	30	0.88
3623874--3623919	21	2.2	20	88	3	65	67	0	0	32	0.91
3623967--3624025	20	2.9	21	70	12	59	49	0	3	47	1.18
3624320--3624391	20	3.7	19	78	7	72	33	1	1	63	1.11
3624361--3624385	11	2.3	11	100	0	50	28	0	0	72	0.86
3624345--3624391	18	2.6	18	83	10	51	31	0	0	68	0.90
3625099--3625130	11	2.8	12	90	9	50	25	0	3	71	1.00
3626474--3626498	13	1.9	13	100	0	50	24	0	0	76	0.80
3629535--3629568	16	2.0	18	88	11	54	35	0	0	64	0.94
3635150--3635195	20	2.4	19	85	7	58	41	0	4	54	1.20
3635163--3635207	20	2.2	20	84	4	54	44	0	2	53	1.13
3635291--3635325	17	2.1	16	94	5	61	42	0	0	57	0.99
3649647--3649674	3	9.3	3	100	0	56	32	0	0	67	0.91
3654194--3654234	2	20.5	2	89	0	64	51	0	2	46	1.14
3654988--3655059	20	3.5	20	70	23	60	55	0	1	43	1.08
3655121--3655181	29	2.0	29	87	9	86	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3661725--3661824	10	9.3	11	71	23	61	34	0	2	64	1.05
3661729--3661825	30	3.4	29	76	5	99	35	0	2	62	1.07
3662468--3662505	14	2.6	15	79	8	51	47	0	0	52	1.00
3662747--3662812	31	2.3	30	82	10	75	59	0	0	40	0.98
3662750--3662786	17	2.2	17	90	4	58	56	0	0	43	0.99
3662727--3662812	23	3.6	23	71	18	68	58	1	0	40	1.06
3663904--3663945	2	21.0	2	100	0	84	50	0	0	50	1.00
3665557--3665582	4	6.5	4	100	0	52	23	0	0	76	0.78
3667836--3668514	339	2.0	339	86	1	959	21	23	15	38	1.92
3673564--3673650	21	4.1	22	72	10	58	47	0	0	52	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33