genome.fa.s72.2.7.7.80.10.50.1000.24.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   34   35   36   37   38   39   

This is table  24  of  39  ( 4596 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)
3484855--3484893	17	2.4	16	91	8	62	61	0	0	38	0.96
3484928--3484966	20	2.1	18	85	9	51	43	0	12	43	1.42
3484927--3484966	18	2.1	18	86	13	53	42	0	12	45	1.42
3485056--3485117	18	3.4	18	77	14	56	32	0	11	56	1.35
3485201--3485269	34	2.0	34	84	15	90	65	1	0	33	1.02
3486270--3486373	10	9.7	10	70	17	66	42	0	0	55	1.12
3486854--3486923	21	3.5	20	70	14	63	60	1	1	37	1.15
3487188--3487221	18	1.9	17	88	5	50	58	14	26	0	1.36
3489035--3489332	148	2.0	148	88	0	443	25	15	19	39	1.91
3495219--3495256	2	19.5	2	94	5	69	50	0	0	50	1.00
3495389--3495422	17	2.0	17	100	0	68	47	0	5	47	1.26
3497322--3497348	14	1.9	14	100	0	54	29	3	0	66	1.09
3500767--3500814	14	3.6	13	81	10	53	45	0	2	52	1.12
3500902--3500935	17	1.9	18	88	5	52	61	0	0	38	0.96
3501110--3501151	22	1.9	22	85	9	59	52	2	0	45	1.13
3501801--3501842	15	2.6	17	81	7	52	38	0	7	54	1.28
3502097--3502162	28	2.5	25	75	22	64	48	4	4	42	1.44
3502314--3502341	2	14.0	2	100	0	56	50	0	0	50	1.00
3502774--3502827	23	2.4	23	87	9	76	62	0	0	37	0.95
3504065--3504113	18	2.6	19	81	12	57	59	0	4	36	1.17
3507632--3507666	17	1.9	19	88	11	56	48	5	2	42	1.41
3508678--3508739	17	3.7	17	76	21	60	53	1	0	45	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3509116--3509166	18	2.8	19	76	11	61	56	0	0	43	0.99
3510659--3510687	2	14.5	2	100	0	58	48	0	0	51	1.00
3511458--3511517	16	4.0	15	74	19	54	78	0	21	0	0.75
3512050--3512098	16	2.9	17	88	8	66	36	0	0	63	0.95
3512056--3512103	16	3.3	15	86	11	64	35	0	0	64	0.94
3512453--3512517	27	2.4	26	82	12	69	44	0	1	53	1.09
3512582--3512608	2	13.5	2	100	0	54	0	48	0	51	1.00
3516668--3516722	28	2.0	27	86	10	76	41	18	9	30	1.81
3520458--3520489	2	16.0	2	100	0	64	50	0	0	50	1.00
3520574--3520614	18	2.3	18	95	0	73	51	0	9	39	1.35
3521349--3521377	2	14.5	2	100	0	58	51	0	0	48	1.00
3521387--3521456	28	2.5	27	75	6	68	35	1	7	55	1.36
3523892--3523955	24	2.8	23	71	19	62	51	0	0	48	1.00
3527420--3527454	7	5.0	7	100	0	70	42	0	14	42	1.45
3527479--3527521	12	3.8	12	87	6	63	16	4	0	79	0.90
3529157--3529185	2	14.5	2	100	0	58	48	0	0	51	1.00
3529740--3529782	18	2.4	18	80	7	52	30	2	2	65	1.18
3536852--3536985	69	2.0	67	95	2	241	41	4	28	26	1.75
3537706--3537755	14	3.6	14	76	10	50	56	0	0	44	0.99
3537939--3537985	22	2.2	22	88	7	71	53	0	0	46	1.00
3538332--3538360	14	2.0	15	93	6	51	41	3	0	55	1.17
3543400--3543452	27	1.9	28	85	11	74	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)
3544736--3544770	17	2.1	17	88	0	52	48	8	8	34	1.64
3544927--3544975	2	24.5	2	100	0	98	48	0	0	51	1.00
3545341--3545374	17	2.0	17	100	0	68	35	5	11	47	1.65
3547713--3547755	23	1.9	23	85	4	61	30	0	0	69	0.88
3555388--3555442	2	27.5	2	100	0	110	49	0	0	50	1.00
3565637--3565686	26	2.0	26	88	4	75	24	10	6	60	1.51
3566056--3566094	19	2.0	20	90	5	62	38	2	0	58	1.12
3566398--3566490	33	2.8	31	72	18	80	52	0	2	45	1.12
3566789--3566849	14	4.2	14	78	12	61	40	4	4	49	1.46
3567048--3567092	19	2.3	20	88	3	65	48	0	0	51	1.00
3567011--3567091	25	3.2	25	78	16	85	46	1	1	50	1.17
3571518--3571566	21	2.4	21	83	10	66	30	0	2	67	1.02
3571526--3571575	20	2.6	18	84	12	64	34	0	2	64	1.05
3580332--3580372	5	8.4	5	79	15	50	36	0	0	63	0.95
3580330--3580393	11	6.2	11	71	22	50	39	0	0	60	0.97
3580317--3580424	18	5.4	19	70	25	71	43	0	0	56	0.99
3580332--3580392	29	2.2	29	85	11	83	39	0	0	60	0.97
3582069--3582167	16	6.2	16	72	4	76	37	3	7	52	1.44
3583136--3583219	23	3.8	22	68	25	61	51	0	0	48	1.00
3583131--3583221	20	4.2	21	72	20	80	51	0	0	48	1.00
3583185--3583306	28	4.3	28	66	23	76	41	0	0	57	1.04
3583642--3583688	2	23.5	2	95	0	85	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3586836--3586911	37	2.1	37	100	0	152	36	10	5	47	1.61
3588812--3588863	27	1.9	27	88	0	77	28	3	19	48	1.66
3588719--3588906	100	1.9	100	82	4	236	30	6	17	45	1.75
3592615--3592659	20	2.3	19	92	3	72	51	0	0	48	1.00
3595600--3595684	38	2.3	37	85	4	109	60	0	0	40	0.97
3595824--3595859	2	18.0	2	94	0	63	50	2	0	47	1.15
3597359--3597419	31	2.0	31	83	6	79	42	0	1	55	1.09
3598259--3598298	21	1.9	21	90	10	64	60	0	0	40	0.97
3598444--3598500	24	2.4	24	90	0	87	57	0	0	42	0.98
3598463--3598546	35	2.6	32	80	17	93	54	0	0	45	0.99
3598436--3598556	52	2.4	50	79	16	126	57	0	0	42	0.99
3598778--3598849	20	3.8	20	69	14	62	50	1	2	45	1.25
3599154--3599193	14	3.1	13	82	10	55	57	0	2	40	1.12
3599204--3599256	26	2.0	26	85	0	70	54	0	0	45	0.99
3600071--3600116	24	2.0	24	91	4	76	58	13	0	28	1.35
3601183--3601208	12	2.2	12	100	0	52	53	0	0	46	1.00
3601706--3601743	20	2.0	20	84	5	51	71	0	2	26	1.00
3602083--3602134	2	26.0	2	92	0	86	50	3	0	46	1.20
3602403--3602444	2	21.0	2	100	0	84	50	0	0	50	1.00
3603614--3603673	25	2.6	23	78	17	70	40	0	0	60	0.97
3603614--3603676	23	2.7	23	77	18	67	41	0	0	58	0.98
3606278--3606309	3	10.7	3	93	0	55	65	3	0	31	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3607637--3607710	24	3.2	22	75	20	71	44	2	0	52	1.15
3608138--3608162	10	2.5	10	100	0	50	52	0	0	48	1.00
3608404--3608437	3	11.3	3	100	0	68	35	0	0	64	0.94
3612435--3612469	2	17.5	2	100	0	70	51	0	48	0	1.00
3617060--3617116	29	2.0	30	83	10	75	38	0	0	61	0.96
3618542--3618585	18	2.5	18	88	3	63	63	0	2	34	1.07
3619182--3619255	24	3.0	23	77	11	67	67	1	6	24	1.22
3626446--3626477	2	16.0	2	100	0	64	50	0	0	50	1.00
3628187--3628234	16	2.7	19	75	21	59	43	0	0	56	0.99
3628573--3628597	6	4.2	6	100	0	50	32	0	0	68	0.90
3628629--3628662	15	2.2	16	89	5	52	32	0	0	67	0.91
3629183--3629287	37	2.8	37	70	11	90	56	0	0	41	1.12
3631274--3631318	24	1.9	24	90	4	74	57	13	0	28	1.36
3632382--3632407	12	2.2	12	100	0	52	53	0	0	46	1.00
3632904--3632941	20	2.0	20	84	5	51	71	0	2	26	1.00
3633280--3633327	2	24.0	2	91	0	78	50	4	0	45	1.21
3633418--3633456	19	2.2	19	86	9	55	66	0	0	33	0.92
3633592--3633616	13	1.9	13	100	0	50	48	0	0	52	1.00
3634779--3634838	25	2.6	23	78	17	70	40	0	0	60	0.97
3634779--3634841	23	2.7	23	77	18	67	41	0	0	58	0.98
3637440--3637471	3	10.7	3	93	0	55	65	3	0	31	1.08
3638814--3638872	24	2.5	22	79	17	64	44	3	0	52	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3639563--3639596	3	11.3	3	100	0	68	35	0	0	64	0.94
3643589--3643631	2	21.5	2	100	0	86	51	0	48	0	1.00
3649686--3649731	18	2.7	18	86	6	60	63	0	2	34	1.07
3649666--3649705	21	1.9	21	85	10	55	50	0	0	50	1.00
3657594--3657625	2	16.0	2	100	0	64	50	0	0	50	1.00
3658869--3658914	24	2.0	24	91	4	76	52	2	0	45	1.13
3659352--3659435	16	5.1	17	70	16	70	39	0	2	58	1.11
3659727--3659751	6	4.2	6	100	0	50	32	0	0	68	0.90
3659783--3659816	15	2.2	15	89	5	50	32	0	0	67	0.91
3660818--3660842	9	2.8	9	100	0	50	52	0	0	48	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   34   35   36   37   38   39