genome.fa.s127.2.7.7.80.10.50.1000.21.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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   

This is table  21  of  26  ( 3103 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)
3311957--3311996	17	2.3	18	86	4	55	57	2	0	40	1.12
3315682--3315724	20	2.2	20	95	0	77	30	13	6	48	1.69
3316035--3316080	11	3.8	13	78	21	64	65	0	0	34	0.93
3316034--3316078	22	2.0	23	91	4	74	64	0	0	35	0.94
3316049--3316138	27	3.3	27	68	15	69	61	2	3	33	1.25
3316207--3316249	19	2.2	19	87	8	59	51	6	2	39	1.42
3318067--3318212	25	5.5	26	71	23	83	58	0	0	39	1.08
3318136--3318201	16	4.2	16	75	14	66	57	0	0	42	0.98
3318083--3318191	32	3.6	31	73	16	97	58	0	0	39	1.10
3318081--3318214	16	8.5	16	63	22	52	58	0	0	40	1.09
3318456--3318517	24	2.5	25	74	12	65	53	0	0	46	1.00
3318474--3318539	28	2.4	27	82	7	71	50	0	1	48	1.10
3318559--3318599	15	2.9	14	78	7	55	24	2	0	73	0.96
3322963--3323226	53	5.0	53	82	3	307	28	12	28	30	1.93
3330531--3330559	14	2.0	15	93	6	51	20	0	10	68	1.18
3331444--3331476	13	2.4	14	90	5	50	60	0	3	36	1.12
3331575--3331630	18	3.1	18	75	12	51	50	5	0	44	1.25
3338780--3338845	15	4.9	13	72	23	57	46	1	0	51	1.10
3338762--3338849	15	5.4	15	72	22	54	47	1	0	51	1.08
3342133--3342176	7	6.3	7	89	0	70	43	18	0	38	1.50
3343004--3343046	11	3.9	11	80	20	54	37	0	0	62	0.95
3344434--3344783	75	4.7	75	75	7	255	26	16	28	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3344504--3344780	150	1.8	150	82	3	351	25	16	28	28	1.97
3344701--3344869	88	1.9	88	86	0	239	24	17	29	28	1.97
3345367--3345455	26	3.5	26	84	6	110	20	20	35	23	1.95
3345421--3345803	78	4.9	78	79	1	383	23	16	34	25	1.96
3345493--3345841	156	2.2	156	80	1	358	23	16	35	24	1.95
3347134--3347324	75	2.5	75	76	3	188	27	18	24	29	1.98
3350432--3350470	4	9.8	4	100	0	78	25	0	0	74	0.82
3354446--3354513	32	2.1	31	82	17	77	48	0	0	51	1.00
3357102--3357139	12	3.2	12	82	17	53	36	0	0	63	0.95
3357323--3357348	3	8.7	3	100	0	52	69	0	0	30	0.89
3359014--3359060	23	2.0	23	87	0	67	36	14	12	36	1.85
3360895--3360959	23	2.8	24	76	19	66	38	0	1	60	1.07
3361052--3361093	16	2.6	16	84	0	57	21	14	26	38	1.91
3361048--3361124	32	2.4	32	86	4	102	19	12	25	41	1.87
3361052--3361125	16	4.7	15	71	15	51	18	13	28	39	1.89
3362489--3362531	22	1.9	22	86	13	61	32	0	0	67	0.91
3364825--3364857	13	2.4	14	90	10	50	42	0	3	54	1.15
3365250--3365293	17	2.6	17	92	3	72	59	0	0	40	0.98
3366606--3366654	17	2.9	17	73	8	55	44	8	4	42	1.53
3368685--3368747	27	2.3	29	72	13	69	47	1	0	50	1.10
3373370--3373407	14	2.8	14	84	4	51	44	0	0	55	0.99
3378596--3378691	44	2.2	44	84	0	120	38	8	23	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3379730--3379785	23	2.3	26	79	14	66	46	0	0	53	1.00
3379883--3379940	31	1.9	31	86	10	84	65	0	1	32	1.03
3380196--3380283	22	4.1	21	81	8	90	75	0	0	25	0.81
3380248--3380276	5	5.8	5	100	0	58	82	0	0	17	0.66
3395818--3395921	51	2.0	51	87	3	147	24	10	33	31	1.89
3397670--3397721	25	2.1	24	82	10	61	50	5	11	32	1.62
3399460--3399516	24	2.5	22	76	15	62	38	0	0	61	0.96
3399835--3399859	2	12.5	2	100	0	50	48	0	0	52	1.00
3407231--3407297	27	2.5	27	95	0	116	25	29	19	25	1.98
3421462--3421500	2	19.5	2	100	0	78	48	0	0	51	1.00
3424290--3424346	2	28.5	2	78	0	51	45	7	5	42	1.53
3424286--3424315	10	3.0	10	100	0	60	50	10	0	40	1.36
3424382--3424519	6	23.2	6	72	1	80	44	6	5	43	1.54
3424382--3424519	8	17.4	8	72	1	80	44	6	5	43	1.54
3424382--3424519	10	13.9	10	71	1	80	44	6	5	43	1.54
3438063--3438104	21	2.0	21	95	0	75	54	19	9	16	1.69
3442519--3442544	2	13.0	2	100	0	52	50	0	0	50	1.00
3452774--3452800	3	9.0	3	100	0	54	33	0	0	66	0.92
3454754--3454801	2	24.0	2	100	0	96	50	0	0	50	1.00
3455026--3455071	23	2.0	23	91	8	76	60	0	6	32	1.22
3455364--3455528	10	17.3	10	71	21	67	60	1	1	36	1.15
3455450--3455501	12	4.2	12	75	9	52	73	0	0	26	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3455444--3455497	23	2.3	24	81	12	67	72	0	0	27	0.85
3455444--3455504	21	2.7	22	80	10	70	72	0	0	27	0.85
3455454--3455533	21	3.9	21	76	15	78	67	0	1	31	0.99
3455353--3455533	11	16.7	11	69	21	66	60	2	1	35	1.18
3456261--3456339	22	3.5	22	70	18	65	41	0	2	55	1.13
3456314--3456351	19	2.1	18	90	5	58	50	0	0	50	1.00
3457338--3457375	17	2.3	16	90	4	58	34	0	2	63	1.09
3457318--3457369	22	2.2	25	83	10	65	30	0	5	63	1.18
3459882--3459911	13	2.4	13	94	5	53	40	10	16	33	1.82
3464441--3464467	2	13.5	2	100	0	54	51	0	0	48	1.00
3464892--3464935	23	2.0	22	86	4	61	34	0	0	65	0.93
3464895--3464949	23	2.3	23	81	9	58	40	0	0	60	0.97
3466265--3466293	2	14.5	2	100	0	58	51	0	0	48	1.00
3472820--3472868	24	2.1	24	88	3	73	55	0	0	44	0.99
3473475--3473545	19	3.8	18	75	21	58	32	0	1	66	1.01
3473507--3473550	20	2.2	20	84	12	54	38	0	0	61	0.96
3473581--3473616	18	2.1	18	89	5	56	41	0	0	58	0.98
3474113--3474157	16	2.9	15	80	6	54	26	0	4	68	1.08
3474219--3474304	39	2.3	38	81	4	102	36	3	5	54	1.41
3477881--3477946	33	1.9	34	82	11	82	57	3	4	34	1.34
3478547--3478579	16	2.0	17	94	5	59	45	0	0	54	0.99
3478757--3478815	16	3.7	16	73	8	57	38	1	5	54	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3478742--3478814	32	2.3	32	85	0	110	39	1	5	53	1.33
3478997--3479053	21	2.8	21	83	2	62	57	0	5	36	1.21
3479091--3479129	18	2.2	18	85	0	51	46	0	23	30	1.53
3479181--3479230	19	2.7	18	82	17	66	60	0	2	38	1.09
3479189--3479228	18	2.2	19	90	4	64	60	0	2	37	1.11
3479320--3479367	21	2.3	21	75	13	55	43	0	8	47	1.33
3479389--3479421	15	2.1	16	88	5	50	87	0	9	3	0.63
3484913--3484978	26	2.7	25	80	13	75	37	0	0	62	0.96
3484922--3484980	5	12.0	5	72	16	52	40	0	0	59	0.97
3485108--3485186	30	2.6	30	80	9	90	54	0	0	45	0.99
3485375--3485404	16	1.9	15	93	6	51	13	0	0	86	0.57
3489289--3489319	2	15.5	2	100	0	62	48	0	0	51	1.00
3491869--3491932	32	2.0	32	84	6	85	46	1	1	50	1.20
3492013--3492067	15	3.6	15	77	2	56	45	0	5	49	1.25
3492097--3492154	29	2.0	29	96	0	107	46	20	3	29	1.67
3494542--3494614	37	2.0	37	97	0	137	35	10	10	42	1.75
3499043--3499076	2	17.0	2	93	0	59	52	0	47	0	1.00
3499491--3499541	26	1.9	26	84	11	68	49	15	13	21	1.79
3501499--3501572	30	2.5	30	82	4	87	47	4	8	40	1.52
3502832--3502879	2	25.0	2	80	16	57	50	2	0	47	1.12
3502839--3502879	9	4.7	9	79	14	50	51	0	0	48	1.00
3503394--3503443	22	2.3	21	80	10	55	44	2	2	52	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3504343--3504376	17	2.0	17	94	0	59	29	20	14	35	1.93
3504557--3504599	3	14.3	3	100	0	86	65	0	0	34	0.93
3504806--3504833	2	14.0	2	100	0	56	50	0	0	50	1.00
3506779--3506812	11	2.9	11	91	8	50	61	2	0	35	1.11
3506835--3506938	53	1.9	54	86	5	149	54	12	0	31	1.44
3511625--3511700	36	2.1	37	90	4	120	34	13	10	42	1.78
3516029--3516062	2	17.0	2	93	0	59	52	0	47	0	1.00
3521983--3522021	17	2.3	17	90	0	60	28	17	12	41	1.87
3524045--3524073	2	14.5	2	100	0	58	48	0	0	51	1.00
3526629--3526692	32	2.0	32	84	6	85	46	1	1	50	1.20

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