genome.fa.s57.2.7.7.80.10.50.1000.23.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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   

This is table  23  of  27  ( 3137 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)
3197848--3197900	27	2.0	27	88	0	79	41	9	3	45	1.54
3197899--3197930	12	2.7	12	95	0	55	18	25	37	18	1.94
3205467--3205501	13	2.6	13	90	4	52	80	0	14	5	0.89
3206419--3206477	22	2.8	20	82	10	64	45	0	0	54	0.99
3207471--3207545	37	2.0	37	94	0	132	52	4	0	44	1.20
3209417--3209454	16	2.2	18	86	9	53	55	0	0	44	0.99
3217510--3217534	12	2.1	12	100	0	50	8	28	16	48	1.74
3218401--3218437	19	2.1	19	90	10	60	59	0	0	40	0.97
3218390--3218444	21	2.7	21	71	28	55	50	0	0	49	1.00
3221462--3221533	31	2.3	30	83	9	74	38	5	13	41	1.68
3223735--3223774	15	2.6	15	88	4	53	25	0	72	2	0.97
3224826--3224890	22	2.8	23	77	17	71	52	0	0	47	1.00
3225219--3225259	21	2.0	21	85	9	57	17	2	0	80	0.82
3225226--3225265	6	6.5	6	86	11	55	15	2	0	82	0.77
3225819--3225885	16	4.1	17	75	24	65	43	0	1	55	1.09
3225818--3225885	18	4.1	18	70	27	60	44	0	1	54	1.09
3225828--3225910	33	2.5	32	88	3	112	43	0	1	55	1.07
3231937--3231969	3	11.0	3	100	0	66	33	0	0	66	0.92
3232299--3232354	24	2.5	24	70	18	57	44	0	0	55	0.99
3234345--3234378	11	3.1	11	95	0	59	41	0	0	58	0.98
3234591--3234631	19	2.2	19	100	0	82	36	0	4	58	1.20
3234822--3234848	2	13.5	2	100	0	54	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3236959--3237032	34	2.2	33	83	11	89	35	1	0	63	1.03
3236990--3237038	20	2.3	22	82	10	66	40	2	0	57	1.10
3237589--3237653	19	3.6	19	78	12	66	63	0	0	36	0.95
3237611--3237674	18	3.3	18	72	14	56	64	0	3	32	1.10
3237728--3237773	20	2.3	20	85	7	58	36	2	2	58	1.22
3237872--3237916	16	2.8	16	80	12	56	64	0	0	35	0.94
3237855--3237916	30	2.0	30	84	6	79	64	0	1	33	1.03
3238646--3238681	6	6.5	6	96	3	51	58	33	0	8	1.28
3240369--3240415	25	1.9	26	87	12	73	51	0	0	48	1.00
3245823--3245890	20	3.6	18	69	13	55	48	0	0	51	1.00
3247081--3247139	26	2.3	24	82	8	64	66	10	10	13	1.46
3247946--3248036	13	7.0	13	71	25	68	39	1	2	57	1.18
3247947--3248036	6	15.0	6	71	22	57	38	1	2	57	1.18
3248786--3248824	13	3.0	13	84	0	51	48	0	0	51	1.00
3248793--3248850	13	4.5	13	76	4	64	50	3	1	44	1.29
3249068--3249094	2	13.5	2	100	0	54	51	0	0	48	1.00
3249269--3249307	19	2.1	19	85	4	53	48	0	0	51	1.00
3249269--3249332	18	3.7	18	74	14	53	50	1	3	45	1.27
3249442--3249473	16	1.9	17	93	6	57	65	0	0	34	0.93
3249471--3249528	22	2.8	20	85	15	73	46	0	0	53	1.00
3249471--3249522	10	4.7	11	81	13	63	48	0	0	51	1.00
3251562--3251595	14	2.4	14	90	0	50	32	2	0	64	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3251550--3251597	19	2.6	18	81	12	53	37	2	0	60	1.09
3257371--3257398	6	4.7	6	100	0	56	17	64	17	0	1.30
3258832--3258866	2	17.5	2	100	0	70	0	48	0	51	1.00
3260354--3260378	1	25.0	1	100	0	50	0	100	0	0	0.00
3263023--3263083	18	3.3	18	72	20	54	62	0	0	37	0.96
3264053--3264115	26	2.3	28	78	13	69	44	0	6	49	1.28
3264351--3264402	20	2.5	20	84	6	68	38	0	0	61	0.96
3264329--3264382	28	1.9	28	84	0	72	35	0	1	62	1.06
3264844--3264914	36	2.0	36	83	5	90	54	0	0	45	0.99
3264850--3264904	25	2.2	24	80	3	65	56	0	0	43	0.99
3265498--3265555	20	2.7	21	84	12	73	43	0	0	56	0.99
3265626--3265678	22	2.4	22	81	9	54	49	0	0	50	1.00
3273572--3273613	21	2.0	21	90	0	66	16	21	23	38	1.93
3277748--3277789	20	2.1	20	86	8	59	38	0	9	52	1.34
3278481--3278558	33	2.4	32	83	12	88	51	0	1	47	1.09
3278486--3278541	25	2.1	28	84	15	75	48	0	1	50	1.11
3278576--3278618	18	2.3	20	88	11	65	65	0	2	32	1.06
3278445--3278612	27	6.5	25	68	21	73	55	0	1	42	1.07
3278729--3278766	20	1.9	20	88	0	58	55	5	0	39	1.23
3281911--3281947	2	19.5	2	89	10	60	51	0	0	48	1.00
3292450--3292483	14	2.4	14	90	0	50	50	0	2	47	1.16
3292991--3293020	6	5.0	6	100	0	60	83	0	0	16	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3293296--3293353	7	7.9	7	76	17	55	31	0	0	68	0.89
3293390--3293443	19	2.7	19	80	13	56	55	1	0	42	1.10
3301044--3301096	21	2.5	21	80	17	65	20	20	5	52	1.66
3301173--3301217	16	3.0	16	78	12	51	26	0	0	73	0.84
3301162--3301219	24	2.4	24	85	8	82	29	0	0	70	0.87
3302507--3302824	153	2.1	156	90	3	502	49	8	7	33	1.62
3304105--3304167	29	2.1	29	82	5	72	49	0	0	50	1.00
3304971--3305000	7	4.1	7	95	4	51	60	0	0	40	0.97
3304994--3305117	58	2.1	58	73	19	107	50	5	0	42	1.31
3304968--3305124	59	2.7	58	73	16	137	50	4	0	43	1.26
3305715--3305762	19	2.6	19	76	3	53	68	4	0	27	1.07
3305740--3305782	23	1.9	22	85	4	59	67	11	2	18	1.32
3306538--3306585	23	2.1	23	85	11	64	54	2	0	43	1.12
3307088--3307126	18	2.2	18	100	0	78	23	30	20	25	1.98
3309945--3310016	34	2.0	34	82	12	83	56	2	1	38	1.22
3311023--3311097	21	3.7	21	75	12	75	40	0	4	56	1.18
3311020--3311293	20	13.5	21	66	16	100	39	1	6	52	1.39
3311171--3311229	9	5.5	11	75	24	56	40	0	6	52	1.28
3311152--3311229	11	7.4	11	71	17	51	42	0	6	51	1.27
3311166--3311286	9	11.7	11	65	26	52	42	1	5	50	1.36
3311730--3311755	8	3.2	8	100	0	52	38	11	0	50	1.39
3318024--3318065	21	2.0	21	85	0	57	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3318149--3318184	19	1.9	19	88	5	56	69	2	0	27	1.02
3327378--3327416	2	19.5	2	94	0	69	51	2	0	46	1.14
3327806--3327839	9	3.6	9	85	14	50	35	0	0	64	0.94
3328285--3328329	2	22.5	2	95	0	81	51	2	0	46	1.13
3328277--3328329	14	3.8	14	94	0	79	50	5	0	43	1.25
3328262--3328325	8	7.8	8	86	6	56	48	9	1	40	1.45
3328262--3328329	12	5.5	12	84	6	73	48	8	1	41	1.43
3335408--3335457	23	2.2	23	92	0	82	44	4	4	48	1.40
3336249--3336309	31	2.0	31	83	0	77	62	0	0	37	0.96
3338106--3338215	47	2.3	47	84	4	132	51	0	0	47	1.06
3338140--3338215	18	4.6	17	79	15	61	56	0	0	43	0.99
3338140--3338197	30	1.9	30	85	0	80	56	0	0	43	0.99
3338161--3338213	17	3.2	15	77	17	52	60	0	0	39	0.97
3338165--3338217	18	2.9	18	86	11	72	58	0	0	41	0.98
3339337--3339400	22	3.0	22	84	6	69	54	1	0	43	1.09
3339336--3339377	16	2.6	16	80	0	57	54	0	0	45	0.99
3342668--3342706	17	2.3	16	86	8	51	33	7	0	58	1.26
3348416--3348471	28	2.0	27	86	3	76	69	1	0	28	0.98
3348416--3348483	26	2.6	27	83	6	77	67	1	0	30	0.99
3348771--3348797	6	4.5	6	100	0	54	0	62	0	37	0.95
3360409--3360441	13	2.4	14	95	5	59	87	0	12	0	0.53
3360411--3360441	14	2.2	14	94	0	53	90	0	9	0	0.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3360782--3360826	22	2.1	21	84	12	56	33	0	4	62	1.15
3360779--3360889	55	2.0	56	98	1	215	41	0	3	54	1.17
3361159--3361222	29	2.1	31	88	5	96	39	0	0	60	0.97
3361164--3361208	21	2.1	21	83	0	54	31	0	0	68	0.89
3361240--3361265	11	2.4	11	100	0	52	53	0	0	46	1.00
3361346--3361427	24	3.1	26	74	16	71	47	0	1	51	1.08
3361378--3361416	19	2.0	20	85	14	55	46	0	0	53	1.00
3361363--3361504	71	1.9	71	80	9	158	45	0	1	52	1.09
3361444--3361493	15	3.4	15	74	20	52	62	0	0	38	0.96
3361447--3361496	14	3.5	14	80	20	59	62	0	0	38	0.96

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