genome.fa.s223.2.7.7.80.10.50.1000.20.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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  20  of  26  ( 3021 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)
3225216--3225327	56	2.0	56	96	0	206	33	16	11	38	1.85
3232921--3232982	14	4.6	13	78	13	56	43	0	0	56	0.99
3233287--3233333	18	2.5	20	86	10	64	34	2	0	63	1.06
3234335--3234378	2	22.0	2	100	0	88	50	0	50	0	1.00
3236158--3236485	36	8.7	39	68	12	193	39	20	6	32	1.79
3236158--3236485	75	4.4	75	92	0	512	39	20	6	32	1.79
3236603--3236641	15	2.6	15	87	0	60	15	10	48	25	1.76
3237641--3237691	16	3.0	17	74	8	50	64	1	0	33	1.05
3239566--3239605	15	2.7	14	88	7	53	42	22	0	35	1.54
3243765--3243810	17	2.8	16	78	15	58	52	0	0	47	1.00
3244013--3244053	15	2.6	16	84	7	57	41	0	0	58	0.98
3243995--3244048	16	3.4	16	77	10	58	44	0	1	53	1.11
3244013--3244063	15	3.1	17	81	16	54	39	0	0	60	0.97
3244338--3244378	15	2.8	15	82	13	50	31	0	0	68	0.90
3244337--3244388	21	2.6	21	87	6	72	30	0	1	67	1.02
3246480--3246511	2	16.0	2	93	0	55	53	0	46	0	1.00
3248520--3248558	19	2.1	19	100	0	78	33	30	10	25	1.89
3254423--3254454	3	10.7	3	100	0	64	34	0	0	65	0.93
3254509--3254862	135	2.6	138	86	7	499	42	3	11	41	1.60
3255943--3255998	20	2.8	19	86	7	76	46	0	0	53	1.00
3255882--3255988	55	1.9	57	81	7	130	42	0	0	55	1.12
3256360--3256401	10	3.8	12	82	17	56	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3256391--3256439	17	2.8	17	79	14	64	57	0	0	42	0.99
3256396--3256449	22	2.7	20	80	8	56	59	0	0	40	0.98
3256665--3256722	17	3.2	17	76	18	55	44	0	1	53	1.10
3256931--3257013	31	2.6	31	90	3	130	21	22	25	30	1.99
3263411--3263481	29	2.6	26	83	12	97	32	2	4	60	1.30
3263425--3263484	29	2.1	29	96	0	111	28	5	3	63	1.31
3263727--3263788	2	31.0	2	96	0	115	48	0	1	50	1.10
3264396--3264440	22	2.1	22	87	4	65	48	6	13	31	1.68
3264453--3264501	21	2.4	19	80	12	53	48	6	2	42	1.39
3266548--3266590	2	21.5	2	95	0	77	51	2	0	46	1.13
3267992--3268028	19	1.9	19	89	10	58	32	0	0	67	0.91
3274159--3274201	15	2.9	15	76	13	52	67	0	0	32	0.91
3274140--3274189	23	2.1	25	81	7	59	60	0	0	40	0.97
3274159--3274204	16	3.0	16	76	20	53	67	0	0	32	0.91
3274291--3274322	14	2.1	16	88	11	50	50	6	3	40	1.43
3277446--3277491	22	2.1	22	95	0	83	19	23	6	50	1.71
3279518--3279543	11	2.4	11	100	0	52	15	11	0	73	1.11
3280431--3280511	30	2.7	30	86	0	108	33	9	8	48	1.67
3280965--3281022	23	2.8	19	75	24	64	46	0	0	53	1.00
3280965--3281029	23	3.0	22	71	22	57	47	0	1	50	1.10
3281767--3281910	73	2.0	73	86	2	200	36	20	8	34	1.83
3282600--3282670	25	2.9	25	78	17	69	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3282855--3282915	20	2.6	25	75	24	69	44	0	0	55	0.99
3284005--3284047	16	2.8	15	75	6	50	46	0	2	51	1.13
3284020--3284065	22	2.1	23	84	12	69	45	0	0	54	0.99
3283969--3284073	53	2.0	53	86	3	149	45	0	2	51	1.16
3284038--3284129	24	3.8	24	72	20	75	44	1	0	54	1.07
3284137--3284182	24	1.9	23	86	8	65	41	0	2	56	1.11
3284137--3284182	23	1.9	25	86	8	69	41	0	2	56	1.11
3286058--3286125	35	2.0	32	83	8	82	51	0	2	45	1.16
3286168--3286223	28	1.9	30	86	13	82	58	0	0	41	0.98
3286815--3286866	3	17.3	3	100	0	104	65	0	0	34	0.93
3286865--3286899	3	11.7	3	100	0	70	34	0	0	65	0.93
3287236--3287270	17	2.0	18	94	5	63	28	0	0	71	0.86
3287242--3287287	22	2.1	22	84	8	58	28	0	2	69	1.00
3287426--3287513	43	2.0	43	86	4	124	35	10	11	43	1.75
3296627--3296824	102	1.9	102	89	2	308	35	7	14	42	1.72
3297000--3297040	19	2.1	19	86	4	55	39	2	0	58	1.11
3298228--3298269	22	1.9	22	85	9	59	28	0	0	71	0.86
3298786--3298844	5	12.0	5	77	15	61	55	0	1	42	1.09
3298786--3298844	28	2.0	31	90	9	97	55	0	1	42	1.09
3298786--3298844	25	2.2	27	88	11	86	55	0	1	42	1.09
3298870--3298921	24	2.2	24	82	0	59	51	0	1	46	1.12
3299939--3299967	15	1.9	15	100	0	58	75	3	0	20	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3299960--3300003	21	2.2	20	87	4	61	68	2	0	29	1.02
3303042--3303101	15	4.1	15	74	20	63	55	0	0	45	0.99
3303535--3303560	7	3.7	7	100	0	52	11	11	0	76	1.01
3304739--3304764	4	6.5	4	100	0	52	76	0	0	23	0.78
3305011--3305088	16	4.8	16	82	4	86	57	3	1	37	1.25
3305011--3305108	48	2.0	49	80	9	112	59	6	1	33	1.29
3305447--3305539	14	6.6	14	76	14	77	62	0	0	37	0.96
3305447--3305539	27	3.3	26	73	19	89	62	0	0	37	0.96
3305445--3305564	52	2.2	54	89	7	181	60	0	0	40	0.97
3305476--3305579	16	7.2	16	76	20	90	57	0	0	41	1.05
3306462--3306499	16	2.4	16	86	8	51	42	0	0	57	0.98
3312477--3312511	2	18.0	2	88	5	54	48	2	0	48	1.16
3312959--3313021	20	3.1	21	88	6	69	38	0	0	61	0.96
3312973--3313029	21	2.8	21	89	10	91	31	0	0	68	0.90
3313456--3313512	29	1.9	31	89	10	93	57	3	5	33	1.38
3313558--3313617	22	2.6	21	80	20	59	55	1	0	43	1.10
3313575--3313630	26	2.4	22	79	11	58	44	0	0	55	0.99
3321914--3321965	25	2.1	25	92	7	88	55	0	0	44	0.99
3321915--3321955	12	3.3	12	80	6	55	53	0	0	46	1.00
3322220--3322253	18	1.9	18	88	5	52	11	11	8	67	1.42
3330920--3330958	16	2.4	17	83	8	55	25	0	0	74	0.82
3331589--3331621	12	2.6	13	85	9	50	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)
3332719--3332779	25	2.4	27	79	17	69	44	1	0	54	1.10
3333130--3333184	20	2.8	19	78	13	58	29	1	0	69	0.99
3333955--3333995	6	7.0	6	81	15	50	29	0	4	65	1.13
3333957--3333995	11	3.4	11	85	7	51	28	0	5	66	1.12
3333955--3334001	18	2.8	16	79	17	51	27	0	4	68	1.08
3334100--3334156	28	2.0	28	86	6	80	28	3	1	66	1.18
3334104--3334138	17	2.1	16	94	5	61	34	0	0	65	0.93
3334665--3334734	30	2.3	30	83	14	81	55	0	0	44	0.99
3346820--3346884	24	2.6	25	75	18	64	49	0	0	50	1.00
3352016--3352044	2	15.0	2	92	7	51	0	0	51	48	1.00
3356345--3356476	71	1.9	69	84	3	174	54	5	9	31	1.54
3357366--3357421	20	2.7	21	76	13	55	46	0	0	53	1.00
3357392--3357450	28	2.1	28	87	9	84	40	0	0	59	0.97
3357763--3357799	17	2.2	17	90	9	58	35	2	0	62	1.10
3359034--3359087	26	2.0	27	85	3	74	29	11	0	59	1.32
3359119--3359168	22	2.6	19	75	18	50	54	2	0	44	1.11
3359575--3359646	21	3.6	19	76	10	56	55	0	0	44	0.99
3359692--3359732	8	5.4	8	85	11	50	48	7	0	43	1.30
3359782--3359831	24	2.1	23	85	3	64	38	0	0	62	0.96
3360394--3360450	20	2.8	19	76	10	60	63	0	3	33	1.12
3360420--3360462	17	2.5	17	85	11	52	58	0	2	39	1.11
3361010--3361042	3	11.0	3	100	0	66	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3361765--3361795	3	10.3	3	100	0	62	67	0	0	32	0.91
3362061--3362098	2	19.0	2	100	0	76	50	0	0	50	1.00
3362685--3362728	13	3.3	13	87	6	61	40	0	0	59	0.98
3362688--3362716	14	2.1	14	100	0	58	51	0	0	48	1.00
3362733--3362783	23	2.3	22	80	6	59	60	0	0	39	0.97
3362910--3362950	18	2.3	18	84	12	57	29	0	7	63	1.21
3363004--3363044	21	2.0	21	85	9	57	60	0	0	39	0.96
3363067--3363121	20	2.8	20	86	2	76	58	0	1	40	1.09
3363208--3363250	18	2.4	17	81	18	52	41	0	0	58	0.98
3363223--3363269	15	3.1	16	84	3	53	44	2	0	53	1.12

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