genome.fa.s223.2.7.7.80.10.50.1000.17.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  17  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)
2832119--2832182	24	2.8	23	81	11	69	64	1	0	34	1.03
2832308--2832356	17	2.9	16	82	11	53	38	0	0	61	0.96
2833229--2833257	14	2.0	15	93	6	51	65	0	0	34	0.93
2833986--2834021	1	36.0	1	88	0	54	94	5	0	0	0.31
2840062--2840087	3	8.7	3	100	0	52	30	0	0	69	0.89
2848656--2848717	9	6.3	9	72	17	52	54	0	1	43	1.09
2848660--2848718	29	2.0	30	87	9	86	55	0	1	42	1.09
2849284--2849327	16	2.8	16	82	0	52	70	0	0	29	0.88
2849271--2849320	27	2.0	27	84	11	70	64	0	2	34	1.05
2851776--2851821	17	2.8	17	87	12	69	71	0	2	26	0.97
2852021--2852291	139	2.0	138	88	2	411	40	7	4	47	1.54
2852983--2853026	22	2.0	22	86	8	63	54	0	0	45	0.99
2852988--2853041	22	2.5	21	82	11	65	59	0	0	40	0.98
2855213--2855264	13	3.8	13	85	10	68	25	0	0	75	0.81
2855213--2855259	21	2.2	22	85	7	62	25	0	0	74	0.82
2855313--2855366	12	4.5	11	81	9	54	59	1	1	37	1.19
2855877--2855921	21	2.0	22	83	8	56	40	2	0	57	1.11
2856304--2856354	16	3.3	16	78	8	61	27	3	5	62	1.36
2856445--2856485	22	1.9	22	90	5	66	48	0	0	51	1.00
2857132--2857184	23	2.3	23	90	3	79	26	0	3	69	1.05
2857139--2857183	12	3.8	12	79	5	56	28	0	2	68	1.01
2857632--2857687	19	2.9	19	81	7	60	66	3	0	30	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2863214--2863253	20	2.0	20	90	9	64	67	0	0	32	0.91
2863866--2863909	23	2.0	22	82	13	54	45	0	0	54	0.99
2863866--2863913	20	2.3	21	82	7	53	43	0	0	56	0.99
2864600--2864689	45	2.0	45	82	8	112	42	0	1	56	1.06
2864631--2864668	19	2.0	19	90	10	60	34	0	0	65	0.93
2864647--2864705	31	1.9	31	82	6	75	40	1	1	55	1.20
2866249--2866302	2	27.0	2	100	0	108	50	0	50	0	1.00
2866878--2866922	22	1.9	24	86	13	67	46	0	2	51	1.13
2867537--2867594	17	3.4	17	69	11	55	55	0	0	44	0.99
2868204--2868235	16	2.0	16	93	0	55	59	0	3	37	1.13
2868618--2868651	15	2.2	16	89	5	52	61	0	0	38	0.96
2868616--2868660	16	2.8	16	83	10	56	60	2	0	37	1.09
2868755--2868790	18	1.9	18	88	5	54	66	0	5	27	1.13
2868868--2868899	2	16.0	2	100	0	64	50	0	0	50	1.00
2869059--2869107	14	3.6	13	76	10	53	14	2	0	83	0.73
2869638--2869666	2	14.5	2	100	0	58	51	48	0	0	1.00
2870478--2870533	29	1.9	29	85	7	78	48	0	0	51	1.00
2870486--2870535	19	2.6	19	78	12	57	44	0	0	56	0.99
2870480--2870563	23	3.7	24	73	20	83	44	0	0	55	0.99
2870939--2871005	33	2.0	33	100	0	134	44	8	5	40	1.60
2871693--2871717	2	12.5	2	100	0	50	0	0	48	52	1.00
2874581--2874620	20	2.1	19	90	4	62	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2874584--2874629	20	2.3	20	80	0	56	41	0	0	58	0.98
2877491--2877552	26	2.6	22	79	20	63	41	0	1	56	1.09
2877541--2877570	14	2.2	14	94	5	53	36	0	0	63	0.95
2881734--2881765	2	16.0	2	100	0	64	50	0	0	50	1.00
2881743--2881824	41	2.0	41	97	0	155	43	4	15	35	1.69
2895194--2895224	15	2.1	15	93	0	53	58	0	0	41	0.98
2895339--2895423	39	2.2	37	80	13	93	54	0	0	45	1.00
2899642--2899684	22	2.0	23	86	9	63	44	0	2	53	1.13
2899692--2899716	13	1.9	13	100	0	50	60	0	0	40	0.97
2900195--2900227	2	16.5	2	100	0	66	48	0	0	51	1.00
2900621--2900664	11	3.9	12	85	11	58	0	9	2	88	0.59
2900620--2900658	15	2.6	15	84	11	53	0	10	2	87	0.65
2904226--2904279	26	2.1	26	100	0	108	27	27	18	25	1.98
2915884--2915925	3	14.0	3	100	0	84	33	0	0	66	0.92
2916129--2916173	21	2.3	19	84	7	54	46	4	2	46	1.35
2917775--2917814	2	20.0	2	89	0	62	45	0	5	50	1.23
2918393--2918441	25	2.0	25	84	8	64	40	0	4	55	1.19
2918758--2918789	9	3.4	10	87	12	50	50	0	0	50	1.00
2920398--2920439	18	2.2	19	87	8	59	42	0	2	54	1.13
2921335--2921379	14	3.1	14	81	18	56	40	0	0	60	0.97
2922802--2922835	2	17.0	2	100	0	68	0	0	50	50	1.00
2924062--2924090	2	14.5	2	100	0	58	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)
2924090--2924120	2	15.5	2	93	0	53	51	0	0	48	1.00
2926889--2926992	51	2.0	53	85	11	142	40	2	4	51	1.38
2927663--2927698	6	5.8	6	87	6	54	30	0	0	69	0.89
2927701--2927799	28	3.3	27	72	20	72	45	0	1	53	1.07
2927697--2927804	34	3.4	30	72	18	85	46	0	0	52	1.06
2929176--2929205	15	2.0	15	93	0	51	43	0	0	56	0.99
2930758--2930809	25	2.1	25	85	7	70	40	5	9	44	1.61
2931072--2931119	19	2.6	18	81	12	62	54	2	0	43	1.12
2935473--2935545	5	14.0	5	79	11	67	35	0	1	63	1.04
2935479--2935544	33	2.0	32	88	2	96	34	0	1	63	1.04
2938574--2938602	14	2.0	15	93	6	51	20	24	6	48	1.74
2939292--2939336	21	2.1	22	84	8	58	37	2	0	60	1.09
2939239--2939328	32	2.9	31	80	13	98	41	1	0	57	1.06
2940119--2940146	14	2.0	14	100	0	56	14	0	0	85	0.59
2940293--2940338	2	23.0	2	100	0	92	50	0	0	50	1.00
2941468--2941502	17	2.0	18	88	5	54	51	0	0	48	1.00
2941525--2941569	23	2.0	22	82	4	54	44	2	2	51	1.26
2942307--2942354	16	3.1	16	80	17	57	58	0	0	41	0.98
2943342--2943382	2	20.5	2	94	0	73	48	2	0	48	1.14
2943535--2943592	14	3.7	16	71	15	50	48	0	1	50	1.11
2944275--2944307	16	2.1	16	94	0	57	51	0	0	48	1.00
2944582--2944660	14	5.6	14	68	28	53	54	1	0	44	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2944624--2944664	15	2.6	16	77	14	50	53	0	0	46	1.00
2944888--2944959	27	2.6	28	77	18	80	65	1	0	33	1.02
2948228--2948262	3	11.7	3	100	0	70	34	0	0	65	0.93
2955343--2955368	9	2.9	9	100	0	52	57	34	7	0	1.27
2955903--2955958	23	2.3	24	84	9	69	57	1	1	39	1.20
2956098--2956148	22	2.4	22	80	9	61	58	1	1	37	1.20
2956143--2956195	17	3.2	17	76	17	67	45	0	1	52	1.11
2957720--2957758	19	2.0	20	95	5	71	66	0	0	33	0.92
2957852--2957877	13	2.0	13	100	0	52	7	15	0	76	0.99
2958066--2958109	23	1.9	23	81	9	54	61	2	0	36	1.09
2958102--2958164	28	2.2	30	83	11	78	53	1	3	41	1.26
2958475--2958513	19	2.1	19	85	0	51	20	5	2	71	1.17
2958652--2958685	14	2.4	14	85	0	50	29	2	0	67	1.05
2958928--2958956	2	14.5	2	100	0	58	48	0	0	51	1.00
2959170--2959195	9	2.9	9	100	0	52	34	0	7	57	1.27
2959353--2959379	12	2.2	12	100	0	54	25	0	0	74	0.83
2960238--2960305	32	2.1	32	81	5	75	61	4	7	26	1.41
2960373--2960425	26	2.0	27	85	14	74	37	0	1	60	1.08
2960378--2960423	20	2.3	20	80	0	56	36	0	2	60	1.09
2961527--2961586	16	3.6	16	79	18	61	55	0	0	45	0.99
2961510--2961591	33	2.5	33	82	9	87	57	0	0	42	0.98
2961553--2961601	16	2.7	18	87	12	66	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2962393--2962425	2	16.5	2	93	0	57	54	0	0	45	0.99
2962721--2962748	2	14.0	2	100	0	56	50	0	0	50	1.00
2964084--2964122	19	2.1	19	85	0	51	23	10	5	61	1.48
2975818--2975873	21	2.8	20	80	17	71	48	1	0	50	1.11
2975888--2975926	17	2.2	18	86	4	53	30	0	2	66	1.05
2977847--2978041	50	3.9	50	92	0	291	33	19	17	29	1.95
2978614--2978657	23	1.9	23	81	9	54	29	0	9	61	1.27
2978663--2978882	74	3.0	68	75	10	179	33	0	11	54	1.43
2978663--2978851	74	2.6	70	80	5	198	33	1	10	54	1.42
2978954--2979003	15	3.3	15	91	0	82	82	0	18	0	0.68

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