genome.fa.s106.2.7.7.80.10.50.1000.14.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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  14  of  27  ( 3135 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)
2247707--2247750	23	2.0	22	86	4	61	40	2	0	56	1.11
2248149--2248182	2	17.0	2	100	0	68	50	0	0	50	1.00
2248381--2248428	21	2.3	22	82	13	66	50	14	0	35	1.44
2248538--2248577	19	2.2	19	90	4	64	62	0	2	35	1.09
2254250--2254566	162	2.0	162	100	0	634	51	12	15	20	1.76
2255428--2255493	28	2.2	32	82	12	88	43	3	0	53	1.16
2255462--2255535	12	6.0	13	73	17	61	47	1	0	51	1.09
2255500--2255541	12	3.4	12	83	3	57	50	2	0	47	1.14
2255464--2255541	24	3.2	24	81	16	90	48	1	0	50	1.09
2255606--2255636	16	1.9	16	93	0	53	54	0	0	45	0.99
2256289--2256352	31	2.2	30	88	8	96	43	0	0	56	0.99
2256317--2256367	21	2.4	21	83	6	59	41	0	1	56	1.10
2263086--2263118	17	1.9	17	93	0	57	24	9	12	54	1.66
2267499--2267705	105	2.0	105	95	0	369	24	15	21	38	1.93
2268625--2268654	12	2.6	12	94	5	53	0	20	0	80	0.72
2269310--2269343	17	2.0	17	88	11	52	29	11	8	50	1.69
2275642--2275978	171	2.0	171	90	0	530	34	15	21	29	1.94
2278704--2278737	2	17.0	2	100	0	68	50	0	0	50	1.00
2280594--2280636	22	1.9	22	85	4	59	39	2	2	55	1.25
2281224--2281262	3	13.0	3	100	0	78	66	0	0	33	0.92
2282944--2282973	2	15.0	2	92	0	51	53	0	0	46	1.00
2283985--2284011	2	13.5	2	100	0	54	0	0	48	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2284431--2284469	2	19.5	2	100	0	78	48	0	0	51	1.00
2286610--2286643	17	2.1	16	89	10	52	41	8	0	50	1.34
2287130--2287177	23	2.1	23	92	7	80	47	14	4	33	1.63
2288859--2288933	35	2.2	33	79	9	80	49	1	1	48	1.18
2289249--2289290	15	2.9	15	78	3	50	45	2	0	52	1.13
2290121--2290190	21	3.4	21	75	13	56	60	0	0	40	0.97
2291647--2291686	19	2.1	19	86	9	55	32	0	2	65	1.06
2291653--2291696	13	3.3	13	84	12	54	31	0	0	68	0.90
2291655--2291704	6	8.5	6	80	10	50	30	2	0	68	1.01
2291655--2291704	19	2.8	18	80	17	59	30	2	0	68	1.01
2293242--2293297	13	4.5	13	76	19	57	37	0	0	62	0.95
2294053--2294090	17	2.1	18	85	9	51	44	2	10	42	1.52
2294269--2294315	22	2.1	22	84	7	60	40	0	0	59	0.97
2296649--2296679	2	15.5	2	100	0	62	51	0	0	48	1.00
2299271--2299297	2	13.5	2	100	0	54	48	0	0	51	1.00
2300400--2300457	11	5.6	11	76	15	70	63	1	0	34	1.04
2300398--2300457	20	3.0	20	87	4	86	65	1	0	33	1.03
2300721--2300771	20	2.7	18	74	20	50	50	0	1	47	1.12
2300856--2300887	2	16.0	2	100	0	64	50	0	0	50	1.00
2303122--2303368	123	2.0	123	97	0	467	44	3	6	45	1.47
2303526--2303739	108	2.0	108	96	0	392	34	14	18	33	1.91
2303776--2303894	20	5.9	20	70	9	82	37	6	18	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2303778--2303894	40	2.9	39	79	5	126	38	6	18	35	1.78
2303801--2303908	40	2.7	40	81	2	128	37	7	20	35	1.81
2304985--2305016	2	16.0	2	100	0	64	50	0	0	50	1.00
2305624--2305664	2	21.0	2	90	5	66	46	0	2	51	1.14
2306230--2306268	19	2.0	20	85	14	55	43	0	5	51	1.24
2307075--2307124	22	2.3	23	80	13	61	36	0	0	64	0.94
2308859--2308951	30	3.3	30	68	15	81	51	2	0	46	1.13
2310781--2310813	2	17.0	2	93	6	59	0	48	0	51	1.00
2310973--2311027	22	2.5	20	78	16	56	56	1	1	40	1.21
2311089--2311137	20	2.5	20	83	6	57	48	6	0	44	1.27
2311437--2311461	10	2.5	10	100	0	50	40	8	0	52	1.31
2311469--2311529	17	3.3	18	72	20	54	36	1	1	60	1.16
2311610--2311634	13	1.9	13	100	0	50	32	0	0	68	0.90
2315068--2315117	18	2.7	19	77	22	54	50	0	0	50	1.00
2315068--2315142	22	3.4	21	73	10	69	46	0	0	53	1.00
2323498--2323583	42	2.0	42	100	0	172	37	6	24	31	1.82
2326601--2326652	26	2.0	27	88	3	79	42	0	5	51	1.25
2326938--2326981	2	22.0	2	100	0	88	50	0	0	50	1.00
2329951--2329982	2	16.0	2	100	0	64	50	0	0	50	1.00
2330435--2330514	31	2.7	28	79	12	72	58	2	1	37	1.19
2330442--2330514	32	2.4	29	82	13	85	56	1	1	41	1.16
2330440--2330521	30	2.8	27	77	17	83	58	1	1	39	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2332293--2332345	18	2.8	19	82	5	63	30	1	1	66	1.13
2332415--2332447	15	2.1	16	88	5	50	27	0	6	66	1.15
2332579--2332628	25	2.0	25	88	4	73	32	6	2	60	1.32
2332639--2332676	16	2.4	17	82	13	53	50	0	0	50	1.00
2333930--2333984	25	2.2	26	87	9	78	34	1	0	63	1.05
2334906--2335047	30	4.7	29	70	16	103	54	0	0	44	1.05
2334904--2334957	14	4.1	14	75	20	53	61	0	0	38	0.96
2334975--2335023	18	2.8	17	77	17	55	51	0	0	48	1.00
2334906--2335004	33	3.1	32	75	13	98	57	1	0	41	1.05
2334967--2335040	26	2.8	28	76	12	84	55	0	0	44	0.99
2335495--2335545	19	2.7	19	85	8	61	39	0	0	60	0.97
2336754--2336806	27	2.0	27	81	7	63	18	35	18	26	1.95
2337090--2337220	65	2.0	66	96	1	246	20	26	9	42	1.83
2338857--2338893	15	2.4	16	82	13	51	35	0	0	64	0.94
2338937--2338990	22	2.5	21	85	5	72	59	0	1	38	1.08
2338932--2338993	22	2.9	22	75	13	67	56	0	1	41	1.09
2339283--2339313	16	1.9	16	100	0	62	45	0	3	51	1.17
2343204--2343250	21	2.2	21	80	0	58	36	21	31	10	1.88
2348532--2348579	19	2.5	20	73	10	55	54	0	0	45	0.99
2355023--2355063	2	20.5	2	94	0	73	0	51	0	48	1.00
2359864--2359896	16	2.0	17	88	5	50	39	6	0	54	1.25
2360464--2360508	21	2.1	22	83	4	56	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2360510--2360553	19	2.2	20	84	12	63	50	0	0	50	1.00
2361104--2361176	33	2.1	34	82	5	85	53	0	1	45	1.09
2366178--2366225	12	4.1	12	82	10	55	45	2	0	52	1.12
2366186--2366229	13	3.5	13	78	6	54	47	2	0	50	1.13
2366752--2366801	21	2.4	21	80	6	57	42	22	2	34	1.65
2367914--2367996	16	5.4	16	69	23	54	36	0	6	57	1.23
2368361--2368385	10	2.5	10	100	0	50	56	0	0	44	0.99
2368378--2368426	19	2.5	20	80	16	57	36	2	0	61	1.08
2368368--2368426	11	5.9	10	79	16	52	40	1	0	57	1.09
2368409--2368462	17	3.1	17	76	10	56	48	1	0	50	1.11
2368427--2368467	15	2.6	16	82	14	50	51	0	0	48	1.00
2374616--2374655	3	13.7	3	94	5	73	67	0	0	32	0.91
2375046--2375076	2	15.5	2	100	0	62	51	0	0	48	1.00
2375208--2375269	22	2.7	24	83	14	78	46	0	0	53	1.00
2375570--2375599	3	10.0	3	100	0	60	33	0	0	66	0.92
2381705--2381772	34	2.0	34	85	0	91	29	7	10	52	1.62
2382318--2382375	24	2.3	26	82	5	75	34	24	13	27	1.93
2382389--2382434	24	1.9	24	91	8	76	23	8	21	45	1.80
2384979--2385024	21	2.1	22	84	4	58	30	19	30	19	1.97
2386888--2386945	24	2.3	26	91	5	93	32	25	15	25	1.95
2386959--2387004	24	1.9	24	91	8	76	23	8	21	45	1.80
2387559--2387601	2	21.5	2	100	0	86	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2387914--2387946	16	2.0	17	94	5	59	45	0	0	54	0.99
2391881--2391939	3	19.7	3	96	0	109	64	0	1	33	1.04
2392870--2392904	2	17.5	2	100	0	70	51	0	0	48	1.00
2402042--2402088	21	2.3	20	82	7	51	61	0	0	38	0.96
2402943--2402988	19	2.4	20	85	7	60	32	4	0	63	1.14
2402943--2402999	18	3.0	20	80	7	66	35	5	0	59	1.20
2404647--2404688	5	8.4	5	79	10	50	61	0	0	38	0.96
2404647--2404698	25	2.1	25	89	7	79	61	0	0	38	0.96
2404639--2404791	82	1.9	81	81	14	188	60	0	0	38	1.01
2404909--2404947	18	2.1	19	85	4	53	61	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