genome.fa.s11.2.7.7.80.10.50.1000.16.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

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   28   29   

This is table  16  of  29  ( 3461 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)
2206577--2206613	18	2.1	18	100	0	74	29	21	21	27	1.99
2207295--2207333	20	2.0	20	89	0	60	61	0	0	38	0.96
2207329--2207405	32	2.5	31	84	12	97	53	0	0	46	1.00
2207329--2207415	15	5.7	15	72	20	65	55	0	0	44	0.99
2207943--2207968	2	13.0	2	100	0	52	50	0	50	0	1.00
2208554--2208595	18	2.3	19	80	12	52	66	0	0	33	0.92
2208668--2208715	20	2.4	19	76	10	51	47	0	0	52	1.00
2209531--2209563	14	2.4	14	90	10	50	69	0	0	30	0.88
2209804--2209843	19	2.1	19	100	0	80	30	20	5	45	1.72
2210682--2210732	26	2.0	25	85	11	68	47	0	3	49	1.20
2210922--2210987	33	1.9	35	81	6	82	54	1	1	42	1.18
2211202--2211246	13	3.4	14	82	14	60	66	0	0	33	0.92
2211201--2211286	19	4.4	19	74	8	75	63	0	0	36	0.94
2211201--2211286	6	14.3	6	71	17	63	63	0	0	36	0.94
2211201--2211271	17	4.0	17	80	12	72	64	0	0	35	0.94
2211222--2211292	17	4.1	18	81	16	80	61	0	0	38	0.96
2211213--2211293	17	4.9	17	79	18	68	62	0	0	37	0.95
2211266--2211307	20	2.2	19	83	12	50	61	2	2	33	1.21
2217577--2217605	2	14.5	2	100	0	58	48	0	0	51	1.00
2221470--2221499	14	2.1	14	93	0	51	16	0	0	83	0.65
2223449--2223480	16	2.0	16	93	0	55	28	3	0	68	1.04
2223594--2223633	15	2.7	15	88	7	55	55	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2223587--2223634	8	6.1	8	80	11	55	54	0	0	45	0.99
2223605--2223641	15	2.4	16	95	4	67	54	0	0	45	1.00
2223587--2223634	23	2.0	24	88	4	71	54	0	0	45	0.99
2228316--2228362	19	2.6	18	77	12	51	61	2	2	34	1.20
2233964--2233993	12	2.4	12	94	5	51	90	0	3	6	0.56
2237268--2237307	18	2.2	18	95	0	71	47	7	5	40	1.54
2238634--2238675	21	2.0	21	85	0	57	42	19	33	4	1.72
2240461--2240498	2	19.0	2	100	0	76	50	0	0	50	1.00
2242948--2242982	2	17.5	2	100	0	70	48	0	0	51	1.00
2243823--2243866	20	2.3	18	84	7	61	47	0	0	52	1.00
2243878--2243919	16	2.8	16	85	7	52	59	0	0	40	0.97
2245823--2245848	2	13.0	2	100	0	52	50	0	0	50	1.00
2249485--2249520	17	2.1	17	89	0	54	47	0	0	52	1.00
2249706--2249747	22	2.0	22	86	9	61	42	4	0	52	1.22
2250269--2250302	16	2.1	15	89	10	50	58	0	0	41	0.98
2251939--2252133	97	2.0	97	97	0	372	26	16	17	40	1.90
2252160--2252193	15	2.2	15	89	5	50	0	17	0	82	0.67
2258145--2258191	22	2.1	23	92	4	78	57	0	0	42	0.98
2258152--2258204	22	2.5	20	74	17	52	54	1	0	43	1.11
2264796--2264835	21	1.9	21	84	0	53	52	7	2	37	1.43
2267821--2267850	9	3.3	9	90	0	51	6	0	93	0	0.35
2271527--2271553	2	13.5	2	100	0	54	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)
2275993--2276033	16	2.6	17	85	11	52	65	0	2	31	1.05
2279774--2279798	12	2.1	12	100	0	50	40	0	8	52	1.31
2281399--2281435	2	18.5	2	94	0	65	51	0	0	48	1.00
2283748--2283786	2	19.5	2	94	0	69	53	0	0	46	1.00
2287136--2287165	2	15.0	2	100	0	60	50	0	0	50	1.00
2289615--2289659	2	22.5	2	100	0	90	51	0	0	48	1.00
2291002--2291036	2	17.5	2	100	0	70	51	0	0	48	1.00
2293902--2293955	21	2.4	23	76	14	60	37	0	1	61	1.07
2293903--2293972	22	3.2	22	78	13	65	35	0	1	62	1.04
2294001--2294066	21	3.3	21	73	21	61	51	0	0	48	1.00
2295374--2295417	23	2.0	22	81	4	52	45	0	2	52	1.13
2296701--2296726	2	13.0	2	100	0	52	50	0	0	50	1.00
2297711--2297750	22	1.9	20	85	10	53	52	0	2	45	1.14
2300070--2300108	15	2.5	16	83	4	53	79	10	7	2	1.02
2300316--2300351	6	6.0	6	96	0	54	61	0	0	38	0.96
2302437--2302481	17	2.7	18	83	16	53	64	11	22	2	1.36
2304303--2304391	44	2.0	44	91	0	142	39	17	15	26	1.90
2307977--2308011	17	2.1	17	89	5	54	20	0	2	77	0.90
2311711--2311735	3	8.3	3	100	0	50	32	0	0	68	0.90
2316337--2316391	26	2.1	26	83	12	69	47	0	0	52	1.00
2316838--2316878	16	2.7	15	85	7	55	39	2	4	53	1.35
2316916--2316977	32	1.9	32	86	0	88	51	6	8	33	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2316916--2317008	16	5.8	16	70	0	69	50	6	9	33	1.61
2317081--2317131	22	2.5	20	84	9	66	54	1	0	43	1.11
2317111--2317143	16	2.1	16	94	0	57	57	0	0	42	0.98
2317169--2317271	16	6.4	16	78	8	93	59	8	0	32	1.28
2317172--2317265	32	2.9	32	79	6	109	60	8	0	30	1.26
2317172--2317271	48	2.1	48	85	7	132	60	8	0	32	1.26
2321930--2321976	15	3.1	16	76	11	55	31	0	4	63	1.13
2321951--2322002	17	2.8	20	71	17	56	32	0	7	59	1.26
2323699--2323749	18	3.0	18	72	13	54	43	1	7	47	1.43
2324420--2324478	23	2.5	24	72	8	59	40	3	5	50	1.41
2329213--2329276	29	2.2	29	88	8	94	71	0	0	28	0.86
2329213--2329270	15	3.8	16	78	21	79	72	0	0	27	0.85
2329393--2329419	11	2.5	11	100	0	54	51	11	0	37	1.37
2329896--2329936	21	2.0	21	85	9	57	41	0	2	56	1.13
2333783--2333842	14	4.5	13	74	15	59	38	1	11	48	1.50
2333884--2333917	13	2.6	13	90	0	50	32	0	11	55	1.36
2334646--2334677	15	2.1	15	94	0	55	31	0	9	59	1.29
2336276--2336300	4	6.2	4	100	0	50	24	24	28	24	2.00
2338630--2338692	25	2.6	25	85	7	76	50	0	4	44	1.23
2340472--2340509	18	2.2	17	90	9	60	55	2	0	42	1.14
2347235--2347265	2	15.5	2	93	0	53	48	0	3	48	1.17
2347576--2347637	30	2.1	30	90	6	99	61	0	14	24	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2351304--2351364	31	2.0	31	83	0	77	54	0	0	45	1.00
2351480--2351555	38	2.0	38	100	0	152	31	15	13	39	1.86
2355593--2355687	18	5.3	18	73	17	74	43	0	0	56	0.99
2355607--2355683	32	2.3	33	88	4	111	45	0	0	54	0.99
2355593--2355679	8	10.1	8	68	22	52	43	0	0	56	0.99
2356005--2356049	7	6.3	7	85	12	56	44	0	2	53	1.13
2362424--2362466	2	21.5	2	100	0	86	51	0	0	48	1.00
2362633--2362690	30	2.0	28	86	6	80	48	1	0	50	1.11
2362695--2362748	12	4.8	12	80	8	60	33	3	0	62	1.12
2364658--2364688	6	5.3	6	92	7	55	64	19	16	0	1.29
2364658--2364688	11	2.7	11	95	5	53	64	19	16	0	1.29
2369127--2369173	25	1.9	25	86	4	69	55	6	0	38	1.26
2370911--2370965	25	2.2	25	83	3	76	47	0	0	52	1.00
2372825--2372854	14	2.1	14	93	0	51	56	0	0	43	0.99
2373235--2373284	22	2.3	22	96	3	93	46	0	8	46	1.32
2376697--2376765	22	3.1	22	77	8	77	65	1	0	33	1.02
2376708--2376748	17	2.3	19	87	8	59	68	2	0	29	1.03
2378845--2378918	23	3.2	23	73	16	73	44	0	0	55	0.99
2378845--2378882	17	2.4	16	86	8	51	50	0	0	50	1.00
2378890--2378930	14	2.9	14	81	0	55	48	0	0	51	1.00
2378852--2378930	28	2.7	28	80	11	88	45	0	0	54	0.99
2380723--2380758	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2381311--2381348	14	2.8	14	84	4	51	26	0	2	71	1.00
2382237--2382262	5	5.2	5	100	0	52	19	0	0	80	0.71
2384583--2384612	3	10.0	3	92	0	51	33	3	0	63	1.11
2387514--2387542	2	14.5	2	100	0	58	51	0	0	48	1.00
2388477--2388562	29	3.0	29	77	10	86	56	1	3	38	1.24
2389421--2389471	25	2.0	26	85	11	70	50	0	0	49	1.00
2389421--2389471	26	2.0	26	85	11	70	50	0	0	49	1.00
2389850--2389948	32	3.2	30	83	11	103	45	0	1	53	1.07
2389816--2389938	20	6.2	21	66	21	61	45	0	0	53	1.06
2390879--2390942	29	2.2	28	75	8	67	51	0	0	48	1.00

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   28   29