genome.fa.s48.2.7.7.80.10.50.1000.14.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

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  ( 3212 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)
2014985--2015062	16	5.1	16	71	21	60	41	1	0	57	1.07
2017247--2017278	2	16.0	2	100	0	64	50	0	0	50	1.00
2019441--2019504	33	2.0	33	81	9	78	50	0	0	50	1.00
2020039--2020107	27	2.5	28	80	17	74	57	0	1	40	1.07
2020038--2020088	21	2.6	19	75	22	59	58	0	1	39	1.09
2020066--2020155	33	2.7	32	78	16	94	53	2	2	42	1.25
2020137--2020240	46	2.2	45	80	14	106	55	0	0	42	1.12
2028899--2028937	19	2.1	19	90	4	62	53	5	0	41	1.23
2030464--2030509	2	23.5	2	86	4	67	56	0	0	43	0.99
2030673--2030706	17	2.0	17	100	0	68	47	0	0	52	1.00
2030721--2030759	18	2.2	18	85	0	51	46	0	0	53	1.00
2033340--2033394	16	3.5	15	78	16	58	61	0	0	38	0.96
2033340--2033394	15	3.4	17	76	16	55	61	0	0	38	0.96
2033689--2033730	16	2.7	15	88	7	57	40	0	0	59	0.97
2035227--2035285	31	1.9	31	86	10	86	57	3	5	33	1.37
2036244--2036275	2	16.0	2	100	0	64	50	0	0	50	1.00
2036407--2036474	11	6.5	11	72	14	56	38	0	0	61	0.96
2036408--2036475	29	2.4	28	82	7	84	38	0	0	61	0.96
2036407--2036487	17	4.6	19	80	17	70	37	1	0	61	1.04
2036421--2036507	40	2.2	40	78	17	92	41	1	0	57	1.06
2037965--2037993	2	14.5	2	100	0	58	48	0	0	51	1.00
2038272--2038302	16	1.9	16	93	0	53	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2040053--2040136	39	2.2	35	80	14	87	51	1	0	47	1.08
2040577--2040610	17	2.1	17	88	5	52	0	14	0	85	0.60
2042720--2042760	2	21.0	2	95	5	75	48	0	0	51	1.00
2043266--2043305	18	2.1	20	86	9	57	60	0	0	40	0.97
2044227--2044279	24	2.3	24	80	6	65	64	0	0	35	0.94
2052961--2053020	23	2.9	19	70	25	59	48	8	16	26	1.75
2053704--2053735	2	16.0	2	93	0	55	53	0	0	46	1.00
2054836--2054879	18	2.6	16	82	7	52	43	2	0	54	1.12
2055049--2055095	22	2.1	21	84	7	58	55	2	0	42	1.12
2055854--2055912	19	3.3	19	72	18	72	61	6	0	32	1.22
2055847--2055922	34	2.2	34	97	0	143	60	5	0	34	1.19
2057820--2057846	2	13.5	2	100	0	54	0	48	0	51	1.00
2061226--2061262	10	3.7	10	92	7	58	0	91	0	8	0.41
2061226--2061260	15	2.2	16	95	5	63	0	91	0	8	0.42
2066330--2066360	2	15.5	2	93	0	53	51	3	0	45	1.17
2077482--2077514	2	16.5	2	100	0	66	48	0	0	51	1.00
2077940--2078023	11	7.6	11	76	9	64	35	0	0	64	0.94
2078418--2078447	2	15.0	2	100	0	60	50	0	0	50	1.00
2080183--2080227	21	2.0	24	87	12	69	48	0	0	51	1.00
2080243--2080308	26	2.6	26	81	13	84	43	4	0	51	1.22
2080931--2080982	20	2.6	19	76	8	59	40	0	0	59	0.97
2082135--2082162	2	14.0	2	100	0	56	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)
2082812--2082855	19	2.4	17	81	11	52	50	0	2	47	1.13
2082817--2082855	19	2.2	18	86	9	53	53	0	0	46	1.00
2083644--2083683	18	2.2	18	86	0	53	52	0	0	47	1.00
2083692--2083716	2	12.5	2	100	0	50	48	0	0	52	1.00
2084217--2084254	20	1.9	19	94	5	67	63	0	0	36	0.95
2084752--2084786	2	17.5	2	100	0	70	0	48	0	51	1.00
2090191--2090229	19	2.2	18	90	9	62	28	2	2	66	1.18
2090191--2090242	11	5.6	9	77	22	54	32	1	1	63	1.16
2090214--2090253	20	2.1	19	85	4	53	42	0	0	57	0.98
2090299--2090343	6	7.8	6	76	18	51	33	0	0	66	0.92
2090718--2090780	25	2.5	23	76	16	63	39	0	3	57	1.15
2090775--2090807	14	2.4	14	94	0	57	39	0	0	60	0.97
2102246--2102311	26	2.5	26	87	0	96	39	28	13	18	1.89
2103825--2103849	12	2.1	12	100	0	50	60	16	24	0	1.36
2105571--2105601	2	15.5	2	93	0	53	3	45	0	51	1.17
2105601--2105625	2	12.5	2	100	0	50	48	0	0	52	1.00
2106515--2106732	34	6.4	34	84	2	242	26	5	25	42	1.77
2106515--2106732	102	2.1	101	86	1	301	26	5	25	42	1.77
2111120--2111338	34	6.5	34	85	2	271	25	6	26	41	1.80
2111120--2111338	102	2.2	101	89	1	339	25	6	26	41	1.80
2112056--2112089	2	17.0	2	100	0	68	50	0	0	50	1.00
2112521--2112830	154	2.0	154	97	0	584	30	16	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2116359--2116543	34	5.5	34	87	3	257	40	26	7	25	1.82
2120609--2120671	19	3.3	19	90	0	90	34	19	17	28	1.94
2120978--2121161	34	5.4	34	87	3	255	40	26	7	25	1.82
2126469--2126550	42	1.9	42	82	9	103	48	2	1	47	1.22
2126469--2126574	42	2.5	42	80	10	99	50	3	1	44	1.31
2132615--2132686	33	2.2	33	82	5	83	58	0	0	41	0.98
2133185--2133238	22	2.5	22	93	0	99	27	18	12	40	1.87
2133208--2133347	73	1.9	73	88	0	208	30	20	10	39	1.85
2134728--2134811	31	2.5	33	81	11	100	45	1	0	53	1.08
2134795--2134859	5	12.2	5	78	19	53	36	1	0	61	1.05
2134799--2134858	12	5.2	12	73	22	58	36	1	0	61	1.06
2134794--2134856	31	1.9	34	87	9	96	38	1	0	60	1.07
2135088--2135134	20	2.3	20	81	0	58	38	2	0	59	1.09
2135148--2135186	16	2.4	17	86	4	53	61	2	0	35	1.10
2135311--2135352	22	1.9	22	85	0	57	35	0	11	52	1.38
2135342--2135393	26	2.0	27	88	7	81	38	0	0	61	0.96
2135343--2135401	20	2.8	20	75	14	57	38	0	0	61	0.96
2139494--2139533	2	21.0	2	90	10	66	50	0	0	50	1.00
2141112--2141148	18	2.0	19	89	5	58	8	8	62	21	1.49
2141597--2141627	2	15.5	2	100	0	62	0	48	0	51	1.00
2143989--2144025	2	18.5	2	100	0	74	51	0	0	48	1.00
2146507--2146535	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2148256--2148374	62	1.9	62	86	6	170	45	8	7	38	1.63
2148495--2148533	16	2.5	15	84	8	51	51	7	2	38	1.44
2149152--2149196	20	2.3	21	85	11	60	53	2	2	42	1.25
2152601--2152642	15	2.6	16	80	20	52	35	2	0	61	1.09
2152871--2152920	17	2.6	19	75	18	50	60	4	0	36	1.16
2153668--2153818	34	4.4	34	87	0	212	27	7	25	39	1.82
2158232--2158416	34	5.5	34	86	0	255	26	7	25	40	1.82
2159615--2159653	2	19.5	2	100	0	78	48	0	0	51	1.00
2159793--2159835	2	21.5	2	95	0	77	48	2	0	48	1.14
2172278--2172331	17	3.1	17	76	10	56	61	1	0	37	1.07
2172283--2172339	19	2.9	19	76	10	53	59	3	0	36	1.14
2172686--2172759	32	2.4	34	76	17	79	47	2	0	50	1.15
2182127--2182167	3	13.7	3	100	0	82	68	0	0	31	0.90
2187375--2187565	97	2.0	97	94	0	337	37	9	15	37	1.81
2188003--2188048	2	23.0	2	100	0	92	0	50	0	50	1.00
2206382--2206406	10	2.5	10	100	0	50	72	0	0	28	0.86
2206641--2206701	21	2.9	22	78	11	74	67	1	0	31	1.01
2206764--2206812	3	16.3	3	91	8	82	65	2	0	32	1.04
2216880--2216908	14	2.1	14	93	6	51	24	0	0	75	0.80
2219805--2219850	21	2.1	22	84	4	58	30	19	30	19	1.97
2221733--2221803	27	2.6	27	86	6	90	23	7	22	46	1.76
2228089--2228157	23	2.9	23	77	12	77	65	0	2	31	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2228089--2228161	25	3.0	23	78	9	74	63	0	2	34	1.09
2228881--2228953	11	6.5	11	72	18	53	30	2	0	67	1.05
2228862--2228954	16	5.4	16	70	15	62	32	2	0	65	1.04
2228861--2228958	35	2.9	33	83	11	119	31	3	0	65	1.08
2232329--2232364	18	2.0	18	88	0	54	33	19	30	16	1.94
2235044--2235141	47	2.1	47	98	1	189	40	14	18	26	1.89
2244786--2244831	18	2.5	19	78	7	58	56	0	2	41	1.11
2244786--2244837	18	2.8	18	77	13	52	55	0	3	40	1.18
2245725--2245785	11	5.3	11	72	16	52	44	0	0	55	0.99
2245725--2245785	19	3.2	20	70	11	56	44	0	0	55	0.99

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