genome.fa.s28.2.7.7.80.10.50.1000.12.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: Scaffold28
Parameters: 2 7 7 80 10 50 1000
Length:  2815568

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  12  of  16  ( 1890 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)
1897642--1897760	45	2.7	43	77	11	114	82	9	6	1	0.91
1897684--1897760	17	4.6	17	78	13	72	83	12	3	0	0.79
1897643--1897760	1	118.0	1	66	0	56	83	8	6	1	0.89
1898892--1898917	13	2.0	13	100	0	52	30	15	15	38	1.88
1901262--1901308	21	2.3	20	75	10	51	44	4	17	34	1.68
1901429--1901467	13	3.0	13	96	0	69	35	15	17	30	1.91
1901453--1901531	20	3.7	20	78	15	77	44	15	15	25	1.85
1903529--1903559	15	2.1	15	93	0	53	12	22	16	48	1.80
1905363--1905407	21	2.1	21	84	8	56	22	20	4	53	1.63
1907626--1907651	13	2.0	13	100	0	52	30	15	15	38	1.88
1908796--1909408	102	6.0	101	87	3	760	24	25	16	33	1.95
1908797--1909349	203	2.7	203	89	1	784	24	24	16	33	1.96
1910097--1910179	19	4.7	19	80	17	97	31	10	19	38	1.86
1910117--1910184	32	2.1	32	94	0	118	33	10	19	36	1.85
1910136--1910160	13	1.9	13	100	0	50	36	16	16	32	1.90
1910252--1910380	52	2.5	52	92	0	222	36	17	17	28	1.93
1921789--1921862	22	3.4	22	81	9	89	27	29	2	40	1.70
1927460--1927516	20	2.8	20	83	0	69	38	14	15	31	1.87
1927505--1927557	20	2.6	21	84	3	72	39	15	16	28	1.89
1927590--1927641	20	2.7	20	87	3	70	38	17	13	30	1.88
1930944--1931012	33	2.1	32	86	10	95	39	18	10	31	1.84
1930974--1931011	20	1.9	20	94	0	67	39	18	10	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1930966--1930991	13	2.0	13	100	0	52	38	15	15	30	1.88
1932463--1932618	70	2.2	72	81	5	176	41	13	16	28	1.86
1932603--1932657	20	2.8	20	77	0	56	38	16	14	30	1.89
1935427--1935476	19	2.6	19	83	3	64	36	16	18	30	1.92
1938227--1938343	53	2.2	53	93	0	198	17	4	20	58	1.55
1943733--1943771	13	3.0	13	96	0	69	35	15	17	30	1.91
1943777--1943844	27	2.5	27	100	0	136	30	14	16	38	1.89
1951148--1951222	28	2.7	28	83	4	89	32	20	25	22	1.98
1951202--1951320	50	2.3	52	88	2	170	32	12	26	28	1.93
1953440--1953484	20	2.2	20	92	0	72	48	13	11	26	1.75
1959982--1960512	47	11.2	47	77	6	457	25	23	14	35	1.94
1960002--1960486	189	2.6	188	81	6	527	27	24	13	35	1.93
1960641--1960949	85	3.7	84	75	9	263	19	32	14	33	1.92
1960811--1960996	84	2.2	85	77	11	184	22	32	11	32	1.90
1960642--1960997	170	2.1	170	78	7	359	20	32	13	33	1.92
1962088--1962687	167	3.6	165	79	6	540	32	10	7	50	1.65
1962087--1962686	166	3.6	161	79	7	591	32	10	7	50	1.65
1964453--1964490	18	2.1	18	85	9	51	65	5	5	23	1.34
1968511--1968535	13	1.9	13	100	0	50	32	16	16	36	1.90
1969046--1969113	32	2.1	33	86	8	95	35	19	14	30	1.92
1973951--1973976	13	2.0	13	100	0	52	30	15	15	38	1.88
1976350--1976396	21	2.3	21	76	23	55	42	4	19	34	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1976520--1976597	20	3.7	20	79	15	84	42	14	15	28	1.85
1978615--1978645	15	2.1	15	93	0	53	12	22	16	48	1.80
1980449--1980493	21	2.1	21	84	8	56	22	20	4	53	1.63
1982711--1982736	13	2.0	13	100	0	52	30	15	15	38	1.88
1985097--1985154	20	2.9	20	81	0	71	29	12	12	46	1.77
1999107--1999167	1	61.0	1	76	0	59	88	9	0	1	0.58
1999093--1999167	18	4.0	18	83	11	80	85	9	1	4	0.78
1999099--1999167	19	3.7	18	88	7	93	86	10	1	1	0.69
2000419--2001041	28	22.0	28	79	6	583	29	30	16	23	1.96
2000424--2001041	113	5.5	111	81	6	515	29	30	16	23	1.96
2002049--2002125	20	3.8	20	77	6	93	33	15	11	38	1.84
2004196--2004251	20	2.8	19	89	5	76	39	14	16	30	1.88
2004303--2004365	19	3.7	18	76	24	73	42	15	12	28	1.84
2004321--2004346	13	2.0	13	100	0	52	38	15	15	30	1.88
2004303--2004365	32	2.0	32	93	6	110	42	15	12	28	1.84
2006564--2006613	21	2.3	21	80	10	57	56	4	18	22	1.58
2008411--2008441	15	2.1	15	93	0	53	48	16	22	12	1.80
2012986--2013041	20	2.8	19	89	5	76	39	14	16	30	1.88
2013092--2013143	19	2.7	20	84	6	79	46	15	9	28	1.77
2016077--2016197	27	4.2	27	73	13	89	23	33	10	33	1.89
2016210--2016281	26	2.8	26	83	10	69	25	27	13	33	1.94
2016152--2016316	86	1.9	86	87	0	240	23	32	12	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2016220--2016281	26	2.4	25	86	7	88	22	27	16	33	1.95
2016114--2016350	34	7.7	34	76	15	171	22	32	12	32	1.91
2016066--2016388	61	5.4	59	73	14	241	22	31	12	32	1.92
2016382--2016598	32	6.8	32	78	6	172	32	28	17	22	1.96
2016384--2016590	96	2.1	97	78	6	215	32	28	15	22	1.95
2016606--2017026	52	8.1	52	78	5	352	24	23	13	38	1.91
2016605--2016948	104	3.3	104	84	1	413	25	23	13	36	1.92
2016695--2017026	155	2.1	155	83	3	409	24	23	12	38	1.90
2017235--2017397	32	5.2	32	73	12	106	38	14	9	38	1.78
2017069--2017397	64	5.2	64	77	7	271	37	15	10	36	1.83
2018886--2018923	20	1.9	19	89	5	58	28	7	10	52	1.64
2018962--2018986	13	1.9	13	100	0	50	32	16	16	36	1.90
2018975--2019125	52	2.9	52	87	2	214	32	17	17	32	1.93
2026998--2027325	31	10.7	31	72	8	197	25	29	17	28	1.97
2026997--2027206	62	3.4	62	82	7	250	24	29	17	29	1.97
2027147--2027325	92	2.0	90	90	4	279	25	30	16	27	1.96
2027450--2027879	27	13.7	34	73	13	288	20	34	14	30	1.92
2027341--2027790	61	7.2	62	80	11	442	20	34	14	30	1.92
2027333--2027790	156	2.9	152	78	12	498	20	35	14	29	1.92
2027453--2027897	183	2.4	187	89	5	659	21	35	13	29	1.92
2027873--2027991	33	3.7	32	86	6	154	27	35	17	19	1.94
2027984--2028315	49	6.7	49	86	7	408	25	25	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2027984--2028324	104	3.5	93	80	13	357	25	25	17	31	1.97
2028123--2028378	55	4.9	52	84	6	302	25	23	16	35	1.95
2028123--2028381	107	2.5	104	84	5	331	25	23	16	35	1.95
2028123--2028338	52	4.1	52	88	7	267	25	22	16	35	1.95
2028328--2028454	67	1.9	68	85	1	175	24	25	11	38	1.89
2029244--2029281	20	1.9	19	94	5	67	26	10	10	52	1.68
2029320--2029344	13	1.9	13	100	0	50	32	16	16	36	1.90
2029353--2029481	52	2.5	52	90	0	195	33	16	19	31	1.94
2037702--2037741	21	1.9	21	94	0	71	30	17	15	37	1.90
2037702--2037756	21	2.7	21	85	2	67	32	18	12	36	1.88
2037787--2037841	20	2.7	21	80	5	67	34	16	10	38	1.84
2040271--2040295	13	1.9	13	100	0	50	36	16	16	32	1.90
2042238--2042757	260	2.0	260	99	0	1022	25	11	30	32	1.91
2047686--2047718	12	2.8	12	82	17	50	27	30	0	42	1.56
2052141--2052171	3	10.3	3	92	0	53	29	32	0	38	1.57
2055316--2055341	13	2.0	13	100	0	52	30	15	15	38	1.88
2055296--2055359	33	2.0	32	87	3	92	31	12	17	39	1.87
2055414--2055479	20	3.7	20	71	26	74	37	18	15	28	1.91
2055432--2055456	13	1.9	13	100	0	50	36	16	16	32	1.90
2055414--2055479	33	2.0	33	96	0	123	37	18	15	28	1.91
2058710--2058754	22	2.0	22	83	8	56	84	2	8	4	0.84
2058782--2058817	16	2.2	16	90	9	56	80	0	13	5	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2058782--2058824	17	2.5	17	81	11	52	79	0	13	6	0.93
2060274--2060299	13	2.0	13	100	0	52	30	15	15	38	1.88
2060346--2060401	21	2.7	21	80	2	69	32	19	12	35	1.89
2062696--2062736	21	1.9	22	90	5	66	51	4	17	26	1.65
2070099--2070359	89	2.9	90	86	4	352	29	27	14	27	1.95
2070937--2071039	40	2.5	41	81	6	120	19	22	13	44	1.85
2071016--2071680	42	15.8	42	72	4	338	20	25	17	37	1.94
2072981--2073285	166	1.8	167	83	6	413	32	11	7	48	1.67
2072981--2073326	166	2.1	166	81	5	396	31	10	6	50	1.64
2075490--2076122	154	4.1	152	79	8	581	24	18	19	38	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16