genome.fa.s50.2.7.7.80.10.50.1000.12.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: Scaffold50
Parameters: 2 7 7 80 10 50 1000
Length:  2541760

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

This is table  12  of  16  ( 1865 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)
1873664--1873705	1	42.0	1	92	0	57	4	2	0	92	0.44
1873667--1873708	21	2.0	21	100	0	84	9	4	0	85	0.72
1874362--1874533	79	2.2	79	86	0	227	31	15	25	27	1.95
1874491--1874563	28	2.6	28	97	0	137	27	21	30	20	1.98
1874518--1874691	79	2.2	79	93	1	296	30	15	28	25	1.96
1874624--1874859	51	4.6	51	79	6	217	33	11	24	30	1.91
1904094--1904195	42	2.4	42	85	6	134	45	14	26	13	1.83
1904219--1904444	61	3.7	60	80	9	251	26	20	27	24	1.99
1904662--1905011	55	6.4	55	91	0	540	24	21	26	28	1.99
1904486--1905011	110	4.6	110	85	5	651	25	20	26	27	1.99
1905035--1905452	55	7.3	57	82	5	417	26	21	25	27	1.99
1905294--1905434	27	5.1	27	61	6	68	26	22	24	26	2.00
1906219--1906274	20	2.8	19	89	5	76	39	14	16	30	1.88
1906333--1906358	13	2.0	13	100	0	52	38	15	15	30	1.88
1908575--1908619	21	2.1	21	84	8	56	53	4	20	22	1.63
1910424--1910454	15	2.1	15	93	0	53	48	16	22	12	1.80
1912539--1912574	13	2.8	13	95	0	63	33	19	13	33	1.91
1915117--1915142	13	2.0	13	100	0	52	38	15	15	30	1.88
1922770--1922821	21	2.6	21	90	6	81	34	15	11	38	1.83
1925405--1925458	20	2.7	20	82	0	72	33	12	9	44	1.75
1926152--1926280	53	2.5	52	88	6	183	32	22	10	34	1.89
1926148--1926280	51	2.6	51	86	7	196	33	22	10	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1926264--1926337	27	2.7	28	82	2	87	27	32	18	21	1.97
1926291--1926465	79	2.2	78	82	6	201	27	26	14	31	1.95
1926403--1926539	51	2.7	51	80	4	143	28	27	10	33	1.89
1926454--1926567	51	2.2	50	83	9	133	28	27	12	32	1.92
1926656--1926788	52	2.6	51	76	8	142	32	24	10	32	1.89
1926771--1926851	28	2.8	30	85	7	98	24	33	17	24	1.96
1933874--1933916	21	2.1	21	87	12	63	27	13	4	53	1.60
1936103--1936142	20	2.0	20	90	0	62	35	17	12	35	1.88
1936101--1936169	33	2.1	33	86	5	95	37	18	13	30	1.89
1939819--1939875	12	4.7	12	83	16	73	85	14	0	0	0.59
1939829--1939875	22	2.2	22	92	3	78	89	10	0	0	0.49
1939819--1939875	9	5.9	9	82	11	60	85	14	0	0	0.59
1941083--1941155	26	2.8	27	72	14	71	36	12	12	38	1.81
1941164--1941702	28	18.6	29	79	8	394	29	32	18	20	1.96
1941164--1941697	56	9.2	56	80	6	473	29	32	18	20	1.96
1941255--1941697	148	3.1	145	77	9	411	29	31	19	19	1.96
1946164--1946312	52	2.9	51	88	4	226	30	17	19	32	1.95
1946366--1946432	33	2.0	33	88	0	98	40	14	11	32	1.83
1946388--1946412	13	1.9	13	100	0	50	32	16	16	36	1.90
1947299--1947450	49	3.0	49	86	4	178	32	14	26	25	1.94
1947451--1947974	30	17.9	29	77	10	392	23	17	29	29	1.97
1947450--1947976	88	6.0	87	78	9	516	23	17	29	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1947798--1947970	29	5.9	29	81	6	170	26	17	28	27	1.98
1947447--1947965	203	2.5	199	80	7	506	23	17	30	29	1.97
1949412--1949553	1	142.0	1	75	0	95	2	2	9	85	0.79
1949412--1949554	34	4.0	35	78	16	125	2	2	10	84	0.81
1949414--1949553	37	3.8	36	81	14	151	2	2	10	85	0.80
1959241--1959267	10	2.7	10	100	0	54	77	22	0	0	0.76
1963396--1963544	52	2.9	51	88	4	226	30	17	19	32	1.95
1963598--1963664	33	2.0	33	88	0	98	40	14	11	32	1.83
1963620--1963644	13	1.9	13	100	0	50	32	16	16	36	1.90
1964326--1964855	165	3.2	164	82	5	590	52	7	9	30	1.62
1965867--1966314	128	3.5	129	79	6	430	37	14	27	20	1.92
1965994--1966352	129	2.8	129	79	7	304	39	14	27	19	1.90
1966201--1966608	214	1.9	212	80	5	464	37	13	28	19	1.90
1966532--1966782	84	3.0	84	80	4	290	36	15	29	18	1.92
1968162--1968197	18	1.9	19	88	5	56	2	5	8	83	0.89
1968162--1968205	19	2.3	19	84	7	54	4	4	6	84	0.88
1971120--1971441	161	2.0	161	97	0	608	25	22	15	36	1.93
1983076--1983122	20	2.3	20	78	10	51	40	4	23	31	1.74
1983182--1983391	105	2.0	105	94	3	370	35	15	19	30	1.93
1988102--1988166	19	3.8	18	75	24	77	32	12	16	38	1.86
1988104--1988174	32	2.2	32	97	0	133	32	12	18	36	1.88
1988123--1988147	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1988252--1988381	52	2.5	52	93	1	233	33	18	18	29	1.95
1991436--1991471	15	2.4	15	90	0	54	27	27	2	41	1.70
1993138--1993201	33	2.0	33	93	3	112	40	17	12	29	1.86
1994586--1994642	19	2.9	19	89	5	78	35	17	15	31	1.92
2003369--2003395	13	2.1	13	100	0	54	40	14	14	29	1.86
2005179--2005233	20	2.7	21	80	8	69	29	14	20	36	1.92
2005308--2005349	23	2.0	21	86	13	59	38	14	7	40	1.73
2006101--2006260	75	2.1	75	96	1	295	52	15	7	24	1.68
2007505--2007530	13	2.0	13	100	0	52	30	15	15	38	1.88
2007486--2007548	32	1.9	34	90	6	103	30	14	14	41	1.85
2009605--2009647	20	2.1	20	82	4	50	13	25	39	20	1.90
2012170--2012200	15	2.1	15	93	0	53	12	22	16	48	1.80
2016337--2016392	20	2.8	20	89	5	78	28	17	16	37	1.91
2016791--2016825	11	3.2	11	87	0	52	0	14	0	85	0.59
2017457--2017897	163	2.7	163	83	4	568	51	8	10	29	1.66
2019379--2019405	13	2.1	13	100	0	54	29	14	14	40	1.86
2019391--2019446	19	2.8	20	81	8	69	33	12	17	35	1.88
2027380--2027419	19	2.0	20	86	13	57	57	15	2	25	1.50
2028516--2028607	45	2.0	45	97	0	175	35	16	10	36	1.84
2028565--2028962	64	6.3	62	75	12	292	44	14	12	29	1.81
2028605--2029004	64	6.2	64	80	5	416	43	14	12	29	1.82
2034209--2034257	21	2.3	21	96	0	89	26	36	0	36	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2035925--2035949	13	1.9	13	100	0	50	32	16	16	36	1.90
2035902--2035967	33	2.0	33	93	0	114	28	16	18	36	1.93
2037667--2037697	9	3.4	9	95	0	53	38	0	35	25	1.56
2047704--2047742	20	2.0	20	85	5	53	61	12	5	20	1.50
2049219--2049259	21	2.0	21	85	9	57	39	12	9	39	1.76
2049299--2049369	20	3.6	19	77	7	70	39	16	14	29	1.88
2049468--2049519	21	2.4	22	93	6	97	26	23	11	38	1.89
2049590--2049615	13	2.0	13	100	0	52	30	15	15	38	1.88
2050065--2050131	37	1.9	35	88	11	102	32	11	25	29	1.92
2051224--2051294	21	3.2	21	68	14	61	38	15	25	21	1.92
2051105--2051378	46	5.9	46	88	1	341	36	16	24	21	1.94
2051149--2051413	92	2.9	92	86	2	363	35	16	24	23	1.95
2051484--2052112	32	21.1	28	83	7	456	21	17	29	31	1.96
2052115--2052304	27	7.0	27	82	7	215	31	13	30	24	1.93
2052115--2052304	54	3.5	54	85	7	251	31	13	30	24	1.93
2052115--2052303	82	2.3	82	82	6	224	31	13	30	24	1.93
2052355--2052549	20	8.7	20	66	23	86	42	12	16	28	1.85
2052355--2052530	51	3.7	51	69	18	171	40	12	17	29	1.86
2052355--2052549	90	2.2	91	86	2	277	42	12	16	28	1.85
2052423--2052560	70	2.0	71	84	4	181	43	11	17	27	1.83
2053469--2053499	16	1.9	16	93	0	53	16	22	12	48	1.80
2053716--2053780	32	2.2	30	81	15	73	52	3	24	20	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2055955--2056144	27	7.0	27	82	7	233	32	13	30	24	1.94
2055955--2056144	54	3.5	54	85	7	269	32	13	30	24	1.94
2055955--2056143	82	2.3	82	82	6	233	32	13	29	24	1.94
2056195--2056370	51	3.7	51	69	18	171	40	12	17	29	1.86
2056195--2056389	90	2.2	91	87	2	286	42	12	16	29	1.84
2056263--2056400	70	2.0	71	86	4	199	42	12	16	28	1.84
2056195--2056389	20	8.7	20	67	23	95	42	12	16	29	1.84
2057308--2057338	16	1.9	16	93	0	53	16	22	12	48	1.80
2057554--2057618	32	2.2	30	81	15	73	52	3	24	20	1.61
2059794--2059983	27	7.0	27	82	7	233	32	13	30	24	1.94

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