genome.fa.s40.2.7.7.80.10.50.1000.15.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: Scaffold40
Parameters: 2 7 7 80 10 50 1000
Length:  3440810

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   

This is table  15  of  24  ( 2833 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)
1959747--1959822	32	2.4	32	93	0	125	35	17	13	34	1.88
1960596--1961133	48	11.4	48	71	13	309	31	19	24	24	1.98
1960687--1961133	184	2.4	182	86	4	601	31	19	23	25	1.98
1960973--1961050	39	2.0	39	82	5	95	28	20	21	29	1.98
1960925--1961091	87	1.9	87	87	2	246	29	19	23	27	1.98
1961170--1961524	28	12.5	29	80	8	349	20	15	30	33	1.94
1961170--1961492	57	5.7	57	82	8	331	19	16	30	33	1.94
1961216--1961520	57	5.4	57	85	4	386	20	16	30	32	1.95
1961216--1961492	114	2.4	114	92	1	450	19	16	30	32	1.95
1962957--1962989	16	2.0	16	94	5	57	0	0	15	84	0.61
1962966--1963001	11	3.2	11	88	4	54	2	0	11	86	0.68
1962958--1963001	22	2.0	23	90	4	72	2	0	13	84	0.73
1966203--1966243	21	2.0	21	85	9	57	39	12	9	39	1.76
1966282--1966335	20	2.7	21	80	11	67	40	16	12	29	1.86
1968469--1968633	84	2.0	84	83	7	210	52	3	18	24	1.61
1971062--1971102	21	2.0	21	85	9	57	39	12	9	39	1.76
1971182--1971318	53	2.6	53	96	1	247	37	18	17	27	1.93
1971342--1971380	10	4.0	10	86	3	53	25	30	5	38	1.78
1971342--1971380	20	2.0	20	95	5	71	25	30	5	38	1.78
1972641--1972666	13	2.0	13	100	0	52	38	15	15	30	1.88
1972719--1972768	19	2.6	19	90	0	82	40	18	8	34	1.79
1974859--1974942	21	3.9	20	71	25	64	22	1	2	73	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1974863--1974887	13	1.9	13	100	0	50	20	0	0	80	0.72
1976919--1976959	21	2.0	21	90	0	64	29	0	14	56	1.39
1977346--1977386	2	20.5	2	94	0	73	51	2	0	46	1.14
1977431--1977467	6	5.8	6	87	12	56	62	0	0	37	0.96
1978067--1978164	27	3.7	28	74	10	73	46	20	7	25	1.75
1978076--1978143	24	2.6	27	81	6	79	47	23	7	22	1.76
1982639--1982684	24	1.9	24	91	8	76	45	26	8	19	1.79
1982641--1982737	27	3.7	27	79	4	92	46	20	7	25	1.76
1984107--1984138	6	5.3	6	100	0	64	68	0	31	0	0.90
1991554--1991588	15	2.2	16	90	5	54	48	5	5	40	1.51
1994042--1994071	6	5.2	6	92	8	53	80	0	0	20	0.72
1994044--1994069	11	2.4	11	100	0	52	84	0	0	15	0.62
1995047--1995124	34	2.3	34	95	0	138	20	0	38	41	1.53
1995099--1995236	22	6.2	22	74	14	113	22	0	39	38	1.54
1995064--1995236	56	3.1	56	86	8	230	21	0	39	38	1.53
1995120--1995214	34	2.8	34	95	0	172	22	0	38	38	1.54
1995047--1995265	90	2.4	90	98	0	420	21	0	38	40	1.53
1995091--1995265	56	3.1	56	85	10	216	21	0	38	40	1.53
1999921--1999998	34	2.3	34	97	0	147	19	0	39	41	1.51
1999980--2000041	9	6.0	9	73	26	52	19	0	41	38	1.51
1999965--2000042	22	3.5	22	98	0	147	20	0	41	38	1.53
1999921--2000071	56	2.7	54	84	13	182	20	0	39	40	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2000994--2001067	30	2.7	25	77	20	85	32	0	2	64	1.07
2001148--2001187	12	3.5	12	80	13	57	57	0	0	42	0.98
2001138--2001204	22	2.9	23	84	6	91	59	0	0	40	0.97
2001261--2001359	42	2.5	40	84	12	118	59	2	1	37	1.16
2001278--2001359	42	1.9	43	90	7	132	58	1	0	40	1.06
2004392--2004416	7	3.6	7	100	0	50	28	0	0	72	0.86
2006631--2006679	21	2.2	22	85	7	64	26	0	12	61	1.31
2007121--2007159	19	2.2	19	86	9	55	56	0	0	43	0.99
2007237--2007283	24	2.0	24	86	0	67	44	2	0	53	1.12
2009311--2009474	88	1.9	89	82	8	210	41	9	6	43	1.61
2011986--2012025	18	2.2	18	86	0	53	52	2	5	40	1.37
2012864--2012889	8	3.2	8	100	0	52	50	0	0	50	1.00
2013738--2013783	24	2.0	23	82	4	56	39	2	6	52	1.40
2014917--2014957	16	2.6	16	81	11	50	26	2	9	60	1.40
2014957--2015106	54	2.7	56	83	6	189	42	3	4	50	1.40
2015890--2015935	24	1.9	24	86	8	67	47	26	4	21	1.69
2015892--2015988	27	3.7	27	78	4	92	47	22	5	24	1.71
2017872--2017917	21	2.1	22	84	4	58	19	30	19	30	1.97
2020482--2020561	27	2.9	27	77	7	72	48	11	5	35	1.61
2021212--2021276	23	2.9	22	81	6	69	27	1	0	70	0.96
2022877--2022919	15	2.8	15	85	3	50	58	2	2	37	1.24
2022899--2022942	22	2.0	22	86	0	61	54	0	2	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2029633--2029663	6	5.2	6	100	0	62	83	0	0	16	0.64
2029844--2030014	84	2.0	84	100	0	342	34	12	22	30	1.91
2037436--2037481	22	2.1	22	95	0	83	23	21	19	34	1.96
2042363--2042424	16	3.5	17	78	14	56	64	1	1	32	1.13
2042363--2042410	17	2.7	18	77	6	53	64	2	0	33	1.05
2042461--2042521	21	2.8	21	76	16	52	59	1	1	37	1.17
2042461--2042557	23	4.2	23	72	12	65	56	1	2	40	1.18
2042471--2042595	50	2.5	48	76	13	119	55	0	2	41	1.18
2042526--2042609	30	2.9	30	81	10	102	60	0	1	38	1.04
2043949--2044002	21	2.5	22	78	3	65	50	3	0	46	1.19
2045760--2045818	20	3.1	19	76	14	50	49	3	1	45	1.28
2047454--2047500	25	1.9	25	91	4	78	65	0	2	31	1.04
2048025--2048111	34	2.6	34	96	0	156	19	0	39	41	1.52
2048078--2048223	22	6.5	22	76	20	142	20	0	39	39	1.53
2048051--2048223	56	3.1	56	87	8	230	20	0	40	38	1.53
2048107--2048201	34	2.8	34	98	0	181	20	0	41	38	1.52
2048025--2048252	90	2.5	90	99	0	447	20	0	39	40	1.52
2048078--2048252	56	3.1	56	86	10	225	20	0	38	40	1.53
2052918--2053004	34	2.6	34	96	0	156	19	0	39	41	1.52
2052971--2053116	22	6.5	22	76	20	142	20	0	39	39	1.53
2052944--2053116	56	3.1	56	87	8	230	20	0	40	38	1.53
2053000--2053094	34	2.8	34	98	0	181	20	0	41	38	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2052918--2053145	90	2.5	90	99	0	447	20	0	39	40	1.52
2052971--2053145	56	3.1	56	86	10	225	20	0	38	40	1.53
2054300--2054324	2	12.5	2	100	0	50	52	0	0	48	1.00
2054326--2054444	58	2.1	58	90	0	184	36	17	10	35	1.84
2056386--2056422	19	2.1	17	90	10	56	62	2	5	29	1.31
2056412--2056493	27	3.0	28	80	15	91	59	0	1	39	1.05
2056413--2056465	3	16.3	3	77	14	52	64	0	0	35	0.94
2056419--2056516	32	3.1	33	84	11	109	56	1	2	40	1.18
2056449--2056524	32	2.4	33	86	6	102	55	2	2	39	1.28
2056472--2056524	16	3.3	15	75	19	54	54	3	1	39	1.29
2056914--2056968	22	2.5	22	82	8	69	56	1	0	41	1.10
2057766--2057814	25	2.0	25	83	0	62	44	4	0	51	1.20
2061063--2061099	13	3.0	13	80	11	51	27	8	2	62	1.37
2061154--2061208	28	2.0	27	86	10	76	29	3	0	67	1.08
2061172--2061227	17	3.8	14	76	17	51	30	5	0	64	1.16
2061172--2061258	42	2.0	41	80	12	95	31	3	1	64	1.17
2061607--2061658	25	2.1	25	89	3	79	69	0	0	30	0.89
2063007--2063175	5	34.0	5	65	20	52	39	1	0	59	1.08
2063022--2063155	12	10.3	14	71	18	62	41	2	0	56	1.11
2063032--2063152	54	2.2	55	80	10	133	40	2	0	57	1.12
2063079--2063155	36	2.1	37	83	7	95	37	2	0	59	1.11
2063113--2063181	21	3.0	22	83	10	86	33	1	0	65	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2064973--2065043	5	14.6	5	76	14	60	43	0	0	56	0.99
2064972--2065038	35	1.9	34	85	8	91	44	0	0	55	0.99
2065129--2065164	18	2.0	18	88	0	54	61	0	0	38	0.96
2065829--2065873	24	2.0	21	87	12	63	31	0	0	68	0.89
2066049--2066098	24	2.0	26	85	14	70	50	6	0	44	1.26
2070563--2070600	19	2.1	17	90	9	58	2	31	0	65	1.06
2074502--2074543	3	14.0	3	94	0	66	28	33	4	33	1.78
2075444--2075530	41	2.1	42	85	6	115	42	0	2	55	1.12
2075783--2075817	18	1.9	18	88	0	52	45	0	0	54	0.99
2077122--2077146	9	2.8	9	100	0	50	24	0	0	76	0.80

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