Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 7 of 205
Found at i:1856677 original size:25 final size:25
Alignment explanation
Indices: 1856575--1856687 Score: 74
Period size: 25 Copynumber: 4.6 Consensus size: 25
1856565 TCTCGATCCA
* *
1856575 TATAA-CGGGAAGCTTATGTGAGCC
1 TATAATCGGGAAGCTCATGCGAGCC
* * *
1856599 -ATATATCGGGAAGCTTATCCG-GGC
1 TATA-ATCGGGAAGCTCATGCGAGCC
* * * **
1856623 TGTAATACGAGAAGTTCATAAGAGCC
1 TATAAT-CGGGAAGCTCATGCGAGCC
1856649 -ATAATCGGGAAGCTCATGCGAGCC
1 TATAATCGGGAAGCTCATGCGAGCC
*
1856673 TATAA-CGGGTAGCTC
1 TATAATCGGGAAGCTC
1856688 CGAAGAGCCA
Statistics
Matches: 67, Mismatches: 16, Indels: 12
0.71 0.17 0.13
Matches are distributed among these distances:
23 3 0.04
24 29 0.43
25 33 0.49
26 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (25 bp):
TATAATCGGGAAGCTCATGCGAGCC
Found at i:1856930 original size:24 final size:24
Alignment explanation
Indices: 1856902--1856963 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
1856892 CAAGAACTAT
*
1856902 ATAACGGGAAGCTCGA-GAGGGCTA
1 ATAACGGGAAGCTC-ATGAGAGCTA
*
1856926 ATAACGGGATGCTCATGAGAGCTA
1 ATAACGGGAAGCTCATGAGAGCTA
* *
1856950 ATAATGGGACGCTC
1 ATAACGGGAAGCTC
1856964 TTTCGAGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (24 bp):
ATAACGGGAAGCTCATGAGAGCTA
Found at i:1858469 original size:6 final size:6
Alignment explanation
Indices: 1858460--1858509 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
1858450 TTTATTTTAT
* *
1858460 TTAATA TTAATA TAATTATA TTTAT- TTAATA TTAATA TTAATA TTAATA
1 TTAATA TTAATA T--TAATA TTAATA TTAATA TTAATA TTAATA TTAATA
1858509 T
1 T
1858510 AAAATTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 4 0.10
6 30 0.77
8 5 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAATA
Found at i:1858484 original size:25 final size:24
Alignment explanation
Indices: 1858451--1858497 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
1858441 GGAGGGTTTT
1858451 TTATTTTATTTAATATTAATATAA
1 TTATTTTATTTAATATTAATATAA
1858475 TTATATTTATTTAATATTAATAT
1 TTAT-TTTATTTAATATTAATAT
1858498 TAATATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATTTTATTTAATATTAATATAA
Found at i:1858542 original size:29 final size:29
Alignment explanation
Indices: 1858510--1858566 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
1858500 ATATTAATAT
1858510 AAAAT-TTAAATTTATTATTATAT-TTTTTG
1 AAAATATT-AATTTATT-TTATATATTTTTG
*
1858539 AAAATATTTATTTATTTTATATATTTTT
1 AAAATATTAATTTATTTTATATATTTTT
1858567 AAATTTGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 6 0.24
29 17 0.68
30 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
AAAATATTAATTTATTTTATATATTTTTG
Found at i:1862788 original size:26 final size:27
Alignment explanation
Indices: 1862745--1862798 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
1862735 ATTTATTTTA
** *
1862745 AAAATAAAAAATTTAAAA-AAGTATTT
1 AAAATAAAAAATAAAAAATAAATATTT
1862771 AAAATAAAAAATAAAAAATAAATATTT
1 AAAATAAAAAATAAAAAATAAATATTT
1862798 A
1 A
1862799 TTATATTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAATAAAAAATAAAAAATAAATATTT
Found at i:1865647 original size:3 final size:3
Alignment explanation
Indices: 1865639--1865680 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1865629 AAGTAGAAAA
1865639 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1865681 GCAAAAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1867646 original size:33 final size:35
Alignment explanation
Indices: 1867551--1867647 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
1867541 TTAATATTTT
*
1867551 AATATATGAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
1867586 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
1867619 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
1867648 ATATAACCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:1867926 original size:14 final size:14
Alignment explanation
Indices: 1867894--1867940 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
1867884 AAACAGCTTG
*
1867894 TTTTCACAGC-TTG
1 TTTTCACAGCTTTT
1867907 TTTTCACAGCTTTT
1 TTTTCACAGCTTTT
1867921 TTTTCACAGCTTTT
1 TTTTCACAGCTTTT
*
1867935 CTTTCA
1 TTTTCA
1867941 AAAGTGCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 10 0.32
14 21 0.68
ACGTcount: A:0.15, C:0.23, G:0.09, T:0.53
Consensus pattern (14 bp):
TTTTCACAGCTTTT
Found at i:1867934 original size:13 final size:13
Alignment explanation
Indices: 1867886--1867932 Score: 76
Period size: 13 Copynumber: 3.5 Consensus size: 13
1867876 TCAGTCAAAA
1867886 ACAGCTTGTTTTC
1 ACAGCTTGTTTTC
1867899 ACAGCTTGTTTTC
1 ACAGCTTGTTTTC
*
1867912 ACAGCTTTTTTTTC
1 ACAGC-TTGTTTTC
1867926 ACAGCTT
1 ACAGCTT
1867933 TTCTTTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 20 0.62
14 12 0.38
ACGTcount: A:0.17, C:0.23, G:0.13, T:0.47
Consensus pattern (13 bp):
ACAGCTTGTTTTC
Found at i:1879708 original size:31 final size:31
Alignment explanation
Indices: 1879615--1879710 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
1879605 GGCAAATTAC
*
1879615 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
*
1879646 AAGAGTAATTGAATCATAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1879678 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1879709 AA
1 AA
1879711 ATTATCTAAG
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 32 0.52
32 29 0.48
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:1884090 original size:24 final size:23
Alignment explanation
Indices: 1884063--1884147 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 23
1884053 AAATTTTTAA
1884063 AAATAATAATAAAAAAAGAGACAC
1 AAATAA-AATAAAAAAAGAGACAC
*
1884087 AAATCAAATTAAAAGAAATGAG-CA-
1 AAAT-AAAATAAAA-AAA-GAGACAC
* * *
1884111 ATATTAAACAAAAAAAGAGACAC
1 AAATAAAATAAAAAAAGAGACAC
* *
1884134 AAATGAAATTAAAA
1 AAATAAAATAAAAA
1884148 GAAATGACCG
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
21 3 0.06
22 5 0.11
23 16 0.34
24 13 0.28
25 7 0.15
26 3 0.06
ACGTcount: A:0.67, C:0.08, G:0.09, T:0.15
Consensus pattern (23 bp):
AAATAAAATAAAAAAAGAGACAC
Found at i:1884925 original size:17 final size:16
Alignment explanation
Indices: 1884903--1884965 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
1884893 AACCCAAATT
1884903 TGTGAGCTCACCATATC
1 TGTGAGCTCACCA-ATC
* *
1884920 TGTGAGCTTACCAAGAC
1 TGTGAGCTCACCAA-TC
** *
1884937 TACGAGCTCACCAAATG
1 TGTGAGCTCACC-AATC
1884954 TGTGAGCTCACC
1 TGTGAGCTCACC
1884966 CAAAATTCTG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
16 1 0.03
17 32 0.91
18 2 0.06
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (16 bp):
TGTGAGCTCACCAATC
Found at i:1884994 original size:17 final size:17
Alignment explanation
Indices: 1884922--1885002 Score: 65
Period size: 17 Copynumber: 4.7 Consensus size: 17
1884912 ACCATATCTG
*
1884922 TGAGCTTACCAAGACTA
1 TGAGCTCACCAAGACTA
* * *
1884939 CGAGCTCACCAA-ATGTG
1 TGAGCTCACCAAGA-CTA
* * *
1884956 TGAGCTCACCCAAAATTC
1 TGAGCTCA-CCAAGACTA
1884974 TGAGCTCACCAAGACTA
1 TGAGCTCACCAAGACTA
*
1884991 TGAGCTCTCCAA
1 TGAGCTCACCAA
1885003 TAGTGCGAGC
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
16 1 0.02
17 35 0.70
18 13 0.26
19 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (17 bp):
TGAGCTCACCAAGACTA
Found at i:1884996 original size:52 final size:51
Alignment explanation
Indices: 1884896--1885015 Score: 136
Period size: 52 Copynumber: 2.3 Consensus size: 51
1884886 GCAAGCTAAC
* * * *
1884896 CCAAATTTGTGAGCTCACCATATCTGTGAGCTTACCAAGACTACGAGCTCA
1 CCAAATGTGTGAGCTCACCAAATCTCTGAGCTCACCAAGACTACGAGCTCA
* *
1884947 CCAAATGTGTGAGCTCACCCAAAAT-TCTGAGCTCACCAAGACTATGAGCTCT
1 CCAAATGTGTGAGCTCA-CC-AAATCTCTGAGCTCACCAAGACTACGAGCTCA
*
1884999 CC-AATAGTGCGAGCTCA
1 CCAAAT-GTGTGAGCTCA
1885016 TTAAAGCTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
51 19 0.32
52 37 0.63
53 3 0.05
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (51 bp):
CCAAATGTGTGAGCTCACCAAATCTCTGAGCTCACCAAGACTACGAGCTCA
Found at i:1893959 original size:22 final size:23
Alignment explanation
Indices: 1893902--1893960 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
1893892 TAATTAAGAT
*
1893902 TTAATTAATTTAACTAATTATAC
1 TTAATTAATTTAACTAATCATAC
* *
1893925 TTAATTAACTTAA-TAATCATGC
1 TTAATTAATTTAACTAATCATAC
*
1893947 TTAATGAATTTAAC
1 TTAATTAATTTAAC
1893961 ATCACCATCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.44
Consensus pattern (23 bp):
TTAATTAATTTAACTAATCATAC
Found at i:1904742 original size:16 final size:16
Alignment explanation
Indices: 1904721--1904754 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1904711 TGTGTTTCAC
1904721 TTTGACTGCATGGCAT
1 TTTGACTGCATGGCAT
1904737 TTTGACTGCATGGCAT
1 TTTGACTGCATGGCAT
1904753 TT
1 TT
1904755 CATTATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTGACTGCATGGCAT
Found at i:1905164 original size:14 final size:14
Alignment explanation
Indices: 1905147--1905173 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1905137 AAGAGATTTG
1905147 TTTTCTAGTAAAGT
1 TTTTCTAGTAAAGT
1905161 TTTTCTAGTAAAG
1 TTTTCTAGTAAAG
1905174 AATTGAACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (14 bp):
TTTTCTAGTAAAGT
Found at i:1905225 original size:19 final size:19
Alignment explanation
Indices: 1905201--1905246 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1905191 CGTCTCTTTC
*
1905201 TTGCATT-CATTTCATGCAT
1 TTGCATTACATTACAT-CAT
1905220 TTGCATTACATTACATCAT
1 TTGCATTACATTACATCAT
*
1905239 ATGCATTA
1 TTGCATTA
1905247 AACACCGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (19 bp):
TTGCATTACATTACATCAT
Found at i:1907809 original size:7 final size:6
Alignment explanation
Indices: 1907793--1907825 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1907783 AAAATGATGA
*
1907793 AAAAAG AAAAGG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1907826 TGAGAGACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1909255 original size:44 final size:44
Alignment explanation
Indices: 1909117--1909756 Score: 624
Period size: 45 Copynumber: 14.4 Consensus size: 44
1909107 GTTGAAAAGC
* * * * * *
1909117 AGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGAT
* *** * ** * *
1909162 AACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGGTCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCGAAGAT
*
1909207 AGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
* *
1909251 AGCAGATCTTGTCTTTATGTATTGGCATGAAGTAAATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
* * * *
1909295 GGCAGATCTTGTCTTTATGTATTGCCATGAAGTAGATTGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
* ** * *
1909339 AGCAGATCTTGTCTTCCCATACTGGTGGCA--AAGTAGATCGAAAAA
1 AGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTAGATCGAAGAT
* *
1909384 AGCAGATCTTGTCTTTATGTATTGGCATGAAATAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
* *
1909428 -GACAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGAG
1 AG-CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
* * * * ** * *
1909472 AGTAGATCTTGTCTTCCTATACTGGTGGTGAAATAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCGAAGAT
* *
1909517 AGTAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
*
1909561 AGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGAT
* * * * *
1909606 AACAGACCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGAT
* * *
1909651 AGCAGATATTGTCTTCCCATACTAGTGG--TGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTAGATCGAAGAT
* * * * * *
1909696 AACAGATCTTGTCTTCCTGTACTGGCAGTAAAGTAGCTCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGAT
1909741 AGCAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
1909757 CCATATTGGT
Statistics
Matches: 492, Mismatches: 87, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
42 11 0.02
43 5 0.01
44 218 0.44
45 244 0.50
46 2 0.00
47 7 0.01
48 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
Found at i:1909373 original size:133 final size:134
Alignment explanation
Indices: 1909117--1909786 Score: 681
Period size: 133 Copynumber: 5.0 Consensus size: 134
1909107 GTTGAAAAGC
* * * * * * ***
1909117 AGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATAACAGATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGT
* ** * * * * * **
1909182 ACTGGTGGTGAAGTAGGTCGAAGAAAGCAGATCTTATCTT--CAT-GTATTGGCATGAAGTAGAT
65 ATTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCA--AAGTAGAT
1909244 CGAAGAT
128 CGAAGAT
* * ** *
1909251 AGCAGATCTTGTCTTTATGTATTGGCATGAAGTAAATCGAAGATGGCAGATCTTGTCTTTATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTA
* **
1909316 TTGCCA-TGAAGTAGATTGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGA
66 TTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGA
* *
1909380 AAAA
131 AGAT
* * *
1909384 AGCAGATCTTGTCTTTATGTATTGGCATGAAATAGATCGAAGATGACAGATCTTGTCTTCATGTA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTA
* * * *
1909449 TTGGCA-TGAAGTAGATCAAAGAGAGTAGATCTTGTCTTCCTATACTGGTGGTGAAA-TAGATCG
66 TTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGG-CAAAGTAGATCG
*
1909512 AAGAA
130 AAGAT
* * * *
1909517 AGTAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTGTA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTA
* * * ** ** ** *
1909582 TTGGCAGTGAAGTAGATCGAAGATAACAGACCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAA
66 TTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGA
1909647 AGAT
131 AGAT
* * * *
1909651 AGCAGATATTGTCTTCCCATACTAGTGG--TGAAGTAGATCGAAGATAACAGATCTTGTCTTCCT
1 AGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTAGATCGAAGATAACAGATCTTGTCTTCAT
* * * * *
1909714 GTACTGGCAGTAAAGTAGCTCAAAGATAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGAT
63 GTATTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGAT
1909779 CGAAGAT
128 CGAAGAT
1909786 A
1 A
1909787 TAAATCTTAT
Statistics
Matches: 450, Mismatches: 77, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
132 28 0.06
133 227 0.50
134 88 0.20
135 99 0.22
136 3 0.01
137 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (134 bp):
AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAACAGATCTTGTCTTCATGTA
TTGGCAGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCGA
AGAT
Found at i:1909406 original size:89 final size:89
Alignment explanation
Indices: 1909117--1909756 Score: 514
Period size: 89 Copynumber: 7.2 Consensus size: 89
1909107 GTTGAAAAGC
* * * * * * *
1909117 AGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATAACAGATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCAT
** * * *
1909182 ACTGGTGGTGAAGTAGGTCGAAGAA
65 ACTGGTGGCAAAGTAGATCAAAGAT
* *
1909207 AGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTT--TAT-
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATA
* ** * *
1909269 GTATTGGCATGAAGTAAATCGAAGAT
66 CTGGTGGCA--AAGTAGATCAAAGAT
* * * *
1909295 GGCAGATCTTGTCTTTATGTATTGCCATGAAGTAGATTGAAGATAGCAGATCTTGTCTTCCCATA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATA
*
1909360 CTGGTGGCAAAGTAGATCGAAA-AA
66 CTGGTGGCAAAGTAGATC-AAAGAT
* *
1909384 AGCAGATCTTGTCTTTATGTATTGGCATGAAATAGATCGAAGAT-GACAGATCTTGTCTT--CAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAG-CAGATCTTGTCTTCCCAT
* ** *
1909446 -GTATTGGCATGAAGTAGATCAAAGAG
65 ACTGGTGGCA--AAGTAGATCAAAGAT
* * * * ** * * *
1909472 AGTAGATCTTGTCTTCCTATACTGGTGGTGAAATAGATCGAAGAAAGTAGATCTTGTCTT--CAT
1 AGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCAT
* **
1909535 -GTATTGGCATGAAGTAGATCAAAGAT
65 ACTGGTGGCA--AAGTAGATCAAAGAT
* * * **
1909561 AGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAACAGACCTTGTCTTCCTGT
1 AGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCAT
** **
1909626 ACTGGCAGTGAAGTAGATCAAAGAT
65 ACTGGTGGCAAAGTAGATCAAAGAT
* * * * *
1909651 AGCAGATATTGTCTTCCCATACTAGTGG--TGAAGTAGATCGAAGATAACAGATCTTGTCTTCCT
1 AGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCC
* ** * *
1909714 GTACTGGCAGTAAAGTAGCTCAAAGAT
63 ATACTGGTGGCAAAGTAGATCAAAGAT
1909741 AGCAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
1909757 CCATATTGGT
Statistics
Matches: 457, Mismatches: 74, Indels: 40
0.80 0.13 0.07
Matches are distributed among these distances:
86 10 0.02
87 8 0.02
88 98 0.21
89 196 0.43
90 129 0.28
91 7 0.02
92 4 0.01
93 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (89 bp):
AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATA
CTGGTGGCAAAGTAGATCAAAGAT
Found at i:1911356 original size:26 final size:25
Alignment explanation
Indices: 1911280--1911357 Score: 74
Period size: 25 Copynumber: 3.1 Consensus size: 25
1911270 TTCTATATTC
*
1911280 ATACACGCATTGTTTTTATATAATTTAT
1 ATACTCGCA-TGTTTTTATATAA--TAT
1911308 ATA-T-GCATGTTTTTATAT-A-AT
1 ATACTCGCATGTTTTTATATAATAT
*
1911329 ATACTCGCATGGTTTTTTTATAATAT
1 ATACTCGCAT-GTTTTTATATAATAT
1911355 ATA
1 ATA
1911358 TGCATCTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
21 5 0.12
22 1 0.02
23 4 0.09
24 10 0.23
25 12 0.28
26 8 0.19
28 3 0.07
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (25 bp):
ATACTCGCATGTTTTTATATAATAT
Found at i:1911362 original size:24 final size:23
Alignment explanation
Indices: 1911290--1911367 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 23
1911280 ATACACGCAT
1911290 TGTTTTTATATAATTTATATATGCA
1 TGTTTTTATATAA--TATATATGCA
*
1911315 TGTTTTTATATAATATACT-CGCA
1 TGTTTTTATATAATATA-TATGCA
*
1911338 TGGTTTTTTTATAATATATATGCA
1 T-GTTTTTATATAATATATATGCA
*
1911362 TCTTTT
1 TGTTTT
1911368 ATGTAGTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
23 13 0.28
24 20 0.43
25 13 0.28
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.55
Consensus pattern (23 bp):
TGTTTTTATATAATATATATGCA
Found at i:1913877 original size:26 final size:25
Alignment explanation
Indices: 1913848--1913904 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
1913838 GTTGAAATTT
1913848 TGATATAACATTATAA-ATTTTAGTA
1 TGATATAACATTA-AATATTTTAGTA
* *
1913873 CTGATATAACGTTAAATATTTTGGTA
1 -TGATATAACATTAAATATTTTAGTA
1913899 TGATAT
1 TGATAT
1913905 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (25 bp):
TGATATAACATTAAATATTTTAGTA
Found at i:1926337 original size:3 final size:3
Alignment explanation
Indices: 1926313--1926359 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
1926303 TGTTTAATTA
* * *
1926313 ATT ATT TTT A-T ATT ATT GTT ATT ATT ATT ATT ACT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
1926358 AT
1 AT
1926360 CAGTTTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1928194 original size:16 final size:16
Alignment explanation
Indices: 1928157--1928196 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
1928147 TTGATAAAAT
* *
1928157 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
1928173 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
1928189 TAAAATTA
1 TAAAATTA
1928197 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:1928434 original size:16 final size:16
Alignment explanation
Indices: 1928413--1928446 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1928403 TATATATTTT
1928413 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
1928429 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
1928445 AA
1 AA
1928447 CTAGTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:1931917 original size:13 final size:14
Alignment explanation
Indices: 1931894--1931934 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
1931884 TTTAAACATG
* *
1931894 ATTAAACATTAATC
1 ATTAAATATTAATA
1931908 A-TAAATATT-ATA
1 ATTAAATATTAATA
1931920 ATTAAATATTAATA
1 ATTAAATATTAATA
1931934 A
1 A
1931935 CTCTCCGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.13
13 15 0.65
14 5 0.22
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTAAATATTAATA
Found at i:1936640 original size:47 final size:47
Alignment explanation
Indices: 1936569--1937057 Score: 879
Period size: 47 Copynumber: 10.4 Consensus size: 47
1936559 CCCTTCGGGA
* * * * * *
1936569 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
1936616 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
1936663 CTTATCACATATATAAACGATCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
1936710 CTTATCACATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1936757 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1936804 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1936851 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1936898 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1936945 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1936992 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1937039 CTTATCACATATATACACT
1 CTTATCACATATATACACT
1937058 GTCTTGGCTG
Statistics
Matches: 428, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 428 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:1941303 original size:41 final size:42
Alignment explanation
Indices: 1941181--1941352 Score: 127
Period size: 45 Copynumber: 4.0 Consensus size: 42
1941171 CATAGGATTT
* * * *
1941181 TCGATATGTGTTCTCGTGTAAGACTAC-GTCTGGGATGA-TGGAA
1 TCGATATGTGAT-TCGTGTAAGAC-CCTGTCTGGGA-CATTGGCA
* *
1941224 TCGATATATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCA
1 TCG--ATATGTGATT-CGTGTAAGACCCTGTCTGGGACATTGGCA
* * * *
1941269 TCG-TATTTGATTCGTGTAAGACCCTGTCCGGGACAGTGGAA
1 TCGATATGTGATTCGTGTAAGACCCTGTCTGGGACATTGGCA
* * * *
1941310 TCGATATGAGATAGCATGTAAGACCC-GTCTGGGACGTTGGCA
1 TCGATATGTGAT-TCGTGTAAGACCCTGTCTGGGACATTGGCA
1941352 T
1 T
1941353 TGTTCGATAT
Statistics
Matches: 102, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
41 27 0.26
42 27 0.26
43 14 0.14
44 2 0.02
45 32 0.31
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (42 bp):
TCGATATGTGATTCGTGTAAGACCCTGTCTGGGACATTGGCA
Found at i:1941838 original size:61 final size:61
Alignment explanation
Indices: 1941743--1941862 Score: 231
Period size: 61 Copynumber: 2.0 Consensus size: 61
1941733 AAATGGCTTG
1941743 ATCTAATGCTAATGATCCAAGGTTTAAGTAATTTTGGTCATAGTAAAGGCGTGGGGTATTT
1 ATCTAATGCTAATGATCCAAGGTTTAAGTAATTTTGGTCATAGTAAAGGCGTGGGGTATTT
*
1941804 ATCTAATGCTAATGATTCAAGGTTTAAGTAATTTTGGTCATAGTAAAGGCGTGGGGTAT
1 ATCTAATGCTAATGATCCAAGGTTTAAGTAATTTTGGTCATAGTAAAGGCGTGGGGTAT
1941863 GCTTGGTATA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (61 bp):
ATCTAATGCTAATGATCCAAGGTTTAAGTAATTTTGGTCATAGTAAAGGCGTGGGGTATTT
Found at i:1942649 original size:83 final size:85
Alignment explanation
Indices: 1942514--1942773 Score: 323
Period size: 83 Copynumber: 3.1 Consensus size: 85
1942504 TTTTTTTTAC
* * ** *
1942514 AACGCCGCTATAGACCATGGTCTGTAGTGGCGCTTA--AATAAAAACGCCACTATAGACCATGGT
1 AACGCCACTATAGACCATGGTCTCTAGCAGCGCTTAGCCA-AAAAACGCCACTATAGACCATGGT
1942577 CTTTAGCGGCGCTTAA-AACAA
65 CTTTAGCGGCGCTTAACAA-AA
* * *
1942598 AACGCTACTATAGACCGT-GTCTCTAGCAGCGCTTA-CCAAAAAACGCCACTATAGACGATGGTC
1 AACGCCACTATAGACCATGGTCTCTAGCAGCGCTTAGCCAAAAAACGCCACTATAGACCATGGTC
1942661 TTTAGCGGCGCTTAACCAAAA
66 TTTAGCGGCGCTTAA-CAAAA
* * * *
1942682 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAAAACGCCACTATAGACCATGGTC
1 AACGCCACTATAGACCATGGTCTCTAGCAGCGCTTAGCCAAAAAACGCCACTATAGACCATGGTC
* *
1942747 TTTAGTGGCGCTTATGCAAAA
66 TTTAGCGGCGCTTA-ACAAAA
1942768 AACGCC
1 AACGCC
1942774 GCTAATTTTG
Statistics
Matches: 153, Mismatches: 17, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
83 53 0.35
84 34 0.22
85 17 0.11
86 49 0.32
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (85 bp):
AACGCCACTATAGACCATGGTCTCTAGCAGCGCTTAGCCAAAAAACGCCACTATAGACCATGGTC
TTTAGCGGCGCTTAACAAAA
Found at i:1942686 original size:43 final size:42
Alignment explanation
Indices: 1942514--1942773 Score: 337
Period size: 43 Copynumber: 6.1 Consensus size: 42
1942504 TTTTTTTTAC
* * *
1942514 AACGCCGCTATAGACCATGGTCTGTAGTGGCGCTTAA-ATAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAACA-AAA
1942556 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAA-AACAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAACAA-AA
* * * * *
1942598 AACGCTACTATAGACCGT-GTCTCTAGCAGCGCTTACCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAACAAAA
*
1942639 AACGCCACTATAGACGATGGTCTTTAGCGGCGCTTAACCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAA-CAAAA
* *
1942682 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTA-ACAAAA
* *
1942725 AACGCCACTATAGACCATGGTCTTTAGTGGCGCTTATGCAAAA
1 AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTA-ACAAAA
1942768 AACGCC
1 AACGCC
1942774 GCTAATTTTG
Statistics
Matches: 193, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
41 33 0.17
42 70 0.36
43 90 0.47
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (42 bp):
AACGCCACTATAGACCATGGTCTTTAGCGGCGCTTAACAAAA
Found at i:1943119 original size:21 final size:21
Alignment explanation
Indices: 1943095--1943134 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1943085 CCCTCACTGC
1943095 AGCCTCTACTTCCCTCGCTTT
1 AGCCTCTACTTCCCTCGCTTT
* *
1943116 AGCCTCTGCTTCTCTCGCT
1 AGCCTCTACTTCCCTCGCT
1943135 GTCACATCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.42, G:0.12, T:0.38
Consensus pattern (21 bp):
AGCCTCTACTTCCCTCGCTTT
Found at i:1943207 original size:21 final size:21
Alignment explanation
Indices: 1943183--1943223 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1943173 CTTTCGTTGA
1943183 ACCTCAGCTTCTCTCGCTGCT
1 ACCTCAGCTTCTCTCGCTGCT
*
1943204 ACCTCTGCTTCTCTCGCTGC
1 ACCTCAGCTTCTCTCGCTGC
1943224 CGCATCTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.44, G:0.15, T:0.34
Consensus pattern (21 bp):
ACCTCAGCTTCTCTCGCTGCT
Found at i:1943230 original size:87 final size:87
Alignment explanation
Indices: 1943118--1943285 Score: 259
Period size: 87 Copynumber: 1.9 Consensus size: 87
1943108 CTCGCTTTAG
*
1943118 CCTCTGCTTCTCTCGCTGTCACATCTACTTTAAGCTGT-TGCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCTGCTTCTCTCGCTGCCACATCTACTTTAAGCTGTAT-CTGGAGTTCTTCATATCTTT-GTT
1943181 GAACCTCAGCTTCTCTCGCTGCTA
64 GAACCTCAGCTTCTCTCGCTGCTA
* * * *
1943205 CCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGTATCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCTGCTTCTCTCGCTGCCACATCTACTTTAAGCTGTATCTGGAGTTCTTCATATCTTTGTTGA
1943270 ACCTCAGCTTCTCTCG
66 ACCTCAGCTTCTCTCG
1943286 ATGTTGCCTC
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
87 69 0.93
88 5 0.07
ACGTcount: A:0.13, C:0.30, G:0.16, T:0.40
Consensus pattern (87 bp):
CCTCTGCTTCTCTCGCTGCCACATCTACTTTAAGCTGTATCTGGAGTTCTTCATATCTTTGTTGA
ACCTCAGCTTCTCTCGCTGCTA
Found at i:1943231 original size:21 final size:21
Alignment explanation
Indices: 1943189--1943234 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1943179 TTGAACCTCA
* *
1943189 GCTTCTCTCGCTGCTACCTCT
1 GCTTCTCTCGCTGCCACATCT
*
1943210 GCTTCTCTCGCTGCCGCATCT
1 GCTTCTCTCGCTGCCACATCT
1943231 GCTT
1 GCTT
1943235 TAAGTTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.41, G:0.17, T:0.37
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCACATCT
Found at i:1948543 original size:31 final size:31
Alignment explanation
Indices: 1948507--1948783 Score: 295
Period size: 31 Copynumber: 8.3 Consensus size: 31
1948497 AGTTATGTCG
1948507 TATTAATGTAAGTTATGTAATTTATGTATAA
1 TATTAATGTAAGTTATGTAATTTATGTATAA
1948538 TATTAATGTAAGTTATGTAATTTATGTATAA
1 TATTAATGTAAGTTATGTAATTTATGTATAA
*
1948569 TATTAATGTAAGTTATGTAAGTTGTAAGTTATGTGTAA
1 TATTAATGTAAGTTATGTAA----T---TTATGTATAA
* * *
1948607 TATTAATTAATTAAGTTATGTAATTTAAGT-TATG
1 TATTAA-T--GTAAGTTATGTAATTTATGTATA-A
*
1948641 TATTAATGTAAGTTATGTAATTTATGTGTAA
1 TATTAATGTAAGTTATGTAATTTATGTATAA
*
1948672 TATTAATGTAAGTTATGTAATTTATGTGTAA
1 TATTAATGTAAGTTATGTAATTTATGTATAA
1948703 TATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAA
1 TATTAATGTAAGTTATGTAA----T---TTATGTATAA
*
1948741 TATTAATTAATTAAGTTATGTAATTTATGTATAA
1 TATTAA-T--GTAAGTTATGTAATTTATGTATAA
1948775 TATTAATGT
1 TATTAATGT
1948784 GGCTTCTACG
Statistics
Matches: 214, Mismatches: 10, Indels: 44
0.80 0.04 0.16
Matches are distributed among these distances:
31 121 0.57
32 2 0.01
33 4 0.02
34 27 0.13
35 2 0.01
37 2 0.01
38 30 0.14
39 2 0.01
41 24 0.11
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (31 bp):
TATTAATGTAAGTTATGTAATTTATGTATAA
Found at i:1948550 original size:94 final size:92
Alignment explanation
Indices: 1948392--1948566 Score: 246
Period size: 94 Copynumber: 1.9 Consensus size: 92
1948382 ATCATATGAT
1948392 ATATATTAATAAGTTATGTCGTATTATATAAGTTATGTATTAAAAATGTAAAAGTATTAATAAGT
1 ATATATTAATAAGTTATGTCGTATTATATAAGTTATGTATT--AAATGTAAAAGTATTAATAAGT
1948457 TATGTAAGTTATGTATCATTTATCCATAA
64 TATGTAAGTTATGTATCATTTATCCATAA
* * *
1948486 ATATATTAATAAGTTATGTCGTATTAATGTAAGTTATGTAATT-TATGTATAA-TATTAATGTAA
1 ATATATTAATAAGTTATGTCGTATT-ATATAAGTTATGT-ATTAAATGTAAAAGTATTAA--TAA
*
1948549 GTTATGTAATTTATGTAT
62 GTTATGTAAGTTATGTAT
1948567 AATATTAATG
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
92 6 0.08
93 7 0.10
94 45 0.62
95 12 0.16
96 3 0.04
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (92 bp):
ATATATTAATAAGTTATGTCGTATTATATAAGTTATGTATTAAATGTAAAAGTATTAATAAGTTA
TGTAAGTTATGTATCATTTATCCATAA
Found at i:1948624 original size:103 final size:96
Alignment explanation
Indices: 1948583--1948783 Score: 237
Period size: 103 Copynumber: 2.0 Consensus size: 96
1948573 AATGTAAGTT
* * *
1948583 ATGTAAG-T-TGTAAGTTATGTGTAATATTAATTAATTAAGTTATGTAATTTAAGT-TATGTATT
1 ATGTAAGTTATGTAATTTATGTGTAATATTAATTAATTAAGTTATGTAATTTATGTATA-ATATT
*
1948645 AATGTAAGTTATGTAATTTATGTGTAATATTA
65 AATGTAAGTTATGTAATTTATGTATAATATTA
* * *
1948677 ATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAAT
1 ATGTAAGTTATGTAATTTATGTGTAATATTAAT-TAA-TTAAGTTA--TGTAATTTATGTATAAT
*
1948742 ATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
62 ATTAA-T--GTAAGTTATGTAATTTATGTATAATATTA
1948780 ATGT
1 ATGT
1948784 GGCTTCTACG
Statistics
Matches: 89, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
94 7 0.08
95 1 0.01
96 22 0.25
97 3 0.03
98 6 0.07
100 16 0.18
101 3 0.03
103 31 0.35
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (96 bp):
ATGTAAGTTATGTAATTTATGTGTAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
ATGTAAGTTATGTAATTTATGTATAATATTA
Found at i:1948647 original size:17 final size:17
Alignment explanation
Indices: 1948612--1948659 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
1948602 TGTAATATTA
1948612 ATTAA-TTAAGTTATG-
1 ATTAATTTAAGTTATGT
1948627 --TAATTTAAGTTATGT
1 ATTAATTTAAGTTATGT
*
1948642 ATTAATGTAAGTTATGT
1 ATTAATTTAAGTTATGT
1948659 A
1 A
1948660 ATTTATGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.11
14 10 0.36
17 15 0.54
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (17 bp):
ATTAATTTAAGTTATGT
Found at i:1948655 original size:134 final size:134
Alignment explanation
Indices: 1948506--1948767 Score: 497
Period size: 134 Copynumber: 2.0 Consensus size: 134
1948496 AAGTTATGTC
1948506 GTATTAATGTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATA
1 GTATTAATGTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATA
*
1948571 TTAATGTAAGTTATGTAAGTTGTAAGTTATGTGTAATATTAATTAATTAAGTTATGTAATTTAAG
66 TTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAG
1948636 TTAT
131 TTAT
* *
1948640 GTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAAGTTATGTAATTTATGTGTAATA
1 GTATTAATGTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATA
1948705 TTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTA
66 TTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTA
1948768 TGTATAATAT
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 125 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (134 bp):
GTATTAATGTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATAATA
TTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAG
TTAT
Found at i:1948672 original size:11 final size:10
Alignment explanation
Indices: 1948647--1948722 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 10
1948637 TATGTATTAA
*
1948647 TGTAAGTTA-
1 TGTAATTTAG
1948656 TGTAATTTATG
1 TGTAATTTA-G
*
1948667 TGTAATATTAA
1 TGTAAT-TTAG
*
1948678 TGTAAGTTA-
1 TGTAATTTAG
1948687 TGTAATTTATG
1 TGTAATTTA-G
*
1948698 TGTAATATTAA
1 TGTAAT-TTAG
*
1948709 TGTAAGTTA-
1 TGTAATTTAG
1948718 TGTAA
1 TGTAA
1948723 GTTGTAAGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
9 21 0.38
10 6 0.11
11 22 0.40
12 6 0.11
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (10 bp):
TGTAATTTAG
Found at i:1949317 original size:47 final size:47
Alignment explanation
Indices: 1949263--1949356 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
1949253 AACGCTAGAC
*
1949263 CACCTCCACATGCATTAATCAAATCCTAAATTATATTTTAGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
* * * *
1949310 CACCTCCATATGCATTAATCAAGCCCTAAATTATCTTTTGGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
1949357 AATCGAAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (47 bp):
CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
Found at i:1949947 original size:12 final size:12
Alignment explanation
Indices: 1949926--1949958 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1949916 AGCCGATAGT
1949926 CAAAATTATGAA
1 CAAAATTATGAA
*
1949938 CAATATTATGAA
1 CAAAATTATGAA
1949950 CAAAATTAT
1 CAAAATTAT
1949959 TAACTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (12 bp):
CAAAATTATGAA
Found at i:1950709 original size:16 final size:16
Alignment explanation
Indices: 1950688--1950719 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1950678 TATTTATTTC
1950688 TTAACTGTATCTTTTA
1 TTAACTGTATCTTTTA
1950704 TTAACTGTATCTTTTA
1 TTAACTGTATCTTTTA
1950720 ATTACTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (16 bp):
TTAACTGTATCTTTTA
Found at i:1952068 original size:25 final size:26
Alignment explanation
Indices: 1952032--1952083 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
1952022 TATCGTACAC
* **
1952032 ATTAACCGTAAATCTTAAACCC-TAA
1 ATTAACCATAAAAATTAAACCCGTAA
1952057 ATTAACCATAAAAATTAAACCCGTAA
1 ATTAACCATAAAAATTAAACCCGTAA
1952083 A
1 A
1952084 CCATAAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.50, C:0.21, G:0.04, T:0.25
Consensus pattern (26 bp):
ATTAACCATAAAAATTAAACCCGTAA
Found at i:1953949 original size:35 final size:35
Alignment explanation
Indices: 1953903--1953973 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
1953893 GAATAGAAGA
1953903 TAAGATGAATGGCAAAGCATACACATGTTTTGTAC
1 TAAGATGAATGGCAAAGCATACACATGTTTTGTAC
1953938 TAAGATGAATGGCAAAGCATACACATGTTTTGTAC
1 TAAGATGAATGGCAAAGCATACACATGTTTTGTAC
1953973 T
1 T
1953974 TAAATGGGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (35 bp):
TAAGATGAATGGCAAAGCATACACATGTTTTGTAC
Found at i:1970256 original size:21 final size:22
Alignment explanation
Indices: 1970232--1970275 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1970222 CTAAATTTAT
*
1970232 ATTTTATAAA-ATTAATATAAC
1 ATTTTAAAAACATTAATATAAC
*
1970253 ATTTTAAAAACATTAATGTAAC
1 ATTTTAAAAACATTAATATAAC
1970275 A
1 A
1970276 AAATATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTTTAAAAACATTAATATAAC
Found at i:1981054 original size:29 final size:29
Alignment explanation
Indices: 1981021--1981076 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1981011 TGTGATTCTT
*
1981021 TTTAATAATAGAAAGACTAAATTAATCCA
1 TTTAATAATAGAAAAACTAAATTAATCCA
* * *
1981050 TTTAATAGTATAAAAACTAATTTAATC
1 TTTAATAATAGAAAAACTAAATTAATC
1981077 TAATCCCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (29 bp):
TTTAATAATAGAAAAACTAAATTAATCCA
Found at i:1982442 original size:31 final size:31
Alignment explanation
Indices: 1982401--1982462 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
1982391 CAGTTGTAGC
*
1982401 AATTTGTGTGTTTTATTGAAGTATTGTAGTA
1 AATTTGTGTGTTTTATTGAAGGATTGTAGTA
* * *
1982432 AATTTTTGTGTTTTGTTGAAGGCTTGTAGTA
1 AATTTGTGTGTTTTATTGAAGGATTGTAGTA
1982463 GTTTTGTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.02, G:0.24, T:0.52
Consensus pattern (31 bp):
AATTTGTGTGTTTTATTGAAGGATTGTAGTA
Found at i:1982466 original size:22 final size:22
Alignment explanation
Indices: 1982441--1982482 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1982431 AAATTTTTGT
1982441 GTTTTGTTGAA-GGCTTGTAGTA
1 GTTTTGTTGAATGG-TTGTAGTA
1982463 GTTTTGTTGAATGGTTGTAG
1 GTTTTGTTGAATGGTTGTAG
1982483 CAACTAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (22 bp):
GTTTTGTTGAATGGTTGTAGTA
Found at i:1984452 original size:19 final size:19
Alignment explanation
Indices: 1984425--1984464 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1984415 TGATGCTTTA
* *
1984425 ATGTGGTGTAGTACTAATT
1 ATGTAGTGTAATACTAATT
*
1984444 ATGTAGTGTAATACTAGTT
1 ATGTAGTGTAATACTAATT
1984463 AT
1 AT
1984465 ACACTTGGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (19 bp):
ATGTAGTGTAATACTAATT
Found at i:1993761 original size:105 final size:105
Alignment explanation
Indices: 1993620--1993907 Score: 416
Period size: 105 Copynumber: 2.7 Consensus size: 105
1993610 AAAAAAGGTT
* * * * *
1993620 TCATTTCCAGAAAAACAAAAACGAATTAATGATTTAAATTATAATTTTATTTTATTAATTAACGG
1 TCATTTTCAGAGAAACAAAAAAGAATTAATAATTTAAATTATAATTTTATTTTGTTAATTAACGG
** *
1993685 TAATACTATCATC-TTCAAATAAAAGTCAGTTTACAATATC
66 TAATACTATCA-CGTTCAAATAAAAGAAAGCTTACAATATC
* *
1993725 TTATTTTCAGAGAAACAAAAAAGAATTAATAATTTAAATTATAATTTTATTTTGTTAATTAACAG
1 TCATTTTCAGAGAAACAAAAAAGAATTAATAATTTAAATTATAATTTTATTTTGTTAATTAACGG
* *
1993790 TGATACTATCACGTTCAAATTAAAGAAAGCTTACAATATC
66 TAATACTATCACGTTCAAATAAAAGAAAGCTTACAATATC
* * *
1993830 TCCTTTTCAAAGAAACAAAAAAGAATTAGTAATTTAAATTATAATTTTATTTTGTTAATTAACGG
1 TCATTTTCAGAGAAACAAAAAAGAATTAATAATTTAAATTATAATTTTATTTTGTTAATTAACGG
*
1993895 TAACACTATCACG
66 TAATACTATCACG
1993908 AATTTTATTT
Statistics
Matches: 163, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
104 1 0.01
105 162 0.99
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (105 bp):
TCATTTTCAGAGAAACAAAAAAGAATTAATAATTTAAATTATAATTTTATTTTGTTAATTAACGG
TAATACTATCACGTTCAAATAAAAGAAAGCTTACAATATC
Found at i:1994465 original size:23 final size:23
Alignment explanation
Indices: 1994439--1994483 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1994429 TCTTTATTAT
1994439 TATTGTTA-TAAATTTAAATAAAC
1 TATTGTTATTAAA-TTAAATAAAC
*
1994462 TATTTTTATTAAATTAAATAAA
1 TATTGTTATTAAATTAAATAAA
1994484 TAATAGTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTGTTATTAAATTAAATAAAC
Found at i:2012585 original size:5 final size:6
Alignment explanation
Indices: 2012565--2012595 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
2012555 AAAAAAAATC
2012565 TAATTT TAATTT TAA-TT TAATTT TAATTT TA
1 TAATTT TAATTT TAATTT TAATTT TAATTT TA
2012596 TGTTGAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TAATTT
Found at i:2012585 original size:11 final size:11
Alignment explanation
Indices: 2012569--2012593 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2012559 AAAATCTAAT
2012569 TTTAATTTTAA
1 TTTAATTTTAA
2012580 TTTAATTTTAA
1 TTTAATTTTAA
2012591 TTT
1 TTT
2012594 TATGTTGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:2019896 original size:23 final size:24
Alignment explanation
Indices: 2019870--2019919 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
2019860 ATTACTTTTA
2019870 TAAAAAGATAATAT-TTTAAA-ATT
1 TAAAAA-ATAATATATTTAAATATT
*
2019893 T-AAAAATTATATATTTAAATATT
1 TAAAAAATAATATATTTAAATATT
2019916 TAAA
1 TAAA
2019920 TAATTTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 6 0.26
22 10 0.43
23 5 0.22
24 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAAAAATAATATATTTAAATATT
Found at i:2020586 original size:153 final size:154
Alignment explanation
Indices: 2020208--2021323 Score: 1485
Period size: 149 Copynumber: 7.4 Consensus size: 154
2020198 CAATTGTTCG
* * * * * *
2020208 TATTTTGGCCATTTGTTCATATTTTTT--TAGATTTTATTACTTT-TA-AAAAATATACTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
* * *
2020269 CCAAATTTATTTTTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
66 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
** *
2020334 TTATTTAAATTTTAAAAAAAAAAACTCT
131 TTAAATAAATTTT---AAAAAAATC-CT
*
2020362 TATTTCGGCCCTTTGTACGTATTTTTT-CCAGATTTTATTACTTTCAATAAAAATATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
* * * * * *
2020426 C-ATATTTTATTATTTGACATTATTTTAGTACATTATATTTGAAATTTATTAATTTACTATGTTT
66 CTA-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTT
*
2020490 TTTAAATAAA-TTTAAAAAAATCTT
130 TTTAAATAAATTTTAAAAAAATCCT
*
2020514 TATTCCGGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
* * * *
2020579 CTAATTTTATTATTTTACATTACTTTAGTACATTATGTTTAAAATGTATTCATTTAGTCTATTTT
66 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
*
2020644 TTAAATAAATTTTAAAAAAATCAT
131 TTAAATAAATTTTAAAAAAATCCT
* *
2020668 TATTTCGACTCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
** * *
2020733 CTAATTTTATTATTTTATTTTATTTTAGTACATTATGTTTGAAATGTATTCATTTTGTCTGTTTT
66 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
* *
2020798 TAAAATAAATTTTTAAAAAATCCT
131 TTAAATAAATTTTAAAAAAATCCT
* * *
2020822 TATTTCGGCCC--T-TT-AT-TTTTTTCTCAAATTTTATTACTTTCAATAAAAATATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
* *
2020882 ATAATTTTATTATTTTACATTATTTTAGTACTTTATGTTTGAAATGTATTCATTTAGTGTGTTTT
66 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
2020947 TTAAATAAATTTTTAAAAAAATCCT
131 TTAAATAAA-TTTTAAAAAAATCCT
* *
2020972 TATTTCGG-CC---ATT--TATTTTTTCCCAAATTTTATTACTTTCAATAAAAATATATTATTTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
* *
2021031 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTG-TTT
66 CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
2021095 TTAAATAAA-TTTAAGAAAAA-CCAT
131 TTAAATAAATTTTAA-AAAAATCC-T
* ** * *
2021119 TATTTCGGCCTTTTGTTCGTATTTTCCCCCCGAATTTTATTACTTT---TAAAAATATAATATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTCCCAG-ATTTTATTACTTTCAATAAAAATATATTATTT
* * *
2021181 TCTAATTTTATTATTTTACAATATTTTAGTAGATTATCTTTGAAATGTATTCATTTAGTGTGTTT
65 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTT
2021246 TTTAAATAAATTTTTAAAAAAA-CCT
130 TTTAAATAAA-TTTTAAAAAAATCCT
2021271 TATTTCGGCCCTTTGTTCGTATTTTTAT--CAGATTTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTT-TCCCAGATTTTATTACTTTCAATAAAAA
2021324 ACACACCAAA
Statistics
Matches: 859, Mismatches: 77, Indels: 53
0.87 0.08 0.05
Matches are distributed among these distances:
146 7 0.01
147 14 0.02
148 14 0.02
149 213 0.25
150 36 0.04
151 78 0.09
152 64 0.07
153 130 0.15
154 206 0.24
155 15 0.02
156 5 0.01
157 77 0.09
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (154 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTTT
CTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTT
TTAAATAAATTTTAAAAAAATCCT
Found at i:2026024 original size:27 final size:28
Alignment explanation
Indices: 2025990--2026043 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
2025980 CCAATGATTC
2025990 GGGGAATCAGCACTTAGCAA-CCCCTTG
1 GGGGAATCAGCACTTAGCAATCCCCTTG
2026017 GGGGAATCAGCACTTAGCAATCCCCTT
1 GGGGAATCAGCACTTAGCAATCCCCTT
2026044 CACATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (28 bp):
GGGGAATCAGCACTTAGCAATCCCCTTG
Found at i:2026046 original size:102 final size:102
Alignment explanation
Indices: 2025915--2026247 Score: 560
Period size: 102 Copynumber: 3.3 Consensus size: 102
2025905 CCAATGAGTC
* * * **
2025915 GGGGAATCAGCACTTAGCGA-CCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAATCCCC-TTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACC
*
2025979 ACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
65 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
2026017 GGGGAATCAGCACTTAGCAATCCCCTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAATCCCCTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACCA
* *
2026082 CCAATGAGTCGGGGAATCAGCATTTAGCAACCCCTTG
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
2026119 GGGGAATCAGCACTTAGCAATCCCCTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAATCCCCTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACCA
*
2026184 CCAATGAATAGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
*
2026221 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAATCCCCTT
2026248 TTTATTCAAT
Statistics
Matches: 219, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
102 215 0.98
103 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAATCCCCTTCACATTTAAAATATGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:2026126 original size:27 final size:28
Alignment explanation
Indices: 2026092--2026145 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
2026082 CCAATGAGTC
*
2026092 GGGGAATCAGCATTTAGCAA-CCCCTTG
1 GGGGAATCAGCACTTAGCAATCCCCTTG
2026119 GGGGAATCAGCACTTAGCAATCCCCTT
1 GGGGAATCAGCACTTAGCAATCCCCTT
2026146 CACATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (28 bp):
GGGGAATCAGCACTTAGCAATCCCCTTG
Found at i:2027859 original size:11 final size:12
Alignment explanation
Indices: 2027845--2027874 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
2027835 CTCAAAACAC
2027845 TCTTAATCTT-A
1 TCTTAATCTTAA
2027856 TCTTAATCTTAA
1 TCTTAATCTTAA
2027868 TCTTAAT
1 TCTTAAT
2027875 GTGATGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (12 bp):
TCTTAATCTTAA
Found at i:2027864 original size:6 final size:6
Alignment explanation
Indices: 2027845--2027874 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
2027835 CTCAAAACAC
2027845 TCTTAA TCTT-A TCTTAA TCTTAA TCTTAA T
1 TCTTAA TCTTAA TCTTAA TCTTAA TCTTAA T
2027875 GTGATGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (6 bp):
TCTTAA
Found at i:2037902 original size:33 final size:33
Alignment explanation
Indices: 2037860--2037927 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
2037850 ACAAATCCAC
*
2037860 TTTATCCCATACCTTAATTTACCAAACCATCTT
1 TTTATCCCATACCTTAATCTACCAAACCATCTT
*
2037893 TTTATCCCATACCTTAATCTATCAAACCATCTT
1 TTTATCCCATACCTTAATCTACCAAACCATCTT
2037926 TT
1 TT
2037928 CCCATTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (33 bp):
TTTATCCCATACCTTAATCTACCAAACCATCTT
Found at i:2046112 original size:59 final size:59
Alignment explanation
Indices: 2046047--2046235 Score: 222
Period size: 59 Copynumber: 3.2 Consensus size: 59
2046037 CTAAAATCAT
2046047 AATATATAATACTATAAAATATAATTTAAAATAATTTTTATTAAATATAATTTAATAAA
1 AATATATAATACTATAAAATATAATTTAAAATAATTTTTATTAAATATAATTTAATAAA
* * * * * * ** * *
2046106 AATATATAAT-TTAATAAAATTGTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTTTTAT-TAAATATAATTTAATAAA
2046167 AATATATAATACTATAAAATATAATTTAAAATAATTTTTATTAAATATAATTTAATAAA
1 AATATATAATACTATAAAATATAATTTAAAATAATTTTTATTAAATATAATTTAATAAA
2046226 AATATATAAT
1 AATATATAAT
2046236 TCCCCCCACA
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
58 3 0.03
59 45 0.44
60 16 0.16
61 35 0.34
62 3 0.03
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (59 bp):
AATATATAATACTATAAAATATAATTTAAAATAATTTTTATTAAATATAATTTAATAAA
Found at i:2046184 original size:61 final size:61
Alignment explanation
Indices: 2045999--2046186 Score: 224
Period size: 61 Copynumber: 3.1 Consensus size: 61
2045989 ACATAATTTA
2045999 ATAAAATTGTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
1 ATAAAATTGTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
* * * * * ** * * *
2046060 ATAAAA-T-ATAAT-TTAAAATAATTTTTAT-TAAATATAATTTAATAAAAATATATAAT-TT
1 ATAAAATTGTTAATATT-AAAT-ATTCTTATATGAATTTACTAAAATCATAATATATAATACT
2046118 AATAAAATTGTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
1 -ATAAAATTGTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
2046180 ATAAAAT
1 ATAAAAT
2046187 ATAATTTAAA
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
58 3 0.03
59 35 0.35
60 16 0.16
61 42 0.42
62 3 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (61 bp):
ATAAAATTGTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
Found at i:2046204 original size:120 final size:120
Alignment explanation
Indices: 2045991--2046236 Score: 492
Period size: 120 Copynumber: 2.0 Consensus size: 120
2045981 ATATTTTAAC
2045991 ATAATTTAATAAAATTGTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAA
1 ATAATTTAATAAAATTGTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAA
2046056 TACTATAAAATATAATTTAAAATAATTTTTATTAAATATAATTTAATAAAAATAT
66 TACTATAAAATATAATTTAAAATAATTTTTATTAAATATAATTTAATAAAAATAT
2046111 ATAATTTAATAAAATTGTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAA
1 ATAATTTAATAAAATTGTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAA
2046176 TACTATAAAATATAATTTAAAATAATTTTTATTAAATATAATTTAATAAAAATAT
66 TACTATAAAATATAATTTAAAATAATTTTTATTAAATATAATTTAATAAAAATAT
2046231 ATAATT
1 ATAATT
2046237 CCCCCCACAT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 126 1.00
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (120 bp):
ATAATTTAATAAAATTGTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAA
TACTATAAAATATAATTTAAAATAATTTTTATTAAATATAATTTAATAAAAATAT
Found at i:2049606 original size:11 final size:11
Alignment explanation
Indices: 2049590--2049615 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2049580 AAGGGGTGGA
2049590 AAAAGAGAAAT
1 AAAAGAGAAAT
2049601 AAAAGAGAAAT
1 AAAAGAGAAAT
2049612 AAAA
1 AAAA
2049616 AGCGATAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (11 bp):
AAAAGAGAAAT
Found at i:2049616 original size:12 final size:12
Alignment explanation
Indices: 2049589--2049617 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
2049579 CAAGGGGTGG
2049589 AAAAAGAGAAAT
1 AAAAAGAGAAAT
2049601 -AAAAGAGAAAT
1 AAAAAGAGAAAT
2049612 AAAAAG
1 AAAAAG
2049618 CGATAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (12 bp):
AAAAAGAGAAAT
Found at i:2062963 original size:12 final size:12
Alignment explanation
Indices: 2062946--2062978 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2062936 TGAAGTTCGA
2062946 ATATGTATATAT
1 ATATGTATATAT
*
2062958 ATATGTATATCT
1 ATATGTATATAT
2062970 AT-TGTATAT
1 ATATGTATAT
2062979 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:2063075 original size:12 final size:12
Alignment explanation
Indices: 2063058--2063090 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2063048 TGAAGTTCGA
2063058 ATATGTATATAT
1 ATATGTATATAT
*
2063070 ATATGTATATCT
1 ATATGTATATAT
2063082 AT-TGTATAT
1 ATATGTATAT
2063091 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:2063152 original size:226 final size:224
Alignment explanation
Indices: 2062725--2063383 Score: 1237
Period size: 226 Copynumber: 2.9 Consensus size: 224
2062715 TATATACATA
* *
2062725 TATATATATATGTATATATATTGTATATTTGATGAGTTATAATTAAAAGTATATGAATTGAAATT
1 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
*
2062790 AGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATGTATACATATATATGTATA
66 AGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATGTAT--ATATATATGTATA
*
2062855 TCTATTGTACATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGT
129 TCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGT
2062920 TATATATATACATAAATGAAGTTCGAATATG
194 TATATATATACATAAATGAAGTTCGAATATG
2062951 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
1 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
2063016 AGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATGTATATATATATGTATATC
66 AGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATGTATATATATATGTATATC
2063081 TATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTA
131 TATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTA
*
2063146 TATATATACATACATGAAGTTCGAATATG
196 TATATATACATAAATGAAGTTCGAATATG
2063175 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
1 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
2063240 AGTTAAGTATGAATGTTATATATATATACATAAATGAAGTTCGAATATGTATATATATATGTATA
66 AGTTAAGTATGAATG-T-TATATATATACATAAATGAAGTTCGAATATGTATATATATATGTATA
2063305 TCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGT
129 TCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGT
2063370 TATATATATACATA
194 TATATATATACATA
2063384 TGTGTGAGCT
Statistics
Matches: 426, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
224 187 0.44
225 1 0.00
226 238 0.56
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (224 bp):
TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
AGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATGTATATATATATGTATATC
TATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATTAGTTAAGTATGAATGTTA
TATATATACATAAATGAAGTTCGAATATG
Found at i:2063187 original size:12 final size:12
Alignment explanation
Indices: 2063170--2063202 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2063160 TGAAGTTCGA
2063170 ATATGTATATAT
1 ATATGTATATAT
*
2063182 ATATGTATATCT
1 ATATGTATATAT
2063194 AT-TGTATAT
1 ATATGTATAT
2063203 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:2063301 original size:12 final size:12
Alignment explanation
Indices: 2063284--2063316 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2063274 TGAAGTTCGA
2063284 ATATGTATATAT
1 ATATGTATATAT
*
2063296 ATATGTATATCT
1 ATATGTATATAT
2063308 AT-TGTATAT
1 ATATGTATAT
2063317 TTGATGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:2063419 original size:114 final size:112
Alignment explanation
Indices: 2062725--2063383 Score: 1237
Period size: 112 Copynumber: 5.8 Consensus size: 112
2062715 TATATACATA
* *
2062725 TATATATATATGTATATATATTGTATATTTGATGAGTTATAATTAAAAGTATATGAATTGAAATT
1 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
*
2062790 AGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATG
66 AGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATG
*
2062837 TATACATATATATGTATATCTATTGTACATTTGATGAGCTATAATTAAAAGTATATGAATTGAAA
1 TAT--ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAA
2062902 TTAGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATG
64 TTAGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATG
2062951 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
1 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
2063016 AGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATG
66 AGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATG
2063063 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
1 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
*
2063128 AGTTAAGTATGAATGTTATATATATACATACATGAAGTTCGAATATG
66 AGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATG
2063175 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
1 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
2063240 AGTTAAGTATGAATGTTATATATATATACATAAATGAAGTTCGAATATG
66 AGTTAAGTATGAATG-T-TATATATATACATAAATGAAGTTCGAATATG
2063289 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
1 TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
2063354 AGTTAAGTATGAATGTTATATATATACATA
66 AGTTAAGTATGAATGTTATATATATACATA
2063384 TGTGTGAGCT
Statistics
Matches: 536, Mismatches: 7, Indels: 8
0.97 0.01 0.01
Matches are distributed among these distances:
112 316 0.59
113 2 0.00
114 218 0.41
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (112 bp):
TATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAATT
AGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATG
Found at i:2063780 original size:41 final size:41
Alignment explanation
Indices: 2063721--2063871 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
2063711 TTTCGGACTT
* *
2063721 TAAGTCTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
* *
2063762 TAAGCCTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
* * * *
2063803 TAAACCTAGCAGACTAAGTGTCGGTGATCTGAATCAGGCTG
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
**
2063844 TAAAGTTTAGCAGGCTAAGTGCCGGTGA
1 T-AAGCCTAGCAGGCTAAGTGCCGGTGA
2063872 ATATGTTAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 73 0.78
42 21 0.22
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
Found at i:2064483 original size:182 final size:182
Alignment explanation
Indices: 2064176--2064539 Score: 701
Period size: 182 Copynumber: 2.0 Consensus size: 182
2064166 ATATGCATTC
2064176 GATGAAATCCGAATGATAAGTATATTAGAAATTAATATATGCAATTAATGATTATGTTTGTAACT
1 GATGAAATCCGAATGATAAGTATATTAGAAATTAATATATGCAATTAATGATTATGTTTGTAACT
2064241 TGATTATAAGCATATAATGTTTATACATATGTTCGTTAATATGTATTTTAAATTTGCTATAAACT
66 TGATTATAAGCATATAATGTTTATACATATGTTCGTTAATATGTATTTTAAATTTGCTATAAACT
* *
2064306 TACTAAGCTATAAAAGCTTACTTTGATTGTTTTTGTCCATTTGTTTTATAGA
131 TACTAAGCTATAAAAGCTTACTTTGATTATTTTTGTCCAATTGTTTTATAGA
2064358 GATGAAATCCGAATGATAAGTATATTAGAAATTAATATATGCAATTAATGATTATGTTTGTAACT
1 GATGAAATCCGAATGATAAGTATATTAGAAATTAATATATGCAATTAATGATTATGTTTGTAACT
*
2064423 TGATTATAAGCATATAATGTTTATACATATGTTCGTTAATATGTATTTTAGATTTGCTATAAACT
66 TGATTATAAGCATATAATGTTTATACATATGTTCGTTAATATGTATTTTAAATTTGCTATAAACT
2064488 TACTAAGCTATAAAAGCTTACTTTGATTATTTTTGTCCAATTGTTTTATAGA
131 TACTAAGCTATAAAAGCTTACTTTGATTATTTTTGTCCAATTGTTTTATAGA
2064540 TTTTGGAGTC
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 179 1.00
ACGTcount: A:0.35, C:0.08, G:0.13, T:0.43
Consensus pattern (182 bp):
GATGAAATCCGAATGATAAGTATATTAGAAATTAATATATGCAATTAATGATTATGTTTGTAACT
TGATTATAAGCATATAATGTTTATACATATGTTCGTTAATATGTATTTTAAATTTGCTATAAACT
TACTAAGCTATAAAAGCTTACTTTGATTATTTTTGTCCAATTGTTTTATAGA
Found at i:2064612 original size:38 final size:38
Alignment explanation
Indices: 2064557--2064630 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
2064547 GTCGCGTTAC
* * *
2064557 GAGCTTGGGGATTATCAGCATAGTCTATCACACTATCT
1 GAGCTCGGGGATCATCAGCATAGTCTACCACACTATCT
2064595 GAGCTCGGGGATCATCAGCATAGTCTACCACACTAT
1 GAGCTCGGGGATCATCAGCATAGTCTACCACACTAT
2064631 TAACTTCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (38 bp):
GAGCTCGGGGATCATCAGCATAGTCTACCACACTATCT
Found at i:2069308 original size:31 final size:30
Alignment explanation
Indices: 2069270--2069347 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 30
2069260 AAATCCAAGA
* **
2069270 GGGAAGAAAATATTTTTTGTGTTCTTCATTT
1 GGGAAGAAAATGTTTTGCGTGTTCTTCA-TT
* *
2069301 GGGAAGAAAATGTTCTGCGTGTTCTTTATT
1 GGGAAGAAAATGTTTTGCGTGTTCTTCATT
2069331 GGGAAGGAAAATGTTTT
1 GGGAA-GAAAATGTTTT
2069348 CTTTTTTTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 7 0.17
31 33 0.82
ACGTcount: A:0.27, C:0.06, G:0.26, T:0.41
Consensus pattern (30 bp):
GGGAAGAAAATGTTTTGCGTGTTCTTCATT
Found at i:2071020 original size:31 final size:30
Alignment explanation
Indices: 2070964--2071037 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 30
2070954 TATTATATTC
2070964 AAGTAAATGATG-TTTTTCTTTAATATCCA
1 AAGTAAATGATGTTTTTTCTTTAATATCCA
* * *
2070993 AAGTAAATTATGTTTTTTTTTTCAATATCTA
1 AAGTAAATGATGTTTTTTCTTT-AATATCCA
2071024 AAGTAAATGATGTT
1 AAGTAAATGATGTT
2071038 ACATTGGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 11 0.28
30 8 0.21
31 20 0.51
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (30 bp):
AAGTAAATGATGTTTTTTCTTTAATATCCA
Found at i:2073948 original size:25 final size:25
Alignment explanation
Indices: 2073786--2074000 Score: 85
Period size: 25 Copynumber: 8.7 Consensus size: 25
2073776 GCAGCTCTTA
* *
2073786 TGAGCGTCCCGTTATATGGCTCTTCG
1 TGAGCTTCCCGTTATA-GGCTCTTTG
** *
2073812 TGAGCTTCTTGATTAAAGGCTCTTTG
1 TGAGCTTCCCG-TTATAGGCTCTTTG
**
2073838 TGAGCTTCCCGTTAGTA--CTCACT-
1 TGAGCTTCCCGTTA-TAGGCTCTTTG
* * **
2073861 TGAACTTCCCGTTATATGGCTATCCG
1 TGAGCTTCCCGTTATA-GGCTCTTTG
* *
2073887 -GTGCTACCCGTTAATTA--CTCTTTG
1 TGAGCTTCCCGTT-A-TAGGCTCTTTG
*
2073911 -GAGCTAT-CTGTTATAGGCTCTTTG
1 TGAGCT-TCCCGTTATAGGCTCTTTG
* *
2073935 TGAGCTTCCCGTTATATTGCTC--GG
1 TGAGCTTCCCGTTATA-GGCTCTTTG
* **
2073959 ATAAGCTTCCCGTTATAAGGCTC--AA
1 -TGAGCTTCCCGTTAT-AGGCTCTTTG
2073984 TGAGCTTCCCGTTATAG
1 TGAGCTTCCCGTTATAG
2074001 TGCTTGAGAG
Statistics
Matches: 142, Mismatches: 31, Indels: 35
0.68 0.15 0.17
Matches are distributed among these distances:
22 4 0.03
23 16 0.11
24 39 0.27
25 45 0.32
26 32 0.23
27 6 0.04
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (25 bp):
TGAGCTTCCCGTTATAGGCTCTTTG
Found at i:2073994 original size:24 final size:25
Alignment explanation
Indices: 2073935--2073999 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
2073925 AGGCTCTTTG
** *
2073935 TGAGCTTCCCGTTATATTGCTCGGA
1 TGAGCTTCCCGTTATAAGGCTCGAA
*
2073960 TAAGCTTCCCGTTATAAGGCTC-AA
1 TGAGCTTCCCGTTATAAGGCTCGAA
2073984 TGAGCTTCCCGTTATA
1 TGAGCTTCCCGTTATA
2074000 GTGCTTGAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
24 16 0.46
25 19 0.54
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (25 bp):
TGAGCTTCCCGTTATAAGGCTCGAA
Found at i:2075946 original size:22 final size:21
Alignment explanation
Indices: 2075921--2075965 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
2075911 ACCATCTAAG
*
2075921 CATATATAAAACCATAGCATTT
1 CATAAATAAAACCATAG-ATTT
* *
2075943 CATAAATATAACCATTGATTT
1 CATAAATAAAACCATAGATTT
2075964 CA
1 CA
2075966 CATTCGATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.33
Consensus pattern (21 bp):
CATAAATAAAACCATAGATTT
Found at i:2077567 original size:28 final size:27
Alignment explanation
Indices: 2077536--2077621 Score: 91
Period size: 28 Copynumber: 3.1 Consensus size: 27
2077526 TCCCAACGGG
*
2077536 CTTACCCTGTGTTTACTTTCCCGACGAA
1 CTTA-CCTGTGTTTACTGTCCCGACGAA
* * *
2077564 CTTAACCTGTATCTACTGTCCTGACGAA
1 CTT-ACCTGTGTTTACTGTCCCGACGAA
* *
2077592 CTTTATCTGTGTTTACTGTCCCAACGAA
1 C-TTACCTGTGTTTACTGTCCCGACGAA
2077620 CT
1 CT
2077622 ATCTCTTCTC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 43 0.91
29 3 0.06
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (27 bp):
CTTACCTGTGTTTACTGTCCCGACGAA
Found at i:2077657 original size:33 final size:33
Alignment explanation
Indices: 2077597--2077826 Score: 205
Period size: 33 Copynumber: 7.0 Consensus size: 33
2077587 ACGAACTTTA
* *
2077597 TCTGTGTTTACTGTCCCAACGAACTATCTCT-T
1 TCTGTGTTTACTGTCCTAACGGACTATCTCTAT
* *
2077629 CTCTGTTTTTACTGTCCTAGCAGG-CTATCTCTAT
1 -TCTGTGTTTACTGTCCTAAC-GGACTATCTCTAT
* * * * *
2077663 TTTTTGTTTATTGTCCTAACGGACTTTCTCTGT
1 TCTGTGTTTACTGTCCTAACGGACTATCTCTAT
* *
2077696 TCTATGTTTACTGTCCTAGCGGACTATCTCTAT
1 TCTGTGTTTACTGTCCTAACGGACTATCTCTAT
* * * *
2077729 TTTGTGTTTACTGTCCCAACGGACTTTCTCTGT
1 TCTGTGTTTACTGTCCTAACGGACTATCTCTAT
* *
2077762 TCTATGTTTACTGTCCTAACAGG-TTATCTCTAT
1 TCTGTGTTTACTGTCCTAAC-GGACTATCTCTAT
* * * * * *
2077795 TTTGTATTTACTGTTCTAGCGAACTTTCTCTA
1 TCTGTGTTTACTGTCCTAACGGACTATCTCTA
2077827 ATGATTACGA
Statistics
Matches: 155, Mismatches: 37, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
32 3 0.02
33 148 0.95
34 4 0.03
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (33 bp):
TCTGTGTTTACTGTCCTAACGGACTATCTCTAT
Found at i:2077693 original size:66 final size:66
Alignment explanation
Indices: 2077599--2077825 Score: 296
Period size: 66 Copynumber: 3.4 Consensus size: 66
2077589 GAACTTTATC
* * *
2077599 TGTGTTTACTGTCCCAACGAACTATCTCT-TCTCTGTTTTTACTGTCCTAGCAGGCTATCTCTAT
1 TGTGTTTACTGTCCCAACGAACTTTCTCTGT-TCTATGTTTACTGTCCTAGCAGGCTATCTCTAT
2077663 TT
65 TT
* * * *
2077665 TTTGTTTATTGTCCTAACGGACTTTCTCTGTTCTATGTTTACTGTCCTAGC-GGACTATCTCTAT
1 TGTGTTTACTGTCCCAACGAACTTTCTCTGTTCTATGTTTACTGTCCTAGCAGG-CTATCTCTAT
2077729 TT
65 TT
* * *
2077731 TGTGTTTACTGTCCCAACGGACTTTCTCTGTTCTATGTTTACTGTCCTAACAGGTTATCTCTATT
1 TGTGTTTACTGTCCCAACGAACTTTCTCTGTTCTATGTTTACTGTCCTAGCAGGCTATCTCTATT
2077796 T
66 T
* * * *
2077797 TGTATTTACTGTTCTAGCGAACTTTCTCT
1 TGTGTTTACTGTCCCAACGAACTTTCTCT
2077826 AATGATTACG
Statistics
Matches: 141, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
65 2 0.01
66 136 0.96
67 3 0.02
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.46
Consensus pattern (66 bp):
TGTGTTTACTGTCCCAACGAACTTTCTCTGTTCTATGTTTACTGTCCTAGCAGGCTATCTCTATT
T
Found at i:2077792 original size:99 final size:99
Alignment explanation
Indices: 2077601--2077826 Score: 226
Period size: 99 Copynumber: 2.3 Consensus size: 99
2077591 ACTTTATCTG
* * * * * *
2077601 TGTTTACTGTCCCAACGAACTATCTCT-TCTCTGTTTTTACTGTCCTAGCAGGCTATCTCTATTT
1 TGTTTACTGTCCTAGCGAACTATCTCTATCTCTGTGTTTACTGTCCCAACAGGCTATCTCTATTC
* * *
2077665 TTTGTTTATTGTCCTAACGGACTTTCTCTGTTCTA
66 TATGTTTACTGTCCTAACGGA-TTTCTCTATTCTA
* * * *
2077700 TGTTTACTGTCCTAGCGGACTATCTCTAT-TTTGTGTTTACTGTCCCAAC-GGACTTTCTCTGTT
1 TGTTTACTGTCCTAGCGAACTATCTCTATCTCTGTGTTTACTGTCCCAACAGG-CTATCTCTATT
* *
2077763 CTATGTTTACTGTCCTAACAGG-TTATCTCTATTTTG
65 CTATGTTTACTGTCCTAAC-GGATT-TCTCTATTCTA
* * *
2077799 TATTTACTGTTCTAGCGAACTTTCTCTA
1 TGTTTACTGTCCTAGCGAACTATCTCTA
2077827 ATGATTACGA
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
98 4 0.04
99 97 0.93
100 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (99 bp):
TGTTTACTGTCCTAGCGAACTATCTCTATCTCTGTGTTTACTGTCCCAACAGGCTATCTCTATTC
TATGTTTACTGTCCTAACGGATTTCTCTATTCTA
Found at i:2078940 original size:56 final size:58
Alignment explanation
Indices: 2078836--2078947 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 58
2078826 AGGTAATCTC
* **
2078836 CCATGCTTTTTGGTACTCACCTCATAATTATTGGCATTCCCTTTTAATTTTTGGTACT
1 CCATGCTTTTTAGTACTCACCTCATAATTATTGGCATTCCCTAATAATTTTTGGTACT
* * * *
2078894 CCATG-TTTTTAGTACTC-CCTCATTATTTTTGGTATTCTCTAATAATTTTTGGTA
1 CCATGCTTTTTAGTACTCACCTCATAATTATTGGCATTCCCTAATAATTTTTGGTA
2078948 TTCCTTTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
56 31 0.66
57 11 0.23
58 5 0.11
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.49
Consensus pattern (58 bp):
CCATGCTTTTTAGTACTCACCTCATAATTATTGGCATTCCCTAATAATTTTTGGTACT
Found at i:2079450 original size:20 final size:22
Alignment explanation
Indices: 2079412--2079453 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
2079402 TTATTTCAAA
2079412 ACCATACAAAAAAATTTATGAG
1 ACCATACAAAAAAATTTATGAG
2079434 ACCATAC-AAAAAA-TTATGAG
1 ACCATACAAAAAAATTTATGAG
2079454 GGTGTACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.21
Consensus pattern (22 bp):
ACCATACAAAAAAATTTATGAG
Found at i:2079658 original size:20 final size:19
Alignment explanation
Indices: 2079534--2079663 Score: 65
Period size: 20 Copynumber: 6.6 Consensus size: 19
2079524 TTTTCGAAAC
*
2079534 AATA-CAAATAATTATGAGG
1 AATATCAAA-AATTACGAGG
2079553 AAGTATCATAAAA-TACGAGG
1 AA-TATCA-AAAATTACGAGG
* *
2079573 AAATATCAAAAACTATGAGGG
1 -AATATCAAAAATTACGA-GG
* *
2079594 AATA-AAAAAATTAAC-AAG
1 AATATCAAAAATT-ACGAGG
*
2079612 AAGTA-CAAAAAATTATGA-G
1 AA-TATC-AAAAATTACGAGG
2079631 AATGTATCAAAAATTACGAGGG
1 AA--TATCAAAAATTACGA-GG
2079653 AATATCAAAAA
1 AATATCAAAAA
2079664 AATATTGGAG
Statistics
Matches: 88, Mismatches: 9, Indels: 27
0.71 0.07 0.22
Matches are distributed among these distances:
18 3 0.03
19 19 0.22
20 52 0.59
21 9 0.10
22 5 0.06
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (19 bp):
AATATCAAAAATTACGAGG
Found at i:2079744 original size:40 final size:40
Alignment explanation
Indices: 2079617--2079746 Score: 122
Period size: 40 Copynumber: 3.2 Consensus size: 40
2079607 ACAAGAAGTA
* *
2079617 CAAAAAATTATGAGAATGTATCAAAAATTACGAGGGAATATC
1 CAAAAAA-TATGAGAAAGTACCAAAAATTACGAGGGAATA-C
* * * *
2079659 AAAAAAATATTG-GAGAA-TACCAAAAAAT-CAAAGGATATAC
1 CAAAAAATA-TGAGA-AAGTACCAAAAATTACGAGGGA-ATAC
* *
2079699 TAAAAAACATGAGAAAGTACCAAAAATTACGAGGGAATAC
1 CAAAAAATATGAGAAAGTACCAAAAATTACGAGGGAATAC
2079739 CAAAAAAT
1 CAAAAAAT
2079747 CTAAAGAATT
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
39 4 0.06
40 35 0.51
41 21 0.30
42 9 0.13
ACGTcount: A:0.56, C:0.11, G:0.15, T:0.18
Consensus pattern (40 bp):
CAAAAAATATGAGAAAGTACCAAAAATTACGAGGGAATAC
Found at i:2081256 original size:25 final size:26
Alignment explanation
Indices: 2081228--2081276 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
2081218 TAAAATATTT
* *
2081228 ATTTTT-ATTTTTATTTTTAAAATAA
1 ATTTTTAATGTTTATTTTAAAAATAA
2081253 ATTTTTAATGTTTATTTTAAAAAT
1 ATTTTTAATGTTTATTTTAAAAAT
2081277 GGGTCGGGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTTTTAATGTTTATTTTAAAAATAA
Found at i:2081267 original size:38 final size:39
Alignment explanation
Indices: 2081186--2081270 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 39
2081176 ATATATATAT
*
2081186 TTTATTTTTATTTTTTAATTTTAAAATACTTTTAAAATA
1 TTTATTTTTATTTTTTAATTTTAAAATAATTTTAAAATA
* * *
2081225 TTTATTTTTA-TTTTTATTTTTAAAATAAATTTT-TAATG
1 TTTATTTTTATTTTTTAATTTTAAAAT-AATTTTAAAATA
2081263 TTTATTTT
1 TTTATTTT
2081271 AAAAATGGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
38 26 0.63
39 15 0.37
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (39 bp):
TTTATTTTTATTTTTTAATTTTAAAATAATTTTAAAATA
Found at i:2089547 original size:9 final size:9
Alignment explanation
Indices: 2089503--2089547 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
2089493 CATTTAAATA
2089503 AATAATTAT
1 AATAATTAT
2089512 AATAATTAT
1 AATAATTAT
2089521 AATAATTAT
1 AATAATTAT
2089530 -ATACA-TAT
1 AATA-ATTAT
*
2089538 AATATTTAT
1 AATAATTAT
2089547 A
1 A
2089548 TATATAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
AATAATTAT
Found at i:2104081 original size:16 final size:16
Alignment explanation
Indices: 2104049--2104083 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2104039 ATACGATTGA
**
2104049 AATAGAATAAAGTTGT
1 AATAGAATAAAACTGT
2104065 AATAGAATAAAACTGT
1 AATAGAATAAAACTGT
2104081 AAT
1 AAT
2104084 CAGTAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.14, T:0.29
Consensus pattern (16 bp):
AATAGAATAAAACTGT
Found at i:2104158 original size:44 final size:44
Alignment explanation
Indices: 2104102--2104206 Score: 156
Period size: 44 Copynumber: 2.4 Consensus size: 44
2104092 TAATTGTTTG
* * *
2104102 GTTGAATAGAATGGAATAGAGTTGTAGTAATATTATTGTATTTA
1 GTTGAATGGAATGGAATAGAATTGTAATAATATTATTGTATTTA
* *
2104146 GTTGAATGGAATGGAATAGAATTGTAATAATATTGTTGTATTTG
1 GTTGAATGGAATGGAATAGAATTGTAATAATATTATTGTATTTA
*
2104190 GTTGAATGGAATAGAAT
1 GTTGAATGGAATGGAAT
2104207 TGTAATAGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (44 bp):
GTTGAATGGAATGGAATAGAATTGTAATAATATTATTGTATTTA
Found at i:2104439 original size:19 final size:20
Alignment explanation
Indices: 2104401--2104448 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
2104391 ATATTACTTC
2104401 AATAAA-ATAGTAAATATTT
1 AATAAATATAGTAAATATTT
*
2104420 AATAAATATAGT-AATTTTT
1 AATAAATATAGTAAATATTT
*
2104439 AATTAATATA
1 AATAAATATA
2104449 TAAGTTACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (20 bp):
AATAAATATAGTAAATATTT
Found at i:2106653 original size:19 final size:17
Alignment explanation
Indices: 2106621--2106655 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
2106611 TGTTTATCTC
2106621 TTTTTCTTTTTATATAA
1 TTTTTCTTTTTATATAA
2106638 TTTTCTCTTCTTTATATA
1 TTTT-TCTT-TTTATATA
2106656 TAACATGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTCTTTTTATATAA
Found at i:2108193 original size:22 final size:24
Alignment explanation
Indices: 2108158--2108202 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
2108148 ATTTTTTGTA
*
2108158 TTTTAATAATCTTTCT-ATTTTTG
1 TTTTAATAACCTTTCTAATTTTTG
*
2108181 TTTT-ATAACCTTTTTAATTTTT
1 TTTTAATAACCTTTCTAATTTTT
2108203 AAAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTAATAACCTTTCTAATTTTTG
Found at i:2108230 original size:10 final size:9
Alignment explanation
Indices: 2108181--2108370 Score: 56
Period size: 10 Copynumber: 20.3 Consensus size: 9
2108171 TCTATTTTTG
*
2108181 TTTTATAACC
1 TTTTATAA-T
2108191 TTTT-TAAT
1 TTTTATAAT
*
2108199 TTTTAAAAT
1 TTTTATAAT
2108208 TTTATATAA-
1 TTT-TATAAT
2108217 TTTTATAACT
1 TTTTATAA-T
2108227 TTTTA-AAT
1 TTTTATAAT
2108235 TTTCT-TAAT
1 TTT-TATAAT
*
2108244 AATTTAATAAT
1 --TTTTATAAT
* *
2108255 TTTTTTGTAT
1 TTTTAT-AAT
*
2108265 TTTTGT-AT
1 TTTTATAAT
*
2108273 TTTTGTGAAT
1 TTTTAT-AAT
*
2108283 TTTTAAAATAT
1 TTTT-ATA-AT
*
2108294 TTTTATTATT
1 TTTTA-TAAT
2108304 TTTTATGAAT
1 TTTTAT-AAT
2108314 ATTTT-TACA-
1 -TTTTATA-AT
*
2108323 ATTT-TAAT
1 TTTTATAAT
*
2108331 TTTTTTAAT
1 TTTTATAAT
*
2108340 TTTT-GAAT
1 TTTTATAAT
*
2108348 TTTTAGAAGT
1 TTTTATAA-T
2108358 TTTTAATAAT
1 TTTT-ATAAT
2108368 TTT
1 TTT
2108371 CTAACCATTT
Statistics
Matches: 140, Mismatches: 17, Indels: 46
0.69 0.08 0.23
Matches are distributed among these distances:
7 1 0.01
8 36 0.26
9 35 0.25
10 47 0.34
11 21 0.15
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:2108337 original size:17 final size:17
Alignment explanation
Indices: 2108309--2108351 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2108299 TTATTTTTTA
*
2108309 TGAATATTTTTACAATTT
1 TGAATTTTTTTA-AATTT
*
2108327 T-AATTTTTTTAATTTT
1 TGAATTTTTTTAAATTT
2108343 TGAATTTTT
1 TGAATTTTT
2108352 AGAAGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 16 0.73
18 1 0.05
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (17 bp):
TGAATTTTTTTAAATTT
Found at i:2115027 original size:31 final size:30
Alignment explanation
Indices: 2114989--2115079 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 30
2114979 TACACAACAA
2114989 AAGTTTTGATGATCAAGAATCTGAAAGAACC
1 AAGTTTTGATGATCAAGAATCTGAAA-AACC
2115020 AAGTTTTGATGATCAAGAA--T-AAAATACAC
1 AAGTTTTGATGATCAAGAATCTGAAAA-AC-C
*
2115049 AAGTTTTGGTGATCAAGAATCTGAAATAACC
1 AAGTTTTGATGATCAAGAATCTGAAA-AACC
2115080 TCAAGAATGT
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
27 1 0.02
28 5 0.09
29 20 0.38
31 21 0.40
32 5 0.09
33 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (30 bp):
AAGTTTTGATGATCAAGAATCTGAAAAACC
Found at i:2115061 original size:29 final size:29
Alignment explanation
Indices: 2114989--2115068 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 29
2114979 TACACAACAA
2114989 AAGTTTTGATGATCAAGAATCTGAAAGAACC
1 AAGTTTTGATGATCAAGAA--TGAAAGAACC
2115020 AAGTTTTGATGATCAAGAAT-AAA-ATACAC
1 AAGTTTTGATGATCAAGAATGAAAGA-AC-C
*
2115049 AAGTTTTGGTGATCAAGAAT
1 AAGTTTTGATGATCAAGAAT
2115069 CTGAAATAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 1 0.02
28 5 0.11
29 21 0.46
31 19 0.41
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (29 bp):
AAGTTTTGATGATCAAGAATGAAAGAACC
Found at i:2119679 original size:9 final size:9
Alignment explanation
Indices: 2119621--2119678 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
2119611 GTAGTGATTC
*
2119621 AATTCGATT
1 AATTCGGTT
2119630 AATTCGGTT
1 AATTCGGTT
*
2119639 AATTCGGAT
1 AATTCGGTT
2119648 AAGTT-GGTT
1 AA-TTCGGTT
2119657 AATTCGGTT
1 AATTCGGTT
* *
2119666 TATTTGGTT
1 AATTCGGTT
2119675 AATT
1 AATT
2119679 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 2 0.05
9 37 0.90
10 2 0.05
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (9 bp):
AATTCGGTT
Found at i:2131723 original size:46 final size:46
Alignment explanation
Indices: 2131658--2131812 Score: 204
Period size: 46 Copynumber: 3.4 Consensus size: 46
2131648 AGGCTATTTG
* *
2131658 TTGTGTAGGTTCAGCCCTAACGGGTGACTAGGCACTATTATATGAT
1 TTGTGTAGGTTCAACCCTAACGGGTGACTAGGCACTATTATCTGAT
* *
2131704 TTGTGTAGGTTCAACCCTAACAGGTGA-TCAGACACTATTATCTGAT
1 TTGTGTAGGTTCAACCCTAACGGGTGACT-AGGCACTATTATCTGAT
* * * *
2131750 TTGTGTAGGTTCAACCCTAATGGGTGACCAGGTACTATTATCCGAT
1 TTGTGTAGGTTCAACCCTAACGGGTGACTAGGCACTATTATCTGAT
* *
2131796 TCGTGTAGGTTTAACCC
1 TTGTGTAGGTTCAACCC
2131813 AAATAAGTAA
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
45 1 0.01
46 94 0.99
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (46 bp):
TTGTGTAGGTTCAACCCTAACGGGTGACTAGGCACTATTATCTGAT
Found at i:2131826 original size:46 final size:47
Alignment explanation
Indices: 2131687--2131835 Score: 126
Period size: 46 Copynumber: 3.3 Consensus size: 47
2131677 ACGGGTGACT
** * * * * * *
2131687 AGGC-ACTATTATATGATTTGTGTAGGTTCAACCCTAACAGGTGATC
1 AGGCTACTATTATCCGATTCGTGTAGGTTCAACCCAAATAAGTAACC
* * * * ** *
2131733 AGAC-ACTATTATCTGATTTGTGTAGGTTCAACCCTAATGGGTGACC
1 AGGCTACTATTATCCGATTCGTGTAGGTTCAACCCAAATAAGTAACC
*
2131779 AGG-TACTATTATCCGATTCGTGTAGGTTTAACCCAAATAAGTAACC
1 AGGCTACTATTATCCGATTCGTGTAGGTTCAACCCAAATAAGTAACC
2131825 AGGCT-CTATTA
1 AGGCTACTATTA
2131836 CCTTCACCTA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
46 87 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (47 bp):
AGGCTACTATTATCCGATTCGTGTAGGTTCAACCCAAATAAGTAACC
Found at i:2131834 original size:92 final size:92
Alignment explanation
Indices: 2131658--2131835 Score: 221
Period size: 92 Copynumber: 1.9 Consensus size: 92
2131648 AGGCTATTTG
* * * * *
2131658 TTGTGTAGGTTCAGCCCTAACGGGTGACTAGGCACTATTATATGATTTGTGTAGGTTCAACCCTA
1 TTGTGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATACGATTCGTGTAGGTTCAACCCAA
* * *
2131723 ACAGGTGATCAGACACTATTATCTGAT
66 ACAAGTAACCAGACACTATTATCTGAT
* * * *
2131750 TTGTGTAGGTTCAACCCTAATGGGTGACCAGGTACTATTATCCGATTCGTGTAGGTTTAACCCAA
1 TTGTGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATACGATTCGTGTAGGTTCAACCCAA
* * *
2131815 ATAAGTAACCAGGCTCTATTA
66 ACAAGTAACCAGACACTATTA
2131836 CCTTCACCTA
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
92 71 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (92 bp):
TTGTGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATACGATTCGTGTAGGTTCAACCCAA
ACAAGTAACCAGACACTATTATCTGAT
Found at i:2136985 original size:5 final size:5
Alignment explanation
Indices: 2136975--2137003 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
2136965 TAATGACATA
2136975 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
2137004 ATATATTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:2141754 original size:15 final size:15
Alignment explanation
Indices: 2141736--2141765 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2141726 TTTATTCTTT
2141736 CTTTTATTATTATTA
1 CTTTTATTATTATTA
2141751 CTTTTATTATTATTA
1 CTTTTATTATTATTA
2141766 TAATCTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTTATTATTATTA
Found at i:2143381 original size:37 final size:37
Alignment explanation
Indices: 2143331--2143404 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
2143321 AAGGGAGAAA
2143331 GACAAAATGCCACAAATGTTACATGGTTGGACACAAC
1 GACAAAATGCCACAAATGTTACATGGTTGGACACAAC
*
2143368 GACAAAATGCCACAAATGTTTCATGGTTGGACACAAC
1 GACAAAATGCCACAAATGTTACATGGTTGGACACAAC
2143405 TCCAGAAGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (37 bp):
GACAAAATGCCACAAATGTTACATGGTTGGACACAAC
Found at i:2144432 original size:18 final size:17
Alignment explanation
Indices: 2144409--2144472 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
2144399 ATGAAAGAAT
2144409 ATTATAATAATCATCATC
1 ATTATAATAATCAT-ATC
* * *
2144427 ATTATAATAATAAAATT
1 ATTATAATAATCATATC
*
2144444 AATATTAATAATCATATC
1 ATTA-TAATAATCATATC
*
2144462 ATGATAATAAT
1 ATTATAATAAT
2144473 AAATAAATGA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (17 bp):
ATTATAATAATCATATC
Found at i:2144613 original size:24 final size:24
Alignment explanation
Indices: 2144555--2144614 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 24
2144545 AAAATATCAA
2144555 AAATAATAAGAAATAATAAGATAACG
1 AAATAA-AA-AAATAATAAGATAACG
*
2144581 AGAAT-AAAAAATAATAATGATAA-T
1 A-AATAAAAAAATAATAA-GATAACG
2144605 AAATAAAAAA
1 AAATAAAAAA
2144615 TTGCGCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
23 3 0.10
24 15 0.50
25 7 0.23
26 2 0.07
27 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (24 bp):
AAATAAAAAAATAATAAGATAACG
Found at i:2147315 original size:17 final size:18
Alignment explanation
Indices: 2147281--2147326 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
2147271 CCGTTATGTC
2147281 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
2147296 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
2147313 CGCGACCGCGACCG
1 CGCGACCGCGACCG
2147327 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:2152954 original size:27 final size:26
Alignment explanation
Indices: 2152901--2152949 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
2152891 TAAAAAATGA
2152901 TATGATATATTAGTGTATGTTATATGT
1 TATGATATATTAGTG-ATGTTATATGT
2152928 TATGATATATTAGTG-TG-TATAT
1 TATGATATATTAGTGATGTTATAT
2152950 TATGTATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
27 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (26 bp):
TATGATATATTAGTGATGTTATATGT
Found at i:2152961 original size:9 final size:9
Alignment explanation
Indices: 2152943--2153024 Score: 67
Period size: 9 Copynumber: 8.6 Consensus size: 9
2152933 TATATTAGTG
2152943 TGTATATTA
1 TGTATATTA
*
2152952 TGTATGTTA
1 TGTATATTA
2152961 TGTAT-TGTA
1 TGTATAT-TA
2152970 TGATATATTA
1 TG-TATATTA
*
2152980 TGTATGTTA
1 TGTATATTA
*
2152989 TGTATTTTA
1 TGTATATTA
2152998 TGATATACTAGTA
1 TG-TATA-T--TA
*
2153011 TGGATATTA
1 TGTATATTA
2153020 TGTAT
1 TGTAT
2153025 GGTATGTGTC
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.02
9 39 0.65
10 10 0.17
11 3 0.05
12 3 0.05
13 4 0.07
ACGTcount: A:0.29, C:0.01, G:0.17, T:0.52
Consensus pattern (9 bp):
TGTATATTA
Found at i:2152971 original size:14 final size:14
Alignment explanation
Indices: 2152952--2152999 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
2152942 GTGTATATTA
2152952 TGTATGTTATGTAT
1 TGTATGTTATGTAT
2152966 TGTATGATATAT-TA-
1 TGTATG-T-TATGTAT
2152980 TGTATGTTATGTAT
1 TGTATGTTATGTAT
*
2152994 TTTATG
1 TGTATG
2153000 ATATACTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 3 0.10
13 3 0.10
14 17 0.59
15 3 0.10
16 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (14 bp):
TGTATGTTATGTAT
Found at i:2152977 original size:28 final size:28
Alignment explanation
Indices: 2152945--2153012 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
2152935 TATTAGTGTG
2152945 TATATTATGTATGTTATGTATTGTATGA
1 TATATTATGTATGTTATGTATTGTATGA
*
2152973 TATATTATGTATGTTATGTATTTTATGA
1 TATATTATGTATGTTATGTATTGTATGA
*
2153001 TATACTA-GTATG
1 TATATTATGTATG
2153013 GATATTATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 5 0.13
28 33 0.87
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (28 bp):
TATATTATGTATGTTATGTATTGTATGA
Done.