Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 137 of 214
Found at i:41534017 original size:31 final size:31
Alignment explanation
Indices: 41533981--41534054 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
41533971 AAAATGATTT
*
41533981 AAATAATTTAAATA-ATTCTTAATTCTTAAAA
1 AAATAATTTAAATATATTCTTAAAT-TTAAAA
* *
41534012 AAATAATTCT-TATATATTTTTAAATTTAAAA
1 AAATAATT-TAAATATATTCTTAAATTTAAAA
41534043 AAATAA-TTAAAT
1 AAATAATTTAAAT
41534055 GTTTATTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
29 1 0.03
30 3 0.08
31 23 0.64
32 9 0.25
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (31 bp):
AAATAATTTAAATATATTCTTAAATTTAAAA
Found at i:41535131 original size:20 final size:23
Alignment explanation
Indices: 41535097--41535138 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
41535087 GATACCCCGT
41535097 ACAATTTTTTAATAATT-TTTTG
1 ACAATTTTTTAATAATTCTTTTG
41535119 ACAA-TTTTT-ATAATTCTTTT
1 ACAATTTTTTAATAATTCTTTT
41535139 TCTAATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
ACAATTTTTTAATAATTCTTTTG
Found at i:41535508 original size:25 final size:25
Alignment explanation
Indices: 41535480--41535529 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
41535470 TACAATTTTC
*
41535480 TATAAACATTTAAGATAATATTATA
1 TATAAACATTTAAAATAATATTATA
* * *
41535505 TATATATATTTAAAATTATATTATA
1 TATAAACATTTAAAATAATATTATA
41535530 AAAAAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
TATAAACATTTAAAATAATATTATA
Found at i:41537841 original size:36 final size:35
Alignment explanation
Indices: 41537788--41537856 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
41537778 TCTAGGAATT
* * *
41537788 TGTAATATAATATAAAT-ATATATATGATATATAGA
1 TGTAATATAAAAGAAATAATATATA-GAAATATAGA
41537823 TGTAATTATAAAAGAAATAATATATAGAAATATA
1 TGTAA-TATAAAAGAAATAATATATAGAAATATA
41537857 AAAGTAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 5 0.17
36 17 0.59
37 7 0.24
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (35 bp):
TGTAATATAAAAGAAATAATATATAGAAATATAGA
Found at i:41544171 original size:24 final size:25
Alignment explanation
Indices: 41544139--41544187 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
41544129 ATATCGGGTT
* *
41544139 TCTTCTCCCAGTTATACTA-TATTA
1 TCTTCTCCCAATTAAACTATTATTA
*
41544163 TCTTTTCCCAATTAAACTATTATTA
1 TCTTCTCCCAATTAAACTATTATTA
41544188 GTCTAGGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (25 bp):
TCTTCTCCCAATTAAACTATTATTA
Found at i:41545512 original size:16 final size:18
Alignment explanation
Indices: 41545476--41545515 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
41545466 GAAACATTTA
*
41545476 TTTTAATGTTTCTAGTAT
1 TTTTAATGTATCTAGTAT
41545494 TTTTAATGTAT-TA-TAT
1 TTTTAATGTATCTAGTAT
41545510 TTTTAA
1 TTTTAA
41545516 ATTTTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
18 10 0.48
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (18 bp):
TTTTAATGTATCTAGTAT
Found at i:41547868 original size:37 final size:37
Alignment explanation
Indices: 41547818--41547890 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
41547808 CTATTTTTTT
41547818 TATATAACCGTTCCATTGATCAAATCACATTAAGCCG
1 TATATAACCGTTCCATTGATCAAATCACATTAAGCCG
*
41547855 TATATAACCGTTCCATTGATCATATCACATTAAGCC
1 TATATAACCGTTCCATTGATCAAATCACATTAAGCC
41547891 ACCATATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.32
Consensus pattern (37 bp):
TATATAACCGTTCCATTGATCAAATCACATTAAGCCG
Found at i:41547923 original size:40 final size:37
Alignment explanation
Indices: 41547818--41547910 Score: 132
Period size: 37 Copynumber: 2.4 Consensus size: 37
41547808 CTATTTTTTT
*
41547818 TATATAACCGTTCCATTGATCAAATCACATTAAGCCG
1 TATATAACCGTTCCATTGATCAAATCACATTAAGCCA
*
41547855 TATATAACCGTTCCATTGATCATATCACATTAAGCCACCA
1 TATATAACCGTTCCATTGATCAAATCACATTAAG---CCA
*
41547895 TATATAACCGTACCAT
1 TATATAACCGTTCCAT
41547911 CGGTCAGATC
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
37 33 0.66
40 17 0.34
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (37 bp):
TATATAACCGTTCCATTGATCAAATCACATTAAGCCA
Found at i:41548269 original size:11 final size:11
Alignment explanation
Indices: 41548255--41548293 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
41548245 GTTTTCTCCC
41548255 TATTTTACTAT
1 TATTTTACTAT
*
41548266 TATTTCACTAT
1 TATTTTACTAT
* *
41548277 TATGTTACTAC
1 TATTTTACTAT
41548288 TATTTT
1 TATTTT
41548294 GTTGTTATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.59
Consensus pattern (11 bp):
TATTTTACTAT
Found at i:41551030 original size:13 final size:13
Alignment explanation
Indices: 41551012--41551038 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41551002 ATGGTTCATT
41551012 TCCAATTATTGAA
1 TCCAATTATTGAA
41551025 TCCAATTATTGAA
1 TCCAATTATTGAA
41551038 T
1 T
41551039 GACATTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TCCAATTATTGAA
Found at i:41555330 original size:142 final size:140
Alignment explanation
Indices: 41555088--41555375 Score: 452
Period size: 142 Copynumber: 2.0 Consensus size: 140
41555078 TTCTGCACGG
*
41555088 TTTTGTCACTTATTGGGAACTTATCTGATTAAGAGACAAGCTAAGAACTATTGAAATATTGAGCT
1 TTTTGTCACTTATTGGGAACTTATCTGATTAAGAGACAAGCTAAGAACTATTGAAATATTGAACT
* *
41555153 TAAATCAGTAGAAAGTAAGTTGAAGGGACTATTATTGGCAGGCAGAAAGCTGATAT-TAAATGTC
66 TAAATCAGTAGAAAGTAAGTTGAAGAGACTATTATTGGCAGGCAGAAAGCTGAT-TGTAAACGTC
41555217 TAGAATCTTTA
130 TAGAATCTTTA
* * *
41555228 TTTTGTCACTTTTTGGGAACTTATCTGATTAAGAGTCACATGCTAAGAACTTTTGAAATATTGAA
1 TTTTGTCACTTATTGGGAACTTATCTGATTAAGAG--ACAAGCTAAGAACTATTGAAATATTGAA
* * *
41555293 CTTAAATCTGTAGAAAGTAAGTTGAAGAGACTGTTATTGGCAGGCAGAAAGGTGATTGTAAACGT
64 CTTAAATCAGTAGAAAGTAAGTTGAAGAGACTATTATTGGCAGGCAGAAAGCTGATTGTAAACGT
*
41555358 TTAGAATCTTTA
129 CTAGAATCTTTA
41555370 TTTTGT
1 TTTTGT
41555376 TTACTTCTTC
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
140 34 0.25
141 1 0.01
142 100 0.74
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (140 bp):
TTTTGTCACTTATTGGGAACTTATCTGATTAAGAGACAAGCTAAGAACTATTGAAATATTGAACT
TAAATCAGTAGAAAGTAAGTTGAAGAGACTATTATTGGCAGGCAGAAAGCTGATTGTAAACGTCT
AGAATCTTTA
Found at i:41566769 original size:26 final size:26
Alignment explanation
Indices: 41566607--41566778 Score: 76
Period size: 24 Copynumber: 6.9 Consensus size: 26
41566597 CGGTCTTTCT
* *
41566607 AAGAGCCATA-ATCAGGAAGCTCATA
1 AAGAGCCATATATCGGGAAGCTCACA
* * * * *
41566632 CA-AGCCA-ATAACGGGTAGCT-TCG
1 AAGAGCCATATATCGGGAAGCTCACA
* * *
41566655 AAGAGCCAT-TAACGGGAAGCT-TCG
1 AAGAGCCATATATCGGGAAGCTCACA
** * *
41566679 AATTGCCATATATCAGGAAGTTCA-A
1 AAGAGCCATATATCGGGAAGCTCACA
** *
41566704 GCGAGCC--ATATCGGGAAGCTCATGA
1 AAGAGCCATATATCGGGAAGCTCA-CA
*
41566729 AAGAGCC-TTTAATCGGGAAGCTCACA
1 AAGAGCCATAT-ATCGGGAAGCTCACA
* *
41566755 AAGAGCCATATATCGAGATGCTCA
1 AAGAGCCATATATCGGGAAGCTCA
41566779 TAAGAGCTGC
Statistics
Matches: 108, Mismatches: 29, Indels: 19
0.69 0.19 0.12
Matches are distributed among these distances:
23 15 0.14
24 39 0.36
25 19 0.18
26 20 0.19
27 15 0.14
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
AAGAGCCATATATCGGGAAGCTCACA
Found at i:41571873 original size:26 final size:26
Alignment explanation
Indices: 41571837--41571886 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
41571827 GTGCATTGGA
41571837 AAATAATGAAAATACAAAAGAAAAGT
1 AAATAATGAAAATACAAAAGAAAAGT
41571863 AAATAATGAAAATACAAAAGAAAA
1 AAATAATGAAAATACAAAAGAAAA
41571887 AAAGCTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.72, C:0.04, G:0.10, T:0.14
Consensus pattern (26 bp):
AAATAATGAAAATACAAAAGAAAAGT
Found at i:41574430 original size:38 final size:39
Alignment explanation
Indices: 41574318--41574436 Score: 116
Period size: 38 Copynumber: 3.1 Consensus size: 39
41574308 AGATTTTACA
* * **
41574318 TATTATAACAAGATCTAGCATTTGTTGCAGATTCTTAGGT
1 TATT-TAACGAGATCTAGCACTTGTTGCAGATTCTCGGGT
* ** *
41574358 TATTTAATGAGATCTAG-ACTTGTTGTTGGTTCTCGGGT
1 TATTTAACGAGATCTAGCACTTGTTGCAGATTCTCGGGT
* * *
41574396 TATTTAACGTGATCTAGCA-TCGTTGCAGATTCTCGGAT
1 TATTTAACGAGATCTAGCACTTGTTGCAGATTCTCGGGT
41574434 TAT
1 TAT
41574437 ATGTAACATA
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
38 47 0.75
39 12 0.19
40 4 0.06
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.41
Consensus pattern (39 bp):
TATTTAACGAGATCTAGCACTTGTTGCAGATTCTCGGGT
Found at i:41575624 original size:21 final size:21
Alignment explanation
Indices: 41575595--41575636 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41575585 TAAGGTAGTA
41575595 TTAAAGTTTCGGTAGAAAATT
1 TTAAAGTTTCGGTAGAAAATT
* * *
41575616 TTAACGTTTTGGTAGTAAATT
1 TTAAAGTTTCGGTAGAAAATT
41575637 AAGTAAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (21 bp):
TTAAAGTTTCGGTAGAAAATT
Found at i:41576426 original size:26 final size:26
Alignment explanation
Indices: 41576380--41576445 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
41576370 GCAGCTGTTA
* *
41576380 TGAGCATCCCATTATATGGCTCTTCG
1 TGAGCTTCCCATTATAAGGCTCTTCG
*
41576406 TGAGCTTCCCGATTA-AAGGCTCTTTG
1 TGAGCTTCCC-ATTATAAGGCTCTTCG
*
41576432 TGAGCTTCTCATTA
1 TGAGCTTCCCATTA
41576446 GTGATCGCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.11
26 27 0.77
27 4 0.11
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
TGAGCTTCCCATTATAAGGCTCTTCG
Found at i:41584679 original size:46 final size:44
Alignment explanation
Indices: 41584661--41585155 Score: 420
Period size: 46 Copynumber: 11.3 Consensus size: 44
41584651 TGACAAGTGG
* * *
41584661 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAG-TT-GGCTACACTTATCTGATCAAGAGAC
*
41584707 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAG-TT-GGCTACACTTATCTGATCAAGAGAC
*
41584753 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAG-TT-GGCTACACTTATCTGATCAAGAGAC
*
41584805 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAG--TTGGCTACACTTATCTGATCAAGAGAC
*
41584851 AAAGTG---A-T-A-AG-TGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGTTGGCTACACTTATCTGATCAAGAGAC
*
41584888 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAG-TT-GGCTACACTTATCTGATCAAGAGAC
*
41584934 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAG-TT-GGCTACACTTATCTGATCAAGAGAC
*
41584986 AAAGTGATAAGTGATAGTTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAG--TTGGCTACACTTATCTGATCAAGAGAC
*
41585032 AAAGTG---A-T-A-AG-TGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGTTGGCTACACTTATCTGATCAAGAGAC
*
41585069 AAAGTG---A-T-A-AG-TGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGTTGGCTACACTTATCTGATCAAGAGAC
*
41585106 AAAGTGAT-A--G---G-TGGCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGTTGGCTACACTTATCTGATCAAGAGAC
*
41585142 -AAGTGATAATTGAT
1 AAAGTGATAAGTGAT
41585156 CATACGTAAG
Statistics
Matches: 398, Mismatches: 20, Indels: 68
0.82 0.04 0.14
Matches are distributed among these distances:
35 7 0.02
36 5 0.01
37 117 0.29
38 1 0.00
39 1 0.00
40 5 0.01
41 3 0.01
42 3 0.01
43 4 0.01
45 1 0.00
46 159 0.40
47 4 0.01
52 88 0.22
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGTTGGCTACACTTATCTGATCAAGAGAC
Found at i:41584715 original size:98 final size:98
Alignment explanation
Indices: 41584595--41585044 Score: 560
Period size: 98 Copynumber: 4.7 Consensus size: 98
41584585 TTTGAGTACT
*
41584595 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
41584660 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
**
41584693 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
41584758 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
41584791 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-----
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
41584851 -AAAGTGATAAGTG---GCTAC-ACT-TATCTGA
66 AAAAGTGATAAGTGATAGCTTCGGCTATA-CTTA
* * **
41584879 TCAAGAAACAAAGTG----A-T---AAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
1 TC-TG-ATC-AAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
41584936 GTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
63 GTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
41584972 TCTGATCAAGAGACAAAGTGATAAGTGATAGTTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
41585037 GATAAGTG
65 GAAAAGTG
41585045 GCTACACTTA
Statistics
Matches: 299, Mismatches: 29, Indels: 47
0.80 0.08 0.13
Matches are distributed among these distances:
83 35 0.12
86 1 0.00
87 3 0.01
88 7 0.02
89 18 0.06
90 6 0.02
91 6 0.02
92 18 0.06
93 7 0.02
94 3 0.01
95 1 0.00
98 183 0.61
99 11 0.04
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:41584871 original size:37 final size:37
Alignment explanation
Indices: 41584827--41584900 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
41584817 GATAGCTTTA
*
41584827 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41584864 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41584901 ATAGCTTCGG
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:0.16, G:0.20, T:0.24
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:41584901 original size:181 final size:181
Alignment explanation
Indices: 41584682--41585081 Score: 764
Period size: 181 Copynumber: 2.2 Consensus size: 181
41584672 TAATAGCTTC
* **
41584682 GGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
41584747 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
66 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
41584812 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
131 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
41584863 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
41584928 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
66 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
*
41584993 TAAGTGATAGTTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
131 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
41585044 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41585082 GCTACACTTA
Statistics
Matches: 215, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
181 215 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (181 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:41585048 original size:135 final size:132
Alignment explanation
Indices: 41584595--41585136 Score: 418
Period size: 135 Copynumber: 4.1 Consensus size: 132
41584585 TTTGAGTACT
** * **
41584595 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAAACAAAGTG--AAGTGATAGC-TCGGCTACACTTATCTGATCAAGTGACAAGTG
* * * * *
41584660 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
63 AAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTG---A-T-A-AG-
41584725 TTCGGCTACACTTA
121 -T-GGCTACACTTA
* * *
41584739 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAA--GA-AA---CAAAGTG--AAGTGATAGC-TCGGCTACACTTATCTGATCAAGTGA
*
41584804 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
57 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
41584863 GGCTACACTTA
122 GGCTACACTTA
41584874 TCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAAACAAAGTG--AAGTGATAGC-TCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
41584939 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGT
63 AAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAA--G-T-G-
41585004 TTTAGCTACACTTA
123 ----GCTACACTTA
* *
41585018 TCTGATCAAGAGACAAAGTG-A-T-A-AG-T-GGCTACACTTATCTGATCAA--GA-AA---CAA
1 TCTGATCAAGAAACAAAGTGAAGTGATAGCTCGGCTACACTTATCTGATCAAGTGACAAGTGAAA
* *
41585071 AGTGATAA--G-T-G-----GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACT
66 AGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACACT
41585127 TA
131 TA
41585129 TCTGATCA
1 TCTGATCA
41585137 GGGACAAGTG
Statistics
Matches: 353, Mismatches: 24, Indels: 75
0.78 0.05 0.17
Matches are distributed among these distances:
111 18 0.05
116 1 0.00
117 1 0.00
118 1 0.00
120 31 0.09
125 1 0.00
126 1 0.00
127 1 0.00
129 54 0.15
132 4 0.01
133 4 0.01
135 93 0.26
136 2 0.01
137 1 0.00
138 5 0.01
139 3 0.01
140 2 0.01
141 2 0.01
144 85 0.24
146 1 0.00
147 1 0.00
150 41 0.12
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (132 bp):
TCTGATCAAGAAACAAAGTGAAGTGATAGCTCGGCTACACTTATCTGATCAAGTGACAAGTGAAA
AGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACACT
TA
Found at i:41585052 original size:37 final size:37
Alignment explanation
Indices: 41585008--41585136 Score: 240
Period size: 37 Copynumber: 3.5 Consensus size: 37
41584998 GATAGTTTTA
*
41585008 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41585045 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
41585082 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41585119 GCTACACTTATCTGATCA
1 GCTACACTTATCTGATCA
41585137 GGGACAAGTG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:41593828 original size:41 final size:41
Alignment explanation
Indices: 41593773--41593904 Score: 210
Period size: 41 Copynumber: 3.2 Consensus size: 41
41593763 CAAACTTTAT
** ***
41593773 GTCTAGCAAACTTGATGCCGGTGAAACATTTCAAACTATAA
1 GTCTAGCAGGCTTGATGCCGGTGAAACATTTTGGACTATAA
*
41593814 GTCCAGCAGGCTTGATGCCGGTGAAACATTTTGGACTATAA
1 GTCTAGCAGGCTTGATGCCGGTGAAACATTTTGGACTATAA
41593855 GTCTAGCAGGCTTGATGCCGGTGAAACATTTTGGACTATAA
1 GTCTAGCAGGCTTGATGCCGGTGAAACATTTTGGACTATAA
41593896 GTCTAGCAG
1 GTCTAGCAG
41593905 CCTAAAAGCC
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (41 bp):
GTCTAGCAGGCTTGATGCCGGTGAAACATTTTGGACTATAA
Found at i:41594377 original size:9 final size:10
Alignment explanation
Indices: 41594349--41594380 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
41594339 GTACTCATTG
41594349 ATATGAATTC
1 ATATGAATTC
41594359 -TATGAATTC
1 ATATGAATTC
41594368 ATA-GAATTC
1 ATATGAATTC
41594377 ATAT
1 ATAT
41594381 ATTTAGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 18 0.90
10 2 0.10
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (10 bp):
ATATGAATTC
Found at i:41599473 original size:4 final size:4
Alignment explanation
Indices: 41599464--41599503 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
41599454 TTATGTTGGT
41599464 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
41599504 GCCAATTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:41606629 original size:90 final size:90
Alignment explanation
Indices: 41606519--41606706 Score: 268
Period size: 90 Copynumber: 2.1 Consensus size: 90
41606509 CTTTGATCTG
* * * * * *
41606519 CTCCACTACTGCTTAAGGAGACAGGATCTGCAATCTTTAACTTACTCCACTGCTGCTTAGGGAGA
1 CTCCACTACTACTTAAGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTCAGGGAGA
*
41606584 TAGGACTAATGGCTTAAATTTGCTT
66 TAGGACTAATGGCTTAAATCTGCTT
* * * * *
41606609 CTCTACTACTACTTAGGGAGATAGAATTTGCAATCTTCATCCTACTCCACTACTGCTCAGGGAGA
1 CTCCACTACTACTTAAGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTCAGGGAGA
41606674 TAGGACTAATGGCTTAAATCTGCTT
66 TAGGACTAATGGCTTAAATCTGCTT
41606699 CTCCACTA
1 CTCCACTA
41606707 TCTTGGGAAG
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (90 bp):
CTCCACTACTACTTAAGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTCAGGGAGA
TAGGACTAATGGCTTAAATCTGCTT
Found at i:41606673 original size:44 final size:44
Alignment explanation
Indices: 41606613--41607336 Score: 225
Period size: 44 Copynumber: 16.5 Consensus size: 44
41606603 TTGCTTCTCT
*
41606613 ACTACTACTTAGGGAGATAGAATTTGCAATCTTCATCCTACTCC
1 ACTACTACTTAGGGAGATAGAATCTGCAATCTTCATCCTACTCC
* * * * *
41606657 ACTACTGCTCAGGGAGATAGGA-CT--AATGGCTTAAATCTGCTTCTCC
1 ACTACTACTTAGGGAGATAGAATCTGCAAT--CTT-CATC--CTACTCC
* * *
41606703 ACTA-T-CTT-GGGAAGATAAGATTC-ACCATCTTCGATCC-ACTCC
1 ACTACTACTTAGGG-AGAT-AGAATCTGCAATCTTC-ATCCTACTCC
* * *
41606745 ACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCC
1 ACTACTACTTAGGGAGATAGAATCTGCAATCTTCATCCTACTCC
* * *
41606789 ACTACTACTTAGGGAGATAGAA-CT--AATGACTTAAGTCTGGTTCTCC
1 ACTACTACTTAGGGAGATAGAATCTGCAAT--CTTCA-TC--CTACTCC
* * * *
41606835 ACTA-T-CTT-GGGAAGATAAGATTC-ACCATCTTCGAT-CTGCTCC
1 ACTACTACTTAGGG-AGAT-AGAATCTGCAATCTTC-ATCCTACTCC
* * * * *
41606877 ACTACTACTTAGGGAGACAAAATCTGTAATTTTCAACCTACTCC
1 ACTACTACTTAGGGAGATAGAATCTGCAATCTTCATCCTACTCC
* * * * *
41606921 ACTACTGCTTAGAGAGATAGGA-CT--AATGGCTTAAATCTACTTCTCC
1 ACTACTACTTAGGGAGATAGAATCTGCAAT--CTT-CATC--CTACTCC
* * * * *
41606967 ACTA-T-CTT-GGGAATATAAGATTC-ACCATCTTCGAT-CTGCTCC
1 ACTACTACTTAGGG-AGAT-AGAATCTGCAATCTTC-ATCCTACTCC
* *
41607009 ACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCC
1 ACTACTACTTAGGGAGATAGAATCTGCAATCTTCATCCTACTCC
* * * *
41607053 ACTACTGCTTAGGGAAATA-AGA-CT--AATGGCTTAAATCTGCTTCTCC
1 ACTACTACTTAGGGAGATAGA-ATCTGCAAT--CTT-CATC--CTACTCC
* * * * *
41607099 ACTA-T-CTT-GTGAAGATAAGATTC-ACCATCTTCGAT-CTGCTCC
1 ACTACTACTTAG-GGAGAT-AGAATCTGCAATCTTC-ATCCTACTCC
* * * *
41607141 ACTACTGCTTAGGGAGACAGAATTTGCAATCTTCAACCTACTCC
1 ACTACTACTTAGGGAGATAGAATCTGCAATCTTCATCCTACTCC
* * * *
41607185 ACTACTGCTTAGGGAGATAGGA-CT--AATGACTTAAATCTGCTTCTCC
1 ACTACTACTTAGGGAGATAGAATCTGCAAT--CTT-CATC--CTACTCC
* * * *
41607231 ACTA-T-CTT-GGGAAGATAAGATTC-ACCATCTTCGAT-CTGCTCC
1 ACTACTACTTAGGG-AGAT-AGAATCTGCAATCTTC-ATCCTACTCC
* * * * *
41607273 ACTACTGCTTAGGGAGACAGGATCTGCAATCTTTAACCTACTCC
1 ACTACTACTTAGGGAGATAGAATCTGCAATCTTCATCCTACTCC
*
41607317 ACTACTGCTTAGGGAGATAG
1 ACTACTACTTAGGGAGATAG
41607337 GACTTGTATC
Statistics
Matches: 498, Mismatches: 100, Indels: 164
0.65 0.13 0.22
Matches are distributed among these distances:
41 15 0.03
42 47 0.09
43 71 0.14
44 246 0.49
45 53 0.11
46 56 0.11
47 10 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
ACTACTACTTAGGGAGATAGAATCTGCAATCTTCATCCTACTCC
Found at i:41606775 original size:132 final size:132
Alignment explanation
Indices: 41606613--41607340 Score: 1213
Period size: 132 Copynumber: 5.5 Consensus size: 132
41606603 TTGCTTCTCT
* * * *
41606613 ACTACTACTTAGGGAGATAGAATTTGCAATCTTCATCCTACTCCACTACTGCTCAGGGAGATAGG
1 ACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGG
**
41606678 ACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCCACT
66 ACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCT
41606743 CC
131 CC
* * *
41606745 ACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTACTTAGGGAGATAGA
1 ACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGG
* * *
41606810 ACTAATGACTTAAGTCTGGTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCT
66 ACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCT
41606875 CC
131 CC
* * * *
41606877 ACTACTACTTAGGGAGACAAAATCTGTAATTTTCAACCTACTCCACTACTGCTTAGAGAGATAGG
1 ACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGG
* *
41606942 ACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAATATAAGATTCACCATCTTCGATCTGCT
66 ACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCT
41607007 CC
131 CC
* *
41607009 ACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAAATAAG
1 ACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGG
*
41607074 ACTAATGGCTTAAATCTGCTTCTCCACTATCTTGTGAAGATAAGATTCACCATCTTCGATCTGCT
66 ACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCT
41607139 CC
131 CC
* *
41607141 ACTACTGCTTAGGGAGACAGAATTTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGG
1 ACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGG
*
41607206 ACTAATGACTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCT
66 ACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCT
41607271 CC
131 CC
* * *
41607273 ACTACTGCTTAGGGAGACAGGATCTGCAATCTTTAACCTACTCCACTACTGCTTAGGGAGATAGG
1 ACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGG
41607338 ACT
66 ACT
41607341 TGTATCTTCA
Statistics
Matches: 554, Mismatches: 42, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 554 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (132 bp):
ACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGG
ACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCT
CC
Found at i:41607498 original size:89 final size:89
Alignment explanation
Indices: 41607343--41608060 Score: 1015
Period size: 89 Copynumber: 8.1 Consensus size: 89
41607333 ATAGGACTTG
* **
41607343 TATCTTCAGTCTGTTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTAATCTGCTTCGCTG
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
*
41607408 TCAGTACAGGAAGGCAATATCTGC
66 TCAGTACAGGAAGGCAAGATCTGC
* * *
41607432 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGTAGGCAAGGCTGGTGTTTTCGATCTGCTTCACTG
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
* *
41607497 TCAGTACAGGAAGGAAAGATCTGT
66 TCAGTACAGGAAGGCAAGATCTGC
* * *
41607521 TATCTTCAGTCTGCTCCGCTATCAGTATAGGAAGGCAAGGCTGATGTCTTCGATCTGCTTCGCTG
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
* *
41607586 TCAGTACAGGAAGGCAAGACCTGT
66 TCAGTACAGGAAGGCAAGATCTGC
* * * *
41607610 TATCTTCAGTCTGCTCCACTGTCTGTACAGGAAGGCACGGATGGTGTCTTCGATCTGCTTCGCTG
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
*
41607675 TCAGTATAGGAAGGCAAGATCTGC
66 TCAGTACAGGAAGGCAAGATCTGC
* * * * *
41607699 TATCTTCAGTCTGCTCCGCTGTTAGCACAGGAAGGCAAGGCTAGTGTCTTCGATCTACTTCGCTA
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
*
41607764 TCAGTACAAGAAGGCAAGATCTGC
66 TCAGTACAGGAAGGCAAGATCTGC
**
41607788 TATCTTCAGTCTGCTCCAATGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
* * **
41607853 TCAGTACAAGAAGGAAAGATCCAC
66 TCAGTACAGGAAGGCAAGATCTGC
* * * * *
41607877 TATCTTCAGTCTGTTCTGCTATCAGTACAGGAAGGCAAGGCTGATGTCTTTGATCTGCTTCGCTG
1 TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
* *
41607942 TCAGTATAGGAAGGCAATATCTGC
66 TCAGTACAGGAAGGCAAGATCTGC
* * **
41607966 TATC-TCTAGTCTGCCCCGTTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTTACT
1 TATCTTC-AGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCT
* * *
41608030 ATCAGTATAGGAAGGCAAGATCTAC
65 GTCAGTACAGGAAGGCAAGATCTGC
41608055 TATCTT
1 TATCTT
41608061 TACTGATCTG
Statistics
Matches: 554, Mismatches: 73, Indels: 3
0.88 0.12 0.00
Matches are distributed among these distances:
88 2 0.00
89 551 0.99
90 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (89 bp):
TATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
TCAGTACAGGAAGGCAAGATCTGC
Found at i:41619286 original size:13 final size:14
Alignment explanation
Indices: 41619267--41619304 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
41619257 CAATGACATA
41619267 GAAATAATATAAAC
1 GAAATAATATAAAC
41619281 -AAATAA-ATAAAC
1 GAAATAATATAAAC
41619293 GAAATGAATATA
1 GAAAT-AATATA
41619305 TATAAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:41619419 original size:15 final size:14
Alignment explanation
Indices: 41619392--41619418 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41619382 AATTAAGGAA
41619392 ATAAAGAAAAAAAT
1 ATAAAGAAAAAAAT
41619406 ATAAAGAAAAAAA
1 ATAAAGAAAAAAA
41619419 AAGTACAAAA
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:0.81, C:0.00, G:0.07, T:0.11
Consensus pattern (14 bp):
ATAAAGAAAAAAAT
Found at i:41620616 original size:38 final size:38
Alignment explanation
Indices: 41620569--41620647 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
41620559 TTGAACTGTC
41620569 TTTTTGCTGTGAAAATAATTATGTTTCTTATTGATTTT
1 TTTTTGCTGTGAAAATAATTATGTTTCTTATTGATTTT
*
41620607 TTTTTGCTGTGAAAATAATTATTTTTCTTATTGATTTT
1 TTTTTGCTGTGAAAATAATTATGTTTCTTATTGATTTT
41620645 TTT
1 TTT
41620648 GGATCCTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (38 bp):
TTTTTGCTGTGAAAATAATTATGTTTCTTATTGATTTT
Found at i:41621568 original size:44 final size:44
Alignment explanation
Indices: 41621516--41621627 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 44
41621506 GATCTGCTCT
*
41621516 CTGTAACTTCAGAGAGATAAGATCT-GTGATTTTAATCCGTTCCA
1 CTGTAACTTCAGAGAGATAAGAT-TAGTGATTTTAATCCGCTCCA
* * * *
41621560 CTGTAACTTCA-AGAAGATAGGATTATTGGTTTTAATCTGCTCCA
1 CTGTAACTTCAGAG-AGATAAGATTAGTGATTTTAATCCGCTCCA
* *
41621604 CTGCAACTTCAGGGAGATAAGATT
1 CTGTAACTTCAGAGAGATAAGATT
41621628 CGCCATCTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
43 3 0.05
44 53 0.93
45 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (44 bp):
CTGTAACTTCAGAGAGATAAGATTAGTGATTTTAATCCGCTCCA
Found at i:41621997 original size:100 final size:100
Alignment explanation
Indices: 41621826--41622009 Score: 253
Period size: 100 Copynumber: 1.8 Consensus size: 100
41621816 CCTTAATGCC
* * *
41621826 AGGGAGATAAGATTCACCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAAATTC
1 AGGGAGATAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTACAACGCCAGAGAAATAAAATTC
*
41621891 ATCGTTGCGGCTTCAATCTTTTAAATTGTAATGTT
66 ACCGTTGCGGCTTCAATCTTTTAAATTGTAATGTT
* * * * *
41621926 AGGGA-ATCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGAGAAGTAAGATT
1 AGGGAGAT-AAGATTCACCGTCGTAGCTTCAATCTGCTCCACTACAACGCCAGAGAAATAAAATT
* *
41621990 CGCCGTTGCGGCTTTAATCT
65 CACCGTTGCGGCTTCAATCT
41622010 GCTCCACTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 2 0.03
100 70 0.97
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (100 bp):
AGGGAGATAAGATTCACCGTCGTAGCTTCAATCTGCTCCACTACAACGCCAGAGAAATAAAATTC
ACCGTTGCGGCTTCAATCTTTTAAATTGTAATGTT
Found at i:41622040 original size:100 final size:100
Alignment explanation
Indices: 41621819--41622042 Score: 243
Period size: 100 Copynumber: 2.2 Consensus size: 100
41621809 ATCCAGGCCT
* * * *
41621819 TAATGCCAGGGAGATAAGATTCACCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAAT
1 TAATGCCAGGGAGATAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTACAACGCCAGAGAAAT
* ** *
41621884 AAAATTCATCGTTGCGGCTTCAATCTTTTAAATTG
66 AAAATTCACCGTTGCGGCTTCAATCTGCTAAACTG
** * * *
41621919 TAATGTTAGGGA-ATCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGAGAAG
1 TAATGCCAGGGAGAT-AAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTACAACGCCAGAGAAA
* * * **
41621983 TAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTG
65 TAAAATTCACCGTTGCGGCTTCAATCTGCTAAACTG
** *
41622019 TAATGCCAAAGAGATAGGATTCGC
1 TAATGCCAGGGAGATAAGATTCGC
41622043 TGCCCATAAC
Statistics
Matches: 99, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
99 2 0.02
100 95 0.96
101 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (100 bp):
TAATGCCAGGGAGATAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTACAACGCCAGAGAAAT
AAAATTCACCGTTGCGGCTTCAATCTGCTAAACTG
Found at i:41622117 original size:267 final size:265
Alignment explanation
Indices: 41621642--41622446 Score: 1200
Period size: 267 Copynumber: 3.0 Consensus size: 265
41621632 ATCTTCAGTA
* *
41621642 TTTTAAATTACAATGTTGGGGAAACAAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTATACCG
1 TTTTAAATTACAATGTT-GGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* * *
41621707 CCA-AGGAAGTAAGATTCGCCGTTGCGACTTTAATCTGTTCCACTGTAATGCCAATGAGATAGGA
65 CCAGA-GAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGAGATAGGA
* * *
41621771 TTCGCTGCCCACAGCTTCAATCTGCTCCACTTCAGTTAATCCAGGCCTTAATGCCAGGGAGATAA
129 TTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAGGCCTTAACGCC-GGGAGATAA
* **
41621836 GATTCACCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAAATTCATCGTTGCGG
193 GATTCACCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTGCGG
41621901 CTTCAATC
258 CTTCAATC
** *
41621909 TTTTAAATTGTAATGTTAGGGAATCAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTAAATTACAATGTT-GGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
41621974 CCAGAGAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGAGATAGGAT
65 CCAGAGAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGAGATAGGAT
* * *
41622039 TCGCTGCCCATAACTTCAATCCGCTCCACTTCAGCTAATCTAGGCCTTAACGCCGGGCAGATAAG
130 TCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAGGCCTTAACGCCGGG-AGATAAG
* * * *
41622104 ATTCGCCGTCGTGGCTTCAATCTACTCCGCTACAACTCCAGGGAAATAAGATTCGCCATTGCGGC
194 ATTCACCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTGCGGC
41622169 TTCAATC
259 TTCAATC
* * *
41622176 TTTTAAATTACAATGTTGGGTAAACAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTACACCA
1 TTTTAAATTACAATGTTGGG-AAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* * *
41622241 CCATG-GGAGTAAGATTCGCCGTTGCGGCTTCAATCTGCTCCACTATAATGCCAAAGAGATAGGA
65 CCA-GAGAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGAGATAGGA
* * *
41622305 TTCGCTGCCCACAGTTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCTAGGGAGATAA
129 TTCGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAGGCCTTAACGC-CGGGAGATAA
* * * * * *
41622370 GATTCACCGTTGTGACTTCAATCTGCTCTGCTAAAACGCCAGGGAAATAAGATTTGCCGTTGTGG
193 GATTCACCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTGCGG
41622435 CTTCAATC
258 CTTCAATC
41622443 TTTT
1 TTTT
41622447 CCATTGTAAC
Statistics
Matches: 486, Mismatches: 47, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
266 6 0.01
267 475 0.98
268 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (265 bp):
TTTTAAATTACAATGTTGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGC
CAGAGAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGAGATAGGATT
CGCTGCCCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAGGCCTTAACGCCGGGAGATAAGAT
TCACCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTGCGGCTT
CAATC
Found at i:41622188 original size:50 final size:50
Alignment explanation
Indices: 41622099--41622277 Score: 128
Period size: 50 Copynumber: 3.6 Consensus size: 50
41622089 CGCCGGGCAG
* * ** ***
41622099 ATAAGATTCGCCGTCGTGGCTTCAATCTACTCCGCTACAACTCCAGGGAA
1 ATAAGATTCGCCGTTGCGGCTTCAATCTGTTAAACTACAACTCCAGGGAA
* * * ***
41622149 ATAAGATTCGCCATTGCGGCTTCAATCTTTTAAATTACAA-TGTTGGGTAA
1 ATAAGATTCGCCGTTGCGGCTTCAATCTGTTAAACTACAACTCCAGGG-AA
* * ** ** * *
41622199 ACAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTACACCACCATGGG-A
1 ATAAGATTCGCCGTTGCGGCTTCAATCTGTTAAACTACAACTCCA-GGGAA
*
41622249 GTAAGATTCGCCGTTGCGGCTTCAATCTG
1 ATAAGATTCGCCGTTGCGGCTTCAATCTG
41622278 CTCCACTATA
Statistics
Matches: 95, Mismatches: 31, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
49 4 0.04
50 88 0.93
52 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (50 bp):
ATAAGATTCGCCGTTGCGGCTTCAATCTGTTAAACTACAACTCCAGGGAA
Found at i:41623837 original size:13 final size:13
Alignment explanation
Indices: 41623789--41623829 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
41623779 TGGCCTCTCC
* *
41623789 TTTTCCTTTTCTT
1 TTTTCTTTTTATT
*
41623802 CTTTCTTTTTATT
1 TTTTCTTTTTATT
41623815 TTTTCTTTTTATT
1 TTTTCTTTTTATT
41623828 TT
1 TT
41623830 ATTTTTTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTTATT
Found at i:41623839 original size:20 final size:20
Alignment explanation
Indices: 41623795--41623836 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
41623785 CTCCTTTTCC
*
41623795 TTTTCTTCTTTCTTTTTATT
1 TTTTCTTCTTTATTTTTATT
41623815 TTTTCTT-TTTA-TTTTATT
1 TTTTCTTCTTTATTTTTATT
41623833 TTTT
1 TTTT
41623837 TTCATCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 3 0.14
20 7 0.33
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTCTTCTTTATTTTTATT
Found at i:41624667 original size:25 final size:25
Alignment explanation
Indices: 41624639--41624704 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
41624629 AAGAAGATCC
*
41624639 AAAAGAATGAAAGAATAATT-ATTCA
1 AAAAGAATGAAAGAAT-ATTGACTCA
41624664 AAAAGAATGAAAGAATATTGACTCA
1 AAAAGAATGAAAGAATATTGACTCA
41624689 AAAATGAATGTAAAGA
1 AAAA-GAATG-AAAGA
41624705 TTTATTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 3 0.08
25 24 0.65
26 5 0.14
27 5 0.14
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.21
Consensus pattern (25 bp):
AAAAGAATGAAAGAATATTGACTCA
Found at i:41630195 original size:13 final size:14
Alignment explanation
Indices: 41630176--41630213 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
41630166 CAATGACATA
41630176 GAAATAATATAAAC
1 GAAATAATATAAAC
41630190 -AAATAA-ATAAAC
1 GAAATAATATAAAC
41630202 GAAATGAATATA
1 GAAAT-AATATA
41630214 TATAAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:41632247 original size:4 final size:4
Alignment explanation
Indices: 41632238--41632271 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
41632228 AAGTTTTATT
41632238 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
41632272 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:41632279 original size:22 final size:22
Alignment explanation
Indices: 41632221--41632280 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
41632211 AAGTGGCCCA
*
41632221 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
41632245 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
41632266 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
41632281 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:41634626 original size:18 final size:18
Alignment explanation
Indices: 41634605--41634643 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
41634595 GATTGAGAGT
* *
41634605 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
41634623 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
41634641 GAA
1 GAA
41634644 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:41636050 original size:4 final size:4
Alignment explanation
Indices: 41636041--41636074 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
41636031 AAGTTTTATT
41636041 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
41636075 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:41636082 original size:22 final size:22
Alignment explanation
Indices: 41636024--41636083 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
41636014 AAGTGGCCCA
*
41636024 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
41636048 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
41636069 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
41636084 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:41637241 original size:23 final size:23
Alignment explanation
Indices: 41637197--41637247 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
41637187 GTTGCCTATA
* * * * *
41637197 TATAAATTTTTAATAAATAAAAT
1 TATAAATATTAAAAAAACAAAAC
41637220 TATAAATATTAAAAAAACAAAAC
1 TATAAATATTAAAAAAACAAAAC
41637243 TATAA
1 TATAA
41637248 TATGGACAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAAATATTAAAAAAACAAAAC
Found at i:41639050 original size:25 final size:24
Alignment explanation
Indices: 41639015--41639066 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
41639005 AAAGAAATAG
41639015 AAAAATAACCGAAAAATAGAGCTGA
1 AAAAATAACCGAAAAATAGA-CTGA
* *
41639040 AAAAATGACCGAAAAATATACTGA
1 AAAAATAACCGAAAAATAGACTGA
41639064 AAA
1 AAA
41639067 GAAACAAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.62, C:0.12, G:0.13, T:0.13
Consensus pattern (24 bp):
AAAAATAACCGAAAAATAGACTGA
Found at i:41642949 original size:14 final size:14
Alignment explanation
Indices: 41642930--41642958 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
41642920 GTAGTGTTTG
41642930 AGAATTTGGAATTT
1 AGAATTTGGAATTT
41642944 AGAATTTGGAATTT
1 AGAATTTGGAATTT
41642958 A
1 A
41642959 TAAGTAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (14 bp):
AGAATTTGGAATTT
Found at i:41648744 original size:16 final size:15
Alignment explanation
Indices: 41648723--41648760 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
41648713 AATTAAATTA
41648723 TAATTTATATTATTTT
1 TAATTTATA-TATTTT
*
41648739 TAATTTTTATATTTT
1 TAATTTATATATTTT
41648754 T-ATTTAT
1 TAATTTAT
41648761 TAAAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 5 0.25
15 7 0.35
16 8 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TAATTTATATATTTT
Found at i:41655234 original size:20 final size:20
Alignment explanation
Indices: 41655205--41655243 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
41655195 ATATTTTCTG
*
41655205 GTAAATCATTTTACAGAAAA
1 GTAAAACATTTTACAGAAAA
*
41655225 GTAAAACATTTTCCAGAAA
1 GTAAAACATTTTACAGAAA
41655244 TCATTTTACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (20 bp):
GTAAAACATTTTACAGAAAA
Found at i:41655250 original size:14 final size:14
Alignment explanation
Indices: 41655227--41655266 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
41655217 ACAGAAAAGT
*
41655227 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
41655241 AAATCATTTTACGG
1 AAAACATTTTACAG
41655255 AAAACATTTTAC
1 AAAACATTTTAC
41655267 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:41656797 original size:57 final size:59
Alignment explanation
Indices: 41656685--41656833 Score: 189
Period size: 57 Copynumber: 2.5 Consensus size: 59
41656675 AATTGACGGT
* *
41656685 AAAAAGGATCTAGCCCGGATGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAAGGATCTAGCCCGGACGGGTGATCC-AT-CTGATATAACCCTCCCGAAGAATA--TGTG
41656748 AAAAA-GATCTAGCCCGGACGGGTGAT-C-T-TGATATAACCCTCCCGAAGAATATGTG
1 AAAAAGGATCTAGCCCGGACGGGTGATCCATCTGATATAACCCTCCCGAAGAATATGTG
* *
41656803 AAAAATGGATTTAGCCCGGACGGGTAATCCA
1 AAAAA-GGATCTAGCCCGGACGGGTGATCCA
41656834 AATTAGGGTC
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
55 9 0.12
57 41 0.53
58 1 0.01
59 1 0.01
61 1 0.01
62 20 0.26
63 5 0.06
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (59 bp):
AAAAAGGATCTAGCCCGGACGGGTGATCCATCTGATATAACCCTCCCGAAGAATATGTG
Found at i:41658441 original size:19 final size:19
Alignment explanation
Indices: 41658391--41658445 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
41658381 TTTTCATTAA
41658391 TTTATTGATTAATTGACTATT
1 TTTATTG-TT-ATTGACTATT
*
41658412 TTTATTTTTATT-ACTATT
1 TTTATTGTTATTGACTATT
41658430 TATTATTGTTATTGAC
1 T-TTATTGTTATTGAC
41658446 ATTATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.23
19 13 0.43
20 4 0.13
21 6 0.20
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTATTGTTATTGACTATT
Found at i:41658452 original size:18 final size:19
Alignment explanation
Indices: 41658392--41658453 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
41658382 TTTCATTAAT
*
41658392 TTATTGATTAATTGACTATTT
1 TTATTG-TT-ATTGACTATTA
*
41658413 TTATTTTTATT-ACTATTTA
1 TTATTGTTATTGACTA-TTA
41658432 TTATTGTTATTGAC-ATTA
1 TTATTGTTATTGACTATTA
41658450 TTAT
1 TTAT
41658454 ATTTGATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 11 0.31
19 16 0.44
20 4 0.11
21 5 0.14
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.61
Consensus pattern (19 bp):
TTATTGTTATTGACTATTA
Found at i:41661481 original size:46 final size:45
Alignment explanation
Indices: 41661463--41661883 Score: 460
Period size: 46 Copynumber: 9.3 Consensus size: 45
41661453 TGACAAGTGG
* * *
41661463 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTT-GGCTACACTTATCTGATCAAGAGAC
*
41661509 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTT-GGCTACACTTATCTGATCAAGAGAC
*
41661555 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTT-GGCTACACTTATCTGATCAAGAGAC
*
41661607 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TTGGCTACACTTATCTGATCAAGAGAC
*
41661653 AAAGTG---A-T-A-AG--TGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGGCTACACTTATCTGATCAAGAGAC
*
41661690 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTT-GGCTACACTTATCTGATCAAGAGAC
*
41661736 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTT-GGCTACACTTATCTGATCAAGAGAC
*
41661788 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TTGGCTACACTTATCTGATCAAGAGAC
*
41661834 AAAGTG---A-T-A-AG--TGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGGCTACACTTATCTGATCAAGAGAC
41661871 AAAGTGATAAGTG
1 AAAGTGATAAGTG
41661884 GCTACACTTA
Statistics
Matches: 331, Mismatches: 16, Indels: 60
0.81 0.04 0.15
Matches are distributed among these distances:
37 60 0.18
40 6 0.02
41 4 0.01
42 3 0.01
43 4 0.01
45 1 0.00
46 161 0.49
47 4 0.01
52 88 0.27
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (45 bp):
AAAGTGATAAGTGATAGCTTGGCTACACTTATCTGATCAAGAGAC
Found at i:41661517 original size:98 final size:98
Alignment explanation
Indices: 41661397--41661846 Score: 569
Period size: 98 Copynumber: 4.7 Consensus size: 98
41661387 TTTGAGTACT
*
41661397 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
41661462 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
**
41661495 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
41661560 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
41661593 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-----
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
41661653 -AAAGTGATAAGTG---GCTAC-ACT-TATCTGA
66 AAAAGTGATAAGTGATAGCTTCGGCTATA-CTTA
* * **
41661681 TCAAGAAACAAAGTG----A-T---AAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
1 TC-TG-ATC-AAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
41661738 GTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
63 GTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
41661774 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
41661839 GATAAGTG
65 GAAAAGTG
41661847 GCTACACTTA
Statistics
Matches: 300, Mismatches: 28, Indels: 47
0.80 0.07 0.13
Matches are distributed among these distances:
83 35 0.12
86 1 0.00
87 3 0.01
88 7 0.02
89 18 0.06
90 6 0.02
91 6 0.02
92 18 0.06
93 7 0.02
94 3 0.01
95 1 0.00
98 184 0.61
99 11 0.04
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:41661673 original size:37 final size:37
Alignment explanation
Indices: 41661629--41661702 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
41661619 GATAGCTTTA
*
41661629 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41661666 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41661703 ATAGCTTCGG
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:0.16, G:0.20, T:0.24
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:41661703 original size:181 final size:181
Alignment explanation
Indices: 41661484--41661883 Score: 773
Period size: 181 Copynumber: 2.2 Consensus size: 181
41661474 TAATAGCTTC
* **
41661484 GGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
41661549 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
66 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
41661614 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
131 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
41661665 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
41661730 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
66 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
41661795 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
131 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
41661846 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41661884 GCTACACTTA
Statistics
Matches: 216, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 216 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (181 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:41661850 original size:135 final size:132
Alignment explanation
Indices: 41661397--41661938 Score: 409
Period size: 135 Copynumber: 4.1 Consensus size: 132
41661387 TTTGAGTACT
** * **
41661397 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAAACAAAGTG--AAGTGATAGC-TCGGCTACACTTATCTGATCAAGTGACAAGTG
* * * * *
41661462 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
63 AAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTG---A-T-A-AG-
41661527 TTCGGCTACACTTA
121 -T-GGCTACACTTA
* * *
41661541 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAA--GA-AA---CAAAGTG--AAGTGATAGC-TCGGCTACACTTATCTGATCAAGTGA
*
41661606 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
57 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
41661665 GGCTACACTTA
122 GGCTACACTTA
41661676 TCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAAACAAAGTG--AAGTGATAGC-TCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
41661741 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGC
63 AAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAA--G-T-G-
41661806 TTTAGCTACACTTA
123 ----GCTACACTTA
* *
41661820 TCTGATCAAGAGACAAAGTG-A-T-A-AG-T-GGCTACACTTATCTGATCAA--GA-AA---CAA
1 TCTGATCAAGAAACAAAGTGAAGTGATAGCTCGGCTACACTTATCTGATCAAGTGACAAGTGAAA
* * *
41661873 AGTGATAA--G-T-G-----GCTACACTTATCTGATCAATAAACAAAGTGATAGGTGGCTACACT
66 AGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACACT
41661929 TA
131 TA
41661931 TCTGATCA
1 TCTGATCA
41661939 GGGACAAGTG
Statistics
Matches: 352, Mismatches: 25, Indels: 75
0.78 0.06 0.17
Matches are distributed among these distances:
111 18 0.05
116 1 0.00
117 1 0.00
118 1 0.00
120 30 0.09
125 1 0.00
126 1 0.00
127 1 0.00
129 54 0.15
132 4 0.01
133 4 0.01
135 93 0.26
136 2 0.01
137 1 0.00
138 5 0.01
139 3 0.01
140 2 0.01
141 2 0.01
144 85 0.24
146 1 0.00
147 1 0.00
150 41 0.12
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (132 bp):
TCTGATCAAGAAACAAAGTGAAGTGATAGCTCGGCTACACTTATCTGATCAAGTGACAAGTGAAA
AGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACACT
TA
Found at i:41661854 original size:37 final size:37
Alignment explanation
Indices: 41661810--41661938 Score: 231
Period size: 37 Copynumber: 3.5 Consensus size: 37
41661800 GATAGCTTTA
*
41661810 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41661847 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
41661884 GCTACACTTATCTGATCAATAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41661921 GCTACACTTATCTGATCA
1 GCTACACTTATCTGATCA
41661939 GGGACAAGTG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:41663285 original size:58 final size:58
Alignment explanation
Indices: 41663208--41663375 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
41663198 CATGTGAACA
41663208 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
41663267 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
41663323 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
41663374 TG
1 TG
41663376 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:41663317 original size:28 final size:28
Alignment explanation
Indices: 41663227--41663317 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
41663217 GTGATTCCGT
41663227 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
41663255 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
41663284 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
41663313 GTAAG
1 GTAAG
41663318 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:41663340 original size:49 final size:49
Alignment explanation
Indices: 41663268--41663410 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
41663258 AGTGATATGT
* *
41663268 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
41663317 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
41663366 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
41663411 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:41666619 original size:46 final size:45
Alignment explanation
Indices: 41666601--41667017 Score: 452
Period size: 46 Copynumber: 9.2 Consensus size: 45
41666591 TGACAAGTGG
* * *
41666601 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTT-GGCTACACTTATCTGATCAAGAGAC
*
41666647 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTT-GGCTACACTTATCTGATCAAGAGAC
*
41666693 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTT-GGCTACACTTATCTGATCAAGAGAC
*
41666745 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TTGGCTACACTTATCTGATCAAGAGAC
*
41666791 AAAGTG---A-T-A-AG--TGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGGCTACACTTATCTGATCAAGAGAC
*
41666828 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTT-GGCTACACTTATCTGATCAAGAGAC
*
41666874 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTT-GGCTACACTTATCTGATCAAGAGAC
*
41666926 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TTGGCTACACTTATCTGATCAAGAGAC
*
41666972 AAAGTG---A-T-A-AG--TGGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGGCTACACTTATCTGATCAAGAGAC
41667009 AAAGTGATA
1 AAAGTGATA
41667018 GGTGGCTACA
Statistics
Matches: 329, Mismatches: 16, Indels: 58
0.82 0.04 0.14
Matches are distributed among these distances:
37 60 0.18
40 5 0.02
41 3 0.01
42 3 0.01
43 4 0.01
45 1 0.00
46 161 0.49
47 4 0.01
52 88 0.27
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (45 bp):
AAAGTGATAAGTGATAGCTTGGCTACACTTATCTGATCAAGAGAC
Found at i:41666655 original size:98 final size:98
Alignment explanation
Indices: 41666535--41666984 Score: 569
Period size: 98 Copynumber: 4.7 Consensus size: 98
41666525 TTTGAGTACT
*
41666535 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
41666600 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
**
41666633 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
41666698 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
41666731 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-----
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
41666791 -AAAGTGATAAGTG---GCTAC-ACT-TATCTGA
66 AAAAGTGATAAGTGATAGCTTCGGCTATA-CTTA
* * **
41666819 TCAAGAAACAAAGTG----A-T---AAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
1 TC-TG-ATC-AAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
41666876 GTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
63 GTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
41666912 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
41666977 GATAAGTG
65 GAAAAGTG
41666985 GCTACACTTA
Statistics
Matches: 300, Mismatches: 28, Indels: 47
0.80 0.07 0.13
Matches are distributed among these distances:
83 35 0.12
86 1 0.00
87 3 0.01
88 7 0.02
89 18 0.06
90 6 0.02
91 6 0.02
92 18 0.06
93 7 0.02
94 3 0.01
95 1 0.00
98 184 0.61
99 11 0.04
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:41666811 original size:37 final size:37
Alignment explanation
Indices: 41666767--41666840 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
41666757 GATAGCTTTA
*
41666767 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41666804 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
41666841 ATAGCTTCGG
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:0.16, G:0.20, T:0.24
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:41666841 original size:181 final size:181
Alignment explanation
Indices: 41666622--41667017 Score: 765
Period size: 181 Copynumber: 2.2 Consensus size: 181
41666612 TAATAGCTTC
* **
41666622 GGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
41666687 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
66 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
41666752 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
131 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
41666803 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
41666868 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
66 AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
41666933 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
131 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
41666984 GGCTACACTTATCTGATCAAGAAACAAAGTGATA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATA
41667018 GGTGGCTACA
Statistics
Matches: 212, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 212 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (181 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
AGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGA
TAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:41666859 original size:83 final size:83
Alignment explanation
Indices: 41666720--41667017 Score: 289
Period size: 83 Copynumber: 3.4 Consensus size: 83
41666710 TGATAGCTTC
* *
41666720 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCA
41666785 AGAGACAAAGTGATAAGT
66 AGAGACAAAGTGATAAGT
**
41666803 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCA
*
41666868 AGTGACAAGTGAAAAGTGATAAGT
66 AGAGAC------AAAGTGATAAGT
* * * * * * *
41666892 GATAGCTTCGGC-TATACTTATC-TG-ATC-AAGAGACAAAGTGATAAGTGATAGCTTTAGCTAC
1 G---GCTAC-ACTTAT-CTGATCAAGAAACAAAGTGA-TAA-------GTGATAGCTTTAGCTAC
41666953 ACTTATCTGATCAAGAGACAAAGTGATAAGT
53 ACTTATCTGATCAAGAGACAAAGTGATAAGT
41666984 GGCTACACTTATCTGATCAAGAAACAAAGTGATA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATA
41667018 GGTGGCTACA
Statistics
Matches: 170, Mismatches: 22, Indels: 39
0.74 0.10 0.17
Matches are distributed among these distances:
83 66 0.39
88 6 0.04
89 21 0.12
90 8 0.05
91 9 0.05
92 21 0.12
93 6 0.04
98 33 0.19
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (83 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCA
AGAGACAAAGTGATAAGT
Found at i:41666988 original size:135 final size:132
Alignment explanation
Indices: 41666535--41667004 Score: 406
Period size: 135 Copynumber: 3.4 Consensus size: 132
41666525 TTTGAGTACT
** * **
41666535 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAAACAAAGTG--AAGTGATAGC-TCGGCTACACTTATCTGATCAAGTGACAAGTG
* * * * *
41666600 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
63 AAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTG---A-T-A-AG-
41666665 TTCGGCTACACTTA
121 -T-GGCTACACTTA
* * *
41666679 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAA--GA-AA---CAAAGTG--AAGTGATAGC-TCGGCTACACTTATCTGATCAAGTGA
*
41666744 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
57 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
41666803 GGCTACACTTA
122 GGCTACACTTA
41666814 TCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAAACAAAGTG--AAGTGATAGC-TCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
41666879 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGC
63 AAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAA--G-T-G-
41666944 TTTAGCTACACTTA
123 ----GCTACACTTA
*
41666958 TCTGATCAAGAGACAAAGTG-A-T-A-AG-T-GGCTACACTTATCTGATCAAG
1 TCTGATCAAGAAACAAAGTGAAGTGATAGCTCGGCTACACTTATCTGATCAAG
41667005 AAACAAAGTG
Statistics
Matches: 285, Mismatches: 20, Indels: 51
0.80 0.06 0.14
Matches are distributed among these distances:
129 44 0.15
132 2 0.01
133 2 0.01
135 94 0.33
136 2 0.01
137 1 0.00
138 5 0.02
139 3 0.01
140 2 0.01
141 2 0.01
144 85 0.30
146 1 0.00
147 1 0.00
150 41 0.14
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (132 bp):
TCTGATCAAGAAACAAAGTGAAGTGATAGCTCGGCTACACTTATCTGATCAAGTGACAAGTGAAA
AGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACACT
TA
Found at i:41666992 original size:37 final size:37
Alignment explanation
Indices: 41666948--41667053 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
41666938 GATAGCTTTA
41666948 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
41666985 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
41667022 GCTACACTTATCTGATC-AGGGAC-AAGTGATAA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAA
41667054 TTGATCATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 8 0.12
36 4 0.06
37 52 0.81
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:41673510 original size:17 final size:17
Alignment explanation
Indices: 41673468--41673510 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
41673458 ATAGTTTATA
41673468 TATATTTTATATACATT
1 TATATTTTATATACATT
* * *
41673485 CATATTTTTTATGATATT
1 TATATTTTATAT-ACATT
41673503 TATATTTT
1 TATATTTT
41673511 CATGTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
TATATTTTATATACATT
Found at i:41675059 original size:17 final size:17
Alignment explanation
Indices: 41675037--41675071 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
41675027 GCCATCACAT
41675037 GGCATTTCATTTTAAAA
1 GGCATTTCATTTTAAAA
41675054 GGCATTTCATTTTAAAA
1 GGCATTTCATTTTAAAA
41675071 G
1 G
41675072 TGATAGTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (17 bp):
GGCATTTCATTTTAAAA
Found at i:41680441 original size:50 final size:51
Alignment explanation
Indices: 41680360--41681271 Score: 581
Period size: 50 Copynumber: 18.3 Consensus size: 51
41680350 TAGCAGATTT
* ** *
41680360 TTATTTCCC-CGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGAAC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
* * * ** * ** *
41680410 TTATTTCCCTAG-CGGTGCAGTGGAGCAGATTGAAGCTATGACGGCGAATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
** * * *
41680460 TGGTTTCCCT-GACATTGCAAT-TAAAAGATTGAAGCCACAACGACGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
* * ** * *
41680509 TTATTTCCCT-GGCAGTGCAGTGGAGCAGATTGAAGCTACGACGGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
** * **
41680559 TGGTTTCCC-CGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
* * ** * *
41680609 TTATTTCCCT-GACGGTGCAGTGGAGCAGATTGAAGCTACGACGGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
* * * * *
41680659 TAATTTCCC-CGACATTGCAAT-TAAAAGATTAAAGCCACAACGACGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
* * * * * * * ** **
41680708 TTACTTCCCT-GGCAGTGTAGTGGAATAGATTAAAGTCGTAACGGCAAATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
* * ** *
41680758 TTGTTTCCC-CGACATTGCAATTAAAAAGATTGAAGCCACAACAGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
* * * ** * * *
41680808 TTATTTCCCTAG-CGGTGCAGTGGAGTAGATTGAAGCTACGACGGCGGATA
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
** * ** *
41680858 TGGTTTCCC-CGACATTGCAATTAAAAAGATTAAAGCCACAACGGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
* * * * ** *
41680908 TTATTTCTCT-GACGGTGCAGTAGAGTAGATTGAAGTCACAACGGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
** * * **
41680958 TGGTTT-CCTCGACAGCGTAATTAAAAAGATTGAAGCCACAACGGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
* * * * ** *
41681008 TTACTTCCCT-GGCGGTACAATGGAGCAGATTGAAGTCACAACGGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
** ** **
41681058 TGGTTT-CCTCGACAACGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
* * * * * * * *
41681108 TTACTTCCGT-GGCGGTGCAGT-GAAGCAGATCGAAGTCACAACGGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAA-AAGATTGAAGCCACAACGGCGGATC
** * **
41681158 TGGTTTCCC-CGACAGCGCAATTCAAAAGATTGAAGCCACAACGGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
** * * * * * * * *
41681208 TTACCTCCTTAG-CGGTGCAGTTGAACAGATTGAAGCTACGACGGCGGATC
1 TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
*
41681258 TTGTTT-CCTCGACA
1 TTATTTCCCTCGACA
41681272 TTGTAATTGG
Statistics
Matches: 620, Mismatches: 221, Indels: 42
0.70 0.25 0.05
Matches are distributed among these distances:
49 83 0.13
50 527 0.85
51 10 0.02
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (51 bp):
TTATTTCCCTCGACAGTGCAATGGAAAAGATTGAAGCCACAACGGCGGATC
Found at i:41681292 original size:100 final size:100
Alignment explanation
Indices: 41680363--41681279 Score: 1186
Period size: 100 Copynumber: 9.2 Consensus size: 100
41680353 CAGATTTTTA
*
41680363 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGAACTTATTTCCCTAGCGGTGC
1 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTAGCGGTGC
* *
41680428 AGTGGAGCAGATTGAAGCTATGACGGCGAATCTGG
66 AGTGGAGCAGATTGAAGCTACGACGGCGGATCTGG
* * * *
41680463 TTTCCCTGACATTGCAATT-AAAAGATTGAAGCCACAACGACGGATCTTATTTCCCTGGCAGTGC
1 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTAGCGGTGC
41680527 AGTGGAGCAGATTGAAGCTACGACGGCGGATCTGG
66 AGTGGAGCAGATTGAAGCTACGACGGCGGATCTGG
41680562 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCT-GACGGTG
1 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTAG-CGGTG
**
41680626 CAGTGGAGCAGATTGAAGCTACGACGGCGGATCTAA
65 CAGTGGAGCAGATTGAAGCTACGACGGCGGATCTGG
* * * * * *
41680662 TTTCCCCGACATTGCAATT-AAAAGATTAAAGCCACAACGACGGATCTTACTTCCCTGGCAGTGT
1 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTAGCGGTGC
** * ** *
41680726 AGTGGAATAGATTAAAG-T-CGTAACGGCAAATCTTG
66 AGTGGAGCAGATTGAAGCTACG--ACGGCGGATCTGG
*
41680761 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACAGCGGATCTTATTTCCCTAGCGGTGC
1 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTAGCGGTGC
* *
41680826 AGTGGAGTAGATTGAAGCTACGACGGCGGATATGG
66 AGTGGAGCAGATTGAAGCTACGACGGCGGATCTGG
* *
41680861 TTTCCCCGACATTGCAATTAAAAAGATTAAAGCCACAACGGCGGATCTTATTTCTCT-GACGGTG
1 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTAG-CGGTG
* * *
41680925 CAGTAGAGTAGATTGAAG-TCACAACGGCGGATCTGG
65 CAGTGGAGCAGATTGAAGCT-ACGACGGCGGATCTGG
* ** * * * *
41680961 TTTCCTCGACAGCGTAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTAC
1 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTAGCGGTGC
* *
41681026 AATGGAGCAGATTGAAG-TCACAACGGCGGATCTGG
66 AGTGGAGCAGATTGAAGCT-ACGACGGCGGATCTGG
* ** * * *
41681061 TTTCCTCGACAACGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCGTGGCGGTGC
1 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTAGCGGTGC
* * *
41681126 AGTGAAGCAGATCGAAG-TCACAACGGCGGATCTGG
66 AGTGGAGCAGATTGAAGCT-ACGACGGCGGATCTGG
** * ** *
41681161 TTTCCCCGACAGCGCAATTCAAAAGATTGAAGCCACAACGGCGGATCTTACCTCCTTAGCGGTGC
1 TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTAGCGGTGC
* * *
41681226 AGTTGAACAGATTGAAGCTACGACGGCGGATCTTG
66 AGTGGAGCAGATTGAAGCTACGACGGCGGATCTGG
* *
41681261 TTTCCTCGACATTGTAATT
1 TTTCCCCGACATTGCAATT
41681280 GGATAAATTG
Statistics
Matches: 728, Mismatches: 77, Indels: 24
0.88 0.09 0.03
Matches are distributed among these distances:
97 2 0.00
98 1 0.00
99 175 0.24
100 545 0.75
101 3 0.00
102 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (100 bp):
TTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTCCCTAGCGGTGC
AGTGGAGCAGATTGAAGCTACGACGGCGGATCTGG
Found at i:41682679 original size:4 final size:4
Alignment explanation
Indices: 41682667--41682701 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
41682657 ATTTGTTTTT
*
41682667 TTTA GTTA TTTA TTTA TTTA TTTA TTTA TTATA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TT
41682702 GTTTATATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:41682910 original size:17 final size:17
Alignment explanation
Indices: 41682868--41682910 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
41682858 ATAGTTTATA
41682868 TATATTTTATATACATT
1 TATATTTTATATACATT
* * *
41682885 CATATTTTTTATGATATT
1 TATATTTTATAT-ACATT
41682903 TATATTTT
1 TATATTTT
41682911 CATGTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
TATATTTTATATACATT
Found at i:41684357 original size:46 final size:44
Alignment explanation
Indices: 41684298--41684412 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
41684288 ACAGGACAGA
* *
41684298 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
41684344 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
41684388 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
41684413 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:41684393 original size:44 final size:45
Alignment explanation
Indices: 41684298--41684431 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
41684288 ACAGGACAGA
* *
41684298 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
41684344 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
41684388 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
41684432 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:41689939 original size:46 final size:44
Alignment explanation
Indices: 41689880--41689994 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
41689870 ACAGGACAGA
* *
41689880 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
41689926 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
41689970 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
41689995 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:41689975 original size:44 final size:45
Alignment explanation
Indices: 41689880--41690013 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
41689870 ACAGGACAGA
* *
41689880 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
41689926 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
41689970 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
41690014 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:41693791 original size:31 final size:31
Alignment explanation
Indices: 41693766--41693861 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
41693756 AATAGCCTAG
41693766 TGACTTAAATAAAAACTTTCGAATAGTCCAA
1 TGACTTAAATAAAAACTTTCGAATAGTCCAA
41693797 TGACTTAAATAAAAACTTTCGAATAGTCCAA
1 TGACTTAAATAAAAACTTTCGAATAGTCCAA
* * * *
41693828 TGACTTAAATGAATACTTTCAAATAGTTCAA
1 TGACTTAAATAAAAACTTTCGAATAGTCCAA
41693859 TGA
1 TGA
41693862 TAATTTTATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCGAATAGTCCAA
Found at i:41697802 original size:22 final size:22
Alignment explanation
Indices: 41697762--41697825 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
41697752 CTAGAAATTT
* *
41697762 TATAATTTTTTTAACTTTTTTG
1 TATAATTTTTATAATTTTTTTG
*
41697784 TATAATTTTTAGAATTTTTTTG
1 TATAATTTTTATAATTTTTTTG
* *
41697806 -AAAAATTTTATAATTTTTTT
1 TATAATTTTTATAATTTTTTT
41697826 AAAAAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TATAATTTTTATAATTTTTTTG
Found at i:41697814 original size:21 final size:21
Alignment explanation
Indices: 41697790--41697832 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
41697780 TTTGTATAAT
*
41697790 TTTTAGAATTTTTTTGAAAAA
1 TTTTAGAATTTTTTTAAAAAA
*
41697811 TTTTATAATTTTTTTAAAAAA
1 TTTTAGAATTTTTTTAAAAAA
41697832 T
1 T
41697833 AAAAAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTAGAATTTTTTTAAAAAA
Found at i:41708858 original size:20 final size:21
Alignment explanation
Indices: 41708813--41708858 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
41708803 TTTCGTCTCA
41708813 TTTTACTAAATAATGTATGAT
1 TTTTACTAAATAATGTATGAT
* *
41708834 GTTTAGTAAA-AATGTGAT-AT
1 TTTTACTAAATAATGT-ATGAT
41708854 TTTTA
1 TTTTA
41708859 ATGGTTGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (21 bp):
TTTTACTAAATAATGTATGAT
Found at i:41715975 original size:28 final size:27
Alignment explanation
Indices: 41715944--41716024 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 27
41715934 AAATAAACTC
41715944 CAAAAATAAAAACTCTAAAGTCAAACCT
1 CAAAAATAAAAA-TCTAAAGTCAAACCT
* *
41715972 CAAAAATGAAAATACTAAAGTCAAACTT
1 CAAAAATAAAAAT-CTAAAGTCAAACCT
41716000 CAAAAATAAAAAATCTAAAGTCAAA
1 CAAAAAT-AAAAATCTAAAGTCAAA
41716025 TAACACTAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
27 1 0.02
28 42 0.88
29 5 0.10
ACGTcount: A:0.60, C:0.16, G:0.05, T:0.19
Consensus pattern (27 bp):
CAAAAATAAAAATCTAAAGTCAAACCT
Found at i:41716882 original size:29 final size:30
Alignment explanation
Indices: 41716837--41716895 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
41716827 GAATCGGATC
41716837 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
* *
41716867 AAATCAAAGTTT-ATGTATACAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
41716896 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:41716919 original size:29 final size:28
Alignment explanation
Indices: 41716847--41716917 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
41716837 AAATCAAAAT
*
41716847 TTCATGTATAAAATTACACAAAATCAAAG
1 TTCATGTAT-AAATTACACAAAACCAAAG
* *
41716876 TTTATGTATACAATTACACATTAAACCATAG
1 TTCATGTATA-AATTACACA--AAACCAAAG
41716907 TTCATGTATAA
1 TTCATGTATAA
41716918 TTTTGATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 1 0.03
29 17 0.49
30 1 0.03
31 16 0.46
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (28 bp):
TTCATGTATAAATTACACAAAACCAAAG
Found at i:41721452 original size:39 final size:39
Alignment explanation
Indices: 41721398--41721479 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
41721388 ATAGATGTTC
41721398 AAATCTAAACCCTTTTAATACCAGATGCAGCACATCCCT
1 AAATCTAAACCCTTTTAATACCAGATGCAGCACATCCCT
* *
41721437 AAATCTAAATCCTTTTAATACCAGATGCAGCACATTCCT
1 AAATCTAAACCCTTTTAATACCAGATGCAGCACATCCCT
41721476 AAAT
1 AAAT
41721480 TAAGGACGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.28
Consensus pattern (39 bp):
AAATCTAAACCCTTTTAATACCAGATGCAGCACATCCCT
Found at i:41729530 original size:26 final size:25
Alignment explanation
Indices: 41729471--41729531 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
41729461 CATAAATAAA
*
41729471 AATTTAATATATATTATTTAATATGG
1 AATTTAAT-TATATTATTTAATATAG
* *
41729497 AATATAATTAT-TTATTTTACATATAT
1 AATTTAATTATATTA-TTTA-ATATAG
41729523 AATTTAATT
1 AATTTAATT
41729532 TAATGTAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.10
25 7 0.24
26 19 0.66
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (25 bp):
AATTTAATTATATTATTTAATATAG
Found at i:41731547 original size:5 final size:6
Alignment explanation
Indices: 41731531--41731555 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
41731521 TCAATCCACA
41731531 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
41731556 CACATTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:41735185 original size:18 final size:18
Alignment explanation
Indices: 41735164--41735225 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
41735154 GCAATTATAT
41735164 ATAAAAATAATAATTAAG
1 ATAAAAATAATAATTAAG
* * **
41735182 ATAAAAATATTAAATATT
1 ATAAAAATAATAATTAAG
*
41735200 ATATAAA-AATAATTAAG
1 ATAAAAATAATAATTAAG
41735217 ATAAAAATA
1 ATAAAAATA
41735226 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
17 12 0.36
18 21 0.64
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAAAAATAATAATTAAG
Found at i:41735218 original size:35 final size:36
Alignment explanation
Indices: 41735163--41735230 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
41735153 TGCAATTATA
41735163 TATAAAAATAATAATTAAGATAAAAATATTAAATAT
1 TATAAAAATAATAATTAAGATAAAAATATTAAATAT
*
41735199 TATATAAA-AATAATTAAGATAAAAATATTAAA
1 TATAAAAATAATAATTAAGATAAAAATATTAAA
41735231 ATTTAGTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 24 0.77
36 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (36 bp):
TATAAAAATAATAATTAAGATAAAAATATTAAATAT
Found at i:41738829 original size:31 final size:30
Alignment explanation
Indices: 41738794--41738851 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41738784 ATAAAGATTT
*
41738794 AATAGCCTAGTGATTTAAATAAAAACTTTTG
1 AATAG-CTAGTGACTTAAATAAAAACTTTTG
* *
41738825 AATAGTTAGTGACTTAAATGAAAACTT
1 AATAGCTAGTGACTTAAATAAAAACTT
41738852 CCAAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (30 bp):
AATAGCTAGTGACTTAAATAAAAACTTTTG
Found at i:41744653 original size:42 final size:43
Alignment explanation
Indices: 41744544--41744710 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 43
41744534 AGCTCGTACA
* * * * * * *
41744544 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCA-AATAACA
1 ATGCCAATGTCCCAGACATAGTCTTACACGAAATCATAA-ATCG
*
41744587 ATGCCACTGTCCCAGACA-AGGTCTTACACGAAATCATAAAT-G
1 ATGCCAATGTCCCAGACATA-GTCTTACACGAAATCATAAATCG
* *
41744629 ATGCCAATGTCCCAAACATAGTCTTACACGTAAATCTTAAATCG
1 ATGCCAATGTCCCAGACATAGTCTTACACG-AAATCATAAATCG
* * * *
41744673 ACGCCAACGTCCCAGACGTGGTCTTACACGAAATCATA
1 ATGCCAATGTCCCAGACATAGTCTTACACGAAATCATA
41744711 TATCAGAATC
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 26 0.25
43 48 0.47
44 28 0.27
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATAGTCTTACACGAAATCATAAATCG
Found at i:41744685 original size:44 final size:42
Alignment explanation
Indices: 41744607--41744710 Score: 136
Period size: 44 Copynumber: 2.4 Consensus size: 42
41744597 CCCAGACAAG
* *
41744607 GTCTTACACGAAATCATAAATGATGCCAATGTCCCAAACATA
1 GTCTTACACGAAATCATAAATGACGCCAACGTCCCAAACATA
* * * *
41744649 GTCTTACACGTAAATCTTAAATCGACGCCAACGTCCCAGACGTG
1 GTCTTACACG-AAATCATAAAT-GACGCCAACGTCCCAAACATA
41744693 GTCTTACACGAAATCATA
1 GTCTTACACGAAATCATA
41744711 TATCAGAATC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 10 0.19
43 17 0.32
44 26 0.49
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (42 bp):
GTCTTACACGAAATCATAAATGACGCCAACGTCCCAAACATA
Found at i:41748458 original size:3 final size:3
Alignment explanation
Indices: 41748450--41748518 Score: 72
Period size: 3 Copynumber: 23.0 Consensus size: 3
41748440 AGCTATTATG
* *
41748450 TAA TAA TAA TAA T-A TGA TAA GTAA CAA TAA T-A TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA
41748495 TAA TAGA -AA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA
41748519 AATTACTGAA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
2 5 0.09
3 45 0.79
4 7 0.12
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:41772152 original size:16 final size:16
Alignment explanation
Indices: 41772131--41772161 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41772121 TTGCAATTAT
41772131 ATGGTTGTTGCTGGTG
1 ATGGTTGTTGCTGGTG
*
41772147 ATGGTTGTTGTTGGT
1 ATGGTTGTTGCTGGT
41772162 AATCATCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.03, G:0.42, T:0.48
Consensus pattern (16 bp):
ATGGTTGTTGCTGGTG
Found at i:41776216 original size:20 final size:20
Alignment explanation
Indices: 41776178--41776216 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
41776168 TATAGATGAA
***
41776178 TTACTGTTGATATGTATAAG
1 TTACTGTTGATACAAATAAG
41776198 TTACTGTTGATACAAATAA
1 TTACTGTTGATACAAATAA
41776217 ATTTCTATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (20 bp):
TTACTGTTGATACAAATAAG
Found at i:41777393 original size:15 final size:15
Alignment explanation
Indices: 41777373--41777405 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
41777363 GATTTGAGAG
41777373 ATGAAATGGATGT-AT
1 ATGAAATGG-TGTAAT
41777388 ATGAAATGGTGTAAT
1 ATGAAATGGTGTAAT
41777403 ATG
1 ATG
41777406 TGTATTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.33
Consensus pattern (15 bp):
ATGAAATGGTGTAAT
Found at i:41784129 original size:44 final size:45
Alignment explanation
Indices: 41784081--41785072 Score: 334
Period size: 44 Copynumber: 22.8 Consensus size: 45
41784071 AGGAACTAGT
* *
41784081 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGA-TTGTCG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCG
* * *
41784125 GCTTTAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTCA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCG
* * * *
41784170 TCTTTAGTCTGC-CTCGCTGCAACTTCA-GGAGGATAAGACTTG-CT
1 GCTTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGTCG
*** * * *
41784214 TAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA---ATAG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCG
* * * * * **
41784256 G-TGTGATCTGCT-CTCTGCAACTTTAGAGAGATAAGA-TCT-AAG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGTCG
* * * * *
41784298 GTTTTAATCT-ATCCACTGCAACTTCAGCGAGAT-AGAATTATCG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCG
* * * * * *
41784341 GTTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCCA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCG
* * * *
41784386 TCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTG-CTT
1 GCTTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGTC-G
* * * * *
41784431 AC-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCG
* * * *
41784475 TCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTG-CTT
1 GCTTTAATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGTC-G
* * * * *
41784520 AC-TTAGTCTGCTCCACTGCAACTTTAGGGAAATAAGACTAGAT--
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TCG
* * * **
41784563 GC---GATCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCT-AAG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGTCG
* * * * *
41784603 GTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGA-TTATCG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCG
* * *
41784647 GCTTTAATCTGCTCCACTGTAACTTCAGAGAGATAAGAC-CGATC-
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TCG
* ** * * * * *
41784691 -ATTCTAATCCACTCCTCCT-CAACTTTAGGGAGATAGGATTTATTC-
1 GCTT-TAATCTGCTCC-ACTGCAACTTCAGGGAGATAAGACTT-GTCG
* * * * **
41784736 -ATTCAGTCTGAC-CCACTGCAATTTCAGGGAGATAAGACCAGAT--
1 GCTTTAATCTG-CTCCACTGCAACTTCAGGGAGATAAGACTTG-TCG
* * * * ****
41784779 GC---GATCTGCT-CTCTGCAACTTTAGAGAGATAAGA-TCCAAG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCG
* * * * * *
41784819 GTTTTAATCCGCTCCTCCT-CAACTTTAGGGAGATAGGATTTGTTC-
1 GCTTTAATCTGCTCC-ACTGCAACTTCAGGGAGATAAGACTTG-TCG
* * * * * * *
41784864 -ATTCAATCTGCCCCACAGCAATTTCAGGGGGATAAGACTT-TCTT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTC-G
* * * * **
41784908 AC-TCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACCAGAT--
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TCG
* * * * ****
41784951 GC---GATCTACT-CTCTGCAACTTCAGAGAGATAAGA-TCCAAG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCG
* * * * *
41784991 GTTTTAATCCGCTCCTCTGCAACTTCAGGGAGATAGGA-TTATCG
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCG
41785035 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
41785073 TTTGCCATCT
Statistics
Matches: 704, Mismatches: 175, Indels: 138
0.69 0.17 0.14
Matches are distributed among these distances:
39 1 0.00
40 88 0.12
41 22 0.03
42 10 0.01
43 60 0.09
44 392 0.56
45 130 0.18
46 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCG
Found at i:41784406 original size:172 final size:170
Alignment explanation
Indices: 41784127--41785098 Score: 592
Period size: 172 Copynumber: 5.6 Consensus size: 170
41784117 GATTGTCGGC
* * * * * * *
41784127 TTTAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTC-ATCTTTAGTCTGC-CTCGCTGC
1 TTTAATCT-CTCCACTGCAACTTCAGGGAGAT-AGAATTATCGGT-TTTAATCTGCTC-CACTAC
* * * *
41784190 AACTTCA-GGAGGATAAGACTTGCTTAATT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAA
62 AACTTCAGGGA-GATAAGATTTGCAT-CTTCAGTCTGCT-CACTGCAACTTCAGGGAGATAAGAC
*
41784253 TAGGTGTGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTAAGGT
124 TAGATGTGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTAAGGT
* *
41784300 TTTAATCTATCCACTGCAACTTCAGCGAGATAGAATTATCGGTTTTAATCTGCTCCACTACAACT
1 TTTAATCTCTCCACTGCAACTTCAGGGAGATAGAATTATCGGTTTTAATCTGCTCCACTACAACT
* *
41784365 TCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA-GGAGGATAAGACTTGC
66 TCAGGGAGATAAGATTTG-CATCTTCAGTCTG-CTCACTGCAACTTCAGGGA-GATAAGACTAG-
* * * * * * * ****
41784429 TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCAT
127 AT-GTGA-TCTGCT-CTCTGCAACTTTAGAGAGATAAGATCTAAGGT
* * * * *
41784476 CTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATA-AGACT-T-GCTTACTTAGTCTGCTCCAC
1 -TTTAATCT-CTC-CACTGCAACTTCAGGGA-GATAGA-ATTATCGGTT--TTAATCTGCTCCAC
* * * * * * * *
41784536 TGCAACTTTAGGGAAATAAGACTAG-A--TGC-GATCTGCTCTCTGCAACTTCAGAGAGATAAGA
59 TACAACTTCAGGGAGATAAGATTTGCATCTTCAG-TCTGCTCACTGCAACTTCAGGGAGATAAGA
* * * * * * * * *
41784597 TCTAAGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGAT-TATCGGC
123 -CT-A-GATGTGATCTGCT-CTCTGCAACTTTAGAGAGATAAGATCTA-AGGT
* * *** * * ** *
41784649 TTTAATCTGCTCCACTGTAACTTCAGAGAGATAAGACCGATC-ATTCTAATCCACTCCTCCT-CA
1 TTTAATCT-CTCCACTGCAACTTCAGGGAGAT-AGAATTATCGGTTTTAATCTGCTCC-ACTACA
* * * * *
41784712 ACTTTAGGGAGATAGGATTT--ATTCATTCAGTCTGACCCACTGCAATTTCAGGGAGATAAGACC
63 ACTTCAGGGAGATAAGATTTGCA-TC-TTCAGTCTG-CTCACTGCAACTTCAGGGAGATAAGACT
* *
41784775 AGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCCAAGGT
125 AGATGTGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTAAGGT
* * * * *
41784821 TTTAATCCGCTCCTCCT-CAACTTTAGGGAGATAGGATT-T--GTTCATTCAATCTGCCCCAC-A
1 TTTAAT-CTCTCC-ACTGCAACTTCAGGGAGATAGAATTATCGGTT--TT-AATCTGCTCCACTA
* * * *
41784881 GCAATTTCAGGGGGATAAGACTTT-CTTAC-TCAGTCTGCTCCACTGCAACTTCAGAGAGATAAG
61 -CAACTTCAGGGAGATAAGA-TTTGCAT-CTTCAGTCTGCT-CACTGCAACTTCAGGGAGATAAG
* * * * *
41784944 ACCAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
122 ACTAGATGTGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTAAGGT
* * * * *
41784993 TTTAATCCGCTCCTCTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAAC
1 TTTAAT-CTCTCCACTGCAACTTCAGGGAGATAGAATTATCGGTTTTAATCTGCTCCACTACAAC
41785058 TTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTTCACTG
65 TTCAGGGAGATAAGATTTG-CATCTTCAGTCTGC-TCACTG
41785099 TCGATGCAAG
Statistics
Matches: 625, Mismatches: 116, Indels: 116
0.73 0.14 0.14
Matches are distributed among these distances:
169 2 0.00
170 1 0.00
171 52 0.08
172 311 0.50
173 105 0.17
174 21 0.03
175 17 0.03
176 52 0.08
177 11 0.02
178 53 0.08
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (170 bp):
TTTAATCTCTCCACTGCAACTTCAGGGAGATAGAATTATCGGTTTTAATCTGCTCCACTACAACT
TCAGGGAGATAAGATTTGCATCTTCAGTCTGCTCACTGCAACTTCAGGGAGATAAGACTAGATGT
GATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTAAGGT
Found at i:41784412 original size:89 final size:88
Alignment explanation
Indices: 41784344--41784556 Score: 354
Period size: 89 Copynumber: 2.4 Consensus size: 88
41784334 ATTATCGGTT
41784344 TTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAAC
1 TTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAAC
41784409 TTCAGGAGGATAAGACTTGCTTA
66 TTCAGGAGGATAAGACTTGCTTA
* * *
41784432 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
1 -TTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
41784497 CTTCAGGAGGATAAGACTTGCTTA
65 CTTCAGGAGGATAAGACTTGCTTA
* * *
41784521 CTTAGTCTGCTCCACTGCAACTTTAGGGAAATAAGA
1 -TTAATCTGCTCCACTACAACTTCAGGGAAATAAGA
41784557 CTAGATGCGA
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 119 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (88 bp):
TTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAAC
TTCAGGAGGATAAGACTTGCTTA
Found at i:41784754 original size:305 final size:302
Alignment explanation
Indices: 41784132--41784772 Score: 866
Period size: 305 Copynumber: 2.1 Consensus size: 302
41784122 TCGGCTTTAA
* * *
41784132 TCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTCATCTTTAGTCTGCCTCGCTGCAACTTCA
1 TCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
* * *
41784197 GGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAATAGGTGTGA
66 GGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGAATAGATGCGA
* *
41784262 TCTGCTCTCTGCAACTTTAGAGAGATAAGATCTAAGGTTTTAATCTATCCACTGCAACTTCAGCG
131 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCGATCCACTGCAACTTCAGCG
* *
41784327 AGATAGAATTATCGGTTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCCATCTTCA
196 AGATAGAATTATCGGCTTTAATCTGCTCCACTACAACTTCAGAGAAATAAGA--T-CCATCTTCA
* *
41784392 GTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
258 ATCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAG
*
41784437 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
1 TCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
* * *
41784502 GGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAAATAAGACTAGATGCGA
66 GGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGAATAGATGCGA
* * *
41784567 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTTAGG
131 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAAT-CGATCCACTGCAACTTCAGC
* ** *
41784632 GAGATAGGATTATCGGCTTTAATCTGCTCCACTGTAACTTCAGAGAGATAAGA-CCGATCATTCT
195 GAGATAGAATTATCGGCTTTAATCTGCTCCACTACAACTTCAGAGAAATAAGATCC-ATC-TTC-
* * *
41784696 AATCCACT-CCTC-CT-CAACTTTAGG-GAGATAGGA-TTTATT-CATTCAG
257 AAT---CTGCCTCACTGCAACTTCAGGAG-GATAAGACTTGATTAC-TT-AG
41784742 TCTGAC-CCACTGCAATTTCAGGGAGATAAGA
1 TCTG-CTCCACTGCAATTTCAGGGAGATAAGA
41784773 CCAGATGCGA
Statistics
Matches: 298, Mismatches: 27, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
302 2 0.01
303 4 0.01
304 10 0.03
305 210 0.70
306 66 0.22
307 4 0.01
308 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (302 bp):
TCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
GGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGAATAGATGCGA
TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCGATCCACTGCAACTTCAGCG
AGATAGAATTATCGGCTTTAATCTGCTCCACTACAACTTCAGAGAAATAAGATCCATCTTCAATC
TGCCTCACTGCAACTTCAGGAGGATAAGACTTGATTACTTAG
Found at i:41784849 original size:84 final size:85
Alignment explanation
Indices: 41784751--41785025 Score: 233
Period size: 84 Copynumber: 3.2 Consensus size: 85
41784741 GTCTGACCCA
*
41784751 CTGCAATTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCC
1 CTGCAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCC
41784816 AAGGTTTTAATCCGCTCCTC
66 AAGGTTTTAATCCGCTCCTC
* * *** * * * * * * *
41784836 CT-CAACTTTAGGGAGATAGGATTTGTTCATTCAATCTGCCCCACAGCAA-TTTCAGGGGGATAA
1 CTGCAACTTCAGGGAGATAAGACCAG---ATGCGATCTG-CTCTCTGCAACTTT-AGAGAGATAA
* * * *
41784899 GA--C---TTTCTTACTCAGTCTGCTCC
61 GATCCAAGGTT-TTAATCCG-CTCCT-C
* * *
41784922 ACTGCAACTTCAGAGAGATAAGACCAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATC
1 -CTGCAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATC
41784987 CAAGGTTTTAATCCGCTCCT-
65 CAAGGTTTTAATCCGCTCCTC
41785007 CTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGGGAGATA
41785026 GGATTATCGG
Statistics
Matches: 137, Mismatches: 37, Indels: 33
0.66 0.18 0.16
Matches are distributed among these distances:
83 2 0.01
84 58 0.42
85 15 0.11
86 3 0.02
87 17 0.12
88 40 0.29
89 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (85 bp):
CTGCAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCC
AAGGTTTTAATCCGCTCCTC
Found at i:41786321 original size:11 final size:11
Alignment explanation
Indices: 41786296--41786330 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
41786286 GGCCTCTCCA
41786296 TTTTCTTTCTTC
1 TTTTCTTT-TTC
41786308 TTTTCTTTTTC
1 TTTTCTTTTTC
41786319 TTTTCTTTTTC
1 TTTTCTTTTTC
41786330 T
1 T
41786331 GAAATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:41794275 original size:26 final size:25
Alignment explanation
Indices: 41794244--41794304 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 25
41794234 CCCATTTTTT
* * *
41794244 AATAAACACCAAAAATTTATTTTAAA
1 AATAAAAAACAAAAAGTTATTTT-AA
*
41794270 AATAAAAAAATAAAAAGTTATTTTAA
1 AAT-AAAAAACAAAAAGTTATTTTAA
41794296 AATAAAAAA
1 AATAAAAAA
41794305 TAAATATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 6 0.20
26 8 0.27
27 16 0.53
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (25 bp):
AATAAAAAACAAAAAGTTATTTTAA
Found at i:41794291 original size:27 final size:25
Alignment explanation
Indices: 41794254--41794308 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 25
41794244 AATAAACACC
*
41794254 AAAAATTTATTTTAAAAATAAAAAAAT
1 AAAAAGTTATTTT-AAAAT-AAAAAAT
41794281 AAAAAGTTATTTTAAAATAAAAAAT
1 AAAAAGTTATTTTAAAATAAAAAAT
41794306 AAA
1 AAA
41794309 TATTTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 10 0.37
26 5 0.19
27 12 0.44
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAAAGTTATTTTAAAATAAAAAAT
Found at i:41794315 original size:25 final size:27
Alignment explanation
Indices: 41794254--41794316 Score: 94
Period size: 25 Copynumber: 2.4 Consensus size: 27
41794244 AATAAACACC
41794254 AAAAATTTATTTTAAAAATAAAAAAAT
1 AAAAATTTATTTTAAAAATAAAAAAAT
*
41794281 AAAAAGTTATTTT-AAAAT-AAAAAAT
1 AAAAATTTATTTTAAAAATAAAAAAAT
*
41794306 AAATATTTATT
1 AAAAATTTATT
41794317 ATATATCTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 16 0.48
26 5 0.15
27 12 0.36
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (27 bp):
AAAAATTTATTTTAAAAATAAAAAAAT
Found at i:41795612 original size:29 final size:30
Alignment explanation
Indices: 41795577--41795779 Score: 162
Period size: 30 Copynumber: 6.7 Consensus size: 30
41795567 TAAACCTTTC
* *
41795577 AAAATTTTGAAAAATTTTAATTAGA-CTCTT
1 AAAATTTT-AAAAATTTTAATTAAATCTCTA
* * *
41795607 AAATTTTTTAGAATTTTAATTAAA-C-CTA
1 AAAATTTTAAAAATTTTAATTAAATCTCTA
*
41795635 CAAAAGTTTTAAAAATTTTAATTAAAGCTCTA
1 -AAAA-TTTTAAAAATTTTAATTAAATCTCTA
* * * * * *
41795667 TAAGTTTTAGAAATTTTCATTAATTCTCTC
1 AAAATTTTAAAAATTTTAATTAAATCTCTA
*
41795697 AAAATTCTTAAAAATTTTAATTAAA-CCCTA
1 AAAATT-TTAAAAATTTTAATTAAATCTCTA
* * * * *
41795727 AAAATTTAAAAAATTCTCATTAAACCCCTCA
1 AAAATTTTAAAAATTTTAATTAAATCTCT-A
*
41795758 AAAATTATAAAAATTTTAATTA
1 AAAATTTTAAAAATTTTAATTA
41795780 GATGCTTACA
Statistics
Matches: 137, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
28 2 0.01
29 32 0.23
30 63 0.46
31 37 0.27
32 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.40
Consensus pattern (30 bp):
AAAATTTTAAAAATTTTAATTAAATCTCTA
Found at i:41795632 original size:60 final size:60
Alignment explanation
Indices: 41795561--41795795 Score: 203
Period size: 60 Copynumber: 3.9 Consensus size: 60
41795551 TTAAAAAGAG
* *
41795561 TTTCATTAAACCTTTCAAAATTTTGAAAAATTTTAATTAGACTCTTA-AATTTTTTAGAAT
1 TTTCATTAAACCTCTCAAAATTTT-AAAAATTTTAATTAAACTCTTACAATTTTTTAGAAT
* * * *
41795621 TTTAATTAAACCT-ACAAAAGTTTTAAAAATTTTAATTAAAGCTC-TATAA-GTTTTAGAAAT
1 TTTCATTAAACCTCTCAAAA-TTTTAAAAATTTTAATTAAA-CTCTTACAATTTTTTAG-AAT
** * * * ** *
41795681 TTTCATTAATTCTCTCAAAATTCTTAAAAATTTTAATTAAAC-CCTAAAAATTTAAAAAAT
1 TTTCATTAAACCTCTCAAAATT-TTAAAAATTTTAATTAAACTCTTACAATTTTTTAGAAT
* * * *
41795741 TCTCATTAAACCCCTCAAAAATTATAAAAATTTTAATTAGA-TGCTTACAATTTTT
1 TTTCATTAAACCTCTC-AAAATTTTAAAAATTTTAATTAAACT-CTTACAATTTTT
41795796 ATTAAGTTTT
Statistics
Matches: 141, Mismatches: 23, Indels: 21
0.76 0.12 0.11
Matches are distributed among these distances:
59 29 0.21
60 72 0.51
61 40 0.28
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.42
Consensus pattern (60 bp):
TTTCATTAAACCTCTCAAAATTTTAAAAATTTTAATTAAACTCTTACAATTTTTTAGAAT
Found at i:41795654 original size:30 final size:28
Alignment explanation
Indices: 41795547--41795779 Score: 160
Period size: 30 Copynumber: 7.8 Consensus size: 28
41795537 GGAGCCTTAC
* * *
41795547 AAATTTAAAAAGAGTTTCATTAAACCTTTCA
1 AAATTTTAAAA-ATTTTAATTAAACC--TCA
* *
41795578 AAATTTTGAAAAATTTTAATTAGACTCTTA
1 AAATTTT-AAAAATTTTAATTAAAC-CTCA
* * *
41795608 AATTTTTTAGAATTTTAATTAAACCTACA
1 AAATTTTAAAAATTTTAATTAAACCT-CA
*
41795637 AAAGTTTTAAAAATTTTAATTAAAGCTCTA
1 AAA-TTTTAAAAATTTTAATTAAACCTC-A
* * * *
41795667 TAAGTTTTAGAAATTTTCATTAATTCTCTCA
1 -AAATTTTAAAAATTTTAATTAA-AC-CTCA
*
41795698 AAATTCTTAAAAATTTTAATTAAACCCTAA
1 AAATT-TTAAAAATTTTAATTAAA-CCTCA
* * *
41795728 AAATTTAAAAAATTCTCATTAAACCCCTCAA
1 AAATTTTAAAAATTTTAATTAAA--CCTC-A
*
41795759 AAATTATAAAAATTTTAATTA
1 AAATTTTAAAAATTTTAATTA
41795780 GATGCTTACA
Statistics
Matches: 158, Mismatches: 32, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
28 2 0.01
29 33 0.21
30 62 0.39
31 53 0.34
32 8 0.05
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (28 bp):
AAATTTTAAAAATTTTAATTAAACCTCA
Found at i:41795771 original size:31 final size:28
Alignment explanation
Indices: 41795704--41795779 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 28
41795694 CTCAAAATTC
*
41795704 TTAAAAATTTTAATTAAACCCTAAAAAT
1 TTAAAAATTCTAATTAAACCCTAAAAAT
*
41795732 TTAAAAAATTCTCATTAAACCCCTCAAAAAT
1 TT-AAAAATTCTAATTAAA-CCCT-AAAAAT
*
41795763 TATAAAAATTTTAATTA
1 T-TAAAAATTCTAATTA
41795780 GATGCTTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 2 0.05
29 14 0.35
30 4 0.10
31 19 0.47
32 1 0.03
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (28 bp):
TTAAAAATTCTAATTAAACCCTAAAAAT
Found at i:41801819 original size:11 final size:13
Alignment explanation
Indices: 41801791--41801819 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
41801781 TACAAACAAT
41801791 TATATTAATCGAA
1 TATATTAATCGAA
41801804 TATATTAATCGAA
1 TATATTAATCGAA
41801817 TAT
1 TAT
41801820 GAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TATATTAATCGAA
Found at i:41804894 original size:26 final size:26
Alignment explanation
Indices: 41804858--41804910 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
41804848 TTTGGGGACT
41804858 AAGTTAGTTTATGAGTAAATCGAAGA
1 AAGTTAGTTTATGAGTAAATCGAAGA
41804884 AAGTTAGTTTATGAGTAAATCGAAGA
1 AAGTTAGTTTATGAGTAAATCGAAGA
41804910 A
1 A
41804911 GAAACAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.30
Consensus pattern (26 bp):
AAGTTAGTTTATGAGTAAATCGAAGA
Found at i:41813919 original size:44 final size:44
Alignment explanation
Indices: 41813847--41814765 Score: 718
Period size: 44 Copynumber: 20.9 Consensus size: 44
41813837 ACTTCCTACA
* * *
41813847 AATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * * *
41813891 AATACATGAAGACAAGACCTGCTTTCTTCGATCTACTTCACCACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CACC
* * *
41813936 AATATGGGAAGACAAGATCTGC-ATCTTTGATCCACTTC-CTACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACC
** * * * **
41813979 AATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCATGCC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * *
41814023 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CTACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACC
* * *
41814067 AATATAGGAAGAC-AGAATTTGC-ATCTTCGATCTATTTCACGCC
1 AATATAGGAAGACAAG-ATCTGCTATCTTCGATCTACTTCACACC
* * * * *
41814110 AATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACC
* * * * * *
41814155 AGTATGGGAAGACAAGATCT-ATATCTTGGATCCACTTC-CTATC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACC
* * * *
41814198 AATAATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCC
1 AAT-ATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * * * ** *
41814243 AATACATGAAGACAAGACCTGCTTTCAGCGATCTACTTCGCCACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACC
* * * *
41814288 AATATGGGAAGACAAGATCTGC-ATCTTGGATCCACTTC-CTATC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACC
* * * * *
41814331 AATATAGGAAGATAGGACCTGCCATCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * * * ** *
41814375 AATACATGAAGACAAGACCTGCTTTCAGCGATCTACTTCGCCACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACC
* * * *
41814420 AATATGGGAAGACAAGATCTGC-ATCTTGGATCCACTTC-CTATC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACC
* * * * *
41814463 AATATAGGAAGATAGGACCTGCCATCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * * ** * *
41814507 AATACATGAAGACAAGATCTGCTTTCAACGATCTACTTCGCCACT
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACC
* * * *
41814552 AATATGGGAAGACAAGATCTGC-ATCTTGGATCCACTTC-CTATC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACC
* * *
41814595 AATATAGGAAGATAGGA-CTTGCTATCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATC-TGCTATCTTCGATCTACTTCACACC
* * * * *
41814639 AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACC
* * * *
41814684 AATATGGGAAGACAAGATCTGC-GTCGTCGATCCACTTC-CTACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACC
* * *
41814727 AATATAGGAAGATAGGATCAGCTATCTTCGATCTACTTC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC
41814766 TTGCCCCGGG
Statistics
Matches: 672, Mismatches: 172, Indels: 62
0.74 0.19 0.07
Matches are distributed among these distances:
42 7 0.01
43 136 0.20
44 381 0.57
45 147 0.22
46 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
Found at i:41814166 original size:132 final size:131
Alignment explanation
Indices: 41814030--41814765 Score: 1157
Period size: 132 Copynumber: 5.6 Consensus size: 131
41814020 GCCAATACAT
* * * * * * **
41814030 GAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGACAGAATTTGCATCTTC
1 GAAGACAAGATCTGC-ATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCATCTTC
* * * *
41814095 GATCTATTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
65 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
41814160 GG
130 GG
**
41814162 GAAGACAAGATCTATATCTTGGATCCACTTCCTATCAATAATAGGAAGATAGGACCTGCTATCTT
1 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAAT-ATAGGAAGATAGGACCTGC-ATCTT
* *
41814227 CGATCTACTTCACGCCAATACATGAAGACAAGACCTGCTTTCAGCGATCTACTTCGCCACCAATA
64 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
41814292 TGG
129 TGG
41814295 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCCATCTTC
1 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTG-CATCTTC
* *
41814360 GATCTACTTCACGCCAATACATGAAGACAAGACCTGCTTTCAGCGATCTACTTCGCCACCAATAT
65 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
41814425 GG
130 GG
41814427 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCCATCTTC
1 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTG-CATCTTC
** *
41814492 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCAACGATCTACTTCGCCACTAATAT
65 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
41814557 GG
130 GG
*
41814559 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACTTGCTATCTTC
1 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGC-ATCTTC
41814624 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
65 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
41814689 GG
130 GG
* * * * * *
41814691 GAAGACAAGATCTGCGTCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCAGCTATCTTC
1 GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGC-ATCTTC
41814756 GATCTACTTC
65 GATCTACTTC
41814766 TTGCCCCGGG
Statistics
Matches: 568, Mismatches: 32, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
131 21 0.04
132 442 0.78
133 105 0.18
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (131 bp):
GAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCATCTTCG
ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATG
G
Found at i:41814520 original size:352 final size:351
Alignment explanation
Indices: 41813833--41814526 Score: 982
Period size: 352 Copynumber: 2.0 Consensus size: 351
41813823 CTGTTTTTCA
* *
41813833 ATCCACTTCCTACAAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACAAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
**
41813898 GAAGACAAGACCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGACCTGCTTTCAGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTT
* * ** * *
41813963 TGATCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCATGCCAATAC
131 GGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCCATCTTCGATCTACTTCACGCCAATAC
* ** * *
41814028 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGACAGAATTTGCATCT
196 ATGAAGACAAGACCTGCTTTCAGCGATCTACTTCCCACCAATATAGGAAGACAGAATCTGCATCT
* * * * * ** * *
41814093 TCGATCTATTTCACGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
261 TCGATCCACTTCACACCAATACAGGAAGATAAGACCTGCCATCTTCGATCTACTTCGACACCAAT
**
41814158 ATGGGAAGACAAGATCTATATCTTGG
326 ACAGGAAGACAAGATCTATATCTTGG
*
41814184 ATCCACTTCCTATC-AATAATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
1 ATCCACTTCCTA-CAAAT-ATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
*
41814248 ATGAAGACAAGACCTGCTTTCAGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
64 ATGAAGACAAGACCTGCTTTCAGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATC
* *
41814313 TTGGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCCATCTTCGATCTACTTCACGCCAAT
129 TTGGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCCATCTTCGATCTACTTCACGCCAAT
*
41814378 ACATGAAGACAAGACCTGCTTTCAGCGATCTACTTCGCCACCAATATGGGAAGACA-AGATCTGC
194 ACATGAAGACAAGACCTGCTTTCAGCGATCTACTTC-CCACCAATATAGGAAGACAGA-ATCTGC
* * * * *
41814442 ATCTTGGATCCACTTC-CTATCAATATAGGAAGATAGGACCTGCCATCTTCGATCTACTTC-ACG
257 ATCTTCGATCCACTTCAC-ACCAATACAGGAAGATAAGACCTGCCATCTTCGATCTACTTCGACA
*
41814505 CCAATACATGAAGACAAGATCT
321 CCAATACAGGAAGACAAGATCT
41814527 GCTTTCAACG
Statistics
Matches: 301, Mismatches: 37, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
351 15 0.05
352 217 0.72
353 69 0.23
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (351 bp):
ATCCACTTCCTACAAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
GAAGACAAGACCTGCTTTCAGCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTT
GGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCCATCTTCGATCTACTTCACGCCAATAC
ATGAAGACAAGACCTGCTTTCAGCGATCTACTTCCCACCAATATAGGAAGACAGAATCTGCATCT
TCGATCCACTTCACACCAATACAGGAAGATAAGACCTGCCATCTTCGATCTACTTCGACACCAAT
ACAGGAAGACAAGATCTATATCTTGG
Found at i:41814942 original size:45 final size:45
Alignment explanation
Indices: 41814880--41815034 Score: 127
Period size: 45 Copynumber: 3.3 Consensus size: 45
41814870 GATCTGCAAT
*
41814880 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
41814925 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---ATC---G-G
*
41814975 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
41815020 CTTCAATGTACTCCA
1 CTTCAATCTACTCCA
41815035 TTGTGGTCAG
Statistics
Matches: 81, Mismatches: 18, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
42 11 0.14
43 3 0.04
45 29 0.36
46 4 0.05
49 4 0.05
50 16 0.20
52 3 0.04
53 11 0.14
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:41814983 original size:95 final size:95
Alignment explanation
Indices: 41814878--41815071 Score: 370
Period size: 95 Copynumber: 2.0 Consensus size: 95
41814868 AAGATCTGCA
41814878 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
41814943 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
41814973 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCATTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
41815038 TGGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
41815068 ATCT
1 ATCT
41815072 GCTTCGCTGC
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Done.