Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 169 of 352
Found at i:55314685 original size:42 final size:42
Alignment explanation
Indices: 55314597--55314751 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 42
55314587 CTGAGACTAT
* * * * * *
55314597 GTGTAAGACCATATTTGGGATATGGCATCAATTTAAAACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
*
55314639 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* * * * **
55314681 GTGTAAAACCATAGCTGGGCTATTGGCATCGATACGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTC
* *
55314724 ATGTAACACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
55314752 TGGTATGATA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 60 0.64
43 34 0.36
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
Found at i:55314729 original size:43 final size:42
Alignment explanation
Indices: 55314640--55314751 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
55314630 TAAAACTTCG
* * ****
55314640 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTTG
1 TGTAAAACCATATCTGGGATATGGCATCGATACGAGATCCCA
* *
55314682 TGTAAAACCATAGCTGGGCTATTGGCATCGATACGAGATCCCA
1 TGTAAAACCATATCTGGGATA-TGGCATCGATACGAGATCCCA
*
55314725 TGTAACACCATATCTGGGATATGGCAT
1 TGTAAAACCATATCTGGGATATGGCAT
55314752 TGGTATGATA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAAACCATATCTGGGATATGGCATCGATACGAGATCCCA
Found at i:55317289 original size:44 final size:44
Alignment explanation
Indices: 55317226--55317803 Score: 206
Period size: 44 Copynumber: 12.7 Consensus size: 44
55317216 ATTACAGTAG
* *
55317226 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * * *
55317270 CAAATCCTATATCCCTGAAGATGCAGTGGATC-AGATCAAAGTTAATA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGAT-GAAG---CTA
* * * *
55317317 GCGAATCTTATCTCCCTGAAGTTGCAGTGGACCAAGATGAAG-TAA
1 -CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCT-A
* * * * * * *
55317362 TAAATCCTATATCCCTGAAGATATAGTAGACGGATCGAAG-TTAA--TA
1 CAAATCTTATATCCCTAAAG-T-T-GCAG-TGGAGC-AAGATGAAGCTA
* * *
55317408 GCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATGAAGCTA
1 -CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * * * *** *
55317453 TAAATCCTATAT-CATGAAGATACAGTGGA-TTGGATCGAAGTTAATA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGAT-GAAG---CTA
* * * * *
55317499 GCAAATCTTATCTCTCTAAAGTTGCAATGGAGTAAGATGAAACTA
1 -CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * *
55317544 TAAATCCTATATCCCTAAAGATGCAATGGA-CAAGATCGAAGTTAATA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGAT-GAAG---CTA
* * * *
55317591 GCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAAGCTA
1 -CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * * * *
55317636 TAAATCCTATATCCCTAAAGATGCAATGGATCGAATCAAAATTATA-ATA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGA--G---CAAGATGA-AGCTA
* * * * * *
55317685 TCAAATATTTTCTCCCTAAAGTTACAGTGAAGCAAGATAAAGCTA
1 -CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
* * ***
55317730 CAAATCTTGTA-CCTCTGAAGTTGCAGTGG-GTTGGAATGAAGCTA
1 CAAATCTTATATCC-CTAAAGTTGCAGTGGAGCAAG-ATGAAGCTA
* *
55317774 CAAATCCTATATCCCTAAAGTTGTAGTGGA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGA
55317804 ATGGATTGAA
Statistics
Matches: 386, Mismatches: 107, Indels: 81
0.67 0.19 0.14
Matches are distributed among these distances:
42 6 0.02
43 36 0.09
44 162 0.42
45 19 0.05
46 6 0.02
47 32 0.08
48 78 0.20
49 25 0.06
50 22 0.06
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (44 bp):
CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
Found at i:55317353 original size:92 final size:92
Alignment explanation
Indices: 55317128--55317758 Score: 630
Period size: 92 Copynumber: 6.8 Consensus size: 92
55317118 TGAAGCTATT
* * * * ** * *
55317128 ATAGCAAGTCTTATCTCTCTGAAGTTGCAATGGAGCAAGACAAAGCTACAAATCCTATATCCCTA
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAAATCCTATATCCCTG
** * ** *
55317193 AATTTGCAATATAAT-AGATTGAAA-TTA
66 AAGATGCAGT-GGATCAGA-TCAAAGTTA
* *
55317220 CAGTAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCC
1 -A-TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAAATCCTATATCCC
55317285 TGAAGATGCAGTGGATCAGATCAAAGTTA
64 TGAAGATGCAGTGGATCAGATCAAAGTTA
* * *
55317314 ATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGACCAAGATGAAG-TAATAAATCCTATATCCCT
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCT-ATAAATCCTATATCCCT
** * * *
55317378 GAAGATATAGTAGA-CGGATCGAAGTTA
65 GAAGATGCAGTGGATCAGATCAAAGTTA
* * *
55317405 ATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATGAAGCTATAAATCCTATAT-CATG
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAAATCCTATATCCCTG
* ** *
55317469 AAGATACAGTGGATTGGATCGAAGTTA
66 AAGATGCAGTGGATCAGATCAAAGTTA
* * * * *
55317496 ATAGCAAATCTTATCTCTCTAAAGTTGCAATGGAGTAAGATGAAACTATAAATCCTATATCCCTA
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAAATCCTATATCCCTG
* *
55317561 AAGATGCAATGGA-CAAGATCGAAGTTA
66 AAGATGCAGTGGATC-AGATCAAAGTTA
* * * *
55317588 ATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAAGCTATAAATCCTATATCCCTA
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAAATCCTATATCCCTG
* *
55317653 AAGATGCAATGGATC-GAATCAAAATTATA
66 AAGATGCAGTGGATCAG-ATC-AAAGT-TA
* * * * * * * * *
55317682 ATATCAAATATTTTCTCCCTAAAGTTACAGTGAAGCAAGATAAAGCTACAAATCTTGTA-CCTCT
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAAATCCTATATCC-CT
*
55317746 GAAGTTGCAGTGG
65 GAAGATGCAGTGG
55317759 GTTGGAATGA
Statistics
Matches: 464, Mismatches: 61, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
90 14 0.03
91 134 0.29
92 168 0.36
93 14 0.03
94 134 0.29
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (92 bp):
ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTATAAATCCTATATCCCTG
AAGATGCAGTGGATCAGATCAAAGTTA
Found at i:55317460 original size:183 final size:183
Alignment explanation
Indices: 55317128--55317707 Score: 675
Period size: 183 Copynumber: 3.1 Consensus size: 183
55317118 TGAAGCTATT
* * * * * *
55317128 ATAGCAAGTCTTATCTCTCTGAAGTTGCAATGGAGCAAGA-CAAAGCTACAAATCCTATATCCCT
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGACCAAGATGAAA-CTATAAATCCTATATCCCT
** * * * * * * *
55317192 AAATTTGCAATATA-ATAGATTGAAATTACAGTAGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
65 AAAGATACAATAGACA-AGATCGAAGTTA-A-TAGCGAATCTTATCTCCCTAAAGTTGTAGTGGA
*
55317256 GCAAGATGAAGCTACAAATCCTATATCCCTGAAGATGCAGTGGATCAGATCAAAGTTA
127 GCAAGATGAAGCTATAAATCCTATATCCCTGAAGATGCAGTGGATC-GATCAAAGTTA
* * * *
55317314 ATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGACCAAGATG-AAGTAATAAATCCTATATCCCT
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGACCAAGATGAAACT-ATAAATCCTATATCCCT
* * * *
55317378 GAAGATATAGTAGAC-GGATCGAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCA
65 AAAGATACAATAGACAAGATCGAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCA
* * * *
55317442 AGATGAAGCTATAAATCCTATAT-CATGAAGATACAGTGGATTGGATCGAAGTTA
130 AGATGAAGCTATAAATCCTATATCCCTGAAGATGCAGTGGA-TCGATCAAAGTTA
* **
55317496 ATAGCAAATCTTATCTCTCTAAAGTTGCAATGGAGTAAGATGAAACTATAAATCCTATATCCCTA
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGACCAAGATGAAACTATAAATCCTATATCCCTA
* *
55317561 AAGATGCAATGGACAAGATCGAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAA
66 AAGATACAATAGACAAGATCGAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAA
* * * *
55317626 GATAAAGCTATAAATCCTATATCCCTAAAGATGCAATGGATCGAATCAAAATTATA
131 GATGAAGCTATAAATCCTATATCCCTGAAGATGCAGTGGATCG-ATC-AAAGT-TA
* * *
55317682 ATATCAAATATTTTCTCCCTAAAGTT
1 ATAGCAAATCTTATCTCCCTAAAGTT
55317708 ACAGTGAAGC
Statistics
Matches: 333, Mismatches: 51, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
182 88 0.26
183 131 0.39
184 17 0.05
185 13 0.04
186 84 0.25
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (183 bp):
ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGACCAAGATGAAACTATAAATCCTATATCCCTA
AAGATACAATAGACAAGATCGAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAA
GATGAAGCTATAAATCCTATATCCCTGAAGATGCAGTGGATCGATCAAAGTTA
Found at i:55317796 original size:274 final size:272
Alignment explanation
Indices: 55317223--55317735 Score: 679
Period size: 274 Copynumber: 1.9 Consensus size: 272
55317213 GAAATTACAG
* * * *
55317223 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGA
1 TAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAACTACAAATCCTATATCCCTAA
* *
55317288 AGATGCAGTGGATCAGATCAAAGTTAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGACCAAG
66 AGATGCAATGGATCAGATCAAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGACCAAG
* * * * * * * *
55317353 ATGAAGTAATAAATCCTATATCCCTGAAGATATAGTAGACGGATCGAAGTTAATAGCGAATCTTA
131 ATAAAGTAATAAATCCTATATCCCTAAAGATACAATAGACGAATCAAAGTTAATAGCAAATATTA
** * * *
55317418 TCTCCCTAAAGTTGTAGTGGAGCAAGATGAAGCTATAAATCCTATATCATGAAGATACAGTGGAT
196 TCTCCCTAAAGTTACAGTGAAGCAAGATAAAGCTACAAATCCTATATCATGAAGATACAGTGGAT
55317483 TGGATCGAAGTTAA
261 TGGATCGAAG-T-A
* * *
55317497 TAGCAAATCTTATCTCTCTAAAGTTGCAATGGAGTAAGATGAAACTATAAATCCTATATCCCTAA
1 TAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAACTACAAATCCTATATCCCTAA
* * *
55317562 AGATGCAATGGA-CAAGATCGAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAA
66 AGATGCAATGGATC-AGATCAAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGACCAA
* * * *
55317626 GATAAAGCT-ATAAATCCTATATCCCTAAAGATGCAATGGATCGAATCAAAATTATAATATCAAA
130 GATAAAG-TAATAAATCCTATATCCCTAAAGATACAATAGA-CGAATC-AAAGT-TAATAGCAAA
*
55317690 TATTTTCTCCCTAAAGTTACAGTGAAGCAAGATAAAGCTACAAATC
191 TATTATCTCCCTAAAGTTACAGTGAAGCAAGATAAAGCTACAAATC
55317736 TTGTACCTCT
Statistics
Matches: 204, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
273 1 0.00
274 147 0.72
275 6 0.03
276 3 0.01
277 47 0.23
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (272 bp):
TAGCAAATCTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAACTACAAATCCTATATCCCTAA
AGATGCAATGGATCAGATCAAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGACCAAG
ATAAAGTAATAAATCCTATATCCCTAAAGATACAATAGACGAATCAAAGTTAATAGCAAATATTA
TCTCCCTAAAGTTACAGTGAAGCAAGATAAAGCTACAAATCCTATATCATGAAGATACAGTGGAT
TGGATCGAAGTA
Found at i:55322852 original size:25 final size:25
Alignment explanation
Indices: 55322831--55322889 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
55322821 CAGCTCGTAT
*
55322831 GAGCTTACTATTATTCAACTCGGAG
1 GAGCTTACCATTATTCAACTCGGAG
*
55322856 GAGCTTACCATTATTCAGCTCGGAG
1 GAGCTTACCATTATTCAACTCGGAG
*
55322881 GAGTTTACC
1 GAGCTTACC
55322890 GTTTATAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (25 bp):
GAGCTTACCATTATTCAACTCGGAG
Found at i:55331822 original size:42 final size:42
Alignment explanation
Indices: 55331776--55331865 Score: 180
Period size: 42 Copynumber: 2.1 Consensus size: 42
55331766 GGTCCAATTG
55331776 TATTTTTGGTCCTTTCGTTTTTTCCCCTTTTTAATTTCATCC
1 TATTTTTGGTCCTTTCGTTTTTTCCCCTTTTTAATTTCATCC
55331818 TATTTTTGGTCCTTTCGTTTTTTCCCCTTTTTAATTTCATCC
1 TATTTTTGGTCCTTTCGTTTTTTCCCCTTTTTAATTTCATCC
55331860 TATTTT
1 TATTTT
55331866 ATTATTATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.10, C:0.22, G:0.07, T:0.61
Consensus pattern (42 bp):
TATTTTTGGTCCTTTCGTTTTTTCCCCTTTTTAATTTCATCC
Found at i:55342192 original size:87 final size:87
Alignment explanation
Indices: 55342089--55342264 Score: 325
Period size: 87 Copynumber: 2.0 Consensus size: 87
55342079 TAAAATCAAT
* *
55342089 GGCGCTTCTGATGATGCCATTCGCCTTCTGTTATTCCCCTTTTCATTAAGGAATAAAGCTAAAAA
1 GGCGCTTCTGATGATGCCATTCGCCTTCGGCTATTCCCCTTTTCATTAAGGAATAAAGCTAAAAA
55342154 GTGGTTGAACTCGTTACCACAA
66 GTGGTTGAACTCGTTACCACAA
*
55342176 GGCGCTTCTGATGATGCCATTCGCCTTCGGCTATTCCCCTTTTCATTAAGGAATAAGGCTAAAAA
1 GGCGCTTCTGATGATGCCATTCGCCTTCGGCTATTCCCCTTTTCATTAAGGAATAAAGCTAAAAA
55342241 GTGGTTGAACTCGTTACCACAA
66 GTGGTTGAACTCGTTACCACAA
55342263 GG
1 GG
55342265 GTCAATCACT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (87 bp):
GGCGCTTCTGATGATGCCATTCGCCTTCGGCTATTCCCCTTTTCATTAAGGAATAAAGCTAAAAA
GTGGTTGAACTCGTTACCACAA
Found at i:55346839 original size:6 final size:6
Alignment explanation
Indices: 55346828--55346853 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
55346818 TTTAAGTCCA
55346828 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
55346854 CTTTCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:55347866 original size:4 final size:4
Alignment explanation
Indices: 55347859--55347919 Score: 122
Period size: 4 Copynumber: 15.2 Consensus size: 4
55347849 ACAAAAAAAA
55347859 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
55347907 ACAT ACAT ACAT A
1 ACAT ACAT ACAT A
55347920 TTGATAGTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:55359489 original size:125 final size:125
Alignment explanation
Indices: 55359335--55359584 Score: 464
Period size: 125 Copynumber: 2.0 Consensus size: 125
55359325 TGGTTTCCAA
* *
55359335 ATTCATGAAAGAACGAGTTGTCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGTTAATAA
1 ATTCATGAAAGAACGAGTTGCCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
*
55359400 ATTGAGTTTAGTTAAAGCAATTGTCTAAGTTTATTTATGTTATAATTATTGCAAATTGTG
66 ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
*
55359460 ATTCATGAAAGAACGAGTTGCCGTGGAATATTTTTTCTGAATGTTATTAAGCATGTCGATAATAA
1 ATTCATGAAAGAACGAGTTGCCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
55359525 ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
66 ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
55359585 TTTAATTTTG
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 121 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.41
Consensus pattern (125 bp):
ATTCATGAAAGAACGAGTTGCCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
Found at i:55364573 original size:16 final size:17
Alignment explanation
Indices: 55364552--55364584 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55364542 TTAGGAAACG
55364552 TACATAA-AAAAATATA
1 TACATAATAAAAATATA
*
55364568 TACATAATATAAATATA
1 TACATAATAAAAATATA
55364585 ATATATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
TACATAATAAAAATATA
Found at i:55366326 original size:91 final size:91
Alignment explanation
Indices: 55366216--55366382 Score: 230
Period size: 91 Copynumber: 1.8 Consensus size: 91
55366206 AATAGACAAT
* **
55366216 AAAAATAGAAATTGAAAATAGC-TCAGCGTGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTGAAAATA-CTTCAGCGTGTGA-CCTAAGGCTCAACTCACCTCTCGCAATACA
55366279 AGTCGATTTTTTTGAAAGGCAAAAATTG
64 AGTCGATTTTTTTGAAAGGCAAAAATTG
* * **
55366307 AAAAACAGAAATTGAAAATACTTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACAAG
1 AAAAACAGAAATTGAAAATACTTCAGCGTGTGACCTAAGGCTCAACTCACCTCTCGCAATACAAG
*
55366372 TTGATTTTTTT
66 TCGATTTTTTT
55366383 TTTTGACAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 3 0.05
91 63 0.95
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (91 bp):
AAAAACAGAAATTGAAAATACTTCAGCGTGTGACCTAAGGCTCAACTCACCTCTCGCAATACAAG
TCGATTTTTTTGAAAGGCAAAAATTG
Found at i:55366606 original size:74 final size:73
Alignment explanation
Indices: 55366485--55366699 Score: 277
Period size: 74 Copynumber: 2.9 Consensus size: 73
55366475 TTAAAAGCAG
* * * * *
55366485 AAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
55366550 GAAAGACAA
66 GAAA-ACAA
* * **
55366559 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* * *
55366624 TTTACAACAG
64 TTGAAAACAA
*
55366634 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
55366699 T
65 T
55366700 TTGAAAAATA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
74 56 0.46
75 56 0.46
76 9 0.07
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (73 bp):
AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAACAA
Found at i:55366667 original size:75 final size:75
Alignment explanation
Indices: 55366478--55367574 Score: 549
Period size: 75 Copynumber: 14.0 Consensus size: 75
55366468 TATAAATTTA
* * * *
55366478 AAAG-CAGAAATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
*
55366541 TGA-TTTTTTG
65 TGATTTTTTTT
* * * * **
55366551 AAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
55366616 GATTTTTTTTT
66 GA-TTTTTTTT
*
55366627 ACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
55366691 GAATTTTTTTT
66 G-ATTTTTTTT
* * * * ** *** * * * * *
55366702 GAAAAATATAAATTGAAA--AGCAGAAATTGAAATTACCTCAATGTGCCTTGAGGCTCAACTCAC
1 -AAAGACAGAAATTGAAATTACCTCAGCGTG----T-CCT-GA-G-G-C-TCA-ACTCACCTCTC
* *
55366765 -C--TCTCGCAATATGAGTTGATTTTTT
54 GCAATAT-G-AGT-TGA-TT--TTTTTT
* * * * * **
55366790 GAAAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGT
1 -AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
55366855 TGATTTTTTTG
65 TGATTTTTTTT
*
55366866 ACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
55366930 GAATTTGTTTG
66 G-ATTTTTTTT
* * * * ** *** * * * * *
55366941 AAAAATATAAATTGAAA--AGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCAC-
1 AAAGACAGAAATTGAAATTACCTCAGCGTG----T-CCT-GA-G-G-C-TCA-ACTCACCTCTCG
* * * **
55367003 C--TCTCGCAATATGA-GTTGATT
55 CAATAT-G-AGT-TGATTTTTTTT
** * ** *
55367024 ATTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTCGTAATATG
1 AAAGAC----AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
***
55367089 AGTTGATTTTTGAAA
62 AGTTGATTTTT-TTT
** *** * ** *
55367104 AATAGATTGAAACAAAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAA
1 AA-AGACAGAAA-TTGAAATT-AC-CT-CAGC-GTGT--CCTGAGGCTCAACTCACCTCTCGCAA
*
55367169 TATGAGTTGA--TTTTTG
58 TATGAGTTGATTTTTTTT
* *
55367185 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
**
55367250 GATTTTTGAAAAACAT
66 GATTTTT------TTT
* * * **
55367266 AAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 AAA--G-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
55367331 GTTGATTTTTTTTTT
63 GTTGA--TTTTTTTT
* * * * **
55367346 GAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 -AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
55367411 TGATTTTTTTG
65 TGATTTTTTTT
* * * ** **
55367422 AAAGACAAAAATTGAAAATACCTCAGCATGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
55367487 GATTTTTTTTTTT
66 GA---TTTTTTTT
*
55367500 GACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
55367564 TGAATTTTTTT
65 TGATTTTTTTT
55367575 GAAAAATATA
Statistics
Matches: 780, Mismatches: 162, Indels: 162
0.71 0.15 0.15
Matches are distributed among these distances:
73 39 0.05
74 110 0.14
75 162 0.21
76 36 0.05
77 16 0.02
78 142 0.18
79 29 0.04
80 21 0.03
81 18 0.02
82 15 0.02
83 11 0.01
84 103 0.13
85 19 0.02
86 18 0.02
87 10 0.01
88 21 0.03
89 5 0.01
90 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (75 bp):
AAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTT
Found at i:55367040 original size:73 final size:72
Alignment explanation
Indices: 55366952--55367572 Score: 442
Period size: 78 Copynumber: 8.0 Consensus size: 72
55366942 AAAATATAAA
* *
55366952 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
55367017 GTTGATTA
65 GTTGATTT
* * ** *
55367025 TTGACAAACAGAAATTGAAATTACCTCAGTGTGTCC-TGAGGCTCAACTCATTTCTCGTAATATG
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
55367089 AGTTGATTT
64 AGTTGATTT
* * * ** * * * * * *
55367098 TTGAAAA-ATAGATTGAAACAAAAAAT-TGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACC
1 TTGAAAACAGAAATTG-AA-AATACCTCAG-C-GTGCCT---TGAGGCTC-A-----A-CTCACC
55367161 TCTCGCAATATGAGTTGATTT
52 TCTCGCAATATGAGTTGATTT
55367182 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
1 TTG-AAAACAGAAATTGAAAATACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
55367246 AGTTGATTT
64 AGTTGATTT
* * * **
55367255 TTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
1 TTG---------AA---AACAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTC
55367320 TCGCAATATGAGTTGATTTTTTTT
54 TCGCAATATGAGTTGA-----TTT
* * * **
55367344 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
55367409 GTTGATTTTT
65 GTTGA--TTT
* * ** **
55367419 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTATTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
55367484 GTTGATTTTTTTTT
65 GTTGA------TTT
* *
55367498 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGA
55367562 GTTGAATTT
65 GTTG-ATTT
55367571 TT
1 TT
55367573 TTGAAAAATA
Statistics
Matches: 452, Mismatches: 51, Indels: 90
0.76 0.09 0.15
Matches are distributed among these distances:
71 6 0.01
72 6 0.01
73 104 0.23
74 7 0.02
75 74 0.16
77 6 0.01
78 114 0.25
79 12 0.03
80 7 0.02
81 3 0.01
83 3 0.01
84 91 0.20
85 7 0.02
86 6 0.01
89 6 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTT
Found at i:55367137 original size:84 final size:84
Alignment explanation
Indices: 55367036--55367189 Score: 247
Period size: 84 Copynumber: 1.8 Consensus size: 84
55367026 TGACAAACAG
* * ** *
55367036 AAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
55367101 AAAAATAGATTGAAACAAA
66 AAAAATAGATTGAAACAAA
55367120 AAATTGACAA-TACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGA-AATTACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
55367184 GAAAAA
65 GAAAAA
55367190 CAGAAATTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
84 62 0.97
85 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (84 bp):
AAATTGAAATTACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAATAGATTGAAACAAA
Found at i:55367175 original size:157 final size:160
Alignment explanation
Indices: 55366788--55367737 Score: 982
Period size: 157 Copynumber: 5.9 Consensus size: 160
55366778 AGTTGATTTT
* * * * * * **
55366788 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
55366853 GTTGATTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
65 GTTGA-TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
55366917 CGCAATATGAGTTGAATTTGTTTGAAAAATATAAA
129 CGCAATATGAGTTG-A-TT-TTTGAAAAATATAAA
55366952 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * **
55367017 GTTGA-TTATTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTC
65 GTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* *
55367081 GTAATATGAGTTGATTTTTG-AAAA-ATAGA
130 GCAATATGAGTTGATTTTTGAAAAATATAAA
* ** **
55367110 TTG-AAACAAAAAATTGACAA-TACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAC-AGAAATTGA-AATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATG
*
55367173 AGTTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
64 AGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
55367237 CGCAATATGAGTTGATTTTTGAAAAACATAAA
129 CGCAATATGAGTTGATTTTTGAAAAATATAAA
* * **
55367269 TTG--AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * **
55367332 TTGATTTTTTTTTTGA-AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATT
66 TTGA----TTTTTTGACAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
* * *
55367396 TCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAA
126 TCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAA
* ** * * ** * * *
55367433 TTG-AAA-A-TACCTCAGCATGTA--TTGA-G-G-C-TCA-ACTC-A-T---TTCTCGCAATATG
1 TTGAAAACAGAAATTGA-AAT-TACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATG
*
55367483 AGTTGATTTTTTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA
64 AGTTGA-----TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
55367547 CCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAA
124 CCTCTCGCAATATGAGTTG-A--TTTTTGAAAAATATAAA
* * *
55367587 TTTAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGA
1 TTGAAAA-CAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
** *
55367652 GTTGATTTTTTTTGA-AAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCT
65 GTTGA--TTTTTTGACAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT
55367716 CTCGCAATATGAGTTGATTTTT
127 CTCGCAATATGAGTTGATTTTT
55367738 TTGAAACAGA
Statistics
Matches: 670, Mismatches: 77, Indels: 79
0.81 0.09 0.10
Matches are distributed among these distances:
153 75 0.11
154 32 0.05
155 3 0.00
156 6 0.01
157 182 0.27
158 24 0.04
159 14 0.02
160 6 0.01
161 6 0.01
162 76 0.11
163 73 0.11
164 81 0.12
165 18 0.03
166 57 0.09
168 17 0.03
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (160 bp):
TTGAAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTGAAAAATATAAA
Found at i:55367283 original size:478 final size:477
Alignment explanation
Indices: 55366216--55367737 Score: 1650
Period size: 478 Copynumber: 3.2 Consensus size: 477
55366206 AATAGACAAT
* * * *
55366216 AAAAATAGAAATTGAAAATAGCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAACGTGT---CCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * *
55366280 GTCGATTTTTTTGAAAGGCAAAAATTGAAAAACAGAAATTGAAAATACTTCGGCGTGTGACCTGA
63 GTTGA--TTTTTGAAA--CATAAATTG---AACAGAAATTGAAAATACCTCAGCGTGT--CTTGA
* * **
55366345 GGCTCAACTCGTCTCTCGCAATACAAGTTGATTTTTTTTTTTGACAACAGAAATTGAAATTACCT
119 GGCTCAACTCATTTCTCGCAATATGAGTTGA---TTTTTTTTGACAACAGAAATTGAAATTACCT
*
55366410 CAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAAT
181 CAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTTTTGAAAAATATAAAT
* * * *
55366475 TTAAAAGCAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAG
245 TGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
55366540 TTGATTTTTTGA-AAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTC
310 TTGATTTTTTGACAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTC
*
55366604 GCAATATGAGTTGATTTTT------T--TTTACAAC-AGAAATTGAAATTACCTCAGCGTGTCCT
374 GCAATATGAGTTGATTTTTGAAAAATAATTTA-AACAAGAAATTGAAATTACCTCAGCGTGCCCT
55366660 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTTG
438 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTTG
* *
55366703 AAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAATGTG-CCTTGAGGCTCAACTCACCT
1 ----------A---AAAA-CAGAAATTGAAAATACCTCAACGTGTCC-TGAGGCTCAACTCACCT
* *
55366767 CTCGCAATATGAGTTGATTTTT------TGAAA--G-ACAAAAATTGAAAATACCTCAGCATGTC
51 CTCGCAATATGAGTTGATTTTTGAAACAT-AAATTGAACAGAAATTGAAAATACCTCAGCGTGTC
*
55366823 TTAAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTGACAACAGAAATTGAAATTACC
115 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACC
*
55366887 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTGTTTGAAAAATATAAA
180 TCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT-TTTGAAAAATATAAA
55366952 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
244 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
55367017 GTTGA-TTATTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCATTTCTC
309 GTTGATTTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTC
* * * *
55367081 GTAATATGAGTTGATTTTTGAAAAATAGATTGAAACAAAAAATTGACAA-TACCTCAGTGTGCCC
374 GCAATATGAGTTGATTTTTGAAAAATA-ATTTAAACAAGAAATTGA-AATTACCTCAGCGTGCCC
*
55367145 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
437 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
*
55367185 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
55367250 GATTTTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTC
66 GATTTTTG--AAACATAAATTGAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTC
* * * *
55367315 ATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCT
129 ATTTCTCGCAATATGAGTTGA--TTTTTTTTGACA-ACAGAAATTGAAATTACCTCAGCATGTCC
** * *
55367380 TGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTTT------T-GAAA--G---A-CAAA
191 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAATATAAATTGAAAAGCAGA
* * * ** **
55367431 AATTGAAAATACCTCAGCATGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTT
256 AATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TT
**
55367496 TTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
316 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
* *
55367560 GAGTTGAATTTTTTTGAAAAATATAAATTTAAA-AGCAGAAATTGAAATTACCTCAACGTGCCTT
381 GAGTTG-A--TTTTTG-AAAA-AT-AATTTAAACA--AGAAATTGAAATTACCTCAGCGTGCCCT
* *
55367624 GAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTTTG
438 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTG
* * *
55367666 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
55367731 GATTTTT
66 GATTTTT
55367738 TTGAAACAGA
Statistics
Matches: 894, Mismatches: 77, Indels: 124
0.82 0.07 0.11
Matches are distributed among these distances:
467 54 0.06
468 62 0.07
469 6 0.01
471 1 0.00
472 60 0.07
473 11 0.01
474 1 0.00
475 9 0.01
476 6 0.01
477 82 0.09
478 266 0.30
480 3 0.00
481 88 0.10
482 92 0.10
483 1 0.00
484 23 0.03
485 4 0.00
486 56 0.06
487 2 0.00
488 1 0.00
490 3 0.00
497 8 0.01
499 31 0.03
500 4 0.00
501 20 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (477 bp):
AAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAACATAAATTGAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCAT
TTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGG
CTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAATATAAATTGAAAAGCAGAAATTG
AAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAA
CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
TTGAAAAATAATTTAAACAAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTG
Found at i:55367395 original size:78 final size:78
Alignment explanation
Indices: 55367110--55367574 Score: 511
Period size: 78 Copynumber: 6.0 Consensus size: 78
55367100 GAAAAATAGA
* * * * *
55367110 TTGAAACA-AAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
55367174 GTTGA-----TTT
66 GTTGATTTTTTTT
* *
55367182 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
***
55367247 GTTGATTTTTGAAAAAC
66 GTTGATTTTT----TTT
* * * * * **
55367264 AT-AAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTGAAA--G-ACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
55367328 TGAGTTGATTTTTTTT
63 TGAGTTGATTTTTTTT
* * **
55367344 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
55367409 GTTGA---TTTTT
66 GTTGATTTTTTTT
* ** **
55367419 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTATTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
55367484 GTTGATTTTTTTTT
66 GTTGA-TTTTTTTT
* * *
55367498 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
55367562 GTTGAATTTTTTT
66 GTTGATTTTTTTT
55367575 GAAAAATATA
Statistics
Matches: 341, Mismatches: 34, Indels: 31
0.84 0.08 0.08
Matches are distributed among these distances:
72 7 0.02
73 56 0.16
75 74 0.22
77 7 0.02
78 115 0.34
79 11 0.03
80 1 0.00
81 6 0.02
82 1 0.00
84 63 0.18
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (78 bp):
TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTT
Found at i:55367539 original size:635 final size:629
Alignment explanation
Indices: 55366222--55367737 Score: 1945
Period size: 635 Copynumber: 2.4 Consensus size: 629
55366212 CAATAAAAAT
* * * *
55366222 AGAAATTGAAAATAGCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTCG-A
1 AGAAATTGAAATTACCTCAGCGTGT---CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
*** * * * * **
55366285 TTTTTTTGAAAGGCAAAAATTGAAAAACAGAAATTGAAAATACTTCGGCGTGTGACC-TGAGGCT
63 TTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAAC--GTG-CCTTGAGGCT
** **
55366349 CAACTCGTCTCTCGCAATACAAGTTGATTTTTTTTTTTGAC-AACAGAAATTGAAATTACCTCAA
125 CAACTCACCTCTCGCAATATGAGTTGA-----TTTTTTGACAAACAGAAATTGAAATTACCTCAA
** *
55366413 CATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTA
185 TGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTGAAAAATATAAATTGA
* ** * *
55366478 AAAGCAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTG
247 AAA-CAAAAATTGAAATTAACTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * **
55366543 ATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAA
311 ATTTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAA
* * *
55366608 TATGAGTTGATTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA
376 TATGAGTTGATTTTTTATTACAACAGAAATTGAAACTACCTCAACGTGTCCTGAGGCTCAACTCA
* *
55366673 CCTCTCGCAATATGAGTTGAATTTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAC
441 CCTCTCGCAATATGAGTTGAATTTTTTTT-----ATATAAA-TG--AAGCAAAAATTGAAAATAC
55366738 CTCAATGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAAT
498 CTCAATGT-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAAT
*
55366803 TGAAAATACCTCAGCATGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAC
562 TGAAAATACCTCAGCATGTATTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAC
55366868 AAC
627 AAC
55366871 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
*
55366936 GTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTC
66 TTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTC
* *
55367001 ACCTCTCGCAATATGAGTTGA-TTATTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCTGAG
131 ACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCAATGTGTCCTGAG
** * *
55367065 GCTCAACTCATTTCTCGTAATATGAGTTGATTTTTG-AAAA-ATAGATTG-AAACAAAAAATTGA
196 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAC-AAAAATTGA
* **
55367127 CAA-TACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAA
260 -AATTAACTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA
* *
55367190 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
324 CAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * **
55367255 TTGAAAAACATAAATT-GAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTT
389 TT--------T--ATTACAACAGAAATTGAAACTACCTCAACGTGTCCTGAGGCTCAACTCACCT
55367319 CTCGCAATATGAGTTG-ATTTTTTTT-T-TGAAA-G-A-CAAAAATTGAAAATACCTCAGCATGT
444 CTCGCAATATGAGTTGAATTTTTTTTATAT-AAATGAAGCAAAAATTGAAAATACCTCA--ATGT
**
55367378 -CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATA
506 CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAAAAATTGAAAATA
*
55367442 CCTCAGCATGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTTGACAAC
570 CCTCAGCATGTATTAAGGCTCAACTCATTTCTCGCAATATGAGTTGA----TTTTTTTGACAAC
55367506 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
* *
55367571 TTTTGAAAAATATAAATTTAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTT
66 TTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTC
* * *
55367636 ACCTCTCGCAGTATGAGTTGATTTTTTTTGA-AAAGCAGAAATTGAAAATACCTCAATGTGTCTT
131 ACCTCTCGCAATATGAGTTGA--TTTTTTGACAAA-CAGAAATTGAAATTACCTCAATGTGTCCT
55367700 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
193 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
55367738 TTGAAACAGA
Statistics
Matches: 774, Mismatches: 65, Indels: 67
0.85 0.07 0.07
Matches are distributed among these distances:
630 52 0.07
631 73 0.09
632 4 0.01
634 74 0.10
635 214 0.28
636 12 0.02
637 7 0.01
638 73 0.09
640 8 0.01
641 57 0.07
642 10 0.01
643 58 0.07
644 2 0.00
645 2 0.00
646 35 0.05
647 30 0.04
648 40 0.05
649 23 0.03
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (629 bp):
AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
TTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCAATGTGTCCTGAG
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAACAAAAATTGAA
ATTAACTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA
AAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TATTACAACAGAAATTGAAACTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGAATTTTTTTTATATAAATGAAGCAAAAATTGAAAATACCTCAATGTCCTTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTATTAA
GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGACAAC
Found at i:55367662 original size:90 final size:90
Alignment explanation
Indices: 55367505--55367669 Score: 278
Period size: 90 Copynumber: 1.8 Consensus size: 90
55367495 TTTTTGACAA
*
55367505 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
55367570 TTTTTGAAAAATATAAATTTAAAAG
66 TTTTTGAAAAATATAAATTTAAAAG
* * *
55367595 CAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATT
1 CAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
55367659 TTTTTTGAAAA
65 TTTTTTGAAAA
55367670 GCAGAAATTG
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
89 2 0.03
90 68 0.97
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (90 bp):
CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
TTTTTGAAAAATATAAATTTAAAAG
Found at i:55367680 original size:76 final size:75
Alignment explanation
Indices: 55367590--55367750 Score: 254
Period size: 76 Copynumber: 2.2 Consensus size: 75
55367580 ATATAAATTT
* * *
55367590 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
55367655 GATTTTTTTTG
66 GA-TTTTTTTG
* *
55367666 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
55367731 GATTTTTTTG
66 GATTTTTTTG
55367741 -AAA-CAGAAAT
1 AAAAGCAGAAAT
55367751 AAAAACATCA
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
73 7 0.09
74 3 0.04
75 8 0.10
76 62 0.77
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTG
Found at i:55367725 original size:166 final size:165
Alignment explanation
Indices: 55367430--55367743 Score: 459
Period size: 166 Copynumber: 1.9 Consensus size: 165
55367420 TGAAAGACAA
* * **
55367430 AAATTGAAAATACCTCAGCATGTATTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* * *
55367495 TTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
64 TTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
55367560 GAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAG
129 GAGTTG-ATTTTTTTGAAAAATATAAATTTAAAAGCAG
* * * * *
55367598 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACATGCATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
55367662 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
66 TTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
55367727 AGTTGATTTTTTTGAAA
130 AGTTGATTTTTTTGAAA
55367744 CAGAAATAAA
Statistics
Matches: 131, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
165 24 0.18
166 57 0.44
168 50 0.38
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (165 bp):
AAATTGAAAATACCTCAACATGCATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAAAATATAAATTTAAAAGCAG
Found at i:55368812 original size:45 final size:45
Alignment explanation
Indices: 55368753--55368860 Score: 171
Period size: 45 Copynumber: 2.4 Consensus size: 45
55368743 CACCAGTATA
*
55368753 CAGTAATCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAC
1 CAGTAA-CAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAC
* * *
55368799 CTGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAC
55368844 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
55368861 GTCGGCACAT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 52 0.91
46 5 0.09
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAC
Found at i:55368884 original size:38 final size:39
Alignment explanation
Indices: 55368757--55368887 Score: 131
Period size: 45 Copynumber: 3.2 Consensus size: 39
55368747 AGTATACAGT
* * *
55368757 AATCAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
*
55368796 AACCTGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AA----T--CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
* *
55368841 AATCAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTG
1 AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCC-G
55368880 -ATCAGTAA
1 AATCAGTAA
55368888 GCCGGCAAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
38 15 0.19
39 27 0.34
41 1 0.01
43 1 0.01
45 36 0.45
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.20
Consensus pattern (39 bp):
AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
Found at i:55369148 original size:39 final size:40
Alignment explanation
Indices: 55369062--55369149 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
55369052 AATTCTTTAC
* *
55369062 TTCAGTAATTTCACAATTCAATGCATTATGCATAACAATA
1 TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
*
55369102 TTCAGTATTTTCACAATTCACT-CAGTAAT-CA-AGACAATA
1 TTCAGTATTTTCACAATTCAATGCA-TAATGCATA-ACAATA
55369141 TTCAGTATT
1 TTCAGTATT
55369150 CCATAATTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 19 0.44
40 23 0.53
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (40 bp):
TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
Found at i:55373930 original size:35 final size:35
Alignment explanation
Indices: 55373891--55373960 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
55373881 CTTCAGGTTC
*
55373891 GCTACATGCTTTTCTTCCCCTCGGAACTTAGCAAT
1 GCTACATGCTCTTCTTCCCCTCGGAACTTAGCAAT
* *
55373926 GCTACATGCTCTTCTTCCCCTTGGAATTTAGCAAT
1 GCTACATGCTCTTCTTCCCCTCGGAACTTAGCAAT
55373961 CATATCATCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (35 bp):
GCTACATGCTCTTCTTCCCCTCGGAACTTAGCAAT
Found at i:55380542 original size:15 final size:17
Alignment explanation
Indices: 55380522--55380553 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
55380512 TTAGGAAACG
55380522 TACATAA-A-AAATATA
1 TACATAATATAAATATA
55380537 TACATAATATAAATATA
1 TACATAATATAAATATA
55380554 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:55381277 original size:18 final size:15
Alignment explanation
Indices: 55381234--55381272 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
55381224 TATAAAGAAA
*
55381234 GAAAGAAAAAATTTC
1 GAAAGAAGAAATTTC
55381249 GAAAGAAGAAATTTC
1 GAAAGAAGAAATTTC
55381264 GAAAGAAGA
1 GAAAGAAGA
55381273 GGAAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.21, T:0.15
Consensus pattern (15 bp):
GAAAGAAGAAATTTC
Found at i:55382016 original size:6 final size:6
Alignment explanation
Indices: 55382005--55382034 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
55381995 GTTCAAAATC
55382005 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
55382035 AAGTATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:55388013 original size:88 final size:90
Alignment explanation
Indices: 55387885--55388059 Score: 264
Period size: 88 Copynumber: 2.0 Consensus size: 90
55387875 TTTTTGTATT
* * *
55387885 ATTTCTTTAAAATGTTTGTATTTTTTTGTATCTATAAATTTAATTTAGTCGGTATTATTTGTAGT
1 ATTTCTTTAAAATGTTTGTATTTTTTTGTATATAAAAATTTAATTTAGTCGGTATTATTTGTAAT
*
55387950 TTCAATTTTATATTTTCGTGTAATA
66 TTCAATTTTAAATTTTCGTGTAATA
* *
55387975 ATTTC-TTAGAATGTTTGTA-TTTTTTGTATATAAAAATTTAATTTAGTCTGTATTATTTGTAAT
1 ATTTCTTTAAAATGTTTGTATTTTTTTGTATATAAAAATTTAATTTAGTCGGTATTATTTGTAAT
* *
55388038 TTGAATTTTAAATTTTTGTGTA
66 TTCAATTTTAAATTTTCGTGTA
55388060 TTGTGTATTA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 59 0.77
89 13 0.17
90 5 0.06
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (90 bp):
ATTTCTTTAAAATGTTTGTATTTTTTTGTATATAAAAATTTAATTTAGTCGGTATTATTTGTAAT
TTCAATTTTAAATTTTCGTGTAATA
Found at i:55390522 original size:50 final size:49
Alignment explanation
Indices: 55390350--55390709 Score: 262
Period size: 47 Copynumber: 7.6 Consensus size: 49
55390340 TAGGGTATAA
* * * *
55390350 TGCCGATGTCATGTCCCACACATGGTCTTACACTGGCTCATC-CATCA-AG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATCG
*
55390399 T--CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCGA-A-ATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ACATATCG
* *
55390445 AGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-G
* *
55390496 TGCCGATGCCATATCCCAGACATGGTCTTACACTA-CAACTCA-ATA-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTCACATATCG
* * * *
55390543 TGCTGATGCCATGTCCCAGACATGGTCTTACACT-G---ACACATTTCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCG
** * *
55390588 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTTGC--CTCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-G
* * * *
55390635 TGCCGATGCCATGTCCCAAACATAGTCTTCCACTGGCTCT--CATGAT-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAT-ATCG
*
55390682 TGGCCGAT-ACATGTCCCAGACAT-GTCTT
1 T-GCCGATGCCATGTCCCAGACATGGTCTT
55390710 GCCGATGCAT
Statistics
Matches: 256, Mismatches: 28, Indels: 57
0.75 0.08 0.17
Matches are distributed among these distances:
43 2 0.01
44 12 0.05
45 18 0.07
46 25 0.10
47 94 0.37
48 23 0.09
49 41 0.16
50 40 0.16
51 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCG
Found at i:55390713 original size:26 final size:26
Alignment explanation
Indices: 55390684--55390735 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
55390674 TCATGATGTG
55390684 GCCGATACATGTCCCAGACATGTCTT
1 GCCGATACATGTCCCAGACATGTCTT
*
55390710 GCCGATGCATGTCCCAGACATGTCTT
1 GCCGATACATGTCCCAGACATGTCTT
55390736 ACACTAGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (26 bp):
GCCGATACATGTCCCAGACATGTCTT
Found at i:55396998 original size:20 final size:21
Alignment explanation
Indices: 55396960--55397006 Score: 87
Period size: 20 Copynumber: 2.3 Consensus size: 21
55396950 GGTACATGCT
55396960 CGTGTGGAAGGGCAACACGCC
1 CGTGTGGAAGGGCAACACGCC
55396981 CGTGTGGAAGGG-AACACGCC
1 CGTGTGGAAGGGCAACACGCC
55397001 CGTGTG
1 CGTGTG
55397007 AATTAAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.21, C:0.26, G:0.40, T:0.13
Consensus pattern (21 bp):
CGTGTGGAAGGGCAACACGCC
Found at i:55398115 original size:47 final size:47
Alignment explanation
Indices: 55398044--55398408 Score: 241
Period size: 47 Copynumber: 7.7 Consensus size: 47
55398034 AGGGTATAAT
*
55398044 GCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCATCTATCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCGA
* * *
55398091 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--TATCGA
* ** * * * *
55398139 GGCTGACACCATGTCTCAGACATGGTCTTACATTAGCTC-TCACATATCCGT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT--C-TAT-CGA
* * * * * * * *
55398190 GTCGATGCAATGTCCCAGACATGGTCTTACATTGACACCTCAATACGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTAT-CGA
** * * * *
55398238 GTTGAAGCCATGT-CCAGACATAGTCTTACACTGCCACATCT-T-GTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCG-A
*
55398283 GCCGATG-CATGTCCAAGACAT-GTCTTACACTGGCTTACATC--TCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCTATCGA
* * * *
55398328 GGCCGATG-CATGTCCCAGACAT-GTCTTATACTAGCTC-TCGTCTCAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-TATCGA
*
55398374 TGCCGATGTCATGTCCCAGACATGGTCTTACACTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTG
55398409 TGTCTCATAA
Statistics
Matches: 252, Mismatches: 47, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
43 2 0.01
44 19 0.08
45 14 0.06
46 50 0.20
47 71 0.28
48 29 0.12
49 31 0.12
50 32 0.13
51 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCGA
Found at i:55398431 original size:94 final size:92
Alignment explanation
Indices: 55398283--55398456 Score: 228
Period size: 94 Copynumber: 1.9 Consensus size: 92
55398273 ACATCTTGTA
* *
55398283 GCCGATGCATGTCCAAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGAC
1 GCCGATGCATGTCCAAGACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGAC
*
55398348 ATGTCTTATACTAGCTCTCGTCTCAAT
66 ATGTCTTACACTAGCTCTCGTCTCAAT
* *
55398375 GCCGATGTCATGTCCCAGACATGGTCTTACACTGTG-TCT-CATAAT-GTGGCCAATGCATGTCC
1 GCCGATG-CATGTCCAAGACAT-GTCTTACACTG-GCT-TACAT-ATCGAGGCCAATGCATGTCC
*
55398437 CAGACATGTTTTACACTAGC
61 CAGACATGTCTTACACTAGC
55398457 AGACAAATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
92 7 0.10
93 13 0.18
94 48 0.68
95 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
GCCGATGCATGTCCAAGACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:55400928 original size:18 final size:18
Alignment explanation
Indices: 55400907--55400944 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
55400897 AGTTGAAATG
55400907 AATATGAAA-TGAAAAGAA
1 AATAT-AAATTGAAAAGAA
*
55400925 AATATAAATTGAAATGAA
1 AATATAAATTGAAAAGAA
55400943 AA
1 AA
55400945 AAATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (18 bp):
AATATAAATTGAAAAGAA
Found at i:55400979 original size:26 final size:23
Alignment explanation
Indices: 55400902--55400962 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 23
55400892 ATGAAAGTTG
*
55400902 AAATGAATATGAAATGAAAAGAAA-
1 AAATAAAT-TGAAATGAAAA-AAAT
*
55400926 ATATAAATTGAAATGAAAAAAAT
1 AAATAAATTGAAATGAAAAAAAT
55400949 AAATAAATTGAAAT
1 AAATAAATTGAAAT
55400963 AAGACAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 3 0.09
23 24 0.73
24 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (23 bp):
AAATAAATTGAAATGAAAAAAAT
Found at i:55401052 original size:33 final size:32
Alignment explanation
Indices: 55401006--55401095 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 32
55400996 TTATGGAAAA
* *
55401006 AAATTAAATGAAATAAAATGTGAAACAAAAATG
1 AAATGAAATGAAATAAAATG-AAAACAAAAATG
* **
55401039 AAATGAAATGAAATGAAATGAAAATGAAAATG
1 AAATGAAATGAAATAAAATGAAAACAAAAATG
*
55401071 AAGATGAAGTGAAATGAAAATGAAA
1 AA-ATGAAATGAAAT-AAAATGAAA
55401096 TTTGAAATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
32 11 0.23
33 29 0.60
34 8 0.17
ACGTcount: A:0.62, C:0.01, G:0.18, T:0.19
Consensus pattern (32 bp):
AAATGAAATGAAATAAAATGAAAACAAAAATG
Found at i:55401065 original size:6 final size:5
Alignment explanation
Indices: 55401034--55401096 Score: 81
Period size: 5 Copynumber: 11.8 Consensus size: 5
55401024 TGTGAAACAA
*
55401034 AAATG AAATG AAATG AAATG AAATG AAAATG AAAATG AAGATG AAGTG
1 AAATG AAATG AAATG AAATG AAATG -AAATG -AAATG AA-ATG AAATG
55401082 AAATG AAAATG AAAT
1 AAATG -AAATG AAAT
55401097 TTGAAATAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
5 32 0.60
6 21 0.40
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:55401077 original size:28 final size:27
Alignment explanation
Indices: 55401033--55401095 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 27
55401023 ATGTGAAACA
55401033 AAAATG-AAATGAAATGAAATGAAATG
1 AAAATGAAAATGAAATGAAATGAAATG
*
55401059 AAAATGAAAATGAAGATGAAGTGAAATG
1 AAAATGAAAATGAA-ATGAAATGAAATG
55401087 AAAATGAAA
1 AAAATGAAA
55401096 TTTGAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 6 0.18
27 7 0.21
28 21 0.62
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.17
Consensus pattern (27 bp):
AAAATGAAAATGAAATGAAATGAAATG
Found at i:55401107 original size:22 final size:21
Alignment explanation
Indices: 55401034--55401096 Score: 92
Period size: 22 Copynumber: 3.0 Consensus size: 21
55401024 TGTGAAACAA
55401034 AAATGAAATG-AAATGAAATG
1 AAATGAAATGAAAATGAAATG
55401054 AAATGAAAATGAAAATGAAGATG
1 AAATG-AAATGAAAATGAA-ATG
*
55401077 AAGTGAAATGAAAATGAAAT
1 AAATGAAATGAAAATGAAAT
55401097 TTGAAATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
20 5 0.13
21 7 0.18
22 20 0.51
23 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (21 bp):
AAATGAAATGAAAATGAAATG
Found at i:55401677 original size:21 final size:20
Alignment explanation
Indices: 55401650--55401709 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 20
55401640 GTCTTGTCAA
55401650 TTTTTTTATTTCATTTAAAT
1 TTTTTTTATTTCATTTAAAT
*
55401670 TTATTTTT-TTATCATTTTAAT
1 TT-TTTTTATT-TCATTTAAAT
55401691 TTTTTGTCTCATTTCATTT
1 TTTTT-T-T-ATTTCATTT
55401710 TTTTTCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
20 7 0.21
21 17 0.52
22 1 0.03
23 6 0.18
24 2 0.06
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTTTATTTCATTTAAAT
Found at i:55401709 original size:5 final size:5
Alignment explanation
Indices: 55401699--55401890 Score: 83
Period size: 5 Copynumber: 36.6 Consensus size: 5
55401689 ATTTTTTGTC
** *
55401699 TCATT TCATT TTTTT TCATT TCATAT TTATT TCAACTT TCATT TCATT
1 TCATT TCATT TCATT TCATT TCAT-T TCATT TC-A-TT TCATT TCATT
* * *
55401747 TTAGAT TCATT TCAAATT ACATT TCATT TCATAT TCATT TCAAATT TCATT
1 TCA-TT TCATT TC--ATT TCATT TCATT TCAT-T TCATT TC--ATT TCATT
* **
55401798 TCATT TCAATT T-A-T TCTTTT TCCATAT TCATT TTTTT CTCATT TCAATT
1 TCATT TC-ATT TCATT TC-ATT T-CAT-T TCATT TCATT -TCATT TC-ATT
* * *
55401847 T-ATT T-TTT TCATT TCAATT T-ATT T--TT TAATT TCATT TTATT TCA
1 TCATT TCATT TCATT TC-ATT TCATT TCATT TCATT TCATT TCATT TCA
55401891 AAATTTTAAA
Statistics
Matches: 143, Mismatches: 23, Indels: 42
0.69 0.11 0.20
Matches are distributed among these distances:
3 5 0.03
4 12 0.08
5 75 0.52
6 35 0.24
7 16 0.11
ACGTcount: A:0.24, C:0.15, G:0.01, T:0.60
Consensus pattern (5 bp):
TCATT
Found at i:55401726 original size:17 final size:17
Alignment explanation
Indices: 55401672--55401726 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
55401662 ATTTAAATTT
*
55401672 ATTTTTTTATCATTTTA
1 ATTTTTTTATCATTTCA
*
55401689 ATTTTTTGTCTCATTTC-
1 ATTTTTT-TATCATTTCA
55401706 ATTTTTTT-TCATTTCA
1 ATTTTTTTATCATTTCA
55401722 TATTT
1 -ATTT
55401727 ATTTCAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 18 0.55
18 7 0.21
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.69
Consensus pattern (17 bp):
ATTTTTTTATCATTTCA
Found at i:55401744 original size:12 final size:12
Alignment explanation
Indices: 55401712--55401801 Score: 61
Period size: 11 Copynumber: 7.9 Consensus size: 12
55401702 TTTCATTTTT
55401712 TTTCATTTCATA
1 TTTCATTTCATA
55401724 TTT-ATTTCA-A
1 TTTCATTTCATA
55401734 CTTTCATTTCAT-
1 -TTTCATTTCATA
*
55401746 TTT-AGATTC--A
1 TTTCA-TTTCATA
* *
55401756 TTTCAAATT-ACA
1 TTTC-ATTTCATA
55401768 TTTCATTTCATA
1 TTTCATTTCATA
*
55401780 -TTCATTTCAAA
1 TTTCATTTCATA
55401791 TTTCATTTCAT
1 TTTCATTTCAT
55401802 TTCAATTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 22
0.70 0.06 0.25
Matches are distributed among these distances:
10 5 0.08
11 31 0.50
12 26 0.42
ACGTcount: A:0.28, C:0.17, G:0.01, T:0.54
Consensus pattern (12 bp):
TTTCATTTCATA
Found at i:55401745 original size:28 final size:28
Alignment explanation
Indices: 55401712--55401805 Score: 143
Period size: 28 Copynumber: 3.4 Consensus size: 28
55401702 TTTCATTTTT
* *
55401712 TTTCATTTCATATTTATTTCAACTTTCA
1 TTTCATTTCATATTCATTTCAAATTTCA
* * *
55401740 TTTCATTTTAGATTCATTTCAAATTACA
1 TTTCATTTCATATTCATTTCAAATTTCA
55401768 TTTCATTTCATATTCATTTCAAATTTCA
1 TTTCATTTCATATTCATTTCAAATTTCA
55401796 TTTCATTTCA
1 TTTCATTTCA
55401806 ATTTATTCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.28, C:0.17, G:0.01, T:0.54
Consensus pattern (28 bp):
TTTCATTTCATATTCATTTCAAATTTCA
Found at i:55401755 original size:23 final size:23
Alignment explanation
Indices: 55401712--55401755 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
55401702 TTTCATTTTT
*
55401712 TTTCATTTCATATTTATTTCAAC
1 TTTCATTTCATATTTAATTCAAC
55401735 TTTCATTTCAT-TTTAGATTCA
1 TTTCATTTCATATTTA-ATTCA
55401756 TTTCAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.25, C:0.16, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTCATTTCATATTTAATTCAAC
Found at i:55401774 original size:17 final size:16
Alignment explanation
Indices: 55401752--55401806 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
55401742 TCATTTTAGA
55401752 TTCATTTCAAATTACAT
1 TTCATTTCAAATT-CAT
55401769 TTCATTTC--A-T-A-
1 TTCATTTCAAATTCAT
55401780 TTCATTTCAAATTTCAT
1 TTCATTTCAAA-TTCAT
55401797 TTCATTTCAA
1 TTCATTTCAA
55401807 TTTATTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
11 8 0.25
12 1 0.03
13 1 0.03
14 1 0.03
15 2 0.06
16 1 0.03
17 18 0.56
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (16 bp):
TTCATTTCAAATTCAT
Found at i:55401858 original size:19 final size:19
Alignment explanation
Indices: 55401796--55401888 Score: 104
Period size: 18 Copynumber: 4.9 Consensus size: 19
55401786 TCAAATTTCA
55401796 TTTCATTTCAATTTATTCTT
1 TTTCATTTCAATTTATT-TT
55401816 TTTCCATATTC-A-TT-TTTT
1 TTT-CAT-TTCAATTTATTTT
*
55401834 TCTCATTTCAATTTATTTT
1 TTTCATTTCAATTTATTTT
55401853 TTTCATTTCAATTTA-TTT
1 TTTCATTTCAATTTATTTT
* *
55401871 TTTAATTTCATTTTATTT
1 TTTCATTTCAATTTATTT
55401889 CAAAATTTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
16 3 0.05
17 4 0.06
18 22 0.35
19 22 0.35
20 5 0.08
21 4 0.06
22 3 0.05
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTCATTTCAATTTATTTT
Found at i:55401918 original size:24 final size:25
Alignment explanation
Indices: 55401869--55401922 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
55401859 TTCAATTTAT
* * *
55401869 TTTTTAATTTCATTTTATTTCAAAA
1 TTTTAAATTTCATTTAAATTCAAAA
*
55401894 TTTTAAATTTCATTTAAATTCAAAT
1 TTTTAAATTTCATTTAAATTCAAAA
55401919 TTTT
1 TTTT
55401923 TTCAAATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTAAATTTCATTTAAATTCAAAA
Found at i:55401926 original size:138 final size:135
Alignment explanation
Indices: 55401657--55401929 Score: 295
Period size: 138 Copynumber: 2.0 Consensus size: 135
55401647 CAATTTTTTT
* *
55401657 ATTTCATTTAAATTTATTTTTTTATCATTTTAATTTTTTGTCTCATTTCATTTTTTTTCATTTCA
1 ATTTCATTTAAATTTATTTTTTTACCATATTAATTTTTTGTCTCATTTCATTTTTTTTCATTTCA
* * * *
55401722 TATTTATTTCAACTTTCATTTCATTTTAGATTCATTTCAAATTACATTTCATTTCATATTCATTT
66 TATTTATTT--A-TTTAATTTCATTTTAGATTCATTTCAAATTACATTTAAATTCAAATTCATTT
55401787 CAAATTTC
128 CAAATTTC
* *
55401795 ATTTCATTTCAATTTATTCTTTTT-CCATATTCATTTTTT-TCTCATTTCAATTTATTTTTTTCA
1 ATTTCATTTAAATTTATT-TTTTTACCATATTAATTTTTTGTCTCATTTC-A--T-TTTTTTTCA
* * *
55401858 TTTCA-ATTTATTT-TTTAATTTCATTTTA-TTTCAAAATTTTAAATTTCATTTAAATTCAAATT
61 TTTCATATTTATTTATTTAATTTCATTTTAGATTC---ATTTCAAATTACATTTAAATTCAAATT
**
55401920 TTTTTCAAAT
123 CATTTCAAAT
55401930 CAAAGTTTTA
Statistics
Matches: 114, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
135 3 0.03
136 14 0.12
137 9 0.08
138 60 0.53
139 5 0.04
140 9 0.08
141 14 0.12
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.60
Consensus pattern (135 bp):
ATTTCATTTAAATTTATTTTTTTACCATATTAATTTTTTGTCTCATTTCATTTTTTTTCATTTCA
TATTTATTTATTTAATTTCATTTTAGATTCATTTCAAATTACATTTAAATTCAAATTCATTTCAA
ATTTC
Found at i:55402138 original size:18 final size:17
Alignment explanation
Indices: 55402087--55402160 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 17
55402077 GTCAATTTTT
*
55402087 TTTTCATTTCAATTTATA
1 TTTTCATTTCAATTT-CA
*
55402105 TTTTCATTT-TATTTCA
1 TTTTCATTTCAATTTCA
55402121 TTTTCATTTCACATTTCA
1 TTTTCATTTCA-ATTTCA
*
55402139 CATTTCACGTTTC-ATTTCA
1 -TTTTCA--TTTCAATTTCA
55402158 TTT
1 TTT
55402161 AAATTTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
16 10 0.22
17 4 0.09
18 17 0.37
19 11 0.24
21 4 0.09
ACGTcount: A:0.22, C:0.18, G:0.01, T:0.59
Consensus pattern (17 bp):
TTTTCATTTCAATTTCA
Found at i:55402223 original size:19 final size:20
Alignment explanation
Indices: 55402155--55402217 Score: 105
Period size: 18 Copynumber: 3.3 Consensus size: 20
55402145 ACGTTTCATT
55402155 TCATTTAAATTT-TTTTTTC
1 TCATTTAAATTTATTTTTTC
55402174 TCATTTAAATTTATTTTTT-
1 TCATTTAAATTTATTTTTTC
55402193 T-ATTTAAATTTATTTTTTC
1 TCATTTAAATTTATTTTTTC
55402212 TCATTT
1 TCATTT
55402218 CATTTAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
18 17 0.41
19 14 0.34
20 10 0.24
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TCATTTAAATTTATTTTTTC
Found at i:55406366 original size:24 final size:24
Alignment explanation
Indices: 55406222--55406365 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
55406212 TGCTTTATCA
*
55406222 AATAACTGGAGGCCT-AGCCTCTTTT
1 AATAACTGG-GGCATAAGCC-CTTTT
*
55406247 AATAACTGGGGCAAAAGCCCTTTT
1 AATAACTGGGGCATAAGCCCTTTT
55406271 AATAACT-GGGCATAAGCCCTTTT
1 AATAACTGGGGCATAAGCCCTTTT
* *
55406294 AATAACGGGGGCATAAGTCCTTTT
1 AATAACTGGGGCATAAGCCCTTTT
*
55406318 AGTAACTGGGGCATAAGCCCTTTT
1 AATAACTGGGGCATAAGCCCTTTT
*
55406342 GATAACTGGGGCATAAGCCCTTTT
1 AATAACTGGGGCATAAGCCCTTTT
55406366 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
23 21 0.20
24 73 0.68
25 13 0.12
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AATAACTGGGGCATAAGCCCTTTT
Found at i:55406440 original size:20 final size:20
Alignment explanation
Indices: 55406415--55406461 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
55406405 TTATGAATAC
55406415 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
55406435 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
55406455 ACCATGT
1 ATCATGT
55406462 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:55411327 original size:29 final size:29
Alignment explanation
Indices: 55411285--55411359 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
55411275 ATTAATACTT
55411285 AGTGACTAAAATGTAACATTTCAAACATG
1 AGTGACTAAAATGTAACATTTCAAACATG
55411314 AGTGACTAAAATGTAACATTTCAAACATG
1 AGTGACTAAAATGTAACATTTCAAACATG
*
55411343 AGTGACTAAAATATAAC
1 AGTGACTAAAATGTAAC
55411360 TTGAAACAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATTTCAAACATG
Found at i:55420135 original size:11 final size:12
Alignment explanation
Indices: 55420121--55420158 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
55420111 AATAAATATA
55420121 TTTAT-TAAAAT
1 TTTATATAAAAT
55420132 TTTATATAAAA-
1 TTTATATAAAAT
*
55420143 ATTATATAAAAT
1 TTTATATAAAAT
55420155 TTTA
1 TTTA
55420159 ATTGAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTATATAAAAT
Found at i:55420247 original size:13 final size:13
Alignment explanation
Indices: 55420229--55420253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55420219 AATTTTAATT
55420229 AAATTTATATAAA
1 AAATTTATATAAA
55420242 AAATTTATATAA
1 AAATTTATATAA
55420254 TTTTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTTATATAAA
Found at i:55421269 original size:31 final size:32
Alignment explanation
Indices: 55421215--55421287 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
55421205 AGTTCTTATT
55421215 TGAGCACTTTCCAAAAAGGTTTGGCTC-TCATA
1 TGAGCACTTTCCAAAAAGGTTTGG-TCATCATA
* * *
55421247 TGAGCACTTT-CAAAAAGTTTTGGTCATTATT
1 TGAGCACTTTCCAAAAAGGTTTGGTCATCATA
55421278 TGAGCACTTT
1 TGAGCACTTT
55421288 GAAAGATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.05
31 25 0.68
32 10 0.27
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (32 bp):
TGAGCACTTTCCAAAAAGGTTTGGTCATCATA
Found at i:55422794 original size:26 final size:27
Alignment explanation
Indices: 55422756--55422807 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
55422746 TAATTAAAAA
55422756 TATATTTTATTGTT-TATATTAATATTTT
1 TATATTTTATTGTTATA-ATTAA-ATTTT
55422784 TATA-TTT-TTGTTATAATTAAATTT
1 TATATTTTATTGTTATAATTAAATTT
55422808 AAAAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 4 0.17
26 10 0.43
27 5 0.22
28 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (27 bp):
TATATTTTATTGTTATAATTAAATTTT
Found at i:55423871 original size:24 final size:24
Alignment explanation
Indices: 55423843--55423890 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
55423833 AAAATCAAAT
* *
55423843 GAGCAATAGACACAAAATTTAGCA
1 GAGCAACAAACACAAAATTTAGCA
55423867 GAGCAACAAACACAAAATTTAGCA
1 GAGCAACAAACACAAAATTTAGCA
55423891 AAACGGAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.19, G:0.15, T:0.15
Consensus pattern (24 bp):
GAGCAACAAACACAAAATTTAGCA
Found at i:55426369 original size:79 final size:76
Alignment explanation
Indices: 55426218--55426362 Score: 218
Period size: 79 Copynumber: 1.9 Consensus size: 76
55426208 AAAGTTTATT
* * *
55426218 TATTTAAATTGTAAAAAAAAACCATAAATTGATAAATAAAATGGCAAAAAAGTCATTACATAAAT
1 TATTTAAATTGTAAAAAAAAACAATAAATTAATAAATAAAATGCCAAAAAAGTCATTACATAAAT
55426283 ACAAAGTTGAC
66 ACAAAGTTGAC
* *
55426294 TATTTAAATTGTTAAAAAAAGACAAATAATATTAATAAATAAAATGCCAAAAAATTCATTACATA
1 TATTTAAATTG-TAAAAAAAAAC-AATAA-ATTAATAAATAAAATGCCAAAAAAGTCATTACATA
55426359 AATA
63 AATA
55426363 TGAAGTTATT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
76 11 0.18
77 10 0.16
78 4 0.07
79 36 0.59
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.28
Consensus pattern (76 bp):
TATTTAAATTGTAAAAAAAAACAATAAATTAATAAATAAAATGCCAAAAAAGTCATTACATAAAT
ACAAAGTTGAC
Found at i:55429040 original size:60 final size:60
Alignment explanation
Indices: 55428973--55429091 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
55428963 ATACTAAACT
* *
55428973 AAACACAACAAA-TTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAA-AAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
55429033 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
55429092 TAAAAAAAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
59 3 0.05
60 53 0.95
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:55432239 original size:25 final size:25
Alignment explanation
Indices: 55432211--55432286 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
55432201 ACAAATCATA
*
55432211 AAGCTCATAAGAGTCAATTATCGGG
1 AAGCTCATAAGAGACAATTATCGGG
* * *
55432236 AAGCTCGTAAGAAACATATAAT-GGG
1 AAGCTCATAAGAGACA-ATTATCGGG
* *
55432261 AAGCTCATAAGAGCCAAATATCGGG
1 AAGCTCATAAGAGACAATTATCGGG
55432286 A
1 A
55432287 TACTCATTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 3 0.08
25 33 0.82
26 4 0.10
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (25 bp):
AAGCTCATAAGAGACAATTATCGGG
Found at i:55433135 original size:40 final size:42
Alignment explanation
Indices: 55433038--55433137 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
55433028 ACCACATGCC
** * *
55433038 CATGTGCCAGGCCGTGTGTCATACATGGTCAAGACACACGCT
1 CATGTGCCAACCCGTGTGTCACACACGGTCAAGACACACGCT
* *
55433080 CATGTGCCAAGCCGTGTGTCACACACGGTC-AG-GACACGCT
1 CATGTGCCAACCCGTGTGTCACACACGGTCAAGACACACGCT
* * *
55433120 CGTGTGTCTACCCGTGTG
1 CATGTGCCAACCCGTGTG
55433138 GACAAAATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
40 21 0.42
41 2 0.04
42 27 0.54
ACGTcount: A:0.20, C:0.30, G:0.28, T:0.22
Consensus pattern (42 bp):
CATGTGCCAACCCGTGTGTCACACACGGTCAAGACACACGCT
Found at i:55434000 original size:23 final size:24
Alignment explanation
Indices: 55433945--55434098 Score: 84
Period size: 24 Copynumber: 6.5 Consensus size: 24
55433935 AGCCTTGTAA
* *
55433945 CGGGAAGCTCACATAGAGCCATTT
1 CGGGAAGCTCACAAAGAGCCATAT
*
55433969 TGGGAAGCTCACAAAGAGCC-TAT
1 CGGGAAGCTCACAAAGAGCCATAT
* ** *
55433992 CGGGAAGCTTATC-TGGA-CTATAT
1 CGGGAAGCTCA-CAAAGAGCCATAT
** *
55434015 AACGGGAAGCTCA-TGAGAGCCATAAC
1 --CGGGAAGCTCACAAAGAGCCAT-AT
* * * *
55434041 CGGGAAGTTTACATAGAACCATAT
1 CGGGAAGCTCACAAAGAGCCATAT
* *
55434065 CGGGAAGCTCACGAAGAG-CTTAT
1 CGGGAAGCTCACAAAGAGCCATAT
*
55434088 TGGGAAGCTCA
1 CGGGAAGCTCA
55434099 ATAAGAACCA
Statistics
Matches: 96, Mismatches: 26, Indels: 17
0.69 0.19 0.12
Matches are distributed among these distances:
22 1 0.01
23 30 0.31
24 44 0.46
25 20 0.21
26 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (24 bp):
CGGGAAGCTCACAAAGAGCCATAT
Found at i:55437243 original size:47 final size:47
Alignment explanation
Indices: 55437149--55437252 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 47
55437139 CCAACACACT
* * ** *
55437149 AGTACGACACTCAGTGCCTCATCGGCTTTGCCGAAGTAAACAGTAAC
1 AGTACGACACTCAGTACCTCATCGGATTAACCGAAGTAAACAATAAC
* *
55437196 AGTACGATACTCAGTACCTCATCGGATTAAACTGAAGT-AACAATAAC
1 AGTACGACACTCAGTACCTCATCGGATT-AACCGAAGTAAACAATAAC
55437243 AGTACGACAC
1 AGTACGACAC
55437253 ACAAGGTGCC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 42 0.88
48 6 0.12
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (47 bp):
AGTACGACACTCAGTACCTCATCGGATTAACCGAAGTAAACAATAAC
Found at i:55437275 original size:49 final size:48
Alignment explanation
Indices: 55437149--55437287 Score: 124
Period size: 47 Copynumber: 2.9 Consensus size: 48
55437139 CCAACACACT
* * * ** *
55437149 AGTACGACACTCAGTGCCTCATCGGCTT-TGC-CGAAGTAAACAGTAAC
1 AGTACGACACACAGTACCTCATCGGATTAAACTCGAAGT-AACAATAAC
* *
55437196 AGTACGATACTCAGTACCTCATCGGATTAAACT-GAAGTAACAATAAC
1 AGTACGACACACAGTACCTCATCGGATTAAACTCGAAGTAACAATAAC
* *
55437243 AGTACGACACACAAGGTGCCTCATC-GACTTAAAGTCGAAGTAACA
1 AGTACGACACAC-A-GTACCTCATCGGA-TTAAACTCGAAGTAACA
55437288 GTATGACACT
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
47 43 0.57
48 9 0.12
49 15 0.20
50 9 0.12
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (48 bp):
AGTACGACACACAGTACCTCATCGGATTAAACTCGAAGTAACAATAAC
Found at i:55438741 original size:23 final size:23
Alignment explanation
Indices: 55438709--55438765 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
55438699 AATAAATTAT
* *
55438709 TTTATAACAAGTGTA-CATATATA
1 TTTATTACAAATGTACCA-ATATA
*
55438732 TTTATTACAAATGTACCAATATT
1 TTTATTACAAATGTACCAATATA
55438755 TTTATTA-AAAT
1 TTTATTACAAAT
55438766 TGTCATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.13
23 24 0.80
24 2 0.07
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (23 bp):
TTTATTACAAATGTACCAATATA
Found at i:55439001 original size:3 final size:3
Alignment explanation
Indices: 55438986--55439023 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
55438976 TTAATTTATT
*
55438986 TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
55439024 TAGTTATACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:55440152 original size:12 final size:13
Alignment explanation
Indices: 55440118--55440155 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
55440108 AAGGTTATTT
55440118 AATTACTATTTAAA
1 AATTA-TATTTAAA
55440132 AATTATATTTAAA
1 AATTATATTTAAA
55440145 ATATTAT-TTTA
1 A-ATTATATTTA
55440156 CTAAATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTATATTTAAA
Found at i:55440295 original size:38 final size:38
Alignment explanation
Indices: 55440253--55440330 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
55440243 TATAGTAAGT
* *
55440253 ATGTAACAGTTCGTTTTTCAATGGTGTCGAAAATAATG
1 ATGTAACAGTTCATTTTTCAATGGTGTAGAAAATAATG
*
55440291 ATGTAACAGTTCATTTTTCAGTGGTGTAGAAAATAATG
1 ATGTAACAGTTCATTTTTCAATGGTGTAGAAAATAATG
55440329 AT
1 AT
55440331 TTTGGAACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (38 bp):
ATGTAACAGTTCATTTTTCAATGGTGTAGAAAATAATG
Found at i:55458976 original size:43 final size:43
Alignment explanation
Indices: 55458854--55459010 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
55458844 TGTGATATCG
* * *
55458854 TGTAAGACCACGTATGGGACATTGGCATCGAT-TTGAGATTTACA
1 TGTAAGACCACGTCTGGGACAGTGGCATCGATATT-TGATTT-CA
* ** * * *
55458898 TGTAAGACCATGTCTGGGACACCGACAT-GGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTTCA
*
55458940 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTTGATTTCA
*
55458983 CGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
55459011 TGTACAAGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
42 25 0.27
43 41 0.45
44 26 0.28
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTTCA
Found at i:55462086 original size:93 final size:93
Alignment explanation
Indices: 55461927--55462098 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
55461917 TCCCATAAGT
* * *
55461927 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55461992 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
55462020 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55462085 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
55462099 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55462094 original size:46 final size:46
Alignment explanation
Indices: 55461919--55462094 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
55461909 TGTAACCCTC
* * * *
55461919 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
55461965 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
55462015 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
55462058 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55462095 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:55462113 original size:46 final size:46
Alignment explanation
Indices: 55461970--55462113 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 46
55461960 CGCATCCATG
* * *
55461970 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * *
55462018 A-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
55462063 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
55462109 AGTGA
1 AGTGA
55462114 CATGTCACTC
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 34 0.44
47 29 0.38
48 5 0.06
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:55471088 original size:13 final size:13
Alignment explanation
Indices: 55471070--55471096 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55471060 CTTTTATGTT
55471070 TTATTATATTATA
1 TTATTATATTATA
55471083 TTATTATATTATA
1 TTATTATATTATA
55471096 T
1 T
55471097 ACTTAAGTAT
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:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:55473867 original size:17 final size:18
Alignment explanation
Indices: 55473842--55473875 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
55473832 TCTTTTATTT
*
55473842 TATTCTATT-TCATTTAA
1 TATTATATTATCATTTAA
55473859 TATTATATTATCATTTA
1 TATTATATTATCATTTA
55473876 TCAAACATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTATATTATCATTTAA
Found at i:55480976 original size:49 final size:49
Alignment explanation
Indices: 55480914--55481051 Score: 158
Period size: 49 Copynumber: 2.8 Consensus size: 49
55480904 CACTGGCTCT
* * *
55480914 TACATCTAAGTCGATGCCATGTCCCAGACAGGTCTTATACT-GACTTCCA
1 TACATCGAGGTCGATGCCATGTCCCAGACAGGTCTTATACTAG-CTCCCA
*
55480963 TACATCGAGGTCGATGCCATGTCCCAGACATGG-CTTACACTAGCTCCCA
1 TACATCGAGGTCGATGCCATGTCCCAGACA-GGTCTTATACTAGCTCCCA
* *
55481012 T-CTATCG-GTGCCGATGCCATGTCCTAGACAGGTCTTATAC
1 TAC-ATCGAG-GTCGATGCCATGTCCCAGACAGGTCTTATAC
55481052 GAGCACACAT
Statistics
Matches: 77, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
48 4 0.05
49 70 0.91
50 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (49 bp):
TACATCGAGGTCGATGCCATGTCCCAGACAGGTCTTATACTAGCTCCCA
Found at i:55483718 original size:39 final size:39
Alignment explanation
Indices: 55483622--55483720 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 39
55483612 ATTCACTTTT
* * * * *
55483622 AAACATATATTACATTACACATATATTCACATAACATTT
1 AAACATATATAACAATACTCATATAATCACATAACATTC
* * *
55483661 AAGCATATATAACAATACTCATATAATCGCTTAACATTC
1 AAACATATATAACAATACTCATATAATCACATAACATTC
*
55483700 AAACATATATCACAATACTCA
1 AAACATATATAACAATACTCA
55483721 AAAACATGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.31
Consensus pattern (39 bp):
AAACATATATAACAATACTCATATAATCACATAACATTC
Found at i:55486145 original size:3 final size:3
Alignment explanation
Indices: 55486137--55486174 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
55486127 TAAGGTTAAA
55486137 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
55486175 AGGGAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:55495713 original size:11 final size:11
Alignment explanation
Indices: 55495697--55495725 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
55495687 TAAGTAAATA
55495697 TATTATATTAT
1 TATTATATTAT
55495708 TATTATATTAT
1 TATTATATTAT
55495719 TATTATA
1 TATTATA
55495726 AACATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATATTAT
Found at i:55496015 original size:5 final size:5
Alignment explanation
Indices: 55496005--55496033 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
55495995 TTAAGTAATA
55496005 TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
55496034 ATAATAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:55496129 original size:4 final size:4
Alignment explanation
Indices: 55496108--55496145 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
55496098 ACGAAAATAG
*
55496108 AGAA A-AA AGAA GGAA AGAA AGAAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AG-AA AGAA AGAA AGAA AG
55496146 GGAAATTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.10
4 23 0.77
5 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:55496134 original size:17 final size:17
Alignment explanation
Indices: 55496112--55496145 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55496102 AAATAGAGAA
*
55496112 AAAAGAAGGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
55496129 AAAAGAAAGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
55496146 GGAAATTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAGAAAG
Found at i:55496138 original size:13 final size:13
Alignment explanation
Indices: 55496108--55496144 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
55496098 ACGAAAATAG
55496108 AGAAA-AAAG-AA
1 AGAAAGAAAGAAA
*
55496119 GGAAAGAAAGAAA
1 AGAAAGAAAGAAA
55496132 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
55496145 GGGAAATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 4 0.18
12 4 0.18
13 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:55509629 original size:18 final size:19
Alignment explanation
Indices: 55509608--55509646 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
55509598 ATAATATTTG
*
55509608 AAATATACATA-AAGTAGT
1 AAATATACATATAACTAGT
*
55509626 AAATATATATATAACTAGT
1 AAATATACATATAACTAGT
55509645 AA
1 AA
55509647 TGTTAAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (19 bp):
AAATATACATATAACTAGT
Found at i:55511802 original size:28 final size:28
Alignment explanation
Indices: 55511771--55511833 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
55511761 TCGATATTTT
* *
55511771 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAATGCCATTCTCAATATCTC
*
55511799 GCACACTAAATGCCATTCTCAATATTTC
1 GCACACTAAATGCCATTCTCAATATCTC
*
55511827 GTACACT
1 GCACACT
55511834 GAGTACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.32
Consensus pattern (28 bp):
GCACACTAAATGCCATTCTCAATATCTC
Found at i:55516855 original size:29 final size:29
Alignment explanation
Indices: 55516822--55517034 Score: 213
Period size: 29 Copynumber: 7.6 Consensus size: 29
55516812 GGTTACGAAA
*
55516822 CTCGCACACATAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* ** * *
55516851 CTCGCACACACAGTG-CTCGATTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
55516879 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
***** * *
55516908 CTCGCACACACAGTG-CTTGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
55516936 CTCGCACACACAGTGCCTCAACAA-CGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** * *
55516964 CT-GCACACACA-TG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
55516990 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
55517019 CTCGCACACACAGTGC
1 CTCGCACACACAGTGC
55517035 TCGGTTACGG
Statistics
Matches: 141, Mismatches: 37, Indels: 12
0.74 0.19 0.06
Matches are distributed among these distances:
25 4 0.03
26 6 0.04
27 18 0.13
28 50 0.35
29 63 0.45
ACGTcount: A:0.29, C:0.37, G:0.18, T:0.16
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:55516894 original size:57 final size:57
Alignment explanation
Indices: 55516777--55517064 Score: 449
Period size: 57 Copynumber: 5.1 Consensus size: 57
55516767 TCACAAACTT
* * * * * * *
55516777 AGTGCCCCAACAACTGATCTTGCACACATAGT-CTTGGTTACGAAACTCGCACACAT
1 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACAC
*
55516833 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCGCACACAC
1 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACAC
*
55516890 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCGCACACAC
1 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACAC
55516947 AGTGCCTCAACAA-CGATCT-GCACACACA-TGCTCGGTTACGGAACTCGCACACAC
1 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACAC
**
55517001 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCATACACAC
1 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACAC
55517058 AGTGCCT
1 AGTGCCT
55517065 ATGTTCACTT
Statistics
Matches: 215, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
54 38 0.18
55 15 0.07
56 43 0.20
57 119 0.55
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (57 bp):
AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCGCACACAC
Found at i:55517017 original size:111 final size:114
Alignment explanation
Indices: 55516777--55517064 Score: 458
Period size: 111 Copynumber: 2.6 Consensus size: 114
55516767 TCACAAACTT
* * * * * *
55516777 AGTGCCCCAACAACTGATCTTGCACACATAGT-CTTGGTTACGAAACTCGCACACATAGTGCCTC
1 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCGCACACACAGTGCCTC
55516841 AACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCGCACACAC
66 AACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCGCACACAC
55516890 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCGCACACACAGTGCCTC
1 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCGCACACACAGTGCCTC
*
55516955 AACAA-CGATCT-GCACACACA-TGCTCGGTTACGGAACTCGCACACAC
66 AACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCGCACACAC
* **
55517001 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCATACACACAGTGCCT
1 AGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCGCACACACAGTGCCT
55517065 ATGTTCACTT
Statistics
Matches: 164, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
111 86 0.52
112 9 0.05
113 34 0.21
114 35 0.21
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.18
Consensus pattern (114 bp):
AGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCGCACACACAGTGCCTC
AACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCGCACACAC
Found at i:55519081 original size:28 final size:28
Alignment explanation
Indices: 55519013--55519091 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
55519003 GAATCATTCG
* *
55519013 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
** *
55519041 ATAGCTCACACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
55519069 ATATTTCGTACACTGAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
55519092 ATTTGATTGC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:55520723 original size:19 final size:18
Alignment explanation
Indices: 55520673--55520725 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 18
55520663 ACAATAATAT
*
55520673 ATAAAATAAAAAT-ATG-
1 ATAAAATAAGAATAATGC
* *
55520689 GTAAAATAATAATAATGC
1 ATAAAATAAGAATAATGC
55520707 ATAAAATATAGAATAATGC
1 ATAAAATA-AGAATAATGC
55520726 GTACAAGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 11 0.37
17 3 0.10
18 7 0.23
19 9 0.30
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATAAGAATAATGC
Found at i:55522842 original size:14 final size:14
Alignment explanation
Indices: 55522823--55522857 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
55522813 GTTGATTTTT
55522823 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
*
55522837 TTGAAAAGCAGGAA
1 TTGAAAAGCAGAAA
55522851 TTGAAAA
1 TTGAAAA
55522858 TTCCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:55522856 original size:91 final size:92
Alignment explanation
Indices: 55522672--55522929 Score: 309
Period size: 91 Copynumber: 2.9 Consensus size: 92
55522662 GCAAATTTTA
*
55522672 AAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--TTTTTGA
1 AAAATACCTCAG-CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* *
55522734 AAAATATAAATTGAAAAAAACAGAAACTG
65 AAAACAGAAATTG-AAAAAACAGAAACTG
* *
55522763 AAAATACCTCAGCATGTGAGCCGAGCCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
* * * *
55522828 AAGCAGAAATTG-AAAAGCAGGAATTG
66 AAACAGAAATTGAAAAAACAGAAACTG
* *
55522854 AAAATTCCTCAGC--GTG-CCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTGA
1 AAAATACCTCAGCATGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
* *
55522914 CAAACAGAATTTGAAA
65 AAAACAGAAATTGAAA
55522930 TTACCTCAGC
Statistics
Matches: 146, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
87 17 0.12
88 4 0.03
89 34 0.23
91 73 0.50
92 1 0.01
93 17 0.12
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (92 bp):
AAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
AAACAGAAATTGAAAAAACAGAAACTG
Found at i:55522969 original size:73 final size:72
Alignment explanation
Indices: 55522837--55523072 Score: 294
Period size: 73 Copynumber: 3.2 Consensus size: 72
55522827 AAAGCAGAAA
* *
55522837 TTGAAAAGCAGGAATTGAAAATT-CCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATG
1 TTGAAAA-CAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATG
55522901 AGTTGATTT
64 AGTTGATTT
* * *
55522910 TTGACAAACAGAATTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCACGCAATATGA
1 TTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
55522975 GTTGATTTTTT
65 GTTGA---TTT
* * * * *
55522986 TTGAAAGACAGAAATTGAAAGTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
* *
55523051 ATTGAATT
65 GTTGATTT
55523059 TTGAAAACAGAAAT
1 TTGAAAACAGAAAT
55523073 AAAAACATCA
Statistics
Matches: 142, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
72 13 0.09
73 63 0.44
74 3 0.02
75 2 0.01
76 61 0.43
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAG
TTGATTT
Found at i:55535178 original size:19 final size:20
Alignment explanation
Indices: 55535140--55535178 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
55535130 ATAATATTTG
*
55535140 AAATATACATAAAGTAGTAA
1 AAATATACATAAACTAGTAA
*
55535160 AAATATATAT-AACTAGTAA
1 AAATATACATAAACTAGTAA
55535179 TGTTAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (20 bp):
AAATATACATAAACTAGTAA
Found at i:55535256 original size:26 final size:26
Alignment explanation
Indices: 55535210--55535283 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
55535200 ATATAAAAAA
* * *
55535210 ATAT-TGAAAAGTGTATGTACATAAC
1 ATATATGAAAAATATATATACATAAC
* *
55535235 ATATATGAAAAATATATATACATGAT
1 ATATATGAAAAATATATATACATAAC
55535261 ATAATATGTAAAAATATAATATA
1 AT-ATATG-AAAAATAT-ATATA
55535284 GCATTCGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 4 0.10
26 18 0.45
27 5 0.12
28 8 0.20
29 5 0.12
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (26 bp):
ATATATGAAAAATATATATACATAAC
Found at i:55535465 original size:21 final size:20
Alignment explanation
Indices: 55535441--55535494 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
55535431 CAATATTACA
*
55535441 TAAATATATACCTATATATAT
1 TAAATATATACATATATA-AT
55535462 TAAAGATATATACATATATAAT
1 T-AA-ATATATACATATATAAT
* *
55535484 AAAACATATAC
1 TAAATATATAC
55535495 TAAGATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.25
21 3 0.11
22 4 0.14
23 14 0.50
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAATATATACATATATAAT
Found at i:55535566 original size:22 final size:23
Alignment explanation
Indices: 55535518--55535576 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
55535508 AATAATAAGG
55535518 ATAATATAAAAATATATACATGAA
1 ATAATATAAAAATATATACAT-AA
*
55535542 ATAGTATAAAAATATATA-ACT-A
1 ATAATATAAAAATATATACA-TAA
55535564 ATAATATTAAAAA
1 ATAATA-TAAAAA
55535577 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 6 0.19
23 7 0.23
24 18 0.58
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (23 bp):
ATAATATAAAAATATATACATAA
Found at i:55535626 original size:54 final size:55
Alignment explanation
Indices: 55535523--55535626 Score: 124
Period size: 54 Copynumber: 1.9 Consensus size: 55
55535513 TAAGGATAAT
* * *
55535523 ATAAAAATATATACATGAAATAGTATAAAAATATATAACTAATAATATTAAAAAA
1 ATAAAAATATATACATGAAATAGTACAAAAACATATAACGAATAATATTAAAAAA
* *
55535578 ATAAAAA-ATATACATGATATA-TACATAAACATAT-ACGATATATATATTA
1 ATAAAAATATATACATGAAATAGTACAAAAACATATAACGA-ATA-ATATTA
55535627 GAAATGATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
52 3 0.07
53 13 0.31
54 19 0.45
55 7 0.17
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.31
Consensus pattern (55 bp):
ATAAAAATATATACATGAAATAGTACAAAAACATATAACGAATAATATTAAAAAA
Found at i:55535801 original size:16 final size:15
Alignment explanation
Indices: 55535773--55535810 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
55535763 TAATAACAGC
55535773 AATAATATATAAAAT
1 AATAATATATAAAAT
*
55535788 AATAATATGGTAAAAT
1 AATAATAT-ATAAAAT
55535804 AATAATA
1 AATAATA
55535811 ATGCATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
AATAATATATAAAAT
Found at i:55535829 original size:19 final size:18
Alignment explanation
Indices: 55535781--55535833 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 18
55535771 GCAATAATAT
*
55535781 ATAAAATAATAAT-ATG-
1 ATAAAATAAGAATAATGC
* *
55535797 GTAAAATAATAATAATGC
1 ATAAAATAAGAATAATGC
55535815 ATAAAATATAGAATAATGC
1 ATAAAATA-AGAATAATGC
55535834 TTACAAGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 12 0.39
17 3 0.10
18 7 0.23
19 9 0.29
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.28
Consensus pattern (18 bp):
ATAAAATAAGAATAATGC
Found at i:55537111 original size:17 final size:17
Alignment explanation
Indices: 55537041--55537127 Score: 72
Period size: 17 Copynumber: 5.0 Consensus size: 17
55537031 ACAAAATAAT
55537041 AAAAGAAATGAAAGAATAG
1 AAAAGAAA-GAAAGAA-AG
*
55537060 AAAAGAAACAGAAAG--TG
1 AAAAG-AA-AGAAAGAAAG
* *
55537077 AAACGAAA-ACAGAGAAG
1 AAAAGAAAGAAAGA-AAG
*
55537094 AAAAGAAGGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
55537111 AAAAGAAAGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
55537128 GGAAATTAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
14 3 0.06
15 1 0.02
16 2 0.04
17 31 0.57
18 4 0.07
19 5 0.09
20 7 0.13
21 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.24, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAGAAAG
Found at i:55537123 original size:13 final size:13
Alignment explanation
Indices: 55537102--55537126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55537092 AGAAAAGAAG
55537102 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
55537115 GAAAGAAAGAAA
1 GAAAGAAAGAAA
55537127 GGGAAATTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAA
Found at i:55537906 original size:24 final size:22
Alignment explanation
Indices: 55537879--55537938 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 22
55537869 TTTACAATTG
55537879 AAATGGATTGATTTGATATGTGAT
1 AAATGGATTGATTT-ATATG-GAT
**
55537903 AAATTTATTGAATTTATATGGAT
1 AAATGGATTG-ATTTATATGGAT
*
55537926 ATATGTGATTGAT
1 AAATG-GATTGAT
55537939 GTAGAAATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 8 0.28
24 17 0.59
25 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (22 bp):
AAATGGATTGATTTATATGGAT
Found at i:55541588 original size:15 final size:17
Alignment explanation
Indices: 55541568--55541601 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
55541558 GTGTACCAGG
55541568 AAAAAATA-AAAA-TAA
1 AAAAAATATAAAATTAA
55541583 AAAAAATATAAAATTAA
1 AAAAAATATAAAATTAA
55541600 AA
1 AA
55541602 GTTTTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 4 0.24
17 5 0.29
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAATATAAAATTAA
Found at i:55541588 original size:17 final size:17
Alignment explanation
Indices: 55541568--55541601 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55541558 GTGTACCAGG
55541568 AAAAAATAAAAATAAAA
1 AAAAAATAAAAATAAAA
* *
55541585 AAAATATAAAATTAAAA
1 AAAAAATAAAAATAAAA
55541602 GTTTTGATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAATAAAAATAAAA
Found at i:55550103 original size:20 final size:20
Alignment explanation
Indices: 55550080--55550128 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
55550070 TTAAATTTCA
*
55550080 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
55550100 AAAGATAATTAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
55550120 AAAGATAAA
1 AAAGATAAA
55550129 AGCTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:55550173 original size:12 final size:12
Alignment explanation
Indices: 55550141--55550174 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
55550131 CTAAAATTAA
*
55550141 ATCTAAATAATT
1 ATCTTAATAATT
55550153 ATCCTTAATAATT
1 AT-CTTAATAATT
55550166 ATCTTAATA
1 ATCTTAATA
55550175 TAAATAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (12 bp):
ATCTTAATAATT
Found at i:55551778 original size:20 final size:20
Alignment explanation
Indices: 55551753--55551792 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
55551743 TCCAAAGCAA
55551753 ATACAATAGCTAAGAGTTCT
1 ATACAATAGCTAAGAGTTCT
55551773 ATACAATAGCTAAGAGTTCT
1 ATACAATAGCTAAGAGTTCT
55551793 TTTTCTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
ATACAATAGCTAAGAGTTCT
Found at i:55556443 original size:20 final size:20
Alignment explanation
Indices: 55556420--55556468 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
55556410 TTAAATTCTA
*
55556420 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
55556440 AAAGATAATTAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
55556460 AAAGATAAA
1 AAAGATAAA
55556469 AGCTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:55556690 original size:21 final size:20
Alignment explanation
Indices: 55556644--55556700 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
55556634 CAATTTAACT
*
55556644 TTAAATTCACGTTTTTTCCC
1 TTAAATTCACCTTTTTTCCC
55556664 TT-AATTCACACTTTTTTCCC
1 TTAAATTCAC-CTTTTTTCCC
*
55556684 TTAAATT-TCCTTTTTTC
1 TTAAATTCACCTTTTTTC
55556701 TTCAATTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 15 0.45
20 14 0.42
21 4 0.12
ACGTcount: A:0.19, C:0.25, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAAATTCACCTTTTTTCCC
Found at i:55557858 original size:40 final size:36
Alignment explanation
Indices: 55557770--55557864 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 36
55557760 CAACTCCGTC
*
55557770 CAACCTAACACACCATATGGGGATAAAATCAACCCA
1 CAACCTTACACACCATATGGGGATAAAATCAACCCA
* *
55557806 CACATCCCTACACACCTAATATGGGGATAAAATCGACCCA
1 CA-A-CCTTACACACC--ATATGGGGATAAAATCAACCCA
55557846 TCTAACCTTACACACCATA
1 -C-AACCTTACACACCATA
55557865 AAGTACTGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
36 2 0.04
37 1 0.02
38 12 0.24
40 31 0.63
41 2 0.04
42 1 0.02
ACGTcount: A:0.40, C:0.33, G:0.09, T:0.18
Consensus pattern (36 bp):
CAACCTTACACACCATATGGGGATAAAATCAACCCA
Found at i:55575206 original size:30 final size:30
Alignment explanation
Indices: 55575157--55575230 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
55575147 GCTCGAATTT
* * *
55575157 CCACACACCCATGTAGTTCACTTGTGTGGC
1 CCACACGCCCGTGTGGTTCACTTGTGTGGC
* *
55575187 CCACACGCCTGTGTGGTTCACTTGTGTGGT
1 CCACACGCCCGTGTGGTTCACTTGTGTGGC
55575217 CCACACGCCCGTGT
1 CCACACGCCCGTGT
55575231 AGCCCATACG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.15, C:0.34, G:0.24, T:0.27
Consensus pattern (30 bp):
CCACACGCCCGTGTGGTTCACTTGTGTGGC
Found at i:55575850 original size:655 final size:655
Alignment explanation
Indices: 55574601--55575909 Score: 2032
Period size: 655 Copynumber: 2.0 Consensus size: 655
55574591 CATAATAGAT
* *
55574601 AGAATAACAAAACATGTCCACCAACCTTGCACACCAACTCCGTCCAACCCAACACACCATGTGGG
1 AGAATAACAAAACATGCCCACCAACCCTGCACACCAACTCCGTCCAACCCAACACACCATGTGGG
* * * *
55574666 GATAAAATCGACCCACCCATCCCTGCACACCTAATATGGGGATAACATTGACCCATCCAACCTTA
66 GATAAAATCGACCCACCCATCCCTGCACACCTAATATGCGGATAAAATCGACCCATCCAACCCTA
* * * * *
55574731 CACACCATAAAGAACTGCAGTGCAGCACATGTAATAAATATGCAGCTTAGCTGCCTAATAATAGG
131 CACACCATAAAGAACTACAATGCAACACATGTAATAAATATGCAGCTCAGCTGCCTAATAACAGG
* * * *
55574796 CTTATGAGGCCTTTCAGATACTTCATTCACTTCATCAAACCCACCCCGATGCAATGCATCATACA
196 CTTATGAAGCCTTTCAGAAACTTCATTCACTTCATCAAACCCACCCCAATGCAATACATCATACA
55574861 ATGTGGCATGCTATAATGCAGGTAAACAGATCATACGTTTATATTCAGAACAGTACAGTGATACA
261 ATGTGGCATGCTATAATGCAGGTAAACAGATCATACGTTTATATTCAGAACAGTACAGTGATACA
* *
55574926 TGCTAGATATAATATATATTACCACATGCAACAAAATATCAGATCACAGAAACAAAGGTCTAAGC
326 TGCTAGATATAATATATATTAACACATGCAACAAAATATCAAATCACAGAAACAAAGGTCTAAGC
* *
55574991 AAGGCTTACTGACCCTACGACAAGTCACAGTCGACTTGGGCCACCTGCGCAACCTTAGAGAACAT
391 AAGGCTTACCGACCCTACGACAAGTCACAGTCGACTTGGGCCACCCGCGCAACCTTAGAGAACAT
55575056 TGCAAAAAAATAGGCTCACACGCCCATGTGGCCTGTCCATTTAGGCCCACACGGCTAAAATTAGC
456 TGCAAAAAAATAGGCTCACACGCCCATGTGGCCTGTCCATTTAGGCCCACACGGCTAAAATTAGC
*
55575121 CTTGGCCGTGTGAAACACATGGCCTGGCTCGAATTTCCACACACCCATGTAGTTCACTTGTGTGG
521 CTTGGCCGTGTGAAACACATGGCCTGGCTCGAATATCCACACACCCATGTAGTTCACTTGTGTGG
* * * *
55575186 CCCACACGCCTGTGTGGTTCACTTGTGTGGTCCACACGCCCGTGTAGCCCATACGGCCTCACCAG
586 CCCACACGCCTCTGTGGTTCACTTGTGTGGCCCACACACCCGTGTAGCCCACACGGCCTCACCAG
55575251 TCCTG
651 TCCTG
* * * *
55575256 AGAATAATAGAACATGCCCACCAACCCTGCACACCAACTCCGTCTAACCCAATACACCATGTGGG
1 AGAATAACAAAACATGCCCACCAACCCTGCACACCAACTCCGTCCAACCCAACACACCATGTGGG
* *
55575321 GATAAAATCGACCCACCTATCCCTGTACACCTAATATGCGGATAAAATCGACCCATCCAACCCTA
66 GATAAAATCGACCCACCCATCCCTGCACACCTAATATGCGGATAAAATCGACCCATCCAACCCTA
* * * *
55575386 CACACCATAAAGTACTATAATGCAACACATGTCATAAATATGCAGCTCAGTTG-CTAGATAACAG
131 CACACCATAAAGAACTACAATGCAACACATGTAATAAATATGCAGCTCAGCTGCCTA-ATAACAG
* * *
55575450 GCTTATGAAGCCTTTTAGAAACTTCTTTCACTTCATCAAATCCACCCCAATGCAATACATCATAC
195 GCTTATGAAGCCTTTCAGAAACTTCATTCACTTCATCAAACCCACCCCAATGCAATACATCATAC
* *
55575515 AATGTGGCATGCTATAATGCAGGTAAACAGATCATACGTTTATATTCAGAACATTAC-TTAGATA
260 AATGTGGCATGCTATAATGCAGGTAAACAGATCATACGTTTATATTCAGAACAGTACAGT-GATA
* *** *
55575579 CATGCTAGATATAATATATATTAACACGTGCAATGTAATATCAAATCACAGAAACAAGGGTCTAA
324 CATGCTAGATATAATATATATTAACACATGCAACAAAATATCAAATCACAGAAACAAAGGTCTAA
* * * * *
55575644 GTAAGGCTTACCGACCCTACGACAGGTCACAGTC-ACCTTGGGCGACCCGTGCAACCTTATAGAA
389 GCAAGGCTTACCGACCCTACGACAAGTCACAGTCGA-CTTGGGCCACCCGCGCAACCTTAGAGAA
* * * * *
55575708 CATTGCAGAAAAATGGGCTCACACGCCTATGTGGCCTGTCCATTTGGGCCCACACGGGC-CAAAT
453 CATTGCAAAAAAATAGGCTCACACGCCCATGTGGCCTGTCCATTTAGGCCCACAC-GGCTAAAAT
* * * *
55575772 TGGCCTTGGCTGTGTGGAACACATGGCCTGGCTCGAATATCCACACACCCATGTGGTTCACTTGT
517 TAGCCTTGGCCGTGTGAAACACATGGCCTGGCTCGAATATCCACACACCCATGTAGTTCACTTGT
55575837 GTGGCCCACACGCCTCTGTGGTTCACTTGTGTGGCCCACACACCCGTGTAGCCCACACGGCCTCA
582 GTGGCCCACACGCCTCTGTGGTTCACTTGTGTGGCCCACACACCCGTGTAGCCCACACGGCCTCA
55575902 CCAGTCCT
647 CCAGTCCT
55575910 CACACAGTCG
Statistics
Matches: 592, Mismatches: 58, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
654 5 0.01
655 584 0.99
656 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (655 bp):
AGAATAACAAAACATGCCCACCAACCCTGCACACCAACTCCGTCCAACCCAACACACCATGTGGG
GATAAAATCGACCCACCCATCCCTGCACACCTAATATGCGGATAAAATCGACCCATCCAACCCTA
CACACCATAAAGAACTACAATGCAACACATGTAATAAATATGCAGCTCAGCTGCCTAATAACAGG
CTTATGAAGCCTTTCAGAAACTTCATTCACTTCATCAAACCCACCCCAATGCAATACATCATACA
ATGTGGCATGCTATAATGCAGGTAAACAGATCATACGTTTATATTCAGAACAGTACAGTGATACA
TGCTAGATATAATATATATTAACACATGCAACAAAATATCAAATCACAGAAACAAAGGTCTAAGC
AAGGCTTACCGACCCTACGACAAGTCACAGTCGACTTGGGCCACCCGCGCAACCTTAGAGAACAT
TGCAAAAAAATAGGCTCACACGCCCATGTGGCCTGTCCATTTAGGCCCACACGGCTAAAATTAGC
CTTGGCCGTGTGAAACACATGGCCTGGCTCGAATATCCACACACCCATGTAGTTCACTTGTGTGG
CCCACACGCCTCTGTGGTTCACTTGTGTGGCCCACACACCCGTGTAGCCCACACGGCCTCACCAG
TCCTG
Found at i:55579659 original size:26 final size:26
Alignment explanation
Indices: 55579603--55579659 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
55579593 CTTTGTAGCT
*
55579603 AGTTATTTGAAAAGCCTATGTGGCAT
1 AGTTATTTGAAAAGCCTATGTGGCAA
*
55579629 A-TTATTTGGAAAGCC-ATAGTGGCAA
1 AGTTATTTGAAAAGCCTAT-GTGGCAA
55579654 AGTTAT
1 AGTTAT
55579660 CTAGAAACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 2 0.07
25 20 0.74
26 5 0.19
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (26 bp):
AGTTATTTGAAAAGCCTATGTGGCAA
Done.