Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 75 of 193
Found at i:24040550 original size:24 final size:24
Alignment explanation
Indices: 24040518--24040574 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
24040508 AATCTTCCAG
*
24040518 TTAAGCTCTGTTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
*
24040542 TTAAACTCTGTTTATTTGTTTCAG
1 TTAAACTCTGTTTATTTGTTTCAA
*
24040566 TCAAACTCT
1 TTAAACTCT
24040575 TAGTCTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.51
Consensus pattern (24 bp):
TTAAACTCTGTTTATTTGTTTCAA
Found at i:24044404 original size:40 final size:41
Alignment explanation
Indices: 24044336--24044414 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 41
24044326 AGAAAACGTA
*** *
24044336 GCAAAAGGTAAAGCAATAGCGTTGTTTTTTC-ATAAACGCT
1 GCAAAAGGTAAAGCAATAGCGGCATTTTTGCTATAAACGCT
24044376 GCAAAAGGTAAAGCAATAGCGGCATTTTTGCTATAAACG
1 GCAAAAGGTAAAGCAATAGCGGCATTTTTGCTATAAACG
24044415 TCGTTAAAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 27 0.79
41 7 0.21
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (41 bp):
GCAAAAGGTAAAGCAATAGCGGCATTTTTGCTATAAACGCT
Found at i:24044455 original size:41 final size:41
Alignment explanation
Indices: 24044410--24044753 Score: 350
Period size: 41 Copynumber: 8.4 Consensus size: 41
24044400 TTTTTGCTAT
* * * *
24044410 AAACGTCGTTAAAGGTCAGAGCATTAGCGACGTTTATGAGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATTAGA
* ** *
24044451 AAACGCCGCTAAAGGTCTGAGCATTAGTAGCGTTTATTTGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATTAGA
* ** * * *
24044492 CAACGCCATTAAAAGTCAGAGCATTAGCGGTGTTTATGAGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATTAGA
* * *
24044533 AAACGCCACTAAAGGTCTGAGCATTAGCGGCGTTTATTTGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATTAGA
* * *
24044574 CAACGTCGCTAAAGGTCAGAGCATTAGCGGCATTTA-TAGGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATTA-GA
* * *
24044615 AAACG-CGCTAAAAGTCAGAGCATTAGCGGTGTTTATTTGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATTAGA
* * * *
24044655 AAACGCCGTTAAAGGTCCGAGCAGTAGCGGTGTTTATTAGA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATTAGA
** * * **
24044696 AAATACCGCTAAAGGACAGAGCATTAGCGGTGTTTATGGGAA
1 AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATTAG-A
*
24044738 AAATGCCGCTAAAGGT
1 AAACGCCGCTAAAGGT
24044754 TAAGCAATAG
Statistics
Matches: 248, Mismatches: 51, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
40 35 0.14
41 198 0.80
42 15 0.06
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (41 bp):
AAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATTAGA
Found at i:24044504 original size:82 final size:82
Alignment explanation
Indices: 24044411--24044732 Score: 405
Period size: 82 Copynumber: 3.9 Consensus size: 82
24044401 TTTTGCTATA
* * *
24044411 AACGTCGTTAAAGGTCAGAGCATTAGCGACGTTTATGAGAAAACGCCGCTAAAGGTCTGAGCATT
1 AACGCCGTTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAACGCCGCTAAAGGTCAGAGCATT
**
24044476 AGTAGCGTTTATTTGAC
66 AGCGGCGTTTATTTGAC
* * * * *
24044493 AACGCCATTAAAAGTCAGAGCATTAGCGGTGTTTATGAGAAAACGCCACTAAAGGTCTGAGCATT
1 AACGCCGTTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAACGCCGCTAAAGGTCAGAGCATT
24044558 AGCGGCGTTTATTTGAC
66 AGCGGCGTTTATTTGAC
* * * *
24044575 AACGTCGCTAAAGGTCAGAGCATTAGCGGCATTTAT-AGGAAAACG-CGCTAAAAGTCAGAGCAT
1 AACGCCGTTAAAGGTCAGAGCATTAGCGGCGTTTATGA-GAAAACGCCGCTAAAGGTCAGAGCAT
* *
24044638 TAGCGGTGTTTATTTGAA
65 TAGCGGCGTTTATTTGAC
* * * * ** *
24044656 AACGCCGTTAAAGGTCCGAGCAGTAGCGGTGTTTATTAGAAAATACCGCTAAAGGACAGAGCATT
1 AACGCCGTTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAACGCCGCTAAAGGTCAGAGCATT
*
24044721 AGCGGTGTTTAT
66 AGCGGCGTTTAT
24044733 GGGAAAAATG
Statistics
Matches: 208, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
81 67 0.32
82 141 0.68
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (82 bp):
AACGCCGTTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAACGCCGCTAAAGGTCAGAGCATT
AGCGGCGTTTATTTGAC
Found at i:24044677 original size:122 final size:122
Alignment explanation
Indices: 24044410--24044739 Score: 401
Period size: 122 Copynumber: 2.7 Consensus size: 122
24044400 TTTTTGCTAT
* * * *
24044410 AAACGTCGTTAAAGGTCAGAGCATTAGCGACGTTTATGAGAAAACGCCGCTAAAGGTCTGAGCAT
1 AAACGCCGTTAAAGGTCAGAGCATTAGCGGCGTTTATTAGAAAACGCCGCTAAAGGTCAGAGCAT
** ** *
24044475 TAGTAGCGTTTATTTGACAACGCCATTAAAAGTCAGAGCATTAGCGGTGTTTATGAGA
66 TAGCGGCGTTTATAGGAAAACGCCA-TAAAAGTCAGAGCATTAGCGGTGTTTATGAGA
** * * * *
24044533 AAACGCCACTAAAGGTCTGAGCATTAGCGGCGTTTATTTGACAACGTCGCTAAAGGTCAGAGCAT
1 AAACGCCGTTAAAGGTCAGAGCATTAGCGGCGTTTATTAGAAAACGCCGCTAAAGGTCAGAGCAT
* **
24044598 TAGCGGCATTTATAGGAAAACGCGC-TAAAAGTCAGAGCATTAGCGGTGTTTATTTGA
66 TAGCGGCGTTTATAGGAAAACGC-CATAAAAGTCAGAGCATTAGCGGTGTTTATGAGA
* * * ** *
24044655 AAACGCCGTTAAAGGTCCGAGCAGTAGCGGTGTTTATTAGAAAATACCGCTAAAGGACAGAGCAT
1 AAACGCCGTTAAAGGTCAGAGCATTAGCGGCGTTTATTAGAAAACGCCGCTAAAGGTCAGAGCAT
* *
24044720 TAGCGGTGTTTATGGGAAAA
66 TAGCGGCGTTTATAGGAAAA
24044740 ATGCCGCTAA
Statistics
Matches: 174, Mismatches: 32, Indels: 3
0.83 0.15 0.01
Matches are distributed among these distances:
122 101 0.58
123 72 0.41
124 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (122 bp):
AAACGCCGTTAAAGGTCAGAGCATTAGCGGCGTTTATTAGAAAACGCCGCTAAAGGTCAGAGCAT
TAGCGGCGTTTATAGGAAAACGCCATAAAAGTCAGAGCATTAGCGGTGTTTATGAGA
Found at i:24044785 original size:204 final size:203
Alignment explanation
Indices: 24044339--24044789 Score: 453
Period size: 204 Copynumber: 2.2 Consensus size: 203
24044329 AAACGTAGCA
* * *
24044339 AAAGGTAAAGCAATAGCGTTGTTTTTTCATAAACG-CTGCAAAAGGTAAAGCAATAGCGGCATTT
1 AAAGGTTAAGCAATAGAG-TGTTTTTTCATAAACGTC-GCTAAAGGTAAAGCAATAGCGGCATTT
* * * *
24044403 TTGCTATAAACGTCGTTAAAGGTCAGAGCATTAGCGACGTTTATGAGAAAACGCCGCTAAAGGTC
64 TAGCGATAAACGTCGCTAAAAGTCAGAGCATTAGCGACGTTTATGAGAAAACGCCGCTAAAGGTC
* * * * * * * *
24044468 TGAGCATTAGTAGCGTTTATTTGACAACGCCATTAAAAGTCAGAGCATTAGCGGTGTTTATGAGA
129 CGAGCAGTAGCAGCGTTTATTAGAAAACACCACTAAAAGACAGAGCATTAGCGGTGTTTATGAGA
24044533 AAACGCCACT
194 AAACGCCACT
* * * * * * * *
24044543 AAAGGTCTGAGCATTAGCGGCGTTTATTTGA-CAACGTCGCTAAAGGTCAGAGCATTAGCGGCAT
1 AAAGGT-TAAGCAATAG-AGTGTTT-TTTCATAAACGTCGCTAAAGGT-AAAGCAATAGCGGCAT
** ** *
24044607 TTATAG-GA-AAACG-CGCTAAAAGTCAGAGCATTAGCGGTGTTTATTTGAAAACGCCGTTAAAG
62 TT-TAGCGATAAACGTCGCTAAAAGTCAGAGCATTAGCGACGTTTATGAGAAAACGCCGCTAAAG
* * * * *
24044669 GTCCGAGCAGTAGCGGTGTTTATTAGAAAATACCGCTAAAGGACAGAGCATTAGCGGTGTTTATG
126 GTCCGAGCAGTAGCAGCGTTTATTAGAAAACACCACTAAAAGACAGAGCATTAGCGGTGTTTATG
* * *
24044734 GGAAAAATGCCGCT
191 AG-AAAACGCCACT
*
24044748 AAAGGTTAAGCAATAGTAGTGGTTTTTCATAAACGTCGCTAA
1 AAAGGTTAAGCAATAG-AGTGTTTTTTCATAAACGTCGCTAA
24044790 TTTAATTTCA
Statistics
Matches: 196, Mismatches: 43, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
203 4 0.02
204 124 0.63
205 43 0.22
206 23 0.12
207 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (203 bp):
AAAGGTTAAGCAATAGAGTGTTTTTTCATAAACGTCGCTAAAGGTAAAGCAATAGCGGCATTTTA
GCGATAAACGTCGCTAAAAGTCAGAGCATTAGCGACGTTTATGAGAAAACGCCGCTAAAGGTCCG
AGCAGTAGCAGCGTTTATTAGAAAACACCACTAAAAGACAGAGCATTAGCGGTGTTTATGAGAAA
ACGCCACT
Found at i:24045975 original size:30 final size:30
Alignment explanation
Indices: 24045911--24045976 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
24045901 ATTCAATATG
* * * *
24045911 CAATATTATATATAAATTTTGATTTTATGT
1 CAATTTTATATATAAATATTAATTTGATGT
24045941 -AATTTTATATATTAAATATTAATTTGAT-T
1 CAATTTTATATA-TAAATATTAATTTGATGT
24045970 CAATTTT
1 CAATTTT
24045977 CACAAATTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (30 bp):
CAATTTTATATATAAATATTAATTTGATGT
Found at i:24046126 original size:2 final size:2
Alignment explanation
Indices: 24046119--24046150 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24046109 TTAGAATTTC
24046119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24046151 TTAAGTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24046717 original size:40 final size:40
Alignment explanation
Indices: 24046673--24046819 Score: 168
Period size: 40 Copynumber: 3.6 Consensus size: 40
24046663 AAAAACGTCG
24046673 CAAAAGGTAAAGCAATAGTGGCGTTTTTCCATAAACGCCA
1 CAAAAGGTAAAGCAATAGTGGCGTTTTTCCATAAACGCCA
* ** * * *
24046713 CAAAAGTTAAAGCAATAGTGGCGTTTATTGGAAAAATGCCG
1 CAAAAGGTAAAGCAATAGTGGCGTTT-TTCCATAAACGCCA
* * * *
24046754 CTAAAGGTATAGTAATAGTGGCGTTTTTTCATAAACGCCA
1 CAAAAGGTAAAGCAATAGTGGCGTTTTTCCATAAACGCCA
* * *
24046794 CAAAAAGTAAAGTAATAATGGCGTTT
1 CAAAAGGTAAAGCAATAGTGGCGTTT
24046820 ATTGAAAAAA
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
40 56 0.64
41 31 0.36
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAAAGGTAAAGCAATAGTGGCGTTTTTCCATAAACGCCA
Found at i:24046776 original size:81 final size:81
Alignment explanation
Indices: 24046654--24046873 Score: 282
Period size: 81 Copynumber: 2.7 Consensus size: 81
24046644 CAATAACAGT
* ** * * *
24046654 GTTTATGGAAAAAACGTCGCAAAAGGTAAAGCAATAGTGGCGTTTTTCCATAAACGCCAC-AAAA
1 GTTTATTGAAAAAACACCGCTAAAGGTATAGTAATAGTGGCGTTTTTCCATAAACGCCACAAAAA
*
24046718 GTTAAAGCAATAGTGGC
66 G-TAAAGCAATAATGGC
* ** *
24046735 GTTTATTGGAAAAATGCCGCTAAAGGTATAGTAATAGTGGCGTTTTTTCATAAACGCCACAAAAA
1 GTTTATTGAAAAAACACCGCTAAAGGTATAGTAATAGTGGCGTTTTTCCATAAACGCCACAAAAA
*
24046800 GTAAAGTAATAATGGC
66 GTAAAGCAATAATGGC
* *
24046816 GTTTATTGAAAAAACACCGTTAAAGATATAGTAATAGTGGCG-TTTTCTCATAAACGCC
1 GTTTATTGAAAAAACACCGCTAAAGGTATAGTAATAGTGGCGTTTTTC-CATAAACGCC
24046874 GTTAATTTTT
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 4 0.03
81 112 0.93
82 5 0.04
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (81 bp):
GTTTATTGAAAAAACACCGCTAAAGGTATAGTAATAGTGGCGTTTTTCCATAAACGCCACAAAAA
GTAAAGCAATAATGGC
Found at i:24047051 original size:17 final size:17
Alignment explanation
Indices: 24047029--24047073 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
24047019 CGCCCTTTTA
*
24047029 TTCTTCACACCGAAATT
1 TTCTTCACACCGAAATC
** *
24047046 TTCTTCACGTCGGAATC
1 TTCTTCACACCGAAATC
24047063 TTCTTCACACC
1 TTCTTCACACC
24047074 CAAGCCTCGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.22, C:0.33, G:0.09, T:0.36
Consensus pattern (17 bp):
TTCTTCACACCGAAATC
Found at i:24050097 original size:58 final size:57
Alignment explanation
Indices: 24050032--24050225 Score: 166
Period size: 58 Copynumber: 3.4 Consensus size: 57
24050022 CCCAAATATT
24050032 AAAATATTTAATTATTTAATTAGTTATTTATTAAATTTTAAACTCAAATATTTAATTC
1 AAAATATTTAATTATTTAATTAGTTATTTATTAAATTTTAAAC-CAAATATTTAATTC
* ** ** * *
24050090 AAAATATTTAATTA--TATTTAAATAAATATTAAATTATTAAA--AACA-ATCTAAATATT
1 AAAATATTTAATTATTTAATTAGTTATTTATTAAATT-TTAAACCAA-ATAT-TTAAT-TC
** * ** *
24050146 AAAATATTTAATTATTTAAACAGTTATTTATTAGATCCTAAACCTAAATATGTAATTC
1 AAAATATTTAATTATTTAATTAGTTATTTATTAAATTTTAAACC-AAATATTTAATTC
24050204 GAAAA-ATTTAATTATTTAATTA
1 -AAAATATTTAATTATTTAATTA
24050226 TTTTCAACTA
Statistics
Matches: 103, Mismatches: 22, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
54 4 0.04
55 5 0.05
56 31 0.30
57 9 0.09
58 42 0.41
59 8 0.08
60 4 0.04
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (57 bp):
AAAATATTTAATTATTTAATTAGTTATTTATTAAATTTTAAACCAAATATTTAATTC
Found at i:24056337 original size:55 final size:56
Alignment explanation
Indices: 24056228--24056337 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 56
24056218 TTATGAGAAA
* * **
24056228 AGCACCACTAAAGAGCATGTTCTTTAGCAGTGTTTGTGGGGAAAGCACTGCTAAAG
1 AGCACCACTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGGAAAGCACCACTAAAG
* * *
24056284 AGCACCGCTAAAGACCATGTT-TTTAGCGGCGTTTGTGGGGAAAGCGCCACTAAA
1 AGCACCACTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGGAAAGCACCACTAAA
24056338 AACTATGTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 28 0.60
56 19 0.40
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (56 bp):
AGCACCACTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGGAAAGCACCACTAAAG
Found at i:24057209 original size:3 final size:3
Alignment explanation
Indices: 24057201--24057285 Score: 102
Period size: 3 Copynumber: 29.0 Consensus size: 3
24057191 TTTCCAGCAC
* *
24057201 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ACT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
24057249 ACT AAT ATT -TT -TT ATT ATC ATT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24057286 TATTTATTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
2 4 0.06
3 66 0.94
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:24063459 original size:23 final size:23
Alignment explanation
Indices: 24063424--24063841 Score: 482
Period size: 23 Copynumber: 18.2 Consensus size: 23
24063414 ATCTTAATTC
*
24063424 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
24063447 TGTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
24063470 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* **
24063493 TTTAAGCATACGTCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24063516 TATGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
24063539 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24063562 TTTGAGGACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
24063585 TTTATGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
24063608 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
24063631 ATTGAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24063654 TTTGAGAACAAATTGA-ATTAATA
1 TTTAAGCACAAA-TCACATTAATA
* *
24063677 TTTAAGCATAAATAACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
24063700 TTTAAGCAGAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * * *
24063723 TTTGAGAACCAATCATATTAAAA
1 TTTAAGCACAAATCACATTAATA
* *
24063746 TTTAAGCACAAATCAGACTAAT-
1 TTTAAGCACAAATCACATTAATA
*
24063768 TTTCAA-CACAAATCATATTAATA
1 TTT-AAGCACAAATCACATTAATA
*
24063791 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
24063814 CTTAAGCCCAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
24063837 TTTAA
1 TTTAA
24063842 TCATATTTAA
Statistics
Matches: 330, Mismatches: 60, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
22 21 0.06
23 307 0.93
24 2 0.01
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:24079865 original size:25 final size:25
Alignment explanation
Indices: 24079831--24079881 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
24079821 TCTACTGATA
24079831 CCGTTGGACAAGTATTGGTAGAAAT
1 CCGTTGGACAAGTATTGGTAGAAAT
24079856 CCGTTGGACAAGTATTGGTAGAAAT
1 CCGTTGGACAAGTATTGGTAGAAAT
24079881 C
1 C
24079882 AAGTCAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.27
Consensus pattern (25 bp):
CCGTTGGACAAGTATTGGTAGAAAT
Found at i:24101380 original size:49 final size:49
Alignment explanation
Indices: 24101327--24101483 Score: 120
Period size: 49 Copynumber: 3.2 Consensus size: 49
24101317 ACGAATCTGA
24101327 TACCTTAGAGATACGGAGGGAAAGGTTGAGGCCACAACGGTAAACTCGG
1 TACCTTAGAGATACGGAGGGAAAGGTTGAGGCCACAACGGTAAACTCGG
* * * * * * *
24101376 TACCTTAGA-AGACATGATGGG-AAGGATCGAGGCCACAACGGCAGATTTGG
1 TACCTTAGAGATAC-GGA-GGGAAAGG-TTGAGGCCACAACGGTAAACTCGG
* * * * * * * * *
24101426 CACCATAAAGATATGAAGGGAAAGGCTGAGGCCGCAACGGTGAACCCGG
1 TACCTTAGAGATACGGAGGGAAAGGTTGAGGCCACAACGGTAAACTCGG
*
24101475 TAACTTAGA
1 TACCTTAGA
24101484 AGACATGATG
Statistics
Matches: 76, Mismatches: 27, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
48 3 0.04
49 38 0.50
50 33 0.43
51 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (49 bp):
TACCTTAGAGATACGGAGGGAAAGGTTGAGGCCACAACGGTAAACTCGG
Found at i:24101476 original size:99 final size:98
Alignment explanation
Indices: 24101343--24101895 Score: 450
Period size: 99 Copynumber: 5.6 Consensus size: 98
24101333 AGAGATACGG
* *
24101343 AGGGAAAGGTTGAGGCCACAACGGTAAACTCGGTACCTTAGAAGACATGATGGGAAGGATCGAGG
1 AGGGAAAGGTTGAGGCCACAACGGTGAACCCGGTACCTTAGAAGACATGATGGGAAGGATCGAGG
** * *
24101408 CCACAACGGCAGATTTGGCACCATAAAGATATGA
66 CCGTAACGGC-GATCTGGTACCATAAAGATATGA
* * *
24101442 AGGGAAAGGCTGAGGCCGCAACGGTGAACCCGGTAACTTAGAAGACATGATGGGAAGGATCGAGG
1 AGGGAAAGGTTGAGGCCACAACGGTGAACCCGGTACCTTAGAAGACATGATGGGAAGGATCGAGG
*** * *
24101507 CCGTAATAACGTATCTAGTACCATAAAGGTATGA
66 CCGTAACGGCG-ATCTGGTACCATAAAGATATGA
*** * * *
24101541 AGGGAAAGGTTGAGGCTGGAACGATGAACCCGGTACCTTAGAAGACATGATGAGAAAGATCGAGG
1 AGGGAAAGGTTGAGGCCACAACGGTGAACCCGGTACCTTAGAAGACATGATGGGAAGGATCGAGG
* * *
24101606 CCGTAACGGTTGATCTGGTACCATGAAGATATAA
66 CCGTAACGG-CGATCTGGTACCATAAAGATATGA
* * * ** *
24101640 AAGGAAAGGTTGAGGCCACAACGGCGAACCCAGTACCTTAGAAGATGTTATGGGAAGGATCGAGG
1 AGGGAAAGGTTGAGGCCACAACGGTGAACCCGGTACCTTAGAAGACATGATGGGAAGGATCGAGG
* * * * *
24101705 CTGTAATGGTGAATCTAGTACCATGAAA-ATATAA
66 CCGTAACGGCG-ATCTGGTACCAT-AAAGATATGA
* * * *** ** ** * **
24101739 ATGGGATAGGTTGAGACCATAACGACAAACCTTGTACCCAAGAA-ACATTATGGGAAGGATTAAG
1 A-GGGAAAGGTTGAGGCCACAACGGTGAACCCGGTACCTTAGAAGACATGATGGGAAGGATCGAG
* * ** * * * *
24101803 GTCGCAACGGAAAATCTAGAACCAT-GA-ATATAA
65 GCCGTAACGG-CGATCTGGTACCATAAAGATATGA
* * * ** *
24101836 AGGGGAAAGTTTGAGGCCGCAACGGTAAACCTTGTACCTTAGAA-ATATGATGGGAAGGAT
1 A-GGGAAAGGTTGAGGCCACAACGGTGAACCCGGTACCTTAGAAGACATGATGGGAAGGAT
24101896 TGAAGCCACA
Statistics
Matches: 369, Mismatches: 79, Indels: 14
0.80 0.17 0.03
Matches are distributed among these distances:
97 55 0.15
98 3 0.01
99 276 0.75
100 35 0.09
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (98 bp):
AGGGAAAGGTTGAGGCCACAACGGTGAACCCGGTACCTTAGAAGACATGATGGGAAGGATCGAGG
CCGTAACGGCGATCTGGTACCATAAAGATATGA
Found at i:24101509 original size:50 final size:50
Alignment explanation
Indices: 24101354--24101508 Score: 170
Period size: 50 Copynumber: 3.1 Consensus size: 50
24101344 GGGAAAGGTT
24101354 GAGGCCACAACGGTAAACTCGGTACCTTAGAAGACATGATGGGAAGGATC
1 GAGGCCACAACGGTAAACTCGGTACCTTAGAAGACATGATGGGAAGGATC
* * * * * * * * *
24101404 GAGGCCACAACGGCAGATTTGGCACCATA-AAGATATGAAGGGAAAGGCT-
1 GAGGCCACAACGGTAAACTCGGTACCTTAGAAGACATGATGGG-AAGGATC
* * * *
24101453 GAGGCCGCAACGGTGAACCCGGTAACTTAGAAGACATGATGGGAAGGATC
1 GAGGCCACAACGGTAAACTCGGTACCTTAGAAGACATGATGGGAAGGATC
24101503 GAGGCC
1 GAGGCC
24101509 GTAATAACGT
Statistics
Matches: 80, Mismatches: 22, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
49 35 0.44
50 45 0.56
ACGTcount: A:0.34, C:0.20, G:0.32, T:0.14
Consensus pattern (50 bp):
GAGGCCACAACGGTAAACTCGGTACCTTAGAAGACATGATGGGAAGGATC
Found at i:24101682 original size:198 final size:198
Alignment explanation
Indices: 24101343--24101769 Score: 505
Period size: 198 Copynumber: 2.2 Consensus size: 198
24101333 AGAGATACGG
* * * *
24101343 AGGGAAAGGTTGAGGCCACAACGGTAAACTCGGTACCTTAGAAGACATGATGGGAAGGATCGAGG
1 AGGGAAAGGTTGAGGCCACAACGATAAACCCGGTACCTTAGAAGACATGATGAGAAAGATCGAGG
* * * * *
24101408 CCACAACGGCAGATTTGGCACCATAAAGATATGAAGGGAAAGGCTGAGGCCGCAACGGTGAACCC
66 CCACAACGGCAGATCTGGCACCATAAAGATATAAAAGGAAAGGCTGAGGCCACAACGGCGAACCC
*
24101473 GGTAACTTAGAAGACATGATGGGAAGGATCGAGGCCGTAATAACGTATCTAGTACCATAAAGGTA
131 AGTAACTTAGAAGACATGATGGGAAGGATCGAGGCCGTAATAACGTATCTAGTACCATAAAGGTA
24101538 TGA
196 TGA
*** *
24101541 AGGGAAAGGTTGAGGCTGGAACGATGAACCCGGTACCTTAGAAGACATGATGAGAAAGATCGAGG
1 AGGGAAAGGTTGAGGCCACAACGATAAACCCGGTACCTTAGAAGACATGATGAGAAAGATCGAGG
** ** * * *
24101606 CCGTAACGGTTGATCTGGTACCATGAAGATATAAAAGGAAAGGTTGAGGCCACAACGGCGAACCC
66 CCACAACGGCAGATCTGGCACCATAAAGATATAAAAGGAAAGGCTGAGGCCACAACGGCGAACCC
* ** * * *** * *
24101671 AGTACCTTAGAAGATGTTATGGGAAGGATCGAGGCTGTAATGGTGAATCTAGTACCATGAAA-AT
131 AGTAACTTAGAAGACATGATGGGAAGGATCGAGGCCGTAATAACGTATCTAGTACCAT-AAAGGT
*
24101735 ATAA
195 ATGA
* * * *
24101739 ATGGGATAGGTTGAGACCATAACGACAAACC
1 A-GGGAAAGGTTGAGGCCACAACGATAAACC
24101770 TTGTACCCAA
Statistics
Matches: 188, Mismatches: 39, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
198 163 0.87
199 25 0.13
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (198 bp):
AGGGAAAGGTTGAGGCCACAACGATAAACCCGGTACCTTAGAAGACATGATGAGAAAGATCGAGG
CCACAACGGCAGATCTGGCACCATAAAGATATAAAAGGAAAGGCTGAGGCCACAACGGCGAACCC
AGTAACTTAGAAGACATGATGGGAAGGATCGAGGCCGTAATAACGTATCTAGTACCATAAAGGTA
TGA
Found at i:24104258 original size:23 final size:23
Alignment explanation
Indices: 24104228--24104272 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
24104218 CCGTACTACT
24104228 TTTTTTTGAAGTAATTTTGCAAC
1 TTTTTTTGAAGTAATTTTGCAAC
24104251 TTTTTTTGAAGTAATTTTGCAA
1 TTTTTTTGAAGTAATTTTGCAA
24104273 GTATGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (23 bp):
TTTTTTTGAAGTAATTTTGCAAC
Found at i:24104427 original size:17 final size:18
Alignment explanation
Indices: 24104401--24104438 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
24104391 CCCTTTTAAA
24104401 TTTTATGCA-TATATTTAT
1 TTTTATGCATTAT-TTTAT
24104419 TTTTA-GCATTATTTTAT
1 TTTTATGCATTATTTTAT
24104436 TTT
1 TTT
24104439 ATTTACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTATGCATTATTTTAT
Found at i:24107133 original size:35 final size:35
Alignment explanation
Indices: 24107091--24107165 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
24107081 TACCACAATC
24107091 AGTGCTTAAAAATATTTTTTGGTGACCAAAATGAA
1 AGTGCTTAAAAATATTTTTTGGTGACCAAAATGAA
24107126 AGTGCTTAAAAATATTTTTTGGTGACCAAAATGAA
1 AGTGCTTAAAAATATTTTTTGGTGACCAAAATGAA
24107161 AGTGC
1 AGTGC
24107166 AAACATGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (35 bp):
AGTGCTTAAAAATATTTTTTGGTGACCAAAATGAA
Found at i:24110979 original size:25 final size:23
Alignment explanation
Indices: 24110938--24110983 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
24110928 CCAATTAGGG
24110938 AATTATTATTTAGATTTAATTCA
1 AATTATTATTTAGATTTAATTCA
*
24110961 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
24110984 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCA
Found at i:24116441 original size:31 final size:31
Alignment explanation
Indices: 24116406--24116485 Score: 151
Period size: 31 Copynumber: 2.6 Consensus size: 31
24116396 AATTAGAGTT
24116406 AAATATCAGAGGTTAAATGTCAGTGTACTAA
1 AAATATCAGAGGTTAAATGTCAGTGTACTAA
*
24116437 AAATATCAGAGGTTAAATGTTAGTGTACTAA
1 AAATATCAGAGGTTAAATGTCAGTGTACTAA
24116468 AAATATCAGAGGTTAAAT
1 AAATATCAGAGGTTAAAT
24116486 CCTGAGCAGC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (31 bp):
AAATATCAGAGGTTAAATGTCAGTGTACTAA
Found at i:24141592 original size:20 final size:20
Alignment explanation
Indices: 24141555--24141595 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
24141545 CTACCTTAGG
*
24141555 ACTTCTACCAGTAGAACTTC
1 ACTTCTACCAGTACAACTTC
24141575 ACTTCTACCTA-TACAACTTC
1 ACTTCTACC-AGTACAACTTC
24141595 A
1 A
24141596 AATCTACCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (20 bp):
ACTTCTACCAGTACAACTTC
Found at i:24143114 original size:18 final size:18
Alignment explanation
Indices: 24143075--24143116 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
24143065 ACCACCATTG
*
24143075 AAGAGAGTGAATCAAGTG
1 AAGAGAGTGAATCAAGTA
*
24143093 AAGAG-GTGAATGAAGATA
1 AAGAGAGTGAATCAAG-TA
24143111 AAGAGA
1 AAGAGA
24143117 AAGAGAGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.50, C:0.02, G:0.33, T:0.14
Consensus pattern (18 bp):
AAGAGAGTGAATCAAGTA
Found at i:24156721 original size:21 final size:21
Alignment explanation
Indices: 24156697--24156748 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
24156687 TGAGACAATA
*
24156697 CTACCGATTCAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
* *
24156718 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
24156739 CTACCGATAC
1 CTACCGATAC
24156749 TAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:24166698 original size:11 final size:11
Alignment explanation
Indices: 24166678--24166714 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
24166668 TCAGTCACAT
24166678 AAAAAG-AAAG
1 AAAAAGAAAAG
24166688 AAAAAGAAAAG
1 AAAAAGAAAAG
24166699 AAAAAGAGAAA-
1 AAAAAGA-AAAG
24166710 AAAAA
1 AAAAA
24166715 ATATTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 6 0.24
11 16 0.64
12 3 0.12
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:24169489 original size:28 final size:28
Alignment explanation
Indices: 24169420--24169489 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
24169410 TAGAACAAAA
* *
24169420 AGCTCATACTAAAGCAAACCTAACCAGAG
1 AGCTCACA-TAAAGCAAACCTAAACAGAG
* * * *
24169449 AGCTCGCACAAAGCAGACCTAAATAGAG
1 AGCTCACATAAAGCAAACCTAAACAGAG
24169477 AGCTCACATAAAG
1 AGCTCACATAAAG
24169490 GAGAGTCAGA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 27 0.82
29 6 0.18
ACGTcount: A:0.44, C:0.26, G:0.17, T:0.13
Consensus pattern (28 bp):
AGCTCACATAAAGCAAACCTAAACAGAG
Found at i:24179384 original size:15 final size:14
Alignment explanation
Indices: 24179364--24179411 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
24179354 TTACTGTTGC
24179364 ATGTTGTTTAATTGT
1 ATGTTGTTT-ATTGT
*
24179379 ATGTTGTTTGATTTT
1 ATGTTGTTT-ATTGT
*
24179394 TTGTTGTTTA-TGT
1 ATGTTGTTTATTGT
24179407 ATGTT
1 ATGTT
24179412 TTTCACATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 6 0.21
14 1 0.04
15 21 0.75
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.65
Consensus pattern (14 bp):
ATGTTGTTTATTGT
Found at i:24180891 original size:124 final size:123
Alignment explanation
Indices: 24180609--24180971 Score: 541
Period size: 124 Copynumber: 3.0 Consensus size: 123
24180599 GATTTCGTTA
* * * * *
24180609 AATATT-AAAACGTGGAAGCTAATATCCTTTTGGAAAGGATATAATGTTTTTATAAACCTTCCAT
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAAGATATAATGTTTTAATAAACCTTCTAT
* *
24180673 ATATTTCTTTAAAGGAATATTTCCATTTTAAAATAAGATATTATATAAAAGGAAATTG
66 ATATTTCTTTAAAGGAATATTTCCATTTTAATATGAGATATTATATAAAAGGAAATTG
* *
24180731 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAATGATATAATGTTTTAATAAACATTCTAT
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAAGATATAATGTTTTAATAAACCTTCTAT
24180796 ATATTTCTTTAAAGGAATATTTCCATTTTTAATATGAGATATTATATAAAAGGAAATTG
66 ATATTTCTTTAAAGGAATATTTCCA-TTTTAATATGAGATATTATATAAAAGGAAATTG
* * * * *
24180855 AATATTAAAAACATGAAAGTTAATATCCTTTCGGAAAAGATATAATATTTTAATAAACCTTTTAC
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAAGATATAATGTTTTAATAAACCTTCTAT
* * *
24180920 ATATTTCTCTAAA-GATATATTTTCATTTTAATATGAGATATTAAATAAAAGG
66 ATATTTCTTTAAAGGA-ATATTTCCATTTTAATATGAGATATTATATAAAAGG
24180972 GCTCCAAACA
Statistics
Matches: 220, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
122 6 0.03
123 105 0.48
124 109 0.50
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (123 bp):
AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAAGATATAATGTTTTAATAAACCTTCTAT
ATATTTCTTTAAAGGAATATTTCCATTTTAATATGAGATATTATATAAAAGGAAATTG
Found at i:24186346 original size:123 final size:123
Alignment explanation
Indices: 24186202--24186440 Score: 351
Period size: 124 Copynumber: 1.9 Consensus size: 123
24186192 GATTTCGTAA
24186202 AATATTAAAACATGAAAGTTAATATC-CTTTTGGAAAGGATACAAT-TCTTTAATAAACCTTCCA
1 AATATTAAAACATGAAAGTTAATATCTCTTTTGGAAAGGATACAATGT-TTTAATAAACCTTCCA
* *
24186265 TATATTTCTTTAAAGGA-ATATTTCCATTTTAATATGAG-TTATTATATAAAAGAAAATTG
65 TATATTTCTCTAAA-GATATATTTCCATTTTAATATGAGATT-TTAAATAAAAGAAAATTG
* * * * *
24186324 AATATTAAAAACATGGAAGTTAATATCTTTTTTGGAAAGGATATAATGTTTTACTACACCTTCCA
1 AATATT-AAAACATGAAAGTTAATATCTCTTTTGGAAAGGATACAATGTTTTAATAAACCTTCCA
24186389 TATATTTCTCTAAAGATATATTTCCATTTTAATATGAGATTTTAAATAAAAG
65 TATATTTCTCTAAAGATATATTTCCATTTTAATATGAGATTTTAAATAAAAG
24186441 GATAGATAGC
Statistics
Matches: 105, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
122 6 0.06
123 21 0.20
124 75 0.71
125 3 0.03
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (123 bp):
AATATTAAAACATGAAAGTTAATATCTCTTTTGGAAAGGATACAATGTTTTAATAAACCTTCCAT
ATATTTCTCTAAAGATATATTTCCATTTTAATATGAGATTTTAAATAAAAGAAAATTG
Found at i:24188414 original size:16 final size:17
Alignment explanation
Indices: 24188387--24188418 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
24188377 AACAATAATT
24188387 TTTTATTGAATTTTAAA
1 TTTTATTGAATTTTAAA
24188404 TTTTA-TGAATTTTAA
1 TTTTATTGAATTTTAA
24188419 TTAAAGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATTGAATTTTAAA
Found at i:24191509 original size:234 final size:235
Alignment explanation
Indices: 24191100--24191569 Score: 773
Period size: 234 Copynumber: 2.0 Consensus size: 235
24191090 ATTGACTTCG
*
24191100 AAGAGGTAAAATGTAAAAGTAATATTCTAACTTTTAAATAGGAGGTAAATCATAGTTTATTGGTT
1 AAGAGGTAAAATGTAAAAGTAATATTCTAACTTTTAAATAGGAGGTAAATCATAGTTTATTAGTT
*
24191165 TTGTAAATGTCTGATAGTGAAGTCAAAATTTCTTTTTGATTTAATTAGTCAGTGGTTCACAGAAC
66 TTGTAAATGTCTGATAGTGAAGTCAAAATTTCTTTTTGATTTAATGAGTCAGTGGTTCACAGAAC
* * *
24191230 TGGTACGAGCTAATTTAGTGCCTTTACAACCCCTACCCTCTATTATACTCCTTATGGAAT-CTTG
131 TGGTACGAGCCAATTCAGTGCCTTTACAACCCCTACCCCCTATTATACTCCTTATGGAATCCTTG
* *
24191294 GGTCCTCAATAGACTGAAATAGTTTGACGGCTTTTAATTA
196 GGTCCTCAATAGACTGAAATAATTTGACGACTTTTAATTA
*
24191334 AAGAGGTAAAATGTAAAAGTAATATTCTAACTTTTAAATAGGAGGTAAGTCATAGTTTATTAGTT
1 AAGAGGTAAAATGTAAAAGTAATATTCTAACTTTTAAATAGGAGGTAAATCATAGTTTATTAGTT
* * *
24191399 TTGTAAATGTCTGATAGTGAAGTGAAAATTTCTTTTTGATTTAATGAGTCGGTGGTTCACTGAAC
66 TTGTAAATGTCTGATAGTGAAGTCAAAATTTCTTTTTGATTTAATGAGTCAGTGGTTCACAGAAC
* *
24191464 TGGTGA-GAGCCAATTCAGTGCGTTTACAACCCCTACCCCCTATTATACTCCTTATGGCATCCTT
131 TGGT-ACGAGCCAATTCAGTGCCTTTACAACCCCTACCCCCTATTATACTCCTTATGGAATCCTT
* * *
24191528 GGGTCCTCAATGGATTGAAATAATTTGACGACTTTTGATTA
195 GGGTCCTCAATAGACTGAAATAATTTGACGACTTTTAATTA
24191569 A
1 A
24191570 TTAATTAGAA
Statistics
Matches: 218, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
234 177 0.81
235 41 0.19
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (235 bp):
AAGAGGTAAAATGTAAAAGTAATATTCTAACTTTTAAATAGGAGGTAAATCATAGTTTATTAGTT
TTGTAAATGTCTGATAGTGAAGTCAAAATTTCTTTTTGATTTAATGAGTCAGTGGTTCACAGAAC
TGGTACGAGCCAATTCAGTGCCTTTACAACCCCTACCCCCTATTATACTCCTTATGGAATCCTTG
GGTCCTCAATAGACTGAAATAATTTGACGACTTTTAATTA
Found at i:24198757 original size:20 final size:20
Alignment explanation
Indices: 24198732--24198779 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
24198722 GATTAAATTG
24198732 ATCAAAACAAAAAAATTTGT
1 ATCAAAACAAAAAAATTTGT
*
24198752 ATCAAAACAAAAAATTTTGT
1 ATCAAAACAAAAAAATTTGT
*
24198772 GTCAAAAC
1 ATCAAAAC
24198780 TGTAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25
Consensus pattern (20 bp):
ATCAAAACAAAAAAATTTGT
Found at i:24231798 original size:37 final size:37
Alignment explanation
Indices: 24231748--24231821 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
24231738 CTAATGGCGA
* *
24231748 TGCATGAGCACTTCTAGATTGCGCCCAAAACTGTCGC
1 TGCATGAGCACTTCCAGATTGCACCCAAAACTGTCGC
24231785 TGCATGAGCACTTCCAGATTGCACCCAAAACTGTCGC
1 TGCATGAGCACTTCCAGATTGCACCCAAAACTGTCGC
24231822 CGTAAGAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
TGCATGAGCACTTCCAGATTGCACCCAAAACTGTCGC
Found at i:24237423 original size:17 final size:17
Alignment explanation
Indices: 24237403--24237450 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
24237393 TGGGTGTTAA
24237403 GTCACTTTGGCCCTTGG
1 GTCACTTTGGCCCTTGG
* *
24237420 GTCACTTT-GACTTTGG
1 GTCACTTTGGCCCTTGG
* *
24237436 CTCACTTTGACCCTT
1 GTCACTTTGGCCCTT
24237451 AATGTTTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.10, C:0.29, G:0.21, T:0.40
Consensus pattern (17 bp):
GTCACTTTGGCCCTTGG
Found at i:24237969 original size:29 final size:30
Alignment explanation
Indices: 24237932--24238000 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
24237922 TTAATAATTA
24237932 TTTAATAATTAT-TATTTCAAAAAAATAAT
1 TTTAATAATTATATATTTCAAAAAAATAAT
* ** *
24237961 TTTAATAATTTTATATTTTTAGAAAATAAT
1 TTTAATAATTATATATTTCAAAAAAATAAT
24237991 TTTAATAATT
1 TTTAATAATT
24238001 TTAAAATCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 11 0.31
30 24 0.69
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TTTAATAATTATATATTTCAAAAAAATAAT
Found at i:24255077 original size:18 final size:17
Alignment explanation
Indices: 24255052--24255085 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24255042 TATTCCTTTT
24255052 CTAACTTTTATTGATTA
1 CTAACTTTTATTGATTA
*
24255069 CTAATCTTTTGTTGATT
1 CTAA-CTTTTATTGATT
24255086 TTCTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTAACTTTTATTGATTA
Found at i:24256409 original size:18 final size:18
Alignment explanation
Indices: 24256388--24256422 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24256378 CCTGATGTGA
24256388 TCATAGAACCAGATGCAG
1 TCATAGAACCAGATGCAG
* *
24256406 TCATATAATCAGATGCA
1 TCATAGAACCAGATGCA
24256423 ACCACATGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (18 bp):
TCATAGAACCAGATGCAG
Found at i:24266141 original size:26 final size:26
Alignment explanation
Indices: 24266112--24266165 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
24266102 CACCCAGGAA
* *
24266112 TGTTGCTGCATGAACATGTCCAGAAT
1 TGTTGCTACATGAACATGTCCAAAAT
24266138 TGTTGCTACATGAACATGTCCAAAAT
1 TGTTGCTACATGAACATGTCCAAAAT
24266164 TG
1 TG
24266166 CACCCAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (26 bp):
TGTTGCTACATGAACATGTCCAAAAT
Found at i:24266330 original size:67 final size:67
Alignment explanation
Indices: 24266218--24266355 Score: 267
Period size: 67 Copynumber: 2.1 Consensus size: 67
24266208 CAAAAATGTG
24266218 TGAGCTATCCAATCTGGTATAACCAACTTGTACAACTTAAATTTACAGAAGAGACACTTGTACAA
1 TGAGCTATCCAATCTGGTATAACCAACTTGTACAACTTAAATTTACAGAAGAGACACTTGTACAA
24266283 TT
66 TT
*
24266285 TGAGCTATCCAATCTGGTATAACCAACTTGTACAACTTAATTTTACAGAAGAGACACTTGTACAA
1 TGAGCTATCCAATCTGGTATAACCAACTTGTACAACTTAAATTTACAGAAGAGACACTTGTACAA
24266350 TT
66 TT
24266352 TGAG
1 TGAG
24266356 GATAAATATA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (67 bp):
TGAGCTATCCAATCTGGTATAACCAACTTGTACAACTTAAATTTACAGAAGAGACACTTGTACAA
TT
Found at i:24269176 original size:22 final size:22
Alignment explanation
Indices: 24269148--24269191 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
24269138 TTTTCAGTAC
24269148 TTAGTTTAATTTTCATGCATAT
1 TTAGTTTAATTTTCATGCATAT
*
24269170 TTAGTTTCATTTTCATGCATAT
1 TTAGTTTAATTTTCATGCATAT
24269192 CATGTAGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (22 bp):
TTAGTTTAATTTTCATGCATAT
Found at i:24269818 original size:11 final size:10
Alignment explanation
Indices: 24269802--24269836 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
24269792 GTCACATAAA
24269802 AAAAGAAGAAG
1 AAAAGAA-AAG
24269813 AAAAGAAAAG
1 AAAAGAAAAG
24269823 AAAAGAAAAAG
1 AAAAG-AAAAG
24269834 AAA
1 AAA
24269837 TATATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:24269820 original size:5 final size:5
Alignment explanation
Indices: 24269802--24269836 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
24269792 GTCACATAAA
24269802 AAAAG AAGAAG AAAAG AAAAG AAAAG AAAAAG AAA
1 AAAAG AA-AAG AAAAG AAAAG AAAAG -AAAAG AAA
24269837 TATATTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:24269823 original size:16 final size:16
Alignment explanation
Indices: 24269802--24269836 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24269792 GTCACATAAA
24269802 AAAAGAAGAAG-AAAAG
1 AAAAGAA-AAGAAAAAG
24269818 AAAAGAAAAGAAAAAG
1 AAAAGAAAAGAAAAAG
24269834 AAA
1 AAA
24269837 TATATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAG
Found at i:24270337 original size:37 final size:37
Alignment explanation
Indices: 24270280--24270350 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
24270270 TAATGTCACT
* * *
24270280 GCATGAGCACTTCTAGATTGCGCCCAAAACTGTCGCC
1 GCATGAGCACTTCCAAATTGCACCCAAAACTGTCGCC
*
24270317 GCATGAGCACTTCCAAATTGCACTCAAAACTGTC
1 GCATGAGCACTTCCAAATTGCACCCAAAACTGTC
24270351 ACCGTAGGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
GCATGAGCACTTCCAAATTGCACCCAAAACTGTCGCC
Found at i:24270467 original size:37 final size:38
Alignment explanation
Indices: 24270389--24270472 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 38
24270379 AAGACAGTCA
* * * *
24270389 CTGCATAAATATTCTTCATATTGCATCCAGGACTATTG
1 CTGCATAAATACTCTTCATATTGCACCCAGGAATATCG
* * *
24270427 CTGCATAAGTACTCTTCA-GTTGCACCCAGGAATGTCG
1 CTGCATAAATACTCTTCATATTGCACCCAGGAATATCG
24270464 CTGCATAAA
1 CTGCATAAA
24270473 CATTCCAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 22 0.58
38 16 0.42
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (38 bp):
CTGCATAAATACTCTTCATATTGCACCCAGGAATATCG
Found at i:24271218 original size:34 final size:34
Alignment explanation
Indices: 24271167--24271377 Score: 198
Period size: 34 Copynumber: 6.1 Consensus size: 34
24271157 TATCTTCCGT
*
24271167 TCAATAATTTTAATTCATTCATATATTATAAACAA
1 TCAA-AATTTTAATTCATTCATATATCATAAACAA
* *
24271202 TCAATAA-TTTAATTCATTTATATATCACAAACAA
1 TCAA-AATTTTAATTCATTCATATATCATAAACAA
* * *
24271236 TCACAAATTTTAATTCTTTCATACATCATAATCAA
1 TCA-AAATTTTAATTCATTCATATATCATAAACAA
* * * *
24271271 TAAAAGAATTTAATCCATTCATATATTATAAACAA
1 TCAAA-ATTTTAATTCATTCATATATCATAAACAA
* *
24271306 --AAAGATTTTCAATTCATTCGTATATCACAAACAA
1 TCAAA-ATTTT-AATTCATTCATATATCATAAACAA
*
24271340 TCAAAGATTTTCAATTCATTTATATAT--TAAACAA
1 TCAAA-ATTTT-AATTCATTCATATATCATAAACAA
24271374 TCAA
1 TCAA
24271378 GTAAATAAAA
Statistics
Matches: 147, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
33 8 0.05
34 61 0.41
35 55 0.37
36 23 0.16
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (34 bp):
TCAAAATTTTAATTCATTCATATATCATAAACAA
Found at i:24271250 original size:69 final size:65
Alignment explanation
Indices: 24271172--24271366 Score: 192
Period size: 69 Copynumber: 2.8 Consensus size: 65
24271162 TCCGTTCAAT
*
24271172 AATTTTAATTCATTCATATATTATAAACAATCAATAATTTAATTCATTTATATATCACAAACAAT
1 AATTTTAATTCATTCATATATCATAAACAATCAA-AATTTAATTCATTTATATATCACAAACAA-
24271237 CACA
64 -A-A
* * * * * * * *
24271241 AATTTTAATTCTTTCATACATCATAATCAATAAAAGAATTTAATCCATTCATATATTATAAACAA
1 AATTTTAATTCATTCATATATCATAAACAAT-CAA-AATTTAATTCATTTATATATCACAAACAA
24271306 AA
64 AA
* *
24271308 AGATTTTCAATTCATTCGTATATCACAAACAATCAAAGATTTTCAATTCATTTATATAT
1 A-ATTTT-AATTCATTCATATATCATAAACAATCAAA-A-TTT-AATTCATTTATATAT
24271367 TAAACAATCA
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
67 3 0.03
68 9 0.09
69 50 0.49
70 40 0.39
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (65 bp):
AATTTTAATTCATTCATATATCATAAACAATCAAAATTTAATTCATTTATATATCACAAACAAAA
Found at i:24303901 original size:52 final size:52
Alignment explanation
Indices: 24303761--24303998 Score: 300
Period size: 52 Copynumber: 4.6 Consensus size: 52
24303751 TAAATGAAAA
* * *
24303761 AGGTTCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
24303813 AGGTCCAATGAC-ATGTGTCATCATGAGTATATGAATCCCTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
24303864 AGGTCTGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * *
24303916 AGGTCTGATGACTATGTGTCATCGTGAGCATATGGATCATTGTACGGATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTT-TACGGATTATG
* * *
24303968 AGGTCCGATGAATTTGTGTCATGGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
24303999 TAAATGGGAA
Statistics
Matches: 163, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
51 46 0.28
52 110 0.67
53 7 0.04
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:24313497 original size:101 final size:101
Alignment explanation
Indices: 24313322--24313519 Score: 319
Period size: 101 Copynumber: 2.0 Consensus size: 101
24313312 ACCTAGCTCT
* *
24313322 CAAACCTAAGTAAGTCGTCTCACTAACCTCCCTAGTGAAGTTCCCAAGTGGCGTTTATCCTTTTC
1 CAAACCTAAGTAAGTCGTCTAACTAACCTCCCTAGTGAAGTTCCCAAGGGGCGTTTATCCTTTTC
*
24313387 TCGAAATTTCCCTTTTCTTCCTGCATAAATAATCGC
66 TCGAAATTTCCCTTTTCTTACTGCATAAATAATCGC
24313423 CAAACCTAAGTAAGTCGTCTAACTAACCTCCCTAGTCG-AG-TCACCAAGGGGCGTTTATCCTTT
1 CAAACCTAAGTAAGTCGTCTAACTAACCTCCCTAGT-GAAGTTC-CCAAGGGGCGTTTATCCTTT
* *
24313486 TCTTGGAATTTCCCTTTTCTTACTGCATAAATAA
64 TCTCGAAATTTCCCTTTTCTTACTGCATAAATAA
24313520 CCTCCAGCTC
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
100 2 0.02
101 87 0.97
102 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (101 bp):
CAAACCTAAGTAAGTCGTCTAACTAACCTCCCTAGTGAAGTTCCCAAGGGGCGTTTATCCTTTTC
TCGAAATTTCCCTTTTCTTACTGCATAAATAATCGC
Found at i:24317257 original size:16 final size:16
Alignment explanation
Indices: 24317233--24317279 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
24317223 GGAAAATGTG
*
24317233 TAAAAAAACAT-AAATA
1 TAAATAAACATGAAA-A
24317249 TAAATAAACATGAAAA
1 TAAATAAACATGAAAA
*
24317265 TAAATAAAGATGAAA
1 TAAATAAACATGAAA
24317280 TAAGAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 25 0.89
17 3 0.11
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.19
Consensus pattern (16 bp):
TAAATAAACATGAAAA
Found at i:24317850 original size:147 final size:147
Alignment explanation
Indices: 24317592--24317888 Score: 460
Period size: 147 Copynumber: 2.0 Consensus size: 147
24317582 AATCAAATGT
*
24317592 TTTCTTTTTTCTAAAAAAATCACTACTTTTCTTAAAACTCAAACTTTTATTTTGAAATAGTTTAA
1 TTTCTTTTTTCTAAAAAAATAACTACTTTTCTTAAAACTCAAACTTTTATTTTGAAATAGTTTAA
24317657 AAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCCTTTAAAATGATT-AAAATCAGATTTTT
66 AAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCCTTTAAAATGATTAAAAAT-AGATTTTT
24317721 ATTTTTAAAAATCTAAAC
130 ATTTTTAAAAATCTAAAC
* *
24317739 TTTCTATTTTTTTAAAATAAATAACTACTTTTCTTAAATA-TCAAAGTTTTTATTTTGAAATAG-
1 TTTCT-TTTTTCTAAAA-AAATAACTACTTTTCTTAAA-ACTCAAA-CTTTTATTTTGAAATAGT
* * *
24317802 TT-AAAAAATCAAAA-TTTGTTTAAAATTTTTAACTTTTTCTTTTAAAATGATTAAAAATAGATT
62 TTAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCCTTTAAAATGATTAAAAATAGATT
24317865 TTTATTTTTAAAAATCTAAAC
127 TTTATTTTTAAAAATCTAAAC
24317886 TTT
1 TTT
24317889 ATCTTCTTTT
Statistics
Matches: 139, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
147 69 0.50
148 27 0.19
149 26 0.19
150 17 0.12
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (147 bp):
TTTCTTTTTTCTAAAAAAATAACTACTTTTCTTAAAACTCAAACTTTTATTTTGAAATAGTTTAA
AAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCCTTTAAAATGATTAAAAATAGATTTTTA
TTTTTAAAAATCTAAAC
Found at i:24317887 original size:51 final size:48
Alignment explanation
Indices: 24317658--24317893 Score: 117
Period size: 51 Copynumber: 4.8 Consensus size: 48
24317648 ATAGTTTAAA
* * * * *
24317658 AAAATCAAAACTTTGTTTAAAAATTTAAACTTTTTCCTTTAAAATGATT
1 AAAATCAATATTTTTTTTAAAAATCTAAACTTTTTCTTTTAAAAT-ATT
* * *
24317707 AAAATCAGATTTTTATTTTTAAAAATCTAAACTTTCTATTTTTTTAAA-A-T
1 AAAATCA-ATATTT-TTTTTAAAAATCTAAACTTT-T-TCTTTTAAAATATT
* * * * * *
24317757 -AAAT-AACTACTTTTCTTAAATATC-AAAGTTTTTATTTTGAAATAGTT
1 AAAATCAA-TATTTTTTTTAAAAATCTAAACTTTTTCTTTTAAAATA-TT
* * * * *
24317804 AAAAAATCAA-AATTTGTTTAAAATTTTTAACTTTTTCTTTTAAAATGATT
1 --AAAATCAATATTTTTTTTAAAAATCTAAACTTTTTCTTTTAAAAT-ATT
* *
24317854 AAAAAT-AGATTTTTATTTTTAAAAATCTAAACTTTATCTT
1 -AAAATCA-ATATTT-TTTTTAAAAATCTAAACTTTTTCTT
24317894 CTTTTTTTAC
Statistics
Matches: 138, Mismatches: 32, Indels: 32
0.68 0.16 0.16
Matches are distributed among these distances:
44 8 0.06
45 2 0.01
46 6 0.04
47 12 0.09
48 5 0.04
49 28 0.20
50 27 0.20
51 42 0.30
52 1 0.01
53 7 0.05
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (48 bp):
AAAATCAATATTTTTTTTAAAAATCTAAACTTTTTCTTTTAAAATATT
Found at i:24318092 original size:14 final size:14
Alignment explanation
Indices: 24318073--24318109 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
24318063 CATGACATGT
*
24318073 ATATGGAAAACATA
1 ATATGGAAAACAGA
24318087 ATATGG-AAACAGA
1 ATATGGAAAACAGA
24318100 ATAT-GAAAAC
1 ATATGGAAAAC
24318110 TTTCTCTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 1 0.05
13 14 0.67
14 6 0.29
ACGTcount: A:0.57, C:0.08, G:0.16, T:0.19
Consensus pattern (14 bp):
ATATGGAAAACAGA
Found at i:24322331 original size:17 final size:18
Alignment explanation
Indices: 24322293--24322332 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
24322283 GCAAATGTGT
24322293 TGACAATTAAAATGCAGA
1 TGACAATTAAAATGCAGA
24322311 -GACAATTAAAATGCA-A
1 TGACAATTAAAATGCAGA
24322327 TGACAA
1 TGACAA
24322333 CTATATGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.53, C:0.12, G:0.15, T:0.20
Consensus pattern (18 bp):
TGACAATTAAAATGCAGA
Found at i:24322773 original size:9 final size:9
Alignment explanation
Indices: 24322749--24322796 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
24322739 AAATCCTTCC
*
24322749 TCTTTCTTG
1 TCTTTCTTT
24322758 T-TTTCTTT
1 TCTTTCTTT
24322766 TCTTTCTTCT
1 TCTTTCTT-T
*
24322776 TCTTTCTCT
1 TCTTTCTTT
*
24322785 TCTTTCTCT
1 TCTTTCTTT
24322794 TCT
1 TCT
24322797 ACATTCTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 7 0.20
9 20 0.57
10 8 0.23
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (9 bp):
TCTTTCTTT
Found at i:24322787 original size:19 final size:18
Alignment explanation
Indices: 24322759--24322796 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
24322749 TCTTTCTTGT
*
24322759 TTTCTTTTCTTTCTTCTTC
1 TTTCTCTTCTTTC-TCTTC
24322778 TTTCTCTTCTTTCTCTTC
1 TTTCTCTTCTTTCTCTTC
24322796 T
1 T
24322797 ACATTCTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTCTTCTTTCTCTTC
Found at i:24331616 original size:32 final size:32
Alignment explanation
Indices: 24331580--24331674 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
24331570 AGCCGAAATT
24331580 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATGTGTTTCAGGTACATGC
24331612 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATGTGTTTCAGGTACATGC
* *
24331644 AATTAGCTGATTAATATATTTCAGGTACATG
1 AATTAGCTGATTAATGTGTTTCAGGTACATG
24331675 TATGGATGGC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (32 bp):
AATTAGCTGATTAATGTGTTTCAGGTACATGC
Found at i:24334910 original size:21 final size:20
Alignment explanation
Indices: 24334864--24334901 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24334854 GTGAGAATGA
*
24334864 AAAAGAAAAGAAAATTGAAC
1 AAAAGAAAAGAAAAATGAAC
*
24334884 AAAAGAAAGGAAAAATGA
1 AAAAGAAAAGAAAAATGA
24334902 GAGAAAAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.18, T:0.08
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATGAAC
Found at i:24334926 original size:29 final size:30
Alignment explanation
Indices: 24334885--24334941 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
24334875 AAATTGAACA
*
24334885 AAAGAAAGG-AAA-AATGAGAGAAAAGAGC
1 AAAGAAAGGAAAATAAAGAGAGAAAAGAGC
24334913 AAAGAAAGTGAAAATAAAGAGAGAAAAGA
1 AAAGAAAG-GAAAATAAAGAGAGAAAAGA
24334942 AAAAGATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 8 0.32
29 1 0.04
30 3 0.12
31 13 0.52
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.05
Consensus pattern (30 bp):
AAAGAAAGGAAAATAAAGAGAGAAAAGAGC
Found at i:24354391 original size:330 final size:330
Alignment explanation
Indices: 24353790--24354453 Score: 1328
Period size: 330 Copynumber: 2.0 Consensus size: 330
24353780 ATGACACATC
24353790 ATCTCCCGTGTCACAACATAAATGCCAGAATGAGGAGAATACGAAACTGAAGCCGATGTTGTGAT
1 ATCTCCCGTGTCACAACATAAATGCCAGAATGAGGAGAATACGAAACTGAAGCCGATGTTGTGAT
24353855 GAAGAGACTTTCATGTCGTGACAAAGTGTATAGATTTAAGGACCATTTAGTATTGAAGATGATAT
66 GAAGAGACTTTCATGTCGTGACAAAGTGTATAGATTTAAGGACCATTTAGTATTGAAGATGATAT
24353920 TGCGATAAAGAGGGACTAATGTGTTTGTCACGACATAACCTCCCTATGCCGTGACATCGATTGTA
131 TGCGATAAAGAGGGACTAATGTGTTTGTCACGACATAACCTCCCTATGCCGTGACATCGATTGTA
24353985 ATTTTTACAAGATCGACCCGACCCGTCTACGCAACCTGGCAGCTAAAACACTTATTTTTTCAAAT
196 ATTTTTACAAGATCGACCCGACCCGTCTACGCAACCTGGCAGCTAAAACACTTATTTTTTCAAAT
24354050 TTTAACAGTTTAATACCCTAGTTTCCACCCCTTACAAATACTAAAACACTATTCTAACTCTCACA
261 TTTAACAGTTTAATACCCTAGTTTCCACCCCTTACAAATACTAAAACACTATTCTAACTCTCACA
24354115 TTGCA
326 TTGCA
24354120 ATCTCCCGTGTCACAACATAAATGCCAGAATGAGGAGAATACGAAACTGAAGCCGATGTTGTGAT
1 ATCTCCCGTGTCACAACATAAATGCCAGAATGAGGAGAATACGAAACTGAAGCCGATGTTGTGAT
24354185 GAAGAGACTTTCATGTCGTGACAAAGTGTATAGATTTAAGGACCATTTAGTATTGAAGATGATAT
66 GAAGAGACTTTCATGTCGTGACAAAGTGTATAGATTTAAGGACCATTTAGTATTGAAGATGATAT
24354250 TGCGATAAAGAGGGACTAATGTGTTTGTCACGACATAACCTCCCTATGCCGTGACATCGATTGTA
131 TGCGATAAAGAGGGACTAATGTGTTTGTCACGACATAACCTCCCTATGCCGTGACATCGATTGTA
24354315 ATTTTTACAAGATCGACCCGACCCGTCTACGCAACCTGGCAGCTAAAACACTTATTTTTTCAAAT
196 ATTTTTACAAGATCGACCCGACCCGTCTACGCAACCTGGCAGCTAAAACACTTATTTTTTCAAAT
24354380 TTTAACAGTTTAATACCCTAGTTTCCACCCCTTACAAATACTAAAACACTATTCTAACTCTCACA
261 TTTAACAGTTTAATACCCTAGTTTCCACCCCTTACAAATACTAAAACACTATTCTAACTCTCACA
24354445 TTGCA
326 TTGCA
24354450 ATCT
1 ATCT
24354454 AACTCTTTAA
Statistics
Matches: 334, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
330 334 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (330 bp):
ATCTCCCGTGTCACAACATAAATGCCAGAATGAGGAGAATACGAAACTGAAGCCGATGTTGTGAT
GAAGAGACTTTCATGTCGTGACAAAGTGTATAGATTTAAGGACCATTTAGTATTGAAGATGATAT
TGCGATAAAGAGGGACTAATGTGTTTGTCACGACATAACCTCCCTATGCCGTGACATCGATTGTA
ATTTTTACAAGATCGACCCGACCCGTCTACGCAACCTGGCAGCTAAAACACTTATTTTTTCAAAT
TTTAACAGTTTAATACCCTAGTTTCCACCCCTTACAAATACTAAAACACTATTCTAACTCTCACA
TTGCA
Found at i:24358272 original size:72 final size:72
Alignment explanation
Indices: 24358187--24358370 Score: 291
Period size: 72 Copynumber: 2.6 Consensus size: 72
24358177 CAATGTTAAA
24358187 CTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTATGTTCTACTT-ATTTA
1 CTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTATGTTCTACTTAATTT-
24358251 TGAGTAAT
65 TGAGTAAT
*
24358259 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTAATTTT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTATGTTCTACTTAATTTT
*
24358324 GTGTAAT
66 GAGTAAT
* * * *
24358331 TTAGTTTCATCAATAGTTGTTTTTATTTGA-TTTTGGATAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATAT
24358371 AAAATTTGTT
Statistics
Matches: 104, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 10 0.10
72 90 0.87
73 4 0.04
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTATGTTCTACTTAATTTT
GAGTAAT
Found at i:24360045 original size:21 final size:20
Alignment explanation
Indices: 24360008--24360046 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
24359998 CAAATGTAAT
24360008 AAAATCATTATTAAAAATTA
1 AAAATCATTATTAAAAATTA
24360028 AAAATACATT-TTAGAAAAT
1 AAAAT-CATTATTA-AAAAT
24360047 AATACAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAATCATTATTAAAAATTA
Found at i:24364632 original size:17 final size:16
Alignment explanation
Indices: 24364577--24364633 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
24364567 AATATATATG
*
24364577 GAAATGCAATGACAAT
1 GAAATGCAATGACAAA
* *
24364593 GAAGATGCAGTGATAAGA
1 GAA-ATGCAATGACAA-A
*
24364611 AAAATGCAATGACAAA
1 GAAATGCAATGACAAA
24364627 CGAAATG
1 -GAAATG
24364634 TGATGACAGC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
16 4 0.13
17 25 0.81
18 2 0.06
ACGTcount: A:0.51, C:0.11, G:0.23, T:0.16
Consensus pattern (16 bp):
GAAATGCAATGACAAA
Found at i:24369608 original size:2 final size:2
Alignment explanation
Indices: 24369601--24369639 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24369591 AATGATTGAA
24369601 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24369640 ATTGACCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24371206 original size:21 final size:21
Alignment explanation
Indices: 24371180--24371223 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
24371170 TTTTAGTAAT
24371180 TTTTATGTTTTTGAGTTCGTA
1 TTTTATGTTTTTGAGTTCGTA
24371201 TTTTATGTTTTTGAGTTCGTA
1 TTTTATGTTTTTGAGTTCGTA
24371222 TT
1 TT
24371224 AACTTAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.05, G:0.18, T:0.64
Consensus pattern (21 bp):
TTTTATGTTTTTGAGTTCGTA
Found at i:24372275 original size:195 final size:193
Alignment explanation
Indices: 24371884--24372330 Score: 488
Period size: 195 Copynumber: 2.3 Consensus size: 193
24371874 GGAACCGACG
* * * * *
24371884 CGATGGCTGAGGTACCACATATATTGTGAGTCCTCGACAGCTCGTGTGACCAGCATCGTGAGTCA
1 CGATGGCTGAGGTA-CGCATATGTTGTGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGACTCA
* *
24371949 AGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAGT
65 AGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCATACGATGGCTGAGATCTATGCATAAG-
* * * * * * * *
24372014 ACATATTCTCGACAGCTCGTGTGAGCAGTATTGTTAGGGAACAGCTATATGCACAGATATCGTAT
129 ACATACTCTCAACAGCTCGTGAGAGCAGCATCGTTAGGGAACAGCTATATACACAGACACCGTAT
* * *
24372079 CGATGGCTGAGGTATCGCATATGTTGTGAGTCCTCGATAGCTCGTGTGAGCAGCATTATGACTCG
1 CGATGGCTGAGGTA-CGCATATGTTGTGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGACTCA
* * * * * * *
24372144 AGAAA-GAGATATGAATCCTA-AATGGATTATAGGCCATACGATGGCTGGGA-CTATGCTTTACG
65 AGAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCATACGATGGCTGAGATCTATGC-ATAAG
** *
24372206 -CATACTCTCAACAGCTCGTGAGAGCAGCATCGTTAGGGAACAATTTATAGTACAAACAGGCACC
129 ACATACTCTCAACAGCTCGTGAGAGCAGCATCGTTAGGGAAC-AGCTATA-TAC--ACAGACACC
24372270 GTAT
190 GTAT
* * * * *
24372274 CGATGGCTGGGGTACTGCATACGTTGCGAGTCCTTGACAGCTCGTGTGAGCATCATC
1 CGATGGCTGAGGTAC-GCATATGTTGTGAGTCCTCGACAGCTCGTGTGAGCAGCATC
24372331 GAGTACTGGT
Statistics
Matches: 210, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
191 36 0.17
192 10 0.05
193 32 0.15
194 13 0.06
195 119 0.57
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (193 bp):
CGATGGCTGAGGTACGCATATGTTGTGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGACTCAA
GAAATGAGAAAAGAATCCAAGAATGGATTACAGGCCATACGATGGCTGAGATCTATGCATAAGAC
ATACTCTCAACAGCTCGTGAGAGCAGCATCGTTAGGGAACAGCTATATACACAGACACCGTAT
Found at i:24376678 original size:13 final size:13
Alignment explanation
Indices: 24376656--24376696 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
24376646 TAGCAATAAA
24376656 TTTT-TTTTCTTC
1 TTTTCTTTTCTTC
24376668 TTTTCTTTTC-TC
1 TTTTCTTTTCTTC
24376680 -TTTCTTTTTCTTC
1 TTTTC-TTTTCTTC
24376693 TTTT
1 TTTT
24376697 TTTCTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.16
12 11 0.44
13 7 0.28
14 3 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTCTTC
Found at i:24376688 original size:17 final size:17
Alignment explanation
Indices: 24376668--24376706 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
24376658 TTTTTTCTTC
24376668 TTTTCTT-TTCTCTTTCT
1 TTTTCTTCTT-TCTTTCT
*
24376685 TTTTCTTCTTTTTTTCT
1 TTTTCTTCTTTCTTTCT
24376702 TTTTC
1 TTTTC
24376707 AAGTGATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTTCTTTCTTTCT
Found at i:24377459 original size:24 final size:24
Alignment explanation
Indices: 24377432--24377478 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24377422 ACCCTTTTCC
* *
24377432 TTGTGCTTCTTCTTATTTTTATCT
1 TTGTGCCTCTTCCTATTTTTATCT
*
24377456 TTGTGCCTCTTCCTCTTTTTATC
1 TTGTGCCTCTTCCTATTTTTATC
24377479 CATCATACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.06, C:0.23, G:0.09, T:0.62
Consensus pattern (24 bp):
TTGTGCCTCTTCCTATTTTTATCT
Found at i:24385654 original size:13 final size:14
Alignment explanation
Indices: 24385636--24385665 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24385626 ATCAATGCAA
24385636 TCAAAGG-TAAATG
1 TCAAAGGTTAAATG
24385649 TCAAAGGTTAAATG
1 TCAAAGGTTAAATG
24385663 TCA
1 TCA
24385666 GAGCAATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (14 bp):
TCAAAGGTTAAATG
Found at i:24397316 original size:30 final size:29
Alignment explanation
Indices: 24397282--24397370 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
24397272 AAAAATCTTA
*
24397282 AAATTTAATTTTTTGGAAAGTTCGGGGGTC
1 AAATTGAA-TTTTTGGAAAGTTCGGGGGTC
* **
24397312 AAATTCGAATTTTTGAAAAGTTCGATGGTC
1 AAATT-GAATTTTTGGAAAGTTCGGGGGTC
*
24397342 AAATCTGAATTTTTGGAATGTTCGGGGGT
1 AAAT-TGAATTTTTGGAAAGTTCGGGGGT
24397371 TAAAACATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 46 0.94
31 3 0.06
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (29 bp):
AAATTGAATTTTTGGAAAGTTCGGGGGTC
Found at i:24399198 original size:123 final size:123
Alignment explanation
Indices: 24398984--24399246 Score: 350
Period size: 123 Copynumber: 2.1 Consensus size: 123
24398974 CTCTTCTTTG
* * ** * * *
24398984 TATCTCATCAGAAAGATGGGGTTTGAAGTTTCACTCGTATTGGATTTCTCTTCTTTAATTTGGTT
1 TATCTCATCAGGAAGATGGAGTTTGAAGTTTCACTCACATTGGACTTCACTTCATTAATTTGGTT
* * *
24399049 TACTTCTCTGTGTCTCATTAGCAAGA-TGACCGCTTCATTATTTTGATCCACTTCTCTA
66 TACTTCTCTGTATCACATCAGCAAGATTG-CCGCTTCATTATTTTGATCCACTTCTCTA
* *
24399107 TATCTCATCAGGAAGATGGAGTTTGAAGTTTCACTCACATT-GAGCTTCACTTCATTGATTTTGT
1 TATCTCATCAGGAAGATGGAGTTTGAAGTTTCACTCACATTGGA-CTTCACTTCATTAATTTGGT
* * * *
24399171 TTACTTCTCTGTATCACATCAGGAAGATTGTCGCTTCATTGTTTTGATCCACTTCTCTG
65 TTACTTCTCTGTATCACATCAGCAAGATTGCCGCTTCATTATTTTGATCCACTTCTCTA
24399230 TATCTCATCAGGAAGAT
1 TATCTCATCAGGAAGAT
24399247 AATCACTTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
122 2 0.02
123 118 0.97
124 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (123 bp):
TATCTCATCAGGAAGATGGAGTTTGAAGTTTCACTCACATTGGACTTCACTTCATTAATTTGGTT
TACTTCTCTGTATCACATCAGCAAGATTGCCGCTTCATTATTTTGATCCACTTCTCTA
Found at i:24399211 original size:48 final size:47
Alignment explanation
Indices: 24399153--24399294 Score: 167
Period size: 48 Copynumber: 3.0 Consensus size: 47
24399143 ACATTGAGCT
* * **
24399153 TCACTTCATTGATTTTGTTTACTTCTCTGTATCACATCAGGAAGATTG
1 TCACTTCATTG-TTTTGTCTACTTCTCTGTATCTCATCAGGAAGATAA
* *
24399201 TCGCTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGATAA
1 TCACTTCATTGTTTTG-TCTACTTCTCTGTATCTCATCAGGAAGATAA
* ***
24399249 TCACTTTATTGCTTTAACCTACTTCTCTGTATCTCATCAGGAAGAT
1 TCACTTCATTG-TTTTGTCTACTTCTCTGTATCTCATCAGGAAGAT
24399295 GGGGTTTGAA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
47 5 0.06
48 72 0.90
49 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (47 bp):
TCACTTCATTGTTTTGTCTACTTCTCTGTATCTCATCAGGAAGATAA
Found at i:24399335 original size:171 final size:170
Alignment explanation
Indices: 24399098--24399415 Score: 530
Period size: 171 Copynumber: 1.9 Consensus size: 170
24399088 ATTTTGATCC
*
24399098 ACTTCTCTATATCTCATCAGGAAGATGGAGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATT
1 ACTTCTCTATATCTCATCAGGAAGATGGAGTTTGAAGTTTCACCCACATTGAGCTTCACTTCATT
* * *
24399163 GATTTTGTTTACTTCTCTGTATCACATCAGGAAGATTG-TCGCTTCATTGTTTTGATCCACTTCT
66 GATTTGGTCTACTTCTCTATATCACATCAGGAAGA-TGATCGCTTCATTGTTTTGATCCACTTCT
24399227 CTGTATCTCATCAGGAAGATAATCACTTTATTGCTTTAACCT
130 -TGTATCTCATCAGGAAGATAATCACTTTATTGCTTTAACCT
* * *
24399269 ACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACCCACATTGAGCTTCGCTTCATT
1 ACTTCTCTATATCTCATCAGGAAGATGGAGTTTGAAGTTTCACCCACATTGAGCTTCACTTCATT
* *
24399334 GATTTGGTCTACTTCTCTATATCTCATCGGGAAGATGATCGCTTCATTGTTTTGATCCACTTCTT
66 GATTTGGTCTACTTCTCTATATCACATCAGGAAGATGATCGCTTCATTGTTTTGATCCACTTCTT
24399399 GTATCTCATCAGGAAGA
131 GTATCTCATCAGGAAGA
24399416 CGGATTTGGT
Statistics
Matches: 137, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
170 20 0.15
171 117 0.85
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (170 bp):
ACTTCTCTATATCTCATCAGGAAGATGGAGTTTGAAGTTTCACCCACATTGAGCTTCACTTCATT
GATTTGGTCTACTTCTCTATATCACATCAGGAAGATGATCGCTTCATTGTTTTGATCCACTTCTT
GTATCTCATCAGGAAGATAATCACTTTATTGCTTTAACCT
Found at i:24399396 original size:48 final size:47
Alignment explanation
Indices: 24399324--24399415 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 47
24399314 ACATTGAGCT
* * *
24399324 TCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATCGGGAAGATGA
1 TCGCTTCATTGATTTGATCCACTTCT-TATATCTCATCAGGAAGATGA
* *
24399372 TCGCTTCATTGTTTTGATCCACTTCTTGTATCTCATCAGGAAGA
1 TCGCTTCATTGATTTGATCCACTTCTTATATCTCATCAGGAAGA
24399416 CGGATTTGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 16 0.41
48 23 0.59
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (47 bp):
TCGCTTCATTGATTTGATCCACTTCTTATATCTCATCAGGAAGATGA
Found at i:24399478 original size:84 final size:85
Alignment explanation
Indices: 24399334--24399494 Score: 218
Period size: 84 Copynumber: 1.9 Consensus size: 85
24399324 TCGCTTCATT
* ** * * *
24399334 GATTTGGTCTACTTCTCTATATCTCATCGGGAAGATGATCGCTTCATTGTTTTGATCCAC-TTCT
1 GATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGATCGCTTCATTGCTTTAACCCACTTTCT
24399398 TGTATCTCATCAGGAAGACG
66 TGTATCTCATCAGGAAGACG
* * *
24399418 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGA-CAGCTTTATTGCTTTAACCCACTTTT
1 GATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGATC-GCTTCATTGCTTTAACCCACTTTC
24399482 TTGTATCTCATCA
65 TTGTATCTCATCA
24399495 AGAATATGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
83 1 0.02
84 50 0.76
85 15 0.23
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGATCGCTTCATTGCTTTAACCCACTTTCT
TGTATCTCATCAGGAAGACG
Found at i:24399596 original size:48 final size:48
Alignment explanation
Indices: 24399520--24399611 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
24399510 AAGTTTTACT
* *
24399520 CTTCATTAATTTGGTCCACTTCTTTGTATCTCATCAGGAAGATGATCG
1 CTTCATTAATTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATCG
* *
24399568 CTTCATTATTTTGATCCACTTCTCTGTATCTCATCAGGATGATG
1 CTTCATTAATTTGATCCACTTCTCTGTATCTCATCAGGAAGATG
24399612 GGGTTTGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (48 bp):
CTTCATTAATTTGATCCACTTCTCTGTATCTCATCAGGAAGATGATCG
Found at i:24399613 original size:109 final size:109
Alignment explanation
Indices: 24399419--24399629 Score: 291
Period size: 109 Copynumber: 1.9 Consensus size: 109
24399409 AGGAAGACGG
* * * *
24399419 ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACAGCTTTATTGCTTTAACCCACTTTTTT
1 ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACAGCTTCATTACTTTAACCCACTTCTCT
*
24399484 GTATCTCATCAAGAATATGGGGTTTGAAGTTTTACTCTTCATTA
66 GTATCTCATCAAGAATATGGGGTTTGAAGTTTCACTCTTCATTA
* * * * *
24399528 ATTTGGTCCACTTCTTTGTATCTCATCAGGAAGATGATC-GCTTCATTATTTTGATCCACTTCTC
1 ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGA-CAGCTTCATTACTTTAACCCACTTCTC
*
24399592 TGTATCTCATC-AGGATGATGGGGTTTGAAGTTTCACTC
65 TGTATCTCATCAAGAAT-ATGGGGTTTGAAGTTTCACTC
24399630 GTATTAAGTT
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
108 4 0.04
109 84 0.94
110 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (109 bp):
ATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACAGCTTCATTACTTTAACCCACTTCTCT
GTATCTCATCAAGAATATGGGGTTTGAAGTTTCACTCTTCATTA
Found at i:24411511 original size:30 final size:29
Alignment explanation
Indices: 24411475--24411717 Score: 175
Period size: 30 Copynumber: 8.1 Consensus size: 29
24411465 TAAAACAAAA
* * *
24411475 TTTTGGAAAGTTTAAGGGCTAAATTTGAAT
1 TTTTGGAAAGTTT-GGGGTTAAATATGAAT
*
24411505 TTTTGGAAAGTTCAGGGGTTAAATATGAAT
1 TTTTGGAAAGTT-TGGGGTTAAATATGAAT
* * * *
24411535 TTTTTGAAAGTTTGAGGGTCAAATCTAAAT
1 TTTTGGAAAGTTTG-GGGTTAAATATGAAT
* * *
24411565 TTTTGGGAAGTTTGGGGGTCAAATATGATT
1 TTTTGGAAAGTTT-GGGGTTAAATATGAAT
* *
24411595 TTTTGGAAAGTTTGGGGTTTAAATCTAAAT
1 TTTTGGAAAGTTTGGGG-TTAAATATGAAT
* * ***
24411625 TTTTGGAAAGTTCGGGGGTCAAATCCAAAT
1 TTTTGGAAAGTT-TGGGGTTAAATATGAAT
* * * *
24411655 TTTTGGAAAGTTCAGGGATCAAAACAT-AAT
1 TTTTGGAAAGTT-TGGGGT-TAAATATGAAT
* *
24411685 TTTTGGAAATTTTGGGGTCAAA-ATGAGAT
1 TTTTGGAAAGTTTGGGGTTAAATATGA-AT
24411714 TTTT
1 TTTT
24411718 AAATAAAATA
Statistics
Matches: 173, Mismatches: 32, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
27 2 0.01
28 4 0.02
29 15 0.09
30 144 0.83
31 8 0.05
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (29 bp):
TTTTGGAAAGTTTGGGGTTAAATATGAAT
Found at i:24411567 original size:60 final size:61
Alignment explanation
Indices: 24411475--24411717 Score: 248
Period size: 60 Copynumber: 4.1 Consensus size: 61
24411465 TAAAACAAAA
* * * * * *
24411475 TTTTGGAAAGTTTAAGGGCT-AAATTTGAATTTTTGGAAAGTTCAGGGGTTAAATATGAAT
1 TTTTGGAAAGTTTGAGGGATCAAATCTAAATTTTTGGAAAGTTCGGGGGTCAAATATGAAT
* * * *
24411535 TTTTTGAAAGTTTGAGGG-TCAAATCTAAATTTTTGGGAAGTTTGGGGGTCAAATATGATT
1 TTTTGGAAAGTTTGAGGGATCAAATCTAAATTTTTGGAAAGTTCGGGGGTCAAATATGAAT
* * ***
24411595 TTTTGGAAAGTTTG-GGGTTTAAATCTAAATTTTTGGAAAGTTCGGGGGTCAAATCCAAAT
1 TTTTGGAAAGTTTGAGGGATCAAATCTAAATTTTTGGAAAGTTCGGGGGTCAAATATGAAT
* * **
24411655 TTTTGGAAAG-TTCAGGGATCAAAAC-ATAATTTTTGGAAA-TTTTGGGGTCAAA-ATGAGAT
1 TTTTGGAAAGTTTGAGGGATCAAATCTA-AATTTTTGGAAAGTTCGGGGGTCAAATATGA-AT
24411714 TTTT
1 TTTT
24411718 AAATAAAATA
Statistics
Matches: 152, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
58 1 0.01
59 24 0.16
60 127 0.84
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (61 bp):
TTTTGGAAAGTTTGAGGGATCAAATCTAAATTTTTGGAAAGTTCGGGGGTCAAATATGAAT
Found at i:24411577 original size:90 final size:90
Alignment explanation
Indices: 24411470--24411702 Score: 256
Period size: 90 Copynumber: 2.6 Consensus size: 90
24411460 TGGGTTAAAA
* * *
24411470 CAAAATTTTGGAAAGTTTAAGGGCT-AAATTTGAATTTTTGGAAAGTTCAGGGG-TTAAATATGA
1 CAAATTTTTGGAAAGTTT-AGGGCTCAAATATGAATTTTTGGAAAGTT-AGGGGTTTAAATATAA
* *
24411533 ATTTTTTGAAAGTTTGAGGGTCAAATC
64 ATTTTTGGAAAGTTCGAGGGTCAAATC
* * * * * * *
24411560 TAAATTTTTGGGAAGTTTGGGGGTCAAATATGATTTTTTGGAAAGTTTGGGGTTTAAATCTAAAT
1 CAAATTTTTGGAAAGTTTAGGGCTCAAATATGAATTTTTGGAAAGTTAGGGGTTTAAATATAAAT
*
24411625 TTTTGGAAAGTTCGGGGGTCAAATC
66 TTTTGGAAAGTTCGAGGGTCAAATC
* * * * *
24411650 CAAATTTTTGGAAAGTTCAGGGATCAAAACAT-AATTTTTGGAAATTTTGGGGT
1 CAAATTTTTGGAAAGTTTAGGGCTC-AAATATGAATTTTTGGAAAGTTAGGGGT
24411703 CAAAATGAGA
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
89 8 0.07
90 106 0.89
91 5 0.04
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (90 bp):
CAAATTTTTGGAAAGTTTAGGGCTCAAATATGAATTTTTGGAAAGTTAGGGGTTTAAATATAAAT
TTTTGGAAAGTTCGAGGGTCAAATC
Found at i:24421738 original size:17 final size:18
Alignment explanation
Indices: 24421689--24421738 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 18
24421679 AACTACAATG
*
24421689 AAAATGTGTTGACAA-AT
1 AAAATGTGATGACAACAT
** *
24421706 AAAATGCAATGGCAACA-
1 AAAATGTGATGACAACAT
24421723 AAAATGTGATGACAAC
1 AAAATGTGATGACAAC
24421739 TACATGATAT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
17 24 0.96
18 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (18 bp):
AAAATGTGATGACAACAT
Found at i:24428995 original size:7 final size:7
Alignment explanation
Indices: 24428983--24429013 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
24428973 CCCTAGTTAC
24428983 AGGGTTT
1 AGGGTTT
24428990 AGGGTTT
1 AGGGTTT
*
24428997 AGGATTT
1 AGGGTTT
24429004 AGGGTTT
1 AGGGTTT
24429011 AGG
1 AGG
24429014 ATCATCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (7 bp):
AGGGTTT
Found at i:24437080 original size:37 final size:37
Alignment explanation
Indices: 24437022--24437110 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 37
24437012 TATTCCTGCA
* *
24437022 GCGACAGTTTT-GGTGCAATCTAGAAGTGCTCATGTG
1 GCGACAGTTTTGGGCGCAATCTAGAAGTGCTCATGCG
* *
24437058 GCGATAGTTTTGGGCGCAATCTAGAGGTGCTCATGCG
1 GCGACAGTTTTGGGCGCAATCTAGAAGTGCTCATGCG
*
24437095 GCAACAGTTTTGGGCG
1 GCGACAGTTTTGGGCG
24437111 TAAATTTGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 10 0.22
37 36 0.78
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (37 bp):
GCGACAGTTTTGGGCGCAATCTAGAAGTGCTCATGCG
Found at i:24446828 original size:21 final size:21
Alignment explanation
Indices: 24446776--24446829 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
24446766 GGAGTTTTTA
*
24446776 GTATCGGTAGAAGTAAGACCT
1 GTATCGGTAGAAGTAACACCT
* * *
24446797 GTTTCGGTAGAAGTTACACTT
1 GTATCGGTAGAAGTAACACCT
*
24446818 GTATCGATAGAA
1 GTATCGGTAGAA
24446830 CTTTCCCAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (21 bp):
GTATCGGTAGAAGTAACACCT
Found at i:24451952 original size:28 final size:28
Alignment explanation
Indices: 24451818--24452033 Score: 110
Period size: 28 Copynumber: 8.0 Consensus size: 28
24451808 TTTACATGTG
* *
24451818 TGCACAAGTACAAGCTGGGGAGCGTAAA
1 TGCATAAGTACAAGCTGGCGAGCGTAAA
* * * *
24451846 TGCACAAATACTAGCTGGCGAGCATAAA
1 TGCATAAGTACAAGCTGGCGAGCGTAAA
** * * *
24451874 CACATATGTATAAGCTGACGAGCGTAAA
1 TGCATAAGTACAAGCTGGCGAGCGTAAA
* * *
24451902 --CGT--GTGCAAGCTGGTGA-CTGTAAA
1 TGCATAAGTACAAGCTGGCGAGC-GTAAA
*
24451926 TGCATAAGTACAAGCTAGCGAGCGTAAA
1 TGCATAAGTACAAGCTGGCGAGCGTAAA
** * * *
24451954 CACATATGTATAAGCTGACGAGCGTAAA
1 TGCATAAGTACAAGCTGGCGAGCGTAAA
* * *
24451982 --CGT--GTGCAAGCTGG-TACGCGTAAA
1 TGCATAAGTACAAGCTGGCGA-GCGTAAA
* * *
24452006 AGCAAAAGTACAAGCTGGCAAGCGTAAA
1 TGCATAAGTACAAGCTGGCGAGCGTAAA
24452034 CACATATGTA
Statistics
Matches: 139, Mismatches: 37, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
23 2 0.01
24 30 0.22
26 7 0.05
28 98 0.71
29 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (28 bp):
TGCATAAGTACAAGCTGGCGAGCGTAAA
Found at i:24451961 original size:80 final size:79
Alignment explanation
Indices: 24451828--24452073 Score: 343
Period size: 80 Copynumber: 3.1 Consensus size: 79
24451818 TGCACAAGTA
* * *
24451828 CAAGCTGGGGAGCGTAAATGCACAAA-TACTAGCTGGCGAGCATAAACACATATGTATAAGCTGA
1 CAAGCTGGTGA-CGTAAATGCA-AAAGTACAAGCTGGCGAGCGTAAACACATATGTATAAGCTGA
24451892 CGAGCGTAAACGTGTG
64 CGAGCGTAAACGTGTG
* *
24451908 CAAGCTGGTGACTGTAAATGCATAAGTACAAGCTAGCGAGCGTAAACACATATGTATAAGCTGAC
1 CAAGCTGGTGAC-GTAAATGCAAAAGTACAAGCTGGCGAGCGTAAACACATATGTATAAGCTGAC
24451973 GAGCGTAAACGTGTG
65 GAGCGTAAACGTGTG
* *
24451988 CAAGCTGGT-ACGCGTAAAAGCAAAAGTACAAGCTGGCAAGCGTAAACACATATGTATAAGCTGA
1 CAAGCTGGTGA--CGTAAATGCAAAAGTACAAGCTGGCGAGCGTAAACACATATGTATAAGCTGA
* * *
24452052 TGAGCATAAACATGTG
64 CGAGCGTAAACGTGTG
24452068 CAAGCT
1 CAAGCT
24452074 TGCGAGCTCA
Statistics
Matches: 150, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
79 4 0.03
80 145 0.97
81 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.20
Consensus pattern (79 bp):
CAAGCTGGTGACGTAAATGCAAAAGTACAAGCTGGCGAGCGTAAACACATATGTATAAGCTGACG
AGCGTAAACGTGTG
Found at i:24452048 original size:28 final size:27
Alignment explanation
Indices: 24451928--24452050 Score: 81
Period size: 28 Copynumber: 4.6 Consensus size: 27
24451918 ACTGTAAATG
* * *
24451928 CATAAGTACAAGCTAGCGAGCGTAAACA
1 CATATGTACAAGCTGGCAAGCGTAAA-A
* * *
24451956 CATATGTATAAGCTGACGAGCGT-AAA
1 CATATGTACAAGCTGGCAAGCGTAAAA
* * * *
24451982 C--GTGTGCAAGCTGGTACGCGTAAAA
1 CATATGTACAAGCTGGCAAGCGTAAAA
* *
24452007 GCAAAAGTACAAGCTGGCAAGCGTAAACA
1 -CATATGTACAAGCTGGCAAGCGTAAA-A
*
24452036 CATATGTATAAGCTG
1 CATATGTACAAGCTG
24452051 ATGAGCATAA
Statistics
Matches: 71, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
24 13 0.18
25 3 0.04
26 3 0.04
27 2 0.03
28 49 0.69
29 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (27 bp):
CATATGTACAAGCTGGCAAGCGTAAAA
Found at i:24453383 original size:26 final size:26
Alignment explanation
Indices: 24453347--24453399 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
24453337 CACCCAGGAA
*
24453347 TGTCGCTGCATGAACGTATCCAAAAT
1 TGTCACTGCATGAACGTATCCAAAAT
* *
24453373 TGTCACTGCATGAACGTGTCCAGAAT
1 TGTCACTGCATGAACGTATCCAAAAT
24453399 T
1 T
24453400 ACACCTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
TGTCACTGCATGAACGTATCCAAAAT
Found at i:24454212 original size:16 final size:16
Alignment explanation
Indices: 24454191--24454221 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24454181 TTGTGGATCC
24454191 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
24454207 CATTTTATCTTTATT
1 CATTTTACCTTTATT
24454222 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:24457327 original size:50 final size:50
Alignment explanation
Indices: 24457252--24457371 Score: 186
Period size: 50 Copynumber: 2.4 Consensus size: 50
24457242 AGCATTTGGG
* * * *
24457252 AGTAAATCTTCAAATATCTAGTGGCATGTCCACATTATTCTATATGTGGC
1 AGTAAATCTGCAAATATCTGGTGGCATGTCCACACTATTCTATATCTGGC
*
24457302 AGTAAATCTGCAAATATCTGGTGGCATGTCCACACTATTCTGTATCTGGC
1 AGTAAATCTGCAAATATCTGGTGGCATGTCCACACTATTCTATATCTGGC
*
24457352 AGTAAATATGCAAATATCTG
1 AGTAAATCTGCAAATATCTG
24457372 ATGGTTAAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 64 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (50 bp):
AGTAAATCTGCAAATATCTGGTGGCATGTCCACACTATTCTATATCTGGC
Found at i:24462009 original size:55 final size:55
Alignment explanation
Indices: 24461910--24462014 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
24461900 TTTCATGATG
* * * * * * *
24461910 TTTGTATTTTTTTGACGTTTTTAAATGTTACCATAACTATTTTTTCGTGATTTTT
1 TTTGTATTTTTGTGACGTTTTTAAACGTCACAAAAAATAATTTTTCGTGATTTTT
24461965 TTTGTATTTTTGTGACGTTTTTAAACGTCACAAAAAATAATTTTTCGTGA
1 TTTGTATTTTTGTGACGTTTTTAAACGTCACAAAAAATAATTTTTCGTGA
24462015 CGTTTTTCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (55 bp):
TTTGTATTTTTGTGACGTTTTTAAACGTCACAAAAAATAATTTTTCGTGATTTTT
Found at i:24464623 original size:54 final size:54
Alignment explanation
Indices: 24464564--24464666 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
24464554 AGTGTAAGGT
*
24464564 TCACACAGGCTGAGACACA-AGCGTGTTG-CCCAAGTCAGTGAGTTACACGTCCTG
1 TCACACAGGCAGAGACACAGA-CGTG-TGACCCAAGTCAGTGAGTTACACGTCCTG
* * *
24464618 TCACACGGGCAGAGACACGGACGTGTGACCCAAGTTAGTGAGTTACACG
1 TCACACAGGCAGAGACACAGACGTGTGACCCAAGTCAGTGAGTTACACG
24464667 GTTTGACACA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
53 2 0.05
54 40 0.93
55 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.28, T:0.18
Consensus pattern (54 bp):
TCACACAGGCAGAGACACAGACGTGTGACCCAAGTCAGTGAGTTACACGTCCTG
Found at i:24470847 original size:4 final size:4
Alignment explanation
Indices: 24470838--24470872 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
24470828 TATATTCGTA
24470838 TATC TATC TATC TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TATC TATC TATC TAT
24470873 AGATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:24471158 original size:22 final size:20
Alignment explanation
Indices: 24471131--24471174 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
24471121 ATCAAATACT
*
24471131 TTTATTTTAATAATAGATTATA
1 TTTATTATAATAATA-ATT-TA
*
24471153 TTTATTATATTAATAATTTA
1 TTTATTATAATAATAATTTA
24471173 TT
1 TT
24471175 ATATGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 3 0.15
22 13 0.65
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTATTATAATAATAATTTA
Found at i:24471279 original size:42 final size:46
Alignment explanation
Indices: 24471199--24471283 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 46
24471189 TATAAATATG
24471199 TATTTTTAATAATATTGAAAATTATAATATTTGATATTAATATTTT
1 TATTTTTAATAATATTGAAAATTATAATATTTGATATTAATATTTT
24471245 TATTTTTAA-AA-ATT-AAAATTA-AATATTT-ATTATTAATAT
1 TATTTTTAATAATATTGAAAATTATAATATTTGA-TATTAATAT
24471284 AATAATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
41 1 0.03
42 16 0.42
43 7 0.18
44 3 0.08
45 2 0.05
46 9 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (46 bp):
TATTTTTAATAATATTGAAAATTATAATATTTGATATTAATATTTT
Found at i:24479097 original size:20 final size:20
Alignment explanation
Indices: 24479059--24479119 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
24479049 TGTTAAGATG
* *
24479059 ATTTTGACTTGGTTCAAATT
1 ATTTTGACTTGTTTAAAATT
* *
24479079 TTTTTGACTTGTTTAAAATC
1 ATTTTGACTTGTTTAAAATT
*
24479099 ATTTTAACTTGATTTAAAATT
1 ATTTTGACTTG-TTTAAAATT
24479120 GTTTCAAACT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 25 0.76
21 8 0.24
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (20 bp):
ATTTTGACTTGTTTAAAATT
Found at i:24484981 original size:20 final size:20
Alignment explanation
Indices: 24484956--24485003 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
24484946 ATCCGTCCCA
24484956 TTGACTTT-ACCCGTTGATCG
1 TTGACTTTGA-CCGTTGATCG
*
24484976 TTGACTTTGACTGTTGATCG
1 TTGACTTTGACCGTTGATCG
*
24484996 TTAACTTT
1 TTGACTTT
24485004 TTTAACCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.46
Consensus pattern (20 bp):
TTGACTTTGACCGTTGATCG
Found at i:24497571 original size:16 final size:17
Alignment explanation
Indices: 24497536--24497574 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
24497526 GGGTTTAGAG
*
24497536 ATAAAACATCAAACTAAA
1 ATAAAACA-CAAAATAAA
24497554 ATAAAACA-AAAATAAA
1 ATAAAACACAAAATAAA
24497570 ATAAA
1 ATAAA
24497575 TAAGTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (17 bp):
ATAAAACACAAAATAAA
Found at i:24503180 original size:18 final size:17
Alignment explanation
Indices: 24503154--24503188 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24503144 TATATGCATG
*
24503154 TAAATTAAATGAAGTAAA
1 TAAAGTAAATGAA-TAAA
24503172 TAAAGTAAATGAATAAA
1 TAAAGTAAATGAATAAA
24503189 CTTATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (17 bp):
TAAAGTAAATGAATAAA
Found at i:24505470 original size:24 final size:24
Alignment explanation
Indices: 24505442--24505490 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
24505432 GAAATAATCT
* *
24505442 TGTTTATTTGTTTCAATTAAACTC
1 TGTTTATTTATTTCAATCAAACTC
*
24505466 TGTTTATTTATTTCAGTCAAACTC
1 TGTTTATTTATTTCAATCAAACTC
24505490 T
1 T
24505491 TGTTAGTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.53
Consensus pattern (24 bp):
TGTTTATTTATTTCAATCAAACTC
Found at i:24507428 original size:37 final size:37
Alignment explanation
Indices: 24507387--24507470 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 37
24507377 ACAAATTCGG
*
24507387 GCTATGTGCCTAGCAGGCTTTGTGCCGGTGTATTCAA
1 GCTATGTGCCTAGCAGGCTTCGTGCCGGTGTATTCAA
* * * *
24507424 GCTATGTACCTAGTAGGCTTCGTGCTGGTGTATTCAG
1 GCTATGTGCCTAGCAGGCTTCGTGCCGGTGTATTCAA
*
24507461 GCTGTGTGCC
1 GCTATGTGCC
24507471 GGTGTATTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.14, C:0.21, G:0.31, T:0.33
Consensus pattern (37 bp):
GCTATGTGCCTAGCAGGCTTCGTGCCGGTGTATTCAA
Found at i:24507462 original size:21 final size:21
Alignment explanation
Indices: 24507445--24507491 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
24507435 AGTAGGCTTC
*
24507445 GTGCTGGTGTATTCAGGCTGT
1 GTGCCGGTGTATTCAGGCTGT
*
24507466 GTGCCGGTGTATTCAGGCTAT
1 GTGCCGGTGTATTCAGGCTGT
24507487 GTGCC
1 GTGCC
24507492 TAGTAGGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.11, C:0.19, G:0.36, T:0.34
Consensus pattern (21 bp):
GTGCCGGTGTATTCAGGCTGT
Found at i:24507494 original size:58 final size:58
Alignment explanation
Indices: 24507400--24507521 Score: 183
Period size: 58 Copynumber: 2.1 Consensus size: 58
24507390 ATGTGCCTAG
*
24507400 CAGGCTTTGTGCCGGTGTATTCAAGCTATGTACCTAGTAGGCTTCGTG-CTGGTGTATT
1 CAGGCTGTGTGCCGGTGTATTCAAGCTATGTACCTAGTAGGCTTCGTGTC-GGTGTATT
* * *
24507458 CAGGCTGTGTGCCGGTGTATTCAGGCTATGTGCCTAGTAGGCTTTGTGTCGGTGTATT
1 CAGGCTGTGTGCCGGTGTATTCAAGCTATGTACCTAGTAGGCTTCGTGTCGGTGTATT
*
24507516 CGGGCT
1 CAGGCT
24507522 ATTTGCCTAG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 57 0.98
59 1 0.02
ACGTcount: A:0.13, C:0.19, G:0.33, T:0.35
Consensus pattern (58 bp):
CAGGCTGTGTGCCGGTGTATTCAAGCTATGTACCTAGTAGGCTTCGTGTCGGTGTATT
Found at i:24507511 original size:37 final size:37
Alignment explanation
Indices: 24507458--24507548 Score: 119
Period size: 37 Copynumber: 2.5 Consensus size: 37
24507448 CTGGTGTATT
*
24507458 CAGGCTGTGTGCCGGTGTATTCAGGCTATGTGCCTAG
1 CAGGCTTTGTGCCGGTGTATTCAGGCTATGTGCCTAG
* * * *
24507495 TAGGCTTTGTGTCGGTGTATTCGGGCTATTTGCCTAG
1 CAGGCTTTGTGCCGGTGTATTCAGGCTATGTGCCTAG
**
24507532 CAGGCTTCATGCCGGTG
1 CAGGCTTTGTGCCGGTG
24507549 ATCCAAGAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.12, C:0.21, G:0.34, T:0.33
Consensus pattern (37 bp):
CAGGCTTTGTGCCGGTGTATTCAGGCTATGTGCCTAG
Found at i:24509167 original size:13 final size:14
Alignment explanation
Indices: 24509149--24509178 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24509139 GTCAACGCAA
24509149 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
24509162 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
24509176 TCA
1 TCA
24509179 ATGAACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:24510716 original size:16 final size:16
Alignment explanation
Indices: 24510695--24510725 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24510685 TTATCAAAAA
24510695 TTTCTTACTTTTTCTT
1 TTTCTTACTTTTTCTT
*
24510711 TTTCTTCCTTTTTCT
1 TTTCTTACTTTTTCT
24510726 CATTTTGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTACTTTTTCTT
Found at i:24513551 original size:20 final size:21
Alignment explanation
Indices: 24513526--24513564 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24513516 GCAAGGAATT
24513526 TGAAAC-AACAAAAGTAAAAG
1 TGAAACAAACAAAAGTAAAAG
*
24513546 TGAAACAAATAAAAGTAAA
1 TGAAACAAACAAAAGTAAA
24513565 TAAAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.08, G:0.13, T:0.13
Consensus pattern (21 bp):
TGAAACAAACAAAAGTAAAAG
Found at i:24522353 original size:11 final size:11
Alignment explanation
Indices: 24522333--24522373 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
24522323 TTAGTCATTT
*
24522333 GAAAAGAAGAA
1 GAAAAAAAGAA
24522344 GAAAAAAAGAA
1 GAAAAAAAGAA
24522355 -AAGAAAAAGAA
1 GAA-AAAAAGAA
24522366 GAAAAAAA
1 GAAAAAAA
24522374 TATATTTGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 2 0.07
11 23 0.85
12 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
GAAAAAAAGAA
Found at i:24522353 original size:14 final size:13
Alignment explanation
Indices: 24522334--24522370 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
24522324 TAGTCATTTG
24522334 AAAAGAAGAAGAAA
1 AAAAGAA-AAGAAA
24522348 AAAAGAAAAGAAA
1 AAAAGAAAAGAAA
24522361 AAGAAGAAAA
1 AA-AAGAAAA
24522371 AAATATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAAA
Found at i:24522357 original size:19 final size:20
Alignment explanation
Indices: 24522333--24522371 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
24522323 TTAGTCATTT
*
24522333 GAAAAGAAGAAGAA-AAAAA
1 GAAAAGAAAAAGAAGAAAAA
24522352 GAAAAGAAAAAGAAGAAAAA
1 GAAAAGAAAAAGAAGAAAAA
24522372 AATATATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
GAAAAGAAAAAGAAGAAAAA
Found at i:24523927 original size:13 final size:14
Alignment explanation
Indices: 24523897--24523927 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
24523887 TTTCAATACA
24523897 TTGACATTTAACCT
1 TTGACATTTAACCT
24523911 TTGACATTTAA-CT
1 TTGACATTTAACCT
24523924 TTGA
1 TTGA
24523928 TTGTGTTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (14 bp):
TTGACATTTAACCT
Found at i:24535867 original size:565 final size:565
Alignment explanation
Indices: 24534798--24535914 Score: 1869
Period size: 565 Copynumber: 2.0 Consensus size: 565
24534788 TCTCCATTTT
*
24534798 TAATCAATCTTGGTTACCTGGTCTACCAAATTATGAGTTACGATGTCTTAGTGCTACTCCTACTA
1 TAATCAATCTTGGTTACCTAGTCTACCAAATTATGAGTTACGATGTCTTAGTGCTACTCCTACTA
24534863 TCTCAACAGTGGCAGATTTGATAAATAATAATACTAGACAATGGGATAGAGATCTCATTACCATG
66 TCTCAACAGTGGCAGATTTGATAAATAATAATACTAGACAATGGGATAGAGATCTCATTACCATG
* * * * *
24534928 AATTTTGTTGCGGATGATACGGCTCATATTATGCAAATCTCGTTGTCATCGTCCCTAGGGGCCGA
131 AATTTTGCTGCGGATGATACGGCTCATATTATGCAAATCCCGTTGTCATCATCCCTAAGGACCGA
*
24534993 TGAGATGGTGTGGGGTAGGGAATCGACTGGCAATTTCTCAGTCAGGAGTGCATACAGATTGTTAC
196 TGAGATGGTGTGGGGTAGGGAATCGACTGGCAATTTCTCAGTCAGGAGTGCATACAAATTGTTAC
* *
24535058 AAGAAAGCACACTAATCTTATGTTTAATAATTTACAAGTTGAATATAAGAACTTCTATAAACAAC
261 AAGAAAGCACACTAATCTTATGTTTAATAATTTACAAGTCGAATATAAGAACTTCTACAAACAAC
24535123 TTTGGGGTTTAAACATCCCATCAAAAATTAAAATTATGATTTGGCGATTCTATCTGAATTTTTTC
326 TTTGGGGTTTAAACATCCCATCAAAAATTAAAATTATGATTTGGCGATTCTATCTGAATTTTTTC
* *
24535188 CCCACTTTGAAAAATATGTTGTGTAAAATATTGGTGACTACAATAGTGTGCCCCAGATGTAATTT
391 CCCACTTTGAAAAATATGTTGTGCAAAATATTAGTGACTACAATAGTGTGCCCCAGATGTAATTT
24535253 GGAACCCAAGGATGCAAACCATGTTTTTAAAAGGTGCCCTATTGCAAAAGAGGTATGGTTATTAC
456 GGAACCCAAGGATGCAAACCATGTTTTTAAAAGGTGCCCTATTGCAAAAGAGGTATGGTTATTAC
* *
24535318 TTGGCTATAGAGATCTCATAGATAGTACAGAATAAGTTCCCATGG
521 TTGGCTACAAAGATCTCATAGATAGTACAGAATAAGTTCCCATGG
* * *
24535363 TAATCAATCTTGGTTACTTAGTCTACCAAATTATGAGTTATGGTGTCTTAGTGCTACTCCTACTA
1 TAATCAATCTTGGTTACCTAGTCTACCAAATTATGAGTTACGATGTCTTAGTGCTACTCCTACTA
* * *
24535428 TCTCAACAGTGGCAGATTTGATAAATAGTAATACTAGACAGTGGGATAGAGATCTCGTTACCATG
66 TCTCAACAGTGGCAGATTTGATAAATAATAATACTAGACAATGGGATAGAGATCTCATTACCATG
* * *
24535493 AATTTTGCTGCGGATGATGCGGCTCGTATTATGCAAATCCCGTTGTCATCATCTCC-AAGGATCG
131 AATTTTGCTGCGGATGATACGGCTCATATTATGCAAATCCCGTTGTCATCATC-CCTAAGGACCG
* * *
24535557 ATGAGATGGTGTGGGGTGGGGAATCGGCTGGCGATTTCTCAGTCAGGAGTGCATACAAATTGTTA
195 ATGAGATGGTGTGGGGTAGGGAATCGACTGGCAATTTCTCAGTCAGGAGTGCATACAAATTGTTA
* * * *
24535622 CAAGAAAGCACACTAATGC-TATGTTTAATAATTTGCAGGTCGAATATAGGAACTTCTACAAATA
260 CAAGAAAGCACACTAAT-CTTATGTTTAATAATTTACAAGTCGAATATAAGAACTTCTACAAACA
* * * *
24535686 ATTTTGGGGTTTAAACATCCTATCAAAAATTAAAATTATGATTTGGTGATTCTCTCTGAATTTTT
324 ACTTTGGGGTTTAAACATCCCATCAAAAATTAAAATTATGATTTGGCGATTCTATCTGAATTTTT
*
24535751 TCCCCATTTTGAAAAATATGTTGTGCAAAATATTAGTGACTACAATAGTGTGCCCCAGATGTAAT
389 TCCCCACTTTGAAAAATATGTTGTGCAAAATATTAGTGACTACAATAGTGTGCCCCAGATGTAAT
* *
24535816 TTGGAACCCAATGATGCAAACCATGTTTTTATAAGGTGCCCTATTGCAAAAGAGGTATGGTTATT
454 TTGGAACCCAAGGATGCAAACCATGTTTTTAAAAGGTGCCCTATTGCAAAAGAGGTATGGTTATT
*
24535881 ACTTGGCTACAAAGATCTCATGGATAGTACAGAA
519 ACTTGGCTACAAAGATCTCATAGATAGTACAGAA
24535915 CTAGATTTTA
Statistics
Matches: 513, Mismatches: 37, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
565 510 0.99
566 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (565 bp):
TAATCAATCTTGGTTACCTAGTCTACCAAATTATGAGTTACGATGTCTTAGTGCTACTCCTACTA
TCTCAACAGTGGCAGATTTGATAAATAATAATACTAGACAATGGGATAGAGATCTCATTACCATG
AATTTTGCTGCGGATGATACGGCTCATATTATGCAAATCCCGTTGTCATCATCCCTAAGGACCGA
TGAGATGGTGTGGGGTAGGGAATCGACTGGCAATTTCTCAGTCAGGAGTGCATACAAATTGTTAC
AAGAAAGCACACTAATCTTATGTTTAATAATTTACAAGTCGAATATAAGAACTTCTACAAACAAC
TTTGGGGTTTAAACATCCCATCAAAAATTAAAATTATGATTTGGCGATTCTATCTGAATTTTTTC
CCCACTTTGAAAAATATGTTGTGCAAAATATTAGTGACTACAATAGTGTGCCCCAGATGTAATTT
GGAACCCAAGGATGCAAACCATGTTTTTAAAAGGTGCCCTATTGCAAAAGAGGTATGGTTATTAC
TTGGCTACAAAGATCTCATAGATAGTACAGAATAAGTTCCCATGG
Found at i:24537497 original size:4 final size:4
Alignment explanation
Indices: 24537469--24537515 Score: 51
Period size: 4 Copynumber: 11.0 Consensus size: 4
24537459 CAAACGGGAG
24537469 AGAA GAGAA GAGAA GAGAGA AGAA AGAA AGAA AGAA AGAA A-AA AGAA
1 AGAA -AGAA -AGAA -AGA-A AGAA AGAA AGAA AGAA AGAA AGAA AGAA
24537516 TGAATGAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.08
4 20 0.50
5 16 0.40
6 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:24538116 original size:24 final size:24
Alignment explanation
Indices: 24538089--24538136 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
24538079 ATGTGGAACT
24538089 AGTACAAAATGAAGATCCAACTCC
1 AGTACAAAATGAAGATCCAACTCC
* *
24538113 AGTAGAAAATGAAGATTCAACTCC
1 AGTACAAAATGAAGATCCAACTCC
24538137 GTGTATGGTG
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:0.46, C:0.21, G:0.15, T:0.19
Consensus pattern (24 bp):
AGTACAAAATGAAGATCCAACTCC
Found at i:24540460 original size:14 final size:14
Alignment explanation
Indices: 24540443--24540575 Score: 110
Period size: 14 Copynumber: 9.4 Consensus size: 14
24540433 TTTGTATTTT
*
24540443 GGTTTAAGGTTTAA
1 GGTTTAAGGTTTAG
24540457 GGTTTAAGGTGTATAG
1 GGTTTAAGGT-T-TAG
*
24540473 GGTTTAAGGTTTTG
1 GGTTTAAGGTTTAG
*
24540487 GG-TTGAGAGTTT-G
1 GGTTTAAG-GTTTAG
* *
24540500 GGGTTAAAGTTTAG
1 GGTTTAAGGTTTAG
* *
24540514 GGTTTTAGGTTTAA
1 GGTTTAAGGTTTAG
* *
24540528 GG-TTGAGGATTTTG
1 GGTTTAAGG-TTTAG
24540542 GGTTTAAGGTTTAG
1 GGTTTAAGGTTTAG
* *
24540556 AGTTTAGGGTTTAG
1 GGTTTAAGGTTTAG
24540570 GGTTTA
1 GGTTTA
24540576 GGGAATCAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 14
0.75 0.13 0.11
Matches are distributed among these distances:
13 16 0.17
14 60 0.63
15 7 0.07
16 12 0.13
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (14 bp):
GGTTTAAGGTTTAG
Done.