Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 192 of 235
Found at i:65317078 original size:18 final size:18
Alignment explanation
Indices: 65317055--65317091 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
65317045 ACAGATCCTA
*
65317055 CCCCCATTTTCTACACAC
1 CCCCCATTTGCTACACAC
65317073 CCCCCATTTGCTACACAC
1 CCCCCATTTGCTACACAC
65317091 C
1 C
65317092 ATCTCCGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.51, G:0.03, T:0.24
Consensus pattern (18 bp):
CCCCCATTTGCTACACAC
Found at i:65317648 original size:29 final size:29
Alignment explanation
Indices: 65317600--65317655 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
65317590 GGCCGACACT
* *
65317600 ACCTGGCACACGACTATGTGACTCACATG
1 ACCTAGCACACGACCATGTGACTCACATG
* *
65317629 ACCTAGCACACGACCGTGTGGCTCACA
1 ACCTAGCACACGACCATGTGACTCACA
65317656 CGAAATGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.27, C:0.34, G:0.21, T:0.18
Consensus pattern (29 bp):
ACCTAGCACACGACCATGTGACTCACATG
Found at i:65323869 original size:31 final size:31
Alignment explanation
Indices: 65323834--65324121 Score: 558
Period size: 31 Copynumber: 9.3 Consensus size: 31
65323824 ATACTTAACA
65323834 TAGCTTTACTTTTATCTATTTTCTTAAACCT
1 TAGCTTTACTTTTATCTATTTTCTTAAACCT
*
65323865 TAGCTTTACATTTATCTATTTTCTTAAACCT
1 TAGCTTTACTTTTATCTATTTTCTTAAACCT
65323896 TAGCTTTACTTTTATCTATTTTCTTAAACCT
1 TAGCTTTACTTTTATCTATTTTCTTAAACCT
65323927 TAGCTTTACTTTTATCTATTTTCTTAAACCT
1 TAGCTTTACTTTTATCTATTTTCTTAAACCT
65323958 TAGCTTTACTTTTATCTATTTTCTTAAACCT
1 TAGCTTTACTTTTATCTATTTTCTTAAACCT
65323989 TAGCTTTACTTTTATCTATTTTCTTAAACCT
1 TAGCTTTACTTTTATCTATTTTCTTAAACCT
65324020 TAGCTTTACTTTTATCTATTTTCTTAAACCT
1 TAGCTTTACTTTTATCTATTTTCTTAAACCT
65324051 TAGCTTTACTTTTATCTATTTTCTTAAACCT
1 TAGCTTTACTTTTATCTATTTTCTTAAACCT
65324082 TAGCTTTACTTTTATCTATTTTCTTAAACCT
1 TAGCTTTACTTTTATCTATTTTCTTAAACCT
*
65324113 TACCTTTAC
1 TAGCTTTAC
65324122 ATTATCCTTA
Statistics
Matches: 254, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 254 1.00
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.54
Consensus pattern (31 bp):
TAGCTTTACTTTTATCTATTTTCTTAAACCT
Found at i:65324536 original size:29 final size:29
Alignment explanation
Indices: 65324464--65324537 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
65324454 CCTTTAACAT
** *
65324464 AGATAGCCACAAAGATATCCTTTTAATAG
1 AGATAGCCACAAAGGCATCATTTTAATAG
* *
65324493 AGATAGCCAGAAAGGCATCATTTT-GTCAG
1 AGATAGCCACAAAGGCATCATTTTAAT-AG
65324522 AGATAGCCACAAAGGC
1 AGATAGCCACAAAGGC
65324538 TTTTTTATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 1 0.03
29 37 0.97
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (29 bp):
AGATAGCCACAAAGGCATCATTTTAATAG
Found at i:65324613 original size:26 final size:26
Alignment explanation
Indices: 65324551--65324613 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
65324541 TTTATAACTA
*
65324551 AGATAGCAA-AAAGGCATCCTTTCAT
1 AGATAGCAACAAAGGCATCCTTTCAG
* * * *
65324576 AGATAACCACAAAGGCCTCCTTTTAG
1 AGATAGCAACAAAGGCATCCTTTCAG
65324602 AGATAGCAACAA
1 AGATAGCAACAA
65324614 CGGCTCACTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 7 0.23
26 23 0.77
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (26 bp):
AGATAGCAACAAAGGCATCCTTTCAG
Found at i:65325839 original size:15 final size:16
Alignment explanation
Indices: 65325819--65325849 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
65325809 GCCTCATACC
65325819 TCATAACCATC-CTTT
1 TCATAACCATCACTTT
65325834 TCATAACCATCACTTT
1 TCATAACCATCACTTT
65325850 CATTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (16 bp):
TCATAACCATCACTTT
Found at i:65326791 original size:25 final size:27
Alignment explanation
Indices: 65326753--65326814 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
65326743 TTTCCACGAA
65326753 TATTGCCCTAGTGG-CTACCTCAT-TT
1 TATTGCCCTAGTGGACTACCTCATGTT
*
65326778 TATTGTCCCT-GTGGACTACCTCGTGTT
1 TATTG-CCCTAGTGGACTACCTCATGTT
65326805 TATTGCCCTA
1 TATTGCCCTA
65326815 ACAATCTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 9 0.28
26 16 0.50
27 7 0.22
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (27 bp):
TATTGCCCTAGTGGACTACCTCATGTT
Found at i:65332492 original size:120 final size:120
Alignment explanation
Indices: 65332279--65332602 Score: 398
Period size: 120 Copynumber: 2.7 Consensus size: 120
65332269 GAATACAAAT
* * * *
65332279 CACCGGCACGAATGCCCTTCGGGAATTAGCCCGGGTATAACATC-GGCACGAATACCCTTCGGGA
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGGTATAAC-TCTAGCACGAATGCTCTTCGGGA
* * ** *
65332343 TTTAGCCCGGATATAACACCGGCACGAATGCCCTTCGAGACTTAGCCCGGATATAA
65 CTTAGCCCGGATATATCACTAGCACGAATGCCCTTCGAGACATAGCCCGGATATAA
* * * *
65332399 CACCGGCACGAATGCCCTTCGGGACTTAACCCTGATATAACTCTAGCACGAATGCTCTTCGAGAC
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGGTATAACTCTAGCACGAATGCTCTTCGGGAC
* * * * *
65332464 TTAGCTCGGATATATCACTAGCACGAATGCTCTTCGGGACATAGCCCGGGTATAT
66 TTAGCCCGGATATATCACTAGCACGAATGCCCTTCGAGACATAGCCCGGATATAA
* ** * * * *
65332519 CGCTAGCACGAATGCTCTTCGGGACTTAGCCCGGGTATATCACTACCACGAATGCTCTTCGGGAC
1 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGGTATAACTCTAGCACGAATGCTCTTCGGGAC
*
65332584 TTAGCCCGGGTATATCACT
66 TTAGCCCGGATATATCACT
65332603 CTCAATTCTC
Statistics
Matches: 172, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
119 2 0.01
120 170 0.99
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (120 bp):
CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGGTATAACTCTAGCACGAATGCTCTTCGGGAC
TTAGCCCGGATATATCACTAGCACGAATGCCCTTCGAGACATAGCCCGGATATAA
Found at i:65332598 original size:40 final size:40
Alignment explanation
Indices: 65332284--65332602 Score: 361
Period size: 40 Copynumber: 8.0 Consensus size: 40
65332274 CAAATCACCG
* * *
65332284 GCACGAATGCCCTTCGGGAATTAGCCCGGGTATAACA-TCG
1 GCACGAATGCCCTTCGGGACTTAGCCCGGATATAACACT-A
* * **
65332324 GCACGAATACCCTTCGGGATTTAGCCCGGATATAACACCG
1 GCACGAATGCCCTTCGGGACTTAGCCCGGATATAACACTA
* **
65332364 GCACGAATGCCCTTCGAGACTTAGCCCGGATATAACACCG
1 GCACGAATGCCCTTCGGGACTTAGCCCGGATATAACACTA
* * *
65332404 GCACGAATGCCCTTCGGGACTTAACCCTGATATAACTCTA
1 GCACGAATGCCCTTCGGGACTTAGCCCGGATATAACACTA
* * * *
65332444 GCACGAATGCTCTTCGAGACTTAGCTCGGATATATCACTA
1 GCACGAATGCCCTTCGGGACTTAGCCCGGATATAACACTA
* * * * *
65332484 GCACGAATGCTCTTCGGGACATAGCCCGGGTATATCGCTA
1 GCACGAATGCCCTTCGGGACTTAGCCCGGATATAACACTA
* * *
65332524 GCACGAATGCTCTTCGGGACTTAGCCCGGGTATATCACTA
1 GCACGAATGCCCTTCGGGACTTAGCCCGGATATAACACTA
* * * *
65332564 CCACGAATGCTCTTCGGGACTTAGCCCGGGTATATCACT
1 GCACGAATGCCCTTCGGGACTTAGCCCGGATATAACACT
65332603 CTCAATTCTC
Statistics
Matches: 250, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 250 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCCTTCGGGACTTAGCCCGGATATAACACTA
Found at i:65333866 original size:37 final size:37
Alignment explanation
Indices: 65333816--65333894 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65333806 TTATTACGAA
* * *
65333816 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
65333853 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
65333890 GTCTT
1 GTCTT
65333895 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:65338588 original size:47 final size:47
Alignment explanation
Indices: 65334013--65338587 Score: 8934
Period size: 47 Copynumber: 97.1 Consensus size: 47
65334003 CCCTTCGGGA
* * * * * *
65334013 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65334060 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334107 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334154 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334201 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334248 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334342 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334389 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334436 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334483 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334530 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334577 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334624 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334671 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334718 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334765 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334812 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334859 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334906 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65334953 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335000 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335047 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335094 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335141 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335188 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335235 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335282 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335329 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335378 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335425 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335474 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335523 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335572 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335621 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335670 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335717 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335764 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335811 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335858 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335905 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335952 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65335999 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336046 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65336093 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336140 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336187 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336234 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336281 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336328 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336375 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336422 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336469 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336516 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336563 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336610 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336657 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65336704 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336751 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336798 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336845 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336892 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336939 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65336986 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337033 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337080 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337127 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337174 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337221 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337268 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337315 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337362 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337409 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337456 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65337503 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337550 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337597 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337644 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337691 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337738 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337785 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337832 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337879 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337926 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65337973 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338020 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338067 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338114 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338161 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338208 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338255 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338302 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338349 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338396 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338443 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338490 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65338537 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65338584 CTTA
1 CTTA
65338588 CTATCATTTC
Statistics
Matches: 4507, Mismatches: 17, Indels: 8
0.99 0.00 0.00
Matches are distributed among these distances:
47 4217 0.94
49 290 0.06
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65340811 original size:85 final size:85
Alignment explanation
Indices: 65340682--65341030 Score: 689
Period size: 85 Copynumber: 4.1 Consensus size: 85
65340672 TATTTTATTG
*
65340682 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
65340747 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
65340767 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
65340832 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
65340852 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
65340917 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
65340937 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
65341002 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
65341022 CCCATGCTC
1 CCCATGCTC
65341031 ATGGCCGGCC
Statistics
Matches: 263, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 263 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:65342754 original size:40 final size:40
Alignment explanation
Indices: 65342722--65343153 Score: 747
Period size: 40 Copynumber: 10.8 Consensus size: 40
65342712 CCAGCATGAT
* * * *
65342722 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
65342762 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
65342802 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
65342842 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
65342882 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
65342922 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
65342962 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
65343002 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
65343042 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
65343082 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
65343122 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
65343154 CTCAATTCTC
Statistics
Matches: 377, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 377 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:65344783 original size:47 final size:47
Alignment explanation
Indices: 65344732--65344854 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
65344722 GGTATCGCCA
* * * * *
65344732 CATATATACACTTTCACGTTCATCACATTTGTCATTCTGCCTTATCT
1 CATATATACACATTCACATTCATCACATTGGCCATTCGGCCTTATCT
* *
65344779 CATATATGCACATTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CATATATACACATTCACATTCATCACATTGGCCATTCGGCCTTATCT
* * ***
65344826 CACATATGCATGCTCACATTCATCACATT
1 CATATATACACATTCACATTCATCACATT
65344855 AAATCCTAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.36
Consensus pattern (47 bp):
CATATATACACATTCACATTCATCACATTGGCCATTCGGCCTTATCT
Found at i:65347920 original size:27 final size:27
Alignment explanation
Indices: 65347890--65347960 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
65347880 GTATTTCCTC
*
65347890 CATAGATCGCCACAAAGGCTTCCTTTT
1 CATAGATCACCACAAAGGCTTCCTTTT
* *
65347917 CATAGATCACCATAAAAGCTTCCTTTT
1 CATAGATCACCACAAAGGCTTCCTTTT
65347944 CATAGATCACCACAAAG
1 CATAGATCACCACAAAG
65347961 ATTTTCTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (27 bp):
CATAGATCACCACAAAGGCTTCCTTTT
Found at i:65347969 original size:27 final size:27
Alignment explanation
Indices: 65347890--65347970 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
65347880 GTATTTCCTC
* *
65347890 CATAGATCGCCACAAAGGCTTCCTTTT
1 CATAGATCACCACAAAGACTTCCTTTT
*
65347917 CATAGATCACCATAAA-AGCTTCCTTTT
1 CATAGATCACCACAAAGA-CTTCCTTTT
* *
65347944 CATAGATCACCACAAAGATTTTCTTTT
1 CATAGATCACCACAAAGACTTCCTTTT
65347971 TCTGGCATGT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (27 bp):
CATAGATCACCACAAAGACTTCCTTTT
Found at i:65349455 original size:68 final size:69
Alignment explanation
Indices: 65349371--65349500 Score: 190
Period size: 70 Copynumber: 1.9 Consensus size: 69
65349361 ATGGAATCTC
* * *
65349371 TATGTTGCCATGGCCGAGAA-ATGGTCATACATATTTTTACCCAATGTTTAACGTCTTGGCGGAT
1 TATGTTGCCATAGCCGAGAACATGGTCATACACATTTTTACCCAATGTTTAACGTCATGGCGGAT
65349435 GATT
66 GATT
* * *
65349439 TATGTTGCCATAGCCGAGAACCATGGTCTTACACATTTTTACCCCATTTTTAACGTCATGGC
1 TATGTTGCCATAGCCGAGAA-CATGGTCATACACATTTTTACCCAATGTTTAACGTCATGGC
65349501 AAACCCTCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 19 0.35
70 35 0.65
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (69 bp):
TATGTTGCCATAGCCGAGAACATGGTCATACACATTTTTACCCAATGTTTAACGTCATGGCGGAT
GATT
Found at i:65349513 original size:70 final size:70
Alignment explanation
Indices: 65349368--65349628 Score: 212
Period size: 68 Copynumber: 3.8 Consensus size: 70
65349358 CTGATGGAAT
** * * * *
65349368 CTCTATGTTGCCATGGCCGAGAA--ATGGTCATACATATTTTTACCCAATGTTTAACGTCTTGGC
1 CTCTATGTTGCCACAGCCGAGAACCATGGTCTTACACATTTTTACCCCATGTTTAACGTCATGGC
* **
65349431 GGATG
66 AGACC
* * * *
65349436 ATTTATGTTGCCATAGCCGAGAACCATGGTCTTACACATTTTTACCCCATTTTTAACGTCATGGC
1 CTCTATGTTGCCACAGCCGAGAACCATGGTCTTACACATTTTTACCCCATGTTTAACGTCATGGC
*
65349501 AAACC
66 AGACC
* * * * * * * * *
65349506 CTCTATGTTGTCACATCCTAG--CCATGGTCTTACATATCTTTACACCATGTTTAACATCCTAG-
1 CTCTATGTTGCCACAGCCGAGAACCATGGTCTTACACATTTTTACCCCATGTTTAACGTCATGGC
65349568 AGGACC
66 A-GACC
* * * * *
65349574 CTCTAAGTTGCCACAG-CTA-AACGATGGTCTTACACAGTTTTATCCCATGTTTAAC
1 CTCTATGTTGCCACAGCCGAGAACCATGGTCTTACACATTTTTACCCCATGTTTAAC
65349629 ATCCTCGTGG
Statistics
Matches: 153, Mismatches: 35, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
67 4 0.03
68 98 0.64
70 51 0.33
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (70 bp):
CTCTATGTTGCCACAGCCGAGAACCATGGTCTTACACATTTTTACCCCATGTTTAACGTCATGGC
AGACC
Found at i:65351356 original size:23 final size:24
Alignment explanation
Indices: 65351278--65351363 Score: 95
Period size: 24 Copynumber: 3.6 Consensus size: 24
65351268 TATAAACGGA
*
65351278 AAGCTCA-TAAGAGCCATAATCAGG
1 AAGCTCACAAAGAGCCAT-ATCAGG
* * **
65351302 AAGTTCACAAAGAACCATATTGGG
1 AAGCTCACAAAGAGCCATATCAGG
*
65351326 AAGGTCACAAAGAGCC-TATCAGG
1 AAGCTCACAAAGAGCCATATCAGG
65351349 AAGCTCACAAAGAGC
1 AAGCTCACAAAGAGC
65351364 AATGTAATGG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
23 19 0.37
24 24 0.47
25 8 0.16
ACGTcount: A:0.42, C:0.21, G:0.22, T:0.15
Consensus pattern (24 bp):
AAGCTCACAAAGAGCCATATCAGG
Found at i:65354022 original size:9 final size:8
Alignment explanation
Indices: 65354000--65354032 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
65353990 TTGTAATGCC
65354000 CCAAAAAT
1 CCAAAAAT
65354008 CCAAAAAT
1 CCAAAAAT
65354016 CCAAAAAT
1 CCAAAAAT
*
65354024 CCCAAAAT
1 CCAAAAAT
65354032 C
1 C
65354033 TTGAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.12
Consensus pattern (8 bp):
CCAAAAAT
Found at i:65355458 original size:19 final size:19
Alignment explanation
Indices: 65355426--65355463 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
65355416 ACTTGGGTTG
*
65355426 AGAATTGGCCAAATGGGCC
1 AGAATAGGCCAAATGGGCC
*
65355445 AGAATAGGCTAAATGGGCC
1 AGAATAGGCCAAATGGGCC
65355464 TGATGGGCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (19 bp):
AGAATAGGCCAAATGGGCC
Found at i:65355588 original size:29 final size:29
Alignment explanation
Indices: 65355554--65355659 Score: 99
Period size: 29 Copynumber: 3.7 Consensus size: 29
65355544 TAATATGATT
* *
65355554 TAGGCCTAATGGGCTATATGAATAAGAAT
1 TAGGCCTAATGGGCCATATGAATAAGAAC
* * * *
65355583 TGGGCCTAGTGGGCCATAAGAATATGAAC
1 TAGGCCTAATGGGCCATATGAATAAGAAC
* *
65355612 TAGG-CTAGATGGGCCATTTGAATAAG-AT
1 TAGGCCTA-ATGGGCCATATGAATAAGAAC
* *
65355640 TAGCCCTAGTGGGCCATATG
1 TAGGCCTAATGGGCCATATG
65355660 CATGGATGTA
Statistics
Matches: 60, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
28 17 0.28
29 43 0.72
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (29 bp):
TAGGCCTAATGGGCCATATGAATAAGAAC
Found at i:65355624 original size:58 final size:57
Alignment explanation
Indices: 65355545--65355657 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 57
65355535 GCATGGATAT
** * * *
65355545 AATATGATTTAGGCCTAATGGGCTATATGAATAAGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTAGGCCTAATGGGCCATATGAATAAG-ATTAGCCCTAGTGGGCCATAAG
*
65355603 AATATGAACTAGG-CTAGATGGGCCATTTGAATAAGATTAGCCCTAGTGGGCCATA
1 AATATGAACTAGGCCTA-ATGGGCCATATGAATAAGATTAGCCCTAGTGGGCCATA
65355658 TGCATGGATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 21 0.44
58 27 0.56
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (57 bp):
AATATGAACTAGGCCTAATGGGCCATATGAATAAGATTAGCCCTAGTGGGCCATAAG
Found at i:65371468 original size:34 final size:34
Alignment explanation
Indices: 65371425--65371489 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
65371415 CTAGATGACT
*
65371425 GTTACTGATACT-AAGATGGGCTAAGGCCCAAACC
1 GTTACTGATACTGAA-AGGGGCTAAGGCCCAAACC
*
65371459 GTTACTGATACTGAAAGGGGCTTAGGCCCAA
1 GTTACTGATACTGAAAGGGGCTAAGGCCCAA
65371490 GACTATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (34 bp):
GTTACTGATACTGAAAGGGGCTAAGGCCCAAACC
Found at i:65379717 original size:21 final size:21
Alignment explanation
Indices: 65379693--65379733 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65379683 GAATTTAATG
*
65379693 TCAATTTAATCCATTTCACAC
1 TCAATTTAATCCAATTCACAC
*
65379714 TCAATTTAATTCAATTCACA
1 TCAATTTAATCCAATTCACA
65379734 TCTAGGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (21 bp):
TCAATTTAATCCAATTCACAC
Found at i:65384452 original size:14 final size:14
Alignment explanation
Indices: 65384433--65384460 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65384423 GCTGTTGCAT
65384433 CAAAAATTTGCCTA
1 CAAAAATTTGCCTA
65384447 CAAAAATTTGCCTA
1 CAAAAATTTGCCTA
65384461 GTTGAGGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
CAAAAATTTGCCTA
Found at i:65386132 original size:22 final size:23
Alignment explanation
Indices: 65386099--65386143 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
65386089 TTTTTTCTAA
65386099 GTTTTTTGTGGGGGATATATTTG
1 GTTTTTTGTGGGGGATATATTTG
* *
65386122 GTTTTTT-TGGGGGGTATTTTTG
1 GTTTTTTGTGGGGGATATATTTG
65386144 TTCTAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.09, C:0.00, G:0.36, T:0.56
Consensus pattern (23 bp):
GTTTTTTGTGGGGGATATATTTG
Found at i:65394420 original size:174 final size:174
Alignment explanation
Indices: 65394130--65394478 Score: 698
Period size: 174 Copynumber: 2.0 Consensus size: 174
65394120 ATGCATGACA
65394130 AAGAGGTTCGGGGTTCGAATCCCTCCTTGCTCAAAAGAAGAATTTATTTTTGCTTAAGGGATGGA
1 AAGAGGTTCGGGGTTCGAATCCCTCCTTGCTCAAAAGAAGAATTTATTTTTGCTTAAGGGATGGA
65394195 CAGTGGTGGCGTTGGATATGAACACTGTAGCGAGTGATAAGAAGAGAAATTTGAGGAGGGGATTA
66 CAGTGGTGGCGTTGGATATGAACACTGTAGCGAGTGATAAGAAGAGAAATTTGAGGAGGGGATTA
65394260 GGGAGTTATCAGGGAGAAAAATTAGGAGATGAGGAGTGAAGAAG
131 GGGAGTTATCAGGGAGAAAAATTAGGAGATGAGGAGTGAAGAAG
65394304 AAGAGGTTCGGGGTTCGAATCCCTCCTTGCTCAAAAGAAGAATTTATTTTTGCTTAAGGGATGGA
1 AAGAGGTTCGGGGTTCGAATCCCTCCTTGCTCAAAAGAAGAATTTATTTTTGCTTAAGGGATGGA
65394369 CAGTGGTGGCGTTGGATATGAACACTGTAGCGAGTGATAAGAAGAGAAATTTGAGGAGGGGATTA
66 CAGTGGTGGCGTTGGATATGAACACTGTAGCGAGTGATAAGAAGAGAAATTTGAGGAGGGGATTA
65394434 GGGAGTTATCAGGGAGAAAAATTAGGAGATGAGGAGTGAAGAAG
131 GGGAGTTATCAGGGAGAAAAATTAGGAGATGAGGAGTGAAGAAG
65394478 A
1 A
65394479 GGTGGAGCCG
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 175 1.00
ACGTcount: A:0.33, C:0.09, G:0.34, T:0.24
Consensus pattern (174 bp):
AAGAGGTTCGGGGTTCGAATCCCTCCTTGCTCAAAAGAAGAATTTATTTTTGCTTAAGGGATGGA
CAGTGGTGGCGTTGGATATGAACACTGTAGCGAGTGATAAGAAGAGAAATTTGAGGAGGGGATTA
GGGAGTTATCAGGGAGAAAAATTAGGAGATGAGGAGTGAAGAAG
Found at i:65395576 original size:29 final size:29
Alignment explanation
Indices: 65395532--65395656 Score: 198
Period size: 29 Copynumber: 4.3 Consensus size: 29
65395522 GAAAGCATGA
*
65395532 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
65395561 AAATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
65395590 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
65395619 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
65395647 ATATGCATGT
1 ATATGAATGT
65395657 ATGTAGACTT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 23 0.26
29 66 0.74
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:65401289 original size:40 final size:40
Alignment explanation
Indices: 65401252--65401362 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
65401242 AGCACACGGG
65401252 TAGAGACACGGGCATGTGTCTCAGCCGTGTGCTACACGGCC
1 TAGA-ACACGGGCATGTGTCTCAGCCGTGTGCTACACGGCC
*
65401293 TAGAACACGGGCGTGTGTCTCAGCCGTGTGCTACACGGCC
1 TAGAACACGGGCATGTGTCTCAGCCGTGTGCTACACGGCC
*
65401333 TAGAACACGGGCATGTGTCTTAGCCGTGTG
1 TAGAACACGGGCATGTGTCTCAGCCGTGTG
65401363 AAACCTGCAC
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
40 63 0.94
41 4 0.06
ACGTcount: A:0.19, C:0.27, G:0.32, T:0.22
Consensus pattern (40 bp):
TAGAACACGGGCATGTGTCTCAGCCGTGTGCTACACGGCC
Found at i:65404478 original size:23 final size:23
Alignment explanation
Indices: 65404435--65404478 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
65404425 ATTAGAATCA
*
65404435 AGTTAGGACTTAATCGCGAACCG
1 AGTTAGGACTTAATCACGAACCG
* *
65404458 AGTTAGTACTTAATCATGAAC
1 AGTTAGGACTTAATCACGAAC
65404479 TCTAGGAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (23 bp):
AGTTAGGACTTAATCACGAACCG
Found at i:65405259 original size:108 final size:108
Alignment explanation
Indices: 65405119--65405329 Score: 413
Period size: 108 Copynumber: 2.0 Consensus size: 108
65405109 TATTTCTTTT
65405119 TGTTTTAGATCATCATAGGACTTTTAACGATCAGAGGCTGCTTTCAAACTATCTCGAATTACTTT
1 TGTTTTAGATCATCATAGGACTTTTAACGATCAGAGGCTGCTTTCAAACTATCTCGAATTACTTT
65405184 CACTTTTTCCTCGGTCTCTCAGACCAAATCAACTCTGTAAAAA
66 CACTTTTTCCTCGGTCTCTCAGACCAAATCAACTCTGTAAAAA
*
65405227 TGTTTTAGATCATCATAGGACTTTTAACGATCAGAGGCTGCTTTCAAACTGTCTCGAATTACTTT
1 TGTTTTAGATCATCATAGGACTTTTAACGATCAGAGGCTGCTTTCAAACTATCTCGAATTACTTT
65405292 CACTTTTTCCTCGGTCTCTCAGACCAAATCAACTCTGT
66 CACTTTTTCCTCGGTCTCTCAGACCAAATCAACTCTGT
65405330 GTAACTTTTT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (108 bp):
TGTTTTAGATCATCATAGGACTTTTAACGATCAGAGGCTGCTTTCAAACTATCTCGAATTACTTT
CACTTTTTCCTCGGTCTCTCAGACCAAATCAACTCTGTAAAAA
Found at i:65415257 original size:28 final size:28
Alignment explanation
Indices: 65415225--65415279 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
65415215 CACTGAAAAA
65415225 TGGGCTATTACAATAAATCAATTATAAC
1 TGGGCTATTACAATAAATCAATTATAAC
*
65415253 TGGGCTGTTACAATAAATCAATTATAA
1 TGGGCTATTACAATAAATCAATTATAA
65415280 TTGTAACACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (28 bp):
TGGGCTATTACAATAAATCAATTATAAC
Found at i:65415366 original size:13 final size:13
Alignment explanation
Indices: 65415348--65415372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65415338 ATATCGGAAC
65415348 ATTTCATAATCAT
1 ATTTCATAATCAT
65415361 ATTTCATAATCA
1 ATTTCATAATCA
65415373 AAAGTCATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTCATAATCAT
Found at i:65417245 original size:40 final size:41
Alignment explanation
Indices: 65417172--65417287 Score: 155
Period size: 40 Copynumber: 2.8 Consensus size: 41
65417162 AACAAACTCG
* *
65417172 CACACTTAGTGCTAATTAATTAGCTGTAGCTATAATTGTAT
1 CACACTTAGTGCCAATTAATTAGCCGTAGCTATAATTGTAT
65417213 CACACTTAGTGCCAATT-ATTAGCCG-AGGCTATAATTGTAT
1 CACACTTAGTGCCAATTAATTAGCCGTA-GCTATAATTGTAT
* *
65417253 CGTACACTTAGTGCCTATTAATTAGTCGTAGCTAT
1 C--ACACTTAGTGCCAATTAATTAGCCGTAGCTAT
65417288 TTCATTTATC
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
39 1 0.02
40 21 0.32
41 16 0.24
42 15 0.23
43 12 0.18
44 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (41 bp):
CACACTTAGTGCCAATTAATTAGCCGTAGCTATAATTGTAT
Found at i:65419322 original size:43 final size:43
Alignment explanation
Indices: 65419274--65419360 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
65419264 GTTATCAAAG
65419274 TATGAAAATTTTTTCATGGATGAATATGCTGAAATTTTGAAAT
1 TATGAAAATTTTTTCATGGATGAATATGCTGAAATTTTGAAAT
65419317 TATGAAAATTTTTTCATGGATGAATATGCTGAAATTTTGAAAT
1 TATGAAAATTTTTTCATGGATGAATATGCTGAAATTTTGAAAT
65419360 T
1 T
65419361 TATGGTAGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.43
Consensus pattern (43 bp):
TATGAAAATTTTTTCATGGATGAATATGCTGAAATTTTGAAAT
Found at i:65427987 original size:6 final size:6
Alignment explanation
Indices: 65427976--65428003 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
65427966 ATGTGCTCTC
65427976 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
65428004 TAATACGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:65430674 original size:17 final size:17
Alignment explanation
Indices: 65430652--65430687 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
65430642 TATATAAAGA
65430652 TAACAACAATTAATAAT
1 TAACAACAATTAATAAT
65430669 TAACAACAATTAATAAT
1 TAACAACAATTAATAAT
65430686 TA
1 TA
65430688 GATATATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (17 bp):
TAACAACAATTAATAAT
Found at i:65445237 original size:390 final size:390
Alignment explanation
Indices: 65444517--65445298 Score: 1370
Period size: 390 Copynumber: 2.0 Consensus size: 390
65444507 TTTATTTTCA
* *
65444517 AATGACCAAAATGCCCCTCCTTACAAAACTTTCAAATTTTTCTATGTATGCCCATTTTTGTCCAA
1 AATGACCAAAATGCCCCTCCTTACAAAACTTTCAAATTTTTCTATGCATGCCCATTTTTGGCCAA
65444582 AAACTTAGAAATTGGGAAAATTGCTATTTAAGACCTTCTAATTTGTAATTCAAAGCAATTTATGC
66 AAACTTAGAAATTGGGAAAATTGCTATTTAAGACCTTCTAATTTGTAATTCAAAGCAATTTATGC
* * * *
65444647 AAATTTCTTCTAGAACCCAAGTTTTTCAATTTATTCAATTTGGTCCTCAATTTCCAATTGGACAC
131 AAATTACTTCTAGAACCCAAGTTTTGCAATTTATTCAATTTGGTCCTCAATTTCCAATCGAACAC
* *
65444712 CTTATCCTTATAATTTCTTCATGAAACTTTAACACATGCTTATTTTCACATCCTAAAACTCATAA
196 CTTATACTTATAATTTCTTCATGAAACATTAACACATGCTTATTTTCACATCCTAAAACTCATAA
*
65444777 TAATCATAAAACAAATATTTTAACATCGGATAGTGGTCCCAAAACCACTATTCTGACTAGGCCTT
261 TAATCATAAAACAAATATTTTAACATCGGATAGTGGTCCCAAAACCACTATTCTGACTAGGCCCT
*
65444842 ATTTCAGGATGTTACATTTCT-CCCCCTTTAGGAACTTTCGTCCTCGAAAATCTTACCAGTAAAC
326 ATTTCAAGATGTTACATTTCTCCCCCCTTTAGGAACTTTCGTCCTCGAAAATCTTACCAGTAAAC
*
65444906 AATGACCAAAATGCCCCTCCTTACAAAACTTTCAAATTTTTCTATGCATGCCCATTTTTGGCTAA
1 AATGACCAAAATGCCCCTCCTTACAAAACTTTCAAATTTTTCTATGCATGCCCATTTTTGGCCAA
65444971 AAACTTAGAAATTGGGAAAATTGCTATTTAAGACCTTCTAATTTGTAATTCAAAGCAATTTCATG
66 AAACTTAGAAATTGGGAAAATTGCTATTTAAGACCTTCTAATTTGTAATTCAAAGCAATTT-ATG
65445036 CAAATTACTTCTAGAACCCAAGTTTTGCAATTTATTCAATTTGGTCCTCAATTTCCAATCGAACA
130 CAAATTACTTCTAGAACCCAAGTTTTGCAATTTATTCAATTTGGTCCTCAATTTCCAATCGAACA
* * * *
65445101 CCTTGTACTTATAATTTCTTCATGAAACATTAACATATGCTTATTTTCATATCCTATAACTCATA
195 CCTTATACTTATAATTTCTTCATGAAACATTAACACATGCTTATTTTCACATCCTAAAACTCATA
65445166 ATAATCATAAAA-AAATATTTTAACATCGGATTAGTGGTCCCAAAACCACTATTCTGACTAGGCC
260 ATAATCATAAAACAAATATTTTAACATCGGA-TAGTGGTCCCAAAACCACTATTCTGACTAGGCC
* * *
65445230 CTATTTCAAGATGTTATATTTCTCCCCCCTTTAGGGACTTTCGTCCTCGAAAGTCTTACCAGTAA
324 CTATTTCAAGATGTTACATTTCTCCCCCCTTTAGGAACTTTCGTCCTCGAAAATCTTACCAGTAA
65445295 AC
389 AC
65445297 AA
1 AA
65445299 GTTTAGATAT
Statistics
Matches: 372, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
389 141 0.38
390 188 0.51
391 43 0.12
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (390 bp):
AATGACCAAAATGCCCCTCCTTACAAAACTTTCAAATTTTTCTATGCATGCCCATTTTTGGCCAA
AAACTTAGAAATTGGGAAAATTGCTATTTAAGACCTTCTAATTTGTAATTCAAAGCAATTTATGC
AAATTACTTCTAGAACCCAAGTTTTGCAATTTATTCAATTTGGTCCTCAATTTCCAATCGAACAC
CTTATACTTATAATTTCTTCATGAAACATTAACACATGCTTATTTTCACATCCTAAAACTCATAA
TAATCATAAAACAAATATTTTAACATCGGATAGTGGTCCCAAAACCACTATTCTGACTAGGCCCT
ATTTCAAGATGTTACATTTCTCCCCCCTTTAGGAACTTTCGTCCTCGAAAATCTTACCAGTAAAC
Found at i:65459022 original size:29 final size:29
Alignment explanation
Indices: 65458988--65459061 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
65458978 TAATCAACCG
*
65458988 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
65459017 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
65459046 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
65459062 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:65473960 original size:43 final size:42
Alignment explanation
Indices: 65473913--65474027 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
65473903 GACGCCACTA
* * *
65473913 TCCCAGACAGGGTCTTACACGA-AATCGATTAAT-GATGCCAATG
1 TCCCAGACATGGTCTTACA-GATAATC-A-CAATAAATGCCAATG
* *
65473956 TCCCAGACATGGTTTTACATATAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTACAGATAATCACAATA-AATGCCAATG
*
65473999 TCCCAGACATGGTCTTACATATAATCACA
1 TCCCAGACATGGTCTTACAGATAATCACA
65474028 TCTCGGTAAC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
41 3 0.05
42 2 0.03
43 58 0.92
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACAGATAATCACAATAAATGCCAATG
Found at i:65476705 original size:33 final size:33
Alignment explanation
Indices: 65476663--65476728 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
65476653 AAGAAGAAGC
65476663 ATTATTCTTATTCATAATATTACCTTTTACAGA
1 ATTATTCTTATTCATAATATTACCTTTTACAGA
*
65476696 ATTATTCTTATTCATAATATTAGCTTTTACAGA
1 ATTATTCTTATTCATAATATTACCTTTTACAGA
65476729 GATAGCGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (33 bp):
ATTATTCTTATTCATAATATTACCTTTTACAGA
Found at i:65476716 original size:15 final size:15
Alignment explanation
Indices: 65476665--65476716 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
65476655 GAAGAAGCAT
65476665 TATTCTTATTCATAA
1 TATTCTTATTCATAA
*
65476680 TATTACCTT-TTACAGAA
1 TATT--CTTATT-CATAA
65476697 TTATTCTTATTCATAA
1 -TATTCTTATTCATAA
65476713 TATT
1 TATT
65476717 AGCTTTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 8 0.27
16 9 0.30
17 9 0.30
18 4 0.13
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.52
Consensus pattern (15 bp):
TATTCTTATTCATAA
Found at i:65482959 original size:21 final size:22
Alignment explanation
Indices: 65482930--65482976 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
65482920 CAGAAGGAGT
*
65482930 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65482952 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65482973 GAGT
1 GAGT
65482977 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:65484300 original size:31 final size:31
Alignment explanation
Indices: 65484265--65484338 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
65484255 TATGTCTTCA
* *
65484265 AATGTATATAATTGAATCAAAATTAAAATTT
1 AATGTATATAATTGAACCAAAATCAAAATTT
* * *
65484296 AATGTATATATTTGAACCACAATCAAAGTTT
1 AATGTATATAATTGAACCAAAATCAAAATTT
* *
65484327 TATGTGTATAAT
1 AATGTATATAAT
65484339 CGCACTAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (31 bp):
AATGTATATAATTGAACCAAAATCAAAATTT
Found at i:65489988 original size:16 final size:14
Alignment explanation
Indices: 65489958--65489986 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
65489948 ATAAAACTAA
65489958 AGTTAAAAAATTAT
1 AGTTAAAAAATTAT
65489972 AGTTAAAAAATTAT
1 AGTTAAAAAATTAT
65489986 A
1 A
65489987 TATATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AGTTAAAAAATTAT
Found at i:65498284 original size:30 final size:30
Alignment explanation
Indices: 65498250--65498309 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
65498240 ACTTAACAAG
*
65498250 AAAATACCTCTAAAATAATAATAAAATTAA
1 AAAATACCTCTAAAATAATAACAAAATTAA
* *
65498280 AAAATACGTTTAAAATAATAACAAAATTAA
1 AAAATACCTCTAAAATAATAACAAAATTAA
65498310 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (30 bp):
AAAATACCTCTAAAATAATAACAAAATTAA
Found at i:65499534 original size:20 final size:20
Alignment explanation
Indices: 65499506--65499543 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65499496 CTAGGAATTA
65499506 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
65499526 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
65499544 TATATGTGAC
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:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:65510827 original size:46 final size:44
Alignment explanation
Indices: 65510725--65510832 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
65510715 TGTCTTTGAC
** * * *
65510725 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
65510769 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGTCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
65510815 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
65510833 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:65521425 original size:28 final size:28
Alignment explanation
Indices: 65521393--65521454 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
65521383 CGTTCTTTGC
*
65521393 ATCCCATCAAACTTACCTCGTGTTTACT
1 ATCCCAACAAACTTACCTCGTGTTTACT
* *
65521421 GTCCCAACAGACTTACCTCGTGTTTACT
1 ATCCCAACAAACTTACCTCGTGTTTACT
65521449 ATCCCA
1 ATCCCA
65521455 GTGGATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.32
Consensus pattern (28 bp):
ATCCCAACAAACTTACCTCGTGTTTACT
Found at i:65521720 original size:63 final size:64
Alignment explanation
Indices: 65521536--65521720 Score: 171
Period size: 64 Copynumber: 2.9 Consensus size: 64
65521526 ATCTCTTTAT
** * * *
65521536 TGTGTTTACCGTCCCAACAGACTATCTATTCTATGTTTATTGTCCTAGC-AAACTTTCTTTGTTC
1 TGTGTTTACTATCCCAATAGACTATCTATTCTGTGTTTATTGTCCTAGCGGAA-TTTCTTTGTTC
* * * * ** * *
65521600 TGTGTTTATTGTCCCAATGGACTATCTATTATGTGTTTATTGT-CTCAATGGACTTTCTTTGTTT
1 TGTGTTTACTATCCCAATAGACTATCTATTCTGTGTTTATTGTCCT-AGCGGAATTTCTTTGTTC
* * *
65521664 TTTG-TTACTATCCCAGTAGATTATCTATTCTGTGTTTACTT-TCCTAGCGGAATTTCT
1 TGTGTTTACTATCCCAATAGACTATCTATTCTGTGTTTA-TTGTCCTAGCGGAATTTCT
65521721 CTGTAGATGT
Statistics
Matches: 96, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
63 40 0.42
64 55 0.57
65 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (64 bp):
TGTGTTTACTATCCCAATAGACTATCTATTCTGTGTTTATTGTCCTAGCGGAATTTCTTTGTTC
Found at i:65523130 original size:20 final size:19
Alignment explanation
Indices: 65523094--65523143 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
65523084 AAGGGCTATT
65523094 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTAAAATAA
*
65523113 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTAAAATAA
*
65523133 TTGAAAATGTG
1 TTGTAAATGTG
65523144 AGTTGCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 16 0.59
21 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGTAAATGTGTAAAATAA
Found at i:65528998 original size:24 final size:23
Alignment explanation
Indices: 65528891--65528998 Score: 85
Period size: 25 Copynumber: 4.4 Consensus size: 23
65528881 TATGAGCTCT
*
65528891 AAATCAGTATGCTCTTACGAGCTG
1 AAATCAGTAAGCTC-TACGAGCTG
*
65528915 TAATC-GATAAGCTCATACGAGCTG
1 AAATCAG-TAAGCTC-TACGAGCTG
*
65528939 AGTAA-CAGTAAGCTAATACGAGCTG
1 A--AATCAGTAAGCT-CTACGAGCTG
*
65528964 AAAATTAGTAAGCTCTCACGAGCTG
1 -AAATCAGTAAGCTCT-ACGAGCTG
*
65528989 AAATCGGTAA
1 AAATCAGTAA
65528999 CCCTAATGAC
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
23 1 0.01
24 30 0.45
25 32 0.48
26 4 0.06
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (23 bp):
AAATCAGTAAGCTCTACGAGCTG
Found at i:65530576 original size:13 final size:13
Alignment explanation
Indices: 65530558--65530582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65530548 AGAAGAAGAA
65530558 AAAGAAAGGAAAG
1 AAAGAAAGGAAAG
65530571 AAAGAAAGGAAA
1 AAAGAAAGGAAA
65530583 AAGGGGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAAGAAAGGAAAG
Found at i:65548759 original size:12 final size:12
Alignment explanation
Indices: 65548742--65548766 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65548732 AGGGGACTGC
65548742 TTTTTTTTCTCT
1 TTTTTTTTCTCT
65548754 TTTTTTTTCTCT
1 TTTTTTTTCTCT
65548766 T
1 T
65548767 CGGGGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTCTCT
Found at i:65551714 original size:19 final size:20
Alignment explanation
Indices: 65551674--65551717 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
65551664 GTTTCTTTTG
* *
65551674 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
65551693 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
65551712 GCATTA
1 GCATTA
65551718 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:65556002 original size:86 final size:85
Alignment explanation
Indices: 65555840--65556016 Score: 257
Period size: 86 Copynumber: 2.1 Consensus size: 85
65555830 AGTAAAAATT
*
65555840 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAG-TATCAGATCTTGCCTTCCT
65555905 GCATTGACAGCGAAGCAGATC
65 GCATTGACAGCGAAGCAGATC
* * *
65555926 GAAGACAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAG-ATGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTAT-CAGATCTTGCCTTCCT
* *
65555990 GTATTTGGCAGCGAAGCAGATC
65 GCA-TTGACAGCGAAGCAGATC
*
65556012 AAAGA
1 GAAGA
65556017 TGGCAGATTT
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
84 2 0.02
85 18 0.22
86 62 0.76
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (85 bp):
GAAGACAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTATCAGATCTTGCCTTCCTG
CATTGACAGCGAAGCAGATC
Found at i:65556212 original size:134 final size:134
Alignment explanation
Indices: 65555965--65556373 Score: 784
Period size: 134 Copynumber: 3.1 Consensus size: 134
65555955 GTAGAGCTGG
*
65555965 TTGAAGA-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTAGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
65556029 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
65556094 TAGA
131 TAGA
*
65556098 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTCGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTAGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
65556163 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
65556228 TAGA
131 TAGA
*
65556232 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTAGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTAGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
65556297 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
65556362 TAGA
131 TAGA
65556366 TTGAAGAT
1 TTGAAGAT
65556374 CAAAGATGGC
Statistics
Matches: 272, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
133 7 0.03
134 265 0.97
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTAGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:65556360 original size:45 final size:45
Alignment explanation
Indices: 65556309--65556561 Score: 140
Period size: 45 Copynumber: 5.4 Consensus size: 45
65556299 TCCCTGACCA
*
65556309 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* * * * * ***
65556354 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A--CCA
1 CAGTGGAATACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGTATTTGG
*
65556404 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* * * * * * *
65556449 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAATACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGTATTTGG
* *
65556499 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTCGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
*
65556544 CAGTGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
65556562 ATTGCAGATC
Statistics
Matches: 149, Mismatches: 37, Indels: 44
0.65 0.16 0.19
Matches are distributed among these distances:
42 22 0.15
43 4 0.03
45 48 0.32
46 6 0.04
47 2 0.01
48 2 0.01
49 6 0.04
50 32 0.21
51 1 0.01
52 4 0.03
53 22 0.15
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (45 bp):
CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
Found at i:65556385 original size:95 final size:95
Alignment explanation
Indices: 65556275--65556563 Score: 551
Period size: 95 Copynumber: 3.0 Consensus size: 95
65556265 GCAGCGAAGC
*
65556275 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
65556340 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
65556370 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
65556435 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
*
65556465 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
65556530 CTCCCTGTATTCGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
65556560 AGAT
1 AGAT
65556564 TGCAGATCTT
Statistics
Matches: 191, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 191 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:65556419 original size:50 final size:50
Alignment explanation
Indices: 65556354--65556516 Score: 135
Period size: 50 Copynumber: 3.4 Consensus size: 50
65556344 CTGTATTTGG
*
65556354 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACCA
1 CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACCA
* * * * * ***
65556404 CAGTGGAGTACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A--CCA
* *
65556449 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTA
1 CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACCA
*
65556499 CAGTGGAGTACATTGAAG
1 CAGTGGAATACATTGAAG
65556517 CCGATAACTC
Statistics
Matches: 82, Mismatches: 20, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
42 11 0.13
43 2 0.02
45 16 0.20
46 3 0.04
47 1 0.01
48 1 0.01
49 3 0.04
50 32 0.39
52 2 0.02
53 11 0.13
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (50 bp):
CAGTGGAATACATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACCA
Found at i:65557297 original size:309 final size:308
Alignment explanation
Indices: 65556677--65557369 Score: 1181
Period size: 309 Copynumber: 2.2 Consensus size: 308
65556667 CCCGGGGCAA
* * * * * * * * * *
65556677 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATGGATCGAAG-ATGCAG
1 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGGAAGTAGATCGCAGAAAGCAG
65556741 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
65556806 CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
130 CGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
*
65556871 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
195 AGATCTTGTCTTCCCATATTGGTGGCGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
*
65556936 GGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG
260 GGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG
*
65556985 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGCAGAAAACAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG-GAAGTAGATCGCAGAAAGCAG
65557050 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
*
65557115 CGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
130 CGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGC
*
65557180 AGATCTTGTCTTCCCATATTGGTGGCGAAATAGATCGCAGAAAGCAGATCTTGTCTTCATGTATT
195 AGATCTTGTCTTCCCATATTGGTGGCGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
*
65557245 GGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG
260 GGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG
* *
65557294 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGCAGAAAGTAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG-GAAGTAGATCGCAGAAAGCAG
65557359 ATCTTGTCTTC
65 ATCTTGTCTTC
65557370 ATGTATTGGC
Statistics
Matches: 362, Mismatches: 21, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
307 22 0.06
308 26 0.07
309 314 0.87
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (308 bp):
GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGGAAGTAGATCGCAGAAAGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
GTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCA
GATCTTGTCTTCCCATATTGGTGGCGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG
GCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAG
Found at i:65557349 original size:132 final size:133
Alignment explanation
Indices: 65556678--65557493 Score: 825
Period size: 132 Copynumber: 6.2 Consensus size: 133
65556668 CCGGGGCAAG
* * * * * * * * *
65556678 AAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-GAAATGGATCGAAGATGCAGA
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATGCAGA
* * *** *
65556742 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
65 TCCTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGT
65556807 GTG--
130 G-GCA
* * * * * * * *
65556810 AAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGA
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATGCAGA
* * *** *
65556874 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
65 TCCTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGT
65556939 GTG--
130 G-GCA
* * * * * * * *
65556942 AAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGA
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATGCAGA
* * * * *
65557006 TCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGCAGAAAACAGATCTTGTCTTCCCATATTGGT
65 TCCTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGT
*
65557071 GGCG
130 GGCA
*
65557075 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGA
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT-GCAGA
* * * *
65557140 TCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGT
65 TCCTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGT
65557203 GGCGA
130 GGC-A
* *
65557208 AA-TAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGA
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT-GCAGA
* * * *
65557272 TCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGT
65 TCCTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGT
65557335 GGCA
130 GGCA
* * * *
65557339 AAGTAGATCGCAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACA-A
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT-GCAGA
* * * * * * * * *
65557403 GTCCTATCTTCCTATAATGATTG-GAAGTGGATCGACG-ACGCAGATCCTGTCTTCCCATACTGG
65 -TCCTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGG
*
65557466 TGGTA
129 TGGCA
65557471 AAGTAGATCGAAGAAAGCAGATC
1 AAGTAGATCGAAGAAAGCAGATC
65557494 GACGATGGCG
Statistics
Matches: 634, Mismatches: 43, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
131 5 0.01
132 544 0.86
133 62 0.10
134 23 0.04
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (133 bp):
AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGAT
CCTATCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTG
GCA
Found at i:65561397 original size:48 final size:48
Alignment explanation
Indices: 65561331--65561422 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
65561321 AGTGTCGCCA
* * *
65561331 GACTGTGACTATTTCGGATTCGTTCCGATGAGGTACTTTGTGTATTGT
1 GACTATGACTATTCCGGATTCATTCCGATGAGGTACTTTGTGTATTGT
*
65561379 GACTATGACTGTTCCGGATTCATTCCGATGAGGTACTTTGTGTA
1 GACTATGACTATTCCGGATTCATTCCGATGAGGTACTTTGTGTA
65561423 CCATGACTGA
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:0.18, C:0.16, G:0.26, T:0.39
Consensus pattern (48 bp):
GACTATGACTATTCCGGATTCATTCCGATGAGGTACTTTGTGTATTGT
Found at i:65561430 original size:48 final size:48
Alignment explanation
Indices: 65561331--65561439 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 48
65561321 AGTGTCGCCA
* * * * ***
65561331 GACTGTGACTATTTCGGATTCGTTCCGATGAGGTACTTTGTGTATTGT
1 GACTATGACTGTTCCGGATTCATTCCGATGAGGTACTTTGTGTACCAT
65561379 GACTATGACTGTTCCGGATTCATTCCGATGAGGTACTTTGTGTACCAT
1 GACTATGACTGTTCCGGATTCATTCCGATGAGGTACTTTGTGTACCAT
65561427 GACTGA-GACTGTT
1 GACT-ATGACTGTT
65561440 ACCATTACGA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 52 0.98
49 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (48 bp):
GACTATGACTGTTCCGGATTCATTCCGATGAGGTACTTTGTGTACCAT
Found at i:65562394 original size:30 final size:30
Alignment explanation
Indices: 65562360--65562420 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65562350 TTCCCGAGCC
65562360 TAGGGGAAAAAGTGTAAATATTCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATTCAAAAGTT
* * * * *
65562390 TAGGGGTAAAATTGTAATTTTTCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATTCAAAAGTT
65562420 T
1 T
65562421 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATTCAAAAGTT
Found at i:65570198 original size:36 final size:35
Alignment explanation
Indices: 65570141--65570212 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
65570131 GAATCAAGCT
* *
65570141 CCGCATCCATAAATCAAGGAGTTTCACCTCTTTCC
1 CCGCATCCACAAACCAAGGAGTTTCACCTCTTTCC
*
65570176 CNCGCATCCACAAACCAGGGAGTTTCACCTCTTTCC
1 C-CGCATCCACAAACCAAGGAGTTTCACCTCTTTCC
65570212 C
1 C
65570213 TCTTATGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 1 0.03
36 32 0.97
ACGTcount: A:0.24, C:0.38, G:0.12, T:0.25
Consensus pattern (35 bp):
CCGCATCCACAAACCAAGGAGTTTCACCTCTTTCC
Found at i:65572830 original size:13 final size:13
Alignment explanation
Indices: 65572812--65572840 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
65572802 TTTAGTTTAA
65572812 TTAGTTAATTAGT
1 TTAGTTAATTAGT
65572825 TTAGTTAATTAGT
1 TTAGTTAATTAGT
65572838 TTA
1 TTA
65572841 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:65577909 original size:18 final size:18
Alignment explanation
Indices: 65577882--65577916 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65577872 AGTCTATAAG
*
65577882 GAATGTGTGAATAGTAAA
1 GAATGCGTGAATAGTAAA
65577900 GAATGCGTGAATAGTAA
1 GAATGCGTGAATAGTAA
65577917 GAAGTAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.29, T:0.26
Consensus pattern (18 bp):
GAATGCGTGAATAGTAAA
Found at i:65580544 original size:39 final size:40
Alignment explanation
Indices: 65580405--65580550 Score: 240
Period size: 40 Copynumber: 3.7 Consensus size: 40
65580395 TATTCAGAAG
* *
65580405 ATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTTACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
65580445 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
*
65580485 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* *
65580525 ATCC-GGCTAAATCCCGAAGGTATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
65580551 GGTTTGGAAA
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 20 0.20
40 81 0.80
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:65583879 original size:40 final size:40
Alignment explanation
Indices: 65583835--65584096 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
65583825 GCTCCTCGTT
* *
65583835 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
65583875 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
65583915 CAAATGCCTTCGGG-CTTAACCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
65583954 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
65583993 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
65584032 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
65584073 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65584097 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:65592052 original size:21 final size:23
Alignment explanation
Indices: 65591980--65592086 Score: 103
Period size: 25 Copynumber: 4.6 Consensus size: 23
65591970 GTACATGTAT
*
65591980 GCTCATACGAGCTTTGAATCGGTAT
1 GCTCATACGAGC-TT-AATCGGTAA
* *
65592005 GCTCTTACGAGCTGTAATCGATAA
1 GCTCATACGAGCT-TAATCGGTAA
65592029 GCTCATACGAGC-TAA-CGGTAA
1 GCTCATACGAGCTTAATCGGTAA
* *
65592050 GCTCATACGAGCTAAATATCGATAA
1 GCTCATACGAGCT-TA-ATCGGTAA
65592075 GCTCATAC-AGCT
1 GCTCATACGAGCT
65592087 GAATATCGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
21 17 0.24
22 3 0.04
23 1 0.01
24 24 0.34
25 25 0.36
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (23 bp):
GCTCATACGAGCTTAATCGGTAA
Found at i:65592062 original size:45 final size:48
Alignment explanation
Indices: 65591980--65592090 Score: 140
Period size: 45 Copynumber: 2.4 Consensus size: 48
65591970 GTACATGTAT
* * **
65591980 GCTCATACGAGCTTTGAATCGGTATGCTCTTACGAGCTGTA-ATCGATAA
1 GCTCATACGAGC--TGAATCGGTAAGCTCATACGAGCTAAATATCGATAA
65592029 GCTCATACGAGCT-AA-CGGTAAGCTCATACGAGCTAAATATCGATAA
1 GCTCATACGAGCTGAATCGGTAAGCTCATACGAGCTAAATATCGATAA
65592075 GCTCATAC-AGCTGAAT
1 GCTCATACGAGCTGAAT
65592091 ATCGATAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
45 22 0.40
46 20 0.36
47 1 0.02
49 12 0.22
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (48 bp):
GCTCATACGAGCTGAATCGGTAAGCTCATACGAGCTAAATATCGATAA
Found at i:65592119 original size:25 final size:24
Alignment explanation
Indices: 65591980--65592119 Score: 128
Period size: 24 Copynumber: 5.8 Consensus size: 24
65591970 GTACATGTAT
* *
65591980 GCTCATACGAGCTTTG-AATCGGTAT
1 GCTCATACGAGC--TGAAATCGATAA
* *
65592005 GCTCTTACGAGCTGTAATCGATAA
1 GCTCATACGAGCTGAAATCGATAA
*
65592029 GCTCATACGAGCT--AA-CGGTAA
1 GCTCATACGAGCTGAAATCGATAA
*
65592050 GCTCATACGAGCTAAATATCGATAA
1 GCTCATACGAGCTGAA-ATCGATAA
65592075 GCTCATAC-AGCTGAATATCGATAA
1 GCTCATACGAGCTGAA-ATCGATAA
* *
65592099 GCTCTTTCGAGCTGAGAATCG
1 GCTCATACGAGCTGA-AATCG
65592120 GTAACCCTAA
Statistics
Matches: 99, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
21 18 0.18
22 2 0.02
23 3 0.03
24 41 0.41
25 34 0.34
26 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (24 bp):
GCTCATACGAGCTGAAATCGATAA
Found at i:65594709 original size:12 final size:12
Alignment explanation
Indices: 65594692--65594718 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
65594682 TAAATGAAAG
65594692 AATTTAATCATT
1 AATTTAATCATT
65594704 AATTTAATCATT
1 AATTTAATCATT
65594716 AAT
1 AAT
65594719 ATCTACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTTAATCATT
Found at i:65595787 original size:215 final size:215
Alignment explanation
Indices: 65595416--65595847 Score: 837
Period size: 215 Copynumber: 2.0 Consensus size: 215
65595406 CAACACAATG
*
65595416 GTAATTCGAAAGATTGGAACACTATTTCTATTTACTGAAAGCATGTGATTATTGAGGACATGCTG
1 GTAATTCGAAAGATTGGAACACTATTTCTATTTACTGAAAGCATGTGATTATTGAGGACATGCTA
65595481 AGCATGTCAAATGAATGTGAAAAGTATTGAGATATGATTATGTATGAGATTGTGTGACATATTGC
66 AGCATGTCAAATGAATGTGAAAAGTATTGAGATATGATTATGTATGAGATTGTGTGACATATTGC
* *
65595546 ATATGCATGGGGTTGGGATTTTGTGGTTGACAGAGGAGTTCCGTGGAGTACCGGTGGCATTTTAA
131 ATATGCATGGGGTTCGGATTTTGTGGTTGACAGAGGAGTTCCGTGGAGTACCGGTGGCATATTAA
65595611 GTCCGCATTATTCATAGTCA
196 GTCCGCATTATTCATAGTCA
65595631 GTAATTCGAAAGATTGGAACACTATTTCTATTTACTGAAAGCATGTGATTATTGAGGACATGCTA
1 GTAATTCGAAAGATTGGAACACTATTTCTATTTACTGAAAGCATGTGATTATTGAGGACATGCTA
65595696 AGCATGTCAAATGAATGTGAAAAGTATTGAGATATGATTATGTATGAGATTGTGTGACATATTGC
66 AGCATGTCAAATGAATGTGAAAAGTATTGAGATATGATTATGTATGAGATTGTGTGACATATTGC
65595761 ATATGCATGGGGTTCGGATTTTGTGGTTGACAGAGGAGTTCCGTGGAGTACCGGTGGCATATTAA
131 ATATGCATGGGGTTCGGATTTTGTGGTTGACAGAGGAGTTCCGTGGAGTACCGGTGGCATATTAA
65595826 GTCCGCATTATTCATAGTCA
196 GTCCGCATTATTCATAGTCA
65595846 GT
1 GT
65595848 GAACTACACT
Statistics
Matches: 214, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
215 214 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.33
Consensus pattern (215 bp):
GTAATTCGAAAGATTGGAACACTATTTCTATTTACTGAAAGCATGTGATTATTGAGGACATGCTA
AGCATGTCAAATGAATGTGAAAAGTATTGAGATATGATTATGTATGAGATTGTGTGACATATTGC
ATATGCATGGGGTTCGGATTTTGTGGTTGACAGAGGAGTTCCGTGGAGTACCGGTGGCATATTAA
GTCCGCATTATTCATAGTCA
Found at i:65596435 original size:35 final size:35
Alignment explanation
Indices: 65596367--65596438 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
65596357 GTTTAACTTT
* *
65596367 TTAGGTAAACCTCAAAGTTAGGACTGGACTCGGCA
1 TTAGGTAAACCTCAAAATTAGAACTGGACTCGGCA
*
65596402 TTAGGTAAACCTCAAAATTAGAA-TCGGATTCGGCA
1 TTAGGTAAACCTCAAAATTAGAACT-GGACTCGGCA
65596437 TT
1 TT
65596439 CGGAGAATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (35 bp):
TTAGGTAAACCTCAAAATTAGAACTGGACTCGGCA
Found at i:65598293 original size:15 final size:16
Alignment explanation
Indices: 65598273--65598304 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
65598263 ACTTAAGGTT
65598273 AAGATTAATTA-ATTA
1 AAGATTAATTAGATTA
65598288 AAGATTAATTAGATTA
1 AAGATTAATTAGATTA
65598304 A
1 A
65598305 TTAAGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (16 bp):
AAGATTAATTAGATTA
Found at i:65598296 original size:11 final size:11
Alignment explanation
Indices: 65598280--65598316 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
65598270 GTTAAGATTA
65598280 ATTAATTAAAG
1 ATTAATTAAAG
65598291 ATTAATT--AG
1 ATTAATTAAAG
*
65598300 ATTAATTAAGG
1 ATTAATTAAAG
65598311 ATTAAT
1 ATTAAT
65598317 GAATTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (11 bp):
ATTAATTAAAG
Found at i:65598303 original size:20 final size:19
Alignment explanation
Indices: 65598276--65598334 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
65598266 TAAGGTTAAG
65598276 ATTAATTAATTAAAGATTA
1 ATTAATTAATTAAAGATTA
*
65598295 ATTAGATTAATTAAGGATTA
1 ATTA-ATTAATTAAAGATTA
* * *
65598315 ATGAATTATTTAAAGTTTA
1 ATTAATTAATTAAAGATTA
65598334 A
1 A
65598335 ATAACTTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (19 bp):
ATTAATTAATTAAAGATTA
Found at i:65598953 original size:19 final size:19
Alignment explanation
Indices: 65598917--65598955 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
65598907 TTTTCATCAT
* *
65598917 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
65598936 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
65598955 A
1 A
65598956 AAATAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:65599506 original size:28 final size:26
Alignment explanation
Indices: 65599437--65599510 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
65599427 ATATAGATAT
*
65599437 TTTGTGGCAGTGCCACTAGAACAAATA
1 TTTGTGGCA-TGCCACCAGAACAAATA
** *
65599464 TACGTGGCAGGGCCACCAGAACAAATAA
1 TTTGTGGCA-TGCCACCAGAACAAAT-A
65599492 TTTGTGGCATAGCCACCAG
1 TTTGTGGCAT-GCCACCAG
65599511 GATGCTTCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (26 bp):
TTTGTGGCATGCCACCAGAACAAATA
Found at i:65599663 original size:28 final size:28
Alignment explanation
Indices: 65599616--65599680 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
65599606 AAATTAACCC
*
65599616 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
65599644 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
65599672 TAGGGGTAT
1 TAGGGGTAT
65599681 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:65606834 original size:19 final size:19
Alignment explanation
Indices: 65606798--65606836 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
65606788 TTTTCATCAT
* *
65606798 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
65606817 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
65606836 A
1 A
65606837 AAATAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:65607359 original size:27 final size:28
Alignment explanation
Indices: 65607302--65607371 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
65607292 GTGACAGAGT
** * *
65607302 CACCAGATACAGATATTTTGTGGCTGTGC
1 CACCAGA-ACAGATATTACGTGGCAGGGC
65607331 CACCAGAACAGATA-TACGTGGCAGGGC
1 CACCAGAACAGATATTACGTGGCAGGGC
65607358 CACCAGAACAGATA
1 CACCAGAACAGATA
65607372 ATTTGTGGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 23 0.62
28 7 0.19
29 7 0.19
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGGCAGGGC
Found at i:65607388 original size:28 final size:28
Alignment explanation
Indices: 65607302--65607391 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
65607292 GTGACAGAGT
* *
65607302 CACCAGATACAGATATTTTGTGGC-TGTGC
1 CACCAGA-ACAGATAATTTGTGGCAT-AGC
** **
65607331 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCATAGC
65607358 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
65607386 CACCAG
1 CACCAG
65607392 GATGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 21 0.42
28 22 0.44
29 7 0.14
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:65607544 original size:28 final size:28
Alignment explanation
Indices: 65607497--65607561 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
65607487 AAATTAACCC
*
65607497 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
65607525 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
65607553 TAGGGGTAT
1 TAGGGGTAT
65607562 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:65610280 original size:28 final size:29
Alignment explanation
Indices: 65610208--65610284 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
65610198 ACTGATTATG
* *
65610208 ATGTCATCTTGTGTGAGAAAATTCATAAA
1 ATGTCAACTTGTGTGAGCAAATTCATAAA
*
65610237 ATTGT-AGCTTGTGTGAGCAAATTCAT-AA
1 A-TGTCAACTTGTGTGAGCAAATTCATAAA
*
65610265 ATGTCAACTTGCGTGAGCAA
1 ATGTCAACTTGTGTGAGCAA
65610285 CCCTGATCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 3 0.07
28 16 0.38
29 20 0.48
30 3 0.07
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (29 bp):
ATGTCAACTTGTGTGAGCAAATTCATAAA
Found at i:65611317 original size:51 final size:51
Alignment explanation
Indices: 65611238--65611341 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
65611228 CCTTGAATGT
65611238 TTGAAAAAATTTGCAAATTAAATATTGATTGATTTAATGATACTATCAGGC
1 TTGAAAAAATTTGCAAATTAAATATTGATTGATTTAATGATACTATCAGGC
* * * * * *
65611289 TTGAAAAACTTTGCAGATTAACTCTTGATTGATTTAATGGTAGTATCAGGC
1 TTGAAAAAATTTGCAAATTAAATATTGATTGATTTAATGATACTATCAGGC
65611340 TT
1 TT
65611342 TCGTAAGCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (51 bp):
TTGAAAAAATTTGCAAATTAAATATTGATTGATTTAATGATACTATCAGGC
Found at i:65618166 original size:71 final size:71
Alignment explanation
Indices: 65618046--65618190 Score: 272
Period size: 71 Copynumber: 2.0 Consensus size: 71
65618036 TTCCATACAC
65618046 TTAGTGCCATCCCAATTACCCGAAACCAAGTTGGTATCACACACGTAGTGCCTCAAGTAGCCGAA
1 TTAGTGCCATCCCAATTACCCGAAACCAAGTTGGTATCACACACGTAGTGCCTCAAGTAGCCGAA
65618111 GCTAGT
66 GCTAGT
* *
65618117 TTAGTGCCATCTCAATTACCCGAAACCAAGTTGGTATCACACACTTAGTGCCTCAAGTAGCCGAA
1 TTAGTGCCATCCCAATTACCCGAAACCAAGTTGGTATCACACACGTAGTGCCTCAAGTAGCCGAA
65618182 GCTAGT
66 GCTAGT
65618188 TTA
1 TTA
65618191 AATCGCACAC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (71 bp):
TTAGTGCCATCCCAATTACCCGAAACCAAGTTGGTATCACACACGTAGTGCCTCAAGTAGCCGAA
GCTAGT
Found at i:65628350 original size:41 final size:40
Alignment explanation
Indices: 65628296--65628377 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
65628286 TTAGAGCCAT
* *
65628296 CTCAATTACCCGAAACCAAGTCGATATCGCACACTTAGTGC
1 CTCAAATACCCG-AACCAAGTCGAAATCGCACACTTAGTGC
* * * **
65628337 CTCAAATAGCCGAAGCTAGTTTAAATCGCACACTTAGTGC
1 CTCAAATACCCGAACCAAGTCGAAATCGCACACTTAGTGC
65628377 C
1 C
65628378 AAATACTTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 24 0.71
41 10 0.29
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (40 bp):
CTCAAATACCCGAACCAAGTCGAAATCGCACACTTAGTGC
Found at i:65639032 original size:49 final size:50
Alignment explanation
Indices: 65638967--65639095 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
65638957 TCAAGTTGAT
*
65638967 GCCATGTCCCAGACATGGTCCTACACTGACTATCGA-A-AT-CGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATC-ACATATCCG-GGCCGAC
* * * * * *
65639016 GCCATGTCCCAAACATGGTCTTACACTAACTCTCACATTTCCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCACATATCCGGGCCGAC
65639066 GCCATGTCCCAGACATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
65639096 ACATCTCATA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 1 0.01
49 31 0.46
50 34 0.50
51 2 0.03
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCACATATCCGGGCCGAC
Found at i:65641923 original size:42 final size:42
Alignment explanation
Indices: 65641864--65641947 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
65641854 TTAGTCTCTC
65641864 AACTATGAAATGTTGCAAAATAGTTATTCAACTATTTAATTT
1 AACTATGAAATGTTGCAAAATAGTTATTCAACTATTTAATTT
65641906 AACTATGAAATGTTGCAAAATAGTTATTCAACTATTTAATTT
1 AACTATGAAATGTTGCAAAATAGTTATTCAACTATTTAATTT
65641948 TATCTTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (42 bp):
AACTATGAAATGTTGCAAAATAGTTATTCAACTATTTAATTT
Found at i:65647431 original size:18 final size:18
Alignment explanation
Indices: 65647408--65647450 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
65647398 TTGTTTATAA
65647408 TTTTTTAAATTTTTAAAT
1 TTTTTTAAATTTTTAAAT
** *
65647426 TTTTTTTTATTTTTATAT
1 TTTTTTAAATTTTTAAAT
*
65647444 CTTTTTA
1 TTTTTTA
65647451 TTTTTTCTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTAAATTTTTAAAT
Found at i:65651481 original size:28 final size:28
Alignment explanation
Indices: 65651417--65651542 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
65651407 ATATTAAGTC
* *
65651417 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
65651444 TGCACGCTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65651472 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
65651500 CGCACACTTAGTGCTACATAAACAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
65651528 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65651543 GTACAATTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
27 20 0.22
28 71 0.78
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:65653212 original size:27 final size:26
Alignment explanation
Indices: 65653137--65653242 Score: 113
Period size: 27 Copynumber: 4.0 Consensus size: 26
65653127 AAGCGTGCTA
* **
65653137 GTGGCTATGCCACAATTATCTAATCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
*
65653164 GTGGCTCTACCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
*
65653191 GTGGCTCTGCCACAATTATCTGTTTTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
* * *
65653218 GTGACCCTGTCACATTATCTGTTCT
1 GTGGCTCTGCCACATTATCTGTTCT
65653243 AGCAGCCATG
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 13 0.19
27 52 0.78
28 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:65653220 original size:54 final size:53
Alignment explanation
Indices: 65653137--65653242 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 53
65653127 AAGCGTGCTA
* *
65653137 GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTACCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTAATCTGGTGACCCTACCACAT-TATCTGTTCTG
* ** * **
65653191 GTGGCTCTGCCACAATTATCTGTTTTGGTGACCCTGTCACATTATCTGTTCT
1 GTGGCTATGCCACAATTATCTAATCTGGTGACCCTACCACATTATCTGTTCT
65653243 AGCAGCCATG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 10 0.23
54 34 0.77
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (53 bp):
GTGGCTATGCCACAATTATCTAATCTGGTGACCCTACCACATTATCTGTTCTG
Found at i:65666917 original size:24 final size:23
Alignment explanation
Indices: 65666882--65666966 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 23
65666872 AATATATCAA
65666882 CTCGTAAGAGCTTACTGTTCTCAG
1 CTCGTAAGAGCTTACTGTT-TCAG
65666906 CTCGTATA-AGCTTACTGTTT-AG
1 CTCGTA-AGAGCTTACTGTTTCAG
* *
65666928 CTCTTCAA-AGCTTACTGTTTTAG
1 CTCGT-AAGAGCTTACTGTTTCAG
*
65666951 CTC-AATAGAGCTTACT
1 CTCGTA-AGAGCTTACT
65666967 ATTCATCAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.02
22 20 0.37
23 15 0.28
24 17 0.31
25 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (23 bp):
CTCGTAAGAGCTTACTGTTTCAG
Found at i:65666938 original size:22 final size:22
Alignment explanation
Indices: 65666882--65666966 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 22
65666872 AATATATCAA
65666882 CTCGTA-AGAGCTTACTGTTCTCAG
1 CTCGTATA-AGCTTACTGTT-T-AG
65666906 CTCGTATAAGCTTACTGTTTAG
1 CTCGTATAAGCTTACTGTTTAG
*
65666928 CTCTTCA-AAGCTTACTGTTTTAG
1 CTCGT-ATAAGCTTACTG-TTTAG
*
65666951 CTC-AATAGAGCTTACT
1 CTCGTATA-AGCTTACT
65666967 ATTCATCAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.02
22 17 0.31
23 18 0.33
24 17 0.31
25 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (22 bp):
CTCGTATAAGCTTACTGTTTAG
Found at i:65681566 original size:24 final size:26
Alignment explanation
Indices: 65681503--65681572 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 26
65681493 AAACTCACCA
*
65681503 CAGCTCGTATGAGTTTACTGATATAT
1 CAGCTCGTATGAGCTTACTGATATAT
* * *
65681529 CAGAAT-GTAAGAGCTTACT-AT-TCT
1 CAG-CTCGTATGAGCTTACTGATATAT
65681553 CAGCTCGTATGAGCTTACTG
1 CAGCTCGTATGAGCTTACTG
65681573 TTCAGCTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
23 1 0.03
24 17 0.49
25 2 0.06
26 14 0.40
27 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (26 bp):
CAGCTCGTATGAGCTTACTGATATAT
Found at i:65681588 original size:22 final size:22
Alignment explanation
Indices: 65681563--65681621 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
65681553 CAGCTCGTAT
**
65681563 GAGCTTACTGTTCAGCT-TTTCA
1 GAGCTTACTGTTCAGCTCAAT-A
*
65681585 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACTG-TTCAGCTCAATA
65681608 GAGCTTACTGTTCA
1 GAGCTTACTGTTCA
65681622 TCAGCTCAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 13 0.42
23 17 0.55
24 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:65681610 original size:23 final size:24
Alignment explanation
Indices: 65681584--65681643 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
65681574 TCAGCTTTTC
*
65681584 AGAGCTTACCGTT-TCAGCTCAAT
1 AGAGCTTACCGTTATCAGCTCAAG
* *
65681607 AGAGCTTACTGTTCATCAGCTCAGG
1 AGAGCTTACCGTT-ATCAGCTCAAG
65681632 AGGAGCTTACCG
1 A-GAGCTTACCG
65681644 ATCATGACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 12 0.40
25 9 0.30
26 9 0.30
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (24 bp):
AGAGCTTACCGTTATCAGCTCAAG
Found at i:65684356 original size:23 final size:23
Alignment explanation
Indices: 65684328--65684378 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
65684318 ACTCCTAGGG
65684328 GTAAATCTGTAAATTGTCCACCT
1 GTAAATCTGTAAATTGTCCACCT
65684351 GTAAATCTGTAAATTGTCCACCT
1 GTAAATCTGTAAATTGTCCACCT
*
65684374 ATAAA
1 GTAAA
65684379 GGTATTTCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (23 bp):
GTAAATCTGTAAATTGTCCACCT
Found at i:65685456 original size:42 final size:42
Alignment explanation
Indices: 65685397--65685477 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
65685387 AAGGAAGTGG
*
65685397 TGTAGTGAAGAATGGTAGAAGGATTCGGCTATGGAGAAAAGA
1 TGTAGGGAAGAATGGTAGAAGGATTCGGCTATGGAGAAAAGA
*
65685439 TGTAGGGAAGAGTGGTAGAAGGATTCGGCTATGGAGAAA
1 TGTAGGGAAGAATGGTAGAAGGATTCGGCTATGGAGAAA
65685478 TTAAGAGGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.21
Consensus pattern (42 bp):
TGTAGGGAAGAATGGTAGAAGGATTCGGCTATGGAGAAAAGA
Found at i:65688492 original size:23 final size:24
Alignment explanation
Indices: 65688465--65688511 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
65688455 ATTCCATGTT
65688465 CATATAGCAT-TATC-TCATATTTC
1 CATATAGCATGTATCATCAT-TTTC
*
65688488 CATATATCATGTATCATCATTTTC
1 CATATAGCATGTATCATCATTTTC
65688512 ATGTATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 8 0.38
25 4 0.19
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.45
Consensus pattern (24 bp):
CATATAGCATGTATCATCATTTTC
Found at i:65688879 original size:26 final size:25
Alignment explanation
Indices: 65688760--65688879 Score: 97
Period size: 26 Copynumber: 4.8 Consensus size: 25
65688750 ATCCGAGCAA
*
65688760 TAACAGGAAGCTCA-TAAGAG-CTT
1 TAACAGGAAGCTCACAAAGAGCCTT
* * *
65688783 AAATCAAGAAGCTCAAAAAGAGCCTT
1 TAA-CAGGAAGCTCACAAAGAGCCTT
* *
65688809 T--CAGGAAGCTCACAAAGAACTTT
1 TAACAGGAAGCTCACAAAGAGCCTT
*
65688832 TAATTAGGAAGCTCA-AGAAGAGCCTT
1 TAA-CAGGAAGCTCACA-AAGAGCCTT
*
65688858 TAAACAGGATGCTCACAAAGAG
1 T-AACAGGAAGCTCACAAAGAG
65688880 TGTAACACCC
Statistics
Matches: 75, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
23 21 0.28
24 10 0.13
25 6 0.08
26 35 0.47
27 3 0.04
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.19
Consensus pattern (25 bp):
TAACAGGAAGCTCACAAAGAGCCTT
Found at i:65689804 original size:25 final size:25
Alignment explanation
Indices: 65689776--65689845 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
65689766 CTCTTTTAAT
*
65689776 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
65689801 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
65689826 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
65689846 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:65689897 original size:16 final size:16
Alignment explanation
Indices: 65689876--65689906 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65689866 AACCCAACCC
*
65689876 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
65689892 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
65689907 CCCATATTTG
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:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:65690674 original size:27 final size:27
Alignment explanation
Indices: 65690643--65690719 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
65690633 TACGGAACAT
65690643 AAGGGCA-TATTCGTCATTTTACCATAC
1 AAGGGCATTA-TCGTCATTTTACCATAC
* * *
65690670 AAGGGTATTATGGTCATTTTACCTTAC
1 AAGGGCATTATCGTCATTTTACCATAC
* * *
65690697 AGGGGCTTTA-CGGTCTTTTTACC
1 AAGGGCATTATC-GTCATTTTACC
65690720 TATTAGGGGT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 38 0.95
28 2 0.05
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
AAGGGCATTATCGTCATTTTACCATAC
Found at i:65690720 original size:27 final size:27
Alignment explanation
Indices: 65690655--65690720 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
65690645 GGGCATATTC
* *
65690655 GTCATTTTACCATACAAGGGTATTATG
1 GTCATTTTACCTTACAAGGGTATTACG
*
65690682 GTCATTTTACCTTACAGGGGCT-TTACG
1 GTCATTTTACCTTACAAGGG-TATTACG
*
65690709 GTCTTTTTACCT
1 GTCATTTTACCT
65690721 ATTAGGGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCTTACAAGGGTATTACG
Found at i:65690803 original size:27 final size:27
Alignment explanation
Indices: 65690773--65690858 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
65690763 GTAAATCTAC
65690773 AAACCAAAAGTATTTC-AGTAATTTTGT
1 AAACCAAAAGTATTTCTA-TAATTTTGT
**
65690800 AAACCAATGGTATTTCTATAATTTTCAG-
1 AAACCAAAAGTATTTCTATAATTTT--GT
* **
65690828 AAAGTCAAGGGTATTTCTATAATTTTGT
1 AAA-CCAAAAGTATTTCTATAATTTTGT
65690856 AAA
1 AAA
65690859 TTAGGGGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 22 0.44
28 7 0.14
29 21 0.42
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (27 bp):
AAACCAAAAGTATTTCTATAATTTTGT
Found at i:65690868 original size:56 final size:54
Alignment explanation
Indices: 65690782--65690939 Score: 142
Period size: 54 Copynumber: 2.9 Consensus size: 54
65690772 CAAACCAAAA
* *
65690782 GTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTCAGAAAGTCAAGG
1 GTATTTCAGTAATTTTGTAAACCAAGGGTATTT-TGATAATTTT-ACAAA-TCAAGG
** * *
65690838 GTATTTCTA-TAATTTTGTAAATTAGGGGTATTTTGATAATTTTACAAATTAAGG
1 GTATTTC-AGTAATTTTGTAAACCAAGGGTATTTTGATAATTTTACAAATCAAGG
* *** * *
65690892 GTATTTCGGTAATTTCACAAACC-AGTGGTATTTCGGTAATTTTACAAA
1 GTATTTCAGTAATTTTGTAAACCAAG-GGTATTTTGATAATTTTACAAA
65690940 CTAGGGGTAT
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
53 1 0.01
54 41 0.49
55 5 0.06
56 35 0.42
57 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.41
Consensus pattern (54 bp):
GTATTTCAGTAATTTTGTAAACCAAGGGTATTTTGATAATTTTACAAATCAAGG
Found at i:65690876 original size:27 final size:27
Alignment explanation
Indices: 65690808--65690959 Score: 103
Period size: 27 Copynumber: 5.6 Consensus size: 27
65690798 GTAAACCAAT
* *
65690808 GGTATTTCT-ATAATTTTCAGAAAGTCAAG
1 GGTATTT-TGATAATTTT-ACAAA-TTAAG
** *
65690837 GGTATTTCT-ATAATTTTGTAAATTAGG
1 GGTATTT-TGATAATTTTACAAATTAAG
65690864 GGTATTTTGATAATTTTACAAATTAAG
1 GGTATTTTGATAATTTTACAAATTAAG
* * * **
65690891 GGTATTTCGGTAATTTCACAAA-CCAG
1 GGTATTTTGATAATTTTACAAATTAAG
* * * *
65690917 TGGTATTTCGGTAATTTTACAAACTAGG
1 -GGTATTTTGATAATTTTACAAATTAAG
*
65690945 GGTATTTTGGTAATT
1 GGTATTTTGATAATT
65690960 CTATCCTACA
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
26 3 0.03
27 79 0.77
28 4 0.04
29 17 0.17
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTATTTTGATAATTTTACAAATTAAG
Found at i:65690985 original size:54 final size:54
Alignment explanation
Indices: 65690861--65690992 Score: 135
Period size: 54 Copynumber: 2.4 Consensus size: 54
65690851 TTTGTAAATT
* *
65690861 AGGGGTATTT-TGATAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCAG-TAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACC
* * * * **
65690915 AGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTCTATCCTA-C
1 AGGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTC-A-CAAACC
*
65690969 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCAGTAATTTTACAA
65690993 TTGAGGGTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
53 3 0.05
54 59 0.91
55 3 0.05
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (54 bp):
AGGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACC
Found at i:65691024 original size:27 final size:26
Alignment explanation
Indices: 65690994--65691188 Score: 210
Period size: 27 Copynumber: 7.2 Consensus size: 26
65690984 ATTTCACAAT
* *
65690994 TGAGGGTAAAACGGTAATTTTGTAAA
1 TGAGGGTAAAATGGTAATTTTATAAA
*
65691020 CTGAGGGTAAAATGGTAATTTTGTAAA
1 -TGAGGGTAAAATGGTAATTTTATAAA
* *
65691047 TTAAGGGTAAAATGGTAATTCTATAAA
1 -TGAGGGTAAAATGGTAATTTTATAAA
65691074 TCGAGGGTAAAATGGTAATTTTATAAA
1 T-GAGGGTAAAATGGTAATTTTATAAA
* *
65691101 TCGAGGGTAAAACGGTAATTTTGTAAA
1 T-GAGGGTAAAATGGTAATTTTATAAA
* * *
65691128 TTGAGGGTGAAACGGTAATTCTATAAA
1 -TGAGGGTAAAATGGTAATTTTATAAA
* * *
65691155 TCAAGGGTAAAATGGTAATTCTACAAA
1 T-GAGGGTAAAATGGTAATTTTATAAA
65691182 TCGAGGG
1 T-GAGGG
65691189 CATTTCAGTA
Statistics
Matches: 148, Mismatches: 17, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 145 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (26 bp):
TGAGGGTAAAATGGTAATTTTATAAA
Found at i:65691107 original size:81 final size:81
Alignment explanation
Indices: 65690995--65691188 Score: 291
Period size: 81 Copynumber: 2.4 Consensus size: 81
65690985 TTTCACAATT
* * *
65690995 GAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATTAAGGGTAAAA
1 GAGGGTAAAATGGTAATTTTATAAATC-GAGGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAA
*
65691059 TGGTAATTCTATAAATC
65 CGGTAATTCTATAAATC
* *
65691076 GAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTGAAAC
1 GAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAAC
65691141 GGTAATTCTATAAATC
66 GGTAATTCTATAAATC
* * *
65691157 AAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 GAGGGTAAAATGGTAATTTTATAAATCGAGGG
65691189 CATTTCAGTA
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 102 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (81 bp):
GAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAAC
GGTAATTCTATAAATC
Found at i:65691188 original size:54 final size:54
Alignment explanation
Indices: 65690996--65691188 Score: 244
Period size: 54 Copynumber: 3.6 Consensus size: 54
65690986 TTCACAATTG
* * * *
65690996 AGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATTA
1 AGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAATGGTAATTTTATAAATCA
* *
65691050 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCA
* * * * * *
65691104 AGGGTAAAACGGTAATTTTGTAAATTGAGGGTGAAACGGTAATTCTATAAATCA
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCA
* *
65691158 AGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGG
65691189 CATTTCAGTA
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
54 118 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAAATCA
Found at i:65691200 original size:81 final size:81
Alignment explanation
Indices: 65691034--65691208 Score: 242
Period size: 81 Copynumber: 2.2 Consensus size: 81
65691024 GGGTAAAATG
* * * *
65691034 GTAATTTTGTAAATTAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATA
1 GTAATTTTGTAAATTAAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
* *
65691099 AATCGAGGGTAAAACG
66 AATCGAGGGCAAAACA
* *
65691115 GTAATTTTGTAAATTGAGGGTGAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATTAAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
***
65691180 AATCGAGGGCATTTCA
66 AATCGAGGGCAAAACA
*
65691196 GTAATTTGGTAAA
1 GTAATTTTGTAAA
65691209 CTAAAGTATT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (81 bp):
GTAATTTTGTAAATTAAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
AATCGAGGGCAAAACA
Found at i:65693389 original size:31 final size:31
Alignment explanation
Indices: 65693335--65693404 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
65693325 TCAGTCTCGA
*
65693335 CATAT-ACTAGGCCGAAGCATTTTCATAAAT
1 CATATCACTAGGCCAAAGCATTTTCATAAAT
* *
65693365 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTAGGCCAAAGCATTTTCATAAAT
65693396 CATATCACT
1 CATATCACT
65693405 CGCTGAAGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.30
Consensus pattern (31 bp):
CATATCACTAGGCCAAAGCATTTTCATAAAT
Found at i:65693416 original size:30 final size:31
Alignment explanation
Indices: 65693345--65693417 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
65693335 CATATACTAG
* *
65693345 GCCGAAGCATTTTCATAAATCATATCACTGG
1 GCCGAAGCCTTTTCATAAATCATATCACTGC
*
65693376 GCCAAAGCCTTTTCATAAATCATATCACT-C
1 GCCGAAGCCTTTTCATAAATCATATCACTGC
*
65693406 GCTGAAGCCTTT
1 GCCGAAGCCTTT
65693418 ATTGTAAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 10 0.27
31 27 0.73
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (31 bp):
GCCGAAGCCTTTTCATAAATCATATCACTGC
Done.