Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 370 of 438
Found at i:115237726 original size:27 final size:27
Alignment explanation
Indices: 115237683--115237823 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
115237673 AGGAAGCGTC
*
115237683 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
115237710 CTGGTGGCTCTGTCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
115237736 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
115237764 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
115237791 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
115237818 CTGGTG
1 CTGGTG
115237824 ACTTCATCAC
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 84 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:115237762 original size:54 final size:54
Alignment explanation
Indices: 115237680--115237823 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
115237670 TGGAGGAAGC
*
115237680 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
115237734 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
115237788 GTTCTGGTGGCTCTACCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
115237824 ACTTCATCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:115237834 original size:27 final size:26
Alignment explanation
Indices: 115237695--115237841 Score: 116
Period size: 27 Copynumber: 5.5 Consensus size: 26
115237685 GGTGGCTATG
* * *
115237695 CCACAATTATCTGATCTGGTGGCTCTG
1 CCACAA-TATCTGTTCTGGTGACTCTA
* * * * *
115237722 TCACATATATCTGTCCTGGTGGCTATG
1 CCACA-ATATCTGTTCTGGTGACTCTA
* * *
115237749 CCACAATTATCTGATCTGGTGGCTCTG
1 CCACAA-TATCTGTTCTGGTGACTCTA
*
115237776 CCACATATATCTGTTCTGGTGGCTCTA
1 CCACA-ATATCTGTTCTGGTGACTCTA
115237803 CCACAATATCTGTATCTGGTGACT-TCA
1 CCACAATATCTGT-TCTGGTGACTCT-A
*
115237830 TCACAATATCTG
1 CCACAATATCTG
115237842 GCAGCCTCGC
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
26 10 0.10
27 91 0.88
28 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (26 bp):
CCACAATATCTGTTCTGGTGACTCTA
Found at i:115237835 original size:81 final size:79
Alignment explanation
Indices: 115237683--115237841 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 79
115237673 AGGAAGCGTC
** *
115237683 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTCCTGGTGACTAT
115237748 GCCACAATTATCTGAT
66 -CCACAA-TATCTGAT
* * *
115237764 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTACCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTACCACATATATCTGT-CCTGGTGACT
115237827 -TCATCACAATATCTG
64 ATC--CACAATATCTG
115237842 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
79 1 0.01
80 17 0.25
81 50 0.74
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (79 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTCCTGGTGACTAT
CCACAATATCTGAT
Found at i:115241586 original size:432 final size:430
Alignment explanation
Indices: 115240452--115241771 Score: 1797
Period size: 432 Copynumber: 3.0 Consensus size: 430
115240442 GGTTTCGACA
* * *
115240452 GTATTTATACACTTTTAATATGTCAAATTTAGCATGATTCTTCCTAAGATTATATGCCTAAAAAC
1 GTATTTATACACTTTTCATATGTCAAATTTAGCAT-ATTCCTCCTAAGA-T-TATGCCTAACAAC
** *
115240517 CAACTAAAATCAGA-TTTTTTT-TATTCACAGAGTTTGACAAATTCACAATTTGATTTTTAATCA
63 CAACTAAAATCAGATTTTTTTTCTATTCATGGAGTTTGA-AAATTCACAATCTGATTTTTAATCA
* * * *
115240580 ACCACTAATTCTGCAACTTTTCAATTTTGCCCCTTTTATTGCTTCCCGTTCCAATTTAGCCCAAC
127 ACCACTTATTCTACAACTTTTCAATTTTGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCCAAT
* *
115240645 TTGCTTGGCTAAATGAGGTTTAGTTGAGCATGAAATTAATTATACTCGATTGTGG-TTTAAAAGT
192 TTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTG-GGATTTAAAAGT
* * *
115240709 GGATTTGAATGTAATGGTGATAAGTGAAAAAGGAAAAGGAGAAAGGACTTAAAAAACAATTGAAC
256 GGATTTGAACGTAATGGTGAT-AG-G-----TGAAAAGGAGAAAGGACTTAAAAAGCAATTGAAC
*
115240774 CAAAAATAAGGAAATGGGAAAAAATGGCAGTAAACTTGAATAGCTACTAATGCATGAAAGAGAAA
314 CAAAAATAAGGAAAT-GGAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAA
* * *
115240839 AGAATTGTTTTTAATTCTATTTCAGTGTGTTTTTTCCAAAACATCATTAAAAG
378 AGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGACATCATTACAAG
* * * * * ** *
115240892 GTATTTACAAATTTTTCATATGCCAAATTTAGCATGATTACTTATAAGGTTATGCCTAACAACCA
1 GTATTTATACACTTTTCATATGTCAAATTTAGCAT-ATTCCTCCTAAGATTATGCCTAACAACCA
* * *
115240957 ACAAAAATCAGATCTTTTTTCTATTCATGGAGTTTGAAAAATTCACAATCTGATTTTTAATCAGC
65 ACTAAAATCAGATTTTTTTTCTATTCATGGAGTTTG-AAAATTCACAATCTGATTTTTAATCAAC
* * * * *
115241022 CAC-TAGTT-AAGCAACCTTTCAATTTAGCTCATTTTATTGCTTCCCGTTTCAATTTAGCCCAAT
129 CACTTA-TTCTA-CAACTTTTCAATTTTGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCCAAT
* * * * * *
115241085 TTGCTTAGCTAAATGGGTTTTAGTTGAGCATGAAATTAATCATGCTTGATAGGGATTTAAAATTG
192 TTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGATTTAAAAGTG
* *
115241150 GATTTGAACGTATTGGTGATAGGTGAAAAGGAGAAAGGACGTAAAAAGCAATTGAACCAAAAATA
257 GATTTGAACGTAATGGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAGCAATTGAACCAAAAATA
*
115241215 AGGAAATGGAAAGAAATGGCAGTAAACTTGAATAGCTACTGATGCATTAAAGAGAAAAGAATTGT
322 AGGAAATGGAAA-AAATGGCAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGAATTGT
* * *
115241280 TTTTCATTCTATTCCAATGTGTTTTTTCCAAGTCATCATTACAAG
386 TTTTAATTCTATTCCAGTGTGTTTTTTCCAAGACATCATTACAAG
* * * *
115241325 GTATTTATACACTTTTCATCTGTCAAAATTAGCACT-TTCCTCCTAAGATTATGCTTAACAGCCA
1 GTATTTATACACTTTTCATATGTCAAATTTAGCA-TATTCCTCCTAAGATTATGCCTAACAACCA
* *
115241389 ACTAAAATCAGATTTTTTTTCTATTCATGGAGTTTGAAAATTTCACAATGTAATTTTTAATCAAC
65 ACTAAAATCAGATTTTTTTTCTATTCATGGAGTTTGAAAA-TTCACAATCTGATTTTTAATCAAC
* *
115241454 CACTTATTCTACAACTTTTCAATTTTGCCCTTTTTATTGCTCCCCGTTCCAATTTAGCCCAATTT
129 CACTTATTCTACAACTTTTCAATTTTGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCCAATTT
* * *
115241519 TCTTGGCTAAATGGGGTTTAGTTGAGCATGAAACTAATCATACTCAATTGGGATTTAAAAGTGGA
194 GCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGATTTAAAAGTGGA
* *
115241584 TTTGAACGTAATGGTGATAAGTGAAAAGGATAAAGGACTTAAAAAGCAATTGAACCAAAAATAAG
259 TTTGAACGTAATGGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAGCAATTGAACCAAAAATAAG
* ** * * *
115241649 AAAATGGAAAAAATGGCAGTAAACTTGAATAGCTACTGATGTGTGAAAGAGATAACAATTCTTTT
324 GAAATGGAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGAATTGTTTT
* * *
115241714 TAATTCTATTCCAGTGTGTTTTTTCGAAGCCACCATTACAAG
389 TAATTCTATTCCAGTGTGTTTTTTCCAAGACATCATTACAAG
115241756 GTATTTATACACTTTT
1 GTATTTATACACTTTT
115241772 TGAGAAAAAT
Statistics
Matches: 773, Mismatches: 96, Indels: 31
0.86 0.11 0.03
Matches are distributed among these distances:
431 106 0.14
432 261 0.34
433 166 0.21
434 1 0.00
438 26 0.03
439 12 0.02
440 200 0.26
441 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (430 bp):
GTATTTATACACTTTTCATATGTCAAATTTAGCATATTCCTCCTAAGATTATGCCTAACAACCAA
CTAAAATCAGATTTTTTTTCTATTCATGGAGTTTGAAAATTCACAATCTGATTTTTAATCAACCA
CTTATTCTACAACTTTTCAATTTTGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCCAATTTGC
TTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGATTTAAAAGTGGATT
TGAACGTAATGGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAGCAATTGAACCAAAAATAAGGA
AATGGAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGAATTGTTTTTA
ATTCTATTCCAGTGTGTTTTTTCCAAGACATCATTACAAG
Found at i:115241792 original size:10 final size:11
Alignment explanation
Indices: 115241776--115241805 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
115241766 ACTTTTTGAG
115241776 AAAAATAAAAT
1 AAAAATAAAAT
115241787 -AAAATAAAAT
1 AAAAATAAAAT
115241797 AAAAATAAA
1 AAAAATAAA
115241806 GAACATACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:115247315 original size:432 final size:430
Alignment explanation
Indices: 115246555--115248040 Score: 1873
Period size: 432 Copynumber: 3.4 Consensus size: 430
115246545 TAATTCTAAC
* * * *
115246555 ACTTTTTATAT-ACCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAATTAAAATA
1 ACTTTTCATATGA-CAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAATC
* * * *
115246619 AGATTTTTTTTCTATTCATAGAGTTTAACAAATTCACAATCGGATTTTTAATCAACCACTAATTT
65 AGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTA
* * * * * *
115246684 TGCAACTTTTCAATTTGGCTGC--TTTATTTCTTCCCGTTCCAAGTTAGCCAAATTTGCTTGGCT
130 TGAAACTTTTCAATTTGGC-CCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTTGGCT
* *
115246747 AAATGCGATTTAGTTGAGAATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGAATTTGGAAG
194 AAATGCG-TTTAGTTGAGCATGAAATTAATCATACTCGATT-GGGTTTAAAAGTGGATTT-GAAG
* * * * * * * * *
115246812 TAAAGGTGATAAGTGAAAAAGAGAAAAGACTTAAAAAGCAATTGGACAAAAAGTAAGAAAATGGT
256 TAATGGTGATAGGTGAAAATGAGAAAAGACTTAAAAGGCAATTGAACAAAAAATAAGAAACTAGA
* * * * ** *
115246877 AAAAAA-TGACAATAAACCTGAATAGCTACTGATGCATGAAAGATAAAAGAATTATTTTTAATTC
321 AAAAAATTGGCAATAAACCTGAATAACTACTGATGCATGAAAAAGAAAAGAATTGCTTTTAATTT
* ** * *
115246941 TATTATAGTATGTTTTTTTGAAGCCACCATTACAAGGCATTGATA
386 TATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTATA
* * * * *
115246986 GACTTTCCATATGACATATTGAGCATGATTCCTCCTAAGATTATGCCTAATAATCAACTAAAATT
1 -ACTTTTCATATGACAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAATC
115247051 AGA-TTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTA
65 AGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTA
* *
115247115 TGAAAATTTTCAATTTGGTCCATTTTATTGCTTC-CTGTTCCAATTTAGCCCAATTTGCTTGGCT
130 TGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTC-GTTCCAATTTAGCCCAATTTGCTTGGCT
* *
115247179 AAATGTCGTTTAGTTGAGCATGAAATTAATCAGACTTGATTGGTGTTTAAAAGTGGATTTGAATG
194 AAATG-CGTTTAGTTGAGCATGAAATTAATCATACTCGATTGG-GTTTAAAAGTGGATTTGAA-G
* * * *
115247244 TAATGATGATGGGTGAAAATGAG-AAAGAACTTAAAAGGTAATTGAACAAAAAATAAGGAACTAG
256 TAATGGTGATAGGTGAAAATGAGAAAAG-ACTTAAAAGGCAATTGAACAAAAAATAAGAAACTAG
* * * *
115247308 AAAAAAATTGGCAATAAA-CTCGAATATCTACAGATGCGTGAAAAAGAAAAAAATTGCTTTTAAT
320 AAAAAAATTGGCAATAAACCT-GAATAACTACTGATGCATGAAAAAGAAAAGAATTGCTTTTAAT
115247372 TTTATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTATA
384 TTTATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTATA
* * *
115247419 CCATTTTCATAT-ATCAAATTTAGCATGATTCCTCCTAAGGTTACGCCTAATAACCAAC-AAAAT
1 AC-TTTTCATATGA-CAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAAT
* * *
115247482 CACATTTGTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCCCTAATT
64 CAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATT
* * * **
115247547 ATGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCTCATTCCAA-TTAGCCCAATTTGCTTAACT
129 ATGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTTGGCT
* * *
115247611 AAATGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGACTTAAAAGTGGATTTGAACGT
194 AAATGCGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGG-TTTAAAAGTGGATTTGAA-GT
* *
115247676 AATGGTGATAGGTGAAAATGAGAAAAGACTTGAAAGGCAATTGAACCAAAAATAAGAAACTAGAA
257 AATGGTGATAGGTGAAAATGAGAAAAGACTTAAAAGGCAATTGAACAAAAAATAAGAAACTAGAA
* * *
115247741 AAAAATTGGCAGTAAACTTGAATAACTATTGATGCATGAAAAAGAAAAGAATTGCTTTTAATTTT
322 AAAAATTGGCAATAAACCTGAATAACTACTGATGCATGAAAAAGAAAAGAATTGCTTTTAATTTT
* * *
115247806 ATTTTAGTGTGCTTTTTCCAAGCCACCATTTCAAGGTATTTATA
387 ATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTATA
* * * * * **
115247850 CATTTTTCATATGTA-AAATTTAGCATGATTCTTCATAAGATTATACCTAATGATTAACTAAAAT
1 -ACTTTTCATATG-ACAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAAT
* * * ** *
115247914 CAGATTTTTTTTCTATTCATGGAGTTTGACAAGTTCACAATCTAATAATTAATCAGTCC-TTAAT
64 CAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAG-CCACTAAT
* * **
115247978 TCTGAAACTTTTCAATTTGACCCATTTTATTGCTTCTCGTTCCAATTTTTCCCAATTTGCTTG
128 TATGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTTG
115248041 TTTATTTGAA
Statistics
Matches: 914, Mismatches: 117, Indels: 45
0.85 0.11 0.04
Matches are distributed among these distances:
430 2 0.00
431 330 0.36
432 334 0.37
433 247 0.27
434 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (430 bp):
ACTTTTCATATGACAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAATCA
GATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTAT
GAAACTTTTCAATTTGGCCCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTTGGCTAA
ATGCGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGTTTAAAAGTGGATTTGAAGTAATG
GTGATAGGTGAAAATGAGAAAAGACTTAAAAGGCAATTGAACAAAAAATAAGAAACTAGAAAAAA
ATTGGCAATAAACCTGAATAACTACTGATGCATGAAAAAGAAAAGAATTGCTTTTAATTTTATTA
TAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTATA
Found at i:115247500 original size:433 final size:431
Alignment explanation
Indices: 115246553--115248040 Score: 1893
Period size: 431 Copynumber: 3.4 Consensus size: 431
115246543 CTTAATTCTA
* * * *
115246553 ACACTTTTTATATACCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAATTAAAAT
1 ACACTTTTCATATATCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAAT
* * * *
115246618 AAGATTTTTTTTCTATTCATAGAGTTTAACAAATTCACAATCGGATTTTTAATCAACCACTAATT
66 CAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATT
* * * * * * *
115246683 TTGCAACTTTTCAATTTGGCTGC--TTTATTTCTTCCCGTTCCAAGTTAGCCAAATTTGCTTGGC
131 ATGAAACTTTTCAATTTGGC-CCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTTGGC
* *
115246746 TAAATGCGATTTAGTTGAGAATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGAATTTGGAA
195 TAAATGCG-TTTAGTTGAGCATGAAATTAATCATACTCGATT-GGGTTTAAAAGTGGATTT-GAA
* * * * * * * *
115246811 GTAAAGGTGATAAGTGAAAAAGAGAAAAGACTTAAAAAGCAATTGGACAAAAAGTAAGAAAATGG
257 GTAATGGTGATAGGTGAAAATGAGAAAAGACTTAAAAGGCAATTGAACAAAAAATAAGAAACTAG
* * * * * **
115246876 TAAAAAA-TGACAATAAAC-CTGAATAGCTACTGATGCATGAAAGATAAAAGAATTATTTTTAAT
322 AAAAAAATTGGCAATAAACTC-GAATAACTACTGATGCATGAAAAAGAAAAGAATTGCTTTTAAT
* * ** * *
115246939 TCTATTATAGTATGTTTTTTTGAAGCCACCATTACAAGGCATTGAT
386 TTTATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTAT
* * * * *
115246985 AGACTTTCCATATGA-CATATTGAGCATGATTCCTCCTAAGATTATGCCTAATAATCAACTAAAA
1 ACACTTTTCATAT-ATCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAA
*
115247049 TTAGA-TTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAAT
65 TCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAAT
* *
115247113 TATGAAAATTTTCAATTTGGTCCATTTTATTGCTTC-CTGTTCCAATTTAGCCCAATTTGCTTGG
130 TATGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTC-GTTCCAATTTAGCCCAATTTGCTTGG
* *
115247177 CTAAATGTCGTTTAGTTGAGCATGAAATTAATCAGACTTGATTGGTGTTTAAAAGTGGATTTGAA
194 CTAAATG-CGTTTAGTTGAGCATGAAATTAATCATACTCGATTGG-GTTTAAAAGTGGATTTGAA
* * * *
115247242 TGTAATGATGATGGGTGAAAATGAG-AAAGAACTTAAAAGGTAATTGAACAAAAAATAAGGAACT
257 -GTAATGGTGATAGGTGAAAATGAGAAAAG-ACTTAAAAGGCAATTGAACAAAAAATAAGAAACT
* * * *
115247306 AGAAAAAAATTGGCAATAAACTCGAATATCTACAGATGCGTGAAAAAGAAAAAAATTGCTTTTAA
320 AGAAAAAAATTGGCAATAAACTCGAATAACTACTGATGCATGAAAAAGAAAAGAATTGCTTTTAA
115247371 TTTTATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTAT
385 TTTTATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTAT
* *
115247418 AC-CATTTTCATATATCAAATTTAGCATGATTCCTCCTAAGGTTACGCCTAATAACCAAC-AAAA
1 ACAC-TTTTCATATATCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAA
* * *
115247481 TCACATTTGTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCCCTAAT
65 TCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAAT
* * * **
115247546 TATGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCTCATTCCAA-TTAGCCCAATTTGCTTAAC
130 TATGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTTGGC
* * *
115247610 TAAATGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGACTTAAAAGTGGATTTGAACG
195 TAAATGCGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGG-TTTAAAAGTGGATTTGAA-G
* *
115247675 TAATGGTGATAGGTGAAAATGAGAAAAGACTTGAAAGGCAATTGAACCAAAAATAAGAAACTAGA
258 TAATGGTGATAGGTGAAAATGAGAAAAGACTTAAAAGGCAATTGAACAAAAAATAAGAAACTAGA
* * *
115247740 AAAAAATTGGCAGTAAACTTGAATAACTATTGATGCATGAAAAAGAAAAGAATTGCTTTTAATTT
323 AAAAAATTGGCAATAAACTCGAATAACTACTGATGCATGAAAAAGAAAAGAATTGCTTTTAATTT
* * *
115247805 TATTTTAGTGTGCTTTTTCCAAGCCACCATTTCAAGGTATTTAT
388 TATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTAT
* * * * * * * **
115247849 ACATTTTTCATATGTAAAATTTAGCATGATTCTTCATAAGATTATACCTAATGATTAACTAAAAT
1 ACACTTTTCATATATCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAAT
* * * ** *
115247914 CAGATTTTTTTTCTATTCATGGAGTTTGACAAGTTCACAATCTAATAATTAATCAGTCC-TTAAT
66 CAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAG-CCACTAAT
* * **
115247978 TCTGAAACTTTTCAATTTGACCCATTTTATTGCTTCTCGTTCCAATTTTTCCCAATTTGCTTG
130 TATGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTTG
115248041 TTTATTTGAA
Statistics
Matches: 917, Mismatches: 119, Indels: 39
0.85 0.11 0.04
Matches are distributed among these distances:
430 2 0.00
431 334 0.36
432 332 0.36
433 247 0.27
434 2 0.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (431 bp):
ACACTTTTCATATATCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAAT
CAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATT
ATGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTCGTTCCAATTTAGCCCAATTTGCTTGGCT
AAATGCGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGTTTAAAAGTGGATTTGAAGTAA
TGGTGATAGGTGAAAATGAGAAAAGACTTAAAAGGCAATTGAACAAAAAATAAGAAACTAGAAAA
AAATTGGCAATAAACTCGAATAACTACTGATGCATGAAAAAGAAAAGAATTGCTTTTAATTTTAT
TATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTAT
Found at i:115254380 original size:28 final size:28
Alignment explanation
Indices: 115254342--115254399 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
115254332 GACTTATTTA
*
115254342 AATTCTAGTTTTTCACATCTAACCTATT
1 AATTCTAGTTTTTCACATCAAACCTATT
115254370 AATTCTAGTTTTTCACATCAAACCTATT
1 AATTCTAGTTTTTCACATCAAACCTATT
115254398 AA
1 AA
115254400 CTAAGTCTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (28 bp):
AATTCTAGTTTTTCACATCAAACCTATT
Found at i:115255304 original size:13 final size:13
Alignment explanation
Indices: 115255272--115255310 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
115255262 ATGTTTAAAA
115255272 ACTTTTATTTATT
1 ACTTTTATTTATT
*
115255285 A-TTTTATTTTTT
1 ACTTTTATTTATT
115255297 ACTTTTATTCTATT
1 ACTTTTATT-TATT
115255311 TTAAGACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 11 0.50
13 8 0.36
14 3 0.14
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (13 bp):
ACTTTTATTTATT
Found at i:115264466 original size:28 final size:29
Alignment explanation
Indices: 115264411--115264471 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 29
115264401 GTATTTTGAC
*
115264411 CCCTAAACTTTTCTTAAATTACATTTTAA
1 CCCTAAACTTTTCTAAAATTACATTTTAA
115264440 CCCTAAA-TTTTCTAAAAATTACA-TTTAA
1 CCCTAAACTTTTCT-AAAATTACATTTTAA
115264468 CCCT
1 CCCT
115264472 TGAAGTTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (29 bp):
CCCTAAACTTTTCTAAAATTACATTTTAA
Found at i:115264698 original size:13 final size:14
Alignment explanation
Indices: 115264687--115264728 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 14
115264677 GAGAAAAAAG
115264687 AGCAAAAAAAAATC
1 AGCAAAAAAAAATC
*
115264701 AGCAAAAAAAATTTCC
1 AGCAAAAAAAA-AT-C
115264717 AGCAAAAAAAAA
1 AGCAAAAAAAAA
115264729 AACAACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.46
15 1 0.04
16 12 0.50
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AGCAAAAAAAAATC
Found at i:115264711 original size:16 final size:16
Alignment explanation
Indices: 115264690--115264740 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
115264680 AAAAAAGAGC
115264690 AAAAAAAAATCAGC-A
1 AAAAAAAAATCAGCAA
**
115264705 AAAAAAATTTCCAGCAA
1 AAAAAAAAAT-CAGCAA
*
115264722 AAAAAAAAA-CAACAA
1 AAAAAAAAATCAGCAA
115264737 AAAA
1 AAAA
115264741 GGAACATTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 17 0.59
16 4 0.14
17 8 0.28
ACGTcount: A:0.75, C:0.14, G:0.04, T:0.08
Consensus pattern (16 bp):
AAAAAAAAATCAGCAA
Found at i:115265546 original size:17 final size:17
Alignment explanation
Indices: 115265488--115265548 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
115265478 TCCGAATTTA
115265488 ATATATATATTTT-T--
1 ATATATATATTTTGTAC
*
115265502 ATA-ACTATATTATGTAC
1 ATATA-TATATTTTGTAC
115265519 ATATATATATTTTGTAC
1 ATATATATATTTTGTAC
115265536 ATATCAT-TATTTT
1 ATAT-ATATATTTT
115265549 ATATTATTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.03
14 10 0.26
15 1 0.03
17 24 0.62
18 3 0.08
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (17 bp):
ATATATATATTTTGTAC
Found at i:115277777 original size:13 final size:14
Alignment explanation
Indices: 115277747--115277782 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
115277737 CGCTGAGGTA
115277747 TTTTCAAAATCTGT
1 TTTTCAAAATCTGT
115277761 TTTTCAAAATCTG-
1 TTTTCAAAATCTGT
115277774 TTTTCAAAA
1 TTTTCAAAA
115277783 CTCAACTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (14 bp):
TTTTCAAAATCTGT
Found at i:115277836 original size:87 final size:85
Alignment explanation
Indices: 115277683--115277917 Score: 269
Period size: 75 Copynumber: 2.8 Consensus size: 85
115277673 TATTTTTATT
* * * * *
115277683 TCTGTTTTCAAAAAACTCTACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTA
1 TCTGTTTTC--AAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTA
115277747 TTTTCAAAATCTGT-TTTTCAAAA
64 TTTTCAAAATCTGTCTTTT--AAA
*
115277770 TCTGTTTTCAAAACTCAACTCATATTGCGAGGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
1 TCTGTTTTCAAAACTCAACTCATATTGCGA-GAGGTGAGTTGAGCCTCAAGACACGATGAGGTAT
**
115277835 TTTCAATTTCTGTCTTTTAAA
65 TTTCAAAATCTGTCTTTTAAA
115277856 ---------AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTATT
1 TCTGTTTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTATT
115277911 TTCAAAA
66 TTCAAAA
115277918 AAATCAACTC
Statistics
Matches: 135, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
75 39 0.29
76 16 0.12
77 4 0.03
85 19 0.14
86 20 0.15
87 33 0.24
88 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (85 bp):
TCTGTTTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTATT
TTCAAAATCTGTCTTTTAAA
Found at i:115277919 original size:61 final size:62
Alignment explanation
Indices: 115277849--115277977 Score: 217
Period size: 61 Copynumber: 2.1 Consensus size: 62
115277839 AATTTCTGTC
*
115277849 TTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGT-A
1 TTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGATGAGGTAA
* *
115277909 TTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACATGCTGAGGTAA
1 TTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGATGAGGTAA
115277971 TTTTCAA
1 TTTTCAA
115277978 TTTCTGTCAT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
60 4 0.06
61 52 0.81
62 8 0.12
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (62 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGATGAGGTAA
Found at i:115278037 original size:138 final size:137
Alignment explanation
Indices: 115277779--115278176 Score: 424
Period size: 138 Copynumber: 2.8 Consensus size: 137
115277769 ATCTGTTTTC
* * *
115277779 AAAACTCAACTCATATTGCGAGGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
* * * * *
115277844 CTGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTA
66 CTGTCATTCAAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAAGACACGATAAGGTA
*
115277909 TTTTCAA
131 ATTTCAA
*
115277916 AAAAATCAACTCATATTGCGA-GAAGTGAGTTGAGCCTCAAGACATGCTGAGGTAATTTTCAATT
1 AAAAATCAACTCATATTGCGAGGAAGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATT
* *
115277980 TCTGTCATTCAGAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGGACACGCTAAGG
65 TCTGTCATTCA-AAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAAGACACGATAAGG
115278045 TAATTTCAATTTTTGTTTGTCA
129 TAATTTC-A------------A
* * * * * *
115278067 AAAAATCAACTCGTATTGCGA-GAGGCGAGTTGAGGCTCAGGTCACACGCTGAGGTGTTTTCAAT
1 AAAAATCAACTCATATTGCGAGGAAGTGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAAT
** * *
115278131 TTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
64 TTCTGTCATTCAAAAAAATCAACTCATATTACAAGAGGTGAGTTGAG
115278177 TCTCGGGCCA
Statistics
Matches: 221, Mismatches: 23, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
136 29 0.13
137 39 0.18
138 54 0.24
139 1 0.00
150 33 0.15
151 37 0.17
152 17 0.08
153 11 0.05
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (137 bp):
AAAAATCAACTCATATTGCGAGGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
CTGTCATTCAAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAAGACACGATAAGGTA
ATTTCAA
Found at i:115278216 original size:76 final size:75
Alignment explanation
Indices: 115277909--115278176 Score: 351
Period size: 76 Copynumber: 3.5 Consensus size: 75
115277899 CGATGAGGTA
* * *
115277909 TTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACATGCTGAGGTAATTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTT
115277974 TCAATTTCTGT
65 TCAATTTCTGT
** * * * *
115277985 CATTCAGAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATT
1 TTTTCA-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
*
115278050 TCAATTTTTGT
65 TCAATTTCTGT
* * * * *
115278061 TTGTC-AAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGGCTCAGGTCACACGCTGAGGTGTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATT
115278125 TTCAATTTCTGT
64 TTCAATTTCTGT
115278137 TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
115278177 TCTCGGGCCA
Statistics
Matches: 164, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
74 37 0.23
76 79 0.48
77 48 0.29
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (75 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
CAATTTCTGT
Found at i:115278432 original size:77 final size:77
Alignment explanation
Indices: 115278241--115278511 Score: 252
Period size: 77 Copynumber: 3.5 Consensus size: 77
115278231 AATTTTCGTA
* * * * *
115278241 TTTC-AAAAAAT-AGCTCATATTACGAGAGGTGAGTTGAACCCCAGGTCACG-ATGAGGTATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCATGAGGTATTTT
115278303 CAATTTATGTTTTT
66 CAATTTATG--TTT
* **
115278317 TTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACGCATTGAGGTAT
1 TTT--CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCA-TGAGGTAT
*
115278382 TTTCAATTTCTG-TT
63 TTTCAATTTATGTTT
* * *
115278396 TTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCATCAGGTCATACGC-TGAGGTATT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC--ACGCATGAGGTATT
* *
115278460 TTCAATTTTTTGCTT
64 TTCAA-TTTATGTTT
* * *
115278475 TTTC--AAAGATCAACTTATAATT-TGAGAGGTGAGTTGA
1 TTTCAAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGA
115278512 ACTTCGAGTC
Statistics
Matches: 163, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
76 3 0.02
77 78 0.48
78 8 0.05
79 22 0.13
80 33 0.20
81 1 0.01
82 18 0.11
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (77 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCATGAGGTATTTT
CAATTTATGTTT
Found at i:115278780 original size:28 final size:28
Alignment explanation
Indices: 115278723--115278795 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
115278713 TTCAAAAAAA
* *
115278723 TAAAAATTGCATTTTGACCCCTAAACTTTCC
1 TAAAAATTACA-TTT-AACCCTAAACTTT-C
* *
115278754 T-TAAATTACATTTAACCCTAAATTTTC
1 TAAAAATTACATTTAACCCTAAACTTTC
115278781 TAAAAATTACATTTA
1 TAAAAATTACATTTA
115278796 GCCTTTGAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 2 0.06
28 23 0.64
29 3 0.08
30 7 0.19
31 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (28 bp):
TAAAAATTACATTTAACCCTAAACTTTC
Found at i:115279878 original size:25 final size:26
Alignment explanation
Indices: 115279819--115279878 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
115279809 TTTTTATAAC
115279819 TATATTA-TGTACATATATATATATA
1 TATATTATTGTACATATATATATATA
*
115279844 TATATT-TTGTACATATCAT-TAT-TT
1 TATATTATTGTACATAT-ATATATATA
115279868 TATATTATTGT
1 TATATTATTGT
115279879 TGTAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 7 0.23
25 22 0.71
26 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (26 bp):
TATATTATTGTACATATATATATATA
Found at i:115280016 original size:31 final size:30
Alignment explanation
Indices: 115279928--115280020 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 30
115279918 TAATATTTTC
* *
115279928 TTTTATTGTAGATATTATTATTATTACATATAT
1 TTTTA-TGTACATATTATTATT-TTATAT-TAT
* * *
115279961 TTATTATATGCATA-TA-TA-TATATATGTAT
1 TT-TTATGTACATATTATTATTTTATAT-TAT
115279990 TTTTATGTACATATTATTATTTTATATTAT
1 TTTTATGTACATATTATTATTTTATATTAT
115280020 T
1 T
115280021 ATTACCAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
28 9 0.19
29 11 0.23
30 7 0.15
31 8 0.17
32 2 0.04
33 7 0.15
34 3 0.06
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (30 bp):
TTTTATGTACATATTATTATTTTATATTAT
Found at i:115284315 original size:17 final size:18
Alignment explanation
Indices: 115284283--115284316 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
115284273 TAAAGTTGAG
*
115284283 ATAATTATACATTTAAAA
1 ATAATTAGACATTTAAAA
115284301 ATAATTAGA-ATTTAAA
1 ATAATTAGACATTTAAA
115284317 TTTCAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTAGACATTTAAAA
Found at i:115284671 original size:24 final size:24
Alignment explanation
Indices: 115284615--115284689 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 24
115284605 TTATATGTTG
* *
115284615 AATATGCTAAAAATATTTTAATTA
1 AATATGTTAAAAATATATTAATTA
*
115284639 ATTAT-TTAAAAAT-TATTAATTA
1 AATATGTTAAAAATATATTAATTA
* * *
115284661 TAATATGTTAATTAATAAATTAATAA
1 -AATATGTTAA-AAATATATTAATTA
115284687 AAT
1 AAT
115284690 TTAATTTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
22 8 0.20
23 11 0.28
24 8 0.20
25 6 0.15
26 7 0.17
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (24 bp):
AATATGTTAAAAATATATTAATTA
Found at i:115284694 original size:36 final size:36
Alignment explanation
Indices: 115284626--115284700 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
115284616 ATATGCTAAA
* * * *
115284626 AATATTTTAATTAATTATTTAAAAATTATTAATTAT
1 AATATGTTAATTAATAAATTAAAAAATATTAATTAT
*
115284662 AATATGTTAATTAATAAATTAATAAAAT-TTAATTTT
1 AATATGTTAATTAATAAATTAA-AAAATATTAATTAT
115284698 AAT
1 AAT
115284701 TAAAAATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 29 0.88
37 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (36 bp):
AATATGTTAATTAATAAATTAAAAAATATTAATTAT
Found at i:115285397 original size:4 final size:4
Alignment explanation
Indices: 115285388--115285415 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
115285378 TAGTGAGACT
115285388 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
115285416 ATCTTAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:115287654 original size:11 final size:11
Alignment explanation
Indices: 115287638--115287688 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
115287628 TTACAAGAAA
115287638 TGTAAAAAAAT
1 TGTAAAAAAAT
115287649 TGTAAAAAAA-
1 TGTAAAAAAAT
*
115287659 --TATAAAAAT
1 TGTAAAAAAAT
115287668 TGTAAAAGAAAT
1 TGTAAAA-AAAT
*
115287680 TATAAAAAA
1 TGTAAAAAA
115287689 GTTAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
8 7 0.21
11 16 0.48
12 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (11 bp):
TGTAAAAAAAT
Found at i:115287667 original size:19 final size:21
Alignment explanation
Indices: 115287632--115287687 Score: 80
Period size: 19 Copynumber: 2.7 Consensus size: 21
115287622 ATATTATTAC
*
115287632 AAGAAATGTAAAAAAATTGTAA
1 AAGAAAT-TATAAAAATTGTAA
115287654 AA-AAA-TATAAAAATTGTAA
1 AAGAAATTATAAAAATTGTAA
115287673 AAGAAATTATAAAAA
1 AAGAAATTATAAAAA
115287688 AGTTAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 15 0.48
20 3 0.10
21 11 0.35
22 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (21 bp):
AAGAAATTATAAAAATTGTAA
Found at i:115288090 original size:29 final size:29
Alignment explanation
Indices: 115288058--115288116 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
115288048 TATTTAAATA
* *
115288058 TTTAATATTATAATTTTTAT-ATTTTATTT
1 TTTAA-ATTATAAATTTAATAATTTTATTT
*
115288087 TTTAAATTTTAAATTTAATAATTTTATTT
1 TTTAAATTATAAATTTAATAATTTTATTT
115288116 T
1 T
115288117 AAATAAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTAAATTATAAATTTAATAATTTTATTT
Found at i:115288103 original size:6 final size:7
Alignment explanation
Indices: 115288041--115288120 Score: 56
Period size: 7 Copynumber: 11.1 Consensus size: 7
115288031 TTAAAAATAT
115288041 TTTTAAA
1 TTTTAAA
115288048 TATTTAAA
1 T-TTTAAA
115288056 TATTTAATA
1 T-TTTAA-A
* *
115288065 TTATAAT
1 TTTTAAA
*
115288072 TTTTATA
1 TTTTAAA
**
115288079 TTTTATT
1 TTTTAAA
115288086 TTTTAAA
1 TTTTAAA
115288093 TTTTAAA
1 TTTTAAA
*
115288100 TTTAATAA
1 TTTTA-AA
115288108 TTTT--A
1 TTTTAAA
115288113 TTTTAAA
1 TTTTAAA
115288120 T
1 T
115288121 AAATCTAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
5 5 0.09
7 29 0.50
8 22 0.38
9 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTTAAA
Found at i:115288511 original size:2 final size:2
Alignment explanation
Indices: 115288504--115288531 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
115288494 TAAAATAAAA
115288504 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115288532 TTTATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115288845 original size:2 final size:2
Alignment explanation
Indices: 115288838--115288876 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
115288828 TTTTTATTTA
115288838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115288877 CTATTTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:115292134 original size:28 final size:30
Alignment explanation
Indices: 115292102--115292161 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
115292092 TTATAATATT
115292102 AATAATTTAAAAA-ACAT-TAAAT-AAGAAA
1 AATAA-TTAAAAACACATGTAAATGAAGAAA
*
115292130 AATAATTAAAAACACTTGTAAATGAAGAAA
1 AATAATTAAAAACACATGTAAATGAAGAAA
115292160 AA
1 AA
115292162 ATTGTCTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 7 0.25
28 8 0.29
29 5 0.18
30 8 0.29
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (30 bp):
AATAATTAAAAACACATGTAAATGAAGAAA
Found at i:115292466 original size:2 final size:2
Alignment explanation
Indices: 115292459--115292512 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
115292449 TTCTTTTCGT
115292459 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
115292501 TA TA TA TA TA TA
1 TA TA TA TA TA TA
115292513 CTAAGAATGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:115300957 original size:5 final size:6
Alignment explanation
Indices: 115300941--115300966 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
115300931 ATTCAAGTGT
115300941 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
115300967 TTTCTCTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:115304287 original size:798 final size:794
Alignment explanation
Indices: 115302712--115304304 Score: 2880
Period size: 798 Copynumber: 2.0 Consensus size: 794
115302702 AAAACTAAAA
115302712 AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
1 AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
* *
115302777 AAAGATGCATTGGATTCAGGCCATGTGCTTGAGGAAAATTTGATTCATAATGGACAAAGTTTGGC
66 AAAGATGCATTGGATTCAGGCCATGTACTTGAAGAAAATTTGATTCATAATGGACAAAGTTTGGC
*
115302842 TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAGCCTCTCGGAGTTTGTCTTCTG
131 TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
*
115302907 ACAGAAATAAGAGGTCAACTGCTAGGAAAAGGATGGCCGATGGGGGAATAAACGTTCCAGGAGAA
196 ACAGAAATAAGAGGTCAACTGCTAGGAAAAAGATGGCCGATGGGGGAATAAACGTTCCAGGAGAA
*
115302972 CATTCTGAATTGGAAACTAATAAACATAAAGATGTTGCTCACAAGGATCAGGAACATGAGTCAAA
261 CATTCTGAATTGGAAACTAATAAACATAAAGATGTTGCTCACAAGGACCAGGAACATGAGTCAAA
115303037 GAAGATTCCTTTCAATCTCGGCCTGCATCAAAGAAAAAGCGCAAAGCCAAGAAGAAAGATGTTAA
326 GAAGATTCCTTTCAATCTCGGCCTGCATCAAAGAAAAAGCGCAAAGCCAAGAAGAAAGATGTTAA
* * * * *
115303102 TGACAATTCTTTAATAGAAAATGTAGAACAAGCTATTGATCTCAATACAACCTCTGTGTGCACTT
391 TGACAATTCTTTAATAGAAAATGGAGAACAAGCTACTGATCTCAATACAACCACCGAGTGCACTT
115303167 TAGGTCAGAAACTGGAAAATACGAGGGCTGTCGTAGACCCCTTGAATACTGAATCCGTAAAACAA
456 TAGGTCAGAAACTGGAAAATACGAGGGCTGTCGTAGACCCCTTGAATACTGAATCCGTAAAACAA
*
115303232 AACCATTTGTTGACGGCCAATGCAAACGGTGGGAAGAAGAACAGGAAAAGGCAAAAATCAAATCC
521 AACCATTTGTCGACGGCCAATGCAAACGGTGGGAAGAAGAACAGGAAAAGGCAAAAATCAAATCC
* *
115303297 TAGTCAAGGAGGTAGTGATGTCTCTTCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCTGTAG
586 TAGTCAAGGAGATAGTGAAGTCTCTTCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCTGTAG
115303362 AAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACATTCT
651 AAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACATTCT
*
115303427 GCAGGTGGAGAAATATCTGAAACTGGTCTGATCTCTTCAATGAAAATGCAGGAAGTTAGTGAAAC
716 GCAGGTGGAGAAATATCTGAAACTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTGAAAC
115303492 AAATCAAGTGCCCC
781 AAATCAAGTGCCCC
115303506 AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
1 AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
* * *
115303571 AAAGATGCGTTGGATTCAGGCCGTGTACTTGAAGAAAATTTGATTCATAATGGACCAAGTTTGGC
66 AAAGATGCATTGGATTCAGGCCATGTACTTGAAGAAAATTTGATTCATAATGGACAAAGTTTGGC
* *
115303636 TTTGAATGATGCAAATCTGGGAAGCCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
131 TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
115303701 ACAGAAATAAGAGGTCAACTGCTAGGAAAAAGATGGCCGATGGGGGAATAAACGTTCCAGGAGAA
196 ACAGAAATAAGAGGTCAACTGCTAGGAAAAAGATGGCCGATGGGGGAATAAACGTTCCAGGAGAA
115303766 CATTCTGAATTGGAAACTAATAAACATAAAGATGTTGCTCACAAGGACCAGGAACATGAGTCAAA
261 CATTCTGAATTGGAAACTAATAAACATAAAGATGTTGCTCACAAGGACCAGGAACATGAGTC-AA
* *
115303831 AGAAGATTCCTTTCAATCTCGGCCTGTATCAAAGAAAAAGCGCAAAGCCGAGAAGAAAGATGTTA
325 AGAAGATTCCTTTCAATCTCGGCCTGCATCAAAGAAAAAGCGCAAAGCCAAGAAGAAAGATGTTA
*
115303896 ATGACAATTCTTTAATAGAAAATGGAGAACAAGCTACTGATCTCAATACTGTAACCACCGAGTGT
390 ATGACAATTCTTTAATAGAAAATGGAGAACAAGCTACTGATCTCAATAC---AACCACCGAGTGC
* * * *
115303961 ACTTTAGGTCAGAAATTGGAAAATACGAGGGTTGTCGTAGATCCCTTGAATGCTGAATCCGTAAA
452 ACTTTAGGTCAGAAACTGGAAAATACGAGGGCTGTCGTAGACCCCTTGAATACTGAATCCGTAAA
*
115304026 ACAAAACCATTTGTCGACGGCCAATGCAAGCGGTGGGAAGAAGAACAGGAAAAGGCAAAAATCAA
517 ACAAAACCATTTGTCGACGGCCAATGCAAACGGTGGGAAGAAGAACAGGAAAAGGCAAAAATCAA
*
115304091 ATCCTAGTCAAGTAGATAGTGAAGTCTCTTCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCT
582 ATCCTAGTCAAGGAGATAGTGAAGTCTCTTCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCT
*
115304156 GTAGAAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACG
647 GTAGAAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACA
*
115304221 TTCTGCAGGTGGAGAAATATCTGAATCTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTG
712 TTCTGCAGGTGGAGAAATATCTGAAACTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTG
115304286 AAACAAATCAAGTGCCCC
777 AAACAAATCAAGTGCCCC
115304304 A
1 A
115304305 CTTTGGGGGT
Statistics
Matches: 765, Mismatches: 30, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
794 312 0.41
795 112 0.15
798 341 0.45
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (794 bp):
AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
AAAGATGCATTGGATTCAGGCCATGTACTTGAAGAAAATTTGATTCATAATGGACAAAGTTTGGC
TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
ACAGAAATAAGAGGTCAACTGCTAGGAAAAAGATGGCCGATGGGGGAATAAACGTTCCAGGAGAA
CATTCTGAATTGGAAACTAATAAACATAAAGATGTTGCTCACAAGGACCAGGAACATGAGTCAAA
GAAGATTCCTTTCAATCTCGGCCTGCATCAAAGAAAAAGCGCAAAGCCAAGAAGAAAGATGTTAA
TGACAATTCTTTAATAGAAAATGGAGAACAAGCTACTGATCTCAATACAACCACCGAGTGCACTT
TAGGTCAGAAACTGGAAAATACGAGGGCTGTCGTAGACCCCTTGAATACTGAATCCGTAAAACAA
AACCATTTGTCGACGGCCAATGCAAACGGTGGGAAGAAGAACAGGAAAAGGCAAAAATCAAATCC
TAGTCAAGGAGATAGTGAAGTCTCTTCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCTGTAG
AAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACATTCT
GCAGGTGGAGAAATATCTGAAACTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTGAAAC
AAATCAAGTGCCCC
Found at i:115313039 original size:46 final size:46
Alignment explanation
Indices: 115312989--115313164 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
115312979 TGGTTGAGCA
115312989 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115313035 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
115313080 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115313128 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
115313165 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:115313145 original size:93 final size:93
Alignment explanation
Indices: 115312986--115313157 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
115312976 GGATGGTTGA
* *
115312986 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115313051 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
115313079 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115313144 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
115313158 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:115321461 original size:30 final size:29
Alignment explanation
Indices: 115321401--115321467 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
115321391 AAATATGTTG
115321401 ATTGATTTTAATTATTTTATATGAAATTA
1 ATTGATTTTAATTATTTTATATGAAATTA
* * *
115321430 ATTGATGTTTAATTATTTTATGTGGATTTA
1 ATTGAT-TTTAATTATTTTATATGAAATTA
115321460 ATTG-TTTT
1 ATTGATTTT
115321468 CTAAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 7 0.21
30 24 0.71
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (29 bp):
ATTGATTTTAATTATTTTATATGAAATTA
Found at i:115322334 original size:3 final size:3
Alignment explanation
Indices: 115322326--115322364 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
115322316 ATATATGTTA
115322326 AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
115322365 TATATTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:115322339 original size:20 final size:20
Alignment explanation
Indices: 115322326--115322364 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
115322316 ATATATGTTA
115322326 AATAATAATAATATAATAAT
1 AATAATAATAATATAATAAT
115322346 AATAATAATAATAATAATA
1 AATAATAATAAT-ATAATA
115322365 TATATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAATAATAATATAATAAT
Found at i:115329115 original size:113 final size:111
Alignment explanation
Indices: 115328923--115329129 Score: 256
Period size: 113 Copynumber: 1.8 Consensus size: 111
115328913 ATATATATGG
** *
115328923 TTCATGATAAAATTAATTTTAATCTATATACATTATTAAATCTATGTTATTTTATACATATGATT
1 TTCATGATAAAATTAATTTTAATCTATATACATTATTAAATCTACATTATTTTATACATATAATT
** * *
115328988 CTTTTAAGTTTATTTATATACATAATTATGTTTTAAAAATCTATTATA
66 CTTCCAAATCTATTTATATAC-T-ATTATGTTTTAAAAATCTATTATA
* * * *
115329036 TTCATGGTAAAATTAA-TTTAATTTTATATGCATTATTAACTCTACATTATTTT-TACATATAAT
1 TTCATGATAAAATTAATTTTAA-TCTATATACATTATTAAATCTACATTATTTTATACATATAAT
*
115329099 TACTTCCAAATCTATTTATGTACTATTATGT
65 T-CTTCCAAATCTATTTATATACTATTATGT
115329130 GTATAGTTTA
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
111 7 0.09
112 16 0.20
113 57 0.71
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (111 bp):
TTCATGATAAAATTAATTTTAATCTATATACATTATTAAATCTACATTATTTTATACATATAATT
CTTCCAAATCTATTTATATACTATTATGTTTTAAAAATCTATTATA
Found at i:115329475 original size:2 final size:2
Alignment explanation
Indices: 115329468--115329510 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
115329458 TATATGATGC
115329468 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
115329510 T
1 T
115329511 TGTTGTTGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:115330644 original size:100 final size:100
Alignment explanation
Indices: 115330471--115330661 Score: 283
Period size: 100 Copynumber: 1.9 Consensus size: 100
115330461 ATCGCCAACC
* *
115330471 TGCTCTCTTGCTGCCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCAATACATGG
1 TGCTCTCTTGCTACCTCAGAGAGATAAGACTAGTGGCTAAAATCTGCTCCATTGCCAATACATGG
*
115330536 AGATAAGATTCGCCATCTTCGATCTGCTTGACCGT
66 AAATAAGATTCGCCATCTTCGATCTGCTTGACCGT
** * * * *
115330571 TGCTCTCTTGCTATTTCAGATAGATAAGACTGGTGGTTTAAATCTGCTCCATTGCCAATACATGG
1 TGCTCTCTTGCTACCTCAGAGAGATAAGACTAGTGGCTAAAATCTGCTCCATTGCCAATACATGG
* *
115330636 AAATAAGATTTGCCATCTTTGATCTG
66 AAATAAGATTCGCCATCTTCGATCTG
115330662 GTCCGCTACT
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (100 bp):
TGCTCTCTTGCTACCTCAGAGAGATAAGACTAGTGGCTAAAATCTGCTCCATTGCCAATACATGG
AAATAAGATTCGCCATCTTCGATCTGCTTGACCGT
Found at i:115330865 original size:176 final size:177
Alignment explanation
Indices: 115330571--115331351 Score: 946
Period size: 176 Copynumber: 4.4 Consensus size: 177
115330561 GCTTGACCGT
** * * * * * *
115330571 TGCTCTCTTGCTATTTCAGATAGATAAGACTGGTGGTTTAAATCTGCTCCATTGCCAATACATGG
1 TGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGG
* * * * * *
115330636 AAATAAGATTTGCCATCTTTGATCTGGTCCGCTACTACTGAGGGAGATAAGATCCTT-AATCTTC
66 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGAT-CTTCAATCTTC
* * *
115330700 AGTCTACTTCTTTTCTACCTCAGGAAGATAAGACT-CAATCTTCAACA
130 AGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACC
* * *
115330747 TGCTCTCTTGTTACATCAGCGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGG
1 TGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGG
* * * *
115330812 AGATAAGATTCGCCATCTTCGATTTGCTCCACTATTGCTTAGGGAGATAAGATCTTCAATCTTTA
66 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCA
* *
115330877 GTCTGCTT-TCTTGCTACCTTAGGAAGATAAGACTACCAT-TTCCAACC
131 GTCTGCTTCT-TTGCTACCTCAGGAAGATAAGACTACAATCTT-CAACC
*
115330924 TGCTCTCTTGCTACCTGAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGG
1 TGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGG
* * * *
115330989 AGATAAGATTTGCC-TCTTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTTCAATCTTC
66 AGATAAGATTCGCCATC-TTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTC
* * * * *
115331053 AGGCTGCTTCCTCGCTACCTCAGGAAGATAAGACTGCAATCGTCAACC
130 AGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACC
*
115331101 TGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGG-TAAAATCTGCTCCATTGCCGATACATGG
1 TGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGG
* * * *
115331165 AGATAAGATTCACCATCTTCGATCTGCTCCACAACTACTTAGGGAGATAAGATCTTAAATCTTTA
66 AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCA
* * *** * * *
115331230 GTCTGCTTCTTTGCTACTTTAGGAAGATAAGACTTGTATATTGAGCC
131 GTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACC
* * * * * * ** *
115331277 TGCTC-CACTGCAACTTTAGTGAGATAAGGCTGGCAGCTTAAATCTGCTCCATTGCCGATACATG
1 TGCTCTC-TTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
115331341 GAGATAAGATT
65 GAGATAAGATT
115331352 TGTTGTCTTT
Statistics
Matches: 521, Mismatches: 74, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
175 5 0.01
176 281 0.54
177 234 0.45
178 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (177 bp):
TGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGG
AGATAAGATTCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCA
GTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACC
Found at i:115331104 original size:44 final size:45
Alignment explanation
Indices: 115331032--115331128 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
115331022 ACTGCTTAAG
* * **
115331032 GAGATAAGATCTTCAATCTTCAGGCTGCT-TCCTCGCTACCTCAG-
1 GAGATAAGATCTGCAATCGTCAACCTGCTCT-CTCGCTACCTCAGA
*
115331076 GAAGATAAGA-CTGCAATCGTCAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGATCTGCAATCGTCAACCTGCTCTCTCGCTACCTCAGA
115331121 GAGATAAG
1 GAGATAAG
115331129 GCCAGTGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
44 35 0.78
45 10 0.22
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (45 bp):
GAGATAAGATCTGCAATCGTCAACCTGCTCTCTCGCTACCTCAGA
Found at i:115331217 original size:353 final size:353
Alignment explanation
Indices: 115330571--115331394 Score: 1068
Period size: 353 Copynumber: 2.3 Consensus size: 353
115330561 GCTTGACCGT
* * * * *
115330571 TGCTCTCTTGCTATTTCAGATAGATAAGACTGGTGGTTTAAATCTGCTCCATTGCCAATACATGG
1 TGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGG
* ** * *
115330636 AAATAAGATTTGCCATCTTTGATCTGGTCCGCTACTACTGAGGGAGATAAGATCCTTAATCTTCA
66 AGATAAGATTTGCCATCTTTGATCTACTCCACTACTACTGAAGGAGATAAGATCCTTAATCTTCA
* * ** * *
115330701 GTCTACTTCTTTTCTACCTCAGGAAGATAAGACTCAATCTTCAACATGCTCTCTTGTTACATCAG
131 GGCTACTTCCTCGCTACCTCAGGAAGATAAGACTCAATCGTCAACATGCTCTCTTGCTACATCAG
* * *
115330766 CGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTT
196 AGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTT
* * * * *
115330831 CGATTTGCTCCACTATTGCTTAGGGAGATAAGATCTTCAATCTTTAGTCTGCTT-TCTTGCTACC
261 CGATCTGCTCCACAACTACTTAGGGAGATAAGATCTTAAATCTTTAGTCTGCTTCT-TTGCTACC
115330895 TTAGGAAGATAAGACTACCAT-TTCCAACC
325 TTAGGAAGATAAGACTACCATATT-CAACC
* * * *
115330924 TGCTCTCTTGCTACCTGAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGG
1 TGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGG
* *
115330989 AGATAAGATTTGCC-TCTTTCGATCTACTCCACTACTGCTTAAGGAGATAAGAT-CTTCAATCTT
66 AGATAAGATTTGCCATCTTT-GATCTACTCCACTACTACTGAAGGAGATAAGATCCTT-AATCTT
* * *
115331052 CAGGCTGCTTCCTCGCTACCTCAGGAAGATAAGACTGCAATCGTCAACCTGCTCTCTTGCTACCT
129 CAGGCTACTTCCTCGCTACCTCAGGAAGATAAGACT-CAATCGTCAACATGCTCTCTTGCTACAT
115331117 CAGAGAGATAAGGCCAGTGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAT
193 CAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAT
115331181 CTTCGATCTGCTCCACAACTACTTAGGGAGATAAGATCTTAAATCTTTAGTCTGCTTCTTTGCTA
258 CTTCGATCTGCTCCACAACTACTTAGGGAGATAAGATCTTAAATCTTTAGTCTGCTTCTTTGCTA
* *** * *
115331246 CTTTAGGAAGATAAGACTTGTATATTGAGCC
323 CCTTAGGAAGATAAGACTACCATATTCAACC
* * * * **
115331277 TGCTC-CACTGCAACTTTAGTGAGATAAGGCTGGCAGCTTAAATCTGCTCCATTGCCGATACATG
1 TGCTCTC-TTGCTACTTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATG
*** * * *
115331341 GAGATAAGATTTGTTGTCTTT-AGTCTGCTCCACTACAACCTCAAGGAGATAAGA
65 GAGATAAGATTTGCCATCTTTGA-TCTACTCCACTACTA-CTGAAGGAGATAAGA
115331395 CCCGTCATTT
Statistics
Matches: 408, Mismatches: 54, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
352 10 0.02
353 334 0.82
354 64 0.16
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (353 bp):
TGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGG
AGATAAGATTTGCCATCTTTGATCTACTCCACTACTACTGAAGGAGATAAGATCCTTAATCTTCA
GGCTACTTCCTCGCTACCTCAGGAAGATAAGACTCAATCGTCAACATGCTCTCTTGCTACATCAG
AGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTT
CGATCTGCTCCACAACTACTTAGGGAGATAAGATCTTAAATCTTTAGTCTGCTTCTTTGCTACCT
TAGGAAGATAAGACTACCATATTCAACC
Found at i:115331779 original size:63 final size:64
Alignment explanation
Indices: 115331550--115331804 Score: 359
Period size: 64 Copynumber: 4.0 Consensus size: 64
115331540 TTCATGTATC
* * * * * * *
115331550 ATGCTTATGCCAAATAACTAAGATGCTATGATCAAAATGAATCAACTGTTCCTAATTAGATTTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
115331614 ATGCTTATGTCAAATAATTAGGGTGCCATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
115331678 ATGCTTATGTCAAATAATTAGGATGCTATGATAAAAATGAATTAAATGCTCCTAACTAGATGTA
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
115331742 ATG-TGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
115331805 TTATGAATGA
Statistics
Matches: 169, Mismatches: 22, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
63 54 0.32
64 115 0.68
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:115331862 original size:15 final size:14
Alignment explanation
Indices: 115331835--115331861 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
115331825 CAAAAATGAG
115331835 AATGATCTTTTTTA
1 AATGATCTTTTTTA
115331849 AATGATCTTTTTT
1 AATGATCTTTTTT
115331862 TCTTTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (14 bp):
AATGATCTTTTTTA
Found at i:115332950 original size:22 final size:22
Alignment explanation
Indices: 115332901--115332967 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 22
115332891 TGGCCTCTCC
* * *
115332901 TTTTCTTTCTT-TTTCTTTTTA
1 TTTTCTTTTTTCTTTGTTTTAA
*
115332922 TTTT-TTTATTCTTT-TTTTAA
1 TTTTCTTTTTTCTTTGTTTTAA
* *
115332942 TTTTCTTTTTTTTTTGTTTTGA
1 TTTTCTTTTTTCTTTGTTTTAA
115332964 TTTT
1 TTTT
115332968 GATTTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
20 14 0.37
21 15 0.39
22 9 0.24
ACGTcount: A:0.07, C:0.07, G:0.03, T:0.82
Consensus pattern (22 bp):
TTTTCTTTTTTCTTTGTTTTAA
Found at i:115332956 original size:17 final size:17
Alignment explanation
Indices: 115332906--115332956 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 17
115332896 TCTCCTTTTC
*
115332906 TTTCTTTTTCTTTTTATT
1 TTTCTTTTT-TTTTTAAT
*
115332924 TTTTTATTCTTTTTTTAAT
1 TTTCT-TT-TTTTTTTAAT
115332943 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
115332957 GTTTTGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 7 0.25
18 6 0.21
19 13 0.46
20 2 0.07
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTCTTTTTTTTTTAAT
Found at i:115346924 original size:22 final size:23
Alignment explanation
Indices: 115346896--115346938 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
115346886 AAAAACAAAT
* *
115346896 AATAAAATCTTAAA-TAAAAACG
1 AATAAAAACATAAATTAAAAACG
115346918 AATAAAAACATAAATTAAAAA
1 AATAAAAACATAAATTAAAAA
115346939 AACTCGATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (23 bp):
AATAAAAACATAAATTAAAAACG
Found at i:115347817 original size:10 final size:11
Alignment explanation
Indices: 115347783--115347814 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
115347773 ACAAATTTTA
115347783 TTGCTGTC-AT
1 TTGCTGTCTAT
115347793 TTGCTGT-TAT
1 TTGCTGTCTAT
115347803 TTGCTGTCTAT
1 TTGCTGTCTAT
115347814 T
1 T
115347815 GCTTGTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.09, C:0.16, G:0.19, T:0.56
Consensus pattern (11 bp):
TTGCTGTCTAT
Found at i:115348156 original size:19 final size:20
Alignment explanation
Indices: 115348120--115348157 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
115348110 TTGAATTTTA
* *
115348120 TTTTGTTATTTTGTTTTTGC
1 TTTTGTTATTCTGGTTTTGC
115348140 TTTT-TTATTCTGGTTTTG
1 TTTTGTTATTCTGGTTTTG
115348158 GTATGGATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.05, C:0.05, G:0.16, T:0.74
Consensus pattern (20 bp):
TTTTGTTATTCTGGTTTTGC
Found at i:115354013 original size:2 final size:2
Alignment explanation
Indices: 115354006--115354035 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
115353996 AGGTTGACAA
*
115354006 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115354036 TTGTAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:115356128 original size:18 final size:18
Alignment explanation
Indices: 115356102--115356144 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
115356092 ATTATAAAAA
115356102 AAAAC-TATATCATTAAT
1 AAAACATATATCATTAAT
115356119 AAAACATATATCATTAAT
1 AAAACATATATCATTAAT
115356137 AAAACATA
1 AAAACATA
115356145 CTTAAGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAACATATATCATTAAT
Found at i:115356189 original size:30 final size:31
Alignment explanation
Indices: 115356132--115356201 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
115356122 ACATATATCA
* * *
115356132 TTAATAAAACATACTTAAGATATTTAAAAAT
1 TTAAAAAAACATACTTAAAATATTTAAAAAC
*
115356163 TTATAAAAACATA-TTAAAAT-TCTTAAAAAC
1 TTAAAAAAACATACTTAAAATAT-TTAAAAAC
115356193 TTAAAAAAA
1 TTAAAAAAA
115356202 TCGTAAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 1 0.03
30 21 0.64
31 11 0.33
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (31 bp):
TTAAAAAAACATACTTAAAATATTTAAAAAC
Found at i:115356200 original size:19 final size:20
Alignment explanation
Indices: 115356178--115356229 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
115356168 AAAACATATT
115356178 AAAATTCTTAAAAACT-TAAA
1 AAAATTCTTAAAAA-TATAAA
*
115356198 AAAA-TCGTAAAAATATAAA
1 AAAATTCTTAAAAATATAAA
*
115356217 AAAATTATTAAAA
1 AAAATTCTTAAAA
115356230 TTGATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 10 0.37
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAATTCTTAAAAATATAAA
Found at i:115356229 original size:9 final size:9
Alignment explanation
Indices: 115356156--115356260 Score: 66
Period size: 10 Copynumber: 10.9 Consensus size: 9
115356146 TTAAGATATT
115356156 TAAAAATTTA
1 TAAAAA-TTA
*
115356166 TAAAAACATA
1 TAAAAA-TTA
* *
115356176 TTAAAATTCT
1 TAAAAATT-A
115356186 TAAAAACTTA
1 TAAAAA-TTA
* **
115356196 AAAAAATCG
1 TAAAAATTA
115356205 TAAAAATATA
1 TAAAAAT-TA
*
115356215 AAAAAATTA
1 TAAAAATTA
*
115356224 TTAAAATTGA
1 TAAAAATT-A
*
115356234 TATAAACTTA
1 TA-AAAATTA
115356244 TAAAAATTA
1 TAAAAATTA
115356253 TAAAAATT
1 TAAAAATT
115356261 TGAACCAAAT
Statistics
Matches: 71, Mismatches: 19, Indels: 11
0.70 0.19 0.11
Matches are distributed among these distances:
9 30 0.42
10 34 0.48
11 7 0.10
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:115356230 original size:48 final size:47
Alignment explanation
Indices: 115356164--115356259 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 47
115356154 TTTAAAAATT
* * *
115356164 TATAAAAACATATTAAAATTCTTAAAAACTTAAAAAAATCGTAAAAA
1 TATAAAAAAATATTAAAATTCATAAAAACTTAAAAAAATCATAAAAA
* * * *
115356211 TATAAAAAAATTATTAAAATTGATATAAACTTATAAAAATTATAAAAA
1 TATAAAAAAA-TATTAAAATTCATAAAAACTTAAAAAAATCATAAAAA
115356259 T
1 T
115356260 TTGAACCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 9 0.22
48 32 0.78
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.31
Consensus pattern (47 bp):
TATAAAAAAATATTAAAATTCATAAAAACTTAAAAAAATCATAAAAA
Found at i:115358170 original size:37 final size:37
Alignment explanation
Indices: 115358111--115358248 Score: 213
Period size: 37 Copynumber: 3.7 Consensus size: 37
115358101 AGCTCAGACG
* *
115358111 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
*
115358148 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
* * *
115358185 TACTCTCCACACATAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
*
115358222 TAATCTCCACACGTAGTCATCGGGTCT
1 AAATCTCCACACGTAGTCATCGGGTCT
115358249 CACCCGGAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 92 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
Found at i:115358208 original size:74 final size:74
Alignment explanation
Indices: 115358114--115358256 Score: 243
Period size: 74 Copynumber: 1.9 Consensus size: 74
115358104 TCAGACGAAA
* *
115358114 TCTCCACACGAAGTTATCGGGTCTTACCTGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 TCTCCACACGAAGTCATCGGGTCTTACCTGGACAAAATCTCCACACGTAGTCATCGGGTCTCACC
115358179 CGGACATAC
66 CGGACATAC
*
115358188 TCTCCACAC-ATAGTCATCGGGTCTTACCTGGACATAATCTCCACACGTAGTCATCGGGTCTCAC
1 TCTCCACACGA-AGTCATCGGGTCTTACCTGGACAAAATCTCCACACGTAGTCATCGGGTCTCAC
115358252 CCGGA
65 CCGGA
115358257 ATATATTTCC
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 1 0.02
74 64 0.98
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (74 bp):
TCTCCACACGAAGTCATCGGGTCTTACCTGGACAAAATCTCCACACGTAGTCATCGGGTCTCACC
CGGACATAC
Found at i:115358471 original size:47 final size:47
Alignment explanation
Indices: 115358411--115358652 Score: 369
Period size: 47 Copynumber: 5.1 Consensus size: 47
115358401 CCTACATATT
* * *
115358411 TCACACTA-GCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACA-TAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * * *
115358458 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACGTTCA
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
115358505 TCACATTGGCCATCCGGCCTTATCACATATATGCATGTTCACGTTCA
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
115358552 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
115358599 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
115358646 TCACATA
1 TCACATA
115358653 AAATCCTAAA
Statistics
Matches: 179, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 178 0.99
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.31
Consensus pattern (47 bp):
TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:115358579 original size:22 final size:22
Alignment explanation
Indices: 115358551--115358627 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
115358541 GTTCACGTTC
115358551 ATCACATAGGCCATTCGGCCTT
1 ATCACATAGGCCATTCGGCCTT
* * *
115358573 ATCACATATATG-CATGTTC-ACATT
1 ATCAC--ATAGGCCA--TTCGGCCTT
115358597 CATCACATAGGCCATTCGGCCTT
1 -ATCACATAGGCCATTCGGCCTT
115358620 ATCACATA
1 ATCACATA
115358628 TATGCATGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 16 0.38
23 9 0.21
24 9 0.21
25 8 0.19
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATAGGCCATTCGGCCTT
Found at i:115358683 original size:94 final size:90
Alignment explanation
Indices: 115358486--115358672 Score: 225
Period size: 94 Copynumber: 2.0 Consensus size: 90
115358476 CTTATCACAC
* * * *
115358486 ATATGCATGCTCACGTTCATCACATTGGCCATCCGGCCTTATCACATATATGCATGTTCACGTTC
1 ATATGCATGTTCACATTCATCACATAGGCCATCCGGCCTTATCACATATATGCATGTTCACATTC
* * * *
115358551 ATCACATAGGCCATTCGGCCTTATCACAT
66 ATCACATA-G-AAAT--GCCTAATCAAAT
*
115358580 ATATGCATGTTCACATTCATCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATATGCATGTTCACATTCATCACATAGGCCATCCGGCCTTATCACATATATGCATGTTCACATTC
115358645 ATCACATA-AAAT-CCTAAATCAAAAT
66 ATCACATAGAAATGCCT-AATC-AAAT
115358670 ATA
1 ATA
115358673 AATTTTCATG
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
88 3 0.04
89 3 0.04
90 6 0.07
91 2 0.02
94 68 0.83
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (90 bp):
ATATGCATGTTCACATTCATCACATAGGCCATCCGGCCTTATCACATATATGCATGTTCACATTC
ATCACATAGAAATGCCTAATCAAAT
Found at i:115376325 original size:14 final size:14
Alignment explanation
Indices: 115376306--115376344 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
115376296 TTGTTTCACT
115376306 GAAAATGACTTT-TA
1 GAAAATGA-TTTCTA
115376320 GAAAATGATTTCTA
1 GAAAATGATTTCTA
115376334 GAAAATGATTT
1 GAAAATGATTT
115376345 ATTTTTCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 3 0.12
14 21 0.88
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:115378286 original size:2 final size:2
Alignment explanation
Indices: 115378281--115378317 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
115378271 ACACACTTTC
115378281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115378318 ACATTTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:115378959 original size:36 final size:34
Alignment explanation
Indices: 115378903--115379012 Score: 102
Period size: 36 Copynumber: 3.2 Consensus size: 34
115378893 CAAAAATATC
* *
115378903 AAATATAAAAATTTTCAAAATTATTAAAAAATTTAA
1 AAAT-TAAAAAATTTAAAAATTA-TAAAAAATTTAA
115378939 AAATTCAAAAAATTTAAAAATTATAAAATAA-TTAA
1 AAATT-AAAAAATTTAAAAATTATAAAA-AATTTAA
* *
115378974 AATATTATTAAAATTCAAAAA--AT-AAAAATTTAA
1 AA-ATTA-AAAAATTTAAAAATTATAAAAAATTTAA
115379007 AAATTA
1 AAATTA
115379013 TTAAAATATA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
32 6 0.09
33 9 0.14
34 2 0.03
35 13 0.20
36 35 0.54
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.34
Consensus pattern (34 bp):
AAATTAAAAAATTTAAAAATTATAAAAAATTTAA
Found at i:115378965 original size:9 final size:9
Alignment explanation
Indices: 115378906--115379024 Score: 76
Period size: 8 Copynumber: 13.7 Consensus size: 9
115378896 AAATATCAAA
115378906 TATAAAAAT
1 TATAAAAAT
* *
115378915 TTTCAAAAT
1 TATAAAAAT
115378924 TATTAAAAAAT
1 TA-T-AAAAAT
115378935 T-TAAAAAT
1 TATAAAAAT
115378943 TCA-AAAAAT
1 T-ATAAAAAT
115378952 T-TAAAAAT
1 TATAAAAAT
115378960 TATAAAATAAT
1 TAT-AAA-AAT
*
115378971 TA-AAATAT
1 TATAAAAAT
*
115378979 TATTAAAAT
1 TATAAAAAT
*
115378988 T-CAAAAA-
1 TATAAAAAT
115378995 -ATAAAAAT
1 TATAAAAAT
115379003 T-TAAAAAT
1 TATAAAAAT
*
115379011 TATTAAAA-
1 TATAAAAAT
115379019 TATAAA
1 TATAAA
115379025 TATTTCTTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 27
0.69 0.10 0.22
Matches are distributed among these distances:
7 5 0.06
8 35 0.41
9 30 0.35
10 4 0.05
11 11 0.13
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (9 bp):
TATAAAAAT
Found at i:115379016 original size:43 final size:42
Alignment explanation
Indices: 115378884--115379021 Score: 145
Period size: 43 Copynumber: 3.2 Consensus size: 42
115378874 GCCATGTTGA
* * * *
115378884 TAAAAAATTCAAAAATATC-AAATATAAAAATTTTCAAAATTAT
1 TAAAATATTTAAAAAT-TCAAAAAATAAAAA-TTTAAAAATTAT
* *
115378927 TAAAAAATTTAAAAATTCAAAAAATTTAAAAA-TTATAAAATAAT
1 TAAAATATTTAAAAATTCAAAAAA--TAAAAATTTA-AAAATTAT
*
115378971 TAAAATATTATTAAAATTCAAAAAATAAAAATTTAAAAATTAT
1 TAAAATATT-TAAAAATTCAAAAAATAAAAATTTAAAAATTAT
115379014 TAAAATAT
1 TAAAATAT
115379022 AAATATTTCT
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
42 2 0.02
43 42 0.51
44 18 0.22
45 20 0.24
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (42 bp):
TAAAATATTTAAAAATTCAAAAAATAAAAATTTAAAAATTAT
Found at i:115379024 original size:17 final size:17
Alignment explanation
Indices: 115378919--115379024 Score: 94
Period size: 17 Copynumber: 6.1 Consensus size: 17
115378909 AAAAATTTTC
115378919 AAAATTATTAAAAAATTTA
1 AAAATTATT--AAAATTTA
*
115378938 AAAATTCA-AAAAATTTA
1 AAAATT-ATTAAAATTTA
115378955 AAAATTA-TAAAATAATTA
1 AAAATTATTAAAAT--TTA
*
115378973 AAATATTATTAAAATTCA
1 AAA-ATTATTAAAATTTA
*
115378991 AAAA--ATAAAAATTTA
1 AAAATTATTAAAATTTA
*
115379006 AAAATTATTAAAATATA
1 AAAATTATTAAAATTTA
115379023 AA
1 AA
115379025 TATTTCTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
15 13 0.18
16 6 0.08
17 26 0.36
18 11 0.15
19 10 0.14
20 7 0.10
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTATTAAAATTTA
Found at i:115380156 original size:19 final size:20
Alignment explanation
Indices: 115380132--115380169 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
115380122 CTTGGAACCA
115380132 AGAATTATA-GTTTTGACCC
1 AGAATTATATGTTTTGACCC
*
115380151 AGAATTTTATGTTTTGACC
1 AGAATTATATGTTTTGACC
115380170 AAATTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (20 bp):
AGAATTATATGTTTTGACCC
Found at i:115380297 original size:2 final size:2
Alignment explanation
Indices: 115380290--115380332 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
115380280 TTTATTTGAT
115380290 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
115380332 T
1 T
115380333 TTGTATCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:115389218 original size:14 final size:14
Alignment explanation
Indices: 115389199--115389227 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
115389189 GAACCAGGTG
115389199 CTGAATTTTTGCCT
1 CTGAATTTTTGCCT
115389213 CTGAATTTTTGCCT
1 CTGAATTTTTGCCT
115389227 C
1 C
115389228 GGGAAACATT
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:0.14, C:0.24, G:0.14, T:0.48
Consensus pattern (14 bp):
CTGAATTTTTGCCT
Found at i:115391532 original size:22 final size:22
Alignment explanation
Indices: 115391489--115391532 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
115391479 GCAAGACTAA
* *
115391489 AAAAAATTCTATAAGAGTAGAC
1 AAAAAATTCTAAAAGAGAAGAC
* *
115391511 AAAAAATTTTAAAAGTGAAGAC
1 AAAAAATTCTAAAAGAGAAGAC
115391533 CTATTAAACA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
AAAAAATTCTAAAAGAGAAGAC
Found at i:115401032 original size:25 final size:27
Alignment explanation
Indices: 115400995--115401047 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
115400985 TCAAACATGC
115400995 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
115401021 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
115401047 A
1 A
115401048 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:115402569 original size:26 final size:26
Alignment explanation
Indices: 115402533--115402642 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
115402523 CATGAAATTC
115402533 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
115402559 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
115402585 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
115402611 TTATCATTG-AACATTTACCTAGCCTA
1 TTATCA-TGAAACATTTACCTAACCCA
115402637 TTATCA
1 TTATCA
115402643 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:115403822 original size:26 final size:24
Alignment explanation
Indices: 115403793--115403872 Score: 58
Period size: 24 Copynumber: 3.2 Consensus size: 24
115403783 TAAACTATTC
115403793 TATATGCTATTCATTTTAAA-TTTT
1 TATAT-CTATTCATTTTAAATTTTT
* *
115403817 TATATAATATTCATATTAAATTATTT
1 TATAT-CTATTCATTTTAAATT-TTT
*
115403843 TA-ATACATATT-ATTTTGAATTTTTT
1 TATAT-C-TATTCATTTT-AAATTTTT
115403868 TATAT
1 TATAT
115403873 TAATTATTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
24 17 0.38
25 13 0.29
26 15 0.33
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (24 bp):
TATATCTATTCATTTTAAATTTTT
Found at i:115403827 original size:24 final size:24
Alignment explanation
Indices: 115403800--115403867 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
115403790 TTCTATATGC
115403800 TATTCATTTTAAATTTTTATATA-A
1 TATTCATTTTAAATTTTT-TATACA
*
115403824 TATTCATATTAAATTATTTTAATACA
1 TATTCATTTTAAATT-TTTT-ATACA
*
115403850 TATT-ATTTTGAATTTTTT
1 TATTCATTTTAAATTTTTT
115403868 TATATTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 19 0.50
25 14 0.37
26 5 0.13
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (24 bp):
TATTCATTTTAAATTTTTTATACA
Found at i:115404205 original size:25 final size:24
Alignment explanation
Indices: 115404160--115404214 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
115404150 TATTAATGGT
* * *
115404160 TTTAAATTTTTTTATATTATTTAC
1 TTTAAATTCTTTTATAGTATTAAC
*
115404184 TTTAAATTGCTTTTATAGTATTAAT
1 TTTAAATT-CTTTTATAGTATTAAC
115404209 TTTAAA
1 TTTAAA
115404215 CCTTTATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTAAATTCTTTTATAGTATTAAC
Found at i:115406868 original size:42 final size:42
Alignment explanation
Indices: 115406780--115406926 Score: 147
Period size: 42 Copynumber: 3.5 Consensus size: 42
115406770 AAAAAAGCCT
**
115406780 CTATAGAACATGACCTTTAGTGGCG-TTTCTCACAAAAAAACT-
1 CTATAGAACATGACCTTTAGTGGCGTTTTCTCAC-AAACGA-TG
*
115406822 CTATAGAACATGACCTTTAGCT-GCGTTTTTTCACAAACGATG
1 CTATAGAACATGACCTTTAG-TGGCGTTTTCTCACAAACGATG
* * ** * **
115406864 CTATAGAAGAAGATATTTAGTGGCGCTTTTCCCACAAACGCCG
1 CTATAGAACATGACCTTTAGTGGCG-TTTTCTCACAAACGATG
115406907 CTATAGAACATGACCTTTAG
1 CTATAGAACATGACCTTTAG
115406927 CAGCGGTTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 46 0.54
43 37 0.44
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (42 bp):
CTATAGAACATGACCTTTAGTGGCGTTTTCTCACAAACGATG
Found at i:115406926 original size:43 final size:42
Alignment explanation
Indices: 115406780--115406940 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 42
115406770 AAAAAAGCCT
* ** *
115406780 CTATAGAACATGACCTTTAGTGGCG-TTTCTCACAAAAAAACT
1 CTATAGAACATGACCTTTAGTGGCGTTTTCCCAC-AAACGACG
** *
115406822 CTATAGAACATGACCTTTAGCT-GCGTTTTTTCACAAACGATG
1 CTATAGAACATGACCTTTAG-TGGCGTTTTCCCACAAACGACG
* * ** *
115406864 CTATAGAAGAAGATATTTAGTGGCGCTTTTCCCACAAACGCCG
1 CTATAGAACATGACCTTTAGTGGCG-TTTTCCCACAAACGACG
**
115406907 CTATAGAACATGACCTTTAGCAGCGGTTTTCCCA
1 CTATAGAACATGACCTTTAGTGGC-GTTTTCCCA
115406941 AGAACGTTGC
Statistics
Matches: 95, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 46 0.48
43 47 0.49
44 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (42 bp):
CTATAGAACATGACCTTTAGTGGCGTTTTCCCACAAACGACG
Found at i:115408306 original size:24 final size:24
Alignment explanation
Indices: 115408279--115408326 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
115408269 AACTAAACTT
115408279 CCAAGCATGAATGAAGGATAATTG
1 CCAAGCATGAATGAAGGATAATTG
*
115408303 CCAAGCATGAATGGAGGATAATTG
1 CCAAGCATGAATGAAGGATAATTG
115408327 ATATAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (24 bp):
CCAAGCATGAATGAAGGATAATTG
Found at i:115409148 original size:16 final size:13
Alignment explanation
Indices: 115409127--115409161 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
115409117 AAATAGTTCA
* *
115409127 AAAATAGTATGTT
1 AAAATAATAGGTT
115409140 AAAATAATAGGTT
1 AAAATAATAGGTT
115409153 AAAATAATA
1 AAAATAATA
115409162 ATAAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (13 bp):
AAAATAATAGGTT
Found at i:115410525 original size:14 final size:14
Alignment explanation
Indices: 115410506--115410547 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
115410496 GGACCTTTAA
115410506 ATTATTTTGGTTTT
1 ATTATTTTGGTTTT
*
115410520 ATTATTTTTGTTTT
1 ATTATTTTGGTTTT
*
115410534 ATTTTTTTGGTTTT
1 ATTATTTTGGTTTT
115410548 GGTTTTGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (14 bp):
ATTATTTTGGTTTT
Found at i:115416592 original size:18 final size:19
Alignment explanation
Indices: 115416544--115416635 Score: 161
Period size: 18 Copynumber: 4.9 Consensus size: 19
115416534 ATAATCTTCA
115416544 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
115416563 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
115416582 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
115416600 ATGAT-TGCAATCGTAGAT
1 ATGATATGCAATCTTAGAT
115416618 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
115416636 AGATATGATT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
18 35 0.50
19 35 0.50
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:115416661 original size:22 final size:22
Alignment explanation
Indices: 115416544--115416658 Score: 96
Period size: 18 Copynumber: 5.8 Consensus size: 22
115416534 ATAATCTTCA
115416544 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
115416563 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
115416582 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
115416600 ATGAT-TGCAATC---GTAGAT
1 ATGATATGCAATCTTAGAAGAT
115416618 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
115416640 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
115416659 GATTTAATTT
Statistics
Matches: 86, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
18 34 0.40
19 31 0.36
22 9 0.10
23 12 0.14
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:115416949 original size:17 final size:17
Alignment explanation
Indices: 115416925--115416959 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
115416915 TGTTTCCCTG
*
115416925 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
115416943 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
115416960 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:115425223 original size:78 final size:77
Alignment explanation
Indices: 115425120--115425351 Score: 367
Period size: 78 Copynumber: 3.0 Consensus size: 77
115425110 TTTTCACATC
* *
115425120 GAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGACATAACAGA
115425185 TCTGACCTTCATT
65 TCTGACCTTCATT
*
115425198 GAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC-GGGAGCAGATCGAAGACATAACAGA
*
115425263 T-TGGACCTTTATT
65 TCT-GACCTTCATT
* * *
115425276 GAAGCAGATCCAGGATGATTTGGCATCTCTGTATTAGACGGGAGTAGATCGAAGACATAGCAGAT
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAACAGAT
115425341 CTGACCTTCAT
66 CTGACCTTCAT
115425352 GTGTTTACAT
Statistics
Matches: 142, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
77 33 0.23
78 109 0.77
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (77 bp):
GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAGATCGAAGACATAACAGAT
CTGACCTTCATT
Found at i:115425446 original size:45 final size:46
Alignment explanation
Indices: 115425382--115425564 Score: 241
Period size: 45 Copynumber: 4.1 Consensus size: 46
115425372 CCAAGATGAT
*
115425382 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCAG-AGATAAC
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAAC
* * * *
115425427 AGATTTGGCATCTTTGTATTAGACGAGGAGCAGAT-TGAAGA-AGC
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAAC
* *
115425471 AAATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC-GAAGATAAC
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAAC
* * *
115425516 AGATTTGGCATCTCTGTATTAGATGGAGAGCAGATCA-AAGATAGC
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAAC
115425561 AGAT
1 AGAT
115425565 ATCGCCTTCC
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
44 39 0.33
45 80 0.67
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.26
Consensus pattern (46 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAAGATAAC
Found at i:115425938 original size:19 final size:19
Alignment explanation
Indices: 115425914--115425969 Score: 112
Period size: 19 Copynumber: 2.9 Consensus size: 19
115425904 ATAATCTTCA
115425914 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
115425933 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
115425952 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
115425970 AGATATGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:115425995 original size:22 final size:22
Alignment explanation
Indices: 115425914--115425992 Score: 89
Period size: 19 Copynumber: 3.8 Consensus size: 22
115425904 ATAATCTTCA
115425914 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
115425933 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
115425952 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
115425974 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
115425993 GATTTAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.63
22 8 0.15
23 12 0.22
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:115426284 original size:18 final size:17
Alignment explanation
Indices: 115426261--115426294 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
115426251 GTTTCCCTAT
*
115426261 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
115426279 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
115426295 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:115431741 original size:327 final size:327
Alignment explanation
Indices: 115431128--115431774 Score: 969
Period size: 327 Copynumber: 2.0 Consensus size: 327
115431118 AATCTTGAAC
*
115431128 CTAGAGCCTCATGAAACTTCTTCCAGAACTGAGACATGAAACGAGGATCCCTATCAGAAATGATC
1 CTAGAGCCTCATGAAACTTCTTCCAGAACTAAGACATGAAACGAGGATCCCTATCAGAAATGATC
*
115431193 GAGACAGGTACCCCATACAGTCTTATTATTTCCAAGATGTAGAGCTTAGCTAACTTCTGAAGAGA
66 GAGACAAGTACCCCATACAGTCTTATTATTTCCAAGATGTAGAGCTTAGCTAACTTCTGAAGAGA
115431258 AAAGTCTGTCTTTACCGGGATGAAATGAGCAGACTTGGTCAATCGATCCACGATGACCCAGACAG
131 AAAGTCTGTCTTTACCGGGATGAAATGAGCAGACTTGGTCAATCGATCCACGATGACCCAGACAG
* * * * * *
115431323 AATTCTTTTTAATCAGTGTTAGAGGTAACCCATTAACGAAGTCCATCGTTACTCGTTTCCATTTC
196 AATCCTTCTTAATCAGTGTTAGAAGTAACCCACTAACGAAGTCCATCGTTACTAGCTTCCATTTC
* * * *
115431388 CATAACTGTATCAACTGTAGCAAACCCGAAGGTAACTAATGCTTAGCCTTAACCTACTGATAAAC
261 CATAACGGTATCAACTGTAACAAACCCGAAAGTAACTAATGCTCAGCCTTAACCTACTGATAAAC
115431453 AG
326 AG
* * ** *
115431455 CTAGAGCCTCATGAAGCTTCTTCTAGAACTAAGATGTGAAACGAGGAT-CCTAATTAGAAATGAT
1 CTAGAGCCTCATGAAACTTCTTCCAGAACTAAGACATGAAACGAGGATCCCT-ATCAGAAATGAT
* *
115431519 CGAGACAAGTACCCCCTGCAGTCTTATTATTTCCAAGATGTAGAGCTTAGCTAACTTCTGAAGAG
65 CGAGACAAGTACCCCATACAGTCTTATTATTTCCAAGATGTAGAGCTTAGCTAACTTCTGAAGAG
*
115431584 AAAAGTTTGT-TCTTACCGGGAT-AAAGTGAGCAGACTTGGTCAATCGATCCACGATGACCCAGA
130 AAAAGTCTGTCT-TTACCGGGATGAAA-TGAGCAGACTTGGTCAATCGATCCACGATGACCCAGA
* ** *
115431647 CAGAATCCTTCTTAGTGGGTGTTAGAAGTAACCCACTAACGAAGTCCATTGTTACTAGCTTCCAT
193 CAGAATCCTTCTTAATCAGTGTTAGAAGTAACCCACTAACGAAGTCCATCGTTACTAGCTTCCAT
** * * *
115431712 TTCCATAACGGTAT-AGGTTGTAACAAACCCGAAAGTAATTGATGCTCAGCTTTAACCTACTGA
258 TTCCATAACGGTATCA-ACTGTAACAAACCCGAAAGTAACTAATGCTCAGCCTTAACCTACTGA
115431775 CAAGTCAAAC
Statistics
Matches: 287, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
326 8 0.03
327 279 0.97
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (327 bp):
CTAGAGCCTCATGAAACTTCTTCCAGAACTAAGACATGAAACGAGGATCCCTATCAGAAATGATC
GAGACAAGTACCCCATACAGTCTTATTATTTCCAAGATGTAGAGCTTAGCTAACTTCTGAAGAGA
AAAGTCTGTCTTTACCGGGATGAAATGAGCAGACTTGGTCAATCGATCCACGATGACCCAGACAG
AATCCTTCTTAATCAGTGTTAGAAGTAACCCACTAACGAAGTCCATCGTTACTAGCTTCCATTTC
CATAACGGTATCAACTGTAACAAACCCGAAAGTAACTAATGCTCAGCCTTAACCTACTGATAAAC
AG
Found at i:115442401 original size:13 final size:13
Alignment explanation
Indices: 115442383--115442407 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115442373 GGGTACTCCT
115442383 AATTATGGACCTA
1 AATTATGGACCTA
115442396 AATTATGGACCT
1 AATTATGGACCT
115442408 TACAAAACCC
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTATGGACCTA
Found at i:115445413 original size:29 final size:29
Alignment explanation
Indices: 115445369--115445442 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
115445359 GTTGTGTAGA
*
115445369 GTGTGACAGCCCGTGTGCGTCACACGGCC
1 GTGTGACAGCCCGTGTGCGTCACACGACC
* * * *
115445398 GTGTGGCAGCCTGTGTGTGTGACACGACC
1 GTGTGACAGCCCGTGTGCGTCACACGACC
*
115445427 GTGTGATAGCCCGTGT
1 GTGTGACAGCCCGTGT
115445443 CCTAGGTCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.14, C:0.27, G:0.36, T:0.23
Consensus pattern (29 bp):
GTGTGACAGCCCGTGTGCGTCACACGACC
Found at i:115449188 original size:21 final size:21
Alignment explanation
Indices: 115449154--115449193 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
115449144 CTTACTTCAA
*
115449154 ATTTTCTTATTTTTACTTTTAT
1 ATTTTCTTAATTTTA-TTTTAT
115449176 ATTTT-TTAATTTTATTTT
1 ATTTTCTTAATTTTATTTT
115449194 GCATTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (21 bp):
ATTTTCTTAATTTTATTTTAT
Found at i:115449342 original size:22 final size:23
Alignment explanation
Indices: 115449294--115449344 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
115449284 ATTATATTTT
**
115449294 AATTTTTATAATAGTAAAAATGT
1 AATTTTTATAATAGTAAAAATAA
* *
115449317 AATTTTTA-AATAGTTAAATTAA
1 AATTTTTATAATAGTAAAAATAA
115449339 AATTTT
1 AATTTT
115449345 AAAAATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (23 bp):
AATTTTTATAATAGTAAAAATAA
Found at i:115457278 original size:19 final size:19
Alignment explanation
Indices: 115457245--115457285 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
115457235 TACTTGGTCT
115457245 AAAAAAATTCAAAAATTATA
1 AAAAAAATTCAAAAATT-TA
*
115457265 AAAAAAATT-TAAAATTTA
1 AAAAAAATTCAAAAATTTA
115457283 AAA
1 AAA
115457286 TTTAAAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 6 0.30
20 9 0.45
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAAAATTCAAAAATTTA
Found at i:115457280 original size:7 final size:7
Alignment explanation
Indices: 115457268--115457293 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
115457258 AATTATAAAA
115457268 AAAATTT
1 AAAATTT
115457275 AAAATTT
1 AAAATTT
115457282 AAAATTT
1 AAAATTT
115457289 AAAAT
1 AAAAT
115457294 CATTCAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:115459313 original size:19 final size:20
Alignment explanation
Indices: 115459281--115459319 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
115459271 AAACATATTT
*
115459281 TATTAATATATACATATGTA
1 TATTAATATATACACATGTA
*
115459301 TATTAA-ATTTACACATGTA
1 TATTAATATATACACATGTA
115459320 ATCACTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (20 bp):
TATTAATATATACACATGTA
Found at i:115461609 original size:27 final size:27
Alignment explanation
Indices: 115461579--115461632 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
115461569 TATTCAAATT
115461579 CTTCCTTGAGTTAAACCTCTGATCCCC
1 CTTCCTTGAGTTAAACCTCTGATCCCC
115461606 CTTCCTTGAGTTAAACCTCTGATCCCC
1 CTTCCTTGAGTTAAACCTCTGATCCCC
115461633 AAATCACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.37, G:0.11, T:0.33
Consensus pattern (27 bp):
CTTCCTTGAGTTAAACCTCTGATCCCC
Found at i:115461909 original size:49 final size:48
Alignment explanation
Indices: 115461848--115461963 Score: 137
Period size: 49 Copynumber: 2.4 Consensus size: 48
115461838 TGCTTTCAAC
* *
115461848 CTAGTTAACAACTAACATGTCC-TACTAGTGGCCCA-ACATACATACCAAT
1 CTAGTTAGCAACTAACATG-CCTTACCAGTGGCCCACACAT-C-TACCAAT
*
115461897 CTAGTTAGCAACTAACATGCCTTACCAGTGGCCCATCACATCTACCATT
1 CTAGTTAGCAACTAACATGCCTTACCAGTGGCCCA-CACATCTACCAAT
* *
115461946 CTGGTTTGCAACTAACAT
1 CTAGTTAGCAACTAACAT
115461964 ACATTACCGG
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
48 2 0.03
49 52 0.88
50 1 0.02
51 4 0.07
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (48 bp):
CTAGTTAGCAACTAACATGCCTTACCAGTGGCCCACACATCTACCAAT
Found at i:115463331 original size:24 final size:24
Alignment explanation
Indices: 115463280--115463468 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
115463270 GCTTTATCAT
*
115463280 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
115463305 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
115463329 ATAACTGGGGCATGAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
115463352 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
115463375 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
115463399 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
115463423 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
115463446 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
115463469 GCACTTCCTC
Statistics
Matches: 154, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
23 67 0.44
24 75 0.49
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:115463355 original size:23 final size:23
Alignment explanation
Indices: 115463301--115463467 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
115463291 CCTAGCCTCT
*
115463301 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
115463324 TTTTAATAACTGGGGCATGAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
115463348 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
115463371 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
115463394 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
115463418 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
115463442 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
115463465 TTT
1 TTT
115463468 TGCACTTCCT
Statistics
Matches: 137, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
23 70 0.51
24 67 0.49
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:115463469 original size:47 final size:47
Alignment explanation
Indices: 115463301--115463468 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
115463291 CCTAGCCTCT
* *
115463301 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATGAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
115463348 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
115463394 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
115463442 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
115463469 GCACTTCCTC
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
46 22 0.19
47 70 0.61
48 22 0.19
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:115463540 original size:9 final size:9
Alignment explanation
Indices: 115463526--115463582 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
115463516 ATCTCATGTG
115463526 CATATCATA
1 CATATCATA
*
115463535 CATATCATGTG
1 CATATCA--TA
115463546 CATATCATA
1 CATATCATA
* *
115463555 CATGTCATGTG
1 CATATCA--TA
115463566 CATATCATA
1 CATATCATA
115463575 CATATCAT
1 CATATCAT
115463583 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:115463542 original size:20 final size:20
Alignment explanation
Indices: 115463514--115463584 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
115463504 GCATTTATGA
*
115463514 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
115463534 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
115463554 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
115463574 ACATATCATGT
1 ACATATCATGT
115463585 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:115463549 original size:11 final size:11
Alignment explanation
Indices: 115463519--115463573 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
115463509 TATGAACATC
115463519 TCATGTGCATA
1 TCATGTGCATA
*
115463530 TCA--TACATA
1 TCATGTGCATA
115463539 TCATGTGCATA
1 TCATGTGCATA
* *
115463550 TCA--TACATG
1 TCATGTGCATA
115463559 TCATGTGCATA
1 TCATGTGCATA
115463570 TCAT
1 TCAT
115463574 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:115464902 original size:27 final size:27
Alignment explanation
Indices: 115464881--115465143 Score: 316
Period size: 27 Copynumber: 9.7 Consensus size: 27
115464871 AAGGGTATTT
*
115464881 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
115464908 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
115464935 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
115464962 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
115464989 CAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* ** *
115465016 -CGATAATGATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* * *
115465043 TGGTAATTATGTAAAT-TAGGGGTAAAA
1 TAGTAATTCTGTAAATCGA-GGGTAAAA
**
115465070 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
115465097 TAGTAATTCTGTAAA-CTGAAGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
*
115465124 TGGTAATTCTGTAAATCGAG
1 TAGTAATTCTGTAAATCGAG
115465144 AGTACTTTGG
Statistics
Matches: 203, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 198 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:115464968 original size:81 final size:81
Alignment explanation
Indices: 115464883--115465143 Score: 366
Period size: 81 Copynumber: 3.2 Consensus size: 81
115464873 GGGTATTTTA
* * *
115464883 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
115464948 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * **
115464964 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAA-CGATAATGATGT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG-TAATTCTGT
*
115465028 AAATCGGGGGTAAAATG
65 AAATCGAGGGTAAAATG
* * *
115465045 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT
*
115465109 AAA-CTGAAGGTAAAATG
65 AAATC-GAGGGTAAAATG
115465126 GTAATTCTGTAAATCGAG
1 GTAATTCTGTAAATCGAG
115465144 AGTACTTTGG
Statistics
Matches: 156, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
80 3 0.02
81 151 0.97
82 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
AATCGAGGGTAAAATG
Found at i:115465158 original size:54 final size:54
Alignment explanation
Indices: 115464881--115465143 Score: 350
Period size: 54 Copynumber: 4.9 Consensus size: 54
115464871 AAGGGTATTT
* * *
115464881 TAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* *
115464935 TAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * * ** *
115464989 CAGTAATTTTGTAAATCGAGGGTAAAACGATAATGATGTAAATCGGGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * *
115465043 TGGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* *
115465097 TAGTAATTCTGTAAA-CTGAAGGTAAAATGGTAATTCTGTAAATCGAG
1 TAGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAG
115465144 AGTACTTTGG
Statistics
Matches: 180, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 178 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.29
Consensus pattern (54 bp):
TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:115468005 original size:7 final size:8
Alignment explanation
Indices: 115467983--115468016 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
115467973 TTTCTTCATG
115467983 AATATAAA
1 AATATAAA
*
115467991 AATTTAAA
1 AATATAAA
115467999 AA-ATAAA
1 AATATAAA
115468006 AATATAAA
1 AATATAAA
115468014 AAT
1 AAT
115468017 TTGAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATATAAA
Found at i:115468006 original size:15 final size:15
Alignment explanation
Indices: 115467986--115468015 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115467976 CTTCATGAAT
*
115467986 ATAAAAATTTAAAAA
1 ATAAAAATATAAAAA
115468001 ATAAAAATATAAAAA
1 ATAAAAATATAAAAA
115468016 TTTGAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
ATAAAAATATAAAAA
Found at i:115469015 original size:21 final size:20
Alignment explanation
Indices: 115468978--115469026 Score: 53
Period size: 24 Copynumber: 2.2 Consensus size: 20
115468968 GGTTCAAAAC
*
115468978 AAATAAATTATTAAAAATAA
1 AAATAAAATATTAAAAATAA
115468998 AAATAAAAATATTCAAAATTATAA
1 AAAT-AAAATATT-AAAA--ATAA
115469022 AAATA
1 AAATA
115469027 GGTGTCAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 7 0.29
22 4 0.17
23 1 0.04
24 8 0.33
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATAAAATATTAAAAATAA
Found at i:115472980 original size:3 final size:3
Alignment explanation
Indices: 115472972--115473001 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
115472962 CTGTTGAACA
*
115472972 AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
115473002 CAGCTATCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:115477240 original size:32 final size:32
Alignment explanation
Indices: 115477200--115477384 Score: 253
Period size: 32 Copynumber: 5.8 Consensus size: 32
115477190 AAAAAATATG
* *
115477200 ATACATTAGGTTTACGTATAAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* *
115477232 ATACATTAGTTTTGCATATAAAAAAGTAGATA
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* *
115477264 ATACATTAGGTTCACATATAAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* * *
115477296 ATACATTAGTTTTGCAAATGAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* * *
115477328 ATACATTAGTTTTGCAAATGAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
*
115477360 ATACATTAGTTTTACATGTAAAAAA
1 ATACATTAGTTTTACATATAAAAAA
115477385 CTAGCATAGT
Statistics
Matches: 136, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 136 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (32 bp):
ATACATTAGTTTTACATATAAAAAAGTAGATC
Found at i:115478627 original size:18 final size:18
Alignment explanation
Indices: 115478600--115478635 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
115478590 ATAACACAAG
115478600 TGTAAGCATAAATCAGTA
1 TGTAAGCATAAATCAGTA
*
115478618 TGTAATCATAAATCAGTA
1 TGTAAGCATAAATCAGTA
115478636 ATACAATAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (18 bp):
TGTAAGCATAAATCAGTA
Found at i:115478813 original size:7 final size:7
Alignment explanation
Indices: 115478801--115478827 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
115478791 GAGATACAAT
115478801 TCATGTG
1 TCATGTG
115478808 TCATGTG
1 TCATGTG
115478815 TCATGTG
1 TCATGTG
115478822 TCATGT
1 TCATGT
115478828 AGATATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.44
Consensus pattern (7 bp):
TCATGTG
Done.