Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 78 of 128
Found at i:25580408 original size:22 final size:21
Alignment explanation
Indices: 25580367--25580409 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
25580357 ACCGTAAATC
*
25580367 TTAAACCCTAAACCATAAACA
1 TTAAACCCTAAACCACAAACA
*
25580388 TTAAACCCATAGACCACAAACA
1 TTAAACCC-TAAACCACAAACA
25580410 ATAACCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.51, C:0.30, G:0.02, T:0.16
Consensus pattern (21 bp):
TTAAACCCTAAACCACAAACA
Found at i:25580493 original size:13 final size:13
Alignment explanation
Indices: 25580458--25580498 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
25580448 CCAAACCCTA
*
25580458 AAATCTAAACCGT
1 AAATCTAAACCAT
25580471 AAATCATAAACCAT
1 AAATC-TAAACCAT
*
25580485 AATTCTAAACCAT
1 AAATCTAAACCAT
25580498 A
1 A
25580499 TCTTTAGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.51, C:0.22, G:0.02, T:0.24
Consensus pattern (13 bp):
AAATCTAAACCAT
Found at i:25581062 original size:114 final size:114
Alignment explanation
Indices: 25580849--25581603 Score: 1005
Period size: 114 Copynumber: 6.6 Consensus size: 114
25580839 TAACAATTTT
* * * *
25580849 GCGGCGCTTTTGCATAAGTGCCACCAATTCTAATATACCTTAAGACCAAACGCTGCGTTTTGGTT
1 GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTT
* * *
25580914 AAGATATTTTGCGGTGCTTTTTATAAGGAGCCGCTAATACTGTACTTTA
66 AAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTGTACTTTA
* * * *
25580963 GCAGCGTTTTCGAATAAGCGCCACTAAATCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTT
1 GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTT
* * *
25581028 AAGCTATTTTGCGGCGCTTTTTATATTGCGCCGCTAATACT-AAGCTTTA
66 AAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTGTA-CTTTA
* * * *
25581077 GCGGCATTTTTTCATAAGCGCCACTAATTCTAATATACTTCAAGACAAAACGCTGCGTTTTGGTT
1 GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTT
* *
25581142 AAGATATTTTGTGGCGC-TTTTATAATGCGCCGCTAATACAGTGA-TTTA
66 AAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTGT-ACTTTA
* * * *
25581190 GCGACGTTTTTTCATAAGCGCCACTAATTCTAATATATCTCAAGACCAAACGCTGTGTTTTGGTT
1 GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTT
* * *
25581255 AAGCTATTTTGCGGCGCTTTTTATAATGCACCGCTAATACAGTGA-TTTA
66 AAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTGT-ACTTTA
* *
25581304 GCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGTGTTTTGGTT
1 GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTT
* ** * *
25581369 AAGCTATTTTGCGGCGCTTAATATAGTGCGCCGCTAATACTGTGCTTTA
66 AAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTGTACTTTA
* * ** * *
25581418 GCGGCATTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGATCGTACGTTGGGTTTTGGTT
1 GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTT
* * * *
25581483 AAGATATTTTGCGGCGCCTTTTATAAGGCGCCGCTAATACTATGCTTTA
66 AAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTGTACTTTA
* * ** * *
25581532 GCGGCGTTTTTGCATAAGCGCCTCTAATTCTAATATACCTCAAGATCGTACGTTGGGTTTTGGTT
1 GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTT
25581597 AAGATAT
66 AAGATAT
25581604 AAAAGGCGCC
Statistics
Matches: 576, Mismatches: 60, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
113 100 0.17
114 475 0.82
115 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (114 bp):
GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTT
AAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACTGTACTTTA
Found at i:25581692 original size:99 final size:99
Alignment explanation
Indices: 25581507--25581697 Score: 310
Period size: 99 Copynumber: 1.9 Consensus size: 99
25581497 CGCCTTTTAT
*
25581507 AAGGCGCCGCTAATACTATGCTTTAGCGGCGTTTTTGCATAAGCGCCTCTAATTCTAATATACCT
1 AAGGCGCCGCTAATACTATGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCT
* *
25581572 CAAGATCGTACGTTGGGTTTTGGTTAAGATATAA
66 CAAGATCGTACGCTGCGTTTTGGTTAAGATATAA
*
25581606 AAGGCGCCGCTAATACTATGCTTTAGCGGCGTTTTTGTATAAGCGCCACTAATTCTAATATACCT
1 AAGGCGCCGCTAATACTATGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCT
* * * *
25581671 CAAGATTGTATGCTGCTTTTTGTTTAA
66 CAAGATCGTACGCTGCGTTTTGGTTAA
25581698 CATTTTCTGC
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 84 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (99 bp):
AAGGCGCCGCTAATACTATGCTTTAGCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCT
CAAGATCGTACGCTGCGTTTTGGTTAAGATATAA
Found at i:25589545 original size:180 final size:180
Alignment explanation
Indices: 25589243--25589580 Score: 559
Period size: 180 Copynumber: 1.9 Consensus size: 180
25589233 GTCAATACAA
* * *
25589243 AGCTTTTTCCAAAAATTAGTGCAAGGTTTACAAAAACATTCCTACTCATTTCCTCTACACACCAA
1 AGCTTTTTCCAAAAATCAGTGCAAGGTTTACAAAAACATTCCTACCCATCTCCTCTACACACCAA
* * * *
25589308 TAAAGAGTTCCCCAGAACTCGTCCATCCAATAACATACCATGTTGTGGCCAAGCCACTCAATATC
66 TAAAGAGTTCCCCAAAACTCGTCCATCCAATAACACACCACGTTGTGGCAAAGCCACTCAATATC
* *
25589373 GTAGTCAAGTTGCATTGTTGTGGTCAAGCCACTCAATAACATTGTGGCAG
131 GTAGTCAAGCTGCATCGTTGTGGTCAAGCCACTCAATAACATTGTGGCAG
* * *
25589423 AGCTTTTTCTAGAAATCAGTGCAAGTTTTACAAAAACATTCCTACCCATCTCCTCTACACACCAA
1 AGCTTTTTCCAAAAATCAGTGCAAGGTTTACAAAAACATTCCTACCCATCTCCTCTACACACCAA
*
25589488 TAAAGAGTTCCCCAAAACTTGTCCATCCAATAACACACCACGTTGTGGCAAAGCCACTCAATATC
66 TAAAGAGTTCCCCAAAACTCGTCCATCCAATAACACACCACGTTGTGGCAAAGCCACTCAATATC
25589553 GTAGTCAAGCTGCATCGTTGTGGTCAAG
131 GTAGTCAAGCTGCATCGTTGTGGTCAAG
25589581 TTGCTCAGTA
Statistics
Matches: 145, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
180 145 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (180 bp):
AGCTTTTTCCAAAAATCAGTGCAAGGTTTACAAAAACATTCCTACCCATCTCCTCTACACACCAA
TAAAGAGTTCCCCAAAACTCGTCCATCCAATAACACACCACGTTGTGGCAAAGCCACTCAATATC
GTAGTCAAGCTGCATCGTTGTGGTCAAGCCACTCAATAACATTGTGGCAG
Found at i:25589611 original size:24 final size:24
Alignment explanation
Indices: 25589570--25589686 Score: 128
Period size: 24 Copynumber: 4.9 Consensus size: 24
25589560 AGCTGCATCG
*** *
25589570 TTGTGGTCAAGTTGCTCAGTAGCA
1 TTGTGGTCAAGCCACTCAATAGCA
* * * *
25589594 TTTTGGACAAGCCACTCAATAACG
1 TTGTGGTCAAGCCACTCAATAGCA
25589618 TTGTGGTCAAGCCACTCAATAGCA
1 TTGTGGTCAAGCCACTCAATAGCA
* *
25589642 TTGTGGTCAAGCCACTCACA-AACG
1 TTGTGGTCAAGCCACTCA-ATAGCA
25589666 TTGTGGTCAAGCCACTCAATA
1 TTGTGGTCAAGCCACTCAATA
25589687 TTACAGTAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
23 1 0.01
24 75 0.97
25 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (24 bp):
TTGTGGTCAAGCCACTCAATAGCA
Found at i:25589624 original size:48 final size:48
Alignment explanation
Indices: 25589568--25589686 Score: 168
Period size: 48 Copynumber: 2.5 Consensus size: 48
25589558 CAAGCTGCAT
*** * *
25589568 CGTTGTGGTCAAGTTGCTCAGTAGCATTTTGGACAAGCCACTCA-ATAA
1 CGTTGTGGTCAAGCCACTCAATAGCATTGTGGACAAGCCACTCACA-AA
*
25589616 CGTTGTGGTCAAGCCACTCAATAGCATTGTGGTCAAGCCACTCACAAA
1 CGTTGTGGTCAAGCCACTCAATAGCATTGTGGACAAGCCACTCACAAA
25589664 CGTTGTGGTCAAGCCACTCAATA
1 CGTTGTGGTCAAGCCACTCAATA
25589687 TTACAGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 63 0.98
49 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
CGTTGTGGTCAAGCCACTCAATAGCATTGTGGACAAGCCACTCACAAA
Found at i:25589869 original size:42 final size:42
Alignment explanation
Indices: 25589777--25589879 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
25589767 TTCAATGGGT
* * * * *
25589777 ATGCTTAACATACGAACCAGATTTATAATCAACATAGTTGAC
1 ATGCTTAACATGCGAATCAAATTTATAATCAACACAGTTCAC
* * *
25589819 GTGATTAACATGCGAATCAAATTTATAATCAATACAG-TCATC
1 ATGCTTAACATGCGAATCAAATTTATAATCAACACAGTTCA-C
*
25589861 ATGCTTAACATGTGAATCA
1 ATGCTTAACATGCGAATCA
25589880 TATCTCAATT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCTTAACATGCGAATCAAATTTATAATCAACACAGTTCAC
Found at i:25591179 original size:64 final size:64
Alignment explanation
Indices: 25591075--25591226 Score: 207
Period size: 64 Copynumber: 2.4 Consensus size: 64
25591065 ATAACACACT
** ** **
25591075 ACGTTGTGGCCTAGCCACTCAATATTGCAGTCAAGTTGCATCGTTGTGGTCAAACCACTCAATA
1 ACGTTGTGGCAGAGCCACTCAATATCACAGTCAAACTGCATCGTTGTGGTCAAACCACTCAATA
* *
25591139 ACGTTGTGGCAGAGCCACTTAATATCACAGTCAAACTGCATCGTTGTGGTCAAACCACTCATTA
1 ACGTTGTGGCAGAGCCACTCAATATCACAGTCAAACTGCATCGTTGTGGTCAAACCACTCAATA
*
25591203 ACGTTGTGGCCA-AGACACTCAATA
1 ACGTTGTGG-CAGAGCCACTCAATA
25591227 GCTTTGTGGA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 75 0.97
65 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (64 bp):
ACGTTGTGGCAGAGCCACTCAATATCACAGTCAAACTGCATCGTTGTGGTCAAACCACTCAATA
Found at i:25591221 original size:24 final size:24
Alignment explanation
Indices: 25591180--25591298 Score: 141
Period size: 24 Copynumber: 5.0 Consensus size: 24
25591170 CAAACTGCAT
* *
25591180 CGTTGTGGTCAAACCACTCATTAA
1 CGTTGTGGACAAACCACTCAATAA
* *
25591204 CGTTGTGGCCAAGA-CACTCAATAG
1 CGTTGTGGACAA-ACCACTCAATAA
* *
25591228 CTTTGTGGACAAACCACTCAATAG
1 CGTTGTGGACAAACCACTCAATAA
*
25591252 CGTTATGGACAAACCACTCAATAA
1 CGTTGTGGACAAACCACTCAATAA
* *
25591276 CGTTATGGACAAGCCACTCAATA
1 CGTTGTGGACAAACCACTCAATA
25591299 TTGCAATAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (24 bp):
CGTTGTGGACAAACCACTCAATAA
Found at i:25599371 original size:34 final size:35
Alignment explanation
Indices: 25599297--25599368 Score: 92
Period size: 34 Copynumber: 2.0 Consensus size: 35
25599287 CTTATATAAG
**
25599297 TATTTTTTCGTTTTTCAAAATTTAAAATTTCTCAA
1 TATTTTTTCGTTTTTCAAAATTTAAAATTGATCAA
*
25599332 TATTTTTT-GTTTTTCAAATTTTAAATATTGATGCAA
1 TATTTTTTCGTTTTTCAAAATTTAAA-ATTGAT-CAA
25599368 T
1 T
25599369 TTTGATTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 16 0.50
35 12 0.38
36 4 0.12
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (35 bp):
TATTTTTTCGTTTTTCAAAATTTAAAATTGATCAA
Found at i:25602760 original size:11 final size:11
Alignment explanation
Indices: 25602744--25602787 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
25602734 TATGTTGTTG
25602744 AACAAGATTTA
1 AACAAGATTTA
25602755 AACAAGATTTA
1 AACAAGATTTA
*
25602766 AACAAAATTTA
1 AACAAGATTTA
25602777 AACAAGATTTA
1 AACAAGATTTA
25602788 TGTTGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.27
Consensus pattern (11 bp):
AACAAGATTTA
Found at i:25606691 original size:110 final size:112
Alignment explanation
Indices: 25606542--25606764 Score: 378
Period size: 111 Copynumber: 2.0 Consensus size: 112
25606532 AAAAAAAGAC
25606542 TAAATTGGATTGCAAGTAAAAAAAACTGGGGTAAATCCGCAAATAAATAAAGTCTGGAGGACTAA
1 TAAATTGGATTGCAAGTAAAAAAAACTGGGGTAAATCCGCAAATAAATAAAGTCTGGAGGACTAA
25606607 ATTGAA-GCACGAATTACATAGAGGGGCTGGAAGGGAAATTTTCCCT
66 ATTGAACGCACGAATTACATAGAGGGGCTGGAAGGGAAATTTTCCCT
* *
25606653 TAAATTGGATTGCAAGT-AAAAAAACTGGGGTAAATCCGCAAATAAATAAAGTCTGGATGATTAA
1 TAAATTGGATTGCAAGTAAAAAAAACTGGGGTAAATCCGCAAATAAATAAAGTCTGGAGGACTAA
* * * *
25606717 ATTGAACGCGCGAATTAGATAGAGGGGTTGGAAGGGCAATTTTCCCT
66 ATTGAACGCACGAATTACATAGAGGGGCTGGAAGGGAAATTTTCCCT
25606764 T
1 T
25606765 CTCCTCTAAA
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
110 51 0.49
111 54 0.51
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (112 bp):
TAAATTGGATTGCAAGTAAAAAAAACTGGGGTAAATCCGCAAATAAATAAAGTCTGGAGGACTAA
ATTGAACGCACGAATTACATAGAGGGGCTGGAAGGGAAATTTTCCCT
Found at i:25608107 original size:44 final size:44
Alignment explanation
Indices: 25608057--25609110 Score: 447
Period size: 44 Copynumber: 24.5 Consensus size: 44
25608047 GTCTATTCCG
*
25608057 CTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATCTGCTCCA
* * * *
25608101 CTGCAACTTCAGGAAGATAATATT-TGCCAAC-TTAGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTAT--CAGCTTTAATCTGCTCCA
* * * *
25608145 TTGCAACTTCAGGGAGATAAGACTA-GACGC---AATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGATTATCA-GCTTTAATCTGCTCCA
* * * *
25608185 CTGCAACTTTAGAGAGATAAGATCTGT--GATTATAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAT-TATCAGCTT-TAATCTGCTCCA
* * * * * *
25608229 CTACAATTTTAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATCTGCTCCA
* * * * *
25608273 GTGCAACTTCAGGAAGATAAGATT-TGCCATCTTCAGTCTGC-CTCA
1 CTGCAACTTCAGGGAGATAAGATTAT--CAGCTTTAATCTGCTC-CA
** *
25608318 CTGCAACTTCA-GGAGGATAAGACTTGCCTA-C-TTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGA-TTATC-AGCTTTAATCTGCTCCA
* *** * *
25608362 CTGCAACTTCAGGGAGATAAGA--AT-AGATGCGATCTACT-CT
1 CTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATCTGCTCCA
* * * * *
25608402 CTGCAACTTCAGAGAGATAAGATCTGTGA-TTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGAT-TATCAGCTTTAATCTGCTCCA
* * * * *
25608446 CTGCAGCTTCAGGGAGATAAGACTA-GATGC---GATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGATTATCA-GCTTTAATCTGCTCCA
* * * *
25608486 CTGCAACTTC-GGAGAGATAAGATCTGTGA-TTTTAATCCGCTCCA
1 CTGCAACTTCAGG-GAGATAAGAT-TATCAGCTTTAATCTGCTCCA
* * * *
25608530 CTTCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATCTGCTCCA
* * * * * * *
25608574 CTACAACTTCAGGGAGATAATATTTGTCATCTTCAGTCCGC-CTCA
1 CTGCAACTTCAGGGAGATAAGA-TTATCAGCTTTAATCTGCTC-CA
* * * *
25608619 CTGCAACTTCA-GGAGGATAAAACTTGCTTA-C-TTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGA-TT-ATCAGCTTTAATCTGCTCCA
* * * * *
25608663 CTACAACTTCAGGGAGATAAGACTA-GATGC---GATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGATTATCA-GCTTTAATCTGCTCCA
** * *
25608703 CTGCAACTTCAGAAAGATAAGATCTA--AGGTTTTAATCCGCT-CA
1 CTGCAACTTCAGGGAGATAAGAT-TATCA-GCTTTAATCTGCTCCA
* ** * * * *** *
25608746 CTGCAACTTTAGCAAGATAAAACTA--A-ATACGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATCTGCTCCA
* * * * *
25608786 CTGCAACTTCAGAGAGATGAGATCTA--AGGTTTTAATCCGCT--T
1 CTGCAACTTCAGGGAGATAAGAT-TATCA-GCTTTAATCTGCTCCA
* * * **
25608828 CTGCAA-TTTA-GGAGGATAAGACTTGCTTA-C-TTAGCCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGA-TT-ATCAGCTTTAATCTGCTCCA
* * * * * * *
25608871 TTGCAACTTCAGGGAGATAAGA--CT-AGATGTGACCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATCTGCTCCA
* * * * * **
25608911 CTGCAACATCAGAGAGA-ATAGATCTGTGA-TTTTAATCCACTCCA
1 CTGCAACTTCAGGGAGATA-AGAT-TATCAGCTTTAATCTGCTCCA
* *
25608955 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATCTGCTCCA
* *
25608999 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATCTGCTCCA
* *
25609043 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATCTGCTCCA
25609087 CTGCAACTTCAGGGAGATAAGATT
1 CTGCAACTTCAGGGAGATAAGATT
25609111 TGTCATTTTC
Statistics
Matches: 768, Mismatches: 168, Indels: 148
0.71 0.15 0.14
Matches are distributed among these distances:
39 6 0.01
40 130 0.17
41 56 0.07
42 16 0.02
43 80 0.10
44 390 0.51
45 85 0.11
46 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTATCAGCTTTAATCTGCTCCA
Found at i:25608419 original size:40 final size:40
Alignment explanation
Indices: 25608353--25608507 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
25608343 GCCTACTTAG
* * *
25608353 TCTGCTCCACTGCAACTTCAGGGAGATAAGAATAGATGCGA
1 TCTGCT-CTCTGCAACTTCAGAGAGATAAGACTAGATGCGA
* * ***
25608394 TCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCTCTGCAACTTCAGAGAGATAAGA-CT-AGA-TGCGA
* * * *
25608437 TCCGCTCCACTGCAGCTTCAGGGAGATAAGACTAGATGCGA
1 TCTGCT-CTCTGCAACTTCAGAGAGATAAGACTAGATGCGA
*
25608478 TCTGCTCTCTGCAACTTCGGAGAGATAAGA
1 TCTGCTCTCTGCAACTTCAGAGAGATAAGA
25608508 TCTGTGATTT
Statistics
Matches: 88, Mismatches: 22, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
40 42 0.48
41 13 0.15
42 4 0.05
43 8 0.09
44 21 0.24
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (40 bp):
TCTGCTCTCTGCAACTTCAGAGAGATAAGACTAGATGCGA
Found at i:25608449 original size:84 final size:84
Alignment explanation
Indices: 25608356--25608548 Score: 341
Period size: 84 Copynumber: 2.3 Consensus size: 84
25608346 TACTTAGTCT
25608356 GCTCCACTGCAACTTCAGGGAGATAAGAATAGATGCGATCTACTCTCTGCAACTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGAATAGATGCGATCTACTCTCTGCAACTTCAGAGAGATA
25608421 AGATCTGTGATTTTAATCC
66 AGATCTGTGATTTTAATCC
* * * *
25608440 GCTCCACTGCAGCTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCGGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGAATAGATGCGATCTACTCTCTGCAACTTCAGAGAGATA
25608505 AGATCTGTGATTTTAATCC
66 AGATCTGTGATTTTAATCC
*
25608524 GCTCCACTTCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
25608549 GGATTGTCGG
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 103 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGGGAGATAAGAATAGATGCGATCTACTCTCTGCAACTTCAGAGAGATA
AGATCTGTGATTTTAATCC
Found at i:25608653 original size:301 final size:301
Alignment explanation
Indices: 25608139--25608826 Score: 1045
Period size: 301 Copynumber: 2.3 Consensus size: 301
25608129 AACTTAGTCT
* * * *
25608139 GCTCCATTGCAACTTCAGGGAGATAAGACTAGACGCAATCTGCTCTCTGCAACTTTAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
* * * *
25608204 AGATCTGTGATTATAATCTGCTCCACTACAATTTTAGGGAGATAGGATTGTCGGCTTTAATCTGC
66 AGATCTGTGATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGC
* * *
25608269 TCCAGTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
131 TCCACTACAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCCGCCTCACTGCAACTTCAGGAGG
* *
25608334 ATAAGACTTGCCTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAATAGATGCGATCTAC
196 ATAAAACTTGCCTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGAATAGATGCGATCTAC
* **
25608399 TCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCC
261 TCTCTGCAACTTCAGAAAGATAAGATCTAAGATTTTAATCC
* *
25608440 GCTCCACTGCAGCTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCGGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
*
25608505 AGATCTGTGATTTTAATCCGCTCCACTTCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGC
66 AGATCTGTGATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGC
* * *
25608570 TCCACTACAACTTCAGGGAGATAATATTTGTCATCTTCAGTCCGCCTCACTGCAACTTCAGGAGG
131 TCCACTACAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCCGCCTCACTGCAACTTCAGGAGG
* * *
25608635 ATAAAACTTGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGC
196 ATAAAACTTGCCTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGAATAGATGCGATCTAC
*
25608700 TCTCTGCAACTTCAGAAAGATAAGATCTAAGGTTTTAATCC
261 TCTCTGCAACTTCAGAAAGATAAGATCTAAGATTTTAATCC
* ** * * * *
25608741 GCT-CACTGCAACTTTAGCAAGATAAAACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
** *
25608805 AGATCTAAGGTTTTAATCCGCT
66 AGATCTGTGATTTTAATCCGCT
25608827 TCTGCAATTT
Statistics
Matches: 349, Mismatches: 38, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
300 71 0.20
301 278 0.80
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (301 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATA
AGATCTGTGATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGC
TCCACTACAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCCGCCTCACTGCAACTTCAGGAGG
ATAAAACTTGCCTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGAATAGATGCGATCTAC
TCTCTGCAACTTCAGAAAGATAAGATCTAAGATTTTAATCC
Found at i:25608721 original size:40 final size:40
Alignment explanation
Indices: 25608666--25608803 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 40
25608656 TGCTCCACTA
** *
25608666 CAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTG
1 CAACTTCAGAAAGATAAGACTAGATACGATCTGCTCTCTG
* *** * *
25608706 CAACTTCAGAAAGATAAGATCTAAGGTTTTAATCCGCTCACTG
1 CAACTTCAGAAAGATAAGA-CT-A-GATACGATCTGCTCTCTG
* * * *
25608749 CAACTTTAGCAAGATAAAACTAAATACGATCTGCTCTCTG
1 CAACTTCAGAAAGATAAGACTAGATACGATCTGCTCTCTG
*
25608789 CAACTTCAGAGAGAT
1 CAACTTCAGAAAGAT
25608804 GAGATCTAAG
Statistics
Matches: 74, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
40 40 0.54
41 3 0.04
42 3 0.04
43 28 0.38
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (40 bp):
CAACTTCAGAAAGATAAGACTAGATACGATCTGCTCTCTG
Found at i:25608754 original size:43 final size:43
Alignment explanation
Indices: 25608698--25608833 Score: 145
Period size: 43 Copynumber: 3.3 Consensus size: 43
25608688 GATGCGATCT
25608698 GCTCTCTGCAACTTCAGAAAGATAAGATCTAAGGTTTTAATCC
1 GCTCTCTGCAACTTCAGAAAGATAAGATCTAAGGTTTTAATCC
* * * * * *** *
25608741 GCTCACTGCAACTTTAGCAAGATAA-AACTAA--ATACGATCT
1 GCTCTCTGCAACTTCAGAAAGATAAGATCTAAGGTTTTAATCC
* *
25608781 GCTCTCTGCAACTTCAGAGAGATGAGATCTAAGGTTTTAATCC
1 GCTCTCTGCAACTTCAGAAAGATAAGATCTAAGGTTTTAATCC
25608824 GCT-TCTGCAA
1 GCTCTCTGCAA
25608834 TTTAGGAGGA
Statistics
Matches: 70, Mismatches: 20, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
40 24 0.34
41 5 0.07
42 12 0.17
43 29 0.41
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (43 bp):
GCTCTCTGCAACTTCAGAAAGATAAGATCTAAGGTTTTAATCC
Found at i:25608779 original size:83 final size:81
Alignment explanation
Indices: 25608677--25608838 Score: 252
Period size: 83 Copynumber: 2.0 Consensus size: 81
25608667 AACTTCAGGG
* * *
25608677 AGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTAAGGTTTTAATCCG
1 AGATAAAACTAAATACGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTAAGGTTTTAATCCG
25608742 CTCACTGCAACTTTAGCA
66 CT-ACTGCAA-TTTAGCA
* *
25608760 AGATAAAACTAAATACGATCTGCTCTCTGCAACTTCAGAGAGATGAGATCTAAGGTTTTAATCCG
1 AGATAAAACTAAATACGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTAAGGTTTTAATCCG
*
25608825 CTTCTGCAATTTAG
66 CTACTGCAATTTAG
25608839 GAGGATAAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
81 5 0.07
82 6 0.08
83 62 0.85
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (81 bp):
AGATAAAACTAAATACGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTAAGGTTTTAATCCG
CTACTGCAATTTAGCA
Found at i:25609142 original size:513 final size:510
Alignment explanation
Indices: 25608318--25609240 Score: 1422
Period size: 513 Copynumber: 1.8 Consensus size: 510
25608308 GTCTGCCTCA
*
25608318 CTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
25608383 AATAGATGCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACT
66 AATAGATGCGACCTACTCTCTGCAACATCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACT
* * * *
25608448 GCAGCTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCGGAGAGATAAGATCTGT
131 GCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCACTGCAACTTCGGAGAGATAAGATCTAT
* * *
25608513 GATTTTAATCCGCTCCACTTCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTAC
196 GACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTAC
*
25608578 AACTTCAGGGAGATAATATTTGTCATCTTCAGTCCGCCTCACTGCAACTTCAGGAGGATAAAACT
261 AACTTCAGGGAGATAAGATTTGTCATCTTCAGTCCGCCTCACTGCAACTTCAGGAGGATAAAACT
* *
25608643 TGCTTACTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
326 TGCTTACCTAGCCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
25608708 ACTTCAGAAAGATAAGATCTAAGGTTTTAATCCGCTCACTGCAACTTTAGCAAGATAAAACTAAA
391 ACTTCAGAAAGATAAGATCTAAGGTTTTAATCCGCTCACTGCAACTTTAGCAAGATAAAACTAAA
25608773 TACGATCTGCTCTCTGCAACTTCAGAGAGATGAGATCTAAGGTTTTAATCCGCTT
456 TACGATCTGCTCTCTGCAACTTCAGAGAGATGAGATCTAAGGTTTTAATCCGCTT
* * *
25608828 CTGCAA-TTTAGGAGGATAAGACTTGCTTACTTAGCCTGCTCCATTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
25608892 ACTAGATGTGACCTGCTCTCTGCAACATCAGAGAGA-ATAGATCTGTGATTTTAATCCACTCCAC
66 AATAGATGCGACCTACTCTCTGCAACATCAGAGAGATA-AGATCTGTGATTTTAATCCACTCCAC
* * * ** *
25608956 TGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGG-GAGATAGG
130 TGCAACTTCAGGGAGATAAGACTA---GATGCAATCTGCT-CACTGCAACTTC-GGAGAGATAAG
* *
25609020 AT-TATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCT
190 ATCTAT-GACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCT
* * ** *
25609084 CCACTGCAACTTCAGGGAGATAAGATTTGTCATTTTCAGTTTGCCTCACTGGAACTTCAGGAGGA
254 CCACTACAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCCGCCTCACTGCAACTTCAGGAGGA
* * *
25609149 TAAGACTTGCTTACCTAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTTCT
319 TAAAACTTGCTTACCTAGCCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCT
*
25609214 CTCTGCAACTTCAGAGAGATAAGATCT
384 CTCTGCAACTTCAGAAAGATAAGATCT
25609241 GTGATTTTAA
Statistics
Matches: 369, Mismatches: 37, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
508 1 0.00
509 131 0.36
510 6 0.02
512 11 0.03
513 218 0.59
514 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (510 bp):
CTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGCCTGCTCCACTGCAACTTCAGGGAGATAAG
AATAGATGCGACCTACTCTCTGCAACATCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACT
GCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCACTGCAACTTCGGAGAGATAAGATCTAT
GACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTAC
AACTTCAGGGAGATAAGATTTGTCATCTTCAGTCCGCCTCACTGCAACTTCAGGAGGATAAAACT
TGCTTACCTAGCCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCA
ACTTCAGAAAGATAAGATCTAAGGTTTTAATCCGCTCACTGCAACTTTAGCAAGATAAAACTAAA
TACGATCTGCTCTCTGCAACTTCAGAGAGATGAGATCTAAGGTTTTAATCCGCTT
Found at i:25609195 original size:44 final size:42
Alignment explanation
Indices: 25608057--25609278 Score: 432
Period size: 44 Copynumber: 28.5 Consensus size: 42
25608047 GTCTATTCCG
* * *
25608057 CTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTAT--GCTTTAGTCTGCTCCA
* * * *
25608101 CTGCAACTTCAGGAAGATAATA-TTTGCCAACTTAGTCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTATG-C--TTTAGTCTGCTCCA
* ** * *
25608145 TTGCAACTTCAGGGAGATAAGACTA-GAC-GCAATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACTATG-CTTTAGTCTGCTCCA
* * * * *
25608185 CTGCAACTTTAGAGAGATAAGATCTGTGATTATAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGA-CTATGCTT-TAGTCTGCTCCA
* * * * * * *
25608229 CTACAATTTTAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTAT--GCTTTAGTCTGCTCCA
* * *
25608273 GTGCAACTTCAGGAAGATAAGA-TTTGCCATCTTCAGTCTGC-CTCA
1 CTGCAACTTCAGGGAGATAAGACTATG-C-T-TT-AGTCTGCTC-CA
25608318 CTGCAACTTCA-GGAGGATAAGACT-TGCCTACTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTATG-CT--TTAGTCTGCTCCA
* * * *
25608362 CTGCAACTTCAGGGAGATAAGAATAGATGC--GA-TCTACT-CT
1 CTGCAACTTCAGGGAGATAAGACT--ATGCTTTAGTCTGCTCCA
* * * * *
25608402 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGA-CTATG-CTTTAGTCTGCTCCA
* * *
25608446 CTGCAGCTTCAGGGAGATAAGACTAGATGC--GA-TCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACT--ATGCTTTAGTCTGCTCCA
* * * *
25608486 CTGCAACTTC-GGAGAGATAAGATCTGTGATTTTAATCCGCTCCA
1 CTGCAACTTCAGG-GAGATAAGA-CTATG-CTTTAGTCTGCTCCA
* * * * *
25608530 CTTCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTAT--GCTTTAGTCTGCTCCA
* * * *
25608574 CTACAACTTCAGGGAGATAATA-TTTGTCATCTTCAGTCCGC-CTCA
1 CTGCAACTTCAGGGAGATAAGACTATG-C-T-TT-AGTCTGCTC-CA
*
25608619 CTGCAACTTCA-GGAGGATAAAACT-TGCTTACTTAGTCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTATGC-T--TTAGTCTGCTCCA
* * *
25608663 CTACAACTTCAGGGAGATAAGACTAGATGC--GA-TCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACT--ATGCTTTAGTCTGCTCCA
** * * * *
25608703 CTGCAACTTCAGAAAGATAAGATCTAAGGTTTTAATCCGCT-CA
1 CTGCAACTTCAGGGAGATAAGA-CT-ATGCTTTAGTCTGCTCCA
* ** * ** *
25608746 CTGCAACTTTAGCAAGATAAAACTA---AATACGATCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACTATGCTTTA-G-TCTGCTCCA
* * * * * * *
25608786 CTGCAACTTCAGAGAGATGAGATCTAAGGTTTTAATCCGCT--T
1 CTGCAACTTCAGGGAGATAAGA-CT-ATGCTTTAGTCTGCTCCA
* *
25608828 CTGCAA-TTTA-GGAGGATAAGACT-TGCTTACTTAGCCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTATGC-T--TTAGTCTGCTCCA
* * * * *
25608871 TTGCAACTTCAGGGAGATAAGACTA-GATGT-GACCTGCT-CT
1 CTGCAACTTCAGGGAGATAAGACTATGCTTTAG-TCTGCTCCA
* * * * * **
25608911 CTGCAACATCAGAGAGA-ATAGATCTGTGATTTTAATCCACTCCA
1 CTGCAACTTCAGGGAGATA-AGA-CTATG-CTTTAGTCTGCTCCA
* * *
25608955 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTAT--GCTTTAGTCTGCTCCA
* * *
25608999 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTAT--GCTTTAGTCTGCTCCA
* * *
25609043 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTAT--GCTTTAGTCTGCTCCA
* *
25609087 CTGCAACTTCAGGGAGATAAGA-TTTGTCATTTTCAGTTTGC-CTCA
1 CTGCAACTTCAGGGAGATAAGACTATG-C--TTT-AGTCTGCTC-CA
* *
25609132 CTGGAACTTCA-GGAGGATAAGACT-TGCTTACCTAGCCTGCTCCA
1 CTGCAACTTCAGGGA-GATAAGACTATGCTT---TAGTCTGCTCCA
* * *
25609176 CTGCAACTTCAGGGAGATAAGACTAGATGC--GA-TCTTCT-CT
1 CTGCAACTTCAGGGAGATAAGACT--ATGCTTTAGTCTGCTCCA
* * * * *
25609216 CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTTCTCCA
1 CTGCAACTTCAGGGAGATAAGA-CTATG-CTTTAGTCTGCTCCA
* *
25609260 CTGTAACTTCAGGAAGATA
1 CTGCAACTTCAGGGAGATA
25609279 GGATTATCGG
Statistics
Matches: 910, Mismatches: 162, Indels: 212
0.71 0.13 0.17
Matches are distributed among these distances:
38 3 0.00
39 10 0.01
40 151 0.17
41 68 0.07
42 26 0.03
43 84 0.09
44 441 0.48
45 115 0.13
46 4 0.00
47 8 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (42 bp):
CTGCAACTTCAGGGAGATAAGACTATGCTTTAGTCTGCTCCA
Found at i:25625775 original size:44 final size:44
Alignment explanation
Indices: 25625745--25626105 Score: 188
Period size: 44 Copynumber: 8.1 Consensus size: 44
25625735 GGGGCATAGA
*
25625745 ATTAGTAGCTTC-ATCTTGTTCCACTGCAACTTCATGGAGAAAAG
1 ATTAGCAGCTTCAATC-TGTTCCACTGCAACTTCATGGAGAAAAG
* * *
25625789 ATTTGCAGCTTCAATCTGTTCCACTGCAACTTCAAGGAGATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGAAAAG
* * **** ** * * *
25625833 ATTCACTATGGTAGATTCAATCCAACCCACTATAACTTCA-GGGGTATAGG
1 A-T---TA--GCAGCTTCAATCTGTTCCACTGCAACTTCATGGAG-AAAAG
* * ** * * *
25625883 ATTTGTAGCTTCAATCTACTCCACTGTAACTTCAGGGAGATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGAAAAG
* * * *
25625927 ATTCGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGA-AATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGAA-AAG
* ** * * * *
25625971 ATTTGTTGCTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGAAAAG
* * * * * * *
25626015 ATTCGTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGAAAAG
*** * * * * *
25626059 ATTTTTAGCTTTAATCTGCTCCACTGCAATTTCAAGGAGATAAG
1 ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGAAAAG
25626103 ATT
1 ATT
25626106 CGCTATGGTA
Statistics
Matches: 263, Mismatches: 43, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
43 1 0.00
44 221 0.84
45 8 0.03
46 1 0.00
48 1 0.00
49 4 0.02
50 27 0.10
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
ATTAGCAGCTTCAATCTGTTCCACTGCAACTTCATGGAGAAAAG
Found at i:25625819 original size:138 final size:138
Alignment explanation
Indices: 25625616--25626151 Score: 390
Period size: 138 Copynumber: 3.9 Consensus size: 138
25625606 TTGTTGTTGT
* * * * * * * * *
25625616 TTCAATCTAATCCACTGCAACTTTAAGGATATAGGATTTGTAGCCTC-ATCTTGCTCCAC-GACA
1 TTCAATCTACTCCACTGCAACTTCAGGGAGAAAAGATTCGCAGCTTCAATC-TGCTCCACTG-CA
* * *
25625679 ACTTTAGGAAGATAAGATTTGCGACT-GTA-ACTTCATTCTGC-A-CCACTACAACTTTAGGGGC
64 ACTTAAGGAAGATAAGATTTGCGA-TGGTAGA-TTCAATC--CAACCCACTACAACTTCAGGGGC
25625740 ATAGAATTAGTAGC
125 ATAGAATTAGTAGC
** * * *
25625754 TTC-ATCTTGTTCCACTGCAACTTCATGGAGAAAAGATTTGCAGCTTCAATCTGTTCCACTGCAA
1 TTCAATC-TACTCCACTGCAACTTCAGGGAGAAAAGATTCGCAGCTTCAATCTGCTCCACTGCAA
** * * *
25625818 CTTCAAGG-AGATAAGATTCACTATGGTAGATTCAATCCAACCCACTATAACTTCAGGGGTATAG
65 CTT-AAGGAAGATAAGATTTGCGATGGTAGATTCAATCCAACCCACTACAACTTCAGGGGCATAG
* *
25625882 GATTTGTAGC
129 AATTAGTAGC
* * *
25625892 TTCAATCTACTCCACTGTAACTTCAGGGAGATAAGATTCGTAGCTTCAATCTGCTCCACTGCAAC
1 TTCAATCTACTCCACTGCAACTTCAGGGAGAAAAGATTCGCAGCTTCAATCTGCTCCACTGCAAC
* * ** * *
25625957 TTCAGGGAA-ATAAGATTT--G-T--T-GCTTCAAT-CTGCTCCACTGCAATTTCAGGGAG-ATA
66 TT-AAGGAAGATAAGATTTGCGATGGTAGATTCAATCCAAC-CCACTACAACTTCAGGG-GCATA
*
25626013 -AGATTCGTAGC
128 GA-ATTAGTAGC
* * * * *** * *
25626024 TTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTTTAGCTTTAATCTGCTCCACTGCAAT
1 TTCAATCTACTCCACTGCAACTTCAGGGAGAAAAGATTCGCAGCTTCAATCTGCTCCACTGCAAC
* * * * *
25626089 TTCAAGG-AGATAAGATTCGCTATGGTAGATTCAATCTAACCCACTACAACTTTAGGGGTATAG
66 TT-AAGGAAGATAAGATTTGCGATGGTAGATTCAATCCAACCCACTACAACTTCAGGGGCATAG
25626152 GATCTATGGT
Statistics
Matches: 320, Mismatches: 55, Indels: 45
0.76 0.13 0.11
Matches are distributed among these distances:
131 3 0.01
132 105 0.33
133 2 0.01
135 2 0.01
136 1 0.00
137 7 0.02
138 187 0.58
139 13 0.04
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (138 bp):
TTCAATCTACTCCACTGCAACTTCAGGGAGAAAAGATTCGCAGCTTCAATCTGCTCCACTGCAAC
TTAAGGAAGATAAGATTTGCGATGGTAGATTCAATCCAACCCACTACAACTTCAGGGGCATAGAA
TTAGTAGC
Found at i:25625986 original size:88 final size:88
Alignment explanation
Indices: 25625749--25626107 Score: 400
Period size: 88 Copynumber: 4.0 Consensus size: 88
25625739 CATAGAATTA
* * * *
25625749 GTAGCTTC-ATCTTGTTCCACTGCAACTTCATGGAGAA-AAGATTTGCAGCTTCAATCTGTTCCA
1 GTAGCTTCAATC-TGCTCCACTGCAACTTCAGGGA-AATAAGATTTGTAGCTTCAATCTGCTCCA
25625812 CTGCAACTTCAAGGAGATAAGATTCAC
64 CTGCAACTTCAAGGAGATAAGATT--C
* ** ** ** * *
25625839 TATGGTAGATTCAATCCAAC-CCACTATAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACT
1 ----GTAGCTTCAAT-CTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCT
* *
25625903 CCACTGTAACTTCAGGGAGATAAGATTC
61 CCACTGCAACTTCAAGGAGATAAGATTC
*
25625931 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTTGCTTCAATCTGCTCCACT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACT
* *
25625996 GCAATTTCAGGGAGATAAGATTC
66 GCAACTTCAAGGAGATAAGATTC
* * * * *
25626019 GTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTTTAGCTTTAATCTGCTCCACT
1 GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACT
*
25626084 GCAATTTCAAGGAGATAAGATTC
66 GCAACTTCAAGGAGATAAGATTC
25626107 G
1 G
25626108 CTATGGTAGA
Statistics
Matches: 227, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
87 2 0.01
88 155 0.68
92 1 0.00
93 1 0.00
94 65 0.29
95 2 0.01
96 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (88 bp):
GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACT
GCAACTTCAAGGAGATAAGATTC
Found at i:25626054 original size:132 final size:134
Alignment explanation
Indices: 25625721--25626150 Score: 458
Period size: 138 Copynumber: 3.2 Consensus size: 134
25625711 TCATTCTGCA
* * * * * *
25625721 CCACTACAACTTTAGGGGCAT-AGAATTAGTAGCTTC-ATCTTGTTCCACTGCAACTTCATGGAG
1 CCACTACAACTTCAGGGGTATAAG-ATTCGTAGCTTCAATC-TGCTCCACTGTAACTTCAGGGAG
* * *
25625784 AAAAGATTTGCAGCTTCAATCTGTTCCACTGCAACTTCAAGGAGATAAGATTCACTATGGTAGAT
64 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA-T---TATGGTAGAT
25625849 TCAATCCAAC
125 TCAATCCAAC
* * * *
25625859 CCACTATAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACTGTAACTTCAGGGAGAT
1 CCACTACAACTTCAGGGGTATAAGATTCGTAGCTTCAATCTGCTCCACTGTAACTTCAGGGAGAT
* * * * *
25625924 AAGATTCGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT-T-GTTGCTTCAAT-
66 AAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTATGGTAGATTCAATC
**
25625986 CTGC
131 CAAC
* * *
25625990 TCCACTGCAATTTCAGGGAG-ATAAGATTCGTAGCTTCAATCTGCTCCACTGTAACTTTAGGGAG
1 -CCACTACAACTTCAGGG-GTATAAGATTCGTAGCTTCAATCTGCTCCACTGTAACTTCAGGGAG
* * *
25626054 ATAAGATTTTTAGCTTTAATCTGCTCCACTGCAATTTCAAGGAGATAAGATTCGCTATGGTAGAT
64 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA-T---TATGGTAGAT
*
25626119 TCAATCTAAC
125 TCAATCCAAC
*
25626129 CCACTACAACTTTAGGGGTATA
1 CCACTACAACTTCAGGGGTATA
25626151 GGATCTATGG
Statistics
Matches: 240, Mismatches: 40, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
131 2 0.01
132 107 0.45
133 3 0.01
134 1 0.00
136 1 0.00
137 3 0.01
138 118 0.49
139 5 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (134 bp):
CCACTACAACTTCAGGGGTATAAGATTCGTAGCTTCAATCTGCTCCACTGTAACTTCAGGGAGAT
AAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTATGGTAGATTCAATC
CAAC
Found at i:25630917 original size:55 final size:55
Alignment explanation
Indices: 25630851--25630961 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
25630841 GTCATCGATT
*
25630851 CCCATTTGACCTCTCCCTTACTTAGTCTCACTCTTCTCCTTTCTTACTTCTTCTC
1 CCCATTTGACCTCTCCCTCACTTAGTCTCACTCTTCTCCTTTCTTACTTCTTCTC
25630906 CCCATTTGACCTCTCCCTCACTTAGTCTCACTCTTCTCCTTTCTTACTTCTTCTC
1 CCCATTTGACCTCTCCCTCACTTAGTCTCACTCTTCTCCTTTCTTACTTCTTCTC
25630961 C
1 C
25630962 AACTCCTTCT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.11, C:0.41, G:0.04, T:0.44
Consensus pattern (55 bp):
CCCATTTGACCTCTCCCTCACTTAGTCTCACTCTTCTCCTTTCTTACTTCTTCTC
Found at i:25630960 original size:26 final size:26
Alignment explanation
Indices: 25630867--25630954 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
25630857 TGACCTCTCC
25630867 CTTACTTAGTCTCACTCTTCTCCTTT
1 CTTACTTAGTCTCACTCTTCTCCTTT
** * *
25630893 CTTACTTCTTCTC-CCCATT-TGACCTCTCC
1 CTTACTTAGTCTCACTC-TTCT--CCT-T-T
*
25630922 CTCACTTAGTCTCACTCTTCTCCTTT
1 CTTACTTAGTCTCACTCTTCTCCTTT
25630948 CTTACTT
1 CTTACTT
25630955 CTTCTCCAAC
Statistics
Matches: 45, Mismatches: 10, Indels: 14
0.65 0.14 0.20
Matches are distributed among these distances:
25 3 0.07
26 19 0.42
27 4 0.09
28 4 0.09
29 12 0.27
30 3 0.07
ACGTcount: A:0.11, C:0.39, G:0.03, T:0.47
Consensus pattern (26 bp):
CTTACTTAGTCTCACTCTTCTCCTTT
Found at i:25639248 original size:18 final size:18
Alignment explanation
Indices: 25639225--25639262 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25639215 TCGTTTTTAT
25639225 TTTCTCTTTTGCTATTTC
1 TTTCTCTTTTGCTATTTC
*
25639243 TTTCTCTTTTGTTATTTC
1 TTTCTCTTTTGCTATTTC
25639261 TT
1 TT
25639263 CTGTTCTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.18, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTCTCTTTTGCTATTTC
Found at i:25640555 original size:14 final size:13
Alignment explanation
Indices: 25640536--25640566 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
25640526 AATGGATTAG
25640536 TATAATTCTTATCA
1 TATAATTCTTAT-A
25640550 TATAATTCTTATA
1 TATAATTCTTATA
25640563 TATA
1 TATA
25640567 TTGTACAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAATTCTTATA
Found at i:25642508 original size:7 final size:7
Alignment explanation
Indices: 25642496--25642536 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
25642486 TAAAATTACA
*
25642496 ACATTCT
1 ACATTCC
*
25642503 ACATTCT
1 ACATTCC
25642510 ACATTCC
1 ACATTCC
25642517 ACATTCC
1 ACATTCC
25642524 ACATTCC
1 ACATTCC
25642531 ACATTC
1 ACATTC
25642537 ATATATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.34
Consensus pattern (7 bp):
ACATTCC
Found at i:25643469 original size:15 final size:15
Alignment explanation
Indices: 25643436--25643469 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25643426 AATTTCTTCT
*
25643436 TTTTATTTTTATTTT
1 TTTTATTTTTATTTG
*
25643451 TTTTATTTTTGTTTG
1 TTTTATTTTTATTTG
25643466 TTTT
1 TTTT
25643470 GAATGCAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (15 bp):
TTTTATTTTTATTTG
Found at i:25646033 original size:371 final size:372
Alignment explanation
Indices: 25645350--25646096 Score: 1487
Period size: 371 Copynumber: 2.0 Consensus size: 372
25645340 AAATGTATTA
25645350 TTTTCATATATCTGTTAATCACGATTTGAAATTCTAAGAGATACCTTTTATTTGTAAAATAATAA
1 TTTTCATATATCTGTTAATCACGATTTGAAATTCTAAGAGATACCTTTTATTTGTAAAATAATAA
25645415 TTAAAGCAGTGTGAGTATTAATATCAATCATTATTAATGTAACGTTCAATCACTTTAATCGAAAT
66 TTAAAGCAGTGTGAGTATTAATATCAATCATTATTAATGTAACGTTCAATCACTTTAATCGAAAT
25645480 CAAAATCATCAAGTTTGAGTTTATAGTTTTGTAATGACACTTGAAACTTTTAATCTAATTAATTA
131 CAAAATCATCAAGTTTGAGTTTATAGTTTTGTAATGACACTTGAAACTTTTAATCTAATTAATTA
25645545 GGAAATAATAAAGATATTAAAATTTTAATAAAATAATTGTTTATCATGATTTATACAAATAATTT
196 GGAAATAATAAAGATATTAAAATTTTAATAAAATAATTGTTTATCATGATTTATACAAATAATTT
25645610 ATTTTTGGGTATTCTATACTGTATTTTTTACGTCACTTGTATGAATATAAACTAAATCATGACAT
261 ATTTTTGGGTATTCTATACTGTATTTTTTACGTCACTTGTATGAATATAAACTAAATCATGACAT
25645675 CAATTACGTGAATTAAAAAAATATGTAAAAAATATA-TTAATTAATT
326 CAATTACGTGAATTAAAAAAATATGTAAAAAATATATTTAATTAATT
25645721 TTTTCATATATCTGTTAATCACGATTTGAAATTCTAAGAGATACCTTTTATTTGTAAAATAATAA
1 TTTTCATATATCTGTTAATCACGATTTGAAATTCTAAGAGATACCTTTTATTTGTAAAATAATAA
25645786 TTAAAGCAGTGTGAGTATTAATATCAATCATTATTAATGTAACGTTCAATCACTTTAATCGAAAT
66 TTAAAGCAGTGTGAGTATTAATATCAATCATTATTAATGTAACGTTCAATCACTTTAATCGAAAT
25645851 CAAAATCATCAAGTTTGAGTTTATAGTTTTGTAATGACACTTGAAACTTTTAATCTAATTAATTA
131 CAAAATCATCAAGTTTGAGTTTATAGTTTTGTAATGACACTTGAAACTTTTAATCTAATTAATTA
25645916 GGAAATAATAAAGATATTAAAATTTTAATAAAATAATTGTTTATCATGATTTATACAAATAATTT
196 GGAAATAATAAAGATATTAAAATTTTAATAAAATAATTGTTTATCATGATTTATACAAATAATTT
25645981 ATTTTTGGGTATTCTATACTGTATTTTTTACGTCACTTGTATGAATATAAACTAAATCATGACAT
261 ATTTTTGGGTATTCTATACTGTATTTTTTACGTCACTTGTATGAATATAAACTAAATCATGACAT
25646046 CAATTACGTGAATTAAAAAAATATGTAAAAAATATATTTAATTAATT
326 CAATTACGTGAATTAAAAAAATATGTAAAAAATATATTTAATTAATT
25646093 TTTT
1 TTTT
25646097 AATAAAAATT
Statistics
Matches: 375, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
371 361 0.96
372 14 0.04
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (372 bp):
TTTTCATATATCTGTTAATCACGATTTGAAATTCTAAGAGATACCTTTTATTTGTAAAATAATAA
TTAAAGCAGTGTGAGTATTAATATCAATCATTATTAATGTAACGTTCAATCACTTTAATCGAAAT
CAAAATCATCAAGTTTGAGTTTATAGTTTTGTAATGACACTTGAAACTTTTAATCTAATTAATTA
GGAAATAATAAAGATATTAAAATTTTAATAAAATAATTGTTTATCATGATTTATACAAATAATTT
ATTTTTGGGTATTCTATACTGTATTTTTTACGTCACTTGTATGAATATAAACTAAATCATGACAT
CAATTACGTGAATTAAAAAAATATGTAAAAAATATATTTAATTAATT
Found at i:25648607 original size:3 final size:3
Alignment explanation
Indices: 25648599--25648627 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25648589 TGCCTGCTAG
25648599 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25648628 TGGCAGCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25653284 original size:16 final size:17
Alignment explanation
Indices: 25653252--25653284 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25653242 AACTAACAGT
25653252 TATAAAATTTATATTTA
1 TATAAAATTTATATTTA
25653269 TATAAAATTT-TATTTA
1 TATAAAATTTATATTTA
25653285 AATTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATAAAATTTATATTTA
Found at i:25653579 original size:108 final size:108
Alignment explanation
Indices: 25653387--25653607 Score: 345
Period size: 108 Copynumber: 2.0 Consensus size: 108
25653377 TGTGGTTGAG
* *
25653387 GAGTCTTTCTAGATGTTGAAGATGTACTTAGAAGAATGATAAGAAAAAAAATGGAGGAAGAAGAA
1 GAGTCTTTCTAGATGTCGAAGATATACTTAGAAGAATGATAAGAAAAAAAATGGAGGAAGAAGAA
* * *
25653452 TACCTCTCATTGAAATGGGATAGGAGTATTTATAGGTGGAGGA
66 TACCTATCATTGAAATGGGAGAGGAGTATTTATAGGTAGAGGA
*
25653495 GAGTCTTTCTAGATGTCGAAGATATACTTAGAAGAATGATAAGAAAAAAAGTGGAGGAAGAAGAA
1 GAGTCTTTCTAGATGTCGAAGATATACTTAGAAGAATGATAAGAAAAAAAATGGAGGAAGAAGAA
* * *
25653560 TACCTATCCTT-AAGGTGGGAGAGGAGTATTTGTAGGTAGAGGA
66 TACCTATCATTGAA-ATGGGAGAGGAGTATTTATAGGTAGAGGA
25653603 GAGTC
1 GAGTC
25653608 CACTCTCTCG
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
107 2 0.02
108 101 0.98
ACGTcount: A:0.39, C:0.07, G:0.29, T:0.25
Consensus pattern (108 bp):
GAGTCTTTCTAGATGTCGAAGATATACTTAGAAGAATGATAAGAAAAAAAATGGAGGAAGAAGAA
TACCTATCATTGAAATGGGAGAGGAGTATTTATAGGTAGAGGA
Found at i:25655801 original size:105 final size:105
Alignment explanation
Indices: 25655619--25655829 Score: 422
Period size: 105 Copynumber: 2.0 Consensus size: 105
25655609 TTTTCCTATC
25655619 CTATGGCATGCCATCTATATCCTACTCAACCCGATACAGTTAATAGGGTTTCATTTCACTTTTCA
1 CTATGGCATGCCATCTATATCCTACTCAACCCGATACAGTTAATAGGGTTTCATTTCACTTTTCA
25655684 AATACAACCAATATCCAATTCTCATATTTGCACATATATT
66 AATACAACCAATATCCAATTCTCATATTTGCACATATATT
25655724 CTATGGCATGCCATCTATATCCTACTCAACCCGATACAGTTAATAGGGTTTCATTTCACTTTTCA
1 CTATGGCATGCCATCTATATCCTACTCAACCCGATACAGTTAATAGGGTTTCATTTCACTTTTCA
25655789 AATACAACCAATATCCAATTCTCATATTTGCACATATATT
66 AATACAACCAATATCCAATTCTCATATTTGCACATATATT
25655829 C
1 C
25655830 ATTTCAATTT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (105 bp):
CTATGGCATGCCATCTATATCCTACTCAACCCGATACAGTTAATAGGGTTTCATTTCACTTTTCA
AATACAACCAATATCCAATTCTCATATTTGCACATATATT
Found at i:25656595 original size:14 final size:15
Alignment explanation
Indices: 25656576--25656608 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25656566 TCTTCTCTGC
25656576 TTTTCTCTC-TTTCT
1 TTTTCTCTCTTTTCT
*
25656590 TTTTCTTTCTTTTCT
1 TTTTCTCTCTTTTCT
25656605 TTTT
1 TTTT
25656609 AATTTGCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTCTCTTTTCT
Found at i:25660457 original size:36 final size:36
Alignment explanation
Indices: 25660410--25660480 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
25660400 GCTAAGCTAC
25660410 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
25660446 CACTTATCACTTTTTCACTTGATCAGATAAGTATA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATA
25660481 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:25660457 original size:43 final size:42
Alignment explanation
Indices: 25660365--25660447 Score: 112
Period size: 45 Copynumber: 1.9 Consensus size: 42
25660355 CTTACGTATG
*
25660365 ATCACTTATCATTTGTCCCTGATCAGATAAGTGTAGCTAAGCT
1 ATCACTTATCATTTGTCCCTGATCAGATAAGTATAGC-AAGCT
* *
25660408 ACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCA
1 ATCACTTATCA-TTTGTC-CCTGATCAGATAAGTATAGCA
25660448 CTTATCACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 10 0.29
44 7 0.20
45 18 0.51
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (42 bp):
ATCACTTATCATTTGTCCCTGATCAGATAAGTATAGCAAGCT
Found at i:25662257 original size:33 final size:31
Alignment explanation
Indices: 25662166--25662249 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 31
25662156 AAAACATGCT
* * *
25662166 GTAACAGTCTGGGCCTGAGCCCTATTCAGTAACA
1 GTAACAGTGTGGGCCTTAGCCC-A-TCAAT-ACA
*
25662200 GT-ATAGTGTGGGCCTTAG-CC--CAATACA
1 GTAACAGTGTGGGCCTTAGCCCATCAATACA
25662227 GTAACAGTGTGGGCCTTAGCCCA
1 GTAACAGTGTGGGCCTTAGCCCA
25662250 ATACAATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
27 5 0.12
28 18 0.43
29 2 0.05
32 2 0.05
33 13 0.31
34 2 0.05
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (31 bp):
GTAACAGTGTGGGCCTTAGCCCATCAATACA
Found at i:25662267 original size:33 final size:32
Alignment explanation
Indices: 25662169--25662268 Score: 91
Period size: 33 Copynumber: 3.2 Consensus size: 32
25662159 ACATGCTGTA
* * * * *
25662169 ACAGTCTGGGCCTGAGCCCTATTCAGTAACAGT
1 ACAGTGTGGGCCTTAGCCCAATACA-TAATAGT
* *
25662202 ATAGTGTGGGCCTTAGCCCAATAC--AGTA--
1 ACAGTGTGGGCCTTAGCCCAATACATAATAGT
25662230 ACAGTGTGGGCCTTAGCCCAATACAATAATAGT
1 ACAGTGTGGGCCTTAGCCCAATAC-ATAATAGT
25662263 ACAGTG
1 ACAGTG
25662269 CAATAATGCA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
28 23 0.43
30 2 0.04
31 3 0.06
33 25 0.47
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (32 bp):
ACAGTGTGGGCCTTAGCCCAATACATAATAGT
Found at i:25676431 original size:22 final size:22
Alignment explanation
Indices: 25676403--25676444 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
25676393 CAAAAGGAGA
25676403 AGCTCACTTATACCACTGGCTT
1 AGCTCACTTATACCACTGGCTT
25676425 AGCTCACTTATACCACTGGC
1 AGCTCACTTATACCACTGGC
25676445 GAAGGTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (22 bp):
AGCTCACTTATACCACTGGCTT
Found at i:25683616 original size:70 final size:67
Alignment explanation
Indices: 25683524--25683656 Score: 194
Period size: 70 Copynumber: 1.9 Consensus size: 67
25683514 TCCGAATAAG
* * ** *
25683524 AAAAGGCAAAACTACGTTGTTTTGATAAATGTTTACCTTTTCTAAAGTTAAAAGTCAAAACCATT
1 AAAAGGAAAAACTACGTCGTTTTGATAAATGTTTA-CTCAT-T-AAGTTAAAAGGCAAAACCATT
25683589 AAGTT
63 AAGTT
25683594 AAAAGGAAAAACTACGTCGTTTTGATAAATGTTTACTCATTAAGTTAAAAGGCAAAACCATTA
1 AAAAGGAAAAACTACGTCGTTTTGATAAATGTTTACTCATTAAGTTAAAAGGCAAAACCATTA
25683657 TATTGTTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
67 21 0.36
68 1 0.02
69 3 0.05
70 33 0.57
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.32
Consensus pattern (67 bp):
AAAAGGAAAAACTACGTCGTTTTGATAAATGTTTACTCATTAAGTTAAAAGGCAAAACCATTAAG
TT
Found at i:25686673 original size:14 final size:14
Alignment explanation
Indices: 25686654--25686693 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25686644 TTGATTGCCA
25686654 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
25686668 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
25686682 GAAAAATGTTTT
1 GTAAAATGTTTT
25686694 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:25688275 original size:123 final size:122
Alignment explanation
Indices: 25688148--25689426 Score: 1062
Period size: 123 Copynumber: 10.4 Consensus size: 122
25688138 CTTTGTAGGA
* * * *
25688148 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTATTGATACGCGGCCATT-AGTGACCTCATCATAAG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGA-TGACTTCATTATAAG
* * * * * * *
25688212 CTGTGTCATTGACAAGCTTTTCATTGTGATCATGCCCAATATTAAAGAATTCTACGGGG
65 CTGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCT-CGGGG
* * * ** * * * * * * * * *
25688271 AGCTTTACTTCGTTATGATCAGTTTCAACTATTAATATGTCGCTATTGATGACCTCTTTGTAAGG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGATGACTTCATTATAAGC
* * ** * * * *
25688336 TGTGTCAACGACAAGCTTTCTGTTACCATCATGCTCAATATTAAAGGATTCTGTGGGG
66 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCT-CGGGG
** * ** * * *
25688394 AGCTTCACTTCGTTTTGCTCAGTTTCCGCTACTGATATGCCATCACTGATGACTTCATTACAAGA
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGATGACTTCATTATAAGC
* * * * *
25688459 TGTGTCAATGACGAAGTTTCCGTTATCATCATACCCAACATT-AAGAGATT-TACTGGCG
66 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAG-GATTCT-C-GGGG
* * * * * * * * *
25688517 AGCTTTGCTTCTTTTTTCTCAATTTCCGCTACTGATAGGCTGCCATTGGTGACATCATTGTAAGT
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGATGACTTCATTATAAGC
* ** ** * * *
25688582 TGTGTCAAAGACAAGTTTTTGATTATCATCATGCCGAACATTAAGGGATTCTGTGGGG
66 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCT-CGGGG
* * * * * * * *
25688640 AGCTTTACTTCATTATGCTCAGCTTCAC-TTACTAATACGTCGCCATTGATGA-TCTCATTGTAA
1 AGCTTTGCTTCGTTTTGCTCAGTTTC-CGCTACTGATACGCCGCCATTGATGACT-TCATTATAA
*** * *
25688703 G-TCGTGTCAATGACAAACTTTTTGTTATCGTCATGCCCAACATTAAGGGATTCTCTGGGG
64 GCT-GTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTC-GGGG
* * * * * * *
25688763 AGCTTCGCTACGTTTTGCTCCA-TTTCCACTATTGATACACCGTCATTCATGACTTCATTATAAG
1 AGCTTTGCTTCGTTTTGCT-CAGTTTCCGCTACTGATACGCCGCCATTGATGACTTCATTATAAG
* * * * * * *
25688827 CTGCGTTAATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAAGGATTCTTTGGGG
65 CTGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTC-TCGGGG
* *
25688886 AGCTTTGCTTCATTTTGCTCAGTTTCCGCTACTGATATGCCGCCATTGATGACTTCATTATAAGC
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGATGACTTCATTATAAGC
* * * * *
25688951 TATGTCAATGTCAAACTTTCCATCATCATCATGCCCAACATTAAAGTATTCTCTGGAG
66 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTC-GGGG
* * *
25689009 AGCTTTGCTTCGTTTTGCTTAGTTTCCACTACTGATACGCCGTCATTGATGACTTCATTATAAGC
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGATGACTTCATTATAAGC
* ** * * * *
25689074 TGCGTTGATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAAGGATTCTCTGGGG
66 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTC-GGGG
* * *
25689132 AGCTTTGCTTCATTTTGCTCAGTTTCTGCTACTGATATGCCGCCATTGATGACTTCATTATAAGC
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGATGACTTCATTATAAGC
* * * *
25689197 TATGTCAATGTCAAACTTTCCATCATCATCATGCCCAACATTAAAGGATTCTTTGGGG
66 TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTC-TCGGGG
* * * * * * * * * *
25689255 AGCTTTGCTTCGATATCCTCAGGTTCAGCTACTAATACGTCGCCATTGATGACCTCATTGTAAGT
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGATGACTTCATTATAAGC
* * *** * * * * * * * *
25689320 TGTGTCAACGAC-AAGTTTATTTTTATCGTAATGTCCAACATCAAGGGATTTTATGGAG
66 TGTGTCAATGACAAACTTT-CCATTATCATCATGCCCAACATTAAAGGATTCT-CGGGG
* ** * *
25689378 AGCTTTACTTCGTTCGGCTTAGTTTCCGCTATTGATACGCCGCCATTGA
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGA
25689427 CCTCGTTATA
Statistics
Matches: 926, Mismatches: 211, Indels: 38
0.79 0.18 0.03
Matches are distributed among these distances:
122 15 0.02
123 900 0.97
124 11 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (122 bp):
AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCCGCCATTGATGACTTCATTATAAGC
TGTGTCAATGACAAACTTTCCATTATCATCATGCCCAACATTAAAGGATTCTCGGGG
Found at i:25688867 original size:369 final size:366
Alignment explanation
Indices: 25688148--25689391 Score: 1275
Period size: 369 Copynumber: 3.4 Consensus size: 366
25688138 CTTTGTAGGA
* * *
25688148 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTATTGATACGCGGCCATT-AGTGACCTCATCATAAG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCTGCCATTGA-TGACCTCATTATAAG
* * * * * * *
25688212 CTGTGTCATTGACAAGCTTTTCATTGTGATCATGCCCAATATTAAAGAATTCTACGGGGAGCTTT
65 CTGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTATGGAGAGCTTT
* * * * *
25688277 ACTTCGTTATGATCAGTTTCAACTATTAATATGTCGCTATTGATGACCTCTTTGTAAGGT-GTGT
130 ACTTCGTTATGCTCAGTTTC-ACTACTAATACGTCGCCATTGATGA-CTCATTGTAA-GTCGTGT
* * * * * * *
25688341 CAACGACAAGCTTTCTGTTACCATCATGCTCAATATTAAAGGATTCTGTGGGGAGCTTCACTTCG
192 CAATGACAAACTTTCTGTTATCATCATGCCCAACATT-AAGGATTCTCTGGGGAGCTTCGCTTCG
* * * * *
25688406 TTTTGCTCAGTTTCCGCTACTGATATGCCATCACTGATGACTTCATTACAAGATGTGTCAATGAC
256 TTTTGCTCAGTTTCCGCTACTGATATGCCGTCATTGATGACTTCATTATAAGCTGTGTCAATGTC
* * * * * * *
25688471 GAAGTTTCCGTTATCATCATACCCAACATTAAGAGATT-TACTGGCG
321 AAACTTTCCATCATCATCATGCCCAACATTAAGAGATTCT-TTGGGG
* * * * * * * *
25688517 AGCTTTGCTTCTTTTTTCTCAATTTCCGCTACTGATAGGCTGCCATTGGTGACATCATTGTAAGT
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCTGCCATTGATGACCTCATTATAAGC
* * * * * * *
25688582 TGTGTCAAAGACAAGTTTTTGATTATCATCATGCCGAACATTAAGGGATTCTGTGGGGAGCTTTA
66 TGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTATGGAGAGCTTTA
* *
25688647 CTTCATTATGCTCAGCTTCACTTACTAATACGTCGCCATTGATGATCTCATTGTAAGTCGTGTCA
131 CTTCGTTATGCTCAGTTTCAC-TACTAATACGTCGCCATTGATGA-CTCATTGTAAGTCGTGTCA
* * *
25688712 ATGACAAACTTTTTGTTATCGTCATGCCCAACATTAAGGGATTCTCTGGGGAGCTTCGCTACGTT
194 ATGACAAACTTTCTGTTATCATCATGCCCAACATTAA-GGATTCTCTGGGGAGCTTCGCTTCGTT
* * ** * * *
25688777 TTGCTCCA-TTTCCACTATTGATACACCGTCATTCATGACTTCATTATAAGCTGCGTTAATGTCA
258 TTGCT-CAGTTTCCGCTACTGATATGCCGTCATTGATGACTTCATTATAAGCTGTGTCAATGTCA
*
25688841 AACTTTCCATCATCATCCTGCCCAACATTGAAG-GATTCTTTGGGG
322 AACTTTCCATCATCATCATGCCCAACATT-AAGAGATTCTTTGGGG
* * * *
25688886 AGCTTTGCTTCATTTTGCTCAGTTTCCGCTACTGATATGCCGCCATTGATGACTTCATTATAAGC
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCTGCCATTGATGACCTCATTATAAGC
* * * * * * * *
25688951 TATGTCAATGTCAAACTTTCCATCATCATCATGCCCAACATTAAAGTATTCTCTGGAGAGCTTTG
66 TGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTATGGAGAGCTTTA
* * * * * *
25689016 CTTCGTTTTGCTTAGTTTCCACTACTGATACGCCGTCATTGATGACTTCATTATAAGCTGCGT-T
131 CTTCGTTATGCTCAGTTT-CACTACTAATACGTCGCCATTGATGAC-TCATTGTAAG-T-CGTGT
* * ** * * * *
25689080 -GATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAAGGATTCTCTGGGGAGCTTTGCTTCA
192 CAATGACAAACTTTCTGTTATCATCATGCCCAACATT-AAGGATTCTCTGGGGAGCTTCGCTTCG
* * *
25689144 TTTTGCTCAGTTTCTGCTACTGATATGCCGCCATTGATGACTTCATTATAAGCTATGTCAATGTC
256 TTTTGCTCAGTTTCCGCTACTGATATGCCGTCATTGATGACTTCATTATAAGCTGTGTCAATGTC
25689209 AAACTTTCCATCATCATCATGCCCAACATTAA-AGGATTCTTTGGGG
321 AAACTTTCCATCATCATCATGCCCAACATTAAGA-GATTCTTTGGGG
* * * * * * *
25689255 AGCTTTGCTTCGATATCCTCAGGTTCAGCTACTAATACG-TCGCCATTGATGACCTCATTGTAAG
1 AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCT-GCCATTGATGACCTCATTATAAG
* * ** * * * * * *
25689319 TTGTGTCAACGACAAG-TTTATTTTTATCGTAATGTCCAACATCAAGGGATTTTATGGAGAGCTT
65 CTGTGTCAATGACAAGCTTT-TCATTATCATCATGCCCAACATTAAAGGATTCTATGGAGAGCTT
25689383 TACTTCGTT
129 TACTTCGTT
25689392 CGGCTTAGTT
Statistics
Matches: 715, Mismatches: 143, Indels: 34
0.80 0.16 0.04
Matches are distributed among these distances:
368 14 0.02
369 685 0.96
370 13 0.02
371 3 0.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (366 bp):
AGCTTTGCTTCGTTTTGCTCAGTTTCCGCTACTGATACGCTGCCATTGATGACCTCATTATAAGC
TGTGTCAATGACAAGCTTTTCATTATCATCATGCCCAACATTAAAGGATTCTATGGAGAGCTTTA
CTTCGTTATGCTCAGTTTCACTACTAATACGTCGCCATTGATGACTCATTGTAAGTCGTGTCAAT
GACAAACTTTCTGTTATCATCATGCCCAACATTAAGGATTCTCTGGGGAGCTTCGCTTCGTTTTG
CTCAGTTTCCGCTACTGATATGCCGTCATTGATGACTTCATTATAAGCTGTGTCAATGTCAAACT
TTCCATCATCATCATGCCCAACATTAAGAGATTCTTTGGGG
Found at i:25689610 original size:120 final size:120
Alignment explanation
Indices: 25688320--25689648 Score: 395
Period size: 123 Copynumber: 10.9 Consensus size: 120
25688310 TCGCTATTGA
* * * * * * *
25688320 TGACCTCTTTGTAAGGTGTGTCAACGACAAGCTTTCTGTTACCATCATG-CTCAATATTAAAGGA
1 TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCT-AACATTAAGGGA
* * ** * ** *
25688384 TTCTGTGGGGAGCTTCACTTCGTTTTGCTCAGTTTCCGCTACTGATATGCCATCACT
65 TTCTGTGGAGAGCTTTACTTCGTTCGGCTCAGTTTCCGCTATTGATACACCACCA-T
* ** * * ** * * * *
25688441 GATGACTTCATTACAAGATGTGTCAATGACGAAG-TTTCCGTTATCATCATACCCAACATTAAGA
1 --TGACCTCATTGTAAGTTGTGTCAACGAC-AAGCTTTTTGTTATCGTCATGCCTAACATTAAGG
* * * * *** * * ** **
25688505 GATT-TACTGGCGAGCTTTGCTTCTTTTTTCTCAATTTCCGCTACTGATAGGCTGCCATT
63 GATTCT-GTGGAGAGCTTTACTTCGTTCGGCTCAGTTTCCGCTATTGATACACCACCA-T
* * * *
25688564 GGTGACATCATTGTAAGTTGTGTCAAAGACAAG-TTTTTGATTATCATCATGCCGAACATTAAGG
1 --TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTTTTG-TTATCGTCATGCCTAACATTAAGG
* * ** * * * * ** *
25688628 GATTCTGTGGGGAGCTTTACTTCATTATGCTCAGCTTCAC-TTACTAATACGTCGCCATT
63 GATTCTGTGGAGAGCTTTACTTCGTTCGGCTCAGTTTC-CGCTATTGATACACCACCA-T
* * * * *
25688687 GATGATCTCATTGTAAGTCGTGTCAATGACAAACTTTTTGTTATCGTCATGCCCAACATTAAGGG
1 --TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCTAACATTAAGGG
* * ** * ** * **
25688752 ATTCTCTGGGGAGCTTCGCTACGTTTTGCTCCA-TTTCCACTATTGATACACCGTCATT
64 ATTCTGTGGAGAGCTTTACTTCGTTCGGCT-CAGTTTCCGCTATTGATACACCACCA-T
* * * * * * * * *** * * * *
25688810 CATGACTTCATTATAAGCTGCGTTAATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAA-G
1 --TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCTAACATT-AAGG
* * * * ** * ** *
25688874 GATTCTTTGGGGAGCTTTGCTTCATTTTGCTCAGTTTCCGCTACTGATATGCCGCCATT
63 GATTCTGTGGAGAGCTTTACTTCGTTCGGCTCAGTTTCCGCTATTGATACACCACCA-T
* * * * * * * *** * * * * *
25688933 GATGACTTCATTATAAGCTATGTCAATGTCAAACTTTCCATCATCATCATGCCCAACATTAAAGT
1 --TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCTAACATTAAGGG
* * ** * * * * **
25688998 ATTCTCTGGAGAGCTTTGCTTCGTTTTGCTTAGTTTCCACTACTGATACGCCGTCATT
64 ATTCTGTGGAGAGCTTTACTTCGTTCGGCTCAGTTTCCGCTATTGATACACCACCA-T
* * * * ** * * * *** * * * *
25689056 GATGACTTCATTATAAGCTGCGTTGATGTCAAACTTTCCATCATCATCCTGCCCAACATTGAA-G
1 --TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCTAACATT-AAGG
* * * * ** * * ** *
25689120 GATTCTCTGGGGAGCTTTGCTTCATTTTGCTCAGTTTCTGCTACTGATATGCCGCCATT
63 GATTCTGTGGAGAGCTTTACTTCGTTCGGCTCAGTTTCCGCTATTGATACACCACCA-T
* * * * * * * *** * * * *
25689179 GATGACTTCATTATAAGCTATGTCAATGTCAAACTTTCCATCATCATCATGCCCAACATTAAAGG
1 --TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCTAACATTAAGGG
* * * * * * * ** *
25689244 ATTCTTTGGGGAGCTTTGCTTCGATATC--CTCAGGTTCAGCTACTAATACGTCGCCATT
64 ATTCTGTGGAGAGCTTTACTTCG-T-TCGGCTCAGTTTCCGCTATTGATACACCACCA-T
* * *
25689302 GATGACCTCATTGTAAGTTGTGTCAACGACAAG-TTTATTTTTATCGTAATGTCC-AACATCAAG
1 --TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTT-TTGTTATCGTCATG-CCTAACATTAAG
* * * * *
25689365 GGATTTTATGGAGAGCTTTACTTCGTTCGGCTTAGTTTCCGCTATTGATACGCCGCCAT
62 GGATTCTGTGGAGAGCTTTACTTCGTTCGGCTCAGTTTCCGCTATTGATACACCACCAT
* * * * * * **
25689424 TGACCTCGTTATAAACTT-T-TCCGATGACGAGCTTTTTGTTATCGTCATGCCTAACATTAACCG
1 TGACCTCATTGT-AAGTTGTGT-CAACGACAAGCTTTTTGTTATCGTCATGCCTAACATTAAGGG
* * * * *
25689487 ATTCTGTGGAGGGTTTTGCTTTGTTCCGG-TCAG-TTCTCGCTATTGATACACCACCGT
64 ATTCTGTGGAGAGCTTTACTTCGTT-CGGCTCAGTTTC-CGCTATTGATACACCACCAT
** *
25689544 TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCTAATGTTAGGGGAT
1 TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCTAACATTAAGGGAT
* * ** *
25689609 TCTGTGGGGAGCTTTGCTTCGTTATGCTCAGTTTCAGCTA
66 TCTGTGGAGAGCTTTACTTCGTTCGGCTCAGTTTCCGCTA
25689649 CTGGCACATC
Statistics
Matches: 979, Mismatches: 197, Indels: 63
0.79 0.16 0.05
Matches are distributed among these distances:
119 11 0.01
120 151 0.15
121 16 0.02
122 20 0.02
123 759 0.78
124 21 0.02
125 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (120 bp):
TGACCTCATTGTAAGTTGTGTCAACGACAAGCTTTTTGTTATCGTCATGCCTAACATTAAGGGAT
TCTGTGGAGAGCTTTACTTCGTTCGGCTCAGTTTCCGCTATTGATACACCACCAT
Found at i:25699379 original size:30 final size:33
Alignment explanation
Indices: 25699343--25699402 Score: 90
Period size: 30 Copynumber: 1.9 Consensus size: 33
25699333 TTTTATACTT
25699343 AAACTTTGATT-TGGTGC-AAT-TATACATATG
1 AAACTTTGATTATGGTGCAAATATATACATATG
*
25699373 AAACTTTGATTATGGTTCAAATATATACAT
1 AAACTTTGATTATGGTGCAAATATATACAT
25699403 GAACATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.42
31 5 0.19
32 3 0.12
33 7 0.27
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (33 bp):
AAACTTTGATTATGGTGCAAATATATACATATG
Found at i:25699724 original size:16 final size:16
Alignment explanation
Indices: 25699699--25699736 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
25699689 CTACCATACT
*
25699699 TTTTTTTTATTTTTCA
1 TTTTTATTATTTTTCA
25699715 TTTTTATTATTTTTCA
1 TTTTTATTATTTTTCA
25699731 TTTTTA
1 TTTTTA
25699737 ATAAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTATTATTTTTCA
Found at i:25700474 original size:16 final size:16
Alignment explanation
Indices: 25700449--25700486 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
25700439 TATAATTATA
25700449 ATTTTT-TTATTTTTC
1 ATTTTTATTATTTTTC
25700464 ATTTTTATTATTTTTC
1 ATTTTTATTATTTTTC
25700480 ATTTTTA
1 ATTTTTA
25700487 ATAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTTATTATTTTTC
Found at i:25701139 original size:750 final size:750
Alignment explanation
Indices: 25699700--25701194 Score: 2974
Period size: 750 Copynumber: 2.0 Consensus size: 750
25699690 TACCATACTT
25699700 TTTTTTTATTTTTCATTTTTATTATTTTTCATTTTTAATAAATAAAATACATAAACATACAATAA
1 TTTTTTTATTTTTCATTTTTATTATTTTTCATTTTTAATAAATAAAATACATAAACATACAATAA
25699765 GTTATACTATAATTAAATTATTTTAATTACAATATTATTTTATTTTTATTAATTTTATAAATCAT
66 GTTATACTATAATTAAATTATTTTAATTACAATATTATTTTATTTTTATTAATTTTATAAATCAT
25699830 TTTATTTTCCATTTTTCTTTATATAAATAAATACAGAAAACATATAATAATTTATATACTAATTT
131 TTTATTTTCCATTTTTCTTTATATAAATAAATACAGAAAACATATAATAATTTATATACTAATTT
25699895 AAATTTGTGTTTTAATAAATAATTTACTCAAATATATTCAAATACATTAATTTTATAAAATTAGT
196 AAATTTGTGTTTTAATAAATAATTTACTCAAATATATTCAAATACATTAATTTTATAAAATTAGT
25699960 TTTCATTTTTCATCTATTTTATTTTTCTTTTCCTTTAATGGATAAAATAATTGTGTAAAATAAAT
261 TTTCATTTTTCATCTATTTTATTTTTCTTTTCCTTTAATGGATAAAATAATTGTGTAAAATAAAT
25700025 TTTTTATGAAATTTTTTTTATGAGCATTAATTAATTTATATTTTTTAATTTTGATAATTAAATTG
326 TTTTTATGAAATTTTTTTTATGAGCATTAATTAATTTATATTTTTTAATTTTGATAATTAAATTG
25700090 GTAAAAATATTACGCTAACTAATACAAAATATTACCTTTTTGTATTTATTTATAAACAGATAAAA
391 GTAAAAATATTACGCTAACTAATACAAAATATTACCTTTTTGTATTTATTTATAAACAGATAAAA
25700155 TAAGAAAAAGGATAAGAAATAAAAGAAAAAGTAAATATATATTGGCTATTTTTATGAGTCAAAAA
456 TAAGAAAAAGGATAAGAAATAAAAGAAAAAGTAAATATATATTGGCTATTTTTATGAGTCAAAAA
25700220 TTTTTTTTACTTGCAATCTAAAGACAAAAGGAAAAGAACAAAACAATAGTTCAAACGAATAAAAA
521 TTTTTTTTACTTGCAATCTAAAGACAAAAGGAAAAGAACAAAACAATAGTTCAAACGAATAAAAA
25700285 TAAGATCACAAGAAAAATATATATTTGATAAACTGAAAAAATGAGTGTTAAAAAAAACTGAAAAA
586 TAAGATCACAAGAAAAATATATATTTGATAAACTGAAAAAATGAGTGTTAAAAAAAACTGAAAAA
25700350 TTAATTGTTTAATTTAAGTTATAAAATATGTTTGGTATTTTATTTAAAATTAAAAATTGAATATA
651 TTAATTGTTTAATTTAAGTTATAAAATATGTTTGGTATTTTATTTAAAATTAAAAATTGAATATA
25700415 ATTATATTG-TTTGATAAAGGATAATATAATTATAA
716 ATTATATTGTTTTGATAAAGGA-AATATAATTATAA
25700450 TTTTTTTATTTTTCATTTTTATTATTTTTCATTTTTAATAAATAAAATACATAAACATACAATAA
1 TTTTTTTATTTTTCATTTTTATTATTTTTCATTTTTAATAAATAAAATACATAAACATACAATAA
25700515 GTTATACTATAATTAAATTATTTTAATTACAATATTATTTTATTTTTATTAATTTTATAAATCAT
66 GTTATACTATAATTAAATTATTTTAATTACAATATTATTTTATTTTTATTAATTTTATAAATCAT
25700580 TTTATTTTCCATTTTTCTTTATATAAATAAATACAGAAAACATATAATAATTTATATACTAATTT
131 TTTATTTTCCATTTTTCTTTATATAAATAAATACAGAAAACATATAATAATTTATATACTAATTT
25700645 AAATTTGTGTTTTAATAAATAATTTACTCAAATATATTCAAATACATTAATTTTATAAAATTAGT
196 AAATTTGTGTTTTAATAAATAATTTACTCAAATATATTCAAATACATTAATTTTATAAAATTAGT
25700710 TTTCATTTTTCATCTATTTTATTTTTCTTTTCCTTTAATGGATAAAATAATTGTGTAAAATAAAT
261 TTTCATTTTTCATCTATTTTATTTTTCTTTTCCTTTAATGGATAAAATAATTGTGTAAAATAAAT
25700775 TTTTTATGAAATTTTTTTTATGAGCATTAATTAATTTATATTTTTTAATTTTGATAATTAAATTG
326 TTTTTATGAAATTTTTTTTATGAGCATTAATTAATTTATATTTTTTAATTTTGATAATTAAATTG
25700840 GTAAAAATATTACGCTAACTAATACAAAATATTACCTTTTTGTATTTATTTATAAACAGATAAAA
391 GTAAAAATATTACGCTAACTAATACAAAATATTACCTTTTTGTATTTATTTATAAACAGATAAAA
25700905 TAAGAAAAAGGATAAGAAATAAAAGAAAAAGTAAATATATATTGGCTATTTTTATGAGTCAAAAA
456 TAAGAAAAAGGATAAGAAATAAAAGAAAAAGTAAATATATATTGGCTATTTTTATGAGTCAAAAA
25700970 TTTTTTTTACTTGCAATCTAAAGACAAAAGGAAAAGAACAAAACAATAGTTCAAACGAATAAAAA
521 TTTTTTTTACTTGCAATCTAAAGACAAAAGGAAAAGAACAAAACAATAGTTCAAACGAATAAAAA
25701035 TAAGATCACAAGAAAAATATATATTTGATAAACTGAAAAAATGAGTGTTAAAAAAAACTGAAAAA
586 TAAGATCACAAGAAAAATATATATTTGATAAACTGAAAAAATGAGTGTTAAAAAAAACTGAAAAA
25701100 TTAATTGTTTAATTTAAGTTATAAAATATGTTTGGTATTTTATTTAAAATTAAAAATTGAATATA
651 TTAATTGTTTAATTTAAGTTATAAAATATGTTTGGTATTTTATTTAAAATTAAAAATTGAATATA
25701165 ATTATATTGTTTTGATAAAGGAAATATAAT
716 ATTATATTGTTTTGATAAAGGAAATATAAT
25701195 CTTAAATAAA
Statistics
Matches: 744, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
750 732 0.98
751 12 0.02
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (750 bp):
TTTTTTTATTTTTCATTTTTATTATTTTTCATTTTTAATAAATAAAATACATAAACATACAATAA
GTTATACTATAATTAAATTATTTTAATTACAATATTATTTTATTTTTATTAATTTTATAAATCAT
TTTATTTTCCATTTTTCTTTATATAAATAAATACAGAAAACATATAATAATTTATATACTAATTT
AAATTTGTGTTTTAATAAATAATTTACTCAAATATATTCAAATACATTAATTTTATAAAATTAGT
TTTCATTTTTCATCTATTTTATTTTTCTTTTCCTTTAATGGATAAAATAATTGTGTAAAATAAAT
TTTTTATGAAATTTTTTTTATGAGCATTAATTAATTTATATTTTTTAATTTTGATAATTAAATTG
GTAAAAATATTACGCTAACTAATACAAAATATTACCTTTTTGTATTTATTTATAAACAGATAAAA
TAAGAAAAAGGATAAGAAATAAAAGAAAAAGTAAATATATATTGGCTATTTTTATGAGTCAAAAA
TTTTTTTTACTTGCAATCTAAAGACAAAAGGAAAAGAACAAAACAATAGTTCAAACGAATAAAAA
TAAGATCACAAGAAAAATATATATTTGATAAACTGAAAAAATGAGTGTTAAAAAAAACTGAAAAA
TTAATTGTTTAATTTAAGTTATAAAATATGTTTGGTATTTTATTTAAAATTAAAAATTGAATATA
ATTATATTGTTTTGATAAAGGAAATATAATTATAA
Found at i:25702304 original size:36 final size:39
Alignment explanation
Indices: 25702244--25702317 Score: 109
Period size: 36 Copynumber: 2.0 Consensus size: 39
25702234 TAAACACCAA
*
25702244 AAAAATTATTTTAAAAATAAAAAGAATAAAAAGTATTTT
1 AAAAATTATTTTAAAAATAAAAAGAATAAAAAATATTTT
*
25702283 AAAAA-TATTTT-AAAAT-TAAAGAATAAAAAATATTT
1 AAAAATTATTTTAAAAATAAAAAGAATAAAAAATATTT
25702318 ATTTATTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 17 0.52
37 5 0.15
38 6 0.18
39 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (39 bp):
AAAAATTATTTTAAAAATAAAAAGAATAAAAAATATTTT
Found at i:25702878 original size:229 final size:229
Alignment explanation
Indices: 25702464--25703014 Score: 935
Period size: 229 Copynumber: 2.4 Consensus size: 229
25702454 GAACACTTCT
* *
25702464 AGTTTAGGGTTTTTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
1 AGTTTAAGGTTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
*
25702529 TATTTTTTAA-TAAAAATTAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAAAT
66 TATTTTTTAAGAAAAAATTAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAAAT
* *
25702593 TTAAAAATCGGATTAGGGTTAGGGTTAGGGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTAAGGG
131 TTAAAAATCAGATTAGGGTTAGGGTTAGGGTTTTTGTTAGGGTTTTGGTATTTTTAAGTTAAGGG
25702658 TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAG
196 TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAG
25702692 AGTTTAAGGTTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
1 AGTTTAAGGTTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
* *
25702757 TATTTTCTAAGAAAAAATTAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAT
66 TATTTTTTAAGAAAAAATTAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAAA-
* *
25702822 TTTAAAAATTAGTTTAGGGTTAGGGTTAGGGTTTTTGTTA-GGTTTTGGTATTTTTAAGTTAAGG
130 TTTAAAAATCAGATTAGGGTTAGGGTTAGGGTTTTTGTTAGGGTTTTGGTATTTTTAAGTTAAGG
* *
25702886 GTTTTTAAGGAAAAATCAAATAAGTTAGGGTTTTG
195 GTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAG
* * *
25702921 AGTTTAAGGTTTGTCAATTAAATTATTTACAAATTTTTCAAAATTAGATTAGTTTTCGTGTTTAT
1 AGTTTAAGGTTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
* *
25702986 TATTTTTTAAGAAAATATGAATTAAATTA
66 TATTTTTTAAGAAAAAATTAATTAAATTA
25703015 TAGGGTTTTG
Statistics
Matches: 304, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
228 72 0.24
229 195 0.64
230 37 0.12
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.45
Consensus pattern (229 bp):
AGTTTAAGGTTTGTCAATTAAATTATTTAAAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
TATTTTTTAAGAAAAAATTAATTAAATTAGGGTTTAAGGTTACTTGAGTAATTTAATTAAAAAAT
TTAAAAATCAGATTAGGGTTAGGGTTAGGGTTTTTGTTAGGGTTTTGGTATTTTTAAGTTAAGGG
TTTTTAAGGAAAAATCAAATAAATTAGGGTTTAG
Found at i:25703928 original size:309 final size:309
Alignment explanation
Indices: 25703369--25703986 Score: 1218
Period size: 309 Copynumber: 2.0 Consensus size: 309
25703359 AGTTAAAGCA
*
25703369 AAAAAAAATTAGAGAGGCTAAAAGGGATAGAAATTGAAAATGAGTGAATGCATTAGTGCTATTAT
1 AAAAAAAATTAGAGAGGCTAAAAAGGATAGAAATTGAAAATGAGTGAATGCATTAGTGCTATTAT
25703434 TTACTATGATGGTGAGGTTTGCCACACCGAGAATGGTGTTGTTTTTTTATCGGAGAATACAGTGC
66 TTACTATGATGGTGAGGTTTGCCACACCGAGAATGGTGTTGTTTTTTTATCGGAGAATACAGTGC
*
25703499 GACTGGTTTTTAACCCGAACATAGATTTGATAGAACTTCGTAAAAGAATTAGGTGTAAAATATTT
131 GACTGGTTTTTAACCAGAACATAGATTTGATAGAACTTCGTAAAAGAATTAGGTGTAAAATATTT
25703564 GGAACAACTGCAATGAAAGTTCTGTCTATTACGTATCAATTTTGTTCTTCTGTTAATCCGATGAC
196 GGAACAACTGCAATGAAAGTTCTGTCTATTACGTATCAATTTTGTTCTTCTGTTAATCCGATGAC
25703629 ATATGATTCGTTCGACATAAGAGGTGCTCGTAGCTTGGAGGCAATGGTG
261 ATATGATTCGTTCGACATAAGAGGTGCTCGTAGCTTGGAGGCAATGGTG
25703678 AAAAAAAATTAGAGAGGCTAAAAAGGATAGAAATTGAAAATGAGTGAATGCATTAGTGCTATTAT
1 AAAAAAAATTAGAGAGGCTAAAAAGGATAGAAATTGAAAATGAGTGAATGCATTAGTGCTATTAT
25703743 TTACTATGATGGTGAGGTTTGCCACACCGAGAATGGTGTTGTTTTTTTATCGGAGAATACAGTGC
66 TTACTATGATGGTGAGGTTTGCCACACCGAGAATGGTGTTGTTTTTTTATCGGAGAATACAGTGC
25703808 GACTGGTTTTTAACCAGAACATAGATTTGATAGAACTTCGTAAAAGAATTAGGTGTAAAATATTT
131 GACTGGTTTTTAACCAGAACATAGATTTGATAGAACTTCGTAAAAGAATTAGGTGTAAAATATTT
25703873 GGAACAACTGCAATGAAAGTTCTGTCTATTACGTATCAATTTTGTTCTTCTGTTAATCCGATGAC
196 GGAACAACTGCAATGAAAGTTCTGTCTATTACGTATCAATTTTGTTCTTCTGTTAATCCGATGAC
25703938 ATATGATTCGTTCGACATAAGAGGTGCTCGTAGCTTGGAGGCAATGGTG
261 ATATGATTCGTTCGACATAAGAGGTGCTCGTAGCTTGGAGGCAATGGTG
25703987 CAGACTCATC
Statistics
Matches: 307, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
309 307 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (309 bp):
AAAAAAAATTAGAGAGGCTAAAAAGGATAGAAATTGAAAATGAGTGAATGCATTAGTGCTATTAT
TTACTATGATGGTGAGGTTTGCCACACCGAGAATGGTGTTGTTTTTTTATCGGAGAATACAGTGC
GACTGGTTTTTAACCAGAACATAGATTTGATAGAACTTCGTAAAAGAATTAGGTGTAAAATATTT
GGAACAACTGCAATGAAAGTTCTGTCTATTACGTATCAATTTTGTTCTTCTGTTAATCCGATGAC
ATATGATTCGTTCGACATAAGAGGTGCTCGTAGCTTGGAGGCAATGGTG
Found at i:25704853 original size:21 final size:21
Alignment explanation
Indices: 25704829--25704872 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
25704819 TCCAGCTTCT
* * *
25704829 GGCGGGGGTTGTGGTTGCTCC
1 GGCGGGGATTCTGGTTCCTCC
25704850 GGCGGGGATTCTGGTTCCTCC
1 GGCGGGGATTCTGGTTCCTCC
25704871 GG
1 GG
25704873 TAGGGTATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.23, G:0.48, T:0.27
Consensus pattern (21 bp):
GGCGGGGATTCTGGTTCCTCC
Found at i:25707025 original size:11 final size:11
Alignment explanation
Indices: 25707006--25707090 Score: 65
Period size: 11 Copynumber: 8.0 Consensus size: 11
25706996 GGATTTAAGA
25707006 GAAATTTGAGAG
1 GAAA-TTGAGAG
25707018 GAAATTGAGAG
1 GAAATTGAGAG
* *
25707029 CAAATTGAGAT
1 GAAATTGAGAG
*
25707040 TAAA-T-AGA-
1 GAAATTGAGAG
*
25707048 G-ATTTGAGA-
1 GAAATTGAGAG
25707057 GAAATTTG-GAAG
1 GAAA-TTGAG-AG
25707069 GAAATTGAGAG
1 GAAATTGAGAG
25707080 GAAATTGAGAG
1 GAAATTGAGAG
25707091 AATAATAGAG
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 7 0.12
10 3 0.05
11 39 0.65
12 9 0.15
ACGTcount: A:0.45, C:0.01, G:0.31, T:0.24
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:25707052 original size:51 final size:51
Alignment explanation
Indices: 25706990--25707089 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
25706980 AATAATTAAA
*
25706990 AAATAGGGATTTAAGAGAAATTT-GAGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGAGATTTAAGAGAAATTTGGA-AGGAAATTGAGAGCAAATTGAGATT
* *
25707041 AAATAGAGATTTGAGAGAAATTTGGAAGGAAATTGAGAGGAAATTGAGA
1 AAATAGAGATTTAAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGAGA
25707090 GAATAATAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 43 0.96
52 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.29, T:0.24
Consensus pattern (51 bp):
AAATAGAGATTTAAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:25708662 original size:16 final size:16
Alignment explanation
Indices: 25708641--25708676 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
25708631 TTTGGTTCGC
*
25708641 TGTATTGGATTAGAGG
1 TGTATTGGATTAGACG
25708657 TGTATTGGATTAGACG
1 TGTATTGGATTAGACG
25708673 TGTA
1 TGTA
25708677 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGACG
Found at i:25716586 original size:17 final size:17
Alignment explanation
Indices: 25716564--25716599 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
25716554 ACTCAAAGGG
*
25716564 AAATAAACAGCAATAGA
1 AAATAAACAACAATAGA
25716581 AAATAAACAACAATAGA
1 AAATAAACAACAATAGA
25716598 AA
1 AA
25716600 CATGCAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.69, C:0.11, G:0.08, T:0.11
Consensus pattern (17 bp):
AAATAAACAACAATAGA
Found at i:25717338 original size:14 final size:14
Alignment explanation
Indices: 25717319--25717350 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
25717309 TATTGGCTAT
25717319 GCCAATACACCAAA
1 GCCAATACACCAAA
25717333 GCCAATACACCAAA
1 GCCAATACACCAAA
25717347 -CCAA
1 GCCAA
25717351 ACATGCTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.50, C:0.38, G:0.06, T:0.06
Consensus pattern (14 bp):
GCCAATACACCAAA
Found at i:25721984 original size:43 final size:42
Alignment explanation
Indices: 25721933--25722098 Score: 215
Period size: 43 Copynumber: 3.9 Consensus size: 42
25721923 AAAAAGTGCT
* *
25721933 GCTAAAGGTCATGTTCTTTAGCGGTGTTTGTGAGGAAAGCACC
1 GCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG-GGAAAGCGCC
*
25721976 GCTAAAGGTCATGTTCTTTAGCGGCATTTGTTGGGAAAGCGCC
1 GCTAAAGGTCATGTTCTTTAGCGGCGTTTG-TGGGAAAGCGCC
* * * *
25722019 CCTAAAGGTCATGCTCTATAGCGGCGTTAGTGTGGAAAGCGCC
1 GCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG-GGAAAGCGCC
* * *
25722062 GCTAAATGCCATGTTCTTTAGCAGCGTTTGTGGGAAA
1 GCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAA
25722099 AACGTCGCAA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
42 7 0.07
43 97 0.92
44 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (42 bp):
GCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAGCGCC
Found at i:25726200 original size:51 final size:50
Alignment explanation
Indices: 25726140--25726267 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 50
25726130 ATAGGTCGCA
*
25726140 TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT-TCGATCACGTG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GATCACATG
* * * *
25726191 TGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGATCACATG
*
25726242 TGTAGTACTATGTGCAAGCTACTATG
1 TGTAGTACTATGTGCAGGCTACTATG
25726268 TGAACCGGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 1 0.01
51 66 0.97
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGATCACATG
Found at i:25726269 original size:26 final size:26
Alignment explanation
Indices: 25726189--25726269 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
25726179 TTCGATCACG
*
25726189 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAAGCTACTA
* * * *
25726215 CGTGTA-T-CGGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCAAGCT-ACTA
25726240 TGTGTAGTACTATGTGCAAGCTACTA
1 TGTGTAGTACTATGTGCAAGCTACTA
25726266 TGTG
1 TGTG
25726270 AACCGGTATA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAAGCTACTA
Found at i:25726471 original size:16 final size:16
Alignment explanation
Indices: 25726450--25726481 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25726440 TGATTGAAAG
*
25726450 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
25726466 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
25726482 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:25732579 original size:51 final size:50
Alignment explanation
Indices: 25732503--25732632 Score: 163
Period size: 51 Copynumber: 2.6 Consensus size: 50
25732493 NNNNNNNNNN
*
25732503 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT-TCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GATCACA
* * * * *
25732554 TGTGTAATACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGATCACA
*
25732605 TGTGTAGTACTATGTGCAAGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
25732633 TGAACCGGTA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 1 0.01
51 66 0.97
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGATCACA
Found at i:25732879 original size:16 final size:16
Alignment explanation
Indices: 25732858--25732889 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25732848 TGATTGAAAG
*
25732858 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
25732874 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
25732890 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:25738682 original size:25 final size:25
Alignment explanation
Indices: 25738553--25738718 Score: 96
Period size: 25 Copynumber: 6.7 Consensus size: 25
25738543 GCCATGTAAT
** * *
25738553 GGGAAGCTCATTCGAGTTATATAAC
1 GGGAAGCTCATAAGAGCTATATATC
25738578 GGGAAGCTCATAAGAGCTGA-A-ATC
1 GGGAAGCTCATAAGAGCT-ATATATC
* * *
25738602 GGGAAGTTCA-AGCGAGCCA-ATATC
1 GGGAAGCTCATA-AGAGCTATATATC
* **
25738626 GAGAAGCTTCGGAA-AGCTAT-TAATC
1 GGGAAGC-TCATAAGAGCTATAT-ATC
* *
25738651 AGAAAGCTCATAAGAGCTAGT-TATC
1 GGGAAGCTCATAAGAGCTA-TATATC
*
25738676 GGGAAGCTC-TGAAGAGCCATATATC
1 GGGAAGCTCAT-AAGAGCTATATATC
*
25738701 GGGACGCTCATAAGAGCT
1 GGGAAGCTCATAAGAGCT
25738719 GCGGTGTGTC
Statistics
Matches: 107, Mismatches: 22, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
23 3 0.03
24 34 0.32
25 65 0.61
26 5 0.05
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (25 bp):
GGGAAGCTCATAAGAGCTATATATC
Found at i:25741208 original size:13 final size:13
Alignment explanation
Indices: 25741190--25741215 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25741180 ATATTACATA
25741190 GTCAAATATTTTG
1 GTCAAATATTTTG
25741203 GTCAAATATTTTG
1 GTCAAATATTTTG
25741216 CTATCAACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTCAAATATTTTG
Found at i:25743786 original size:63 final size:63
Alignment explanation
Indices: 25743719--25743861 Score: 151
Period size: 63 Copynumber: 2.3 Consensus size: 63
25743709 GCACCAAAAT
* * *** * *
25743719 AGTGAGTTACACGGTTTGGACACATGGCCGTGTCCCAAGCCCGTGTGACTCTAATCCATAACC
1 AGTGAGTTACACGGTCTAGACACACCCCCGTGTCCCAAGCCCATGTGACTCTAATCCATAAAC
* * * * * * * *
25743782 AGTGAATCACATGGTCTAGACACGCCCCCGTGTCCCTAGCCCATGTGCCTCTAATTCATAAAT
1 AGTGAGTTACACGGTCTAGACACACCCCCGTGTCCCAAGCCCATGTGACTCTAATCCATAAAC
25743845 AGTGAGTTACACGGTCT
1 AGTGAGTTACACGGTCT
25743862 GCCACACGAC
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (63 bp):
AGTGAGTTACACGGTCTAGACACACCCCCGTGTCCCAAGCCCATGTGACTCTAATCCATAAAC
Found at i:25745326 original size:39 final size:39
Alignment explanation
Indices: 25745172--25745347 Score: 176
Period size: 39 Copynumber: 4.5 Consensus size: 39
25745162 ATTCACTTTT
* * * * *
25745172 AAGCATATATCACATTACACATATAATCACATAGCATTTT
1 AAGCATATATCGCAATACTCATATAATCACATAACA-TTC
* * * *
25745212 AA-CATATATCACAATACTCATATACTTACATAACGTTC
1 AAGCATATATCGCAATACTCATATAATCACATAACATTC
* * * *
25745250 AAGCACATAT-GTAATACTCATATATTCACGTAACATTC
1 AAGCATATATCGCAATACTCATATAATCACATAACATTC
* *
25745288 AAGCATATATCGCAATATTCATATAATCACATATCATTC
1 AAGCATATATCGCAATACTCATATAATCACATAACATTC
* *
25745327 AAGTATATGTCGCAATACTCA
1 AAGCATATATCGCAATACTCA
25745348 AAAACATGTT
Statistics
Matches: 111, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
38 35 0.32
39 74 0.67
40 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (39 bp):
AAGCATATATCGCAATACTCATATAATCACATAACATTC
Found at i:25760211 original size:6 final size:6
Alignment explanation
Indices: 25760197--25760236 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
25760187 TGGTTTGCAA
* *
25760197 AAATGG AAATCG AAATCG AAATGG AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
25760237 TATTGCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.53, C:0.05, G:0.25, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:25760411 original size:27 final size:27
Alignment explanation
Indices: 25760380--25760435 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
25760370 TATTTTCTCG
25760380 AAATTTTACCAAGGGTAAAATTC-TCAA
1 AAATTTTACCAAGGGTAAAA-TCATCAA
*
25760407 AAATTTTACCGAGGGTAAAATCATCAA
1 AAATTTTACCAAGGGTAAAATCATCAA
25760434 AA
1 AA
25760436 TGTTACTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (27 bp):
AAATTTTACCAAGGGTAAAATCATCAA
Found at i:25779292 original size:25 final size:24
Alignment explanation
Indices: 25779264--25779394 Score: 77
Period size: 25 Copynumber: 5.2 Consensus size: 24
25779254 ATTCAAGGGT
25779264 GCTCATTTGAGCACATAATCGAGAA
1 GCTCATTTGAGC-CATAATCGAGAA
* *
25779289 GCTCTCTCTTGAGCCATATAAC-AGGAA
1 GCTC-AT-TTGAGCCATA-ATCGA-GAA
* *
25779316 GCTCATGTGAGCCATTAAT-GGGAA
1 GCTCATTTGAGCCA-TAATCGAGAA
* * * * *
25779340 GCTTATTCGGGCTATATAACGAGAA
1 GCTCATTTGAGCCATA-ATCGAGAA
** *
25779365 GCTCATAAGAGCCATAATCGAAAA
1 GCTCATTTGAGCCATAATCGAGAA
25779389 GCTCAT
1 GCTCAT
25779395 GCGAGCTAAT
Statistics
Matches: 78, Mismatches: 20, Indels: 17
0.68 0.17 0.15
Matches are distributed among these distances:
23 2 0.03
24 25 0.32
25 27 0.35
26 9 0.12
27 15 0.19
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (24 bp):
GCTCATTTGAGCCATAATCGAGAA
Found at i:25779439 original size:48 final size:49
Alignment explanation
Indices: 25779299--25779440 Score: 139
Period size: 49 Copynumber: 2.9 Consensus size: 49
25779289 GCTCTCTCTT
* ** * *
25779299 GAGCCATATAAC-AGGAAGCTCATGTGAGCCATTAATGGGAAGCTTATTC
1 GAGCTATATAACGA-GAAGCTCATAAGAGCCATTAATGGGAAGCTCATGC
* **
25779348 GGGCTATATAACGAGAAGCTCATAAGAGCCA-TAATCGAAAAGCTCATGC
1 GAGCTATATAACGAGAAGCTCATAAGAGCCATTAAT-GGGAAGCTCATGC
* *
25779397 GAGCTA-ATAACGGGTAGCTC-TGAAGAGCCATTAATGGGAAGCTC
1 GAGCTATATAACGAGAAGCTCAT-AAGAGCCATTAATGGGAAGCTC
25779441 CAAATAGCCA
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
47 1 0.01
48 31 0.41
49 43 0.57
50 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (49 bp):
GAGCTATATAACGAGAAGCTCATAAGAGCCATTAATGGGAAGCTCATGC
Found at i:25783202 original size:6 final size:6
Alignment explanation
Indices: 25783191--25783230 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
25783181 TAGATTTCCA
*
25783191 AAAATG AAAATG AAAATG AAAATG AAAATG GAAATAG AAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT-G AAA
25783231 CGAGGTCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 28 0.90
7 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:25783760 original size:21 final size:21
Alignment explanation
Indices: 25783721--25783760 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25783711 CATTCTAGAC
* *
25783721 TTAACTTTTAAATGGTTTTTA
1 TTAAATTTTAAATGCTTTTTA
*
25783742 TTAAATTTTAATTGCTTTT
1 TTAAATTTTAAATGCTTTT
25783761 GAACTTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
TTAAATTTTAAATGCTTTTTA
Found at i:25783797 original size:19 final size:18
Alignment explanation
Indices: 25783768--25783815 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
25783758 TTTGAACTTT
25783768 ATTTAATA-TTTTTATAAA
1 ATTTAATATTTTTTAT-AA
25783786 ATTTAATAATTTTTTATAA
1 ATTTAAT-ATTTTTTATAA
25783805 ATTT-ATATTTT
1 ATTTAATATTTT
25783816 AAAAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.18
18 9 0.32
19 7 0.25
20 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTAATATTTTTTATAA
Found at i:25788324 original size:100 final size:100
Alignment explanation
Indices: 25788151--25788354 Score: 392
Period size: 100 Copynumber: 2.0 Consensus size: 100
25788141 TTTTTGTTCT
25788151 TTGAGGGTACAAGCTAATCAACGTGCTGGACGAGCTGGAAGAACACGTCCTGGGAAGTGTTACCG
1 TTGAGGGTACAAGCTAATCAACGTGCTGGACGAGCTGGAAGAACACGTCCTGGGAAGTGTTACCG
25788216 TTTATACCCATCCAGGGTTTACAATGATGATTTCC
66 TTTATACCCATCCAGGGTTTACAATGATGATTTCC
25788251 TTGAGGGTTACAA-CTAATCAACGTGCTGGACGAGCTGGAAGAACACGTCCTGGGAAGTGTTACC
1 TTGAGGG-TACAAGCTAATCAACGTGCTGGACGAGCTGGAAGAACACGTCCTGGGAAGTGTTACC
25788315 GTTTATACCCATCCAGGGTTTACAATGATGATTTCC
65 GTTTATACCCATCCAGGGTTTACAATGATGATTTCC
25788351 TTGA
1 TTGA
25788355 TGTAACAGTT
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
100 98 0.95
101 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (100 bp):
TTGAGGGTACAAGCTAATCAACGTGCTGGACGAGCTGGAAGAACACGTCCTGGGAAGTGTTACCG
TTTATACCCATCCAGGGTTTACAATGATGATTTCC
Found at i:25790760 original size:17 final size:18
Alignment explanation
Indices: 25790730--25790763 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25790720 GCCAGTCCGA
*
25790730 TTAAAAAACTATTAAAAT
1 TTAAAAAACAATTAAAAT
25790748 TTAAAAAA-AATTAAAA
1 TTAAAAAACAATTAAAA
25790764 AATACCGGTT
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAAACAATTAAAAT
Found at i:25798702 original size:24 final size:23
Alignment explanation
Indices: 25798658--25798702 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
25798648 TTTTATTTCA
* *
25798658 TTGTTATATTTTAACTTAATATT
1 TTGTTATATTTTAAATAAATATT
*
25798681 TTGTATATTTTTTAAATAAATA
1 TTGT-TATATTTTAAATAAATA
25798703 GGCAGAAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 4 0.22
24 14 0.78
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTGTTATATTTTAAATAAATATT
Found at i:25807757 original size:27 final size:27
Alignment explanation
Indices: 25807727--25807811 Score: 127
Period size: 27 Copynumber: 3.1 Consensus size: 27
25807717 TATAACAGTT
* *
25807727 ATTTTATCCTATGAGGGTATTTCGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
25807754 ATTTTACCCTATTGA-GGTAATTCGGTC
1 ATTTTACCCTA-TGAGGGTAATTCGGTC
*
25807781 ATTTTACCCTATGGGGGTAATTCGGTC
1 ATTTTACCCTATGAGGGTAATTCGGTC
25807808 ATTT
1 ATTT
25807812 ATTGACCTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 2 0.04
27 48 0.91
28 3 0.06
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTAATTCGGTC
Found at i:25813712 original size:14 final size:14
Alignment explanation
Indices: 25813689--25813723 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
25813679 ATCGAATTAT
*
25813689 AAAGTATTGGGTTA
1 AAAGTCTTGGGTTA
25813703 AAAGTCTTGGGTTA
1 AAAGTCTTGGGTTA
25813717 AAAGTCT
1 AAAGTCT
25813724 AGGAAGTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (14 bp):
AAAGTCTTGGGTTA
Found at i:25821186 original size:9 final size:9
Alignment explanation
Indices: 25821157--25821193 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
25821147 TGAGTTTTAG
25821157 AATTCGAAT
1 AATTCGAAT
*
25821166 AACTCGAAT
1 AATTCGAAT
25821175 AATTCGAAT
1 AATTCGAAT
*
25821184 AATTTGAAT
1 AATTCGAAT
25821193 A
1 A
25821194 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25826717 original size:28 final size:28
Alignment explanation
Indices: 25826677--25826732 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
25826667 ATTTCCATTT
25826677 GATGAAATTTAGTACGTAGTTGTAGTAA
1 GATGAAATTTAGTACGTAGTTGTAGTAA
25826705 GATGAAATTTAGTACGTAGTTGTAGTAA
1 GATGAAATTTAGTACGTAGTTGTAGTAA
25826733 TAATACTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (28 bp):
GATGAAATTTAGTACGTAGTTGTAGTAA
Found at i:25827111 original size:40 final size:42
Alignment explanation
Indices: 25827022--25827115 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
25827012 CATTTTCCCC
** *
25827022 GAAATCGCGTCCACGTCAGCGCGATGTCGGGGAACGTGACAG
1 GAAATCGCGTCCACGTCAGCGCGACCTCGCGGAACGTGACAG
** *
25827064 GTCATCGCGTCCACGTCAGCGCGACCT-GCTG-ACGTGGA-AG
1 GAAATCGCGTCCACGTCAGCGCGACCTCGCGGAACGT-GACAG
25827104 GAAATCGCGTCC
1 GAAATCGCGTCC
25827116 CTGAGGAAGC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 16 0.37
41 4 0.09
42 23 0.53
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (42 bp):
GAAATCGCGTCCACGTCAGCGCGACCTCGCGGAACGTGACAG
Found at i:25828792 original size:29 final size:28
Alignment explanation
Indices: 25828759--25828945 Score: 230
Period size: 29 Copynumber: 6.4 Consensus size: 28
25828749 ATTAGGTTAG
**
25828759 GGTTAGGGTTTATAATTAAATTAGGTTA
1 GGTTAGGGTTTATAATTAAATTAAATTA
25828787 GAGTTAGGGTTTTATAATTAAATTAAATTA
1 G-GTTAGGG-TTTATAATTAAATTAAATTA
* **
25828817 GGTTAGGGTTTTATAATTGAATTAGGTTA
1 GGTTAGGG-TTTATAATTAAATTAAATTA
*
25828846 GGGATAGGGTTTATAATTAAATTAAATTA
1 -GGTTAGGGTTTATAATTAAATTAAATTA
* *
25828875 GGTTTGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGGTTTATAATTAAATTAAATTA
*
25828903 GGTTAGAGTTTAGGTTAATTAAATTAAATTA
1 GGTTAGGGTTTA---TAATTAAATTAAATTA
25828934 GGTTAGGGTTTA
1 GGTTAGGGTTTA
25828946 GGGTCTTCAA
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
28 35 0.26
29 49 0.36
30 26 0.19
31 27 0.20
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.43
Consensus pattern (28 bp):
GGTTAGGGTTTATAATTAAATTAAATTA
Found at i:25828840 original size:59 final size:57
Alignment explanation
Indices: 25828759--25828944 Score: 250
Period size: 59 Copynumber: 3.2 Consensus size: 57
25828749 ATTAGGTTAG
25828759 GGTTAGGG-TTTATAATTAAATTAGGTTAGAGTTAGGGTTTTATAATTAAATTAAATTA
1 GGTTAGGGTTTTATAATTAAATTAGGTTAG-GTTAGGG-TTTATAATTAAATTAAATTA
* *
25828817 GGTTAGGGTTTTATAATTGAATTAGGTTAGGGATAGGGTTTATAATTAAATTAAATTA
1 GGTTAGGGTTTTATAATTAAATTAGGTTA-GGTTAGGGTTTATAATTAAATTAAATTA
* ** *
25828875 GGTTTGGGTTTT-TAATTAAATTAAATTAGGTTAGAGTTTAGGTTAATTAAATTAAATTA
1 GGTTAGGGTTTTATAATTAAATTAGGTTAGGTTAGGGTTTA---TAATTAAATTAAATTA
25828934 GGTTAGGGTTT
1 GGTTAGGGTTT
25828945 AGGGTCTTCA
Statistics
Matches: 114, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
56 10 0.09
57 13 0.11
58 39 0.34
59 51 0.45
60 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.44
Consensus pattern (57 bp):
GGTTAGGGTTTTATAATTAAATTAGGTTAGGTTAGGGTTTATAATTAAATTAAATTA
Found at i:25830293 original size:29 final size:29
Alignment explanation
Indices: 25830254--25830311 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
25830244 CAGAAAATAT
25830254 TAAAAATTTTAAAATTAT-TTTAAAAAAA
1 TAAAAATTTTAAAATTATCTTTAAAAAAA
*
25830282 TAAAAATATTTAAAATTTTCTTTAAAAAAA
1 TAAAAAT-TTTAAAATTATCTTTAAAAAAA
25830312 ATGAAATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 7 0.26
29 10 0.37
30 10 0.37
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
TAAAAATTTTAAAATTATCTTTAAAAAAA
Found at i:25830422 original size:52 final size:51
Alignment explanation
Indices: 25830344--25830449 Score: 140
Period size: 52 Copynumber: 2.1 Consensus size: 51
25830334 ATTTAATATG
* * * *
25830344 GAGTTTAGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTCGA
1 GAGTTTAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
* * *
25830395 GAGTTTAAGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGGACTTTGA
1 GAGTTT-AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
25830447 GAG
1 GAG
25830450 AATTTTTGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 6 0.13
52 41 0.87
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.33
Consensus pattern (51 bp):
GAGTTTAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
Found at i:25830429 original size:22 final size:22
Alignment explanation
Indices: 25830402--25830470 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
25830392 CGAGAGTTTA
*
25830402 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
**
25830424 AGAGAATTTTTGAAGGACTTTG
1 AGAGAATTTTTGAAGGAAATTG
*
25830446 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
25830468 AGA
1 AGA
25830471 TAGGATTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.39, C:0.01, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:25830728 original size:29 final size:27
Alignment explanation
Indices: 25830687--25830740 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
25830677 CGGGGAAAAT
25830687 GGCCCATTCCGGTAAATAATTAAAAAACC
1 GGCCCATTCCGGTAAAT--TTAAAAAACC
* *
25830716 GGCCTATTTCGGTAAATTTAAAAAA
1 GGCCCATTCCGGTAAATTTAAAAAA
25830741 AAGGGCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.35
29 15 0.65
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (27 bp):
GGCCCATTCCGGTAAATTTAAAAAACC
Found at i:25834698 original size:25 final size:25
Alignment explanation
Indices: 25834660--25834776 Score: 71
Period size: 25 Copynumber: 4.7 Consensus size: 25
25834650 TCATATACAT
*
25834660 GTATGCTCATACGAGTTATGAATCG
1 GTATGCTCATACGAGCTATGAATCG
* *
25834685 GTATGCTC-TCACGAGCTGTGAATCA
1 GTATGCTCAT-ACGAGCTATGAATCG
* *
25834710 GT-CGACTCATATGAGCTGA-GAATCG
1 GTATG-CTCATACGAGCT-ATGAATCG
* * **
25834735 GTAAGCTC-TCATGAGCTACAAATCG
1 GTATGCTCAT-ACGAGCTATGAATCG
* *
25834760 ATAAGCTCATACGAGCT
1 GTATGCTCATACGAGCT
25834777 GTGGTATGTC
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
24 4 0.05
25 66 0.90
26 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATGAATCG
Found at i:25836728 original size:36 final size:36
Alignment explanation
Indices: 25836681--25836786 Score: 194
Period size: 36 Copynumber: 2.9 Consensus size: 36
25836671 TGCTCGACTA
25836681 AAAACTATTATTATACGCAAATTCGACTAATGGTCG
1 AAAACTATTATTATACGCAAATTCGACTAATGGTCG
25836717 AAAACTATTATTATACGCAAATTCGACTAATGGTCG
1 AAAACTATTATTATACGCAAATTCGACTAATGGTCG
* *
25836753 AAAACTATTATTATATGCAAATTCGACTAGTGGT
1 AAAACTATTATTATACGCAAATTCGACTAATGGT
25836787 AAGTATTTCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (36 bp):
AAAACTATTATTATACGCAAATTCGACTAATGGTCG
Found at i:25842867 original size:44 final size:44
Alignment explanation
Indices: 25842803--25842914 Score: 161
Period size: 44 Copynumber: 2.5 Consensus size: 44
25842793 TTAATCCGCC
* *
25842803 CCACTGCAACTTCAGGGAGATAGGATTAGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAACTTCAACCTGCT
* * * *
25842847 CCACTGCAATTTCAGAGAGATAAGATTGGTATCTTCAACCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTAGTAACTTCAACCTGCT
*
25842891 CCACTCCAACTTCAGGGAGATAAG
1 CCACTGCAACTTCAGGGAGATAAG
25842915 GTTTGTTATG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTAGTAACTTCAACCTGCT
Found at i:25842999 original size:44 final size:44
Alignment explanation
Indices: 25842841--25843437 Score: 330
Period size: 44 Copynumber: 13.8 Consensus size: 44
25842831 GTAACTTCAA
* *
25842841 TCTGCTCCACTGCAATTTCAGAGAGATAAGAT-TGGTATCTTCAA-
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGG-AT-TTTAAT
* * * * * * * *
25842885 CCTGCTCCACTCCAACTTCAGGGAGATAAGGTTTGTTATGGTGTGA-
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG-GAT--TTTAAT
* * *
25842931 TCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTGATTTTAAT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG-GATTTTAAT
* * **
25842976 TC-GCTCCACTGCAACTTCCGAGAGATAGGAT-TGG-TTTCTTTT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGGATTT-TAAT
* * * ***
25843018 GTCTACTCTACTGCAACTTCAGGGAGATAAGAT-TGGA-TGCGA-
1 -TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGGATTTTAAT
* * *
25843060 TCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAA-
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG-GATTTTAAT
* * * * **
25843104 TCCGCTCTACTGCAACTTCAGGGAGATAGGAT-T-GATTTCTTTT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGGATTT-TAAT
* ***
25843147 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGA-TGCGA-
1 -TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGGATTTTAAT
* *
25843189 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA-
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG-GATTTTAAT
* * * * **
25843233 TATGCTCCACTGCAACTTCCGAAAGATAGGAT-TGG-TTTCTTTT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGGATTT-TAAT
* ***
25843276 GTCTGCTCCACTGTAACTTCAGAGAGATAAGA-CTGGA-TACGA-
1 -TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGGATTTTAAT
* *
25843318 TCTTCTCTACTGCAACTTCAGAGAGATAAGATCTATGG-TTTTAA-
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATC--TGGATTTTAAT
* * * ***
25843362 TCCGCTCCACTGCAACTTCA-AGGAGATAGGA-GTGGA-TGCGA-
1 TCTGCTCCACTGCAACTTCAGA-GAGATAAGATCTGGATTTTAAT
* *
25843403 TCTGCTCTACTGCAACCTCAGAGAGATAAGATCTG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG
25843438 TGGTGTATGG
Statistics
Matches: 423, Mismatches: 98, Indels: 66
0.72 0.17 0.11
Matches are distributed among these distances:
41 126 0.30
42 15 0.04
43 10 0.02
44 231 0.55
45 8 0.02
46 33 0.08
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGGATTTTAAT
Found at i:25843110 original size:129 final size:129
Alignment explanation
Indices: 25842839--25843392 Score: 741
Period size: 129 Copynumber: 4.3 Consensus size: 129
25842829 TAGTAACTTC
* * * * **** *
25842839 AATCTGCTCCACTGCAATTTCAGAGAGATAAGATTGGTATCTTCAACCTGCTCCACTCCAACTTC
1 AATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTC
** * * * * *
25842904 AGGGAGATAAGGTTTGTTATGGTGTGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTGA
66 AGGGAGATAA-GACTG----GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
25842969 TTTT
126 TTTT
* * * *
25842973 AATTCGCTCCACTGCAACTTCCGAGAGATAGGATTGGTTTCTTTTGTCTACTCTACTGCAACTTC
1 AATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTC
* *
25843038 AGGGAGATAAGATTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTT
66 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
* * *
25843102 AATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGATTTCTTTTGTCTGCTCCACTGCAACTTC
1 AATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTC
25843167 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
66 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
** * * *
25843231 AATATGCTCCACTGCAACTTCCGAAAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGTAACTTC
1 AATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTC
* * * *
25843296 AGAGAGATAAGACTGGATACGATCTTCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTT
66 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
25843360 AATCCGCTCCACTGCAACTTCA-AGGAGATAGGA
1 AATCCGCTCCACTGCAACTTCAGA-GAGATAGGA
25843393 GTGGATGCGA
Statistics
Matches: 374, Mismatches: 45, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
128 1 0.00
129 307 0.82
133 4 0.01
134 62 0.17
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (129 bp):
AATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTC
AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTT
Found at i:25843117 original size:85 final size:85
Alignment explanation
Indices: 25843023--25843441 Score: 375
Period size: 85 Copynumber: 4.9 Consensus size: 85
25843013 CTTTTGTCTA
*
25843023 CTCTACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATA
1 CTCTACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
25843088 AGATCTGTGGTTTTAATCCG
66 AGATCTGTGGTTTTAATCCG
* * * *
25843108 CTCTACTGCAACTTCAGGGAGATAGGATT-GATTTCTTTTG-TCTGCTCCACTGCAACTTCAGGG
1 CTCTACTGCAACTTCAGGGAGATAAGATTGGA-TGC----GATCTGCTCTACTGCAACTTCAGAG
* *** *
25843171 AGATAAGA-C--TGGATGCGATCTG
61 AGATAAGATCTGTGGTTTTAATCCG
* * *** * * * *
25843193 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATATGCTCCACTGCAACTTCCGAAAG
1 CTCTACTGCAACTTCAGGGAGATAAGA--T-TGGATGCGATCTGCTCTACTGCAACTTCAGAGAG
* * ** *
25843258 ATAGGAT-TG-GTTTCTTTTGTCTG
63 ATAAGATCTGTG-GT-TTTAATCCG
* * * * * *
25843281 CTCCACTGTAACTTCAGAGAGATAAGACTGGATACGATCTTCTCTACTGCAACTTCAGAGAGATA
1 CTCTACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
*
25843346 AGATCTATGGTTTTAATCCG
66 AGATCTGTGGTTTTAATCCG
* * * * *
25843366 CTCCACTGCAACTTCAAGGAGATAGGAGTGGATGCGATCTGCTCTACTGCAACCTCAGAGAGATA
1 CTCTACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
25843431 AGATCTGTGGT
66 AGATCTGTGGT
25843442 GTATGGCTTC
Statistics
Matches: 264, Mismatches: 53, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
84 2 0.01
85 193 0.73
86 3 0.01
87 3 0.01
88 61 0.23
89 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (85 bp):
CTCTACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
AGATCTGTGGTTTTAATCCG
Found at i:25843718 original size:101 final size:100
Alignment explanation
Indices: 25843445--25843860 Score: 584
Period size: 101 Copynumber: 4.2 Consensus size: 100
25843435 CTGTGGTGTA
**
25843445 TGGCTTCAATCTTTTAAAATGCAATGTCAGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTAT
1 TGGCTTCAATCTTTTAAAATGCAATGTC-GGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGC
* * * ** *
25843510 TCCACTGCGAAC-TCAGGGAGGTAAGATTCATAGTCG
65 TCCACTGC-ACCGCCAGGGAAGTAAGATTCACCGTTG
* * *
25843546 TGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGCAAGATTCACCGGCGTAGCTTCAATCTGCT
1 TGGCTTCAATCTTTTAAAATGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCT
*
25843611 CCACTGCACCGCTAGGGAAGTAAGATTCACCGTTG
66 CCACTGCACCGCCAGGGAAGTAAGATTCACCGTTG
25843646 TGGCTTCAATCTTTTAAAATGCAATGTCGAGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGC
1 TGGCTTCAATCTTTTAAAATGCAATGTCG-GGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGC
* *
25843711 TCTACTGCACCGCCAGGGAAGTAAGATTCGCCGTTG
65 TCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTG
* * * * * * *
25843747 CGGCTTCAATCTTTTTAATTGCGATGTCGGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGTT
1 TGGCTTCAATCTTTTAAAATGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCT
*
25843811 CCACTGCACCGCCAGGGAAGTAAGATTCACCATTG
66 CCACTGCACCGCCAGGGAAGTAAGATTCACCGTTG
*
25843846 CGGCTTCAATCTTTT
1 TGGCTTCAATCTTTT
25843861 TAACCGTAAT
Statistics
Matches: 285, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
99 76 0.27
100 91 0.32
101 118 0.41
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (100 bp):
TGGCTTCAATCTTTTAAAATGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCT
CCACTGCACCGCCAGGGAAGTAAGATTCACCGTTG
Found at i:25843855 original size:50 final size:50
Alignment explanation
Indices: 25843475--25843857 Score: 259
Period size: 50 Copynumber: 7.7 Consensus size: 50
25843465 GCAATGTCAG
* * * * * * *
25843475 GGGAAGCAAGATTCACCGTCGTAGCTTCAATCTATTCCACTGCGAAC-TCA
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCAACTGC-ACCGCCA
* ** * * * * **** *
25843525 GGGAGGTAAGATTCATAGTCGTGGCTTCAATCTTTTAAATTGCAATATCG
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCA
* ** * * * *
25843575 GGGAAGCAAGATTCACCGGCGTAGCTTCAATCTGCTCCACTGCACCGCTA
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCA
* * * ** *
25843625 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAAAATGCAATGTCGA
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCAACTGCACCG-CCA
* * * * *
25843676 GGGAAGCAAGATTCACCGTCGTAGCTTCAATCTGCTCTACTGCACCGCCA
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCA
* * * * * * * *
25843726 GGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCGA-TGTCG
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCAACTGC-ACCGCCA
* * * *
25843776 GGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCA
* *
25843825 GGGAAGTAAGATTCACCATTGCGGCTTCAATCT
1 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCT
25843858 TTTTAACCGT
Statistics
Matches: 249, Mismatches: 79, Indels: 10
0.74 0.23 0.03
Matches are distributed among these distances:
48 1 0.00
49 39 0.16
50 169 0.68
51 40 0.16
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (50 bp):
GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTGTTCAACTGCACCGCCA
Found at i:25846314 original size:42 final size:42
Alignment explanation
Indices: 25846255--25846358 Score: 190
Period size: 42 Copynumber: 2.5 Consensus size: 42
25846245 ACCCCTCGGG
25846255 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGAT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGAT
* *
25846297 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGAT
25846339 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
25846359 ACCAATGAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGAT
Found at i:25846399 original size:26 final size:27
Alignment explanation
Indices: 25846370--25846421 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
25846360 CCAATGAATC
25846370 GGGGAATCAACACTTAGC-AACCCCTT
1 GGGGAATCAACACTTAGCAAACCCCTT
*
25846396 GGGGAATCAGCACTTAGCAAACCCCT
1 GGGGAATCAACACTTAGCAAACCCCT
25846422 CTATATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.17
Consensus pattern (27 bp):
GGGGAATCAACACTTAGCAAACCCCTT
Found at i:25846412 original size:143 final size:143
Alignment explanation
Indices: 25846154--25846421 Score: 457
Period size: 143 Copynumber: 1.9 Consensus size: 143
25846144 AATCAGTCAG
* *
25846154 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGTACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACC
* * * *
25846219 AGTGATTCGGGGAATCAGCACTTAGCACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACA
66 AATGAATCGGGGAATCAACACTTAGCACCCCTCGGGGGAATCAGCACTTAGCAAACCCCTTCACA
25846284 TTTAAGATACGAT
131 TTTAAGATACGAT
25846297 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACC
1 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACC
*
25846362 AATGAATCGGGGAATCAACACTTAGCAACCCCT-TGGGGAATCAGCACTTAGCAAACCCCT
66 AATGAATCGGGGAATCAACACTTAGC-ACCCCTCGGGGGAATCAGCACTTAGCAAACCCCT
25846422 CTATATTCAA
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
143 111 0.95
144 6 0.05
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (143 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACC
AATGAATCGGGGAATCAACACTTAGCACCCCTCGGGGGAATCAGCACTTAGCAAACCCCTTCACA
TTTAAGATACGAT
Found at i:25847799 original size:11 final size:11
Alignment explanation
Indices: 25847775--25847824 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
25847765 CCGGTAGAGG
25847775 TTTTTTTTCTT
1 TTTTTTTTCTT
25847786 TTTTATTTTCTT
1 TTTT-TTTTCTT
25847798 TTTTGTTTT-TT
1 TTTT-TTTTCTT
*
25847809 TGTTTTTTGCTT
1 T-TTTTTTTCTT
25847821 TTTT
1 TTTT
25847825 GCTTTTTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 13 0.38
12 21 0.62
ACGTcount: A:0.02, C:0.06, G:0.06, T:0.86
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:25847822 original size:16 final size:16
Alignment explanation
Indices: 25847791--25847835 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
25847781 TTCTTTTTTA
*
25847791 TTTTCTTTTTTG-TTT
1 TTTTGTTTTTTGCTTT
25847806 TTTTGTTTTTTGC-TT
1 TTTTGTTTTTTGCTTT
25847821 TTTTGCTTTTTTGCT
1 TTTTG-TTTTTTGCT
25847836 CTCTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.00, C:0.09, G:0.11, T:0.80
Consensus pattern (16 bp):
TTTTGTTTTTTGCTTT
Found at i:25847833 original size:8 final size:8
Alignment explanation
Indices: 25847791--25847835 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
25847781 TTCTTTTTTA
25847791 TTTT-CTT
1 TTTTGCTT
*
25847798 TTTTGTTT
1 TTTTGCTT
25847806 TTTTG-TT
1 TTTTGCTT
25847813 TTTTGCTT
1 TTTTGCTT
25847821 TTTTGCTT
1 TTTTGCTT
25847829 TTTTGCT
1 TTTTGCT
25847836 CTCTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
7 11 0.31
8 24 0.69
ACGTcount: A:0.00, C:0.09, G:0.11, T:0.80
Consensus pattern (8 bp):
TTTTGCTT
Found at i:25857349 original size:25 final size:25
Alignment explanation
Indices: 25857321--25857427 Score: 112
Period size: 25 Copynumber: 4.3 Consensus size: 25
25857311 GTATGCTCAA
*
25857321 ACGAGCTATGAATCGGTATGCTCTC
1 ACGAGCTATGAATCGGTAAGCTCTC
*
25857346 ACGAGCTGTGAATCGGTAAGCTCAT-
1 ACGAGCTATGAATCGGTAAGCTC-TC
*
25857371 ACGAGCTGA-GAATCGATAAGCTCTC
1 ACGAGCT-ATGAATCGGTAAGCTCTC
***
25857396 ACGAGCTGCAAATCGGTAAGCTCAT-
1 ACGAGCTATGAATCGGTAAGCTC-TC
25857421 ACGAGCT
1 ACGAGCT
25857428 GTGGTGTGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
24 1 0.01
25 67 0.96
26 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (25 bp):
ACGAGCTATGAATCGGTAAGCTCTC
Found at i:25857394 original size:50 final size:51
Alignment explanation
Indices: 25857315--25857428 Score: 169
Period size: 50 Copynumber: 2.3 Consensus size: 51
25857305 ATACATGTAT
* * * **
25857315 GCTCAAACGAGCT-ATGAATCGGTATGCTCTCACGAGCTGTGAATCGGTAA
1 GCTCATACGAGCTGATGAATCGATAAGCTCTCACGAGCTGCAAATCGGTAA
25857365 GCTCATACGAGCTGA-GAATCGATAAGCTCTCACGAGCTGCAAATCGGTAA
1 GCTCATACGAGCTGATGAATCGATAAGCTCTCACGAGCTGCAAATCGGTAA
25857415 GCTCATACGAGCTG
1 GCTCATACGAGCTG
25857429 TGGTGTGTCT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 57 0.98
51 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (51 bp):
GCTCATACGAGCTGATGAATCGATAAGCTCTCACGAGCTGCAAATCGGTAA
Found at i:25870435 original size:20 final size:20
Alignment explanation
Indices: 25870395--25870435 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
25870385 AAACAAAAAT
*
25870395 ATTAAAAATATAAAAATTAA
1 ATTAAAAATATAAAAAATAA
25870415 ATTAAAAATA-AATAAAATAA
1 ATTAAAAATATAA-AAAATAA
25870435 A
1 A
25870436 AAATGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
ATTAAAAATATAAAAAATAA
Found at i:25880876 original size:19 final size:20
Alignment explanation
Indices: 25880852--25880891 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
25880842 TTTAAGCTTT
25880852 TTTA-TTTTTAATTAATAAA
1 TTTATTTTTTAATTAATAAA
25880871 TTTATTGTTTTTAATTAATAA
1 TTTA-T-TTTTTAATTAATAA
25880892 TTCTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
22 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTATTTTTTAATTAATAAA
Found at i:25884638 original size:22 final size:22
Alignment explanation
Indices: 25884578--25884635 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
25884568 AATCTTCAAG
25884578 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
25884597 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
25884619 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
25884636 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:25886354 original size:12 final size:11
Alignment explanation
Indices: 25886333--25886407 Score: 51
Period size: 12 Copynumber: 6.3 Consensus size: 11
25886323 GCTTTTACTA
*
25886333 ATTAATTTATT
1 ATTATTTTATT
25886344 ATTATTATTATTT
1 ATTATT-TTA-TT
* **
25886357 ACTAATCCTATT
1 A-TTATTTTATT
*
25886369 ATTATTTGTACT
1 ATTATTT-TATT
25886381 ATTATTGTTATT
1 ATTATT-TTATT
25886393 ATTATTTTCATT
1 ATTATTTT-ATT
25886405 ATT
1 ATT
25886408 TCTTCTTATC
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
11 10 0.20
12 30 0.61
13 6 0.12
14 3 0.06
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:25891666 original size:41 final size:41
Alignment explanation
Indices: 25891609--25891691 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
25891599 TCAGCAATAG
25891609 AGCAGTCGATTGTTAACTGACTGGTCGTAGGTTCGAATCCT
1 AGCAGTCGATTGTTAACTGACTGGTCGTAGGTTCGAATCCT
*
25891650 AGCAGTCGATTGTTAACTGACTGGTTGTAGGTTCGAATCCT
1 AGCAGTCGATTGTTAACTGACTGGTCGTAGGTTCGAATCCT
25891691 A
1 A
25891692 CTTGAGGAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (41 bp):
AGCAGTCGATTGTTAACTGACTGGTCGTAGGTTCGAATCCT
Found at i:25901143 original size:27 final size:27
Alignment explanation
Indices: 25901105--25901159 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
25901095 TCACTAACTG
*
25901105 ATACTAATCTAATACTAATAGATTAGA
1 ATACTAATCTAATACTAATAGAATAGA
25901132 ATACTAATCTAATACTAATAGAATAGA
1 ATACTAATCTAATACTAATAGAATAGA
25901159 A
1 A
25901160 AAAATATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (27 bp):
ATACTAATCTAATACTAATAGAATAGA
Found at i:25904783 original size:16 final size:16
Alignment explanation
Indices: 25904762--25904794 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
25904752 TTTTATTGCT
*
25904762 TTGCTACTATAGAATA
1 TTGCTACTATAAAATA
25904778 TTGCTACTATAAAATA
1 TTGCTACTATAAAATA
25904794 T
1 T
25904795 AGAATATCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (16 bp):
TTGCTACTATAAAATA
Found at i:25906877 original size:33 final size:33
Alignment explanation
Indices: 25906835--25906903 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
25906825 CATACATGTG
*
25906835 AATATGAATCCATTTTCCTTTTTCTCCGTAATC
1 AATACGAATCCATTTTCCTTTTTCTCCGTAATC
*
25906868 AATACGAATCTATTTTCCTTTTTCTCCGTAATC
1 AATACGAATCCATTTTCCTTTTTCTCCGTAATC
25906901 AAT
1 AAT
25906904 CTTCTCATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (33 bp):
AATACGAATCCATTTTCCTTTTTCTCCGTAATC
Found at i:25914014 original size:23 final size:23
Alignment explanation
Indices: 25913981--25914041 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
25913971 CCACAACTCG
*
25913981 TATGA-GCTTACTGTTTCAGCTC
1 TATGAGGCTTACCGTTTCAGCTC
25914003 TATGAGGCTTACCG-TTCAGCTC
1 TATGAGGCTTACCGTTTCAGCTC
*
25914025 GAT-AGAGCTTACCGTTT
1 TATGAG-GCTTACCGTTT
25914042 ACCGGCACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 2 0.06
22 23 0.68
23 9 0.26
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (23 bp):
TATGAGGCTTACCGTTTCAGCTC
Found at i:25917857 original size:8 final size:8
Alignment explanation
Indices: 25917844--25917870 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
25917834 ACACAATTAA
25917844 TAATATAG
1 TAATATAG
25917852 TAATATAG
1 TAATATAG
25917860 TAATATAG
1 TAATATAG
25917868 TAA
1 TAA
25917871 CATATCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (8 bp):
TAATATAG
Found at i:25919143 original size:9 final size:9
Alignment explanation
Indices: 25919126--25919219 Score: 109
Period size: 9 Copynumber: 10.4 Consensus size: 9
25919116 TGTATGATTC
*
25919126 AATTAGGTT
1 AATTCGGTT
25919135 AATTCGGTT
1 AATTCGGTT
*
25919144 AATTCGGGT
1 AATTCGGTT
25919153 AATTCGAG-T
1 AATTCG-GTT
*
25919162 AATTCGGGT
1 AATTCGGTT
25919171 AATTCGGTT
1 AATTCGGTT
* *
25919180 TATTCGGGT
1 AATTCGGTT
25919189 AATTCGGTT
1 AATTCGGTT
*
25919198 AATTTGGTT
1 AATTCGGTT
*
25919207 AATTCGGCT
1 AATTCGGTT
25919216 AATT
1 AATT
25919220 TTTAACCAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
8 1 0.01
9 71 0.97
10 1 0.01
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:25919220 original size:18 final size:18
Alignment explanation
Indices: 25919134--25919219 Score: 120
Period size: 18 Copynumber: 4.8 Consensus size: 18
25919124 TCAATTAGGT
25919134 TAATTCGGTTAATTCGGG
1 TAATTCGGTTAATTCGGG
25919152 TAATTCGAG-TAATTCGGG
1 TAATTCG-GTTAATTCGGG
*
25919170 TAATTCGGTTTATTCGGG
1 TAATTCGGTTAATTCGGG
* *
25919188 TAATTCGGTTAATTTGGT
1 TAATTCGGTTAATTCGGG
*
25919206 TAATTCGGCTAATT
1 TAATTCGGTTAATT
25919220 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
17 1 0.02
18 59 0.97
19 1 0.02
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.42
Consensus pattern (18 bp):
TAATTCGGTTAATTCGGG
Done.