Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 74 of 211
Found at i:22809819 original size:300 final size:300
Alignment explanation
Indices: 22809277--22809880 Score: 1199
Period size: 300 Copynumber: 2.0 Consensus size: 300
22809267 TGCTATAAGC
22809277 ATTTAAAAAATTTGTCTAGGCTTAGGTAAGGATGAAATTGCATGAATTTCATTTTACGAGCCTAG
1 ATTTAAAAAATTTGTCTAGGCTTAGGTAAGGATGAAATTGCATGAATTTCATTTTACGAGCCTAG
22809342 GGACTAAATTGTAAAGAAATCAAAAGTATAGGGGCAAAATGGTAATTTTTCCAAAACATGATTTT
66 GGACTAAATTGTAAAGAAATCAAAAGTATAGGGGCAAAATGGTAATTTTTCCAAAACATGATTTT
22809407 TGGAATAAATTGATTGGAATGAAGTTTGAATTAGTTAAATTTTATTATATAGATCAAGAAAAGCA
131 TGGAATAAATTGATTGGAATGAAGTTTGAATTAGTTAAATTTTATTATATAGATCAAGAAAAGCA
*
22809472 ACCTACGGAATTAGATCAGGGAAAAAATAAAGTGTTGGACTAAACGATCGTTTTTCTCCGTATGA
196 ACCTACGGAATTAGATCAGGGAAAAAATAAAGTGTTGGACTAAACGATCGTTTTGCTCCGTATGA
22809537 GTTTGAGGTAAGTTTTTATGTTTAATAAGCATTAAAGTAT
261 GTTTGAGGTAAGTTTTTATGTTTAATAAGCATTAAAGTAT
22809577 ATTTAAAAAATTTGTCTAGGCTTAGGTAAGGATGAAATTGCATGAATTTCATTTTACGAGCCTAG
1 ATTTAAAAAATTTGTCTAGGCTTAGGTAAGGATGAAATTGCATGAATTTCATTTTACGAGCCTAG
22809642 GGACTAAATTGTAAAGAAATCAAAAGTATAGGGGCAAAATGGTAATTTTTCCAAAACATGATTTT
66 GGACTAAATTGTAAAGAAATCAAAAGTATAGGGGCAAAATGGTAATTTTTCCAAAACATGATTTT
22809707 TGGAATAAATTGATTGGAATGAAGTTTGAATTAGTTAAATTTTATTATATAGATCAAGAAAAGCA
131 TGGAATAAATTGATTGGAATGAAGTTTGAATTAGTTAAATTTTATTATATAGATCAAGAAAAGCA
22809772 ACCTACGGAATTAGATCAGGGAAAAAATAAAGTGTTGGACTAAACGATCGTTTTGCTCCGTATGA
196 ACCTACGGAATTAGATCAGGGAAAAAATAAAGTGTTGGACTAAACGATCGTTTTGCTCCGTATGA
22809837 GTTTGAGGTAAGTTTTTATGTTTAATAAGCATTAAAGTAT
261 GTTTGAGGTAAGTTTTTATGTTTAATAAGCATTAAAGTAT
22809877 ATTT
1 ATTT
22809881 GATTTAAATG
Statistics
Matches: 303, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 303 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.34
Consensus pattern (300 bp):
ATTTAAAAAATTTGTCTAGGCTTAGGTAAGGATGAAATTGCATGAATTTCATTTTACGAGCCTAG
GGACTAAATTGTAAAGAAATCAAAAGTATAGGGGCAAAATGGTAATTTTTCCAAAACATGATTTT
TGGAATAAATTGATTGGAATGAAGTTTGAATTAGTTAAATTTTATTATATAGATCAAGAAAAGCA
ACCTACGGAATTAGATCAGGGAAAAAATAAAGTGTTGGACTAAACGATCGTTTTGCTCCGTATGA
GTTTGAGGTAAGTTTTTATGTTTAATAAGCATTAAAGTAT
Found at i:22813160 original size:11 final size:11
Alignment explanation
Indices: 22813144--22813170 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22813134 AAATTGATCT
22813144 AAATATGGCTG
1 AAATATGGCTG
22813155 AAATATGGCTG
1 AAATATGGCTG
22813166 AAATA
1 AAATA
22813171 CCACACCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (11 bp):
AAATATGGCTG
Found at i:22816797 original size:40 final size:40
Alignment explanation
Indices: 22816753--22816875 Score: 106
Period size: 40 Copynumber: 3.1 Consensus size: 40
22816743 GATTCAGAGT
* *
22816753 TACTAGAGTATAAATAAGGGCATGAAAGTGCATTCAAGGG
1 TACTAAAGTAAAAATAAGGGCATGAAAGTGCATTCAAGGG
* * * * *
22816793 TACTAAAGTAAAAATAGGGGCATGTATGTGCATTTAGGGG
1 TACTAAAGTAAAAATAAGGGCATGAAAGTGCATTCAAGGG
* * * * *
22816833 TACCAAAG-AACAAA-CAGTGGCACGTAAGTGCAATCAAGGG
1 TACTAAAGTAA-AAATAAG-GGCATGAAAGTGCATTCAAGGG
22816873 TAC
1 TAC
22816876 CGAAGTACAA
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
39 3 0.05
40 63 0.95
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (40 bp):
TACTAAAGTAAAAATAAGGGCATGAAAGTGCATTCAAGGG
Found at i:22816876 original size:40 final size:40
Alignment explanation
Indices: 22816778--22816948 Score: 164
Period size: 40 Copynumber: 4.3 Consensus size: 40
22816768 AAGGGCATGA
* * * *
22816778 AAGTGCATTCAAGGGTACTAAAGTAA-AAATAGGGGCATGT
1 AAGTGCAATCAAGGGTACCAAAG-AACAAACAGGGGCACGT
* * * * *
22816818 ATGTGCATTTAGGGGTACCAAAGAACAAACAGTGGCACGT
1 AAGTGCAATCAAGGGTACCAAAGAACAAACAGGGGCACGT
* * * *
22816858 AAGTGCAATCAAGGGTACCGAAGTACAAACAAGCGCACGT
1 AAGTGCAATCAAGGGTACCAAAGAACAAACAGGGGCACGT
* * * * *
22816898 AAGTGCAATCAGGGGTACCGAAGTACAGACAGGGGCATGT
1 AAGTGCAATCAAGGGTACCAAAGAACAAACAGGGGCACGT
22816938 AAGTGCAATCA
1 AAGTGCAATCA
22816949 TCAATAATTA
Statistics
Matches: 109, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 2 0.02
40 107 0.98
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (40 bp):
AAGTGCAATCAAGGGTACCAAAGAACAAACAGGGGCACGT
Found at i:22816890 original size:20 final size:20
Alignment explanation
Indices: 22816867--22816924 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
22816857 TAAGTGCAAT
22816867 CAAGGGTACCGAAGTACAAA
1 CAAGGGTACCGAAGTACAAA
* * * *
22816887 CAAGCGCA-CGTAAGTGCAAT
1 CAAGGGTACCG-AAGTACAAA
*
22816907 CAGGGGTACCGAAGTACA
1 CAAGGGTACCGAAGTACA
22816925 GACAGGGGCA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.38, C:0.22, G:0.28, T:0.12
Consensus pattern (20 bp):
CAAGGGTACCGAAGTACAAA
Found at i:22816912 original size:80 final size:80
Alignment explanation
Indices: 22816778--22816948 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
22816768 AAGGGCATGA
* * * * * * * * *
22816778 AAGTGCATTCAAGGGTACTAAAGTAAAAATAGGGGCATGTATGTGCATTTAGGGGTACCAAAGAA
1 AAGTGCAATCAAGGGTACCAAAGTAAAAACAAGCGCACGTAAGTGCAATCAGGGGTACCAAAGAA
*
22816843 CAAACAGTGGCACGT
66 CAAACAGGGGCACGT
* * * *
22816858 AAGTGCAATCAAGGGTACCGAAGTACAAACAAGCGCACGTAAGTGCAATCAGGGGTACCGAAGTA
1 AAGTGCAATCAAGGGTACCAAAGTAAAAACAAGCGCACGTAAGTGCAATCAGGGGTACCAAAGAA
* *
22816923 CAGACAGGGGCATGT
66 CAAACAGGGGCACGT
22816938 AAGTGCAATCA
1 AAGTGCAATCA
22816949 TCAATAATTA
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (80 bp):
AAGTGCAATCAAGGGTACCAAAGTAAAAACAAGCGCACGTAAGTGCAATCAGGGGTACCAAAGAA
CAAACAGGGGCACGT
Found at i:22823503 original size:20 final size:20
Alignment explanation
Indices: 22823462--22823502 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
22823452 AAAGTTTTAT
22823462 AATTTTTTGTATAACCTTAA
1 AATTTTTTGTATAACCTTAA
*
22823482 AATTTTTTGTA-AATCTTAA
1 AATTTTTTGTATAACCTTAA
22823501 AA
1 AA
22823503 AAATTGGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (20 bp):
AATTTTTTGTATAACCTTAA
Found at i:22828524 original size:16 final size:16
Alignment explanation
Indices: 22828503--22828537 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
22828493 TTTGTATCTT
22828503 ATGGTACTTGCACTTA
1 ATGGTACTTGCACTTA
*
22828519 ATGGTACTTTCACTTA
1 ATGGTACTTGCACTTA
22828535 ATG
1 ATG
22828538 AGGGTAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (16 bp):
ATGGTACTTGCACTTA
Found at i:22830837 original size:33 final size:33
Alignment explanation
Indices: 22830799--22830865 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
22830789 AACCAATAAG
22830799 TAAGGAGGAAAACCTATGTTCTTTCTAGTGCTA
1 TAAGGAGGAAAACCTATGTTCTTTCTAGTGCTA
22830832 TAAGGAGGAAAACCTATGTTCTTTCTAGTGCTA
1 TAAGGAGGAAAACCTATGTTCTTTCTAGTGCTA
22830865 T
1 T
22830866 CACACCCCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (33 bp):
TAAGGAGGAAAACCTATGTTCTTTCTAGTGCTA
Found at i:22845359 original size:23 final size:22
Alignment explanation
Indices: 22845308--22845359 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
22845298 CCTCGTCTTT
*
22845308 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
22845330 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
22845353 TTCTTTT
1 TTCTTTT
22845360 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:22850255 original size:19 final size:18
Alignment explanation
Indices: 22850210--22850257 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
22850200 ATTCAAAAGT
22850210 TATTAAAAT-TTATAAAA
1 TATTAAAATATTATAAAA
*
22850227 AATTTGAAAATATTATAAAA
1 TA-TT-AAAATATTATAAAA
22850247 TATTCAAAATA
1 TATT-AAAATA
22850258 AAATTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 2 0.08
19 13 0.52
20 9 0.36
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
TATTAAAATATTATAAAA
Found at i:22858671 original size:25 final size:25
Alignment explanation
Indices: 22858637--22858706 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
22858627 ACGAGACTTA
* *
22858637 AATTTCTCACACGAGTTGTGAATGT
1 AATTTCTCACACGAGCTGTGAATAT
22858662 AATTTCTCACACGAGCTGTGAATAT
1 AATTTCTCACACGAGCTGTGAATAT
*
22858687 AATTTCTCACATGAGCTGTG
1 AATTTCTCACACGAGCTGTG
22858707 GAGAATCCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (25 bp):
AATTTCTCACACGAGCTGTGAATAT
Found at i:22861134 original size:23 final size:23
Alignment explanation
Indices: 22861108--22861155 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
22861098 ACAAAAGAAC
22861108 CTAAAGAAAATTAAAAACTAAAA
1 CTAAAGAAAATTAAAAACTAAAA
* * **
22861131 CTAAATAAAGTTGTAAACTAAAA
1 CTAAAGAAAATTAAAAACTAAAA
22861154 CT
1 CT
22861156 TGGATAATCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.23
Consensus pattern (23 bp):
CTAAAGAAAATTAAAAACTAAAA
Found at i:22865633 original size:31 final size:31
Alignment explanation
Indices: 22865597--22865666 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
22865587 GGAAGGTTCA
*
22865597 GGTAAAAATATAAGTCC-GAAAAATGAGCTTG
1 GGTAAAAATAT-AGGCCTGAAAAATGAGCTTG
*
22865628 GGTAAAAATATAGGCCTGAAAAATGGGCTTG
1 GGTAAAAATATAGGCCTGAAAAATGAGCTTG
22865659 GGTAAAAA
1 GGTAAAAA
22865667 ATGAGACTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (31 bp):
GGTAAAAATATAGGCCTGAAAAATGAGCTTG
Found at i:22865790 original size:22 final size:21
Alignment explanation
Indices: 22865765--22865825 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
22865755 GACGGTTGTG
22865765 CTTTTTTATTGCTTTTATGCTA
1 CTTTTTTATTGCTTTT-TGCTA
*
22865787 CTTTTTTATTACTTTCTTGCTA
1 CTTTTTTATTGCTTT-TTGCTA
*
22865809 -TTTTCTTATTGGTTTTT
1 CTTTT-TTATTGCTTTTT
22865826 CATTATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 6 0.18
22 27 0.79
23 1 0.03
ACGTcount: A:0.11, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
CTTTTTTATTGCTTTTTGCTA
Found at i:22876672 original size:19 final size:19
Alignment explanation
Indices: 22876630--22876676 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
22876620 GTCCAAAAAC
*
22876630 ATACCAAAATTTTGAATTT
1 ATACCAAAATTTTGAACTT
*
22876649 TTACCAAAATTTCT-AACTT
1 ATACCAAAATTT-TGAACTT
22876668 ATACCAAAA
1 ATACCAAAA
22876677 CTAAAATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 23 0.96
20 1 0.04
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (19 bp):
ATACCAAAATTTTGAACTT
Found at i:22883705 original size:23 final size:25
Alignment explanation
Indices: 22883661--22883707 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 25
22883651 AAATATGTAG
22883661 TTTAATATATTTATTTTTAAATAAT
1 TTTAATATATTTATTTTTAAATAAT
22883686 TTTAAT-TATTTA-TTTTAAATAA
1 TTTAATATATTTATTTTTAAATAA
22883708 AAGTAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.45
24 6 0.27
25 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTAATATATTTATTTTTAAATAAT
Found at i:22885063 original size:17 final size:19
Alignment explanation
Indices: 22885041--22885077 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
22885031 AAAAAAAAAC
22885041 AAAGGA-AC-AAATAATAA
1 AAAGGACACAAAATAATAA
22885058 AAAGGATCACAAAATAATAA
1 AAAGGA-CACAAAATAATAA
22885078 TGAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.68, C:0.08, G:0.11, T:0.14
Consensus pattern (19 bp):
AAAGGACACAAAATAATAA
Found at i:22889669 original size:17 final size:17
Alignment explanation
Indices: 22889644--22889683 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
22889634 CATCATCAAT
*
22889644 AATTAAATTTTAACATA
1 AATTTAATTTTAACATA
22889661 AATTTAATTTTAACATA
1 AATTTAATTTTAACATA
22889678 AATTTA
1 AATTTA
22889684 TAAATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTTAATTTTAACATA
Found at i:22890058 original size:17 final size:18
Alignment explanation
Indices: 22890022--22890069 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
22890012 CCACATCAGC
22890022 AAATGAATTTAAACTTAAA
1 AAAT-AATTTAAACTTAAA
22890041 AAATAATTTAAA-TTAAA
1 AAATAATTTAAACTTAAA
22890058 AAA-ACATTTAAA
1 AAATA-ATTTAAA
22890070 ACCCCTAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.04
17 15 0.54
18 8 0.29
19 4 0.14
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATAATTTAAACTTAAA
Found at i:22892174 original size:82 final size:82
Alignment explanation
Indices: 22892081--22892263 Score: 278
Period size: 82 Copynumber: 2.2 Consensus size: 82
22892071 GGTATACATC
* * *
22892081 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAAT
1 TTTCAAAAAATCATTTCAAAAAACAAACAAAATATATTATACTAACAAAATGATCCCATAGCAAT
22892146 AAGATGTTAACCAACCA
66 AAGATGTTAACCAACCA
* * * * *
22892163 TTTCAAAAAATCATTTCAAAAAATAAACAAAATATATTATGCTGACAAAATGATCCCATAGTAGT
1 TTTCAAAAAATCATTTCAAAAAACAAACAAAATATATTATACTAACAAAATGATCCCATAGCAAT
22892228 AAGATGTTAACCAACCA
66 AAGATGTTAACCAACCA
22892245 TTTCAACAAAA-CATTTCAA
1 TTTCAA-AAAATCATTTCAA
22892264 CAAATCATTT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
82 88 0.96
83 4 0.04
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (82 bp):
TTTCAAAAAATCATTTCAAAAAACAAACAAAATATATTATACTAACAAAATGATCCCATAGCAAT
AAGATGTTAACCAACCA
Found at i:22892179 original size:13 final size:13
Alignment explanation
Indices: 22892161--22892186 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22892151 GTTAACCAAC
22892161 CATTTCAAAAAAT
1 CATTTCAAAAAAT
22892174 CATTTCAAAAAAT
1 CATTTCAAAAAAT
22892187 AAACAAAATA
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CATTTCAAAAAAT
Found at i:22892261 original size:13 final size:13
Alignment explanation
Indices: 22892243--22892282 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
22892233 GTTAACCAAC
22892243 CATTTCAACAAAA
1 CATTTCAACAAAA
*
22892256 CATTTCAACAAAT
1 CATTTCAACAAAA
22892269 CATTTCAA-AAAA
1 CATTTCAACAAAA
22892281 CA
1 CA
22892283 AACAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 5 0.20
13 20 0.80
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (13 bp):
CATTTCAACAAAA
Found at i:22894957 original size:54 final size:54
Alignment explanation
Indices: 22894849--22894957 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
22894839 CTCCACTTCC
* * **
22894849 TTAACCCTTTCCTCATCACATCCATCACTCTCACCACCTTCACTGACAGTAACA
1 TTAACCCTCTCCTCACCACATCCATCACTCTCACCACCTTCACTGACAACAACA
* *
22894903 TTAACCCTCTCTTCACCACCTCCATCACTCTCACCACCTTCACTGACAACAACA
1 TTAACCCTCTCCTCACCACATCCATCACTCTCACCACCTTCACTGACAACAACA
22894957 T
1 T
22894958 CATCACCCTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.28, C:0.43, G:0.03, T:0.27
Consensus pattern (54 bp):
TTAACCCTCTCCTCACCACATCCATCACTCTCACCACCTTCACTGACAACAACA
Found at i:22895059 original size:33 final size:33
Alignment explanation
Indices: 22895013--22895105 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 33
22895003 CAGCACTGAC
*
22895013 CCTCAACACCCTCACCACCTTTACTGCCAAGAA
1 CCTCACCACCCTCACCACCTTTACTGCCAAGAA
* *
22895046 CCTCACCATCCTCACCTTCACCACATTTATTGCCAAGAA
1 CCTCACCA----C-CC-TCACCACCTTTACTGCCAAGAA
22895085 CCTCACCACCCTCACCACCTT
1 CCTCACCACCCTCACCACCTT
22895106 CATTACCATC
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
33 16 0.32
34 2 0.04
35 1 0.02
37 1 0.02
38 2 0.04
39 28 0.56
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (33 bp):
CCTCACCACCCTCACCACCTTTACTGCCAAGAA
Found at i:22895080 original size:39 final size:39
Alignment explanation
Indices: 22895019--22895100 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
22895009 TGACCCTCAA
* *
22895019 CACCCTCACCACCTTTACTGCCAAGAACCTCACCATCCT
1 CACCCTCACCACATTTACTGCCAAGAACCTCACCACCCT
* *
22895058 CACCTTCACCACATTTATTGCCAAGAACCTCACCACCCT
1 CACCCTCACCACATTTACTGCCAAGAACCTCACCACCCT
22895097 CACC
1 CACC
22895101 ACCTTCATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.27, C:0.48, G:0.05, T:0.21
Consensus pattern (39 bp):
CACCCTCACCACATTTACTGCCAAGAACCTCACCACCCT
Found at i:22896861 original size:2 final size:2
Alignment explanation
Indices: 22896854--22896892 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
22896844 TTATTGCTTT
*
22896854 TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC T- TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22896893 ACTTCAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.03, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:22897572 original size:9 final size:9
Alignment explanation
Indices: 22897550--22897583 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
22897540 TGGTTAGTCG
22897550 TTAACTTGTT
1 TTAA-TTGTT
*
22897560 TTAATTTTT
1 TTAATTGTT
22897569 TTAATTGTT
1 TTAATTGTT
22897578 TTAATT
1 TTAATT
22897584 ATGGGTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (9 bp):
TTAATTGTT
Found at i:22898865 original size:22 final size:22
Alignment explanation
Indices: 22898840--22898882 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22898830 ACACCAAAAC
* *
22898840 AGGCTTTTAGCATCGCTTTTTT
1 AGGCATTTAGCAGCGCTTTTTT
*
22898862 AGGCATTTAGCGGCGCTTTTT
1 AGGCATTTAGCAGCGCTTTTT
22898883 AGCGTCGCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.19, G:0.23, T:0.44
Consensus pattern (22 bp):
AGGCATTTAGCAGCGCTTTTTT
Found at i:22899017 original size:43 final size:43
Alignment explanation
Indices: 22898954--22899203 Score: 374
Period size: 43 Copynumber: 5.8 Consensus size: 43
22898944 GCGTCGCTAA
22898954 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * **
22898997 CTTTAGCGGCGCTTTACCCACAAATGCCGCTAAAGACTGGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * *
22899040 CTTCAGTGGCGCTTTACCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * **
22899083 CTTTAGCGTCGCTTTTCCCATAAACGCCGCTAAAGATTAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
22899126 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* * *
22899169 CTTTAGCGGCGCTTTCCCCAAAAACGCCACTAAAG
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG
22899204 GTCACGAAAA
Statistics
Matches: 184, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 184 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.20
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
Found at i:22899844 original size:23 final size:23
Alignment explanation
Indices: 22899809--22900395 Score: 490
Period size: 23 Copynumber: 25.7 Consensus size: 23
22899799 CAAGTTAAAT
22899809 TTAAACACTTCAATTTGCAGCAC
1 TTAAACACTTCAATTTGCAGCAC
* *
22899832 TTTAACA-TCTCAATTTTCAGCAAC
1 TTAAACACT-TCAATTTGCAGC-AC
22899856 -TAAACACTTCAATTTGCAGCAC
1 TTAAACACTTCAATTTGCAGCAC
** *
22899878 TTAAACACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTGCAGCAC
* *
22899901 TTAAACACTTAAATTTACAGCAC
1 TTAAACACTTCAATTTGCAGCAC
** * *
22899924 TTAAACA-TATCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAC
* * * *
22899947 TTATACACCTCAA-TTACAGCAA
1 TTAAACACTTCAATTTGCAGCAC
* *
22899969 TAAAACA-TCTCAATTTCCAGCAAC
1 TTAAACACT-TCAATTTGCAGC-AC
*
22899993 -TAAGCACTTCAATTTGCAGCAC
1 TTAAACACTTCAATTTGCAGCAC
*
22900015 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTGCAGCAC
*
22900038 TTAAACACTTAAATTTGCAGCAC
1 TTAAACACTTCAATTTGCAGCAC
** * *
22900061 -TAAA-ACTTATCAATTAACAACAT
1 TTAAACAC-T-TCAATTTGCAGCAC
* * *
22900084 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AC
* *
22900106 TAAAACA-TCTCAATTTCCAGCAAC
1 TTAAACACT-TCAATTTGCAGC-AC
*
22900130 -TAAGCACTTCAATTTGCAGCAC
1 TTAAACACTTCAATTTGCAGCAC
22900152 TTAAACACTTCAATTTGCAGCAC
1 TTAAACACTTCAATTTGCAGCAC
* * *
22900175 TTAAAAACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAC
*
22900198 TTAAACACTTAAATTTGCAGCAC
1 TTAAACACTTCAATTTGCAGCAC
** * *
22900221 TTAAACA-TATCAATTAACAACAT
1 TTAAACACT-TCAATTTGCAGCAC
* * *
22900244 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTGCAGC-AC
* *
22900266 TAAAACA-TCTCAATTTCCAGCAAC
1 TTAAACACT-TCAATTTGCAGC-AC
*
22900290 -TAAGCACTTCAATTTGCAGCAC
1 TTAAACACTTCAATTTGCAGCAC
22900312 TTAAACACTTCAATTTGCAGCAC
1 TTAAACACTTCAATTTGCAGCAC
* *
22900335 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCAC
*
22900358 TTAAACACTTAAATTTGCAGCAC
1 TTAAACACTTCAATTTGCAGCAC
22900381 TTAAACA-TATCAATT
1 TTAAACACT-TCAATT
22900396 AACAACATTC
Statistics
Matches: 454, Mismatches: 80, Indels: 60
0.76 0.13 0.10
Matches are distributed among these distances:
21 2 0.00
22 60 0.13
23 380 0.84
24 10 0.02
25 2 0.00
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.30
Consensus pattern (23 bp):
TTAAACACTTCAATTTGCAGCAC
Found at i:22900028 original size:160 final size:160
Alignment explanation
Indices: 22899814--22900404 Score: 772
Period size: 160 Copynumber: 3.7 Consensus size: 160
22899804 TAAATTTAAA
* * *
22899814 CACTTCAATTTGCAGCACTTTAACA-TCTCAATTTTCAGCAAC-TAAACACTTCAATTTGCAGCA
1 CACTTCAATTTGCAGCACTTAAACACT-TCAATTTGCAGC-ACTTAAACACTTCAATTTACAGCA
* * ** * * * * * **
22899877 CTTAAACACTTCAATTTATAGCATTTAAACACTTAAATTTACAGCACTTAAACATATCAATTAAC
64 TTTAAACACTTAAATTTGCAGCACTTAAACACTTAAATTAACAACATTTATACACCTCAATT-AC
* * * * *
22899942 AAC-ATTTATACACCTCAA-TTACAGCAA-TAA-
128 AGCGA-TAAAACATCTCAATTTCCAGCAACTAAG
* * * *
22899972 AACATCTCAATTTCCAGCAAC-TAAGCACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGC
1 CAC-T-TCAATTTGCAGC-ACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGC
22900036 ATTTAAACACTTAAATTTGCAGCAC-TAAA-ACTTATCAATTAACAACATTTATACACCTCAATT
63 ATTTAAACACTTAAATTTGCAGCACTTAAACACTTA--AATTAACAACATTTATACACCTCAATT
22900099 ACAGCGATAAAACATCTCAATTTCCAGCAACTAAG
126 ACAGCGATAAAACATCTCAATTTCCAGCAACTAAG
*
22900134 CACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAAAACTTCAATTTACAGCATT
1 CACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
*
22900199 TAAACACTTAAATTTGCAGCACTTAAACA-TATCAATTAACAACATTTATACACCTCAATTACAG
66 TAAACACTTAAATTTGCAGCACTTAAACACT-TAAATTAACAACATTTATACACCTCAATTACAG
22900263 CGATAAAACATCTCAATTTCCAGCAACTAAG
130 CGATAAAACATCTCAATTTCCAGCAACTAAG
22900294 CACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
1 CACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
*
22900359 TAAACACTTAAATTTGCAGCACTTAAACA-TATCAATTAACAACATT
66 TAAACACTTAAATTTGCAGCACTTAAACACT-TAAATTAACAACATT
22900405 CGATGCTGCT
Statistics
Matches: 390, Mismatches: 28, Indels: 28
0.87 0.06 0.06
Matches are distributed among these distances:
158 7 0.02
159 23 0.06
160 344 0.88
161 12 0.03
162 4 0.01
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.30
Consensus pattern (160 bp):
CACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATT
TAAACACTTAAATTTGCAGCACTTAAACACTTAAATTAACAACATTTATACACCTCAATTACAGC
GATAAAACATCTCAATTTCCAGCAACTAAG
Found at i:22900396 original size:137 final size:139
Alignment explanation
Indices: 22899807--22900395 Score: 655
Period size: 137 Copynumber: 4.3 Consensus size: 139
22899797 AACAAGTTAA
* * *
22899807 ATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTTTCAGCAACTAAACACTTCAATTTG
1 ATTTAAACACTTCAATTTACAGCACTTAAACATCTCAATTTACAGCAACTAAACACTTCAATTTG
** *
22899872 CAGCACTTAAACACTTCAATTTATAGCATTTAAACACTTAAATTTACAGCACTTAAACA-TATCA
66 CAGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTAAATTTACAGCACTTAAACACTATCA
22899936 ATTAACAAC
131 ATTAACAAC
* * * * * *
22899945 ATTTATACACCTCAA-TTACAGCAATAAAACATCTCAATTTCCAGCAACTAAGCACTTCAATTTG
1 ATTTAAACACTTCAATTTACAGCACTTAAACATCTCAATTTACAGCAACTAAACACTTCAATTTG
* *
22900009 CAGCACTTAAACACTTCAATTTGCAGCATTTAAACACTTAAATTTGCAGCAC-TAAA-ACTTATC
66 CAGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTAAATTTACAGCACTTAAACAC-TATC
22900072 AATTAACAAC
130 AATTAACAAC
* * * * *
22900082 ATTTATACACCTCAA-TTACAGCGA-TAAAACATCTCAATTTCCAGCAACTAAGCACTTCAATTT
1 ATTTAAACACTTCAATTTACAGC-ACTTAAACATCTCAATTTACAGCAACTAAACACTTCAATTT
* * * *
22900145 GCAGCACTTAAACACTTCAATTTGCAGCACTTAAAAACTTCAATTTACAGCATTTAAACACT-TA
65 GCAGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTAAATTTACAGCACTTAAACACTATC
** *
22900209 AATTTGCAGC
130 AATTAACAAC
* * * * * * *
22900219 ACTTAAACA-TATCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAA-ACATCTCAAT
1 ATTTAAACACT-TCAATTTACAGCACTTAAACATCTCAATTTACAGCAACTAAACAC-T-TCAAT
* * * *
22900280 TTCCAGCAAC-TAAGCACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAACACT
63 TTGCAGC-ACTTAAACACTTCAATTTGCAGCACTTAAACACTTAAATTTACAGCACTTAAACACT
* *
22900344 -TCAATTTACAGC
127 ATCAATTAACAAC
* * *
22900356 ATTTAAACACTTAAATTTGCAGCACTTAAACATATCAATT
1 ATTTAAACACTTCAATTTACAGCACTTAAACATCTCAATT
22900396 AACAACATTC
Statistics
Matches: 391, Mismatches: 47, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
135 3 0.01
136 8 0.02
137 340 0.87
138 38 0.10
139 2 0.01
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.30
Consensus pattern (139 bp):
ATTTAAACACTTCAATTTACAGCACTTAAACATCTCAATTTACAGCAACTAAACACTTCAATTTG
CAGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTAAATTTACAGCACTTAAACACTATCA
ATTAACAAC
Found at i:22902428 original size:17 final size:17
Alignment explanation
Indices: 22902406--22902445 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
22902396 CTCCTTCTCC
22902406 GATTTCTTCTCATCTAG
1 GATTTCTTCTCATCTAG
22902423 GATTTCTTCTCATCTAG
1 GATTTCTTCTCATCTAG
*
22902440 GGTTTC
1 GATTTC
22902446 AGTGCAGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (17 bp):
GATTTCTTCTCATCTAG
Found at i:22903547 original size:21 final size:21
Alignment explanation
Indices: 22903523--22903562 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22903513 ATAAACCATA
22903523 AACCCCT-AACCCCTAACCCCT
1 AACCCCTAAACCCC-AACCCCT
*
22903544 AACCCTTAAACCCCAACCC
1 AACCCCTAAACCCCAACCC
22903563 TTATAACTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.33, C:0.55, G:0.00, T:0.12
Consensus pattern (21 bp):
AACCCCTAAACCCCAACCCCT
Found at i:22903563 original size:14 final size:15
Alignment explanation
Indices: 22903521--22903565 Score: 67
Period size: 14 Copynumber: 3.1 Consensus size: 15
22903511 ACATAAACCA
*
22903521 TAAACCCCTAACCCC
1 TAAACCCCTAACCCT
22903536 T-AACCCCTAACCCT
1 TAAACCCCTAACCCT
22903550 TAAACCCC-AACCCT
1 TAAACCCCTAACCCT
22903564 TA
1 TA
22903566 TAACTGTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.18
Consensus pattern (15 bp):
TAAACCCCTAACCCT
Found at i:22904565 original size:42 final size:41
Alignment explanation
Indices: 22904515--22904832 Score: 390
Period size: 41 Copynumber: 7.7 Consensus size: 41
22904505 TATGATAAAT
* *
22904515 CTGAGCATTAGCGGCGCTTTTTTAAAAAACGCCGCTAAATCC
1 CTGAGCATTAGCGGCGC-TTTTTCAAAAACGCCGCTAAAGCC
* * *
22904557 CTAAGCATTAGCGGCGCTTCTCCAAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTTTTC-AAAAACGCCGCTAAAGCC
* * *
22904599 CTGAGCATTAGCGGCGCTTCTTCATAAACGCCACTAAAG--
1 CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCC
* * **
22904638 ATAGAGCATTAGCGGCGCTTCTTT-AAAAATGCCGCTAAAGAA
1 CT-GAGCATTAGCGGCGCTT-TTTCAAAAACGCCGCTAAAGCC
* *
22904680 CTGAGCATTAGTGGCGCTTTTTCAGAAACGCCGCTAAAAGCC
1 CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCT-AAAGCC
*
22904722 CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCC
1 CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCC
* * *
22904763 CTGAGCATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGAC
1 CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCC
* *
22904804 CTGAGCTTTAGCGGCGCTTCTTCAAAAAC
1 CTGAGCATTAGCGGCGCTTTTTCAAAAAC
22904833 ACCGATAATG
Statistics
Matches: 240, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.00
40 33 0.14
41 115 0.48
42 91 0.38
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCC
Found at i:22904820 original size:124 final size:121
Alignment explanation
Indices: 22904510--22904832 Score: 439
Period size: 123 Copynumber: 2.6 Consensus size: 121
22904500 TTTAATATGA
* * * ** *
22904510 TAAATCTGAGCATTAGCGGCGCTTTTTTAAAAAACGCCGCTAAATCCCTAAGCATTAGCGGCGCT
1 TAAAGCTGAGCATTAGCGGCGC-TTCTTAAAAAATGCCGCTAAAGACCTGAGCATTAGCGGCGCT
* *
22904575 TCTCCAAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTTCATAAACGCCAC
65 TCTTC-AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCAC
* * * *
22904633 TAAAGATAGAGCATTAGCGGCGCTTCTTTAAAAATGCCGCTAAAGAACTGAGCATTAGTGGCGCT
1 TAAAGCT-GAGCATTAGCGGCGCTTCTTAAAAAATGCCGCTAAAGACCTGAGCATTAGCGGCGCT
* * *
22904698 TTTTCAGAAACGCCGCTAAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCAC
65 TCTTCAAAAACGCCGCT-AAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCAC
* *
22904756 TAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGACCTGAGCTTTAGCGGCGC
1 TAAAG--CTGAGCATTAGCGGCGCTTCTTAAAAAATGCCGCTAAAGACCTGAGCATTAGCGGCGC
22904821 TTCTTCAAAAAC
64 TTCTTCAAAAAC
22904833 ACCGATAATG
Statistics
Matches: 174, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
122 11 0.06
123 85 0.49
124 77 0.44
125 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (121 bp):
TAAAGCTGAGCATTAGCGGCGCTTCTTAAAAAATGCCGCTAAAGACCTGAGCATTAGCGGCGCTT
CTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCAC
Found at i:22904945 original size:39 final size:39
Alignment explanation
Indices: 22904898--22905015 Score: 125
Period size: 40 Copynumber: 3.0 Consensus size: 39
22904888 CGCTTTGTGG
22904898 AAAA-CGCCGCTAATGCTCATTTTTAGTGGCGTTTTTTA
1 AAAAGCGCCGCTAATGCTCATTTTTAGTGGCGTTTTTTA
* *
22904936 AAAAGCGCCGCTAGTACTCTATCTTTT-GTGGCGTTTTATT-
1 AAAAGCGCCGCTAATGCTC-AT-TTTTAGTGGCGTTTT-TTA
* * **
22904976 AGAAGCGCCGCTAATGCTTGATTTTTAACGGCGTTTTTTA
1 AAAAGCGCCGCTAATGC-TCATTTTTAGTGGCGTTTTTTA
22905016 TTCAAACGCC
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
38 4 0.06
39 18 0.28
40 36 0.55
41 7 0.11
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (39 bp):
AAAAGCGCCGCTAATGCTCATTTTTAGTGGCGTTTTTTA
Found at i:22904970 original size:40 final size:39
Alignment explanation
Indices: 22904898--22905030 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 39
22904888 CGCTTTGTGG
*
22904898 AAAA-CGCCGCTAATGCTCATTTTTAGTGGCGTTTT-TT
1 AAAAGCGCCGCTAATACTCATTTTTAGTGGCGTTTTATT
*
22904935 AAAAAGCGCCGCTAGTACTCTATCTTTT-GTGGCGTTTTATT
1 -AAAAGCGCCGCTAATACTC-AT-TTTTAGTGGCGTTTTATT
* * * **
22904976 AGAAGCGCCGCTAATGCTTGATTTTTAACGGCGTTTTTTATT
1 AAAAGCGCCGCTAATAC-TCATTTTTAGTGGCG--TTTTATT
*
22905018 CAAA-CGCCGCTAA
1 AAAAGCGCCGCTAA
22905031 AAGCCTGTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
38 4 0.05
39 16 0.21
40 32 0.42
41 16 0.21
42 9 0.12
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (39 bp):
AAAAGCGCCGCTAATACTCATTTTTAGTGGCGTTTTATT
Found at i:22905274 original size:43 final size:43
Alignment explanation
Indices: 22905192--22905277 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
22905182 CATGGGTTTA
* * * *
22905192 TATGTATGTTTTTATGGAACTCCTATTTTATATGTTTAGTATG
1 TATGTATGCTTTTATGGAACTCCAATCTTATATGATTAGTATG
*
22905235 TATGTATGCTTTTATGGAGCTTCCAATCTTATAT-ATTAGTATG
1 TATGTATGCTTTTATGGAAC-TCCAATCTTATATGATTAGTATG
22905278 CGATGATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 26 0.70
44 11 0.30
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.50
Consensus pattern (43 bp):
TATGTATGCTTTTATGGAACTCCAATCTTATATGATTAGTATG
Found at i:22905637 original size:2 final size:2
Alignment explanation
Indices: 22905630--22905655 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22905620 TGCCTTCCTT
22905630 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
22905656 GCTTAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22906960 original size:28 final size:29
Alignment explanation
Indices: 22906905--22906960 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
22906895 GTTGAACCTG
*
22906905 ATTTTTTTTAAAATTTTTAACATCTTATA
1 ATTTTTTTTAAAATTTTTAACAACTTATA
*
22906934 ATTTTTTTTAAAA-TTTTAACAAGTTAT
1 ATTTTTTTTAAAATTTTTAACAACTTAT
22906961 TTAATCTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (29 bp):
ATTTTTTTTAAAATTTTTAACAACTTATA
Found at i:22908462 original size:28 final size:27
Alignment explanation
Indices: 22908418--22908471 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
22908408 GAGTTTGCAC
* * *
22908418 TTTTTTTTTAATGTGGTAGTTGTATTA
1 TTTTTTTTCAATATGGTACTTGTATTA
22908445 TTTTTTGTTCAATATGGTACTTGTATT
1 TTTTTT-TTCAATATGGTACTTGTATT
22908472 TGACAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.19, C:0.04, G:0.17, T:0.61
Consensus pattern (27 bp):
TTTTTTTTCAATATGGTACTTGTATTA
Found at i:22913609 original size:14 final size:14
Alignment explanation
Indices: 22913590--22913619 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22913580 CCACCAATAA
22913590 GGGCATCAGTAAAT
1 GGGCATCAGTAAAT
22913604 GGGCATCAGTAAAT
1 GGGCATCAGTAAAT
22913618 GG
1 GG
22913620 TATGAGTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (14 bp):
GGGCATCAGTAAAT
Found at i:22914294 original size:21 final size:21
Alignment explanation
Indices: 22914270--22914310 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22914260 ACCTTTTCTA
**
22914270 AAGTTAAAAGTCAAAACCATT
1 AAGTTAAAAGGAAAAACCATT
22914291 AAGTTAAAAGGAAAAACCAT
1 AAGTTAAAAGGAAAAACCAT
22914311 AATATTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGAAAAACCATT
Found at i:22921935 original size:13 final size:14
Alignment explanation
Indices: 22921909--22921938 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
22921899 GATGTAAGCT
22921909 AAGGAATAAGAGGA
1 AAGGAATAAGAGGA
22921923 AAGGAAT-AGAGGA
1 AAGGAATAAGAGGA
22921936 AAG
1 AAG
22921939 AAAACTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.57, C:0.00, G:0.37, T:0.07
Consensus pattern (14 bp):
AAGGAATAAGAGGA
Found at i:22930256 original size:55 final size:55
Alignment explanation
Indices: 22930186--22930293 Score: 137
Period size: 55 Copynumber: 2.0 Consensus size: 55
22930176 AATAGTTTGT
*
22930186 CACACGGGCTAGCACACGGCCTGCGACAC-GACCGTGTGACCCAACTTCGAATATG
1 CACACGGGCTAGCACACGGCCTGCAACACAGA-CGTGTGACCCAACTTCGAATATG
* * * * * *
22930241 CACACGGTCTGGCACATGGCCTGCAACACAGACGTGTGATCCTATTTCGAATA
1 CACACGGGCTAGCACACGGCCTGCAACACAGACGTGTGACCCAACTTCGAATA
22930294 CTCACACAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 43 0.96
56 2 0.04
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.19
Consensus pattern (55 bp):
CACACGGGCTAGCACACGGCCTGCAACACAGACGTGTGACCCAACTTCGAATATG
Found at i:22959103 original size:25 final size:25
Alignment explanation
Indices: 22959075--22959156 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
22959065 GTTCTGACCC
22959075 ACAGCTCGTGAGAGCATACCGATTT
1 ACAGCTCGTGAGAGCATACCGATTT
* *
22959100 ACAGCTGGTGAGGGCATACCGATTT
1 ACAGCTCGTGAGAGCATACCGATTT
*
22959125 ACAGCTCAAGTGA-A-CATACCGATTC
1 ACAGCTC--GTGAGAGCATACCGATTT
22959150 ACAGCTC
1 ACAGCTC
22959157 TATGAGCATA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
25 46 0.92
27 4 0.08
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACCGATTT
Found at i:22964904 original size:22 final size:22
Alignment explanation
Indices: 22964860--22964904 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22964850 CAAAATCTAA
* *
22964860 AAAAAAATAGAAATTATTCTGT
1 AAAAAAATAGAAAATATACTGT
* *
22964882 AAAAAAATATAAAATATAGTGT
1 AAAAAAATAGAAAATATACTGT
22964904 A
1 A
22964905 GTATTTAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (22 bp):
AAAAAAATAGAAAATATACTGT
Found at i:22968546 original size:16 final size:16
Alignment explanation
Indices: 22968527--22968606 Score: 74
Period size: 17 Copynumber: 4.9 Consensus size: 16
22968517 TTTTTATATT
22968527 TTTTTATAATTTTTAA
1 TTTTTATAATTTTTAA
*
22968543 TTTTT-T-ATATATTAA
1 TTTTTATAAT-TTTTAA
22968558 TCTTTTTATAATTTTTAA
1 --TTTTTATAATTTTTAA
** *
22968576 TTTTTATATATAATTAT
1 TTTTTATA-ATTTTTAA
22968593 TTTTTATAATTTTT
1 TTTTTATAATTTTT
22968607 TGAGATGTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
14 2 0.04
15 6 0.12
16 17 0.33
17 18 0.35
18 6 0.12
19 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTATAATTTTTAA
Found at i:22968564 original size:33 final size:33
Alignment explanation
Indices: 22968526--22968606 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
22968516 ATTTTTATAT
22968526 TTTTTTATAATTTTTAATTTTT-TATAT-ATTAA
1 TTTTTTATAATTTTTAATTTTTATATATAATT-A
22968558 TCTTTTTATAATTTTTAATTTTTATATATAATTA
1 T-TTTTTATAATTTTTAATTTTTATATATAATTA
22968592 TTTTTTATAATTTTT
1 TTTTTTATAATTTTT
22968607 TGAGATGTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
32 1 0.02
33 35 0.76
34 7 0.15
35 3 0.07
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (33 bp):
TTTTTTATAATTTTTAATTTTTATATATAATTA
Found at i:22968599 original size:7 final size:8
Alignment explanation
Indices: 22968515--22968606 Score: 55
Period size: 8 Copynumber: 10.9 Consensus size: 8
22968505 GTCTAGGGTT
22968515 TATTTTTA
1 TATTTTTA
22968523 TATTTTTTTA
1 TA--TTTTTA
22968533 TAATTTTTA
1 T-ATTTTTA
22968542 -ATTTTTTA
1 TA-TTTTTA
* *
22968550 TATATTAA
1 TATTTTTA
*
22968558 TCTTTTTA
1 TATTTTTA
22968566 TAATTTTTA
1 T-ATTTTTA
22968575 -ATTTTTA
1 TATTTTTA
*
22968582 TATATAATTA
1 TAT-T-TTTA
22968592 T-TTTTTA
1 TATTTTTA
22968599 TAATTTTT
1 T-ATTTTT
22968607 TGAGATGTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
7 12 0.18
8 21 0.32
9 20 0.31
10 11 0.17
11 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (8 bp):
TATTTTTA
Found at i:22970444 original size:4 final size:4
Alignment explanation
Indices: 22970435--22971527 Score: 1578
Period size: 4 Copynumber: 272.8 Consensus size: 4
22970425 GACTACAATT
* * * *
22970435 TATG TATG TATG CATG TATG CATG TATG AATG TATG TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
22970483 TATG TATG CATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
22970531 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
22970579 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
22970627 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
22970675 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
22970723 TATA TATG TATG TATG TATG CATATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG --TATG TATG TATG TATG TATG TATG TATG
* * * *
22970773 TATG TATG TATG CATA TATG TATG GATG TATG TATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
22970821 TATG CATG TATG TATG TATAG -ATG TATG TATG TATG TATA TATG TATG
1 TATG TATG TATG TATG TAT-G TATG TATG TATG TATG TATG TATG TATG
22970869 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
22970917 TATG TATG AATG TATA TATG TATG CATG TATA TATG TATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
22970965 TATG TATG TATG TATG CATG TATA TATG TATG CATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
22971013 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
22971061 TATG TATG TATG TATG TATG TATG GATG GATG GATG GATG GATG GATGG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT-G
* *
22971110 TATG TATG TATG TATG TATG TATG TATG TATG TATG CATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
22971158 CATG CATG CATG CATG TATG TATG TATG TATG TATA TATG GATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
22971206 TATG TATG TATG TATG TATG TATG CATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
22971254 TATG CATG CATG CATT TATG TGTG TGTG TATG TAT- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
22971301 TATG TATG TATG TATG TATG TATA TATG TATG TATG TATA TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
22971349 TATG GATG CATG TATG TATG TATG CATG CATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
22971397 GATG TATG CATG TGTG TATG TATG CATG CATG CATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
22971445 TATG GATG TATG CATG TGTG TATG TATG CATG CATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
22971493 TATG TATG TATG TATG TATG CATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
22971528 TTGAAGTCTT
Statistics
Matches: 998, Mismatches: 85, Indels: 12
0.91 0.08 0.01
Matches are distributed among these distances:
3 4 0.00
4 986 0.99
5 4 0.00
6 4 0.00
ACGTcount: A:0.26, C:0.03, G:0.25, T:0.46
Consensus pattern (4 bp):
TATG
Found at i:22973010 original size:34 final size:34
Alignment explanation
Indices: 22972967--22973032 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
22972957 AAAATATTTT
22972967 AAATATTTTAATATAATTAAATATAAAAATAAAA
1 AAATATTTTAATATAATTAAATATAAAAATAAAA
* *
22973001 AAATCTTTTAATATAATTTAATATAAAAATAA
1 AAATATTTTAATATAATTAAATATAAAAATAA
22973033 TTATACTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (34 bp):
AAATATTTTAATATAATTAAATATAAAAATAAAA
Found at i:22973269 original size:16 final size:16
Alignment explanation
Indices: 22973248--22973282 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
22973238 CTAATTACTA
*
22973248 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTCC
22973264 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
22973280 ATT
1 ATT
22973283 CCAGTGAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.31, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:22975156 original size:23 final size:24
Alignment explanation
Indices: 22975112--22975166 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
22975102 ATTGCTTCTG
* * *
22975112 TTTTTTGATTTTTCAGTAACTTAT
1 TTTTTTAATTATTCAATAACTTAT
*
22975136 TTTTTTAATTATTCAAT-ACTTGT
1 TTTTTTAATTATTCAATAACTTAT
22975159 TTTTTTAA
1 TTTTTTAA
22975167 CACAATTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.64
Consensus pattern (24 bp):
TTTTTTAATTATTCAATAACTTAT
Found at i:22979926 original size:28 final size:26
Alignment explanation
Indices: 22979895--22979955 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
22979885 TATCTTTTGT
*
22979895 AATTTTTAAACTTTTTTTATATTTTAAA
1 AATTTTGAAA-TTTTTTTATATTTT-AA
* *
22979923 AATTTCTGAGATTTTTTTCTATTTTAA
1 AATTT-TGAAATTTTTTTATATTTTAA
22979950 AATTTT
1 AATTTT
22979956 CCATTTTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.03
27 7 0.24
28 18 0.62
29 3 0.10
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
AATTTTGAAATTTTTTTATATTTTAA
Found at i:22980992 original size:9 final size:9
Alignment explanation
Indices: 22980978--22981167 Score: 52
Period size: 9 Copynumber: 20.4 Consensus size: 9
22980968 AAAACCATAG
22980978 AAATTATAA
1 AAATTATAA
22980987 AAATTA-AA
1 AAATTATAA
*
22980995 AGCAATTTTAA
1 A--AATTATAA
* *
22981006 ATATATATAT
1 AAAT-TATAA
* **
22981016 AAAGTGCAA
1 AAATTATAA
22981025 AAAATTATAA
1 A-AATTATAA
* *
22981035 AAATGATTAT
1 AAATTA-TAA
*
22981045 AAATGA-AGA
1 AAATTATA-A
*
22981054 AAATTATAT
1 AAATTATAA
22981063 AAATTAT-A
1 AAATTATAA
*
22981071 AAATTATTA
1 AAATTATAA
22981080 AAATTGCA-AA
1 AAATT--ATAA
*
22981090 AAAGTATTAA
1 AAATTA-TAA
*
22981100 AAATTTATTA
1 AAA-TTATAA
* *
22981110 AAATAACAA
1 AAATTATAA
*
22981119 AATATTATAT
1 AA-ATTATAA
*
22981129 AAATTATGA
1 AAATTATAA
22981138 AAA--ATAA
1 AAATTATAA
22981145 AAA-TATGAA
1 AAATTAT-AA
*
22981154 AAATATTTAA
1 AAAT-TATAA
22981164 AAAT
1 AAAT
22981168 GTAGACAATT
Statistics
Matches: 130, Mismatches: 32, Indels: 37
0.65 0.16 0.19
Matches are distributed among these distances:
7 6 0.05
8 14 0.11
9 51 0.39
10 51 0.39
11 8 0.06
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (9 bp):
AAATTATAA
Found at i:22981091 original size:64 final size:64
Alignment explanation
Indices: 22981020--22981168 Score: 157
Period size: 65 Copynumber: 2.3 Consensus size: 64
22981010 ATATATAAAG
* *
22981020 TGCAAAAAATTATAAAAATGATTATAAATGAA-GAAA-ATTATATAAATTAT-AAAATTATTAAA
1 TGCAAAAAATTATAAAAATGATTA-AAAT-AACAAAATATTATATAAATTATGAAAA--ATAAAA
22981082 AT-
62 ATA
* *
22981084 TGCAAAAAAGTATTAAAAATTTATTAAAATAACAAAATATTATATAAATTATGAAAAATAAAAAT
1 TGCAAAAAATTA-TAAAAA-TGATTAAAATAACAAAATATTATATAAATTATGAAAAATAAAAAT
22981149 A
64 A
22981150 TG-AAAAATATT-TAAAAATG
1 TGCAAAAA-ATTATAAAAATG
22981169 TAGACAATTA
Statistics
Matches: 72, Mismatches: 6, Indels: 15
0.77 0.06 0.16
Matches are distributed among these distances:
63 1 0.01
64 19 0.26
65 25 0.35
66 23 0.32
67 4 0.06
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (64 bp):
TGCAAAAAATTATAAAAATGATTAAAATAACAAAATATTATATAAATTATGAAAAATAAAAATA
Found at i:22981485 original size:19 final size:20
Alignment explanation
Indices: 22981449--22981486 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22981439 TTCTTATAAT
22981449 TTTGTTTCATATATTTTTAA
1 TTTGTTTCATATATTTTTAA
*
22981469 TTTGTTTTATA-ATTTTTA
1 TTTGTTTCATATATTTTTA
22981487 TGCTTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTGTTTCATATATTTTTAA
Found at i:22981642 original size:32 final size:33
Alignment explanation
Indices: 22981601--22981697 Score: 90
Period size: 32 Copynumber: 2.9 Consensus size: 33
22981591 AAATCATATC
*
22981601 TTTTTATAATTATATAA-TTTTTAAATTTTT-TA
1 TTTTAATAATTAT-TAATTTTTTAAATTTTTATA
* *
22981633 TTTTAATAATTCTTAATTTTTTAAGTTTTTAGTA
1 TTTTAATAATTATTAATTTTTTAAATTTTTA-TA
* * * *
22981667 TTTTATATAATTTTTAGTTATTTATATTTTT
1 TTTTA-ATAATTATTAATTTTTTAAATTTTT
22981698 TTATAATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
31 3 0.06
32 23 0.43
34 7 0.13
35 20 0.38
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (33 bp):
TTTTAATAATTATTAATTTTTTAAATTTTTATA
Found at i:22981690 original size:27 final size:27
Alignment explanation
Indices: 22981650--22981707 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
22981640 AATTCTTAAT
22981650 TTTTTAAGTTTTTAGTA-TTTTATATAA
1 TTTTTAAGTTTTTA-TATTTTTATATAA
*
22981677 TTTTT-AGTTATTTATATTTTTTTATAA
1 TTTTTAAGTT-TTTATATTTTTATATAA
22981704 TTTT
1 TTTT
22981708 CTATATCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (27 bp):
TTTTTAAGTTTTTATATTTTTATATAA
Found at i:22981699 original size:19 final size:19
Alignment explanation
Indices: 22981631--22981693 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
22981621 TTAAATTTTT
*
22981631 TATTTTA-ATAATTCTTA-
1 TATTTTATATAATTTTTAG
22981648 -ATTTT-T-TAAGTTTTTAG
1 TATTTTATATAA-TTTTTAG
22981665 TATTTTATATAATTTTTAG
1 TATTTTATATAATTTTTAG
22981684 T-TATTTATAT
1 TAT-TTTATAT
22981694 TTTTTTATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
15 3 0.08
16 10 0.26
18 6 0.16
19 16 0.42
20 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTTTATATAATTTTTAG
Found at i:22981728 original size:10 final size:10
Alignment explanation
Indices: 22981687--22981729 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
22981677 TTTTTAGTTA
*
22981687 TTTATATTTT
1 TTTATAATTT
22981697 TTTATAATTT
1 TTTATAATTT
*
22981707 TCTAT-ATCTT
1 TTTATAAT-TT
22981717 TTTATAATTT
1 TTTATAATTT
22981727 TTT
1 TTT
22981730 TTACTTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
9 2 0.07
10 24 0.86
11 2 0.07
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTATAATTT
Found at i:22981728 original size:30 final size:30
Alignment explanation
Indices: 22981687--22981746 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
22981677 TTTTTAGTTA
*
22981687 TTTATATTTTTTTATAATTTTCTATATCTT
1 TTTATAATTTTTTATAATTTTCTATATCTT
* *
22981717 TTTATAATTTTTTTTACTTTTCTATATCTT
1 TTTATAATTTTTTATAATTTTCTATATCTT
22981747 CTATTTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (30 bp):
TTTATAATTTTTTATAATTTTCTATATCTT
Found at i:22981742 original size:20 final size:20
Alignment explanation
Indices: 22981689--22981727 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22981679 TTTAGTTATT
*
22981689 TATATTTTTTTATAATTTTC
1 TATATCTTTTTATAATTTTC
22981709 TATATCTTTTTATAATTTT
1 TATATCTTTTTATAATTTT
22981728 TTTTACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (20 bp):
TATATCTTTTTATAATTTTC
Found at i:22986308 original size:8 final size:8
Alignment explanation
Indices: 22986297--22986321 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22986287 TATATTTACC
22986297 TTTTAAAA
1 TTTTAAAA
22986305 TTTTAAAA
1 TTTTAAAA
22986313 TTTTAAAA
1 TTTTAAAA
22986321 T
1 T
22986322 ATTTTTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTTAAAA
Found at i:22991998 original size:25 final size:27
Alignment explanation
Indices: 22991941--22991999 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 27
22991931 ATGAATTTGA
*
22991941 TAAAAATAGAAAATAAATATTATATTT
1 TAAAAATAGAAAATAAATAATATATTT
22991968 TAAAAAT-GAAAATAAA-AATATATTT
1 TAAAAATAGAAAATAAATAATATATTT
*
22991993 TCAAAAT
1 TAAAAAT
22992000 TCAAATAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 14 0.47
26 9 0.30
27 7 0.23
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (27 bp):
TAAAAATAGAAAATAAATAATATATTT
Found at i:22996915 original size:38 final size:37
Alignment explanation
Indices: 22996864--22996955 Score: 116
Period size: 38 Copynumber: 2.4 Consensus size: 37
22996854 CTCCAAAAAT
22996864 AATATTATTTTAATAG-ATTTAATATTAAATT-ATATTA
1 AATATTATTTTAATAGTATTT--TATTAAATTAATATTA
*
22996901 AATACTTATTTTAATAGTATTTTATTAATTTAATATTA
1 AATA-TTATTTTAATAGTATTTTATTAAATTAATATTA
22996939 AAGTGATTATTTTAATA
1 AA-T-ATTATTTTAATA
22996956 TTAAATTTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
37 12 0.24
38 20 0.41
39 16 0.33
40 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (37 bp):
AATATTATTTTAATAGTATTTTATTAAATTAATATTA
Found at i:22996956 original size:68 final size:69
Alignment explanation
Indices: 22996881--22997016 Score: 197
Period size: 69 Copynumber: 2.0 Consensus size: 69
22996871 TTTTAATAGA
* *
22996881 TTTAATATTAAA-TTATAT-TAAATACTTATTTTAAT-AGTATTTTATTAATTTAATATTAAAGT
1 TTTAATATTAAATTTA-ATCT-AATACTTATCTTAATAAGTATTTTATTAATTTAATATTAAAGC
22996943 GATTAT
64 GATTAT
* *
22996949 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTTTATTAATTTAATATTAAAGCGA
1 TTTAATATTAAATTTAATCTAATACTTATCTTAATAAGTATTTTATTAATTTAATATTAAAGCGA
22997014 TTA
66 TTA
22997017 AAATTAATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
68 26 0.43
69 35 0.57
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.51
Consensus pattern (69 bp):
TTTAATATTAAATTTAATCTAATACTTATCTTAATAAGTATTTTATTAATTTAATATTAAAGCGA
TTAT
Found at i:22997899 original size:23 final size:21
Alignment explanation
Indices: 22997865--22997908 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
22997855 AACAACTATG
22997865 AAACTAAATAAAACCATAAAA
1 AAACTAAATAAAACCATAAAA
*
22997886 AAACATAAACTAAAACCCTAAAA
1 AAAC-TAAA-TAAAACCATAAAA
22997909 CTATAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 4 0.20
23 12 0.60
ACGTcount: A:0.68, C:0.18, G:0.00, T:0.14
Consensus pattern (21 bp):
AAACTAAATAAAACCATAAAA
Found at i:22997950 original size:17 final size:17
Alignment explanation
Indices: 22997898--22997951 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
22997888 ACATAAACTA
*
22997898 AAACCCTAAAACTATAG
1 AAACCCTAAAACTAAAG
** *
22997915 AAAAACTAAAAGATGAAAG
1 AAACCCTAAAA-CT-AAAG
22997934 AAACCCTAAAACTAAAG
1 AAACCCTAAAACTAAAG
22997951 A
1 A
22997952 GCTCTTTAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 14 0.50
18 2 0.07
19 12 0.43
ACGTcount: A:0.61, C:0.17, G:0.09, T:0.13
Consensus pattern (17 bp):
AAACCCTAAAACTAAAG
Found at i:23004953 original size:26 final size:26
Alignment explanation
Indices: 23004924--23004976 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23004914 AACCAATCCT
23004924 TACCGATTGTCTAACCGCAATATAGG
1 TACCGATTGTCTAACCGCAATATAGG
*
23004950 TACCGATTGTCTAACCGCGATATAGG
1 TACCGATTGTCTAACCGCAATATAGG
23004976 T
1 T
23004977 TTTCACAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
TACCGATTGTCTAACCGCAATATAGG
Found at i:23005961 original size:21 final size:21
Alignment explanation
Indices: 23005936--23005986 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
23005926 TAAGCCTAGG
*
23005936 CCGTGTGGCTTAGAAACATGA
1 CCGTGTGGCTCAGAAACATGA
23005957 CCGTGTGGCTCAGAAACATGA
1 CCGTGTGGCTCAGAAACATGA
23005978 CCGTGTGGC
1 CCGTGTGGC
23005987 CAAACCGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.22
Consensus pattern (21 bp):
CCGTGTGGCTCAGAAACATGA
Found at i:23007784 original size:16 final size:16
Alignment explanation
Indices: 23007754--23007796 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
23007744 GAATTTACAA
**
23007754 CTTAAACATTTAAATC
1 CTTAAACATCAAAATC
23007770 CTTAAACATCAAAATC
1 CTTAAACATCAAAATC
* *
23007786 ATTAAAAATCA
1 CTTAAACATCA
23007797 GTTTACAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (16 bp):
CTTAAACATCAAAATC
Found at i:23050809 original size:22 final size:20
Alignment explanation
Indices: 23050779--23050818 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
23050769 ATCGGTTTAT
*
23050779 AAAAAAATCTTTATAAAAACA
1 AAAAAAATCCTTA-AAAAACA
23050800 AAAAGAAATCCTTAAAAAA
1 AAAA-AAATCCTTAAAAAA
23050819 TTCGAGTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.68, C:0.10, G:0.03, T:0.20
Consensus pattern (20 bp):
AAAAAAATCCTTAAAAAACA
Found at i:23052141 original size:61 final size:61
Alignment explanation
Indices: 23052066--23052261 Score: 284
Period size: 61 Copynumber: 3.1 Consensus size: 61
23052056 TTGTTTTATG
23052066 AGCATTCATAGAAGCTGGATTTAGATAACATAATGGATTGTTCAAATATTTCCATTAATAT
1 AGCATTCATAGAAGCTGGATTTAGATAACATAATGGATTGTTCAAATATTTCCATTAATAT
* ** *
23052127 AGCATTCATAGAAGCTGGATTTAGATAACATAATGGATTGTTCAAAAATTGAACAATAATTGTTT
1 AGCATTCATAGAAGCTGGATTTAGATAACATAATGGATTGTTCAAATATT-TCCATTAA------
23052192 TAT
59 TAT
23052195 GAGCATTCATAGAAGCTGGATTTAGATAACATAATGGATTGTTCAAATATTTCCATTAATAT
1 -AGCATTCATAGAAGCTGGATTTAGATAACATAATGGATTGTTCAAATATTTCCATTAATAT
23052257 AGCAT
1 AGCAT
23052262 AAAAGAAGTT
Statistics
Matches: 119, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
61 54 0.45
62 8 0.07
68 8 0.07
69 49 0.41
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (61 bp):
AGCATTCATAGAAGCTGGATTTAGATAACATAATGGATTGTTCAAATATTTCCATTAATAT
Found at i:23060582 original size:99 final size:99
Alignment explanation
Indices: 23060461--23060699 Score: 307
Period size: 99 Copynumber: 2.4 Consensus size: 99
23060451 TATTGTATAT
* * * * *
23060461 CAAGTACGCCATATGATATGTTAACACTTTCATACCTGATTCATTCCCATTCGTTTTTAATAGAA
1 CAAGTACGCAACATGATATGTTAATACTTTCATACCTGATTCATTCCCATTCATTTTTAACAGAA
* * **
23060526 TAAGTGTAGACACTTTATCAATCACATGGAATAA
66 TAAGTGCAAACACTTTATCAATCACACAGAATAA
* * * ** *
23060560 CAAGTATGCAACATGATATGTTAATACTTTTATACCCGATTCATTTTCATTCATTTTTAACATAA
1 CAAGTACGCAACATGATATGTTAATACTTTCATACCTGATTCATTCCCATTCATTTTTAACAGAA
**
23060625 TAAGTGCAAACACTTTATCGGTCACACAGAATAA
66 TAAGTGCAAACACTTTATCAATCACACAGAATAA
* *
23060659 CAAGTGCGCAACATGGTATGTTAATACTTTCATACCTGATT
1 CAAGTACGCAACATGATATGTTAATACTTTCATACCTGATT
23060700 GTTTTATAAT
Statistics
Matches: 118, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
99 118 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (99 bp):
CAAGTACGCAACATGATATGTTAATACTTTCATACCTGATTCATTCCCATTCATTTTTAACAGAA
TAAGTGCAAACACTTTATCAATCACACAGAATAA
Found at i:23066513 original size:16 final size:16
Alignment explanation
Indices: 23066492--23066542 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
23066482 GGTTTACTGA
*
23066492 AATAGAATAGGGCTGT
1 AATAGAATAGAGCTGT
*
23066508 AATAGAATAAAGCTGT
1 AATAGAATAGAGCTGT
* *
23066524 AATGGAATAGAGTTGT
1 AATAGAATAGAGCTGT
23066540 AAT
1 AAT
23066543 CAGTAATTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.43, C:0.04, G:0.25, T:0.27
Consensus pattern (16 bp):
AATAGAATAGAGCTGT
Found at i:23070887 original size:71 final size:71
Alignment explanation
Indices: 23070771--23070911 Score: 282
Period size: 71 Copynumber: 2.0 Consensus size: 71
23070761 TAAAAGACAA
23070771 TGGAGGTTGTAGCATTGATTGGTACAACAAGTCATTACTGAATTCGAATGTTTGGAATGTGAGCG
1 TGGAGGTTGTAGCATTGATTGGTACAACAAGTCATTACTGAATTCGAATGTTTGGAATGTGAGCG
23070836 ATCTTT
66 ATCTTT
23070842 TGGAGGTTGTAGCATTGATTGGTACAACAAGTCATTACTGAATTCGAATGTTTGGAATGTGAGCG
1 TGGAGGTTGTAGCATTGATTGGTACAACAAGTCATTACTGAATTCGAATGTTTGGAATGTGAGCG
23070907 ATCTT
66 ATCTT
23070912 GGGCCATTCC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (71 bp):
TGGAGGTTGTAGCATTGATTGGTACAACAAGTCATTACTGAATTCGAATGTTTGGAATGTGAGCG
ATCTTT
Found at i:23082747 original size:40 final size:40
Alignment explanation
Indices: 23082652--23082735 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 40
23082642 TGGCATCAGT
* *
23082652 GGCGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGC
1 GGCGCTTCTTGAAAAACGCCGCTATAGATCGACCATTAGC
*
23082692 GGCGCTTCTTGAAAAACGCCGCTATAGGTCGACCATTAGC
1 GGCGCTTCTTGAAAAACGCCGCTATAGATCGACCATTAGC
23082732 GGCG
1 GGCG
23082736 GTTGTTTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
GGCGCTTCTTGAAAAACGCCGCTATAGATCGACCATTAGC
Found at i:23082854 original size:152 final size:151
Alignment explanation
Indices: 23082515--23083003 Score: 554
Period size: 152 Copynumber: 3.2 Consensus size: 151
23082505 ACAAACGCCA
* * * * * *
23082515 CCGCTATAGATTGAGCATTAGCGGCGCTTTTTGAGAAACGCCACTATAGGTTGAACATTAGCGGC
1 CCGCTATAGATCGAGCATTAGCGGCGCTTCTTGAAAAACGCCGCTATAGGTCGACCATTAGCGGC
* * * * *
23082580 GCTT-TCTGAAAATCGTCGCAAAAAAAATTAAGCACAACACGTGGTTTTATGTTGAGCTTTAGTG
66 GCTTGTTTAAAAAT-G-CGC--AAAAAATTAAGCACAACTCGTCGTTTTATATTGAGCTTTAGTG
* * * *
23082644 GCATCAGTGGCGCTTTTTGAAAAACG
127 GCATTAGCGGCAC-TTTTGTAAAACG
23082670 CCGCTATAGATCGAGCATTAGCGGCGCTTCTTGAAAAACGCCGCTATAGGTCGACCATTAGCGGC
1 CCGCTATAGATCGAGCATTAGCGGCGCTTCTTGAAAAACGCCGCTATAGGTCGACCATTAGCGGC
* * * * *
23082735 GGTTGTTTAAAAATGCAG-AAAAAGATTAAGCACAACTTGTCGTTCTATTTTGAGCTTTAGTGAC
66 GCTTGTTTAAAAATGC-GCAAAAA-ATTAAGCACAACTCGTCGTTTTATATTGAGCTTTAGTGGC
* *
23082799 ATTAGCGACACTTTTGTAAAATG
129 ATTAGCGGCACTTTTGTAAAACG
* * * * *
23082822 CCGTTACAGATCGAGCATTAGCGGTGCTTCTTGAAAAGCGTCGCTATAGGTCGACCATTAGCGGC
1 CCGCTATAGATCGAGCATTAGCGGCGCTTCTTGAAAAACGCCGCTATAGGTCGACCATTAGCGGC
* *
23082887 GCTTGTTGAAAAACGCTGCAAAAAATTTAAGCACAA-TGCCGTCGTTTTATATTGAGCTTTTAGT
66 GCTTGTTTAAAAATGC-GCAAAAAA-TTAAGCACAACT--CGTCGTTTTATATTGAGC-TTTAGT
23082951 GGCATTAGCGGCAC-TTTGTTGAAAACG
126 GGCATTAGCGGCACTTTTG-T-AAAACG
*
23082978 CTGCTATAGATCGAGCATTAGCGGCG
1 CCGCTATAGATCGAGCATTAGCGGCG
23083004 TTTTTCCTAA
Statistics
Matches: 284, Mismatches: 40, Indels: 19
0.83 0.12 0.06
Matches are distributed among these distances:
152 91 0.32
153 56 0.20
154 20 0.07
155 83 0.29
156 34 0.12
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (151 bp):
CCGCTATAGATCGAGCATTAGCGGCGCTTCTTGAAAAACGCCGCTATAGGTCGACCATTAGCGGC
GCTTGTTTAAAAATGCGCAAAAAATTAAGCACAACTCGTCGTTTTATATTGAGCTTTAGTGGCAT
TAGCGGCACTTTTGTAAAACG
Found at i:23083348 original size:7 final size:7
Alignment explanation
Indices: 23083338--23083510 Score: 82
Period size: 7 Copynumber: 24.7 Consensus size: 7
23083328 AATATGTATA
23083338 TTTAGGG
1 TTTAGGG
23083345 TTTAGGG
1 TTTAGGG
*
23083352 TGTA-GG
1 TTTAGGG
* *
23083358 TTTATGA
1 TTTAGGG
23083365 TTT-GAGG
1 TTTAG-GG
**
23083372 TTTAAAG
1 TTTAGGG
23083379 TTTAGGG
1 TTTAGGG
* *
23083386 TTTATGA
1 TTTAGGG
**
23083393 TTTAATG
1 TTTAGGG
* *
23083400 TTAAGAG
1 TTTAGGG
*
23083407 TTTAGTG
1 TTTAGGG
* *
23083414 TTTACGA
1 TTTAGGG
23083421 TTTAGGG
1 TTTAGGG
*
23083428 TGTA-GG
1 TTTAGGG
* *
23083434 TTTATGA
1 TTTAGGG
*
23083441 TTTAGTG
1 TTTAGGG
*
23083448 TTTAGTG
1 TTTAGGG
*
23083455 TTTATGG
1 TTTAGGG
23083462 TTTAGGG
1 TTTAGGG
*
23083469 TTTTAAGG
1 -TTTAGGG
*
23083477 TTTAGAAG
1 TTTAG-GG
*
23083485 TTAAGGG
1 TTTAGGG
23083492 TTTAGGG
1 TTTAGGG
*
23083499 TTTATGG
1 TTTAGGG
23083506 TTTAG
1 TTTAG
23083511 CTAAAAGCAT
Statistics
Matches: 119, Mismatches: 41, Indels: 12
0.69 0.24 0.07
Matches are distributed among these distances:
6 10 0.08
7 98 0.82
8 11 0.09
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:23083442 original size:20 final size:21
Alignment explanation
Indices: 23083409--23083469 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
23083399 GTTAAGAGTT
*
23083409 TAGTGTTTACGATTTAGGGTG
1 TAGTGTTTATGATTTAGGGTG
* *
23083430 TAG-GTTTATGATTTAGTGTT
1 TAGTGTTTATGATTTAGGGTG
*
23083450 TAGTGTTTATGGTTTAGGGT
1 TAGTGTTTATGATTTAGGGT
23083470 TTTAAGGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.18, C:0.02, G:0.31, T:0.49
Consensus pattern (21 bp):
TAGTGTTTATGATTTAGGGTG
Found at i:23083924 original size:184 final size:185
Alignment explanation
Indices: 23083687--23084216 Score: 630
Period size: 195 Copynumber: 2.8 Consensus size: 185
23083677 AAAACACCGT
* * * *
23083687 AAATATATATTAAAAGATATCAAAACGTTGCCATTTTGTCTGCGTTTTTAGTGGTGTTTT-TCGC
1 AAATATGTATTAAAAGATATCAAAACGTTGCCGTTTTGTCTGCATTTTTAGTGGCGTTTTATCGC
* * *
23083751 GAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAACTGCGATTTTAGCTGCGTTAATGGT
66 GAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGCGTTAGTGGC
* ** *
23083816 GCTTTTGATAAACACCACAAATTTTAATTAATCTAACTTAAACGACGTTGTTCGC
131 GCTTTTGATAAACACCACAAATTTTAATTAATCTAACTTAAACGACATCATTCAC
* * *
23083871 AAATATGTATTAAAAGATATCAAAACATTGTCGTTTTGTTTGCATTTTTAGTGGCGTTTTTACGA
1 AAATATGTATTAAAAGATATCAAAACGTTGCCGTTTTGTCTGCATTTTTAGTGGCG-TTTT----
* *
23083936 AAAACGTCGCGAATACGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTA
61 ---A--TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTG
* ** ** *
23084001 CGTTAGTGGCGCTTTTGATAGATGCTGCAAATTTTAATTAATCTGACTTAAACGACATCATTCAC
121 CGTTAGTGGCGCTTTTGATAAACACCACAAATTTTAATTAATCTAACTTAAACGACATCATTCAC
23084066 AAATATGTATTAAAAGATATCAAAACGTTGCCGTTTTGTCTGCATTTTTAGTGGCGTTTTCACGA
1 AAATATGTATTAAAAGATATCAAAACGTTGCCGTTTTGTCTGCATTTTTAGTGGCGTTTT-----
* * * *
23084131 AAAACGCCGCGAATATGTTTTAAGTGTTTGCAAAACATTTTCATTTTTAGCTGCGATTTTAGCTG
61 ---A--TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTG
*
23084196 CGTTAGTGACGCTTTTGATAA
121 CGTTAGTGGCGCTTTTGATAA
23084217 GCGCCGCGAA
Statistics
Matches: 301, Mismatches: 33, Indels: 13
0.87 0.10 0.04
Matches are distributed among these distances:
184 49 0.16
185 4 0.01
194 4 0.01
195 244 0.81
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (185 bp):
AAATATGTATTAAAAGATATCAAAACGTTGCCGTTTTGTCTGCATTTTTAGTGGCGTTTTATCGC
GAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGCGTTAGTGGC
GCTTTTGATAAACACCACAAATTTTAATTAATCTAACTTAAACGACATCATTCAC
Found at i:23084079 original size:195 final size:195
Alignment explanation
Indices: 23083747--23084216 Score: 724
Period size: 195 Copynumber: 2.4 Consensus size: 195
23083737 GTGGTGTTTT
* *
23083747 TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAACTGCGATTTTAGCTGCGTTAA
1 TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGCGTTAG
* * ** *
23083812 TGGTGCTTTTGATAAACACCACAAATTTTAATTAATCTAACTTAAACGACGTTGTTCGCAAATAT
66 TGGCGCTTTTGATAAACACCACAAATTTTAATTAATCTAACTTAAACGACATCATTCACAAATAT
* * *
23083877 GTATTAAAAGATATCAAAACATTGTCGTTTTGTTTGCATTTTTAGTGGCGTTTTTACGAAAAACG
131 GTATTAAAAGATATCAAAACATTGCCGTTTTGTCTGCATTTTTAGTGGCGTTTTCACGAAAAACG
* *
23083942 TCGCGAATACGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTACGTTAG
1 TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGCGTTAG
* ** ** *
23084007 TGGCGCTTTTGATAGATGCTGCAAATTTTAATTAATCTGACTTAAACGACATCATTCACAAATAT
66 TGGCGCTTTTGATAAACACCACAAATTTTAATTAATCTAACTTAAACGACATCATTCACAAATAT
*
23084072 GTATTAAAAGATATCAAAACGTTGCCGTTTTGTCTGCATTTTTAGTGGCGTTTTCACGAAAAACG
131 GTATTAAAAGATATCAAAACATTGCCGTTTTGTCTGCATTTTTAGTGGCGTTTTCACGAAAAACG
* * * *
23084137 CCGCGAATATGTTTTAAGTGTTTGCAAAACATTTTCATTTTTAGCTGCGATTTTAGCTGCGTTAG
1 TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGCGTTAG
*
23084202 TGACGCTTTTGATAA
66 TGGCGCTTTTGATAA
23084217 GCGCCGCGAA
Statistics
Matches: 248, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
195 248 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (195 bp):
TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGCGTTAG
TGGCGCTTTTGATAAACACCACAAATTTTAATTAATCTAACTTAAACGACATCATTCACAAATAT
GTATTAAAAGATATCAAAACATTGCCGTTTTGTCTGCATTTTTAGTGGCGTTTTCACGAAAAACG
Found at i:23084274 original size:83 final size:83
Alignment explanation
Indices: 23084132--23084306 Score: 305
Period size: 83 Copynumber: 2.1 Consensus size: 83
23084122 TTTTCACGAA
*
23084132 AAACGCCGCGAATATGTTTTAAGTGTTTGCAAAACATTTTCATTTTTAGCTGCGATTTTAGCTGC
1 AAACGCCGCGAATATGTTTTAAGTGTTTGCAAAACATTGTCATTTTTAGCTGCGATTTTAGCTGC
*
23084197 GTTAGTGACGCTTTTGAT
66 GTTAGTGACGCTCTTGAT
* * *
23084215 AAGCGCCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGC
1 AAACGCCGCGAATATGTTTTAAGTGTTTGCAAAACATTGTCATTTTTAGCTGCGATTTTAGCTGC
23084280 GTTAGTGACGCTCTTGAT
66 GTTAGTGACGCTCTTGAT
23084298 AAACGCCGC
1 AAACGCCGC
23084307 AAATTTTAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 86 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (83 bp):
AAACGCCGCGAATATGTTTTAAGTGTTTGCAAAACATTGTCATTTTTAGCTGCGATTTTAGCTGC
GTTAGTGACGCTCTTGAT
Found at i:23084405 original size:23 final size:23
Alignment explanation
Indices: 23084379--23084428 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
23084369 CCAACTCAAC
23084379 TTTCCCCGATTTCAGTTCCCCAA
1 TTTCCCCGATTTCAGTTCCCCAA
* * *
23084402 TTTCCCTGATTTCATTTCCCCGA
1 TTTCCCCGATTTCAGTTCCCCAA
23084425 TTTC
1 TTTC
23084429 TCAACTGACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.14, C:0.36, G:0.08, T:0.42
Consensus pattern (23 bp):
TTTCCCCGATTTCAGTTCCCCAA
Found at i:23088405 original size:43 final size:43
Alignment explanation
Indices: 23088354--23088505 Score: 175
Period size: 44 Copynumber: 3.5 Consensus size: 43
23088344 CCATTTTTTG
* *
23088354 TAAAA-CGCCGCTAAAGAAC-GGTACTTTTAGCGACGTTTGTGA
1 TAAAAGCGCCGCTAAAGAACATGTTC-TTTAGCGACGTTTGTGA
**
23088396 -AAAAGACGCCGCTAAAGGTCATGTTCTTTAGCGACGTTTGTGA
1 TAAAAG-CGCCGCTAAAGAACATGTTCTTTAGCGACGTTTGTGA
* ** * *
23088439 TAAAAGCGTTCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGA
1 TAAAAGCG-CCGCTAAAGAACATGTTCTTTAGCGACGTTTGTGA
23088483 TAAAAGCGCCGCTAAAGAACATG
1 TAAAAGCGCCGCTAAAGAACATG
23088506 GCCTTAGCGG
Statistics
Matches: 95, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
41 4 0.04
43 43 0.45
44 48 0.51
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
TAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGACGTTTGTGA
Found at i:23088459 original size:44 final size:43
Alignment explanation
Indices: 23088379--23088499 Score: 190
Period size: 44 Copynumber: 2.8 Consensus size: 43
23088369 GAACGGTACT
23088379 TTTAGCGACGTTTGTGA-AAAAGACGCCGCTAAAGGTCATGTTC
1 TTTAGCGACGTTTGTGATAAAAG-CGCCGCTAAAGGTCATGTTC
*
23088422 TTTAGCGACGTTTGTGATAAAAGCGTTCGCTAAAGGTCATGTTC
1 TTTAGCGACGTTTGTGATAAAAGCG-CCGCTAAAGGTCATGTTC
* *
23088466 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAG
1 TTTAGCGACGTTTGTGATAAAAGCGCCGCTAAAG
23088500 AACATGGCCT
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
43 27 0.38
44 45 0.62
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
TTTAGCGACGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:23103191 original size:55 final size:55
Alignment explanation
Indices: 23103107--23103218 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
23103097 AAAAACTGAT
23103107 CATGCATTACTTTATAATGGTATATTTTGATCTTCTAGTGGGTAACATTATACAA
1 CATGCATTACTTTATAATGGTATATTTTGATCTTCTAGTGGGTAACATTATACAA
*
23103162 CATGCATTACTTTATAATGGTATATTTTGATCTTCTAGTGGGTAACATTGTACAA
1 CATGCATTACTTTATAATGGTATATTTTGATCTTCTAGTGGGTAACATTATACAA
23103217 CA
1 CA
23103219 GATAATTCTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (55 bp):
CATGCATTACTTTATAATGGTATATTTTGATCTTCTAGTGGGTAACATTATACAA
Found at i:23110891 original size:36 final size:36
Alignment explanation
Indices: 23110844--23110920 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
23110834 AAATTTCGAC
23110844 TAGAAAACTTATCACCCTTAGAATGTTCATTATTAG
1 TAGAAAACTTATCACCCTTAGAATGTTCATTATTAG
* *
23110880 TAGAAAACTTATCACCTTTAGAATGTTGATTATTAG
1 TAGAAAACTTATCACCCTTAGAATGTTCATTATTAG
23110916 TAGAA
1 TAGAA
23110921 CATAAGCAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (36 bp):
TAGAAAACTTATCACCCTTAGAATGTTCATTATTAG
Found at i:23112744 original size:29 final size:27
Alignment explanation
Indices: 23112678--23112744 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 27
23112668 ACAAAACCTT
* *
23112678 TAATTGCTAAAATATCTTATTAGAATA
1 TAATTACTAAAATATCCTATTAGAATA
*
23112705 TAATATCCTAATAATATCCTATTAGAA-A
1 TAAT-TACTAA-AATATCCTATTAGAATA
23112733 TTAAATTACTAA
1 -T-AATTACTAA
23112745 GAGATAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 4 0.12
28 6 0.18
29 20 0.61
30 3 0.09
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.39
Consensus pattern (27 bp):
TAATTACTAAAATATCCTATTAGAATA
Found at i:23112772 original size:43 final size:43
Alignment explanation
Indices: 23112704--23112806 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
23112694 TTATTAGAAT
* * *
23112704 ATAATATCCTAATAATATCCTATTAGAAATTAAATTACTAAGAG
1 ATAATATCCT-ATAATATCCCATTAGAAATCAAATTACTAAAAG
* * * *
23112748 ATAATATCCTATAATATCCCATTAGGAATCCAATTGCTAAAAT
1 ATAATATCCTATAATATCCCATTAGAAATCAAATTACTAAAAG
*
23112791 ATAATATCCCATAATA
1 ATAATATCCTATAATA
23112807 ATATTCTAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 41 0.80
44 10 0.20
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.33
Consensus pattern (43 bp):
ATAATATCCTATAATATCCCATTAGAAATCAAATTACTAAAAG
Found at i:23113216 original size:27 final size:27
Alignment explanation
Indices: 23113166--23113219 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
23113156 GACTACAAGG
* *
23113166 AAAGCCTTGTTATGATAAGGATGCTAC
1 AAAGCCTTGTTACGACAAGGATGCTAC
* *
23113193 AAAGCCTTGTTGCGACAAGTATGCTAC
1 AAAGCCTTGTTACGACAAGGATGCTAC
23113220 TGACTTGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (27 bp):
AAAGCCTTGTTACGACAAGGATGCTAC
Found at i:23115509 original size:76 final size:75
Alignment explanation
Indices: 23115362--23115510 Score: 174
Period size: 76 Copynumber: 2.0 Consensus size: 75
23115352 CATCGTCAGT
* * *
23115362 TATCTGACTAGCGCTAGGTGCAAAACATCATCGATTCATTTGACTAGTGCTGGGCACATTATTAT
1 TATCTGACTAGCGCTAGGTGC-AAACATCATCAATTCATCTGACTAGTGCTAGGCACATTATTAT
23115427 AATTGTCGGTA
65 AATTGTCGGTA
* * * * * *
23115438 TATCTGACTAGCGCTGGGTGC-AACTTCTGTCAATTTATCTGACTAGTGCTAGGCGCATTCTCTA
1 TATCTGACTAGCGCTAGGTGCAAACATC-ATCAATTCATCTGACTAGTGCTAGGCACATTAT-TA
*
23115502 TATTTGTCG
64 TAATTGTCG
23115511 ATTCATACAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
74 5 0.08
75 26 0.43
76 30 0.49
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (75 bp):
TATCTGACTAGCGCTAGGTGCAAACATCATCAATTCATCTGACTAGTGCTAGGCACATTATTATA
ATTGTCGGTA
Found at i:23116641 original size:16 final size:16
Alignment explanation
Indices: 23116620--23116675 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
23116610 CGTTTCGTTC
23116620 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
**
23116636 GCTGTAATTTAATAGA
1 GCTGTAATGGAATAGA
23116652 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
23116668 ACTGTAAT
1 GCTGTAAT
23116676 AGTAATTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:23116708 original size:45 final size:44
Alignment explanation
Indices: 23116657--23116749 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
23116647 ATAGAGCTGT
*
23116657 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAAAACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
23116702 AATGGAATAAAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAAAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
23116746 AATG
1 AATG
23116750 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (44 bp):
AATGGAATAAAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:23116923 original size:17 final size:17
Alignment explanation
Indices: 23116901--23116935 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23116891 AATTATTATT
23116901 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
23116918 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
23116935 A
1 A
23116936 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:23143545 original size:26 final size:27
Alignment explanation
Indices: 23143490--23143679 Score: 215
Period size: 27 Copynumber: 7.1 Consensus size: 27
23143480 GATACAACAA
* *
23143490 TCATTTAACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
23143517 TCATTTTACCGTAT-GGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
23143543 TCATTCTA-CCTATGGGGGTA-TTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
23143568 TCATTTTACCCTATGGGGGTATGTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* **
23143595 TCATTTTACCCTATGGGAGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * **
23143622 TCAATTTATCCTATTAGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
23143649 TCATTCTACCCTATAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
23143676 TCAT
1 TCAT
23143680 AATAGTGTAA
Statistics
Matches: 136, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
25 16 0.12
26 36 0.26
27 84 0.62
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:23150401 original size:22 final size:19
Alignment explanation
Indices: 23150362--23150403 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
23150352 TGCAAAGTTG
23150362 ATAATAGTTAATATATATT
1 ATAATAGTTAATATATATT
23150381 ATAATAGATATAATTATATATT
1 ATAATAG-T-TAA-TATATATT
23150403 A
1 A
23150404 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 3 0.15
22 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
ATAATAGTTAATATATATT
Found at i:23162164 original size:31 final size:31
Alignment explanation
Indices: 23162105--23162167 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
23162095 TAAACAGGTT
***
23162105 AACTAAATCAAACTTCCATGGTCCCAAAAGC
1 AACTAAATCAAACTTCCACAATCCCAAAAGC
* *
23162136 AACTAAATCAAGCTTCCACAATCTCAAAAGC
1 AACTAAATCAAACTTCCACAATCCCAAAAGC
23162167 A
1 A
23162168 TAAAATTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.29, G:0.08, T:0.19
Consensus pattern (31 bp):
AACTAAATCAAACTTCCACAATCCCAAAAGC
Found at i:23163362 original size:29 final size:30
Alignment explanation
Indices: 23163274--23163350 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
23163264 AAGTTTGTTA
*
23163274 TATGAGGACACCTTTGTGGCTATCTAATGT
1 TATGTGGACACCTTTGTGGCTATCTAATGT
* * *
23163304 TATGTGGACGCCTTTATGGCTATCCAATGT
1 TATGTGGACACCTTTGTGGCTATCTAATGT
*
23163334 TAT-TGGACTCCTTTGTG
1 TATGTGGACACCTTTGTG
23163351 TTTATCTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 12 0.29
30 29 0.71
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.39
Consensus pattern (30 bp):
TATGTGGACACCTTTGTGGCTATCTAATGT
Found at i:23169644 original size:24 final size:24
Alignment explanation
Indices: 23169617--23169665 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
23169607 TCTACAAGAT
*
23169617 AAATATTAATTTAAT-TTAATATTA
1 AAATAGTAATTTAATATTAA-ATTA
*
23169641 AAATAGTCATTTAATATTAAATTA
1 AAATAGTAATTTAATATTAAATTA
23169665 A
1 A
23169666 TAGAATACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
AAATAGTAATTTAATATTAAATTA
Found at i:23170642 original size:38 final size:38
Alignment explanation
Indices: 23170591--23170664 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
23170581 TTTGTTTTGT
23170591 CTTGTGTTTATGGCTTTTTGGGTGATGATATGGAATGG
1 CTTGTGTTTATGGCTTTTTGGGTGATGATATGGAATGG
23170629 CTTGTGTTTATGGCTTTTTGGGTGATGATATGGAAT
1 CTTGTGTTTATGGCTTTTTGGGTGATGATATGGAAT
23170665 TATTTTTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.16, C:0.05, G:0.32, T:0.46
Consensus pattern (38 bp):
CTTGTGTTTATGGCTTTTTGGGTGATGATATGGAATGG
Found at i:23177182 original size:11 final size:11
Alignment explanation
Indices: 23177168--23177205 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
23177158 TATACTTTAA
23177168 TTAATATTGAT
1 TTAATATTGAT
*
23177179 TTAATATT-AA
1 TTAATATTGAT
*
23177189 TTAATCTTGAT
1 TTAATATTGAT
23177200 TTAATA
1 TTAATA
23177206 ATAACTCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (11 bp):
TTAATATTGAT
Found at i:23177188 original size:21 final size:21
Alignment explanation
Indices: 23177164--23177205 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23177154 GTTTTATACT
23177164 TTAATTAATATTGATTTAATA
1 TTAATTAATATTGATTTAATA
*
23177185 TTAATTAATCTTGATTTAATA
1 TTAATTAATATTGATTTAATA
23177206 ATAACTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
TTAATTAATATTGATTTAATA
Found at i:23188290 original size:36 final size:36
Alignment explanation
Indices: 23188189--23188291 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 36
23188179 ATTGGGTTTT
*
23188189 TTTTTCTGAAGATTTTGGGTTCTTTATTGTTTGTTATTTG
1 TTTTT-TGAAGATGTTGGGTTC--T-TTGTTTGTTATTTG
* * *
23188229 -TTTTTGAATG-TGCTAGGTTCGTTGTTTGTTATTTG
1 TTTTTTGAA-GATGTTGGGTTCTTTGTTTGTTATTTG
23188264 TTTTTTGAAGATGTTGGGTTCTTTGTTT
1 TTTTTTGAAGATGTTGGGTTCTTTGTTT
23188292 TGAAGATTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
35 15 0.28
36 22 0.42
38 11 0.21
39 5 0.09
ACGTcount: A:0.12, C:0.05, G:0.23, T:0.60
Consensus pattern (36 bp):
TTTTTTGAAGATGTTGGGTTCTTTGTTTGTTATTTG
Found at i:23189751 original size:13 final size:13
Alignment explanation
Indices: 23189735--23189770 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
23189725 TTATTTAAGA
*
23189735 TTATCATTTCCTT
1 TTATTATTTCCTT
23189748 TTATTATTTCCTT
1 TTATTATTTCCTT
23189761 TTATTATTTC
1 TTATTATTTC
23189771 AATAATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTATTTCCTT
Found at i:23194687 original size:17 final size:17
Alignment explanation
Indices: 23194654--23194687 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23194644 AATGGCTTTG
*
23194654 TACAGAGGGAAGGAATA
1 TACAGAGGGAAAGAATA
*
23194671 TACAGAGGGAAATAATA
1 TACAGAGGGAAAGAATA
23194688 CAGAACAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.29, T:0.15
Consensus pattern (17 bp):
TACAGAGGGAAAGAATA
Found at i:23197098 original size:25 final size:25
Alignment explanation
Indices: 23197064--23197119 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
23197054 GTTAACGATT
23197064 TCAGCTCTTATGAGCTTACCAATAC
1 TCAGCTCTTATGAGCTTACCAATAC
* *
23197089 TCAGCTCTTATGAGCTTACCATTAT
1 TCAGCTCTTATGAGCTTACCAATAC
23197114 TCAGCT
1 TCAGCT
23197120 TGGAGGAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (25 bp):
TCAGCTCTTATGAGCTTACCAATAC
Found at i:23199117 original size:16 final size:16
Alignment explanation
Indices: 23199096--23199128 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23199086 TCATAGGTAA
23199096 ATTATAAGATGAACTG
1 ATTATAAGATGAACTG
23199112 ATTATAAGATGAACTG
1 ATTATAAGATGAACTG
23199128 A
1 A
23199129 ATTGGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (16 bp):
ATTATAAGATGAACTG
Found at i:23200055 original size:15 final size:16
Alignment explanation
Indices: 23200014--23200057 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
23200004 ATTATCTCAA
23200014 ATTATGAATATGTGTGT
1 ATTATG-ATATGTGTGT
*
23200031 ATTGTGATATGTGTGT
1 ATTATGATATGTGTGT
23200047 A-TATGATATGT
1 ATTATGATATGT
23200058 AACCATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.36
16 11 0.44
17 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (16 bp):
ATTATGATATGTGTGT
Found at i:23232845 original size:14 final size:14
Alignment explanation
Indices: 23232828--23232862 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
23232818 TATAATATCC
23232828 AAATAATAACAATA
1 AAATAATAACAATA
*
23232842 AAATAGTAACAATA
1 AAATAATAACAATA
*
23232856 TAATAAT
1 AAATAAT
23232863 GAAATGACAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.26
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:23233519 original size:22 final size:22
Alignment explanation
Indices: 23233494--23233556 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
23233484 TTTTTATGAT
23233494 TTTTTATATTTTTAAATTTTAA
1 TTTTTATATTTTTAAATTTTAA
** * *
23233516 TTTTGGTTTTTTTAATTTTTAA
1 TTTTTATATTTTTAAATTTTAA
*
23233538 TTTTTATAATTTTTGAATT
1 TTTTTAT-ATTTTTAAATT
23233557 GTTTATTAAC
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 23 0.74
23 8 0.26
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTTATATTTTTAAATTTTAA
Found at i:23246923 original size:23 final size:23
Alignment explanation
Indices: 23246893--23246942 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
23246883 CTATTTTGAG
* *
23246893 TGTT-TTTTCACTGTTATTCTGC
1 TGTTGTTTTCAATGTTATGCTGC
* *
23246915 TGTTGTTTTTAATGTTCTGCTGC
1 TGTTGTTTTCAATGTTATGCTGC
23246938 TGTTG
1 TGTTG
23246943 GGTGCTAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.08, C:0.14, G:0.20, T:0.58
Consensus pattern (23 bp):
TGTTGTTTTCAATGTTATGCTGC
Found at i:23260963 original size:22 final size:22
Alignment explanation
Indices: 23260935--23260979 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
23260925 GAACCCCAAC
*
23260935 TGAATTGTTTGAGGTGATTAGA
1 TGAATTGTTTGAGGAGATTAGA
23260957 TGAATTGTTTGAGGAGATTAGA
1 TGAATTGTTTGAGGAGATTAGA
23260979 T
1 T
23260980 AAACATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (22 bp):
TGAATTGTTTGAGGAGATTAGA
Found at i:23262252 original size:27 final size:27
Alignment explanation
Indices: 23262230--23262288 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
23262220 CTCCACACAT
* *
23262230 GCTTTTCTTTCATGTTTTACCACAAAG
1 GCTTTTCTTTCATGATTCACCACAAAG
23262257 GCTTTTCTTTCATGATTCACCACAAAG
1 GCTTTTCTTTCATGATTCACCACAAAG
23262284 GCTTT
1 GCTTT
23262289 CATTTTCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (27 bp):
GCTTTTCTTTCATGATTCACCACAAAG
Found at i:23262990 original size:7 final size:7
Alignment explanation
Indices: 23262978--23263008 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
23262968 TCTTGAAAAA
23262978 AAAGAAG
1 AAAGAAG
23262985 AAAGAAG
1 AAAGAAG
23262992 AAAGAAG
1 AAAGAAG
23262999 AAAGAAG
1 AAAGAAG
23263006 AAA
1 AAA
23263009 ACTCCCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Done.