Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 140 of 349
Found at i:45039076 original size:18 final size:18
Alignment explanation
Indices: 45039053--45039088 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45039043 GAAGGGGGAG
45039053 TAAGCTTTACGCTTAGTA
1 TAAGCTTTACGCTTAGTA
45039071 TAAGCTTTACGCTTAGTA
1 TAAGCTTTACGCTTAGTA
45039089 AGTCAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (18 bp):
TAAGCTTTACGCTTAGTA
Found at i:45042503 original size:46 final size:47
Alignment explanation
Indices: 45042368--45042535 Score: 141
Period size: 47 Copynumber: 3.6 Consensus size: 47
45042358 ACTTATGTGA
* * * *
45042368 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTACGA-GACGAGT
* * * * *
45042414 GCCAGTGTAATATCATGTATGGGACATGGCATCGG-TATTGAGACGAGT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTA-CGAGACGAGT
* *
45042462 GCTAGTGTAAGA-CACGTCTGGGACATGTATCGGCTACGAGACGA-T
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGACGAGT
*
45042507 AG-TCAGTGTAAGACCATGTTTGGGACATG
1 -GCT-AGTGTAAGACCATGTCTGGGACATG
45042536 GCACCAACTT
Statistics
Matches: 98, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
45 2 0.02
46 33 0.34
47 41 0.42
48 21 0.21
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGACGAGT
Found at i:45042531 original size:94 final size:94
Alignment explanation
Indices: 45042368--45042538 Score: 236
Period size: 94 Copynumber: 1.8 Consensus size: 94
45042358 ACTTATGTGA
* * * * *
45042368 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAATATCATGTA
1 GCTAGTGTAAGACACGTCTGGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTA
45042433 TGGGACATGGCATCGGTATTGAGACGAGT
66 TGGGACATGGCATCGGTATTGAGACGAGT
* * * *
45042462 GCTAGTGTAAGACACGTCTGGGACATGTATCGGCTACGA-GACGATAGTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACACGTCTGGGACATGCATCGGCCAC-ATGACGAGAGCCAGTGTAAGACCATGT
*
45042526 TTGGGACATGGCA
65 ATGGGACATGGCA
45042539 CCAACTTGAG
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
94 65 0.98
95 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACACGTCTGGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTA
TGGGACATGGCATCGGTATTGAGACGAGT
Found at i:45045867 original size:46 final size:46
Alignment explanation
Indices: 45045729--45046003 Score: 177
Period size: 46 Copynumber: 5.9 Consensus size: 46
45045719 TGGGTAAGGT
* * * * * * *
45045729 GCCGATGCCATGTCTCAGACACAGTCCTACATTGGCTCACATCTC-AA
1 GCCGATG-CATGTCCCAGAC-CTGTCTTACACTAGCTTACATCTCGAG
* * *
45045776 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GAC-AATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACCT-GTCTTACACTAG-CTTA-CATCTCG-AG
* *
45045824 GCTGATGCATGTCCCAGACCTTTCTTACACTAGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACCTGTCTTACACTAGCTTACATCTCGAG
* * * * *
45045870 GCCGATGCATGTCCCAGACGTGTCTTACACTAGCACT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACCTGTCTTACACTAGC-TTACATCTCGAG
* * * * *
45045916 GCCGATGCCATGTCCCATACATGATCTTACACTGGCTCT-CATAAT-GTG
1 GCCGATG-CATGTCCCAGACCTG-TCTTACACTAGCT-TACAT-CTCGAG
* *
45045964 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACAT
1 GCCGATGCATGTCCCAGACCTGTCTTACACTAGCTTACAT
45046004 AAGTGACCCA
Statistics
Matches: 183, Mismatches: 31, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
45 1 0.01
46 78 0.43
47 76 0.42
48 26 0.14
49 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACCTGTCTTACACTAGCTTACATCTCGAG
Found at i:45056801 original size:27 final size:27
Alignment explanation
Indices: 45056751--45056899 Score: 122
Period size: 27 Copynumber: 5.5 Consensus size: 27
45056741 AAATTGTACA
*
45056751 GCACTAAG-GTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GAATATGTT
* *
45056777 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGAATATGTT
** **
45056804 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGAATATGTT
* * * *
45056831 GCACTAAGTGTGCGAGTTTGATTACGTA
1 GCACTAAGTGTGCGA-ATTGAATATGTT
* * * *
45056859 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGAATATGTT
*
45056886 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
45056900 GGCTCAATAT
Statistics
Matches: 102, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
26 8 0.08
27 71 0.70
28 23 0.23
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGAATATGTT
Found at i:45056863 original size:82 final size:80
Alignment explanation
Indices: 45056751--45056899 Score: 192
Period size: 82 Copynumber: 1.8 Consensus size: 80
45056741 AAATTGTACA
* *
45056751 GCACTAAGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGT
1 GCACTAAGGTGCGATTCGACTACGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTGT
45056815 GCGAATTGACCATGCG
65 GCGAATTGACCATGCG
* * ** * *
45056831 GCACTAAGTGTGCGAGTTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 GCACTAAG-GTGCGA-TTCGACTACGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
45056896 TGCG
64 TGCG
45056900 GGCTCAATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 8 0.14
81 8 0.14
82 42 0.72
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (80 bp):
GCACTAAGGTGCGATTCGACTACGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:45056910 original size:27 final size:27
Alignment explanation
Indices: 45056831--45056910 Score: 63
Period size: 27 Copynumber: 2.9 Consensus size: 27
45056821 TGACCATGCG
* **
45056831 GCACTAAGTGTGCGAGTTTGAT-TACGTA
1 GCACTAAGTGTGCGAGCTCAATATA--TA
* * *
45056859 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
45056886 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
45056911 CATCCGTGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
27 22 0.51
28 19 0.44
29 2 0.05
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:45064755 original size:27 final size:26
Alignment explanation
Indices: 45064725--45064874 Score: 120
Period size: 27 Copynumber: 5.5 Consensus size: 26
45064715 AAATTGTACA
*
45064725 GCACTAAGGGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* * *
45064752 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
45064779 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
* * *
45064806 GCACTAAGTGTGCGAGTTTGATTACGTA
1 GCACTAAGTGTGCGA--TTGACTATGTT
* * *
45064834 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTT
*
45064861 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
45064875 GGCTCAATAT
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 78 0.76
28 23 0.23
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:45064847 original size:82 final size:81
Alignment explanation
Indices: 45064725--45064874 Score: 194
Period size: 82 Copynumber: 1.8 Consensus size: 81
45064715 AAATTGTACA
* *
45064725 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTACGTAGCACTAAGTGTGCGAAATGAATAT-ATAGCACTAAGTG
45064789 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * * ** * *
45064806 GCACTAAGTGTGCGAGTTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTG
1 GCACTAAGGGTGCGA-TTCGACTACGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTG
45064871 TGCG
65 TGCG
45064875 GGCTCAATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 16 0.28
82 42 0.72
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTACGTAGCACTAAGTGTGCGAAATGAATATATAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45064885 original size:27 final size:27
Alignment explanation
Indices: 45064806--45064885 Score: 63
Period size: 27 Copynumber: 2.9 Consensus size: 27
45064796 TGACCATGCG
* **
45064806 GCACTAAGTGTGCGAGTTTGAT-TACGTA
1 GCACTAAGTGTGCGAGCTCAATATA--TA
* * *
45064834 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
45064861 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
45064886 CATTCGTGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
27 22 0.51
28 19 0.44
29 2 0.05
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:45066941 original size:94 final size:94
Alignment explanation
Indices: 45066824--45067293 Score: 841
Period size: 94 Copynumber: 5.0 Consensus size: 94
45066814 ATCGACATTC
** * *
45066824 AAATCTGCACACATCGTGCCATTTAATTCCGCACCCATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
45066889 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
45066918 AAATCTGCACACAAAGTGACATTTAATTCCACACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
45066983 GGCAATTGACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
45067012 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
45067077 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
45067106 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCGAATGTTAATTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
45067171 GGCAATTTACTTAATTCAAATAGCATATC
66 GGCAATTTACTTAATTCAAATAGCATATA
*
45067200 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
45067265 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
45067294 CGGTCACATT
Statistics
Matches: 360, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 360 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:45078845 original size:44 final size:43
Alignment explanation
Indices: 45078782--45078936 Score: 174
Period size: 43 Copynumber: 3.6 Consensus size: 43
45078772 TGTTTTCGTG
45078782 TAAGACCATGTCTGGGACGTTGGCATCA-ACTTATGATTTACGTT
1 TAAGACCATGTCTGGGACGTTGGCATCATA-TT-TGATTTACGTT
*
45078826 TAAGACCATGTCTGGGACGTGGGCATCATATTTGATTT-CGTT
1 TAAGACCATGTCTGGGACGTTGGCATCATATTTGATTTACGTT
* * * *
45078868 TAAGACCCTGTTTGGGACAG-TGGCATCGATATTTGA-TTACATG
1 TAAGACCATGTCTGGGAC-GTTGGCATC-ATATTTGATTTACGTT
** *
45078911 TAAGACCACATCTTGGACGTTGGCAT
1 TAAGACCATGTCTGGGACGTTGGCAT
45078937 TGTACAAGCT
Statistics
Matches: 95, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
42 29 0.31
43 36 0.38
44 29 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACGTTGGCATCATATTTGATTTACGTT
Found at i:45078884 original size:42 final size:41
Alignment explanation
Indices: 45078775--45078905 Score: 165
Period size: 44 Copynumber: 3.0 Consensus size: 41
45078765 CGATATGTGT
*
45078775 TTTCGTGTAAGACCATGTCTGGGACGTTGGCATCA-ACTTATGA
1 TTTCGTTTAAGACCATGTCTGGGACG-TGGCATCATA-TT-TGA
45078818 TTTACGTTTAAGACCATGTCTGGGACGTGGGCATCATATTTGA
1 TTT-CGTTTAAGACCATGTCTGGGACGT-GGCATCATATTTGA
* *
45078861 TTTCGTTTAAGACCCTGTTTGGGACAGTGGCATCGATATTTGA
1 TTTCGTTTAAGACCATGTCTGGGAC-GTGGCATC-ATATTTGA
45078904 TT
1 TT
45078906 ACATGTAAGA
Statistics
Matches: 80, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
42 26 0.32
43 22 0.28
44 31 0.39
45 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (41 bp):
TTTCGTTTAAGACCATGTCTGGGACGTGGCATCATATTTGA
Found at i:45080122 original size:21 final size:21
Alignment explanation
Indices: 45080097--45080148 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
45080087 TGAAACTTTG
45080097 AAAATTTTGTTTAAGTTTCGA
1 AAAATTTTGTTTAAGTTTCGA
45080118 AAAATTTTGTTTAAGTTTCGA
1 AAAATTTTGTTTAAGTTTCGA
45080139 AAAATTTTGT
1 AAAATTTTGT
45080149 ATGAGATTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (21 bp):
AAAATTTTGTTTAAGTTTCGA
Found at i:45080866 original size:48 final size:48
Alignment explanation
Indices: 45080792--45081123 Score: 389
Period size: 48 Copynumber: 6.9 Consensus size: 48
45080782 GGTGAATTGT
* * * * *
45080792 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATGTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* * * * **
45080840 CGATGCCATGTCCCAGACATGCTCTTACACTAGCTCTCAGCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
*
45080888 CGATGCCATGTCCCAGACATGGTCTTACACTAGG-ACACATATCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GGCACACATATCAATGC
* * * *
45080936 CGATGCCATGTCCCAGAAATGGTCTTACACTGGCTCTCATATC-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAT-GC
* * * * * * *
45080984 CGACGCAATTTCCAAGACATGGTCTTACACTAGCGCACATATCAATGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* *
45081032 CAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
* *
45081080 CAATGCCATGTCTCAGACATGGTCTTACACTGGCACACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
45081124 CCTAAATGTC
Statistics
Matches: 241, Mismatches: 39, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
47 3 0.01
48 236 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAATGC
Found at i:45081049 original size:144 final size:144
Alignment explanation
Indices: 45080789--45081122 Score: 479
Period size: 144 Copynumber: 2.3 Consensus size: 144
45080779 GAGGGTGAAT
* * * * *
45080789 TGTCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCC
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGACGCAATGTCCA
* * * * *
45080854 AGACATGCTCTTACACTAGCTCTCAGCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
66 AGACATGCTCTTACACTAGCGCACAGATCAATGACAATGCCATGTCCCAGACATGGTCTTACACT
*
45080919 AGGACACATATCAA
131 AGCACACATATCAA
* * * *
45080933 TGTCGATGCCATGTCCCAGAAATGGTCTTACACTGGCTCTCATATCGTGGCCGACGCAATTTCCA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGACGCAATGTCCA
* *
45080998 AGACATGGTCTTACACTAGCGCACATATCAATGACAATGCCATGTCCCAGACATGGTCTTACACT
66 AGACATGCTCTTACACTAGCGCACAGATCAATGACAATGCCATGTCCCAGACATGGTCTTACACT
45081063 AGCACACATATCAA
131 AGCACACATATCAA
* * * *
45081077 TGCCAATGCCATGTCTCAGACATGGTCTTACACTGGCACACATATC
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
45081123 ACCTAAATGT
Statistics
Matches: 167, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
144 167 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (144 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGACGCAATGTCCA
AGACATGCTCTTACACTAGCGCACAGATCAATGACAATGCCATGTCCCAGACATGGTCTTACACT
AGCACACATATCAA
Found at i:45087608 original size:20 final size:20
Alignment explanation
Indices: 45087583--45087630 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
45087573 TTAGGGACAA
45087583 GGGCGTGTCCCAAACCACAC
1 GGGCGTGTCCCAAACCACAC
*
45087603 GGGCGTGACCCAAACCACAC
1 GGGCGTGTCCCAAACCACAC
45087623 GGGCGTGT
1 GGGCGTGT
45087631 GACCCTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.23, C:0.35, G:0.31, T:0.10
Consensus pattern (20 bp):
GGGCGTGTCCCAAACCACAC
Found at i:45090414 original size:40 final size:40
Alignment explanation
Indices: 45090340--45090564 Score: 310
Period size: 40 Copynumber: 5.6 Consensus size: 40
45090330 AACCCAAGTA
* * *
45090340 CCTTAGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
45090379 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
45090419 CCTTCGGGACTTAGCCCGGATATAGTAACTACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT--C-ACTAGCACAAATG
* *
45090462 CCTTCGGGACTTCGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
45090502 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
45090542 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
45090565 CATCCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 11 0.07
40 117 0.70
41 2 0.01
42 1 0.01
43 36 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:45090479 original size:83 final size:80
Alignment explanation
Indices: 45090340--45090564 Score: 353
Period size: 83 Copynumber: 2.8 Consensus size: 80
45090330 AACCCAAGTA
* * * *
45090340 CCTTAGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
45090404 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* *
45090419 CCTTCGGGACTTAGCCCGGATATAGTAACTACTTGCACAAATGCCTTCGGGACTTCGCCCGGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-C--GCACAAATGCCTTCGGGACTTAGCCCGGATA
45090484 TAGTCACTAGCACAAATG
63 TAGTCACTAGCACAAATG
*
45090502 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
45090565 CATCCGAATA
Statistics
Matches: 133, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
79 12 0.09
80 43 0.32
81 1 0.01
82 1 0.01
83 76 0.57
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:45093459 original size:56 final size:56
Alignment explanation
Indices: 45093373--45093506 Score: 214
Period size: 56 Copynumber: 2.4 Consensus size: 56
45093363 CATGGCATCA
* **
45093373 ATATATGTGTGCGAGTAAGACTGCGTTTAATACGTTGACATCGATATGTGATTCTG
1 ATATATGTGTACGAGTAAGACCACGTTTAATACGTTGACATCGATATGTGATTCTG
* *
45093429 ATATATGAGTACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTG
1 ATATATGTGTACGAGTAAGACCACGTTTAATACGTTGACATCGATATGTGATTCTG
*
45093485 ATTTATGTGTACGAGTAAGACC
1 ATATATGTGTACGAGTAAGACC
45093507 CTATCTAGGA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (56 bp):
ATATATGTGTACGAGTAAGACCACGTTTAATACGTTGACATCGATATGTGATTCTG
Found at i:45095612 original size:17 final size:17
Alignment explanation
Indices: 45095590--45095622 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
45095580 AAATTAGTGT
45095590 CTTTTATGGTTAGGTAA
1 CTTTTATGGTTAGGTAA
45095607 CTTTTATGGTTAGGTA
1 CTTTTATGGTTAGGTA
45095623 CCATTATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.48
Consensus pattern (17 bp):
CTTTTATGGTTAGGTAA
Found at i:45098712 original size:17 final size:17
Alignment explanation
Indices: 45098657--45098713 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
45098647 ACATAAGTAA
45098657 AAATAATATAAAATTTAT
1 AAATAA-ATAAAATTTAT
* **
45098675 AATATATATAACTTTTAT
1 AA-ATAAATAAAATTTAT
*
45098693 AAATAAATAAAAATTAT
1 AAATAAATAAAATTTAT
45098710 AAAT
1 AAAT
45098714 TGTCTAATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 15 0.48
18 13 0.42
19 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATAAATAAAATTTAT
Found at i:45099116 original size:37 final size:37
Alignment explanation
Indices: 45099063--45099137 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
45099053 TACGAAATTT
*
45099063 TTTTATTATAACTATTCCAAACACTCATATGTATTCA
1 TTTTATCATAACTATTCCAAACACTCATATGTATTCA
*
45099100 TTTTATCATAATTATTCCAAACACTCATATGTATTCA
1 TTTTATCATAACTATTCCAAACACTCATATGTATTCA
45099137 T
1 T
45099138 ACTTATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.44
Consensus pattern (37 bp):
TTTTATCATAACTATTCCAAACACTCATATGTATTCA
Found at i:45099134 original size:19 final size:19
Alignment explanation
Indices: 45099075--45099135 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
45099065 TTATTATAAC
45099075 TATTCCAAACACTCATATG
1 TATTCCAAACACTCATATG
***
45099094 TATT-CATTTTA-TCATAAT-
1 TATTCCA-AACACTCAT-ATG
45099112 TATTCCAAACACTCATATG
1 TATTCCAAACACTCATATG
45099131 TATTC
1 TATTC
45099136 ATACTTATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
18 13 0.42
19 18 0.58
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.41
Consensus pattern (19 bp):
TATTCCAAACACTCATATG
Found at i:45101214 original size:16 final size:16
Alignment explanation
Indices: 45101193--45101226 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45101183 CCCAATATGG
*
45101193 CCAAAACAAAACTAAC
1 CCAAAACAAAACAAAC
45101209 CCAAAACAAAACAAAC
1 CCAAAACAAAACAAAC
45101225 CC
1 CC
45101227 TAGCCCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.35, G:0.00, T:0.03
Consensus pattern (16 bp):
CCAAAACAAAACAAAC
Found at i:45102016 original size:40 final size:40
Alignment explanation
Indices: 45101899--45102016 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
45101889 CGGATGTAAC
* * *
45101899 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTAAAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
45101939 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
45101979 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
45102017 TTTTTTTTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:45110271 original size:39 final size:40
Alignment explanation
Indices: 45110188--45110304 Score: 209
Period size: 39 Copynumber: 3.0 Consensus size: 40
45110178 CGGATGTAAC
* *
45110188 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
45110228 AACCCGCACGAATGCCTTCGGGACTTAA-CCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
45110267 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
45110305 TTTTTTTTCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
39 39 0.53
40 35 0.47
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:45114315 original size:4 final size:4
Alignment explanation
Indices: 45114306--45114335 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
45114296 CTCTTAAAAT
45114306 ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
45114336 GATTAAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
ATAG
Found at i:45115477 original size:5 final size:5
Alignment explanation
Indices: 45115405--45115462 Score: 116
Period size: 5 Copynumber: 11.6 Consensus size: 5
45115395 AAATTTATAA
45115405 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
45115455 AAATT AAA
1 AAATT AAA
45115463 ACCATTTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:45115666 original size:16 final size:16
Alignment explanation
Indices: 45115634--45115667 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45115624 CTAAATTATT
*
45115634 TTAAATTTTAATCATC
1 TTAAATTTTAATAATC
*
45115650 TTAAATTTTTATAATC
1 TTAAATTTTAATAATC
45115666 TT
1 TT
45115668 TTATGAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAAATTTTAATAATC
Found at i:45120316 original size:34 final size:34
Alignment explanation
Indices: 45120251--45120321 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
45120241 CTTATACAGT
* * *
45120251 TATCATATCAGAATGTCACATAACCAGAAACATA
1 TATCATATCAAAATGTCACATAACCAAAAACACA
* * **
45120285 TATCTTATCAAAATGTCATATTTCCAAAAACACA
1 TATCATATCAAAATGTCACATAACCAAAAACACA
45120319 TAT
1 TAT
45120322 ACCGGATGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.30
Consensus pattern (34 bp):
TATCATATCAAAATGTCACATAACCAAAAACACA
Found at i:45126278 original size:11 final size:11
Alignment explanation
Indices: 45126261--45126291 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
45126251 AGCCAAGTAA
45126261 ATTAATTAAAT
1 ATTAATTAAAT
*
45126272 TTTAATTAAAT
1 ATTAATTAAAT
45126283 ATTAATTAA
1 ATTAATTAA
45126292 TTAAATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTAATTAAAT
Found at i:45131737 original size:21 final size:20
Alignment explanation
Indices: 45131696--45131740 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
45131686 ACAGCACGTA
*
45131696 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTAAAATTT
*
45131716 TTCATCAAAA-TTTAAAACTT
1 TTCAT-AAAATTTTAAAATTT
45131736 TTCAT
1 TTCAT
45131741 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTAAAATTT
Found at i:45135137 original size:41 final size:41
Alignment explanation
Indices: 45135079--45135160 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
45135069 AACCTAATTT
*
45135079 GGAAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAA
1 GGAAAATAATTCACTTATTCTAATAAACTACTAAAAGATAA
*
45135120 GGAAAATAATTCACTTATTCTAATCAACTACTAAAAGATAA
1 GGAAAATAATTCACTTATTCTAATAAACTACTAAAAGATAA
45135161 AATAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.30
Consensus pattern (41 bp):
GGAAAATAATTCACTTATTCTAATAAACTACTAAAAGATAA
Found at i:45135221 original size:19 final size:19
Alignment explanation
Indices: 45135197--45135237 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
45135187 TAATTTATTC
*
45135197 TAAGATTTATCTACCTAAA
1 TAAGATATATCTACCTAAA
*
45135216 TAAGATATATCTACTTAAA
1 TAAGATATATCTACCTAAA
45135235 TAA
1 TAA
45135238 CTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAGATATATCTACCTAAA
Found at i:45139892 original size:24 final size:25
Alignment explanation
Indices: 45139836--45139888 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
45139826 TTATCAAATA
*
45139836 TTAAAAGTAAAATAAATTATTATAT
1 TTAAAATTAAAATAAATTATTATAT
45139861 TTAAAATTAAAAT-AATTA-TA-AT
1 TTAAAATTAAAATAAATTATTATAT
45139883 TTAAAA
1 TTAAAA
45139889 AATTGAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.30
23 2 0.07
24 5 0.19
25 12 0.44
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TTAAAATTAAAATAAATTATTATAT
Found at i:45144505 original size:24 final size:24
Alignment explanation
Indices: 45144476--45144524 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
45144466 GAAAATAAAG
45144476 TAAGAAAATAATCGAATAAACCAA
1 TAAGAAAATAATCGAATAAACCAA
45144500 TAAGAAAATAATCGAATAAACCAA
1 TAAGAAAATAATCGAATAAACCAA
45144524 T
1 T
45144525 GAGAGAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.18
Consensus pattern (24 bp):
TAAGAAAATAATCGAATAAACCAA
Found at i:45147211 original size:22 final size:21
Alignment explanation
Indices: 45147164--45147221 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
45147154 ATAAAGCAAC
* *
45147164 TAAAACAAAATTAAAAAGAAAGA
1 TAAAA-AAAA-TAAAAAAAAAAA
45147187 TAAAAAAAATAAAACAAAAAAA
1 TAAAAAAAATAAAA-AAAAAAA
* *
45147209 TAATAATAATAAA
1 TAAAAAAAATAAA
45147222 CTCAATGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 5 0.17
22 20 0.67
23 5 0.17
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (21 bp):
TAAAAAAAATAAAAAAAAAAA
Found at i:45147294 original size:6 final size:6
Alignment explanation
Indices: 45147283--45147314 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
45147273 AATAGCAAAA
45147283 AAAATT AAAATT AAAATT AAAATT AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AA
45147315 TTTGAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:45147366 original size:26 final size:24
Alignment explanation
Indices: 45147337--45147427 Score: 75
Period size: 26 Copynumber: 3.7 Consensus size: 24
45147327 GTATAAGAAT
45147337 AATAAATAAAATAAAAAAGTTAGTAA
1 AATAAATAAAATAAAAAA-TTA-TAA
*
45147363 AAT-AA-AAAATAAAAAA-TAAAA
1 AATAAATAAAATAAAAAATTATAA
45147384 AATATAATAAATAATAAATAAA--ATAA
1 AATA-AAT-AA-AATAAA-AAATTATAA
45147410 AATAAAATAAAATAAAAA
1 AAT-AAATAAAATAAAAA
45147428 TAGGGTGATT
Statistics
Matches: 56, Mismatches: 2, Indels: 17
0.75 0.03 0.23
Matches are distributed among these distances:
21 5 0.09
22 2 0.04
23 4 0.07
24 17 0.30
25 6 0.11
26 18 0.32
27 4 0.07
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (24 bp):
AATAAATAAAATAAAAAATTATAA
Found at i:45147368 original size:5 final size:5
Alignment explanation
Indices: 45147360--45147426 Score: 63
Period size: 5 Copynumber: 14.0 Consensus size: 5
45147350 AAAAAGTTAG
* *
45147360 TAAAA TAAAA -AATAA -AAAA TAAAA -AATA TAATAA -ATAA T-AAA TAAAA
1 TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA
45147407 TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA
45147427 ATAGGGTGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 12 0.23
5 39 0.75
6 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:45147371 original size:7 final size:7
Alignment explanation
Indices: 45147361--45147421 Score: 70
Period size: 7 Copynumber: 8.3 Consensus size: 7
45147351 AAAAGTTAGT
45147361 AAAATAA
1 AAAATAA
45147368 AAAATAA
1 AAAATAA
45147375 AAAATAA
1 AAAATAA
45147382 AAAATATA
1 AAAATA-A
45147390 ATAAATAA
1 A-AAATAA
*
45147398 TAAATAA
1 AAAATAA
45147405 AATAA-AA
1 AA-AATAA
45147412 TAAAATAA
1 -AAAATAA
45147420 AA
1 AA
45147422 TAAAAATAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
7 33 0.70
8 9 0.19
9 5 0.11
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AAAATAA
Found at i:45147385 original size:16 final size:16
Alignment explanation
Indices: 45147366--45147427 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
45147356 TTAGTAAAAT
45147366 AAAAAATAAAAAATAA
1 AAAAAATAAAAAATAA
* *
45147382 AAAATATAATAAATAA
1 AAAAAATAAAAAATAA
*
45147398 TAAATAAA-ATAAAATAA
1 -AAA-AAATAAAAAATAA
45147415 AATAAAATAAAAA
1 AA-AAAATAAAAA
45147428 TAGGGTGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
16 19 0.53
17 15 0.42
18 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAAATAAAAAATAA
Found at i:45147768 original size:33 final size:33
Alignment explanation
Indices: 45147726--45147798 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
45147716 TCTCTCACGC
*
45147726 CCATGTGAGATCCCACAC-GCTCGTGTGGCCAGG
1 CCATGTGAGATCCCACACACCT-GTGTGGCCAGG
*
45147759 CCATGTGAGATCCCACACACCTGTGTGGCTAGG
1 CCATGTGAGATCCCACACACCTGTGTGGCCAGG
*
45147792 CCGTGTG
1 CCATGTG
45147799 GGTCACACGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 34 0.94
34 2 0.06
ACGTcount: A:0.18, C:0.32, G:0.30, T:0.21
Consensus pattern (33 bp):
CCATGTGAGATCCCACACACCTGTGTGGCCAGG
Found at i:45150588 original size:49 final size:49
Alignment explanation
Indices: 45150527--45150647 Score: 145
Period size: 49 Copynumber: 2.5 Consensus size: 49
45150517 ACATTAAAGT
* * *
45150527 CGATGCCGTGTCCCAGACAGGTCTTACATTGACTTTCATATATC-GAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGA-GC
* * * * *
45150576 CGATGCCATGTCCCAGACAAGTCTTATACTGGCTCTCATCTATCGGAGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGAGC
*
45150625 CGATGCCATGTCCCAGATAGGTC
1 CGATGCCATGTCCCAGACAGGTC
45150648 CTAGACCCGA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
49 59 0.97
50 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGAGC
Found at i:45153933 original size:29 final size:29
Alignment explanation
Indices: 45153898--45153974 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
45153888 CATGAGATTG
* *
45153898 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
* **
45153927 GCACTAAGTGTGCGAGTTTAAAGTGCATG
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
45153956 GCACTAAGTGTGCGCGGTT
1 GCACTAAGTGTGCG-GGTT
45153975 GATTATTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 38 0.93
30 3 0.07
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTTAAAGTGCACA
Found at i:45154192 original size:174 final size:174
Alignment explanation
Indices: 45153927--45154428 Score: 959
Period size: 174 Copynumber: 2.9 Consensus size: 174
45153917 AAATTGTACA
*
45153927 GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
45153992 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTACGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
45154057 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
45154101 GCACTAAGTGTGTGAGTTTAAAGTGCATGACACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
45154166 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
45154231 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
45154275 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
45154340 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
45154405 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
45154429 ACCTTGAGTT
Statistics
Matches: 322, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 322 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:45158094 original size:47 final size:46
Alignment explanation
Indices: 45157973--45158103 Score: 174
Period size: 46 Copynumber: 2.8 Consensus size: 46
45157963 ATAATCTCAC
* *
45157973 CCATAATGAACTCGGAACACAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGTTCGCAT
*
45158019 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTT-TCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATG-TTCGCAT
* * * *
45158065 CTATAGGTGAACTCAGAACGCAACTCAACGAGTTCGGAT
1 CCATA-ATGAACTCGGAACACAACTCAACGAGTTCGGAT
45158104 TCCTCGTAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
46 44 0.58
47 32 0.42
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGTTCGCAT
Found at i:45159480 original size:37 final size:37
Alignment explanation
Indices: 45159439--45159515 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
45159429 AGTTGGTGTT
45159439 GAATTTAAACTCTGATGATGGAGGGATCCCACATCGG
1 GAATTTAAACTCTGATGATGGAGGGATCCCACATCGG
45159476 GAATTTAAACTCTGATGATGGAGGGATCCCACATCGG
1 GAATTTAAACTCTGATGATGGAGGGATCCCACATCGG
45159513 GAA
1 GAA
45159516 GCTAACATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (37 bp):
GAATTTAAACTCTGATGATGGAGGGATCCCACATCGG
Found at i:45159976 original size:27 final size:27
Alignment explanation
Indices: 45159946--45160151 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
45159936 TTAGTTTACC
*
45159946 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * **
45159973 AAATTACCAAACTACACTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
45160000 AAATTACCAAAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
45160027 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
45160054 AAATTACCAAAATACCCCTGATTTTTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** * * *
45160081 AAATTACTGAAATACCCATAGTTTGAA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
45160108 AAATTACTAAAATA-CCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
**
45160135 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
45160152 TCGACTTGTA
Statistics
Matches: 145, Mismatches: 32, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
26 3 0.02
27 140 0.97
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:45160018 original size:54 final size:53
Alignment explanation
Indices: 45159936--45160152 Score: 231
Period size: 54 Copynumber: 4.0 Consensus size: 53
45159926 TTAGAATACT
* * * *
45159936 TTAGTTTACCAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAACTACAC
1 TTAGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA-TACCC
* *
45159990 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACC-AAATACCC
* ** * * *
45160044 TTGGTTTGTAAAATTACCAAAATACCCCTGATTTTTGAAATTACTGAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTAC-CAAATACCC
* * *
45160098 ATAGTTTGA-AAAATTACTAAAATA-CCCTCGATTTGTAAAATTACTGAAATACCC
1 TTAGTTT-ACAAAATTACCAAAATACCCCT-GATTTGTAAAATTAC-CAAATACCC
45160152 T
1 T
45160153 CGACTTGTAA
Statistics
Matches: 141, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
53 4 0.03
54 134 0.95
55 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (53 bp):
TTAGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAATACCC
Found at i:45160085 original size:81 final size:82
Alignment explanation
Indices: 45159946--45160151 Score: 229
Period size: 81 Copynumber: 2.5 Consensus size: 82
45159936 TTAGTTTACC
* * * * *
45159946 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAACTA-CACTTAGTTTACAAAATTACCAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGAGTTTACAAAATTACCAA
* *
45160010 AATACCCCTGGTTT-ATA
66 AATACCCATAGTTTGA-A
*** **
45160027 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGA-TTTTTGAAATTACTGA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGAGTTTACAAAATTACCAA
45160091 AATACCCATAGTTTGAA
66 AATACCCATAGTTTGAA
* * * **
45160108 AAATTACTAAAATACCCTCGATTTGTAAAATTACTGAAATACCC
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC
45160152 TCGACTTGTA
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
81 101 0.95
82 5 0.05
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (82 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGAGTTTACAAAATTACCAA
AATACCCATAGTTTGAA
Found at i:45160152 original size:27 final size:27
Alignment explanation
Indices: 45159999--45160196 Score: 170
Period size: 27 Copynumber: 7.3 Consensus size: 27
45159989 CTTAGTTTAC
* * *
45159999 AAAATTACCAAAATACCC-CTGGTTTAT
1 AAAATTACTAAAATACCCTC-GATTTGT
* * *
45160026 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTCGATTTGT
* *
45160053 AAAATTACCAAAATACCC-CTGATTTTT
1 AAAATTACTAAAATACCCTC-GATTTGT
* * * *
45160080 GAAATTACTGAAATACCCATAG-TTTGA
1 AAAATTACTAAAATACCC-TCGATTTGT
45160107 AAAATTACTAAAATACCCTCGATTTGT
1 AAAATTACTAAAATACCCTCGATTTGT
* *
45160134 AAAATTACTGAAATACCCTCGACTTGT
1 AAAATTACTAAAATACCCTCGATTTGT
** *
45160161 AAAATTA-TCAAAGCACCCTCGATTTAT
1 AAAATTACT-AAAATACCCTCGATTTGT
*
45160188 AGAATTACT
1 AAAATTACT
45160197 GTTTTACCCT
Statistics
Matches: 141, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.02
27 136 0.96
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTCGATTTGT
Found at i:45160165 original size:54 final size:53
Alignment explanation
Indices: 45159946--45160197 Score: 222
Period size: 54 Copynumber: 4.7 Consensus size: 53
45159936 TTAGTTTACC
* * * * * **
45159946 AAATCACCAAAATACCCCTGGTTTGTAAAATTAC-CAAACTACACTTAGTTTACA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACTGAAA-TAC-CCTAGTTTGTA
* ** *
45160000 AAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACTGAAATACCC-TAGTTTGTA
* * *
45160054 AAATTACCAAAATACCCCTGATTTTTGAAATTACTGAAATACCCATAGTTTGAA
1 AAATTACCAAAATACCCCTGATTTATAAAATTACTGAAATACCC-TAGTTTGTA
* * * *
45160108 AAATTACTAAAATA-CCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTATAAAATTACTGAAATACCCTAG-TTTGTA
* ** *
45160162 AAATTATCAAAGCA-CCCTCGATTTATAGAATTACTG
1 AAATTACCAAAATACCCCT-GATTTATAAAATTACTG
45160198 TTTTACCCTC
Statistics
Matches: 167, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
53 7 0.04
54 157 0.94
55 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTGATTTATAAAATTACTGAAATACCCTAGTTTGTA
Found at i:45160166 original size:81 final size:81
Alignment explanation
Indices: 45159937--45160172 Score: 203
Period size: 81 Copynumber: 2.9 Consensus size: 81
45159927 TAGAATACTT
** * * * * * *
45159937 TAGTTTACCAAATCACCAAAATACCC-CTGGTTTGTAAAATTACCAAACTA-CACTTAGTT-TAC
1 TAGTTTATAAAATTACCAAAATACCCTC-GATTTGTAAAATTACCAAAATACCCCTGACTTGT--
*
45159999 AAAATTACCAAAATACCCC
63 AAAATTACCAAAATACCCA
* * * * * *
45160018 TGGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTTTGAA
1 TAGTTTATAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGACTTGTAAA
**
45160083 ATTACTGAAATACCCA
66 ATTACCAAAATACCCA
* **
45160099 TAGTTTGA-AAAATTACTAAAATACCCTCGATTTGTAAAATTACTGAAATA-CCCTCGACTTGTA
1 TAGTTT-ATAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCT-GACTTGTA
*
45160162 AAATTATCAAA
64 AAATTACCAAA
45160173 GCACCCTCGA
Statistics
Matches: 125, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
80 4 0.03
81 113 0.90
82 7 0.06
83 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
TAGTTTATAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGACTTGTAAA
ATTACCAAAATACCCA
Found at i:45160247 original size:27 final size:27
Alignment explanation
Indices: 45160232--45161343 Score: 831
Period size: 27 Copynumber: 40.7 Consensus size: 27
45160222 TTGAAATATA
*
45160232 CTTGTAGGGTAGAATTACCAAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
*
45160259 TTTGTAGGGTAGAATTACCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* * *
45160286 CCTATAGGGTAGAATTA-CTACAATA-C
1 CTTGTAGGGTAGAATTACCGA-AATACC
* *
45160312 CTCTGTAGGGTAAAAATACCGAAATACC
1 CT-TGTAGGGTAGAATTACCGAAATACC
* * *
45160340 ATTGTAGGGTAGAAATACTGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* * *
45160367 CTTCTAGGGTAGAAATACCTAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
*
45160394 AC-TGTAGGGTAGAATTATCGAAATACC
1 -CTTGTAGGGTAGAATTACCGAAATACC
* **
45160421 CCTGTAGGGTAGAATTACTAAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
*
45160448 CTTGTAGGGTAGAAATACCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* *
45160475 CTTGTAGGGTAGAAATACTGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* * *
45160502 CCTATAGGGTAGAATTATCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* *
45160529 CCTGTAGGGTAGAAATACCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* ** * *
45160556 CTTATTTAGAATACTTTAGTTTACC-AAATCACC
1 C-T-TGTAGGGTA---GA-ATTACCGAAAT-ACC
** * *
45160589 AAAATACTCCT-GGTTTGTAAAATTACCAAAATACC
1 ------CTTGTAGG---GTAGAATTACCGAAATACC
** * *
45160624 CTTGGT-TTGTAAAATTACCAAAATACC
1 CTT-GTAGGGTAGAATTACCGAAATACC
* ** **
45160651 CATG-ATTTGT-GAAATTACTAAAATATCC
1 CTTGTA-GGGTAG-AATTACCGAAATA-CC
** ** * * *
45160679 CCAGT-TTGCAAAATTACTGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
** * *
45160705 CTTG-ATTTGTAAAATTACTGAAATACC
1 CTTGTA-GGGTAGAATTACCGAAATACC
** *
45160732 CTTG-ACTTGTAAAATTACC-AAAGTACC
1 CTTGTA-GGGTAGAATTACCGAAA-TACC
** ** ***
45160759 CCCG-A-TTTACAGAATTACCGTTTTACC
1 CTTGTAGGGT--AGAATTACCGAAATACC
** * **
45160786 CTTG-A-TTTACAAAATTATTGAAATACC
1 CTTGTAGGGT--AGAATTACCGAAATACC
* *
45160813 CCTATAGGGTAGAATTACCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* *
45160840 CCTGTAGGGTAGAATTATCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* * *
45160867 CTTATAGGGTAGAAATATCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* *
45160894 CCTGTAGGGTAGAATTACTGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* *
45160921 CCTGTAGGGTAGAATTATCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* *
45160948 CTTGTAGGGTAGAAATACTGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
*
45160975 CTTGTAGGGTAGAAATACCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* **
45161002 CCTGTAGGGTAGAATTACTAAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* *
45161029 CTTGTAGGGTAGAAATACCGAACTACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* *
45161056 CTTGTAGGATAGAAATACCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
*
45161083 CTTGTAGGGTAGAATTATCGAAATACCC
1 CTTGTAGGGTAGAATTACCGAAATA-CC
*
45161111 CTT-TAGGGTAGAATTATCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
*
45161137 CTTGTAGGGTAGAAATACCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
*
45161164 CTTGTAGGGTAGAAATACCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* *
45161191 CCTGTAGGGTAGAATTACTGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* * *
45161218 CCTATAGGGTAGAATTATC-ACAATACC
1 CTTGTAGGGTAGAATTACCGA-AATACC
45161245 C-TGTAGGGTAGAATTACCGAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* * **
45161271 CCTATAGGGTAGAATTACTAAAATACC
1 CTTGTAGGGTAGAATTACCGAAATACC
* * *
45161298 CCTGTAGGGTAGAATTACCGAGATATC
1 CTTGTAGGGTAGAATTACCGAAATACC
* *
45161325 CTTGTGGGGTAAAATTACC
1 CTTGTAGGGTAGAATTACC
45161344 ATTTTGCCCC
Statistics
Matches: 900, Mismatches: 142, Indels: 86
0.80 0.13 0.08
Matches are distributed among these distances:
25 2 0.00
26 41 0.05
27 801 0.89
28 15 0.02
29 9 0.01
30 1 0.00
32 5 0.01
33 7 0.01
35 8 0.01
36 6 0.01
37 1 0.00
38 1 0.00
39 3 0.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
CTTGTAGGGTAGAATTACCGAAATACC
Found at i:45162073 original size:216 final size:217
Alignment explanation
Indices: 45161691--45162087 Score: 525
Period size: 216 Copynumber: 1.8 Consensus size: 217
45161681 TGTTACCGAA
* * *
45161691 GGCTGTGTGCCAAACGTATTTGCTTAAGGCTATGTGCCAATATATGATTATTGACGACTCTGTGT
1 GGCTGTGTGCCAAACGTATTTGCCTAAGGCTATGTGCCAACATATGATTATTGACGACTCTGTGC
* * *
45161756 CGATCATATTTACTCAAGGCTGTGTGCCGACTATATTACCGTCGCTGATGGCTATGCGCCTAACA
66 CGATCACATTTACTCAAGGCTGTGTGCCGACTATATTACCGTAGCTGAGGGCTATGCGCCTAACA
* * *
45161821 TGATACAGCTACCAATGGGTTAAAGCCAATTATTCTGATT-A-TGGCTTTGCGCCAACCTACATA
131 TAATACAGCTACCAATGGCTTAAAGCCAAGTATTCTG-TTAAGTGGCTTTGCGCCAACCTACATA
45161884 TGGCTCTGTACCAACTTGATTAT
195 TGGCTCTGTACCAACTTGATTAT
45161907 GGCTGTGTGCCAAACGTATTTGCCTAAGGCTATGTGCCAACATATGATTATTGACGAAC-CTGTG
1 GGCTGTGTGCCAAACGTATTTGCCTAAGGCTATGTGCCAACATATGATTATTGACG-ACTCTGTG
* ** * * *
45161971 CCGATCACATTTAC-CTAGGGCTGTGTGCCGGTTATGTTACTC-TAGTTGAGGGCTATGTGCCTA
65 CCGATCACATTTACTC-AAGGCTGTGTGCCGACTATATTAC-CGTAGCTGAGGGCTATGCGCCTA
* * * *** *
45162034 ACATAATGCAGCTATCGATGGCTTTGTGCCACGTATTCTGTTAAGTGGCTTTGC
128 ACATAATACAGCTACCAATGGCTTAAAGCCAAGTATTCTGTTAAGTGGCTTTGC
45162088 CACATTATCT
Statistics
Matches: 154, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
215 3 0.02
216 139 0.90
217 12 0.08
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (217 bp):
GGCTGTGTGCCAAACGTATTTGCCTAAGGCTATGTGCCAACATATGATTATTGACGACTCTGTGC
CGATCACATTTACTCAAGGCTGTGTGCCGACTATATTACCGTAGCTGAGGGCTATGCGCCTAACA
TAATACAGCTACCAATGGCTTAAAGCCAAGTATTCTGTTAAGTGGCTTTGCGCCAACCTACATAT
GGCTCTGTACCAACTTGATTAT
Found at i:45162098 original size:25 final size:26
Alignment explanation
Indices: 45162070--45162154 Score: 82
Period size: 27 Copynumber: 3.3 Consensus size: 26
45162060 TGCCACGTAT
* *
45162070 TCTGTT-AAGTGGCTTTGCCACATTA
1 TCTGTTCAAGTGGCTCTGCCACAATA
**
45162095 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCAAGTGGCTCTGCCACAATA
** * *
45162121 TCTGTATCTGGTGACTCTGTCACAATA
1 TCTGT-TCAAGTGGCTCTGCCACAATA
45162148 TCTGTTC
1 TCTGTTC
45162155 TGGCAGCCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 6 0.12
26 22 0.42
27 24 0.46
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.39
Consensus pattern (26 bp):
TCTGTTCAAGTGGCTCTGCCACAATA
Found at i:45162114 original size:26 final size:26
Alignment explanation
Indices: 45162078--45162157 Score: 115
Period size: 26 Copynumber: 3.0 Consensus size: 26
45162068 ATTCTGTTAA
* *
45162078 GTGGCTTTGCCACATTATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
45162104 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
45162131 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
45162157 G
1 G
45162158 CAGCCAAGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 25 0.51
27 24 0.49
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:45162138 original size:27 final size:26
Alignment explanation
Indices: 45162085--45162157 Score: 110
Period size: 27 Copynumber: 2.8 Consensus size: 26
45162075 TAAGTGGCTT
* *
45162085 TGCCACATTATCTGTTCTGGTGGCTC
1 TGCCACAATATCTGTTCTGGTGACTC
45162111 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
*
45162138 TGTCACAATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
45162158 CAGCCAAGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 19 0.44
27 24 0.56
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:45162284 original size:6 final size:6
Alignment explanation
Indices: 45162275--45162349 Score: 73
Period size: 6 Copynumber: 12.3 Consensus size: 6
45162265 TTGCATTCAC
* *
45162275 ATTCTG ATTCTG ATTCTG ATTCTG TTATT-TG ATGCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG --ATTCTG ATTCTG ATTCTG ATTCTG
* *
45162324 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
45162350 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
5 3 0.05
6 47 0.84
7 3 0.05
8 3 0.05
ACGTcount: A:0.17, C:0.13, G:0.16, T:0.53
Consensus pattern (6 bp):
ATTCTG
Found at i:45172633 original size:16 final size:16
Alignment explanation
Indices: 45172614--45172658 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
45172604 CAGCAAATCT
*
45172614 TGAAAAACCAAAATGC
1 TGAAAAGCCAAAATGC
**
45172630 TGAAAAGCTGAAATGC
1 TGAAAAGCCAAAATGC
*
45172646 CGAAAAGCCAAAA
1 TGAAAAGCCAAAA
45172659 GTTTAGCTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.11
Consensus pattern (16 bp):
TGAAAAGCCAAAATGC
Found at i:45172939 original size:29 final size:28
Alignment explanation
Indices: 45172886--45172956 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
45172876 AAGTGATTAA
*
45172886 GCCTAGTGGG-CATATAGATGTGATTTGG
1 GCCTAGTGGGCCATATAGATGAGA-TTGG
*
45172914 GCCTAATGGGCCATAT-GAATGAGATTGG
1 GCCTAGTGGGCCATATAG-ATGAGATTGG
*
45172942 ACCTAGTGGGCCATA
1 GCCTAGTGGGCCATA
45172957 AGCATGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 27 0.73
29 10 0.27
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GCCTAGTGGGCCATATAGATGAGATTGG
Found at i:45172970 original size:28 final size:27
Alignment explanation
Indices: 45172887--45172971 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 27
45172877 AGTGATTAAG
* *
45172887 CCTAGTGGG-CATATAGATGTGATTTGGG
1 CCTAGTGGGCCATA-AGATGT-ATATGGA
* * *
45172915 CCTAATGGGCCATATGAATG-AGATTGGA
1 CCTAGTGGGCCATAAG-ATGTATA-TGGA
45172943 CCTAGTGGGCCATAAGCATGTATATGGA
1 CCTAGTGGGCCATAAG-ATGTATATGGA
45172971 C
1 C
45172972 TTATTTGGGT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
27 1 0.02
28 34 0.77
29 9 0.20
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (27 bp):
CCTAGTGGGCCATAAGATGTATATGGA
Found at i:45179844 original size:46 final size:46
Alignment explanation
Indices: 45179792--45180060 Score: 271
Period size: 46 Copynumber: 5.8 Consensus size: 46
45179782 TATTTGGGCA
*
45179792 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
45179838 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* *
45179883 CATCCGAACTCATTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * * * *
45179931 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
45179978 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
45180024 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45180061 GCGGGTTACA
Statistics
Matches: 181, Mismatches: 28, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
42 3 0.02
43 4 0.02
45 4 0.02
46 97 0.54
47 62 0.34
48 4 0.02
50 4 0.02
51 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:45179902 original size:93 final size:93
Alignment explanation
Indices: 45179788--45180053 Score: 469
Period size: 93 Copynumber: 2.9 Consensus size: 93
45179778 CGGATATTTG
*
45179788 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
*
45179853 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * *
45179881 GGCATCCGAACTCATTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
45179946 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
45179974 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
45180039 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
45180054 CTTATGGGCG
Statistics
Matches: 163, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 163 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:45179905 original size:47 final size:47
Alignment explanation
Indices: 45179838--45180006 Score: 204
Period size: 47 Copynumber: 3.6 Consensus size: 47
45179828 GATGCGAACG
*
45179838 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * * *
45179885 TCCGAACTCATTCAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
*
45179931 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
*
45179978 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC
45180007 ACTTATGGAT
Statistics
Matches: 102, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
45 3 0.03
46 28 0.27
47 55 0.54
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (47 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:45182932 original size:13 final size:13
Alignment explanation
Indices: 45182914--45182948 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
45182904 TTAATATTTA
45182914 ATAAAATCACTTT
1 ATAAAATCACTTT
45182927 ATAAAATCACTTT
1 ATAAAATCACTTT
45182940 ATAAAATCA
1 ATAAAATCA
45182949 TTATACAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAAAATCACTTT
Found at i:45192063 original size:39 final size:39
Alignment explanation
Indices: 45192019--45192197 Score: 277
Period size: 39 Copynumber: 4.6 Consensus size: 39
45192009 ACTCTGATGA
* * **
45192019 GCTTCAATTAGCCTTTGGGCTTCTATTTAGCACTTTTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
*
45192058 GCTTCAGTTAGCATTCGGGCTTCCGTTTAGCACTTTTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
*
45192097 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
*
45192136 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
* *
45192175 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
45192198 AGATCACGAT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 130 1.00
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
Found at i:45192089 original size:19 final size:19
Alignment explanation
Indices: 45192065--45192167 Score: 86
Period size: 19 Copynumber: 5.3 Consensus size: 19
45192055 TGTGCTTCAG
45192065 TTAGCATTCGGGCTTCCGT
1 TTAGCATTCGGGCTTCCGT
* * *
45192084 TTAGCACTTTTGTGCTTCAG-
1 TTAGCA--TTCGGGCTTCCGT
*
45192104 TTAGCCTTCGGGCTTCCGT
1 TTAGCATTCGGGCTTCCGT
*
45192123 TTAGCACTT-GTGTGCTTCAG-
1 TTAGCA-TTCG-G-GCTTCCGT
*
45192143 TTAGCCTTCGGGCTTCCGT
1 TTAGCATTCGGGCTTCCGT
45192162 TTAGCA
1 TTAGCA
45192168 CTTATGTGCT
Statistics
Matches: 64, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
18 15 0.23
19 20 0.31
20 14 0.22
21 15 0.23
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (19 bp):
TTAGCATTCGGGCTTCCGT
Found at i:45193136 original size:48 final size:48
Alignment explanation
Indices: 45193054--45193342 Score: 294
Period size: 48 Copynumber: 6.0 Consensus size: 48
45193044 ATACTAGGGT
* * * *
45193054 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCTA
* * * *
45193102 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCTA
* * * * * * *
45193150 TATGTGAGCCAGTGTAAGACCATGTTTTGAACATGGCATCAATATTTA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCTA
* * *
45193198 TATGAGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCGTCGGTC-TCGA
1 TATGAGAGCTAGTGTAAGACCATGTCT-GGAACATGGCATC-GACATCTA
* * * * *
45193246 TATGTGAGCTAGAGTAAGACCATGTTTGGAACATGGCATCGGCACTGATA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACA-T-CTA
* * *
45193296 TATGAGAGCAAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCT
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCT
45193343 TACCCTTTTG
Statistics
Matches: 193, Mismatches: 42, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
47 4 0.02
48 146 0.76
49 3 0.02
50 40 0.21
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGACATCTA
Found at i:45193218 original size:96 final size:96
Alignment explanation
Indices: 45193054--45193338 Score: 453
Period size: 96 Copynumber: 2.9 Consensus size: 96
45193044 ATACTAGGGT
45193054 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
45193119 GACCATGTCTGGGACATGGCATCGGCCTCGA
66 GACCATGTCTGGGACATGGCATCGGCCTCGA
* * *
45193150 TATGTGAGCCAGTGTAAGACCATGTTTTGAACATGGCATCAATATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
* * *
45193215 GACCATGTCTAGGACATGGCGTCGGTCTCGA
66 GACCATGTCTGGGACATGGCATCGGCCTCGA
* * * * *
45193246 TATGTGAGCTAGAGTAAGACCATGTTTGGAACATGGCATCGGCACTGATATATGAGAGCAAGTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACA-T-TTATATGAGAGCTAGTGT
45193311 AAGACCATGTCTGGGACATGGCATCGGC
64 AAGACCATGTCTGGGACATGGCATCGGC
45193339 ATCTTACCCT
Statistics
Matches: 170, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
96 128 0.75
97 1 0.01
98 41 0.24
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
GACCATGTCTGGGACATGGCATCGGCCTCGA
Found at i:45197121 original size:34 final size:33
Alignment explanation
Indices: 45197060--45197129 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
45197050 TACATCTCTA
*
45197060 ATACTGTACTGTATTGGGCTAAGGCCCACACTG
1 ATACTGTACCGTATTGGGCTAAGGCCCACACTG
*
45197093 ATACTGTTACCGTAATT-GGCTGAGGCCCACACTG
1 ATACTG-TACCGT-ATTGGGCTAAGGCCCACACTG
45197127 ATA
1 ATA
45197130 TTGCTACTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 6 0.18
34 24 0.73
35 3 0.09
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (33 bp):
ATACTGTACCGTATTGGGCTAAGGCCCACACTG
Found at i:45199917 original size:40 final size:40
Alignment explanation
Indices: 45199872--45199952 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
45199862 ACAAGGTGAC
*
45199872 TGTGAAGAACAAGTATCCTTTGCCGAGGATCGATGATCTG
1 TGTGAAGAACAAGTATCCTTTGCCAAGGATCGATGATCTG
*
45199912 TGTGAAGAGCAAGTATCCTTTGCCAAGGATCGATGATCTG
1 TGTGAAGAACAAGTATCCTTTGCCAAGGATCGATGATCTG
45199952 T
1 T
45199953 TTGACCAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (40 bp):
TGTGAAGAACAAGTATCCTTTGCCAAGGATCGATGATCTG
Found at i:45203753 original size:48 final size:48
Alignment explanation
Indices: 45203689--45204166 Score: 478
Period size: 48 Copynumber: 9.9 Consensus size: 48
45203679 ATACTAGGGT
* * * * *
45203689 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGACATTGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
* * * *
45203737 TATAAGAGCTAGTGTAAGACCAT-TTCTGGGACATGGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTT-TGGAACATGGCATCGGCATTGA
* * *
45203785 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
** * * *
45203833 TATGAGAGCTAGTGTAAGACCATG-TCCGAGACATGGCATCGACCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGA-ACATGGCATCGGCATTGA
* * * *
45203881 TATGTGAGCTAGTGTAAGACCATGTTTGAAACATGGCATTGACAATT-A
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGC-ATTGA
* * * * *
45203929 TATAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
* * * * * *
45203977 TATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATAGGTATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
* * *
45204025 TATGAGAGCTAGTGTAAGACCATGTTTGG-ACATGGCATTGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
* * * * **
45204072 TATGTGAGCTAGAGTAAGACCATGTTTGGAACATGACATCTGCACCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
* * * *
45204120 TATCTGAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TA--TGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT
45204167 CTTACCCTTT
Statistics
Matches: 346, Mismatches: 75, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
47 47 0.14
48 260 0.75
49 5 0.01
50 34 0.10
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGA
Found at i:45203853 original size:96 final size:96
Alignment explanation
Indices: 45203689--45204164 Score: 666
Period size: 96 Copynumber: 4.9 Consensus size: 96
45203679 ATACTAGGGT
* * *
45203689 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGACATTGGCATTTATATAAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
*
45203754 GACCATTTCTGGGACATGGCATCGGCCTCGA
66 GACCATGTCTGGGACATGGCATCGGCCTCGA
45203785 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* * *
45203850 GACCATGTCCGAGACATGGCATCGACCTCGA
66 GACCATGTCTGGGACATGGCATCGGCCTCGA
* * * * * *
45203881 TATGTGAGCTAGTGTAAGACCATGTTTGAAACATGGCATTGACAATTATATAAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* *
45203946 GACCATGTCTGGGACATGGCATCAGCCTTGA
66 GACCATGTCTGGGACATGGCATCGGCCTCGA
* * *
45203977 TATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATAGGTATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* *
45204042 GACCATGT-TTGGACATGGCATTGGCCTCGA
66 GACCATGTCTGGGACATGGCATCGGCCTCGA
* * * * ** * * *
45204072 TATGTGAGCTAGAGTAAGACCATGTTTGGAACATGACATCTGCACCGATATCTGAGAACCAGTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA--TTTATATGAGAGCTAGTGT
45204137 AAGACCATGTCTGGGACATGGCATCGGC
64 AAGACCATGTCTGGGACATGGCATCGGC
45204165 ATCTTACCCT
Statistics
Matches: 333, Mismatches: 44, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
95 55 0.17
96 239 0.72
97 24 0.07
98 15 0.05
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
GACCATGTCTGGGACATGGCATCGGCCTCGA
Found at i:45206999 original size:20 final size:20
Alignment explanation
Indices: 45206952--45207000 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
45206942 TTCTCAATCA
* **
45206952 TATAAACAGTAATTCATTTG
1 TATAAACAGTAACTCATCCG
45206972 -AT-AACAGTAACTCATCCG
1 TATAAACAGTAACTCATCCG
45206990 TATAAACAGTA
1 TATAAACAGTA
45207001 TGTAACACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 13 0.54
19 4 0.17
20 7 0.29
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (20 bp):
TATAAACAGTAACTCATCCG
Found at i:45207953 original size:40 final size:38
Alignment explanation
Indices: 45207895--45208031 Score: 121
Period size: 38 Copynumber: 3.6 Consensus size: 38
45207885 TGAGGTATAA
* * * **
45207895 AACCCAAACATAACACCAGCACGAAGCCTATGGGACTTT
1 AACCCAGATATAATACCAGCACGAAGCCTACAGGA-TTT
* * * * *
45207934 AAACTCATATATAATACCAGCACTAGGCCTGCAGGATTT
1 -AACCCAGATATAATACCAGCACGAAGCCTACAGGATTT
* * *
45207973 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTACAGGATTT
* *
45208011 AACCCGGATATAATTCCAGCA
1 AACCCAGATATAATACCAGCA
45208032 TATAGCCTGC
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
38 52 0.64
39 3 0.04
40 26 0.32
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.20
Consensus pattern (38 bp):
AACCCAGATATAATACCAGCACGAAGCCTACAGGATTT
Found at i:45208039 original size:38 final size:38
Alignment explanation
Indices: 45207942--45208042 Score: 150
Period size: 38 Copynumber: 2.7 Consensus size: 38
45207932 TTAAACTCAT
*
45207942 ATATAATACCAGCACTAGGCCTGCAGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCAGGATTTAACCCGG
* *
45207980 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCAGGATTTAACCCGG
*
45208018 ATATAATTCCAGCA-TATAGCCTGCA
1 ATATAATACCAGCACTA-AGCCTGCA
45208043 TGTCTTTAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 1 0.02
38 55 0.98
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACTAAGCCTGCAGGATTTAACCCGG
Found at i:45210861 original size:47 final size:47
Alignment explanation
Indices: 45210807--45211262 Score: 698
Period size: 47 Copynumber: 9.6 Consensus size: 47
45210797 TATTTGAATA
*
45210807 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
45210854 AATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
45210903 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
45210950 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
45210997 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
45211046 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCA-ATGTGATG
* *
45211095 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
45211142 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * * *
45211189 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
45211236 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
45211263 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 20, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 245 0.64
48 2 0.01
49 136 0.36
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:45211140 original size:192 final size:190
Alignment explanation
Indices: 45210807--45211262 Score: 747
Period size: 192 Copynumber: 2.4 Consensus size: 190
45210797 TATTTGAATA
*
45210807 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
45210872 TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
66 TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
*
45210937 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
131 AGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* * *
45210997 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
45211062 TATATGTGATAAGGCCTAATGG-CAGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
64 TATATGTGATAAGGCCTAATGGCCA-ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCG
* *
45211126 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
128 AATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* * * * *
45211189 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
45211253 -ATGTGATAAG
66 TATGTGATAAG
45211263 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
188 10 0.04
189 1 0.00
190 55 0.22
191 2 0.01
192 179 0.72
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
AGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
Found at i:45214448 original size:19 final size:19
Alignment explanation
Indices: 45214421--45214459 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
45214411 GCTGTCACAT
*
45214421 AGTACTTCATCCATATAAC
1 AGTAATTCATCCATATAAC
*
45214440 AGTAATTCATCCGTATAAC
1 AGTAATTCATCCATATAAC
45214459 A
1 A
45214460 CATAGTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (19 bp):
AGTAATTCATCCATATAAC
Found at i:45214575 original size:23 final size:24
Alignment explanation
Indices: 45214545--45214625 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 24
45214535 GCTGATGGAT
45214545 AGTAAGCTCT-ATTGAGCTGA-AAC
1 AGTAAGCTCTGA-TGAGCTGAGAAC
*
45214568 AGTAAGCTCTGATGAGCTGAGAGC
1 AGTAAGCTCTGATGAGCTGAGAAC
* * *
45214592 AGTAAGCTCTTACGAGCTGATATACC
1 AGTAAGCTCTGATGAGCTGAGA-A-C
45214618 AGTAAGCT
1 AGTAAGCT
45214626 TGTACGAGCT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.37
24 22 0.45
26 9 0.18
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (24 bp):
AGTAAGCTCTGATGAGCTGAGAAC
Found at i:45221070 original size:19 final size:19
Alignment explanation
Indices: 45220996--45221081 Score: 75
Period size: 19 Copynumber: 4.5 Consensus size: 19
45220986 CATTCTCAAT
*
45220996 CATATTAACAGTAATTCATT
1 CATA-TAACAGTAATTCATC
* * *
45221016 C-GATAATAGTAACTCATC
1 CATATAACAGTAATTCATC
* * *
45221034 CGTATAAACAGCACTTCATC
1 CATAT-AACAGTAATTCATC
45221054 CATATAACAGTAATTCATC
1 CATATAACAGTAATTCATC
*
45221073 CGTATAACA
1 CATATAACA
45221082 CATTGCTTTT
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
18 13 0.25
19 23 0.45
20 15 0.29
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (19 bp):
CATATAACAGTAATTCATC
Found at i:45223387 original size:22 final size:25
Alignment explanation
Indices: 45223320--45223379 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
45223310 TACTCAGTAT
* *
45223320 AACATCAAATTCCAAAAAGGGTAAC
1 AACATCAAATTCTAGAAAGGGTAAC
45223345 AACATCAAATTCTAGAAAGGGTAAC
1 AACATCAAATTCTAGAAAGGGTAAC
45223370 AACATCAAAT
1 AACATCAAAT
45223380 CAGCAGGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (25 bp):
AACATCAAATTCTAGAAAGGGTAAC
Found at i:45226463 original size:49 final size:49
Alignment explanation
Indices: 45226307--45226574 Score: 198
Period size: 49 Copynumber: 5.6 Consensus size: 49
45226297 CAAGAGCCCA
* * * * *
45226307 TGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAGATAT-ACAAGCTAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGA-AAGCCAG
* * * * * * *
45226355 TGTAAGACCTGTATGGGACATGGCATC-AGCTTG-T-TGTG--TGTCAA
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGCCAG
*
45226399 TGTAAGACCTGTCTGGGACATGGCATCGACACT-GATAGT-TGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATA-TATGAAAGCCAG
* * *
45226448 TTTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGCCAG
* ** * **
45226497 TGTAAGACCTGTCTGGGACACGGCATCGA-CTTTA-ATGTGCTAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGCCAG
* * *
45226544 TGCAAGACCATGTCTAGGACATGGCGTCGAC
1 TGTAAGACC-TGTCTGGGACATGGCATCGAC
45226575 ATTTTATCCC
Statistics
Matches: 173, Mismatches: 34, Indels: 25
0.75 0.15 0.11
Matches are distributed among these distances:
44 28 0.16
45 2 0.01
46 5 0.03
47 19 0.11
48 45 0.26
49 74 0.43
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAAAGCCAG
Found at i:45227614 original size:28 final size:28
Alignment explanation
Indices: 45227582--45227698 Score: 173
Period size: 28 Copynumber: 4.2 Consensus size: 28
45227572 ATGGGATATG
* *
45227582 ACACGGGTGTTTCATGGCCGTGTGAGGA
1 ACACGGGCGTGTCATGGCCGTGTGAGGA
45227610 ACACGGGCGTGTCATGGCCGTGTGA-GA
1 ACACGGGCGTGTCATGGCCGTGTGAGGA
*
45227637 GACACGGGCGTGTCATGGCCGTGTGAGGG
1 -ACACGGGCGTGTCATGGCCGTGTGAGGA
* *
45227666 ACACGGGCGTGTCATAGCCGTGTGAGGG
1 ACACGGGCGTGTCATGGCCGTGTGAGGA
45227694 ACACG
1 ACACG
45227699 AGCCATGGAC
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
27 2 0.02
28 80 0.96
29 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.42, T:0.19
Consensus pattern (28 bp):
ACACGGGCGTGTCATGGCCGTGTGAGGA
Found at i:45227653 original size:56 final size:56
Alignment explanation
Indices: 45227581--45227698 Score: 191
Period size: 56 Copynumber: 2.1 Consensus size: 56
45227571 CATGGGATAT
* * *
45227581 GACACGGGTGTTTCATGGCCGTGTGAGGAACACGGGCGTGTCATGGCCGTGTGAGA
1 GACACGGGCGTGTCATGGCCGTGTGAGGAACACGGGCGTGTCATAGCCGTGTGAGA
* *
45227637 GACACGGGCGTGTCATGGCCGTGTGAGGGACACGGGCGTGTCATAGCCGTGTGAGG
1 GACACGGGCGTGTCATGGCCGTGTGAGGAACACGGGCGTGTCATAGCCGTGTGAGA
45227693 GACACG
1 GACACG
45227699 AGCCATGGAC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.18, C:0.21, G:0.42, T:0.19
Consensus pattern (56 bp):
GACACGGGCGTGTCATGGCCGTGTGAGGAACACGGGCGTGTCATAGCCGTGTGAGA
Found at i:45229900 original size:22 final size:22
Alignment explanation
Indices: 45229875--45229918 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
45229865 AACTTATTAA
45229875 ATTGAAGTGTGAAAGCGGGGAT
1 ATTGAAGTGTGAAAGCGGGGAT
45229897 ATTGAAGTGTGAAAGCGGGGAT
1 ATTGAAGTGTGAAAGCGGGGAT
45229919 GTTCTTCGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.23
Consensus pattern (22 bp):
ATTGAAGTGTGAAAGCGGGGAT
Found at i:45234310 original size:48 final size:49
Alignment explanation
Indices: 45234182--45234315 Score: 173
Period size: 49 Copynumber: 2.8 Consensus size: 49
45234172 AAGATATACA
*
45234182 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAG
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTAATAGATGAG
* * * ** **
45234231 AGCCAATGTATGACCTGTCTGGGACACGGCATCGACTTTAAT-G-TGCT
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTAATAGATGAG
45234278 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA
1 AGCCAGTGTAAGACC-TGTCTGGGACATGGCATCGACA
45234316 TTTTATCCCA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
47 15 0.21
48 21 0.29
49 36 0.50
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (49 bp):
AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTAATAGATGAG
Found at i:45238521 original size:38 final size:40
Alignment explanation
Indices: 45238471--45238724 Score: 257
Period size: 46 Copynumber: 6.0 Consensus size: 40
45238461 CTGATATGAA
45238471 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-TG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
45238510 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----ATG
*
45238553 AAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACC-TG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
*
45238594 -TGTGTAAGACTATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT--G
45238639 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC----CATG
* ** *
45238683 AAAAGAATAAGACCATGGTTGAAAGATACCATGACAA-CATG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
45238724 A
1 A
45238725 CAGAAAATGA
Statistics
Matches: 185, Mismatches: 8, Indels: 44
0.78 0.03 0.19
Matches are distributed among these distances:
38 70 0.38
39 1 0.01
41 6 0.03
43 3 0.02
44 1 0.01
45 1 0.01
46 102 0.55
50 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (40 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
Found at i:45238577 original size:46 final size:46
Alignment explanation
Indices: 45238510--45238754 Score: 283
Period size: 46 Copynumber: 5.5 Consensus size: 46
45238500 TGGCAACCTG
*
45238510 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
*
45238556 TGTGTAAGACCATGGTTGAAAGATATCATGGCAACC-----TG---
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
45238594 TGTGTAAGACTATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
45238640 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * * *
45238686 AGAATAAGACCATGGTTGAAAGATACCATGACAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * *
45238732 TGAGTAAAACCATAGTTGAAAGA
1 TGTGTAAGACCATGGTTGAAAGA
45238755 CATTATGGCA
Statistics
Matches: 174, Mismatches: 16, Indels: 18
0.84 0.08 0.09
Matches are distributed among these distances:
38 34 0.20
41 2 0.01
43 2 0.01
45 1 0.01
46 135 0.78
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:45238596 original size:84 final size:84
Alignment explanation
Indices: 45238464--45238674 Score: 386
Period size: 84 Copynumber: 2.5 Consensus size: 84
45238454 GTGCTCTCTG
45238464 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGA
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGA
45238529 AAGATACCATGGCAACCTA
66 AAGATACCATGGCAACCTA
* *
45238548 ATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGTGTGTAAGACTATGGTTGA
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGA
*
45238613 AAGATACCATGGCAACCTG
66 AAGATACCATGGCAACCTA
*
45238632 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
45238675 GTGACATGAA
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 122 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (84 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGA
AAGATACCATGGCAACCTA
Found at i:45239070 original size:23 final size:25
Alignment explanation
Indices: 45239025--45239071 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
45239015 AATAAATATA
*
45239025 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
45239050 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
45239072 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:45240693 original size:21 final size:21
Alignment explanation
Indices: 45240648--45240709 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
45240638 CCCGAATAAG
* *
45240648 TTAACAGAAGC-T-CAAAATC
1 TTAACAGAAGCTTGTAAAAGC
*
45240667 TAAACAGAAGCTTGTAAAAGC
1 TTAACAGAAGCTTGTAAAAGC
* *
45240688 TTAACAGAAGCTAGTAAGAGC
1 TTAACAGAAGCTTGTAAAAGC
45240709 T
1 T
45240710 AATTCACCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 10 0.29
20 1 0.03
21 24 0.69
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (21 bp):
TTAACAGAAGCTTGTAAAAGC
Found at i:45242552 original size:20 final size:20
Alignment explanation
Indices: 45242502--45242552 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
45242492 AAATTAATAC
45242502 AATATTAAA-AATAAAAATT
1 AATATTAAATAATAAAAATT
**
45242521 AATA-TAATATAATTTAAATT
1 AATATTAA-ATAATAAAAATT
*
45242541 CATATTAAATAA
1 AATATTAAATAA
45242553 ATGTCATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.12
19 5 0.19
20 15 0.58
21 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AATATTAAATAATAAAAATT
Found at i:45243145 original size:9 final size:9
Alignment explanation
Indices: 45243128--45243278 Score: 58
Period size: 10 Copynumber: 15.6 Consensus size: 9
45243118 TAGTTATTAA
45243128 AAAAATTTT
1 AAAAATTTT
*
45243137 AAAATTTTT
1 AAAAATTTT
45243146 AAAAA---T
1 AAAAATTTT
45243152 AAAATATTGTT
1 AAAA-ATT-TT
45243163 AAAAATATTT
1 AAAAAT-TTT
* *
45243173 TAAAATTGT
1 AAAAATTTT
45243182 AACAAAGTTATT
1 AA-AAA-TT-TT
*
45243194 AAAAATTAT
1 AAAAATTTT
45243203 AAAACATTAATT
1 AAAA-ATT--TT
45243215 -AAAATTTGT
1 AAAAATTT-T
* **
45243224 AAAAAAATCA
1 -AAAAATTTT
45243234 AAAAATTTT
1 AAAAATTTT
45243243 GAAAAATTATT
1 -AAAAATT-TT
*
45243254 AAATAATTGTA
1 AAA-AATT-TT
*
45243265 AAAAATTAT
1 AAAAATTTT
45243274 AAAAA
1 AAAAA
45243279 AAACTATGAA
Statistics
Matches: 106, Mismatches: 18, Indels: 36
0.66 0.11 0.22
Matches are distributed among these distances:
6 5 0.05
7 1 0.01
8 1 0.01
9 32 0.30
10 34 0.32
11 29 0.27
12 4 0.04
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (9 bp):
AAAAATTTT
Found at i:45243156 original size:15 final size:17
Alignment explanation
Indices: 45243136--45243169 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45243126 AAAAAAATTT
45243136 TAAAAT-TT-TTAAAAA
1 TAAAATATTGTTAAAAA
45243151 TAAAATATTGTTAAAAA
1 TAAAATATTGTTAAAAA
45243168 TA
1 TA
45243170 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 2 0.12
17 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAAATATTGTTAAAAA
Found at i:45243200 original size:21 final size:19
Alignment explanation
Indices: 45243128--45243278 Score: 82
Period size: 21 Copynumber: 7.8 Consensus size: 19
45243118 TAGTTATTAA
* *
45243128 AAAAATT-TTAAAATTTTT
1 AAAAATTATTAAAAATTGT
*
45243146 AAAAA-TA--AAATATTGTT
1 AAAAATTATTAAAAATTG-T
*
45243163 AAAAA-TATTTTAAAATTGT
1 AAAAATTA-TTAAAAATTGT
*
45243182 AACAAAGTTATTAAAAATTAT
1 AA-AAA-TTATTAAAAATTGT
*
45243203 AAAACATTAATTAAAATTTGT
1 AAAA-ATT-ATTAAAAATTGT
* * *
45243224 AAAAA-AATCAAAAAATTTT
1 AAAAATTAT-TAAAAATTGT
45243243 GAAAAATTATTAAATAATTGT
1 -AAAAATTATTAAA-AATTGT
45243264 AAAAAATTA-TAAAAA
1 -AAAAATTATTAAAAA
45243279 AAACTATGAA
Statistics
Matches: 102, Mismatches: 17, Indels: 27
0.70 0.12 0.18
Matches are distributed among these distances:
16 5 0.05
17 9 0.09
18 7 0.07
19 12 0.12
20 26 0.25
21 41 0.40
22 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
AAAAATTATTAAAAATTGT
Found at i:45243238 original size:40 final size:40
Alignment explanation
Indices: 45243194--45243269 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
45243184 CAAAGTTATT
*
45243194 AAAAATTAT-AAAACATTAATTAAA-ATTTGTAAAAAAATCA
1 AAAAATTATGAAAA-ATT-ATTAAATAATTGTAAAAAAATCA
*
45243234 AAAAATTTTGAAAAATTATTAAATAATTGTAAAAAA
1 AAAAATTATGAAAAATTATTAAATAATTGTAAAAAA
45243270 TTATAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 6 0.19
40 22 0.69
41 4 0.12
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (40 bp):
AAAAATTATGAAAAATTATTAAATAATTGTAAAAAAATCA
Found at i:45243280 original size:11 final size:10
Alignment explanation
Indices: 45243174--45243279 Score: 63
Period size: 10 Copynumber: 10.4 Consensus size: 10
45243164 AAAATATTTT
*
45243174 AAAATTGTAA
1 AAAATTATAA
* *
45243184 CAAAGTTATTA
1 -AAAATTATAA
45243195 AAAATTATAA
1 AAAATTATAA
* *
45243205 AACATTAATTA
1 AAAATT-ATAA
* *
45243216 AAATTTGTAA
1 AAAATTATAA
45243226 AAAA--ATCAA
1 AAAATTAT-AA
* *
45243235 AAAATTTTGA
1 AAAATTATAA
45243245 AAAATTATTAA
1 AAAATTA-TAA
* *
45243256 ATAATTGTAA
1 AAAATTATAA
45243266 AAAATTATAA
1 AAAATTATAA
45243276 AAAA
1 AAAA
45243280 AACTATGAAC
Statistics
Matches: 69, Mismatches: 21, Indels: 11
0.68 0.21 0.11
Matches are distributed among these distances:
8 1 0.01
9 6 0.09
10 40 0.58
11 22 0.32
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (10 bp):
AAAATTATAA
Found at i:45243618 original size:9 final size:10
Alignment explanation
Indices: 45243533--45243687 Score: 66
Period size: 9 Copynumber: 16.2 Consensus size: 10
45243523 TAAAAATTAA
45243533 ATAATATTTT
1 ATAATATTTT
*
45243543 ATTAT-TTTT
1 ATAATATTTT
45243552 AT-AT-TTTT
1 ATAATATTTT
*
45243560 TTACA-ATTTT
1 ATA-ATATTTT
*
45243570 AAAATATTTT
1 ATAATATTTT
* *
45243580 AACAATATTTA
1 -ATAATATTTT
45243591 ATAATCA-TTT
1 ATAAT-ATTTT
*
45243601 ACAAT-TTTT
1 ATAATATTTT
45243610 A-AATATTTT
1 ATAATATTTT
* * *
45243619 TTTATAATTT
1 ATAATATTTT
45243629 A-AATACTTTTT
1 ATAATA--TTTT
45243640 ATAAT-TTTT
1 ATAATATTTT
45243649 ATAAT-TTTT
1 ATAATATTTT
45243658 A-AATATTTT
1 ATAATATTTT
*
45243667 -TTATAATTTT
1 ATAAT-ATTTT
*
45243677 -TAATAATTT
1 ATAATATTTT
45243686 AT
1 AT
45243688 TTACAACTTT
Statistics
Matches: 111, Mismatches: 18, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
8 13 0.12
9 42 0.38
10 40 0.36
11 13 0.12
12 3 0.03
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
ATAATATTTT
Found at i:45243656 original size:8 final size:9
Alignment explanation
Indices: 45243617--45243685 Score: 75
Period size: 9 Copynumber: 7.3 Consensus size: 9
45243607 TTTAAATATT
45243617 TTTTTATAA
1 TTTTTATAA
** *
45243626 TTTAAATAC
1 TTTTTATAA
45243635 TTTTTATAA
1 TTTTTATAA
45243644 TTTTTATAA
1 TTTTTATAA
*
45243653 TTTTTAAATAT
1 TTTTT--ATAA
45243664 TTTTTATAA
1 TTTTTATAA
45243673 TTTTTAATAA
1 TTTTT-ATAA
45243683 TTT
1 TTT
45243686 ATTTACAACT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
9 34 0.69
10 7 0.14
11 8 0.16
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:45243667 original size:20 final size:20
Alignment explanation
Indices: 45243529--45243685 Score: 76
Period size: 19 Copynumber: 8.0 Consensus size: 20
45243519 TTTTTAAAAA
* *
45243529 TTAAATAATATTTTATTATTT
1 TTAAAT-ATTTTTTATAATTT
* *
45243550 TTATAT-TTTTTTACAATTT
1 TTAAATATTTTTTATAATTT
* * * *
45243569 TAAAATA-TTTTAACAATAT
1 TTAAATATTTTTTATAATTT
** *
45243588 TT-AATAATCATTTACAATTT
1 TTAAAT-ATTTTTTATAATTT
45243608 TTAAATATTTTTTTATAA--T
1 TTAAATA-TTTTTTATAATTT
*
45243627 TTAAATACTTTTTATAATTT
1 TTAAATATTTTTTATAATTT
** *
45243647 TTATAAT-TTTTAAATATTTT
1 TTA-AATATTTTTTATAATTT
* *
45243667 TTATA-ATTTTTAATAATTT
1 TTAAATATTTTTTATAATTT
45243686 ATTTACAACT
Statistics
Matches: 103, Mismatches: 24, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
18 12 0.12
19 46 0.45
20 27 0.26
21 18 0.17
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAAATATTTTTTATAATTT
Found at i:45243675 original size:10 final size:10
Alignment explanation
Indices: 45243635--45243702 Score: 68
Period size: 9 Copynumber: 6.7 Consensus size: 10
45243625 ATTTAAATAC
45243635 TTTTTATAA-
1 TTTTTATAAT
45243644 TTTTTATAA-
1 TTTTTATAAT
*
45243653 TTTTTAAATAT
1 TTTTTATA-AT
45243664 TTTTTATAAT
1 TTTTTATAAT
*
45243674 TTTTAATAAT
1 TTTTTATAAT
*
45243684 TTATTTACAACT
1 TT-TTTATAA-T
45243696 TTTTTAT
1 TTTTTAT
45243703 TTATTCAACG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
9 16 0.33
10 14 0.29
11 16 0.33
12 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:45243678 original size:29 final size:29
Alignment explanation
Indices: 45243617--45243685 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
45243607 TTTAAATATT
45243617 TTTTTATAA--TTTAAATACTTTTTATAA
1 TTTTTATAATTTTTAAATACTTTTTATAA
*
45243644 TTTTTATAATTTTTAAATATTTTTTATAA
1 TTTTTATAATTTTTAAATACTTTTTATAA
45243673 TTTTTAATAATTT
1 TTTTT-ATAATTT
45243686 ATTTACAACT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 9 0.24
29 22 0.58
30 7 0.18
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTTATAATTTTTAAATACTTTTTATAA
Found at i:45246718 original size:21 final size:22
Alignment explanation
Indices: 45246694--45246741 Score: 89
Period size: 21 Copynumber: 2.2 Consensus size: 22
45246684 ACTAAATTCT
45246694 ATATTTGTATGATTTGAATTG-
1 ATATTTGTATGATTTGAATTGA
45246715 ATATTTGTATGATTTGAATTGA
1 ATATTTGTATGATTTGAATTGA
45246737 ATATT
1 ATATT
45246742 GTTGTGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (22 bp):
ATATTTGTATGATTTGAATTGA
Found at i:45246947 original size:25 final size:24
Alignment explanation
Indices: 45246919--45246997 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 24
45246909 ATAAGTATCC
**
45246919 CGATATTTGGCTCTCACAAGCTTCT
1 CGAT-TTTGGCTCTCATGAGCTTCT
* * *
45246944 CGATTAATGGCTCTCTTGAGCTTCC
1 CGATT-TTGGCTCTCATGAGCTTCT
*
45246969 CGATTTATGGCTCGCATGAGCTTCT
1 CGATTT-TGGCTCTCATGAGCTTCT
45246994 CGAT
1 CGAT
45246998 ATACAGCTCG
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
24 1 0.02
25 42 0.98
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (24 bp):
CGATTTTGGCTCTCATGAGCTTCT
Found at i:45247006 original size:25 final size:25
Alignment explanation
Indices: 45246960--45247068 Score: 67
Period size: 25 Copynumber: 4.4 Consensus size: 25
45246950 ATGGCTCTCT
* **
45246960 TGAGCTTCCCGATTTATGGCTCGCA
1 TGAGCTTCCCGATATACAGCTCGCA
*
45246985 TGAGCTTCTCGATATACAGCTCG-A
1 TGAGCTTCCCGATATACAGCTCGCA
* * * * *
45247009 TTGAGCCTCCTGTTATATAGCTCACA
1 -TGAGCTTCCCGATATACAGCTCGCA
* * ** *
45247035 TGAGTTTCCCGTTATATGGCTCGAA
1 TGAGCTTCCCGATATACAGCTCGCA
*
45247060 AGAGCTTCC
1 TGAGCTTCC
45247069 TGTTTACATG
Statistics
Matches: 64, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
24 1 0.02
25 62 0.97
26 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (25 bp):
TGAGCTTCCCGATATACAGCTCGCA
Found at i:45248865 original size:21 final size:21
Alignment explanation
Indices: 45248839--45248880 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
45248829 ATACCTGGTA
*
45248839 AAAAGTATCGGTACTTTTTGT
1 AAAAGTATCGATACTTTTTGT
45248860 AAAAGTATCGATACTTTTTGT
1 AAAAGTATCGATACTTTTTGT
45248881 GTTGATTAAA
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:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (21 bp):
AAAAGTATCGATACTTTTTGT
Found at i:45263269 original size:5 final size:5
Alignment explanation
Indices: 45263259--45263288 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
45263249 TGTTAAATTT
*
45263259 GGTGA GGTGA GGTGA GGTAA GGTGA GGTGA
1 GGTGA GGTGA GGTGA GGTGA GGTGA GGTGA
45263289 AGGTAGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.57, T:0.20
Consensus pattern (5 bp):
GGTGA
Found at i:45263283 original size:15 final size:16
Alignment explanation
Indices: 45263263--45263293 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
45263253 AAATTTGGTG
45263263 AGGTGAGGTG-AGGTA
1 AGGTGAGGTGAAGGTA
45263278 AGGTGAGGTGAAGGTA
1 AGGTGAGGTGAAGGTA
45263294 GAATTAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.52, T:0.19
Consensus pattern (16 bp):
AGGTGAGGTGAAGGTA
Found at i:45263416 original size:29 final size:29
Alignment explanation
Indices: 45263365--45263425 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
45263355 TCTTTATAAT
*
45263365 TTTTAAAAGATTAGATCAAAATTTTATTA
1 TTTTAAAAGATTAAATCAAAATTTTATTA
*
45263394 TTTTAAAAGATTAAAGT-ACAATTTTATTA
1 TTTTAAAAGATTAAA-TCAAAATTTTATTA
45263423 TTT
1 TTT
45263426 ATTAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (29 bp):
TTTTAAAAGATTAAATCAAAATTTTATTA
Found at i:45264008 original size:20 final size:20
Alignment explanation
Indices: 45263973--45264013 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
45263963 ACCTTCTTAT
45263973 AATTATTAATTACAAATAAAA
1 AATTATTAATTACAAA-AAAA
*
45263994 AATTATTGA-TACAAAAAAA
1 AATTATTAATTACAAAAAAA
45264013 A
1 A
45264014 TATAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 6 0.32
21 8 0.42
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (20 bp):
AATTATTAATTACAAAAAAA
Found at i:45266875 original size:30 final size:30
Alignment explanation
Indices: 45266841--45266902 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
45266831 ACTTATTTTA
45266841 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
45266871 TTGTTAATTTTGTTATTATTTTAGAGTCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
45266901 TT
1 TT
45266903 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:45270775 original size:27 final size:27
Alignment explanation
Indices: 45270714--45270775 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
45270704 TATATAAAAC
45270714 ATATAATACTAGATTAAAAAAATATAT
1 ATATAATACTAGATTAAAAAAATATAT
* * *
45270741 ATACAATA-TATATTGAAAACAATA-AT
1 ATATAATACTAGATT-AAAAAAATATAT
45270767 AATATAATA
1 -ATATAATA
45270776 ACTAATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (27 bp):
ATATAATACTAGATTAAAAAAATATAT
Found at i:45271021 original size:23 final size:23
Alignment explanation
Indices: 45270990--45271033 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
45270980 ATTGAGTATT
* *
45270990 AAAAGTATATATATAATATAGAC
1 AAAAATATATACATAATATAGAC
*
45271013 AAAAATATATGCATAATATAG
1 AAAAATATATACATAATATAG
45271034 TATTGAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAATATATACATAATATAGAC
Found at i:45271162 original size:24 final size:23
Alignment explanation
Indices: 45271116--45271197 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 23
45271106 ATATATAAAA
45271116 ATAATA-ATATTAAAAATATTATAC
1 ATAATATATATT-AAAATA-TATAC
*
45271140 ATAATATATATATAGAATATATAC
1 ATAATATATAT-TAAAATATATAC
45271164 ATAATATAGTATTAAAATATATAC
1 ATAATATA-TATTAAAATATATAC
*
45271188 ATAACATATA
1 ATAATATATA
45271198 CATATTAGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
23 2 0.04
24 37 0.71
25 12 0.23
26 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (23 bp):
ATAATATATATTAAAATATATAC
Found at i:45271177 original size:50 final size:48
Alignment explanation
Indices: 45271092--45271201 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 48
45271082 TGATATTAAA
45271092 AATATATACATAACATATATAAAAATAATAATATTAAAAATATTATACAT
1 AATATATACATAACATATATAAAAATAATAATATT-AAAATA-TATACAT
* * *
45271142 AATATATATATAGA-ATATATACATAAT-ATAGTATTAAAATATATACAT
1 AATATATACATA-ACATATATA-AAAATAATAATATTAAAATATATACAT
*
45271190 AACATATACATA
1 AATATATACATA
45271202 TTAGAAATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
48 17 0.32
49 6 0.11
50 25 0.47
51 5 0.09
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (48 bp):
AATATATACATAACATATATAAAAATAATAATATTAAAATATATACAT
Found at i:45271257 original size:11 final size:11
Alignment explanation
Indices: 45271241--45271283 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
45271231 TACTATTAAT
45271241 AATACTACATA
1 AATACTACATA
45271252 AATACTACATA
1 AATACTACATA
*
45271263 AATATTA-A-A
1 AATACTACATA
*
45271272 AATAATACATA
1 AATACTACATA
45271283 A
1 A
45271284 CAATATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
11 19 0.68
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (11 bp):
AATACTACATA
Done.