Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 133 of 362
Found at i:44053146 original size:136 final size:136
Alignment explanation
Indices: 44052881--44053194 Score: 432
Period size: 136 Copynumber: 2.3 Consensus size: 136
44052871 TAAATTGTAC
** * *
44052881 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
* * *
44052946 TGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGA
66 TGCGAAATGAACATGAGGCACTAAGTGTGCGAATTGACCATGCAGCACTAAGTGTGCGAGTTTGA
*
44053011 CTATGT
131 CTACGT
*
44053017 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
* * * * * *
44053082 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGA-TTTG
66 TGCGAAATGAACATGAGGCACTAAGTGTGCGA-ATTGACCATGCAGCACTAAGTGTGCGAGTTTG
*
44053146 ATTACGT
130 ACTACGT
* * * *
44053153 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCG
44053195 GACTCAATAT
Statistics
Matches: 156, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
136 133 0.85
137 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (136 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
TGCGAAATGAACATGAGGCACTAAGTGTGCGAATTGACCATGCAGCACTAAGTGTGCGAGTTTGA
CTACGT
Found at i:44055889 original size:56 final size:54
Alignment explanation
Indices: 44055747--44055889 Score: 130
Period size: 56 Copynumber: 2.5 Consensus size: 54
44055737 CCACATGTTG
*
44055747 TAAAAAGGATTTAGCCTGGACGAGTAATCCTAATATAAGCCGCTTGAGCCAATGC
1 TAAAAAGGATTTAGCCTGGACG-GTAATCCAAATATAAGCCGCTTGAGCCAATGC
** * * *
44055802 TATAGATTGGATTTAGCCCGGACGGGCAATCCAAAT-TAAG-CTCTTAGAG-CATATGTCC
1 TA-A-AAAGGATTTAGCCTGGAC-GGTAATCCAAATATAAGCCGCTT-GAGCCA-ATG--C
44055860 TAAAAAGGATTTAGCCTGGACTGGTAATCC
1 TAAAAAGGATTTAGCCTGGAC-GGTAATCC
44055890 TATAACATAA
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
55 8 0.11
56 33 0.47
57 25 0.36
58 4 0.06
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (54 bp):
TAAAAAGGATTTAGCCTGGACGGTAATCCAAATATAAGCCGCTTGAGCCAATGC
Found at i:44058095 original size:28 final size:28
Alignment explanation
Indices: 44058034--44058095 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
44058024 GCTCAAACAG
* **
44058034 GGGAATATGACAGTGTGTGAGTATGAGT
1 GGGAATATGACAGTGTGTGACTATGAAC
* * *
44058062 GAGAATATGATAGTGTTTGACTATGAAC
1 GGGAATATGACAGTGTGTGACTATGAAC
44058090 GGGAAT
1 GGGAAT
44058096 TTGTTAGATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.34, T:0.29
Consensus pattern (28 bp):
GGGAATATGACAGTGTGTGACTATGAAC
Found at i:44061028 original size:35 final size:35
Alignment explanation
Indices: 44060989--44061061 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
44060979 ACACATTCTT
*
44060989 TATTCTCGTCTGATCAATCTCAAATAAATAATATA
1 TATTCTCGTCAGATCAATCTCAAATAAATAATATA
*
44061024 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCAAATAAATAATATA
44061059 TAT
1 TAT
44061062 ATCACATACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (35 bp):
TATTCTCGTCAGATCAATCTCAAATAAATAATATA
Found at i:44093900 original size:126 final size:126
Alignment explanation
Indices: 44093675--44093926 Score: 486
Period size: 126 Copynumber: 2.0 Consensus size: 126
44093665 TAGTTTAATC
44093675 TCTTTATTTAGGGGATTAATCTGAAAAGATATCAATGTATGAAATTTGGGTCATGGATGAATATG
1 TCTTTATTTAGGGGATTAATCTGAAAAGATATCAATGTATGAAATTTGGGTCATGGATGAATATG
* *
44093740 CTGAAAATTTGAAATTTATGGTATAAAATAAGACCGGTAGGTTTGTTTTTCGTTATACGAA
66 CTGAAAATTAGAAATTTATGGTAGAAAATAAGACCGGTAGGTTTGTTTTTCGTTATACGAA
44093801 TCTTTATTTAGGGGATTAATCTGAAAAGATATCAATGTATGAAATTTGGGTCATGGATGAATATG
1 TCTTTATTTAGGGGATTAATCTGAAAAGATATCAATGTATGAAATTTGGGTCATGGATGAATATG
44093866 CTGAAAATTAGAAATTTATGGTAGAAAATAAGACCGGTAGGTTTGTTTTTCGTTATACGAA
66 CTGAAAATTAGAAATTTATGGTAGAAAATAAGACCGGTAGGTTTGTTTTTCGTTATACGAA
44093927 CTTACTAAGC
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 124 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (126 bp):
TCTTTATTTAGGGGATTAATCTGAAAAGATATCAATGTATGAAATTTGGGTCATGGATGAATATG
CTGAAAATTAGAAATTTATGGTAGAAAATAAGACCGGTAGGTTTGTTTTTCGTTATACGAA
Found at i:44099711 original size:30 final size:31
Alignment explanation
Indices: 44099630--44099712 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
44099620 TCAGTCTCGA
44099630 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
44099660 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
44099691 CATATCACT-GGCCAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
44099713 ACTGTAAGTG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 17 0.33
31 34 0.67
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:44099953 original size:25 final size:26
Alignment explanation
Indices: 44099925--44099977 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
44099915 GCCTAGCCTC
44099925 TTTTAAT-AACTGGGGCAAAGCCCTT
1 TTTTAATAAACTGGGGCAAAGCCCTT
*
44099950 TTTTGATAAACTGGGGCAAAGCCCTT
1 TTTTAATAAACTGGGGCAAAGCCCTT
44099976 TT
1 TT
44099978 CGGTAAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (26 bp):
TTTTAATAAACTGGGGCAAAGCCCTT
Found at i:44099984 original size:25 final size:26
Alignment explanation
Indices: 44099932--44099986 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
44099922 CTCTTTTAAT
*
44099932 AACTGGGGCAAAGCCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTCGATA
*
44099958 AACTGGGGCAAAGCCC-TTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCGATA
44099983 AACT
1 AACT
44099987 ACGGCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:44099992 original size:25 final size:25
Alignment explanation
Indices: 44099938--44100002 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
44099928 TAATAACTGG
* **
44099938 GGCAAAGCCCTTTTTTGATAAACTGG
1 GGCAAAGCCC-TTTTCGATAAACTAC
*
44099964 GGCAAAGCCCTTTTCGGTAAACTAC
1 GGCAAAGCCCTTTTCGATAAACTAC
44099989 GGCATAA-CCCTTTT
1 GGCA-AAGCCCTTTT
44100003 AGCACTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.65
26 12 0.35
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (25 bp):
GGCAAAGCCCTTTTCGATAAACTAC
Found at i:44100963 original size:26 final size:26
Alignment explanation
Indices: 44100926--44101022 Score: 79
Period size: 26 Copynumber: 3.6 Consensus size: 26
44100916 GTAAATCTAC
44100926 AAACCAAGGGTATTTC-AGTAATTTGT
1 AAACCAAGGGTATTTCTA-TAATTTGT
* *
44100952 AAACCAATGGTATTTCTATAATTTTT
1 AAACCAAGGGTATTTCTATAATTTGT
* * *
44100978 AGAAAGTCAAGGCTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAA-TTTGT
* *
44101008 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
44101023 TGGTAATTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
26 22 0.39
27 11 0.19
28 6 0.11
29 14 0.25
30 4 0.07
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (26 bp):
AAACCAAGGGTATTTCTATAATTTGT
Found at i:44101028 original size:27 final size:27
Alignment explanation
Indices: 44101013--44101111 Score: 146
Period size: 27 Copynumber: 3.7 Consensus size: 27
44101003 TTTGTAAATC
44101013 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
44101039 TGAGGGTATTTCGGTAATTTCACAAACT
1 AG-GGGTATTTTGGTAATTTTACAAACT
*
44101067 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
44101094 AGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
44101112 CTACCCTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.02
27 60 0.95
28 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:44101033 original size:55 final size:53
Alignment explanation
Indices: 44100911--44101091 Score: 159
Period size: 54 Copynumber: 3.3 Consensus size: 53
44100901 TACAAGGGTG
* * * *
44100911 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAA-TTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTA
* * * * *
44100964 TTTCT-ATAATTTTTAGAAAGTCAAGGCTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTATTTCAGTAATTTTGTAAA-CAGTGGTA
** * ***
44101020 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC-AGTGGTA
44101074 TTTTGGTAATTTTACAAA
1 TTTTGGTAATTTTACAAA
44101092 CTAGGGGTAT
Statistics
Matches: 102, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
53 7 0.07
54 51 0.50
55 24 0.24
56 20 0.20
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (53 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAACAGTGGTA
Found at i:44101173 original size:27 final size:27
Alignment explanation
Indices: 44101143--44101234 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
44101133 ATAATTTCAC
* *
44101143 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCAAGGGTAAAACAGTAATTTTGTA
*
44101170 AATCAAGGGTAAAATAGTAATTTTGTA
1 AATCAAGGGTAAAACAGTAATTTTGTA
* *
44101197 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCAAGGGTAAAACAGTAATTTTGTA
*
44101224 AATCGAGGGTA
1 AATCAAGGGTA
44101235 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCAAGGGTAAAACAGTAATTTTGTA
Found at i:44109313 original size:15 final size:15
Alignment explanation
Indices: 44109293--44109324 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44109283 AATACAAAAG
44109293 GCACGTGACTTAATA
1 GCACGTGACTTAATA
44109308 GCACGTGACTTAATA
1 GCACGTGACTTAATA
44109323 GC
1 GC
44109325 TTACTTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (15 bp):
GCACGTGACTTAATA
Found at i:44109762 original size:54 final size:54
Alignment explanation
Indices: 44109602--44109770 Score: 189
Period size: 55 Copynumber: 3.1 Consensus size: 54
44109592 TCTTATGTGG
* * * *
44109602 TATCCTTGCCTTAT-GAACTCACCAATGTCATGCTTTGGCATGGTCTTACATGG
1 TATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA
* * ** *
44109655 GA-CCTTTGCCTTATAGTAACTCATCAATGCTATATCTTGACATGGTCTTACATGA
1 TATCC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA
* * * *
44109710 TTTCCTTCCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTCACATGA
1 TATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA
44109764 TATCCTT
1 TATCCTT
44109771 ATCTTACCAA
Statistics
Matches: 93, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
52 2 0.02
53 10 0.11
54 39 0.42
55 40 0.43
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (54 bp):
TATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA
Found at i:44110029 original size:44 final size:44
Alignment explanation
Indices: 44109963--44110046 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 44
44109953 TCCTTAACCG
* *
44109963 TCAATTCCTCCTCAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTCAAATGCCATGGTA-CAACCATGGACTTTTCCA
* * * *
44110007 TCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTCAAATGCCATGGTACAACCATGGACTTT
44110047 GAGATATCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 2 0.06
44 31 0.94
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTCAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:44110625 original size:30 final size:31
Alignment explanation
Indices: 44110586--44110643 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
44110576 CTAACTCAAA
*
44110586 CTTTGGCAAAATTACAATTTTTCCCCTAAAC
1 CTTTGGCAAAATTACAATTTTACCCCTAAAC
**
44110617 CTTT-GCAAAATTATGATTTTACCCCTA
1 CTTTGGCAAAATTACAATTTTACCCCTA
44110644 GGCTCGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTACCCCTAAAC
Found at i:44112501 original size:10 final size:10
Alignment explanation
Indices: 44112486--44112528 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
44112476 CAATTCACTA
44112486 ACCAAATCAT
1 ACCAAATCAT
*
44112496 ACCAAATCTAA
1 ACCAAATC-AT
44112507 ACCAAAATCAT
1 ACC-AAATCAT
*
44112518 ACCAAAGCAT
1 ACCAAATCAT
44112528 A
1 A
44112529 TGTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:44113360 original size:42 final size:42
Alignment explanation
Indices: 44113259--44113418 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 42
44113249 CGCTCGTACA
* *** * * *
44113259 ATGCCAACATCCCAGAAATGGTCTTACATATAATCAAATATTG
1 ATGCCAACGTCCCAGACGCGGTCTTACACAAAATCAAATA-CG
*
44113302 ATGCC-ACTGTCTCAGACAG-GGTCTTACACAAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GCGGTCTTACACAAAATCAAATACG
* * *
44113344 ATGCCAATGTCCCAGACGCGTTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGCGGTCTTACAC-AAAATCA-AA-TACG
* *
44113388 ATACCAACGTCCCAGACGTGGTCTTACACAA
1 ATGCCAACGTCCCAGACGCGGTCTTACACAA
44113419 TAACACATAT
Statistics
Matches: 94, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.27
43 38 0.40
44 29 0.31
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGCGGTCTTACACAAAATCAAATACG
Found at i:44115382 original size:57 final size:57
Alignment explanation
Indices: 44115273--44115388 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
44115263 TGTGAAGCCC
* * * **
44115273 ATTGATTTATAGGAATAGCATTAATTACCAAAGCTATTGATAATGATGATTAAATGT
1 ATTGATTGATAGAAATAGCATTAATTACCAAAGCTATTGATAACGACAATTAAATGT
* *
44115330 ATTGATTGATAGAAATAGCATTAATTACCAAAGCTATTGATGACGGCAATTAAATGT
1 ATTGATTGATAGAAATAGCATTAATTACCAAAGCTATTGATAACGACAATTAAATGT
44115387 AT
1 AT
44115389 ACCTCAGAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (57 bp):
ATTGATTGATAGAAATAGCATTAATTACCAAAGCTATTGATAACGACAATTAAATGT
Found at i:44117240 original size:48 final size:48
Alignment explanation
Indices: 44117053--44117267 Score: 167
Period size: 48 Copynumber: 4.5 Consensus size: 48
44117043 TAGCTATATG
* *
44117053 CATGATCTGGGACATGGCATTGGTATCGATATGTGATCCCATGTAAGAC
1 CATG-TCTGGGACATGGCATTGGCATCGATATGTCATCCCATGTAAGAC
* * * * * * *
44117102 CATGTATAGAACATGGCATGGGCATCAATATGAGACAT--CGTGTAAGAC
1 CATGTCTGGGACATGGCATTGGCATCGATAT--GTCATCCCATGTAAGAC
* * * *
44117150 CATGT-TGGG-CTATCAGCTTTGACAT-G-CAT-T-ATCCCATGTAAGAC
1 CATGTCTGGGAC-AT-GGCATTGGCATCGATATGTCATCCCATGTAAGAC
*
44117194 CATGTCTGGGACATGGAATTGGCATCGATATGTCATCCCATGTAAGAC
1 CATGTCTGGGACATGGCATTGGCATCGATATGTCATCCCATGTAAGAC
* * * *
44117242 CATATCTAGGATATGGAATTGGCATC
1 CATGTCTGGGACATGGCATTGGCATC
44117268 CAACTATGTG
Statistics
Matches: 127, Mismatches: 27, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
42 2 0.02
44 21 0.17
45 7 0.06
46 6 0.05
47 5 0.04
48 79 0.62
49 4 0.03
50 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (48 bp):
CATGTCTGGGACATGGCATTGGCATCGATATGTCATCCCATGTAAGAC
Found at i:44124743 original size:46 final size:46
Alignment explanation
Indices: 44124690--44124865 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
44124680 CGGTTGAACA
*
44124690 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
* *** * *
44124736 TCCGAACTCGTTGAGTTGAGTCCGATTTCGAGAGATGTAACTAG-G-CA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAAG
* *
44124783 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
* *
44124829 -CTCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44124866 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 2 0.02
46 65 0.61
47 31 0.29
48 2 0.02
49 2 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
Found at i:44132075 original size:22 final size:22
Alignment explanation
Indices: 44132050--44132102 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
44132040 TGAACCACAC
*
44132050 GAGCGTGTGGAATTTTGGACCA
1 GAGCGTGTGGAATTCTGGACCA
*
44132072 GAGCGTGTGGAATTCTGGGCCA
1 GAGCGTGTGGAATTCTGGACCA
44132094 G-GCCGTGTG
1 GAG-CGTGTG
44132103 ATCCACAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.17, C:0.17, G:0.42, T:0.25
Consensus pattern (22 bp):
GAGCGTGTGGAATTCTGGACCA
Found at i:44140579 original size:13 final size:13
Alignment explanation
Indices: 44140561--44140585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44140551 GGTTTGTTTA
44140561 TTAAACTAATTAT
1 TTAAACTAATTAT
44140574 TTAAACTAATTA
1 TTAAACTAATTA
44140586 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:44143867 original size:64 final size:66
Alignment explanation
Indices: 44143786--44143947 Score: 177
Period size: 67 Copynumber: 2.5 Consensus size: 66
44143776 AGACATTATG
* * * * * *
44143786 ATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGTTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
*
44143849 T
66 A
* * *
44143850 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
44143915 AA
65 AA
* *
44143917 AT-TGGCTAGGTCACATGGGTGGTACTGAGTG
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTG
44143948 TTCTCCATGT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
64 23 0.29
66 24 0.30
67 32 0.41
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.25
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
A
Found at i:44148000 original size:68 final size:66
Alignment explanation
Indices: 44147928--44148099 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
44147918 CATCATGTGT
* * * *
44147928 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
44147991 TGTAG
62 TGTAG
** * *
44147996 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
44148061 AG
65 AG
* * * *
44148063 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
44148100 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:44148033 original size:64 final size:64
Alignment explanation
Indices: 44147952--44148135 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
44147942 AGACATTATG
* * *
44147952 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
44148016 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
44148081 AA
63 AA
* * *
44148083 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
44148136 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:44151593 original size:65 final size:65
Alignment explanation
Indices: 44151511--44151672 Score: 159
Period size: 65 Copynumber: 2.5 Consensus size: 65
44151501 AGACATTATG
* * * * *
44151511 ATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGTTACGGGAAT
1 ATGTAGCTAGGTCGCATGGGTG-TACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAG-AT
*
44151574 AT
64 AA
* * *
44151576 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GTACTA-GTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
44151641 AA
64 AA
* *
44151643 AT-TGGCTAGGTCACATGGGTGTACTGAGTG
1 ATGTAGCTAGGTCGCATGGGTGTACT-AGTG
44151673 TTCTCCATGT
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
65 28 0.36
66 17 0.22
67 7 0.09
68 26 0.33
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.25
Consensus pattern (65 bp):
ATGTAGCTAGGTCGCATGGGTGTACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:44159336 original size:64 final size:66
Alignment explanation
Indices: 44159255--44159416 Score: 177
Period size: 67 Copynumber: 2.5 Consensus size: 66
44159245 AGACATTATG
* * * * * *
44159255 ATGTAGCTAGGTTGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGTTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
*
44159318 T
66 A
* * *
44159319 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
44159384 AA
65 AA
* *
44159386 AT-TGGCTAGGTCACATGGGTGGTACTGAGTG
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTG
44159417 TTCTCCATGT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
64 23 0.29
66 24 0.30
67 32 0.41
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.25
Consensus pattern (66 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
A
Found at i:44163532 original size:64 final size:64
Alignment explanation
Indices: 44163451--44163634 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
44163441 ATACATTATG
* * *
44163451 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
44163515 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
44163580 AA
63 AA
* * *
44163582 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
44163635 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:44165683 original size:34 final size:34
Alignment explanation
Indices: 44165635--44165701 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
44165625 TTTTAAGAGC
44165635 AAATCAAGTCGATACAATATAGAAATCATACTTT
1 AAATCAAGTCGATACAATATAGAAATCATACTTT
*
44165669 AAATTAAGTCGATACAATATAGAAATCATACTT
1 AAATCAAGTCGATACAATATAGAAATCATACTT
44165702 CATGATTCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (34 bp):
AAATCAAGTCGATACAATATAGAAATCATACTTT
Found at i:44166788 original size:6 final size:6
Alignment explanation
Indices: 44166764--44166851 Score: 119
Period size: 6 Copynumber: 14.7 Consensus size: 6
44166754 TATGCCTTTC
44166764 AAAAT- AAAATAA TAAAATA AAAATA AAAATA AAAAT- AAAAT- AAAATA
1 AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
44166811 AAAATA AAAATA AAAATA AAAATA AAACTAA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAA
44166852 ATAGGAGGAT
Statistics
Matches: 76, Mismatches: 2, Indels: 9
0.87 0.02 0.10
Matches are distributed among these distances:
5 15 0.20
6 50 0.66
7 6 0.08
8 5 0.07
ACGTcount: A:0.82, C:0.01, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:44166813 original size:28 final size:29
Alignment explanation
Indices: 44166764--44166851 Score: 133
Period size: 28 Copynumber: 2.9 Consensus size: 29
44166754 TATGCCTTTC
44166764 AAAATAAAATAATAAAATAAAAATAAAAATA
1 AAAAT-AAA-AATAAAATAAAAATAAAAATA
44166795 AAAAT-AAAATAAAATAAAAATAAAAATA
1 AAAATAAAAATAAAATAAAAATAAAAATA
44166823 AAAATAAAAATAAAACTAAAAAATAAAAA
1 AAAATAAAAATAAAA-T-AAAAATAAAAA
44166852 ATAGGAGGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
28 26 0.48
29 11 0.20
30 1 0.02
31 16 0.30
ACGTcount: A:0.82, C:0.01, G:0.00, T:0.17
Consensus pattern (29 bp):
AAAATAAAAATAAAATAAAAATAAAAATA
Found at i:44173033 original size:38 final size:38
Alignment explanation
Indices: 44172982--44173059 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
44172972 TCTTTCTAGG
44172982 TCACACTTAGGGTGTTTATATAGGCTTTGGATTGGCTT
1 TCACACTTAGGGTGTTTATATAGGCTTTGGATTGGCTT
44173020 TCACACTTAGGGTGTTTATATAGGCTTTGGATTGGCTT
1 TCACACTTAGGGTGTTTATATAGGCTTTGGATTGGCTT
44173058 TC
1 TC
44173060 TTCCTCCCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.18, C:0.14, G:0.26, T:0.42
Consensus pattern (38 bp):
TCACACTTAGGGTGTTTATATAGGCTTTGGATTGGCTT
Found at i:44175370 original size:27 final size:27
Alignment explanation
Indices: 44175329--44175483 Score: 220
Period size: 27 Copynumber: 5.7 Consensus size: 27
44175319 TGGATAAGTT
*
44175329 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
**
44175356 GTAGAAATATTGAAATACCCCTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
*
44175383 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
* * *
44175410 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
*
44175437 GTAGAAATACCAAAATACCCCTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGG
* *
44175464 GTAGAATTACCGAGATACCC
1 GTAGAAATACCGAAATACCC
44175484 TTATGGGTTA
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
GTAGAAATACCGAAATACCCCTGTAGG
Found at i:44175465 original size:81 final size:81
Alignment explanation
Indices: 44175330--44175483 Score: 263
Period size: 81 Copynumber: 1.9 Consensus size: 81
44175320 GGATAAGTTG
***
44175330 TAGAATTACCGAAATACCCCTGTAGGGTAGAAATATTGAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCG
44175395 AAATACCCCTGTAGGA
66 AAATACCCCTGTAGGA
*
44175411 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCG
*
44175476 AGATACCC
66 AAATACCC
44175484 TTATGGGTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (81 bp):
TAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCG
AAATACCCCTGTAGGA
Found at i:44175499 original size:81 final size:81
Alignment explanation
Indices: 44175333--44175501 Score: 248
Period size: 81 Copynumber: 2.1 Consensus size: 81
44175323 TAAGTTGTAG
***
44175333 AATTACCGAAATACCCCTGTAGGGTAGAAATATTGAAATACCCCTGTAGGGTAGAATTACCGAAA
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCGAAA
* *
44175398 TACCCCTGTAGGATAG
66 TACCCCTATAGGATAA
* *
44175414 AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCGAGA
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCGAAA
* * *
44175479 TACCCTTATGGGTTAA
66 TACCCCTATAGGATAA
44175495 AATTACC
1 AATTACC
44175502 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (81 bp):
AATTACCGAAATACCCCTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCGAAA
TACCCCTATAGGATAA
Found at i:44175502 original size:54 final size:53
Alignment explanation
Indices: 44175333--44175502 Score: 200
Period size: 54 Copynumber: 3.2 Consensus size: 53
44175323 TAAGTTGTAG
* * ** *
44175333 AATTACCGAAATACCCCTGTAGGGTAGAAATATTGAAATACCCCTGTA-GGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATA-CCCT-TATGGGTAA
* * *
44175387 AATTACCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAGA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTAT-GGGTA-A
*
44175442 AA-TACCAAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTATGGGTTAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATGGG-TAA
44175495 AATTACCA
1 AATTACCA
44175503 TTTTGCCCCT
Statistics
Matches: 101, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
52 1 0.01
53 10 0.10
54 88 0.87
55 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (53 bp):
AATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATGGGTAA
Found at i:44182923 original size:27 final size:27
Alignment explanation
Indices: 44182889--44183088 Score: 247
Period size: 27 Copynumber: 7.4 Consensus size: 27
44182879 TGGATAAGTT
* *
44182889 GTAGAATTATCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
44182916 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
** *
44182943 GTAGAATTATTGAAATACCTTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
44182970 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
44182997 ATAGAATTACCGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
44183024 GTAGAAATACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
44183051 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
44183078 GTAAAATTACC
1 GTAGAATTACC
44183089 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:44182967 original size:54 final size:54
Alignment explanation
Indices: 44182889--44183088 Score: 292
Period size: 54 Copynumber: 3.7 Consensus size: 54
44182879 TGGATAAGTT
*
44182889 GTAGAATTATCGAAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* * *
44182943 GTAGAATTATTGAAATACCTTTGTAGGGTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* * * * *
44182997 ATAGAATTACCGAAATACCCTTATAGGGTAGAAATACCAAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* * *
44183051 GTAGAATTATCGAGATACCCTTGTGGGGTAAAATTACC
1 GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACC
44183089 ATTTTGCCCC
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 127 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (54 bp):
GTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
Found at i:44191521 original size:42 final size:43
Alignment explanation
Indices: 44191462--44191577 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 43
44191452 TTCTGTGACA
*
44191462 TCGTGTAAGACCGTGTCTGGGACATCGGCATCGCAT-CTG-ATT
1 TCGTGTAAGACCCTGTCTGGGACATCGGCATCG-ATACTGAATT
** *
44191504 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCCTGTCTGGGACATCGGCATCGATACTGAATT
* * *
44191547 ACATGTAAGACCAC-GTCTGGGACGTCGGCAT
1 TCGTGTAAGACC-CTGTCTGGGACATCGGCAT
44191578 TGTACTTGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 32 0.52
43 27 0.44
44 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (43 bp):
TCGTGTAAGACCCTGTCTGGGACATCGGCATCGATACTGAATT
Found at i:44193838 original size:40 final size:39
Alignment explanation
Indices: 44193801--44193984 Score: 230
Period size: 40 Copynumber: 4.7 Consensus size: 39
44193791 GCTACTCGTT
* *
44193801 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
44193841 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
* *
44193881 CCAATGCCTTCGGG-CTTAGCCCGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
44193919 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
44193960 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44193985 CATCATTCGA
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
37 2 0.02
38 23 0.18
39 19 0.15
40 70 0.56
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:44193929 original size:78 final size:80
Alignment explanation
Indices: 44193803--44193982 Score: 233
Period size: 78 Copynumber: 2.3 Consensus size: 80
44193793 TACTCGTTCA
* **
44193803 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
44193867 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
**
44193883 AATGCCTTCGGG-CTTAGCCCGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
44193946 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
44193961 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
44193983 GACATCATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 51 0.58
79 22 0.25
80 12 0.14
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:44196105 original size:23 final size:23
Alignment explanation
Indices: 44196074--44196117 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
44196064 TTACATTAAT
**
44196074 AAAACTAACACAGTTTTTTAAAA
1 AAAACTAACACAAATTTTTAAAA
*
44196097 AAAATTAACACAAATTTTTAA
1 AAAACTAACACAAATTTTTAA
44196118 TTAATAATTG
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:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAACTAACACAAATTTTTAAAA
Found at i:44199406 original size:28 final size:28
Alignment explanation
Indices: 44199374--44199499 Score: 153
Period size: 28 Copynumber: 4.5 Consensus size: 28
44199364 CAAAAAAGCG
* * *
44199374 AAGTCCACCAAGGACTATCTTAAGAGGA
1 AAGTCTACCAAGGACCATCGTAAGAGGA
*
44199402 AAGTCTACCAAGGACCATCGTAAGTGGA
1 AAGTCTACCAAGGACCATCGTAAGAGGA
* *
44199430 AAGTTTACCAAGGACCATCGTAAGTGGA
1 AAGTCTACCAAGGACCATCGTAAGAGGA
* * * *
44199458 AAGTCCACCAAGGACTATCATAAGAGGG
1 AAGTCTACCAAGGACCATCGTAAGAGGA
*
44199486 AAGTCTGCCAAGGA
1 AAGTCTACCAAGGA
44199500 TAAGTGGAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 85 1.00
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (28 bp):
AAGTCTACCAAGGACCATCGTAAGAGGA
Found at i:44204429 original size:37 final size:39
Alignment explanation
Indices: 44204361--44204434 Score: 134
Period size: 37 Copynumber: 1.9 Consensus size: 39
44204351 TTGTTATGTT
44204361 ATATATGTAATATGTTTCTCTTTTTTTTTACATATATTG
1 ATATATGTAATATGTTTCTCTTTTTTTTTACATATATTG
44204400 ATATATGTAATATG-TT-TCTTTTTTTTTACATATAT
1 ATATATGTAATATGTTTCTCTTTTTTTTTACATATAT
44204435 CTTTTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 19 0.54
38 2 0.06
39 14 0.40
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (39 bp):
ATATATGTAATATGTTTCTCTTTTTTTTTACATATATTG
Found at i:44216966 original size:26 final size:25
Alignment explanation
Indices: 44216894--44216977 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
44216884 CTGGAGGCCT
*
44216894 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
*
44216918 AGCCCTTTTGATAAACTGCGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
44216943 AGCCCTTTTCGGA-AAACTGGGGCAAA
1 AGCCCTTTT--GATAAACTGGGGCAAA
*
44216969 AACCCTTTT
1 AGCCCTTTT
44216978 TGCACTTCCA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.13
24 12 0.23
25 11 0.21
26 20 0.38
27 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:44217048 original size:20 final size:20
Alignment explanation
Indices: 44217025--44217071 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
44217015 TTATGAATAC
44217025 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
44217045 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
44217065 ATCATGT
1 ATCATGT
44217072 ATATCAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44222704 original size:39 final size:40
Alignment explanation
Indices: 44222659--44222883 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
44222649 GCTCCTCGTT
* * * *
44222659 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
44222699 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44222738 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
44222778 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
44222818 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
44222859 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44222884 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 39 0.25
40 104 0.66
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44222892 original size:41 final size:41
Alignment explanation
Indices: 44222815--44222892 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44222805 TTTGTATCTC
* * *
44222815 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44222856 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44222893 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44230739 original size:39 final size:38
Alignment explanation
Indices: 44230585--44230804 Score: 150
Period size: 40 Copynumber: 5.7 Consensus size: 38
44230575 GCTCCTCGTT
* * * *
44230585 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTT-GT-ACTCGCA
*
44230625 C-AATGCCTTCGGGACTTAACCCGGA-TT-TAATCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTGTACTCGCA
* *
44230660 CGAATGCCTTCGGGACTTAA-CCGGATTTAGTAC-CGACG
1 CAAATGCCTTCGGGACTTAACCCGGATTT-GTACTCG-CA
* *
44230698 CACAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CA-AATGCCTTCGGGACTTAACCCGG-ATTTGTA-CTCGCA
* ** *
44230739 CAAAAGCCTTC-GGATCTTAGTCCGGATATAT-TCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-T-TGT-AC-TCGCA
*
44230780 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44230805 CAGCATTCAA
Statistics
Matches: 147, Mismatches: 17, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
35 11 0.07
36 21 0.14
37 2 0.01
38 6 0.04
39 41 0.28
40 43 0.29
41 21 0.14
42 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTGTACTCGCA
Found at i:44230813 original size:41 final size:41
Alignment explanation
Indices: 44230736--44230813 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44230726 TTTGTATCTC
* * *
44230736 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44230777 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44230814 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44234706 original size:30 final size:30
Alignment explanation
Indices: 44234670--44234733 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
44234660 AATTCTTGGA
*
44234670 ACACTTAGAAAATTTTACAAAATACAAGGG
1 ACACTTACAAAATTTTACAAAATACAAGGG
*
44234700 ACACTTACAAAATTTTACAAAATACAGGGG
1 ACACTTACAAAATTTTACAAAATACAAGGG
44234730 ACAC
1 ACAC
44234734 ACGCCCGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.22
Consensus pattern (30 bp):
ACACTTACAAAATTTTACAAAATACAAGGG
Found at i:44236891 original size:73 final size:76
Alignment explanation
Indices: 44236795--44237010 Score: 242
Period size: 73 Copynumber: 2.8 Consensus size: 76
44236785 GCTCCTCGTT
* * *
44236795 CAAATGCCTTCGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGAT
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGAT
44236860 T-TA-AT-GCA
66 TGTATATCGCA
* * * *
44236868 CGAATGCCTTCGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG-
*
44236932 ATTGTATCTCGCA
64 ATTGTATATCGCA
* * * * * *
44236945 CAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCGG
44237010 A
64 A
44237011 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
73 46 0.39
74 12 0.10
75 2 0.02
76 1 0.01
77 16 0.14
78 25 0.21
79 15 0.13
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (76 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGAT
TGTATATCGCA
Found at i:44236927 original size:39 final size:39
Alignment explanation
Indices: 44236795--44236963 Score: 190
Period size: 39 Copynumber: 4.5 Consensus size: 39
44236785 GCTCCTCGTT
* * * * *
44236795 CAAATGCCTTCGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTATCTCGCA
44236834 C-AATGCCTTCGGGACTTAACCCGGATTTA--A--T-GCA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAGTATCTCGCA
*
44236868 CGAATGCCTTCGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTATCTCGCA
* * *
44236907 CAAAGGCCTTCGGGCTTAACCCGGAATT-GTATCTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTATCTCGCA
44236945 CAAATGCCTTCGGATCTTA
1 CAAATGCCTTCGGA-CTTA
44236964 GTCCGGATAT
Statistics
Matches: 112, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
34 21 0.19
35 10 0.09
36 1 0.01
37 1 0.01
38 32 0.29
39 47 0.42
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:44237019 original size:41 final size:41
Alignment explanation
Indices: 44236942--44237019 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44236932 ATTGTATCTC
* * *
44236942 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44236983 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44237020 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44244734 original size:39 final size:40
Alignment explanation
Indices: 44244689--44244913 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
44244679 GCTCCTCGTT
* * * *
44244689 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44244729 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44244768 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
44244808 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
44244848 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
44244889 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44244914 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44244782 original size:40 final size:38
Alignment explanation
Indices: 44244656--44244913 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
44244646 AAATCACGTA
* * *
44244656 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
44244695 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
44244734 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
44244774 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
44244814 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
44244854 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
44244894 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
44244914 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.28
40 116 0.64
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:44244922 original size:41 final size:41
Alignment explanation
Indices: 44244845--44244922 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44244835 CTTGTATCTC
* * *
44244845 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44244886 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44244923 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44253071 original size:11 final size:11
Alignment explanation
Indices: 44253057--44253081 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44253047 TTCATTTTCC
44253057 TTTAATATTAT
1 TTTAATATTAT
44253068 TTTAATATTAT
1 TTTAATATTAT
44253079 TTT
1 TTT
44253082 TTATAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATATTAT
Found at i:44262183 original size:28 final size:28
Alignment explanation
Indices: 44262145--44262356 Score: 239
Period size: 28 Copynumber: 7.6 Consensus size: 28
44262135 CTTTGAAAAT
44262145 GAAAGCCTTTGTGGCAAACCTCTGAAGG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
* *
44262173 GAAACCCTTTGTGGCAAACCTCTAAAGG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
* **
44262201 AAAAGCCTTTGTGGTGAACCTCTGAAGG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
*
44262229 GAAAGCCTTTGTGGCAAACCTCTAAAGG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
* ** *
44262257 AAAAGCCTTTGTGGTGAACCTCTGAAAG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
* * *
44262285 GAAAGCC-TTATGGCGAACCTCTAAAAGG
1 GAAAGCCTTTGTGGCAAACCTCT-GAAGG
* * * *
44262313 G-AAGCTTTTGTGGCGAACCTTTGAAAG
1 GAAAGCCTTTGTGGCAAACCTCTGAAGG
*
44262340 GAAAGCTTTTGTGGCAA
1 GAAAGCCTTTGTGGCAA
44262357 TTTCTAAACA
Statistics
Matches: 154, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
27 21 0.14
28 133 0.86
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (28 bp):
GAAAGCCTTTGTGGCAAACCTCTGAAGG
Found at i:44262212 original size:56 final size:56
Alignment explanation
Indices: 44262146--44262356 Score: 291
Period size: 56 Copynumber: 3.8 Consensus size: 56
44262136 TTTGAAAATG
* * *
44262146 AAAGCCTTTGTGGCAAACCTCTGAAGGGAAACCCTTTGTGGCAAACCTCTAAAGGA
1 AAAGCCTTTGTGGCGAACCTCTGAAAGGAAAGCCTTTGTGGCAAACCTCTAAAGGA
* *
44262202 AAAGCCTTTGTGGTGAACCTCTGAAGGGAAAGCCTTTGTGGCAAACCTCTAAAGGA
1 AAAGCCTTTGTGGCGAACCTCTGAAAGGAAAGCCTTTGTGGCAAACCTCTAAAGGA
* * *
44262258 AAAGCCTTTGTGGTGAACCTCTGAAAGGAAAGCC-TTATGGCGAACCTCTAAAAGG-
1 AAAGCCTTTGTGGCGAACCTCTGAAAGGAAAGCCTTTGTGGCAAACCTCT-AAAGGA
* * * *
44262313 GAAGCTTTTGTGGCGAACCTTTGAAAGGAAAGCTTTTGTGGCAA
1 AAAGCCTTTGTGGCGAACCTCTGAAAGGAAAGCCTTTGTGGCAA
44262357 TTTCTAAACA
Statistics
Matches: 140, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
55 42 0.30
56 98 0.70
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (56 bp):
AAAGCCTTTGTGGCGAACCTCTGAAAGGAAAGCCTTTGTGGCAAACCTCTAAAGGA
Found at i:44262380 original size:111 final size:112
Alignment explanation
Indices: 44262161--44262381 Score: 252
Period size: 111 Copynumber: 2.0 Consensus size: 112
44262151 CTTTGTGGCA
* * *
44262161 AACCTCTGAAGGGAAACCCTTTGTGGCAAACCTCTAAAGGAAAAGCCTTTGTGGTGAACCTCTGA
1 AACCTCTGAAAGGAAACCCTTTATGGCAAACCTCTAAAGGAAAAGCCTTTGTGGCGAACCTCTGA
* * * *
44262226 AGGGAAAGCCTTTGTGGCAAACCTCTAAAGGAAAAGCCTTTGTGGTG
66 AAGGAAAGCCTTTGTGGCAAACCTCTAAAGCAAAAACCCTTGTGGTG
* * * * *
44262273 AACCTCTGAAAGGAAAGCC-TTATGGCGAACCTCTAAAAGG-GAAGCTTTTGTGGCGAACCTTTG
1 AACCTCTGAAAGGAAACCCTTTATGGCAAACCTCT-AAAGGAAAAGCCTTTGTGGCGAACCTCTG
* **
44262336 AAAGGAAAGCTTTTGTGGC-AATTTCTAAA-CATTAAAACCCTTGTGG
65 AAAGGAAAGCCTTTGTGGCAAACCTCTAAAGCA--AAAACCCTTGTGG
44262382 CGCAATCTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
109 1 0.01
110 8 0.09
111 60 0.66
112 22 0.24
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (112 bp):
AACCTCTGAAAGGAAACCCTTTATGGCAAACCTCTAAAGGAAAAGCCTTTGTGGCGAACCTCTGA
AAGGAAAGCCTTTGTGGCAAACCTCTAAAGCAAAAACCCTTGTGGTG
Found at i:44263454 original size:21 final size:21
Alignment explanation
Indices: 44263430--44263469 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
44263420 CCTAATTACG
44263430 TATTAA-TGAAATGCATAATGA
1 TATTAATTGAAAT-CATAATGA
44263451 TATTAATTGAAATCATAAT
1 TATTAATTGAAATCATAAT
44263470 TGACTGAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
TATTAATTGAAATCATAATGA
Found at i:44265207 original size:23 final size:23
Alignment explanation
Indices: 44265177--44265236 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
44265167 GTGTAAGCCT
44265177 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
44265200 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
44265223 CACATGCCCGTGTG
1 CACACGCCCGTGTG
44265237 CTTTGGGACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.20, C:0.32, G:0.33, T:0.15
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAATG
Found at i:44266697 original size:43 final size:43
Alignment explanation
Indices: 44266627--44266708 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
44266617 CATGAATCAC
* *
44266627 ATCCATCATGAAATCAGACCACTCAACGAGCTCGGATGCTTGT
1 ATCCATAATGAAATCAGACCACCCAACGAGCTCGGATGCTTGT
* * *
44266670 ATCCATAATGAACTCGGACCTCCCAACGAGCTCGGATGC
1 ATCCATAATGAAATCAGACCACCCAACGAGCTCGGATGC
44266709 CACATATCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (43 bp):
ATCCATAATGAAATCAGACCACCCAACGAGCTCGGATGCTTGT
Found at i:44266739 original size:42 final size:43
Alignment explanation
Indices: 44266643--44266741 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 43
44266633 CATGAAATCA
*** *
44266643 GACCACTCAACGAGCTCGGATGCTTGTATCCATAATGAACTCG
1 GACCACTCAACGAGCTCGGATGCACATATCCATAACGAACTCG
* * *
44266686 GACCTCCCAACGAGCTCGGATGCCACATAT-C-TCACGAACTCG
1 GACCACTCAACGAGCTCGGATG-CACATATCCATAACGAACTCG
44266728 GACCACTCAACGAG
1 GACCACTCAACGAG
44266742 TTCAGACTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 21 0.46
43 21 0.46
44 4 0.09
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.18
Consensus pattern (43 bp):
GACCACTCAACGAGCTCGGATGCACATATCCATAACGAACTCG
Found at i:44268801 original size:82 final size:81
Alignment explanation
Indices: 44268685--44268840 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
44268675 AAATTGTACA
* * * *
44268685 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
44268749 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44268766 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
44268831 TGCGAGTTGA
65 TGCGAATTGA
44268841 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44268808 original size:55 final size:52
Alignment explanation
Indices: 44268684--44268837 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
44268674 TAAATTGTAC
* *
44268684 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
44268737 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
44268792 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
44268838 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:44268842 original size:27 final size:27
Alignment explanation
Indices: 44268685--44268840 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
44268675 AAATTGTACA
*
44268685 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
44268712 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
44268739 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
44268766 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
44268794 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
44268821 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
44268841 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:44268851 original size:27 final size:27
Alignment explanation
Indices: 44268677--44268861 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
44268667 GCGGGATTAA
*
44268677 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
44268704 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
44268731 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
44268758 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
44268786 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
44268813 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
44268840 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
44268862 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:44268852 original size:82 final size:81
Alignment explanation
Indices: 44268677--44268861 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
44268667 GCGGGATTAA
* * * *
44268677 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
44268742 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
44268758 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
44268822 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
44268840 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
44268862 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:44276918 original size:82 final size:81
Alignment explanation
Indices: 44276802--44276957 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
44276792 AAATTGTACA
* * * *
44276802 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
44276866 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44276883 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
44276948 TGCGAGTTGA
65 TGCGAATTGA
44276958 TGTATAGCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44276925 original size:55 final size:52
Alignment explanation
Indices: 44276801--44276977 Score: 178
Period size: 55 Copynumber: 3.3 Consensus size: 52
44276791 TAAATTGTAC
* *
44276801 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
44276854 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * * *
44276909 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGTTGATGTAT-
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAG-TGA-ATATG
*
44276963 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44276978 GGCTCAATAT
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
53 17 0.16
54 36 0.35
55 49 0.47
56 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:44276958 original size:27 final size:27
Alignment explanation
Indices: 44276802--44276957 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
44276792 AAATTGTACA
*
44276802 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
44276829 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
44276856 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
44276883 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
44276911 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
44276938 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
44276958 TGTATAGCAC
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:44276974 original size:26 final size:26
Alignment explanation
Indices: 44276883--44276977 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 26
44276873 TGACCATGCG
* * *
44276883 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAGT-TGATTA-CTA
* *
44276911 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGTTGATTAC-TA
44276938 GCACTAAGTGTGCGAGTTGATGTA-TA
1 GCACTAAGTGTGCGAGTTGAT-TACTA
*
44276964 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44276978 GGCTCAATAT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
26 14 0.25
27 25 0.44
28 18 0.32
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGAGTTGATTACTA
Found at i:44284944 original size:48 final size:46
Alignment explanation
Indices: 44284887--44285151 Score: 151
Period size: 48 Copynumber: 5.5 Consensus size: 46
44284877 TATGTGTGCT
44284887 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATA--TAAGCC
** * * ** * * * *
44284935 AGTGTAAGACACATTTGGGACAGGCATCAGTGTTGAGACGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGA-TATAAGCC
* * *
44284981 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAAACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAT--ATAAGCC
* * * *
44285029 AGTGTAAGACCTGTCTAGGACATGGCATC-GACACT-GATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAG-C-CTCGAGATAT-A-AGCC
* * * * * * *
44285078 AGTGTCAGACCTATCTAGGACATGGCATCAGCCTC-ACTATGTGAAACCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGA-GATAT--AAGCC
44285127 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
44285152 GCGTCGGCAT
Statistics
Matches: 167, Mismatches: 36, Indels: 27
0.73 0.16 0.12
Matches are distributed among these distances:
46 33 0.20
47 2 0.01
48 61 0.37
49 56 0.34
50 15 0.09
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAAGCC
Found at i:44285000 original size:46 final size:46
Alignment explanation
Indices: 44284884--44285057 Score: 152
Period size: 48 Copynumber: 3.7 Consensus size: 46
44284874 AGATATGTGT
*
44284884 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAGA--TAA
* ** * * ** * *
44284932 GCCAGTGTAAGACACATTTGGGACAGGCATCAGTGTTGAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGA-GATAA
* * *
44284978 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAAACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG--AGATAA
* *
44285026 GCTAGTGTAAGACCTGTCTAGGACATGGCATC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATC
44285058 GACACTGATA
Statistics
Matches: 98, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
46 32 0.33
47 1 0.01
48 59 0.60
49 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAGATAA
Found at i:44285050 original size:94 final size:95
Alignment explanation
Indices: 44284884--44285057 Score: 255
Period size: 94 Copynumber: 1.8 Consensus size: 95
44284874 AGATATGTGT
***
44284884 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTAAGCCAGTGTAAGACACAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAAACAAGCCAGTGTAAGACACAT
*
44284949 TTGGGACA-GGCATCAGTGTTGAGACGAGA
66 TTAGGACATGGCATCAGTGTTGAGACGAGA
* *
44284978 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAAACAAGCTAGTGTAAGAC-C-T
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAAACAAGCCAGTGTAAGACACAT
44285041 GTCTAGGACATGGCATC
66 -T-TAGGACATGGCATC
44285058 GACACTGATA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
92 1 0.01
93 2 0.03
94 62 0.87
95 6 0.08
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAAACAAGCCAGTGTAAGACACAT
TTAGGACATGGCATCAGTGTTGAGACGAGA
Found at i:44285129 original size:49 final size:49
Alignment explanation
Indices: 44285029--44285153 Score: 139
Period size: 49 Copynumber: 2.5 Consensus size: 49
44285019 TAAACAAGCT
* *
44285029 AGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAAACCC
* * *
44285078 AGTGTCAGACCTATCTAGGACATGGCATC-AGC-CTCACTATG-TGAAACCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGA-CACTGA-TA-GATGAAACCC
*
44285127 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTAGGACATGGC
44285154 GTCGGCATCT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
48 4 0.06
49 46 0.72
50 14 0.22
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAAACCC
Found at i:44288305 original size:27 final size:27
Alignment explanation
Indices: 44288275--44288480 Score: 243
Period size: 27 Copynumber: 7.6 Consensus size: 27
44288265 ATATTGAGTC
* * *
44288275 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
44288302 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
44288329 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
44288357 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
44288384 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
44288411 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
44288438 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAGTCAA-CT
44288466 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44288481 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
27 115 0.74
28 40 0.26
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:44288414 original size:82 final size:81
Alignment explanation
Indices: 44288275--44288480 Score: 261
Period size: 82 Copynumber: 2.5 Consensus size: 81
44288265 ATATTGAGTC
* * * * * *
44288275 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTTAGTGCCACATAGTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
*
44288340 TGCTACATAGTCAAACT
66 TGCAACATAGTCAAA-T
* * * **
44288357 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTA
1 CGCACACTTAGTGCCACATAGTCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTA
44288421 GTGCAACATAGTCAAAT
65 GTGCAACATAGTCAAAT
*
44288438 CGCACACTTAGTGCTACATAGTCAATCTCGCACACTTAGTGCT
1 CGCACACTTAGTGCCACATAGTCAAT-TCGCACACTTAGTGCT
44288481 GTACAATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
81 25 0.24
82 81 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTTAGTGCCACATAGTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
TGCAACATAGTCAAAT
Found at i:44288468 original size:109 final size:109
Alignment explanation
Indices: 44288275--44288479 Score: 322
Period size: 109 Copynumber: 1.9 Consensus size: 109
44288265 ATATTGAGTC
* *
44288275 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
44288340 TGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
66 TGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
* * ** *
44288384 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTA
*
44288448 GTGCTACATAGTCAATCTCGCACACTTAGTGC
65 GTGCTACATAGTCAAACTCGCACACTTAGTGC
44288480 TGTACAATTT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 2 0.02
109 85 0.98
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (109 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
TGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
Found at i:44291842 original size:49 final size:49
Alignment explanation
Indices: 44291730--44291947 Score: 347
Period size: 49 Copynumber: 4.5 Consensus size: 49
44291720 TATCACAGTT
* *
44291730 ATACACTTCCAC-TTCCATCACATTGGCCATTCGGCCTTAT--CATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATATAC
* *
44291777 ATATACTTTCACATTCATCACATTGGCCATTCGTCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
44291826 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
*
44291875 ATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCAC--ATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
44291922 ATACACTTTCACATTCATCACATTGG
1 ATACACTTTCACATTCATCACATTGG
44291948 ATCCTAAATC
Statistics
Matches: 161, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
47 64 0.40
48 2 0.01
49 95 0.59
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.34
Consensus pattern (49 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
Found at i:44291845 original size:27 final size:27
Alignment explanation
Indices: 44291815--44291897 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
44291805 ATTCGTCCTT
44291815 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* * *
44291842 ATCACAT-TGGC---CA--TTCGGCCTT-
1 ATCACATAT-ACATACACTTTC-ACATTC
44291864 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
44291891 ATCACAT
1 ATCACAT
44291898 TGGCCATTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 11 0.27
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 18 0.44
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:44291922 original size:96 final size:95
Alignment explanation
Indices: 44291730--44291947 Score: 343
Period size: 96 Copynumber: 2.3 Consensus size: 95
44291720 TATCACAGTT
* * *
44291730 ATACACTTCCAC-TTCCATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATTCA
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCATATACATACACTTTCACATTCA
44291794 TCACATTGGCCATTCGTCCTTATCACATATAC
65 TCACATTGGCCATTCGTCCTTATCACA-ATAC
44291826 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CATATACATACACTTTCACATTC
44291891 ATCACATTGGCCATTCAG-CCTTATCAC-ATAC
64 ATCACATTGGCCATTC-GTCCTTATCACAATAC
44291922 ATACACTTTCACATTCATCACATTGG
1 ATACACTTTCACATTCATCACATTGG
44291948 ATCCTAAATC
Statistics
Matches: 115, Mismatches: 3, Indels: 8
0.91 0.02 0.06
Matches are distributed among these distances:
96 66 0.57
97 2 0.02
98 46 0.40
99 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.34
Consensus pattern (95 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATACATACACTTTCACATTCAT
CACATTGGCCATTCGTCCTTATCACAATAC
Found at i:44295138 original size:48 final size:46
Alignment explanation
Indices: 44295023--44295221 Score: 190
Period size: 46 Copynumber: 4.2 Consensus size: 46
44295013 TGTGTGCTAA
* *
44295023 TGTAAGACATGTTTGGGACATGCATCGACCAC-A-ATATGAGAGCTAG
1 TGTAAGACATGTTTGGGACATGCATCGACCTCGAGATAT-A-AGCCAG
*
44295069 TGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATTCAAGCCAG
1 TGTAAGACATGTTTGGGACATGCATCGACCTCGAGATA-T-AAGCCAG
* ** * * *
44295117 TGTAAGACATGTTTGGGACATGTATCGAAATTGAGATGA-GAGCTAG
1 TGTAAGACATGTTTGGGACATGCATCGACCTCGAGAT-ATAAGCCAG
***
44295163 TGTAAGACATGTCCAGGACATGCATC-AGCCTCGAGATATTTAAGCCAG
1 TGTAAGACATGTTTGGGACATGCATCGA-CCTCGAGATA--TAAGCCAG
44295211 TGTAAGACATG
1 TGTAAGACATG
44295222 GGACATGCAT
Statistics
Matches: 125, Mismatches: 20, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
45 2 0.02
46 63 0.50
47 1 0.01
48 56 0.45
49 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTTTGGGACATGCATCGACCTCGAGATATAAGCCAG
Found at i:44295168 original size:94 final size:94
Alignment explanation
Indices: 44295023--44295287 Score: 360
Period size: 94 Copynumber: 2.9 Consensus size: 94
44295013 TGTGTGCTAA
* ** * ***
44295023 TGTAAGACATGTTTGGGACATGCATCGACCA-CAATATGAGAGCTAGTGTAAGACATGTTTGGGA
1 TGTAAGACATGTTTGGGACATGCATCGA-AATTGAGATGAGAGCTAGTGTAAGACATGTCCAGGA
44295087 CATGCATCGGCCTCGAGATATTCAAGCCAG
65 CATGCATCGGCCTCGAGATATTCAAGCCAG
*
44295117 TGTAAGACATGTTTGGGACATGTATCGAAATTGAGATGAGAGCTAGTGTAAGACATGTCCAGGAC
1 TGTAAGACATGTTTGGGACATGCATCGAAATTGAGATGAGAGCTAGTGTAAGACATGTCCAGGAC
* *
44295182 ATGCATCAGCCTCGAGATATTTAAGCCAG
66 ATGCATCGGCCTCGAGATATTCAAGCCAG
** *
44295211 TGTAAGACA----TGGGACATGCATCGATGTTGAGATGAGAGCTAGTGTAAGAAATGTCCAGGAC
1 TGTAAGACATGTTTGGGACATGCATCGAAATTGAGATGAGAGCTAGTGTAAGACATGTCCAGGAC
*
44295272 ATGCAACGGCCTCGAG
66 ATGCATCGGCCTCGAG
44295288 TTAGACAAGC
Statistics
Matches: 154, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
90 62 0.40
93 1 0.01
94 91 0.59
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (94 bp):
TGTAAGACATGTTTGGGACATGCATCGAAATTGAGATGAGAGCTAGTGTAAGACATGTCCAGGAC
ATGCATCGGCCTCGAGATATTCAAGCCAG
Found at i:44295199 original size:46 final size:45
Alignment explanation
Indices: 44295018--44295287 Score: 183
Period size: 46 Copynumber: 5.9 Consensus size: 45
44295008 AGATATGTGT
* * * *
44295018 GCTAATGTAAGACATGTTTGGGACATGCATCGACCACAATATGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCG-CCTCGAGATGAGA
*
44295064 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGAT-ATTCAA
1 GCTAGTGTAAGACATGTTTGGGACATGCATC-GCCTCGAGATGA---GA
* * ** *
44295112 GCCAGTGTAAGACATGTTTGGGACATGTATCGAAATTGAGATGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCG-CCTCGAGATGAGA
*** *
44295158 GCTAGTGTAAGACATGTCCAGGACATGCATCAGCCTCGAGAT-ATTTAA
1 GCTAGTGTAAGACATGTTTGGGACATGCATC-GCCTCGAGATGA---GA
* ** *
44295206 GCCAGTGTAAGACA----TGGGACATGCATCGATGTTGAGATGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCG-CCTCGAGATGAGA
* *** *
44295248 GCTAGTGTAAGAAATGTCCAGGACATGCAACGGCCTCGAG
1 GCTAGTGTAAGACATGTTTGGGACATGCATC-GCCTCGAG
44295288 TTAGACAAGC
Statistics
Matches: 172, Mismatches: 35, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
42 13 0.08
43 1 0.01
44 17 0.10
45 3 0.02
46 83 0.48
47 4 0.02
48 50 0.29
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGCCTCGAGATGAGA
Found at i:44295325 original size:30 final size:30
Alignment explanation
Indices: 44295289--44295348 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
44295279 GGCCTCGAGT
44295289 TAGACAAGCTAGTATAAGACCTGTCTGGGA
1 TAGACAAGCTAGTATAAGACCTGTCTGGGA
44295319 TAGACAAGCTAGTATAAGACCTGTCTGGGA
1 TAGACAAGCTAGTATAAGACCTGTCTGGGA
44295349 CCTGGCATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (30 bp):
TAGACAAGCTAGTATAAGACCTGTCTGGGA
Found at i:44306701 original size:25 final size:25
Alignment explanation
Indices: 44306673--44306732 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
44306663 AAATTAATGT
44306673 AAAATGCCTTGTTAATAATTCATAC
1 AAAATGCCTTGTTAATAATTCATAC
*
44306698 AAAATGCCTTGTTAATAATTCATGC
1 AAAATGCCTTGTTAATAATTCATAC
44306723 AAAATGCCTT
1 AAAATGCCTT
44306733 AGCCCTCTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (25 bp):
AAAATGCCTTGTTAATAATTCATAC
Found at i:44308965 original size:19 final size:19
Alignment explanation
Indices: 44308928--44308973 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
44308918 TTATTAAAAT
*
44308928 AAATAAA-ACTAACATTAA
1 AAATAAAGACTAAAATTAA
*
44308946 AAATAAAGATTAAAATTAA
1 AAATAAAGACTAAAATTAA
*
44308965 AAGTAAAGA
1 AAATAAAGA
44308974 GAAAAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (19 bp):
AAATAAAGACTAAAATTAA
Found at i:44308979 original size:19 final size:19
Alignment explanation
Indices: 44308941--44308979 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44308931 TAAAACTAAC
**
44308941 ATTAAAAATAAAGATTAAA
1 ATTAAAAATAAAGAGAAAA
*
44308960 ATTAAAAGTAAAGAGAAAA
1 ATTAAAAATAAAGAGAAAA
44308979 A
1 A
44308980 ATGAGAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (19 bp):
ATTAAAAATAAAGAGAAAA
Found at i:44310356 original size:11 final size:12
Alignment explanation
Indices: 44310339--44310367 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
44310329 TTTATTCTTA
44310339 ATTTTAATTTTG
1 ATTTTAATTTTG
44310351 -TTTTAATTTTG
1 ATTTTAATTTTG
44310362 ATTTTA
1 ATTTTA
44310368 TTACAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (12 bp):
ATTTTAATTTTG
Found at i:44310891 original size:18 final size:19
Alignment explanation
Indices: 44310868--44310908 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
44310858 TTCTATCTTG
*
44310868 TTTTAA-TTTGATTTCAAT
1 TTTTAATTTTAATTTCAAT
*
44310886 TTTTAATTTTAATTTTAAT
1 TTTTAATTTTAATTTCAAT
44310905 TTTT
1 TTTT
44310909 CAGCTTAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTAATTTTAATTTCAAT
Found at i:44314372 original size:21 final size:20
Alignment explanation
Indices: 44314348--44314388 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
44314338 ACTTATATAA
44314348 CTATCATCAAA-CATTCAAAAT
1 CTATCAT-AAATCA-TCAAAAT
44314369 CTATCATAAATCATCAAAAT
1 CTATCATAAATCATCAAAAT
44314389 ACATGCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (20 bp):
CTATCATAAATCATCAAAAT
Found at i:44318103 original size:21 final size:22
Alignment explanation
Indices: 44318032--44318133 Score: 118
Period size: 21 Copynumber: 4.7 Consensus size: 22
44318022 GTAAATAAGT
44318032 TTGGCACAGAGCCATAGTCAAG
1 TTGGCACAGAGCCATAGTCAAG
*
44318054 ATGGCACAGAGCCATAGTCAAG
1 TTGGCACAGAGCCATAGTCAAG
* * * *
44318076 ATGGCACAGAGCCAT-TTTAGG
1 TTGGCACAGAGCCATAGTCAAG
* * *
44318097 TTGGCACAGAGCCAT-TTTAGG
1 TTGGCACAGAGCCATAGTCAAG
44318118 TTGGCACAGAGCCATA
1 TTGGCACAGAGCCATA
44318134 ATCAGATTAA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
21 38 0.51
22 36 0.49
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (22 bp):
TTGGCACAGAGCCATAGTCAAG
Found at i:44319829 original size:27 final size:27
Alignment explanation
Indices: 44319799--44319909 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
44319789 GATTCAAAAG
*
44319799 TATATATTAAG-TCCGCACACTCAGTGC
1 TATATAATAAGCT-CGCACACTCAGTGC
* *
44319826 TATATAATCAGCTCGCACACTTAGTGC
1 TATATAATAAGCTCGCACACTCAGTGC
* *
44319853 TATATAATCAAACTCGCACACTTAGTGC
1 TATATAAT-AAGCTCGCACACTCAGTGC
* * *
44319881 TACATAATCAAACTCGCACACTTAGTGC
1 TATATAAT-AAGCTCGCACACTCAGTGC
44319909 T
1 T
44319910 GTACAATTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (27 bp):
TATATAATAAGCTCGCACACTCAGTGC
Found at i:44319877 original size:28 final size:28
Alignment explanation
Indices: 44319812--44319934 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
44319802 ATATTAAGTC
* *
44319812 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
44319839 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
44319867 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
44319895 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
44319924 CGCACACTTAG
1 CGCACACTTAG
44319935 CGCCAATCTC
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 22 0.26
28 48 0.56
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44321887 original size:36 final size:37
Alignment explanation
Indices: 44321815--44321892 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
44321805 TTATTACGAA
* *
44321815 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
44321852 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
44321888 GTCTT
1 GTCTT
44321893 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:44322089 original size:47 final size:47
Alignment explanation
Indices: 44322011--44322313 Score: 489
Period size: 47 Copynumber: 6.4 Consensus size: 47
44322001 CCCTTCGGGA
* * * * * * *
44322011 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44322058 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44322105 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44322152 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44322199 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44322246 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44322293 CTTATCACATATATACACTTT
1 CTTATCACATATATACACTTT
44322314 TTTGGCTGAA
Statistics
Matches: 239, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 239 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44326196 original size:27 final size:26
Alignment explanation
Indices: 44326166--44326252 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 26
44326156 AAAAATACTC
44326166 ATTTTATCCTACAAGGGTATTTCGATA
1 ATTTTATCCTACAAGGGTATTTC-ATA
44326193 ATTTTA-CACTACAAGGGTATTTCAGTA
1 ATTTTATC-CTACAAGGGTATTTCA-TA
** *
44326220 ATTTTAT-GAACCAAGGTTATTTCAATA
1 ATTTTATCCTA-CAAGGGTATTTC-ATA
44326247 ATTTTA
1 ATTTTA
44326253 CAAGTCAGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.06
27 48 0.92
28 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (26 bp):
ATTTTATCCTACAAGGGTATTTCATA
Found at i:44326267 original size:27 final size:25
Alignment explanation
Indices: 44326179--44326361 Score: 109
Period size: 27 Copynumber: 6.9 Consensus size: 25
44326169 TTATCCTACA
* *
44326179 AGGGTATTTCGATAATTTTACACTAC
1 AGGGTATTTCAATAATTTTACAAT-C
* * *
44326205 AAGGGTATTTCAGTAATTTTATGAACC
1 -AGGGTATTTCAATAATTTTA-CAATC
*
44326232 AAGGTTATTTCAATAATTTTACAAGTC
1 -AGGGTATTTCAATAATTTTACAA-TC
** * *
44326259 AGGTGTATTTTGATAATTTCACAAATTT
1 AGG-GTATTTCAATAATTTTAC-AA-TC
* *
44326287 AGGGCATTTCAATAATTTTACAAATT
1 AGGGTATTTCAATAATTTTAC-AATC
*
44326313 AGGGTATTTCAGTAATTTCATA-AATC
1 AGGGTATTTCAATAATTT--TACAATC
*
44326339 ATGGGTAATTT-AGTAATTTTACA
1 A-GGGT-ATTTCAATAATTTTACA
44326362 GCTCGGGGGT
Statistics
Matches: 125, Mismatches: 22, Indels: 19
0.75 0.13 0.11
Matches are distributed among these distances:
25 2 0.02
26 28 0.22
27 82 0.66
28 13 0.10
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.40
Consensus pattern (25 bp):
AGGGTATTTCAATAATTTTACAATC
Found at i:44326267 original size:54 final size:53
Alignment explanation
Indices: 44326177--44326361 Score: 151
Period size: 54 Copynumber: 3.5 Consensus size: 53
44326167 TTTTATCCTA
* * * **
44326177 CAAGGGTATTTCGATAATTTTAC-ACTACAAGGGTATTTCAGTAATTTTATGAAC
1 CAAGGGTATTTCAATAATTTTACAAAT-C-AGGGTATTTCAGTAATTTCACAAAC
* * * *
44326231 CAAGGTTATTTCAATAATTTTACAAGTCAGGTGTATTT-TGATAATTTCACAAAT
1 CAAGGGTATTTCAATAATTTTACAAATCAGG-GTATTTCAG-TAATTTCACAAAC
** * * * *
44326285 TTAGGGCATTTCAATAATTTTACAAATTAGGGTATTTCAGTAATTTCATAAAT
1 CAAGGGTATTTCAATAATTTTACAAATCAGGGTATTTCAGTAATTTCACAAAC
* *
44326338 CATGGGTAATTT-AGTAATTTTACA
1 CAAGGGT-ATTTCAATAATTTTACA
44326362 GCTCGGGGGT
Statistics
Matches: 105, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
53 36 0.34
54 67 0.64
55 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (53 bp):
CAAGGGTATTTCAATAATTTTACAAATCAGGGTATTTCAGTAATTTCACAAAC
Found at i:44329137 original size:37 final size:37
Alignment explanation
Indices: 44329080--44329154 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
44329070 TACGAAGTCA
* * *
44329080 TACCCGGACATAATCTCCACACGAAGTTATCGGATCT
1 TACCCGGACAAAATCCCCACACGAAGTCATCGGATCT
* *
44329117 TACCCGGACAAAATCCCCACACGTAGTCATCGGGTCT
1 TACCCGGACAAAATCCCCACACGAAGTCATCGGATCT
44329154 T
1 T
44329155 TAGAGCTCGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (37 bp):
TACCCGGACAAAATCCCCACACGAAGTCATCGGATCT
Found at i:44329351 original size:47 final size:47
Alignment explanation
Indices: 44329273--44329542 Score: 450
Period size: 47 Copynumber: 5.7 Consensus size: 47
44329263 CCCTTTGGGA
* * * * * *
44329273 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44329320 CCTGTCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44329367 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44329414 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44329461 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44329508 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
44329543 AGAATCCTAA
Statistics
Matches: 209, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 209 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44334858 original size:27 final size:27
Alignment explanation
Indices: 44334798--44334914 Score: 87
Period size: 27 Copynumber: 4.3 Consensus size: 27
44334788 ATGGGGAAAA
* *
44334798 CAATCATTTTACCCTACAGGGGTATTT
1 CAATAATTTTACACTACAGGGGTATTT
*** *
44334825 TGGTAATTTTACACTACATGGGTATTT
1 CAATAATTTTACACTACAGGGGTATTT
*
44334852 CAATAATTTTATGA--ACTAGGGGTATTT
1 CAATAATTTTA-CACTAC-AGGGGTATTT
* * *
44334879 CAGTAATTTTACA-AATCGGGGGTATTT
1 CAATAATTTTACACTA-CAGGGGTATTT
*
44334906 CAGTAATTT
1 CAATAATTT
44334915 CACAAATTGA
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.04
27 67 0.93
28 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (27 bp):
CAATAATTTTACACTACAGGGGTATTT
Found at i:44334919 original size:27 final size:27
Alignment explanation
Indices: 44334870--44334932 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
44334860 TTATGAACTA
*
44334870 GGGGTATTTCAGTAATTTTACAAATCG
1 GGGGTATTTCAGTAATTTCACAAATCG
*
44334897 GGGGTATTTCAGTAATTTCACAAATTG
1 GGGGTATTTCAGTAATTTCACAAATCG
*
44334924 AGGGTATTT
1 GGGGTATTT
44334933 TATTAGGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (27 bp):
GGGGTATTTCAGTAATTTCACAAATCG
Found at i:44334942 original size:13 final size:13
Alignment explanation
Indices: 44334924--44334958 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
44334914 TCACAAATTG
44334924 AGGGTATTTTATT
1 AGGGTATTTTATT
44334937 AGGGTATTTTATT
1 AGGGTATTTTATT
*
44334950 AGTGTATTT
1 AGGGTATTT
44334959 CGATTATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (13 bp):
AGGGTATTTTATT
Found at i:44339606 original size:27 final size:27
Alignment explanation
Indices: 44339531--44339722 Score: 129
Period size: 27 Copynumber: 7.1 Consensus size: 27
44339521 TGCCTTACAG
* * *
44339531 GGGTATTTCTGTAATTTTACACTAT-AG
1 GGGTATTTCAGTAATTTTACA-AATCAA
** *
44339558 GGGTATTTTTGTAATTTTACAAACCAA
1 GGGTATTTCAGTAATTTTACAAATCAA
* ***
44339585 GGGTATTTCAGTAATTTTACAAGTTGG
1 GGGTATTTCAGTAATTTTACAAATCAA
* * * *
44339612 GGGTATTCCAGTAATTTCATAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCAA
*
44339639 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTACAAATCAA
* * * *
44339665 GGGTGTTTC-GATAATTTCATAAATCAG
1 GGGTATTTCAG-TAATTTTACAAATCAA
* * * * *
44339692 GGGCAATTCGGTAATTTTACAACTCGA
1 GGGTATTTCAGTAATTTTACAAATCAA
44339719 GGGT
1 GGGT
44339723 CTTAACGACC
Statistics
Matches: 130, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
25 1 0.01
26 23 0.18
27 105 0.81
28 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCAA
Found at i:44339615 original size:54 final size:55
Alignment explanation
Indices: 44339531--44339715 Score: 148
Period size: 54 Copynumber: 3.4 Consensus size: 55
44339521 TGCCTTACAG
* *** *
44339531 GGGTATTTCTGTAATTTTAC-ACTATAGGGGTATTTTTGTAATTTTACAAACCAA
1 GGGTATTTCAGTAATTTTACAACTATAGGGGTATTCCAGTAATTTCACAAACCAA
* * * * *
44339585 GGGTATTTCAGTAATTTTACAAGT-TGGGGGTATTCCAGTAATTTCATAAATCGA
1 GGGTATTTCAGTAATTTTACAACTATAGGGGTATTCCAGTAATTTCACAAACCAA
* * * * *
44339639 GGGTATTTCAGTAATTTCACAA--ATCAGGGTGT-TTCGA-TAATTTCATAAATCAG
1 GGGTATTTCAGTAATTTTACAACTAT-AGGG-GTATTCCAGTAATTTCACAAACCAA
* * *
44339692 GGGCAATTCGGTAATTTTACAACT
1 GGGTATTTCAGTAATTTTACAACT
44339716 CGAGGGTCTT
Statistics
Matches: 106, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
53 33 0.31
54 69 0.65
55 4 0.04
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (55 bp):
GGGTATTTCAGTAATTTTACAACTATAGGGGTATTCCAGTAATTTCACAAACCAA
Found at i:44343861 original size:36 final size:36
Alignment explanation
Indices: 44343802--44343878 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
44343792 TTATTACGAA
* *
44343802 GTCTTACCCGGCATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGCAAAATCTCCACACGAAGTCATCGG
*
44343838 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
1 GTCTTACCCGG-CAAAATCTCCACACGAAGTCATCGG
44343874 GTCTT
1 GTCTT
44343879 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 31 0.84
37 6 0.16
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (36 bp):
GTCTTACCCGGCAAAATCTCCACACGAAGTCATCGG
Found at i:44344126 original size:47 final size:47
Alignment explanation
Indices: 44343997--44344567 Score: 986
Period size: 47 Copynumber: 12.1 Consensus size: 47
44343987 TCCTTCGGGA
* * * * * *
44343997 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44344044 CCTGTCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44344092 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44344139 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44344185 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44344231 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44344278 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44344325 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44344372 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44344421 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44344468 CTTATCACATATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44344517 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44344564 CTTA
1 CTTA
44344568 CTATCATATT
Statistics
Matches: 503, Mismatches: 12, Indels: 18
0.94 0.02 0.03
Matches are distributed among these distances:
46 102 0.20
47 270 0.54
48 29 0.06
49 102 0.20
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44344413 original size:96 final size:94
Alignment explanation
Indices: 44343997--44344567 Score: 986
Period size: 96 Copynumber: 6.0 Consensus size: 94
44343987 TCCTTCGGGA
* * * * * * * *
44343997 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
44344062 AC-TTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
44344092 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
44344156 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
44344185 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
44344249 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
44344278 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
44344343 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
44344372 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44344437 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
44344468 CTTATCACATATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44344533 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
44344564 CTTA
1 CTTA
44344568 CTATCATATT
Statistics
Matches: 463, Mismatches: 8, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
92 19 0.04
93 149 0.32
94 68 0.15
95 42 0.09
96 185 0.40
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:44344465 original size:143 final size:142
Alignment explanation
Indices: 44343997--44344567 Score: 990
Period size: 143 Copynumber: 4.0 Consensus size: 142
44343987 TCCTTCGGGA
* * * * * * * *
44343997 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
44344062 AC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
44344126 TCGGCCATTAGGC
130 TCGGCCATTAGGC
44344139 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
44344202 CTTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
44344266 CGGCCATTAGGC
131 CGGCCATTAGGC
44344278 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
44344342 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
44344407 ATCGGCCATTAGGC
129 ATCGGCCATTAGGC
44344421 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
*
44344486 ACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
44344551 TCGGCCATTAGGC
130 TCGGCCATTAGGC
44344564 CTTA
1 CTTA
44344568 CTATCATATT
Statistics
Matches: 413, Mismatches: 9, Indels: 13
0.95 0.02 0.03
Matches are distributed among these distances:
139 66 0.16
140 102 0.25
141 61 0.15
142 1 0.00
143 137 0.33
145 46 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:44348061 original size:40 final size:38
Alignment explanation
Indices: 44348008--44348180 Score: 161
Period size: 39 Copynumber: 4.4 Consensus size: 38
44347998 CATGATTGCT
**
44348008 CTTCGGGGTTTAGCACGGATATATCACTAGCACGAATGC
1 CTTCGGGACTTAGC-CGGATATATCACTAGCACGAATGC
* * *
44348047 TCTTCGGAACTTAGCCGGATACATCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCGGATATATCACTAGCACGAATGC
* * * *
44348086 TCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACTAATGC
1 -CTTCGGGACTTAG-CCGGATATA-TCACTAGCACGAATGC
* *
44348127 CTTCGGG-CTTAGTCCGGATATGGTCACTTAGCAC-AAAGC
1 CTTCGGGACTTAG-CCGGATAT-ATCAC-TAGCACGAATGC
44348166 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
44348181 CGGACATCAT
Statistics
Matches: 110, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 63 0.57
40 35 0.32
41 12 0.11
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (38 bp):
CTTCGGGACTTAGCCGGATATATCACTAGCACGAATGC
Found at i:44348091 original size:79 final size:79
Alignment explanation
Indices: 44347991--44348146 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
44347981 CGAATACACG
* ** *
44347991 TCACCAGCATGATTGCTCTTCGGGGTTTAGCACGGATATA-TCACTAGCACGAATGCTCTTCGGA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCACGAATGC-CTTCGG-
44348055 ACTTAG-CCGGATACA
64 ACTTAGTCCGGATACA
* * * * * *
44348070 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACTAATGCCTTCGGGC
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCACGAATGCCTTCGGAC
44348135 TTAGTCCGGATA
66 TTAGTCCGGATA
44348147 TGGTCACTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
78 5 0.08
79 47 0.72
80 13 0.20
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (79 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCACGAATGCCTTCGGAC
TTAGTCCGGATACA
Found at i:44348528 original size:29 final size:29
Alignment explanation
Indices: 44348489--44348567 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
44348479 CTTAATAATC
*
44348489 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
44348519 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
44348548 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44348568 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:44348610 original size:43 final size:43
Alignment explanation
Indices: 44348549--44348651 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
44348539 TGCATTTCAA
44348549 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
44348592 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
44348635 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
44348652 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:44350548 original size:36 final size:37
Alignment explanation
Indices: 44350501--44350578 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
44350491 CTATTACGAA
* * *
44350501 GTCTTACCCGGACATAATCTCCACACGAAGTTATC-G
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44350537 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
44350574 GTCTT
1 GTCTT
44350579 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 31 0.84
37 6 0.16
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Done.