Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 68 of 75
Found at i:22164814 original size:19 final size:20
Alignment explanation
Indices: 22164790--22164844 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
22164780 TTTAACTGAG
22164790 AATGAATGACCAATTTAT-A
1 AATGAATGACCAATTTATGA
* *
22164809 AATGAATG-CCAAATTTTTGT
1 AATGAATGACC-AATTTATGA
*
22164829 AATGAATGACAAATTT
1 AATGAATGACCAATTT
22164845 GTCTAAGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.07
19 14 0.47
20 13 0.43
21 1 0.03
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGAATGACCAATTTATGA
Found at i:22164998 original size:21 final size:20
Alignment explanation
Indices: 22164970--22165009 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
22164960 ACTTGGCATA
* *
22164970 TTATTTTTATATAACAAATG
1 TTATTTTTAAATAAAAAATG
22164990 TTATGTTTTAAATAAAAAAT
1 TTAT-TTTTAAATAAAAAAT
22165010 ATTTTTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
TTATTTTTAAATAAAAAATG
Found at i:22165213 original size:20 final size:20
Alignment explanation
Indices: 22165162--22165213 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
22165152 CCAGGCTAAA
*
22165162 AAGTATTGATACTTTTTGTC
1 AAGTATTGATAGTTTTTGTC
* *
22165182 AAGTATCGATAGTTTTTGTT
1 AAGTATTGATAGTTTTTGTC
*
22165202 GAGTATTGATAG
1 AAGTATTGATAG
22165214 AATCAAGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (20 bp):
AAGTATTGATAGTTTTTGTC
Found at i:22167451 original size:963 final size:963
Alignment explanation
Indices: 22165585--22167510 Score: 3852
Period size: 963 Copynumber: 2.0 Consensus size: 963
22165575 ACGACTCTAT
22165585 TCAATATTCCAACAACCACAACGATTGGAAATCAATTAAATGGTATCAATACCAACCTTCAAAGG
1 TCAATATTCCAACAACCACAACGATTGGAAATCAATTAAATGGTATCAATACCAACCTTCAAAGG
22165650 GTCTACAAGAAGAGAGATTGTCAAAGCAAAAAGTTCAACCAATCAACCTTTGTGCTTAAAGTTTT
66 GTCTACAAGAAGAGAGATTGTCAAAGCAAAAAGTTCAACCAATCAACCTTTGTGCTTAAAGTTTT
22165715 CATACTTTTCTTGTACACACTTGTGAGCTCTCATTGTTGTTTATTTAGCTCAAGTGTTTTATTAT
131 CATACTTTTCTTGTACACACTTGTGAGCTCTCATTGTTGTTTATTTAGCTCAAGTGTTTTATTAT
22165780 TTCATTTGTGCTAAATTTGAAACAGTCCAATCTAGTAAGGATTAAGTCTTTGTTTGCTTATTTGT
196 TTCATTTGTGCTAAATTTGAAACAGTCCAATCTAGTAAGGATTAAGTCTTTGTTTGCTTATTTGT
22165845 ATTACTCTTTGAGAGGGTTTTATCTTAAGGTTTAGGTAGAAACCTTAATGGAGTTGCAAGGTTAA
261 ATTACTCTTTGAGAGGGTTTTATCTTAAGGTTTAGGTAGAAACCTTAATGGAGTTGCAAGGTTAA
22165910 ACCTTATTCTCAAAGGTTAGACGAATTAGTAAATTTGAGAAAATCCTTAATTATGGAAAGCTATG
326 ACCTTATTCTCAAAGGTTAGACGAATTAGTAAATTTGAGAAAATCCTTAATTATGGAAAGCTATG
22165975 GTATTGGAATTGTCAATTGGGGCCGAACCATACTAAATCATTGTATTTATTTGTTCTATATTTTC
391 GTATTGGAATTGTCAATTGGGGCCGAACCATACTAAATCATTGTATTTATTTGTTCTATATTTTC
22166040 TTTCTTGCTTCTACAAAATTCCCCCTCTTGGCAATTTCGGATTGTTTTATCAAGCTAACATTATA
456 TTTCTTGCTTCTACAAAATTCCCCCTCTTGGCAATTTCGGATTGTTTTATCAAGCTAACATTATA
22166105 TATACTATAACAATATGAGGTTACAAAAAAAAGGAATAACTTTTTAAAAGTCACATTACGATTTT
521 TATACTATAACAATATGAGGTTACAAAAAAAAGGAATAACTTTTTAAAAGTCACATTACGATTTT
22166170 TTAACATATGATACTTTCCATTTGAGGTATTTATTTACAGTTTGGGTAAATTACTCTTTTACTCA
586 TTAACATATGATACTTTCCATTTGAGGTATTTATTTACAGTTTGGGTAAATTACTCTTTTACTCA
22166235 TTGCCTTTTAATTTTATTAAGTTATTTCATGTTTCTTGTTTAAATTTTTTCTTTATAATTTTTTA
651 TTGCCTTTTAATTTTATTAAGTTATTTCATGTTTCTTGTTTAAATTTTTTCTTTATAATTTTTTA
22166300 TATGTTAAATATAAAGTTAATTTTAAATGAAATATCTCTTTATTTTAAGATTTTACTTAAGTGAA
716 TATGTTAAATATAAAGTTAATTTTAAATGAAATATCTCTTTATTTTAAGATTTTACTTAAGTGAA
22166365 TTAACTTTTAGTGTTATCATATTAAAATTAATGAATATTAAATTGTTAAGTTTAAAATATGGTTT
781 TTAACTTTTAGTGTTATCATATTAAAATTAATGAATATTAAATTGTTAAGTTTAAAATATGGTTT
22166430 TAATAAAAAGACACATATTAATAGCATTTATTAAATTAAACTTATATTTTTAAGTATAAAAAGAG
846 TAATAAAAAGACACATATTAATAGCATTTATTAAATTAAACTTATATTTTTAAGTATAAAAAGAG
22166495 TTAATTATTAAAGTAGAGCAAAGATAAAATTAAAATTAAAAAAAATTTTAACA
911 TTAATTATTAAAGTAGAGCAAAGATAAAATTAAAATTAAAAAAAATTTTAACA
22166548 TCAATATTCCAACAACCACAACGATTGGAAATCAATTAAATGGTATCAATACCAACCTTCAAAGG
1 TCAATATTCCAACAACCACAACGATTGGAAATCAATTAAATGGTATCAATACCAACCTTCAAAGG
22166613 GTCTACAAGAAGAGAGATTGTCAAAGCAAAAAGTTCAACCAATCAACCTTTGTGCTTAAAGTTTT
66 GTCTACAAGAAGAGAGATTGTCAAAGCAAAAAGTTCAACCAATCAACCTTTGTGCTTAAAGTTTT
22166678 CATACTTTTCTTGTACACACTTGTGAGCTCTCATTGTTGTTTATTTAGCTCAAGTGTTTTATTAT
131 CATACTTTTCTTGTACACACTTGTGAGCTCTCATTGTTGTTTATTTAGCTCAAGTGTTTTATTAT
22166743 TTCATTTGTGCTAAATTTGAAACAGTCCAATCTAGTAAGGATTAAGTCTTTGTTTGCTTATTTGT
196 TTCATTTGTGCTAAATTTGAAACAGTCCAATCTAGTAAGGATTAAGTCTTTGTTTGCTTATTTGT
22166808 ATTACTCTTTGAGAGGGTTTTATCTTAAGGTTTAGGTAGAAACCTTAATGGAGTTGCAAGGTTAA
261 ATTACTCTTTGAGAGGGTTTTATCTTAAGGTTTAGGTAGAAACCTTAATGGAGTTGCAAGGTTAA
22166873 ACCTTATTCTCAAAGGTTAGACGAATTAGTAAATTTGAGAAAATCCTTAATTATGGAAAGCTATG
326 ACCTTATTCTCAAAGGTTAGACGAATTAGTAAATTTGAGAAAATCCTTAATTATGGAAAGCTATG
22166938 GTATTGGAATTGTCAATTGGGGCCGAACCATACTAAATCATTGTATTTATTTGTTCTATATTTTC
391 GTATTGGAATTGTCAATTGGGGCCGAACCATACTAAATCATTGTATTTATTTGTTCTATATTTTC
22167003 TTTCTTGCTTCTACAAAATTCCCCCTCTTGGCAATTTCGGATTGTTTTATCAAGCTAACATTATA
456 TTTCTTGCTTCTACAAAATTCCCCCTCTTGGCAATTTCGGATTGTTTTATCAAGCTAACATTATA
22167068 TATACTATAACAATATGAGGTTACAAAAAAAAGGAATAACTTTTTAAAAGTCACATTACGATTTT
521 TATACTATAACAATATGAGGTTACAAAAAAAAGGAATAACTTTTTAAAAGTCACATTACGATTTT
22167133 TTAACATATGATACTTTCCATTTGAGGTATTTATTTACAGTTTGGGTAAATTACTCTTTTACTCA
586 TTAACATATGATACTTTCCATTTGAGGTATTTATTTACAGTTTGGGTAAATTACTCTTTTACTCA
22167198 TTGCCTTTTAATTTTATTAAGTTATTTCATGTTTCTTGTTTAAATTTTTTCTTTATAATTTTTTA
651 TTGCCTTTTAATTTTATTAAGTTATTTCATGTTTCTTGTTTAAATTTTTTCTTTATAATTTTTTA
22167263 TATGTTAAATATAAAGTTAATTTTAAATGAAATATCTCTTTATTTTAAGATTTTACTTAAGTGAA
716 TATGTTAAATATAAAGTTAATTTTAAATGAAATATCTCTTTATTTTAAGATTTTACTTAAGTGAA
22167328 TTAACTTTTAGTGTTATCATATTAAAATTAATGAATATTAAATTGTTAAGTTTAAAATATGGTTT
781 TTAACTTTTAGTGTTATCATATTAAAATTAATGAATATTAAATTGTTAAGTTTAAAATATGGTTT
22167393 TAATAAAAAGACACATATTAATAGCATTTATTAAATTAAACTTATATTTTTAAGTATAAAAAGAG
846 TAATAAAAAGACACATATTAATAGCATTTATTAAATTAAACTTATATTTTTAAGTATAAAAAGAG
22167458 TTAATTATTAAAGTAGAGCAAAGATAAAATTAAAATTAAAAAAAATTTTAACA
911 TTAATTATTAAAGTAGAGCAAAGATAAAATTAAAATTAAAAAAAATTTTAACA
22167511 ATTTTAACAT
Statistics
Matches: 963, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
963 963 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (963 bp):
TCAATATTCCAACAACCACAACGATTGGAAATCAATTAAATGGTATCAATACCAACCTTCAAAGG
GTCTACAAGAAGAGAGATTGTCAAAGCAAAAAGTTCAACCAATCAACCTTTGTGCTTAAAGTTTT
CATACTTTTCTTGTACACACTTGTGAGCTCTCATTGTTGTTTATTTAGCTCAAGTGTTTTATTAT
TTCATTTGTGCTAAATTTGAAACAGTCCAATCTAGTAAGGATTAAGTCTTTGTTTGCTTATTTGT
ATTACTCTTTGAGAGGGTTTTATCTTAAGGTTTAGGTAGAAACCTTAATGGAGTTGCAAGGTTAA
ACCTTATTCTCAAAGGTTAGACGAATTAGTAAATTTGAGAAAATCCTTAATTATGGAAAGCTATG
GTATTGGAATTGTCAATTGGGGCCGAACCATACTAAATCATTGTATTTATTTGTTCTATATTTTC
TTTCTTGCTTCTACAAAATTCCCCCTCTTGGCAATTTCGGATTGTTTTATCAAGCTAACATTATA
TATACTATAACAATATGAGGTTACAAAAAAAAGGAATAACTTTTTAAAAGTCACATTACGATTTT
TTAACATATGATACTTTCCATTTGAGGTATTTATTTACAGTTTGGGTAAATTACTCTTTTACTCA
TTGCCTTTTAATTTTATTAAGTTATTTCATGTTTCTTGTTTAAATTTTTTCTTTATAATTTTTTA
TATGTTAAATATAAAGTTAATTTTAAATGAAATATCTCTTTATTTTAAGATTTTACTTAAGTGAA
TTAACTTTTAGTGTTATCATATTAAAATTAATGAATATTAAATTGTTAAGTTTAAAATATGGTTT
TAATAAAAAGACACATATTAATAGCATTTATTAAATTAAACTTATATTTTTAAGTATAAAAAGAG
TTAATTATTAAAGTAGAGCAAAGATAAAATTAAAATTAAAAAAAATTTTAACA
Found at i:22170187 original size:19 final size:21
Alignment explanation
Indices: 22170148--22170188 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
22170138 AATTTATATT
22170148 TTAAAATATAATATAAACATA
1 TTAAAATATAATATAAACATA
*
22170169 TTAAAAT-TTATAT-AACATA
1 TTAAAATATAATATAAACATA
22170188 T
1 T
22170189 ACTCACAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 5 0.26
21 7 0.37
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAATATAATATAAACATA
Found at i:22175969 original size:17 final size:19
Alignment explanation
Indices: 22175943--22176005 Score: 76
Period size: 18 Copynumber: 3.3 Consensus size: 19
22175933 TTATTTTTAT
22175943 TTTTTAA-TTTTAAAATAC
1 TTTTTAATTTTTAAAATAC
22175961 TTTTT-ATTTTTAAAATAC
1 TTTTTAATTTTTAAAATAC
*
22175979 TTTTTTTTAATTTTTAAAATAA
1 ---TTTTTAATTTTTAAAATAC
22176001 TTTTT
1 TTTTT
22176006 TTAGTATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 16 0.41
19 5 0.13
21 5 0.13
22 12 0.31
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTAATTTTTAAAATAC
Found at i:22175991 original size:22 final size:22
Alignment explanation
Indices: 22175942--22176007 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
22175932 TTTATTTTTA
22175942 TTTTTTAA-TTTTAAAATAC--
1 TTTTTTAATTTTTAAAATACTT
22175961 -TTTTT-ATTTTTAAAATACTT
1 TTTTTTAATTTTTAAAATACTT
*
22175981 TTTTTTAATTTTTAAAATAATT
1 TTTTTTAATTTTTAAAATACTT
22176003 TTTTT
1 TTTTT
22176008 AGTATTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
17 1 0.02
18 16 0.39
21 5 0.12
22 19 0.46
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTTTAATTTTTAAAATACTT
Found at i:22186575 original size:34 final size:33
Alignment explanation
Indices: 22186512--22186577 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 33
22186502 ATATATATGT
*
22186512 ATACGAACTGTAAAATATACGAAAAATATGTATC
1 ATACGAACTATAAAATATAC-AAAAATATGTATC
*
22186546 ATACGAATTATAAAATATA-AAAACTATATGTA
1 ATACGAACTATAAAATATACAAAA--ATATGTA
22186578 AAAAAAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.14
34 24 0.86
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (33 bp):
ATACGAACTATAAAATATACAAAAATATGTATC
Found at i:22188889 original size:11 final size:11
Alignment explanation
Indices: 22188865--22188900 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
22188855 AAATTAAAAT
22188865 AAAAT-TTTTA
1 AAAATATTTTA
22188875 AAAAGTATTTTA
1 AAAA-TATTTTA
22188887 AAAATATTTTA
1 AAAATATTTTA
22188898 AAA
1 AAA
22188901 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.17
11 11 0.46
12 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:22188934 original size:39 final size:38
Alignment explanation
Indices: 22188874--22188958 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 38
22188864 TAAAATTTTT
* *
22188874 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTA
1 AAAAAATATTTGAAAAATATTTTAAAATTAAAAAAA-TA
*
22188913 AAAAAATATTTGAAAAGTATTTTAAAATTAAAAAAATA
1 AAAAAATATTTGAAAAATATTTTAAAATTAAAAAAATA
22188951 AAAAAATA
1 AAAAAATA
22188959 AAATATTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
38 10 0.23
39 33 0.77
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (38 bp):
AAAAAATATTTGAAAAATATTTTAAAATTAAAAAAATA
Found at i:22191108 original size:27 final size:27
Alignment explanation
Indices: 22191078--22191140 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
22191068 TGACTCCCCC
*
22191078 AATTGCAGCCAAGTAAGAGCTAAGCGA
1 AATTGCACCCAAGTAAGAGCTAAGCGA
22191105 AATTGCACCCAAGTAAGAGCTAAGCGA
1 AATTGCACCCAAGTAAGAGCTAAGCGA
22191132 AATTGCACC
1 AATTGCACC
22191141 ATCTATATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (27 bp):
AATTGCACCCAAGTAAGAGCTAAGCGA
Found at i:22197039 original size:3 final size:3
Alignment explanation
Indices: 22197031--22197084 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
22197021 ATTCATAAAA
*
22197031 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AG AAG AA- AAC
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
22197077 AAG AAG AA
1 AAG AAG AA
22197085 ATTTTGTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
2 4 0.08
3 44 0.92
ACGTcount: A:0.69, C:0.02, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22199471 original size:16 final size:16
Alignment explanation
Indices: 22199450--22199483 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
22199440 AAAGTTACAG
22199450 AAATTTATCTCTTCAA
1 AAATTTATCTCTTCAA
22199466 AAATTTATCTCTTCAA
1 AAATTTATCTCTTCAA
22199482 AA
1 AA
22199484 TGTGTATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTATCTCTTCAA
Found at i:22206365 original size:88 final size:89
Alignment explanation
Indices: 22206225--22206398 Score: 228
Period size: 88 Copynumber: 2.0 Consensus size: 89
22206215 CTGAATTAGG
* *
22206225 CAATTGTTCCCACACTAGGGCTCAAATTAGACAATTGTTCTCACATTCGGGCTTGAACTTTTTTT
1 CAATTGTTCCCACACTAGGGCTCAAACTAGACAATTATTCTCACATTCGGGCTTGAACTTTTTTT
22206290 GTCCAAGTTAGTCCTTGAACTCGA
66 GTCCAAGTTAGTCCTTGAACTCGA
* * * *
22206314 CAATTGTT-CCACATTAGGGCAT-GAACTAGATAATTATTCCTC-CATTGGGGCTTGAACTTTTT
1 CAATTGTTCCCACACTAGGGC-TCAAACTAGACAATTATT-CTCACATTCGGGCTTGAACTTTTT
* * *
22206376 TTTTTCAAGTTAGTTCTTGAACT
64 TTGTCCAAGTTAGTCCTTGAACT
22206399 TGGCATTTGT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
88 62 0.84
89 12 0.16
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (89 bp):
CAATTGTTCCCACACTAGGGCTCAAACTAGACAATTATTCTCACATTCGGGCTTGAACTTTTTTT
GTCCAAGTTAGTCCTTGAACTCGA
Found at i:22208151 original size:23 final size:23
Alignment explanation
Indices: 22208113--22208163 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
22208103 AGTCTCCACA
*
22208113 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
* *
22208136 TGTAATACCCCGAAAATTATTAC
1 TGTAATACCCCAAAAATTACTAC
*
22208159 AGTAA
1 TGTAA
22208164 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:22211938 original size:2 final size:2
Alignment explanation
Indices: 22211931--22211959 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22211921 CATCCAATTA
22211931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22211960 AACACCCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22215048 original size:157 final size:152
Alignment explanation
Indices: 22214636--22215464 Score: 1122
Period size: 157 Copynumber: 5.3 Consensus size: 152
22214626 TTTAGTGTGT
* * *
22214636 TTTTTATTGAAAGTAATAAAATCCGGGAAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTT
1 TTTTTATT-AAAGTAATAAAATCCGGGAAAAAATACGAACAAATGGTCGAAATAAGGGTTTTTTT
* * * * *
22214701 AAAAAATTATTTAAAAAGCA-AACTAAATGAATAAATTTCAAACATAATATACTAAAATAATGTA
65 -AAAATTTATTTAAAAAACACAA-TAAATTAATACATTTCAAACATAATGTACTAAAATAATGTA
22214765 AAAT-ATGAAAATATG-A-A-AATAGTA
128 AAATAAT-AAAATA-GAAGATAATA-TA
*
22214789 TTTTT-TT-AAGTAATAAAATTCGGGGAAAAAATACGAACAAA--GTGCAGAAATAAGGGTTTTT
1 TTTTTATTAAAGTAATAAAA-TCCGGGAAAAAATACGAACAAATGGT-C-GAAATAAGGGTTTTT
* * *
22214850 TTAAATTTTATTTAAAAAATACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTA
63 TTAAAATTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTA
22214915 AAATAATAAAATACGAAGATAATATA
128 AAATAATAAAATA-GAAGATAATATA
22214941 TTTTTATTAAAAGTAATAAAATCCAGGGAAAAAAATACGAACAAATGGTCGAAATAATGGGTTTT
1 TTTTTATT-AAAGTAATAAAATCC-GGG-AAAAAATACGAACAAATGGTCGAAATAA-GGGTTTT
22215006 TTTAAAATTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
62 TTTAAAATTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
22215071 AAAATAATAAAATACGAAGATAATATA
127 AAAATAATAAAATA-GAAGATAATATA
22215098 TTTTTATTAAAAGTAATAAAATCCAGGGAAAAAAATACGAACAAATGGTCGAAATAATGGGTTTT
1 TTTTTATT-AAAGTAATAAAATCC-GGG-AAAAAATACGAACAAATGGTCGAAATAA-GGGTTTT
22215163 TTTAAAATTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
62 TTTAAAATTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
22215228 AAAATAATAAAATTAG-AGAATAATATA
127 AAAATAATAAAA-TAGAAG-ATAATATA
* * *
22215255 TTTTTATTGAAAGTAATAAAATCCGGGGAAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTT
1 TTTTTATT-AAAGTAATAAAATCC-GGGAAAAAATACGAACAAATGGTCGAAATAAGGG-TTTTT
* * *
22215320 TTAAAAATTATTTAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
63 TTAAAATTTATTT-AAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
* * **
22215385 AAAGTAATAAAATTAGAAAATGGTATA
127 AAAATAATAAAA-TAGAAGATAATATA
* *
22215412 TTTTT-TTAAAGTAATAAAATTCAGGGAAAAAATACGAACAAATGGTTGAAATA
1 TTTTTATTAAAGTAATAAAA-TCCGGGAAAAAATACGAACAAATGGTCGAAATA
22215465 CGAACATGTT
Statistics
Matches: 621, Mismatches: 33, Indels: 42
0.89 0.05 0.06
Matches are distributed among these distances:
149 1 0.00
150 76 0.12
151 41 0.07
152 10 0.02
153 11 0.02
154 2 0.00
155 55 0.09
156 71 0.11
157 349 0.56
158 5 0.01
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.30
Consensus pattern (152 bp):
TTTTTATTAAAGTAATAAAATCCGGGAAAAAATACGAACAAATGGTCGAAATAAGGGTTTTTTTA
AAATTTATTTAAAAAACACAATAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAATAGAAGATAATATA
Found at i:22223242 original size:218 final size:219
Alignment explanation
Indices: 22222864--22223300 Score: 867
Period size: 218 Copynumber: 2.0 Consensus size: 219
22222854 TTGAATATTG
22222864 TTTAAGTATTGTTTATAAGATTTTTAAAAAAATATGAAATTTCATATTAAAAAAATAAACAATGA
1 TTTAAGTATTGTTTATAAGATTTTTAAAAAAATATGAAATTTCATATTAAAAAAATAAACAATGA
22222929 ATATTCATTTATCTATAATTTTATATCTTTTTTTATCAAAATAAAGTGACATCTATTTAAAAATC
66 ATATTCATTTATCTATAATTTTATATCTTTTTTTATCAAAATAAAGTGACATCTATTTAAAAATC
22222994 TGGATACAATGAGATCCAATTCAATCTCACAGTTCATATTAAGTTTCACAAAAAACAACAAGACT
131 TGGATACAATGAGATCCAATTCAATCTCACAGTTCATATTAAGTTTCACAAAAAACAACAAGACT
22223059 GAGAGTGGTAAAG-AAATAAAAAA
196 GAGAGTGGTAAAGTAAATAAAAAA
22223082 TTTAAGTATTGTTTATAAGATTTTTAAAAAAATATGAAATTTCATATTAAAAAAATAAACAATGA
1 TTTAAGTATTGTTTATAAGATTTTTAAAAAAATATGAAATTTCATATTAAAAAAATAAACAATGA
22223147 ATATTCATTTATCTATAATTTTATATCTTTTTTTATCAAAATAAAGTGACATCTATTTAAAAATC
66 ATATTCATTTATCTATAATTTTATATCTTTTTTTATCAAAATAAAGTGACATCTATTTAAAAATC
22223212 TGGATACAATGAGATCCAATTCAATCTCACAGTTCATATTAAGTTTCACAAAAAACAACAAGACT
131 TGGATACAATGAGATCCAATTCAATCTCACAGTTCATATTAAGTTTCACAAAAAACAACAAGACT
22223277 GAGAGTGGTAAAGTAAATAAAAAA
196 GAGAGTGGTAAAGTAAATAAAAAA
22223301 GTAAATAATA
Statistics
Matches: 218, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
218 208 0.95
219 10 0.05
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (219 bp):
TTTAAGTATTGTTTATAAGATTTTTAAAAAAATATGAAATTTCATATTAAAAAAATAAACAATGA
ATATTCATTTATCTATAATTTTATATCTTTTTTTATCAAAATAAAGTGACATCTATTTAAAAATC
TGGATACAATGAGATCCAATTCAATCTCACAGTTCATATTAAGTTTCACAAAAAACAACAAGACT
GAGAGTGGTAAAGTAAATAAAAAA
Found at i:22223334 original size:3 final size:3
Alignment explanation
Indices: 22223326--22223354 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22223316 AGTAATGTAT
22223326 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
22223355 CAAGTCGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22224723 original size:21 final size:22
Alignment explanation
Indices: 22224647--22224723 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 22
22224637 AATACTCTTG
* * *
22224647 TTATTATTTTATTTTATTATGTA
1 TTATTATTTTAATTT-TCATATA
*
22224670 ATATTATTTTAAGTTTTTCATATA
1 TTATTATTTTAA--TTTTCATATA
22224694 TTA-TATTTTAA-TTTCATA-A
1 TTATTATTTTAATTTTCATATA
22224713 TGTATTATTTT
1 T-TATTATTTT
22224724 GTTTTTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
19 2 0.04
20 9 0.20
21 6 0.13
23 18 0.40
24 7 0.16
25 3 0.07
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (22 bp):
TTATTATTTTAATTTTCATATA
Found at i:22225307 original size:17 final size:17
Alignment explanation
Indices: 22225271--22225304 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22225261 ATAAAAAATA
*
22225271 AAAGTCCATTTACAATT
1 AAAGTCCAATTACAATT
22225288 AAAGTCCAAATTACAAT
1 AAAGTCC-AATTACAAT
22225305 AAACCCGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAGTCCAATTACAATT
Found at i:22229223 original size:15 final size:15
Alignment explanation
Indices: 22229205--22229234 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22229195 TAACCTTATT
22229205 TTAAAAAATAAATAA
1 TTAAAAAATAAATAA
*
22229220 TTAATAAATAAATAA
1 TTAAAAAATAAATAA
22229235 ACAAATACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TTAAAAAATAAATAA
Found at i:22231131 original size:26 final size:27
Alignment explanation
Indices: 22231102--22231158 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
22231092 ATCAAGCCCT
22231102 ATTTGTAA-ATGAATATTTTT-TTTTTA
1 ATTTG-AACATGAATATTTTTATTTTTA
* * *
22231128 ATTTGAACTTTATTATTTTTATTTTTA
1 ATTTGAACATGAATATTTTTATTTTTA
22231155 ATTT
1 ATTT
22231159 TGGTTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.08
26 14 0.54
27 10 0.38
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (27 bp):
ATTTGAACATGAATATTTTTATTTTTA
Found at i:22236759 original size:18 final size:19
Alignment explanation
Indices: 22236717--22236770 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
22236707 AATACAAAAC
* *
22236717 AAATTCAAAATCATTTTTAA
1 AAATTCCAAAT-ATTTATAA
22236737 AAATTCCAAATATTTAT-A
1 AAATTCCAAATATTTATAA
*
22236755 AAATTTCAAAT-TTTAT
1 AAATTCCAAATATTTAT
22236771 GTTTTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.16
18 11 0.35
19 5 0.16
20 10 0.32
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATTCCAAATATTTATAA
Found at i:22240242 original size:15 final size:15
Alignment explanation
Indices: 22240222--22240256 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22240212 AAGCTTTGAT
* *
22240222 ATATTTCACTATATG
1 ATATTTCAATATATA
22240237 ATATTTCAATATATA
1 ATATTTCAATATATA
22240252 ATATT
1 ATATT
22240257 GAATTCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATTTCAATATATA
Found at i:22244558 original size:31 final size:31
Alignment explanation
Indices: 22244523--22244584 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
22244513 TTGAGTAATA
22244523 ATAATGCAACTGAATATTCATAATAACAAAC
1 ATAATGCAACTGAATATTCATAATAACAAAC
* *
22244554 ATAATGCAACTGAATATTCATACTAAGAAAC
1 ATAATGCAACTGAATATTCATAATAACAAAC
22244585 CAGTACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (31 bp):
ATAATGCAACTGAATATTCATAATAACAAAC
Found at i:22248176 original size:21 final size:23
Alignment explanation
Indices: 22248147--22248195 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
22248137 CATCCACCTA
*
22248147 TTTATAATAACAAAAAAA-T-AT
1 TTTAAAATAACAAAAAAATTAAT
**
22248168 TTTAAAATATTAAAAAAATTAAT
1 TTTAAAATAACAAAAAAATTAAT
22248191 TTTAA
1 TTTAA
22248196 CTTAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 15 0.65
22 1 0.04
23 7 0.30
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TTTAAAATAACAAAAAAATTAAT
Found at i:22254627 original size:21 final size:21
Alignment explanation
Indices: 22254578--22254623 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
22254568 ATCGTATGCC
22254578 TATAATTTTAAAAAAGAAAAT
1 TATAATTTTAAAAAAGAAAAT
* *
22254599 TATAATTTT-AGAAAGTAAAT
1 TATAATTTTAAAAAAGAAAAT
22254619 TATAA
1 TATAA
22254624 ATTTCAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (21 bp):
TATAATTTTAAAAAAGAAAAT
Found at i:22259632 original size:16 final size:16
Alignment explanation
Indices: 22259611--22259641 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22259601 AAAATTGAAT
22259611 AACAGACGAAGGAGGC
1 AACAGACGAAGGAGGC
22259627 AACAGACGAAGGAGG
1 AACAGACGAAGGAGG
22259642 AACCGAGCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.39, T:0.00
Consensus pattern (16 bp):
AACAGACGAAGGAGGC
Found at i:22264645 original size:62 final size:59
Alignment explanation
Indices: 22264578--22264728 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 59
22264568 ATAGTTTTGG
* * * *
22264578 ATTAGTATTTTGTATGAATATTATAATTTTTTTGCTTTTTATAATTATTTTAAAATTAATTT
1 ATTAGTATTTAGGAT-AATATTATAA-ATTTTTG-TGTTTATAATTATTTTAAAATTAATTT
* * * *
22264640 GTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTTAAAATTAATTT
1 ATTAGT-ATTTAGGATAATATTATAAATTTTTGTGTTTATAATTATTTTAAAATTAATTT
*
22264700 ATTAGTAATTTAGGATTAA-GTTATAAATT
1 ATTAGT-ATTTAGGA-TAATATTATAAATT
22264729 GTGGTTTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
60 49 0.64
61 8 0.10
62 13 0.17
63 7 0.09
ACGTcount: A:0.34, C:0.01, G:0.11, T:0.55
Consensus pattern (59 bp):
ATTAGTATTTAGGATAATATTATAAATTTTTGTGTTTATAATTATTTTAAAATTAATTT
Found at i:22282337 original size:16 final size:16
Alignment explanation
Indices: 22282313--22282357 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
22282303 ACAATTAGAG
22282313 TTAGGGTTTTAAGATT
1 TTAGGGTTTTAAGATT
* *
22282329 TTGGGGTTTTTAGATT
1 TTAGGGTTTTAAGATT
*
22282345 TTACGGTTTTAAG
1 TTAGGGTTTTAAG
22282358 GAAAAAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.51
Consensus pattern (16 bp):
TTAGGGTTTTAAGATT
Found at i:22282512 original size:53 final size:51
Alignment explanation
Indices: 22282451--22282617 Score: 161
Period size: 53 Copynumber: 3.4 Consensus size: 51
22282441 GAAAAAAATC
22282451 AAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAA
1 AAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAA
* * * ** * **
22282502 GAAATCAAATTAGGGTTTAGTGTT--TAGGGT-TTTTAA-GA-AAAAATT---
1 -AAAT-AAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAA
22282547 AAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAAATTTTAAA
1 AAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-AAATTTTAAA
*
22282599 AAATTAGATTAGGGTTTAG
1 AAA-TAAATTAGGGTTTAG
22282618 TGTTTAGAGT
Statistics
Matches: 87, Mismatches: 17, Indels: 21
0.70 0.14 0.17
Matches are distributed among these distances:
43 17 0.20
44 4 0.05
45 4 0.05
46 4 0.05
47 1 0.01
48 5 0.06
49 6 0.07
50 4 0.05
51 4 0.05
52 7 0.08
53 31 0.36
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.38
Consensus pattern (51 bp):
AAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAA
Found at i:22282552 original size:96 final size:96
Alignment explanation
Indices: 22282425--22282664 Score: 358
Period size: 96 Copynumber: 2.5 Consensus size: 96
22282415 TAGAAAATTA
*
22282425 GTTTATGA-TTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAAT
1 GTTTA-GAGTTTTTAA-G-AAAAAATAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAAT
22282489 TAT-AAATTTTAAAGAAATCAAATTAGGGTTTAGT
63 TATAAAATTTTAAA-AAATCAAATTAGGGTTTAGT
* *
22282523 GTTTAGGGTTTTTAAGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
1 GTTTAGAGTTTTTAAGAAAAAATAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
* *
22282588 AAAATTTTAAAAAATTAGATTAGGGTTTAGT
66 AAAATTTTAAAAAATCAAATTAGGGTTTAGT
* * *
22282619 GTTTAGAGTTTTTAAGGAAAAATAAAATAAATTAGGATTTGGGGTT
1 GTTTAGAGTTTTTAAGAAAAAATAAAATAAATTAGGGTTTAGGGTT
22282665 TAGGGTTACT
Statistics
Matches: 131, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
96 107 0.82
97 12 0.09
98 12 0.09
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.38
Consensus pattern (96 bp):
GTTTAGAGTTTTTAAGAAAAAATAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
AAAATTTTAAAAAATCAAATTAGGGTTTAGT
Found at i:22282614 original size:46 final size:47
Alignment explanation
Indices: 22282465--22282614 Score: 110
Period size: 46 Copynumber: 3.2 Consensus size: 47
22282455 AAATTAGGGT
* *
22282465 TTAGGGTTACTTGAGTAAATTAATTAT-AAATTTTAAAGAAATCAAA
1 TTAGGGTTACTTGAGTAAATTAATTATAAAATTTTAAAGAAATTAGA
* ** ** * * ** * *
22282511 TTAGGGTTTA-GTGTTTAGGGTT-TTTAAGAAAAAATTAAATAAATTAGGGT
1 TTAGGG-TTACTTGAGTA-AATTAATT-ATAAAATTTTAAAGAAATTA--GA
22282561 TTAGGGTTACTTGAGTAAATTAATTATAAAATTTTAAA-AAATTAGA
1 TTAGGGTTACTTGAGTAAATTAATTATAAAATTTTAAAGAAATTAGA
22282607 TTAGGGTT
1 TTAGGGTT
22282615 TAGTGTTTAG
Statistics
Matches: 73, Mismatches: 23, Indels: 16
0.65 0.21 0.14
Matches are distributed among these distances:
46 21 0.29
47 6 0.08
48 19 0.26
49 15 0.21
50 12 0.16
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (47 bp):
TTAGGGTTACTTGAGTAAATTAATTATAAAATTTTAAAGAAATTAGA
Found at i:22282926 original size:126 final size:125
Alignment explanation
Indices: 22282701--22282991 Score: 465
Period size: 126 Copynumber: 2.3 Consensus size: 125
22282691 TAATTTAAAA
* *
22282701 AAGCTTCCACATGGACGCTCTTTTGCTACAGTAGTTCCTAAAAAATAATTTTAAGAAGACGTTTC
1 AAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTTCTAAAAAATAATTTTAAGAAGACGTTTC
* * * *
22282766 TGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCATTGTCAACAAAAGTACTGAAAG
66 TGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGGCAACAAAAGTACTGAAAG
* * * *
22282826 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAATTTCTGAAAAAATAATTTTGAGAAGATGTTT
1 AAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTTCT-AAAAAATAATTTTAAGAAGACGTTT
* *
22282891 CTGAGCAAATAGTGTCAAAAATGCTTCAAGCAGGATGCAATGGCAGCAAAAGTACTGAAAG
65 CTGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGGCAACAAAAGTACTGAAAG
22282952 AAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTTCTA
1 AAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTTCTA
22282992 TTTGGCCTGA
Statistics
Matches: 151, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
125 36 0.24
126 115 0.76
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (125 bp):
AAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTTCTAAAAAATAATTTTAAGAAGACGTTTC
TGAGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGGCAACAAAAGTACTGAAAG
Found at i:22284672 original size:49 final size:52
Alignment explanation
Indices: 22284611--22284716 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
22284601 TTATTTAAAA
* *
22284611 AAACTCTTTTAC-TATTATTTGTTT-TAAGGTTTTATT-TATCATTTATTCT
1 AAACTCTTTTACTTAATATTTGTTTAAAAGGTTTTATTATATCATTTATTCT
* * * *
22284660 AAACTGTTTTACTTAATATTTGTTTAAAAGTTTTTATTATATTATTTATTTT
1 AAACTCTTTTACTTAATATTTGTTTAAAAGGTTTTATTATATCATTTATTCT
22284712 AAACT
1 AAACT
22284717 ATTATATATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 11 0.23
50 11 0.23
51 10 0.21
52 16 0.33
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.58
Consensus pattern (52 bp):
AAACTCTTTTACTTAATATTTGTTTAAAAGGTTTTATTATATCATTTATTCT
Found at i:22284719 original size:17 final size:17
Alignment explanation
Indices: 22284699--22284764 Score: 71
Period size: 17 Copynumber: 3.7 Consensus size: 17
22284689 GTTTTTATTA
22284699 TATTATTTATTTTAAAC
1 TATTATTTATTTTAAAC
* *
22284716 TATTATATATGTTTTTATTA-
1 TATTAT-T-T-ATTTTA-AAC
22284736 TATTATTTATTTTAAAC
1 TATTATTTATTTTAAAC
22284753 TATTATTTATTT
1 TATTATTTATTT
22284765 GTTTTAAGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
16 1 0.03
17 23 0.57
18 2 0.05
19 2 0.05
20 11 0.28
21 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (17 bp):
TATTATTTATTTTAAAC
Found at i:22284759 original size:20 final size:20
Alignment explanation
Indices: 22284699--22284771 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 20
22284689 GTTTTTATTA
22284699 TATTATTTATTTTAAACTAT
1 TATTATTTATTTTAAACTAT
* *
22284719 TATATATGT-TTTT--ATTA-
1 TAT-TATTTATTTTAAACTAT
22284736 TATTATTTATTTTAAACTAT
1 TATTATTTATTTTAAACTAT
*
22284756 TATTTATTTGTTTTAA
1 TA-TTATTTATTTTAA
22284772 GGAAAATTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
16 4 0.10
17 7 0.17
18 3 0.07
19 3 0.07
20 9 0.21
21 16 0.38
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
TATTATTTATTTTAAACTAT
Found at i:22290021 original size:33 final size:33
Alignment explanation
Indices: 22289979--22290254 Score: 147
Period size: 33 Copynumber: 7.5 Consensus size: 33
22289969 ATCGATGGAT
*
22289979 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
** *
22290012 TCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGTGGAA
1 TCAGCACTTAGCAA---C---CAC---CAATGATTCGG-GGAA
*
22290055 TCAGCACTTAGCAACCACCAATGAATCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* ** *
22290088 TCAACACTTAGCAACCCCTTTCACATTCAAAAATACGGTGGAA
1 TCAGCACTTAGCAA---C---CAC---CAATGATTCGG-GGAA
*
22290131 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* * * *
22290164 TCAGCACATAGCAACCCCTTTCACATTTAAGATACGGTGGGA
1 TCAGCACTTAGCAACCAC---CA-A--T--GATTCGG-GGAA
* *
22290206 TCAGCACTTAACAACCACCAATGGTTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
22290239 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
22290255 CCTTGGGGGA
Statistics
Matches: 184, Mismatches: 30, Indels: 58
0.68 0.11 0.21
Matches are distributed among these distances:
33 69 0.38
34 19 0.10
36 5 0.03
37 6 0.03
38 1 0.01
39 9 0.05
40 2 0.01
41 6 0.03
42 32 0.17
43 35 0.19
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.20
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGATTCGGGGAA
Found at i:22290069 original size:43 final size:43
Alignment explanation
Indices: 22290008--22290146 Score: 181
Period size: 43 Copynumber: 3.5 Consensus size: 43
22289998 AGTGATTCGG
22290008 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
* *
22290051 GGAATCAGCACTTAGCAACCAC---CA-A-T---GAAT-CGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
*
22290084 GGAATCAACACTTAGCAACCCCTTTCACATTCAAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
22290127 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
22290147 ACCAGTGATT
Statistics
Matches: 80, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
33 20 0.25
34 3 0.04
35 3 0.04
36 2 0.03
37 1 0.01
38 2 0.03
39 1 0.01
40 2 0.03
41 3 0.04
42 3 0.04
43 40 0.50
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
Found at i:22290105 original size:76 final size:76
Alignment explanation
Indices: 22289974--22290258 Score: 464
Period size: 76 Copynumber: 3.8 Consensus size: 76
22289964 CCGTTATCGA
* *
22289974 TGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
22290039 CAAAAATACGG
66 CAAAAATACGG
* *
22290050 TGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
22290115 CAAAAATACGG
66 CAAAAATACGG
* *
22290126 TGGAATCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACATAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
* *
22290191 -TAAGATACGG
66 CAAAAATACGG
* * *
22290201 TGGGATCAGCACTTAACAACCACCAATGGTTCGGGGAATCAGCACTTAGCAACCCCTT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
22290259 GGGGGAATCA
Statistics
Matches: 194, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
75 61 0.31
76 133 0.69
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (76 bp):
TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
CAAAAATACGG
Found at i:22291775 original size:7 final size:7
Alignment explanation
Indices: 22291765--22291797 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
22291755 TTATATACAT
22291765 AATACTA
1 AATACTA
22291772 AATACTA
1 AATACTA
22291779 AATACTA
1 AATACTA
22291786 AATACTA
1 AATACTA
22291793 AATAC
1 AATAC
22291798 GAATTGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:22292989 original size:13 final size:11
Alignment explanation
Indices: 22292948--22292990 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
22292938 TAAACAGAGC
*
22292948 TTTGAGAGGAA
1 TTTGAGAGAAA
22292959 TTTGAGAGAAA
1 TTTGAGAGAAA
22292970 TTTGAGAGAAA
1 TTTGAGAGAAA
*
22292981 TTTGGGAGAA
1 TTTGAGAGAA
22292991 TATTGAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.28
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:22293226 original size:21 final size:21
Alignment explanation
Indices: 22293182--22293227 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
22293172 GCGCCCTAAA
**
22293182 GGACGCGTTTTCTATCCATGT
1 GGACGCGTTTTCTATCCACAT
*
22293203 GGACGCGTTTTCTGTCCACAT
1 GGACGCGTTTTCTATCCACAT
22293224 GGAC
1 GGAC
22293228 AAAGCGCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (21 bp):
GGACGCGTTTTCTATCCACAT
Found at i:22295659 original size:18 final size:18
Alignment explanation
Indices: 22295618--22295652 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22295608 GCCAGGTGCG
* *
22295618 TATCCTAGCCCTTTTATT
1 TATCCTAACCCTTATATT
22295636 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
22295653 GTTTCCTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.29, G:0.03, T:0.46
Consensus pattern (18 bp):
TATCCTAACCCTTATATT
Found at i:22296329 original size:58 final size:55
Alignment explanation
Indices: 22296155--22296332 Score: 162
Period size: 58 Copynumber: 3.1 Consensus size: 55
22296145 TTACATTTAC
* *
22296155 ATTTTTAATATAATAGACATTCTTTTAAATAACACAATATTTTGAATATTTCTATATT
1 ATTTTTAATAAAATAGACATTCTTTTAAAT-A-ACAGTA-TTTGAATATTTCTATATT
* * * * *
22296213 ATTTCATTTAATAAAATAAAACATTGTTTTGAATAA-AGTATTTGTAAT-TTACTTTATT
1 A-TT--TTTAATAAAAT-AGACATTCTTTTAAATAACAGTATTTG-AATATTTCTATATT
**
22296271 ATTTTTAATAAAATAGATTTTCTTTTAAATAAGTCAGTATTCTGAATATTTCTATATT
1 ATTTTTAATAAAATAGACATTCTTTTAAATAA--CAGTATT-TGAATATTTCTATATT
22296329 ATTT
1 ATTT
22296333 GATTTAAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
54 13 0.14
55 11 0.11
57 11 0.11
58 28 0.29
59 8 0.08
60 1 0.01
61 11 0.11
62 13 0.14
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (55 bp):
ATTTTTAATAAAATAGACATTCTTTTAAATAACAGTATTTGAATATTTCTATATT
Found at i:22297859 original size:126 final size:126
Alignment explanation
Indices: 22297633--22297932 Score: 501
Period size: 126 Copynumber: 2.4 Consensus size: 126
22297623 TCAGGCCAAA
* * *
22297633 CAGGAGCTACTGTAGCAAAAGCTCGTCCACGGGGGAGCTTCTTTCAATACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAATACTTTTGCTGACAAAGC
22297698 ATCCTACTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTT
66 ATCCTACTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTT
* *
22297759 CAGGAGCTACTGTAGTAAAAGCGCGTCCACGTGGGAGCTTTTTTCAATACTTTTGCTGACAATGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAATACTTTTGCTGACAAAGC
* * * *
22297824 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTCCTCGAATTTATTTTTT
66 ATCCTACTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTT
* *
22297885 CAGGAGCTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTCTCAAT
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAAT
22297933 TAACAAATAA
Statistics
Matches: 162, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 162 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (126 bp):
CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAATACTTTTGCTGACAAAGC
ATCCTACTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTT
Found at i:22298125 original size:96 final size:95
Alignment explanation
Indices: 22297961--22298264 Score: 398
Period size: 96 Copynumber: 3.2 Consensus size: 95
22297951 AGTAATCCTA
*
22297961 AACCCCAAACCCTAATTTATTTGAGTTTTTCCTTAAAAA-CCTTAAACACTAAACCCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCTT-AACACTAAACCCTAATCTAA
22298025 TTTTTTTAAAATTTATAATTAATTTACTTAAAT
64 -TTTTTTAAAATTTATAATTAATTTACTTAAAT
* *
22298058 AACCCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACACTAAACCTTAATCTAA-T
1 AACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAATT
* * *
22298122 TTTTAAAATTTTTTTAATTAATTTACTCAAGT
66 TTTTAAAA--TTTATAATTAATTTACTTAAAT
* * * * * *
22298154 AACCCTAAACCCTAATTTAATTGATTTTTCTTTAAAAACCATAAACGCGAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAATT
** *
22298219 TTGAAAAATTTATAATTAATTTAATTAAGA-
66 TTTTAAAATTTATAATTAATTTACTTAA-AT
22298249 AACCCTAAACCCTAAT
1 AACCCTAAACCCTAAT
22298265 CCCTTATTTA
Statistics
Matches: 182, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
94 9 0.05
95 33 0.18
96 107 0.59
97 33 0.18
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (95 bp):
AACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAATT
TTTTAAAATTTATAATTAATTTACTTAAAT
Found at i:22298330 original size:7 final size:7
Alignment explanation
Indices: 22298305--22298346 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
22298295 CCTAAACCTA
22298305 AAAACCC
1 AAAACCC
22298312 AAAAACCC
1 -AAAACCC
22298320 -AAACCC
1 AAAACCC
*
22298326 TAAACCC
1 AAAACCC
22298333 AAAACCC
1 AAAACCC
22298340 AAAACCC
1 AAAACCC
22298347 TGACAACGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
6 6 0.19
7 19 0.59
8 7 0.22
ACGTcount: A:0.55, C:0.43, G:0.00, T:0.02
Consensus pattern (7 bp):
AAAACCC
Found at i:22298330 original size:21 final size:21
Alignment explanation
Indices: 22298306--22298347 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22298296 CTAAACCTAA
22298306 AAACCCAAAAACCC-AAACCCT
1 AAACCC-AAAACCCAAAACCCT
22298327 AAACCCAAAACCCAAAACCCT
1 AAACCCAAAACCCAAAACCCT
22298348 GACAACGCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.52, C:0.43, G:0.00, T:0.05
Consensus pattern (21 bp):
AAACCCAAAACCCAAAACCCT
Found at i:22300182 original size:31 final size:31
Alignment explanation
Indices: 22300147--22300207 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
22300137 AAACAATTCA
* *
22300147 ACTCTTTTTGAAAGATTGATGGTCAAATTTT
1 ACTCTTTTTAAAAGATTGAAGGTCAAATTTT
*
22300178 ACTCTTTTTAAAAGGTTGAAGGTCAAATTT
1 ACTCTTTTTAAAAGATTGAAGGTCAAATTT
22300208 AGTTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (31 bp):
ACTCTTTTTAAAAGATTGAAGGTCAAATTTT
Found at i:22305704 original size:33 final size:32
Alignment explanation
Indices: 22305667--22305744 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
22305657 TGGCCCTACC
** * **
22305667 ATGGTCTTACATTCGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATGAG-AATGCCATAACCCAACT
*
22305700 ATGGTCTTATCATGAGAATGCCATAGCCCAACT
1 ATGGTCTTA-CATGAGAATGCCATAACCCAACT
22305733 ATGGTCTTACAT
1 ATGGTCTTACAT
22305745 AATAATGTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.08
33 31 0.82
34 4 0.11
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATGAGAATGCCATAACCCAACT
Found at i:22307030 original size:75 final size:76
Alignment explanation
Indices: 22306906--22307056 Score: 268
Period size: 75 Copynumber: 2.0 Consensus size: 76
22306896 TTTTTGACTC
22306906 CAAATTTGTGGTCCTAAAACCACTGTTTCGATTTCACTGTAAATAGGCCGTTACAACTCT-CCCC
1 CAAATTTGTGGTCCTAAAACCACTGTTTCGATTTCACTGTAAATAGGCCGTTACAACTCTCCCCC
22306970 CTTAGGACTTT
66 CTTAGGACTTT
* * *
22306981 CAAATTTGTGGTCCTAAAACCACTGTTTCGATTTTACTGTAAATGGGCCGTTATAACTCTCCCCC
1 CAAATTTGTGGTCCTAAAACCACTGTTTCGATTTCACTGTAAATAGGCCGTTACAACTCTCCCCC
22307046 CTTAGGACTTT
66 CTTAGGACTTT
22307057 TCGTCCTCGA
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 57 0.79
76 15 0.21
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (76 bp):
CAAATTTGTGGTCCTAAAACCACTGTTTCGATTTCACTGTAAATAGGCCGTTACAACTCTCCCCC
CTTAGGACTTT
Found at i:22317331 original size:30 final size:30
Alignment explanation
Indices: 22317261--22317331 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
22317251 TAGTTTATAT
* *
22317261 TTTTATAATTTTTAAAAGATTAAATCAAAA
1 TTTTATCATTTTTAAAAGATAAAATCAAAA
*
22317291 TTTTATCATTTTTAAAAAGACTAAAAT-ACAA
1 TTTTATCATTTTT-AAAAGA-TAAAATCAAAA
22317322 TTTTA-CATTT
1 TTTTATCATTT
22317332 ACTATTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 17 0.47
31 14 0.39
32 5 0.14
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (30 bp):
TTTTATCATTTTTAAAAGATAAAATCAAAA
Found at i:22319417 original size:21 final size:21
Alignment explanation
Indices: 22319393--22319456 Score: 119
Period size: 21 Copynumber: 3.0 Consensus size: 21
22319383 GTTAGGTCGT
*
22319393 GACTTGAATTATATGGACGAA
1 GACTTGAATTATATGGAGGAA
22319414 GACTTGAATTATATGGAGGAA
1 GACTTGAATTATATGGAGGAA
22319435 GACTTGAATTATATGGAGGAA
1 GACTTGAATTATATGGAGGAA
22319456 G
1 G
22319457 CAGTTGGACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (21 bp):
GACTTGAATTATATGGAGGAA
Found at i:22322670 original size:9 final size:9
Alignment explanation
Indices: 22322658--22322725 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
22322648 AAAATAAAAA
22322658 AATTCGGGT
1 AATTCGGGT
22322667 AATTCGGGT
1 AATTCGGGT
* * *
22322676 ATTTTGCGTT
1 AATTCG-GGT
*
22322686 AATTCGGTT
1 AATTCGGGT
*
22322695 AATTCGGTT
1 AATTCGGGT
22322704 AATTCGGGT
1 AATTCGGGT
22322713 AATTCGGGT
1 AATTCGGGT
22322722 AATT
1 AATT
22322726 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
9 46 0.88
10 6 0.12
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:22322903 original size:12 final size:12
Alignment explanation
Indices: 22322886--22322910 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22322876 AGTAATTTCG
22322886 GGTCGGTTAACC
1 GGTCGGTTAACC
22322898 GGTCGGTTAACC
1 GGTCGGTTAACC
22322910 G
1 G
22322911 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:22323097 original size:5 final size:5
Alignment explanation
Indices: 22323087--22323112 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22323077 TACTTTCTTC
22323087 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
22323113 TTTAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:22323551 original size:25 final size:25
Alignment explanation
Indices: 22323518--22323566 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
22323508 GTTCAGAGTA
22323518 AAAAAATTATCAAAATTATGTGTTT
1 AAAAAATTATCAAAATTATGTGTTT
22323543 AAAAAATTATCAAAATTATGTGTT
1 AAAAAATTATCAAAATTATGTGTT
22323567 AGTGACGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (25 bp):
AAAAAATTATCAAAATTATGTGTTT
Found at i:22326706 original size:10 final size:10
Alignment explanation
Indices: 22326691--22326715 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22326681 CTTTCTTATT
22326691 TTAGTTGTTC
1 TTAGTTGTTC
22326701 TTAGTTGTTC
1 TTAGTTGTTC
22326711 TTAGT
1 TTAGT
22326716 GGTAGTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.08, G:0.20, T:0.60
Consensus pattern (10 bp):
TTAGTTGTTC
Found at i:22336457 original size:26 final size:25
Alignment explanation
Indices: 22336425--22336508 Score: 111
Period size: 26 Copynumber: 3.4 Consensus size: 25
22336415 TGTATTTGTT
22336425 TTTTATATATATGATTAACTTTATA
1 TTTTATATATATGATTAACTTTATA
*
22336450 TATTTATATATATAATTAACTTTATA
1 T-TTTATATATATGATTAACTTTATA
* *
22336476 TTTTATA-AGA-GGTTAA-TTTATA
1 TTTTATATATATGATTAACTTTATA
22336498 TTTTATATATA
1 TTTTATATATA
22336509 ATTATATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
22 13 0.25
23 6 0.12
24 2 0.04
25 7 0.13
26 24 0.46
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (25 bp):
TTTTATATATATGATTAACTTTATA
Found at i:22336458 original size:22 final size:21
Alignment explanation
Indices: 22336432--22336505 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 21
22336422 GTTTTTTATA
22336432 TATATGATTAACTTTATATATTTAT
1 TATATGATTAAC-TT-TATA-TT-T
*
22336457 ATATATAATTAACTTTATATTT
1 -TATATGATTAACTTTATATTT
*
22336479 TATAAGAGGTTAA-TTTATATTT
1 TATATGA--TTAACTTTATATTT
22336501 TATAT
1 TATAT
22336506 ATAATTATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 5 0.12
22 14 0.33
23 6 0.14
24 4 0.10
25 2 0.05
26 11 0.26
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (21 bp):
TATATGATTAACTTTATATTT
Found at i:22341553 original size:3 final size:3
Alignment explanation
Indices: 22341545--22341573 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22341535 ATAACAAACA
22341545 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22341574 GACAAATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22341773 original size:3 final size:3
Alignment explanation
Indices: 22341767--22341808 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
22341757 AAGTGAATTG
22341767 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AA
22341809 AGAAATAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22342675 original size:44 final size:44
Alignment explanation
Indices: 22342625--22342826 Score: 216
Period size: 44 Copynumber: 4.7 Consensus size: 44
22342615 AGGATTCATC
* *
22342625 TTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGT
* * * *
22342669 TTCAATCCGCTCCACCGCAACTTCAGAGAGATAGGAT-TG-GATT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTG-GT
** * *
22342712 CTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGA
1 -TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGT
* * *
22342754 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGT
* *
22342798 TTTAATCCGCTCCACTGCAACTTCAGAGA
1 TTCAATCTGCTCCACTGCAACTTCAGAGA
22342827 TATAGGATTG
Statistics
Matches: 126, Mismatches: 25, Indels: 14
0.76 0.15 0.08
Matches are distributed among these distances:
41 31 0.25
42 2 0.02
43 4 0.03
44 89 0.71
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGT
Found at i:22342815 original size:85 final size:87
Alignment explanation
Indices: 22342623--22342823 Score: 230
Period size: 85 Copynumber: 2.3 Consensus size: 87
22342613 ATAGGATTCA
** * *
22342623 TCTTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTCAATCCGCTCCACCGCA
1 TCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATC-GTGGATGCAATCCGCTCCACCGCA
*
22342688 ACTTCAGAGAGATAGGATTGGAT
65 ACTTCAGAGAGATAAGATTGGAT
** * * * * *
22342711 TCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-TGGATGCGATCTGCTCTACTGCAA
1 TCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATCGTGGATGCAATCCGCTCCACCGCAA
*
22342774 CTTCAGAGAGATAAGATCTGTGGT
66 CTTCAGAGAGATAAGAT-TG-GAT
22342798 T-TT-AATCCGCTCCACTGCAACTTCAG
1 TCTTCAATCCGCTCCACTGCAACTTCAG
22342824 AGATATAGGA
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
85 54 0.56
86 4 0.04
87 4 0.04
88 35 0.36
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (87 bp):
TCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATCGTGGATGCAATCCGCTCCACCGCAA
CTTCAGAGAGATAAGATTGGAT
Found at i:22343111 original size:99 final size:98
Alignment explanation
Indices: 22342874--22343844 Score: 1216
Period size: 98 Copynumber: 9.8 Consensus size: 98
22342864 TCAGGGCATT
* * * * * ** *
22342874 AAGATTCGTCGTTGTAGCTTCAATCTATTCCACTGCACCGCCTAGGAAATAAGATTCACCATTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCCT-GGGAATAAGATTTGCCGTTGT
* * * * *
22342939 GACTTCAATCTTTAAATTACAATGTCGGAGAAAAC
65 GGCCTCAATCTTTTAATTGCAATGTCGG-GAAAGC
* * * *
22342974 AAGATTTGTCATTGTAGCTTCAATCTGTTTCGCTGCACTGCCTGGGAAGTAAGATTTGCCGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCCTGGGAA-TAAGATTTGCCGTTGT
*
22343039 GGCCTCAATCTTTTAATTGCAATGTCGAGAAAGC
65 GGCCTCAATCTTTTAATTGCAATGTCGGGAAAGC
* * * ** * **
22343073 AAGATTTGCCGTCGTAGCTTCAATATGTTCTACTGCACTGCCTGGAAATAAGATTCACCGTTGTG
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCCTGGGAATAAGATTTGCCGTTGTG
* *
22343138 GCATCAATCTTTTAATTGTAATGTCGGGGAAAATG-
66 GCCTCAATCTTTTAATTGCAATGTC-GGG-AAA-GC
** *
22343173 AA-ATTCATCGTTGTAGCTTCAATCTGTTCCGCTGCA-TCGCCTGGGAATAAGATTTGCTGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACT-GCCTGGGAATAAGATTTGCCGTTGT
*
22343236 GGCTTCAATCTTTTAATTGCAATGTCGGGGAAA-C
65 GGCCTCAATCTTTTAATTGCAATGTC-GGGAAAGC
* * *
22343270 AAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCTTGCGAAGTAAGATTTGCCGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCCTGGGAA-TAAGATTTGCCGTTGT
*
22343335 GGCCTCAATCTTTTAATTGCAATGTCGGGGAAGC
65 GGCCTCAATCTTTTAATTGCAATGTCGGGAAAGC
* * *
22343369 AAGATTCGCCGTTGTAGTTTCAATCTGTTCCGCTGCACCGCCTGGGAATAAGATTTGCTGTTGTG
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCCTGGGAATAAGATTTGCCGTTGTG
*
22343434 GCTTCAATCTTTTAATTGCAATGTCGGGGAAA-C
66 GCCTCAATCTTTTAATTGCAATGTC-GGGAAAGC
* * *
22343467 AAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTGGGAAGTAAGATTTGCCGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCCTGGGAA-TAAGATTTGCCGTTGT
* *
22343532 GGCCTCAATTTTTTAATTGCAATGTCGGGGAAGC
65 GGCCTCAATCTTTTAATTGCAATGTCGGGAAAGC
* * *
22343566 AAGATTCGCCGTTGTAGTTTCAATCTGTTCCGCTGTACCGCCTGGGAATAAGATTTGCCGTTGTG
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCCTGGGAATAAGATTTGCCGTTGTG
* *
22343631 GCCTCAATCTTTTAATTGCAATGTCGGGGAATC
66 GCCTCAATCTTTTAATTGCAATGTCGGGAAAGC
* * * * *
22343664 AAAATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACCT-CCTGGGAATAAGATTTACCGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCA-CTGCCTGGGAATAAGATTTGCCGTTGT
* * * * *
22343728 GGCTTCAATTTTTTAATTGCAATATCGGGGAAGT
65 GGCCTCAATCTTTTAATTGCAATGTCGGGAAAGC
* * * *
22343762 AAGATTTGCCATTGTAGCTTCAATATGTTCCGCTGCACTGCCTGGGAATAAGATTTACCGTTGTG
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCCTGGGAATAAGATTTGCCGTTGTG
22343827 GCCTCAATCTTTTAATTG
66 GCCTCAATCTTTTAATTG
22343845 GAAACTATGG
Statistics
Matches: 765, Mismatches: 91, Indels: 32
0.86 0.10 0.04
Matches are distributed among these distances:
97 4 0.01
98 380 0.50
99 302 0.39
100 78 0.10
101 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (98 bp):
AAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCCTGGGAATAAGATTTGCCGTTGTG
GCCTCAATCTTTTAATTGCAATGTCGGGAAAGC
Found at i:22343309 original size:197 final size:195
Alignment explanation
Indices: 22342874--22343844 Score: 1243
Period size: 197 Copynumber: 4.9 Consensus size: 195
22342864 TCAGGGCATT
* * * * *
22342874 AAGATTCGTCGTTGTAGCTTCAATCTATTCCACTGCACCGCCTAGGAAATAAGATTCACCATTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCT-GGAAATAAGATTTACCGTTGT
* * * * * * * * * *
22342939 GACTTCAATCTTTAAATTACAATGTCGGAGAAAACAAGATTTGTCATTGTAGCTTCAATCTGTTT
65 GGCCTCAATCTTTTAATTGCAATGTCGG-GGAAAGAAGATTCGCCGTTGTAGCTTCAATCTGTTC
*
22343004 CGCTGCACTGCCTGGGAAGTAAGATTTGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTC-GAG
129 CGCTGCAC-GCCTGGGAA-TAAGATTTGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGG
22343068 AAAGC
192 AAA-C
* * * * *
22343073 AAGATTTGCCGTCGTAGCTTCAATATGTTCTACTGCACTGCCTGGAAATAAGATTCACCGTTGTG
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCTGGAAATAAGATTTACCGTTGTG
* * **
22343138 GCATCAATCTTTTAATTGTAATGTCGGGGAAAATGAA-ATTCATCGTTGTAGCTTCAATCTGTTC
66 GCCTCAATCTTTTAATTGCAATGTCGGGG-AAA-GAAGATTCGCCGTTGTAGCTTCAATCTGTTC
* *
22343202 CGCTGCATCGCCTGGGAATAAGATTTGCTGTTGTGGCTTCAATCTTTTAATTGCAATGTCGGGGA
129 CGCTGCA-CGCCTGGGAATAAGATTTGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGA
22343267 AAC
193 AAC
* * * * *
22343270 AAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCTTGCGAAGTAAGATTTGCCGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCTG-GAAATAAGATTTACCGTTGT
*
22343335 GGCCTCAATCTTTTAATTGCAATGTCGGGG-AAGCAAGATTCGCCGTTGTAGTTTCAATCTGTTC
65 GGCCTCAATCTTTTAATTGCAATGTCGGGGAAAG-AAGATTCGCCGTTGTAGCTTCAATCTGTTC
* *
22343399 CGCTGCACCGCCTGGGAATAAGATTTGCTGTTGTGGCTTCAATCTTTTAATTGCAATGTCGGGGA
129 CGCTGCA-CGCCTGGGAATAAGATTTGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGA
22343464 AAC
193 AAC
* * * * * *
22343467 AAGATTCACCGTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTGGGAAGTAAGATTTGCCGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCT-GGAAATAAGATTTACCGTTGT
* *
22343532 GGCCTCAATTTTTTAATTGCAATGTCGGGG-AAGCAAGATTCGCCGTTGTAGTTTCAATCTGTTC
65 GGCCTCAATCTTTTAATTGCAATGTCGGGGAAAG-AAGATTCGCCGTTGTAGCTTCAATCTGTTC
*
22343596 CGCTGTACCGCCTGGGAATAAGATTTGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGA
129 CGCTGCA-CGCCTGGGAATAAGATTTGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGA
*
22343661 ATC
193 AAC
* * * *
22343664 AAAATTCGCCGTCGTAGCTTCAATCTATTCCACTGCACCT-CCTGGGAATAAGATTTACCGTTGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA-CTGCCTGGAAATAAGATTTACCGTTGT
* * * * * *
22343728 GGCTTCAATTTTTTAATTGCAATATCGGGG-AAGTAAGATTTGCCATTGTAGCTTCAATATGTTC
65 GGCCTCAATCTTTTAATTGCAATGTCGGGGAAAG-AAGATTCGCCGTTGTAGCTTCAATCTGTTC
*
22343792 CGCTGCACTGCCTGGGAATAAGATTTACCGTTGTGGCCTCAATCTTTTAATTG
129 CGCTGCAC-GCCTGGGAATAAGATTTGCCGTTGTGGCCTCAATCTTTTAATTG
22343845 GAAACTATGG
Statistics
Matches: 699, Mismatches: 63, Indels: 23
0.89 0.08 0.03
Matches are distributed among these distances:
195 2 0.00
196 128 0.18
197 393 0.56
198 137 0.20
199 39 0.06
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (195 bp):
AAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCTGGAAATAAGATTTACCGTTGTG
GCCTCAATCTTTTAATTGCAATGTCGGGGAAAGAAGATTCGCCGTTGTAGCTTCAATCTGTTCCG
CTGCACGCCTGGGAATAAGATTTGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAAC
Found at i:22351211 original size:17 final size:17
Alignment explanation
Indices: 22351175--22351214 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
22351165 AATTTTACTA
*
22351175 ACAAAATGTTAGATTTT
1 ACAAAATGTTAGATTGT
22351192 ACAAAATGTT-GATTGGT
1 ACAAAATGTTAGATT-GT
22351209 ACAAAA
1 ACAAAA
22351215 AATATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (17 bp):
ACAAAATGTTAGATTGT
Found at i:22351251 original size:16 final size:16
Alignment explanation
Indices: 22351232--22351288 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
22351222 AATTTGATAC
*
22351232 AATTTTAATAATAATT
1 AATTTTAATAACAATT
*
22351248 AATTTTGATAACAATT
1 AATTTTAATAACAATT
22351264 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
22351280 AGTTTTAAT
1 AATTTTAAT
22351289 TTTAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:22351272 original size:22 final size:23
Alignment explanation
Indices: 22351262--22351323 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
22351252 TTGATAACAA
* *
22351262 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
22351284 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
22351307 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
22351324 ACGGGCCGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 14 0.39
24 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:22353105 original size:31 final size:31
Alignment explanation
Indices: 22353067--22353138 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
22353057 ATAAAAAAAA
* * *
22353067 TTCATTTTGGGTATTGCCATTGAAACCCATT
1 TTCATTTTGGGCATTGCCATTAAAAACCATT
* * * *
22353098 TTTATTTTAGGCATTGCCGTTAAAAATCATT
1 TTCATTTTGGGCATTGCCATTAAAAACCATT
22353129 TTCATTTTGG
1 TTCATTTTGG
22353139 TCACTCGCAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (31 bp):
TTCATTTTGGGCATTGCCATTAAAAACCATT
Found at i:22354090 original size:3 final size:3
Alignment explanation
Indices: 22354082--22354108 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22354072 TGTAGAATCC
22354082 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
22354109 TTGTTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:22354350 original size:16 final size:16
Alignment explanation
Indices: 22354329--22354361 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22354319 ATATAATAGG
22354329 ATTAAGTTTCAAAATC
1 ATTAAGTTTCAAAATC
*
22354345 ATTAAGTTTTAAAATC
1 ATTAAGTTTCAAAATC
22354361 A
1 A
22354362 ATAATGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTAAGTTTCAAAATC
Found at i:22355566 original size:30 final size:30
Alignment explanation
Indices: 22355532--22355596 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
22355522 AAAAAAATTG
* *
22355532 ATTTTAGGTATTGCCATT-AAAACCATTTTC
1 ATTTTAGGCATTGCCATTAAAAACTA-TTTC
*
22355562 ATTTTAGGCATTGTCATTAAAAACTATTTC
1 ATTTTAGGCATTGCCATTAAAAACTATTTC
22355592 ATTTT
1 ATTTT
22355597 GGTCACCCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 25 0.81
31 6 0.19
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (30 bp):
ATTTTAGGCATTGCCATTAAAAACTATTTC
Found at i:22362603 original size:16 final size:16
Alignment explanation
Indices: 22362582--22362612 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22362572 AAAATTGAAT
22362582 AACAGACGAAGGAGGC
1 AACAGACGAAGGAGGC
22362598 AACAGACGAAGGAGG
1 AACAGACGAAGGAGG
22362613 AACCGAGCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.39, T:0.00
Consensus pattern (16 bp):
AACAGACGAAGGAGGC
Found at i:22363289 original size:21 final size:23
Alignment explanation
Indices: 22363240--22363291 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
22363230 CCCGGCCCAT
* *
22363240 TTTTAAAATAAACATTAAAAAAT
1 TTTTAAAATAAACATAAAAAAAA
22363263 TATTTAAAA-AAA-ATAAAAAAAA
1 T-TTTAAAATAAACATAAAAAAAA
22363285 TTTTAAA
1 TTTTAAA
22363292 GTATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 6 0.23
22 9 0.35
23 4 0.15
24 7 0.27
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TTTTAAAATAAACATAAAAAAAA
Found at i:22367320 original size:25 final size:28
Alignment explanation
Indices: 22367273--22367326 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
22367263 ATCGCTTGCT
*
22367273 AATAATATTTATCAGATTTTTTAATAAA
1 AATAATATTTATCAGATTATTTAATAAA
*
22367301 AATAATATTT-T-A-ATTATTTATTAAA
1 AATAATATTTATCAGATTATTTAATAAA
22367326 A
1 A
22367327 GTTTATTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.50
26 1 0.04
27 1 0.04
28 10 0.42
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
AATAATATTTATCAGATTATTTAATAAA
Found at i:22370713 original size:25 final size:25
Alignment explanation
Indices: 22370673--22370722 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
22370663 ACATAGTCAT
*
22370673 TAATATCCACCAAATCAACCTTCAC
1 TAATATCCACCAAATCAACCATCAC
* *
22370698 TAATATCCGCCGAATCAACCATCAC
1 TAATATCCACCAAATCAACCATCAC
22370723 GATATTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.36, G:0.04, T:0.22
Consensus pattern (25 bp):
TAATATCCACCAAATCAACCATCAC
Found at i:22372335 original size:31 final size:31
Alignment explanation
Indices: 22372300--22372365 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
22372290 ATTAAAAAAT
* * *
22372300 AATTCAACACTTTTTGAAATATTGATGGTCA
1 AATTCAACACTTTTTAAAAGATTGAAGGTCA
* * *
22372331 AATTCTACTCTTTTTAAAAGGTTGAAGGTCA
1 AATTCAACACTTTTTAAAAGATTGAAGGTCA
22372362 AATT
1 AATT
22372366 TAGTTCAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (31 bp):
AATTCAACACTTTTTAAAAGATTGAAGGTCA
Found at i:22372605 original size:56 final size:58
Alignment explanation
Indices: 22372538--22372671 Score: 193
Period size: 56 Copynumber: 2.3 Consensus size: 58
22372528 AAAATATCAC
*
22372538 TTGGTACCTAAGTTTGACTTTAATATTTAATTTGATACTTGAATTTT-TTTTTT-AAT
1 TTGGTACCTAAGTTTGACTTTAATATTTAATTTGATACCTGAATTTTCTTTTTTCAAT
* * *
22372594 TTGGTACCTAAGTTTCACTTTAATATTTAATTTGATACCTGAGTTTTCTTTTTTCATT
1 TTGGTACCTAAGTTTGACTTTAATATTTAATTTGATACCTGAATTTTCTTTTTTCAAT
*
22372652 TTGGTA-CTAGAATTTGACTT
1 TTGGTACCTA-AGTTTGACTT
22372672 CAATGTCCAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
56 44 0.64
57 9 0.13
58 16 0.23
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (58 bp):
TTGGTACCTAAGTTTGACTTTAATATTTAATTTGATACCTGAATTTTCTTTTTTCAAT
Found at i:22372624 original size:31 final size:30
Alignment explanation
Indices: 22372542--22372644 Score: 101
Period size: 31 Copynumber: 3.5 Consensus size: 30
22372532 TATCACTTGG
22372542 TACCTAAGTTTGACTTTAATATTTAATTTGA
1 TACCTAAGTTT-ACTTTAATATTTAATTTGA
* *
22372573 TACTTGAA-TTT--TTT--T-TTTAATTTGG
1 TACCT-AAGTTTACTTTAATATTTAATTTGA
22372598 TACCTAAGTTTCACTTTAATATTTAATTTGA
1 TACCTAAGTTT-ACTTTAATATTTAATTTGA
* *
22372629 TACCTGAGTTTTCTTT
1 TACCTAAGTTTACTTT
22372645 TTTCATTTTG
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.03
25 16 0.28
26 1 0.02
28 6 0.10
30 5 0.09
31 26 0.45
32 2 0.03
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.53
Consensus pattern (30 bp):
TACCTAAGTTTACTTTAATATTTAATTTGA
Found at i:22372684 original size:58 final size:56
Alignment explanation
Indices: 22372538--22372691 Score: 139
Period size: 56 Copynumber: 2.7 Consensus size: 56
22372528 AAAATATCAC
* * * ** *
22372538 TTGGTACCTAAGTTTGACTTTAATATTTAATTTGATACTTGAATTTTTTTTTTAAT
1 TTGGTACCTAAATTTCACTTCAATATCCAATTTGATACCTGAATTTTTTTTTTAAT
* * ** * *
22372594 TTGGTACCTAAGTTTCACTTTAATATTTAATTTGATACCTGAGTTTTCTTTTTTCATT
1 TTGGTACCTAAATTTCACTTCAATATCCAATTTGATACCTGAATTTT-TTTTTT-AAT
* * *
22372652 TTGGTA-CTAGAATTTGACTTCAATGTCCAATTTGGTACCT
1 TTGGTACCTA-AATTTCACTTCAATATCCAATTTGATACCT
22372692 TAGCCAAATA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
56 44 0.52
57 9 0.11
58 31 0.37
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (56 bp):
TTGGTACCTAAATTTCACTTCAATATCCAATTTGATACCTGAATTTTTTTTTTAAT
Found at i:22375816 original size:42 final size:43
Alignment explanation
Indices: 22375765--22375920 Score: 149
Period size: 42 Copynumber: 3.7 Consensus size: 43
22375755 TCATGTTTTA
* *
22375765 CTTTCTGTTTAGCTCTTACAAGCTTCTGTTTAACTCATATGAG
1 CTTTCTGTTTAGCTCTTACAAGCTTCTGTTTAACCCTTATGAG
*** *
22375808 CTTT-TGTTTAGCTCTTTTGAGCTTCCGTTTAACCCTTATG-G
1 CTTTCTGTTTAGCTCTTACAAGCTTCTGTTTAACCCTTATGAG
* * * *
22375849 ATTTCCGTTCAGCTCTTACAAGCTT-TCGTTGAACCCTTAT-AG
1 CTTTCTGTTTAGCTCTTACAAGCTTCT-GTTTAACCCTTATGAG
* * * *
22375891 GTTTTTGTTTAGCTCTCATAAGCTTCTGTT
1 CTTTCTGTTTAGCTCTTACAAGCTTCTGTT
22375921 CAGCCTTTGG
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
41 4 0.04
42 80 0.90
43 5 0.06
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (43 bp):
CTTTCTGTTTAGCTCTTACAAGCTTCTGTTTAACCCTTATGAG
Found at i:22375837 original size:21 final size:21
Alignment explanation
Indices: 22375767--22375847 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 21
22375757 ATGTTTTACT
**
22375767 TTCTGTTTAGCTCTTACAAGC
1 TTCTGTTTAGCTCTTATGAGC
* *
22375788 TTCTGTTTAACTCATATGAGC
1 TTCTGTTTAGCTCTTATGAGC
* *
22375809 TTTTGTTTAGCTCTTTTGAGC
1 TTCTGTTTAGCTCTTATGAGC
* * *
22375830 TTCCGTTTAACCCTTATG
1 TTCTGTTTAGCTCTTATG
22375848 GATTTCCGTT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.47
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTATGAGC
Found at i:22381936 original size:816 final size:816
Alignment explanation
Indices: 22380364--22381994 Score: 3226
Period size: 816 Copynumber: 2.0 Consensus size: 816
22380354 GAGAGAATTT
22380364 CGAAATTAGGGATTTATGATGAAAATGAAGAATTAAAATGAGTATATAGTGAGAATTAAGAGAGA
1 CGAAATTAGGGATTTATGATGAAAATGAAGAATTAAAATGAGTATATAGTGAGAATTAAGAGAGA
22380429 ATATGGAGTTAAATTAGGAAAAATAAAATTAGTATTGATAAGGGATTAAATTAGAGTTTATGTAA
66 ATATGGAGTTAAATTAGGAAAAATAAAATTAGTATTGATAAGGGATTAAATTAGAGTTTATGTAA
22380494 AGTTTAGGTATAAATGGAAATATTTTAATGGAATTGTGTATTAATAATTTTTAATTGTTTAATTA
131 AGTTTAGGTATAAATGGAAATATTTTAATGGAATTGTGTATTAATAATTTTTAATTGTTTAATTA
22380559 CGTAGCTAATGTCGTGCAAGAGTCATTGTCCGAGAAATGAAAGGAGAAGGTGGACAAGGATTGAC
196 CGTAGCTAATGTCGTGCAAGAGTCATTGTCCGAGAAATGAAAGGAGAAGGTGGACAAGGATTGAC
22380624 TCGAGAGAAATTTCGGTTAGTATTACTATAATTCAAATTTAATTATTAATTGTTAAAATTTAAAT
261 TCGAGAGAAATTTCGGTTAGTATTACTATAATTCAAATTTAATTATTAATTGTTAAAATTTAAAT
22380689 TAATATACATGATAAGCAAATTGAGGTAAGAATCATGATTGAATTAAATGAAAAATACGTATTGG
326 TAATATACATGATAAGCAAATTGAGGTAAGAATCATGATTGAATTAAATGAAAAATACGTATTGG
22380754 TATTGAAATTATAAATAGCAATTGTTGAATTTTGAATAATATGTTTAGTAAATAAAAATAAGGTG
391 TATTGAAATTATAAATAGCAATTGTTGAATTTTGAATAATATGTTTAGTAAATAAAAATAAGGTG
22380819 AATATTGATATTGAATTGTATGTGAATTGAATGGAAATTACTAGTGATATGATTTGAATTAAAAG
456 AATATTGATATTGAATTGTATGTGAATTGAATGGAAATTACTAGTGATATGATTTGAATTAAAAG
22380884 AATTAATGCGATATTGAATTGTATGTTGATTGAAAAGTAATTAGTGATTTGAATTTCATTAAATA
521 AATTAATGCGATATTGAATTGTATGTTGATTGAAAAGTAATTAGTGATTTGAATTTCATTAAATA
22380949 AATAAATAAATAAAATATAAAATATGAATTGAATAAAAGTGAATTAAAATATGAAAAAGTGTGAA
586 AATAAATAAATAAAATATAAAATATGAATTGAATAAAAGTGAATTAAAATATGAAAAAGTGTGAA
* *
22381014 TATATGTATCGAAGTATGATTACATGTGAATGTCGGGAATATCTATTGGTAGATTAGAAAGTGGA
651 TACATGAATCGAAGTATGATTACATGTGAATGTCGGGAATATCTATTGGTAGATTAGAAAGTGGA
*
22381079 AAGTAAATTTGAATTGAAATGTGATTATTGAATATAAATTGAAATGGTTTGAATTGAATTATTGA
716 AAGTAAATTTGAATTGAAATGTGATTATTGAATAGAAATTGAAATGGTTTGAATTGAATTATTGA
*
22381144 ATTGAACTGGAATATTGAAATTTGTGATTGATATGA
781 ATTGAACTGGAATATTGAAATTGGTGATTGATATGA
22381180 CGAAATTAGGGATTTATGATGAAAATGAAGAATTAAAATGAGTATATAGTGAGAATTAAGAGAGA
1 CGAAATTAGGGATTTATGATGAAAATGAAGAATTAAAATGAGTATATAGTGAGAATTAAGAGAGA
22381245 ATATGGAGTTAAATTAGGAAAAATAAAATTAGTATTGATAAGGGATTAAATTAGAGTTTATGTAA
66 ATATGGAGTTAAATTAGGAAAAATAAAATTAGTATTGATAAGGGATTAAATTAGAGTTTATGTAA
22381310 AGTTTAGGTATAAATGGAAATATTTTAATGGAATTGTGTATTAATAATTTTTAATTGTTTAATTA
131 AGTTTAGGTATAAATGGAAATATTTTAATGGAATTGTGTATTAATAATTTTTAATTGTTTAATTA
22381375 CGTAGCTAATGTCGTGCAAGAGTCATTGTCCGAGAAATGAAAGGAGAAGGTGGACAAGGATTGAC
196 CGTAGCTAATGTCGTGCAAGAGTCATTGTCCGAGAAATGAAAGGAGAAGGTGGACAAGGATTGAC
22381440 TCGAGAGAAATTTCGGTTAGTATTACTATAATTCAAATTTAATTATTAATTGTTAAAATTTAAAT
261 TCGAGAGAAATTTCGGTTAGTATTACTATAATTCAAATTTAATTATTAATTGTTAAAATTTAAAT
22381505 TAATATACATGATAAGCAAATTGAGGTAAGAATCATGATTGAATTAAATGAAAAATACGTATTGG
326 TAATATACATGATAAGCAAATTGAGGTAAGAATCATGATTGAATTAAATGAAAAATACGTATTGG
22381570 TATTGAAATTATAAATAGCAATTGTTGAATTTTGAATAATATGTTTAGTAAATAAAAATAAGGTG
391 TATTGAAATTATAAATAGCAATTGTTGAATTTTGAATAATATGTTTAGTAAATAAAAATAAGGTG
22381635 AATATTGATATTGAATTGTATGTGAATTGAATGGAAATTACTAGTGATATGATTTGAATTAAAAG
456 AATATTGATATTGAATTGTATGTGAATTGAATGGAAATTACTAGTGATATGATTTGAATTAAAAG
22381700 AATTAATGCGATATTGAATTGTATGTTGATTGAAAAGTAATTAGTGATTTGAATTTCATTAAATA
521 AATTAATGCGATATTGAATTGTATGTTGATTGAAAAGTAATTAGTGATTTGAATTTCATTAAATA
22381765 AATAAATAAATAAAATATAAAATATGAATTGAATAAAAGTGAATTAAAATATGAAAAAGTGTGAA
586 AATAAATAAATAAAATATAAAATATGAATTGAATAAAAGTGAATTAAAATATGAAAAAGTGTGAA
22381830 TACATGAATCGAAGTATGATTACATGTGAATGTCGGGAATATCTATTGGTAGATTAGAAAGTGGA
651 TACATGAATCGAAGTATGATTACATGTGAATGTCGGGAATATCTATTGGTAGATTAGAAAGTGGA
22381895 AAGTAAATTTGAATTGAAATGTGATTATTGAATAGAAATTGAAATGGTTTGAATTGAATTATTGA
716 AAGTAAATTTGAATTGAAATGTGATTATTGAATAGAAATTGAAATGGTTTGAATTGAATTATTGA
22381960 ATTGAACTGGAATATTGAAATTGGTGATTGATATG
781 ATTGAACTGGAATATTGAAATTGGTGATTGATATG
22381995 GATTTTATTA
Statistics
Matches: 811, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
816 811 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (816 bp):
CGAAATTAGGGATTTATGATGAAAATGAAGAATTAAAATGAGTATATAGTGAGAATTAAGAGAGA
ATATGGAGTTAAATTAGGAAAAATAAAATTAGTATTGATAAGGGATTAAATTAGAGTTTATGTAA
AGTTTAGGTATAAATGGAAATATTTTAATGGAATTGTGTATTAATAATTTTTAATTGTTTAATTA
CGTAGCTAATGTCGTGCAAGAGTCATTGTCCGAGAAATGAAAGGAGAAGGTGGACAAGGATTGAC
TCGAGAGAAATTTCGGTTAGTATTACTATAATTCAAATTTAATTATTAATTGTTAAAATTTAAAT
TAATATACATGATAAGCAAATTGAGGTAAGAATCATGATTGAATTAAATGAAAAATACGTATTGG
TATTGAAATTATAAATAGCAATTGTTGAATTTTGAATAATATGTTTAGTAAATAAAAATAAGGTG
AATATTGATATTGAATTGTATGTGAATTGAATGGAAATTACTAGTGATATGATTTGAATTAAAAG
AATTAATGCGATATTGAATTGTATGTTGATTGAAAAGTAATTAGTGATTTGAATTTCATTAAATA
AATAAATAAATAAAATATAAAATATGAATTGAATAAAAGTGAATTAAAATATGAAAAAGTGTGAA
TACATGAATCGAAGTATGATTACATGTGAATGTCGGGAATATCTATTGGTAGATTAGAAAGTGGA
AAGTAAATTTGAATTGAAATGTGATTATTGAATAGAAATTGAAATGGTTTGAATTGAATTATTGA
ATTGAACTGGAATATTGAAATTGGTGATTGATATGA
Found at i:22383858 original size:17 final size:17
Alignment explanation
Indices: 22383836--22383873 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
22383826 TCAACTTATC
22383836 TACCAACAGTCCTTGTT
1 TACCAACAGTCCTTGTT
*
22383853 TACCAACAGTTCTTGTT
1 TACCAACAGTCCTTGTT
22383870 TACC
1 TACC
22383874 TTGTTTGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (17 bp):
TACCAACAGTCCTTGTT
Found at i:22385017 original size:30 final size:31
Alignment explanation
Indices: 22384976--22385041 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
22384966 TAGTTTATAT
*
22384976 TTTTATAATTTTTA-AAAGATTAAATCAAAA
1 TTTTATAATTTTTAGAAAGACTAAATCAAAA
* * *
22385006 TTTTATCATTTTTAGAAAGACTAAATTACAA
1 TTTTATAATTTTTAGAAAGACTAAATCAAAA
22385037 TTTTA
1 TTTTA
22385042 CCTTCACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (31 bp):
TTTTATAATTTTTAGAAAGACTAAATCAAAA
Found at i:22390240 original size:10 final size:10
Alignment explanation
Indices: 22390225--22390249 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22390215 CTTTCTTATT
22390225 TTAGTTGTTC
1 TTAGTTGTTC
22390235 TTAGTTGTTC
1 TTAGTTGTTC
22390245 TTAGT
1 TTAGT
22390250 GGTAGTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.08, G:0.20, T:0.60
Consensus pattern (10 bp):
TTAGTTGTTC
Found at i:22394457 original size:29 final size:31
Alignment explanation
Indices: 22394424--22394500 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 31
22394414 TTTACCTCAG
*
22394424 GTTACATTTTAGTTACTTATGTT-T-GAAAT
1 GTTACATTTTAGTTACTTACGTTATCGAAAT
* * *
22394453 GTTACATTTTAGTCACTTACGTTATCGTATT
1 GTTACATTTTAGTTACTTACGTTATCGAAAT
*
22394484 GTAACATTTTAGTTACT
1 GTTACATTTTAGTTACT
22394501 GAGCCGTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 21 0.52
30 1 0.03
31 18 0.45
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (31 bp):
GTTACATTTTAGTTACTTACGTTATCGAAAT
Found at i:22402893 original size:20 final size:20
Alignment explanation
Indices: 22402850--22402893 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
22402840 TTAAAATACT
* * *
22402850 TTTAAAATATTTTTTTTATT
1 TTTAAAATAATTTTTTAATG
22402870 TTTAAAATAATTTTTTAATG
1 TTTAAAATAATTTTTTAATG
22402890 TTTA
1 TTTA
22402894 TTAAAAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTAAAATAATTTTTTAATG
Found at i:22403205 original size:27 final size:24
Alignment explanation
Indices: 22403154--22403205 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 24
22403144 CTATAATTTA
*
22403154 AAGCAAATATTTTATATTAAAAAT
1 AAGCAAATATTTTACATTAAAAAT
*
22403178 AAGCTAAATATTTGGTACATTAACAAT
1 AAGC-AAATATTT--TACATTAAAAAT
22403205 A
1 A
22403206 TAATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 8 0.35
27 11 0.48
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (24 bp):
AAGCAAATATTTTACATTAAAAAT
Found at i:22403376 original size:2 final size:2
Alignment explanation
Indices: 22403369--22403393 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22403359 TTTCCCTTAA
22403369 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
22403394 ATTATTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22407799 original size:13 final size:13
Alignment explanation
Indices: 22407781--22407805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22407771 TCTACGCAGT
22407781 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
22407794 TTTTTTTCTTTT
1 TTTTTTTCTTTT
22407806 GTGTGTTTAC
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:22408032 original size:11 final size:12
Alignment explanation
Indices: 22408002--22408031 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22407992 TGTTAGGTTA
*
22408002 AGTTTTTTTTTT
1 AGTTTTTGTTTT
22408014 AGTTTTTGTTTT
1 AGTTTTTGTTTT
22408026 AGTTTT
1 AGTTTT
22408032 GACCACCGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.13, T:0.77
Consensus pattern (12 bp):
AGTTTTTGTTTT
Found at i:22412279 original size:31 final size:32
Alignment explanation
Indices: 22412211--22412279 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 32
22412201 AAAGAAAAAA
* *
22412211 TCATTTTAGGTATTGCCATTAAAACCCACTTT
1 TCATTTTAGGCATTGCCATTAAAAACCACTTT
*
22412243 T-ATTTTAGGCATTGCCATTAAAAATCA-TTT
1 TCATTTTAGGCATTGCCATTAAAAACCACTTT
22412273 TCATTTT
1 TCATTTT
22412280 GGTCACCCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 4 0.12
31 28 0.85
32 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.45
Consensus pattern (32 bp):
TCATTTTAGGCATTGCCATTAAAAACCACTTT
Found at i:22414319 original size:18 final size:19
Alignment explanation
Indices: 22414286--22414321 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22414276 GAGTAATGAA
22414286 TCTAGATCACAAATGAATG
1 TCTAGATCACAAATGAATG
*
22414305 TCTAGAT-ATAAATGAAT
1 TCTAGATCACAAATGAAT
22414322 TGGGACGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (19 bp):
TCTAGATCACAAATGAATG
Found at i:22414905 original size:23 final size:25
Alignment explanation
Indices: 22414855--22414918 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
22414845 CTTAAAAAAA
* *
22414855 TTATGATTTAAAAAAAATCGTATAT
1 TTATAATTTAAAAAAAATAGTATAT
*
22414880 TTATAATTTCAAAAAAATAGT-T-T
1 TTATAATTTAAAAAAAATAGTATAT
*
22414903 TTATAATTTTAAAAAA
1 TTATAATTTAAAAAAA
22414919 TAAATTATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 16 0.46
24 1 0.03
25 18 0.51
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (25 bp):
TTATAATTTAAAAAAAATAGTATAT
Found at i:22429603 original size:54 final size:54
Alignment explanation
Indices: 22429521--22429629 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
22429511 GTTGCTATCA
*
22429521 CTACACCAAAACAGGCTTTTAGCGTCGTTTTTCGCGGCGTTTGGATAACAAACG
1 CTACACCAAAACAGGCTTTTAGCGTCGTTTTTCGAGGCGTTTGGATAACAAACG
22429575 CTACACCAAAACAGGCTTTTAGCGTCGTTTTTCGAGGCGTTTGGATAACAAACG
1 CTACACCAAAACAGGCTTTTAGCGTCGTTTTTCGAGGCGTTTGGATAACAAACG
22429629 C
1 C
22429630 CGCTGAAAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (54 bp):
CTACACCAAAACAGGCTTTTAGCGTCGTTTTTCGAGGCGTTTGGATAACAAACG
Found at i:22429876 original size:73 final size:74
Alignment explanation
Indices: 22429790--22429932 Score: 209
Period size: 73 Copynumber: 1.9 Consensus size: 74
22429780 CTGCAAAAAT
* *
22429790 AACTAAGCCCAACGATGTCGTTTCCCGAGATTTCAGGGATTTAGCGGCGCTTTCTAT-AAAGCGC
1 AACTAAGCCCAACGACGTCGTCTCCCGAGATTTCAGGGATTTAGCGGCGCTTT-TATAAAAGCGC
22429854 CGCTACTTAA
65 CGCTACTTAA
* * *
22429864 AACT-AGCGCAACGACGTCGTCTCCTGAGCTTTCAGGGATTTAGCGGCGCTTTTATAGAAAGCGC
1 AACTAAGCCCAACGACGTCGTCTCCCGAGATTTCAGGGATTTAGCGGCGCTTTTATA-AAAGCGC
22429928 CGCTA
65 CGCTA
22429933 ATGCTGAAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
72 3 0.05
73 43 0.69
74 16 0.26
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (74 bp):
AACTAAGCCCAACGACGTCGTCTCCCGAGATTTCAGGGATTTAGCGGCGCTTTTATAAAAGCGCC
GCTACTTAA
Found at i:22430023 original size:188 final size:188
Alignment explanation
Indices: 22429649--22430046 Score: 456
Period size: 188 Copynumber: 2.1 Consensus size: 188
22429639 TAATCATTCC
* * * *
22429649 CGGCGTTTTTGAGAAAGCGCCGC-A--AAAAACCTAGCGCAACGACGCCGTTTCCCCAGCATTCG
1 CGGCGTTTCTGATAAAGCGCCGCTACTTAAAACCTAGCGCAACGACGCCGTCTCCCCAGCATTCG
*
22429711 GTGATTTAGCGGCGTTTTTCAGTAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTAGGAA
66 GTGATTTAGCGGCGTTTTTCAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTAGGAA
* * *
22429776 AGCGCTGCAAAAATAACTAAGCCCAACGATGTCGTTTCCCGAGATTTCAGGGATTTAG
131 AGCGCCGCAAAAATAACTAAGCCCAACGACGCCGTTTCCCGAGATTTCAGGGATTTAG
* ** *
22429834 CGGCGCTTTCT-ATAAAGCGCCGCTACTTAAAA-CTAGCGCAACGACGTCGTCTCCTGAGCTTTC
1 CGGCG-TTTCTGATAAAGCGCCGCTACTTAAAACCTAGCGCAACGACGCCGTCTCCCCAGCATTC
* * * *
22429897 AGG-GATTTAGCGGCGCTTTTAT-AGAAAGCGCCGCTAATGCTGAAGTCTTTAGCGGTGTTT-TT
65 -GGTGATTTAGCGGCG-TTTT-TCAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTA
* * * * *
22429959 GTTAAAGCGCCGCAAAAA-AACCTAAGCCCAACGACGCCGTTTTCTG-GCTTTCGGGGATTTTAG
127 G-GAAAGCGCCGCAAAAATAA-CTAAGCCCAACGACGCCGTTTCCCGAGATTTCAGGGA-TTTAG
* *
22430022 CGGCGTTTTTGTTAAAGCGCCGCTA
1 CGGCGTTTCTGATAAAGCGCCGCTA
22430047 ATGTTCAGTC
Statistics
Matches: 179, Mismatches: 23, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
185 16 0.09
186 5 0.03
187 55 0.31
188 102 0.57
189 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (188 bp):
CGGCGTTTCTGATAAAGCGCCGCTACTTAAAACCTAGCGCAACGACGCCGTCTCCCCAGCATTCG
GTGATTTAGCGGCGTTTTTCAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTCTAGGAA
AGCGCCGCAAAAATAACTAAGCCCAACGACGCCGTTTCCCGAGATTTCAGGGATTTAG
Found at i:22430122 original size:113 final size:111
Alignment explanation
Indices: 22429862--22430167 Score: 384
Period size: 113 Copynumber: 2.7 Consensus size: 111
22429852 GCCGCTACTT
* * * *
22429862 AAAACT-AGCGCAACGACGTCGTCTCCTGAGCTTTCAGGGATTTAGCGGCGCTTTTATAGAAAGC
1 AAAACTAAGCGCAACGACGTCGTTTTCTG-GCTTTCGGGGATTTAGCGGCGTTTTTATA-AAAGC
** *
22429926 GCCGCTAATGCTGAAGTCTTTAGCGGTGTTTTTGTTAAAGCGCCGCAAA
64 GCCGCTAATG-TTCAGTCTTTAGCGGTGTTTTTGTGAAAGCGCCGCAAA
* * * *
22429975 AAAACCTAAGCCCAACGACGCCGTTTTCTGGCTTTCGGGGATTTTAGCGGCGTTTTTGTTAAAGC
1 AAAA-CTAAGCGCAACGACGTCGTTTTCTGGCTTTCGGGGA-TTTAGCGGCGTTTTTATAAAAGC
22430040 GCCGCTAATGTTCAGTCTTTAGCGGCAT-TTTTTG-GAAAGCGCCGCAAA
64 GCCGCTAATGTTCAGTCTTTAGCGG--TGTTTTTGTGAAAGCGCCGCAAA
* *
22430088 AAAACTAAGCGCAACGTCGTCGTTTTCTGTGCTTTTGAGGGATTTAGCGGCGTTTTTATAAAAGC
1 AAAACTAAGCGCAACGACGTCGTTTTCTG-GCTTTCG-GGGATTTAGCGGCGTTTTTATAAAAGC
*
22430153 GCCGCTAATGATCAG
64 GCCGCTAATGTTCAG
22430168 GGATTTAAAA
Statistics
Matches: 168, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
112 22 0.13
113 75 0.45
114 37 0.22
115 34 0.20
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (111 bp):
AAAACTAAGCGCAACGACGTCGTTTTCTGGCTTTCGGGGATTTAGCGGCGTTTTTATAAAAGCGC
CGCTAATGTTCAGTCTTTAGCGGTGTTTTTGTGAAAGCGCCGCAAA
Found at i:22438978 original size:43 final size:43
Alignment explanation
Indices: 22438917--22439015 Score: 155
Period size: 43 Copynumber: 2.3 Consensus size: 43
22438907 NNNNGGTCAC
* * *
22438917 AAACGCCACTAAAGACCCTGA-TCTATAGCGGCGCTTTTACCAA
1 AAACGCCGCTAAAAACCCT-ATTCTATAGCGGCGCTTATACCAA
22438960 AAACGCCGCTAAAAACCCTATTCTATAGCGGCGCTTATACCAA
1 AAACGCCGCTAAAAACCCTATTCTATAGCGGCGCTTATACCAA
22439003 AAACGCCGCTAAA
1 AAACGCCGCTAAA
22439016 GGTATTACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAAACCCTATTCTATAGCGGCGCTTATACCAA
Found at i:22439033 original size:43 final size:43
Alignment explanation
Indices: 22438943--22439077 Score: 139
Period size: 43 Copynumber: 3.2 Consensus size: 43
22438933 CCTGATCTAT
* * * * *
22438943 AGCGGCGCTTTTACCAAAAACGCCGCTAAAAACCCTATTCTAT-
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCT-TC
* *
22438986 AGCGGCGCTTATACCAAAAACGCCGCTAAAGGTATTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
* * * * *
22439029 AGCGGCGCTTCTA-CTAAAGCGCCGGTAAAGCTCTTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
22439071 AGCGGCG
1 AGCGGCG
22439078 TTTGTGATAT
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 32 0.41
43 46 0.59
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
AGCGGCGCTTATACCAAAAACGCCGCTAAAGATCTTACTCTTC
Found at i:22439211 original size:22 final size:22
Alignment explanation
Indices: 22439183--22439225 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22439173 CTGCGGCGCT
* *
22439183 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCACTAAAAGCCTA
22439205 AAAAAGCGCCACTAAAAGCCT
1 AAAAAGCGCCACTAAAAGCCT
22439226 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCACTAAAAGCCTA
Found at i:22443872 original size:16 final size:16
Alignment explanation
Indices: 22443851--22443893 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
22443841 TGCTTCCATT
22443851 TTTTTTTTCTTTCACA
1 TTTTTTTTCTTTCACA
* * *
22443867 TTTTTTGTGTTTCATA
1 TTTTTTTTCTTTCACA
22443883 TATTTTTTTCT
1 T-TTTTTTTCT
22443894 AAAATACTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTTTTTTCTTTCACA
Found at i:22447200 original size:372 final size:374
Alignment explanation
Indices: 22446512--22447257 Score: 1112
Period size: 372 Copynumber: 2.0 Consensus size: 374
22446502 CCTCAAAATT
* * * * ** *
22446512 CCAGTTTTGATCACAATGTTTTGATGGTTCTTTCGATCATCCTTTTTGGGTTAATTTTTTCATTG
1 CCAGTTTAGACCAAAATGTTTTGATGGTACTTTCGATCATCCTTTTTGGCATAATTTTCTCATTG
* *
22446577 GGGATAAACTTAATAATGATCAGATGTGTGCTAAGGGGCTCAAACGGGGTGGATTCCGACTCTAT
66 GGGATAAACTTAATAA-GATCAAATGTGTGCTAAGGGGCTCAAACGGGGTGGATTCCGACTCCAT
* * **
22446642 TCAAAACCCTTCTGCTGCAATAGTCAACAGCGGAATCGAGACAAAGGCAATCAAGACTTTCCCTG
130 TCAAAACCCTTCAGCTGCAATACTCAACAAAGGAATCGAGACAAAGGCAATCAAGACTTTCCCTG
* * *
22446707 TGGTGAATTACTCGGCGCAGATGAATCTGCCAGGGCAGGACTCCGAATGTCTGATATGCCTGTCG
195 TGGTGAATTACTCAGCGCAGATGAATCTGCAAGGGCAGGACGCCGAATGTCTGATATGCCTGTCG
22446772 GAGTTTACGGCTGGCGAGCGCCTGCGGTTTCTACCGAAATGCAACCATGGATTTCATGTTCGTTG
260 GAGTTTACGGCTGGCGAGCGCCTGCGGTTTCTACCGAAATGCAACCATGGATTTCATGTTCGTTG
22446837 TGTTGATAAGTGGCTTAAATCGCACACATCATGCCCCAAATGCAGGCATA
325 TGTTGATAAGTGGCTTAAATCGCACACATCATGCCCCAAATGCAGGCATA
22446887 CCAGTTTAGACCAAAATG-TTTGCATGGTACTTTC-AGTCAT-CTTTTGTGGCATAATTTTCTCA
1 CCAGTTTAGACCAAAATGTTTTG-ATGGTACTTTCGA-TCATCCTTTT-TGGCATAATTTTCTCA
* * *
22446949 TTGGGGCTAAACTTAAT-A-ATCAAATGTGTGCTAAGGTGCTCAAAC-GGGTCGGCTTCCGACTC
63 TTGGGGATAAACTTAATAAGATCAAATGTGTGCTAAGGGGCTCAAACGGGGT-GGATTCCGACTC
* * * * * *
22447011 CA-TCAACTACCCTTCAGCTGCAATACTTAATAAAGGAATCGAGCCAGAGGCACTCAAGACTTTC
127 CATTCAA-AACCCTTCAGCTGCAATACTCAACAAAGGAATCGAGACAAAGGCAATCAAGACTTTC
* * **
22447075 CCTGTGGTGAATTACTCAGCGGAGATGAATCTGCAAGGGCTGGACGGGGAATG-CGTGATATGCC
191 CCTGTGGTGAATTACTCAGCGCAGATGAATCTGCAAGGGCAGGACGCCGAATGTC-TGATATGCC
22447139 TGTCGGAGTTTACGGCTGGCGAGCGCCTGCGGTTTCTACCGAAATGCAACCATGGATTTCATGTT
255 TGTCGGAGTTTACGGCTGGCGAGCGCCTGCGGTTTCTACCGAAATGCAACCATGGATTTCATGTT
22447204 CGTTGTGTTGATAAGTGGCTTAAATCGCACACATCATGCCCCAAATGCAGGCAT
320 CGTTGTGTTGATAAGTGGCTTAAATCGCACACATCATGCCCCAAATGCAGGCAT
22447258 TGTTTGCTTG
Statistics
Matches: 336, Mismatches: 29, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
371 9 0.03
372 258 0.77
374 11 0.03
375 58 0.17
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (374 bp):
CCAGTTTAGACCAAAATGTTTTGATGGTACTTTCGATCATCCTTTTTGGCATAATTTTCTCATTG
GGGATAAACTTAATAAGATCAAATGTGTGCTAAGGGGCTCAAACGGGGTGGATTCCGACTCCATT
CAAAACCCTTCAGCTGCAATACTCAACAAAGGAATCGAGACAAAGGCAATCAAGACTTTCCCTGT
GGTGAATTACTCAGCGCAGATGAATCTGCAAGGGCAGGACGCCGAATGTCTGATATGCCTGTCGG
AGTTTACGGCTGGCGAGCGCCTGCGGTTTCTACCGAAATGCAACCATGGATTTCATGTTCGTTGT
GTTGATAAGTGGCTTAAATCGCACACATCATGCCCCAAATGCAGGCATA
Found at i:22450728 original size:1 final size:1
Alignment explanation
Indices: 22450722--22450754 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
22450712 GTTCATTGAT
*
22450722 AAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22450755 GCCATAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22451551 original size:14 final size:14
Alignment explanation
Indices: 22451532--22451560 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22451522 TATCTTTGTT
22451532 GGATATTTGATGAA
1 GGATATTTGATGAA
22451546 GGATATTTGATGAA
1 GGATATTTGATGAA
22451560 G
1 G
22451561 AAAGAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (14 bp):
GGATATTTGATGAA
Found at i:22451931 original size:34 final size:35
Alignment explanation
Indices: 22451891--22451971 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 35
22451881 ACAGTCTTAG
* *
22451891 TGAGCTCGCAGTTTTTG-GGAGCTCACACATTTGA
1 TGAGCTCGCAGTTTTTGTAGAACTCACACATTTGA
* * * *
22451925 TGAGCTCACAG-CTTTGTAGAACTCGCACATTTGG
1 TGAGCTCGCAGTTTTTGTAGAACTCACACATTTGA
22451959 TGAGCTCGCAGTT
1 TGAGCTCGCAGTT
22451972 GTACGATCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
33 4 0.11
34 33 0.89
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (35 bp):
TGAGCTCGCAGTTTTTGTAGAACTCACACATTTGA
Found at i:22451966 original size:17 final size:18
Alignment explanation
Indices: 22451890--22451969 Score: 62
Period size: 17 Copynumber: 4.7 Consensus size: 18
22451880 GACAGTCTTA
**
22451890 GTGAGCTCGCAGTTTTTG
1 GTGAGCTCGCAGCATTTG
*
22451908 G-GAGCTCACA-CATTTG
1 GTGAGCTCGCAGCATTTG
* *
22451924 ATGAGCTCACAGC-TTT-
1 GTGAGCTCGCAGCATTTG
*
22451940 GTAGAACTCGCA-CATTTG
1 GT-GAGCTCGCAGCATTTG
22451958 GTGAGCTCGCAG
1 GTGAGCTCGCAG
22451970 TTGTACGATC
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
16 6 0.12
17 38 0.79
18 4 0.08
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.29
Consensus pattern (18 bp):
GTGAGCTCGCAGCATTTG
Found at i:22454560 original size:45 final size:45
Alignment explanation
Indices: 22454473--22454572 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
22454463 ACGGTAGCAA
* * * ** *
22454473 TAACAGTAGCAGTGACAGTATTCAACACACAAAATGTTGAATCTG
1 TAACAGTAACGGTAACAGTATTCAACACACAAAATGCCGAATCGG
* * *
22454518 TAATAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAATCGG
1 TAACAGTAACGGTAACAGTATTCAACACACAAAATGCCGAATCGG
22454563 TAACAGTAAC
1 TAACAGTAAC
22454573 AGTAGTCGGC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (45 bp):
TAACAGTAACGGTAACAGTATTCAACACACAAAATGCCGAATCGG
Found at i:22455842 original size:12 final size:12
Alignment explanation
Indices: 22455821--22455861 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
22455811 CTGTTTGGCC
*
22455821 TCTTTCTCTGTT
1 TCTTTTTCTGTT
22455833 TCTTTTTCTG-T
1 TCTTTTTCTGTT
22455844 TCTTCTTT-TGTT
1 TCTT-TTTCTGTT
22455856 TCTTTT
1 TCTTTT
22455862 ATTTTTACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (12 bp):
TCTTTTTCTGTT
Found at i:22456029 original size:18 final size:19
Alignment explanation
Indices: 22456006--22456041 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
22455996 ATTATTTATC
22456006 TAATAAATATCT-TTAAAA
1 TAATAAATATCTATTAAAA
22456024 TAATAAATATCTATTAAA
1 TAATAAATATCTATTAAA
22456042 TATACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATAAATATCTATTAAAA
Found at i:22456050 original size:19 final size:18
Alignment explanation
Indices: 22456010--22456051 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
22456000 TTTATCTAAT
*
22456010 AAATATCTTTAAAATAAT
1 AAATATCTTTAAAATAAC
22456028 AAATATCTATT-AAATATAC
1 AAATATCT-TTAAAATA-AC
22456047 AAATA
1 AAATA
22456052 AAAATATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATATCTTTAAAATAAC
Found at i:22456316 original size:25 final size:23
Alignment explanation
Indices: 22456272--22456332 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
22456262 ATTTTAATTC
*
22456272 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
22456296 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
22456320 ATATAAATTATAT
1 AT-TTAATTATAT
22456333 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:22456321 original size:35 final size:34
Alignment explanation
Indices: 22456280--22456353 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 34
22456270 TCATTTAATA
* *
22456280 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTAT-ATTTAAATATCATAAATT
*
22456314 CATATAATATAAATTATATTTAAATATCATTAATT
1 -ATATAATATAAATTATATTTAAATATCATAAATT
22456349 ATATA
1 ATATA
22456354 TTATTAAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 5 0.14
35 25 0.71
36 5 0.14
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (34 bp):
ATATAATATAAATTATATTTAAATATCATAAATT
Found at i:22461573 original size:9 final size:9
Alignment explanation
Indices: 22461559--22461594 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
22461549 GTTTTCAAAT
22461559 TCGAATAAC
1 TCGAATAAC
*
22461568 TCGAATAAT
1 TCGAATAAC
*
22461577 TCGAATAAT
1 TCGAATAAC
22461586 TCGAATAAC
1 TCGAATAAC
22461595 AAACTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:22461579 original size:18 final size:18
Alignment explanation
Indices: 22461556--22461593 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
22461546 TGAGTTTTCA
22461556 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
*
22461574 AATTCGAATAATTCGAAT
1 AATTCGAATAACTCGAAT
22461592 AA
1 AA
22461594 CAAACTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:22469228 original size:21 final size:21
Alignment explanation
Indices: 22469202--22469261 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
22469192 AATCTTCAAG
22469202 GATATGTAATCTTAGATATGAT
1 GATATGTAATCTTAGATAT-AT
*
22469224 G-TATGCAATCTTAGAATATAT
1 GATATGTAATCTTAG-ATATAT
*
22469245 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
22469262 GATTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 15 0.47
22 6 0.19
23 11 0.34
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (21 bp):
GATATGTAATCTTAGATATAT
Done.