Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 205 of 438
Found at i:63424303 original size:43 final size:42
Alignment explanation
Indices: 63424203--63424307 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
63424193 ATGATTTATG
* * *
63424203 TGTAAGACCATGTCTGGGACATCGGCATCGTATTTGACTTCG
1 TGTAAGACCACGTCTGGGACATCGGCATCGTATTTGACTACA
* *
63424245 TGTAAGGCC-CTGTCTGGGATAGT-GGCATCGATATTTGA-TCACA
1 TGTAAGACCAC-GTCTGGGACA-TCGGCATCG-TATTTGACT-ACA
63424288 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
63424308 GTTGGCATTG
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
42 25 0.49
43 25 0.49
44 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATCGGCATCGTATTTGACTACA
Found at i:63427760 original size:42 final size:40
Alignment explanation
Indices: 63427716--63427899 Score: 124
Period size: 40 Copynumber: 4.5 Consensus size: 40
63427706 TTCAGATATA
*
63427716 TATATGTGGCACTTAGTGTGCAACTC-AAGAAAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAACTCGAA-AAAGCTTCGGC
* * *
63427756 TATATATGGCACTTAGTGTGCGATTCGAAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAACTCGAAAAAGCTTCGGC
* * * * *
63427796 TATAT-TACGCACTTAGTGTGTGAGAC-CGAGATAGCTTCAGC
1 TATATAT-GGCACTTAGTGTG-CA-ACTCGAAAAAGCTTCGGC
* * * * * *
63427837 TATATAAGGCACTTGGCGTGCAAAAT-TATAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGC-AACTCGA-AAAAGCTTCGGC
* *
63427878 TATGTATTGGCACTAAGTGTGC
1 TATATA-TGGCACTTAGTGTGC
63427900 GAGATATCAA
Statistics
Matches: 111, Mismatches: 24, Indels: 16
0.74 0.16 0.11
Matches are distributed among these distances:
39 1 0.01
40 52 0.47
41 46 0.41
42 12 0.11
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCAACTCGAAAAAGCTTCGGC
Found at i:63429767 original size:42 final size:41
Alignment explanation
Indices: 63429632--63429793 Score: 162
Period size: 42 Copynumber: 3.9 Consensus size: 41
63429622 TACCATACCA
* * * *
63429632 ATGCCATATCCCAGACATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATAT-G
* * * * * *
63429674 ATGCCAATAGCCCAGCTATGATATTACACGAAGTCTCACATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATA-TG
** *
63429717 ATATCATATCCTAGATATGGTCTTACACGTAGTCTCATAGTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATA-TG
*
63429759 ATGCCATATCCCAGATATGGTCTTACATGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
63429794 TAGTAACCCC
Statistics
Matches: 94, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 65 0.69
43 28 0.30
44 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATG
Found at i:63438626 original size:43 final size:41
Alignment explanation
Indices: 63438564--63438716 Score: 193
Period size: 42 Copynumber: 3.7 Consensus size: 41
63438554 TACCATACCA
63438564 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATATCCCAAATATGGTCTTACA-GTAATCTCATATCG
* * **
63438606 ATGCCAATAGCCCAACTATGGTCTTACACAAAGTCTCATATCG
1 ATGCC-ATATCCCAAATATGGTCTTACAGTAA-TCTCATATCG
* *
63438649 ATGTCATATCCCAAATATGGTCTTACAAGTAGTCTCATAGT-G
1 ATGCCATATCCCAAATATGGTCTTAC-AGTAATCTCATA-TCG
63438691 ATGCCATATCCC-AATATGGTCTTACA
1 ATGCCATATCCCAAATATGGTCTTACA
63438717 CGTAGTCTTA
Statistics
Matches: 96, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
40 1 0.01
41 13 0.14
42 45 0.47
43 37 0.39
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAAATATGGTCTTACAGTAATCTCATATCG
Found at i:63441076 original size:27 final size:27
Alignment explanation
Indices: 63441046--63441144 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
63441036 TCACCCTTAG
* *
63441046 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
63441073 GGGTATTTCGATAATTGTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
63441100 GGGTATTTCAGTAATTTTACAAAT-TA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
63441126 GGGGTATTTTGGTAATTTT
1 -GGGTATTTCGGTAATTTT
63441145 CCTTTATTAC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
26 1 0.02
27 60 0.98
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:63442766 original size:46 final size:46
Alignment explanation
Indices: 63442699--63442872 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
63442689 TGTAACCCGC
*
63442699 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
63442745 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
63442795 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
63442838 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
63442873 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:63442819 original size:93 final size:92
Alignment explanation
Indices: 63442707--63442876 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
63442697 GCCCATAAGT
* *
63442707 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
63442772 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTC-GATGCCTAGTTACATCTCAC
*
63442800 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
63442865 CGAGTTCGATGC
66 CGAGTTCGATGC
63442877 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 5 0.07
93 68 0.93
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGATGCCTAGTTACATCTCAC
Found at i:63444350 original size:40 final size:40
Alignment explanation
Indices: 63444305--63444472 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
63444295 CGGAATATAA
63444305 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
63444345 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
63444385 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
63444425 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
63444465 CCGGATAT
1 CCGGATAT
63444473 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:63452374 original size:40 final size:40
Alignment explanation
Indices: 63452329--63452496 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
63452319 CGGAATATAA
63452329 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
63452369 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
63452409 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
63452449 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
63452489 CCGGATAT
1 CCGGATAT
63452497 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:63461734 original size:39 final size:39
Alignment explanation
Indices: 63461650--63461802 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
63461640 TATGGTAACC
** * *
63461650 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
63461690 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
63461729 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
63461768 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
63461803 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:63461776 original size:78 final size:79
Alignment explanation
Indices: 63461619--63461801 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
63461609 TCGTTCAAAC
* * **
63461619 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
63461684 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
63461699 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
63461763 CAATTTGCACAATT
66 CAATTTGCACAATT
63461777 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
63461802 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:63465423 original size:36 final size:36
Alignment explanation
Indices: 63465376--63465447 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
63465366 TATGGGTGGG
*
63465376 TTACATGGTAGCTTGGCTACATAAGTTCCGTAGGCT
1 TTACATGGTAGCTTGGCTACATAAGTTCCGCAGGCT
63465412 TTACATGGTAGCTTGGCTACATAAGTTCCGCAGGCT
1 TTACATGGTAGCTTGGCTACATAAGTTCCGCAGGCT
63465448 ATTGAGTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (36 bp):
TTACATGGTAGCTTGGCTACATAAGTTCCGCAGGCT
Found at i:63467046 original size:31 final size:31
Alignment explanation
Indices: 63467003--63467097 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
63466993 CCTTTTCATA
* *
63467003 TTTCATAATTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
63467034 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
63467065 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
63467096 TT
1 TT
63467098 ACTGTAAATG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:63467340 original size:24 final size:24
Alignment explanation
Indices: 63467289--63467431 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
63467279 GCTTTATCAT
*
63467289 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
63467314 ATAACTGGGGCAAAATCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
63467338 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
63467361 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
63467385 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
63467409 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
63467432 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 75 0.69
25 11 0.10
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:63467368 original size:47 final size:48
Alignment explanation
Indices: 63467289--63467430 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
63467279 GCTTTATCAT
* * *
63467289 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAATCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
63467338 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
63467385 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
63467431 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.50
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:63467389 original size:71 final size:72
Alignment explanation
Indices: 63467288--63467431 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
63467278 TGCTTTATCA
* *
63467288 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAATCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
63467353 GCCCTTT
66 GCCCTTT
* * **
63467360 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
63467423 AGCCCTTT
65 AGCCCTTT
63467431 T
1 T
63467432 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 52 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:63467507 original size:20 final size:20
Alignment explanation
Indices: 63467482--63467541 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
63467472 TATGATTACC
63467482 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
63467502 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
63467522 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
63467542 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:63467616 original size:25 final size:25
Alignment explanation
Indices: 63467584--63467631 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63467574 ATACATAAAC
* * *
63467584 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
63467609 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
63467632 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:63474109 original size:39 final size:39
Alignment explanation
Indices: 63474065--63474217 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
63474055 GTGCTGAGAT
* * *
63474065 TGTATCCGGGTTAGAGTCTCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
63474104 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
*
63474143 TGTATCCGGGCTAAAGTCCCGCGGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
* *
63474182 TGTGTCCGGGCTAAAGACCCGCAGGCTTCGTGCTGG
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
63474218 TGCTGGTAAT
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
Found at i:63476388 original size:5 final size:6
Alignment explanation
Indices: 63476375--63476415 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
63476365 ATAATTTAAT
63476375 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
63476416 AAACATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:63476416 original size:20 final size:20
Alignment explanation
Indices: 63476375--63476417 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
63476365 ATAATTTAAT
**
63476375 AAATAAAAATAAAAATCTAA
1 AAATAAAAATAAAAATAAAA
63476395 AAATAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
63476415 AAA
1 AAA
63476418 ACATATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:63476451 original size:9 final size:9
Alignment explanation
Indices: 63476437--63476486 Score: 82
Period size: 9 Copynumber: 5.6 Consensus size: 9
63476427 TTTATACAAA
63476437 TAATTCGGT
1 TAATTCGGT
63476446 TAATTCGGT
1 TAATTCGGT
*
63476455 TAATTCGAT
1 TAATTCGGT
63476464 TAATTCGGT
1 TAATTCGGT
*
63476473 TAATTCAGT
1 TAATTCGGT
63476482 TAATT
1 TAATT
63476487 TTATACTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:63497033 original size:28 final size:28
Alignment explanation
Indices: 63497001--63497099 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
63496991 GCAATAAGCC
*
63497001 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
63497029 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
63497057 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
63497086 CGCACACTTAGTGC
1 CGCACACTTAGTGC
63497100 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:63501436 original size:14 final size:14
Alignment explanation
Indices: 63501417--63501444 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63501407 CTAGGCTCGA
63501417 AAAATGAAATTCTT
1 AAAATGAAATTCTT
63501431 AAAATGAAATTCTT
1 AAAATGAAATTCTT
63501445 GAAGTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
AAAATGAAATTCTT
Found at i:63504040 original size:4 final size:4
Alignment explanation
Indices: 63504033--63504065 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
63504023 TACATAACAC
63504033 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
63504066 GTAATAGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:63505207 original size:22 final size:21
Alignment explanation
Indices: 63505181--63505226 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
63505171 CTTCCTTTAT
* *
63505181 AATTATCATATATATTAATTAA
1 AATTATAAAATATATTAA-TAA
*
63505203 AATTATAAAATATCTTAATAA
1 AATTATAAAATATATTAATAA
63505224 AAT
1 AAT
63505227 ATTAATTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTATAAAATATATTAATAA
Found at i:63507307 original size:2 final size:2
Alignment explanation
Indices: 63507300--63507344 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
63507290 ATATTGTGAT
*
63507300 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63507342 TA T
1 TA T
63507345 GTTAGTATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:63507638 original size:25 final size:25
Alignment explanation
Indices: 63507597--63507658 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
63507587 CAGGCCCATT
* *
63507597 TTCACAGCTTGTGTGAGCATTTTGA
1 TTCACAGCTCGTATGAGCATTTTGA
63507622 TTCACAGCTCGTATGAGCATTTTGA
1 TTCACAGCTCGTATGAGCATTTTGA
63507647 TTCACAGCTCGT
1 TTCACAGCTCGT
63507659 GTGAACATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (25 bp):
TTCACAGCTCGTATGAGCATTTTGA
Found at i:63508927 original size:17 final size:17
Alignment explanation
Indices: 63508905--63508951 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
63508895 ATCTGACAAA
63508905 GCCCGATCAATGATAAT
1 GCCCGATCAATGATAAT
63508922 GCCCGATCAATGATAAT
1 GCCCGATCAATGATAAT
* *
63508939 GCCTGATAAATGA
1 GCCCGATCAATGA
63508952 GAAATGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (17 bp):
GCCCGATCAATGATAAT
Found at i:63509315 original size:58 final size:58
Alignment explanation
Indices: 63509195--63509333 Score: 147
Period size: 58 Copynumber: 2.4 Consensus size: 58
63509185 TTACAGAAAG
* * * * * ***
63509195 GATTTAGCCCAGACGGGTAATCCTGATATAAGTCCTCTCGAGCATATGTTATAGATTG
1 GATTTAGCCCAGACGGGTAATCCAGATACAAGTCCTCTAGAGCATATGTCATAAAAAA
*
63509253 GATTTAGCCCAGACGGGTAATCCAGAT-CAAG-CTTCTTAGAGCATATGTCATAAAAAAA
1 GATTTAGCCCAGACGGGTAATCCAGATACAAGTCCTC-TAGAGCATATGTCAT-AAAAAA
* *
63509311 GATTTAGCCTAGACTGGTAATCC
1 GATTTAGCCCAGACGGGTAATCC
63509334 TGTTGTATAC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
56 3 0.04
57 16 0.24
58 49 0.72
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (58 bp):
GATTTAGCCCAGACGGGTAATCCAGATACAAGTCCTCTAGAGCATATGTCATAAAAAA
Found at i:63517848 original size:20 final size:20
Alignment explanation
Indices: 63517781--63517852 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
63517771 ATGCGATCAC
*
63517781 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCATGTGGCTTGGG
* * *
63517801 ATACCCCCGTGTGGCTTGGG
1 ACACGCCCATGTGGCTTGGG
*
63517821 ACATGCCCATGTGGCTTGGG
1 ACACGCCCATGTGGCTTGGG
63517841 ACACGCCCATGT
1 ACACGCCCATGT
63517853 ACTCAGCCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.22
Consensus pattern (20 bp):
ACACGCCCATGTGGCTTGGG
Found at i:63519313 original size:40 final size:40
Alignment explanation
Indices: 63519245--63519420 Score: 261
Period size: 40 Copynumber: 4.4 Consensus size: 40
63519235 ACCAAGTACA
* *
63519245 TTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATGCC
1 TTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCC
63519284 TTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCC
63519324 TTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCC
* *
63519364 TTCAGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATGCC
1 TTC-GGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCC
63519404 TTCGGGACTTAGCCCGG
1 TTCGGGACTTAGCCCGG
63519421 TTATCATCCG
Statistics
Matches: 128, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
39 16 0.12
40 109 0.85
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCC
Found at i:63527269 original size:40 final size:40
Alignment explanation
Indices: 63527199--63527376 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
63527189 AAACCAAGTA
* *
63527199 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
63527238 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
63527278 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
63527318 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
63527358 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
63527377 TTATCATCCG
Statistics
Matches: 130, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 15 0.12
40 115 0.88
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:63533094 original size:10 final size:10
Alignment explanation
Indices: 63533079--63533113 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
63533069 TTATGTATTC
63533079 TAATTAAATT
1 TAATTAAATT
63533089 TAATTAAATAT
1 TAATTAAAT-T
*
63533100 TAAATAAATT
1 TAATTAAATT
63533110 TAAT
1 TAAT
63533114 ACATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAATTAAATT
Found at i:63533325 original size:16 final size:17
Alignment explanation
Indices: 63533304--63533341 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
63533294 TACCAACGAA
63533304 AATTTATAGTTGTTTC-
1 AATTTATAGTTGTTTCG
63533320 AATTTATAGTTGTTTCG
1 AATTTATAGTTGTTTCG
63533337 AATTT
1 AATTT
63533342 CGAAATGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.55
Consensus pattern (17 bp):
AATTTATAGTTGTTTCG
Found at i:63533489 original size:16 final size:14
Alignment explanation
Indices: 63533456--63533522 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 14
63533446 TTTAATAGAA
63533456 AATATTATTTATTT
1 AATATTATTTATTT
*
63533470 AATATTTTTTATATT
1 AATATTATTTAT-TT
63533485 CAATATTCATTTAATATT
1 -AATATT-ATTT-AT-TT
* *
63533503 AAAATTACTTATTT
1 AATATTATTTATTT
*
63533517 TATATT
1 AATATT
63533523 TAAATTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
14 17 0.40
15 4 0.09
16 9 0.21
17 8 0.19
18 5 0.12
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.58
Consensus pattern (14 bp):
AATATTATTTATTT
Found at i:63534193 original size:4 final size:4
Alignment explanation
Indices: 63534184--63534236 Score: 88
Period size: 4 Copynumber: 13.2 Consensus size: 4
63534174 TGGGATTGGA
* *
63534184 ACAT ACAT ACGT ACAT ACAT ACAT ACAT AAAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
63534232 ACAT A
1 ACAT A
63534237 TGTATGTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:63547179 original size:19 final size:19
Alignment explanation
Indices: 63547155--63547193 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
63547145 GAATGGGTTG
63547155 ATCTCAAGTCAACTAAGGC
1 ATCTCAAGTCAACTAAGGC
63547174 ATCTCAAGTCAACTAAGGC
1 ATCTCAAGTCAACTAAGGC
63547193 A
1 A
63547194 ATGGCATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (19 bp):
ATCTCAAGTCAACTAAGGC
Found at i:63580109 original size:46 final size:46
Alignment explanation
Indices: 63580021--63580375 Score: 484
Period size: 46 Copynumber: 7.7 Consensus size: 46
63580011 AGTGTGCTCT
63580021 CTGATA-GAAAATGTGTAAGACCAT-GTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63580066 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63580112 CTGATATGAAATGTGTAA-ACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63580157 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63580203 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
63580249 GTGACATGAAATATTTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
63580295 ATGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
63580342 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
63580376 CACTACGACA
Statistics
Matches: 282, Mismatches: 23, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
45 65 0.23
46 178 0.63
47 39 0.14
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:63580166 original size:25 final size:25
Alignment explanation
Indices: 63580093--63580167 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
63580083 AGACCATGGT
63580093 TGAAAGATACCATGGCAACCTGATA
1 TGAAAGATACCATGGCAACCTGATA
* ** *
63580118 TG-AA-AT---GTGTAAACCGTGGT-
1 TGAAAGATACCATGGCAACC-TGATA
63580138 TGAAAGATACCATGGCAACCTGATA
1 TGAAAGATACCATGGCAACCTGATA
63580163 TGAAA
1 TGAAA
63580168 CGTGTAAGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
20 8 0.23
21 5 0.14
22 2 0.06
23 2 0.06
24 5 0.14
25 13 0.37
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (25 bp):
TGAAAGATACCATGGCAACCTGATA
Found at i:63580176 original size:91 final size:92
Alignment explanation
Indices: 63580021--63580375 Score: 484
Period size: 91 Copynumber: 3.9 Consensus size: 92
63580011 AGTGTGCTCT
*
63580021 CTGATA-GAAAATGTGTAAGACCAT-GTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGTGTAA
63580084 GACCATGGTTGAAAGATACCATGGCAAC
65 GACCATGGTTGAAAGATACCATGGCAAC
* *
63580112 CTGATATGAAATGTGTAA-ACCGTGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGTGTAAG
63580176 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * ** *
63580203 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATATTTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGTGTAAG
63580268 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* *** ** * * * *
63580295 ATGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-GAAAATGAGTA
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAACGTGTA
*
63580359 AGACCATAGTTGAAAGA
64 AGACCATGGTTGAAAGA
63580376 CACTACGACA
Statistics
Matches: 238, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
90 4 0.02
91 100 0.42
92 72 0.30
93 62 0.26
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGTGTAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:63585387 original size:46 final size:46
Alignment explanation
Indices: 63585299--63585654 Score: 493
Period size: 46 Copynumber: 7.7 Consensus size: 46
63585289 AGTGTGCTCT
63585299 CTGATA-GAAAATGTGTAAGACCAT-GTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63585344 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63585390 CTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63585436 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63585482 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
63585528 GTGACATGAAATATTTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
63585574 ATGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
63585621 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
63585655 CACTACGACA
Statistics
Matches: 284, Mismatches: 23, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
45 22 0.08
46 223 0.79
47 39 0.14
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:63590637 original size:46 final size:46
Alignment explanation
Indices: 63590570--63590926 Score: 502
Period size: 46 Copynumber: 7.7 Consensus size: 46
63590560 AGTGTGCTCT
63590570 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63590616 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63590662 CTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63590708 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63590754 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
63590800 GTGACATGAAATATTTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
63590846 ATGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
63590893 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
63590927 CACTACGCAT
Statistics
Matches: 285, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.00
46 244 0.86
47 40 0.14
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:63592224 original size:25 final size:24
Alignment explanation
Indices: 63592196--63592259 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 24
63592186 GACCTCAGCA
63592196 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTG-TTATTAGCACGCCAG
**
63592221 TGCTCTCTG-TA-TAGCACTTCAG
1 TGCTCTCTGTTATTAGCACGCCAG
63592243 TGCTCTCTGTTCATTAG
1 TGCTCTCTGTT-ATTAG
63592260 TGCATAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 18 0.53
23 3 0.09
24 1 0.03
25 12 0.35
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.38
Consensus pattern (24 bp):
TGCTCTCTGTTATTAGCACGCCAG
Found at i:63595969 original size:46 final size:45
Alignment explanation
Indices: 63595919--63596031 Score: 154
Period size: 46 Copynumber: 2.5 Consensus size: 45
63595909 GATAGAAAAT
* * *
63595919 GTGTAAGACCATGGTTGAAAGATGCCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAC
* *
63595965 GTGTAAGACCATGGTTGAATGATACCATGGCAACATGACAGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAC
* *
63596010 GAGTAAGACCATAGTTGAAAGA
1 GTGTAAGACCATGGTTGAAAGA
63596032 CACTATTGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
45 23 0.39
46 36 0.61
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (45 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAC
Found at i:63597326 original size:25 final size:24
Alignment explanation
Indices: 63597297--63597360 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 24
63597287 GACCTCAGCA
63597297 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTG-TTATTAGCACGCCAG
**
63597322 TGCTCTCTG-TA-TAGCACTTCAG
1 TGCTCTCTGTTATTAGCACGCCAG
63597344 TGCTCTCTGTTCATTAG
1 TGCTCTCTGTT-ATTAG
63597361 TGCATAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 18 0.53
23 3 0.09
24 1 0.03
25 12 0.35
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.38
Consensus pattern (24 bp):
TGCTCTCTGTTATTAGCACGCCAG
Found at i:63600936 original size:54 final size:54
Alignment explanation
Indices: 63600864--63600999 Score: 263
Period size: 54 Copynumber: 2.5 Consensus size: 54
63600854 TTGTCGTTGT
63600864 AGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTAC
1 AGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTAC
*
63600918 AGGGGATTTAGCTTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTAC
1 AGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTAC
63600972 AGGGGATTTAGCCTGGACTGGTAATCCC
1 AGGGGATTTAGCCTGGACTGGTAATCCC
63601000 ACTGTAAGAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (54 bp):
AGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTAC
Found at i:63601099 original size:46 final size:46
Alignment explanation
Indices: 63601032--63601398 Score: 504
Period size: 46 Copynumber: 8.0 Consensus size: 46
63601022 TAGTGTGTCT
63601032 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63601078 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63601124 CTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63601170 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
63601216 CTGATATGAAATTTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
63601262 GTGACATGAAATGTTTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
63601308 GTGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
63601355 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
63601399 TCATGTCGAA
Statistics
Matches: 291, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 251 0.86
47 39 0.13
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:63607231 original size:51 final size:51
Alignment explanation
Indices: 63607101--63607344 Score: 280
Period size: 51 Copynumber: 4.9 Consensus size: 51
63607091 TAGCCAAAGC
* * * * *
63607101 TATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * * *
63607150 TATCCGGTACACGTAGAAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* *
63607201 TATCGGGTATGCATAGTAGCCTGCATTTAGTACTACACACGTGATCGAAGT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * *
63607252 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* ** * * *
63607301 AATCTAGTACACGTAGTAGCCTGCACTTAGTGCTACACACGTGA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
63607345 CCTCACAATA
Statistics
Matches: 166, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 74 0.45
50 6 0.04
51 86 0.52
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (51 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:63607318 original size:100 final size:100
Alignment explanation
Indices: 63607112--63607346 Score: 276
Period size: 100 Copynumber: 2.4 Consensus size: 100
63607102 ATCTGGTATG
* * *
63607112 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGAAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGAAGCCTGCACT
* * * * **
63607177 TAGTACTACACACGTGATCGAAGTTATCGGGTATG
66 TAGTACTACACACGCGATCCAAGTAATCGAGTACA
* * * * *
63607212 CATAGTAGCCTGCATTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGAAGCCTGCA
* *
63607277 CTTAGTACTACACATGCGA-CCAA-TAATCTAGTACA
64 CTTAGTACTACACACGCGATCCAAGTAATCGAGTACA
* *
63607312 CGTAGTAGCCTGCACTTAGTGCTACACACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
63607347 TCACAATAGA
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
99 1 0.01
100 67 0.59
101 6 0.05
102 39 0.35
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGAAGCCTGCACT
TAGTACTACACACGCGATCCAAGTAATCGAGTACA
Found at i:63608582 original size:2 final size:2
Alignment explanation
Indices: 63608575--63608618 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
63608565 CATAATTCAC
63608575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63608617 AT
1 AT
63608619 CACATCTCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63612379 original size:46 final size:45
Alignment explanation
Indices: 63612312--63612440 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 45
63612302 TGTAACCCGC
* * * *
63612312 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGACATTCGCAT
63612358 CCATAAGTGAACTCGGACTCAACTCAACGAGTACGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-CGGACATTCGCAT
63612404 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGA
63612441 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
45 1 0.01
46 75 0.97
47 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTCGGACATTCGCAT
Found at i:63612459 original size:46 final size:45
Alignment explanation
Indices: 63612320--63612459 Score: 122
Period size: 46 Copynumber: 3.0 Consensus size: 45
63612310 GCCCATAAGC
* * ** * *
63612320 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
* *** *
63612366 GAACTCGGACTCAACTCAACGAGTACGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
63612412 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
63612458 GA
1 GA
63612460 CATGTCACTT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
46 76 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:63615172 original size:24 final size:24
Alignment explanation
Indices: 63615144--63615190 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
63615134 ACACATATTC
*
63615144 AATTCAATCA-ATACAAATTCAATA
1 AATTC-ATCAGATACAAAATCAATA
63615168 AATTCATCAGATACAAAATCAAT
1 AATTCATCAGATACAAAATCAAT
63615191 CCATTTCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (24 bp):
AATTCATCAGATACAAAATCAATA
Found at i:63619159 original size:39 final size:41
Alignment explanation
Indices: 63619105--63619362 Score: 385
Period size: 39 Copynumber: 6.6 Consensus size: 41
63619095 AACCCAAGTA
* * *
63619105 CCTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
63619144 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
63619184 CCTTCGGGACTTAGCCCGGATATAGTC-TCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
63619224 CCTTCGGGACTTAG-CC-GATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
63619262 CCTTCGGGACTTAGCCCGGATATAGT--ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
63619301 CCTTCGGGACTTAGCCCGGATATAGT--ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
63619340 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
63619363 CATTCGAATA
Statistics
Matches: 203, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
38 35 0.17
39 88 0.43
40 77 0.38
41 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:63628662 original size:40 final size:40
Alignment explanation
Indices: 63628590--63628809 Score: 239
Period size: 40 Copynumber: 5.5 Consensus size: 40
63628580 GCTCGATTGT
* * * * *
63628590 CTTCAGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGC
* *
63628630 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
63628670 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* *
63628710 CTTCGGGACTTAACCC-GATTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * * *
63628749 CTTCGAGAGTT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
63628790 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAGCCCGGAT
63628810 ACCATTCGAA
Statistics
Matches: 153, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 34 0.22
40 90 0.59
41 28 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:63630643 original size:40 final size:41
Alignment explanation
Indices: 63630581--63630842 Score: 376
Period size: 40 Copynumber: 6.6 Consensus size: 41
63630571 AACCCAAGTA
* * *
63630581 CCTTCGGGATTTAG-GCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
63630620 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
63630660 CCTTCAGGACTTAGCCCGGATATAGTC-TCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
63630700 CCTTCGGGACTTAGCCCGAATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
63630740 CCTTCGGGACTTAGCCCGGATATAGT-TACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
63630780 CCTTCGGGACTTAGCCCGGATATAGT-TACTAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
63630820 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
63630843 CATTCGAATA
Statistics
Matches: 203, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.06
40 187 0.92
41 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:63632287 original size:14 final size:14
Alignment explanation
Indices: 63632265--63632307 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
63632255 TTTCATTTTG
63632265 TAACATAAAATTAT
1 TAACATAAAATTAT
*
63632279 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
63632292 TAACACAAAATAAT
1 TAACATAAAATTAT
63632306 TA
1 TA
63632308 TAATATGCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:63632301 original size:13 final size:13
Alignment explanation
Indices: 63632265--63632303 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
63632255 TTTCATTTTG
63632265 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
63632279 TAGCATAAAATAT
1 TAACATAAAATAT
*
63632292 TAACACAAAATA
1 TAACATAAAATA
63632304 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:63636304 original size:28 final size:28
Alignment explanation
Indices: 63636272--63636336 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
63636262 CAGTGCATGT
*
63636272 AGTAACAGTCTGGGCCTTAGCCCT-ATAC
1 AGTAACAGTCTGGGCCTAAG-CCTAATAC
* *
63636300 AGTAATAGTGTGGGCCTAAGCCTAATAC
1 AGTAACAGTCTGGGCCTAAGCCTAATAC
*
63636328 AGTATCAGT
1 AGTAACAGT
63636337 ACAATGTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 3 0.10
28 28 0.90
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (28 bp):
AGTAACAGTCTGGGCCTAAGCCTAATAC
Found at i:63636522 original size:27 final size:27
Alignment explanation
Indices: 63636492--63636551 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
63636482 AGTTGCCAGA
*
63636492 AACAGTAAATGTGGCAAAGCCACCAAT
1 AACAGTAAATGTGACAAAGCCACCAAT
** * *
63636519 AACAGTGGATGTGACATAGTCACCAAT
1 AACAGTAAATGTGACAAAGCCACCAAT
63636546 -ACAGTA
1 AACAGTA
63636552 CTTCTTCCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (27 bp):
AACAGTAAATGTGACAAAGCCACCAAT
Found at i:63636747 original size:27 final size:27
Alignment explanation
Indices: 63636690--63636751 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
63636680 CATAATTGTC
*
63636690 ATTTTACCATACAAGGGTAATACGGCC
1 ATTTTACCATACAAGGGTAATACGGCA
* * * * *
63636717 ATTTTACCCTACAGGGGTATTATGGTA
1 ATTTTACCATACAAGGGTAATACGGCA
63636744 ATTTTACC
1 ATTTTACC
63636752 TATTTTAGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (27 bp):
ATTTTACCATACAAGGGTAATACGGCA
Found at i:63642154 original size:27 final size:27
Alignment explanation
Indices: 63642080--63642154 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
63642070 CCCCAAAATA
* * *
63642080 GGTAAAATGACCATAATACCACTGTAG
1 GGTAAAATGACGATAATACCCCTATAG
* *
63642107 GGTAAAATGATTG-TAATACCCCTATAT
1 GGTAAAATGA-CGATAATACCCCTATAG
*
63642134 GGTAAAATGACGATTATACCC
1 GGTAAAATGACGATAATACCC
63642155 TTATGTTATG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (27 bp):
GGTAAAATGACGATAATACCCCTATAG
Found at i:63642330 original size:27 final size:26
Alignment explanation
Indices: 63642281--63642332 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
63642271 TAGAGGAAGT
*
63642281 ACTATACTGGTGACTATGTCACATTC
1 ACTATACTGGTGACTATGCCACATTC
* *
63642307 ACTATTACTGGTGGCTTTGCCACATT
1 ACTA-TACTGGTGACTATGCCACATT
63642333 TACTGTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (26 bp):
ACTATACTGGTGACTATGCCACATTC
Found at i:63642531 original size:28 final size:28
Alignment explanation
Indices: 63642495--63642559 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
63642485 ATTACACTGT
* * * * *
63642495 ACTGATACTGTATTGGGCTTAGGCCCAC
1 ACTGTTACTATATAGGGCTAAGGCCCAA
63642523 ACTGTTACTATATAGGGCTAAGGCCCAA
1 ACTGTTACTATATAGGGCTAAGGCCCAA
63642551 ACTG-TACTA
1 ACTGTTACTA
63642560 ATACTGAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (28 bp):
ACTGTTACTATATAGGGCTAAGGCCCAA
Found at i:63646271 original size:41 final size:41
Alignment explanation
Indices: 63646214--63646363 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
63646204 TCGAGGTTTA
63646214 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
63646255 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
63646296 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
63646336 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
63646364 TGAGTCAGCG
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.34
41 62 0.66
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:63649379 original size:19 final size:19
Alignment explanation
Indices: 63649355--63649392 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
63649345 TGGACCACGT
63649355 TGGGCCGAAATGGGC-CATG
1 TGGGCC-AAATGGGCTCATG
*
63649374 TGGGCCTAATGGGCTCATG
1 TGGGCCAAATGGGCTCATG
63649393 GGACCCATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.18, C:0.21, G:0.39, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCATG
Found at i:63650071 original size:33 final size:30
Alignment explanation
Indices: 63650034--63650133 Score: 89
Period size: 33 Copynumber: 3.2 Consensus size: 30
63650024 TAATTGTATT
*
63650034 ACACTGTACTGATATTGTATTGGGCTTAGGCCC
1 ACACTGTACTGATA-T-TA-TGGGCTAAGGCCC
63650067 ACACTGTTACT-ATA-TA-GGGCTAAGGCCC
1 ACACTG-TACTGATATTATGGGCTAAGGCCC
* *
63650095 AGACTGTACTGTTACTATATAGGGCTAAGGCCC
1 ACACTGTACTGATA-T-TAT-GGGCTAAGGCCC
63650128 ACACTG
1 ACACTG
63650134 CACTATTTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
27 4 0.07
28 18 0.32
30 2 0.04
31 2 0.04
33 26 0.46
34 4 0.07
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (30 bp):
ACACTGTACTGATATTATGGGCTAAGGCCC
Found at i:63650087 original size:28 final size:28
Alignment explanation
Indices: 63650055--63650133 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 28
63650045 ATATTGTATT
*
63650055 GGGCTTAGGCCCACACTGTTACTATATA
1 GGGCTAAGGCCCACACTGTTACTATATA
63650083 GGGCTAAGGCCCAGACTGTACTGTTACTATATA
1 GGGCTAAGGCCC--AC---ACTGTTACTATATA
63650116 GGGCTAAGGCCCACACTG
1 GGGCTAAGGCCCACACTG
63650134 CACTATTTAC
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
28 15 0.33
30 2 0.04
31 2 0.04
33 26 0.58
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (28 bp):
GGGCTAAGGCCCACACTGTTACTATATA
Found at i:63652208 original size:42 final size:42
Alignment explanation
Indices: 63652101--63652259 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 42
63652091 TGGTATGTAT
* *
63652101 TTTCATGTAAGACCACGTCTGGGATGTTGGCATCG-ACTTATGA
1 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGTA-TT-TGA
* *
63652144 TTTACGTGTAAGACTATGTCTGGGACGTTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA
* *
63652187 TTTTGTGTAAGACC-CTGTCTGGGACAG-TGTCATCGATATTTGA
1 TTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTGA
* *
63652230 TTACATGTAAGACCACGTCTGGGACGTTGG
1 TTTCGTGTAAGACCACGTCTGGGACGTTGG
63652260 GATTGTACGA
Statistics
Matches: 97, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
42 26 0.27
43 39 0.40
44 31 0.32
45 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA
Found at i:63659292 original size:51 final size:51
Alignment explanation
Indices: 63659208--63659406 Score: 292
Period size: 51 Copynumber: 3.9 Consensus size: 51
63659198 CGGATACACG
* * * *
63659208 GTGGCCTTTACATAGCACCACCCTTGTAG-CCAAAACTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
*
63659259 GCGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * * *
63659310 GTGGCCTTCACATAGAACCACACTTGGGCCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
63659361 GTGGCCTTCCCATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
63659407 CTAAGGTTCA
Statistics
Matches: 132, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
50 1 0.01
51 131 0.99
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:63659486 original size:52 final size:52
Alignment explanation
Indices: 63659430--63659547 Score: 191
Period size: 52 Copynumber: 2.3 Consensus size: 52
63659420 GGAAAATTTC
63659430 TCACTTAGCACAATGCAATGGACTTATTTCACTTAAATGCCATGGACTTATT
1 TCACTTAGCACAATGCAATGGACTTATTTCACTTAAATGCCATGGACTTATT
* * * * *
63659482 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGTCATGGTCTTATT
1 TCACTTAGCACAATGCAATGGACTTATTTCACTTAAATGCCATGGACTTATT
63659534 TCACTTAGCACAAT
1 TCACTTAGCACAAT
63659548 TTCGTATCCT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (52 bp):
TCACTTAGCACAATGCAATGGACTTATTTCACTTAAATGCCATGGACTTATT
Found at i:63659507 original size:28 final size:27
Alignment explanation
Indices: 63659430--63659545 Score: 145
Period size: 24 Copynumber: 4.4 Consensus size: 27
63659420 GGAAAATTTC
*
63659430 TCACTTAGCACAATGCAATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
63659458 TCACTTA--A-ATGCCATGGACTTATT
1 TCACTTAGCACATGCCATGGACTTATT
63659482 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
63659510 TCACTTAG---ATGTCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
63659534 TCACTTAGCACA
1 TCACTTAGCACA
63659546 ATTTCGTATC
Statistics
Matches: 78, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
24 43 0.55
25 1 0.01
26 2 0.03
27 2 0.03
28 30 0.38
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:63663184 original size:24 final size:26
Alignment explanation
Indices: 63663157--63663205 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
63663147 AGTTCATGCA
63663157 ATATTAAAGC-ATTTAA-ATACAATT
1 ATATTAAAGCTATTTAACATACAATT
63663181 ATATTAAAGCTTATTTAACATACAA
1 ATATTAAAGC-TATTTAACATACAA
63663206 ACTTACCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (26 bp):
ATATTAAAGCTATTTAACATACAATT
Found at i:63665458 original size:25 final size:25
Alignment explanation
Indices: 63665430--63665511 Score: 101
Period size: 25 Copynumber: 3.3 Consensus size: 25
63665420 TCATGTACAT
63665430 GTATGCTCACACGAGCTGTAGATCA
1 GTATGCTCACACGAGCTGTAGATCA
* * * * *
63665455 GTATGCTCTCATGAGCTATAAATCG
1 GTATGCTCACACGAGCTGTAGATCA
* *
63665480 GTATACTTACACGAGCTGTAGATCA
1 GTATGCTCACACGAGCTGTAGATCA
63665505 GTATGCT
1 GTATGCT
63665512 TTCGCGAGCT
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAGATCA
Found at i:63665519 original size:25 final size:25
Alignment explanation
Indices: 63665430--63665521 Score: 94
Period size: 25 Copynumber: 3.7 Consensus size: 25
63665420 TCATGTACAT
**
63665430 GTATGCTCACACGAGCTGTAGATCA
1 GTATGCTTTCACGAGCTGTAGATCA
* * * * *
63665455 GTATGCTCTCATGAGCTATAAATCG
1 GTATGCTTTCACGAGCTGTAGATCA
* *
63665480 GTATACTTACACGAGCTGTAGATCA
1 GTATGCTTTCACGAGCTGTAGATCA
*
63665505 GTATGCTTTCGCGAGCT
1 GTATGCTTTCACGAGCT
63665522 ATATATTGGT
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (25 bp):
GTATGCTTTCACGAGCTGTAGATCA
Found at i:63665542 original size:50 final size:50
Alignment explanation
Indices: 63665430--63665544 Score: 158
Period size: 50 Copynumber: 2.3 Consensus size: 50
63665420 TCATGTACAT
*
63665430 GTATGCTCACACGAGCTGTAGATCAGTATGCTCTCATGAGCTATAAATCG
1 GTATGCTCACACGAGCTGTAGATCAGTATGCTCTCACGAGCTATAAATCG
* * * * * *
63665480 GTATACTTACACGAGCTGTAGATCAGTATGCTTTCGCGAGCTATATATTG
1 GTATGCTCACACGAGCTGTAGATCAGTATGCTCTCACGAGCTATAAATCG
*
63665530 GTATGGTCACACGAG
1 GTATGCTCACACGAG
63665545 TTGTGGGTCA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (50 bp):
GTATGCTCACACGAGCTGTAGATCAGTATGCTCTCACGAGCTATAAATCG
Found at i:63667385 original size:22 final size:22
Alignment explanation
Indices: 63667360--63667403 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
63667350 GGGAGAAATC
* *
63667360 TATATGTACCAGAATAAAATGT
1 TATACGTACCAAAATAAAATGT
63667382 TATACGTACCAAAATAAAATGT
1 TATACGTACCAAAATAAAATGT
63667404 GCAGACTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (22 bp):
TATACGTACCAAAATAAAATGT
Found at i:63669569 original size:79 final size:79
Alignment explanation
Indices: 63669458--63669682 Score: 303
Period size: 79 Copynumber: 2.8 Consensus size: 79
63669448 GCTACTCGTT
* * *
63669458 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
63669523 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
63669538 CCAATGCCTTCGGGCTTAGCCCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
63669601 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* * * *
63669617 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
63669681 GA
64 GA
63669683 CATCATTCGA
Statistics
Matches: 128, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 3 0.02
79 69 0.54
80 45 0.35
81 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:63669642 original size:119 final size:120
Alignment explanation
Indices: 63669458--63669681 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
63669448 GCTACTCGTT
63669458 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
63669523 ATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGGATTAGTAACTCGCA
66 ATATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCA
* * **
63669577 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
*
63669639 CGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
63669682 ACATCATTCG
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
118 6 0.07
119 70 0.76
120 16 0.17
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCA
Found at i:63669682 original size:40 final size:40
Alignment explanation
Indices: 63669439--63669682 Score: 293
Period size: 40 Copynumber: 6.1 Consensus size: 40
63669429 CGGAATTTAA
** *
63669439 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
63669479 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
63669519 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
63669558 CCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
63669598 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
63669638 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
63669678 CCGGA
1 CCGGA
63669683 CATCATTCGA
Statistics
Matches: 182, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 34 0.19
40 135 0.74
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:63673485 original size:42 final size:41
Alignment explanation
Indices: 63673370--63673485 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 41
63673360 GGAAAGCTCG
* * * *
63673370 TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 TACAATGCCAATGTCCCAAACATGGTCTTACATGAAATCAA
* * *
63673411 TATCGATGCCACTGTCCCAAACA-GAGTTTTACATGAAATCAAA
1 TA-CAATGCCAATGTCCCAAACATG-GTCTTACATGAAATC-AA
*
63673454 TACAATGCCAATGTCCTAAACATGGTCTTACA
1 TACAATGCCAATGTCCCAAACATGGTCTTACA
63673486 CATAAATCTC
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
41 3 0.05
42 52 0.87
43 5 0.08
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (41 bp):
TACAATGCCAATGTCCCAAACATGGTCTTACATGAAATCAA
Found at i:63678690 original size:24 final size:24
Alignment explanation
Indices: 63678663--63678717 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
63678653 AGCTAGTTGA
63678663 ATTGTACAGTGCTGAGGTTGTTAG
1 ATTGTACAGTGCTGAGGTTGTTAG
63678687 ATTGTACAGTGCTGAGGTTGTTAG
1 ATTGTACAGTGCTGAGGTTGTTAG
63678711 ATTGTAC
1 ATTGTAC
63678718 GGAGTGCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.38
Consensus pattern (24 bp):
ATTGTACAGTGCTGAGGTTGTTAG
Found at i:63681780 original size:15 final size:17
Alignment explanation
Indices: 63681750--63681781 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
63681740 TTGATACTTG
63681750 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
63681767 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
63681782 AATAATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:63684635 original size:24 final size:24
Alignment explanation
Indices: 63684608--63684790 Score: 321
Period size: 24 Copynumber: 7.6 Consensus size: 24
63684598 CTTATTATGT
* * *
63684608 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
63684632 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
63684656 TCGCATACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
63684680 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
63684704 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
63684728 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
63684752 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
63684776 TCGCACACATAGTGC
1 TCGCACACATAGTGC
63684791 ATTTGAGATA
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 154 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:63708327 original size:33 final size:33
Alignment explanation
Indices: 63708285--63708351 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
63708275 AATTTCATAT
63708285 TCTGAGAGAAGCTCTGTTGTACGCAAGTAAAGA
1 TCTGAGAGAAGCTCTGTTGTACGCAAGTAAAGA
63708318 TCTGAGAGAAGCTCTGTTGTACGCAAGTAAAGA
1 TCTGAGAGAAGCTCTGTTGTACGCAAGTAAAGA
63708351 T
1 T
63708352 TAACTCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (33 bp):
TCTGAGAGAAGCTCTGTTGTACGCAAGTAAAGA
Found at i:63710116 original size:20 final size:20
Alignment explanation
Indices: 63710091--63710130 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
63710081 TGAAAAGATA
63710091 GTTATTACTAGTACTTTTGG
1 GTTATTACTAGTACTTTTGG
63710111 GTTATTACTAGTACTTTTGG
1 GTTATTACTAGTACTTTTGG
63710131 TTCCCTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (20 bp):
GTTATTACTAGTACTTTTGG
Found at i:63712055 original size:46 final size:46
Alignment explanation
Indices: 63711980--63712108 Score: 170
Period size: 46 Copynumber: 2.8 Consensus size: 46
63711970 ATGTAACCCC
* *
63711980 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* * * *
63712026 CCATGAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
63712072 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
63712109 TGCTCAACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 2 0.03
46 71 0.97
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:63712565 original size:30 final size:30
Alignment explanation
Indices: 63712531--63712590 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
63712521 ATTTAATACG
63712531 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
63712561 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
63712591 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:63714803 original size:46 final size:46
Alignment explanation
Indices: 63714753--63714928 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
63714743 TGGTTGAGCA
* * *
63714753 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
63714799 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* * *
63714846 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
63714892 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63714929 GTGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:63714909 original size:93 final size:93
Alignment explanation
Indices: 63714750--63714921 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
63714740 GGATGGTTGA
* * * * *
63714750 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
63714815 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
** *
63714843 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
*
63714908 TGAGTTCGAGTTCG
66 TGAGTCCGAGTTCG
63714922 CTTATGGGTG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:63729730 original size:4 final size:4
Alignment explanation
Indices: 63729695--63729761 Score: 80
Period size: 4 Copynumber: 16.8 Consensus size: 4
63729685 TCTAACTAAA
* * * * *
63729695 ACAC AAAC ACAA ACAC AAAC ACAA ACAA ACAC ACAC ACAC ACAC ACAC
1 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
*
63729743 ACAT ACAC ACAC ACAC ACA
1 ACAC ACAC ACAC ACAC ACA
63729762 AAAAAAAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.58, C:0.40, G:0.00, T:0.01
Consensus pattern (4 bp):
ACAC
Found at i:63729758 original size:6 final size:6
Alignment explanation
Indices: 63729695--63729761 Score: 80
Period size: 6 Copynumber: 11.2 Consensus size: 6
63729685 TCTAACTAAA
* * * * *
63729695 ACACAA ACACAA ACACAA ACACAA ACAAAC ACACAC ACACAC ACACAC
1 ACACAC ACACAC ACACAC ACACAC ACACAC ACACAC ACACAC ACACAC
*
63729743 ACATAC ACACAC ACACAC A
1 ACACAC ACACAC ACACAC A
63729762 AAAAAAAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.58, C:0.40, G:0.00, T:0.01
Consensus pattern (6 bp):
ACACAC
Found at i:63731509 original size:114 final size:114
Alignment explanation
Indices: 63731321--63731578 Score: 308
Period size: 114 Copynumber: 2.3 Consensus size: 114
63731311 GAGGAGCGAA
* *
63731321 GAAAGTGAAAGAATTCATG-C--TGATAATGATAGTAAGGATAGGCAGAGAGAAAAACGTCCTAG
1 GAAAGAGAAAGAATTCATGACGGTGATAATGATAGTAAGGATAGGCAGAGAGAAAAACGTCCAAG
* **
63731383 ATCCTCTGATGAAGAAGATGGCAAGCATTCCTATAGAGATAGAAGGGGT
66 ATCCTCTGATGAAGAAGATGACAAGCATTCCTATAGAGATAGAAGGCAT
* * * * **
63731432 GAAAGAGAGAGAATTCATGACGGTGATGATGATGGTAAGGATAGGCGGAGAGAAGAAGGGT-CAA
1 GAAAGAGAAAGAATTCATGACGGTGATAATGATAGTAAGGATAGGCAGAGAGAA-AAACGTCCAA
* * * *
63731496 GATCTTCTGATGAAGAAGATGACAAGCCTTCCTTTAGGGATAGAAGGCAT
65 GATCCTCTGATGAAGAAGATGACAAGCATTCCTATAGAGATAGAAGGCAT
* * * *
63731546 GAAAGAGATAGAATTCGTGAAGGTGAAAATGAT
1 GAAAGAGAAAGAATTCATGACGGTGATAATGAT
63731579 TCCAAGGCTA
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
111 17 0.14
112 1 0.01
114 101 0.82
115 4 0.03
ACGTcount: A:0.39, C:0.10, G:0.31, T:0.21
Consensus pattern (114 bp):
GAAAGAGAAAGAATTCATGACGGTGATAATGATAGTAAGGATAGGCAGAGAGAAAAACGTCCAAG
ATCCTCTGATGAAGAAGATGACAAGCATTCCTATAGAGATAGAAGGCAT
Found at i:63738855 original size:30 final size:29
Alignment explanation
Indices: 63738820--63738893 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
63738810 CTTCGAGCTC
* *
63738820 GCACACCCAGTGCCGTATTTTTTCCAGCAT
1 GCACACCCAGTGCCATA-TATTTCCAGCAT
**
63738850 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
63738879 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
63738894 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 26 0.65
30 14 0.35
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.28
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:63739979 original size:20 final size:20
Alignment explanation
Indices: 63739938--63739990 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
63739928 AATGAACACT
*
63739938 TTTTTTTTC-TTT-TCTTTG
1 TTTTTCTTCATTTCTCTTTG
63739956 TTTTTCTTCATATTCTCTTT-
1 TTTTTCTTCAT-TTCTCTTTG
*
63739976 TTTTTTTTCATTTCT
1 TTTTTCTTCATTTCT
63739991 TTATTCTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 12 0.40
21 5 0.17
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTCTTCATTTCTCTTTG
Found at i:63746479 original size:22 final size:21
Alignment explanation
Indices: 63746430--63746479 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
63746420 CGGCTTGTGG
* *
63746430 CACGGGCGTGTCCCAGGGTCA
1 CACGGGCATGTCCCAGGATCA
* *
63746451 CAAGGGCATGTCCCTTGGATCA
1 CACGGGCATGTCCC-AGGATCA
63746473 CACGGGC
1 CACGGGC
63746480 GTGTGAACCC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.18, C:0.32, G:0.34, T:0.16
Consensus pattern (21 bp):
CACGGGCATGTCCCAGGATCA
Found at i:63748162 original size:24 final size:23
Alignment explanation
Indices: 63748134--63748178 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
63748124 ACAGCTCTAC
*
63748134 ATGAGCGTCCTGATATAGGCTCTT
1 ATGAGCGTCCTGACAT-GGCTCTT
*
63748158 ATGAGCTTCCTGACATGGCTC
1 ATGAGCGTCCTGACATGGCTC
63748179 GCTTGCACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (23 bp):
ATGAGCGTCCTGACATGGCTCTT
Found at i:63753897 original size:5 final size:5
Alignment explanation
Indices: 63753887--63753955 Score: 59
Period size: 5 Copynumber: 12.8 Consensus size: 5
63753877 TTTTTCTCGT
**
63753887 TTTTC TTTTC TTTTC ATTTTC TTTTC TTTT- TTCAC ATTCATTC TTTTC
1 TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC -TT--TTC TTTTC
63753935 TTTTTC ATTTTC TTTTC TTTT
1 -TTTTC -TTTTC TTTTC TTTT
63753956 TTTCACATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
4 2 0.04
5 31 0.58
6 17 0.32
7 2 0.04
8 1 0.02
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:63753909 original size:39 final size:37
Alignment explanation
Indices: 63753877--63753978 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 37
63753867 TCTTGCATTC
* *
63753877 TTTTTCTCGTTTTTCTTTTCTTTTCATTTTCTTTTCT
1 TTTTTCACATTTTTCTTTTCTTTTCATTTTCTTTTCT
*
63753914 TTTTTCACATTCATTCTTTTCTTTTTCATTTTCTTTTCTT
1 TTTTTCACATT-TTTCTTTTC-TTTTCATTTTCTTTTC-T
63753954 TTTTTCACATTTATTCTTTT-TTTTC
1 TTTTTCACATTT-TTCTTTTCTTTTC
63753979 TCTCAATTGA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
37 9 0.16
38 13 0.23
39 16 0.28
40 19 0.33
ACGTcount: A:0.08, C:0.19, G:0.01, T:0.73
Consensus pattern (37 bp):
TTTTTCACATTTTTCTTTTCTTTTCATTTTCTTTTCT
Found at i:63753970 original size:40 final size:39
Alignment explanation
Indices: 63753889--63753977 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
63753879 TTTCTCGTTT
63753889 TTCTTTTC-TTTTCATTTTCTTTTCTTTTTTCACATTCA
1 TTCTTTTCTTTTTCATTTTCTTTTCTTTTTTCACATTCA
*
63753927 TTCTTTTCTTTTTCATTTTCTTTTCTTTTTTTCACATTTA
1 TTCTTTTCTTTTTCATTTTCTTTTC-TTTTTTCACATTCA
63753967 TTCTTTT-TTTT
1 TTCTTTTCTTTT
63753978 CTCTCAATTG
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
38 8 0.17
39 20 0.42
40 20 0.42
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (39 bp):
TTCTTTTCTTTTTCATTTTCTTTTCTTTTTTCACATTCA
Found at i:63753974 original size:19 final size:19
Alignment explanation
Indices: 63753913--63753978 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
63753903 TTTTCTTTTC
*
63753913 TTTTTTCACATTCATTCTTT
1 TTTTTTCACATTTATTC-TT
* * *
63753933 TCTTTTTCA-TTTTCTTTTCT
1 T-TTTTTCACATTTATTCT-T
63753953 TTTTTTCACATTTATTCTT
1 TTTTTTCACATTTATTCTT
63753972 TTTTTTC
1 TTTTTTC
63753979 TCTCAATTGA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
19 16 0.44
20 13 0.36
21 7 0.19
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTTCACATTTATTCTT
Found at i:63753976 original size:21 final size:21
Alignment explanation
Indices: 63753905--63753977 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
63753895 TCTTTTCATT
*
63753905 TTCTTTTCTTTTTTCACATTCA
1 TTCTTTT-TTTTTTCACATTTA
* * *
63753927 TTCTTTTCTTTTTCA-TTTTC
1 TTCTTTTTTTTTTCACATTTA
*
63753947 TT-TTCTTTTTTTCACATTTA
1 TTCTTTTTTTTTTCACATTTA
63753967 TTCTTTTTTTT
1 TTCTTTTTTTT
63753978 CTCTCAATTG
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
19 10 0.25
20 9 0.22
21 14 0.35
22 7 0.17
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.73
Consensus pattern (21 bp):
TTCTTTTTTTTTTCACATTTA
Found at i:63759526 original size:29 final size:29
Alignment explanation
Indices: 63759465--63759554 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
63759455 CACATACCTG
* *
63759465 TATATGGCCCACTAGGCCC-AATCATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
63759493 TATATGACCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * * *
63759522 TATATGGCTCATCAGACCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
63759551 TATA
1 TATA
63759555 GTCATGCTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 17 0.32
29 36 0.68
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:63767962 original size:43 final size:43
Alignment explanation
Indices: 63767880--63767962 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
63767870 TGAGGTATGT
* * *
63767880 AGCATCCAAGCTCGTTGAGAGGTCCGAGTTTATTATGGATGCG
1 AGCATCCAAGCTCATTGAGAGGTCCGAGTTCATGATGGATGCG
* * * *
63767923 AGCATCCGAGCTCATTGAGTGGTCTGAGTTCATGGTGGAT
1 AGCATCCAAGCTCATTGAGAGGTCCGAGTTCATGATGGAT
63767963 ACGATTTATG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (43 bp):
AGCATCCAAGCTCATTGAGAGGTCCGAGTTCATGATGGATGCG
Found at i:63769734 original size:21 final size:21
Alignment explanation
Indices: 63769710--63769750 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
63769700 AAAATATAAA
63769710 TTACAACTCATAAATATTTTT
1 TTACAACTCATAAATATTTTT
* * *
63769731 TTACAATTTATAATTATTTT
1 TTACAACTCATAAATATTTT
63769751 ATCAAATTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (21 bp):
TTACAACTCATAAATATTTTT
Found at i:63770444 original size:46 final size:48
Alignment explanation
Indices: 63770376--63770744 Score: 278
Period size: 46 Copynumber: 7.8 Consensus size: 48
63770366 CATAGGGTAT
*
63770376 AATGCCGATGCCATGTCCCAGACAT-GTTTTACACTAGCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTC
* * *
63770423 AATGCCGA-GCCATGTCCCAGACAT-GTTTTACACTAGCTATCGTCAC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTC
* * ** *
63770469 AATGCCGATGACATGTCCCAGACATGGTCTTACACT-GACTATCGAAGTT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCG-TCTC
* ** ** * *
63770518 AAGGTTGACACCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CGTCTC
** * * * *
63770568 CGTGCCGATGCCATGTCTCAGACATGGTCTTACACT-G-ACACATCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTC
* * * *
63770614 -GTAGCCGATG-CATGTTCCAGACAT-GTCTTACATTAGCTCTTGTCTC
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTC
* * * * * *
63770660 AATGTCGATGCCATGTCCCAGAAAAGGTCTTACACTGGCTCT--TATA
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTC
* *
63770706 ATATGGCCAATG-CATGTCCCAGACAT-GTCCTACACTAGC
1 A-AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
63770745 ACACACACAT
Statistics
Matches: 255, Mismatches: 52, Indels: 31
0.75 0.15 0.09
Matches are distributed among these distances:
44 9 0.04
45 15 0.06
46 81 0.32
47 50 0.20
48 35 0.14
49 34 0.13
50 30 0.12
51 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTC
Found at i:63773549 original size:42 final size:37
Alignment explanation
Indices: 63773469--63773545 Score: 138
Period size: 36 Copynumber: 2.1 Consensus size: 37
63773459 AGGCCTTGTA
63773469 ACTTGTCCCAATCTCGGGTACGGGTAAGGGGTGTTAC
1 ACTTGTCCCAATCTCGGGTACGGGTAAGGGGTGTTAC
*
63773506 ACTT-TCCCGATCTCGGGTACGGGTAAGGGGTGTTAC
1 ACTTGTCCCAATCTCGGGTACGGGTAAGGGGTGTTAC
63773542 ACTT
1 ACTT
63773546 ACACATGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 35 0.90
37 4 0.10
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (37 bp):
ACTTGTCCCAATCTCGGGTACGGGTAAGGGGTGTTAC
Found at i:63780058 original size:31 final size:31
Alignment explanation
Indices: 63780017--63780080 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
63780007 CCTTTTCATA
*
63780017 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
63780048 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
63780079 TT
1 TT
63780081 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:63780323 original size:24 final size:24
Alignment explanation
Indices: 63780272--63780412 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
63780262 GCTTTATCAT
*
63780272 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
63780297 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
63780321 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
63780344 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
63780367 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
63780390 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
63780413 GCACTTCCTC
Statistics
Matches: 106, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
22 12 0.11
23 40 0.38
24 42 0.40
25 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:63780347 original size:23 final size:23
Alignment explanation
Indices: 63780293--63780411 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
63780283 CCTAGCCTCT
*
63780293 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
63780316 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
63780340 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
63780362 TTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
63780386 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
63780409 TTT
1 TTT
63780412 TGCACTTCCT
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
22 12 0.13
23 43 0.48
24 34 0.38
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:63780363 original size:46 final size:47
Alignment explanation
Indices: 63780293--63780412 Score: 206
Period size: 46 Copynumber: 2.6 Consensus size: 47
63780283 CCTAGCCTCT
* *
63780293 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
*
63780340 TTTAATAACT-GGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
63780386 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
63780413 GCACTTCCTC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
46 43 0.62
47 26 0.38
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
Found at i:63780483 original size:9 final size:9
Alignment explanation
Indices: 63780469--63780525 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
63780459 ATCTCATGTG
63780469 CATATCATA
1 CATATCATA
*
63780478 CATATCATGTG
1 CATATCA--TA
63780489 CATATCATA
1 CATATCATA
* *
63780498 CATGTCATGTG
1 CATATCA--TA
63780509 CATATCATA
1 CATATCATA
63780518 CATATCAT
1 CATATCAT
63780526 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:63780485 original size:20 final size:20
Alignment explanation
Indices: 63780457--63780527 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
63780447 GCATTTATGA
*
63780457 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
63780477 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
63780497 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
63780517 ACATATCATGT
1 ACATATCATGT
63780528 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:63780492 original size:11 final size:11
Alignment explanation
Indices: 63780462--63780516 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
63780452 TATGAACATC
63780462 TCATGTGCATA
1 TCATGTGCATA
*
63780473 TCA--TACATA
1 TCATGTGCATA
63780482 TCATGTGCATA
1 TCATGTGCATA
* *
63780493 TCA--TACATG
1 TCATGTGCATA
63780502 TCATGTGCATA
1 TCATGTGCATA
63780513 TCAT
1 TCAT
63780517 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:63780610 original size:25 final size:25
Alignment explanation
Indices: 63780564--63780611 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
63780554 ATATATAAAC
* * * *
63780564 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
63780589 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
63780612 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:63781867 original size:27 final size:27
Alignment explanation
Indices: 63781847--63782266 Score: 503
Period size: 27 Copynumber: 15.6 Consensus size: 27
63781837 AGGGTATTTT
*
63781847 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63781874 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
63781901 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63781928 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63781955 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
63781982 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
63782009 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
63782036 AGTAATT-TGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
63782062 GGTAATTCTGTAAATCGA-GGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
63782088 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
63782115 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63782142 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
63782169 AATAATTCTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
63782196 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
63782223 GGTAATTCTATAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
63782250 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
63782267 GGAGTACTTT
Statistics
Matches: 347, Mismatches: 34, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
26 47 0.14
27 296 0.85
28 4 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:63785143 original size:31 final size:31
Alignment explanation
Indices: 63785102--63785165 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
63785092 CCTTTTCATA
*
63785102 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
63785133 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
63785164 TT
1 TT
63785166 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:63785407 original size:24 final size:24
Alignment explanation
Indices: 63785356--63785497 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
63785346 GCTTTATCAT
*
63785356 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
63785381 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
63785405 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
63785428 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
63785452 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
63785475 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
63785498 GCACTTCATC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 45 0.41
24 52 0.48
25 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:63785431 original size:23 final size:23
Alignment explanation
Indices: 63785377--63785496 Score: 204
Period size: 23 Copynumber: 5.1 Consensus size: 23
63785367 CCTAGCCTCT
*
63785377 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
63785400 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
63785424 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
63785447 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
63785471 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
63785494 TTT
1 TTT
63785497 TGCACTTCAT
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 48 0.52
24 44 0.48
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Done.