Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 206 of 770
Found at i:61653366 original size:15 final size:15
Alignment explanation
Indices: 61653340--61653395 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
61653330 CAAGGAAACC
61653340 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
61653355 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
61653370 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
61653385 GAATAAAGAAA
1 GAATAAAGAAA
61653396 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:61656421 original size:93 final size:93
Alignment explanation
Indices: 61656309--61656480 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
61656299 GCCCATAAGT
* *
61656309 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
61656374 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
*
61656402 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
61656467 CAAGTTCGGATGCC
66 CAAGCTCGGATGCC
61656481 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:61656473 original size:46 final size:46
Alignment explanation
Indices: 61656301--61656476 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
61656291 TGTAACCCGC
* *
61656301 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
61656347 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
61656393 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
61656440 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
61656477 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:61660711 original size:26 final size:24
Alignment explanation
Indices: 61660679--61660765 Score: 147
Period size: 24 Copynumber: 3.6 Consensus size: 24
61660669 CTTATTATGT
*
61660679 TCGCACACATAATGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
61660703 TCGCACACATAGTGCTACAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
61660727 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
61660751 TCGCACACATAGTGC
1 TCGCACACATAGTGC
61660766 ATTTGAGATT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:61662593 original size:40 final size:40
Alignment explanation
Indices: 61662548--61662715 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
61662538 CGGAATATAA
61662548 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
61662588 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
61662628 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
61662668 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
61662708 CCGGATAT
1 CCGGATAT
61662716 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:61662698 original size:80 final size:80
Alignment explanation
Indices: 61662564--61662713 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
61662554 ATAATCACGT
*
61662564 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
61662628 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
61662644 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
61662707 CCCGGAT
64 CCCGGAT
61662714 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:61670595 original size:40 final size:40
Alignment explanation
Indices: 61670550--61670716 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
61670540 CGGAATATAA
61670550 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
61670590 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
61670629 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
61670669 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
61670709 CCGGATAT
1 CCGGATAT
61670717 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.30
40 71 0.68
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:61670614 original size:39 final size:40
Alignment explanation
Indices: 61670566--61670675 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
61670556 ATAATCACGT
* *
61670566 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
61670605 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
61670645 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
61670676 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
Found at i:61676678 original size:22 final size:22
Alignment explanation
Indices: 61676650--61676725 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
61676640 GCATGCATAT
61676650 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
61676672 ATGTGATAAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
61676696 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
61676719 ATGTGAT
1 ATGTGAT
61676726 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:61676678 original size:47 final size:47
Alignment explanation
Indices: 61676625--61676810 Score: 300
Period size: 47 Copynumber: 4.0 Consensus size: 47
61676615 TTAGGATTCT
61676625 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
*
61676672 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
*
61676719 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* * ** * *
61676766 ATGTGGTGAATATGAAAATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGC
61676811 TAGTGTGAAA
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:61676774 original size:25 final size:25
Alignment explanation
Indices: 61676699--61676774 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
61676689 ATGCATATAT
61676699 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
61676724 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
61676746 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
61676771 GTGA
1 GTGA
61676775 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:61677077 original size:35 final size:36
Alignment explanation
Indices: 61676972--61677113 Score: 198
Period size: 36 Copynumber: 3.9 Consensus size: 36
61676962 GGAAATATAT
* * *
61676972 TCCGGGTGAGACCCGATGACTACGTGTGGACATTATG
1 TCCGGGTAAGACCCGATGACT-CGTGTGGAGATTTTG
*
61677009 TCCGGGT-AGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACT-CGTGTGGAGATTTTG
61677045 TCCGGGTAAGACCCGATGACT-GTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTCGTGTGGAGATTTTG
*
61677080 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGAC-TCGTGTGGAGATT
61677114 ACGTCCGAGC
Statistics
Matches: 97, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
35 33 0.34
36 34 0.35
37 30 0.31
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.27
Consensus pattern (36 bp):
TCCGGGTAAGACCCGATGACTCGTGTGGAGATTTTG
Found at i:61677120 original size:37 final size:37
Alignment explanation
Indices: 61676972--61677120 Score: 205
Period size: 37 Copynumber: 4.1 Consensus size: 37
61676962 GGAAATATAT
* *
61676972 TCCGGGTGAGACCCGATGACTACGTGTGGACATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
61677009 TCCGGGT-AGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
61677045 TCCGGGTAAGACCCGATGACT--GTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
61677080 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
61677117 TCCG
1 TCCG
61677121 AGCTAAAGGT
Statistics
Matches: 102, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
35 34 0.33
36 33 0.32
37 35 0.34
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:61678445 original size:40 final size:40
Alignment explanation
Indices: 61678401--61678701 Score: 353
Period size: 40 Copynumber: 7.6 Consensus size: 40
61678391 AGGCTAAATC
*
61678401 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTT
* *
61678441 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA-AT
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTT
* *
61678480 CCTAAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT
1 CC-GAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTT
* * *
61678521 ---AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATC
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTT
* *
61678558 CCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTT
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTT
**
61678598 CCGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAA-AC
1 CCGAAGAGCATTCGTGCTAGTGATATATCCG-GACTAAGTT
* * * * *
61678637 CCTGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTC
1 CC-GAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTT
* * *
61678678 CCGAAGAGCAATCATGCTGGTGAT
1 CCGAAGAGCATTCGTGCTAGTGAT
61678702 GTGTATTCGA
Statistics
Matches: 225, Mismatches: 27, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
37 33 0.15
39 6 0.03
40 181 0.80
41 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTT
Found at i:61678512 original size:80 final size:80
Alignment explanation
Indices: 61678392--61678701 Score: 466
Period size: 80 Copynumber: 3.9 Consensus size: 80
61678382 GAAATGTCCA
61678392 GGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTG
1 GGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTG
61678457 CTAGTGATATATCCG
66 CTAGTGATATATCCG
**
61678472 GGCTAAATCCTAAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTT---AAGAGCATTCGTG
1 GGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTG
61678534 CTAGTGATATATCCG
66 CTAGTGATATATCCG
*
61678549 GGCTAAATCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTG
1 GGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTG
61678614 CTAGTGATATATCCG
66 CTAGTGATATATCCG
* * * * * * * * *
61678629 TGCTAAA-CCCTGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCAT
1 GGCTAAATCCC-GAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGT
*
61678693 GCTGGTGAT
65 GCTAGTGAT
61678702 GTGTATTCGA
Statistics
Matches: 210, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
77 74 0.35
79 3 0.01
80 133 0.63
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
GGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTG
CTAGTGATATATCCG
Found at i:61682328 original size:37 final size:37
Alignment explanation
Indices: 61682274--61682392 Score: 202
Period size: 37 Copynumber: 3.2 Consensus size: 37
61682264 CCTAAAATTC
* *
61682274 TGGAGATTATGTTCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
61682311 TGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
* *
61682348 TGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTG
1 TGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
61682385 TGGAGATT
1 TGGAGATT
61682393 ACGTCCGAGC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 78 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (37 bp):
TGGAGATTTTGTCCGGGTAAGACCCGATGACTACGTG
Found at i:61686258 original size:40 final size:39
Alignment explanation
Indices: 61686093--61686276 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
61686083 GAAATTGATG
* * *
61686093 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
61686133 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
61686173 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
61686213 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
61686252 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
61686277 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:61686301 original size:80 final size:81
Alignment explanation
Indices: 61686133--61686321 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
61686123 GCTGGAAATT
* * * *
61686133 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
61686198 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
61686214 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
61686277 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
61686293 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
61686322 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:61688982 original size:39 final size:40
Alignment explanation
Indices: 61688818--61688980 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
61688808 TGAATGATAC
* * * *
61688818 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
61688858 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
61688898 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
61688938 CC-GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
61688977 CCGG
1 CCGG
61688981 TTGAATCCCG
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
39 34 0.34
40 61 0.61
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:61689286 original size:36 final size:36
Alignment explanation
Indices: 61689198--61689270 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
61689188 GTGAAGTAAG
61689198 TATGATTATGAGAATGTGTATTAATAAAGTGATTCA
1 TATGATTATGAGAATGTGTATTAATAAAGTGATTCA
61689234 TATGATTATGAGAATGTGTATTAATAAAGTGATTCA
1 TATGATTATGAGAATGTGTATTAATAAAGTGATTCA
61689270 T
1 T
61689271 TTAGTTATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (36 bp):
TATGATTATGAGAATGTGTATTAATAAAGTGATTCA
Found at i:61696385 original size:15 final size:15
Alignment explanation
Indices: 61696365--61696395 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61696355 GGGTTGGTGT
61696365 GCATGCATTCGGTTA
1 GCATGCATTCGGTTA
61696380 GCATGCATTCGGTTA
1 GCATGCATTCGGTTA
61696395 G
1 G
61696396 AGGCAAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (15 bp):
GCATGCATTCGGTTA
Found at i:61697032 original size:40 final size:40
Alignment explanation
Indices: 61696972--61697134 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
61696962 TGAATGATAC
* * *
61696972 CCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
61697011 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
61697051 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
61697091 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
61697131 CCGG
1 CCGG
61697135 TTGAATCCCG
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
39 13 0.13
40 84 0.82
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:61703843 original size:29 final size:29
Alignment explanation
Indices: 61703811--61703913 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
61703801 GTGATGAGAT
* * *
61703811 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
61703840 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * * *
61703869 TGGCACTATGTGTGTGGGCTT-GAATCACA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
61703898 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61703914 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 3 0.05
29 57 0.95
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:61706868 original size:18 final size:19
Alignment explanation
Indices: 61706845--61706880 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
61706835 TAAAAAAAAT
*
61706845 AAAAAGAGAAGAA-GACAA
1 AAAAAGAAAAGAATGACAA
61706863 AAAAAGAAAAGAATGACA
1 AAAAAGAAAAGAATGACA
61706881 GAATGAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.03
Consensus pattern (19 bp):
AAAAAGAAAAGAATGACAA
Found at i:61711449 original size:40 final size:39
Alignment explanation
Indices: 61711413--61711519 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
61711403 ATATCCGGAC
* *
61711413 TAAGATCCGAAGGCGTTCGTGCAAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
61711453 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
61711492 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
61711520 CTATAACCGG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 33 0.57
40 25 0.43
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:61711520 original size:40 final size:40
Alignment explanation
Indices: 61711419--61711545 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 40
61711409 GGACTAAGAT
* * * *
61711419 CCGAAGGCGTTCGTGCAAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
*
61711458 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
* *
61711498 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTC
61711538 CCGAAGGC
1 CCGAAGGC
61711546 CTTTGAGCGA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 33 0.42
40 36 0.46
41 9 0.12
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTC
Found at i:61715424 original size:21 final size:21
Alignment explanation
Indices: 61715400--61715460 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
61715390 TGGTTTTAGT
61715400 GTTTAGGATTTAGGGTTTAAA
1 GTTTAGGATTTAGGGTTTAAA
**
61715421 GTTTAGGA-TTAGTGG-TTGGA
1 GTTTAGGATTTAG-GGTTTAAA
* *
61715441 GTTTAGGGTTTAGAGTTTAA
1 GTTTAGGATTTAGGGTTTAA
61715461 GGTATAGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.43
Consensus pattern (21 bp):
GTTTAGGATTTAGGGTTTAAA
Found at i:61715446 original size:34 final size:34
Alignment explanation
Indices: 61715395--61715459 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
61715385 TTTTATGGTT
*
61715395 TTAGTGTTTAGGATTTAGGGTTTAAAGTTTAGGA
1 TTAGTGGTTAGGATTTAGGGTTTAAAGTTTAGGA
*
61715429 TTAGTGGTT-GGAGTTTAGGGTTTAGAGTTTA
1 TTAGTGGTTAGGA-TTTAGGGTTTAAAGTTTA
61715460 AGGTATAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 3 0.11
34 25 0.89
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (34 bp):
TTAGTGGTTAGGATTTAGGGTTTAAAGTTTAGGA
Found at i:61717460 original size:80 final size:80
Alignment explanation
Indices: 61717376--61717524 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
61717366 TATGGTAACC
* * * *
61717376 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
61717440 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
61717456 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
61717521 CCGG
66 CCGG
61717525 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:61717466 original size:40 final size:38
Alignment explanation
Indices: 61717417--61717524 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
61717407 ATCACGATTT
*
61717417 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
61717457 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
61717497 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
61717525 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:61722521 original size:9 final size:9
Alignment explanation
Indices: 61722507--61722655 Score: 208
Period size: 9 Copynumber: 16.6 Consensus size: 9
61722497 AAAATATAAC
61722507 CATAACTTA
1 CATAACTTA
61722516 CATAACTTA
1 CATAACTTA
*
61722525 CATAGCTTA
1 CATAACTTA
*
61722534 TATAACTTA
1 CATAACTTA
* *
61722543 TAAAACTTA
1 CATAACTTA
*
61722552 CATAGCTTA
1 CATAACTTA
61722561 CATAACTTA
1 CATAACTTA
61722570 CATAACTTA
1 CATAACTTA
*
61722579 TATAACTTA
1 CATAACTTA
61722588 CATAACTTA
1 CATAACTTA
*
61722597 TATAACTTA
1 CATAACTTA
*
61722606 CATAGCTTA
1 CATAACTTA
*
61722615 CATAACTTC
1 CATAACTTA
61722624 CATAACTTA
1 CATAACTTA
*
61722633 CATAGCTTA
1 CATAACTTA
61722642 CATAACTTA
1 CATAACTTA
61722651 CATAA
1 CATAA
61722656 ATATATATCA
Statistics
Matches: 122, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 122 1.00
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:61722549 original size:27 final size:27
Alignment explanation
Indices: 61722507--61722655 Score: 235
Period size: 27 Copynumber: 5.5 Consensus size: 27
61722497 AAAATATAAC
61722507 CATAACTTACATAACTTACATAGCTTA
1 CATAACTTACATAACTTACATAGCTTA
* * *
61722534 TATAACTTATAAAACTTACATAGCTTA
1 CATAACTTACATAACTTACATAGCTTA
* *
61722561 CATAACTTACATAACTTATATAACTTA
1 CATAACTTACATAACTTACATAGCTTA
*
61722588 CATAACTTATATAACTTACATAGCTTA
1 CATAACTTACATAACTTACATAGCTTA
*
61722615 CATAACTTCCATAACTTACATAGCTTA
1 CATAACTTACATAACTTACATAGCTTA
61722642 CATAACTTACATAA
1 CATAACTTACATAA
61722656 ATATATATCA
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (27 bp):
CATAACTTACATAACTTACATAGCTTA
Found at i:61722676 original size:31 final size:29
Alignment explanation
Indices: 61722633--61722691 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
61722623 CCATAACTTA
*
61722633 CATAGCTTACATAACTTACATAAATATATAT
1 CATAACTTACATAA--TACATAAATATATAT
61722664 CATAACTTACATAATACATAAATATATA
1 CATAACTTACATAATACATAAATATATA
61722692 CTTATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 14 0.52
31 13 0.48
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (29 bp):
CATAACTTACATAATACATAAATATATAT
Found at i:61726842 original size:24 final size:24
Alignment explanation
Indices: 61726807--61726885 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
61726797 CAATGCTGAC
*
61726807 ACCACCATAGTCACATGAAGATGT
1 ACCACCACAGTCACATGAAGATGT
* *
61726831 ACCACCACAGTCACATGATGTTGT
1 ACCACCACAGTCACATGAAGATGT
* * *
61726855 ACTACCACA-TCCACAAGAGGATGT
1 ACCACCACAGT-CACATGAAGATGT
61726879 ACCACCA
1 ACCACCA
61726886 TCGCCGAGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.19
Consensus pattern (24 bp):
ACCACCACAGTCACATGAAGATGT
Found at i:61734202 original size:26 final size:25
Alignment explanation
Indices: 61734150--61734203 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
61734140 TTTATCTTTA
*
61734150 TTTATCTTCTTTAAGTACTTTTTAT
1 TTTATCTTCTTTAAGTACTTTTCAT
*
61734175 TTTATTTTCATTTAA-TACTATTTCAT
1 TTTATCTTC-TTTAAGTACT-TTTCAT
61734201 TTT
1 TTT
61734204 TAGGTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.22, C:0.11, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTATCTTCTTTAAGTACTTTTCAT
Found at i:61738247 original size:21 final size:19
Alignment explanation
Indices: 61738222--61738260 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
61738212 CTACACTATC
61738222 CAGAGGGAGTTGAACTTGAGA
1 CAGA-GGAGTTGAA-TTGAGA
*
61738243 CAGAGGTGTTGAATTGAG
1 CAGAGGAGTTGAATTGAG
61738261 CTACTGAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.31, C:0.08, G:0.38, T:0.23
Consensus pattern (19 bp):
CAGAGGAGTTGAATTGAGA
Found at i:61740453 original size:53 final size:54
Alignment explanation
Indices: 61740258--61740452 Score: 198
Period size: 53 Copynumber: 3.6 Consensus size: 54
61740248 GATATTATGC
* * * *
61740258 AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGT
1 AAGACCATGCCAAGACATAGCATTGATAAGTTCTATAAGGCAAGGATACCATGT
* * * * *
61740312 AAGACCATGTCAAGACATGGTATTGATGAGTTACTATAAGGAAAAGG-T-CTCATGT
1 AAGACCATGCCAAGACATAGCATTGATAAGTT-CTATAAGG-CAAGGATAC-CATGT
* * *
61740367 AAGACCATGCCAAGGCATAGCATTGGTAAGTTC-ATAAGGCAAGGATACCACGT
1 AAGACCATGCCAAGACATAGCATTGATAAGTTCTATAAGGCAAGGATACCATGT
* * * *
61740420 AAAACCATGTCAAGACATAGCAATGGTAAGTTC
1 AAGACCATGCCAAGACATAGCATTGATAAGTTC
61740453 AAAAAGAAAA
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 4 0.03
53 40 0.34
54 30 0.26
55 39 0.33
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGACCATGCCAAGACATAGCATTGATAAGTTCTATAAGGCAAGGATACCATGT
Found at i:61740465 original size:108 final size:109
Alignment explanation
Indices: 61740258--61740463 Score: 272
Period size: 108 Copynumber: 1.9 Consensus size: 109
61740248 GATATTATGC
* * * *
61740258 AAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTC
1 AAGACCATGCCAAGGCATAGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAAACCATGTC
* * * * * * *
61740323 AAGACATGGTATTGATGAGTTACTATAAGGAAAAGGTCTCATGT
66 AAGACATAGCAATGATAAGTTACAAAAAGAAAAAGGTCTCATGT
* *
61740367 AAGACCATGCCAAGGCATAGCATTGGTAAGTTC-ATAAGGCAAGGATACCACGTAAAACCATGTC
1 AAGACCATGCCAAGGCATAGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAAACCATGTC
*
61740431 AAGACATAGCAATGGTAAGTT-CAAAAAGAAAAA
66 AAGACATAGCAATGATAAGTTACAAAAAGAAAAA
61740464 AGTTCCTGAG
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 9 0.11
108 43 0.52
109 31 0.37
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.21
Consensus pattern (109 bp):
AAGACCATGCCAAGGCATAGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAAACCATGTC
AAGACATAGCAATGATAAGTTACAAAAAGAAAAAGGTCTCATGT
Found at i:61746425 original size:47 final size:47
Alignment explanation
Indices: 61746311--61746534 Score: 299
Period size: 47 Copynumber: 4.7 Consensus size: 47
61746301 TTAGGATTTT
* * * *
61746311 ATGTGATGAATGTGAAGGTGTATATATATGATAAGGCCTAATGG-CG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* *
61746357 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
*
61746404 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA
*
61746453 ATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGACCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGG-CCGAATGGCCA
* * * *
61746500 ACGTGATGGATGTGGAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
61746535 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
46 45 0.28
47 71 0.44
48 2 0.01
49 44 0.27
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:61746482 original size:96 final size:95
Alignment explanation
Indices: 61746311--61746534 Score: 316
Period size: 96 Copynumber: 2.4 Consensus size: 95
61746301 TTAGGATTTT
* *
61746311 ATGTGATGAATGTGAAGGTGTATATATA--TGATAAGGCCTAATGGCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCAATGTGATGAATGTGAAA
* *
61746374 GTGTATATATGTGATAAGG-CCTAATGGCCG
66 GTGTATATATGTGAT-AGGACCGAATGGCCA
61746404 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGG-CAATGTGATGAATGTGAA
*
61746469 AGTGTATATATGTGATAGGACCGAGTGGCCA
65 AGTGTATATATGTGATAGGACCGAATGGCCA
* *
61746500 ACGTGATGGATGTGGAA-GTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGT-GAAGGTGTATATATATGTGATAAG
61746535 TCCCGAAGGG
Statistics
Matches: 119, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
93 28 0.24
94 10 0.08
95 19 0.16
96 59 0.50
97 3 0.03
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (95 bp):
ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCAATGTGATGAATGTGAAA
GTGTATATATGTGATAGGACCGAATGGCCA
Found at i:61750072 original size:15 final size:16
Alignment explanation
Indices: 61750052--61750085 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
61750042 CCCCCAAAAA
*
61750052 AAAATCCTGAAA-CCC
1 AAAATCCCGAAATCCC
61750067 AAAATCCCGAAATCCC
1 AAAATCCCGAAATCCC
61750083 AAA
1 AAA
61750086 TTTTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.50, C:0.32, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAATCCCGAAATCCC
Found at i:61751556 original size:29 final size:29
Alignment explanation
Indices: 61751449--61751556 Score: 135
Period size: 29 Copynumber: 3.7 Consensus size: 29
61751439 AGGTGATCTA
* * * *
61751449 GGCCTAATGGGCCATATAAAGGTGATTTG
1 GGCCTGATGGGCCATATGAATGTGAATTG
* * *
61751478 GGCCTAATAGGCCATATGAATATGAATTG
1 GGCCTGATGGGCCATATGAATGTGAATTG
*
61751507 GACCTGATGGGCCATATGAATGTGAATTG
1 GGCCTGATGGGCCATATGAATGTGAATTG
*
61751536 GGCTTGATGGGCCATATGAAT
1 GGCCTGATGGGCCATATGAAT
61751557 AGATGGGCCA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.28
Consensus pattern (29 bp):
GGCCTGATGGGCCATATGAATGTGAATTG
Found at i:61752394 original size:78 final size:80
Alignment explanation
Indices: 61752300--61752470 Score: 224
Period size: 78 Copynumber: 2.2 Consensus size: 80
61752290 GGACTAAGAT
* * * * *
61752300 CCGAAGGCGTTCGTGCGAGTTAATAAATCTGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTAATA
1 CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATA
61752364 -AATCT-GGGTTAAG-C
66 TAA-CTGGGGTT-AGTC
* *
61752378 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATA
*
61752443 TAACTGGGGTTTGTC
66 TAACTGGGGTTAGTC
61752458 CCGAAGGCATTTG
1 CCGAAGGCATTTG
61752471 AGCTAGTCGT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
78 33 0.41
79 27 0.33
80 21 0.26
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTAATAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATA
TAACTGGGGTTAGTC
Found at i:61752468 original size:40 final size:39
Alignment explanation
Indices: 61752300--61752439 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
61752290 GGACTAAGAT
*
61752300 CCGAAGGCGTTCGTGCGAGTTAATAAATCTGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCTGGGTTAAGC
*
61752339 CCGAAGGCATTTGTGCGAGTTAATAAATCTGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCTGGGTTAAGC
* * * *
61752378 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCTGGGTTAAG-C
61752418 CCGAAGGCATTCGTGCGAGTTA
1 CCGAAGGCATTCGTGCGAGTTA
61752440 CTATAACTGG
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 72 0.77
40 22 0.23
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCTGGGTTAAGC
Found at i:61752493 original size:79 final size:79
Alignment explanation
Indices: 61752330--61752478 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 79
61752320 TAATAAATCT
* *
61752330 GGGTTAAG-CCCGAAGGCATTTGTGCGAGTTAATAAATCTGGGTTAAGCCCGAAGGCATTTGTGC
1 GGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAATCTGGGTTAAGCCCGAAGGCATTTGAGC
*
61752394 GAGTTACTAAACCC
66 GAGTCACTAAACCC
* *
61752408 GGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA-CTGGGGTT-TGTCCCGAAGGCATTTG
1 GGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATA-AATCT-GGGTTAAG-CCCGAAGGCATTTG
*
61752471 AGCTAGTC
63 AGCGAGTC
61752479 GTTATATCCG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 8 0.13
79 27 0.44
80 26 0.43
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (79 bp):
GGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAATCTGGGTTAAGCCCGAAGGCATTTGAGC
GAGTCACTAAACCC
Found at i:61762623 original size:34 final size:33
Alignment explanation
Indices: 61762575--61762657 Score: 87
Period size: 34 Copynumber: 2.5 Consensus size: 33
61762565 TAAGCCCTTA
* * *
61762575 TCAGTAGCAATATCAGTGTGGGCTTTAGCCC-AT
1 TCAGTA-CAGTATCAGTGTAGGCCTTAGCCCAAT
* *
61762608 TACGGTAACAGTATCAATGTAGGCCTTAGCCCAAT
1 T-CAGT-ACAGTATCAGTGTAGGCCTTAGCCCAAT
61762643 TCAGTACAGTATCAG
1 TCAGTACAGTATCAG
61762658 AAATGCAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
33 10 0.25
34 26 0.65
35 4 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (33 bp):
TCAGTACAGTATCAGTGTAGGCCTTAGCCCAAT
Found at i:61772719 original size:16 final size:16
Alignment explanation
Indices: 61772698--61772728 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61772688 ACAAATCCTG
*
61772698 AAATGCTGAAAAGCTA
1 AAATGCCGAAAAGCTA
61772714 AAATGCCGAAAAGCT
1 AAATGCCGAAAAGCT
61772729 GAAAGTCTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (16 bp):
AAATGCCGAAAAGCTA
Found at i:61772990 original size:29 final size:29
Alignment explanation
Indices: 61772948--61773033 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
61772938 ACATGGCTTG
*
61772948 GAAT-TGATTCGGG-CTATATGGGCCATAT
1 GAATGTGATTTGGGCCTA-ATGGGCCATAT
*
61772976 GAATGTGATTTGGGCCGAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
* *
61773005 GAATGAGA-TTGGGCCTAGTGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
61773033 G
1 G
61773034 CATATATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
28 23 0.45
29 26 0.51
30 2 0.04
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAT
Found at i:61773026 original size:28 final size:29
Alignment explanation
Indices: 61772965--61773033 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
61772955 TTCGGGCTAT
*
61772965 ATGGGCCATATGAATGTGATTTGGGCCGA
1 ATGGGCCATATGAATGAGATTTGGGCCGA
*
61772994 ATGGGCCATATGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCGA
*
61773022 GTGGGCCATATG
1 ATGGGCCATATG
61773034 CATATATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.26
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCGA
Found at i:61773440 original size:27 final size:27
Alignment explanation
Indices: 61773407--61773516 Score: 105
Period size: 27 Copynumber: 4.1 Consensus size: 27
61773397 AAATAACCTC
61773407 AACTTGTAAAATTACCAAAATACCCCT
1 AACTTGTAAAATTACCAAAATACCCCT
* * *
61773434 AATTTGTGAAATTACTAAAATA-CCCT
1 AACTTGTAAAATTACCAAAATACCCCT
* * * * *
61773460 CGACTTGTACAATTATCGAAATACCCTT
1 -AACTTGTAAAATTACCAAAATACCCCT
* * *
61773488 GACTTGTAAAATTACCGAAATGCCCCT
1 AACTTGTAAAATTACCAAAATACCCCT
61773515 AA
1 AA
61773517 GGGTGAGAAT
Statistics
Matches: 65, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
26 4 0.06
27 58 0.89
28 3 0.05
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (27 bp):
AACTTGTAAAATTACCAAAATACCCCT
Found at i:61773500 original size:54 final size:53
Alignment explanation
Indices: 61773388--61773502 Score: 140
Period size: 54 Copynumber: 2.2 Consensus size: 53
61773378 CTTGGTTTAC
*
61773388 AAAATTACTAAATAACCTCAACTTGTAAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACTAAATAACCTCAACTTGTAAAATTACCAAAATACCCCTAACTTGT
* * * * * * * *
61773441 GAAATTACTAAAATACCCTCGACTTGTACAATTATCGAAATACCCTTGACTTGT
1 AAAATTACT-AAATAACCTCAACTTGTAAAATTACCAAAATACCCCTAACTTGT
61773495 AAAATTAC
1 AAAATTAC
61773503 CGAAATGCCC
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.16
54 43 0.84
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (53 bp):
AAAATTACTAAATAACCTCAACTTGTAAAATTACCAAAATACCCCTAACTTGT
Found at i:61783536 original size:21 final size:21
Alignment explanation
Indices: 61783507--61783556 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
61783497 GTGTTAGGTT
61783507 TCAGTTCTAACTATACTTGAC
1 TCAGTTCTAACTATACTTGAC
*
61783528 TCGGTTCTAACTATACTTGAC
1 TCAGTTCTAACTATACTTGAC
61783549 TCAGTTCT
1 TCAGTTCT
61783557 TGTTAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (21 bp):
TCAGTTCTAACTATACTTGAC
Found at i:61786603 original size:79 final size:81
Alignment explanation
Indices: 61786460--61786642 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
61786450 CACTCGTTCA
* *
61786460 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
* *
61786524 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
*
61786540 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTT-AGTCCG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-CG
* *
61786601 GATATGGTCACTTAGCAC
64 GATATAGTAACTTAGCAC
*
61786619 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
61786643 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
78 5 0.06
79 57 0.63
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
TATAGTAACTTAGCAC
Found at i:61786642 original size:40 final size:40
Alignment explanation
Indices: 61786439--61786642 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
61786429 CGGAGTTTAA
** ** *
61786439 CCGGATATAGCCACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61786479 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
61786519 TCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
61786558 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
61786598 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
61786638 CCGGA
1 CCGGA
61786643 CATCATTCGA
Statistics
Matches: 138, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 31 0.22
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:61793394 original size:20 final size:21
Alignment explanation
Indices: 61793369--61793408 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61793359 CTCTTGTAAC
61793369 AGGGC-ACACGCCCCTGTGGA
1 AGGGCAACACGCCCCTGTGGA
*
61793389 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCCTGTGG
61793409 TCATTACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.33, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCCTGTGGA
Found at i:61796630 original size:24 final size:24
Alignment explanation
Indices: 61796603--61796650 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
61796593 TACCATTAGG
61796603 TTTTCATGGACAAAAGTGGACATA
1 TTTTCATGGACAAAAGTGGACATA
61796627 TTTTCATGGACAAAAGTGGACATA
1 TTTTCATGGACAAAAGTGGACATA
61796651 CATAGGTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (24 bp):
TTTTCATGGACAAAAGTGGACATA
Found at i:61798671 original size:29 final size:28
Alignment explanation
Indices: 61798639--61798741 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
61798629 GTGACGAGAT
* *
61798639 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
61798668 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
61798697 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
61798726 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61798742 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:61809649 original size:48 final size:48
Alignment explanation
Indices: 61809539--61809658 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
61809529 CATTACACGC
* * * **
61809539 CATGTCCCAAATAGGTCTTATACTAGCTTCTATATCGTAAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTAAATATCGTAAGGCCGATG
*
61809587 CATGTCCCAGACATGTCTTACACTAGCTTAAATATC-TCAAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTAAATATCGT-AAGGCCGATG
*
61809635 CATGTCCCATACATGT-TATACACT
1 CATGTCCCAAACATGTCT-TACACT
61809659 GGCTCTCATA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
47 2 0.03
48 61 0.97
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (48 bp):
CATGTCCCAAACATGTCTTACACTAGCTTAAATATCGTAAGGCCGATG
Found at i:61825994 original size:57 final size:58
Alignment explanation
Indices: 61825861--61825997 Score: 161
Period size: 57 Copynumber: 2.4 Consensus size: 58
61825851 TGCAAACAGA
* * * * * * *
61825861 ATTTAGCCCGGACGGGTAATTCTAATGTAAGCCCTCTTGAGCTTATGTTATAGATTGG
1 ATTTAGCCCGGACGGGTAATCCAAATGTAAGCCCTCTAGAGCATATGCTACAGATAGG
* *
61825919 ATTTAGCCCGAACGGGTAATCCAAAT-TAAGCTCTCTAGAGCATATGCTACAGATAGG
1 ATTTAGCCCGGACGGGTAATCCAAATGTAAGCCCTCTAGAGCATATGCTACAGATAGG
*
61825976 ATTTAGCCTGGA-GTGGTAATCC
1 ATTTAGCCCGGACG-GGTAATCC
61825998 TGTTGTAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
56 1 0.01
57 43 0.64
58 23 0.34
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (58 bp):
ATTTAGCCCGGACGGGTAATCCAAATGTAAGCCCTCTAGAGCATATGCTACAGATAGG
Found at i:61835051 original size:38 final size:38
Alignment explanation
Indices: 61834953--61835071 Score: 114
Period size: 40 Copynumber: 3.0 Consensus size: 38
61834943 AAACCCGAAC
* * * *
61834953 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACTAAGCCTGCGGGA-TTT-AACCCAGAT
*
61834993 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCAGAT
1 ATAATACCAGCACTAAGCCTGCGGGATTTAACCCAGAT
* * *
61835031 ATAATTCTAGCA-TATAGCCTGCGGGTCTTTAAGCCCAGAT
1 ATAATACCAGCACTA-AGCCTGCGGG-ATTTAA-CCCAGAT
61835071 A
1 A
61835072 CACATCAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
37 2 0.03
38 27 0.40
39 8 0.12
40 30 0.45
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (38 bp):
ATAATACCAGCACTAAGCCTGCGGGATTTAACCCAGAT
Found at i:61846542 original size:30 final size:30
Alignment explanation
Indices: 61846508--61846573 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
61846498 TGGGCATGAG
61846508 CCGTGTGTCACACACGGCCTAGACACAAGC
1 CCGTGTGTCACACACGGCCTAGACACAAGC
61846538 CCGTGTGTCACACACGGCCTAGACACAAGC
1 CCGTGTGTCACACACGGCCTAGACACAAGC
61846568 CCGTGT
1 CCGTGT
61846574 ATCTTACCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.15
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCTAGACACAAGC
Found at i:61848189 original size:12 final size:12
Alignment explanation
Indices: 61848172--61848196 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61848162 TAAAAATGTA
61848172 AAAATCATCAAG
1 AAAATCATCAAG
61848184 AAAATCATCAAG
1 AAAATCATCAAG
61848196 A
1 A
61848197 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:61849657 original size:13 final size:13
Alignment explanation
Indices: 61849635--61849667 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
61849625 AAGGGTTTGT
61849635 TTAT-TAAACTAA
1 TTATCTAAACTAA
61849647 TTATCTAAACTAA
1 TTATCTAAACTAA
*
61849660 TTAACTAA
1 TTATCTAA
61849668 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:61852583 original size:11 final size:12
Alignment explanation
Indices: 61852554--61852596 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
61852544 AAAATAAAAT
*
61852554 AATAAAATTG-A
1 AATAAAAATGAA
*
61852565 AATGAAAATGAA
1 AATAAAAATGAA
*
61852577 AATAAAAATAAA
1 AATAAAAATGAA
61852589 AATAAAAA
1 AATAAAAA
61852597 AATAAGAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (12 bp):
AATAAAAATGAA
Found at i:61854673 original size:46 final size:47
Alignment explanation
Indices: 61854567--61854688 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
61854557 TGTCTTCGAC
** * *
61854567 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
61854617 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
61854663 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
61854689 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:61861513 original size:46 final size:47
Alignment explanation
Indices: 61861407--61861528 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
61861397 TGTCTTCGAC
** * *
61861407 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
61861457 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
61861503 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
61861529 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:61866967 original size:30 final size:30
Alignment explanation
Indices: 61866933--61866993 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
61866923 TCCTTAACTC
61866933 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
61866963 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
61866993 A
1 A
61866994 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:61870216 original size:40 final size:40
Alignment explanation
Indices: 61870171--61870300 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
61870161 CGGAATACAA
61870171 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
61870211 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
61870251 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
61870291 CCGGATATAA
1 CCGGATATAA
61870301 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:61870315 original size:40 final size:40
Alignment explanation
Indices: 61870171--61870334 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
61870161 CGGAATACAA
* **
61870171 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
61870211 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
61870251 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
61870291 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
61870331 CCGG
1 CCGG
61870335 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:61878269 original size:40 final size:40
Alignment explanation
Indices: 61878224--61878353 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
61878214 CGGAATACAA
61878224 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
61878264 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
61878304 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
61878344 CCGGATATAA
1 CCGGATATAA
61878354 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:61878368 original size:40 final size:40
Alignment explanation
Indices: 61878224--61878387 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
61878214 CGGAATACAA
* **
61878224 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
61878264 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
61878304 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
61878344 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
61878384 CCGG
1 CCGG
61878388 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:61887144 original size:28 final size:29
Alignment explanation
Indices: 61887112--61887210 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
61887102 ATAATAAGCC
*
61887112 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
61887140 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
61887168 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
61887197 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61887211 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:61895158 original size:28 final size:29
Alignment explanation
Indices: 61895126--61895224 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
61895116 ATAATAAGCC
*
61895126 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
61895154 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
61895182 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
61895211 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61895225 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:61897992 original size:25 final size:25
Alignment explanation
Indices: 61897960--61898025 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
61897950 TTTAATAACT
61897960 GGGGCAAAGCCC-TTTCTGATAAACA
1 GGGGCAAAGCCCTTTTC-GATAAACA
* *
61897985 GGGGCAAAGCCCTTTTCGGTAAACT
1 GGGGCAAAGCCCTTTTCGATAAACA
*
61898010 GGGGCATAGCCCTTTT
1 GGGGCAAAGCCCTTTT
61898026 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTCGATAAACA
Found at i:61898853 original size:27 final size:26
Alignment explanation
Indices: 61898818--61898895 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
61898808 GGGCATATTC
61898818 GTCATTTTACCATATAGGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* *
61898845 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTATAGGGG-TATTACG
*
61898872 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-TAGGGGTATT
61898896 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 5 0.12
27 34 0.81
28 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:61898983 original size:27 final size:27
Alignment explanation
Indices: 61898940--61899021 Score: 87
Period size: 29 Copynumber: 3.0 Consensus size: 27
61898930 ATCTACAAAT
*
61898940 CAAGGGTATTTCAATAATTTTGT-AAA
1 CAAGGGTATTTCTATAATTTTGTAAAA
*
61898966 CAAATGGTATTTCTATAATTTT-TAGAAA
1 C-AAGGGTATTTCTATAATTTTGTA-AAA
*
61898994 GTCAAGGGTATTTCTGTAATTTTGTAAA
1 --CAAGGGTATTTCTATAATTTTGTAAA
61899022 TTAGAGGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 2 0.04
27 18 0.39
28 3 0.07
29 20 0.43
30 3 0.07
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTCTATAATTTTGTAAAA
Found at i:61899007 original size:29 final size:28
Alignment explanation
Indices: 61898936--61899022 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 28
61898926 GTAAATCTAC
*
61898936 AAATCAAGGGTATTTCAATAA-TTTTGT
1 AAATCAAGGGTATTTCTATAATTTTTGT
*
61898963 AAA-CAAATGGTATTTCTATAATTTTTAG-
1 AAATC-AAGGGTATTTCTATAATTTTT-GT
*
61898991 AAAGTCAAGGGTATTTCTGTAA-TTTTGT
1 AAA-TCAAGGGTATTTCTATAATTTTTGT
61899019 AAAT
1 AAAT
61899023 TAGAGGTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
26 1 0.02
27 19 0.38
28 14 0.28
29 15 0.30
30 1 0.02
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (28 bp):
AAATCAAGGGTATTTCTATAATTTTTGT
Found at i:61899041 original size:56 final size:54
Alignment explanation
Indices: 61898936--61899097 Score: 148
Period size: 54 Copynumber: 2.9 Consensus size: 54
61898926 GTAAATCTAC
* * *
61898936 AAATCAAGGGTATTTCAATAATTTTGTAAACAAATGGTATTTCT-ATAATTTTTAG
1 AAATCAAGGGTATTTCAGTAATTTTGTAAACAGA-GGTATTT-TGGTAATTTTTAG
* * *
61898991 AAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAGAGGTATTTTGGTAA-TTTTAT
1 AAA-TCAAGGGTATTTCAGTAATTTTGTAAA-CAGAGGTATTTTGGTAATTTTTAG
** * *** *
61899046 AAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTT
1 AAATCAAGGGTATTTCAGTAATTTTGTAAA-CAGAGGTATTTTGGTAATTTT
61899098 ACAAACTAGG
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
54 36 0.41
55 15 0.17
56 35 0.40
57 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (54 bp):
AAATCAAGGGTATTTCAGTAATTTTGTAAACAGAGGTATTTTGGTAATTTTTAG
Found at i:61899121 original size:26 final size:27
Alignment explanation
Indices: 61898999--61899121 Score: 117
Period size: 27 Copynumber: 4.6 Consensus size: 27
61898989 AGAAAGTCAA
** *
61898999 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
* * *
61899026 AGGTATTTTGGTAATTTTATAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
61899052 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
61899080 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
61899107 GGGT-TTTTGGTAATT
1 GGGTATTTTGGTAATT
61899122 CTATCCTACA
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
26 14 0.18
27 64 0.81
28 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:61899172 original size:26 final size:26
Alignment explanation
Indices: 61899143--61899217 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
61899133 GGGTATTTCA
61899143 GTAATTT-CACAATCGAGGGTAAAACG
1 GTAATTTGCA-AATCGAGGGTAAAACG
*
61899169 GTAACTTTGTAAATCGAGGGTAAAACG
1 GTAA-TTTGCAAATCGAGGGTAAAACG
* **
61899196 ATAATTCTATAAATCGAGGGTA
1 GTAATT-TGCAAATCGAGGGTA
61899218 CTTTGGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.14
27 36 0.84
28 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.27
Consensus pattern (26 bp):
GTAATTTGCAAATCGAGGGTAAAACG
Found at i:61899183 original size:27 final size:27
Alignment explanation
Indices: 61899153--61899217 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
61899143 GTAATTTCAC
* *
61899153 AATCGAGGGTAAAACGGTAACTT-TGTA
1 AATCGAGGGTAAAACGATAA-TTCTATA
61899180 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTATA
61899207 AATCGAGGGTA
1 AATCGAGGGTA
61899218 CTTTGGTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.25
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTATA
Found at i:61901435 original size:28 final size:29
Alignment explanation
Indices: 61901298--61901437 Score: 110
Period size: 29 Copynumber: 4.9 Consensus size: 29
61901288 ATACAAATGT
* * *
61901298 CCCACTAGGCCC-AATCTCATTAATATGG
1 CCCATTAGGCCCAAATCACATTCATATGG
* * ***
61901326 CCCATCCA-GCCCAATTCGTGTTCATATGG
1 CCCAT-TAGGCCCAAATCACATTCATATGG
* *
61901355 CCCATTAGACCCAATTCACATTCATATGG
1 CCCATTAGGCCCAAATCACATTCATATGG
* * *
61901384 CCCATTAGGCCC-AGTCTCATTTATATGG
1 CCCATTAGGCCCAAATCACATTCATATGG
61901412 CCCATCT-GGCCCAAATCACATT-ATAT
1 CCCAT-TAGGCCCAAATCACATTCATAT
61901438 TCATGCTCAC
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
28 36 0.40
29 53 0.60
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
CCCATTAGGCCCAAATCACATTCATATGG
Found at i:61901654 original size:16 final size:16
Alignment explanation
Indices: 61901633--61901683 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
61901623 GTAGCCAAAC
61901633 TTTTGACTTTTCGGCA
1 TTTTGACTTTTCGGCA
**
61901649 TTTTGACTTTTCAACA
1 TTTTGACTTTTCGGCA
* *
61901665 TTTTGGCTTTTCGGGA
1 TTTTGACTTTTCGGCA
61901681 TTT
1 TTT
61901684 ACCGATCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.14, C:0.16, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTTGACTTTTCGGCA
Found at i:61909087 original size:22 final size:22
Alignment explanation
Indices: 61909060--61909137 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 22
61909050 TTAGTACTAC
61909060 ACACGTGACCTAATTATCTGAT
1 ACACGTGACCTAATTATCTGAT
* *
61909082 ACACGTAGTAGCCTGCACTTAGTACT-AC
1 ACACGT-G-A-CCT--AATTA-T-CTGAT
61909110 ACACGTGACCTAATTATCTGAT
1 ACACGTGACCTAATTATCTGAT
61909132 ACACGT
1 ACACGT
61909138 AGTAGCCTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.05
22 14 0.32
23 5 0.11
24 1 0.02
25 6 0.14
26 1 0.02
27 5 0.11
28 8 0.18
29 2 0.05
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (22 bp):
ACACGTGACCTAATTATCTGAT
Found at i:61909135 original size:24 final size:24
Alignment explanation
Indices: 61909057--61909135 Score: 58
Period size: 24 Copynumber: 3.2 Consensus size: 24
61909047 CACTTAGTAC
61909057 TACACACGTGACCTAATTATCTGA
1 TACACACGTGACCTAATTATCTGA
* *
61909081 T--ACACGTAGTAGCCTGCACTTA-GT-A
1 TACACACGT-G-A-CCT--AATTATCTGA
61909106 CTACACACGTGACCTAATTATCTGA
1 -TACACACGTGACCTAATTATCTGA
61909131 TACAC
1 TACAC
61909136 GTAGTAGCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 20
0.63 0.06 0.31
Matches are distributed among these distances:
22 6 0.15
23 5 0.12
24 8 0.20
25 8 0.20
26 3 0.07
27 5 0.12
28 6 0.15
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.28
Consensus pattern (24 bp):
TACACACGTGACCTAATTATCTGA
Found at i:61909199 original size:51 final size:50
Alignment explanation
Indices: 61908975--61909264 Score: 348
Period size: 50 Copynumber: 5.8 Consensus size: 50
61908965 GTAGCCAAAC
* * *
61908975 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAAT
* * *
61909024 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAAT
* * *
61909074 TATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAAT
* * *
61909124 TATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-T
* *** * *
61909175 TATCGGGTGTGCATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-T
* ** * *
61909226 TATCAGGTATGCATAGTACCCTGCAATTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
61909265 TGCAACCTAG
Statistics
Matches: 218, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
49 41 0.19
50 98 0.45
51 79 0.36
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAAT
Found at i:61911585 original size:2 final size:2
Alignment explanation
Indices: 61911578--61911603 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61911568 ATTCAATCAA
61911578 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
61911604 TTTAAACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61912935 original size:29 final size:27
Alignment explanation
Indices: 61912893--61912977 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 27
61912883 GGCCCATCTG
*
61912893 GCCTGTTAGGCCCAATTCACATTCATATT
1 GCCTATTAGGCCCAA-TCACATT-ATATT
* *
61912922 GCCTATTAGGCCCAATCTCATTTATATG
1 GCCTATTAGGCCCAATCACA-TTATATT
*
61912950 GCCCATCT-GGCCCAAATCACATTATATT
1 GCCTAT-TAGGCCC-AATCACATTATATT
61912978 CATGCTCACA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
28 24 0.51
29 23 0.49
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (27 bp):
GCCTATTAGGCCCAATCACATTATATT
Found at i:61920406 original size:29 final size:29
Alignment explanation
Indices: 61920345--61920443 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
61920335 ACAGTAAGTC
*
61920345 CGCACACTTAGTGCT-TA-ATATTCACACT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
61920373 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
61920402 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
61920430 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61920444 CAATCTCATT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
28 34 0.50
29 33 0.49
30 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:61920881 original size:23 final size:23
Alignment explanation
Indices: 61920854--61920901 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
61920844 TAATAACCAT
61920854 ATGCTATCGCCCTACTATCAATA
1 ATGCTATCGCCCTACTATCAATA
61920877 ATGCTATCGCCCTACTATCAATA
1 ATGCTATCGCCCTACTATCAATA
61920900 AT
1 AT
61920902 TCAATCACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.31
Consensus pattern (23 bp):
ATGCTATCGCCCTACTATCAATA
Found at i:61924476 original size:47 final size:45
Alignment explanation
Indices: 61924285--61924491 Score: 163
Period size: 46 Copynumber: 4.5 Consensus size: 45
61924275 TGTGAGAGCT
* * * *
61924285 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGT-GCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TCGAGA-TA-TAGCC
*
61924333 AGTGTAAGA-CATGTCTAGGACATGCATCGACCTCGAGACGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGA-CTCGAGA--TATAGCC
* * * *
61924379 AGTGTAAGA-CATGTTTGGGACATGCTTCGGCTACG-GATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGACT-CGAGAT-ATAGCC
* * *
61924424 AGTGTAAGACCATGTTTGGGACATGGCTTCGACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACTCGAGATAT-AGCC
*
61924471 AGTGTAAGACCGTGTCTGGGA
1 AGTGTAAGACCATGTCTGGGA
61924492 TACGGCATCG
Statistics
Matches: 133, Mismatches: 16, Indels: 21
0.78 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 16 0.12
46 58 0.44
47 48 0.36
48 9 0.07
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGATATAGCC
Found at i:61925490 original size:22 final size:21
Alignment explanation
Indices: 61925465--61925505 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
61925455 TTAGAATGGT
*
61925465 CACATGGGCATGTTGCCCCTCC
1 CACACGGGCATG-TGCCCCTCC
*
61925487 CACACGGGCGTGTGCCCCT
1 CACACGGGCATGTGCCCCT
61925506 GTGTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.12, C:0.41, G:0.27, T:0.20
Consensus pattern (21 bp):
CACACGGGCATGTGCCCCTCC
Found at i:61926803 original size:39 final size:39
Alignment explanation
Indices: 61926759--61926836 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
61926749 TCACAATTTG
61926759 AGTTGGAATTATTTTGTTGTTTTATTTAATGATATTTCA
1 AGTTGGAATTATTTTGTTGTTTTATTTAATGATATTTCA
61926798 AGTTGGAATTATTTTGTTGTTTTATTTAATGATATTTCA
1 AGTTGGAATTATTTTGTTGTTTTATTTAATGATATTTCA
61926837 CTCTTTATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (39 bp):
AGTTGGAATTATTTTGTTGTTTTATTTAATGATATTTCA
Found at i:61928694 original size:28 final size:28
Alignment explanation
Indices: 61928633--61928730 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
61928623 TCACAAATTG
** * *
61928633 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
61928662 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
61928690 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
61928718 GCACTAAGTGTGC
1 GCACTAAGTGTGC
61928731 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:61930638 original size:85 final size:85
Alignment explanation
Indices: 61930495--61930665 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
61930485 TGGCATTTTG
61930495 ACTTTTAACACATATGGATCACTTTTACACTTATGCATGTAAACATGCTCTCATAATCACATATC
1 ACTTTTAACACATATGGATCACTTTTACACTTATGCATGTAAACATGCTCTCATAATCACATATC
61930560 ACATAATAACCACTTTTAAC
66 ACATAATAACCACTTTTAAC
61930580 ACTTTTAACACATATGGATCACTTTTACACTTATGCATGTAAACATGCTCTCATAATCACATATC
1 ACTTTTAACACATATGGATCACTTTTACACTTATGCATGTAAACATGCTCTCATAATCACATATC
61930645 ACATAATAACCACTTTTAAC
66 ACATAATAACCACTTTTAAC
61930665 A
1 A
61930666 TGTTAAAAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (85 bp):
ACTTTTAACACATATGGATCACTTTTACACTTATGCATGTAAACATGCTCTCATAATCACATATC
ACATAATAACCACTTTTAAC
Found at i:61930725 original size:2 final size:2
Alignment explanation
Indices: 61930720--61930744 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61930710 ATACACACAC
61930720 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
61930745 AGTCACACAT
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:61931290 original size:7 final size:7
Alignment explanation
Indices: 61931278--61931309 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
61931268 TATTAGTACG
61931278 ATAATAA
1 ATAATAA
61931285 ATAATAA
1 ATAATAA
61931292 ATAATAA
1 ATAATAA
61931299 ATAATAA
1 ATAATAA
61931306 ATAA
1 ATAA
61931310 AATATTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAA
Found at i:61938812 original size:20 final size:20
Alignment explanation
Indices: 61938787--61938832 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
61938777 TTGTACGGGA
* * *
61938787 TTTGCACTTCGGTTCCTCTG
1 TTTGCACTACGGTGCCCCTG
61938807 TTTGCACTACGGTGCCCCTG
1 TTTGCACTACGGTGCCCCTG
61938827 TTTGCA
1 TTTGCA
61938833 GTTCAGTGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.09, C:0.30, G:0.22, T:0.39
Consensus pattern (20 bp):
TTTGCACTACGGTGCCCCTG
Found at i:61939235 original size:2 final size:2
Alignment explanation
Indices: 61939228--61939254 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
61939218 TTCTAGGATG
61939228 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 A
61939255 ATTTTGAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61940147 original size:16 final size:15
Alignment explanation
Indices: 61940126--61940157 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
61940116 CAATCTTTGC
61940126 ACAAAATCATGCATCA
1 ACAAAATCATGC-TCA
61940142 ACAAAATCATGCTCA
1 ACAAAATCATGCTCA
61940157 A
1 A
61940158 AAATACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (15 bp):
ACAAAATCATGCTCA
Found at i:61949785 original size:46 final size:46
Alignment explanation
Indices: 61949677--61949990 Score: 232
Period size: 46 Copynumber: 6.7 Consensus size: 46
61949667 GGTAGGATGA
* *
61949677 CGATGCCATGTCCCAGACGTGGTCTTACACTAG--CTCATC-CTGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTC-G-AGGC
* *
61949723 TGATGAATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGC
* * * * * *
61949769 CGATGCATGTCGCAGACATGTCTTACACTAGCTCTCGTCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC
* *
61949815 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGC
* * * * * * *
61949863 TGATGCTTGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC
* * *
61949909 C-ATTGCCATGTCACAAACATGGTCTTACACTGGCTCTCATAAT-GTA-GC
1 CGA-TG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCG-AGGC
* *
61949957 CGATGCTTGTCCCAGACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTC
61949991 ACAATAACCC
Statistics
Matches: 210, Mismatches: 42, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
44 11 0.05
45 16 0.08
46 87 0.41
47 48 0.23
48 44 0.21
49 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGC
Found at i:61949868 original size:94 final size:93
Alignment explanation
Indices: 61949729--61949990 Score: 370
Period size: 94 Copynumber: 2.8 Consensus size: 93
61949719 TAGCTGATGA
* * *
61949729 ATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCGCAGACATGTC
1 ATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCTTGTC-CAGACATGTC
*
61949791 TTACACTAGCTCTCGTCTCAATGTCGA-TGCC
63 TTACACTAGCTCTCGTCTCAATG-CCATTGCC
*
61949822 ATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCTTGTCCTAGACATGTCTT
1 ATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCTTGTCC-AGACATGTCTT
61949887 ACACTAGCTCTCGTCTCAATGCCATTGCC
65 ACACTAGCTCTCGTCTCAATGCCATTGCC
* * *
61949916 ATGTCACAAACATGGTCTTACACTGGCTCTCATAATGTAGCCGATGCTTGTCCCAGACATGTCTT
1 ATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCTTGT-CCAGACATGTCTT
61949981 ACACTAGCTC
65 ACACTAGCTC
61949991 ACAATAACCC
Statistics
Matches: 154, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
93 16 0.10
94 134 0.87
95 4 0.03
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (93 bp):
ATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCTTGTCCAGACATGTCTTA
CACTAGCTCTCGTCTCAATGCCATTGCC
Found at i:61952693 original size:34 final size:34
Alignment explanation
Indices: 61952645--61952723 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
61952635 TGCATACTGT
* *
61952645 ACTGATACTGTTACTAAAATGGGCTCAGGCCCAG
1 ACTGATACTGTTACTAAAATGAGCTAAGGCCCAG
* *
61952679 ACTGCTACTGTTACTGAAATGAGCTAAGGCCCTA-
1 ACTGATACTGTTACTAAAATGAGCTAAGGCCC-AG
*
61952713 ACTGAGACTGT
1 ACTGATACTGT
61952724 AAGGGCTTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 37 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (34 bp):
ACTGATACTGTTACTAAAATGAGCTAAGGCCCAG
Found at i:61954588 original size:16 final size:16
Alignment explanation
Indices: 61954567--61954600 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
61954557 GGTAGAGGTA
61954567 TTGGAAGATCCAGTTC
1 TTGGAAGATCCAGTTC
*
61954583 TTGGAAGATCTAGTTC
1 TTGGAAGATCCAGTTC
61954599 TT
1 TT
61954601 TTGCAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (16 bp):
TTGGAAGATCCAGTTC
Found at i:61956826 original size:29 final size:28
Alignment explanation
Indices: 61956784--61956838 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
61956774 AGATAAACCA
*
61956784 ATTTGGCTTCGGGCCATGCATATCAGTTG
1 ATTTGGATTCGGGCCATG-ATATCAGTTG
*
61956813 ATTTGGATTTGGGCCATGATATCAGT
1 ATTTGGATTCGGGCCATGATATCAGT
61956839 ATTTTGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (28 bp):
ATTTGGATTCGGGCCATGATATCAGTTG
Found at i:61962458 original size:29 final size:28
Alignment explanation
Indices: 61962412--61962471 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
61962402 TTTTCATTTA
*
61962412 TTTCACATTTCAACCCCTCAATTTACATT
1 TTTCACATTTCAACCCCT-AATATACATT
* *
61962441 TTTCACAATTT-AATCCCTAATATGCATT
1 TTTCAC-ATTTCAACCCCTAATATACATT
61962469 TTT
1 TTT
61962472 ACTCAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.41
29 12 0.44
30 4 0.15
ACGTcount: A:0.28, C:0.25, G:0.02, T:0.45
Consensus pattern (28 bp):
TTTCACATTTCAACCCCTAATATACATT
Found at i:61968025 original size:12 final size:12
Alignment explanation
Indices: 61968008--61968032 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61967998 TTATTAAATG
61968008 AATTAAAAGCCA
1 AATTAAAAGCCA
61968020 AATTAAAAGCCA
1 AATTAAAAGCCA
61968032 A
1 A
61968033 TTTTTGTCCA
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:61973341 original size:25 final size:25
Alignment explanation
Indices: 61973304--61973351 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
61973294 AATAATTTAT
*
61973304 ATTTTTATAATTTTTAAA-AGATTAA
1 ATTTTTACAA-TTTTAAAGAGATTAA
*
61973329 ATTTTTACCATTTTAAAGAGATT
1 ATTTTTACAATTTTAAAGAGATT
61973352 GAGACCTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (25 bp):
ATTTTTACAATTTTAAAGAGATTAA
Found at i:61974763 original size:18 final size:18
Alignment explanation
Indices: 61974740--61974776 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
61974730 ACAAGTTCAG
*
61974740 ATTGCTGTGAACTAAGTT
1 ATTGCTGTCAACTAAGTT
61974758 ATTGCTGTCAACTAAGTT
1 ATTGCTGTCAACTAAGTT
61974776 A
1 A
61974777 AATTTCCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (18 bp):
ATTGCTGTCAACTAAGTT
Found at i:61976022 original size:17 final size:18
Alignment explanation
Indices: 61976000--61976038 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
61975990 CTTCATGCTA
61976000 TTTATTTTTTAAA-ATTT
1 TTTATTTTTTAAATATTT
61976017 TTTA-TTTTTAAATATTT
1 TTTATTTTTTAAATATTT
61976034 TTTAT
1 TTTAT
61976039 AATTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTTTAAATATTT
Found at i:61977035 original size:14 final size:17
Alignment explanation
Indices: 61977003--61977040 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
61976993 GATTATAAAG
61977003 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
61977020 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
61977034 TATATTA
1 TATATTA
61977041 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:61978192 original size:22 final size:22
Alignment explanation
Indices: 61978151--61978192 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
61978141 ATATTTGAGC
*
61978151 ATTGGTATTGAATTTAAATTGA
1 ATTGGTATTGAATTCAAATTGA
* *
61978173 ATTGGTATTTAATTCGAATT
1 ATTGGTATTGAATTCAAATT
61978193 TTAATTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (22 bp):
ATTGGTATTGAATTCAAATTGA
Found at i:61978786 original size:18 final size:19
Alignment explanation
Indices: 61978765--61978816 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
61978755 TGCCTGAACA
*
61978765 ACTGATTGCTATTGAAA-G
1 ACTGATTGCTACTGAAATG
*
61978783 ACTGATTGTTACT-AAATG
1 ACTGATTGCTACTGAAATG
61978801 ACTGATTGCTACTGAA
1 ACTGATTGCTACTGAA
61978817 TAACACTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 3 0.10
18 24 0.83
19 2 0.07
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
ACTGATTGCTACTGAAATG
Found at i:61989741 original size:22 final size:23
Alignment explanation
Indices: 61989702--61989744 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
61989692 AAGATCCTAC
*
61989702 CCATCCATCCTCTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
61989725 CCATCCAGCC-CTACACTCCA
1 CCATCCAGCCTCTACACTCCA
61989745 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.53, G:0.02, T:0.21
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:61995480 original size:27 final size:26
Alignment explanation
Indices: 61995404--61995493 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 26
61995394 GGTATTTTAG
* *
61995404 TAATTTTACACGACAAGGGTATTTCGA
1 TAATTTTACA-AACTAGGGTATTTCGA
*
61995431 TAATTTTACAAA-TCGGGGCTATTTCGA
1 TAATTTTACAAACT-AGGG-TATTTCGA
*
61995458 TAATTTTACAAACTAGGGTTATTT-GG
1 TAATTTTACAAACTAGGG-TATTTCGA
61995484 TAATTTTACA
1 TAATTTTACA
61995494 TACCGGGGTC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
26 15 0.28
27 38 0.70
28 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (26 bp):
TAATTTTACAAACTAGGGTATTTCGA
Found at i:61995501 original size:53 final size:53
Alignment explanation
Indices: 61995379--61995502 Score: 128
Period size: 53 Copynumber: 2.3 Consensus size: 53
61995369 CAAAACAGTT
* * *
61995379 ATTTTACCATACAGGGGTATTTTAGTAATTTTACACGACAAGGGTATTTCGATA
1 ATTTTA-CATACCGGGGTATTTGAGTAATTTTACACAACAAGGGTATTTCGATA
* * * *
61995433 ATTTTACAAATCGGGGCTATTTCGA-TAATTTTACA-AACTAGGGTTATTT-GGTA
1 ATTTTACATACCGGGG-TATTT-GAGTAATTTTACACAACAAGGG-TATTTCGATA
61995486 ATTTTACATACCGGGGT
1 ATTTTACATACCGGGGT
61995503 CTGAACTACC
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
52 1 0.02
53 30 0.52
54 26 0.45
55 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (53 bp):
ATTTTACATACCGGGGTATTTGAGTAATTTTACACAACAAGGGTATTTCGATA
Found at i:61997234 original size:40 final size:40
Alignment explanation
Indices: 61997189--61997392 Score: 275
Period size: 40 Copynumber: 5.1 Consensus size: 40
61997179 CGGAATACAA
* *
61997189 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATTTAACCACTTGCACGAATGCCTTCGGGTCTTAGC
*
61997229 CCGGATTTAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATTTAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
61997269 CCGGATTTAACAACTTGCACGAATGCCTTCGGATCTTAGC
1 CCGGATTTAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
61997309 CCGGATTTAACGACTTGCCCGAATGCCTTTGGGTCTTAGC
1 CCGGATTTAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
61997349 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATTTAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
61997389 CCGG
1 CCGG
61997393 GTATCATTCA
Statistics
Matches: 146, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
39 2 0.01
40 144 0.99
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATTTAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:62002445 original size:27 final size:27
Alignment explanation
Indices: 62002407--62002468 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
62002397 AAAAATAGTC
*
62002407 ATTTTACCCTAC-AGGGATATTTCGATA
1 ATTTTACACTACAAGGG-TATTTCGATA
62002434 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
62002461 ATTTTACA
1 ATTTTACA
62002469 AACTGAGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:62002488 original size:26 final size:26
Alignment explanation
Indices: 62002449--62002530 Score: 128
Period size: 26 Copynumber: 3.1 Consensus size: 26
62002439 ACACTACAAG
*
62002449 GGTATTTCGATAATTTTACAAACTGA
1 GGTATTTCGGTAATTTTACAAACTGA
* *
62002475 GGTATTTTGGTAATTTTACAAACTGGG
1 GGTATTTCGGTAATTTTACAAACT-GA
62002502 GGTATTTCGGTAATTTTACAAACTGA
1 GGTATTTCGGTAATTTTACAAACTGA
62002528 GGT
1 GGT
62002531 CTTAACGACC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
26 26 0.52
27 24 0.48
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACAAACTGA
Found at i:62002513 original size:27 final size:27
Alignment explanation
Indices: 62002448--62002526 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
62002438 TACACTACAA
*
62002448 GGGTATTTCGATAATTTTACAAACT-G
1 GGGTATTTCGGTAATTTTACAAACTGG
* *
62002474 AGGTATTTTGGTAATTTTACAAACTGG
1 GGGTATTTCGGTAATTTTACAAACTGG
62002501 GGGTATTTCGGTAATTTTACAAACTG
1 GGGTATTTCGGTAATTTTACAAACTG
62002527 AGGTCTTAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 22 0.47
27 25 0.53
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAACTGG
Done.