Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 190 of 343
Found at i:62986938 original size:31 final size:31
Alignment explanation
Indices: 62986903--62986966 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
62986893 CGTTTACAGT
* *
62986903 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGATTCAGCCCAGTAATATGAAATATGA
**
62986934 AAAGGATTCAGCCCAGTGTTATGAAATATGA
1 AAAGGATTCAGCCCAGTAATATGAAATATGA
62986965 AA
1 AA
62986967 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGATTCAGCCCAGTAATATGAAATATGA
Found at i:62989576 original size:37 final size:37
Alignment explanation
Indices: 62989526--62989604 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
62989516 TTATTACGAA
* *
62989526 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
62989563 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
62989600 GTCTT
1 GTCTT
62989605 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:62989792 original size:47 final size:47
Alignment explanation
Indices: 62989723--62989882 Score: 311
Period size: 47 Copynumber: 3.4 Consensus size: 47
62989713 CCCATCGGGA
62989723 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62989770 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62989817 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62989864 CTTATCACATATATACACT
1 CTTATCACATATATACACT
62989883 GTCTTGGCTG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 111 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62993389 original size:40 final size:40
Alignment explanation
Indices: 62993344--62993579 Score: 210
Period size: 40 Copynumber: 5.9 Consensus size: 40
62993334 CGAATACACG
* * * *
62993344 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * ** *
62993384 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
62993424 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
62993464 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * * *
62993504 GTAACTC-GCACCAATGC-CTTCGGGTCTTAGTCCGGATATGG
1 -TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT-A
* *
62993545 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGA
62993580 CATCATTCGA
Statistics
Matches: 158, Mismatches: 34, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
40 143 0.91
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:62993565 original size:120 final size:120
Alignment explanation
Indices: 62993344--62993579 Score: 270
Period size: 120 Copynumber: 2.0 Consensus size: 120
62993334 CGAATACACG
* * *
62993344 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGG
1 TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGATATAACACCAGCACCAATGCTCTTTCGGG
*
62993409 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
66 TTTAGCACGGATATATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACA
* * * *
62993464 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-TC-GCACCAATGC-C-TTC
1 TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGA--TA-TAACACCAGCACCAATGCTCTTTC
* *
62993525 GGGTCTTAGTC-CGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
63 GGGT-TTAG-CACGGATAT-ATCAC-TAGCACGAAAGCTCTTCGGAACTTAGCCCGGA
62993580 CATCATTCGA
Statistics
Matches: 99, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
119 6 0.06
120 62 0.63
121 18 0.18
122 9 0.09
123 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (120 bp):
TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGATATAACACCAGCACCAATGCTCTTTCGGG
TTTAGCACGGATATATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACA
Found at i:62993922 original size:29 final size:29
Alignment explanation
Indices: 62993883--62993961 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
62993873 CTTAATAATC
*
62993883 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
62993913 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
62993942 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
62993962 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:62994004 original size:43 final size:43
Alignment explanation
Indices: 62993943--62994046 Score: 199
Period size: 43 Copynumber: 2.4 Consensus size: 43
62993933 TGCATTTCAA
62993943 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
62993986 GCCCGCACACTTAGTGCCAATCTCACAACTGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
62994029 GCCCGCACACTTAGTGCC
1 GCCCGCACACTTAGTGCC
62994047 GAAAACCAAC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:62997191 original size:43 final size:43
Alignment explanation
Indices: 62997143--62997245 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
62997133 TTGGTTTTCA
62997143 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
62997186 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
62997229 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
62997246 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:62997262 original size:29 final size:29
Alignment explanation
Indices: 62997227--62997300 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
62997217 GTTGTGAGAT
* *
62997227 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
62997256 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
62997285 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
62997301 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:62997743 original size:40 final size:40
Alignment explanation
Indices: 62997615--62997877 Score: 289
Period size: 40 Copynumber: 6.6 Consensus size: 40
62997605 TTGAATGATG
* *
62997615 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * * *
62997655 TCCGGACTAAGACCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
62997695 TCCAGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
62997735 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
62997775 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
62997815 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
62997855 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
62997878 ATCATGCTGG
Statistics
Matches: 190, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 172 0.91
41 18 0.09
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:63001148 original size:47 final size:47
Alignment explanation
Indices: 63001083--63001869 Score: 1108
Period size: 47 Copynumber: 16.4 Consensus size: 47
63001073 CAGCCAAGAG
*
63001083 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
63001130 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
63001177 ACTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
63001228 AGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AG----TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
63001279 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
63001326 AGTGTATATGTGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
63001373 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
63001424 AGTGTATATGTGTGATAAGGCCTAACT-GCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAA-TAGCCGATGTGATGAATGTGAA
63001471 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
63001518 AGTGTATATGTATATATAGTAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATA--TATGT-GA-TAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
63001569 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
63001616 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
63001663 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
63001710 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGGTGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
63001757 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * * *
63001804 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
63001851 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
63001870 TCCCGAAAGG
Statistics
Matches: 678, Mismatches: 46, Indels: 32
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.00
47 489 0.72
48 2 0.00
49 11 0.02
50 1 0.00
51 174 0.26
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:63001410 original size:145 final size:145
Alignment explanation
Indices: 63001085--63001810 Score: 1174
Period size: 145 Copynumber: 5.0 Consensus size: 145
63001075 GCCAAGAGAG
* * * *
63001085 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
*
63001150 CCTAATGGCCGATGTGATGAATGTGAAACTGTATGTATATATGTGATAAGGCCTAATGGCCGATG
66 CCTAATAGCCGATGTGATGAATGTGAAA--G--TGTATATATGTGATAAGGCCTAATGGCCGATG
*
63001215 TGATGAATGTGAAAGTATA
127 TGATGAATGTGAAAGTGTA
63001234 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
* *
63001299 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCAGATGTGAT
66 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
63001364 GAATGTGAAAGTGTA
131 GAATGTGAAAGTGTA
63001379 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
* *
63001444 CCTAACT-GCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
66 CCTAA-TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
63001508 TGAATGTGAAAGTGTA
130 TGAATGTGAAAGTGTA
* * * *
63001524 TATGTATATATAGTAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
* * *
63001589 CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGAT
66 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
63001654 GAATGTGAAA--G--
131 GAATGTGAAAGTGTA
* *
63001665 TGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
* * *
63001730 CCTAATGGCCGATGCGGTGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
63001795 GAATGTGAAAGTGTA
131 GAATGTGAAAGTGTA
63001810 T
1 T
63001811 ATATGTGACA
Statistics
Matches: 542, Mismatches: 29, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
141 128 0.24
143 2 0.00
144 1 0.00
145 321 0.59
146 1 0.00
147 1 0.00
149 88 0.16
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (145 bp):
TGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTA
Found at i:63002044 original size:37 final size:37
Alignment explanation
Indices: 63001988--63002066 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
63001978 CCGAGCTCTA
* * *
63001988 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
63002025 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
63002062 AAGAC
1 AAGAC
63002067 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:63002985 original size:37 final size:37
Alignment explanation
Indices: 63002935--63003013 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
63002925 TTATTACGAA
* * *
63002935 GTCTTACCCGGACATAA-TCTCCACATGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
63002972 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
63003009 GTCTT
1 GTCTT
63003014 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:63003201 original size:47 final size:47
Alignment explanation
Indices: 63003132--63003385 Score: 463
Period size: 47 Copynumber: 5.4 Consensus size: 47
63003122 CCCTTCGGGA
*
63003132 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63003179 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
63003226 CCTATCACACATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
63003273 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
63003320 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
63003367 CTTATCACATATATACACT
1 CTTATCACACATATACACT
63003386 GTCTTGGCTG
Statistics
Matches: 201, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 201 1.00
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63007252 original size:27 final size:27
Alignment explanation
Indices: 63007217--63007285 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
63007207 TTGTTACAAT
* **
63007217 AAAAGCTTTTCTTTCAGGGTTTGCCAC
1 AAAAGCTTTTCTTTCAGAGTTCACCAC
*
63007244 AAAGGCTTTTCTTTCAGAGTTCACCAC
1 AAAAGCTTTTCTTTCAGAGTTCACCAC
63007271 AAAAGCTTTTCTTTC
1 AAAAGCTTTTCTTTC
63007286 CTAACGTCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (27 bp):
AAAAGCTTTTCTTTCAGAGTTCACCAC
Found at i:63037766 original size:39 final size:39
Alignment explanation
Indices: 63037723--63037850 Score: 211
Period size: 39 Copynumber: 3.3 Consensus size: 39
63037713 TATGAGATTG
63037723 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
63037762 AAAATATCCGGACATGAGGTCCGCATGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
63037801 AATATATCCGGACTTGAGGTCCGCAGGCTATGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
63037840 AAAATATCCGG
1 AAAATATCCGG
63037851 GTTAAAGACC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:63047284 original size:27 final size:26
Alignment explanation
Indices: 63047186--63047307 Score: 88
Period size: 27 Copynumber: 4.5 Consensus size: 26
63047176 TTCCCATCAT
* * *
63047186 CCTTTATGGCCTACTCT-ATATGAATA
1 CCTTTGTGGCATACTCTGATA-GATTA
*
63047212 GCCTTTGTGGCGTACTCTGTATAGA-TA
1 -CCTTTGTGGCATACTCTG-ATAGATTA
* *
63047239 GTCTTTGTGGCAAACTCTGACTAGATTA
1 -CCTTTGTGGCATACTCTGA-TAGATTA
*
63047267 CCTTTGTGGCATACTCTGAATGGATT-
1 CCTTTGTGGCATACTCTG-ATAGATTA
*
63047293 GCTTTGGTGGCATAC
1 CCTTT-GTGGCATAC
63047308 CTTACATGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
26 5 0.06
27 67 0.84
28 5 0.06
29 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
CCTTTGTGGCATACTCTGATAGATTA
Found at i:63047320 original size:26 final size:26
Alignment explanation
Indices: 63047214--63047307 Score: 89
Period size: 27 Copynumber: 3.5 Consensus size: 26
63047204 TATGAATAGC
* * * *
63047214 CTTTGTGGCGTACTCTGTATAGATAG
1 CTTTGTGGCATACTCTGAATGGATTG
* * * *
63047240 TCTTTGTGGCAAACTCTGACTAGATTAC
1 -CTTTGTGGCATACTCTGAATGGATT-G
63047268 CTTTGTGGCATACTCTGAATGGATTG
1 CTTTGTGGCATACTCTGAATGGATTG
63047294 CTTTGGTGGCATAC
1 CTTT-GTGGCATAC
63047308 CTTACATGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (26 bp):
CTTTGTGGCATACTCTGAATGGATTG
Found at i:63054010 original size:21 final size:21
Alignment explanation
Indices: 63053965--63054031 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
63053955 TGTAGCTGTT
***
63053965 CACACGAGCATGTGCCCCCTC
1 CACACGAGCATGTGAGGCCTC
* *
63053986 CACACGGGCATGTGAGGCCTT
1 CACACGAGCATGTGAGGCCTC
* *
63054007 CACACGAGAATGTGTGGCCTC
1 CACACGAGCATGTGAGGCCTC
63054028 CACA
1 CACA
63054032 TAGGTGTGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.22, C:0.36, G:0.25, T:0.16
Consensus pattern (21 bp):
CACACGAGCATGTGAGGCCTC
Found at i:63057354 original size:40 final size:40
Alignment explanation
Indices: 63057299--63057483 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
63057289 CTTGCACAAG
* * * *
63057299 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
63057339 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* ** *
63057379 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCTCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
63057419 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
63057460 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
63057484 CATTCGAATA
Statistics
Matches: 119, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 87 0.73
41 26 0.22
42 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:63065497 original size:40 final size:40
Alignment explanation
Indices: 63065451--63065635 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
63065441 CTTGCACAAG
* * * *
63065451 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGAATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
63065491 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
63065531 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
63065571 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
63065612 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
63065636 CATTCGAATA
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 90 0.75
41 29 0.24
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:63069855 original size:13 final size:13
Alignment explanation
Indices: 63069837--63069864 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
63069827 AATATAGGGG
63069837 AAAATGTACCATT
1 AAAATGTACCATT
63069850 AAAATGTACCATT
1 AAAATGTACCATT
63069863 AA
1 AA
63069865 CGAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:63082404 original size:23 final size:22
Alignment explanation
Indices: 63082351--63082404 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
63082341 TTTTTACTCA
63082351 AAAGATAAAAATATGAGAAAAG
1 AAAGATAAAAATATGAGAAAAG
* *
63082373 TAAGTATAAAAATTAT-TGAAAAG
1 AAAG-ATAAAAA-TATGAGAAAAG
63082396 AATAGATAA
1 AA-AGATAA
63082405 TTTTTGTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 3 0.12
23 18 0.69
24 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (22 bp):
AAAGATAAAAATATGAGAAAAG
Found at i:63082621 original size:17 final size:18
Alignment explanation
Indices: 63082596--63082638 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
63082586 AATACCAAAT
*
63082596 AATAAATATA-ATTTTTA
1 AATAAATATAGATTTGTA
*
63082613 AATATATATAGATTTGTA
1 AATAAATATAGATTTGTA
*
63082631 AAAAAATA
1 AATAAATA
63082639 GAAAATTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
AATAAATATAGATTTGTA
Found at i:63082919 original size:24 final size:25
Alignment explanation
Indices: 63082892--63082942 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
63082882 TGTTGATTTT
*
63082892 TTTTTA-TAAAAATTCTCATCGATA
1 TTTTTACTAAAAATTCACATCGATA
*
63082916 -TTTTACTATAAATTCACATCGATA
1 TTTTTACTAAAAATTCACATCGATA
63082940 TTT
1 TTT
63082943 GGGTTCTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 16 0.70
25 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (25 bp):
TTTTTACTAAAAATTCACATCGATA
Found at i:63094743 original size:15 final size:15
Alignment explanation
Indices: 63094700--63094743 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
63094690 GCAATTAGGG
63094700 TTAGGGTTTTGAGAATT
1 TTAGGGTTTT-A-AATT
63094717 TTA-GGTTATTAAATT
1 TTAGGGTT-TTAAATT
63094732 TTAGGGTTTTAA
1 TTAGGGTTTTAA
63094744 GGAAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 11 0.44
16 9 0.36
17 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (15 bp):
TTAGGGTTTTAAATT
Found at i:63094857 original size:97 final size:98
Alignment explanation
Indices: 63094738--63094914 Score: 261
Period size: 97 Copynumber: 1.8 Consensus size: 98
63094728 AATTTTAGGG
* * ** *
63094738 TTTTAAGGAAAAAAATTAAATAAATTAAGG-TTTAGTGTTTGTTAATTAAATTAATTACT-AATT
1 TTTTAAGGAAAAAAATCAAATAAATT-AGGATTTAGGGTTACTTAAGTAAATTAATTA-TAAATT
63094801 TTAAAAAAATTAGATTATGGTTTAGTGTTTATGGT
64 TTAAAAAAATTAGATTATGGTTTAGTGTTTATGGT
*
63094836 TTTTAAGG-AAAAAATCAAATAAATTAGGATTTAGGGTTACTTGAGTAAATTAATTATAAATTTT
1 TTTTAAGGAAAAAAATCAAATAAATTAGGATTTAGGGTTACTTAAGTAAATTAATTATAAATTTT
63094900 AAAAAAATTAGATTA
66 AAAAAAATTAGATTA
63094915 GGATTTTAGG
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
96 4 0.06
97 59 0.83
98 8 0.11
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.41
Consensus pattern (98 bp):
TTTTAAGGAAAAAAATCAAATAAATTAGGATTTAGGGTTACTTAAGTAAATTAATTATAAATTTT
AAAAAAATTAGATTATGGTTTAGTGTTTATGGT
Found at i:63096166 original size:30 final size:30
Alignment explanation
Indices: 63096123--63096185 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
63096113 TGGGAAGTGG
*
63096123 AATGGGAAGGGAGTAAAAGTTTTAGGGAGAA
1 AATGGGAAGGGAGTAAAAATTTT-GGGAGAA
*
63096154 AATGGG-AGGGAGTAAAAATTTTGGGGGAA
1 AATGGGAAGGGAGTAAAAATTTTGGGAGAA
63096183 AAT
1 AAT
63096186 AAAAAGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 9 0.30
30 15 0.50
31 6 0.20
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (30 bp):
AATGGGAAGGGAGTAAAAATTTTGGGAGAA
Found at i:63096415 original size:9 final size:9
Alignment explanation
Indices: 63096397--63096433 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
63096387 TATAGTTTGA
63096397 TATTCGAAT
1 TATTCGAAT
*
63096406 TATTCAAAT
1 TATTCGAAT
*
63096415 TATTCGAGT
1 TATTCGAAT
63096424 TATTCGAAT
1 TATTCGAAT
63096433 T
1 T
63096434 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:63107127 original size:46 final size:48
Alignment explanation
Indices: 63107040--63107165 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 48
63107030 GGGGTAAAAT
* *
63107040 GCCGATGCCATGTCCCAGACATGGTCATACACTGACA--CATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACTCATCTCATA
63107086 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACACTCATCTCA-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACTCATCTCATA
* *
63107131 TGCCGATGCCATGTCCCAAACATGGTTTTACACTA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTA
63107166 GCTCTTATAA
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
44 12 0.17
45 15 0.21
46 21 0.30
47 13 0.18
48 10 0.14
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.25
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACTCATCTCATA
Found at i:63107213 original size:46 final size:44
Alignment explanation
Indices: 63107037--63107216 Score: 159
Period size: 46 Copynumber: 3.9 Consensus size: 44
63107027 CATGGGGTAA
* * *
63107037 AATGCCGATGCCATGTCCCAGACATGGTCATACACT-GACACATCTC
1 AATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCATATC
* *
63107083 -ATAGCCGATGCATGTCCCAGACATGTCTTACACTAACACTCATCTC
1 AAT-GCCGATGCATGTCCCAGACATGTCTTACACT-A-GCTCATATC
* * *
63107129 AATGCCGATGCCATGTCCCAAACATGGTTTTACACTAGCTCTTAT-
1 AATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATC
*
63107174 AATGTGGCCGATGCATGCCCCAGACATGTCTTACACTAGCTCA
1 AA--T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
63107217 CAATGACCCA
Statistics
Matches: 112, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
44 9 0.08
45 18 0.16
46 40 0.36
47 29 0.26
48 16 0.14
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (44 bp):
AATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATATC
Found at i:63109315 original size:21 final size:22
Alignment explanation
Indices: 63109289--63109330 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
63109279 ATGGTTGTTT
* *
63109289 ATATTAATATTAA-TTATTAAA
1 ATATTAAAAATAATTTATTAAA
63109310 ATATTAAAAATAATTTATTAA
1 ATATTAAAAATAATTTATTAA
63109331 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATTAAAAATAATTTATTAAA
Found at i:63111317 original size:28 final size:28
Alignment explanation
Indices: 63111285--63111347 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
63111275 TCCCATATTA
*
63111285 ATGGGGTATAGGAAAAGTTTCATAATTT
1 ATGGGGTATAGGAAAAGTTTCATAACTT
* * *
63111313 ATGGGGTATATGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTTTCATAACTT
63111341 ATGGGGT
1 ATGGGGT
63111348 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.37
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTTTCATAACTT
Found at i:63116726 original size:28 final size:28
Alignment explanation
Indices: 63116695--63116757 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
63116685 TCCCATATTA
*
63116695 ATGGGGTATAGGAAAAGTCTCATAATTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* *
63116723 ATGGGGTATAGGAAAAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
63116751 ATGGGGT
1 ATGGGGT
63116758 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:63117906 original size:16 final size:16
Alignment explanation
Indices: 63117883--63117938 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
63117873 TGTTTGGTTG
*
63117883 GCTGTAATGGAATAGG
1 GCTGTAATGGAATAGA
* *
63117899 GTTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
*
63117915 GCTATAATGGAATAGA
1 GCTGTAATGGAATAGA
63117931 GCTGTAAT
1 GCTGTAAT
63117939 AAGTAATTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:63118013 original size:44 final size:46
Alignment explanation
Indices: 63117920--63118013 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
63117910 ATAGAGCTAT
*
63117920 AATGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
***
63117966 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
63118010 AATG
1 AATG
63118014 ATGTTATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
Found at i:63122474 original size:29 final size:29
Alignment explanation
Indices: 63122442--63122512 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
63122432 TACATTATTG
* *
63122442 TTTTCATA-TTATTTTATGTAAATATTTTC
1 TTTT-ATATTTATTGTATATAAATATTTTC
*
63122471 TTTTATATTTATTGTATATATATATTTTC
1 TTTTATATTTATTGTATATAAATATTTTC
*
63122500 TTTTAAATTTATT
1 TTTTATATTTATT
63122513 ATGCATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (29 bp):
TTTTATATTTATTGTATATAAATATTTTC
Found at i:63123281 original size:126 final size:126
Alignment explanation
Indices: 63123050--63123317 Score: 421
Period size: 126 Copynumber: 2.1 Consensus size: 126
63123040 AATATAAGGA
* * * *
63123050 AATATTTCGAATTTGGGGAGTTTGAGAGATCGTGCCCAATCGTGTTGGGTTTCAATTTTTCATTC
1 AATATTTCGTATTTGGGGAGCTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATTTTTCATTC
* *
63123115 AACTAAAATACGGAATATCCTTTTGAAATTACATCTATGTTTTCTTAAATTAAAACT-AGGC
66 AACTAAAATACAGAATATCCTTTTGAAATTACATCCATGTTTTCTTAAATTAAAA-TGAGGC
63123176 AATATTTCGTATTTGGGGAGCTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATTTTTCATTC
1 AATATTTCGTATTTGGGGAGCTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATTTTTCATTC
* * *
63123241 GACTAAAATACAGAATCTCCTTTTGAAATTTCATCCATGTTTTCTTAAATTAAAATGAGGC
66 AACTAAAATACAGAATATCCTTTTGAAATTACATCCATGTTTTCTTAAATTAAAATGAGGC
* *
63123302 AATGTTTTGTATTTGG
1 AATATTTCGTATTTGG
63123318 AAATTCGGTA
Statistics
Matches: 130, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 1 0.01
126 129 0.99
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (126 bp):
AATATTTCGTATTTGGGGAGCTTGAGAGATCATGCCCAATCGTGCTGGGTTTCAATTTTTCATTC
AACTAAAATACAGAATATCCTTTTGAAATTACATCCATGTTTTCTTAAATTAAAATGAGGC
Found at i:63132571 original size:22 final size:22
Alignment explanation
Indices: 63132545--63132588 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
63132535 ATAAAAATAC
*
63132545 ATTAAATATGTATAATATTAAA
1 ATTAAATAGGTATAATATTAAA
*
63132567 ATTAAATAGGTATTATATTAAA
1 ATTAAATAGGTATAATATTAAA
63132589 TTTTATAAAA
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:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (22 bp):
ATTAAATAGGTATAATATTAAA
Found at i:63133069 original size:19 final size:18
Alignment explanation
Indices: 63133028--63133062 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
63133018 AAATTTAAAT
*
63133028 TTAAATTATATATTTTTA
1 TTAAATTAAATATTTTTA
*
63133046 TTAAATTAAATCTTTTT
1 TTAAATTAAATATTTTT
63133063 GTATAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAATTAAATATTTTTA
Found at i:63133135 original size:20 final size:18
Alignment explanation
Indices: 63133103--63133147 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
63133093 AAATATATAA
*
63133103 ATACATAAAAATTAA--T
1 ATACATAAAATTTAATTT
*
63133119 ATATATAAAATTTAATTT
1 ATACATAAAATTTAATTT
63133137 ATACATAAAAT
1 ATACATAAAAT
63133148 AAATAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
18 11 0.46
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
ATACATAAAATTTAATTT
Found at i:63133557 original size:20 final size:21
Alignment explanation
Indices: 63133534--63133579 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
63133524 AAATTAAAAT
63133534 AAAAAATT-TTAAAAAT-ACA
1 AAAAAATTATTAAAAATCACA
*
63133553 AAAAAATTATTAAAAATCTCA
1 AAAAAATTATTAAAAATCACA
63133574 AAAAAA
1 AAAAAA
63133580 AACTTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.33
20 8 0.33
21 8 0.33
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTATTAAAAATCACA
Found at i:63133558 original size:26 final size:27
Alignment explanation
Indices: 63133507--63133559 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
63133497 TACACTTGTC
*
63133507 AAAAAATTATTAAAAATAAATTAAAAT
1 AAAAAATTATTAAAAATAAATAAAAAT
63133534 AAAAAATT-TTAAAAATACAA-AAAAAT
1 AAAAAATTATTAAAAATA-AATAAAAAT
63133560 TATTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (27 bp):
AAAAAATTATTAAAAATAAATAAAAAT
Found at i:63133598 original size:22 final size:21
Alignment explanation
Indices: 63133524--63133601 Score: 63
Period size: 23 Copynumber: 3.7 Consensus size: 21
63133514 TATTAAAAAT
*
63133524 AAATTA-AAATAAAAAATTTTA
1 AAATTATAAA-AAAAAATTATA
*
63133545 AAA--ATACAAAAAAATTATTA
1 AAATTATAAAAAAAAATTA-TA
* *
63133565 AAAATCTCAAAAAAAAACTTATA
1 AAATTAT-AAAAAAAAA-TTATA
63133588 AAATTATAAAAAAA
1 AAATTATAAAAAAA
63133602 TAATAATTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
19 9 0.20
20 7 0.16
21 3 0.07
22 8 0.18
23 15 0.33
24 3 0.07
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATTATAAAAAAAAATTATA
Found at i:63133599 original size:43 final size:45
Alignment explanation
Indices: 63133507--63133602 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 45
63133497 TACACTTGTC
* *
63133507 AAAAAATTATTAAAAATAAATTAAAATAAAAAATTTTAAAAATACA
1 AAAAAATTATTAAAAAT-AATCAAAATAAAAAATTATAAAAATACA
* * * *
63133553 AAAAAATTATTAAAAAT-CTCAAAA-AAAAACTTATAAAATTATA
1 AAAAAATTATTAAAAATAATCAAAATAAAAAATTATAAAAATACA
63133596 AAAAAAT
1 AAAAAAT
63133603 AATAATTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 22 0.50
44 5 0.11
46 17 0.39
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (45 bp):
AAAAAATTATTAAAAATAATCAAAATAAAAAATTATAAAAATACA
Found at i:63136124 original size:47 final size:46
Alignment explanation
Indices: 63136073--63136190 Score: 130
Period size: 47 Copynumber: 2.5 Consensus size: 46
63136063 AAGGCTGATG
** * **
63136073 CATGTCCCAGACATGTCTTACTTTGGCACTCATCTTTGTGCCTATG-C
1 CATGTCCCAGACATGTCTTACACTAGCACTCAT-AATGTGCCTA-GAC
* * *
63136120 CATGTCTCAGACATGGTCTTACACTAGCTCTCATAATGTGCCTAGAG
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCATAATGTGCCTAGAC
63136167 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
63136191 GGCGTACACA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
46 11 0.18
47 34 0.57
48 15 0.25
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATAATGTGCCTAGAC
Found at i:63136588 original size:30 final size:30
Alignment explanation
Indices: 63136547--63136607 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
63136537 ATTCACAACT
* *
63136547 TTGGTAAAATGACCATTTTGCCCCTAGGCC
1 TTGGCAAAATGACCATTTTACCCCTAGGCC
*
63136577 TTGGCAAAATGACCATTTTACCCCTATGCC
1 TTGGCAAAATGACCATTTTACCCCTAGGCC
63136607 T
1 T
63136608 GAAAATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (30 bp):
TTGGCAAAATGACCATTTTACCCCTAGGCC
Found at i:63143513 original size:49 final size:48
Alignment explanation
Indices: 63143274--63143583 Score: 264
Period size: 49 Copynumber: 6.6 Consensus size: 48
63143264 GTGAGCCATC
**** * *
63143274 GTAAGACCATGTCTGGGACATGGCATCAATATTTAGATGAGAG-CTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTGAGTC-AGT
* * * * *
63143322 GTAAGA-CATGTCTGGGACAT-GCATTGGCCTTGATACGTAAGTTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTGAGTCAGT
* *
63143368 GTAAGA-CATGTTTGGGACAT-GCATCGG-CTACGAGATGT--GTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCT-TGAGATGTGAGTCAGT
* * * * *
63143412 GTAAGACCATGTCTGGGACAT-GCATCGGCATGGATATGTGAGAGCTATT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTGAG-TC-AGT
*
63143461 GTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAT-AGTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCTTGA-GATG-TGAGTCAGT
* * ** * *
63143510 GTAAGACCTTTTCTGGGACATGGCATC-AACTTGAGATATGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTGAGTCAGT
63143557 GTAAGACCATGTCTGGGACATGGCATC
1 GTAAGACCATGTCTGGGACATGGCATC
63143584 AGTATTCTAC
Statistics
Matches: 213, Mismatches: 37, Indels: 25
0.77 0.13 0.09
Matches are distributed among these distances:
44 11 0.05
45 28 0.13
46 46 0.22
47 49 0.23
48 11 0.05
49 50 0.23
50 12 0.06
51 5 0.02
52 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTGAGTCAGT
Found at i:63143580 original size:96 final size:93
Alignment explanation
Indices: 63143266--63143583 Score: 267
Period size: 96 Copynumber: 3.4 Consensus size: 93
63143256 GGGTTATTGT
** ** * *
63143266 GAGCCA-TCGTAAGACCATGTCTGGGACATGGCATC-AATATTTAGATGAGAGCTAGTGTAAGA-
1 GAGCCAGT-GTAAGACCATGTCTGGGACATGGCATCGGCTA-CGAGATGTG-TC-AGTGTAAGAC
*** * *
63143328 CATGTCTGGGACATGCATTGGCCTTGATACGTA
62 CATGTCTGGGACATGCATCAACATGGATA-GTA
** *
63143361 -AGTTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTACGAGATGTGTCAGTGTAAGACCATG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTGTCAGTGTAAGACCATG
**
63143423 TCTGGGACATGCATCGGCATGGATATGTGA
66 TCTGGGACATGCATCAACATGGATA-GT-A
* *
63143453 GAGCTATTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGATGATAGTCAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACGA-GATG-T-GTCAGTGTAAGAC
* * *
63143517 CTTTTCTGGGACATGGCATCAACTTGAGATA-T-
62 CATGTCTGGGACAT-GCATCAACATG-GATAGTA
63143549 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
63143584 AGTATTCTAC
Statistics
Matches: 187, Mismatches: 23, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
90 9 0.05
91 29 0.16
92 12 0.06
93 26 0.14
94 22 0.12
95 11 0.06
96 39 0.21
97 1 0.01
98 26 0.14
99 8 0.04
100 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (93 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTGTCAGTGTAAGACCATG
TCTGGGACATGCATCAACATGGATAGTA
Found at i:63150839 original size:46 final size:48
Alignment explanation
Indices: 63150735--63151055 Score: 283
Period size: 47 Copynumber: 6.8 Consensus size: 48
63150725 AGGTTATTGT
* * **
63150735 GAGCCAGTGTAAGACCATGTCTGGGACATGGCA-CCGACATTTAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGAC-TCGAGACGA
63150783 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGACTCGAGACGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGACTCGAGACG-A
* * *
63150830 -AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGG-CT--ACATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGACTCGAGACGA
* * * *
63150872 TGTG-TCAGTGTAAGACCATGTCTGGGACATTGCATCGG-CATGGATATGCGA
1 -GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGAC-TCGAGA--CGA
* * *
63150923 GAGCTAGTGTAAGACCATTTCTGGGACATGGCGTCGGCCTCGATGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGACTCGA-GACGA
* * * *
63150972 TAG-TCAGTGTAAGACCTTGTCTGGGACATGGCATC-GACTTGAGA-TA
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGACTCGAGACGA
*
63151018 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
63151056 TATTCTACCC
Statistics
Matches: 227, Mismatches: 27, Indels: 38
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 10 0.04
45 16 0.07
46 50 0.22
47 53 0.23
48 20 0.09
49 34 0.15
50 34 0.15
51 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGACTCGAGACGA
Found at i:63154005 original size:23 final size:22
Alignment explanation
Indices: 63153968--63154010 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
63153958 TGCATATGTT
*
63153968 TTTTTTAAAAATATTTTTAAAC
1 TTTTTTAAAAATATTGTTAAAC
*
63153990 TTTTTTAACAATTATTGTTAA
1 TTTTTTAA-AAATATTGTTAA
63154011 GAAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTTTAAAAATATTGTTAAAC
Found at i:63156654 original size:46 final size:45
Alignment explanation
Indices: 63156580--63156673 Score: 152
Period size: 46 Copynumber: 2.1 Consensus size: 45
63156570 AACATGCACT
*
63156580 TCTACATGTATAATGCAATATTACTGCAAACTTGATGATAAAGCTA
1 TCTACATGTATAATGCAAGATTACTGCAAACTTGATGATAAA-CTA
* *
63156626 TCTACATGTATAATGCAAGATTATTGCAAACTTGATGCTAAACTA
1 TCTACATGTATAATGCAAGATTACTGCAAACTTGATGATAAACTA
63156671 TCT
1 TCT
63156674 GCAACTGCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 6 0.13
46 39 0.87
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (45 bp):
TCTACATGTATAATGCAAGATTACTGCAAACTTGATGATAAACTA
Found at i:63159102 original size:48 final size:48
Alignment explanation
Indices: 63159026--63159117 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
63159016 TACCACGGTT
*
63159026 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* *
63159074 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGATTATACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACAT
63159118 GTTAATTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
Found at i:63163330 original size:22 final size:25
Alignment explanation
Indices: 63163300--63163366 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 25
63163290 AAAAACAAAT
63163300 AAATAATAAAAATTACAAA-T-C-C
1 AAATAATAAAAATTACAAACTACAC
* *
63163322 AACTAATAAATAA-CACAACACTACAC
1 AAATAATAAA-AATTACAA-ACTACAC
63163348 AAATAATAAAAATTACAAA
1 AAATAATAAAAATTACAAA
63163367 ACAAATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
22 13 0.37
23 3 0.09
24 1 0.03
25 4 0.11
26 14 0.40
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.19
Consensus pattern (25 bp):
AAATAATAAAAATTACAAACTACAC
Found at i:63163365 original size:26 final size:22
Alignment explanation
Indices: 63163300--63163376 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 22
63163290 AAAAACAAAT
63163300 AAATAATAAAAATTACAAATCC
1 AAATAATAAAAATTACAAATCC
* *
63163322 AACTAATAAATAA-CACAACACTACAC
1 AAATAATAAA-AATTACAA-A-T-C-C
*
63163348 AAATAATAAAAATTACAAA-AC
1 AAATAATAAAAATTACAAATCC
63163369 AAATAATA
1 AAATAATA
63163377 CCCACAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
21 9 0.20
22 13 0.30
23 3 0.07
24 1 0.02
25 4 0.09
26 14 0.32
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (22 bp):
AAATAATAAAAATTACAAATCC
Found at i:63165332 original size:49 final size:49
Alignment explanation
Indices: 63165241--63165337 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
63165231 ATTTATTTAT
* * ** * *
63165241 AGGTTGAAAAACCTTATTCTAATCAATGTCAAATGGATGAAGTGTAGTA
1 AGGTTGAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
* *
63165290 AGGTTGGAAAACATTATTCTAATTAATGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
63165338 TCTATATGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (49 bp):
AGGTTGAAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:63169824 original size:26 final size:24
Alignment explanation
Indices: 63169778--63169831 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
63169768 TTAATTTTTG
*
63169778 TATAAATTAAATTTGACAATTCATAT
1 TATAAATTAAATTTAACAATT--TAT
*
63169804 TATAAA-TAAATTTAAATAATTTAT
1 TATAAATTAAATTT-AACAATTTAT
63169828 TATA
1 TATA
63169832 TCTTTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 7 0.28
25 7 0.28
26 11 0.44
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (24 bp):
TATAAATTAAATTTAACAATTTAT
Found at i:63169872 original size:45 final size:45
Alignment explanation
Indices: 63169816--63169972 Score: 122
Period size: 45 Copynumber: 3.3 Consensus size: 45
63169806 TAAATAAATT
*
63169816 TAAATAATTTATTATATCTTTTAATTCTTGATAAAAATAATATCA
1 TAAATTATTTATTATATCTTTTAATTCTTGATAAAAATAATATCA
* * * * *
63169861 TAAATTATTTATTTAAAT-ATGTAATGTTCATATTATAAATAAATTTAAATAATTTA
1 TAAATTATTTA-TTATATCTTTTAA--TTC-T-TGAT-AA-AAA--T-AAT-A-TCA
*
63169917 TAACTT-TTT-TTATATCTTTTAATTCTTGATAAAAATAATATCA
1 TAAATTATTTATTATATCTTTTAATTCTTGATAAAAATAATATCA
63169960 TAAATTATTTATT
1 TAAATTATTTATT
63169973 TAAATATGTA
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
43 7 0.08
44 4 0.05
45 19 0.23
46 6 0.07
47 3 0.04
48 4 0.05
49 5 0.06
50 5 0.06
51 4 0.05
52 3 0.04
53 6 0.07
54 7 0.08
55 4 0.05
56 7 0.08
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.50
Consensus pattern (45 bp):
TAAATTATTTATTATATCTTTTAATTCTTGATAAAAATAATATCA
Found at i:63169898 original size:90 final size:94
Alignment explanation
Indices: 63169797--63169986 Score: 307
Period size: 99 Copynumber: 2.0 Consensus size: 94
63169787 AATTTGACAA
63169797 TTCATATTATAAATAAATTTAAATAA-TT-T-A-TTATATCTTTTAATTCTTGATAAAAATAATA
1 TTCATATTATAAATAAATTTAAATAATTTATAATTTATATCTTTTAATTCTTGATAAAAATAATA
63169858 TCATAAATTATTTATTTAAATATGTAATG
66 TCATAAATTATTTATTTAAATATGTAATG
63169887 TTCATATTATAAATAAATTTAAATAATTTATAACTTTTTTTATATCTTTTAATTCTTGATAAAAA
1 TTCATATTATAAATAAATTTAAATAATTTATAA-----TTTATATCTTTTAATTCTTGATAAAAA
63169952 TAATATCATAAATTATTTATTTAAATATGTAATG
61 TAATATCATAAATTATTTATTTAAATATGTAATG
63169986 T
1 T
63169987 AAGTTTAGTT
Statistics
Matches: 91, Mismatches: 0, Indels: 9
0.91 0.00 0.09
Matches are distributed among these distances:
90 26 0.29
91 2 0.02
92 1 0.01
93 1 0.01
99 61 0.67
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (94 bp):
TTCATATTATAAATAAATTTAAATAATTTATAATTTATATCTTTTAATTCTTGATAAAAATAATA
TCATAAATTATTTATTTAAATATGTAATG
Found at i:63171864 original size:19 final size:19
Alignment explanation
Indices: 63171842--63171881 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
63171832 AATTATTCTT
63171842 TCACTAATTACACATATAC
1 TCACTAATTACACATATAC
* *
63171861 TCACTAATTATACTTATAC
1 TCACTAATTACACATATAC
63171880 TC
1 TC
63171882 TTAACAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (19 bp):
TCACTAATTACACATATAC
Found at i:63175162 original size:35 final size:36
Alignment explanation
Indices: 63175099--63175168 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
63175089 TGTGAAAGAG
* *
63175099 AATATGAGGGTATGTTATTCATGCCATGTGACAGTA
1 AATATGAGAGTATGTTATTCATACCATGTGACAGTA
*
63175135 AATATGTGAGTATGTT-TTCATACCATGTGACAGT
1 AATATGAGAGTATGTTATTCATACCATGTGACAGT
63175169 GATTATAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (36 bp):
AATATGAGAGTATGTTATTCATACCATGTGACAGTA
Found at i:63178368 original size:30 final size:30
Alignment explanation
Indices: 63178331--63178613 Score: 173
Period size: 30 Copynumber: 9.4 Consensus size: 30
63178321 GGTCGTCACC
63178331 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
1 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
* * * * *
63178361 ATTCCTTTTCATATTTTTGAT-GGTCGTCA-CC
1 ATCCCTTTTCATA-GTTTGATAGCT-G-AAGCT
* *
63178392 ATCCCGTTTCATAGTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
* * **
63178422 ATCCCTTTTAATAATTTGATAGCCAAAGCT
1 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
** * * *
63178452 ATCCCTTTTCATAGTTCAATGGTCAT-CA-CC
1 ATCCCTTTTCATAGTTTGATAG-C-TGAAGCT
* * * *
63178482 ATCCCTTTCCATAGTTTGATGGTCAT-CA-CC
1 ATCCCTTTTCATAGTTTGATAG-C-TGAAGCT
* * **
63178512 ATCCCTTTTCATAATTTGACAGCCAAAGCT
1 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
* * * *
63178542 ACCCCTTTTCATGGTTCGATAGCTGAAACT
1 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
* **
63178572 ATCCCTTTTCATAGTTCGATAGCTGAATTT
1 ATCCCTTTTCATAGTTTGATAGCTGAAGCT
*
63178602 ATACCTTTTCAT
1 ATCCCTTTTCAT
63178614 TTGGTTGATG
Statistics
Matches: 197, Mismatches: 47, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
29 3 0.02
30 171 0.87
31 22 0.11
32 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTTGATAGCTGAAGCT
Found at i:63178381 original size:90 final size:91
Alignment explanation
Indices: 63178228--63178553 Score: 379
Period size: 90 Copynumber: 3.6 Consensus size: 91
63178218 GTAAAATCAC
* * * * * * * *
63178228 GATGGTTGACACCATCCCTTTCCATAATTCGATAGTCGAAGCTATTCCTTTTTATATTTTTGATG
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATATTTTTGATG
*
63178293 GCCGTCACCATCCCTTTTCATAG-TT
66 GTCGTCACCATCCCTTTTCATAGTTT
* ** *
63178318 GATGGTCGTCACCATCCCTTTTCATAGTTTGATAGCTGAAGCTATTCCTTTTCATATTTTTGATG
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATATTTTTGATG
*
63178383 GTCGTCACCATCCCGTTTCATAGTTT
66 GTCGTCACCATCCCTTTTCATAGTTT
* * * * * * **
63178409 GATAGCCG-AAGCTATCCCTTTTAATAATTTGATAGCCAAAGCTATCCCTTTTCATA-GTTCAAT
1 GATGGTCGTCA-CCATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATATTTTTGAT
* *
63178472 GGTCATCACCATCCCTTTCCATAGTTT
65 GGTCGTCACCATCCCTTTTCATAGTTT
* * *
63178499 GATGGTCATCACCATCCCTTTTCATAATTTGACAGCCAAAGCTACCCCTTTTCAT
1 GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCAT
63178554 GGTTCGATAG
Statistics
Matches: 200, Mismatches: 33, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
90 152 0.76
91 48 0.24
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (91 bp):
GATGGTCGTCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATATTTTTGATG
GTCGTCACCATCCCTTTTCATAGTTT
Found at i:63178392 original size:61 final size:61
Alignment explanation
Indices: 63178302--63178430 Score: 208
Period size: 61 Copynumber: 2.1 Consensus size: 61
63178292 GGCCGTCACC
* * *
63178302 ATCCCTTTTCATA--GTTGATGGTCGTCACCATCCCTTTTCATAGTTTGATAGCTGAAGCT
1 ATCCCTTTTCATATTTTTGATGGTCGTCACCATCCCGTTTCATAGTTTGATAGCCGAAGCT
*
63178361 ATTCCTTTTCATATTTTTGATGGTCGTCACCATCCCGTTTCATAGTTTGATAGCCGAAGCT
1 ATCCCTTTTCATATTTTTGATGGTCGTCACCATCCCGTTTCATAGTTTGATAGCCGAAGCT
63178422 ATCCCTTTT
1 ATCCCTTTT
63178431 AATAATTTGA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 12 0.19
61 51 0.81
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (61 bp):
ATCCCTTTTCATATTTTTGATGGTCGTCACCATCCCGTTTCATAGTTTGATAGCCGAAGCT
Found at i:63178576 original size:90 final size:90
Alignment explanation
Indices: 63178299--63178587 Score: 246
Period size: 90 Copynumber: 3.2 Consensus size: 90
63178289 GATGGCCGTC
* * * * * ** *
63178299 ACCATCCCTTTTCATAG-TTGATGGTCGTCACCATCCCTTTTCATAGTTTGATAGCTGAAGCTAT
1 ACCATCCCTTTCCATAGTTTGATGGTCATCACCATCCCTTTTAATAATTTGACAGCCAAAGCTAC
* * ** * * *
63178363 TCCTTTTCATATTTTTGATGGTCGTC
66 CCCTTTTCATA-GTTCAATGCTCATA
* * * *
63178389 ACCATCCCGTTT-CATAGTTTGATAGCCGA--AGCTATCCCTTTTAATAATTTGATAGCCAAAGC
1 ACCATCCC-TTTCCATAGTTTGATGGTC-ATCA-CCATCCCTTTTAATAATTTGACAGCCAAAGC
* * *
63178451 TATCCCTTTTCATAGTTCAATGGTCATC
63 TACCCCTTTTCATAGTTCAATGCTCATA
*
63178479 ACCATCCCTTTCCATAGTTTGATGGTCATCACCATCCCTTTTCATAATTTGACAGCCAAAGCTAC
1 ACCATCCCTTTCCATAGTTTGATGGTCATCACCATCCCTTTTAATAATTTGACAGCCAAAGCTAC
* * *
63178544 CCCTTTTCATGGTTCGATAGCTGA-A
66 CCCTTTTCATAGTTCAAT-GCTCATA
* *
63178569 ACTATCCCTTTTCATAGTT
1 ACCATCCCTTTCCATAGTT
63178588 CGATAGCTGA
Statistics
Matches: 165, Mismatches: 26, Indels: 16
0.80 0.13 0.08
Matches are distributed among these distances:
89 4 0.02
90 108 0.65
91 53 0.32
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (90 bp):
ACCATCCCTTTCCATAGTTTGATGGTCATCACCATCCCTTTTAATAATTTGACAGCCAAAGCTAC
CCCTTTTCATAGTTCAATGCTCATA
Found at i:63178609 original size:90 final size:90
Alignment explanation
Indices: 63178389--63178613 Score: 231
Period size: 90 Copynumber: 2.5 Consensus size: 90
63178379 GATGGTCGTC
* * * * * *
63178389 ACCATCCCGTTTCATAGTTTGATAGCCGAAGCTATCCCTTTTAATAATTTGATAGCCAAAGCTAT
1 ACCATCCCTTTTCATAGTTTGATAGCTGAATCTATCCCTTTTCATAATTTGACAGCCAAAGCTAC
* *
63178454 CCCTTTTCATAGTTCAATGGTCATC
66 CCCTTTTCATAGTTCAATGCTCATA
* * * *
63178479 ACCATCCCTTTCCATAGTTTGAT-GGT-CATCACCATCCCTTTTCATAATTTGACAGCCAAAGCT
1 ACCATCCCTTTTCATAGTTTGATAGCTGAAT--CTATCCCTTTTCATAATTTGACAGCCAAAGCT
* * *
63178542 ACCCCTTTTCATGGTTCGATAGCTGA-A
64 ACCCCTTTTCATAGTTCAAT-GCTCATA
* * * *
63178569 ACTATCCCTTTTCATAGTTCGATAGCTGAATTTATACCTTTTCAT
1 ACCATCCCTTTTCATAGTTTGATAGCTGAATCTATCCCTTTTCAT
63178614 TTGGTTGATG
Statistics
Matches: 107, Mismatches: 23, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
88 1 0.01
89 1 0.01
90 98 0.92
91 5 0.05
92 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.36
Consensus pattern (90 bp):
ACCATCCCTTTTCATAGTTTGATAGCTGAATCTATCCCTTTTCATAATTTGACAGCCAAAGCTAC
CCCTTTTCATAGTTCAATGCTCATA
Found at i:63188252 original size:43 final size:42
Alignment explanation
Indices: 63188205--63188303 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
63188195 TCCCAGACGT
*
63188205 GGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCTAAACAG
1 GGTCTTACATGTAATCAAATA-CGATGCCGA-TGTCCCAAACAG
* * * * *
63188248 GGTCTTATATGAAATCATATACGATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATACGATGCCGATGTCCCAAACAG
*
63188290 GGTCTTACACGTAA
1 GGTCTTACATGTAA
63188304 ATCACAAGTC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.59
43 19 0.41
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACGATGCCGATGTCCCAAACAG
Found at i:63188282 original size:42 final size:43
Alignment explanation
Indices: 63188205--63188342 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 43
63188195 TCCCAGACGT
* *
63188205 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAAACAG
1 GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAAACAG
* * * *
63188248 GGTCTTATATGAAATCATATA-CGATGCCGA-TGTCCCAGACAT
1 GGTCTTACATGAAATCAAATATCGATGCC-ACTGTCCCAAACAG
* * * * *
63188290 GGTCTTACACGTAAATCACAA-GTCGAAGCCCAC-GTCCCAGACAT
1 GGTCTTACATG-AAATCA-AATATCGATG-CCACTGTCCCAAACAG
63188334 GGTCTTACA
1 GGTCTTACA
63188343 CGATATCACA
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
42 25 0.32
43 25 0.32
44 26 0.33
45 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAAACAG
Found at i:63197181 original size:19 final size:19
Alignment explanation
Indices: 63197157--63197194 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
63197147 TACGATAAGT
63197157 AAGCCAAAAAGGGTATGAA
1 AAGCCAAAAAGGGTATGAA
63197176 AAGCCAAAAAGGGTATGAA
1 AAGCCAAAAAGGGTATGAA
63197195 TGATGAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.26, T:0.11
Consensus pattern (19 bp):
AAGCCAAAAAGGGTATGAA
Found at i:63204584 original size:19 final size:19
Alignment explanation
Indices: 63204548--63204586 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
63204538 TTTTCATCAT
* *
63204548 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
63204567 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
63204586 A
1 A
63204587 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:63205134 original size:28 final size:27
Alignment explanation
Indices: 63205046--63205135 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
63205036 GTGACAGAGT
* *
63205046 CACCAGATACTGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
63205075 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
63205102 TACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
63205130 CACCAG
1 CACCAG
63205136 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
27 22 0.45
28 20 0.41
29 7 0.14
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:63205288 original size:28 final size:28
Alignment explanation
Indices: 63205241--63205305 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
63205231 AAATTAACCC
*
63205241 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
63205269 TAGGGGTATAATGGTAATTTTGTATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
63205297 TAGGGGTAT
1 TAGGGGTAT
63205306 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:63212217 original size:19 final size:19
Alignment explanation
Indices: 63212181--63212219 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
63212171 TTTTCATCAT
* *
63212181 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
63212200 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
63212219 A
1 A
63212220 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:63212768 original size:28 final size:27
Alignment explanation
Indices: 63212682--63212771 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
63212672 GTGACAGAGT
* *
63212682 CACCAGATACTGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
63212711 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
63212738 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
63212766 CACCAG
1 CACCAG
63212772 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:63212924 original size:28 final size:28
Alignment explanation
Indices: 63212877--63212941 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
63212867 AAATTAACCC
*
63212877 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
63212905 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
63212933 TAGGGGTAT
1 TAGGGGTAT
63212942 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:63215809 original size:6 final size:6
Alignment explanation
Indices: 63215797--63215958 Score: 77
Period size: 6 Copynumber: 26.3 Consensus size: 6
63215787 AAGAAACATT
* *
63215797 ATCAGA A-CTAGA ATCAGA ATCAGA A-CTAGA ATCAG- GTGACAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATC-AGA ATCAGA AT--CAGA ATCAGA
* * * * * *
63215846 ATCAGA ATTAGA ATCAGA ATTAGGTA A-CAAA ATCAGA ATTAGT ATTAGGTA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
63215897 A-CAGA ATTAGA ATCAGA ACCAGA ATCAGA ATCAGTA A-CAGGTA A-CAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCA-G-A ATCAGA
*
63215945 ATCAGA ATTAGA AT
1 ATCAGA ATCAGA AT
63215959 GTGAATGGAA
Statistics
Matches: 121, Mismatches: 19, Indels: 32
0.70 0.11 0.19
Matches are distributed among these distances:
5 9 0.07
6 91 0.75
7 17 0.14
8 4 0.03
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:63215809 original size:18 final size:18
Alignment explanation
Indices: 63215776--63215827 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
63215766 GGCTTTAACC
63215776 CATTA-CAGAA-TAAGAAA
1 CATTATCAGAACT-AGAAA
*
63215793 CATTATCAGAACTAGAAT
1 CATTATCAGAACTAGAAA
**
63215811 CAGAATCAGAACTAGAA
1 CATTATCAGAACTAGAA
63215828 TCAGGTGACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.17
18 24 0.80
19 1 0.03
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.19
Consensus pattern (18 bp):
CATTATCAGAACTAGAAA
Found at i:63215849 original size:31 final size:31
Alignment explanation
Indices: 63215806--63215924 Score: 100
Period size: 31 Copynumber: 3.8 Consensus size: 31
63215796 TATCAGAACT
* *
63215806 AGAATCAGAATCAGAACTAGAATCAGGTGAC
1 AGAATCAAAATCAGAACTAGAATCAGGTAAC
* *
63215837 AGAATCAAAATCAGAATTAGAATCA-G-AATT
1 AGAATCAAAATCAGAACTAGAATCAGGTAA-C
* * *
63215867 AGGTAA-CAAAATCAGAATTAGTATTAGGTAAC
1 A-G-AATCAAAATCAGAACTAGAATCAGGTAAC
* * *
63215899 AGAATTAGAATCAGAACCAGAATCAG
1 AGAATCAAAATCAGAACTAGAATCAG
63215925 AATCAGTAAC
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
29 1 0.01
30 4 0.06
31 58 0.84
32 4 0.06
33 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAACTAGAATCAGGTAAC
Found at i:63215865 original size:37 final size:37
Alignment explanation
Indices: 63215808--63215880 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
63215798 TCAGAACTAG
* *
63215808 AATCAGAATCAGAACTAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAACTAGAATCAGGTAACAAAATCAA
* *
63215845 AATCAGAATTAGAA-TCAGAATTAGGTAACAAAATCA
1 AATCAGAATCAGAACT-AGAATCAGGTAACAAAATCA
63215881 GAATTAGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.03
37 30 0.97
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (37 bp):
AATCAGAATCAGAACTAGAATCAGGTAACAAAATCAA
Found at i:63215892 original size:25 final size:25
Alignment explanation
Indices: 63215855--63215914 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
63215845 AATCAGAATT
63215855 AGAATCAGAATTAGGTAACAAAATC
1 AGAATCAGAATTAGGTAACAAAATC
* * * *
63215880 AGAATTAGTATTAGGTAACAGAATT
1 AGAATCAGAATTAGGTAACAAAATC
63215905 AGAATCAGAA
1 AGAATCAGAA
63215915 CCAGAATCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.23
Consensus pattern (25 bp):
AGAATCAGAATTAGGTAACAAAATC
Found at i:63215901 original size:62 final size:61
Alignment explanation
Indices: 63215814--63215935 Score: 154
Period size: 62 Copynumber: 2.0 Consensus size: 61
63215804 CTAGAATCAG
* ** *
63215814 AATCAGAACTAGAATCAGGTGACAGAATCAAAATCAGAATTAGAATCAGAATTAGGTAACAA
1 AATCAGAACTAGAATCAGGTAACAGAATCAAAATCAGAACCAGAATCAGAATCA-GTAACAA
* * * * *
63215876 AATCAGAATTAGTATTAGGTAACAGAATTAGAATCAGAACCAGAATCAGAATCAGTAACA
1 AATCAGAACTAGAATCAGGTAACAGAATCAAAATCAGAACCAGAATCAGAATCAGTAACA
63215936 GGTAACAGAA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
61 6 0.12
62 45 0.88
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (61 bp):
AATCAGAACTAGAATCAGGTAACAGAATCAAAATCAGAACCAGAATCAGAATCAGTAACAA
Found at i:63215923 original size:43 final size:43
Alignment explanation
Indices: 63215876--63215957 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
63215866 TAGGTAACAA
* ** *
63215876 AATCAGAATTAGTATTAGGTAACAGAATTAGAATCAGAACCAG
1 AATCAGAATCAGTAACAGGTAACAGAATCAGAATCAGAACCAG
*
63215919 AATCAGAATCAGTAACAGGTAACAGAATCAGAATTAGAA
1 AATCAGAATCAGTAACAGGTAACAGAATCAGAATCAGAA
63215958 TGTGAATGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (43 bp):
AATCAGAATCAGTAACAGGTAACAGAATCAGAATCAGAACCAG
Found at i:63216102 original size:27 final size:26
Alignment explanation
Indices: 63216054--63216113 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
63216044 GCGAGGCTGC
*
63216054 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
63216081 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
63216107 CAGATAT
1 CAGATAT
63216114 ATATATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:63216120 original size:32 final size:33
Alignment explanation
Indices: 63216075--63216138 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
63216065 ACGAAGTCAC
* * *
63216075 CAGATACAGATA-TTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTTATGGCGAAGCCACCAGAA
* *
63216107 CAGATATATATATTTATGGCGAAGCCACCAGA
1 CAGATACAGATATTTATGGCGAAGCCACCAGA
63216139 TTGCAGCGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
32 10 0.38
33 16 0.62
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (33 bp):
CAGATACAGATATTTATGGCGAAGCCACCAGAA
Found at i:63216488 original size:27 final size:27
Alignment explanation
Indices: 63216466--63216699 Score: 236
Period size: 27 Copynumber: 8.7 Consensus size: 27
63216456 TTTACCCCAG
* *
63216466 AAGGGTATCTCGGTAATTCTACCTTA-
1 AAGGGTATTTCGGTAATTCTACCCTAC
* * *
63216492 TAGGAGTATTTCAGTAATTTTACCCTAC
1 AAGG-GTATTTCGGTAATTCTACCCTAC
* * * *
63216520 AGGGGTATTTCGATATTTCAACCCTAC
1 AAGGGTATTTCGGTAATTCTACCCTAC
* *
63216547 AAGGGTATTTCGGTAATTCTACCTTAT
1 AAGGGTATTTCGGTAATTCTACCCTAC
* **
63216574 AGGGGTATTTTAGTAATTCTACCCTAC
1 AAGGGTATTTCGGTAATTCTACCCTAC
* * * *
63216601 AGGGGTATTTTGGTATTTCTACCTTAC
1 AAGGGTATTTCGGTAATTCTACCCTAC
* * *
63216628 AGGGGTATTTTGGTATTTCTACCCTAC
1 AAGGGTATTTCGGTAATTCTACCCTAC
* *
63216655 AAGGGTATTTCGGCATTTCTACCCTAC
1 AAGGGTATTTCGGTAATTCTACCCTAC
*
63216682 AAGGGTATTTCGATAATT
1 AAGGGTATTTCGGTAATT
63216700 TTGTAAATCG
Statistics
Matches: 173, Mismatches: 33, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
26 3 0.02
27 168 0.97
28 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTCTACCCTAC
Found at i:63216574 original size:81 final size:80
Alignment explanation
Indices: 63216466--63216696 Score: 284
Period size: 81 Copynumber: 2.9 Consensus size: 80
63216456 TTTACCCCAG
*
63216466 AAGGGTATCTCGGTAATTCTACCTTATAGGAGTATTTCAGTAATTTTACCCTACAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCTTATAGG-GTATTTCAGTAATTTTACCCTACAGGGGTATTTC
63216531 GATATTTCAACCCTAC
65 GATATTTCAACCCTAC
* * *
63216547 AAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTT
1 AAGGGTATTTCGGTAATTCTACCTTATA-GGGTATTTCAGTAATTTTACCCTACAGGGGTATTTC
* * *
63216612 GGTATTTCTACCTTAC
65 GATATTTCAACCCTAC
* * * * * ** *
63216628 AGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTC-GGCATTTCTACCCTACAAGGGTATTT
1 AAGGGTATTTCGGTAATTCTACCTTA-TAGGGTATTTCAGTAATTT-TACCCTACAGGGGTATTT
63216692 CGATA
64 CGATA
63216697 ATTTTGTAAA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 4 0.03
81 121 0.95
82 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (80 bp):
AAGGGTATTTCGGTAATTCTACCTTATAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTCG
ATATTTCAACCCTAC
Found at i:63216713 original size:27 final size:26
Alignment explanation
Indices: 63216683--63216948 Score: 126
Period size: 27 Copynumber: 9.9 Consensus size: 26
63216673 CTACCCTACA
**
63216683 AGGGTATTTCGATAATTTTGTAAATCG
1 AGGGTATTTC-ATAATTTTACAAATCG
*** **
63216710 AGGGTAAAACAGTAATTTTGTAAATC-
1 AGGGTATTTCA-TAATTTTACAAATCG
** *
63216736 ACGGGTACTTTGGTAATTTTACAAGTCG
1 A-GGGTA-TTTCATAATTTTACAAATCG
*
63216764 AGGGTATTTCAATAATTTTACAAGTCG
1 AGGGTATTTC-ATAATTTTACAAATCG
* **
63216791 AGGGTATTTCAGTAATTTCACAAATTA
1 AGGGTATTTCA-TAATTTTACAAATCG
** *
63216818 AGGGTATTTTGGTAATTTTACAAA-CT
1 AGGGTA-TTTCATAATTTTACAAATCG
* *
63216844 AGAGGTATTTTGATAATTTTACAAA-CT
1 AG-GGTA-TTTCATAATTTTACAAATCG
** * *
63216871 AGGGGTATTTTGGTAATTTCACAAA-CT
1 A-GGGTA-TTTCATAATTTTACAAATCG
** * * *
63216898 AGAGGTATTTGGTAATTTTATAAACCA
1 AG-GGTATTTCATAATTTTACAAATCG
*
63216925 AGGGTATTTTAGTAATTTTACAAA
1 AGGGTATTTCA-TAATTTTACAAA
63216949 CTAAAGGTAT
Statistics
Matches: 196, Mismatches: 31, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
26 31 0.16
27 160 0.82
28 5 0.03
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (26 bp):
AGGGTATTTCATAATTTTACAAATCG
Found at i:63216768 original size:81 final size:80
Alignment explanation
Indices: 63216683--63216948 Score: 216
Period size: 81 Copynumber: 3.3 Consensus size: 80
63216673 CTACCCTACA
** *** *
63216683 AGGGTATTTCGATAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCACGGGTACTTTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAAGGGTACTTTG
*
63216748 GTAATTTTACAAGTCG
66 GTAATTTTACAA-ACG
* * *** * *
63216764 AGGGTATTTCAATAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATTAAGGGTATTTTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAAGGGTACTTTG
*
63216829 GTAATTTTACAAACT
66 GTAATTTTACAAACG
* * ***** *
63216844 AGAGGTATTTTGATAATTTTACAAA-CTAGGGGTATTTTGGTAATTTCACAAA-CTAGAGGTA-T
1 AG-GGTATTTCGATAATTTTACAAATCGA-GGGTAAAACAGTAATTTCACAAATCAAG-GGTACT
* *
63216906 TTGGTAATTTTATAAACCA
63 TTGGTAATTTTACAAA-CG
*
63216925 AGGGTATTT-TAGTAATTTTACAAA
1 AGGGTATTTCGA-TAATTTTACAAA
63216949 CTAAAGGTAT
Statistics
Matches: 154, Mismatches: 26, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
79 1 0.01
80 42 0.27
81 111 0.72
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAAGGGTACTTTG
GTAATTTTACAAACG
Found at i:63216949 original size:27 final size:27
Alignment explanation
Indices: 63216738--63217022 Score: 252
Period size: 27 Copynumber: 10.6 Consensus size: 27
63216728 TGTAAATCAC
* ** *
63216738 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
*** ** *
63216765 GGGTATTTCAATAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** * **
63216792 GGGTATTTCAGTAATTTCACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
63216819 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
63216845 GAGGTATTTTGATAATTTTACAAACTAG
1 G-GGTATTTTGGTAATTTTACAAACCAA
* *
63216873 GGGTATTTTGGTAATTTCACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
63216899 GAGGTA-TTTGGTAATTTTATAAACCAA
1 G-GGTATTTTGGTAATTTTACAAACCAA
* *
63216926 GGGTATTTTAGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
63216953 AGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * *
63216980 GGGTATTTTAGAAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
63217007 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
63217023 GGTAAACTAA
Statistics
Matches: 210, Mismatches: 43, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
26 22 0.10
27 187 0.89
28 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:63216949 original size:107 final size:108
Alignment explanation
Indices: 63216817--63217022 Score: 306
Period size: 107 Copynumber: 1.9 Consensus size: 108
63216807 TTCACAAATT
* * * *
63216817 AAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGATAATTTTACAAACTAGGGGTATTTT
1 AAGGGTATTTTAGTAATTTTACAAACTAAAGGTATTTTGATAATTTTACAAACCAAGGGTATTTT
* *
63216882 GGTAATTTCACAAACTAGAGGTA-TTTGGTAATTTTATAAACC
66 AGAAATTTCACAAACTAGAGGTATTTTGGTAATTTTATAAACC
* * *
63216924 AAGGGTATTTTAGTAATTTTACAAACTAAAGGTATTTTGGTGATTTTATAAACCAAGGGTATTTT
1 AAGGGTATTTTAGTAATTTTACAAACTAAAGGTATTTTGATAATTTTACAAACCAAGGGTATTTT
* *
63216989 AGAAATTTTACAAACTAGGGGTATTTTGGTAATT
66 AGAAATTTCACAAACTAGAGGTATTTTGGTAATT
63217023 GGTAAACTAA
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
107 77 0.89
108 10 0.11
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (108 bp):
AAGGGTATTTTAGTAATTTTACAAACTAAAGGTATTTTGATAATTTTACAAACCAAGGGTATTTT
AGAAATTTCACAAACTAGAGGTATTTTGGTAATTTTATAAACC
Found at i:63217030 original size:80 final size:79
Alignment explanation
Indices: 63216793--63217038 Score: 255
Period size: 80 Copynumber: 3.1 Consensus size: 79
63216783 ACAAGTCGAG
** * * *
63216793 GGTATTTCAGTAATTTCACAAATTAAGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGAT
1 GGTATTTTGGTAATTTCACAAA-CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
**
63216858 AATTTTACAAACTAGG
65 AATTTTA-AAACTAAA
* * * * *
63216874 GGTATTTTGGTAATTTCACAAACTAGAGGTA-TTTGGTAATTTTATAAACCAAGGGTATTTTAGT
1 GGTATTTTGGTAATTTCACAAACAAG-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
63216938 AATTTTACAAACTAAA
65 AATTTTA-AAACTAAA
* * * * *
63216954 GGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGAAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTCACAAA-CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
*
63217019 AATTGGT-AAACTAAA
65 AATT-TTAAAACTAAA
63217034 -GTATT
1 GGTATT
63217039 CTAAACAGGG
Statistics
Matches: 138, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
79 5 0.04
80 74 0.54
81 58 0.42
82 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (79 bp):
GGTATTTTGGTAATTTCACAAACAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTA
ATTTTAAAACTAAA
Found at i:63219846 original size:59 final size:61
Alignment explanation
Indices: 63219781--63219895 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 61
63219771 ATCACTTTAA
* * * *
63219781 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTG-AATTTAATATTAAATAT
1 TATTAAAATAATAGAATATTTACTACAAGATAAACATTA-AATGAAATTTAATATTAAATAT
*
63219840 TATTAAAATAATAGAATGTTTATCTACAAGATAAACATTAAATGAAATTTAATATT
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAACATTAAATGAAATTTAATATT
63219896 TGTTGGGATC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 19 0.40
61 4 0.09
62 24 0.51
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATGAAATTTAATATTAAATAT
Found at i:63221570 original size:43 final size:43
Alignment explanation
Indices: 63221522--63221608 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
63221512 TGTGACTTAA
63221522 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGGAAAATAAGGT
1 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGGAAAATAAGGT
63221565 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGGAAAATAAGGT
1 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGGAAAATAAGGT
63221608 T
1 T
63221609 TTCTCCATCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (43 bp):
TCGTATAAAAAGTTTCTAACCTTTTCCACAAGGAAAATAAGGT
Found at i:63223488 original size:60 final size:60
Alignment explanation
Indices: 63223395--63223509 Score: 221
Period size: 60 Copynumber: 1.9 Consensus size: 60
63223385 TTGAGATACG
*
63223395 AATTCCATTGTTGCTAGTAAAGCCATGCCATATACAAGTCATGTACCTAACATACCGACA
1 AATTCCATTGTTGCTAGTAAAGCCATGCCATATACAAGTCATGTACCCAACATACCGACA
63223455 AATTCCATTGTTGCTAGTAAAGCCATGCCATATACAAGTCATGTACCCAACATAC
1 AATTCCATTGTTGCTAGTAAAGCCATGCCATATACAAGTCATGTACCCAACATAC
63223510 TGACTATGGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (60 bp):
AATTCCATTGTTGCTAGTAAAGCCATGCCATATACAAGTCATGTACCCAACATACCGACA
Found at i:63229246 original size:28 final size:28
Alignment explanation
Indices: 63229183--63229336 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
63229173 ATATTAAGTC
* *
63229183 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
63229210 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
63229238 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
63229266 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
63229294 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
63229322 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63229337 GTACAATTTA
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 21 0.17
28 100 0.83
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:63231060 original size:14 final size:14
Alignment explanation
Indices: 63231027--63231053 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63231017 TTGGGGATTA
63231027 AGTGTTAATAAGAG
1 AGTGTTAATAAGAG
63231041 AGTGTTAATAAGA
1 AGTGTTAATAAGA
63231054 AGGTGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (14 bp):
AGTGTTAATAAGAG
Found at i:63231678 original size:27 final size:27
Alignment explanation
Indices: 63231648--63232099 Score: 387
Period size: 27 Copynumber: 17.0 Consensus size: 27
63231638 CCCCATAGGG
63231648 TAAAATGACTATTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* *
63231675 TAAAGTGACAATTTTGCCC--ATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
63231700 TAAAATGACGATTTTGCCCTTATATGA
1 TAAAATGACTATTTTGCCCTTATGTGT
** * * *
63231727 TAAAATGACGGTTTT-ACCGTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGT
* *
63231753 CAAAATGACTATTTTACCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
*
63231780 CAAAATGACT-TTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
63231806 TAAAATTACAATTTTGCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
63231833 TAAAATGACGATTTTGCCCTTATGGGG
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
63231860 CAAAATGACTGTTTTGCGC-T-TGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
63231885 CAAAATGGCTGTTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
63231912 TAAAATGACAATTTTGCCCTCATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGT
* * * * *
63231939 TAAAATTA-TAGTTTTGCCTTTTTATGG
1 TAAAATGACTA-TTTTGCCCTTATGTGT
* * * *
63231966 AAAAATAAATGTTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
** * *
63231993 TAAAATGACGGTTCTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGT
* * * *
63232020 TAAAATGACAATTTTTCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGTGT
*
63232047 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGT
** * * *
63232074 TAGGATGATTATTTTTCCCCTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
63232100 ATGTATGTTT
Statistics
Matches: 344, Mismatches: 73, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
25 43 0.12
26 44 0.13
27 256 0.74
28 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGT
Found at i:63231786 original size:80 final size:80
Alignment explanation
Indices: 63231648--63231876 Score: 212
Period size: 80 Copynumber: 2.9 Consensus size: 80
63231638 CCCCATAGGG
* * * ** * * * *
63231648 TAAAATGACTATTTTGCCCTTATGTGTTAAAGTGACAATTTTGCCC--ATGTGTTAAAATGACGA
1 TAAAATGACAATTTTGACCGTATGTGACAAAATGACGATTTTACCCTTATGTGTCAAAATGACG-
63231711 TTTTGCCCTTATATGA
65 TTTTGCCCTTATATGA
** * * *
63231727 TAAAATGACGGTTTT-ACCGTATGTGGCAAAATGACTATTTTACCCTTATGTGTCAAAATGACTT
1 TAAAATGACAATTTTGACCGTATGTGACAAAATGACGATTTTACCCTTATGTGTCAAAATGACGT
* *
63231791 TTTGCCCTTATGTGT
66 TTTGCCCTTATATGA
* * * * * * *
63231806 TAAAATTACAATTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGGGGCAAAATGACTG
1 TAAAATGACAATTTTGACCGTATGTGACAAAATGACGATTTTACCCTTATGTGTCAAAATGAC-G
63231871 TTTTGC
65 TTTTGC
63231877 GCTTGTGTCA
Statistics
Matches: 121, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
78 23 0.19
79 39 0.32
80 53 0.44
81 6 0.05
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (80 bp):
TAAAATGACAATTTTGACCGTATGTGACAAAATGACGATTTTACCCTTATGTGTCAAAATGACGT
TTTGCCCTTATATGA
Found at i:63231821 original size:106 final size:107
Alignment explanation
Indices: 63231649--63232073 Score: 432
Period size: 106 Copynumber: 4.0 Consensus size: 107
63231639 CCCATAGGGT
* * * *
63231649 AAAATGACTATTTTGCCCTTATGTGTTAAAGTGACAATTTTGCCC--ATGTGTTAAAATGACGAT
1 AAAATGACTATTTTGCCCTTATGTGTCAAAATGACATTTTTGCCCTTATGTGTTAAAATGACAAT
*
63231712 TTTGCCCTTATATGATAAAATGACGGTTTTACCGTATGTGGC
66 TTTGCCCTTATATGATAAAATGACGGTTTTACCTTATGTGGC
* *
63231754 AAAATGACTATTTTACCCTTATGTGTCAAAATGAC-TTTTTGCCCTTATGTGTTAAAATTACAAT
1 AAAATGACTATTTTGCCCTTATGTGTCAAAATGACATTTTTGCCCTTATGTGTTAAAATGACAAT
* * * *
63231818 TTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGGGGC
66 TTTGCCCTTATATGATAAAATGACGGTTTT-ACCTTATGTGGC
* * *
63231861 AAAATGACTGTTTTGCGC-T-TGTGTCAAAATGGC-TGTTTTGCCCTTATGTGTTAAAATGACAA
1 AAAATGACTATTTTGCCCTTATGTGTCAAAATGACAT-TTTTGCCCTTATGTGTTAAAATGACAA
* * * ** * * * *
63231923 TTTTGCCCTCATGTGATAAAATTATAGTTTTGCCTTTTTATGGA
65 TTTTGCCCTTATATGATAAAATGACGGTTTTACC-TTATGTGGC
* * * * ** * *
63231967 AAAATAAATGTTTTGCCCTTATGTGTTAAAATGACGGTTCTGCCCTTATGTGGTAAAATGACAAT
1 AAAATGACTATTTTGCCCTTATGTGTCAAAATGACATTTTTGCCCTTATGTGTTAAAATGACAAT
* * ** *
63232032 TTTTCCCTTATGA-GGTAAAATGACTATTTTGCCCTTATGTGG
66 TTTGCCCTTAT-ATGATAAAATGACGGTTTT-ACCTTATGTGG
63232074 TAGGATGATT
Statistics
Matches: 265, Mismatches: 45, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
104 8 0.03
105 48 0.18
106 117 0.44
107 25 0.09
108 65 0.25
109 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (107 bp):
AAAATGACTATTTTGCCCTTATGTGTCAAAATGACATTTTTGCCCTTATGTGTTAAAATGACAAT
TTTGCCCTTATATGATAAAATGACGGTTTTACCTTATGTGGC
Found at i:63232484 original size:18 final size:18
Alignment explanation
Indices: 63232423--63232497 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
63232413 AGCACTTGCA
*
63232423 TACTGTTTACTGTTATTG
1 TACTGTTTACTGTTACTG
* * *
63232441 CATAATG-TTACTGCTGCTG
1 --TACTGTTTACTGTTACTG
* * *
63232460 CACTGTTTAGTGTTATTG
1 TACTGTTTACTGTTACTG
63232478 TACTGTTTACTGTTACTG
1 TACTGTTTACTGTTACTG
63232496 TA
1 TA
63232498 ATGGGCCAAG
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
17 3 0.07
18 25 0.61
19 9 0.22
20 4 0.10
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (18 bp):
TACTGTTTACTGTTACTG
Found at i:63232615 original size:33 final size:34
Alignment explanation
Indices: 63232570--63232636 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
63232560 ATTGCCACTG
* *
63232570 TTACTGATATGGGCTTAGGCCCT-ACTGATACTA
1 TTACTGATATGGGCTAAGGCCCTAACTGAAACTA
63232603 TTACTGCA-ATGGGCTAAGGCCCTAACTGAAACTA
1 TTACTG-ATATGGGCTAAGGCCCTAACTGAAACTA
63232637 AAAGGGCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 20 0.67
34 10 0.33
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (34 bp):
TTACTGATATGGGCTAAGGCCCTAACTGAAACTA
Found at i:63235257 original size:24 final size:24
Alignment explanation
Indices: 63235216--63235277 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
63235206 GCAAAGGCTA
* * *
63235216 AAAAGCTGAAAACCCGAACCGCTG
1 AAAAGCCGAAAAGCCGAAACGCTG
* * *
63235240 AAAAGCCGAAAAGTCGAAAGGTTG
1 AAAAGCCGAAAAGCCGAAACGCTG
63235264 AAAAGCCGAAAAGC
1 AAAAGCCGAAAAGC
63235278 GGGTTGTCGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.47, C:0.21, G:0.24, T:0.08
Consensus pattern (24 bp):
AAAAGCCGAAAAGCCGAAACGCTG
Found at i:63235722 original size:27 final size:27
Alignment explanation
Indices: 63235692--63236116 Score: 320
Period size: 27 Copynumber: 16.0 Consensus size: 27
63235682 TCCCATAGGG
*
63235692 TAAAATGACTGTTTTGCCCTTATATGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
63235719 TAAAATGAC-GATTTT-CCCTTATGTGT
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* *
63235745 TAAAATGA-TGATTTTGCCCGTATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGT
*
63235772 TAAAATGA-TGGTTTTG-CC--ATGTGG
1 TAAAATGACT-GTTTTGCCCTTATGTGT
* * *
63235796 CAAAATGACTGTCTTT-CCCTTATATTT
1 TAAAATGACTGT-TTTGCCCTTATGTGT
*
63235823 TAAAATGA-TGATTTTGCCCTTATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* * * *
63235850 TAAAATGACGGTTTTTCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
63235877 CAAAATGAATGTTTTACCCTTATGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
*
63235904 CAAAATGACTGTTTTTG-CCTTATGTGT
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* * *
63235931 TAACAT-AATGATTTTGCCCTTATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGT
** * *
63235958 TAAAATGACAATTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
63235985 CAAAATGATTGTTTTG-CCTT-GGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
63236010 TAAAATGACGGATTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGT
** * * *
63236037 TAAAATGACAATTTTTCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* *
63236064 TAAAATGACTAATTTT-CCCTTATGTGG
1 TAAAATGACT-GTTTTGCCCTTATGTGT
** * *
63236091 TAGGATGACTATTTTGCCCCTATGTG
1 TAAAATGACTGTTTTGCCCTTATGTG
63236117 ATGTATGTTT
Statistics
Matches: 320, Mismatches: 59, Indels: 38
0.77 0.14 0.09
Matches are distributed among these distances:
24 14 0.04
25 21 0.07
26 53 0.17
27 220 0.69
28 12 0.04
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGT
Found at i:63235910 original size:81 final size:81
Alignment explanation
Indices: 63235692--63236118 Score: 360
Period size: 81 Copynumber: 5.3 Consensus size: 81
63235682 TCCCATAGGG
* * * * *
63235692 TAAAATGACTGTTTTGCCCTTATATGTTAAAATG-ACGATTTTCCCTTATGTGTTAAAATGA-TG
1 TAAAATGACGGTTTTGCCCTTATGTGATAAAATGAATG-TTTTCCCTTATGTGTCAAAATGACTG
*
63235755 ATTTTGCCCGTATGTGA
65 ATTTTGCCCTTATGTGA
* ** * * * *
63235772 TAAAATGATGGTTTTG-CC--ATGTGGCAAAATGACTGTCTTTCCCTTATATTTTAAAATGA-TG
1 TAAAATGACGGTTTTGCCCTTATGTGATAAAATGAATGT-TTTCCCTTATGTGTCAAAATGACTG
63235833 ATTTTGCCCTTATGTGA
65 ATTTTGCCCTTATGTGA
* * **
63235850 TAAAATGACGGTTTTTCCCTTATATGGCAAAATGAATGTTTTACCCTTATGTGTCAAAATGACTG
1 TAAAATGACGGTTTTGCCCTTATGTGATAAAATGAATGTTTT-CCCTTATGTGTCAAAATGACTG
* *
63235915 TTTTTG-CCTTATGTGT
65 ATTTTGCCCTTATGTGA
* * * * * *
63235931 TAACATAATGATTTTGCCCTTATGTGATAAAATGACAAT-TTTTCCCTTATGTGGCAAAATGATT
1 TAAAATGACGGTTTTGCCCTTATGTGATAAAATG--AATGTTTTCCCTTATGTGTCAAAATGACT
* *
63235995 G-TTTTG-CCTT-GGTGT
64 GATTTTGCCCTTATGTGA
* *
63236010 TAAAATGACGGATTTGCCCTTATGTGATAAAATGACAAT-TTTTCCCTTATGAGGT-AAAATGAC
1 TAAAATGACGGTTTTGCCCTTATGTGATAAAATG--AATGTTTTCCCTTATG-TGTCAAAATGAC
* *
63236073 TAATTTT-CCCTTATGTGG
63 TGATTTTGCCCTTATGTGA
** ** *
63236091 TAGGATGACTATTTTGCCCCTATGTGAT
1 TAAAATGACGGTTTTGCCCTTATGTGAT
63236119 GTATGTTTAT
Statistics
Matches: 287, Mismatches: 47, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
77 11 0.04
78 53 0.18
79 62 0.22
80 35 0.12
81 112 0.39
82 11 0.04
83 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (81 bp):
TAAAATGACGGTTTTGCCCTTATGTGATAAAATGAATGTTTTCCCTTATGTGTCAAAATGACTGA
TTTTGCCCTTATGTGA
Found at i:63238785 original size:180 final size:180
Alignment explanation
Indices: 63238478--63238837 Score: 603
Period size: 180 Copynumber: 2.0 Consensus size: 180
63238468 AAATCATATT
** * *
63238478 CTTGTATTTAAAGTACATTTTCATAATAATTTGTCCCGAGTTCAGACTATTTCATGTCAGAAGTT
1 CTTGTATTTAAAGTACATTTTCATAATAATTCATCCCGAGTTCAAACTATTTCATGTCAGAACTT
* * *
63238543 TGCCCATTAAATCATTTGAAATGTTAGTGTCACACAGGTAGTACGCTAAAGGTGTTCAAATCTAT
66 TGCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACACTAAAGGTGTACAAATCTAT
63238608 GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
131 GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
* *
63238658 CTTGTATTTAAAGTACATTTTCATAATAATTCATCTCGAGTTTAAACTATTTCATGTCAGAACTT
1 CTTGTATTTAAAGTACATTTTCATAATAATTCATCCCGAGTTCAAACTATTTCATGTCAGAACTT
* * *
63238723 TTCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACATTCAAGGTGTACAAATCTAT
66 TGCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACACTAAAGGTGTACAAATCTAT
*
63238788 GATCATGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
131 GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
63238838 ATCTCATATT
Statistics
Matches: 167, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
180 167 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (180 bp):
CTTGTATTTAAAGTACATTTTCATAATAATTCATCCCGAGTTCAAACTATTTCATGTCAGAACTT
TGCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACACTAAAGGTGTACAAATCTAT
GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
Found at i:63239239 original size:23 final size:23
Alignment explanation
Indices: 63239194--63239244 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
63239184 CAGATAACCA
*
63239194 AATATCGGGAAGTTCAAGCGAGC
1 AATATCGGGAAGTTCAAGAGAGC
*
63239217 AATATCTGGAAGCTTC-AGAGAGC
1 AATATCGGGAAG-TTCAAGAGAGC
*
63239240 CATAT
1 AATAT
63239245 AATAAGGCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (23 bp):
AATATCGGGAAGTTCAAGAGAGC
Found at i:63245864 original size:25 final size:25
Alignment explanation
Indices: 63245836--63245928 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 25
63245826 AACCCTCTCT
*
63245836 TGAGCCATATAATAGGAAGCTCATG
1 TGAGCCATATAATAGGAAGCTCATA
* *
63245861 TGAGCCATGTAATAGGAAGC-CTATC
1 TGAGCCATATAATAGGAAGCTC-ATA
* * * *
63245886 TGGGCTATATAATGGGAAGCTTATA
1 TGAGCCATATAATAGGAAGCTCATA
* *
63245911 AGAGCCATA-ATTAGGAAG
1 TGAGCCATATAATAGGAAG
63245929 TTCACGAAGA
Statistics
Matches: 53, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
24 8 0.15
25 45 0.85
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (25 bp):
TGAGCCATATAATAGGAAGCTCATA
Found at i:63246167 original size:64 final size:64
Alignment explanation
Indices: 63246061--63246180 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 64
63246051 TCTGGAGAGC
* * ** * *
63246061 CATATAATAGGATGCTCATAAAGAGTTACGGTATGCCCGCAACACATGCATGATCACTACCAAT
1 CATATAATAGAATGCTCAAAAAGACCTACGGTATGCCCGCAACACATCCAGGATCACTACCAAT
* * *
63246125 CATATAATAGAATGCTTAAAAAGACCTACGGTATGTCTGCAACACATCCAGGATCA
1 CATATAATAGAATGCTCAAAAAGACCTACGGTATGCCCGCAACACATCCAGGATCA
63246181 ATAGTGATCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (64 bp):
CATATAATAGAATGCTCAAAAAGACCTACGGTATGCCCGCAACACATCCAGGATCACTACCAAT
Found at i:63254891 original size:21 final size:21
Alignment explanation
Indices: 63254843--63254891 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
63254833 AATAATTTTC
*
63254843 ATTTTTT-TTTCATGTTCAAG
1 ATTTTTTATTTCATGTACAAG
*
63254863 TTTTTTTATTTCAT-TACAAG
1 ATTTTTTATTTCATGTACAAG
63254883 ATTTCTTTA
1 ATTT-TTTA
63254892 CTCCATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.61
Consensus pattern (21 bp):
ATTTTTTATTTCATGTACAAG
Found at i:63267014 original size:48 final size:48
Alignment explanation
Indices: 63266915--63267128 Score: 231
Period size: 48 Copynumber: 4.5 Consensus size: 48
63266905 ATTGATATGT
* *
63266915 CCATGTCTGGGACATGGCATTGGCCACATT---ATGA-AGCCAGTGTAAGA
1 CCATGTCTGGGACATGGCA-T--CGACATTGAGATGAGAGCTAGTGTAAGA
*
63266962 CCATGT-TCGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGA
1 CCATGTCT-GGGACATGGCATCGACATTGAGATGAGAGCTAGTGTAAGA
* * * * * * *
63267010 CCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAGA
1 CCATGTCTGGGACATGGCATCGACATTGAGATGAGAGCTAGTGTAAGA
* * **
63267058 CCATGTCTAGTACATGGCATCGGTATTGAGATGAGAGCTAGTGTAAGA
1 CCATGTCTGGGACATGGCATCGACATTGAGATGAGAGCTAGTGTAAGA
63267106 CCATGTCTGGGACATGGCATCGA
1 CCATGTCTGGGACATGGCATCGA
63267129 TTTCGACTTT
Statistics
Matches: 138, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
44 6 0.04
46 2 0.01
47 20 0.14
48 109 0.79
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
CCATGTCTGGGACATGGCATCGACATTGAGATGAGAGCTAGTGTAAGA
Found at i:63267078 original size:96 final size:94
Alignment explanation
Indices: 63266915--63267177 Score: 316
Period size: 96 Copynumber: 2.8 Consensus size: 94
63266905 ATTGATATGT
* *
63266915 CCATGTCTGGGACATGGCATTGGC-C-ACATTATGAAGCCAGTGTAAGACCATGTTCGGGACATG
1 CCATGTCTGGGACATGGCATCGGCTCGACA-TATG-AGCCAGTGTAAGACCATGTT-GGAACATG
63266978 GCATCGACATTGAGACGAGAGCTAGTGTAAGA
63 GCATCGACATTGAGACGAGAGCTAGTGTAAGA
* * * *
63267010 CCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAGACCATGTCTAGTACATGG
1 CCATGTCTGGGACATGGCATCGG-CTCGACATATGAGCCAGTGTAAGACCATGT-TGGAACATGG
** *
63267075 CATCGGTATTGAGATGAGAGCTAGTGTAAGA
64 CATCGACATTGAGACGAGAGCTAGTGTAAGA
** * * *
63267106 CCATGTCTGGGACATGGCATCGATTTCGACTTTTG-GCCAGTGTAAAACCATGTTTGGAACATGG
1 CCATGTCTGGGACATGGCATCG-GCTCGACATATGAGCCAGTGTAAGACCATG-TTGGAACATGG
63267170 CATCGACA
64 CATCGACA
63267178 ATTCACCTTC
Statistics
Matches: 144, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
95 51 0.35
96 85 0.59
97 5 0.03
98 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (94 bp):
CCATGTCTGGGACATGGCATCGGCTCGACATATGAGCCAGTGTAAGACCATGTTGGAACATGGCA
TCGACATTGAGACGAGAGCTAGTGTAAGA
Found at i:63274642 original size:48 final size:48
Alignment explanation
Indices: 63274587--63274958 Score: 264
Period size: 48 Copynumber: 7.8 Consensus size: 48
63274577 TGATATGTGT
* ** * *
63274587 GCTAGTGTAGGACCATGTTTGAAACATGACATCGGCAATGTTGTGAGA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAATGTTATGAGA
** * * * * * * * *
63274635 GCTAGTGTAAGATTATGTCTGGGAAATGACATTGGCATTGATATGTGC
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAATGTTATGAGA
** * * *
63274683 GCTAGTGTAAGACCATGTCCGAGACATGGCATCGGCCATGTTATGAAA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAATGTTATGAGA
* * * * ** *
63274731 GCCAATGTAAGACCATGTTTGGGATATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAATGTTATGAGA
* ** *
63274779 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTCGACATGTGA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAAT-GTTATGAGA
* * * * * * * **
63274827 GCCACTGTACGACCATGTCTAGGACATGGCATCGGTATTGAGACT-AGA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAATGTTA-TGAGA
* * * ** *
63274875 GATAGTGTAAGACCATGTTTGGGACATGGCATTGGC-CTCGACATGTGA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAAT-GTTATGAGA
* *
63274923 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC
63274959 TACTCATCCT
Statistics
Matches: 250, Mismatches: 69, Indels: 10
0.76 0.21 0.03
Matches are distributed among these distances:
47 3 0.01
48 245 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAATGTTATGAGA
Found at i:63274687 original size:96 final size:96
Alignment explanation
Indices: 63274577--63274906 Score: 295
Period size: 96 Copynumber: 3.4 Consensus size: 96
63274567 GACATTTGGG
* * * * * * * *
63274577 TGATATGTGTGCTAGTGTAGGACCATGTTTGAAACATGACATCGGCAATGTTGTGAGAGCTAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTTTGAGACATGGCATCGGCAATGTTATGAAAGCCAATG
** *
63274642 TAAGATTATGTCTGGGAAATGACATTGGCAT
66 TAAGACCATGTCTGGGAAATGACATCGGCAT
* ** *
63274673 TGATATGTGCGCTAGTGTAAGACCATGTCCGAGACATGGCATCGGCCATGTTATGAAAGCCAATG
1 TGATATGTGAGCTAGTGTAAGACCATGTTTGAGACATGGCATCGGCAATGTTATGAAAGCCAATG
* * *
63274738 TAAGACCATGTTTGGGATATGGCATCGGCAT
66 TAAGACCATGTCTGGGAAATGACATCGGCAT
* * * * * ** ** *
63274769 TGAGACGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTCGACATGTGAGCCACT
1 TGATATGTGAGCTAGTGTAAGACCATGTTTGAGACATGGCATCGGCAAT-GTTATGAAAGCCAAT
* * * * *
63274833 GTACGACCATGTCTAGGACATGGCATCGGTAT
65 GTAAGACCATGTCTGGGAAATGACATCGGCAT
* * * *
63274865 TGAGACT-AGAGATAGTGTAAGACCATGTTTGGGACATGGCAT
1 TGATA-TGTGAGCTAGTGTAAGACCATGTTTGAGACATGGCAT
63274907 TGGCCTCGAC
Statistics
Matches: 195, Mismatches: 37, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
95 1 0.01
96 194 0.99
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (96 bp):
TGATATGTGAGCTAGTGTAAGACCATGTTTGAGACATGGCATCGGCAATGTTATGAAAGCCAATG
TAAGACCATGTCTGGGAAATGACATCGGCAT
Found at i:63274857 original size:144 final size:143
Alignment explanation
Indices: 63274631--63274958 Score: 338
Period size: 144 Copynumber: 2.3 Consensus size: 143
63274621 GCAATGTTGT
** * * * * * * * * *
63274631 GAGAGCTAGTGTAAGATTATGTCTGGGAAATGACATTGGCATTGATATGTGCGCTAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGAGCCACTGTAAGAC
* * * *
63274696 CATGTCCGAGACATGGCATCGGCCATGTTATGA-A-AGCCAATGTAAGACCATGTTTGGGATATG
66 CATGTCAGAGACATGGCATCGG-CAT-TGA-GACAGAGACAATGTAAGACCATGTTTGGGACATG
* *
63274759 GCATCGGCATTGAGAC
128 GCATCGGCATCGACAC
* *
63274775 GAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCACTGTACGAC
1 GAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGAGCCACTGTAAGAC
* * *
63274840 CATGTCTAG-GACATGGCATCGGTATTGAGACTAGAGATAGTGTAAGACCATGTTTGGGACATGG
66 CATGTC-AGAGACATGGCATCGGCATTGAGAC-AGAGACAATGTAAGACCATGTTTGGGACATGG
* * *
63274904 CATTGGCCTCGACAT
129 CATCGGCATCGACAC
* * *
63274919 GTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC
63274959 TACTCATCCT
Statistics
Matches: 152, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
141 2 0.01
142 2 0.01
143 3 0.02
144 144 0.95
145 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (143 bp):
GAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCGACATGTGAGCCACTGTAAGAC
CATGTCAGAGACATGGCATCGGCATTGAGACAGAGACAATGTAAGACCATGTTTGGGACATGGCA
TCGGCATCGACAC
Found at i:63274912 original size:96 final size:95
Alignment explanation
Indices: 63274685--63274958 Score: 352
Period size: 96 Copynumber: 2.9 Consensus size: 95
63274675 ATATGTGCGC
** * ** **
63274685 TAGTGTAAGACCATGTCCGAGACATGGCATCGGCCAT-GTTATGAAAGCCAATGTAAGACCATGT
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCC-TCGACATGTGAGCCAATGTAAGACCATG-
* * *
63274749 TTGGGATATGGCATCGGCATTGAGACGAGAGC
64 TTAGGACATGGCATCGGCATTGAGACGAGAGA
* *
63274781 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCACTGTACGACCATGTC
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAGACCATGT-
* *
63274846 TAGGACATGGCATCGGTATTGAGACTAGAGA
65 TAGGACATGGCATCGGCATTGAGACGAGAGA
* *
63274877 TAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGACATGTGAGCCAGTGTAAGACCATGTT
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAGACCATGTT
*
63274942 TGGAACATGGCATCGGC
66 AGG-ACATGGCATCGGC
63274959 TACTCATCCT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
95 5 0.03
96 151 0.97
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (95 bp):
TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAGACCATGTT
AGGACATGGCATCGGCATTGAGACGAGAGA
Found at i:63287092 original size:20 final size:21
Alignment explanation
Indices: 63287054--63287093 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63287044 GTTAAGAAGA
*
63287054 CACATGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
63287075 CACACGGGCGTG-TGCCCTT
1 CACACGGGCGTGTTGCCCTT
63287094 GTCAGCTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:63288859 original size:43 final size:41
Alignment explanation
Indices: 63288774--63288893 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 41
63288764 AGGGTAACTA
*
63288774 AGATTACGTGTAAGACCATATCTGAGATATGGCATCAATATG
1 AGATTACGTGTAAGACCATAT-TGGGATATGGCATCAATATG
* * *
63288816 AGACTT-TGTGTAAGACCATAGTTGGGTTATTGGCATCGATATG
1 AGA-TTACGTGTAAGACCATA-TTGGGATA-TGGCATCAATATG
*
63288859 AGATTACATGTAAGACCATATTTGGGATATGGCAT
1 AGATTACGTGTAAGACCATA-TTGGGATATGGCAT
63288894 TGGCATGGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 29 0.44
43 37 0.56
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (41 bp):
AGATTACGTGTAAGACCATATTGGGATATGGCATCAATATG
Found at i:63295778 original size:43 final size:42
Alignment explanation
Indices: 63295674--63295791 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
63295664 AGGGTTACTA
*
63295674 AGATTACATGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGATTACATGTAAGACCATAACTGGGATATGGCATCGATATG
* *
63295716 AGGCTT-CATGTAAGACCATAACTGGGCTATTGGCATCGATATG
1 A-GATTACATGTAAGACCATAACTGGGATA-TGGCATCGATATG
* *
63295759 AGATTACATAG-AAGTCCATACCTGGGATATGGC
1 AGATTACAT-GTAAGACCATAACTGGGATATGGC
63295792 TTTGGTATGG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 29 0.45
43 35 0.54
44 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
AGATTACATGTAAGACCATAACTGGGATATGGCATCGATATG
Found at i:63298131 original size:16 final size:16
Alignment explanation
Indices: 63298112--63298143 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
63298102 AATTGTTTTA
63298112 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
63298128 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
63298144 ATTCCATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Done.