Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 154 of 253
Found at i:49504449 original size:40 final size:39
Alignment explanation
Indices: 49504260--49504442 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 39
49504250 GAATGATGTT
* * *
49504260 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AAC
* *
49504300 CGGACTAAGGT-CCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAA-GTCCCGAAGGCATTTGTGCGAGTTACTAA-AC
* *
49504340 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-C
*
49504379 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAC
*
49504419 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
49504443 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 11 0.09
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAC
Found at i:49504464 original size:79 final size:78
Alignment explanation
Indices: 49504292--49504465 Score: 210
Period size: 79 Copynumber: 2.2 Consensus size: 78
49504282 GTGCTAAGTG
* *
49504292 ACTATATCCGGACTAAGGTCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAGGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
49504357 CATTGGTGCGAGTC
65 CATTGGAACGAGTC
* *
49504371 ACTAAATCCGGGTTAA-GTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGA
1 ACTATATCC-GGTTAAGGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGA
*
49504434 AGGCATTTGAACGAGT-
62 AGGCATTGGAACGAGTC
49504450 AGCTATATCCGGTTAA
1 A-CTATATCCGGTTAA
49504466 ATTTCGAAGG
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
78 4 0.05
79 51 0.62
80 27 0.33
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
ACTATATCCGGTTAAGGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGC
ATTGGAACGAGTC
Found at i:49511806 original size:30 final size:30
Alignment explanation
Indices: 49511772--49511834 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
49511762 TCACCATTCA
* *
49511772 TTTTCATAAATT-GATAGCTGAAGCTATCCC
1 TTTTCAT-AATTCGATAGCCGAAGCTACCCC
49511802 TTTTCATAATTCGATAGCCGAAGCTACCCC
1 TTTTCATAATTCGATAGCCGAAGCTACCCC
49511832 TTT
1 TTT
49511835 GAATTGTTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (30 bp):
TTTTCATAATTCGATAGCCGAAGCTACCCC
Found at i:49511905 original size:30 final size:30
Alignment explanation
Indices: 49511844--49511935 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 30
49511834 TGAATTGTTC
* * *
49511844 GATGGTCGTCACCATCCTTTTTCATTA-TT
1 GATGGTCGTCACAATCCCTTTTCATAATTT
49511873 GATGGTCGTCACAATCCCTTTTCATAATTT
1 GATGGTCGTCACAATCCCTTTTCATAATTT
* * *** *
49511903 GATAGTTGAGGCTATCCCTTTTCATAATTT
1 GATGGTCGTCACAATCCCTTTTCATAATTT
49511933 GAT
1 GAT
49511936 ACCTGAAGCT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 24 0.45
30 29 0.55
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (30 bp):
GATGGTCGTCACAATCCCTTTTCATAATTT
Found at i:49511936 original size:30 final size:30
Alignment explanation
Indices: 49511886--49511957 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
49511876 GGTCGTCACA
** *
49511886 ATCCCTTTTCATAATTTGATAGTTGAGGCT
1 ATCCCTTTTCATAATTTGATACCTGAAGCT
49511916 ATCCCTTTTCATAATTTGATACCTGAAGCT
1 ATCCCTTTTCATAATTTGATACCTGAAGCT
*
49511946 ATCCATTTTCAT
1 ATCCCTTTTCAT
49511958 TAGTCGATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATACCTGAAGCT
Found at i:49511965 original size:119 final size:120
Alignment explanation
Indices: 49511737--49511972 Score: 316
Period size: 119 Copynumber: 2.0 Consensus size: 120
49511727 AGTCGAAGCT
* *
49511737 ATCCCTTTTCATTATTTGATGGTCGTCACCATTCATTTTCATAAATTGATAGCTGAAGCTATCCC
1 ATCCCTTTTCATTATTTGATGGTCGTCACAATCCATTTTCATAAATTGATAGCTGAAGCTATCCC
* *
49511802 TTTTCATAATTCGATAGCCGAAGCTACCCCTTTGAATTGTTCGATGGTCGTCACC
66 TTTTCATAATTCGATAGCCGAAGCTACCCATTTGAATTGTTCGATGATCGTCACC
* * * * *
49511857 ATCCTTTTTCATTA-TTGATGGTCGTCACAATCCCTTTTCATAATTTGATAGTTGAGGCTATCCC
1 ATCCCTTTTCATTATTTGATGGTCGTCACAATCCATTTTCATAAATTGATAGCTGAAGCTATCCC
* * **
49511921 TTTTCATAATTTGATA-CCTGAAGCTATCCATTTTCATTAG-TCGATGATCGTC
66 TTTTCATAATTCGATAGCC-GAAGCTACCCATTTGAATT-GTTCGATGATCGTC
49511973 GATACACCGT
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
118 2 0.02
119 85 0.84
120 14 0.14
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.40
Consensus pattern (120 bp):
ATCCCTTTTCATTATTTGATGGTCGTCACAATCCATTTTCATAAATTGATAGCTGAAGCTATCCC
TTTTCATAATTCGATAGCCGAAGCTACCCATTTGAATTGTTCGATGATCGTCACC
Found at i:49515460 original size:29 final size:29
Alignment explanation
Indices: 49515397--49515464 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
49515387 TAATCAACCA
49515397 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
49515426 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
49515455 CGCACACTTA
1 CGCACACTTA
49515465 CCTTTTTCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:49523160 original size:29 final size:29
Alignment explanation
Indices: 49523097--49523164 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
49523087 TAATCAACCA
49523097 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
49523126 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
49523155 CGCACACTTA
1 CGCACACTTA
49523165 CCTTTTTCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:49523308 original size:29 final size:30
Alignment explanation
Indices: 49523269--49523346 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 30
49523259 CTTAATAATC
49523269 AACCGCGCACACTTAGTGCCCTGTAC-TTTA
1 AACC-CGCACACTTAGTGCCCTGTACATTTA
*
49523299 AACTCGCACACTTAGTG--CTGTACAATTTA
1 AACCCGCACACTTAGTGCCCTGTAC-ATTTA
49523328 AACCCGCACACTTAGTGCC
1 AACCCGCACACTTAGTGCC
49523347 AATCTCATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 6 0.14
29 33 0.79
30 3 0.07
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCCTGTACATTTA
Found at i:49523338 original size:177 final size:174
Alignment explanation
Indices: 49523021--49523341 Score: 464
Period size: 177 Copynumber: 1.8 Consensus size: 174
49523011 CCAAATCATA
* * *
49523021 AAAGTCGCACCCTTCATGTAAATAATTTATAGAAAATATATATAGGGTTGCACGCATAATGTTTA
1 AAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATAGGGTTGCACACATAATGCTTA
* *
49523086 GTAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTGCCATGCATTTCA
66 ATAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTGCCATACATTTCA
***
49523151 AGTTCGCACACTTACCTTTTTCCGATGTCCAAAATCGACTCGAT
131 AACCCGCACACTTACCTTTTTCCGATGTCCAAAATCGACTCGAT
*
49523195 AAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATATTGGGTTCGCACACATAGTGC
1 AAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATA--GGGTT-GCACACATAATGC
* * * * **
49523260 TTAATAATCAACCGCGCACACTTAGTGCCCTGTACTTTAAACTCGCACACTTAGTGCTGTACAAT
63 TTAATAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTGCCATAC-AT
49523325 TT-AAACCCGCACACTTA
127 TTCAAACCCGCACACTTA
49523342 GTGCCAATCT
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
174 43 0.34
176 5 0.04
177 76 0.59
178 4 0.03
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
AAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATAGGGTTGCACACATAATGCTTA
ATAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTGCCATACATTTCA
AACCCGCACACTTACCTTTTTCCGATGTCCAAAATCGACTCGAT
Found at i:49523388 original size:42 final size:42
Alignment explanation
Indices: 49523324--49523430 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
49523314 TGCTGTACAA
*
49523324 TTTAAACCCGCACACTTAGTGCCAATCTCATGATCATAAATG
1 TTTACACCCGCACACTTAGTGCCAATCTCATGATCATAAATG
49523366 TTTACACCCGCACACTTAGTGCCAATCTCATGATCATAAATG
1 TTTACACCCGCACACTTAGTGCCAATCTCATGATCATAAATG
49523408 TTTACACCCGCACACTTAGTGCC
1 TTTACACCCGCACACTTAGTGCC
49523431 TAAACCAACA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (42 bp):
TTTACACCCGCACACTTAGTGCCAATCTCATGATCATAAATG
Found at i:49536348 original size:39 final size:39
Alignment explanation
Indices: 49536290--49536366 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
49536280 TTCAGTGATG
* * *
49536290 TATATCCGGACCTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACCTAAGGTCCGCAGGCTACGTGCCGGAAT
*
49536329 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCCGGAA
1 TATATCCGGACCTAAGGTCCGCAGGCTACGTGCCGGAA
49536367 ATATGTCTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
TATATCCGGACCTAAGGTCCGCAGGCTACGTGCCGGAAT
Found at i:49537319 original size:44 final size:44
Alignment explanation
Indices: 49537234--49537341 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
49537224 ATAGGATCCG
*
49537234 CTATGTGTTATCGTGTAAGACCACGTCTGGGACATTAGCATCA-A
1 CTATGTTTTA-CGTGTAAGACCACGTCTGGGACATTAGCATCATA
** *
49537278 CTTATGTTTTACGTGTAAGACCACGTCTGGGATGTTGGCATCATA
1 C-TATGTTTTACGTGTAAGACCACGTCTGGGACATTAGCATCATA
*
49537323 CT-TGATTT-CGTGTAAGACC
1 CTATGTTTTACGTGTAAGACC
49537342 CTATCTGGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 11 0.19
43 5 0.09
44 31 0.54
45 10 0.18
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (44 bp):
CTATGTTTTACGTGTAAGACCACGTCTGGGACATTAGCATCATA
Found at i:49537362 original size:86 final size:84
Alignment explanation
Indices: 49537244--49537403 Score: 198
Period size: 85 Copynumber: 1.9 Consensus size: 84
49537234 CTATGTGTTA
* * *
49537244 TCGTGTAAGACCACGTCTGGGACATTAGCATCAACTTATGTT-TTACGTGTAAGACCACGTCTGG
1 TCGTGTAAGACCACATCTGGGACAGTAGCATCAA--TAT-TTATTACATGTAAGACCACGTCTGG
*
49537308 GATGTTGGCATCATACTTGATT
63 GACGTTGGCATCATACTTGATT
* * *
49537330 TCGTGTAAGACC-CTATCTGGGACAGTGGCATCAATATTTGATTACATGTAAGACCATGTTTGGG
1 TCGTGTAAGACCAC-ATCTGGGACAGTAGCATCAATATTT-ATTACATGTAAGACCACGTCTGGG
49537394 ACGTTGGCAT
64 ACGTTGGCAT
49537404 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
83 2 0.03
84 3 0.05
85 30 0.47
86 29 0.45
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (84 bp):
TCGTGTAAGACCACATCTGGGACAGTAGCATCAATATTTATTACATGTAAGACCACGTCTGGGAC
GTTGGCATCATACTTGATT
Found at i:49537394 original size:43 final size:44
Alignment explanation
Indices: 49537245--49537403 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 44
49537235 TATGTGTTAT
*
49537245 CGTGTAAGACCACGTCTGGGACA-TTAGCATCAACTTATGTT--TTA
1 CGTGTAAGACCACGTCTGGGACAGTTGGCATCAA--TAT-TTGATTA
* * *
49537289 CGTGTAAGACCACGTCTGGGA-TGTTGGCATC-ATACTTGATTT
1 CGTGTAAGACCACGTCTGGGACAGTTGGCATCAATATTTGATTA
*
49537331 CGTGTAAGACC-CTATCTGGGACAG-TGGCATCAATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACAGTTGGCATCAATATTTGATTA
* * *
49537374 CATGTAAGACCATGTTTGGGAC-GTTGGCAT
1 CGTGTAAGACCACGTCTGGGACAGTTGGCAT
49537404 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 17
0.77 0.10 0.14
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 28 0.29
43 34 0.36
44 28 0.29
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACAGTTGGCATCAATATTTGATTA
Found at i:49539383 original size:46 final size:46
Alignment explanation
Indices: 49539333--49539505 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
49539323 TGGTTGAGCA
*
49539333 TCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
49539379 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-CTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * * *
49539424 CATCTGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
49539472 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49539506 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 56 0.55
47 26 0.25
48 5 0.05
50 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:49539489 original size:93 final size:93
Alignment explanation
Indices: 49539330--49539500 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
49539320 GGATGGTTGA
* * *
49539330 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTAAGTCCGAGTTCACTTATGGATACAAATGCCCGAACTCGTTGAGT
49539395 TGAGTCTGAGTTCCTGAGATGTAACTAG
66 TGAGTCTGAGTTCCTGAGATGTAACTAG
* * * *
49539423 GCATCTGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTAAGTCCGAGTTCACTTATGGATACAAATGCCCGAACTCGTTGAGT
49539488 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
49539501 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTAAGTCCGAGTTCACTTATGGATACAAATGCCCGAACTCGTTGAGT
TGAGTCTGAGTTCCTGAGATGTAACTAG
Found at i:49541669 original size:37 final size:37
Alignment explanation
Indices: 49541619--49541697 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
49541609 TTATTACGAA
* * *
49541619 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
49541656 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
49541693 GTCTT
1 GTCTT
49541698 TAGAGCTCGG
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:49541894 original size:47 final size:47
Alignment explanation
Indices: 49541816--49542431 Score: 1034
Period size: 47 Copynumber: 12.9 Consensus size: 47
49541806 CCCTTCGGGA
* * * * * *
49541816 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49541863 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49541910 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49541957 CTTATCACATATATACATTTTCACATTCATCACATCGTCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49542004 CTTATCACATTTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49542053 CCTATCACATATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATA--TACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49542102 TTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49542149 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49542198 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49542245 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49542292 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49542339 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49542386 CTTATCACATATATATACACTTTCATATTCATCACATCGGCCATTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
49542432 CTTGTATCAT
Statistics
Matches: 540, Mismatches: 21, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
47 370 0.69
49 170 0.31
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49552081 original size:51 final size:51
Alignment explanation
Indices: 49552021--49552123 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
49552011 ATTAGTTGAA
* * *
49552021 AGAATAATTAATATTACATGTAGGAGTGTTATTGTAACACCCCTTACCCAT
1 AGAATAATTAATATTACATGTAAGAATATTATTGTAACACCCCTTACCCAT
49552072 AGAATAATTAATATTACATGTAAGAATATTATTGTAACACCCCTTACCCAT
1 AGAATAATTAATATTACATGTAAGAATATTATTGTAACACCCCTTACCCAT
49552123 A
1 A
49552124 TTCAACGCTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (51 bp):
AGAATAATTAATATTACATGTAAGAATATTATTGTAACACCCCTTACCCAT
Found at i:49559233 original size:44 final size:42
Alignment explanation
Indices: 49559182--49559280 Score: 128
Period size: 44 Copynumber: 2.3 Consensus size: 42
49559172 GTTATGTGAC
* *
49559182 TTCGTGTAAGACCATGTTTGGGACACTGGCATCG-ACTTATGTT
1 TTCGTGTAAGACCATGTCTGGGACACTGGCATCGTA--TATGAT
* *
49559225 TTACGTGTAAGACCATGTCTGGGACATTGGCTTCGTATATGAT
1 TT-CGTGTAAGACCATGTCTGGGACACTGGCATCGTATATGAT
49559268 TTCGTGTAAGACC
1 TTCGTGTAAGACC
49559281 CTATCTAGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.22
43 9 0.18
44 29 0.58
45 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (42 bp):
TTCGTGTAAGACCATGTCTGGGACACTGGCATCGTATATGAT
Found at i:49560471 original size:30 final size:30
Alignment explanation
Indices: 49560435--49560531 Score: 167
Period size: 30 Copynumber: 3.2 Consensus size: 30
49560425 TGTCTAAGGC
*
49560435 CGTGTGAGGCACACGACCTGTTCACACGGA
1 CGTGTGAGGCACACGGCCTGTTCACACGGA
*
49560465 CATGTGAGGCACACGGCCTGTTCACACGGA
1 CGTGTGAGGCACACGGCCTGTTCACACGGA
*
49560495 CGTGTCAGGCACACGGCCTGTTCACACGGA
1 CGTGTGAGGCACACGGCCTGTTCACACGGA
49560525 CGTGTGA
1 CGTGTGA
49560532 CCATTTAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.18
Consensus pattern (30 bp):
CGTGTGAGGCACACGGCCTGTTCACACGGA
Found at i:49561686 original size:7 final size:7
Alignment explanation
Indices: 49561674--49561710 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
49561664 TAATATTTGA
49561674 AAAAAGT
1 AAAAAGT
49561681 AAAAAGT
1 AAAAAGT
49561688 AAAAAGT
1 AAAAAGT
49561695 AAAAAGT
1 AAAAAGT
49561702 AAAAA-T
1 AAAAAGT
49561708 AAA
1 AAA
49561711 TTAAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.14
Consensus pattern (7 bp):
AAAAAGT
Found at i:49565067 original size:54 final size:54
Alignment explanation
Indices: 49565003--49565116 Score: 219
Period size: 54 Copynumber: 2.1 Consensus size: 54
49564993 GCAAGGTAAG
49565003 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCGATAAGTATGTGAGATTAATC
1 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCGATAAGTATGTGAGATTAATC
49565057 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCGATAAGTATGTGAGATTAATC
1 GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCGATAAGTATGTGAGATTAATC
*
49565111 TTTAAG
1 GTTAAG
49565117 TGATATCGAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GTTAAGGAGATTCTGACTTTTCTTAAAGTATTCGATAAGTATGTGAGATTAATC
Found at i:49565500 original size:29 final size:29
Alignment explanation
Indices: 49565458--49565534 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
49565448 TGAATGTGGC
* *
49565458 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* *
49565487 TGGGCATAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
49565516 TGGGCCTAATGGGCCATAT
1 TGGGCCTAATGGGCCATAT
49565535 GAATATGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:49565530 original size:58 final size:57
Alignment explanation
Indices: 49565458--49565568 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
49565448 TGAATGTGGC
* * * *
49565458 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCATAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-ATAGGCATAATGGGCCAGATACAGGTGATT
* * *
49565516 TGGGCCTAATGGGCCATATGAATATGAATAGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGAATAGGCATAATGGGCCAGATACAGGT
49565569 TTGTGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 22 0.48
58 24 0.52
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGAATAGGCATAATGGGCCAGATACAGGTGATT
Found at i:49568480 original size:16 final size:16
Alignment explanation
Indices: 49568459--49568489 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49568449 GTAAAGCCCT
49568459 AAAAATCCTGAAATCC
1 AAAAATCCTGAAATCC
49568475 AAAAATCCTGAAATC
1 AAAAATCCTGAAATC
49568490 TTAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAAATCCTGAAATCC
Found at i:49569993 original size:28 final size:28
Alignment explanation
Indices: 49569953--49570038 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
49569943 GTGAGCATGA
* *
49569953 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCATAATGGGCC
* *
49569981 ATATAAATGTGATTTAGGCATAATGGGCC
1 ATATGAATGTGA-TTGGGCATAATGGGCC
* * *
49570010 ATATGAATATGAATGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCATAATGGGCC
49570038 A
1 A
49570039 GATATAGGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
28 25 0.52
29 23 0.48
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCATAATGGGCC
Found at i:49570013 original size:29 final size:28
Alignment explanation
Indices: 49569953--49570013 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
49569943 GTGAGCATGA
* * *
49569953 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATAAATGTGATTAGGCATAACGGGCC
*
49569981 ATATAAATGTGATTTAGGCATAATGGGCC
1 ATATAAATGTGA-TTAGGCATAACGGGCC
49570010 ATAT
1 ATAT
49570014 GAATATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTAGGCATAACGGGCC
Found at i:49571426 original size:46 final size:46
Alignment explanation
Indices: 49571359--49571531 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 46
49571349 TAACCCGCCT
49571359 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCC
1 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCC
* * * * **
49571405 ATAAGTGAACTTGGACTCAACTAAATGAGTTTAGACACCTAGTT-ACAT-C
1 ATAAGTGAACTCGGACTCAACTCAATGAG-CTCG--GGC--GTTCACATCC
* * * *
49571454 -TCA-TGAACTTGGACTCAACTTAATGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCC
* * * *
49571498 ATAAATGAACTCGGATTCAACTCAACGAGTTCGG
1 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGG
49571532 ATGCCTAGTT
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 53 0.54
47 25 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCC
Found at i:49571528 original size:93 final size:93
Alignment explanation
Indices: 49571364--49571569 Score: 295
Period size: 93 Copynumber: 2.2 Consensus size: 93
49571354 CGCCTATAAG
* *
49571364 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTTGGACTCAACTAA
1 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTAA
* *
49571429 ATGAGTTTAGACACCTAGTTACATCTCA
66 ACGAGTTCAGACACCTAGTTACATCTCA
* * * * *
49571457 TGAACTTGGACTCAACTTAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGATTCAACTCA
1 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTAA
* **
49571522 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCAGACACCTAGTTACATCTCA
*
49571550 CGAACTCGGACTCAACTCAA
1 TGAACTCGGACTCAACTCAA
49571570 CAAGCTCAGA
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 98 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTAA
ACGAGTTCAGACACCTAGTTACATCTCA
Found at i:49582367 original size:14 final size:15
Alignment explanation
Indices: 49582348--49582380 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
49582338 ACTAGGAGCC
49582348 TTTAAGTTAAT-TTG
1 TTTAAGTTAATGTTG
*
49582362 TTTAAGTTGATGTTG
1 TTTAAGTTAATGTTG
49582377 TTTA
1 TTTA
49582381 TAAGTTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (15 bp):
TTTAAGTTAATGTTG
Found at i:49586263 original size:20 final size:20
Alignment explanation
Indices: 49586238--49586279 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
49586228 GTTCTTAATG
49586238 ATATTGCTGGTACCTTTTCT
1 ATATTGCTGGTACCTTTTCT
49586258 ATATTGCTGGTACCTTTTCT
1 ATATTGCTGGTACCTTTTCT
49586278 AT
1 AT
49586280 CTTTGATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (20 bp):
ATATTGCTGGTACCTTTTCT
Found at i:49587231 original size:19 final size:20
Alignment explanation
Indices: 49587209--49587247 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
49587199 ATAAAAAAAT
49587209 CATATAATAATATAA-CATA
1 CATATAATAATATAATCATA
* *
49587228 CATATCATAGTATAATCATA
1 CATATAATAATATAATCATA
49587248 ATGTCCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (20 bp):
CATATAATAATATAATCATA
Found at i:49598821 original size:40 final size:40
Alignment explanation
Indices: 49598635--49598809 Score: 278
Period size: 40 Copynumber: 4.4 Consensus size: 40
49598625 TATGTGCACA
* *
49598635 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAG
49598675 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAG
49598715 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAG
* * * * *
49598755 GCATTCGTGCGAGTTATTATTACCGAGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAG
*
49598795 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
49598810 GTTACATCCG
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAG
Found at i:49598833 original size:80 final size:80
Alignment explanation
Indices: 49598635--49598833 Score: 227
Period size: 80 Copynumber: 2.5 Consensus size: 80
49598625 TATGTGCACA
* * ** * * *
49598635 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCAAAGGCATTCGTGCGAGTTATTATAACCG
*
49598700 GGCTAAGTCCCAAAG
66 AGCTAAGTCCCAAAG
* * * * *
49598715 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAGGCATTCGTGCGAGTTATTATTACCG
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCAAAGGCATTCGTGCGAGTTATTATAACCG
* *
49598780 AGTTAAGTCCCGAAG
66 AGCTAAGTCCCAAAG
* * * *
49598795 GCATTCGTGCTGGTTGTTACATCCGAGCCAAATTCCAAA
1 GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCAAA
49598834 AGTATTTATG
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 104 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (80 bp):
GCATTCGTGCGGGTTATTACAACCGAGCCAAATCCCAAAGGCATTCGTGCGAGTTATTATAACCG
AGCTAAGTCCCAAAG
Found at i:49606457 original size:40 final size:40
Alignment explanation
Indices: 49606402--49606576 Score: 251
Period size: 40 Copynumber: 4.4 Consensus size: 40
49606392 TATGTGCGCA
* *
49606402 GCATTCATGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
*
49606442 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
* * * *
49606482 GTATTCGTGCAGGTTATTATAACCGAGCTAAGTCCTGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
* * *
49606522 GCATTCGTGCGAGTTATTATTACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
*
49606562 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
49606577 GTTACATCCG
Statistics
Matches: 118, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
Found at i:49606600 original size:80 final size:80
Alignment explanation
Indices: 49606402--49606600 Score: 218
Period size: 80 Copynumber: 2.5 Consensus size: 80
49606392 TATGTGCGCA
* * * * ** * * *
49606402 GCATTCATGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG
1 GCATTCGTGCAGGTTATTACAACCGAGCCAAATCCTGAAGGCATTCGTGCGAGTTATTATAACCG
49606467 GGCTAAGTCCCAAAG
66 GGCTAAGTCCCAAAG
* * * * *
49606482 GTATTCGTGCAGGTTATTATAACCGAGCTAAGTCCTGAAGGCATTCGTGCGAGTTATTATTACCG
1 GCATTCGTGCAGGTTATTACAACCGAGCCAAATCCTGAAGGCATTCGTGCGAGTTATTATAACCG
* *
49606547 GGTTAAGTCCCGAAG
66 GGCTAAGTCCCAAAG
* * * *
49606562 GCATTCGTGCTGGTTGTTACATCCGAGCCAAATTCTGAA
1 GCATTCGTGCAGGTTATTACAACCGAGCCAAATCCTGAA
49606601 AGTATTTATG
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 101 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (80 bp):
GCATTCGTGCAGGTTATTACAACCGAGCCAAATCCTGAAGGCATTCGTGCGAGTTATTATAACCG
GGCTAAGTCCCAAAG
Found at i:49621567 original size:27 final size:27
Alignment explanation
Indices: 49621536--49621732 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
49621526 TACTAAAATG
**
49621536 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * *
49621563 TCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
*
49621590 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
49621617 CCCTCGATTTATAGAATTATCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
49621644 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
49621671 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * **
49621698 -CGTC-AGTTTACAAAATTACTGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
*
49621724 CTCTCGATT
1 CCCTCGATT
49621733 GTGAAATTAC
Statistics
Matches: 145, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
25 1 0.01
26 21 0.14
27 122 0.84
28 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:49621651 original size:81 final size:81
Alignment explanation
Indices: 49621536--49621698 Score: 281
Period size: 81 Copynumber: 2.0 Consensus size: 81
49621526 TACTAAAATG
* * *
49621536 CCCTCGATTTGTAGAATTACCATTTTATCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
49621601 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* *
49621617 CCCTCGATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
49621682 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
49621698 C
1 C
49621699 GTCAGTTTAC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:49621778 original size:27 final size:26
Alignment explanation
Indices: 49621748--49621887 Score: 82
Period size: 27 Copynumber: 5.2 Consensus size: 26
49621738 ATTACTGAAG
* *
49621748 TACCCTTGTAGGATAGAATTACCAAAA
1 TACCCTAGTAGG-TAAAATTACCAAAA
**
49621775 TACCCCTAGTTTGTAAAATTACCAAAA
1 TA-CCCTAGTAGGTAAAATTACCAAAA
** * *
49621802 TACCCATAGTTTGTAAAATTATCGAAA
1 TACCC-TAGTAGGTAAAATTACCAAAA
* ** * *
49621829 TACCACTGGTTTGTGAAATTACCGAAA
1 TACC-CTAGTAGGTAAAATTACCAAAA
* ***
49621856 TACCCTCAATTTATAAAATTACCAAAA
1 TACCCT-AGTAGGTAAAATTACCAAAA
49621883 TACCC
1 TACCC
49621888 CTAATTTACA
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 5 0.05
27 82 0.86
28 8 0.08
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (26 bp):
TACCCTAGTAGGTAAAATTACCAAAA
Found at i:49621806 original size:54 final size:53
Alignment explanation
Indices: 49621748--49621886 Score: 125
Period size: 54 Copynumber: 2.6 Consensus size: 53
49621738 ATTACTGAAG
* * *
49621748 TACCCTTGTAGGATAGAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTAGTAGG-TAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAA
** * * * * *
49621802 TACCCATAGTTTGTAAAATTATCGAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCC-TAGTAGGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAA
* ***
49621856 TACCCTCAATTTATAAAATTACCAAAATACC
1 TACCCT-AGTAGGTAAAATTACCAAAATACC
49621887 CCTAATTTAC
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
53 1 0.01
54 64 0.93
55 4 0.06
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (53 bp):
TACCCTAGTAGGTAAAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAA
Found at i:49621857 original size:81 final size:81
Alignment explanation
Indices: 49621764--49621912 Score: 210
Period size: 81 Copynumber: 1.8 Consensus size: 81
49621754 TGTAGGATAG
* * * ** *
49621764 AATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCATAGTTTGTAAAATTATCGAA
1 AATTACCAAAATACCCTC-AATTTATAAAATTACCAAAATACCCATAATTTACAAAATTATAGAA
49621828 ATACCACTGGTTTGTGA
65 ATACCACTGGTTTGTGA
* *
49621845 AATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCCTAATTTACAAAATTATAGAAA
1 AATTACCAAAATACCCTCAATTTATAAAATTACCAAAATACCCATAATTTACAAAATTATAGAAA
49621910 TAC
66 TAC
49621913 GCTTGACTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTATAAAATTACCAAAATACCCATAATTTACAAAATTATAGAAA
TACCACTGGTTTGTGA
Found at i:49621903 original size:27 final size:27
Alignment explanation
Indices: 49621764--49621890 Score: 157
Period size: 27 Copynumber: 4.7 Consensus size: 27
49621754 TGTAGGATAG
49621764 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
49621791 AATTACCAAAATACCCATAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
49621818 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
49621845 AATTACCGAAATA-CCCTCAATTTATAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
49621872 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
49621891 ATTTACAAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.04
27 77 0.92
28 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:49621910 original size:27 final size:29
Alignment explanation
Indices: 49621844--49621912 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 29
49621834 CTGGTTTGTG
*
49621844 AAATTACC-GAAATA-CCCTCAATTTATA
1 AAATTACCAGAAATACCCCTCAATTTACA
49621871 AAATTACCA-AAATACCCCT-AATTTACA
1 AAATTACCAGAAATACCCCTCAATTTACA
*
49621898 AAATTA-TAGAAATAC
1 AAATTACCAGAAATAC
49621913 GCTTGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 1 0.03
27 32 0.86
28 4 0.11
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.28
Consensus pattern (29 bp):
AAATTACCAGAAATACCCCTCAATTTACA
Found at i:49621910 original size:54 final size:54
Alignment explanation
Indices: 49621764--49621912 Score: 158
Period size: 54 Copynumber: 2.8 Consensus size: 54
49621754 TGTAGGATAG
* *
49621764 AATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AAATACCCATAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTA-CAGAAATACCCATAATTTATAA
* * * * * *
49621818 AATTATCGAAATACCACTGGTTTGTGAAATTACCGAAATACCC-TCAATTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACAGAAATACCCAT-AATTTATAA
* ** *
49621872 AATTACCAAAATACCCCTAATTTACAAAATTATAGAAATAC
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACAGAAATAC
49621913 GCTTGACTTT
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
53 2 0.03
54 73 0.97
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACAGAAATACCCATAATTTATAA
Found at i:49621965 original size:27 final size:27
Alignment explanation
Indices: 49621892--49621977 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 27
49621882 ATACCCCTAA
* *
49621892 TTTACAAAATTATAGAAATACGC-TTGAC
1 TTTACAAAATTATAAAAATAC-CATTG-G
49621920 TTT-CTAAAAATTATAAAAATACCATTGG
1 TTTAC--AAAATTATAAAAATACCATTGG
*
49621948 TTTACAAAATTACT-AAAATACCCTTGG
1 TTTACAAAATTA-TAAAAATACCATTGG
49621975 TTT
1 TTT
49621978 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 23 0.46
28 8 0.16
29 19 0.38
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAAAAATACCATTGG
Found at i:49622061 original size:27 final size:27
Alignment explanation
Indices: 49622018--49622091 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
49622008 AAATGACTAA
*
49622018 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
49622045 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
49622072 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
49622092 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:49622095 original size:27 final size:27
Alignment explanation
Indices: 49622031--49622095 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
49622021 ACCCCTAATA
*
49622031 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
49622058 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
49622085 GGTAAAATGAC
1 GGTAAAATGAC
49622096 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:49622943 original size:25 final size:24
Alignment explanation
Indices: 49622905--49622974 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
49622895 AGGAAGTGTT
*
49622905 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
49622929 GAAAAGGGTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
49622954 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
49622975 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:49623181 original size:42 final size:42
Alignment explanation
Indices: 49623122--49623213 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
49623112 TAGTCTCCCC
*
49623122 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
49623164 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
49623206 AAATGGGC
1 AAATGGGC
49623214 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:49623272 original size:31 final size:31
Alignment explanation
Indices: 49623237--49623351 Score: 182
Period size: 31 Copynumber: 3.7 Consensus size: 31
49623227 TGTTTTCGGT
49623237 AAAGGC-TCTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTC-GGCCCAGTGATATGATTTATGA
*
49623268 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
49623299 AAAGGCTTCGGCCCAGTGATATGATTTAT-A
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
49623329 GAAAGGCTTCGGCCCAGT-ATATG
1 -AAAGGCTTCGGCCCAGTGATATG
49623352 TCAAGACTAA
Statistics
Matches: 80, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
30 6 0.08
31 72 0.90
32 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:49626247 original size:17 final size:18
Alignment explanation
Indices: 49626221--49626254 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49626211 CAATTTGGGT
49626221 CATGTAGGCC-ACACGGA
1 CATGTAGGCCTACACGGA
*
49626238 CATGTGGGCCTACACGG
1 CATGTAGGCCTACACGG
49626255 GCAGGCCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.15
Consensus pattern (18 bp):
CATGTAGGCCTACACGGA
Found at i:49635818 original size:15 final size:15
Alignment explanation
Indices: 49635773--49635823 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
49635763 GAAAAATAAG
*
49635773 AAATATTATATGTCA
1 AAATATTATATGTTA
*
49635788 AAAGT-TT-TA-ATTA
1 AAA-TATTATATGTTA
49635801 AAATATTATATGTTA
1 AAATATTATATGTTA
49635816 AAATATTA
1 AAATATTA
49635824 ATAAATGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
12 1 0.03
13 7 0.24
14 4 0.14
15 16 0.55
16 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (15 bp):
AAATATTATATGTTA
Found at i:49636701 original size:26 final size:26
Alignment explanation
Indices: 49636661--49636891 Score: 169
Period size: 26 Copynumber: 8.9 Consensus size: 26
49636651 TGAATGGCAG
* *
49636661 GCCTTGAACTGGTGTTTATTTAGCAG
1 GCCTTGAGCTGGTGTTTATTTAGCAA
* * * * *
49636687 GCCTTGGGCTAGTGTTTCTTTAGTAG
1 GCCTTGAGCTGGTGTTTATTTAGCAA
* * * *
49636713 GCCATGAGATGGTGTTTATTTAGTAG
1 GCCTTGAGCTGGTGTTTATTTAGCAA
* * * *
49636739 GCCTTGGGCCGATGTTTCTTTAGCAA
1 GCCTTGAGCTGGTGTTTATTTAGCAA
* * *
49636765 ACCTTGAGCCGGTGTTTATTTAACAA
1 GCCTTGAGCTGGTGTTTATTTAGCAA
* *
49636791 GCCTTTG-GCAGGTGTTTCTTTAGCAA
1 GCC-TTGAGCTGGTGTTTATTTAGCAA
* * * *
49636817 GCTTTAAGCCGGTGTTTATTTAGCAC
1 GCCTTGAGCTGGTGTTTATTTAGCAA
* * **
49636843 GCCTTGTA-CTAGTGGTTATGGAGCAA
1 GCCTTG-AGCTGGTGTTTATTTAGCAA
*
49636869 GCTTTGAGCTGGTGTTTATTTAG
1 GCCTTGAGCTGGTGTTTATTTAG
49636892 ATGGCTTTGA
Statistics
Matches: 156, Mismatches: 45, Indels: 8
0.75 0.22 0.04
Matches are distributed among these distances:
25 3 0.02
26 149 0.96
27 4 0.03
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (26 bp):
GCCTTGAGCTGGTGTTTATTTAGCAA
Found at i:49636779 original size:52 final size:52
Alignment explanation
Indices: 49636661--49636848 Score: 198
Period size: 52 Copynumber: 3.6 Consensus size: 52
49636651 TGAATGGCAG
* * * * *
49636661 GCCTTGAACTGGTGTTTATTTAGCAGGCCTTGGG-CTAGTGTTTCTTTAGTAG
1 GCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGA-TGTTTCTTTAGCAA
* ** *
49636713 GCCATGAGATGGTGTTTATTTAGTAGGCCTTGGGCCGATGTTTCTTTAGCAA
1 GCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGATGTTTCTTTAGCAA
* * * * * *
49636765 ACCTTGAGCCGGTGTTTATTTAACAAGCCTTTGGCAGGTGTTTCTTTAGCAA
1 GCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGATGTTTCTTTAGCAA
* * *
49636817 GCTTTAAGCCGGTGTTTATTTAGCACGCCTTG
1 GCCTTGAGCCGGTGTTTATTTAGCAGGCCTTG
49636849 TACTAGTGGT
Statistics
Matches: 112, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
52 110 0.98
53 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.38
Consensus pattern (52 bp):
GCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGATGTTTCTTTAGCAA
Found at i:49639091 original size:9 final size:9
Alignment explanation
Indices: 49639077--49639101 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49639067 TACATGCATA
49639077 TGGCCCATT
1 TGGCCCATT
49639086 TGGCCCATT
1 TGGCCCATT
49639095 TGGCCCA
1 TGGCCCA
49639102 ATTCACATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.36, G:0.24, T:0.28
Consensus pattern (9 bp):
TGGCCCATT
Found at i:49639168 original size:28 final size:28
Alignment explanation
Indices: 49639086--49639170 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
49639076 ATGGCCCATT
* * * * *
49639086 TGGCCCATTTGGCCCAATTCACATCATA
1 TGGCCCACTAGGCCCAAATCACCTTATA
*
49639114 TGGCCCATTAGG-CCAAATCACCTTTATA
1 TGGCCCACTAGGCCCAAATCACC-TTATA
*
49639142 TGGCCCGCTAGGCCCAAATCACCTTATA
1 TGGCCCACTAGGCCCAAATCACCTTATA
49639170 T
1 T
49639171 TCATGCTCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.16
28 31 0.63
29 10 0.20
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCACTAGGCCCAAATCACCTTATA
Found at i:49639255 original size:40 final size:40
Alignment explanation
Indices: 49639211--49639290 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
49639201 AGCATCAATT
* *
49639211 ATCAAATTTTGCAGATTTTGGGCCCAACAGCCCATCGGGC
1 ATCAAATTTTGCAGATTATGAGCCCAACAGCCCATCGGGC
**
49639251 ATCAAATTTTGCCTATTATGAGCCCAACAGCCCATCGGGC
1 ATCAAATTTTGCAGATTATGAGCCCAACAGCCCATCGGGC
49639291 CCATAAACCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
ATCAAATTTTGCAGATTATGAGCCCAACAGCCCATCGGGC
Found at i:49652045 original size:9 final size:9
Alignment explanation
Indices: 49652031--49652056 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
49652021 CGTCAACTTA
49652031 AGACTCATG
1 AGACTCATG
49652040 AGACTCATG
1 AGACTCATG
49652049 AGACTCAT
1 AGACTCAT
49652057 AAGAGCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (9 bp):
AGACTCATG
Found at i:49657132 original size:40 final size:40
Alignment explanation
Indices: 49657069--49657262 Score: 336
Period size: 40 Copynumber: 4.9 Consensus size: 40
49657059 ATTCGGATTG
49657069 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49657108 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
49657148 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49657188 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
49657228 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
49657263 AAGCTGTATC
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 13 0.09
40 134 0.91
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:49658730 original size:17 final size:17
Alignment explanation
Indices: 49658708--49658763 Score: 103
Period size: 17 Copynumber: 3.3 Consensus size: 17
49658698 GGGCCGCAAT
49658708 ATGGGTCGTAGGCCCAC
1 ATGGGTCGTAGGCCCAC
49658725 ATGGGTCGTAGGCCCAC
1 ATGGGTCGTAGGCCCAC
*
49658742 ATGGGTCGTGGGCCCAC
1 ATGGGTCGTAGGCCCAC
49658759 ATGGG
1 ATGGG
49658764 CCACAATATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.16, C:0.27, G:0.39, T:0.18
Consensus pattern (17 bp):
ATGGGTCGTAGGCCCAC
Found at i:49658775 original size:29 final size:29
Alignment explanation
Indices: 49658686--49658814 Score: 125
Period size: 29 Copynumber: 4.3 Consensus size: 29
49658676 TCTTGGCTAT
* *
49658686 GTGGGCCCACATGGGCCGCAATATGGGTC
1 GTGGGCCCACATGGGCCACAATATGGGCC
* * * * *
49658715 GTAGGCCCACATGGGTCGTAGGCCCACATGGGTC
1 GTGGGCCCACATGGG-C-CA---CAATATGGGCC
49658749 GTGGGCCCACATGGGCCACAATATGGGCC
1 GTGGGCCCACATGGGCCACAATATGGGCC
**
49658778 GTGGGCCCACATGGGCCGTAATAT-GGCC
1 GTGGGCCCACATGGGCCACAATATGGGCC
49658806 GTGGGCCCA
1 GTGGGCCCA
49658815 TTTTCACTGT
Statistics
Matches: 83, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
28 13 0.16
29 44 0.53
30 1 0.01
32 1 0.01
33 1 0.01
34 23 0.28
ACGTcount: A:0.18, C:0.29, G:0.36, T:0.16
Consensus pattern (29 bp):
GTGGGCCCACATGGGCCACAATATGGGCC
Found at i:49660733 original size:40 final size:40
Alignment explanation
Indices: 49660675--49660877 Score: 275
Period size: 40 Copynumber: 5.1 Consensus size: 40
49660665 CGGATGATAA
** * *
49660675 CCGGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
49660715 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
49660755 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
49660795 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
49660835 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
49660875 CCG
1 CCG
49660878 ATTAAATCCC
Statistics
Matches: 146, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
39 3 0.02
40 143 0.98
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:49664906 original size:18 final size:18
Alignment explanation
Indices: 49664883--49664938 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
49664873 AGTCTATTCC
**
49664883 ATATCATTTGTTATTTCA
1 ATATCATTTCCTATTTCA
49664901 ATATCATTTCCTATTTCA
1 ATATCATTTCCTATTTCA
*
49664919 ACATCATTTTCC-ATTTCA
1 ATATCA-TTTCCTATTTCA
49664937 AT
1 AT
49664939 GTTATTATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 28 0.85
19 5 0.15
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.50
Consensus pattern (18 bp):
ATATCATTTCCTATTTCA
Found at i:49668727 original size:29 final size:28
Alignment explanation
Indices: 49668694--49668748 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
49668684 GCTAATAATT
49668694 CGATTTA-GTCCACAACCTTGTTCTTTCCC
1 CGATTTAGGT-CACAACCTT-TTCTTTCCC
*
49668723 CGATTTAGGTCAGAACCTTTTCTTTC
1 CGATTTAGGTCACAACCTTTTCTTTC
49668749 TTGATCTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 7 0.29
29 15 0.62
30 2 0.08
ACGTcount: A:0.18, C:0.29, G:0.13, T:0.40
Consensus pattern (28 bp):
CGATTTAGGTCACAACCTTTTCTTTCCC
Found at i:49673801 original size:23 final size:23
Alignment explanation
Indices: 49673775--49673832 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
49673765 ATCGCAGTGT
*
49673775 AGCTGCTAATAGTAAAATAGCAA
1 AGCTGCTAATAGTAAAACAGCAA
* * *
49673798 AGCTACTAATAGTAAAGCAGTAA
1 AGCTGCTAATAGTAAAACAGCAA
49673821 AGCTGCTAATAG
1 AGCTGCTAATAG
49673833 CGGTAAACGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (23 bp):
AGCTGCTAATAGTAAAACAGCAA
Found at i:49678243 original size:13 final size:13
Alignment explanation
Indices: 49678227--49678259 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
49678217 TTTGATTAAA
*
49678227 TTAGTTAATTAGT
1 TTAGATAATTAGT
49678240 TTAGATAATTAGT
1 TTAGATAATTAGT
49678253 TTA-ATAA
1 TTAGATAA
49678260 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:49683116 original size:24 final size:24
Alignment explanation
Indices: 49683084--49683132 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
49683074 GAAATCTAGG
49683084 TGGATTCCTCATTGGGTGTCGTCT
1 TGGATTCCTCATTGGGTGTCGTCT
*
49683108 TGGATTCCTCCTTGGGTGTCGTCT
1 TGGATTCCTCATTGGGTGTCGTCT
49683132 T
1 T
49683133 TATCAATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.06, C:0.22, G:0.29, T:0.43
Consensus pattern (24 bp):
TGGATTCCTCATTGGGTGTCGTCT
Found at i:49683688 original size:40 final size:40
Alignment explanation
Indices: 49683633--49683709 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
49683623 TCAGGTGCAG
49683633 GAGACACATGGCCAAAACACATGCCCATGGGGCAGACCGT
1 GAGACACATGGCCAAAACACATGCCCATGGGGCAGACCGT
*
49683673 GAGACACATGGCCAAAACACATGCCCATGGGGTAGAC
1 GAGACACATGGCCAAAACACATGCCCATGGGGCAGAC
49683710 TGTGTGTCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.34, C:0.29, G:0.27, T:0.10
Consensus pattern (40 bp):
GAGACACATGGCCAAAACACATGCCCATGGGGCAGACCGT
Found at i:49706826 original size:21 final size:21
Alignment explanation
Indices: 49706802--49706871 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
49706792 TGATCTGAAC
49706802 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* * *
49706823 TCA-TGATATATGTGACATCTGAAT
1 TCATTGA-GT-TGTG--GTCTGAGT
*
49706847 TCATTGAGTTGTGGTATGAGT
1 TCATTGAGTTGTGGTCTGAGT
49706868 TCAT
1 TCAT
49706872 GATGTGTGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 3 0.08
21 13 0.35
22 4 0.11
23 4 0.11
24 10 0.27
25 3 0.08
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:49710696 original size:47 final size:47
Alignment explanation
Indices: 49710638--49711011 Score: 525
Period size: 47 Copynumber: 8.0 Consensus size: 47
49710628 TTAGGATTTT
** *
49710638 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49710685 ATGCGATGAATGT-AAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAA-CATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49710732 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49710779 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCAAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49710826 ATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49710873 ATGTGATGAATGTGAGCATGCATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49710920 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
49710967 ATGTGGTGAATATGAACATGCACATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
49711012 TAGTGTGAAA
Statistics
Matches: 289, Mismatches: 36, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
46 2 0.01
47 285 0.99
48 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49710975 original size:25 final size:25
Alignment explanation
Indices: 49710901--49710975 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 25
49710891 TGCATATATA
*
49710901 TGATAAGGCCGAATGGCCAATGTGA
1 TGATAAGGCCGAATGGCCAATGTGG
* * *
49710926 TGA-ATGTG-AGCAT-G-CATATGT-G
1 TGATAAG-GCCGAATGGCCA-ATGTGG
49710948 TGATAAGGCCGAATGGCCAATGTGG
1 TGATAAGGCCGAATGGCCAATGTGG
49710973 TGA
1 TGA
49710976 ATATGAACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.24
Consensus pattern (25 bp):
TGATAAGGCCGAATGGCCAATGTGG
Found at i:49711224 original size:37 final size:37
Alignment explanation
Indices: 49711174--49711325 Score: 232
Period size: 37 Copynumber: 4.1 Consensus size: 37
49711164 GGAAATATAT
* * * *
49711174 TCCGGGTGAGACCCGATGACTACGTGTAGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
49711211 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
49711248 CCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
49711285 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTCG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
49711322 TCCG
1 TCCG
49711326 AGCTAAAGGT
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:49712473 original size:37 final size:37
Alignment explanation
Indices: 49712414--49712485 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
49712404 AGCTCAGACG
* *
49712414 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
49712451 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
49712486 ATATATTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:49712756 original size:47 final size:47
Alignment explanation
Indices: 49712694--49713035 Score: 414
Period size: 47 Copynumber: 7.1 Consensus size: 47
49712684 ACAAGTTTCG
* * *
49712694 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
49712741 CATTGGCCATTCGGCCTTATCTCGTATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
49712788 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
49712835 CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC----ATATATGCATGTTCACATTCATCA
* * **
49712888 CATTGGTCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
* * *
49712939 CATTGGCCATTCGGCCTTATCACACATAAGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * *
49712986 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
49713033 CAT
1 CAT
49713036 AAAATCCTAA
Statistics
Matches: 264, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
47 170 0.64
49 6 0.02
51 44 0.17
53 44 0.17
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:49712987 original size:151 final size:145
Alignment explanation
Indices: 49712694--49713013 Score: 459
Period size: 151 Copynumber: 2.2 Consensus size: 145
49712684 ACAAGTTTCG
* *
49712694 CATTAGCCATTCGGCCTTA-C-CAC--ATATATTCATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATTCAGGTTCACATTCATCACATTGGCCATTCGG
* * * * *
49712755 CCTTATCTCGTATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 CCTTATCACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAAGCA
*
49712820 TGTTCACATTCATCA
131 TGTTCACATCCATCA
*
49712835 CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGTCATTC
1 CATTGGCCATTCGGCCTTATCACACATATATAT-T-CAGGTTCACATTCATCACATTGGCCATTC
*
49712900 GGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
64 GGCCTTAT--CAC--ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
49712965 TAAGCATGTTCACATCCATCA
125 TAAGCATGTTCACATCCATCA
*
49712986 CAGTGGCCATTCGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
49713014 CGCATGTTCA
Statistics
Matches: 158, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
141 18 0.11
142 1 0.01
143 3 0.02
145 6 0.04
146 1 0.01
147 35 0.22
149 2 0.01
151 92 0.58
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.32
Consensus pattern (145 bp):
CATTGGCCATTCGGCCTTATCACACATATATATTCAGGTTCACATTCATCACATTGGCCATTCGG
CCTTATCACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAAGCA
TGTTCACATCCATCA
Found at i:49715380 original size:84 final size:84
Alignment explanation
Indices: 49715216--49715392 Score: 329
Period size: 84 Copynumber: 2.1 Consensus size: 84
49715206 TATTTTATTG
*
49715216 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCAACATGTTTATGACATGTTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCAACATGTTTATGACATGTTTTT
49715281 AGCCATAACATCTTGTCCA
66 AGCCATAACATCTTGTCCA
49715300 -CCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTA-CCCAACATGTTTATGACATGTTTT
49715364 TAGCCATAACATCTTGTCCA
65 TAGCCATAACATCTTGTCCA
49715384 CCCATGCTC
1 CCCATGCTC
49715393 ATGGCCGGCC
Statistics
Matches: 90, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
83 38 0.42
84 44 0.49
85 8 0.09
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (84 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCAACATGTTTATGACATGTTTTT
AGCCATAACATCTTGTCCA
Found at i:49717192 original size:40 final size:40
Alignment explanation
Indices: 49717160--49717786 Score: 960
Period size: 40 Copynumber: 15.8 Consensus size: 40
49717150 CCAGCATGAT
* * * *
49717160 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * **
49717200 TGCTCTTCGGGGTTTAGCACAAATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
49717240 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
49717280 TGCTCCTCGGGACTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
49717320 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
49717360 TGCTCTTTCGGGA-TTAGCCCGGATATATCACTAGCACGAA
1 TGCTC-TTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
49717400 TGCTCCTCGGGACTTAGCCCGGATATA-CACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
49717439 TGCTCCTC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
49717478 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
49717518 TGCTCCTCGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
49717558 TGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
49717598 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
49717637 TGCTCTTCGGG-GTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
49717676 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
49717716 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
49717756 TGCTCTTC-GGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
49717787 CTCATTCTCA
Statistics
Matches: 540, Mismatches: 41, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
38 18 0.03
39 144 0.27
40 372 0.69
41 6 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:49717504 original size:198 final size:198
Alignment explanation
Indices: 49717160--49717786 Score: 999
Period size: 198 Copynumber: 3.2 Consensus size: 198
49717150 CCAGCATGAT
* * * ** * **
49717160 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACAAATA
1 TGCTCTTCG-GACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
49717225 TATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTCGG
65 TATCACTAGCACGAATGCTCTTCGG-ACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGG
* * * * *
49717290 GACTTAGCCTGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGC
129 GACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGC
49717355 ACGAA
194 ACGAA
*
49717360 TGCTCTTTCGGGA-TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGAT
1 TGCTC-TTC-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
49717424 ATA-CACTAGCACGAATGCTCCTCGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGG
64 ATATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGG
* *
49717488 GACTTAGCCCGGATATATCACTAGCACAAATGCTCCTCGGGACTTAGCCCAGATATATCACTAGC
129 GACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGC
49717553 ACGAA
194 ACGAA
*
49717558 TGCTCTTCAGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATA
1 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
**
49717622 TATCACTAGCACGAATGCTCTTCGGGGTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGG
65 TATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGG
49717687 ACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCA
130 ACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCA
49717752 CGAA
195 CGAA
49717756 TGCTCTTCGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGACTTAGCCCGGATATATCACT
49717787 CTCATTCTCA
Statistics
Matches: 396, Mismatches: 27, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
197 46 0.12
198 273 0.69
199 21 0.05
200 50 0.13
201 5 0.01
202 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (198 bp):
TGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
ATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGA
CTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCAC
GAA
Found at i:49719081 original size:36 final size:37
Alignment explanation
Indices: 49719033--49719106 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 37
49719023 ACCTTTAGCT
* *
49719033 CAGACGAAATCTCCACATGAAGTTATCGGGTCTTACC
1 CAGACGAAATCTCCACACGAAGTCATCGGGTCTTACC
*
49719070 CAGAC-AAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACGAAATCTCCACACGAAGTCATCGGGTCTTACC
49719106 C
1 C
49719107 GGAATATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 29 0.85
37 5 0.15
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
CAGACGAAATCTCCACACGAAGTCATCGGGTCTTACC
Found at i:49719380 original size:47 final size:47
Alignment explanation
Indices: 49719318--49719751 Score: 620
Period size: 47 Copynumber: 9.1 Consensus size: 47
49719308 ACACGTTTCG
* * * **
49719318 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
49719365 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
49719412 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
49719459 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
49719506 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
49719559 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
49719606 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
49719657 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACA-TCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
49719703 CA-TGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
49719749 CAT
1 CAT
49719752 AAAATCCTAA
Statistics
Matches: 353, Mismatches: 22, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
45 37 0.10
46 15 0.04
47 213 0.60
49 1 0.00
51 45 0.13
53 42 0.12
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:49719590 original size:147 final size:142
Alignment explanation
Indices: 49719318--49719751 Score: 642
Period size: 147 Copynumber: 3.0 Consensus size: 142
49719308 ACACGTTTCG
* * * *
49719318 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
49719383 ATCTC-ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
66 ATCACTATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
49719447 TCACATTCATCA
131 TCACATTCATCA
**
49719459 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
49719524 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 ATCA--C---TATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
49719589 CATGTTCACATTCATCA
126 CATGTTCACATTCATCA
*
49719606 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATACAT----GTTCACATTCATCACATTGGCCATTCGG
* *
49719671 CCTTATCAC-ACATACGCATGTTCACA-TCATCACA-TGGCCATTCGGCCTTATCACACATACGC
62 CCTTATCACTATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
*
49719733 ATGTTCACATCCATCA
127 ATGTTCACATTCATCA
49719749 CAT
1 CAT
49719752 AAAATCCTAA
Statistics
Matches: 267, Mismatches: 16, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
141 63 0.24
143 47 0.18
144 8 0.03
145 13 0.05
147 99 0.37
149 1 0.00
151 36 0.13
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (142 bp):
CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACTATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
TCACATTCATCA
Found at i:49722060 original size:85 final size:85
Alignment explanation
Indices: 49721931--49722109 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
49721921 TATTTTATTG
*
49721931 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
49721996 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
49722016 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
49722081 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
49722101 CCCATGCTC
1 CCCATGCTC
49722110 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:49730235 original size:45 final size:45
Alignment explanation
Indices: 49730170--49730257 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
49730160 GGAATATATG
* * *
49730170 ATCTAAACTTATTGATTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTAAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGAC
* *
49730215 ATCTGAACTCATTGAGTTGTGGTATGAGTTCATGATGTATGTG
1 ATCTAAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTG
49730258 GCACATGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.41
Consensus pattern (45 bp):
ATCTAAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGAC
Found at i:49738653 original size:26 final size:26
Alignment explanation
Indices: 49738624--49738690 Score: 91
Period size: 27 Copynumber: 2.6 Consensus size: 26
49738614 TCACACAAGT
*
49738624 TAGTCATTTACGCACGAGGGGCAAAA
1 TAGTCATTTACACACGAGGGGCAAAA
* *
49738650 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTT-ACACACGAGGGGCAAAA
49738677 TAGTCATTTA-ACAC
1 TAGTCATTTACACAC
49738691 CTTAGGGGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 3 0.08
26 10 0.28
27 23 0.64
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (26 bp):
TAGTCATTTACACACGAGGGGCAAAA
Found at i:49738712 original size:27 final size:27
Alignment explanation
Indices: 49738640--49738704 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
49738630 TTTACGCACG
49738640 AGGGGCAAAATAGTCATTTAACACCCT
1 AGGGGCAAAATAGTCATTTAACACCCT
*
49738667 AGGGGCAAAATAGTCATTTAACACCTT
1 AGGGGCAAAATAGTCATTTAACACCCT
*
49738694 AGGGGAAAAAT
1 AGGGGCAAAAT
49738705 GGTAATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.22
Consensus pattern (27 bp):
AGGGGCAAAATAGTCATTTAACACCCT
Found at i:49738743 original size:27 final size:27
Alignment explanation
Indices: 49738705--49738850 Score: 220
Period size: 27 Copynumber: 5.4 Consensus size: 27
49738695 GGGGAAAAAT
*
49738705 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
49738732 GATATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
49738759 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
49738786 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
49738813 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
49738840 GGTAATTCTAC
1 GGTAATTCTAC
49738851 AACTTATCCA
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:49743104 original size:40 final size:40
Alignment explanation
Indices: 49743049--49743290 Score: 337
Period size: 40 Copynumber: 6.0 Consensus size: 40
49743039 GATGATAACG
* *
49743049 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
49743089 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
49743129 GGGCTAAGCCCCGAAGGCATTTGTGCTAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
49743169 GGCCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
49743209 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
49743249 GGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
49743289 GG
1 GG
49743291 TTAAATTCCG
Statistics
Matches: 183, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 180 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:49747965 original size:26 final size:27
Alignment explanation
Indices: 49747936--49747989 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
49747926 TCACACAAGT
*
49747936 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
49747962 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
49747989 T
1 T
49747990 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:49748022 original size:27 final size:27
Alignment explanation
Indices: 49747990--49748296 Score: 377
Period size: 27 Copynumber: 11.4 Consensus size: 27
49747980 GGGGCAAAAT
* * *
49747990 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49748017 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
49748044 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49748071 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
49748098 GGTAATTCTACCCTAC-AGGGCTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
** *
49748125 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
49748152 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49748179 TGAAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49748206 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
49748233 AGTAATTCTACCCTAC-AGGTGTATTTT
1 GGTAATTCTACCCTACAAGG-GTATTTC
* * *
49748260 AGTAATTCTACCTTA-TAGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
49748287 GGTAATTCTA
1 GGTAATTCTA
49748297 TAACTTATCC
Statistics
Matches: 243, Mismatches: 32, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.02
27 234 0.96
28 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:49748104 original size:81 final size:81
Alignment explanation
Indices: 49747990--49748296 Score: 416
Period size: 81 Copynumber: 3.8 Consensus size: 81
49747980 GGGGCAAAAT
* * * * * *
49747990 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
49748055 CCTACAAGGGTATTTC
66 CCTACAGGGGTATTTC
* * **
49748071 GGTAATTCTATCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGCTATTTCAATAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
49748136 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * *
49748152 GGTAATTCTACCCTACAGGGGTATTTCTGAAATTCTACCCTACAAGGGTATTTCGGTAATTCTAT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
49748217 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * ** * * *
49748233 AGTAATTCTACCCTACAGGTGTATTTTAGTAATTCTACCTTATAGAGGTATTTCGGTAATTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
49748297 TAACTTATCC
Statistics
Matches: 198, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 198 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:49750571 original size:56 final size:55
Alignment explanation
Indices: 49750509--49750718 Score: 213
Period size: 56 Copynumber: 3.7 Consensus size: 55
49750499 TCCCAGACAG
*
49750509 GGTCTTAATCGCACACATATATCAAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCAAA-TCACATATCGATGCCAACGTATAAAACGT
* ** * * **
49750565 GGTCTTACTTGCACACATATATTGGAATCACATATCAATGCTAATTTATAAAACGT
1 GGTCTTACTCGCACACATATA-TCAAATCACATATCGATGCCAACGTATAAAACGT
* *** * *
49750621 GGGCTTACTTTTACACATATATCGGAATCACATATCGATGCCGACGTATAAAACGT
1 GGTCTTACTCGCACACATATATC-AAATCACATATCGATGCCAACGTATAAAACGT
* * * * *
49750677 CGTCTTTCTCGTACACATATATCATATTCACATGTCGATGCC
1 GGTCTTACTCGCACACATATATCA-AATCACATATCGATGCC
49750719 TCATATACAT
Statistics
Matches: 126, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
55 1 0.01
56 122 0.97
57 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (55 bp):
GGTCTTACTCGCACACATATATCAAATCACATATCGATGCCAACGTATAAAACGT
Found at i:49756415 original size:56 final size:56
Alignment explanation
Indices: 49756355--49756506 Score: 196
Period size: 56 Copynumber: 2.7 Consensus size: 56
49756345 CCAGACAAGT
* * * * *
49756355 TCTTACTCACATACACATATCGGAGTCACATATCGATGCCAACGTATAAAACATGG
1 TCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACATCG
* * *
49756411 TCTTACTCGCACACATATATCAGAATCACATATCGATGCCGACGTATAAAACGTCG
1 TCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACATCG
* * * *
49756467 TCTTTCTTGCACACATATATCGGATTCACATGTCGATGCC
1 TCTTACTCGCACACATATATCGGAATCACATATCGATGCC
49756507 TCATATACAT
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 83 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (56 bp):
TCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACATCG
Found at i:49758608 original size:40 final size:40
Alignment explanation
Indices: 49758549--49758800 Score: 330
Period size: 40 Copynumber: 6.3 Consensus size: 40
49758539 CATTTGAATG
*
49758549 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
49758589 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
49758629 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
49758669 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
49758709 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
49758749 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
49758789 ATATCC-GGCTAA
1 ATATCCGGGCTAA
49758801 ATTCCGAAGA
Statistics
Matches: 193, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
39 7 0.04
40 183 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:49767059 original size:40 final size:40
Alignment explanation
Indices: 49767000--49767251 Score: 330
Period size: 40 Copynumber: 6.3 Consensus size: 40
49766990 CATTTGAATG
*
49767000 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
49767040 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
49767080 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
49767120 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
49767160 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
49767200 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
49767240 ATATCC-GGCTAA
1 ATATCCGGGCTAA
49767252 ATTCCGAAGA
Statistics
Matches: 193, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
39 7 0.04
40 183 0.95
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:49783345 original size:41 final size:42
Alignment explanation
Indices: 49783281--49783444 Score: 170
Period size: 41 Copynumber: 3.9 Consensus size: 42
49783271 AATAGGGTTA
* * *
49783281 ATGAGACTACGTGTAAGATCATATCTAGGATATAGCATCGAT
1 ATGAGACTACATGTAAGACCATATCTAGGATATGGCATCGAT
* *
49783323 ATGAGACTAC-TGTAAGACCATATCTGGGATATGGTATCGAT
1 ATGAGACTACATGTAAGACCATATCTAGGATATGGCATCGAT
* * * * * * *
49783364 ATGAGACTTCATGTAATACCATAGT-TGGGCTTTTGGCATGGAC
1 ATGAGACTACATGTAAGACCATA-TCTAGG-ATATGGCATCGAT
* *
49783407 ATGAGATTACAGGTAAGACCATATCTAGGATATGGCAT
1 ATGAGACTACATGTAAGACCATATCTAGGATATGGCAT
49783445 TGGTATGGTA
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
41 36 0.36
42 33 0.33
43 31 0.31
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (42 bp):
ATGAGACTACATGTAAGACCATATCTAGGATATGGCATCGAT
Found at i:49792932 original size:20 final size:22
Alignment explanation
Indices: 49792897--49792943 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
49792887 AGAACAACTA
**
49792897 AAGAAAATGATGC-AAAA-GAG
1 AAGAAAATGAAACAAAAATGAG
49792917 AAGAAAATGAAACAAAAATGAG
1 AAGAAAATGAAACAAAAATGAG
49792939 AAGAA
1 AAGAA
49792944 TTCAGCCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 4 0.17
22 8 0.35
ACGTcount: A:0.66, C:0.04, G:0.21, T:0.09
Consensus pattern (22 bp):
AAGAAAATGAAACAAAAATGAG
Found at i:49799464 original size:49 final size:50
Alignment explanation
Indices: 49799409--49799543 Score: 173
Period size: 51 Copynumber: 2.7 Consensus size: 50
49799399 ATCTAGTACG
*
49799409 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATCGGATACA
* * * * * * *
49799458 CGTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAAGTTATCGGATACA
*
49799509 CATAGTAGCCTACACTTAGTACTACACATGCGACC
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
49799544 TGTAACACCC
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
49 29 0.41
50 4 0.06
51 37 0.53
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATCGGATACA
Found at i:49804808 original size:47 final size:47
Alignment explanation
Indices: 49804754--49805044 Score: 220
Period size: 47 Copynumber: 6.1 Consensus size: 47
49804744 TTAGGATTTT
* *
49804754 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
49804801 ATGTGATGAATATGAACATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
49804848 ATGTGA-AATATGTATGAGATATGC--ATATGTGGTAAAGCTGAACGGTCA
1 ATGTGATGA-ATG--TGA-ATATGCATATATGTGATAAGGCCGAATGGCCA
* *
49804896 ATGTGAAATATATATATGAGATATGC--ATATGTGATAAGGCCGAATGGCCA
1 ATGTG--AT-GA-ATGTGA-ATATGCATATATGTGATAAGGCCGAATGGCCA
** *
49804946 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
49804993 ATGTGGTGAATATGAGATATGCAT-T-TGTGGTACA-GCCGAATGGTCA
1 ATGTGATGAATGTGA-ATATGCATATATGTGATA-AGGCCGAATGGCCA
49805039 ATGTGA
1 ATGTGA
49805045 AATATATATA
Statistics
Matches: 197, Mismatches: 35, Indels: 25
0.77 0.14 0.10
Matches are distributed among these distances:
45 4 0.02
46 28 0.14
47 86 0.44
48 33 0.17
49 3 0.02
50 39 0.20
52 4 0.02
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49804948 original size:50 final size:49
Alignment explanation
Indices: 49804824--49805099 Score: 289
Period size: 50 Copynumber: 5.7 Consensus size: 49
49804814 GAACATGTAT
* *
49804824 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT-GTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCCAATGTGAAATATAATATGAGATATGC
* * *
49804872 ATATGTGGTAAAGCTGAACGGTCAATGTGAAATATATATATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCCAATGTGAAATATA-ATATGAGATATGC
* * * * *
49804922 ATATGTGATAAGGCCGAATGGCCAATGTG--AT-GAATGTGAG-CATGC
1 ATATGTGGTAAAGCCGAATGGCCAATGTGAAATATAATATGAGATATGC
* * *
49804967 ATATGTGTGATAAGGCCGAATGGCCAATGTG--GT-GAATATGAGATATGC
1 ATATGTG-G-TAAAGCCGAATGGCCAATGTGAAATATAATATGAGATATGC
* * * *
49805015 ATTTGTGGTACAGCCGAATGGTCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCCAATGTGAAATATA-ATATGAGATATGC
* *
49805065 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATGTGGTAAAGCCGAATGGCCAATGTGAAATAT
49805100 GTAGGCGATG
Statistics
Matches: 190, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
45 11 0.06
46 24 0.13
47 32 0.17
48 44 0.23
49 1 0.01
50 78 0.41
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (49 bp):
ATATGTGGTAAAGCCGAATGGCCAATGTGAAATATAATATGAGATATGC
Found at i:49805001 original size:25 final size:25
Alignment explanation
Indices: 49804926--49805001 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
49804916 ATATGCATAT
49804926 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
49804951 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
49804973 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
49804998 GTGA
1 GTGA
49805002 ATATGAGATA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:49805063 original size:143 final size:144
Alignment explanation
Indices: 49804777--49805086 Score: 435
Period size: 143 Copynumber: 2.2 Consensus size: 144
49804767 GAATGTGCAT
* * *
49804777 ATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATATGTGGTAAAGCCGAA
1 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAA
* * *
49804842 TGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCTGAACGGTCAATGTGAAATAT
66 TGGCCAATGTG-AATATATATGAGATATGCATATGTGGTAAAGCCGAACGGTCAATGTGAAATAT
49804907 ATATATGAGATATGC
130 ATATATGAGATATGC
* * * *
49804922 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAA
1 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAA
* * * *
49804987 TGGCCAATGTG-GTGA-ATATGAGATATGCATTTGTGGTACAGCCGAATGGTCAATGTGAAATAT
66 TGGCCAATGTGAAT-ATATATGAGATATGCATATGTGGTAAAGCCGAACGGTCAATGTGAAATAT
*
49805050 ATATATGAGATATGT
130 ATATATGAGATATGC
* *
49805065 ATATGTGGTAAAGCCGAATGGC
1 ATATGTGATAAGGCCGAATGGC
49805087 TAGTGTGAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
143 78 0.53
144 1 0.01
145 68 0.46
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (144 bp):
ATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGAA
TGGCCAATGTGAATATATATGAGATATGCATATGTGGTAAAGCCGAACGGTCAATGTGAAATATA
TATATGAGATATGC
Found at i:49805118 original size:50 final size:50
Alignment explanation
Indices: 49804772--49805123 Score: 224
Period size: 50 Copynumber: 7.3 Consensus size: 50
49804762 AATGTGAATG
* * * * * *
49804772 TGCATATATGAGATAAGGCCGAATGGCCAATGTG--ATGA-ATATGA-ACA
1 TGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATGTATGAGATA
*
49804819 TGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA
1 TGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA
* * *
49804869 TGC--ATATGTGGTAAAGCTGAACGG-TCAATGTGAAATATATATATGAGATA
1 TGCATATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATA
* * * * *
49804919 TGC--ATATGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGAG-CA
1 TGCATATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGATA
* * * * * *
49804964 TGCATATGTGTGATAAGGCCGAATGGCCAATGTG--GTGA-ATATGAGATA
1 TGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATGTATGAGATA
* *
49805012 TGCAT-T-TGTGGTACAGCCGAATGG-TCAATGTGAAATATATATATGAGATA
1 TGCATATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATA
* * * *
49805062 TG--TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATG
1 TGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA
49805110 TGCATATATTGTGG
1 TGCATATA-TGTGG
49805124 CCGAACGACC
Statistics
Matches: 243, Mismatches: 34, Indels: 52
0.74 0.10 0.16
Matches are distributed among these distances:
45 4 0.02
46 26 0.11
47 63 0.26
48 47 0.19
49 15 0.06
50 82 0.34
51 6 0.02
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.29
Consensus pattern (50 bp):
TGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA
Found at i:49805139 original size:143 final size:142
Alignment explanation
Indices: 49804777--49805140 Score: 353
Period size: 143 Copynumber: 2.5 Consensus size: 142
49804767 GAATGTGCAT
* * * * * * * *
49804777 ATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGTATATATGTGGTAAAGCCGAA
1 ATATGTGATAAAGCCGAATGGCCAATGTGATAAATGTGAGCATGCATATATGTGAT-AGGCCGAA
* * * * * *
49804842 TGGCTAATGTGAAAT-ATGTATGAGATATGCATATGTGGTAAAGCTGAACGGTCAATGTGAAATA
65 CGACCAATGTG--GTGA-ATATGAGATATGCATATGTGGTAAAGCCGAACGGTCAATGTGAAATA
49804906 TATATATGAGATATGC
127 TATATATGAGATATGC
* * *
49804922 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAA
1 ATATGTGATAAAGCCGAATGGCCAATGTGATAAATGTGAGCATGCATATATGTGAT-AGGCCGAA
* * * * *
49804987 TGGCCAATGTGGTGAATATGAGATATGCATTTGTGGTACAGCCGAATGGTCAATGTGAAATATAT
65 CGACCAATGTGGTGAATATGAGATATGCATATGTGGTAAAGCCGAACGGTCAATGTGAAATATAT
*
49805052 ATATGAGATATGT
130 ATATGAGATATGC
* * *
49805065 ATATGTGGTAAAGCCGAATGGCTAGTGTGA-AATATGT-AGGCGATGTGCATATAT-TG-T-GGC
1 ATATGTGATAAAGCCGAATGGCCAATGTGATAA-ATGTGA-GC-A--TGCATATATGTGATAGGC
49805125 CGAACGACCAAATGTG
61 CGAACGACC-AATGTG
49805141 AAAGGTGTGT
Statistics
Matches: 189, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
142 12 0.06
143 96 0.51
144 3 0.02
145 70 0.37
146 8 0.04
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (142 bp):
ATATGTGATAAAGCCGAATGGCCAATGTGATAAATGTGAGCATGCATATATGTGATAGGCCGAAC
GACCAATGTGGTGAATATGAGATATGCATATGTGGTAAAGCCGAACGGTCAATGTGAAATATATA
TATGAGATATGC
Found at i:49805394 original size:37 final size:37
Alignment explanation
Indices: 49805249--49805393 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
49805239 GGAAATATAT
*
49805249 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49805286 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49805323 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
49805360 TCCGGGTAAGACCCGATAACTTCGTGTGGTGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
49805394 TCGTCTGAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49806379 original size:30 final size:30
Alignment explanation
Indices: 49806345--49806405 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49806335 TCCTTAACTC
49806345 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
49806375 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
49806405 A
1 A
49806406 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:49815111 original size:50 final size:49
Alignment explanation
Indices: 49814989--49815175 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 49
49814979 TGAGGTCGCA
* ** * *
49814989 TGTGTAGTACTAAGTGCAGGCTACTATGCCTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
49815040 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * * *
49815090 TATGTAGTACTAAGTGTAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
49815139 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
49815176 TTGCTTCGGC
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 38 0.33
50 41 0.36
51 30 0.26
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:49821200 original size:25 final size:25
Alignment explanation
Indices: 49821167--49821236 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
49821157 AATCAAAATG
* *
49821167 AGAAGCAAAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATTAGGTAAC
* *
49821192 AGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATTAGGTAAC
49821217 AGAATCAAAATCAGAATTAG
1 AGAATCAAAATCAGAATTAG
49821237 AATCAGTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.19
Consensus pattern (25 bp):
AGAATCAAAATCAGAATTAGGTAAC
Found at i:49821241 original size:62 final size:62
Alignment explanation
Indices: 49821155--49821295 Score: 201
Period size: 62 Copynumber: 2.3 Consensus size: 62
49821145 TATCAGAACT
* *
49821155 AGAATCAAAATGAGAAGCAAAATCAGAATTAGGTGACAGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAAAATCAGAATTAGGTGACAGAATCAAAATCAGTATCAGGTAAC
* * * * *
49821217 AGAATCAAAATCAGAATTAGAATCAGTATTAGGTGACAGAATCAGAATCAGTATTAGGTAAC
1 AGAATCAAAATCAGAATCAAAATCAGAATTAGGTGACAGAATCAAAATCAGTATCAGGTAAC
* *
49821279 AAAATCAGAATCAGAAT
1 AGAATCAAAATCAGAAT
49821296 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (62 bp):
AGAATCAAAATCAGAATCAAAATCAGAATTAGGTGACAGAATCAAAATCAGTATCAGGTAAC
Found at i:49821263 original size:25 final size:25
Alignment explanation
Indices: 49821228--49821292 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
49821218 GAATCAAAAT
* *
49821228 CAGAATTAGAATCAGTATTAGGTGA
1 CAGAATCAGAATCAGTATTAGGTAA
49821253 CAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAGAATCAGTATTAGGTAA
*
49821278 CAAAATCAGAATCAG
1 CAGAATCAGAATCAG
49821293 AATGTGAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (25 bp):
CAGAATCAGAATCAGTATTAGGTAA
Found at i:49821273 original size:37 final size:37
Alignment explanation
Indices: 49821191--49821273 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
49821181 AATTAGGTGA
* *
49821191 CAGAATCAAAATCAGTATCAGGTAACAGAATCAAAAT
1 CAGAATTAGAATCAGTATCAGGTAACAGAATCAAAAT
* * *
49821228 CAGAATTAGAATCAGTATTAGGTGACAGAATCAGAAT
1 CAGAATTAGAATCAGTATCAGGTAACAGAATCAAAAT
*
49821265 CAGTATTAG
1 CAGAATTAG
49821274 GTAACAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (37 bp):
CAGAATTAGAATCAGTATCAGGTAACAGAATCAAAAT
Found at i:49821460 original size:27 final size:27
Alignment explanation
Indices: 49821412--49821492 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
49821402 AGCATGGCTG
* * * *
49821412 CCAGAA-CAGATATTGCGACAGAGTCA
1 CCAGAATCAGATAATGTGGCAGAGCCA
**
49821438 CCA-AATACAGATGTTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
*
49821465 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATAATGTGGCAGAGCCA
49821492 C
1 C
49821493 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.04
26 3 0.07
27 37 0.82
28 3 0.07
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:49821611 original size:22 final size:22
Alignment explanation
Indices: 49821581--49821641 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
49821571 ACAATAACCA
*
49821581 CACACAGCCATAATCAGGTTGG
1 CACAAAGCCATAATCAGGTTGG
*
49821603 CACAAAGCCAT-ATGTAGGTTGG
1 CACAAAGCCATAAT-CAGGTTGG
*
49821625 CGCAAAGCCATAATCAG
1 CACAAAGCCATAATCAG
49821642 AATAATTGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (22 bp):
CACAAAGCCATAATCAGGTTGG
Found at i:49822217 original size:27 final size:27
Alignment explanation
Indices: 49822159--49822296 Score: 163
Period size: 27 Copynumber: 5.1 Consensus size: 27
49822149 CAAAATGGTA
* * *
49822159 AATT-TACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAAGGGTATTTCAGT
*
49822185 AATTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAAGGGTATTTCAGT
* * **
49822212 ATTTCTACCCTACAAGGGCATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCAGT
*
49822239 AATTCTACCCTAC-AGGGTTATTTTAGT
1 AATTCTACCCTACAAGGG-TATTTCAGT
*
49822266 AATTCTACCCTACAAGGGTATTTCAAT
1 AATTCTACCCTACAAGGGTATTTCAGT
49822293 AATT
1 AATT
49822297 TTGTAAATCG
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
26 8 0.08
27 83 0.87
28 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.35
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCAGT
Found at i:49822296 original size:54 final size:54
Alignment explanation
Indices: 49822159--49822289 Score: 192
Period size: 54 Copynumber: 2.4 Consensus size: 54
49822149 CAAAATGGTA
* *
49822159 AATT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* * * * *
49822212 ATTTCTACCCTACAAGGGCATTTTGGTAATTCTACCCTACAGGGTTATTTTAGT
1 AATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
49822266 AATTCTACCCTACAAGGGTATTTC
1 AATTCTACCCTACAAGGGTATTTC
49822290 AATAATTTTG
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 3 0.04
54 64 0.96
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (54 bp):
AATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:49822364 original size:27 final size:26
Alignment explanation
Indices: 49822334--49822539 Score: 171
Period size: 27 Copynumber: 7.7 Consensus size: 26
49822324 TATAAATCAG
*
49822334 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-TCGA
*** *
49822361 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACA-ATCGA
** *
49822388 GGGTATTTCAGTAATTTCACAAATCTG-
1 GGGTATTTTGGTAATTTTAC-AATC-GA
* *
49822415 GGGTATTTTGGTAATTTTACAAACCA
1 GGGTATTTTGGTAATTTTACAATCGA
* * *
49822441 GGGGTATTTTGGTGATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTTAC-AATCGA
* *
49822469 GGGTATTTTGGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAATCGA
* * *
49822495 GGGGTGTTTTGGTAATTTTTCTAATTGA
1 -GGGTATTTTGGTAATTTTAC-AATCGA
49822523 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
49822540 GGTAAACTAA
Statistics
Matches: 146, Mismatches: 25, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
26 7 0.05
27 130 0.89
28 9 0.06
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAATCGA
Found at i:49822505 original size:54 final size:54
Alignment explanation
Indices: 49822316--49822539 Score: 189
Period size: 54 Copynumber: 4.1 Consensus size: 54
49822306 GAGGTAAAAC
* * * * ** * *
49822316 GGTAATTCTATAAATCAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
** *** ** * * **
49822370 AATAATTTTACAGGTC-GAGGGTATTTCAGTAATTTCACAAATCTGGGGTATTTT
1 GGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
*
49822424 GGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
* * * * ***
49822478 GGTAATTTTACAAACTAGGGGTGTTTTGGTAATTTTTCTAATTGAGGGTATTTT
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
49822532 GGTAATTT
1 GGTAATTT
49822540 GGTAAACTAA
Statistics
Matches: 134, Mismatches: 34, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
53 1 0.01
54 132 0.99
55 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (54 bp):
GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
Found at i:49822527 original size:81 final size:81
Alignment explanation
Indices: 49822327--49822539 Score: 198
Period size: 81 Copynumber: 2.6 Consensus size: 81
49822317 GTAATTCTAT
* * ** *** *** *
49822327 AAATCAGGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAGGTCGAGGG
1 AAATCTGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAACCAAGGG
49822391 TATTTCAGTAATTTCAC
65 TATTTCAGTAATTTCAC
*
49822408 AAATCTGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTACAAACCAAGGGT
1 AAATCTGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGT
** *
49822473 ATTTTGGTAATTTTAC
66 ATTTCAGTAATTTCAC
* * * **
49822489 AAA-CTAGGGGTGTTTTGGTAATTTTTCTAA-TTGAGGGTATTTTGGTAATTT
1 AAATCT-GGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTT
49822540 GGTAAACTAA
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
80 3 0.03
81 104 0.96
82 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (81 bp):
AAATCTGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAAGGGT
ATTTCAGTAATTTCAC
Found at i:49833132 original size:47 final size:46
Alignment explanation
Indices: 49833081--49833211 Score: 199
Period size: 47 Copynumber: 2.8 Consensus size: 46
49833071 ATGTTTGGCA
*
49833081 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TTATGGATGCGAACG
49833128 TCCGAACTCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACT-CGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
49833175 CCCGAGCTCGTTGAGTTGGGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49833212 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
46 27 0.35
47 28 0.36
48 23 0.29
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Done.