Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 646 of 770
Found at i:203039367 original size:40 final size:40
Alignment explanation
Indices: 203039282--203039432 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
203039272 AATTGAATGA
* * *
203039282 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
203039322 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
203039363 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
203039402 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
203039433 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:203039446 original size:40 final size:40
Alignment explanation
Indices: 203039319--203039448 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
203039309 ATGCTGGAAA
* * * *
203039319 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
203039359 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
203039399 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
203039439 TTATATCCGG
1 TTATATCCGG
203039449 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:203045478 original size:28 final size:28
Alignment explanation
Indices: 203045413--203045513 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
203045403 TATAGTGATC
*
203045413 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
203045442 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
203045470 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
203045500 CGCACACTTAGTGC
1 CGCACACTTAGTGC
203045514 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:203050240 original size:30 final size:30
Alignment explanation
Indices: 203050206--203050266 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
203050196 TCCTTAACTC
203050206 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
203050236 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
203050266 A
1 A
203050267 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:203051957 original size:93 final size:93
Alignment explanation
Indices: 203051845--203052016 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
203051835 GCCCATAAGT
* *
203051845 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
203051910 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
203051938 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
203052003 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
203052017 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:203052012 original size:46 final size:46
Alignment explanation
Indices: 203051837--203052012 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
203051827 TGTAACCCGC
* * *
203051837 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
203051883 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
203051933 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
203051976 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
203052013 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:203057440 original size:30 final size:30
Alignment explanation
Indices: 203057406--203057466 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
203057396 TCCTTAACTC
203057406 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
203057436 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
203057466 A
1 A
203057467 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:203060680 original size:29 final size:29
Alignment explanation
Indices: 203060618--203060720 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
203060608 GTGACGAGAT
* * *
203060618 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
203060647 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
203060676 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
203060705 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
203060721 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:203063147 original size:40 final size:39
Alignment explanation
Indices: 203063102--203063267 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
203063092 CGGAATATAA
203063102 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
203063142 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
203063181 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
203063221 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
203063260 CCGGATAT
1 CCGGATAT
203063268 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:203063224 original size:79 final size:79
Alignment explanation
Indices: 203063118--203063267 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
203063108 ATAATCACGT
*
203063118 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
203063181 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
203063197 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
203063262 GGATAT
66 GGATAT
203063268 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:203071125 original size:40 final size:39
Alignment explanation
Indices: 203071080--203071245 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
203071070 CGGAATATAA
203071080 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
203071120 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
203071159 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
203071199 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
203071238 CCGGATAT
1 CCGGATAT
203071246 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:203071202 original size:79 final size:79
Alignment explanation
Indices: 203071096--203071245 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
203071086 ATAATCACGT
*
203071096 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
203071159 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
203071175 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
203071240 GGATAT
66 GGATAT
203071246 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:203073872 original size:25 final size:26
Alignment explanation
Indices: 203073819--203073904 Score: 99
Period size: 25 Copynumber: 3.4 Consensus size: 26
203073809 TATGGCTCTT
*
203073819 ATGAGCTTCCCATTACA-CAGCTCGA-
1 ATGAGCTTCCCATTACATGA-CTCGAC
203073844 ATGAGCTTCCCATTACATGACTC-AC
1 ATGAGCTTCCCATTACATGACTCGAC
* * *
203073869 ATGAGCTTCCTATTATATGGCTCGAC
1 ATGAGCTTCCCATTACATGACTCGAC
203073895 A-GAGCTTCCC
1 ATGAGCTTCCC
203073905 GTTAGTGTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
24 1 0.02
25 48 0.91
26 4 0.08
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (26 bp):
ATGAGCTTCCCATTACATGACTCGAC
Found at i:203076293 original size:17 final size:17
Alignment explanation
Indices: 203076259--203076318 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
203076249 ATGTGCGAGG
*
203076259 TCACCAAAGATACTAGC
1 TCACCAAAGATACAAGC
**
203076276 TCACCAAATCTACAAGC
1 TCACCAAAGATACAAGC
* * *
203076293 TCATCAAACG-TGCGAGC
1 TCACCAAA-GATACAAGC
203076310 TCACCAAAG
1 TCACCAAAG
203076319 TTGTGAGTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
16 1 0.03
17 33 0.97
ACGTcount: A:0.38, C:0.32, G:0.13, T:0.17
Consensus pattern (17 bp):
TCACCAAAGATACAAGC
Found at i:203080380 original size:38 final size:38
Alignment explanation
Indices: 203080288--203080391 Score: 156
Period size: 38 Copynumber: 2.7 Consensus size: 38
203080278 TTAAATAGCT
**
203080288 CACAAATGCCTTCGGGA-CTTAACCCGGATTTGGAACTCG
1 CACAAATGCCTTC-GGATCTTAGTCC-GATTTGGAACTCG
203080327 CAACAAATGCCTTCGGATCTTAGTCCGATTTGGAACTCG
1 C-ACAAATGCCTTCGGATCTTAGTCCGATTTGGAACTCG
203080366 CACAAATGCCTTCGGATCTTAGTCCG
1 CACAAATGCCTTCGGATCTTAGTCCG
203080392 GATATGGTCA
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
38 25 0.41
39 18 0.30
40 18 0.30
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
CACAAATGCCTTCGGATCTTAGTCCGATTTGGAACTCG
Found at i:203088386 original size:40 final size:40
Alignment explanation
Indices: 203088274--203088426 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
203088264 TCCGGATATG
* * * * ***
203088274 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
203088314 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
203088354 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
203088394 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
203088427 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:203097775 original size:39 final size:40
Alignment explanation
Indices: 203097731--203097896 Score: 174
Period size: 40 Copynumber: 4.2 Consensus size: 40
203097721 CGGAATATAA
*
203097731 CCGGATATAATCAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
203097770 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
203097810 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
203097850 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
203097889 CCGGATAT
1 CCGGATAT
203097897 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 25 0.24
40 79 0.76
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:203098739 original size:17 final size:19
Alignment explanation
Indices: 203098716--203098761 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
203098706 AAGAAGCATG
203098716 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
203098734 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
203098752 AATCATGCTC
1 AATCATGCTC
203098762 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:203105740 original size:40 final size:39
Alignment explanation
Indices: 203105629--203105779 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
203105619 TATAATCAGT
* * *
203105629 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
203105669 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
203105709 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
203105749 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
203105780 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:203105763 original size:80 final size:79
Alignment explanation
Indices: 203105629--203105779 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
203105619 TATAATCAGT
*
203105629 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
203105694 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
203105709 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
203105772 CCGGATAT
64 CCGGATAT
203105780 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:203106626 original size:17 final size:19
Alignment explanation
Indices: 203106603--203106648 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
203106593 AAGAAGCATG
203106603 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
203106621 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
203106639 AATCATGCTC
1 AATCATGCTC
203106649 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:203107080 original size:22 final size:20
Alignment explanation
Indices: 203107052--203107091 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
203107042 GTATGCACTC
203107052 TCTCACACACATTTTTTTTT
1 TCTCACACACATTTTTTTTT
203107072 TCTCACACACATTTTTTTTT
1 TCTCACACACATTTTTTTTT
203107092 CATTCTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (20 bp):
TCTCACACACATTTTTTTTT
Found at i:203112561 original size:2 final size:2
Alignment explanation
Indices: 203112554--203112588 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
203112544 TCTGTTTATG
203112554 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
203112589 GCTACTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:203112876 original size:19 final size:19
Alignment explanation
Indices: 203112852--203112889 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
203112842 TTGAGATTGC
*
203112852 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
203112871 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
203112890 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:203116894 original size:41 final size:40
Alignment explanation
Indices: 203116847--203117063 Score: 208
Period size: 41 Copynumber: 5.3 Consensus size: 40
203116837 GCGTTTGAAA
203116847 CAAAACGCCACTAAAAGCTGAGCAATAGTGGCGTTTTCATT
1 CAAAACGCCACTAAAAGCTGAGCAATAGTGGCGTTTT-ATT
* * *
203116888 CAAAACGCCGCTAAAAACTGAGTAATAGTGGCGTTTTTATT
1 CAAAACGCCACTAAAAGCTGAGCAATAGTGGCG-TTTTATT
* * * *
203116929 CAAAACGCCGCAAAAAACTGAGAAATAGTGGCGTTTTATT
1 CAAAACGCCACTAAAAGCTGAGCAATAGTGGCGTTTTATT
* * *
203116969 CAAAACGCC-GTAAAAAGCTGAG-ATATAGTGGCGCTTTAGGT
1 CAAAACGCCACT-AAAAGCTGAGCA-ATAGTGGCGTTTTA-TT
* * *
203117010 CCAAACGCCAC-AAAAGGTTGAGCTATAGTGGCGTTTT-TGT
1 CAAAACGCCACTAAAA-GCTGAGCAATAGTGGCGTTTTAT-T
* *
203117050 AAAAACGCCGCTAA
1 CAAAACGCCACTAA
203117064 TATTTATTAT
Statistics
Matches: 148, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
39 1 0.01
40 51 0.34
41 92 0.62
42 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAAACGCCACTAAAAGCTGAGCAATAGTGGCGTTTTATT
Found at i:203116997 original size:81 final size:82
Alignment explanation
Indices: 203116847--203117063 Score: 239
Period size: 81 Copynumber: 2.7 Consensus size: 82
203116837 GCGTTTGAAA
* * *
203116847 CAAAACGCCACTAAAAGCTGAGCAATAGTGGCGTTTTCATTCAAAACGCCGCTAAAAACTGAGTA
1 CAAAACGCCACAAAAAACTGAGAAATAGTGGCGTTTTCATTCAAAACGCCGCTAAAAACTGAGTA
203116912 ATAGTGGCGTTTTTATT
66 ATAGTGGCGTTTTTATT
*
203116929 CAAAACGCCGCAAAAAACTGAGAAATAGTGGCGTTTT-ATTCAAAACGCCG-TAAAAAGCTGAG-
1 CAAAACGCCACAAAAAACTGAGAAATAGTGGCGTTTTCATTCAAAACGCCGCTAAAAA-CTGAGT
* *
203116991 ATATAGTGGCG-CTTTAGGT
65 A-ATAGTGGCGTTTTTA-TT
* *** ** *
203117010 CCAAACGCCACAAAAGGTTGAGCTATAGTGGCGTTTT--TGTAAAAACGCCGCTAA
1 CAAAACGCCACAAAAAACTGAGAAATAGTGGCGTTTTCAT-TCAAAACGCCGCTAA
203117064 TATTTATTAT
Statistics
Matches: 116, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
80 12 0.10
81 68 0.59
82 36 0.31
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAAACGCCACAAAAAACTGAGAAATAGTGGCGTTTTCATTCAAAACGCCGCTAAAAACTGAGTA
ATAGTGGCGTTTTTATT
Found at i:203117626 original size:29 final size:29
Alignment explanation
Indices: 203117587--203117642 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
203117577 AAAATATGAA
*
203117587 GCCTAACCCCTAAATCATAACCGATGACC
1 GCCTAACCCCTAAATCATAACCCATGACC
*
203117616 GCCTAATCCCTAAATCATAACCCATGA
1 GCCTAACCCCTAAATCATAACCCATGA
203117643 TCTAAACTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.36, G:0.09, T:0.20
Consensus pattern (29 bp):
GCCTAACCCCTAAATCATAACCCATGACC
Found at i:203117838 original size:14 final size:15
Alignment explanation
Indices: 203117812--203117855 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
203117802 CTTTAAACCC
203117812 TTATAATACCCTAAA-
1 TTATAA-ACCCTAAAT
203117827 TTATAAACCCTAAAT
1 TTATAAACCCTAAAT
*
203117842 TTGTAAACCCTAAA
1 TTATAAACCCTAAA
203117856 AATAAATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 8 0.30
15 19 0.70
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (15 bp):
TTATAAACCCTAAAT
Found at i:203118837 original size:18 final size:18
Alignment explanation
Indices: 203118814--203118848 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
203118804 CCCACCCAAA
203118814 TTTCCCCAAATCCCTAAC
1 TTTCCCCAAATCCCTAAC
*
203118832 TTTCCCCTAATCCCTAA
1 TTTCCCCAAATCCCTAA
203118849 ATATTTCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.43, G:0.00, T:0.31
Consensus pattern (18 bp):
TTTCCCCAAATCCCTAAC
Found at i:203118936 original size:19 final size:19
Alignment explanation
Indices: 203118881--203118937 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 19
203118871 AAATATCCTT
*
203118881 CTGCCGTTGAAGACTCCGA
1 CTGCCGTTGAAGACTCTGA
*
203118900 CTGCCGTTGAAGAATCTGA
1 CTGCCGTTGAAGACTCTGA
*
203118919 CTGCCATTGAAGACTCTGA
1 CTGCCGTTGAAGACTCTGA
203118938 GTGGACGACC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (19 bp):
CTGCCGTTGAAGACTCTGA
Found at i:203122426 original size:23 final size:23
Alignment explanation
Indices: 203122396--203122444 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
203122386 ACATTAATCT
203122396 AATGTATGAA-TTGCAGCCCTTTA
1 AATGTATGAATTTG-AGCCCTTTA
203122419 AATGTATGAATTTGAGCCCTTTA
1 AATGTATGAATTTGAGCCCTTTA
203122442 AAT
1 AAT
203122445 AAACTTGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (23 bp):
AATGTATGAATTTGAGCCCTTTA
Found at i:203122503 original size:10 final size:10
Alignment explanation
Indices: 203122488--203122538 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
203122478 TTATTATTTG
203122488 AAGTATGAAT
1 AAGTATGAAT
203122498 AAGTATGAAT
1 AAGTATGAAT
* **
203122508 AAGTTTTTAT
1 AAGTATGAAT
203122518 -A--ATGAAT
1 AAGTATGAAT
203122525 AAGTATGAAT
1 AAGTATGAAT
203122535 AAGT
1 AAGT
203122539 TTTTATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
7 3 0.09
8 1 0.03
9 1 0.03
10 27 0.84
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (10 bp):
AAGTATGAAT
Found at i:203122530 original size:27 final size:27
Alignment explanation
Indices: 203122492--203122545 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
203122482 TATTTGAAGT
203122492 ATGAATAAGTATGAATAAGTTTTTATA
1 ATGAATAAGTATGAATAAGTTTTTATA
203122519 ATGAATAAGTATGAATAAGTTTTTATA
1 ATGAATAAGTATGAATAAGTTTTTATA
203122546 TTTGATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (27 bp):
ATGAATAAGTATGAATAAGTTTTTATA
Found at i:203123373 original size:240 final size:241
Alignment explanation
Indices: 203122583--203123494 Score: 1727
Period size: 241 Copynumber: 3.8 Consensus size: 241
203122573 ATGAATTAAT
* *
203122583 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGCTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
203122648 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
203122713 CCGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
203122778 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
196 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
203122824 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
*
203122889 ATTGTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
203122954 CCGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
203123019 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
196 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
203123065 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
203123130 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
* * * *
203123195 CTATAAGATATAATGGATCCTCCCTAGGTGTAACAAC-ACGCGTATGATGAATCTTAAAAAAATC
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
203123259 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
196 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
203123305 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
203123370 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
203123435 CTATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAA
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAA
203123495 TTTATAACTA
Statistics
Matches: 659, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
240 237 0.36
241 422 0.64
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (241 bp):
TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATA
Found at i:203123486 original size:481 final size:482
Alignment explanation
Indices: 203122583--203123494 Score: 1727
Period size: 481 Copynumber: 1.9 Consensus size: 482
203122573 ATGAATTAAT
*
203122583 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGCTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGCTT
203122648 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
* * *
203122713 CCGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGACACGTATGATGAATCTTAAAAAAATC
203122778 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATATTTATTACCATATAGCTTG
196 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATATTTATTACCATATAGCTTG
203122843 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTTATTGTAAATATTTTAAAGA
261 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTTATTGTAAATATTTTAAAGA
*
203122908 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCCGTAAGATATAATGGATC
326 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCCATAAGATATAATGGATC
203122973 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAAT
391 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAAT
203123038 TCTATCCAACTCATTTACTATTGAATA
456 TCTATCCAACTCATTTACTATTGAATA
*
203123065 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGCTT
203123130 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
* *
203123195 CTATAAGATATAATGGATCCTCCCTAGGTGTAACAAC-ACGCGTATGATGAATCTTAAAAAAATC
131 CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGACACGTATGATGAATCTTAAAAAAATC
203123259 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATATTTATTACCATATAGCTTG
196 AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATATTTATTACCATATAGCTTG
*
203123324 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTTATTTTAAATATTTTAAAGA
261 CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTTATTGTAAATATTTTAAAGA
*
203123389 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTATAAGATATAATGGATC
326 TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCCATAAGATATAATGGATC
203123454 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAA
391 CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAA
203123495 TTTATAACTA
Statistics
Matches: 420, Mismatches: 10, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
481 257 0.61
482 163 0.39
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (482 bp):
TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CCATAAGATATAATGGATCCTCCCTAGGTGTAACAACGACACGTATGATGAATCTTAAAAAAATC
AAAAATACTTGAAAAAAATTCTATCCAACTCATTTACTATTGAATATTTATTACCATATAGCTTG
CTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAGTTTATTGTAAATATTTTAAAGA
TTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCCATAAGATATAATGGATC
CTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAATACTTGAAAAAAAT
TCTATCCAACTCATTTACTATTGAATA
Found at i:203123561 original size:9 final size:9
Alignment explanation
Indices: 203123538--203123650 Score: 118
Period size: 9 Copynumber: 12.2 Consensus size: 9
203123528 ATTGATCATT
*
203123538 ACTTAAATA
1 ACTTACATA
*
203123547 AATTACATA
1 ACTTACATA
203123556 ACTTACATA
1 ACTTACATA
* *
203123565 ACTCATATA
1 ACTTACATA
203123574 ACTTACATA
1 ACTTACATA
*
203123583 ATTTACATAACA
1 ACTTACAT---A
203123595 ACTTACATA
1 ACTTACATA
*
203123604 ACTCACATA
1 ACTTACATA
203123613 ACTTACATA
1 ACTTACATA
*
203123622 ATTTACATA
1 ACTTACATA
*
203123631 ACTCACATA
1 ACTTACATA
*
203123640 ACGTACATA
1 ACTTACATA
203123649 AC
1 AC
203123651 AACTTACATA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
9 77 0.91
12 8 0.09
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:203123607 original size:39 final size:39
Alignment explanation
Indices: 203123555--203123632 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
203123545 TAAATTACAT
*
203123555 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
203123594 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
203123633 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:203123632 original size:57 final size:57
Alignment explanation
Indices: 203123551--203123662 Score: 170
Period size: 57 Copynumber: 2.0 Consensus size: 57
203123541 TAAATAAATT
* * **
203123551 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* *
203123608 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAAC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAAC
203123663 CTAACTAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.29
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:203129712 original size:25 final size:25
Alignment explanation
Indices: 203129678--203129736 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
203129668 TTGTAGAAAA
*
203129678 AGCGCCGCTAAAAGCCTTGACCTTT
1 AGCGGCGCTAAAAGCCTTGACCTTT
*
203129703 AGCGGCGCTAAAAGTCTTGACCTTT
1 AGCGGCGCTAAAAGCCTTGACCTTT
203129728 AGCGGCGCT
1 AGCGGCGCT
203129737 TTTCCAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (25 bp):
AGCGGCGCTAAAAGCCTTGACCTTT
Found at i:203129794 original size:44 final size:43
Alignment explanation
Indices: 203129708--203129908 Score: 312
Period size: 43 Copynumber: 4.6 Consensus size: 43
203129698 CCTTTAGCGG
* * * *
203129708 CGCTAAAAGTCTTGACCTTTAGCGGCGCTTTTCCAAAAAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCC-CACAAACGC
* *
203129752 CCCTAAAAGCCTTGACCTTTTAGCGGTGCTTCTCCCACAAACGC
1 CGCTAAAAGCCTTGACC-TTTAGCGGCGCTTCTCCCACAAACGC
*
203129796 CGCTAAAAGCCTTGACCTTTAGCGGCGTTTCTCCCACAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGC
*
203129839 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGC
1 CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGC
203129882 CGCTAAAAGCCTTGACCTTTAGCGGCG
1 CGCTAAAAGCCTTGACCTTTAGCGGCG
203129909 TTTTTTTCCA
Statistics
Matches: 145, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
43 92 0.63
44 38 0.26
45 15 0.10
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (43 bp):
CGCTAAAAGCCTTGACCTTTAGCGGCGCTTCTCCCACAAACGC
Found at i:203138375 original size:41 final size:41
Alignment explanation
Indices: 203138326--203138463 Score: 118
Period size: 41 Copynumber: 3.2 Consensus size: 41
203138316 AAGACATAGC
203138326 TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
1 TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
* * * * ** *
203138367 TGATTTGGC-ATCTC-TGTATCAGGCGGAGAGCAGATCGAAGACA
1 TGATTTGGCTTTCACGTGT-TTACGTTGA-AGCAGATCCAAG--A
*
203138410 TAGCTAATTTGGCTTTCACGTGTTTATGTTGAAGCAGATCCAAGA
1 T-G---ATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
203138455 TGATTTGGC
1 TGATTTGGC
203138464 GTCTTGTAGC
Statistics
Matches: 73, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
39 3 0.04
40 8 0.11
41 27 0.37
43 2 0.03
44 2 0.03
45 2 0.03
47 18 0.25
48 8 0.11
49 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
TGATTTGGCTTTCACGTGTTTACGTTGAAGCAGATCCAAGA
Found at i:203138420 original size:88 final size:87
Alignment explanation
Indices: 203138273--203138492 Score: 347
Period size: 88 Copynumber: 2.6 Consensus size: 87
203138263 AGCTGAAGAT
* * *
203138273 ATCCAAGATGATTTGGCATTTTGTATCAGG-GGGGAGCAGATCGAAGACATAGCTGATTTGGCTT
1 ATCCAAGATGATTTGGCATCTTGTATCAGGCGGAGAGCAGATCGAAGACATAGCTAATTTGGCTT
203138337 TCACGTGTTTACGTTGAAGCAG
66 TCACGTGTTTACGTTGAAGCAG
203138359 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGAGAGCAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCT-TGTATCAGGCGGAGAGCAGATCGAAGACATAGCTAATTTGGCT
*
203138424 TTCACGTGTTTATGTTGAAGCAG
65 TTCACGTGTTTACGTTGAAGCAG
* * *
203138447 ATCCAAGATGATTTGGCGTCTTGTAGC-GGCAGA-AGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTTGTATCAGGCGGAGAGCAGATCGAAGA
203138493 TAACAGATTT
Statistics
Matches: 125, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
85 13 0.10
86 25 0.20
87 14 0.11
88 73 0.58
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (87 bp):
ATCCAAGATGATTTGGCATCTTGTATCAGGCGGAGAGCAGATCGAAGACATAGCTAATTTGGCTT
TCACGTGTTTACGTTGAAGCAG
Found at i:203138447 original size:47 final size:46
Alignment explanation
Indices: 203138307--203138454 Score: 130
Period size: 47 Copynumber: 3.3 Consensus size: 46
203138297 ATCAGGGGGG
*
203138307 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCCAAGACATAGCT-ATTTGGCTTTCACGTGTTTACGTTGA
* * * * **
203138354 AGCAGATCCAAG--AT-G--ATTTGGC-ATCTC-TGTATCAGGCGGA
1 AGCAGATCCAAGACATAGCTATTTGGCTTTCACGTGT-TTACGTTGA
* *
203138394 GAGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTATGTTGA
1 -AGCAGATCCAAGACATAGCT-ATTTGGCTTTCACGTGTTTACGTTGA
203138442 AGCAGATCCAAGA
1 AGCAGATCCAAGA
203138455 TGATTTGGCG
Statistics
Matches: 76, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
39 3 0.04
40 8 0.11
41 18 0.24
43 2 0.03
44 2 0.03
45 2 0.03
47 30 0.39
48 8 0.11
49 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (46 bp):
AGCAGATCCAAGACATAGCTATTTGGCTTTCACGTGTTTACGTTGA
Found at i:203138508 original size:20 final size:20
Alignment explanation
Indices: 203138485--203138523 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
203138475 GCAGAAGCAG
203138485 ATCGAAGATAACAGATTTGA
1 ATCGAAGATAACAGATTTGA
*
203138505 ATCGAAGATAGCAGATTTG
1 ATCGAAGATAACAGATTTG
203138524 GCATCTCTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (20 bp):
ATCGAAGATAACAGATTTGA
Found at i:203138592 original size:43 final size:44
Alignment explanation
Indices: 203138505--203139565 Score: 1684
Period size: 43 Copynumber: 24.7 Consensus size: 44
203138495 ACAGATTTGA
* * *
203138505 ATCGAAGATAGCAGATTTGGCATCTCTGTAGCGGTGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203138549 ATCGAAGATAACAGATTTGGCGTCT-TGTAGCGGCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
*
203138592 ATCGAAGATAACAGATTTGGCGT-TCTGTAGTGGC-GAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
**
203138634 ATCGAAGATAACAGATTTGGCGTCT-TGTAGCGGCGGAGAATAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
* *
203138677 ATCGAAGAT----GATTTGGCATCTCTGTAGCGGCAGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
*
203138717 ATCGAAGATAACAGATTTGGCGTATCTGTAGCGGCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203138761 ATCGAAGATAACAGATTTGGCGTCTCTGTAG-GGC--AGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203138802 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203138846 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG-GGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203138889 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCA-
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
*
203138931 ATCGAAGAT----GATTT-G-GTCTCTGTAGCGGAGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203138969 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
*
203139013 ATCGAAGATAACAGATTTGGCGTCT-TGTAGTGGCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
*
203139056 ATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203139100 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGTAGCGGCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTC--T------GTAGCGGCGGAGAGCAG
203139152 ATC-AAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCA-
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203139194 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
*
203139238 ATCGAAGAT----GATTTGGCATCTCTGTAGCGGC-GAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203139277 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203139321 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203139365 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203139408 ATCGAAGATAA-AGATTTGGCGTCTCTGTAGC-GCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203139450 ATCGAAGATAACAGATTTGGCGTCTC-GTAGCGGCGGAGAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
*
203139493 ATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGG-GAGCAG
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
*
203139536 ATCGAAGATAACGGATTTGGCGTCTCTGTA
1 ATCGAAGATAACAGATTTGGCGTCTCTGTA
203139566 TTAGACGGGA
Statistics
Matches: 951, Mismatches: 26, Indels: 81
0.90 0.02 0.08
Matches are distributed among these distances:
36 13 0.01
37 8 0.01
38 14 0.01
39 28 0.03
40 45 0.05
41 40 0.04
42 104 0.11
43 338 0.36
44 317 0.33
46 1 0.00
49 1 0.00
51 22 0.02
52 20 0.02
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (44 bp):
ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
Found at i:203139097 original size:87 final size:88
Alignment explanation
Indices: 203138505--203139565 Score: 1684
Period size: 85 Copynumber: 12.3 Consensus size: 88
203138495 ACAGATTTGA
* * *
203138505 ATCGAAGATAGCAGATTTGGCATCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGC
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
203138570 GTCT-TGTAGCGGCGGAGAGCAG
66 GTCTCTGTAGCGGCGGAGAGCAG
*
203138592 ATCGAAGATAACAGATTTGGCGT-TCTGTAGTGGC-GAGAGCAGATCGAAGATAACAGATTTGGC
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
**
203138655 GTCT-TGTAGCGGCGGAGAATAG
66 GTCTCTGTAGCGGCGGAGAGCAG
* *
203138677 ATCGAAGAT----GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGC
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
*
203138738 GTATCTGTAGCGGCGGAGAGCAG
66 GTCTCTGTAGCGGCGGAGAGCAG
203138761 ATCGAAGATAACAGATTTGGCGTCTCTGTAG-GGC--AGAGCAGATCGAAGATAACAGATTTGGC
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
203138823 GTCTCTGTAGCGGCGGAGAGCAG
66 GTCTCTGTAGCGGCGGAGAGCAG
203138846 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG-GGAGAGCAGATCGAAGATAACAGATTTGGC
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
203138910 GTCTCTGTAGCGGC-GAGAGCA-
66 GTCTCTGTAGCGGCGGAGAGCAG
*
203138931 ATCGAAGAT----GATTT-G-GTCTCTGTAGCGGAGGAGAGCAGATCGAAGATAACAGATTTGGC
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
203138990 GTCTCTGTAGCGGCGGAGAGCAG
66 GTCTCTGTAGCGGCGGAGAGCAG
*
203139013 ATCGAAGATAACAGATTTGGCGTCT-TGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
*
203139077 ATCTCTGTAGCGGCGGAGAGCAG
66 GTCTCTGTAGCGGCGGAGAGCAG
203139100 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGTAGCGGCGGAGAGCAGATC-AAGATAACA
1 ATCGAAGATAACAGATTTGGCGTCTC--T------GTAGCGGCGGAGAGCAGATCGAAGATAACA
203139164 GATTTGGCGTCTCTGTAGCGGCGGAGAGCA-
58 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAG
203139194 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----GATTTGGC
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
*
203139255 ATCTCTGTAGCGGC-GAGAGCAG
66 GTCTCTGTAGCGGCGGAGAGCAG
203139277 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
203139342 GTCTCTGTAGCGGCGGAGAGCAG
66 GTCTCTGTAGCGGCGGAGAGCAG
203139365 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGAGCAGATCGAAGATAA-AGATTTGGC
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
203139428 GTCTCTGTAGC-GCGGAGAGCAG
66 GTCTCTGTAGCGGCGGAGAGCAG
*
203139450 ATCGAAGATAACAGATTTGGCGTCTC-GTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGC
1 ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
203139514 GTCTCTGTAGCGGCGG-GAGCAG
66 GTCTCTGTAGCGGCGGAGAGCAG
*
203139536 ATCGAAGATAACGGATTTGGCGTCTCTGTA
1 ATCGAAGATAACAGATTTGGCGTCTCTGTA
203139566 TTAGACGGGA
Statistics
Matches: 913, Mismatches: 22, Indels: 78
0.90 0.02 0.08
Matches are distributed among these distances:
79 13 0.01
80 45 0.05
81 21 0.02
82 26 0.03
83 106 0.12
84 33 0.04
85 203 0.22
86 114 0.12
87 203 0.22
88 64 0.07
90 1 0.00
92 1 0.00
94 26 0.03
95 38 0.04
96 19 0.02
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (88 bp):
ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGC
GTCTCTGTAGCGGCGGAGAGCAG
Found at i:203141076 original size:19 final size:19
Alignment explanation
Indices: 203141052--203141089 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
203141042 TTGAGATTGC
*
203141052 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
203141071 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
203141090 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:203143882 original size:46 final size:46
Alignment explanation
Indices: 203143815--203143988 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
203143805 TGTAACCCGC
*
203143815 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
203143861 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
203143911 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
203143953 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
203143989 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:203143981 original size:92 final size:93
Alignment explanation
Indices: 203143823--203143993 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
203143813 GCCCATAAGT
* *
203143823 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
203143888 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
203143916 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
203143980 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
203143994 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:203146418 original size:30 final size:30
Alignment explanation
Indices: 203146374--203146462 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
203146364 CAAAGATAAC
203146374 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
203146403 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
203146433 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
203146463 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:203146422 original size:15 final size:15
Alignment explanation
Indices: 203146374--203146453 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
203146364 CAAAGATAAC
*
203146374 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
203146388 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
203146403 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
203146418 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
203146433 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
203146448 AAGAAA
1 AAGAAA
203146454 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:203146462 original size:15 final size:15
Alignment explanation
Indices: 203146385--203146462 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
203146375 AGAAAACCGA
203146385 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
203146400 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
203146414 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
203146429 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
203146445 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
203146460 ATA
1 ATA
203146463 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:203149467 original size:46 final size:46
Alignment explanation
Indices: 203149400--203149573 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
203149390 TGTAACCCGC
*
203149400 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
203149446 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
203149496 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
203149538 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
203149574 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:203149566 original size:92 final size:93
Alignment explanation
Indices: 203149408--203149578 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
203149398 GCCCATAAGT
* *
203149408 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
203149473 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
203149501 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
203149565 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
203149579 CAAATATCCA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:203149592 original size:45 final size:45
Alignment explanation
Indices: 203149405--203149592 Score: 168
Period size: 46 Copynumber: 4.1 Consensus size: 45
203149395 CCCGCCCATA
* * * * * *
203149405 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCC
*
203149451 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * *
203149499 A-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-CGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCC
* *
203149543 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
203149588 AGTGA
1 AGTGA
203149593 CATGTCACTT
Statistics
Matches: 115, Mismatches: 18, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.02
44 9 0.08
45 35 0.30
46 36 0.31
47 28 0.24
48 3 0.03
49 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:203152000 original size:30 final size:30
Alignment explanation
Indices: 203151956--203152044 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
203151946 CAAAGATAAC
203151956 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
203151985 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
203152015 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
203152045 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:203152004 original size:15 final size:15
Alignment explanation
Indices: 203151956--203152035 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
203151946 CAAAGATAAC
*
203151956 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
203151970 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
203151985 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
203152000 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
203152015 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
203152030 AAGAAA
1 AAGAAA
203152036 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:203152044 original size:15 final size:15
Alignment explanation
Indices: 203151967--203152044 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
203151957 AGAAAACCGA
203151967 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
203151982 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
203151996 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
203152011 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
203152027 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
203152042 ATA
1 ATA
203152045 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:203155147 original size:93 final size:93
Alignment explanation
Indices: 203154988--203155159 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
203154978 GCCCATAAGT
* *
203154988 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
203155053 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
203155081 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
203155146 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
203155160 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:203155155 original size:46 final size:46
Alignment explanation
Indices: 203154980--203155155 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
203154970 TGTAACCCGC
* * *
203154980 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
203155026 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
203155076 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
203155119 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
203155156 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:203157796 original size:2 final size:2
Alignment explanation
Indices: 203157789--203157835 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
203157779 TCGATCGGAG
203157789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
203157831 AT AT A
1 AT AT A
203157836 GAGTACGCAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:203157958 original size:29 final size:29
Alignment explanation
Indices: 203157900--203157998 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
203157890 TTTAAGCCCG
*** *
203157900 CACACAGTGCCATACCCTTCGAGC-TCGCA
1 CACACAGTGCCATATATTTCCAGCAT-GCA
* *
203157929 CACCCAGTGCCGTATATTTCCAGCATGCA
1 CACACAGTGCCATATATTTCCAGCATGCA
*
203157958 CACATAGTGCCATATATTTCCAGCATGCA
1 CACACAGTGCCATATATTTCCAGCATGCA
**
203157987 CACTTAGTGCCA
1 CACACAGTGCCA
203157999 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 58 0.98
30 1 0.02
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.23
Consensus pattern (29 bp):
CACACAGTGCCATATATTTCCAGCATGCA
Found at i:203165891 original size:28 final size:28
Alignment explanation
Indices: 203165830--203165927 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
203165820 TCACAAATTG
** * *
203165830 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
203165859 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
203165887 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
203165915 GCACTAAGTGTGC
1 GCACTAAGTGTGC
203165928 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:203173579 original size:28 final size:28
Alignment explanation
Indices: 203173518--203173615 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
203173508 TCACAAATTG
** * *
203173518 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
203173547 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
203173575 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
203173603 GCACTAAGTGTGC
1 GCACTAAGTGTGC
203173616 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:203188569 original size:132 final size:132
Alignment explanation
Indices: 203188366--203188865 Score: 797
Period size: 132 Copynumber: 3.8 Consensus size: 132
203188356 GATTACAGAT
*
203188366 ATCATCAGCCTTATC-TCACTGAGCAGGAGTGGAGCAGGCTATAGACTAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAGACTAGATCTTATCTTCACTG
* *
203188430 ACAGGAGTGGAGTAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTC
66 ACAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTC
203188495 CA
131 CA
* *
203188497 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATAGACTAGATCTTACCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAGACTAGATCTTATCTTCACTG
* * * * *
203188562 ACAGGAGTGAAGCAGATCAAATTTTGA-CAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATT
66 ACAGGAGTGAAGCAGATCGAATTTTGATGAA-TCTTATCTCCACGTACCGGCGATGGAGCAGATT
*
203188626 TCA
130 CCA
** * * *
203188629 GCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACACCAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAGACTAGATCTTATCTTCACTG
* *
203188694 ACAGGAGTGGAGCAGATCGAATTTTGATGAATTTTATCTCCACGTACCGGCGATGGAGCAGATTC
66 ACAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTC
203188759 CA
131 CA
*
203188761 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAGACTAGATCTTATCTTCACTG
203188826 AGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCT
66 A-CAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCT
203188866 TCGCTGAGCA
Statistics
Matches: 334, Mismatches: 31, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
131 17 0.05
132 279 0.84
133 38 0.11
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (132 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAGACTAGATCTTATCTTCACTG
ACAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTC
CA
Found at i:203188878 original size:46 final size:47
Alignment explanation
Indices: 203188811--203188899 Score: 144
Period size: 46 Copynumber: 1.9 Consensus size: 47
203188801 TAAATACTAG
*
203188811 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGA-TCGAATTTTGATGA
1 ATCTTATCTTCACTGAGCAGGAGCGAAGCAGATTCGAATTTTGATGA
* *
203188857 ATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATTCGAATTTTG
1 ATCTTATCTTCACTGAGCAGGAGCGAAGCAGATTCGAATTTTG
203188900 GTCTCCTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 29 0.74
47 10 0.26
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (47 bp):
ATCTTATCTTCACTGAGCAGGAGCGAAGCAGATTCGAATTTTGATGA
Found at i:203202632 original size:132 final size:132
Alignment explanation
Indices: 203202429--203202928 Score: 797
Period size: 132 Copynumber: 3.8 Consensus size: 132
203202419 GATTACAGAT
*
203202429 ATCATCAGCCTTATC-TCACTGAGCAGGAGTGGAGCAGGCTATAGACTAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAGACTAGATCTTATCTTCACTG
* *
203202493 ACAGGAGTGGAGTAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTC
66 ACAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTC
203202558 CA
131 CA
* *
203202560 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATAGACTAGATCTTACCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAGACTAGATCTTATCTTCACTG
* * * * *
203202625 ACAGGAGTGAAGCAGATCAAATTTTGA-CAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATT
66 ACAGGAGTGAAGCAGATCGAATTTTGATGAA-TCTTATCTCCACGTACCGGCGATGGAGCAGATT
*
203202689 TCA
130 CCA
** * * *
203202692 GCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACACCAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAGACTAGATCTTATCTTCACTG
* *
203202757 ACAGGAGTGGAGCAGATCGAATTTTGATGAATTTTATCTCCACGTACCGGCGATGGAGCAGATTC
66 ACAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTC
203202822 CA
131 CA
*
203202824 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAGACTAGATCTTATCTTCACTG
203202889 AGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCT
66 A-CAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCT
203202929 TCGCTGAGCA
Statistics
Matches: 334, Mismatches: 31, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
131 17 0.05
132 279 0.84
133 38 0.11
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (132 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAGACTAGATCTTATCTTCACTG
ACAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTC
CA
Found at i:203202941 original size:46 final size:47
Alignment explanation
Indices: 203202874--203202962 Score: 144
Period size: 46 Copynumber: 1.9 Consensus size: 47
203202864 TAAATACTAG
*
203202874 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGA-TCGAATTTTGATGA
1 ATCTTATCTTCACTGAGCAGGAGCGAAGCAGATTCGAATTTTGATGA
* *
203202920 ATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATTCGAATTTTG
1 ATCTTATCTTCACTGAGCAGGAGCGAAGCAGATTCGAATTTTG
203202963 GTCTCCCTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 29 0.74
47 10 0.26
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (47 bp):
ATCTTATCTTCACTGAGCAGGAGCGAAGCAGATTCGAATTTTGATGA
Found at i:203208762 original size:40 final size:39
Alignment explanation
Indices: 203208595--203208764 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
203208585 AGAAATTGAA
*
203208595 TGATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
203208634 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
203208674 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
203208714 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
203208754 TGATATCCGGG
1 TGATATCCGGG
203208765 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 18 0.17
40 81 0.76
41 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:203216786 original size:40 final size:39
Alignment explanation
Indices: 203216618--203216788 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
203216608 AGAAATTGAA
* *
203216618 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
203216658 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
203216698 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
203216738 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
203216778 TGATATCCGGG
1 TGATATCCGGG
203216789 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:203226805 original size:40 final size:40
Alignment explanation
Indices: 203226742--203226842 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
203226732 TGAATGATAC
* ** * * *
203226742 CCGGGCTAAGCCCCGAAAACAATTATGCTGGAAATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACTACAT
* * ***
203226782 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACAT
1 CCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACTACAT
203226822 CCGGGCTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
203226843 TTCGTGCGAG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.19
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACTACAT
Found at i:203227009 original size:14 final size:14
Alignment explanation
Indices: 203226990--203227018 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
203226980 CCAAAGAATA
203226990 ACGTTTATATGTGC
1 ACGTTTATATGTGC
203227004 ACGTTTATATGTGC
1 ACGTTTATATGTGC
203227018 A
1 A
203227019 TTGGAAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (14 bp):
ACGTTTATATGTGC
Found at i:203228441 original size:40 final size:40
Alignment explanation
Indices: 203228396--203228562 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
203228386 CGGAATATAA
203228396 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
203228436 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
203228476 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
203228516 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
203228555 CCGGATAT
1 CCGGATAT
203228563 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:203228546 original size:80 final size:79
Alignment explanation
Indices: 203228396--203228562 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
203228386 CGGAATATAA
* *
203228396 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
203228461 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
203228476 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
203228538 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
203228555 CCGGATAT
1 CCGGATAT
203228563 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:203229380 original size:17 final size:19
Alignment explanation
Indices: 203229357--203229402 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
203229347 AAGAAGCATG
203229357 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
203229375 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
203229393 AATCATGCTC
1 AATCATGCTC
203229403 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:203236401 original size:40 final size:40
Alignment explanation
Indices: 203236356--203236522 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
203236346 CGGAATATAA
203236356 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
203236396 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
203236436 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
203236476 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
203236515 CCGGATAT
1 CCGGATAT
203236523 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:203236506 original size:80 final size:79
Alignment explanation
Indices: 203236356--203236522 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
203236346 CGGAATATAA
* *
203236356 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
203236421 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
203236436 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
203236498 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
203236515 CCGGATAT
1 CCGGATAT
203236523 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:203237352 original size:17 final size:19
Alignment explanation
Indices: 203237329--203237374 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
203237319 AAGAAGCATG
203237329 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
203237347 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
203237365 AATCATGCTC
1 AATCATGCTC
203237375 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:203240635 original size:40 final size:40
Alignment explanation
Indices: 203240590--203240692 Score: 134
Period size: 40 Copynumber: 2.6 Consensus size: 40
203240580 CGGAATACAA
* * *
203240590 CCGGATATAACCACATGCACGAAGGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAAGGCCTTCGGGTATTAGC
* * * *
203240630 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAAGGCCTTCGGGTATTAGC
*
203240670 CCGGATTTAACAACTTGCACGAA
1 CCGGATATAACAACTTGCACGAA
203240693 TCAACAATAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAAGGCCTTCGGGTATTAGC
Found at i:203248019 original size:40 final size:39
Alignment explanation
Indices: 203247974--203248180 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
203247964 CGGAATACAA
*
203247974 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
203248014 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
203248054 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
203248094 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
203248134 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
203248173 CCGGATAT
1 CCGGATAT
203248181 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.22
40 108 0.78
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:203248114 original size:80 final size:80
Alignment explanation
Indices: 203247974--203248179 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
203247964 CGGAATACAA
* * *
203247974 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
203248038 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
203248054 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
203248118 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
203248134 CCGG-TATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
203248180 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 36 0.34
80 68 0.64
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:203256044 original size:40 final size:39
Alignment explanation
Indices: 203255999--203256205 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
203255989 CGGAATACAA
*
203255999 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
203256039 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
203256079 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
203256119 CCGGATGT-GTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
203256158 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
203256198 CCGGATAT
1 CCGGATAT
203256206 CATACAATTG
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.03
39 28 0.20
40 106 0.75
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:203256188 original size:79 final size:80
Alignment explanation
Indices: 203255999--203256204 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 80
203255989 CGGAATACAA
* * *
203255999 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAT
*
203256063 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * **
203256079 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTGTC-ACTAGCAC-AAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAG-AACGACTAGCACAAAT
*
203256141 GGCCTTCGGGTCTTAAC
65 -GCCTTCGGGTATTAAC
** * * *
203256158 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
203256205 TCATACAATT
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 3 0.03
79 60 0.57
80 43 0.41
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:203257171 original size:20 final size:20
Alignment explanation
Indices: 203257146--203257183 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
203257136 GTTTATTCGC
*
203257146 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
203257166 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
203257184 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:203259891 original size:40 final size:40
Alignment explanation
Indices: 203259846--203260012 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
203259836 CGGAATATAA
203259846 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
203259886 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
203259926 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
203259966 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
203260005 CCGGATAT
1 CCGGATAT
203260013 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:203267845 original size:40 final size:40
Alignment explanation
Indices: 203267800--203267967 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
203267790 CGGAATATAA
*
203267800 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
203267840 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
203267880 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
203267920 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
203267960 CCGGATAT
1 CCGGATAT
203267968 CATTCAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
40 102 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:203267950 original size:80 final size:80
Alignment explanation
Indices: 203267816--203267965 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
203267806 ATAACCATGT
* *
203267816 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
203267881 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
203267896 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
203267959 CCCGGAT
64 CCCGGAT
203267966 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:203276638 original size:13 final size:13
Alignment explanation
Indices: 203276620--203276647 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
203276610 TGAAAATTCG
203276620 TTAATGGTACATT
1 TTAATGGTACATT
203276633 TTAATGGTACATT
1 TTAATGGTACATT
203276646 TT
1 TT
203276648 CCCCTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Found at i:203288943 original size:21 final size:21
Alignment explanation
Indices: 203288919--203288962 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
203288909 GAATCTTTAG
*
203288919 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
203288940 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
203288961 TA
1 TA
203288963 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:203291218 original size:22 final size:22
Alignment explanation
Indices: 203291191--203291234 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
203291181 CTCTCGATTT
203291191 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
203291213 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
203291235 AAAGAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTTATTGCTCCTTTTCAATCA
Found at i:203295389 original size:32 final size:32
Alignment explanation
Indices: 203295353--203295414 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
203295343 AGCTTTTGGT
203295353 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
203295385 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
203295415 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:203309069 original size:40 final size:40
Alignment explanation
Indices: 203308844--203309041 Score: 276
Period size: 40 Copynumber: 5.0 Consensus size: 40
203308834 TCGAATGATG
* * * *
203308844 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
203308884 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
203308924 TCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
203308964 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
**
203309004 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
203309042 TAACCGGGCT
Statistics
Matches: 145, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 137 0.94
41 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:203309076 original size:40 final size:40
Alignment explanation
Indices: 203308844--203309069 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
203308834 TCGAATGATG
* * *
203308844 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
203308884 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
203308924 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
203308964 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
203309004 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
203309045 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
203309070 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 159 0.94
41 9 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:203312026 original size:17 final size:16
Alignment explanation
Indices: 203311999--203312031 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
203311989 GCTTGTAGGA
203311999 GATATGAGTAAAAGAT
1 GATATGAGTAAAAGAT
203312015 GATATAGAGTAAAAGAT
1 GATAT-GAGTAAAAGAT
203312032 TTGACGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (16 bp):
GATATGAGTAAAAGAT
Found at i:203315023 original size:26 final size:27
Alignment explanation
Indices: 203314986--203315053 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 27
203314976 AAACACGTTA
* *
203314986 GAAAAGAAAGCCTTTGTGGAGAACTAT
1 GAAAAGAAAGCCTTTGTGGAAAACCAT
203315013 GAAAA-AAAGCCTTTGTGGAAAACCAT
1 GAAAAGAAAGCCTTTGTGGAAAACCAT
**
203315039 GAAGTGAAAGCCTTT
1 GAAAAGAAAGCCTTT
203315054 ATGGCTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (27 bp):
GAAAAGAAAGCCTTTGTGGAAAACCAT
Found at i:203315171 original size:27 final size:27
Alignment explanation
Indices: 203315141--203315207 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
203315131 CTTTGTTGCA
* * *
203315141 AACTCTAGAGGAATGGTATTCATGGTG
1 AACTCTAAAGGAATGGTATGCATGGAG
203315168 AACTCTAAAGGAATGGTATGCATGGAG
1 AACTCTAAAGGAATGGTATGCATGGAG
* *
203315195 AACTATGAAGGAA
1 AACTCTAAAGGAA
203315208 ATGCCCTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.28, T:0.24
Consensus pattern (27 bp):
AACTCTAAAGGAATGGTATGCATGGAG
Found at i:203315578 original size:13 final size:15
Alignment explanation
Indices: 203315544--203315580 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
203315534 CGCCCCAAAT
*
203315544 TTGGGCCTAGAAGTA
1 TTGGGCCTTGAAGTA
203315559 TTGGGCCTTG-AGTA
1 TTGGGCCTTGAAGTA
203315573 -TGGGCCTT
1 TTGGGCCTT
203315581 AATGTCTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.38
14 4 0.19
15 9 0.43
ACGTcount: A:0.16, C:0.16, G:0.35, T:0.32
Consensus pattern (15 bp):
TTGGGCCTTGAAGTA
Found at i:203316983 original size:22 final size:22
Alignment explanation
Indices: 203316958--203317019 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
203316948 GTTGCTGTGA
*
203316958 TATCTACGGCGTTGAGCCGTCC
1 TATCTATGGCGTTGAGCCGTCC
*
203316980 TATCTATGGTGTTGAGCCGTCC
1 TATCTATGGCGTTGAGCCGTCC
* *
203317002 TGTCTATGGCGTTCAGCC
1 TATCTATGGCGTTGAGCC
203317020 ATCTTGTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.13, C:0.27, G:0.27, T:0.32
Consensus pattern (22 bp):
TATCTATGGCGTTGAGCCGTCC
Found at i:203325493 original size:29 final size:29
Alignment explanation
Indices: 203325460--203325674 Score: 208
Period size: 29 Copynumber: 7.4 Consensus size: 29
203325450 GATCATTGAA
*
203325460 TATGAAAAGGGATAGCTTCGGCTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
203325489 TATGAAAAGGGATAGCTTCGACTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
203325518 TATGAAAAGGGATAGCTTC-AGCTATC-AGT
1 TATGAAAAGGGATAGCTTCGA-CTATCGA-T
* * * * *
203325547 GATGAAAAGGGAT-GGTGAT-GACCATCAAC
1 TATGAAAAGGGATAGCT--TCGACTATCGAT
* * * *
203325576 TATGAAAAGGGAT-GGTGAC-ACCATCGAA
1 TATGAAAAGGGATAGCT-TCGACTATCGAT
* * *
203325604 TATGAAAAGGGATAGCTTCGGCTATAGAA
1 TATGAAAAGGGATAGCTTCGACTATCGAT
*
203325633 TATGAAAAAGGATAGCTTCGACTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
*
203325662 TATGAAAACGGAT
1 TATGAAAAGGGAT
203325675 GGTGACGACC
Statistics
Matches: 157, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
28 25 0.16
29 129 0.82
30 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (29 bp):
TATGAAAAGGGATAGCTTCGACTATCGAT
Found at i:203325667 original size:115 final size:116
Alignment explanation
Indices: 203325483--203325762 Score: 350
Period size: 115 Copynumber: 2.4 Consensus size: 116
203325473 AGCTTCGGCT
* * *
203325483 ATCGATTATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGCTTCAGCTATCAGTG
1 ATCGATTATGAAAAGGGATAGCTTCGACTATAGAATATGAAAAAGGATAGCTTCAGCTATCAGTG
* * * * *
203325548 ATGAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGAC-ACC
66 ATGAAAACGGATGGTGACGACCATCAACTATAAAAAAGGATGGCGACGACC
* *
203325598 ATCGAATATGAAAAGGGATAGCTTCGGCTATAGAATATGAAAAAGGATAGCTTC-GACTATC-GA
1 ATCGATTATGAAAAGGGATAGCTTCGACTATAGAATATGAAAAAGGATAGCTTCAG-CTATCAG-
* *
203325661 TTATGAAAACGGATGGTGACGACCATTAACTATAAAAAAGGATGGCGACGACC
64 TGATGAAAACGGATGGTGACGACCATCAACTATAAAAAAGGATGGCGACGACC
* * * * * *
203325714 ATCGATTAATGAAATGGGATGGTTTCGACCATTGAATATGAAAATGGAT
1 ATCGATT-ATGAAAAGGGATAGCTTCGACTATAGAATATGAAAAAGGAT
203325763 GGTTACAACC
Statistics
Matches: 141, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
114 2 0.01
115 96 0.68
116 9 0.06
117 34 0.24
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (116 bp):
ATCGATTATGAAAAGGGATAGCTTCGACTATAGAATATGAAAAAGGATAGCTTCAGCTATCAGTG
ATGAAAACGGATGGTGACGACCATCAACTATAAAAAAGGATGGCGACGACC
Found at i:203325683 original size:29 final size:28
Alignment explanation
Indices: 203325460--203325776 Score: 165
Period size: 29 Copynumber: 10.9 Consensus size: 28
203325450 GATCATTGAA
* * *
203325460 TATGAAAAGGGATAGCTTCGGCTATCGAT
1 TATGAAAAGGGAT-GGTTCGACCATCGAT
* *
203325489 TATGAAAAGGGATAGCTTCGACTATCGAT
1 TATGAAAAGGGAT-GGTTCGACCATCGAT
* *
203325518 TATGAAAAGGGATAGCTTC-AGCTATC-AGT
1 TATGAAAAGGGAT-GGTTCGA-CCATCGA-T
* * *
203325547 GATGAAAAGGGATGGTGAT-GACCATCAAC
1 TATGAAAAGGGATGGT--TCGACCATCGAT
* *
203325576 TATGAAAAGGGATGGTGAC-ACCATCGAA
1 TATGAAAAGGGATGGT-TCGACCATCGAT
* * * * *
203325604 TATGAAAAGGGATAGCTTCGGCTATAGAA
1 TATGAAAAGGGAT-GGTTCGACCATCGAT
* * *
203325633 TATGAAAAAGGATAGCTTCGACTATCGAT
1 TATGAAAAGGGAT-GGTTCGACCATCGAT
* * ** *
203325662 TATGAAAACGGATGGTGACGACCATTAAC
1 TATGAAAAGGGATGGT-TCGACCATCGAT
* * **
203325691 TATAAAAAAGGATGGCGACGACCATCGAT
1 TATGAAAAGGGATGG-TTCGACCATCGAT
* * *
203325720 TAATGAAATGGGATGGTTTCGACCATTGAA
1 T-ATGAAAAGGGATGG-TTCGACCATCGAT
* *
203325750 TATGAAAATGGATGGTTACAACCATCG
1 TATGAAAAGGGATGGTT-CGACCATCG
203325777 TTTAGTACTC
Statistics
Matches: 231, Mismatches: 44, Indels: 26
0.77 0.15 0.09
Matches are distributed among these distances:
28 29 0.13
29 178 0.77
30 24 0.10
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.24
Consensus pattern (28 bp):
TATGAAAAGGGATGGTTCGACCATCGAT
Found at i:203325774 original size:59 final size:58
Alignment explanation
Indices: 203325548--203325776 Score: 189
Period size: 58 Copynumber: 3.9 Consensus size: 58
203325538 GCTATCAGTG
* * * *
203325548 ATGAAAAGGGATGGTGAT-GACCA-TCAACTATGAAAAGGGATGGTGAC-ACCATCGAAT
1 ATGAAAAGGGATGGT-TTCGACCATTGAA-TATGAAAAAGGATGGTGACGACCATCGATT
* * * * * * * *
203325605 ATGAAAAGGGATAGCTTCGGCTATAGAATATGAAAAAGGATAGCT-TCGACTATCGATT
1 ATGAAAAGGGATGGTTTCGACCATTGAATATGAAAAAGGAT-GGTGACGACCATCGATT
* ** * *
203325663 ATGAAAACGGATGGTGACGACCATT-AACTATAAAAAAGGATGGCGACGACCATCGATT
1 ATGAAAAGGGATGGTTTCGACCATTGAA-TATGAAAAAGGATGGTGACGACCATCGATT
* * * *
203325721 AATGAAATGGGATGGTTTCGACCATTGAATATGAAAATGGATGGTTACAACCATCG
1 -ATGAAAAGGGATGGTTTCGACCATTGAATATGAAAAAGGATGGTGACGACCATCG
203325777 TTTAGTACTC
Statistics
Matches: 130, Mismatches: 34, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
56 1 0.01
57 32 0.25
58 52 0.40
59 43 0.33
60 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (58 bp):
ATGAAAAGGGATGGTTTCGACCATTGAATATGAAAAAGGATGGTGACGACCATCGATT
Found at i:203328575 original size:93 final size:93
Alignment explanation
Indices: 203328463--203328633 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
203328453 GCCCATAAGT
* *
203328463 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
203328528 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
203328556 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
203328621 CGAGTTCGGATGC
66 CGAGTTCGGATGC
203328634 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:203328649 original size:46 final size:46
Alignment explanation
Indices: 203328455--203328635 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
203328445 TGTAACCCGC
* * *
203328455 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
203328501 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
203328551 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
203328594 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
203328636 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:203331061 original size:30 final size:30
Alignment explanation
Indices: 203331017--203331105 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
203331007 CAAAGATAAC
203331017 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
203331046 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
203331076 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
203331106 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:203331065 original size:15 final size:15
Alignment explanation
Indices: 203331017--203331096 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
203331007 CAAAGATAAC
*
203331017 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
203331031 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
203331046 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
203331061 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
203331076 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
203331091 AAGAAA
1 AAGAAA
203331097 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:203331105 original size:15 final size:15
Alignment explanation
Indices: 203331028--203331105 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
203331018 AGAAAACCGA
203331028 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
203331043 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
203331057 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
203331072 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
203331088 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
203331103 ATA
1 ATA
203331106 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:203331691 original size:28 final size:28
Alignment explanation
Indices: 203331651--203331712 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
203331641 TTTACCAAAG
203331651 AATTCCTTCTCTAACTGGGACAGTGCAT
1 AATTCCTTCTCTAACTGGGACAGTGCAT
203331679 AATTCCTTCTCTAACTGGGACAGTGCAT
1 AATTCCTTCTCTAACTGGGACAGTGCAT
203331707 AATTCC
1 AATTCC
203331713 AATAATCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (28 bp):
AATTCCTTCTCTAACTGGGACAGTGCAT
Found at i:203337299 original size:33 final size:33
Alignment explanation
Indices: 203337252--203337317 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
203337242 GGCTAGACAG
*
203337252 AGATGGTGTTTAGTAGATGAGGGTAGGATATGT
1 AGATGGTGTGTAGTAGATGAGGGTAGGATATGT
*
203337285 AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
1 AGATGGTGTGTAGTAGATGAGGGTAGGATATGT
203337318 TATGATTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.32
Consensus pattern (33 bp):
AGATGGTGTGTAGTAGATGAGGGTAGGATATGT
Found at i:203338517 original size:31 final size:31
Alignment explanation
Indices: 203338435--203338506 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
203338425 TTAACAGCCT
* *
203338435 AGTGACTTAAA-AAAAACTTTTGAATAATTC
1 AGTGACTTAAATGAAAATTTTTGAATAATTC
* *
203338465 AGTGACTTAAATGAAAATTTTTGAATAGTTT
1 AGTGACTTAAATGAAAATTTTTGAATAATTC
203338496 AGTGAC-TAAAT
1 AGTGACTTAAAT
203338507 TGTAACTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 16 0.43
31 21 0.57
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATGAAAATTTTTGAATAATTC
Found at i:203339982 original size:40 final size:40
Alignment explanation
Indices: 203339937--203340103 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
203339927 CGGAATATAA
203339937 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
203339977 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
203340017 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
203340057 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
203340096 CCGGATAT
1 CCGGATAT
203340104 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:203341371 original size:58 final size:58
Alignment explanation
Indices: 203341299--203341410 Score: 147
Period size: 58 Copynumber: 1.9 Consensus size: 58
203341289 CCCCCTTTTC
203341299 CCTTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTCTTTTCTTT
1 CCTTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAACAAATTTTTTTCTTTTCTTT
*** **
203341357 CCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTCTTTT
1 CCTTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTTTCTTTT
203341411 TTTTTTCCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 43 0.91
59 4 0.09
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (58 bp):
CCTTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTTTCTTTTCTTT
Found at i:203345030 original size:33 final size:33
Alignment explanation
Indices: 203344983--203345048 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
203344973 GGCTAGACAG
*
203344983 AGATGGTGTTTAGTAGATGAGGGTAGGATATGT
1 AGATGGTGTGTAGTAGATGAGGGTAGGATATGT
*
203345016 AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
1 AGATGGTGTGTAGTAGATGAGGGTAGGATATGT
203345049 TATGATTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.32
Consensus pattern (33 bp):
AGATGGTGTGTAGTAGATGAGGGTAGGATATGT
Found at i:203346248 original size:31 final size:31
Alignment explanation
Indices: 203346166--203346237 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
203346156 TTAACAGCCT
* *
203346166 AGTGACTTAAA-AAAAACTTTTGAATAATTC
1 AGTGACTTAAATGAAAATTTTTGAATAATTC
* *
203346196 AGTGACTTAAATGAAAATTTTTGAATAGTTT
1 AGTGACTTAAATGAAAATTTTTGAATAATTC
203346227 AGTGAC-TAAAT
1 AGTGACTTAAAT
203346238 TGTAACTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 16 0.43
31 21 0.57
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATGAAAATTTTTGAATAATTC
Found at i:203347712 original size:40 final size:40
Alignment explanation
Indices: 203347667--203347833 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
203347657 CGGAATATAA
203347667 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
203347707 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
203347747 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
203347787 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
203347826 CCGGATAT
1 CCGGATAT
203347834 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:203349101 original size:58 final size:59
Alignment explanation
Indices: 203349029--203349141 Score: 142
Period size: 58 Copynumber: 1.9 Consensus size: 59
203349019 CCCCCTTTTC
203349029 CCTTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACA-AATTTTTTTCTTTTCTTT
1 CCTTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAACATAATTTTTTTCTTTTCTTT
*** **
203349087 CCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTCTTTT
1 CCTTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACATAATTTTTTTCTTTT
203349142 TTTTTTCCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
58 31 0.66
59 16 0.34
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (59 bp):
CCTTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACATAATTTTTTTCTTTTCTTT
Found at i:203352749 original size:18 final size:18
Alignment explanation
Indices: 203352726--203352778 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
203352716 ATGGTGTTTA
203352726 GTAGATGGGGTAGGATAT
1 GTAGATGGGGTAGGATAT
*
203352744 GTAGATGGTGT--G-TA-
1 GTAGATGGGGTAGGATAT
203352758 GTAGATGGGGGTAGGATAT
1 GTAGAT-GGGGTAGGATAT
203352777 GT
1 GT
203352779 TATGATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 1 0.04
17 1 0.04
18 12 0.43
19 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.45, T:0.30
Consensus pattern (18 bp):
GTAGATGGGGTAGGATAT
Found at i:203352760 original size:32 final size:33
Alignment explanation
Indices: 203352714--203352778 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
203352704 GGCTAGACAG
*
203352714 AGATGGTGTTTAGTAGAT-GGGGTAGGATATGT
1 AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
203352746 AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
1 AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
203352779 TATGATTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.25, C:0.00, G:0.43, T:0.32
Consensus pattern (33 bp):
AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
Found at i:203353978 original size:31 final size:31
Alignment explanation
Indices: 203353896--203353967 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
203353886 TTAACAGCCT
* *
203353896 AGTGACTTAAA-AAAAACTTTTGAATAATTC
1 AGTGACTTAAATGAAAATTTTTGAATAATTC
* *
203353926 AGTGACTTAAATGAAAATTTTTGAATAGTTT
1 AGTGACTTAAATGAAAATTTTTGAATAATTC
203353957 AGTGAC-TAAAT
1 AGTGACTTAAAT
203353968 TGTAACTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 16 0.43
31 21 0.57
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATGAAAATTTTTGAATAATTC
Found at i:203355443 original size:40 final size:40
Alignment explanation
Indices: 203355398--203355564 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
203355388 CGGAATATAA
203355398 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
203355438 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
203355478 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
203355518 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
203355557 CCGGATAT
1 CCGGATAT
203355565 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Done.