Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 54 of 185
Found at i:16628120 original size:23 final size:23
Alignment explanation
Indices: 16628094--16628139 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16628084 AAAGTTTTTC
* *
16628094 TTTCCCTACCTCATGCTTTTTAT
1 TTTCCCTACCTCATACATTTTAT
*
16628117 TTTCCCTATCTCATACATTTTAT
1 TTTCCCTACCTCATACATTTTAT
16628140 CTCTTTTGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.17, C:0.28, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTCCCTACCTCATACATTTTAT
Found at i:16636493 original size:251 final size:250
Alignment explanation
Indices: 16636049--16637051 Score: 1420
Period size: 250 Copynumber: 4.0 Consensus size: 250
16636039 ACTTTCAATC
* * * *
16636049 AGTTTGCTCATTTCCGATTAGACTAAAGTCATGTTTAGTTTCGA-CTACTAATATTAGTTGTCTT
1 AGTTTGCTCATTTCCGATTAGACTAAGGACATGTTAAGTTTC-ATCTACTAATATAAGTTGTCTT
* * * ** *
16636113 TTTGTATTACGATCCAGCCATTTAATACTGTTTAGTATTAGTTTAAATGTTAGACAACCAATGAG
65 TCTGTATTACGATCCGGCCATGTAATACTACTTAGTATTAGTTTAAACGTTAGACAACCAATGAG
* * *
16636178 TAACATTTTCTTCCATTTTTCTTTGCGTGCAAAAACCGTACAAGGAAAATCATAAAATGTATATT
130 CAACATTTGCTTCCATTTTTCTTTGCGTGCAAAAACCGTACAAGGAAAATCATAAAAAGTATATT
16636243 AATGTAATCCATGAATTT-TCTTTATTATTCAATCTTTTCAAAAAAATTTACAAGTTT
195 AATGTAATCCATGAATTTGT-TTTATTATTCAATCTTTTCAAAAAAA-TTACAAGTTT
* ** * *
16636300 AGTTTGCTCATTTCCAATTAGGTTAAGGACATGATAAGTTTCGTCTACTAATATAAGTTGTCTTT
1 AGTTTGCTCATTTCCGATTAGACTAAGGACATGTTAAGTTTCATCTACTAATATAAGTTGTCTTT
* * * * *
16636365 CTATATTACAATCCGGCCATGTAATACCACTTAGTATTAGTTTAAACGTTAGACAACCAATAAGT
66 CTGTATTACGATCCGGCCATGTAATACTACTTAGTATTAGTTTAAACGTTAGACAACCAATGAGC
* * * ** *
16636430 AGCATTTGCTTCCATTTTCCTTTGTGTGCAAAAACCGTATGAGGAAAATCGTAAAAAGTATATTA
131 AACATTTGCTTCCATTTTTCTTTGCGTGCAAAAACCGTACAAGGAAAATCATAAAAAGTATATTA
** *
16636495 ATGTAATCCATGAATTTGTTTTATTATTCAATCTTTTTGAAAAAATTGCAAGTTT
196 ATGTAATCCATGAATTTGTTTTATTATTCAATCTTTTCAAAAAAATTACAAGTTT
* * * *
16636550 ATTTTGCTCATTTCTGATTAGATTAAGGACATGTTAAGTTTCATCTACTAATATAAGTTGTTTTT
1 AGTTTGCTCATTTCCGATTAGACTAAGGACATGTTAAGTTTCATCTACTAATATAAGTTGTCTTT
* *
16636615 CTGTATTACGATCTGGCCATGTAATATCGA-TTAGTATTAGTTTAAACGTTAGACAACCAATGAG
66 CTGTATTACGATCCGGCCATGTAATA-CTACTTAGTATTAGTTTAAACGTTAGACAACCAATGAG
* * * * *
16636679 CAACATTTTCTTCCATTTTTCTTTTCCTGCAAAAACCGTACAAGGAAAGTCATACAATA-TATAT
130 CAACATTTGCTTCCATTTTTCTTTGCGTGCAAAAACCGTACAAGGAAAATCATA-AAAAGTATAT
*
16636743 TAATGTAATCCATGAATTTGTTTTATTATTCAATCTTTTCGAAAAAATTACAAGTTT
194 TAATGTAATCCATGAATTTGTTTTATTATTCAATCTTTTCAAAAAAATTACAAGTTT
* * * *
16636800 AGTTTGCTCATTTCCGATTAGACTAAGGACATGTTAAGTTTCATCGAGTAATGTAAGTTGTATTT
1 AGTTTGCTCATTTCCGATTAGACTAAGGACATGTTAAGTTTCATCTACTAATATAAGTTGTCTTT
* ** *
16636865 CTGTATTACGATCCGGCCATGTAATACTGCTTAGTATTAGTTTAAATTTTAGACAACCAATGACC
66 CTGTATTACGATCCGGCCATGTAATACTACTTAGTATTAGTTTAAACGTTAGACAACCAATGAGC
* * *
16636930 AACATTTGCTTCCATTTTTCTTTGCGTGCAAAAACCGTACGAGGACAATCATACAAAGTATATTA
131 AACATTTGCTTCCATTTTTCTTTGCGTGCAAAAACCGTACAAGGAAAATCATAAAAAGTATATTA
*
16636995 ATGTAATCCATGAATTTGTTTTATTCTTCAATCTTTTCAAAAAAAATTACAAGTTT
196 ATGTAATCCATGAATTTGTTTTATTATTCAATCTTTTC-AAAAAAATTACAAGTTT
16637051 A
1 A
16637052 CAAACGAATA
Statistics
Matches: 666, Mismatches: 79, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
249 3 0.00
250 432 0.65
251 230 0.35
252 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (250 bp):
AGTTTGCTCATTTCCGATTAGACTAAGGACATGTTAAGTTTCATCTACTAATATAAGTTGTCTTT
CTGTATTACGATCCGGCCATGTAATACTACTTAGTATTAGTTTAAACGTTAGACAACCAATGAGC
AACATTTGCTTCCATTTTTCTTTGCGTGCAAAAACCGTACAAGGAAAATCATAAAAAGTATATTA
ATGTAATCCATGAATTTGTTTTATTATTCAATCTTTTCAAAAAAATTACAAGTTT
Found at i:16637027 original size:500 final size:502
Alignment explanation
Indices: 16636051--16637051 Score: 1501
Period size: 501 Copynumber: 2.0 Consensus size: 502
16636041 TTTCAATCAG
* * *
16636051 TTTGCTCATTTCCGATTAGACTAAAGTCATGTTTAGTTTCGACTACTAATATTAGTTGTCTTTTT
1 TTTGCTCATTTCCGATTAGACTAAAGACATGTTAAGTTTCGACTACTAATATAAGTTGTCTTTTT
* * * *
16636116 GTATTACGATCCAGCCATTTAATACTGTTTAGTATTAGTTTAAATGTTAGACAACCAATGAGTAA
66 GTATTACGATCCAGCCATGTAATACTGATTAGTATTAGTTTAAACGTTAGACAACCAATGAGCAA
* *
16636181 CATTTTCTTCCATTTTTCTTTGCGTGCAAAAACCGTACAAGGAAAATCATAAAATGTATATTAAT
131 CATTTTCTTCCATTTTTCTTTGCCTGCAAAAACCGTACAAGGAAAATCATAAAATATATATTAAT
16636246 GTAATCCATGAATTTTCTTTATTATTCAATCTTTTCAAAAAAATTTACAAGTTTAGTTTGCTCAT
196 GTAATCCATGAATTTTCTTTATTATTCAATCTTTTCAAAAAAATTTACAAGTTTAGTTTGCTCAT
** * * *
16636311 TTCCAATTAGGTTAAGGACATGATAAGTTTCGTCTACTAATATAAGTTGTCTTTCTATATTACAA
261 TTCCAATTAGACTAAGGACATGATAAGTTTCATCGACTAATATAAGTTGTATTTCTATATTACAA
** *
16636376 TCCGGCCATGTAATACCACTTAGTATTAGTTTAAACGTTAGACAACCAATAAGTAGCATTTGCTT
326 TCCGGCCATGTAATACCACTTAGTATTAGTTTAAACGTTAGACAACCAATAACCAACATTTGCTT
* * *
16636441 CCATTTTCCTTTGTGTGCAAAAACCGTATGAGGAAAATCGTAAAAAGTATATTAATGTAATCCAT
391 CCATTTTCCTTTGCGTGCAAAAACCGTACGAGGAAAATCATAAAAAGTATATTAATGTAATCCAT
** *
16636506 GAATTTGTTTTATTATTCAATCTTTT-TGAAAAAATTGCAAGTTTAT
456 GAATTTGTTTTATTATTCAATCTTTTCAAAAAAAATTACAAGTTTAT
* * *
16636552 TTTGCTCATTTCTGATTAGATTAAGGACATGTTAAGTTTC-ATCTACTAATATAAGTTGT-TTTT
1 TTTGCTCATTTCCGATTAGACTAAAGACATGTTAAGTTTCGA-CTACTAATATAAGTTGTCTTTT
**
16636615 CTGTATTACGATCTGGCCATGTAATA-TCGATTAGTATTAGTTTAAACGTTAGACAACCAATGAG
65 -TGTATTACGATCCAGCCATGTAATACT-GATTAGTATTAGTTTAAACGTTAGACAACCAATGAG
* * *
16636679 CAACATTTTCTTCCATTTTTCTTTTCCTGCAAAAACCGTACAAGGAAAGTCATACAATATATATT
128 CAACATTTTCTTCCATTTTTCTTTGCCTGCAAAAACCGTACAAGGAAAATCATAAAATATATATT
*
16636744 AATGTAATCCATGAATTTGT-TTTATTATTCAATCTTTTCGAAAAAA-TTACAAGTTTAGTTTGC
193 AATGTAATCCATGAATTT-TCTTTATTATTCAATCTTTTCAAAAAAATTTACAAGTTTAGTTTGC
* * * * *
16636807 TCATTTCCGATTAGACTAAGGACATGTTAAGTTTCATCGAGTAATGTAAGTTGTATTTCTGTATT
257 TCATTTCCAATTAGACTAAGGACATGATAAGTTTCATCGACTAATATAAGTTGTATTTCTATATT
* ** ** *
16636872 ACGATCCGGCCATGTAATACTGCTTAGTATTAGTTTAAATTTTAGACAACCAATGACCAACATTT
322 ACAATCCGGCCATGTAATACCACTTAGTATTAGTTTAAACGTTAGACAACCAATAACCAACATTT
* * *
16636937 GCTTCCATTTTTCTTTGCGTGCAAAAACCGTACGAGGACAATCATACAAAGTATATTAATGTAAT
387 GCTTCCATTTTCCTTTGCGTGCAAAAACCGTACGAGGAAAATCATAAAAAGTATATTAATGTAAT
*
16637002 CCATGAATTTGTTTTATTCTTCAATCTTTTCAAAAAAAATTACAAGTTTA
452 CCATGAATTTGTTTTATTATTCAATCTTTTCAAAAAAAATTACAAGTTTA
16637052 CAAACGAATA
Statistics
Matches: 448, Mismatches: 47, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
500 222 0.50
501 225 0.50
502 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (502 bp):
TTTGCTCATTTCCGATTAGACTAAAGACATGTTAAGTTTCGACTACTAATATAAGTTGTCTTTTT
GTATTACGATCCAGCCATGTAATACTGATTAGTATTAGTTTAAACGTTAGACAACCAATGAGCAA
CATTTTCTTCCATTTTTCTTTGCCTGCAAAAACCGTACAAGGAAAATCATAAAATATATATTAAT
GTAATCCATGAATTTTCTTTATTATTCAATCTTTTCAAAAAAATTTACAAGTTTAGTTTGCTCAT
TTCCAATTAGACTAAGGACATGATAAGTTTCATCGACTAATATAAGTTGTATTTCTATATTACAA
TCCGGCCATGTAATACCACTTAGTATTAGTTTAAACGTTAGACAACCAATAACCAACATTTGCTT
CCATTTTCCTTTGCGTGCAAAAACCGTACGAGGAAAATCATAAAAAGTATATTAATGTAATCCAT
GAATTTGTTTTATTATTCAATCTTTTCAAAAAAAATTACAAGTTTAT
Found at i:16641397 original size:20 final size:20
Alignment explanation
Indices: 16641354--16641400 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
16641344 TTATACATTG
**
16641354 CACTTCGGTGCCCCAGTTTG
1 CACTTCGGTGCCCCAGTTCA
**
16641374 CACTTCGGTGCCCTTGTTCA
1 CACTTCGGTGCCCCAGTTCA
16641394 CACTTCG
1 CACTTCG
16641401 CTATCCCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.36, G:0.21, T:0.32
Consensus pattern (20 bp):
CACTTCGGTGCCCCAGTTCA
Found at i:16641464 original size:20 final size:20
Alignment explanation
Indices: 16641405--16641466 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
16641395 ACTTCGCTAT
* *
16641405 CCCTATTTGCACTCTGGTGC
1 CCCTATTTGCACTATGATGC
* *
16641425 CCCTATTTGCACAATCATGC
1 CCCTATTTGCACTATGATGC
* *
16641445 CCCTTTTTGCACTTTGATGC
1 CCCTATTTGCACTATGATGC
16641465 CC
1 CC
16641467 TTGATAGCAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.35, G:0.15, T:0.35
Consensus pattern (20 bp):
CCCTATTTGCACTATGATGC
Found at i:16648348 original size:39 final size:39
Alignment explanation
Indices: 16648297--16648466 Score: 232
Period size: 39 Copynumber: 4.4 Consensus size: 39
16648287 TATAATTATA
* * *
16648297 CCCTGATCGCACTTACATGCCCCTGTTGTACTTCAGTAC
1 CCCTGATCGCACTTACGTGCCCCTATTGTACTTCGGTAC
* *
16648336 CCCTGATCGCACTTACGTGCCCCTATTGTACTTTGATAC
1 CCCTGATCGCACTTACGTGCCCCTATTGTACTTCGGTAC
* * * *
16648375 CCCTGATCGCACCTATGTGTCCTTATTGTACTTCGGTAC
1 CCCTGATCGCACTTACGTGCCCCTATTGTACTTCGGTAC
* * *
16648414 CCCTAATCACACTTACGTGCCCCTGTTGTACTTCGGTAC
1 CCCTGATCGCACTTACGTGCCCCTATTGTACTTCGGTAC
16648453 CCCTGATCGCACTT
1 CCCTGATCGCACTT
16648467 TTTTGCCGTC
Statistics
Matches: 111, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.17, C:0.35, G:0.16, T:0.32
Consensus pattern (39 bp):
CCCTGATCGCACTTACGTGCCCCTATTGTACTTCGGTAC
Found at i:16670808 original size:219 final size:221
Alignment explanation
Indices: 16670411--16670860 Score: 769
Period size: 219 Copynumber: 2.0 Consensus size: 221
16670401 GTGGTTTCGG
* *
16670411 GACCACAAATCTGAAGTTAAAAAAATTATTTTATTATTATCTTATTGCCTACTACATGATAGAAG
1 GACCACAAATCTGAAGTTAAAAAAATTACTTTATTATTATCTTATTGCCTACAACATGATAGAAG
* *
16670476 TACCGTATAAAAATTTCGTTAAAATAAATTTTATCATTTACATGCTCAATTTGATAAAAAGGACT
66 TACCGTATAAAAATTTCGTTAAAATAAATTTTACCATTTACATGCTCAATTTGATAAAAAAGACT
16670541 AAATCACGTAAAGTGCAAAAGTTGAGTTCTAGTAGCTAAAAGTATTAAATAGATATAGAACCTTA
131 AAATCACGTAAAGTGCAAAAGTTGAGTTCTAGTAGCTAAAAGTATTAAATAGATATAGAACCTTA
*
16670606 AAGTATGAGTCCTTAAATGGTAACTA
196 AAGTATGAGTCCTTAAATGATAACTA
*
16670632 GACCACAAATCTGAAGTTAAAAAAATTACTTTATTATTATTTTATTGCCTACAACATGATAGAAG
1 GACCACAAATCTGAAGTTAAAAAAATTACTTTATTATTATCTTATTGCCTACAACATGATAGAAG
* * *
16670697 TACCGTATAAAAATTTCGTT-CAA-AAATTTTACCGTTTACATGGTCAATTTGATAAAAAAGACT
66 TACCGTATAAAAATTTCGTTAAAATAAATTTTACCATTTACATGCTCAATTTGATAAAAAAGACT
* *
16670760 AAATCATGTAAAGTGCAAAAGTTGAGTTCTAGTAGTTAAAAGTATTAAATAGATATAGAACCTTA
131 AAATCACGTAAAGTGCAAAAGTTGAGTTCTAGTAGCTAAAAGTATTAAATAGATATAGAACCTTA
*
16670825 AAGTATGAGTCCTTAAATGATAATTA
196 AAGTATGAGTCCTTAAATGATAACTA
*
16670851 GACCATAAAT
1 GACCACAAAT
16670861 AAGATAGTGG
Statistics
Matches: 216, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
219 132 0.61
220 2 0.01
221 82 0.38
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (221 bp):
GACCACAAATCTGAAGTTAAAAAAATTACTTTATTATTATCTTATTGCCTACAACATGATAGAAG
TACCGTATAAAAATTTCGTTAAAATAAATTTTACCATTTACATGCTCAATTTGATAAAAAAGACT
AAATCACGTAAAGTGCAAAAGTTGAGTTCTAGTAGCTAAAAGTATTAAATAGATATAGAACCTTA
AAGTATGAGTCCTTAAATGATAACTA
Found at i:16671964 original size:25 final size:25
Alignment explanation
Indices: 16671912--16671969 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
16671902 GAGCTTATGA
* * *
16671912 GAGCACACTGATTTACAGCTTGAGT
1 GAGCATACTGATTCACAGCTCGAGT
16671937 GAGCATACTGATTCACAGCTCGTA-T
1 GAGCATACTGATTCACAGCTCG-AGT
16671962 GAGCATAC
1 GAGCATAC
16671970 ATGTACAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
GAGCATACTGATTCACAGCTCGAGT
Found at i:16679192 original size:51 final size:51
Alignment explanation
Indices: 16679112--16679311 Score: 233
Period size: 51 Copynumber: 3.9 Consensus size: 51
16679102 TGCTTATAAA
* * * *
16679112 CACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATAATGGT
* * * **
16679163 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAAGGTTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATAATGGT
* * * *
16679214 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGAACCGGAAAG-T-TTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAAGATAATGGT
* * *
16679264 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATAAT
16679312 AATTACACGG
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
49 4 0.03
50 39 0.30
51 80 0.62
52 5 0.04
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATAATGGT
Found at i:16679299 original size:101 final size:102
Alignment explanation
Indices: 16679112--16679304 Score: 255
Period size: 101 Copynumber: 1.9 Consensus size: 102
16679102 TGCTTATAAA
* * * * *
16679112 CACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGAACCGAAAGATAATGATCACATGTGTAGTAC
* *
16679177 TATGTGCAGGCTACTATGTGTACCGAAAGGTTTTGGT
66 TATGTGAAGGCTACTACGTGTACCGAAAGGTTTTGGT
* * * *
16679214 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGAACCGGAAAG-T-TTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGAACC-GAAAGATAATGATCACATGTGTAGTA
*
16679277 CTATGTGAAGGCTACTACGTGTATCGAA
65 CTATGTGAAGGCTACTACGTGTACCGAA
16679305 TGATAATAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
101 40 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (102 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGAACCGAAAGATAATGATCACATGTGTAGTAC
TATGTGAAGGCTACTACGTGTACCGAAAGGTTTTGGT
Found at i:16679925 original size:78 final size:78
Alignment explanation
Indices: 16679785--16679942 Score: 226
Period size: 78 Copynumber: 2.0 Consensus size: 78
16679775 ATTTATATGT
* * ** * * *
16679785 TTAGAATCCATAATGAGTTTATTTTAAAAAGAAATAAATTAAAATATTATATGAGTTTTGTACTG
1 TTAGAATCCATAATGAGTCTATTTTAAAAAGAAATAAATTAAAATATCATACAAATTCTGTACAG
16679850 TGAGATAATTAAC
66 TGAGATAATTAAC
* *
16679863 TTAGAATCCATAATGAGTCTATTTTCAAAAGAAATAAATTAAAATATCATCCAAATTCTGTACAG
1 TTAGAATCCATAATGAGTCTATTTTAAAAAGAAATAAATTAAAATATCATACAAATTCTGTACAG
*
16679928 TGAGATAATTCAC
66 TGAGATAATTAAC
16679941 TT
1 TT
16679943 TTAGTGAAGA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (78 bp):
TTAGAATCCATAATGAGTCTATTTTAAAAAGAAATAAATTAAAATATCATACAAATTCTGTACAG
TGAGATAATTAAC
Found at i:16695741 original size:50 final size:49
Alignment explanation
Indices: 16695665--16695782 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 49
16695655 AGCATTTCAC
* ** * * *
16695665 ATGTTAATAAAGTTTGTGTTTTAATTATGTCATGCATTATGTAACTCCT
1 ATGTTAATTAAGTTTGCATTTAAATTATGTCATGCATTACGTAACTCAT
* *
16695714 ATGTTAATTAAGTTTGCATATTAAATTATGTTATGCATTACGTAATTCAT
1 ATGTTAATTAAGTTTGCAT-TTAAATTATGTCATGCATTACGTAACTCAT
* * *
16695764 TTGTTTATTTAGTTTGCAT
1 ATGTTAATTAAGTTTGCAT
16695783 CTTGATTAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
49 16 0.28
50 41 0.72
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.49
Consensus pattern (49 bp):
ATGTTAATTAAGTTTGCATTTAAATTATGTCATGCATTACGTAACTCAT
Found at i:16705075 original size:25 final size:27
Alignment explanation
Indices: 16705013--16705082 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
16705003 CGTTCCGAAC
* *
16705013 CACAGCTCGTGTGAGCAGGCTTATTTT
1 CACAGCTCGTGTGAGCATGCTGATTTT
* *
16705040 CACAGTTCGTGTGAGCATTCTGA-TTT
1 CACAGCTCGTGTGAGCATGCTGATTTT
16705066 -ACAGCTCGTGTGAGCAT
1 CACAGCTCGTGTGAGCAT
16705083 ACATGTACAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 16 0.42
26 3 0.08
27 19 0.50
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (27 bp):
CACAGCTCGTGTGAGCATGCTGATTTT
Found at i:16716048 original size:29 final size:29
Alignment explanation
Indices: 16716015--16716083 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
16716005 CTCTTTTCTA
16716015 TTATATGTGAGCCCCAGTGGCAG-AATTTG
1 TTATATGTGAGCCCCAGTGG-AGAAATTTG
* *
16716044 TTATATGTGAGCTCTAGTGGAGAAATTTG
1 TTATATGTGAGCCCCAGTGGAGAAATTTG
*
16716073 ATATATGTGAG
1 TTATATGTGAG
16716084 GCTTTGTGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 2 0.06
29 34 0.94
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.35
Consensus pattern (29 bp):
TTATATGTGAGCCCCAGTGGAGAAATTTG
Found at i:16725248 original size:79 final size:78
Alignment explanation
Indices: 16725146--16725368 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
16725136 GCTCCTCGTT
* *
16725146 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
16725211 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
16725226 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
16725290 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
16725304 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
16725367 GA
63 GA
16725369 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:16725263 original size:39 final size:40
Alignment explanation
Indices: 16725146--16725368 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
16725136 GCTCCTCGTT
* *
16725146 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
16725186 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
16725226 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
16725265 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
16725304 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
16725345 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16725369 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:16733167 original size:40 final size:40
Alignment explanation
Indices: 16733123--16733384 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
16733113 GCTCCTCGTT
* *
16733123 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
16733163 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
16733203 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
16733242 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
16733281 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
16733320 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
16733361 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16733385 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:16735745 original size:6 final size:6
Alignment explanation
Indices: 16735734--16735851 Score: 218
Period size: 6 Copynumber: 19.3 Consensus size: 6
16735724 ATTTTATTTC
16735734 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
16735782 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTATT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T
16735831 TTTTATT TTTTAT TTTTAT TT
1 TTTTA-T TTTTAT TTTTAT TT
16735852 CTTAAACTTC
Statistics
Matches: 111, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
6 98 0.88
7 13 0.12
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:16735749 original size:1 final size:1
Alignment explanation
Indices: 16735734--16735847 Score: 66
Period size: 1 Copynumber: 114.0 Consensus size: 1
16735724 ATTTTATTTC
* * * * * * * * * * *
16735734 TTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
16735799 TTTTTATTTTTATTTTTATTTTTATTTTTATTTTTTATTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16735848 ATTTCTTAAA
Statistics
Matches: 77, Mismatches: 36, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:16739911 original size:14 final size:14
Alignment explanation
Indices: 16739892--16739929 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
16739882 GTTTGCCAGT
*
16739892 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
16739906 AAAATGATTTCTGG
1 AAAATGATTTCCGG
16739920 AAAATGATTT
1 AAAATGATTT
16739930 ACTTTCTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:16739937 original size:19 final size:19
Alignment explanation
Indices: 16739913--16739951 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
16739903 CGGAAAATGA
*
16739913 TTTCTGGAAAATGATTTAC
1 TTTCTGGAAAATAATTTAC
16739932 TTTCTGGAAAATAATTTAC
1 TTTCTGGAAAATAATTTAC
16739951 T
1 T
16739952 AAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (19 bp):
TTTCTGGAAAATAATTTAC
Found at i:16740074 original size:20 final size:20
Alignment explanation
Indices: 16740049--16740087 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16740039 GTTATTACAT
16740049 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
16740069 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
16740088 TTTTTAAATT
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:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:16740838 original size:325 final size:325
Alignment explanation
Indices: 16740248--16740897 Score: 1300
Period size: 325 Copynumber: 2.0 Consensus size: 325
16740238 TAAAAAAAAC
16740248 AAAGATTGAATAATTATAAATTAGCTTCCAAACCACAATTAATACTAAAAATTAAATATTATCCA
1 AAAGATTGAATAATTATAAATTAGCTTCCAAACCACAATTAATACTAAAAATTAAATATTATCCA
16740313 AATGCATAATTAGTAGTACACCATATAATAACAACAACATTGTCCAAGTGCATAACTAATATTAC
66 AATGCATAATTAGTAGTACACCATATAATAACAACAACATTGTCCAAGTGCATAACTAATATTAC
16740378 ACCACATAAAAGTATCAATATCTTCAACCTTGGGAAAATTTTTGAAGCCAAATTTTTTCATGCTT
131 ACCACATAAAAGTATCAATATCTTCAACCTTGGGAAAATTTTTGAAGCCAAATTTTTTCATGCTT
16740443 CTTACTTTTAACTAAAAATGCTTTGGCCTCGGATTCATGACTCACTAGATAATCAAACACAGAAC
196 CTTACTTTTAACTAAAAATGCTTTGGCCTCGGATTCATGACTCACTAGATAATCAAACACAGAAC
16740508 ACAAGAAGTCATCATCAAATCCTTCTTCCTCCATCGACATCACTTCTTCGTAAAGCTGTGTTGTA
261 ACAAGAAGTCATCATCAAATCCTTCTTCCTCCATCGACATCACTTCTTCGTAAAGCTGTGTTGTA
16740573 AAAGATTGAATAATTATAAATTAGCTTCCAAACCACAATTAATACTAAAAATTAAATATTATCCA
1 AAAGATTGAATAATTATAAATTAGCTTCCAAACCACAATTAATACTAAAAATTAAATATTATCCA
16740638 AATGCATAATTAGTAGTACACCATATAATAACAACAACATTGTCCAAGTGCATAACTAATATTAC
66 AATGCATAATTAGTAGTACACCATATAATAACAACAACATTGTCCAAGTGCATAACTAATATTAC
16740703 ACCACATAAAAGTATCAATATCTTCAACCTTGGGAAAATTTTTGAAGCCAAATTTTTTCATGCTT
131 ACCACATAAAAGTATCAATATCTTCAACCTTGGGAAAATTTTTGAAGCCAAATTTTTTCATGCTT
16740768 CTTACTTTTAACTAAAAATGCTTTGGCCTCGGATTCATGACTCACTAGATAATCAAACACAGAAC
196 CTTACTTTTAACTAAAAATGCTTTGGCCTCGGATTCATGACTCACTAGATAATCAAACACAGAAC
16740833 ACAAGAAGTCATCATCAAATCCTTCTTCCTCCATCGACATCACTTCTTCGTAAAGCTGTGTTGTA
261 ACAAGAAGTCATCATCAAATCCTTCTTCCTCCATCGACATCACTTCTTCGTAAAGCTGTGTTGTA
16740898 TTATCCGCAA
Statistics
Matches: 325, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
325 325 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (325 bp):
AAAGATTGAATAATTATAAATTAGCTTCCAAACCACAATTAATACTAAAAATTAAATATTATCCA
AATGCATAATTAGTAGTACACCATATAATAACAACAACATTGTCCAAGTGCATAACTAATATTAC
ACCACATAAAAGTATCAATATCTTCAACCTTGGGAAAATTTTTGAAGCCAAATTTTTTCATGCTT
CTTACTTTTAACTAAAAATGCTTTGGCCTCGGATTCATGACTCACTAGATAATCAAACACAGAAC
ACAAGAAGTCATCATCAAATCCTTCTTCCTCCATCGACATCACTTCTTCGTAAAGCTGTGTTGTA
Found at i:16743074 original size:50 final size:50
Alignment explanation
Indices: 16742909--16743101 Score: 224
Period size: 51 Copynumber: 3.8 Consensus size: 50
16742899 TGCCTATAAA
* * * *
16742909 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGAT-TTGGT
* * * * * *
16742960 CACATGTGTAATACCATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAAGATTTGGT
* * *
16743011 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAAAATTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATTTGGT
** *
16743061 CACGTGTGTAGTACTATGTAAAGGCTACTACGTGTATCGAA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
16743102 TGATAATAAT
Statistics
Matches: 118, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 45 0.38
51 69 0.58
52 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGATTTGGT
Found at i:16747244 original size:7 final size:7
Alignment explanation
Indices: 16747234--16747266 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
16747224 AAATACTAAA
16747234 TTTTAAT
1 TTTTAAT
16747241 TTTTAAT
1 TTTTAAT
16747248 TTTTAAT
1 TTTTAAT
16747255 TTTTAAGT
1 TTTTAA-T
16747263 TTTT
1 TTTT
16747267 GAAAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (7 bp):
TTTTAAT
Found at i:16752475 original size:26 final size:27
Alignment explanation
Indices: 16752445--16752667 Score: 149
Period size: 27 Copynumber: 8.3 Consensus size: 27
16752435 TATAACAGTC
* *
16752445 ATTTTACCCTTTAAGGG-ATCTTGGTA
1 ATTTTACCCTTCAAGGGTATCTTAGTA
* *
16752471 ATTTTACCCTTCAGGGGTATTTTAGTA
1 ATTTTACCCTTCAAGGGTATCTTAGTA
* *
16752498 ATTTTACCCTTCGAGGGTAT-TTCAATA
1 ATTTTACCCTTCAAGGGTATCTT-AGTA
** **
16752525 ATTTTATTCTTTGAGGGTAT-TTCAGTA
1 ATTTTACCCTTCAAGGGTATCTT-AGTA
* * *
16752552 ATTTTACCTTTTAAGGGTAT-TTCAATA
1 ATTTTACCCTTCAAGGGTATCTT-AGTA
*
16752579 ATTTTACCCTTCGAA-GGTAT-TTCGGTA
1 ATTTTACCCTTC-AAGGGTATCTT-AGTA
* *
16752606 ATTTTACCCTTCGAGGGCAT-TTCAGTA
1 ATTTTACCCTTCAAGGGTATCTT-AGTA
** *
16752633 ATTTTA-CCTTTGAGGGTAT-TTCAGTC
1 ATTTTACCCTTCAAGGGTATCTT-AGTA
16752659 ATTTTACCC
1 ATTTTACCC
16752668 ACGATTCGTA
Statistics
Matches: 166, Mismatches: 26, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
26 41 0.25
27 123 0.74
28 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCAAGGGTATCTTAGTA
Found at i:16752505 original size:27 final size:28
Alignment explanation
Indices: 16752468--16752667 Score: 227
Period size: 27 Copynumber: 7.4 Consensus size: 28
16752458 AGGGATCTTG
*
16752468 GTAATTTTACCCTTCAG-GGGTATTTTA
1 GTAATTTTACCCTTCAGAGGGTATTTCA
16752495 GTAATTTTACCCTTC-GAGGGTATTTCA
1 GTAATTTTACCCTTCAGAGGGTATTTCA
* ** *
16752522 ATAATTTTATTCTT-TGAGGGTATTTCA
1 GTAATTTTACCCTTCAGAGGGTATTTCA
* *
16752549 GTAATTTTACCTTTTA-AGGGTATTTCA
1 GTAATTTTACCCTTCAGAGGGTATTTCA
* * *
16752576 ATAATTTTACCCTTC-GAAGGTATTTCG
1 GTAATTTTACCCTTCAGAGGGTATTTCA
*
16752603 GTAATTTTACCCTTC-GAGGGCATTTCA
1 GTAATTTTACCCTTCAGAGGGTATTTCA
*
16752630 GTAATTTTA-CCTT-TGAGGGTATTTCA
1 GTAATTTTACCCTTCAGAGGGTATTTCA
*
16752656 GTCATTTTACCC
1 GTAATTTTACCC
16752668 ACGATTCGTA
Statistics
Matches: 147, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 24 0.16
27 123 0.84
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (28 bp):
GTAATTTTACCCTTCAGAGGGTATTTCA
Found at i:16752543 original size:54 final size:53
Alignment explanation
Indices: 16752469--16752667 Score: 254
Period size: 54 Copynumber: 3.7 Consensus size: 53
16752459 GGGATCTTGG
* * *
16752469 TAATTTTACCCTTCAGGGGTATTTTAGTAATTTTACCCTTCGAGGGTATTTCAA
1 TAATTTTACCTTTGA-GGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCAA
* * **
16752523 TAATTTTATTCTTTGAGGGTATTTCAGTAATTTTACCTTTTAAGGGTATTTCAA
1 TAATTTTA-CCTTTGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCAA
* * * * *
16752577 TAATTTTACCCTTCGAAGGTATTTCGGTAATTTTACCCTTCGAGGGCATTTCAG
1 TAATTTTA-CCTTTGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCAA
*
16752631 TAATTTTACCTTTGAGGGTATTTCAGTCATTTTACCC
1 TAATTTTACCTTTGAGGGTATTTCAGTAATTTTACCC
16752668 ACGATTCGTA
Statistics
Matches: 123, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
53 25 0.20
54 94 0.76
55 4 0.03
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (53 bp):
TAATTTTACCTTTGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCAA
Found at i:16752571 original size:81 final size:80
Alignment explanation
Indices: 16752468--16752667 Score: 265
Period size: 81 Copynumber: 2.5 Consensus size: 80
16752458 AGGGATCTTG
* * * * **
16752468 GTAATTTTACCCTTCAGGGGTATTTTAGTAATTTTACCCTTCGAGGGTATTTCAATAATTTTATT
1 GTAATTTTA-CCTTTAAGGGTATTTCAGTAATTTTACCCTTCGAAGGTATTTCAATAATTTTACC
* *
16752533 CTTTGAGGGTATTTCA
65 CTTCGAGGGCATTTCA
* **
16752549 GTAATTTTACCTTTTAAGGGTATTTCAATAATTTTACCCTTCGAAGGTATTTCGGTAATTTTACC
1 GTAATTTTACC-TTTAAGGGTATTTCAGTAATTTTACCCTTCGAAGGTATTTCAATAATTTTACC
16752614 CTTCGAGGGCATTTCA
65 CTTCGAGGGCATTTCA
* *
16752630 GTAATTTTACCTTTGAGGGTATTTCAGTCATTTTACCC
1 GTAATTTTACCTTTAAGGGTATTTCAGTAATTTTACCC
16752668 ACGATTCGTA
Statistics
Matches: 104, Mismatches: 14, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
80 26 0.25
81 78 0.75
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (80 bp):
GTAATTTTACCTTTAAGGGTATTTCAGTAATTTTACCCTTCGAAGGTATTTCAATAATTTTACCC
TTCGAGGGCATTTCA
Found at i:16753579 original size:17 final size:19
Alignment explanation
Indices: 16753542--16753591 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
16753532 AATTGGCAAC
*
16753542 AAGAGAAGAAGAAACTGAA
1 AAGAGAAGAAGAAAATGAA
16753561 AAGA-AAGAAGAAAAT-AA
1 AAGAGAAGAAGAAAATGAA
16753578 AAGATGAAGGAAGA
1 AAGA-GAA-GAAGA
16753592 GAGTGTGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.22
18 10 0.37
19 6 0.22
20 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.26, T:0.06
Consensus pattern (19 bp):
AAGAGAAGAAGAAAATGAA
Found at i:16759270 original size:20 final size:20
Alignment explanation
Indices: 16759242--16759282 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
16759232 AAAACTTAGA
*
16759242 CTTGTTGATAAAACTCGTTT
1 CTTGCTGATAAAACTCGTTT
16759262 CTTGCTGATAAAACTCGTTT
1 CTTGCTGATAAAACTCGTTT
16759282 C
1 C
16759283 CTAATTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (20 bp):
CTTGCTGATAAAACTCGTTT
Found at i:16759985 original size:26 final size:26
Alignment explanation
Indices: 16759920--16759985 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
16759910 GTAGCAGAGT
* *
16759920 TGCCAGTAATAATGACGCAACAAAGC
1 TGCCAGTAATAGTAACGCAACAAAGC
* *
16759946 TGCCAGTAATAGTAACGCAGCAAGGC
1 TGCCAGTAATAGTAACGCAACAAAGC
*
16759972 TGCCAGTAACAGTA
1 TGCCAGTAATAGTA
16759986 TATGTGGCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
TGCCAGTAATAGTAACGCAACAAAGC
Found at i:16760180 original size:27 final size:26
Alignment explanation
Indices: 16760145--16760209 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
16760135 TATTTCCACT
*
16760145 CTTAAGGGTATAACAGTCATTTTACC
1 CTTAAGGGTATAACAGTAATTTTACC
**
16760171 CTTAAGGGGTATCTCAGTAATTTTACC
1 CTTAA-GGGTATAACAGTAATTTTACC
*
16760198 CTTCGAGGGTAT
1 CTT-AAGGGTAT
16760210 TTTAGTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.15
27 27 0.82
28 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (26 bp):
CTTAAGGGTATAACAGTAATTTTACC
Found at i:16760216 original size:27 final size:27
Alignment explanation
Indices: 16760163--16760368 Score: 159
Period size: 27 Copynumber: 7.7 Consensus size: 27
16760153 TATAACAGTC
* * *
16760163 ATTTTACCCTT-AAGGGGTATCTCAGTA
1 ATTTTACCCTTCGA-GGGTATTTTAGTA
16760190 ATTTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
* * * **
16760217 ATTTTATCTTTC-AGAGGTATTTCAAAA
1 ATTTTACCCTTCGAG-GGTATTTTAGTA
* *
16760244 ATTTTACCCTTCGAGGGTATTTTGGCA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
* * * *
16760271 ATATTACCTTTCAAGGGTATTTTAATA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
* * *
16760298 ATTTTACCCTTCAAAGGTA-TTTCGATA
1 ATTTTACCCTTCGAGGGTATTTTAG-TA
* **
16760325 ATTTTACCCTTCGAGGGTGTTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTTAGTA
* *
16760352 GTTTTACCTTTCG-GGGT
1 ATTTTACCCTTCGAGGGT
16760369 TAATTCGATC
Statistics
Matches: 142, Mismatches: 32, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
26 9 0.06
27 127 0.89
28 6 0.04
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTTAGTA
Found at i:16760236 original size:54 final size:54
Alignment explanation
Indices: 16760177--16760319 Score: 180
Period size: 54 Copynumber: 2.6 Consensus size: 54
16760167 TACCCTTAAG
* * * * *
16760177 GGGTATCTCAGTAATTTTACCCTTCGAGGGTATTTTAGTAATTTTATCTTTC-A
1 GGGTATTTCAATAATTTTACCCTTCGAGGGTATTTTAGCAATATTACCTTTCAA
* *
16760230 GAGGTATTTCAAAAATTTTACCCTTCGAGGGTATTTTGGCAATATTACCTTTCAA
1 G-GGTATTTCAATAATTTTACCCTTCGAGGGTATTTTAGCAATATTACCTTTCAA
* * *
16760285 GGGTATTTTAATAATTTTACCCTTCAAAGGTATTT
1 GGGTATTTCAATAATTTTACCCTTCGAGGGTATTT
16760320 CGATAATTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 74 0.96
55 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.43
Consensus pattern (54 bp):
GGGTATTTCAATAATTTTACCCTTCGAGGGTATTTTAGCAATATTACCTTTCAA
Found at i:16760359 original size:81 final size:81
Alignment explanation
Indices: 16760163--16760363 Score: 233
Period size: 81 Copynumber: 2.5 Consensus size: 81
16760153 TATAACAGTC
* * * * * * * * *
16760163 ATTTTACCCTT-AAGGGGTATCTCAGTAATTTTACCCTTCGAGGGTATTTTAGTAATTTTATCTT
1 ATTTTACCCTTCGA-GGGTATTTCGGCAATTTTACCTTTCAAGGGTATTTTAATAATTTTACCCT
*
16760227 TCAGAGGTATTTCAAAA
65 TCAAAGGTATTTCAAAA
* *
16760244 ATTTTACCCTTCGAGGGTATTTTGGCAATATTACCTTTCAAGGGTATTTTAATAATTTTACCCTT
1 ATTTTACCCTTCGAGGGTATTTCGGCAATTTTACCTTTCAAGGGTATTTTAATAATTTTACCCTT
* *
16760309 CAAAGGTATTTCGATA
66 CAAAGGTATTTCAAAA
* * *
16760325 ATTTTACCCTTCGAGGGTGTTTCGGTAGTTTTACCTTTC
1 ATTTTACCCTTCGAGGGTATTTCGGCAATTTTACCTTTC
16760364 GGGGTTAATT
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
81 99 0.99
82 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (81 bp):
ATTTTACCCTTCGAGGGTATTTCGGCAATTTTACCTTTCAAGGGTATTTTAATAATTTTACCCTT
CAAAGGTATTTCAAAA
Found at i:16760383 original size:81 final size:81
Alignment explanation
Indices: 16760215--16760387 Score: 195
Period size: 81 Copynumber: 2.1 Consensus size: 81
16760205 GGTATTTTAG
* * * *
16760215 TAATTTTATCTTTCAGAGGTATTTCAAAAATTTTACCCTTCGAGGGTATTTTGGCAATATTACCT
1 TAATTTTACCCTTCAAAGGTATTTCAAAAATTTTACCCTTCGAGGGTATTTCGGCAATATTACCT
* *
16760280 TTCAAGGGTATTTTAA
66 TTCAAGGGTAATTCAA
* * * * * *
16760296 TAATTTTACCCTTCAAAGGTATTTCGATAATTTTACCCTTCGAGGGTGTTTCGGTAGTTTTACCT
1 TAATTTTACCCTTCAAAGGTATTTCAAAAATTTTACCCTTCGAGGGTATTTCGGCAATATTACCT
* *
16760361 TTC-GGGGTTAATTCGA
66 TTCAAGGG-TAATTCAA
*
16760377 TCATTTTACCC
1 TAATTTTACCC
16760388 ATAATTCCCA
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 3 0.04
81 73 0.96
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (81 bp):
TAATTTTACCCTTCAAAGGTATTTCAAAAATTTTACCCTTCGAGGGTATTTCGGCAATATTACCT
TTCAAGGGTAATTCAA
Found at i:16765855 original size:3 final size:3
Alignment explanation
Indices: 16765847--16765878 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
16765837 AATTGCATTT
16765847 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
16765879 TGCAATTCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:16765990 original size:17 final size:18
Alignment explanation
Indices: 16765968--16766004 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
16765958 GTAATATATA
16765968 TATGTATATTTAT-TTTT
1 TATGTATATTTATATTTT
16765985 TATGTATATTTATATTTT
1 TATGTATATTTATATTTT
16766003 TA
1 TA
16766005 AAACTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (18 bp):
TATGTATATTTATATTTT
Found at i:16766099 original size:39 final size:40
Alignment explanation
Indices: 16766044--16766129 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 40
16766034 TATGCACATA
16766044 TATTTTTAATTAATTTTGAT-AATAT-TG-ATATCATTTAAT
1 TATTTTTAATTAATTTT-ATGAATATATGCATAT-ATTTAAT
* *
16766083 TATTTTTAA-TATATTTTATGTATATATGCATATATTTATT
1 TATTTTTAATTA-ATTTTATGAATATATGCATATATTTAAT
16766123 TATTTTT
1 TATTTTT
16766130 TCATAAATGC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
38 4 0.10
39 18 0.44
40 15 0.37
41 4 0.10
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (40 bp):
TATTTTTAATTAATTTTATGAATATATGCATATATTTAAT
Found at i:16770622 original size:42 final size:42
Alignment explanation
Indices: 16770553--16770633 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
16770543 AAAAGGGCGG
** * *
16770553 CTCAAATTTTGATCAGAATGGGACATGAGGTGATCAGAGTGA
1 CTCAAATAGTGATCAAAATGGGACATGAAGTGATCAGAGTGA
*
16770595 CTCAAATAGTGATCAAAATGAGG-CATGAAGTGATTAGAG
1 CTCAAATAGTGATCAAAATG-GGACATGAAGTGATCAGAG
16770634 CAACTCGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (42 bp):
CTCAAATAGTGATCAAAATGGGACATGAAGTGATCAGAGTGA
Found at i:16772031 original size:175 final size:176
Alignment explanation
Indices: 16771736--16772131 Score: 589
Period size: 175 Copynumber: 2.3 Consensus size: 176
16771726 AGCAGATCAG
* * *
16771736 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAGGCAGATCAAAGACACTAGCCTTGTCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
* * * * *
16771801 CCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGAAGATCTTGCCTTCCTACACCGACAGTGAAGCA
66 CCCTAGGTTGCAGCGGAGCAGGCTAAAAATAGAAGATCTTCCCTTCCTACACCGACAGCGAAGCA
* *
16771866 GATCGAAGATACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGT
131 GATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGT
* * *
16771912 TAAAAATAGCAAATCTTGCCTT-CTGCACCGACAGCGAAGCAGATCGAAGACGCCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
* * * *
16771976 TCCTAGGTTGCAGCGGAGCAGGCTAAAAATAGCAGATCTTACCCTT-TTGCACCGACAGCGAAGC
66 CCCTAGGTTGCAGCGGAGCAGGCTAAAAATAGAAGATCTT-CCCTTCCTACACCGACAGCGAAGC
*
16772040 AGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGTAGGT
130 AGATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGT
* *
16772087 TAAAAATAGCAGATCTTGCCTTCCTACACCGATAGCGAAGCAGAT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
16772132 TGATGACCTC
Statistics
Matches: 197, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
175 152 0.77
176 45 0.23
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (176 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
CCCTAGGTTGCAGCGGAGCAGGCTAAAAATAGAAGATCTTCCCTTCCTACACCGACAGCGAAGCA
GATCGAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGGT
Found at i:16772155 original size:88 final size:88
Alignment explanation
Indices: 16771736--16772131 Score: 589
Period size: 88 Copynumber: 4.5 Consensus size: 88
16771726 AGCAGATCAG
* * * *
16771736 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAGGCAGATCAAAGACACTAGCCTTGTCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
16771801 CCCTGGGTTGTAGCGGAGCAGGT
66 CCCTAGGTTGCAGCGGAGCAGGT
* * * *
16771824 TAAAAATAGAAGATCTTGCCTTCCTACACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
16771889 CCCTGGGTTGCAGCGGAGCAGGT
66 CCCTAGGTTGCAGCGGAGCAGGT
* *
16771912 TAAAAATAGCAAATCTTGCCTT-CTGCACCGACAGCGAAGCAGATCGAAGACGCCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
16771976 TCCTAGGTTGCAGCGGAGCAGGC
66 CCCTAGGTTGCAGCGGAGCAGGT
* *
16771999 TAAAAATAGCAGATCTTACCCTT-TTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
1 TAAAAATAGCAGATCTT-GCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
*
16772063 TCCCTAGGTTGCAGCGGAGTAGGT
65 TCCCTAGGTTGCAGCGGAGCAGGT
* *
16772087 TAAAAATAGCAGATCTTGCCTTCCTACACCGATAGCGAAGCAGAT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
16772132 TGATGACCTC
Statistics
Matches: 277, Mismatches: 29, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
87 78 0.28
88 199 0.72
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTAGGTTGCAGCGGAGCAGGT
Found at i:16772255 original size:44 final size:44
Alignment explanation
Indices: 16772145--16772735 Score: 552
Period size: 44 Copynumber: 13.7 Consensus size: 44
16772135 TGACCTCAGC
* * * **
16772145 CCTATCTCCCTGGTCAGTAGTGGAATAGGCTAAATATTAAAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATT-GTGAAT
* ** *
16772190 CCTATCTCCCTGGACAATAGTGGAATAGGTTAAAGATTCTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
16772234 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * *
16772278 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * * *
16772322 CCTATCTCCCTGATCAGTAGTGGAATAGATTAAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
16772366 TCTATCTCCCTAGG-CAGCAGTGGAATAGATTAAAGA----G-CT
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
16772405 -CTATCTCCCTGAAT-AGTAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
16772448 CCTATCTCCCTAGTCAGCAGTGGAATAGGCTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
16772492 TCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A----GAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * *
16772530 CCTATCTCCCTGGACAGTAGTAGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
16772574 CCTATCTCCCTAGTCAGCAGTGGAATAGGCTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
16772618 TCTATCTCCCTGGGT-AGCAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGGTTAAAGATTGTGA-AT
* * *
16772662 CCTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
16772706 CCTATCTCCCTGAGT-AGCAATGGAGTAGGT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGT
16772736 GGAAAATAGT
Statistics
Matches: 454, Mismatches: 69, Indels: 47
0.80 0.12 0.08
Matches are distributed among these distances:
37 1 0.00
38 59 0.13
39 3 0.01
40 2 0.00
42 2 0.00
43 9 0.02
44 337 0.74
45 41 0.09
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:16772455 original size:82 final size:82
Alignment explanation
Indices: 16772323--16772716 Score: 275
Period size: 82 Copynumber: 4.7 Consensus size: 82
16772313 ATTGTAGGTC
*
16772323 CTATCTCCCTGATCAGTAGTGGAATAGATTAAAGATTGAGAATTCTATCTCCCTAGGCAGCAGTG
1 CTATCTCCCTGATCAGTAGTGGAATAGATTAAAGATTGAGAATCCTATCTCCCTAGGCAGCAGTG
16772388 GAATAGATTAAAGAGCT
66 GAATAGATTAAAGAGCT
* * *
16772405 CTATCTCCCTGAAT-AGTAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
1 CTATCTCCCTG-ATCAGTAGTGGAATAGATTAAAGATTGAGAATCCTATCTCCCTAGGCAGCAGT
* * *
16772469 GGAATAGGCTGAAGATTGAGAATT
65 GGAATA-GATTAA-A--GAG--CT
** * *
16772493 CTATCTCCCTGGGCAGCAGTGGAATAGATT--A-A---AGAATCCTATCTCCCT-GGACAGTAGT
1 CTATCTCCCTGATCAGTAGTGGAATAGATTAAAGATTGAGAATCCTATCTCCCTAGG-CAGCAGT
* * *
16772551 AGAATAGGTTAAAGATTGTGAAT
65 GGAATAGATTAAAGA----G-CT
* ** * * * *
16772574 CCTATCTCCCT-AGTCAGCAGTGGAATAGGCTGAAGATTGAGAATTCTATCTCCCTGGGTAGCAG
1 -CTATCTCCCTGA-TCAGTAGTGGAATAGATTAAAGATTGAGAATCCTATCTCCCTAGGCAGCAG
*
16772638 TGGAATAGATTGAAGATTGTAGGT
64 TGGAATAGATT-AA-A--G-AGCT
* * * * * * *
16772662 CCTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAACCCTATCTCCCT
1 -CTATCTCCCTGATCAGTAGTGGAATAGATTAAAGATTGAGAATCCTATCTCCCT
16772717 GAGTAGCAAT
Statistics
Matches: 250, Mismatches: 34, Indels: 50
0.75 0.10 0.15
Matches are distributed among these distances:
78 2 0.01
80 1 0.00
81 7 0.03
82 115 0.46
83 6 0.02
84 2 0.01
85 2 0.01
86 4 0.02
88 103 0.41
89 5 0.02
90 1 0.00
92 1 0.00
93 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (82 bp):
CTATCTCCCTGATCAGTAGTGGAATAGATTAAAGATTGAGAATCCTATCTCCCTAGGCAGCAGTG
GAATAGATTAAAGAGCT
Found at i:16772470 original size:126 final size:129
Alignment explanation
Indices: 16772145--16772734 Score: 635
Period size: 126 Copynumber: 4.6 Consensus size: 129
16772135 TGACCTCAGC
* * ** * * **
16772145 CCTATCTCCCTGGTCAGTAGTGGAATAGGCTAAATATTAAAGAATCCTATCTCCCTGGACAATAG
1 CCTATCTCCCTGGT-AGTAGTGGAATAGGTTAAAGATT-GTGAATCCTATCTCCCTAGTCAGCAG
* ** * * * *
16772210 TGGAATAGGTTAAAGATTCTGAATCCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGAG
64 TGGAATAGGCTAAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA-TGAG
16772275 AAT
128 -AT
* * * * * * *
16772278 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGT-AGGTCCTATCTCCCT-GATCAGTA
1 CCTATCTCCCT-GGTAGTAGTGGAATAGGTTAAAGATTGTGA-ATCCTATCTCCCTAG-TCAGCA
** *
16772341 GTGGAATAGATTAAAGATTGAGAATTCTATCTCCCTAGGCAGCAGTGGAATAGATT-AA-A-GAG
63 GTGGAATAGGCTAAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGAG
*
16772403 CT
128 AT
*
16772405 -CTATCTCCCTGAATAGTAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
1 CCTATCTCCCTG-GTAGTAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
*
16772469 GGAATAGGCTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A-GA-AT
65 GGAATAGGCTAAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGAGAT
* *
16772530 CCTATCTCCCTGGACAGTAGTAGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
1 CCTATCTCCCTGG-TAGTAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGT
* *
16772595 GGAATAGGCTGAAGATTGAGAATTCTATCTCCCTGGGTAGCAGTGGAATAGATTGAAGATTGTAG
65 GGAATAGGCTAAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA-TG-AG
*
16772660 GT
128 AT
* * * * *
16772662 CCTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAACCCTATCTCCCTGAGT-AGCAA
1 CCTATCTCCCTGGT-AGTAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCT-AGTCAGCAG
*
16772726 TGGAGTAGG
64 TGGAATAGG
16772735 TGGAAAATAG
Statistics
Matches: 395, Mismatches: 46, Indels: 33
0.83 0.10 0.07
Matches are distributed among these distances:
125 2 0.01
126 219 0.55
127 5 0.01
128 4 0.01
130 2 0.01
131 5 0.01
132 125 0.32
133 31 0.08
134 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (129 bp):
CCTATCTCCCTGGTAGTAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAGTCAGCAGTG
GAATAGGCTAAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGAGAT
Found at i:16773135 original size:44 final size:44
Alignment explanation
Indices: 16773038--16773157 Score: 127
Period size: 44 Copynumber: 2.8 Consensus size: 44
16773028 GAATATGGAA
* * *
16773038 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT
* ** *
16773082 AATCCTATCTCCCTGAAGTTGCAGTGAAGTGGATTAAAACC-TT
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT
* * *
16773125 GGATCTTATCTCTCTGAAGTTGCAGAG-AGCAGA
1 -AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGA
16773158 ACGCATCTAG
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 5 0.08
44 57 0.92
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCGAT
Found at i:16773418 original size:39 final size:39
Alignment explanation
Indices: 16773372--16773450 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
16773362 AGCAAATAGC
16773372 AAATTTTGTTCTCTTAAGAAACTACAACATACAAATCCT
1 AAATTTTGTTCTCTTAAGAAACTACAACATACAAATCCT
16773411 AAATTTTGTTCTCTTAAGAAACTACAACATACAAATCCT
1 AAATTTTGTTCTCTTAAGAAACTACAACATACAAATCCT
16773450 A
1 A
16773451 TCTCCCTGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (39 bp):
AAATTTTGTTCTCTTAAGAAACTACAACATACAAATCCT
Found at i:16774760 original size:3 final size:3
Alignment explanation
Indices: 16774754--16774804 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
16774744 AAAAAAATAA
* *
16774754 ATT ATT ATC ATT ATT ATTT ATT ATT ATT ATT ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16774800 ATT AT
1 ATT AT
16774805 ATTCATATGC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:16774864 original size:17 final size:18
Alignment explanation
Indices: 16774842--16774877 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
16774832 GTAATATATA
16774842 TATGTATATTTAT-TTTT
1 TATGTATATTTATATTTT
16774859 TATGTATATTTATATTTT
1 TATGTATATTTATATTTT
16774877 T
1 T
16774878 GAAACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TATGTATATTTATATTTT
Found at i:16775170 original size:172 final size:172
Alignment explanation
Indices: 16774984--16775341 Score: 716
Period size: 172 Copynumber: 2.1 Consensus size: 172
16774974 TGTATATATG
16774984 CATTTATTTTTTTTTCATAAATGCATTATGTATTTTGCATATAAGTTTTATAACCCAAAATTTTA
1 CATTTATTTTTTTTTCATAAATGCATTATGTATTTTGCATATAAGTTTTATAACCCAAAATTTTA
16775049 TTTGTAAATCATATGTATTTTTTTTTAAATTTCTATGTGTATATTATATACCTTCTGTTCTTTAT
66 TTTGTAAATCATATGTATTTTTTTTTAAATTTCTATGTGTATATTATATACCTTCTGTTCTTTAT
16775114 TTATTTTGTTTGCTTTCTTCATTCGCTATTTAATTGTGTTTA
131 TTATTTTGTTTGCTTTCTTCATTCGCTATTTAATTGTGTTTA
16775156 CATTTATTTTTTTTTCATAAATGCATTATGTATTTTGCATATAAGTTTTATAACCCAAAATTTTA
1 CATTTATTTTTTTTTCATAAATGCATTATGTATTTTGCATATAAGTTTTATAACCCAAAATTTTA
16775221 TTTGTAAATCATATGTATTTTTTTTTAAATTTCTATGTGTATATTATATACCTTCTGTTCTTTAT
66 TTTGTAAATCATATGTATTTTTTTTTAAATTTCTATGTGTATATTATATACCTTCTGTTCTTTAT
16775286 TTATTTTGTTTGCTTTCTTCATTCGCTATTTAATTGTGTTTA
131 TTATTTTGTTTGCTTTCTTCATTCGCTATTTAATTGTGTTTA
16775328 CATTTATTTTTTTT
1 CATTTATTTTTTTT
16775342 ATTTTTTTAT
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 186 1.00
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (172 bp):
CATTTATTTTTTTTTCATAAATGCATTATGTATTTTGCATATAAGTTTTATAACCCAAAATTTTA
TTTGTAAATCATATGTATTTTTTTTTAAATTTCTATGTGTATATTATATACCTTCTGTTCTTTAT
TTATTTTGTTTGCTTTCTTCATTCGCTATTTAATTGTGTTTA
Found at i:16778253 original size:26 final size:26
Alignment explanation
Indices: 16778195--16778246 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
16778185 GTGGTACCTA
*
16778195 TATTTGACAAAAGTTATGCATTTTGG
1 TATTTGACAAAAGTTATACATTTTGG
*
16778221 TATTTGACACAAGTTATACATTTTGG
1 TATTTGACAAAAGTTATACATTTTGG
16778247 ATCTTGAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (26 bp):
TATTTGACAAAAGTTATACATTTTGG
Found at i:16779186 original size:19 final size:19
Alignment explanation
Indices: 16779162--16779199 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16779152 TACAGAAAAA
16779162 GTCTAATTGTGATAATTTT
1 GTCTAATTGTGATAATTTT
16779181 GTCTAATTGTGATAATTTT
1 GTCTAATTGTGATAATTTT
16779200 TTTTGGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (19 bp):
GTCTAATTGTGATAATTTT
Found at i:16780750 original size:22 final size:23
Alignment explanation
Indices: 16780708--16780752 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
16780698 TTCCAACTGG
16780708 AAATAAATTTATTTATTTTCAAA
1 AAATAAATTTATTTATTTTCAAA
*
16780731 AAAT-AATTT-TTTTTTGTTCAAA
1 AAATAAATTTATTTATT-TTCAAA
16780753 TTACACTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
AAATAAATTTATTTATTTTCAAA
Found at i:16780841 original size:19 final size:20
Alignment explanation
Indices: 16780817--16780857 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
16780807 TATATCTGGA
16780817 AATTATAAATTTA-AC-TAAT
1 AATTAT-AATTTATACATAAT
16780836 AATTATAATTTATACATAAT
1 AATTATAATTTATACATAAT
16780856 AA
1 AA
16780858 GATTTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 8 0.40
20 6 0.30
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTATAATTTATACATAAT
Found at i:16781537 original size:19 final size:16
Alignment explanation
Indices: 16781500--16781542 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 16
16781490 GATTATGAAA
16781500 TATAAATTATAAAAAT
1 TATAAATTATAAAAAT
16781516 TATAAATATATAAAATAAT
1 TATAAAT-TAT-AAA-AAT
16781535 TATAAATT
1 TATAAATT
16781543 TTATATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.29
17 3 0.12
18 4 0.17
19 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATAAATTATAAAAAT
Found at i:16783235 original size:19 final size:19
Alignment explanation
Indices: 16783213--16783290 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 19
16783203 TTTCTATATA
16783213 TTTTATAATTTTTACAATT
1 TTTTATAATTTTTACAATT
* *
16783232 TTTTATAAAATGTTAC-ATT
1 TTTTAT-AATTTTTACAATT
16783251 TTTTATAATTTTTTTACAA-T
1 TTTTATAA--TTTTTACAATT
16783271 TTTTATAATTTTTACTAATT
1 TTTTATAATTTTTAC-AATT
16783291 CTTAATAACT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
18 9 0.18
19 17 0.35
20 22 0.45
21 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTACAATT
Found at i:16783267 original size:20 final size:19
Alignment explanation
Indices: 16783213--16783283 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
16783203 TTTCTATATA
16783213 TTTTATAA-TTTTTACAATT
1 TTTTATAATTTTTTAC-ATT
** *
16783232 TTTTATAAAATGTTACATT
1 TTTTATAATTTTTTACATT
*
16783251 TTTTATAATTTTTTTACAAT
1 TTTTATAA-TTTTTTACATT
16783271 TTTTATAATTTTT
1 TTTTATAATTTTT
16783284 ACTAATTCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
19 24 0.55
20 20 0.45
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTACATT
Found at i:16784657 original size:20 final size:21
Alignment explanation
Indices: 16784632--16784675 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16784622 GTATTATTAA
16784632 GGGCAAAATAC-CAAAAAAAG
1 GGGCAAAATACACAAAAAAAG
* *
16784652 GGGCAAATTACACATAAAAAG
1 GGGCAAAATACACAAAAAAAG
16784673 GGG
1 GGG
16784676 GTATTTATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.52, C:0.14, G:0.25, T:0.09
Consensus pattern (21 bp):
GGGCAAAATACACAAAAAAAG
Found at i:16793513 original size:14 final size:14
Alignment explanation
Indices: 16793494--16793526 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
16793484 TATGACACTT
16793494 GTGTGCCATTACTG
1 GTGTGCCATTACTG
16793508 GTGTGCCATTACTG
1 GTGTGCCATTACTG
16793522 GTGTG
1 GTGTG
16793527 TTGGTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.18, G:0.33, T:0.36
Consensus pattern (14 bp):
GTGTGCCATTACTG
Found at i:16796138 original size:50 final size:50
Alignment explanation
Indices: 16796048--16796156 Score: 146
Period size: 50 Copynumber: 2.2 Consensus size: 50
16796038 AACTCCTTTC
* ** * *
16796048 TTCCTATAACTTAACCAGCCTTTCCTCCGCAAATCTATTTGATTCATTTA
1 TTCCCATAACTTAACCAAACTTTCCTCCGCAAAGCCATTTGATTCATTTA
* *
16796098 TTCCCATAGCTTAACCAAACTTTCCTCCGCAAAGCCATTTGATTCATTTC
1 TTCCCATAACTTAACCAAACTTTCCTCCGCAAAGCCATTTGATTCATTTA
16796148 TATCCCATA
1 T-TCCCATA
16796157 TAATCCATCA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 44 0.86
51 7 0.14
ACGTcount: A:0.27, C:0.30, G:0.06, T:0.37
Consensus pattern (50 bp):
TTCCCATAACTTAACCAAACTTTCCTCCGCAAAGCCATTTGATTCATTTA
Found at i:16806034 original size:4 final size:4
Alignment explanation
Indices: 16806025--16806058 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
16806015 GTATGTTGAA
*
16806025 ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
16806059 TTGAATTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:16810388 original size:96 final size:96
Alignment explanation
Indices: 16810244--16810665 Score: 604
Period size: 96 Copynumber: 4.4 Consensus size: 96
16810234 AGATTTAAGG
* * * * * *
16810244 TTTTAAGG-AAAAATTAAATAAATAAGAGTTTAGGGTTTCTTAATTAAATTAATTATAAGTTTT-
1 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTA
16810307 AAAAAATTAGATTAGGGTTTAGTGTTTATGGT
66 AAAAAATTAGATTAGGGTTTAGTGTTTA-GGT
* * *
16810339 TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTA
*
16810404 AAAAAA-TGGATTAGGGTTTAGTGTTTAAGGT
66 AAAAAATTAGATTAGGGTTTAGTGTTT-AGGT
*
16810435 TTTTAA-GAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
1 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTT-
* *
16810499 AAAAAAATTAGATTAAGCTTTAGTGTTTAGGTT
65 AAAAAAATTAGATTAGGGTTTAGTGTTTAGG-T
*
16810532 TTTTAAGGAAAAAATCAAATAAATTAGGGTTT-GGAGTTACTTAAGTAAATTAACTATAAATTTT
1 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGG-GTTACTTAAGTAAATTAATTATAAATTTT
* * *
16810596 AAAAAAATTAGATTAGGATTTAGGGTTTAGGG
65 AAAAAAATTAGATTAGGGTTTAGTGTTTAGGT
16810628 TTTTAAGG-AAAAATCAAATAAATTAGGGTTTAGGGTTA
1 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTA
16810666 ATTTAATTAT
Statistics
Matches: 300, Mismatches: 18, Indels: 18
0.89 0.05 0.05
Matches are distributed among these distances:
95 91 0.30
96 96 0.32
97 61 0.20
98 52 0.17
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (96 bp):
TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTA
AAAAAATTAGATTAGGGTTTAGTGTTTAGGT
Found at i:16810573 original size:193 final size:191
Alignment explanation
Indices: 16810237--16810665 Score: 630
Period size: 193 Copynumber: 2.2 Consensus size: 191
16810227 GGTTTTTAGA
* * * * *
16810237 TTTAAGGTTTTAAGGAAAAATTAAATAAATAAGAGTTTAGGGTTTCTTAATTAAATTAATTATAA
1 TTTAAGGTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAA
* * * *
16810302 GTTTTAAAAAATTAGATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAAATTAAATAAATTAGG
66 ATTTTAAAAAATTAGATTAAGCTTTAGTGTTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGG
* * * * * *
16810367 GTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAA-TGGATTAGGGTTTAGTG
131 GTTTAGGGTTACTTAAGTAAATTAACTATAAATTTTAAAAAAATTAGATTAGGATTTAGGG
* *
16810427 TTTAAGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATA
1 TTTAAGG-TTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATA
16810492 AATTTTAAAAAAAATTAGATTAAGCTTTAGTGTTTA-GGTTTTTTAAGGAAAAAATCAAATAAAT
65 AATTTT--AAAAAATTAGATTAAGCTTTAGTGTTTATGG-TTTTTAAGGAAAAAATCAAATAAAT
16810556 TAGGGTTT-GGAGTTACTTAAGTAAATTAACTATAAATTTTAAAAAAATTAGATTAGGATTTAGG
127 TAGGGTTTAGG-GTTACTTAAGTAAATTAACTATAAATTTTAAAAAAATTAGATTAGGATTTAGG
16810620 G
191 G
*
16810621 TTTAGGGTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTA
1 TTTAAGGTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTA
16810666 ATTTAATTAT
Statistics
Matches: 214, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
190 7 0.03
191 55 0.26
192 4 0.02
193 128 0.60
194 20 0.09
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (191 bp):
TTTAAGGTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAA
ATTTTAAAAAATTAGATTAAGCTTTAGTGTTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGG
GTTTAGGGTTACTTAAGTAAATTAACTATAAATTTTAAAAAAATTAGATTAGGATTTAGGG
Found at i:16810885 original size:14 final size:15
Alignment explanation
Indices: 16810847--16810893 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
16810837 TTTGCTACAG
*
16810847 TAGTTTCTGAAAAAA
1 TAGTTTCTGAGAAAA
*
16810862 TAATTT-TGAGAAAA
1 TAGTTTCTGAGAAAA
*
16810876 T-GTTTCTGAGCAAA
1 TAGTTTCTGAGAAAA
16810890 TAGT
1 TAGT
16810894 GTCCAAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 3 0.12
14 16 0.62
15 7 0.27
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (15 bp):
TAGTTTCTGAGAAAA
Found at i:16810925 original size:126 final size:126
Alignment explanation
Indices: 16810697--16810978 Score: 458
Period size: 126 Copynumber: 2.2 Consensus size: 126
16810687 AAAAATCTTC
* * *
16810697 CACGTGGACGCTCTTTTGCTACTGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTTTGAGCA
1 CACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGTTTCTGAGCA
* *
16810762 AATAGTGTCAAACACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCT
66 AATAGTGTCAAACACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCT
* * *
16810823 CACGTAGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAAATGTTTCTGAGCA
1 CACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGTTTCTGAGCA
*
16810888 AATAGTGTCCAAA-ATGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCT
66 AATAGTGT-CAAACACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCT
*
16810949 CATGTGGACGCTCTTTTGCTACAGTAGTTC
1 CACGTGGACGCTCTTTTGCTACAGTAGTTC
16810979 TTATTTGGCC
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
126 139 0.97
127 4 0.03
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (126 bp):
CACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGTTTCTGAGCA
AATAGTGTCAAACACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCT
Found at i:16814089 original size:19 final size:19
Alignment explanation
Indices: 16814067--16814104 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16814057 TAAATACTAA
*
16814067 AGAAACTGAAAAATAAAAG
1 AGAAACAGAAAAATAAAAG
*
16814086 AGAAACAGAGAAATAAAAG
1 AGAAACAGAAAAATAAAAG
16814105 TTGAAATCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.18, T:0.08
Consensus pattern (19 bp):
AGAAACAGAAAAATAAAAG
Found at i:16815239 original size:44 final size:44
Alignment explanation
Indices: 16815171--16815806 Score: 461
Period size: 44 Copynumber: 14.8 Consensus size: 44
16815161 ACTGAATGCG
* *
16815171 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * * * * *
16815215 ATCCGCTCCACTGTAACTTTAGAGAGATAGGAT-TGAT-TTCTTTC
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG-TGGT-TTTA
* * * * * * *
16815259 GTTTGCTCCACTGTAACTTCAGGGAGATAAGA-C--TGGATGTG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * *
16815300 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGGGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * * * *
16815344 ATCCGCTCCTCTGCAACTTCAGAGAGATAGGAT-TGAT-TTCTTTC
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG-TGGT-TTTA
* * * * * * *
16815388 GTCTGCTTCATTGCAACTTCAGGGAGATAAGA-C--TGGATGTG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
*
16815429 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * * * * *
16815473 ATCCGCTCCACTACAACTTCAGGGAGATAGGAT-TGAT-TTCTTTT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG-TGGT-TTTA
* * * * *
16815517 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATGTG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* *
16815558 ACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * * *
16815602 ATCCGCTCCACTGCAACTTTAGAGAGATAAGAT-TGAT-TTCTTTC
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTG-TGGT-TTTA
* * * *
16815646 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGTAG---TG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* *
16815686 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * * * * *
16815730 ATCCGCTCCACTGCAACTTCAGGGAGATATGAT-TATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGT-GGTTTTA
* * * *
16815774 ATTTGCTCCTCTGCAACCTCAGGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
16815807 TTGTCATCTT
Statistics
Matches: 454, Mismatches: 108, Indels: 60
0.73 0.17 0.10
Matches are distributed among these distances:
40 29 0.06
41 95 0.21
42 3 0.01
43 15 0.03
44 312 0.69
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
Found at i:16815267 original size:129 final size:129
Alignment explanation
Indices: 16815053--16815763 Score: 1093
Period size: 129 Copynumber: 5.5 Consensus size: 129
16815043 TATGCTATAT
* * ** ** *
16815053 TGCAACTCCAGATAGATAAGATCCATCATTTTAATCCGCTTCACTGCAACTTCAG-GAAGATAGG
1 TGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAG-AGATAGG
* * * ** * * *
16815117 ATTAATTTTTTTCGTCTGCTCCACTGCAAATTTTGGGAGATAAGACTGAATGCGATCTACTCTAC
65 ATTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTAC
* *
16815182 TGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTTAGAGAGATAGGA
1 TGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGA
* *
16815247 TTGATTTCTTTCGTTTGCTCCACTGTAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTAC
66 TTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTAC
* * *
16815311 TGCAACTTTAGAGAGATAAGATCTGGGGTTTTAATCCGCTCCTCTGCAACTTCAGAGAGATAGGA
1 TGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGA
* *
16815376 TTGATTTCTTTCGTCTGCTTCATTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTAC
66 TTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTAC
* *
16815440 TGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGA
1 TGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGA
* *
16815505 TTGATTTCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGACCTGCTCTAC
66 TTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTAC
* *
16815569 TGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTTAGAGAGATAAGA
1 TGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGA
*
16815634 TTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGTA-GTGATCTGCTCTAC
66 TTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTAC
* * *
16815697 TGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATATGA
1 TGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGA
16815762 TT
66 TT
16815764 ATCGGCTTCA
Statistics
Matches: 533, Mismatches: 48, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
128 76 0.14
129 456 0.86
130 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (129 bp):
TGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGA
TTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGATCTGCTCTAC
Found at i:16816035 original size:44 final size:43
Alignment explanation
Indices: 16815131--16816118 Score: 362
Period size: 44 Copynumber: 22.9 Consensus size: 43
16815121 ATTTTTTTCG
* ** * * * *
16815131 TCTGCTCCACTGCAAATTTTGGGAGATAAGA-CTG-AATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTACTTCAA
* * * * ** *
16815172 TCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-ACTTCAA
* * * * * * *
16815216 TCCGCTCCACTGTAACTTTAGAGAGATAGGA-TTGATTTCTTTC-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG--TAC-TTCAA
* * * * *
16815260 TTTGCTCCACTGTAACTTCAGGGAGATAAGA-CTGGA-TGT-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTACT-TCAA
* * * * *** *
16815301 TCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGGGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TTGTACTTCAA
* * * * * *
16815345 TCCGCTCCTCTGCAACTTCAGAGAGATAGGA-TTGATTTCTTTC-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG--TAC-TTCAA
* * * * *
16815389 TCTGCTTCATTGCAACTTCAGGGAGATAAGA-CTGGA-TGT-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTACT-TCAA
* * * ** *
16815430 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-ACTTCAA
* * * * ***
16815474 TCCGCTCCACTACAACTTCAGGGAGATAGGA-TTGATTTCTTTTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG--TACTTCAA
* * *
16815518 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGA-TGT-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTACT-TCAA
* * * * ** *
16815559 CCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-ACTTCAA
* * * * *
16815603 TCCGCTCCACTGCAACTTTAGAGAGATAAGA-TTGATTTCTTTC-G
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG--TAC-TTCAA
* * *
16815647 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGTA-GT-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTACTTCAA
* * * * ** *
16815687 TCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-ACTTCAA
* * *
16815731 TCCGCTCCACTGCAACTTCAGGGAGATATGATTATCG-GCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-T-GTACTTCAA
* * * *
16815775 TTTGCTCCTCTGCAACCTCAGGGAGATAAGATTTGTCATCTTCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-A-CTTCAA
* * * * *
16815820 TCTGC-CGCACTGTAACTTCAGGGGGTTAAGACTTGATTAC-TCAG
1 TCTGCTC-CACTGCAACTTCAGGGAGATAAGATTTG--TACTTCAA
* ** *
16815864 TCTGCTCCACTACAACTTCAGGGAGATAAGACCTG-A-TGT-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTACT-TCAA
** * * *
16815905 TCCACTCTACTGCAACTTCAGAGAGATAAGATTTACTACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-GTACTTCAA
* * * * * * *
16815949 TCCGCTCCTCTGTAACTTCAGGGAAATAGGATTATCTGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGTACTTCAA
* *
16815993 TCTGCTCCACTGTAACATCAGGGAGATAAGATTTGTACCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA-CTTCAA
* * * *
16816037 TTTG-TCCCACTGCATCTTCAAGGG-GATAAGACTTTGGTTCTTCGA
1 TCTGCT-CCACTGCAACTTC-AGGGAGATAAGA-TTT-GTACTTCAA
** * *
16816082 TCCACTCCACTGTAA-TATCAGGGAGATAGGATTTGTA
1 TCTGCTCCACTGCAACT-TCAGGGAGATAAGATTTGTA
16816119 ACTTGAAACT
Statistics
Matches: 705, Mismatches: 182, Indels: 118
0.70 0.18 0.12
Matches are distributed among these distances:
40 31 0.04
41 141 0.20
42 15 0.02
43 20 0.03
44 420 0.60
45 72 0.10
46 5 0.01
47 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTACTTCAA
Found at i:16816092 original size:218 final size:217
Alignment explanation
Indices: 16815651--16816109 Score: 538
Period size: 218 Copynumber: 2.1 Consensus size: 217
16815641 CTTTCGTCTG
** *
16815651 CTCCACTGCAACTTCAGGGAGATAAGACTGTAGTGATCTGCTCTACTGTAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGTAGTGATCCACTCTACTGCAACTTCAGAGAGATAA
** * * * *
16815716 GATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATATGATTATCGGCTTCAATTTGCT
66 GATCTGTACTTTCAATCCGCTCCACTGCAACTTCAGGGAAATAGGATTATCGGCTTCAATCTGCT
* * * * * * *
16815781 CCTCTGCAACCTCAGGGAGATAAGATTTGTCATCTTCGATCTGCCGCACTGTAACTTCAGGGGGT
131 CCACTGCAACATCAGGGAGATAAGATTTGTCACCTTCAATCTGCCGCACTGCAACTTCAAGGGGA
**
16815846 TAAGACTTGATTACTCAGTCTG
196 TAAGACTTGATTACTCAGTCCA
*
16815868 CTCCACTACAACTTCAGGGAGATAAGACCTG-ATGTGATCCACTCTACTGCAACTTCAGAGAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTGTA-GTGATCCACTCTACTGCAACTTCAGAGAGAT
* * *
16815932 AAGAT-T-TACTACTTCAATCCGCTCCTCTGTAACTTCAGGGAAATAGGATTATCTGCTTCAATC
64 AAGATCTGTACT--TTCAATCCGCTCCACTGCAACTTCAGGGAAATAGGATTATCGGCTTCAATC
* * *
16815995 TGCTCCACTGTAACATCAGGGAGATAAGATTTGT-ACCTTCAATTTGTCC-CACTGCATCTTCAA
127 TGCTCCACTGCAACATCAGGGAGATAAGATTTGTCACCTTCAATCTG-CCGCACTGCAACTTCAA
*
16816058 GGGGATAAGACTTTGGTT-CTTC-GATCCA
191 GGGGATAAGAC-TTGATTAC-TCAG-TCCA
*
16816086 CTCCACTGTAA-TATCAGGGAGATA
1 CTCCACTGCAACT-TCAGGGAGATA
16816110 GGATTTGTAA
Statistics
Matches: 205, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
216 2 0.01
217 61 0.30
218 142 0.69
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTGTAGTGATCCACTCTACTGCAACTTCAGAGAGATAA
GATCTGTACTTTCAATCCGCTCCACTGCAACTTCAGGGAAATAGGATTATCGGCTTCAATCTGCT
CCACTGCAACATCAGGGAGATAAGATTTGTCACCTTCAATCTGCCGCACTGCAACTTCAAGGGGA
TAAGACTTGATTACTCAGTCCA
Found at i:16816366 original size:125 final size:125
Alignment explanation
Indices: 16816155--16816388 Score: 362
Period size: 125 Copynumber: 1.9 Consensus size: 125
16816145 CGCCATTGTG
* * *
16816155 GCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTTGGCTTTAATCTGTTCC
1 GCTTTAATCCTTTTAACTGCAATGTAGGAGAAACAAGATTCACCAATATGGCTTTAATCTGTTCC
* *
16816220 ACTGCATCGCTTGAGGAGTAAGATTCGCTGTTGTAGCTTTAATCAAGATTCACCGATATA
66 ACTGCACCGCTTGAGGAGTAAGATTCGCTGTTGTAACTTTAATCAAGATTCACCGATATA
* * * * *
16816280 GCTTTAATCCTTTTAACTGTAATGTAGGGGAAGCAAGATTCACCGATATGGTTTTAATCTGTTCC
1 GCTTTAATCCTTTTAACTGCAATGTAGGAGAAACAAGATTCACCAATATGGCTTTAATCTGTTCC
16816345 ACTGCACCGCTTGA-GAGGTAAGATTCGCTGTTGTAACTTTAATC
66 ACTGCACCGCTTGAGGA-GTAAGATTCGCTGTTGTAACTTTAATC
16816389 TTTTTAATCG
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
124 2 0.02
125 96 0.98
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (125 bp):
GCTTTAATCCTTTTAACTGCAATGTAGGAGAAACAAGATTCACCAATATGGCTTTAATCTGTTCC
ACTGCACCGCTTGAGGAGTAAGATTCGCTGTTGTAACTTTAATCAAGATTCACCGATATA
Found at i:16816418 original size:50 final size:50
Alignment explanation
Indices: 16816263--16816649 Score: 223
Period size: 50 Copynumber: 7.8 Consensus size: 50
16816253 TAGCTTTAAT
* * * * * *
16816263 CAAGATTCACCGATATAGCTTTAATCCTTTTAACTGTAATGT-AGGGGAAG
1 CAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA-AGGAGG
* * * * * ** ** **
16816313 CAAGATTCACCGATATGGTTTTAATCTGTTCCACTGCACCG-CTTGAGAGG
1 CAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAAG-GAGG
* * * *
16816363 TAAGATTCGCTGTTGTAACTTTAATCTTTTTAA-TCGCAATGTCAAGGAGG
1 CAAGATTCACCGTTGTAGCTTTAATCTTTTTAACT-GCAATGTCAAGGAGG
* * ** * *
16816413 CAAGATTCACCGTTGTGGCTTTAATCTTTTTTACTGCACCACCT-GA-GAGA
1 CAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCA--ATGTCAAGGAGG
* * * *
16816463 TAAGATTCACTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCAAAGAGG
1 CAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAAGGAGG
* * ** * * **
16816513 CAAGATTCACCGTTGTGGCTTTAATCTATTCCACTACACTG-CCTGAGAGG
1 CAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAAG-GAGG
* ** * * ** *
16816563 TAAGATTTGCTGATGTAGCTTTAATCTTTTTAACCACAATGTC-AGAGAAG
1 CAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAAG-GAGG
*
16816613 CAAGATTCACCGTTGTGGCTTTAATCTTTTT-ACTGCA
1 CAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCA
16816650 CCGCCTGGGA
Statistics
Matches: 247, Mismatches: 79, Indels: 23
0.71 0.23 0.07
Matches are distributed among these distances:
48 2 0.01
49 8 0.03
50 230 0.93
51 5 0.02
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (50 bp):
CAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAAGGAGG
Found at i:16816437 original size:100 final size:98
Alignment explanation
Indices: 16816264--16816665 Score: 448
Period size: 100 Copynumber: 4.0 Consensus size: 98
16816254 AGCTTTAATC
* * * * * * * * *
16816264 AAGATTCACCGATATAGCTTTAATCCTTTTAACTGTAATGT-AGGGGAAGCAAGATTCACCGATA
1 AAGATTCGCTGATGTAGCTTTAATCTTTTTAAC-GCAATGTCA-AGGAGGCAAGATTCACCGTTG
* *
16816328 TGGTTTTAATCTGTTCCACTGCACCGCTTGAGAGGT
64 TGGCTTTAATCT-TTCCACTGCACCGCCTGAGAGGT
* *
16816364 AAGATTCGCTGTTGTAACTTTAATCTTTTTAATCGCAATGTCAAGGAGGCAAGATTCACCGTTGT
1 AAGATTCGCTGATGTAGCTTTAATCTTTTTAA-CGCAATGTCAAGGAGGCAAGATTCACCGTTGT
** * *
16816429 GGCTTTAATCTTTTTTACTGCACCACCTGAGAGAT
65 GGCTTTAATC-TTTCCACTGCACCGCCTGAGAGGT
* * *
16816464 AAGATTCACTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCAAAGAGGCAAGATTCACCGTTGT
1 AAGATTCGCTGATGTAGCTTTAATCTTTTTAAC-GCAATGTCAAGGAGGCAAGATTCACCGTTGT
* *
16816529 GGCTTTAATCTATTCCACTACACTGCCTGAGAGGT
65 GGCTTTAATCT-TTCCACTGCACCGCCTGAGAGGT
* * *
16816564 AAGATTTGCTGATGTAGCTTTAATCTTTTTAACCACAATGTC-AGAGAAGCAAGATTCACCGTTG
1 AAGATTCGCTGATGTAGCTTTAATCTTTTTAA-CGCAATGTCAAG-GAGGCAAGATTCACCGTTG
** * *
16816628 TGGCTTTAATCTTTTTACTGCACCGCCTGGGAAGT
64 TGGCTTTAATCTTTCCACTGCACCGCCTGAGAGGT
16816663 AAG
1 AAG
16816666 GCTTTGTTTT
Statistics
Matches: 256, Mismatches: 39, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
99 23 0.09
100 229 0.89
101 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (98 bp):
AAGATTCGCTGATGTAGCTTTAATCTTTTTAACGCAATGTCAAGGAGGCAAGATTCACCGTTGTG
GCTTTAATCTTTCCACTGCACCGCCTGAGAGGT
Found at i:16816618 original size:200 final size:199
Alignment explanation
Indices: 16816264--16816656 Score: 547
Period size: 200 Copynumber: 2.0 Consensus size: 199
16816254 AGCTTTAATC
* **
16816264 AAGATTCACCGATATAGCTTTAATCCTTTTAACTGTAATGTAGGGGAAGCAAGATTCACCGATAT
1 AAGATTCACCGATATAGCTTTAATCCTTTTAACTGCAATGTAGAAGAAGCAAGATTCACCGATAT
* * * * *
16816329 GGTTTTAATCTGTTCCACTGCACCGCTTGAGAGGTAAGATTCGCTGTTGTAACTTTAATCTTTTT
66 GGCTTTAATCTATTCCACTACACCGCCTGAGAGGTAAGATTCGCTGATGTAACTTTAATCTTTTT
* * *
16816394 AATCGCAATGTCAAGGAGGCAAGATTCACCGTTGTGGCTTTAATCTTTTTTACTGCACCACCTGA
131 AACCACAATGTCAAGGAAGCAAGATTCACCGTTGTGGCTTTAATC-TTTTTACTGCACCACCTGA
16816459 GAGAT
195 GAGAT
* * * * * * *
16816464 AAGATTCACTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCA-AAGAGGCAAGATTCACCGTTG
1 AAGATTCACCGATATAGCTTTAATCCTTTTAACTGCAATGT-AGAAGAAGCAAGATTCACCGATA
* * *
16816528 TGGCTTTAATCTATTCCACTACACTGCCTGAGAGGTAAGATTTGCTGATGTAGCTTTAATCTTTT
65 TGGCTTTAATCTATTCCACTACACCGCCTGAGAGGTAAGATTCGCTGATGTAACTTTAATCTTTT
*
16816593 TAACCACAATGTC-AGAGAAGCAAGATTCACCGTTGTGGCTTTAATCTTTTTACTGCACCGCCTG
130 TAACCACAATGTCAAG-GAAGCAAGATTCACCGTTGTGGCTTTAATCTTTTTACTGCACCACCTG
16816657 GGAAGTAAGG
Statistics
Matches: 169, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
199 19 0.11
200 149 0.88
201 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (199 bp):
AAGATTCACCGATATAGCTTTAATCCTTTTAACTGCAATGTAGAAGAAGCAAGATTCACCGATAT
GGCTTTAATCTATTCCACTACACCGCCTGAGAGGTAAGATTCGCTGATGTAACTTTAATCTTTTT
AACCACAATGTCAAGGAAGCAAGATTCACCGTTGTGGCTTTAATCTTTTTACTGCACCACCTGAG
AGAT
Found at i:16818947 original size:20 final size:20
Alignment explanation
Indices: 16818918--16818982 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
16818908 CTCATTTTTA
*
16818918 TTTTGATCTTGATTTTGATT
1 TTTTTATCTTGATTTTGATT
* *
16818938 TTTTCT-TCTT-TTTTTTATT
1 TTTT-TATCTTGATTTTGATT
*
16818957 TTTTTATTTTGATTTTTGATT
1 TTTTTATCTTGA-TTTTGATT
16818978 TTTTT
1 TTTTT
16818983 TCATTTTCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
18 1 0.03
19 14 0.40
20 8 0.23
21 12 0.34
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.77
Consensus pattern (20 bp):
TTTTTATCTTGATTTTGATT
Found at i:16830631 original size:90 final size:90
Alignment explanation
Indices: 16830510--16830692 Score: 357
Period size: 90 Copynumber: 2.0 Consensus size: 90
16830500 AATATATGGA
*
16830510 CTTGTAACAAACTTTAACCCCCTTTTTTTAATTAATAGATATGGAAGTACTTAATAGTCAATATG
1 CTTGTAACAAACTTTAACCCACTTTTTTTAATTAATAGATATGGAAGTACTTAATAGTCAATATG
16830575 TGATAATATGTGAGAAGTTAACTTT
66 TGATAATATGTGAGAAGTTAACTTT
16830600 CTTGTAACAAACTTTAACCCACTTTTTTTAATTAATAGATATGGAAGTACTTAATAGTCAATATG
1 CTTGTAACAAACTTTAACCCACTTTTTTTAATTAATAGATATGGAAGTACTTAATAGTCAATATG
16830665 TGATAATATGTGAGAAGTTAACTTT
66 TGATAATATGTGAGAAGTTAACTTT
16830690 CTT
1 CTT
16830693 TCACAAAAAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 92 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (90 bp):
CTTGTAACAAACTTTAACCCACTTTTTTTAATTAATAGATATGGAAGTACTTAATAGTCAATATG
TGATAATATGTGAGAAGTTAACTTT
Found at i:16832114 original size:8 final size:8
Alignment explanation
Indices: 16832055--16832082 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
16832045 AATTACCTAA
16832055 AAAATTAT
1 AAAATTAT
16832063 AAAATTAT
1 AAAATTAT
16832071 AAAATTAT
1 AAAATTAT
16832079 AAAA
1 AAAA
16832083 AATAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAATTAT
Found at i:16835255 original size:15 final size:15
Alignment explanation
Indices: 16835220--16835271 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
16835210 TTAAGAATTT
*
16835220 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16835234 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16835248 TATTTAATAATAAT-
1 TATTTAATTATAATA
16835262 TATGTTAATT
1 TAT-TTAATT
16835272 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16835371 original size:16 final size:16
Alignment explanation
Indices: 16835350--16835391 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
16835340 TTATTAAATT
*
16835350 ATATATTTTAATTATA
1 ATATATTTTAATAATA
16835366 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
16835381 AT-TATGTTTAA
1 ATATAT-TTTAA
16835392 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:16835375 original size:121 final size:120
Alignment explanation
Indices: 16835162--16835388 Score: 436
Period size: 121 Copynumber: 1.9 Consensus size: 120
16835152 NNNNNNNNNN
*
16835162 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAA
16835227 TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAT
66 TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAT
16835282 AGTATCATATATTATGATTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 AGTATCATATATTATGA-TTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
16835347 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
65 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
16835389 TAAATATGAT
Statistics
Matches: 105, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
120 17 0.16
121 88 0.84
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (120 bp):
AGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAA
TTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAT
Found at i:16835376 original size:15 final size:15
Alignment explanation
Indices: 16835341--16835382 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16835331 TTAAGAATTT
*
16835341 TATTAAATTAT-ATA
1 TATTTAATTATAATA
16835355 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
16835369 TATTTAATAATAAT
1 TATTTAATTATAAT
16835383 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:16835622 original size:45 final size:44
Alignment explanation
Indices: 16835532--16835626 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 44
16835522 TTACACCTCT
* *
16835532 ATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAAGAATACTATTACACCTCTAATCC
* * *
16835576 ATTACATTCAACCAAACA-ATTGATTTGCTATTACACCTCTAATCC
1 ATTACATTCAACCAAACACA-AGA-ATACTATTACACCTCTAATCC
16835621 ATTACA
1 ATTACA
16835627 CCTCTATTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 20 0.45
45 23 0.52
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAAGAATACTATTACACCTCTAATCC
Found at i:16835626 original size:16 final size:16
Alignment explanation
Indices: 16835605--16835653 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
16835595 TTGATTTGCT
*
16835605 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
16835621 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
16835637 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
16835653 A
1 A
16835654 ATAGAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.27, C:0.37, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:16844781 original size:4 final size:4
Alignment explanation
Indices: 16844772--16844798 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
16844762 AATCAATGTA
16844772 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
16844799 CCCTAACGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:16848612 original size:28 final size:28
Alignment explanation
Indices: 16848525--16848613 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 28
16848515 TGTCCTAGTA
* * **
16848525 GACTTA-CTCGTGTTTACTATCCTGACG
1 GACTTACCTAGTGTTTACTGTCCCAACG
* **
16848552 GACTTACCTTGTGTTTACTGTCCCAGTG
1 GACTTACCTAGTGTTTACTGTCCCAACG
* *
16848580 AACTTACCTAGTGTTTATTGTCCCAACG
1 GACTTACCTAGTGTTTACTGTCCCAACG
16848608 GACTTA
1 GACTTA
16848614 GTCTCTATGG
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 6 0.12
28 43 0.88
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (28 bp):
GACTTACCTAGTGTTTACTGTCCCAACG
Found at i:16852486 original size:10 final size:10
Alignment explanation
Indices: 16852471--16852505 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
16852461 ATTTGGGAAT
16852471 TGGTATGAAA
1 TGGTATGAAA
*
16852481 TGGTATGGAAT
1 TGGTAT-GAAA
16852492 TGGTATGAAA
1 TGGTATGAAA
16852502 TGGT
1 TGGT
16852506 TGGTATTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (10 bp):
TGGTATGAAA
Found at i:16852492 original size:21 final size:21
Alignment explanation
Indices: 16852466--16852527 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
16852456 TTGGTATTTG
16852466 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTATGAAATGGTAT
16852487 GGAATTGGTATGAAATGGT-T
1 GGAATTGGTATGAAATGGTAT
* * *
16852507 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTATGAAATGGTA
16852528 ATGGTTCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 3 0.08
21 33 0.92
ACGTcount: A:0.29, C:0.02, G:0.34, T:0.35
Consensus pattern (21 bp):
GGAATTGGTATGAAATGGTAT
Found at i:16852497 original size:11 final size:11
Alignment explanation
Indices: 16852466--16852527 Score: 51
Period size: 10 Copynumber: 5.9 Consensus size: 11
16852456 TTGGTATTTG
16852466 GGAATTGGTAT
1 GGAATTGGTAT
*
16852477 -GAAATGGTAT
1 GGAATTGGTAT
16852487 GGAATTGGTAT
1 GGAATTGGTAT
*
16852498 -GAAATGGT-T
1 GGAATTGGTAT
*
16852507 GGTATTTGGTA-
1 GG-AATTGGTAT
*
16852518 CGAATTGGTA
1 GGAATTGGTA
16852528 ATGGTTCAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
9 1 0.03
10 24 0.60
11 15 0.38
ACGTcount: A:0.29, C:0.02, G:0.34, T:0.35
Consensus pattern (11 bp):
GGAATTGGTAT
Found at i:16855252 original size:67 final size:69
Alignment explanation
Indices: 16855169--16855310 Score: 180
Period size: 67 Copynumber: 2.1 Consensus size: 69
16855159 GTTTGAATAT
* * * *
16855169 GAATTATTCTTTATTGATGGCTGAGATCCAACATATATTGT-TT-TCGATAGCTTGAGTGAGCAA
1 GAATTATTCCTTATTGATGACAGAGATCCAACATATATTGTATTCTCGACAGCTTGAGTGAGCAA
*
16855232 CATG
66 CATC
* *
16855236 GAATTATTCCTTATTGATTACAGAGATCCAACATATGTTGTAGATTCTCGACAGCTTGAGTGAGC
1 GAATTATTCCTTATTGATGACAGAGATCCAACATATATTGT--ATTCTCGACAGCTTGAGTGAGC
*
16855301 AGCATC
64 AACATC
16855307 GAAT
1 GAAT
16855311 AAAGCTTGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 36 0.57
70 2 0.03
71 25 0.40
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (69 bp):
GAATTATTCCTTATTGATGACAGAGATCCAACATATATTGTATTCTCGACAGCTTGAGTGAGCAA
CATC
Found at i:16855603 original size:12 final size:12
Alignment explanation
Indices: 16855586--16855614 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16855576 GAATGAAAAT
16855586 AAATGAGTTATG
1 AAATGAGTTATG
16855598 AAATGAGTTATG
1 AAATGAGTTATG
16855610 AAATG
1 AAATG
16855615 GCTTTTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.31
Consensus pattern (12 bp):
AAATGAGTTATG
Found at i:16862469 original size:42 final size:41
Alignment explanation
Indices: 16862374--16862556 Score: 251
Period size: 42 Copynumber: 4.4 Consensus size: 41
16862364 TGATTTAGTA
* *
16862374 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTTT
1 CACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGAAATGTTT
* *
16862415 CACCGGCATTAAGCCTGCTAGATGTAAAGTCTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA-AATGTTT
*
16862457 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAA-TGTTT
*
16862499 CACCGGTATTAAGCCTGCTAGACGTAAAGTCTGAAATGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATGTTT
* * *
16862540 CACTGGCAATAAACCTG
1 CACCGGCATTAAGCCTG
16862557 ATAGGCACTG
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 2 0.02
41 46 0.37
42 78 0.62
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATGTTT
Found at i:16862488 original size:83 final size:83
Alignment explanation
Indices: 16862374--16862556 Score: 253
Period size: 83 Copynumber: 2.2 Consensus size: 83
16862364 TGATTTAGTA
* *
16862374 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAA-TGTTTCACCGGCATTAAGCCTGCTAGA
1 CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGA
* *
16862437 TGTAAAGTCTGATATTGTTT
65 CGTAAAGTCTGA-AATGTTT
* *
16862457 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGTATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGAC
16862522 GTAAAGTCTGAAATGTTT
66 GTAAAGTCTGAAATGTTT
* * *
16862540 CACTGGCAATAAACCTG
1 CACCGGCATTAAGCCTG
16862557 ATAGGCACTG
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
82 2 0.02
83 51 0.57
84 36 0.40
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (83 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGAC
GTAAAGTCTGAAATGTTT
Found at i:16863083 original size:2 final size:2
Alignment explanation
Indices: 16863076--16863100 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16863066 AATCTTAAGT
16863076 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
16863101 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:16868583 original size:43 final size:43
Alignment explanation
Indices: 16868443--16868591 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
16868433 ATACAATGTC
* * * * * *
16868443 ATATCCCATATATGGTCTTACATGTTATCACATATCGATGCCT
1 ATATCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCA
* * * * *
16868486 CTGTCCCAGATAGGGTCTTACACG-AA--TCATATACGGTGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCTCATAT-CGATGCCA
*
16868527 ATATCCCAGACATGGTCTTACACGTAATCTCATATCGATTCCA
1 ATATCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCA
* *
16868570 ATTTCCCATACATGGTCTTACA
1 ATATCCCAGACATGGTCTTACA
16868592 TGAAATCAGA
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
40 5 0.06
41 26 0.31
42 3 0.04
43 45 0.53
44 6 0.07
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (43 bp):
ATATCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCA
Found at i:16880263 original size:60 final size:60
Alignment explanation
Indices: 16880170--16880289 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
16880160 GGTAAATACC
16880170 GTTCCCATGAACTACTGAACTCGAGGATGCAACATCTCAACATATCCTCAAGTATCTGAA
1 GTTCCCATGAACTACTGAACTCGAGGATGCAACATCTCAACATATCCTCAAGTATCTGAA
16880230 GTTCCCATGAACTACTGAACTCGAGGATGCAACATCTCAACATATCCTCAAGTATCTGAA
1 GTTCCCATGAACTACTGAACTCGAGGATGCAACATCTCAACATATCCTCAAGTATCTGAA
16880290 TTATCCGCTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (60 bp):
GTTCCCATGAACTACTGAACTCGAGGATGCAACATCTCAACATATCCTCAAGTATCTGAA
Found at i:16888842 original size:45 final size:45
Alignment explanation
Indices: 16888761--16888918 Score: 126
Period size: 45 Copynumber: 3.6 Consensus size: 45
16888751 AACCGTTACA
* * * *
16888761 CGGTGG-ATCAACACATAAC-ACCACCCTTATAATCAATTACATT-
1 CGGTGGAATCAGCACATAGCAACCACCATTATAATCAATGA-ATTC
** *
16888804 CGGTGGAATCAGCACATAGCAACCACCATTATTTTCAATGATTTC
1 CGGTGGAATCAGCACATAGCAACCACCATTATAATCAATGAATTC
* ** * * *
16888849 CGGTGGAGTTGGCACATAGCAACCACCTTTATAATCAAT-AGTACC
1 CGGTGGAATCAGCACATAGCAACCACCATTATAATCAATGAAT-TC
* **
16888894 CGGTGGAGTTGGCACATAGCAACCA
1 CGGTGGAATCAGCACATAGCAACCA
16888919 TGATAAAGGG
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
43 6 0.06
44 15 0.16
45 75 0.78
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCATTATAATCAATGAATTC
Found at i:16906957 original size:40 final size:40
Alignment explanation
Indices: 16906873--16907058 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
16906863 TTGAATGATG
* * * * *
16906873 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
16906913 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16906953 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16906993 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
16907034 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
16907059 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 114 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16907076 original size:80 final size:79
Alignment explanation
Indices: 16906874--16907091 Score: 192
Period size: 80 Copynumber: 2.7 Consensus size: 79
16906864 TGAATGATGT
** * * * * * *
16906874 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTTACTAAATCCGG-TTAA-ATCCCGAAGGCAAT
*
16906937 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
* *** *
16906954 CCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCC-GGTTAAATCCCGAAGGCAATTG
*
16907019 TGCGAGTTACT-ATAA
65 TGCGAGATACTAAT-A
* * *
16907034 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTA-CTAAATCCGGTTAAATCCCGAAGG
16907092 TACGTGATTT
Statistics
Matches: 114, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
79 19 0.17
80 87 0.76
81 8 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCCGGTTAAATCCCGAAGGCAATTGT
GCGAGATACTAATA
Found at i:16918107 original size:16 final size:16
Alignment explanation
Indices: 16918086--16918116 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16918076 AATTATGACC
16918086 TAATTAAGTACTTAAT
1 TAATTAAGTACTTAAT
*
16918102 TAATTAAGTGCTTAA
1 TAATTAAGTACTTAA
16918117 ATTATGTCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (16 bp):
TAATTAAGTACTTAAT
Found at i:16922876 original size:24 final size:25
Alignment explanation
Indices: 16922824--16922876 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
16922814 CTGTAAATTG
* *
16922824 GTAAGCTCATATGAGCTGAGAATCG
1 GTAAGCTCATATGAGCTGACAATCA
16922849 GTAAGCTC-TCATGAGCT-ACAATCA
1 GTAAGCTCAT-ATGAGCTGACAATCA
16922873 GTAA
1 GTAA
16922877 TCCCTAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (25 bp):
GTAAGCTCATATGAGCTGACAATCA
Found at i:16928115 original size:10 final size:10
Alignment explanation
Indices: 16928093--16928140 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
16928083 AGCTAATAAC
16928093 GAGCTGAATT
1 GAGCTGAATT
16928103 GAGCTCGAA-T
1 GAGCT-GAATT
*
16928113 GAGCTGACTT
1 GAGCTGAATT
* *
16928123 GAGCTCAAGT
1 GAGCTGAATT
16928133 GAGCTGAA
1 GAGCTGAA
16928141 CCACATCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 26 0.84
11 3 0.10
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (10 bp):
GAGCTGAATT
Found at i:16928118 original size:20 final size:20
Alignment explanation
Indices: 16928093--16928140 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
16928083 AGCTAATAAC
16928093 GAGCTGAATTGAGCTCGAA-T
1 GAGCTGAATTGAGCTC-AAGT
*
16928113 GAGCTGACTTGAGCTCAAGT
1 GAGCTGAATTGAGCTCAAGT
16928133 GAGCTGAA
1 GAGCTGAA
16928141 CCACATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (20 bp):
GAGCTGAATTGAGCTCAAGT
Found at i:16929555 original size:20 final size:20
Alignment explanation
Indices: 16929532--16929569 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16929522 TCAGTTCATT
16929532 CGAGCTCAAGTCAGCTCACA
1 CGAGCTCAAGTCAGCTCACA
* *
16929552 CGAGCTTAATTCAGCTCA
1 CGAGCTCAAGTCAGCTCA
16929570 TTGAGCTCGT
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:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (20 bp):
CGAGCTCAAGTCAGCTCACA
Found at i:16931926 original size:24 final size:26
Alignment explanation
Indices: 16931875--16931939 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 26
16931865 AAAAAGGGCT
* *
16931875 GAAATTGGCTAAGTGAAATGATGCTG
1 GAAATTGGCTAAGTGAAATGAGGATG
*
16931901 GAAA-TGGCTAGGTG-AATGAGGATG
1 GAAATTGGCTAAGTGAAATGAGGATG
*
16931925 GAGATTCGGCTAAGT
1 GAAATT-GGCTAAGT
16931940 TTTTGAAGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 11 0.34
25 10 0.31
26 11 0.34
ACGTcount: A:0.32, C:0.08, G:0.35, T:0.25
Consensus pattern (26 bp):
GAAATTGGCTAAGTGAAATGAGGATG
Found at i:16933112 original size:28 final size:26
Alignment explanation
Indices: 16933081--16933141 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
16933071 AAAAAAACAC
16933081 ATTAAAATGATGTAATATACTAAGACAA
1 ATTAAAAT-ATGTAATA-ACTAAGACAA
* * *
16933109 ATTAATGATATGTACTAACTAAGACAT
1 ATTAA-AATATGTAATAACTAAGACAA
16933136 ATTAAA
1 ATTAAA
16933142 TGCATGGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 14 0.50
28 12 0.43
29 2 0.07
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (26 bp):
ATTAAAATATGTAATAACTAAGACAA
Found at i:16935270 original size:19 final size:20
Alignment explanation
Indices: 16935248--16935289 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
16935238 TCCAAGTTAG
16935248 ATAAAAAAAATTAAAATA-A
1 ATAAAAAAAATTAAAATAGA
* *
16935267 AT-AAGACAATTAAAATAGA
1 ATAAAAAAAATTAAAATAGA
16935286 ATAA
1 ATAA
16935290 TAAATCTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
18 13 0.68
19 5 0.26
20 1 0.05
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (20 bp):
ATAAAAAAAATTAAAATAGA
Found at i:16939581 original size:19 final size:19
Alignment explanation
Indices: 16939557--16939594 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16939547 TGGCTTAGAA
16939557 AATGACTCTTGAGTTGTCC
1 AATGACTCTTGAGTTGTCC
16939576 AATGACTCTTGAGTTGTCC
1 AATGACTCTTGAGTTGTCC
16939595 TTGGCTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
AATGACTCTTGAGTTGTCC
Found at i:16941456 original size:39 final size:40
Alignment explanation
Indices: 16941411--16941635 Score: 197
Period size: 40 Copynumber: 5.7 Consensus size: 40
16941401 GCTCCTCGTT
* * *
16941411 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* *
16941451 C-AATGCCTTCGGGACATAACCCGGATTTAATAATTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
16941490 CGAATGCCTTCGGGACTTAACTCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
16941530 CAAAGGCCTTCGGGGCTTAACCTGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
* ** * * *
16941570 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
16941611 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
16941636 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 39 0.25
40 100 0.65
41 15 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:16972145 original size:42 final size:43
Alignment explanation
Indices: 16972006--16972244 Score: 237
Period size: 42 Copynumber: 5.7 Consensus size: 43
16971996 ATCCGTTACT
* *
16972006 CGGTGGATTCAGCACTTAGCAACCACC-TTA-AATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAA-TCAATGATA
* *
16972048 CGG-GGAATCAAG-ACATAGCAACC-CCTTTCACAATCAAAGATA
1 CGGTGGAATC-AGCACTTAGCAACCACCTTT-ACAATCAATGATA
* * *
16972090 CGGTGGAATCAGCACTTAACAACCACCTTTATATTCAATGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
* *
16972133 CTG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAAT-ATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTT-ACAATC-AATGATA
* * *
16972175 CGGTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
* *
16972218 C-GTGGAATCAACACTTGGCAACC-CCTT
1 CGGTGGAATCAGCACTTAGCAACCACCTT
16972245 GGGGAATCTG
Statistics
Matches: 165, Mismatches: 20, Indels: 25
0.79 0.10 0.12
Matches are distributed among these distances:
40 2 0.01
41 26 0.16
42 68 0.41
43 59 0.36
44 10 0.06
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAATGATA
Found at i:16972152 original size:85 final size:85
Alignment explanation
Indices: 16972006--16972244 Score: 331
Period size: 85 Copynumber: 2.8 Consensus size: 85
16971996 ATCCGTTACT
* *
16972006 CGGTGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAAGACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATCAAGACATAGCAAC
16972070 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAGATA
* * *
16972090 CGGTGGAATCAGCACTTAACAACCACCTTTATATTCAATGATACTGGGAATC-AGCACATAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATCAAG-ACATAGCAA
*
16972154 CCCCTTTCACAATCAAATATA
65 CCCCTTTCACAATCAAAGATA
* * * * * *
16972175 CGGTGGAATCAGCACTTAGCAACCACCTTTAGAA-TCAATAATTCGTGGAATCAACACTTGGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTA-AATTCAATGATACGGGGAATCAAGACATAGCAA
16972239 CCCCTT
65 CCCCTT
16972245 GGGGAATCTG
Statistics
Matches: 136, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
84 27 0.20
85 107 0.79
86 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATGATACGGGGAATCAAGACATAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:16972258 original size:26 final size:26
Alignment explanation
Indices: 16972229--16972296 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
16972219 GTGGAATCAA
16972229 CACTTGGCAACCCCTTGGGGAATCTG
1 CACTTGGCAACCCCTTGGGGAATCTG
*
16972255 CACTTGGCAACCCCTCGGGGAATCTG
1 CACTTGGCAACCCCTTGGGGAATCTG
* *
16972281 CACTTAGCGACCCCTT
1 CACTTGGCAACCCCTT
16972297 TTTATCTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.19, C:0.35, G:0.24, T:0.22
Consensus pattern (26 bp):
CACTTGGCAACCCCTTGGGGAATCTG
Found at i:16972667 original size:30 final size:30
Alignment explanation
Indices: 16972632--16972696 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
16972622 ATCCTTAACT
16972632 CAAACTTTGGCAAAATTACAATTTTACCCC
1 CAAACTTTGGCAAAATTACAATTTTACCCC
* * * * * *
16972662 TAAACTTTTGCATATTTACACTTTTTCCCC
1 CAAACTTTGGCAAAATTACAATTTTACCCC
16972692 CAAAC
1 CAAAC
16972697 CTCAGAAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (30 bp):
CAAACTTTGGCAAAATTACAATTTTACCCC
Found at i:16976055 original size:77 final size:77
Alignment explanation
Indices: 16975962--16976115 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
16975952 CAACATATTG
16975962 ATTCAAAATACAATTTTGATACTCACCTTCGCTTGACGTCAACTTAGGAATACAGGCTCCGGGTT
1 ATTCAAAATACAATTTTGATACTCACCTTCGCTTGACGTCAACTTAGGAATACAGGCTCCGGGTT
16976027 TAAAAACATGGT
66 TAAAAACATGGT
*
16976039 ATTCAAAATACAATTTTGATACTCACCTTCGCTTGACGTCAACTTATGAATACAGGCTCCGGGTT
1 ATTCAAAATACAATTTTGATACTCACCTTCGCTTGACGTCAACTTAGGAATACAGGCTCCGGGTT
16976104 TAAAAACATGGT
66 TAAAAACATGGT
16976116 TTTGATCGGT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (77 bp):
ATTCAAAATACAATTTTGATACTCACCTTCGCTTGACGTCAACTTAGGAATACAGGCTCCGGGTT
TAAAAACATGGT
Found at i:16976904 original size:19 final size:21
Alignment explanation
Indices: 16976863--16976905 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
16976853 ACAACACTTG
* *
16976863 TTTCTCTCACTCTTTCTTTTC
1 TTTCTCTCAATCTTTCTTCTC
16976884 TTTCTC-CAATCTTT-TTCTC
1 TTTCTCTCAATCTTTCTTCTC
16976903 TTT
1 TTT
16976906 TTCAATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTCTCTCAATCTTTCTTCTC
Found at i:16977886 original size:14 final size:14
Alignment explanation
Indices: 16977867--16977986 Score: 224
Period size: 14 Copynumber: 8.6 Consensus size: 14
16977857 AGCTCTCTAT
16977867 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
16977881 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
16977895 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
16977909 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
16977923 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
16977937 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
16977951 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
*
16977965 -TTTTTTTTCAAAA
1 TTTTTTTTTCACAA
16977978 TTTTTTTTT
1 TTTTTTTTT
16977987 NNNNNNNNNN
Statistics
Matches: 104, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
13 12 0.12
14 92 0.88
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTTTTTCACAA
Found at i:16980977 original size:15 final size:15
Alignment explanation
Indices: 16980930--16980969 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
16980920 TATAAGCAAC
16980930 AAAACATAGTAATTA
1 AAAACATAGTAATTA
* *
16980945 AAAAAATAATTAATTA
1 AAAACAT-AGTAATTA
16980961 AAAACATAG
1 AAAACATAG
16980970 CTATTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (15 bp):
AAAACATAGTAATTA
Found at i:16997775 original size:78 final size:78
Alignment explanation
Indices: 16997646--16997802 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 78
16997636 CAACTGATAC
16997646 GAGCTCGTTTCGGATGAAATGACGAGTCGTAATAGATTCCCGATCAAAATTAGGTAATGTCGTCT
1 GAGCTCGTTTCGGATGAAATGACGAGTCGTAATAGATTCCCGATCAAAATTAGGTAATGTCGTCT
* *
16997711 TTAAACGATTTCA
66 TCAAACAATTTCA
16997724 GAGCTCGTTTCGGATGAAATGACGAGTCGTAATAGATTCCCGATCAAAATTAGGTAATGTCGTCT
1 GAGCTCGTTTCGGATGAAATGACGAGTCGTAATAGATTCCCGATCAAAATTAGGTAATGTCGTCT
16997789 TCAAACAATTTCA
66 TCAAACAATTTCA
16997802 G
1 G
16997803 GCCTTTACGT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (78 bp):
GAGCTCGTTTCGGATGAAATGACGAGTCGTAATAGATTCCCGATCAAAATTAGGTAATGTCGTCT
TCAAACAATTTCA
Found at i:17000089 original size:84 final size:84
Alignment explanation
Indices: 16999989--17000155 Score: 334
Period size: 84 Copynumber: 2.0 Consensus size: 84
16999979 ATCACCTTTA
16999989 GGCTTTTTAAATTTTGACTTTTTCCACTACTAGACTCTTTTCTCTCTGTCTTTTGTACTTGTCCT
1 GGCTTTTTAAATTTTGACTTTTTCCACTACTAGACTCTTTTCTCTCTGTCTTTTGTACTTGTCCT
17000054 TTCTCCCTTACCCCCTCAC
66 TTCTCCCTTACCCCCTCAC
17000073 GGCTTTTTAAATTTTGACTTTTTCCACTACTAGACTCTTTTCTCTCTGTCTTTTGTACTTGTCCT
1 GGCTTTTTAAATTTTGACTTTTTCCACTACTAGACTCTTTTCTCTCTGTCTTTTGTACTTGTCCT
17000138 TTCTCCCTTACCCCCTCA
66 TTCTCCCTTACCCCCTCA
17000156 AAAAATTTCA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.13, C:0.31, G:0.08, T:0.48
Consensus pattern (84 bp):
GGCTTTTTAAATTTTGACTTTTTCCACTACTAGACTCTTTTCTCTCTGTCTTTTGTACTTGTCCT
TTCTCCCTTACCCCCTCAC
Found at i:17003643 original size:31 final size:32
Alignment explanation
Indices: 17003598--17003664 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 32
17003588 ACATGCATGC
*
17003598 ACCTTGCTAAAATGAATCTCCA-A-ATTCGGCTA
1 ACCTTGCTAAAATG-ATC-CCACACATTCGGCCA
*
17003630 ACCTTG-TTAAATGATCCCACACATTCGGCCA
1 ACCTTGCTAAAATGATCCCACACATTCGGCCA
17003661 ACCT
1 ACCT
17003665 ATATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 3 0.10
30 4 0.13
31 18 0.58
32 6 0.19
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (32 bp):
ACCTTGCTAAAATGATCCCACACATTCGGCCA
Done.