Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 191 of 250
Found at i:59824610 original size:88 final size:85
Alignment explanation
Indices: 59824458--59824787 Score: 403
Period size: 88 Copynumber: 3.8 Consensus size: 85
59824448 AGTTGATTTT
* *
59824458 TGAAAAACAGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAACATGAG
1 TGAAAAA-GGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
* *
59824523 TTGATTTTTGAAACAACAGAAA
65 TTGATTTTTGAAA-AAAATAAA
* * *
59824545 CTGAAAAACGGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCTACTCACCTTTCGCAATATGA
1 -TGAAAAA-GGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
* **
59824610 GTTGACTTTTGAAAAGTATAAA
64 GTTGATTTTTGAAAAAAATAAA
* * * ** * *
59824632 TTAAACAGG-AATTAAAAATTCCTCAGCATGTGAGCCGAGGCTCAACTCATCTCTCGTAATATGA
1 TGAAAAAGGAAATTAAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
59824696 GTTGATTTTT-AAAAAAATAAA
64 GTTGATTTTTGAAAAAAATAAA
* * * *
59824717 TTAAATAGGAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAAAGGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
59824782 TGATTT
66 TGATTT
59824788 AAAAATAGAA
Statistics
Matches: 210, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
84 55 0.26
85 19 0.09
86 59 0.28
87 5 0.02
88 72 0.34
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (85 bp):
TGAAAAAGGAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAAAATAAA
Found at i:59837420 original size:21 final size:21
Alignment explanation
Indices: 59837390--59837429 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59837380 ATTAATAATA
59837390 ATACTAATAT-TACATAAAGGT
1 ATACTAATATATAC-TAAAGGT
*
59837411 ATACTTATATATACTAAAG
1 ATACTAATATATACTAAAG
59837430 TTATGTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
ATACTAATATATACTAAAGGT
Found at i:59837502 original size:3 final size:3
Alignment explanation
Indices: 59837488--59837585 Score: 62
Period size: 3 Copynumber: 32.7 Consensus size: 3
59837478 TACATAACAT
*
59837488 ATA ATA AAA ATA ATA AT- ATA CATA AT- ATA TATA A-A ATA CATA TATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA -ATA -ATA
* * * **
59837534 ACA A-A ACA TATA CT- ATA ATA ATA ATA ATA ATA AGG ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
59837578 ATA ATA AT
1 ATA ATA AT
59837586 TTAAAAAAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
2 9 0.12
3 52 0.69
4 14 0.19
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:59837508 original size:28 final size:28
Alignment explanation
Indices: 59837475--59837562 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
59837465 AATATTTAAC
59837475 ATATACATAACATATAATAAAAATAATA
1 ATATACATAACATATAATAAAAATAATA
*
59837503 ATATACATAATATAT-AT-AAAATACAT-
1 ATATACATAACATATAATAAAAATA-ATA
* *
59837529 ATATAACAAAACATATACTATAATAATAATA
1 ATAT-ACATAACATATA--ATAAAAATAATA
59837560 ATA
1 ATA
59837563 ATAAGGATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 10 0.20
27 13 0.27
28 14 0.29
30 4 0.08
31 8 0.16
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (28 bp):
ATATACATAACATATAATAAAAATAATA
Found at i:59839376 original size:44 final size:43
Alignment explanation
Indices: 59839330--59839891 Score: 391
Period size: 44 Copynumber: 12.8 Consensus size: 43
59839320 GAAACAAGAT
* *
59839330 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAAAAAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
* * * * * * * **
59839373 TTTGACA-CTCCTTTGCTTACAGCGAAGCAGATCGAATATTTCAGCA
1 -TTGGCATC-CCTGTGTTTATAGGGAA-CAAATCGAAGATAGCAG-A
* * ** **
59839419 -TGGCATCCTTGTGTTTATAGGGAACAAGTTAAAGATTTCAGCA
1 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAG-A
* *
59839462 -TGGCATCCCTGTGTTTATAAGGAACAAATCAAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
* * * * ** * * ***
59839504 TCTGACATTCCTGTGCTTACAGAAAAGTAGATCGAAGATTTTAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGATAGCAG-A
* * * *
59839550 -TGACATCCATGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
*
59839592 TTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
** * * * * * **
59839636 TCTGATATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGATAGCAG-A
* *
59839682 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
59839724 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
* * * * * * **
59839768 TCTGACATTCCTGT-CTTACAGCGAAGCAGATCGAAGATTTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGATAGCAG-A
* *
59839813 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
* * *
59839855 TTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA
59839892 CATAGCTGAT
Statistics
Matches: 394, Mismatches: 103, Indels: 42
0.73 0.19 0.08
Matches are distributed among these distances:
42 4 0.01
43 104 0.26
44 244 0.62
45 39 0.10
46 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (43 bp):
TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
Found at i:59839565 original size:131 final size:131
Alignment explanation
Indices: 59839330--59839891 Score: 867
Period size: 131 Copynumber: 4.3 Consensus size: 131
59839320 GAAACAAGAT
* * * * *
59839330 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAAAAAGCAGATTTGACACTCCTTTGCTTACAG
1 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
* * * **
59839395 CGAAGCAGATCGAATATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTAAAGATTTCAG
66 CGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
59839460 CA
131 -A
* *
59839462 -TGGCATCCCTGTGTTTATAAGGAACAAATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAG
1 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
** * * * *
59839526 AAAAGTAGATCGAAGATTTTAGCATGACATCCATGTGTTTATAGGGAACAAGTTGAAGATAGCAG
66 CGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
59839591 A
131 A
* *
59839592 TTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGATATTCCTGTGCTTACA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
59839657 GCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCA
65 GCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCA
59839722 GA
130 GA
59839724 TTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGT-CTTACA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
59839788 GCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCA
65 GCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCA
59839853 GA
130 GA
* * *
59839855 TTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA
59839892 CATAGCTGAT
Statistics
Matches: 396, Mismatches: 32, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
130 1 0.00
131 219 0.55
132 176 0.44
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (131 bp):
TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
CGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
A
Found at i:59839801 original size:263 final size:263
Alignment explanation
Indices: 59839326--59839891 Score: 902
Period size: 263 Copynumber: 2.2 Consensus size: 263
59839316 CAGAGAAACA
* * * *
59839326 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAAAAAGCAGATTTGACACTCCTTTGCTT
1 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGAAAGCAGATCTGACACTCCTGTGCTT
* * *
59839391 ACAGCGAAGCAGATCGAATATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTAAAGATT
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTAAAGATA
*
59839456 TCAGCATGGCATCCCTGTGTTTATAAGGAACAAATCAAAGATAGCAGATCTGACATTCCTGTGCT
131 GCAGCATGGCATCCCTGTGTTTATAAGGAACAAATCAAAGATAGCAGATCTGACATTCCTGTGCT
* *
59839521 TACAGAAAAGTAGATCGAAGATTTTAGCATGACATCCATGTGTTTATAGGGAACAAGTTGAAGAT
196 TACAGAAAAGCAGATCGAAGATTTCAGCATGACATCCATGTGTTTATAGGGAACAAGTTGAAGAT
59839586 AGC
261 AGC
* * *
59839589 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGATATTCCTGTGCTT
1 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGAAAGCAGATCTGACACTCCTGTGCTT
*
59839654 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTAAAGATA
* *
59839719 GCAG-ATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGT-
131 GCAGCA--TGGCATCCCTGTGTTTATAAGGAACAAATCAAAGATAGCAGATCTGACATTCCTGTG
** * *
59839782 CTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAG
194 CTTACAGAAAAGCAGATCGAAGATTTCAGCATGACATCCATGTGTTTATAGGGAACAAGTTGAAG
59839847 ATAGC
259 ATAGC
* *
59839852 AGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGA
1 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGA
59839892 CATAGCTGAT
Statistics
Matches: 279, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
262 1 0.00
263 224 0.80
264 54 0.19
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (263 bp):
AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGAAAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTAAAGATA
GCAGCATGGCATCCCTGTGTTTATAAGGAACAAATCAAAGATAGCAGATCTGACATTCCTGTGCT
TACAGAAAAGCAGATCGAAGATTTCAGCATGACATCCATGTGTTTATAGGGAACAAGTTGAAGAT
AGC
Found at i:59840211 original size:206 final size:205
Alignment explanation
Indices: 59839853--59840257 Score: 720
Period size: 206 Copynumber: 2.0 Consensus size: 205
59839843 GAAGATAGCA
* *
59839853 GATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGGTTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGGCTT
*
59839918 ACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGGC
66 ACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGGC
* *
59839983 GTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAGCCTTCATATGTTTATATTGAAGCA
131 GTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGCA
59840048 GATCTAAGGT
196 GATCTAAGGT
59840058 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GCT
*
59840123 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
65 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGG
* * *
59840188 TGTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAATC
130 CGTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGC
59840253 AGATC
195 AGATC
59840258 CAAAGGAACA
Statistics
Matches: 190, Mismatches: 9, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
205 60 0.32
206 130 0.68
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (205 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGGCTT
ACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGGC
GTCTCCATATTCGACAGAGAGCAGACACATAGCAGATCTAGCCTTCATATGTTTATACTGAAGCA
GATCTAAGGT
Found at i:59840348 original size:386 final size:385
Alignment explanation
Indices: 59839875--59840646 Score: 1267
Period size: 386 Copynumber: 2.0 Consensus size: 385
59839865 TTGTGCTTAT
* *
59839875 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGGTTTACGCTGAAGCAAATCTAAGATG
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGGCTTACGATGAAGCAAATCTAAGATG
59839940 ATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGGCGTCTCCATATTCGACGGAGAGC
66 ATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGGCGTCTCCATATTCGACGGAGAGC
* * * * * * *
59840005 AGACACATAGCAGATCTAGCCTTCATATGTTTATATTGAAGCAGATCTAAGGTGATTTGGCATCC
131 AGACACATAGCAGATCTAACCTTCAGATGTTCATACTGAACCAGATCCAAGATGATTTGGCATCC
59840070 TTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCA
196 TTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCA
* *
59840135 AATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACA-AATCGAAGTTTGGTGTCTCCATAT
261 AATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA-ATAATCAAAGTTTGGCGTCTCCATAT
* ** * * * *
59840199 TCGACAGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAATCAGATCCA
325 TCAACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCA
59840260 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GCTTACGATGAAGCAAATCTAAGAT
* * *
59840325 GATTTGGCATCTCTGTATTGTCAGAGAAGAAATCGAAGTTTGGCGTCTCTATATTCGACGGAGAG
65 GATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGGCGTCTCCATATTCGACGGAGAG
* *
59840390 CAGACACATAGCAGATCTAACTTTCAGATGTTCATACTGAACCAGATCCAAGATGATTTGGCATT
130 CAGACACATAGCAGATCTAACCTTCAGATGTTCATACTGAACCAGATCCAAGATGATTTGGCATC
* *
59840455 CTTGTGCTTACAAGGAACAAATCGGAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGC
195 CTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGC
59840520 AAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAAATAATCAAAGTTTGGCGTCTCCATAT
260 AAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAAATAATCAAAGTTTGGCGTCTCCATAT
* * *
59840585 TCAACGGAGGGTAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCA
325 TCAACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCA
59840646 A
1 A
59840647 GATGGTTTGG
Statistics
Matches: 357, Mismatches: 28, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
385 40 0.11
386 317 0.89
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (385 bp):
AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGGCTTACGATGAAGCAAATCTAAGATG
ATTTGGCATCTCTGTATTGTCAGAGAACAAACCGAAGTTTGGCGTCTCCATATTCGACGGAGAGC
AGACACATAGCAGATCTAACCTTCAGATGTTCATACTGAACCAGATCCAAGATGATTTGGCATCC
TTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCA
AATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAAATAATCAAAGTTTGGCGTCTCCATATT
CAACAGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCA
Found at i:59840382 original size:180 final size:180
Alignment explanation
Indices: 59840080--59840440 Score: 632
Period size: 180 Copynumber: 2.0 Consensus size: 180
59840070 TTGTGCTTAC
59840080 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
*
59840145 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGTGTCTCCATATTCGACAGAGAG
66 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACAGAGAG
** * * *
59840210 CAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAATCAGATCCA
131 CAGACACATAGCAGATCTAACCTTCAGATGTTCATACTGAACCAGATCCA
59840260 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
* * *
59840325 GATTTGGCATCTCTGTATTGTCAGAGAAGAAATCGAAGTTTGGCGTCTCTATATTCGACGGAGAG
66 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACAGAGAG
*
59840390 CAGACACATAGCAGATCTAACTTTCAGATGTTCATACTGAACCAGATCCA
131 CAGACACATAGCAGATCTAACCTTCAGATGTTCATACTGAACCAGATCCA
59840440 A
1 A
59840441 GATGATTTGG
Statistics
Matches: 171, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
180 171 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (180 bp):
AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACAGAGAG
CAGACACATAGCAGATCTAACCTTCAGATGTTCATACTGAACCAGATCCA
Found at i:59840614 original size:206 final size:206
Alignment explanation
Indices: 59840260--59840759 Score: 815
Period size: 206 Copynumber: 2.4 Consensus size: 206
59840250 ATCAGATCCA
59840260 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
* * *
59840325 GATTTGGCATCTCTGTATTGTCAGAGAAGAAATCGAAGTTTGGCGTCTCTATATTCGACGGAGAG
66 GATTTGGCATCTCTGTATTGTCAGAGAAGAAATCAAAGTTTGGCGTCTCCATATTCAACGGAGAG
* *
59840390 CAGACACATAGCAGATCTAACTTTCAGATG-TTCATACTGAACCAGATCCAAGATGATTTGGCAT
131 CAGACACATAGCAGATCTAACCTTCAGATGATT-AGACTGAACCAGATCCAAGATGATTTGGCAT
*
59840454 TCTTGTGCTTAC
195 CCTTGTGCTTAC
* *
59840466 AAGGAACAAATCGGAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
*
59840531 GATTTGGCATCTCTGTATTGTCAGAGAA-ATAATCAAAGTTTGGCGTCTCCATATTCAACGGAGG
66 GATTTGGCATCTCTGTATTGTCAGAGAAGA-AATCAAAGTTTGGCGTCTCCATATTCAACGGAGA
* * * *
59840595 GTAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCCAAGATGGTTTGGTAT
130 GCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAACCAGATCCAAGATGATTTGGCAT
59840660 CCTTGTGCTTAC
195 CCTTGTGCTTAC
* * * *
59840672 AAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCGTGCTTACGATGAAGCAAATCTAAGAT
1 AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
59840737 GATTTGGCATCTCTGTATTGTCA
66 GATTTGGCATCTCTGTATTGTCA
59840760 AAAAACAGAT
Statistics
Matches: 273, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
205 1 0.00
206 270 0.99
207 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (206 bp):
AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGAT
GATTTGGCATCTCTGTATTGTCAGAGAAGAAATCAAAGTTTGGCGTCTCCATATTCAACGGAGAG
CAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAACCAGATCCAAGATGATTTGGCATC
CTTGTGCTTAC
Found at i:59841189 original size:19 final size:19
Alignment explanation
Indices: 59841165--59841262 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
59841155 AATCTTTAAG
59841165 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
59841184 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
59841203 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
59841220 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
59841239 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
59841260 GAT
1 GAT
59841263 CTTGTAATAT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 47 0.64
21 9 0.12
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:59841195 original size:36 final size:35
Alignment explanation
Indices: 59841155--59841262 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
59841145 ATGGAAATAT
59841155 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
*
59841191 AATC-TT-AGATATGATACAATCTTAGATATGATATGT
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
59841227 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
59841263 CTTGTAATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 27 0.45
37 1 0.02
38 7 0.12
40 10 0.17
41 6 0.10
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:59844768 original size:11 final size:12
Alignment explanation
Indices: 59844741--59844769 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
59844731 GCCACACGCT
59844741 CGTGTGCTAGAC
1 CGTGTGCTAGAC
59844753 CGTGTGCTAG-C
1 CGTGTGCTAGAC
59844764 CGTGTG
1 CGTGTG
59844770 TCTCACACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.10, C:0.24, G:0.38, T:0.28
Consensus pattern (12 bp):
CGTGTGCTAGAC
Found at i:59845756 original size:40 final size:39
Alignment explanation
Indices: 59845701--59845827 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 39
59845691 ACCAGTTTGG
*
59845701 CACCCAGTGCCTTATCGGATAATTCGAAGTAATAGATTGA
1 CACCCAGTGCCTTATCGGATAATCCGAAGTAATA-ATTGA
* * *
59845741 CACCCAGTGTCTTATCGGCTAAACCGAAGT-A-AATTGA
1 CACCCAGTGCCTTATCGGATAATCCGAAGTAATAATTGA
* * * * *
59845778 CACCCAATGCCTCATCGAATTAATCCAAAGTAGTAAATTGA
1 CACCCAGTGCCTTATCGGA-TAATCCGAAGTAAT-AATTGA
*
59845819 CACCGAGTG
1 CACCCAGTG
59845828 TCTCACTGAC
Statistics
Matches: 69, Mismatches: 14, Indels: 7
0.77 0.16 0.08
Matches are distributed among these distances:
37 19 0.28
38 10 0.14
39 1 0.01
40 26 0.38
41 13 0.19
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTTATCGGATAATCCGAAGTAATAATTGA
Found at i:59846671 original size:17 final size:18
Alignment explanation
Indices: 59846651--59846691 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
59846641 CTAGCTTTGG
59846651 CCTTTCTCCTTT-TCTTT
1 CCTTTCTCCTTTCTCTTT
* *
59846668 CCTTT-TTCTTTCTTTTT
1 CCTTTCTCCTTTCTCTTT
59846685 CCTTTCT
1 CCTTTCT
59846692 GTTTCGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 5 0.25
17 14 0.70
18 1 0.05
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
CCTTTCTCCTTTCTCTTT
Found at i:59846691 original size:11 final size:10
Alignment explanation
Indices: 59846660--59846733 Score: 58
Period size: 11 Copynumber: 6.8 Consensus size: 10
59846650 GCCTTTCTCC
59846660 TTTTCTTTCCT
1 TTTTCTTT-CT
59846671 TTTTCTTTCT
1 TTTTCTTTCT
59846681 TTTTCCTTTCT
1 TTTT-CTTTCT
*
59846692 GTTTCGTTTCT
1 TTTTC-TTTCT
* *
59846703 ATCTTGTTTCT
1 -TTTTCTTTCT
*
59846714 TTTACTATTTCT
1 TTT--TCTTTCT
59846726 TTTTCTTT
1 TTTTCTTT
59846734 TATTTAATTG
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 13 0.25
11 27 0.53
12 11 0.22
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.72
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:59848250 original size:9 final size:10
Alignment explanation
Indices: 59848219--59848251 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
59848209 TTTATTTTGA
59848219 TAATTTATTT
1 TAATTTATTT
*
59848229 TTATTTATTT
1 TAATTTATTT
59848239 TAATTT-TTT
1 TAATTTATTT
59848248 TAAT
1 TAAT
59848252 ACTTTAGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TAATTTATTT
Found at i:59849947 original size:44 final size:44
Alignment explanation
Indices: 59849897--59849989 Score: 186
Period size: 44 Copynumber: 2.1 Consensus size: 44
59849887 TACCAACAAG
59849897 TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
1 TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
59849941 TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
1 TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
59849985 TATCT
1 TATCT
59849990 GTCTTCAAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (44 bp):
TATCTCAACTCACTTTTACAACATTAGTTCCAACATCAATAGGA
Found at i:59852492 original size:6 final size:6
Alignment explanation
Indices: 59852468--59852502 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
59852458 CCGGTAGCCC
*
59852468 CCCTCT CCCTCCT CTCTCT CCCTCT CCCTCT CCCT
1 CCCTCT CCCT-CT CCCTCT CCCTCT CCCTCT CCCT
59852503 TTCTTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CCCTCT
Found at i:59854182 original size:21 final size:20
Alignment explanation
Indices: 59854156--59854248 Score: 71
Period size: 21 Copynumber: 4.3 Consensus size: 20
59854146 TACTATTATT
*
59854156 TATTTATTTTTATTCCTAGTA
1 TATTTATTTTTATT-ATAGTA
* *
59854177 TATTTATTATTAATATTAGTA
1 TATTTATTTTTATTA-TAGTA
*
59854198 TATGTA-TTTTATTATACGTA
1 TATTTATTTTTATTATA-GTA
*
59854218 TATATATATTTTTATAAATAGTA
1 TAT-T-TATTTTTAT-TATAGTA
59854241 TTATTTAT
1 -TATTTAT
59854249 ATCCTTATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
19 2 0.04
20 12 0.21
21 22 0.39
22 5 0.09
23 10 0.18
24 6 0.11
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
TATTTATTTTTATTATAGTA
Found at i:59854220 original size:20 final size:20
Alignment explanation
Indices: 59854195--59854233 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
59854185 ATTAATATTA
*
59854195 GTATATGTAT-TTTATTATAC
1 GTATATATATATTT-TTATAC
59854215 GTATATATATATTTTTATA
1 GTATATATATATTTTTATA
59854234 AATAGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (20 bp):
GTATATATATATTTTTATAC
Found at i:59854319 original size:20 final size:22
Alignment explanation
Indices: 59854278--59854326 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
59854268 TACTTATTAT
*
59854278 TTTATTTTAATATTATTATGTA
1 TTTATTTTAATAATATTATGTA
59854300 TTTATTTTAA-AATA-TATGTA
1 TTTATTTTAATAATATTATGTA
*
59854320 TATATTT
1 TTTATTT
59854327 GTGTAGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 12 0.48
21 3 0.12
22 10 0.40
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTATTTTAATAATATTATGTA
Found at i:59854325 original size:24 final size:22
Alignment explanation
Indices: 59854278--59854326 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
59854268 TACTTATTAT
* *
59854278 TTTATTTTAATATTATTATGTA
1 TTTATTTTAAAATTATTATATA
59854300 TTTATTTTAAAATATATGTATATA
1 TTTATTTTAAAAT-TAT-TATATA
59854324 TTT
1 TTT
59854327 GTGTAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
23 3 0.13
24 8 0.35
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTATTTTAAAATTATTATATA
Found at i:59856183 original size:137 final size:137
Alignment explanation
Indices: 59855937--59856223 Score: 502
Period size: 137 Copynumber: 2.1 Consensus size: 137
59855927 TATTGGGCCT
** * * *
59855937 AAGCCCATTCAGGTAATAGTGGTATTGGGCCAGAGCCCTTTTTAGATTACAATAAACTAGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
*
59856002 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATATATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
59856067 CATATGC
131 CATATGC
*
59856074 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
*
59856139 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
59856204 CATATGC
131 CATATGC
59856211 AAGCCCATTTGGG
1 AAGCCCATTTGGG
59856224 GAGACTACTC
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGACCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:59856500 original size:26 final size:26
Alignment explanation
Indices: 59856471--59856524 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
59856461 TCAAACATGC
59856471 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGT-AATTTAACACCTAGGGGT
* **
59856497 ATTTCGGTAATTTTTCACCTAGGGGT
1 ATTTAGGTAATTTAACACCTAGGGGT
59856523 AT
1 AT
59856525 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (26 bp):
ATTTAGGTAATTTAACACCTAGGGGT
Found at i:59856532 original size:26 final size:27
Alignment explanation
Indices: 59856488--59856563 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
59856478 TCAATTTAAC
* * *
59856488 CCTAGGGGTATTTCGGTAATTTTTC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
59856514 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
59856542 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
59856564 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:59858958 original size:13 final size:14
Alignment explanation
Indices: 59858940--59858969 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
59858930 ATGTACGAAT
59858940 ATATACATATA-TA
1 ATATACATATATTA
59858953 ATATACATATATTA
1 ATATACATATATTA
59858967 ATA
1 ATA
59858970 ATAATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:59859066 original size:3 final size:3
Alignment explanation
Indices: 59859025--59859111 Score: 51
Period size: 3 Copynumber: 29.7 Consensus size: 3
59859015 ATTAATATGT
* * *
59859025 TAA TAA -AA TAA CAA TAA TGAA -AA TAA TAA CAA CT-G TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA -TAA TAA TAA TAA
* *
59859069 -AGA TAA TAA TAGA -AA TAA -AA TAA TAG TAA TAA TAT TAA TAA TA
1 TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
59859112 TGTAAAAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
2 9 0.14
3 51 0.80
4 4 0.06
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:59859706 original size:9 final size:8
Alignment explanation
Indices: 59859685--59859714 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
59859675 AATTTGATTT
59859685 TTTTTATA
1 TTTTTATA
59859693 TTTTTATA
1 TTTTTATA
59859701 TGTTTTATA
1 T-TTTTATA
59859710 TTTTT
1 TTTTT
59859715 GCACTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:59860546 original size:26 final size:26
Alignment explanation
Indices: 59860510--59860619 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
59860500 CATGAAATTC
59860510 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
59860536 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
59860562 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
59860588 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
59860614 TTATCA
1 TTATCA
59860620 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:59861559 original size:6 final size:6
Alignment explanation
Indices: 59861548--59861573 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
59861538 ATACTTATTA
59861548 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
59861574 ACAAGTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:59877484 original size:17 final size:17
Alignment explanation
Indices: 59877459--59877495 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
59877449 AGGAATTCAT
*
59877459 TTATTATAATATTTAAA
1 TTATCATAATATTTAAA
*
59877476 TTATCATAATATTTTAA
1 TTATCATAATATTTAAA
59877493 TTA
1 TTA
59877496 AAATTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATCATAATATTTAAA
Found at i:59880854 original size:44 final size:44
Alignment explanation
Indices: 59880765--59880855 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
59880755 AGTATTTTTT
* * * * *
59880765 ATTTATACATTCAATTAAGTTTGTGCAAAATATAATATATTTTA
1 ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAATATATTA
59880809 ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAACTA-ATTA
1 ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAA-TATATTA
59880853 ATT
1 ATT
59880856 GAATCTTGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (44 bp):
ATTTATACATTCAATAAAATTTGTGCAAAATAAAAAATATATTA
Found at i:59885189 original size:5 final size:5
Alignment explanation
Indices: 59885179--59885207 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
59885169 TATAAAATAT
59885179 TATTA TATTA TATTA TATTA TATTA -ATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
59885208 AATAAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:59885231 original size:13 final size:14
Alignment explanation
Indices: 59885207--59885235 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
59885197 TATATTAATT
59885207 AAATAAAGTAAATA
1 AAATAAAGTAAATA
59885221 AAATAAA-TAAATA
1 AAATAAAGTAAATA
59885234 AA
1 AA
59885236 TCAAATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAAGTAAATA
Found at i:59886109 original size:5 final size:5
Alignment explanation
Indices: 59886099--59886136 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
59886089 TTATTGTGGT
* *
59886099 ATTGA ATTGA ATTGA ATTGA ATTGA ATTCA ATTCA ATT
1 ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT
59886137 ATAAGTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (5 bp):
ATTGA
Found at i:59890218 original size:37 final size:37
Alignment explanation
Indices: 59890167--59890360 Score: 253
Period size: 37 Copynumber: 5.0 Consensus size: 37
59890157 TAGCTAGGCT
****
59890167 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
59890204 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGCAGCTAAAA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGT---G-T---A
*
59890248 CTACCACTTATCACTTTGTTTCCTGATCAGATAAGTGTA
1 --ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
59890287 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
59890324 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
59890361 GCTAAAACTA
Statistics
Matches: 140, Mismatches: 8, Indels: 18
0.84 0.05 0.11
Matches are distributed among these distances:
37 102 0.73
39 1 0.01
40 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.23
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:59890275 original size:83 final size:80
Alignment explanation
Indices: 59890128--59890362 Score: 297
Period size: 83 Copynumber: 3.0 Consensus size: 80
59890118 CATATGACCT
* * ****
59890128 CTTATCAC-TTG-TCCTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTACCACTTGA
1 CTTATCACTTTGTTTCTTGATCAGATAAGTG-AGCTA-ACTACCACTTATCACTTTGTTTCTTGA
59890191 TCAGATAAGTGTAGCCA
64 TCAGATAAGTGTAGCCA
*
59890208 CTTATCACTTTGTTTCTTGATCAGATAAGTGCAGCTAAAACTACCACTTATCACTTTGTTTCCTG
1 CTTATCACTTTGTTTCTTGATCAGATAAGTG-AGCT--AACTACCACTTATCACTTTGTTTCTTG
*
59890273 ATCAGATAAGTGTAACCA
63 ATCAGATAAGTGTAGCCA
59890291 CTTATCACTTTGTTTCTTGATCAGATAAGT--G-T-A--ACCACTTATCACTTTGTTTCTTGATC
1 CTTATCACTTTGTTTCTTGATCAGATAAGTGAGCTAACTACCACTTATCACTTTGTTTCTTGATC
59890350 AGATAAGTGTAGC
66 AGATAAGTGTAGC
59890363 TAAAACTACC
Statistics
Matches: 140, Mismatches: 11, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
74 37 0.26
76 1 0.01
79 1 0.01
80 9 0.06
81 3 0.02
82 21 0.15
83 67 0.48
84 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (80 bp):
CTTATCACTTTGTTTCTTGATCAGATAAGTGAGCTAACTACCACTTATCACTTTGTTTCTTGATC
AGATAAGTGTAGCCA
Found at i:59890310 original size:120 final size:120
Alignment explanation
Indices: 59890167--59890386 Score: 386
Period size: 120 Copynumber: 1.8 Consensus size: 120
59890157 TAGCTAGGCT
*
59890167 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCTTGATCAG
1 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTAACCACTTATCACTTTGTTTCTTGATCAG
59890232 ATAAGTGCAGCTAAAACTACCACTTATCACTTTGTTTCCTGATCAGATAAGTGTA
66 ATAAGTGCAGCTAAAACTACCACTTATCACTTTGTTTCCTGATCAGATAAGTGTA
****
59890287 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAACCACTTATCACTTTGTTTCTTGATCAG
1 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTAACCACTTATCACTTTGTTTCTTGATCAG
*
59890352 ATAAGTGTAGCTAAAACTACCACTTATCACTTTGT
66 ATAAGTGCAGCTAAAACTACCACTTATCACTTTGT
59890387 CACTTGATCA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 94 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (120 bp):
ACCACTTATCACTTTACCACTTGATCAGATAAGTGTAACCACTTATCACTTTGTTTCTTGATCAG
ATAAGTGCAGCTAAAACTACCACTTATCACTTTGTTTCCTGATCAGATAAGTGTA
Found at i:59893550 original size:19 final size:19
Alignment explanation
Indices: 59893526--59893566 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
59893516 TGTATACAGC
59893526 TATATATTAA-ATTAAAATT
1 TATATA-TAATATTAAAATT
*
59893545 TATATATAATTTTAAAATT
1 TATATATAATATTAAAATT
59893564 TAT
1 TAT
59893567 TCTATTAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATATAATATTAAAATT
Found at i:59894579 original size:26 final size:26
Alignment explanation
Indices: 59894550--59894602 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
59894540 AGTGATAATT
59894550 TATTCATCAC-TTAATTAAATATAAAA
1 TATTCATCACTTTAATT-AATATAAAA
* * *
59894576 TATTTATCTCTTTAATTAATTTAAAA
1 TATTCATCACTTTAATTAATATAAAA
59894602 T
1 T
59894603 CATTAGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.47
Consensus pattern (26 bp):
TATTCATCACTTTAATTAATATAAAA
Found at i:59895102 original size:14 final size:13
Alignment explanation
Indices: 59895083--59895112 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
59895073 TATAAATAAC
59895083 TTTTCTTTTCTTTT
1 TTTTCTTTT-TTTT
59895097 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
59895110 TTT
1 TTT
59895113 GTCTCGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:59895714 original size:78 final size:76
Alignment explanation
Indices: 59895608--59895757 Score: 169
Period size: 78 Copynumber: 1.9 Consensus size: 76
59895598 AACAAGGTGG
* * * *
59895608 AGATTAGTTTTAATTTTCAACATTAACATGGCGAGACG-GG-GATCAGTTTCAATTTTCTTTTAA
1 AGATTAGTTTCAATTTTCAACATCAACATGGCGA-A-GTGGAGATCAATTCCAATTTT-TTTT-A
59895671 CCACCAACATGGCGA
62 CCACCAACATGGCGA
*** * *
59895686 AGATTAGTTTCAATTTTTTTCATCAACATGGTGAAGTGGAGATCAATTCCGATTTTTTTTACCAC
1 AGATTAGTTTCAATTTTCAACATCAACATGGCGAAGTGGAGATCAATTCCAATTTTTTTTACCAC
59895751 CAACATG
66 CAACATG
59895758 ACAAGGTGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
76 13 0.21
77 7 0.11
78 41 0.67
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (76 bp):
AGATTAGTTTCAATTTTCAACATCAACATGGCGAAGTGGAGATCAATTCCAATTTTTTTTACCAC
CAACATGGCGA
Found at i:59895767 original size:42 final size:42
Alignment explanation
Indices: 59895721--59895903 Score: 143
Period size: 42 Copynumber: 4.4 Consensus size: 42
59895711 ACATGGTGAA
* * *
59895721 GTGGAGATCAATTCCGATTTTTTTTACCACCAACATGACAAG
1 GTGGAGATCAGTTCCGATTTTTTTCAACACCAACATGACAAG
* * * * *
59895763 GTGGAGTTCAGTTCTGATTTTTTTCAACATCAACACGACGAG
1 GTGGAGATCAGTTCCGATTTTTTTCAACACCAACATGACAAG
** * * * ** *
59895805 GCAGAGATTAGTTCCGGGTTTTTTTCAACACTAATGTGGCAAG
1 GTGGAGATCAGTTCC-GATTTTTTTCAACACCAACATGACAAG
*** * * *
59895848 GCAAAGATCAATTCCGATTTTTTT-AACACCAATATGGCAAG
1 GTGGAGATCAGTTCCGATTTTTTTCAACACCAACATGACAAG
*
59895889 ATGGAGATCAGTTCC
1 GTGGAGATCAGTTCC
59895904 AATTCTTGCC
Statistics
Matches: 108, Mismatches: 32, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
41 25 0.23
42 52 0.48
43 31 0.29
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (42 bp):
GTGGAGATCAGTTCCGATTTTTTTCAACACCAACATGACAAG
Found at i:59898124 original size:22 final size:23
Alignment explanation
Indices: 59898069--59898124 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
59898059 AACTCGTTTC
*
59898069 AGCTTACTA-TTCAGCTCAATAG
1 AGCTTACTATTTCAGCTCAATAA
*
59898091 AGCTTACCATTTCAGCT-AATAA
1 AGCTTACTATTTCAGCTCAATAA
59898113 AGCTTACTATTT
1 AGCTTACTATTT
59898125 ATCAGCTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 23 0.77
23 7 0.23
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (23 bp):
AGCTTACTATTTCAGCTCAATAA
Found at i:59899477 original size:18 final size:19
Alignment explanation
Indices: 59899432--59899479 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
59899422 CATGATATAC
59899432 ATAACATATATATAAAAACA
1 ATAACATA-ATATAAAAACA
* *
59899452 ATAA-ATAATATGAAAATA
1 ATAACATAATATAAAAACA
59899470 A-AACATAATA
1 ATAACATAATA
59899480 AAGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAACATAATATAAAAACA
Found at i:59899678 original size:20 final size:20
Alignment explanation
Indices: 59899642--59899679 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59899632 GGAAAATAAT
*
59899642 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
59899662 ATATATAATTAA-AAATAA
1 ATATATAA-TAAGAAATAA
59899680 TACTCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:59899761 original size:19 final size:19
Alignment explanation
Indices: 59899737--59899774 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
59899727 AAAATAAACA
*
59899737 AATAATACAATATATATAG
1 AATAATACAATAAATATAG
*
59899756 AATAATATAATAAATATAG
1 AATAATACAATAAATATAG
59899775 GACTAAATTT
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:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAATACAATAAATATAG
Found at i:59901423 original size:83 final size:83
Alignment explanation
Indices: 59901279--59901962 Score: 1118
Period size: 83 Copynumber: 8.2 Consensus size: 83
59901269 TTCAATTTGT
* * * * *
59901279 AAGGATGTCAAATTATCTTGAGTCTGCTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCTCGA
* *
59901344 TTTGTTTCTCGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * *
59901362 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGGACATTTGAGAGTCATATCTGCAACGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCTCGA
59901427 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * * *
59901445 AAGGATGCCAAACCATCTTTAGTCTGTTTGA-AGACATTTGAGAGTCATATCTGCAACGTCCTTG
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGA-ACGTTTGAGAGTCATATCTGCAACGTCCTCG
59901509 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* * * *
59901528 AAGGATGGCAAACCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATTTGCAACGTCCTCAA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCTCGA
59901593 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * * *
59901611 AAGGATACCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCTATGTCGTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCTCGA
59901676 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
59901694 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCTCGA
59901759 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
59901777 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCTCGA
59901842 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * *
59901860 AAGGATGCCAAATCATCTTGAGTCTATTTGAGAACGTTTGAGAGTCATATCTGCTATGTCCTCGA
1 AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCTCGA
*
59901925 TTTGTTCCTTATAAGCAC
66 TTTGTTCCTTGTAAGCAC
59901943 AAGGATGCCAAATCATCTTG
1 AAGGATGCCAAATCATCTTG
59901963 GATCTGCTTC
Statistics
Matches: 566, Mismatches: 33, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
83 565 1.00
84 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (83 bp):
AAGGATGCCAAATCATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAACGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:59905954 original size:37 final size:38
Alignment explanation
Indices: 59905904--59905979 Score: 145
Period size: 37 Copynumber: 2.0 Consensus size: 38
59905894 AAAATCCTGC
59905904 ATCAAACTGCTTCTTGACCTCATC-TTTTATTTTCAGG
1 ATCAAACTGCTTCTTGACCTCATCTTTTTATTTTCAGG
59905941 ATCAAACTGCTTCTTGACCTCATCTTTTTATTTTCAGG
1 ATCAAACTGCTTCTTGACCTCATCTTTTTATTTTCAGG
59905979 A
1 A
59905980 CAATGTCTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 24 0.63
38 14 0.37
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (38 bp):
ATCAAACTGCTTCTTGACCTCATCTTTTTATTTTCAGG
Found at i:59914003 original size:18 final size:19
Alignment explanation
Indices: 59913958--59914005 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
59913948 CATGATATAC
59913958 ATAACATATATATAAAAACA
1 ATAACATA-ATATAAAAACA
* *
59913978 ATAA-ATAATATGAAAATA
1 ATAACATAATATAAAAACA
59913996 A-AACATAATA
1 ATAACATAATA
59914006 AAGATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAACATAATATAAAAACA
Found at i:59914132 original size:27 final size:26
Alignment explanation
Indices: 59914096--59914152 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
59914086 TATAAGTAAT
* *
59914096 TAATAAATATAATATATGTGAAAAT-A
1 TAATAAATATAAAAGATGT-AAAATAA
59914122 TAATAATATATAAAAGATGTAAAATAA
1 TAATAA-ATATAAAAGATGTAAAATAA
59914149 TAAT
1 TAAT
59914153 TTAAGGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (26 bp):
TAATAAATATAAAAGATGTAAAATAA
Found at i:59914202 original size:20 final size:20
Alignment explanation
Indices: 59914166--59914203 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59914156 AGGAAATAAT
*
59914166 ATATATAATAAGTAATAACA
1 ATATATAATAAGAAATAACA
59914186 ATATATAATTAA-AAATAA
1 ATATATAA-TAAGAAATAA
59914204 TACTCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
ATATATAATAAGAAATAACA
Found at i:59914283 original size:19 final size:19
Alignment explanation
Indices: 59914259--59914295 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59914249 AAAATAAACA
*
59914259 AATAATACAATATATATAG
1 AATAATACAATAAATATAG
*
59914278 AATAATATAATAAATATA
1 AATAATACAATAAATATA
59914296 AGACTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AATAATACAATAAATATAG
Found at i:59915810 original size:40 final size:40
Alignment explanation
Indices: 59915710--59915810 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
59915700 CTATGTTGAA
* *
59915710 ATGAATGAATTACTGTTGATATGGATGAATTACTGTTATT
1 ATGAATGAATTACTGTTTATATGGATGAACTACTGTTATT
*
59915750 ACTG-ATGAATTACTGGTTATATGGATGAACTACTAGTTA-T
1 A-TGAATGAATTACTGTTTATATGGATGAACTACT-GTTATT
*
59915790 ATGAATGAATTACAGTTTATA
1 ATGAATGAATTACTGTTTATA
59915811 CGAATAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
39 2 0.04
40 45 0.85
41 6 0.11
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.40
Consensus pattern (40 bp):
ATGAATGAATTACTGTTTATATGGATGAACTACTGTTATT
Found at i:59915815 original size:20 final size:19
Alignment explanation
Indices: 59915710--59915802 Score: 107
Period size: 20 Copynumber: 4.7 Consensus size: 19
59915700 CTATGTTGAA
59915710 ATGAATGAATTACTGTTGAT
1 ATGAATGAATTACTGTT-AT
*
59915730 ATGGATGAATTACTGTTATT
1 ATGAATGAATTACTGTTA-T
59915750 ACTG-ATGAATTACTGGTTAT
1 A-TGAATGAATTACT-GTTAT
* *
59915770 ATGGATGAACTACTAGTTAT
1 ATGAATGAATTACT-GTTAT
59915790 ATGAATGAATTAC
1 ATGAATGAATTAC
59915803 AGTTTATACG
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
19 3 0.05
20 55 0.86
21 6 0.09
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (19 bp):
ATGAATGAATTACTGTTAT
Found at i:59921102 original size:27 final size:24
Alignment explanation
Indices: 59921066--59921267 Score: 84
Period size: 26 Copynumber: 8.4 Consensus size: 24
59921056 TTTCATTTAG
*
59921066 TATTTGTTTTAAATTGTTATATCATAT
1 TATTTATTTTAAATTGTT-T-T-ATAT
* *
59921093 TATTTATTTTAATTTGTTTTGTAT
1 TATTTATTTTAAATTGTTTTATAT
*
59921117 TA-TTATTTTAAATT-ATTT-TA-
1 TATTTATTTTAAATTGTTTTATAT
* *
59921137 TA--TATTTTAAATTGCTTTATAAAC
1 TATTTATTTTAAATTG-TTT-TATAT
* *
59921161 TATTTATTTCAAATTGATTTATA-
1 TATTTATTTTAAATTGTTTTATAT
* * * *
59921184 -CTTCATTTTAAAAT-TTATATAT
1 TATTTATTTTAAATTGTTTTATAT
* * **
59921206 TATTTATTCTGAACCGTTTCATATAT
1 TATTTATTTTAAATTGTTT--TATAT
59921232 TA-TTATTTTAAACCTT-TTTTATAAAT
1 TATTTATTTTAAA--TTGTTTTAT--AT
59921258 TATTTATTTT
1 TATTTATTTT
59921268 TATATTATTT
Statistics
Matches: 131, Mismatches: 27, Indels: 34
0.68 0.14 0.18
Matches are distributed among these distances:
19 11 0.08
20 2 0.02
21 9 0.07
22 14 0.11
23 20 0.15
24 15 0.11
25 11 0.08
26 26 0.20
27 23 0.18
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (24 bp):
TATTTATTTTAAATTGTTTTATAT
Found at i:59921155 original size:19 final size:19
Alignment explanation
Indices: 59921116--59921157 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
59921106 TTGTTTTGTA
*
59921116 TTAT-TATTTTAAATTATT
1 TTATATATTTTAAATTACT
*
59921134 TTATATATTTTAAATTGCT
1 TTATATATTTTAAATTACT
59921153 TTATA
1 TTATA
59921158 AACTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTATATATTTTAAATTACT
Found at i:59921941 original size:127 final size:127
Alignment explanation
Indices: 59921715--59921944 Score: 291
Period size: 127 Copynumber: 1.8 Consensus size: 127
59921705 TCGACTTAAA
* * * * *
59921715 TAAAACAAAGGCGATGTTTGATATTTAGAAATTCGAGGGATCGTGCCCTAACGTGTTGGGTTTCG
1 TAAAACAAAAGCGATGATTGATATTTAGAAATTCGAGGAATCGTGCACTAACGTGCTGGGTTTCG
* ** ** *
59921780 ATCTTTCGTTTATTTAAATAATCAAATTTTCCTTTAAAATCTCGTCCACGTTTTCTAAACTC
66 ATCTTTCATTTATCCAAATAATCAAACATCCCTTTAAAATCTCGTCCACGTTTTCTAAACTC
* * * *
59921842 TAAAACAAAAGCGATGATTGATGTTTGGGAATTCG-GGAAATCGTGCACTAATGTGCTGGGTTTC
1 TAAAACAAAAGCGATGATTGATATTTAGAAATTCGAGG-AATCGTGCACTAACGTGCTGGGTTTC
* *
59921906 GATTTTTTATTTATCCAAATAATCAAACATCCCTTTAAA
65 GATCTTTCATTTATCCAAATAATCAAACATCCCTTTAAA
59921945 TTTCCGTCCA
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
126 2 0.02
127 83 0.98
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (127 bp):
TAAAACAAAAGCGATGATTGATATTTAGAAATTCGAGGAATCGTGCACTAACGTGCTGGGTTTCG
ATCTTTCATTTATCCAAATAATCAAACATCCCTTTAAAATCTCGTCCACGTTTTCTAAACTC
Found at i:59926921 original size:27 final size:27
Alignment explanation
Indices: 59926891--59926942 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
59926881 CCCAAAACGG
*
59926891 GTCGAGCCTGTCAAGTAGGCACGACTA
1 GTCGAGCCTGACAAGTAGGCACGACTA
* * *
59926918 GTCGTGCCTGACAGGTAGGCTCGAC
1 GTCGAGCCTGACAAGTAGGCACGAC
59926943 ACCCCCACCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (27 bp):
GTCGAGCCTGACAAGTAGGCACGACTA
Found at i:59927165 original size:19 final size:18
Alignment explanation
Indices: 59927139--59927177 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
59927129 AAAGGAGAGA
**
59927139 AAGGAGAATGAGAAGAAG
1 AAGGAGAAAAAGAAGAAG
59927157 AAGGAAGAAAAAGAAGAAG
1 AAGG-AGAAAAAGAAGAAG
59927176 AA
1 AA
59927178 AAAAAAAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (18 bp):
AAGGAGAAAAAGAAGAAG
Found at i:59927170 original size:16 final size:16
Alignment explanation
Indices: 59927151--59927185 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
59927141 GGAGAATGAG
* *
59927151 AAGAAGAAGGAAGAAA
1 AAGAAGAAGAAAAAAA
59927167 AAGAAGAAGAAAAAAA
1 AAGAAGAAGAAAAAAA
59927183 AAG
1 AAG
59927186 GTAATGTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAGAAGAAGAAAAAAA
Found at i:59927569 original size:115 final size:114
Alignment explanation
Indices: 59927449--59927815 Score: 616
Period size: 115 Copynumber: 3.2 Consensus size: 114
59927439 TTTTATAGTT
*
59927449 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGA-TTTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGAGTTTTTTTA
59927513 GTAATATATTTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
66 GTAATATA-TTTTAAAAAAA-AATTTTATAGCTATTTTATTAGTAATTTAA
59927564 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGT-AGTTTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGAGTTTTTTTA
*
59927628 GTAATATATTTTAAAAAAAAAATTTATAGCTATTTTATTAGTAATTTAA
66 GTAATATATTTTAAAAAAAAATTTTATAGCTATTTTATTAGTAATTTAA
*
59927677 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGAGTTTTTTTA
* *
59927742 GTAATATATTTAAAAAAAAAAGATTTTTATAGCTATTTTATTAGGAATTTAA
66 GTAATATATTT-TAAAAAAAA-A-TTTTATAGCTATTTTATTAGTAATTTAA
59927794 GATTAGGTTATAT--ATTGTTAGT
1 GATTAGGTTATATAAATTGTTAGT
59927816 TAGTGTATTG
Statistics
Matches: 241, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
113 83 0.34
114 32 0.13
115 86 0.36
116 1 0.00
117 39 0.16
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.50
Consensus pattern (114 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGAGTTTTTTTA
GTAATATATTTTAAAAAAAAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:59927594 original size:99 final size:101
Alignment explanation
Indices: 59927384--59927873 Score: 372
Period size: 113 Copynumber: 4.7 Consensus size: 101
59927374 TTGTTAGTAT
*
59927384 TTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATAATATATTTTAAAAAAATAATTTTATAGTT
1 TTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATAATAT-TTTTAAAAAAATAATTTTATAGCT
* *
59927449 GATTAGGTTA-TA-TAAATT--G-TTAGTGTT-TAGT--AGT-
65 -ATT---TTATTAGTAATTTAAGATTAG-GTTATA-TAAATTG
59927483 TTAGTGTATTAGTGTATTGTGATTTTTTTAGTAAT-ATATTTTTAAAAAAATAATTTTATAGCTA
1 TTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATAATATTTTTAAAAAAATAATTTTATAGCTA
59927547 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTG
66 TTTTATTAGTAATTTAAGATTAGGTTATATAAATTG
** *
59927583 TTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTAGTTTTTTTAGTAATATATTTTAAAAAAA-
1 TTAGTG--TA-----TTAGTGTATT-GTG-ATT-T--TTTTAGTAATAATAT-TTTTAAAAAAAT
*
59927647 AAATTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAATTG
53 AATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAATTG
** * *
59927696 TTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTAGTAATATATTTAAAAAAAA
1 TTAGTG--TA-----TTAGTGTATT-GTG-A-T-T--TTTTTAGTAATAATATTTTTAAAA-AAA
* *
59927761 AAGATTTTTATAGCTATTTTATTAGGAATTTAAGATTAGGTTATAT--ATTG
52 TA-A-TTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTATATAAATTG
* *
59927811 TTA--G--TTAGTGTATTGTGATTTTTTTTAGTAAT-GTA--TTTAAAAAAATAATTTTATAGTT
1 TTAGTGTATTAGTGTATTGTGA-TTTTTTTAGTAATAATATTTTTAAAAAAATAATTTTATAGCT
59927869 ATTTT
65 ATTTT
59927874 GTGTTAGTAT
Statistics
Matches: 344, Mismatches: 17, Indels: 66
0.81 0.04 0.15
Matches are distributed among these distances:
93 17 0.05
94 3 0.01
95 9 0.03
96 10 0.03
97 28 0.08
98 12 0.03
99 45 0.13
100 6 0.02
101 1 0.00
102 5 0.01
103 3 0.01
104 10 0.03
107 10 0.03
108 3 0.01
109 3 0.01
110 1 0.00
112 7 0.02
113 91 0.26
114 30 0.09
115 9 0.03
116 2 0.01
117 39 0.11
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.51
Consensus pattern (101 bp):
TTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATAATATTTTTAAAAAAATAATTTTATAGCTA
TTTTATTAGTAATTTAAGATTAGGTTATATAAATTG
Found at i:59927960 original size:15 final size:16
Alignment explanation
Indices: 59927931--59927962 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
59927921 TGTGATTTTT
59927931 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
59927947 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
59927962 T
1 T
59927963 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:59929741 original size:22 final size:22
Alignment explanation
Indices: 59929677--59929744 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
59929667 GTATTTGAAG
*
59929677 TATATACATAACATAGTA-AAAA
1 TATATACATAATATA-TATAAAA
* *
59929699 TATATA-ACTAGTA-ATGTTAAAA
1 TATATACA-TAATATAT-ATAAAA
59929721 TATATACATAATATATATAAAA
1 TATATACATAATATATATAAAA
59929743 TA
1 TA
59929745 AATATTGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
20 1 0.03
21 2 0.06
22 30 0.83
23 3 0.08
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (22 bp):
TATATACATAATATATATAAAA
Found at i:59929803 original size:22 final size:23
Alignment explanation
Indices: 59929763--59929805 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
59929753 AAAATGTATG
59929763 TACATAACATATATGAAAATATA
1 TACATAACATATATGAAAATATA
* *
59929786 TACATAATA-ATATTAAAATA
1 TACATAACATATATGAAAATA
59929806 AAATAATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (23 bp):
TACATAACATATATGAAAATATA
Found at i:59930114 original size:19 final size:19
Alignment explanation
Indices: 59930092--59930130 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
59930082 AATAACATTA
*
59930092 AAATACATACATAATATAT
1 AAATACAAACATAATATAT
* *
59930111 AAATATAAATATAATATAT
1 AAATACAAACATAATATAT
59930130 A
1 A
59930131 TATTAGAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATACAAACATAATATAT
Found at i:59930227 original size:19 final size:19
Alignment explanation
Indices: 59930203--59930241 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
59930193 TATAAATAAT
*
59930203 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
59930222 AATGATATTAGAAATATAC
1 AATGATATTAGAAATATAC
59930241 A
1 A
59930242 TAAAATAGTA
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:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:59930296 original size:22 final size:23
Alignment explanation
Indices: 59930271--59930316 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
59930261 AAGAACTAAT
59930271 AATAT-TAAAATATATACATAAC
1 AATATGTAAAATATATACATAAC
* *
59930293 AATATGTAAATTGTATACATAAC
1 AATATGTAAAATATATACATAAC
59930316 A
1 A
59930317 TAGTTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (23 bp):
AATATGTAAAATATATACATAAC
Found at i:59930539 original size:3 final size:3
Alignment explanation
Indices: 59930424--59930527 Score: 61
Period size: 3 Copynumber: 33.7 Consensus size: 3
59930414 AAAACACTAT
* * *
59930424 TAA TAA TGA TATA TAA T-A TATA TAA GTAT TAA GTAG TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TA-A TAA -TAA TAA -TAA TAA TAA TAA TAA
* * *
59930472 TAA TAA TAA TGA -AA TAC TAA TAAA TAA AAA CT-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA -TAA TAA TAA TAA TAA
* *
59930517 CAG TAA TAA TA
1 TAA TAA TAA TA
59930528 GTATAAATAA
Statistics
Matches: 76, Mismatches: 16, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
2 4 0.05
3 59 0.78
4 13 0.17
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:59932365 original size:86 final size:83
Alignment explanation
Indices: 59932171--59932558 Score: 332
Period size: 88 Copynumber: 4.6 Consensus size: 83
59932161 GTGATCCTGA
* * * * *
59932171 GCTCAACTCACTTCTCGCAATATGAGTTGACTCTTTAAAACAGACATT-AAAAACAAAAATTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGA-ATTGAAAAAC-AGAATTGAA
*
59932235 AATAGCTCAGCACGTGAGCC-AAG
64 AATA-CTCAG--CGTG-CCCTAAG
* *
59932258 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAATTTGAAAAGCAGATTTCGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAA-TTGAAAAACAGAATT-GAA
59932323 AATACTTCAGCGTGCCCTAAG
64 AATAC-TCAGCGTGCCCTAAG
* * * *
59932344 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAATAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TAAAAGA-GAATTG-AAAAACAG-AATTG
* *
59932409 AAAATACCTCAGCGTGTCCTGAG
62 AAAATA-CTCAGCGTGCCCTAAG
* *
59932432 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-AGCA--G------A-AATTGTAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAATTGAAAAACAGAATTG-AAA
* * * * *
59932487 TTCCCCAGTGTGCCCTGAG
65 ATACTCAGCGTGCCCTAAG
* *
59932506 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAATAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTA-AAAGAG-AATTGAAA
59932559 TTACCTCGGC
Statistics
Matches: 254, Mismatches: 28, Indels: 43
0.78 0.09 0.13
Matches are distributed among these distances:
74 53 0.21
75 7 0.03
76 3 0.01
77 1 0.00
79 1 0.00
83 1 0.00
85 3 0.01
86 44 0.17
87 58 0.23
88 79 0.31
89 4 0.02
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (83 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAGAGAATTGAAAAACAGAATTGAAAA
TACTCAGCGTGCCCTAAG
Found at i:59932400 original size:15 final size:15
Alignment explanation
Indices: 59932380--59932412 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
59932370 TTGATTTTTG
*
59932380 AAAAATATAAATTGA
1 AAAAATAGAAATTGA
59932395 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
59932410 AAA
1 AAA
59932413 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAAAATAGAAATTGA
Found at i:59932451 original size:88 final size:87
Alignment explanation
Indices: 59932171--59932482 Score: 341
Period size: 88 Copynumber: 3.6 Consensus size: 87
59932161 GTGATCCTGA
* * *
59932171 GCTCAACTCACTTCTCGCAATATGAGTTGACTCTTT-AAAACAGACATT-AAAAACAA-AAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTAAAAACAGAAATTGAAAAA-AAGAAATTG
* *
59932233 AAAATAGCTCAGCACGTGAGCC-AAG
65 AAAATACCTCAG--CGTG-TCCTAAG
* * * ** *
59932258 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTAAAAGAGAATTTGAAAAGCAG-ATTTCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTAAAAACAGAAATTGAAAAAAAGAAATT-G
* *
59932321 AAAATACTTCAGCGTGCCCTAAG
65 AAAATACCTCAGCGTGTCCTAAG
* *
59932344 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAAATAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTT-AAAAACAGAAATTGAAAAAA-AGAAATT
*
59932408 GAAAATACCTCAGCGTGTCCTGAG
64 GAAAATACCTCAGCGTGTCCTAAG
* *
59932432 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTT-AAAAACAGAAATTG
59932483 TAAATTCCCC
Statistics
Matches: 192, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
85 2 0.01
86 46 0.24
87 56 0.29
88 68 0.35
89 20 0.10
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (87 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGACTTTTTAAAAACAGAAATTGAAAAAAAGAAATTGA
AAATACCTCAGCGTGTCCTAAG
Found at i:59932582 original size:73 final size:73
Alignment explanation
Indices: 59932396--59932700 Score: 434
Period size: 73 Copynumber: 4.2 Consensus size: 73
59932386 ATAAATTGAA
*
59932396 AAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
59932461 ATTTTTTG
66 ATTTTTTG
* * * * *
59932469 AAAAGCAGAAATTGTAAATTCCCCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
59932534 GA-TTTTTG
65 GATTTTTTG
* * *
59932542 ACAAATAGAAATTGAAATTACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
59932607 GATTTTTTTG
65 GA-TTTTTTG
* * **
59932617 AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
59932682 GA-ATTTTG
65 GATTTTTTG
59932690 AAAACAGAAAT
1 AAAACAGAAAT
59932701 AAAAACATTA
Statistics
Matches: 205, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
72 8 0.04
73 73 0.36
74 61 0.30
75 63 0.31
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:59932699 original size:147 final size:146
Alignment explanation
Indices: 59932396--59932700 Score: 459
Period size: 147 Copynumber: 2.1 Consensus size: 146
59932386 ATAAATTGAA
59932396 AAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * **
59932461 ATTTTTTGAAAAGCAGAAATTGTAAATTCCCCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAA
66 ATTTTTTGAAAAGCAGAAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAA
*
59932526 TATGAGTTGATTTTTG
131 TATGAGTTGAATTTTG
* *
59932542 ACAAATAGAAATTGAAATTACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * **
59932607 GATTTTTTTG-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
65 GA-TTTTTTGAAAAG-CAGAAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCG
59932671 CAATATGAGTTGAATTTTG
128 CAATATGAGTTGAATTTTG
*
59932690 AAAACAGAAAT
1 AAAATAGAAAT
59932701 AAAAACATTA
Statistics
Matches: 143, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
146 1 0.01
147 76 0.53
148 66 0.46
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (146 bp):
AAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTGAAAAGCAGAAATTGAAAATACCCCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGAATTTTG
Found at i:59944535 original size:33 final size:33
Alignment explanation
Indices: 59944498--59944565 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
59944488 AGTGAATAAC
59944498 AAAATGATATAAAATGGGCGGGAAACAAAAATA
1 AAAATGATATAAAATGGGCGGGAAACAAAAATA
59944531 AAAATGATATAAAATGGGCGGGAAACAAAAATA
1 AAAATGATATAAAATGGGCGGGAAACAAAAATA
59944564 AA
1 AA
59944566 GGAGTTAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.59, C:0.06, G:0.21, T:0.15
Consensus pattern (33 bp):
AAAATGATATAAAATGGGCGGGAAACAAAAATA
Found at i:59944844 original size:3 final size:3
Alignment explanation
Indices: 59944836--59945096 Score: 59
Period size: 3 Copynumber: 86.3 Consensus size: 3
59944826 ATGTATGTAC
* * *
59944836 ATA ATA ATA TTA A-A ATA A-A ATA ATA AGTG ATA ATA GTGA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA AT-A ATA ATA
* * *
59944880 ATA AGT- ATA ATA ATA A-A TATA ATG ATGT ATGA A-A ATA ATA CT- ATA
1 ATA A-TA ATA ATA ATA ATA -ATA ATA AT-A AT-A ATA ATA ATA ATA ATA
* * * * *
59944925 TATA A-A AGTA TATA TATA AT- ATA ATA TTA AGA AGA ATA TTA A-A AAA
1 -ATA ATA A-TA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
59944971 ACTA TTA ATA ATG ATA TATA AT- ATA TATA AGTA TTA AGTA ATA ATA
1 A-TA ATA ATA ATA ATA -ATA ATA ATA -ATA A-TA ATA A-TA ATA ATA
* * * *
59945017 ATA A-A ATA CTA ATAA ATA AAA ACT- ATA ATA ATA ATA ACA GTA ATA
1 ATA ATA ATA ATA AT-A ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
* * *
59945062 ATA GT- ATAA ATA ATA TTA A-A ATA AAA ATA A-A ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
59945097 CGAGAAAAGT
Statistics
Matches: 188, Mismatches: 38, Indels: 64
0.65 0.13 0.22
Matches are distributed among these distances:
2 27 0.14
3 124 0.66
4 36 0.19
5 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:59944897 original size:19 final size:20
Alignment explanation
Indices: 59944836--59944902 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 20
59944826 ATGTATGTAC
59944836 ATAATAA-TATTAA-AATAAA
1 ATAATAAGTA-TAATAATAAA
*
59944855 ATAATAAGTGATAATAGTGAAA
1 ATAATAAGT-ATAATAAT-AAA
59944877 ATAATAAGTATAATAATAAA
1 ATAATAAGTATAATAATAAA
59944897 TATAAT
1 -ATAAT
59944903 GATGTATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 7 0.17
20 7 0.17
21 15 0.37
22 12 0.29
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
ATAATAAGTATAATAATAAA
Found at i:59945029 original size:11 final size:11
Alignment explanation
Indices: 59945010--59945096 Score: 59
Period size: 11 Copynumber: 7.5 Consensus size: 11
59945000 AGTATTAAGT
59945010 AATAATAATAA
1 AATAATAATAA
*
59945021 AATACTAAT-A
1 AATAATAATAA
* *
59945031 AATAAAAACTAT
1 AATAATAA-TAA
59945043 AATAATAATAACA
1 AATAATAAT-A-A
*
59945056 GTAATAATAGTATA
1 --AATAATAATA-A
*
59945070 AATAATATTAA
1 AATAATAATAA
*
59945081 AATAAAAATAA
1 AATAATAATAA
59945092 AATAA
1 AATAA
59945097 CGAGAAAAGT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
10 7 0.12
11 25 0.42
12 17 0.29
14 2 0.03
15 8 0.14
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (11 bp):
AATAATAATAA
Found at i:59945030 original size:50 final size:51
Alignment explanation
Indices: 59944933--59945031 Score: 114
Period size: 51 Copynumber: 1.9 Consensus size: 51
59944923 TATATAAAAG
* *
59944933 TATATATATAATATAATATTAAGAAGAATATTAAAAAAACTATTAATAATGA
1 TATATATATAATATAATATTAAG-AGAATAATAAAAAAACTACTAATAATGA
* *
59944985 TATATA-ATATATATAAGTATTAAG-TAATAATAATAAAA-TACTAATAA
1 TATATATATA-ATATAA-TATTAAGAGAATAATAAAAAAACTACTAATAA
59945032 ATAAAAACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
50 8 0.20
51 14 0.34
52 12 0.29
53 7 0.17
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (51 bp):
TATATATATAATATAATATTAAGAGAATAATAAAAAAACTACTAATAATGA
Found at i:59947229 original size:12 final size:12
Alignment explanation
Indices: 59947212--59947242 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
59947202 GCATCATGCA
59947212 CCAGAGCAGAAG
1 CCAGAGCAGAAG
*
59947224 CCAGAGCAGGAG
1 CCAGAGCAGAAG
59947236 CCAGAGC
1 CCAGAGC
59947243 TGGAACTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.29, G:0.35, T:0.00
Consensus pattern (12 bp):
CCAGAGCAGAAG
Found at i:59947434 original size:33 final size:33
Alignment explanation
Indices: 59947397--59947508 Score: 122
Period size: 33 Copynumber: 3.4 Consensus size: 33
59947387 ATTTATCTCA
*
59947397 GTACTCTACTCCTTCCGGCCCGTATCCACC-CAT
1 GTACTCTACTCCTTCCGGCCCGTATCCACCGC-C
*
59947430 GTACTCAACTCC-TCCAGAG-CCGTATCCACCGCC
1 GTACTCTACTCCTTCC-G-GCCCGTATCCACCGCC
* *
59947463 GTACTCTACTCCTTTCGGCCCATATCCACCGCC
1 GTACTCTACTCCTTCCGGCCCGTATCCACCGCC
* *
59947496 ATATTCTACTCCT
1 GTACTCTACTCCT
59947509 CTGGTTCATG
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
32 4 0.06
33 59 0.88
34 4 0.06
ACGTcount: A:0.18, C:0.44, G:0.12, T:0.27
Consensus pattern (33 bp):
GTACTCTACTCCTTCCGGCCCGTATCCACCGCC
Found at i:59950994 original size:18 final size:17
Alignment explanation
Indices: 59950947--59950995 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
59950937 TACCTTATCA
59950947 TTCTTCTTACTT-TCCT
1 TTCTTCTTACTTCTCCT
59950963 TTCTTTCCTT-CTTCTCCT
1 TTC-TT-CTTACTTCTCCT
59950981 TCTCTTCTTACTTCT
1 T-TCTTCTTACTTCT
59950996 ATTTTGTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 3 0.11
17 8 0.29
18 15 0.54
19 2 0.07
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.61
Consensus pattern (17 bp):
TTCTTCTTACTTCTCCT
Found at i:59951159 original size:27 final size:27
Alignment explanation
Indices: 59951097--59951153 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
59951087 CCTACCAAGA
* * *
59951097 AGGCACAACTAGTCGCGCTTGTCAAAT
1 AGGCTCAACTAGTCGAGCCTGTCAAAT
* *
59951124 AGGCTCAACTAGTTGAGCCTGTCAGAT
1 AGGCTCAACTAGTCGAGCCTGTCAAAT
59951151 AGG
1 AGG
59951154 TGCAACATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (27 bp):
AGGCTCAACTAGTCGAGCCTGTCAAAT
Found at i:59954569 original size:31 final size:31
Alignment explanation
Indices: 59954533--59954595 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
59954523 TCAAATTAAA
59954533 AGGGTTATTTACCAATTAAGTACTTAAAATC
1 AGGGTTATTTACCAATTAAGTACTTAAAATC
59954564 AGGGTTATTTACCAATTAAGTACTTAAAATC
1 AGGGTTATTTACCAATTAAGTACTTAAAATC
59954595 A
1 A
59954596 ATCTTCACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (31 bp):
AGGGTTATTTACCAATTAAGTACTTAAAATC
Found at i:59955621 original size:18 final size:18
Alignment explanation
Indices: 59955595--59955785 Score: 140
Period size: 18 Copynumber: 10.6 Consensus size: 18
59955585 AATTGATCGG
*
59955595 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
59955613 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
* *
59955631 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAGTCAA
**
59955648 GTTATTCAGTAGTAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
59955666 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
* *
59955685 TTATTCAATAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
59955703 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
59955721 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
59955740 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
59955757 TTATCCGGTAACAGTCAG
1 TTATTCAGTAACAGTCAA
59955775 TTATTCAGTAA
1 TTATTCAGTAA
59955786 TAATCAGCTA
Statistics
Matches: 134, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
17 19 0.14
18 101 0.75
19 14 0.10
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:59955658 original size:54 final size:54
Alignment explanation
Indices: 59955595--59955797 Score: 178
Period size: 54 Copynumber: 3.8 Consensus size: 54
59955585 AATTGATCGG
*
59955595 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGATATTCAGTAACAATTAA
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATTCAGTAACAATCAA
* ** * * * **
59955648 GTTATTCAGTAGTAGTC-ATTCATTCAGTGACAATCAGTTATTCAATAATGATCAA
1 -TTATCCAGTAACAGTCAATT-ATTCAGTAACAATCAGATATTCAGTAACAATCAA
* * * * * * *
59955703 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-ATATCCAGTAACAGTCAA
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATC-AGATATTCAGTAACAATCAA
* * * *
59955757 TTATCCGGTAACAGTCAGTTATTCAGTAATAATCAGCTATT
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATT
59955798 TTATACCTTT
Statistics
Matches: 116, Mismatches: 28, Indels: 10
0.75 0.18 0.06
Matches are distributed among these distances:
53 4 0.03
54 90 0.78
55 22 0.19
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (54 bp):
TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATTCAGTAACAATCAA
Found at i:59956060 original size:12 final size:12
Alignment explanation
Indices: 59956043--59956067 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59956033 AGTGCCGAAT
59956043 CGGTAACAGTAA
1 CGGTAACAGTAA
59956055 CGGTAACAGTAA
1 CGGTAACAGTAA
59956067 C
1 C
59956068 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:59961460 original size:18 final size:18
Alignment explanation
Indices: 59961408--59961703 Score: 145
Period size: 18 Copynumber: 16.1 Consensus size: 18
59961398 TCATTAACAA
* *
59961408 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
59961425 TCAGTAACAGTCACTTAT
1 TCAGTAACAATCAATTAT
*
59961443 TCAGTAACAATGAATTAT
1 TCAGTAACAATCAATTAT
* * * * *
59961461 TCAATAATAACCAGTTAC
1 TCAGTAACAATCAATTAT
* *
59961479 TCAGTATCGATCAATTGATCGGTT
1 TCAGTAACAATCAATT-A-----T
59961503 ATCCAGTAACAATCAATTAT
1 -T-CAGTAACAATCAATTAT
59961523 TCAGTAA-AATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
*
59961540 TCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
** *
59961559 TCAGTTGCAGTC-ATTCAT
1 TCAGTAACAATCAATT-AT
* * *
59961577 TCAGTGACAATTAGTTAT
1 TCAGTAACAATCAATTAT
**
59961595 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
59961613 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
*
59961631 TCAGTAACAGTCTAA-TAT
1 TCAGTAACAATC-AATTAT
* * *
59961649 CCAGTAACAGTCGATTA-
1 TCAGTAACAATCAATTAT
* *
59961666 TCTGGTAACAGTCAATTAT
1 TC-AGTAACAATCAATTAT
* *
59961685 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
59961703 T
1 T
59961704 TTATACCTTT
Statistics
Matches: 209, Mismatches: 51, Indels: 37
0.70 0.17 0.12
Matches are distributed among these distances:
17 24 0.11
18 151 0.72
19 18 0.09
20 1 0.00
25 2 0.01
26 13 0.06
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:59961915 original size:12 final size:12
Alignment explanation
Indices: 59961898--59961922 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59961888 AGTGCCGAAT
59961898 CGGTAACAGTAA
1 CGGTAACAGTAA
59961910 CGGTAACAGTAA
1 CGGTAACAGTAA
59961922 C
1 C
59961923 AGTAGTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:59965284 original size:32 final size:32
Alignment explanation
Indices: 59965248--59965407 Score: 248
Period size: 32 Copynumber: 5.0 Consensus size: 32
59965238 TATAACTATG
59965248 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* **
59965280 CTACTTTTTCATATACAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
59965312 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
59965344 ATACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
59965376 CTACTTTTTTATAGGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
59965408 ATTTTTTATG
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 114 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:59967465 original size:21 final size:21
Alignment explanation
Indices: 59967415--59967467 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
59967405 CGCTGTTTCT
* *
59967415 AATCTCACCGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
59967436 AATCTCACTGCTACAGTAACC
1 AATCTCACTGCTACAGTAACC
59967457 AATCTCACTGC
1 AATCTCACTGC
59967468 CACTGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:59969377 original size:18 final size:18
Alignment explanation
Indices: 59969356--59969390 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59969346 ATTTTATATT
*
59969356 TATTAAATAATTTAATTA
1 TATTAAATAATTAAATTA
*
59969374 TATTTAATAATTAAATT
1 TATTAAATAATTAAATT
59969391 TAAGTAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTAAATAATTAAATTA
Found at i:59969377 original size:22 final size:22
Alignment explanation
Indices: 59969349--59969409 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
59969339 AATTTAAATT
59969349 TTATATTTATTAAATAATTTAA
1 TTATATTTATTAAATAATTTAA
* *
59969371 TTATATTTAATAATTAAATTTAA
1 TTATATTTATTAAAT-AATTTAA
* *
59969394 GTA-ATTTATCAAATAA
1 TTATATTTATTAAATAA
59969410 ATTTTATAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 2 0.06
22 21 0.66
23 9 0.28
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTATATTTATTAAATAATTTAA
Found at i:59969788 original size:71 final size:71
Alignment explanation
Indices: 59969703--59969846 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
59969693 CTTAAAAAAA
59969703 AAAAAAACTGCTCTACTCTAATCTCAAAAATAAAAATATGTGTTATTTTCTCTCTCTTTAGGCCC
1 AAAAAAACTGCTCTACTCTAATCTCAAAAATAAAAATATGTGTTATTTTCTCTCTCTTTAGGCCC
59969768 AAAAGG
66 AAAAGG
59969774 AAAAAAACTGCTCTACTCTAATCTCAAAAATAAAAATATGTGTTATTTTCTCTCTCTTTAGGCCC
1 AAAAAAACTGCTCTACTCTAATCTCAAAAATAAAAATATGTGTTATTTTCTCTCTCTTTAGGCCC
59969839 AAAAGG
66 AAAAGG
59969845 AA
1 AA
59969847 GCGTTAAAAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (71 bp):
AAAAAAACTGCTCTACTCTAATCTCAAAAATAAAAATATGTGTTATTTTCTCTCTCTTTAGGCCC
AAAAGG
Found at i:59975106 original size:31 final size:31
Alignment explanation
Indices: 59975065--59975129 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
59975055 AACCCTTAAC
*
59975065 AGTCAAGTGACTTGAATAAAAACTTTTGAAT
1 AGTCAAGTGACTTAAATAAAAACTTTTGAAT
* *
59975096 AGTCTAGTGACTTAAATGAAAACTTTTGAAT
1 AGTCAAGTGACTTAAATAAAAACTTTTGAAT
59975127 AGT
1 AGT
59975130 TCAATGATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (31 bp):
AGTCAAGTGACTTAAATAAAAACTTTTGAAT
Found at i:59976778 original size:5 final size:5
Alignment explanation
Indices: 59976770--59976797 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
59976760 TGCGGTGCGA
59976770 TGCAG TGCAG TGCAG TGCAG TGCAG TGC
1 TGCAG TGCAG TGCAG TGCAG TGCAG TGC
59976798 GTTTAGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.39, T:0.21
Consensus pattern (5 bp):
TGCAG
Found at i:59976782 original size:15 final size:16
Alignment explanation
Indices: 59976759--59976798 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
59976749 TGTGGCGGCG
*
59976759 GTGCGGTGCGA-TGCA
1 GTGCAGTGCGAGTGCA
59976774 GTGCAGTGC-AGTGCA
1 GTGCAGTGCGAGTGCA
59976789 GTGCAGTGCG
1 GTGCAGTGCG
59976799 TTTAGCTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.15, C:0.20, G:0.45, T:0.20
Consensus pattern (16 bp):
GTGCAGTGCGAGTGCA
Found at i:59977060 original size:15 final size:15
Alignment explanation
Indices: 59977040--59977069 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59977030 GTCACGTCCC
59977040 AAAAATTAGGTTAGT
1 AAAAATTAGGTTAGT
*
59977055 AAAAATTGGGTTAGT
1 AAAAATTAGGTTAGT
59977070 GAATCAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AAAAATTAGGTTAGT
Found at i:59977637 original size:29 final size:29
Alignment explanation
Indices: 59977588--59977645 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
59977578 TGACCTCTAA
* *
59977588 TTCTTCTGTTGTCGTCCCCTTGCTATTGT
1 TTCTTCTGTTGTCGTCACCTTGCCATTGT
* *
59977617 TTCTTTTGTTGTTGTCACCTTGCCATTGT
1 TTCTTCTGTTGTCGTCACCTTGCCATTGT
59977646 GGTGTTGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.05, C:0.24, G:0.17, T:0.53
Consensus pattern (29 bp):
TTCTTCTGTTGTCGTCACCTTGCCATTGT
Found at i:59979585 original size:26 final size:26
Alignment explanation
Indices: 59979548--59979601 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
59979538 AATAGTCAAG
59979548 TTTTCTAATTAATAAAATGAGACGGT
1 TTTTCTAATTAATAAAATGAGACGGT
* *
59979574 TTTTCTACTTAATAAAATGAGATGGT
1 TTTTCTAATTAATAAAATGAGACGGT
59979600 TT
1 TT
59979602 ATGTTTTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (26 bp):
TTTTCTAATTAATAAAATGAGACGGT
Found at i:59980653 original size:42 final size:42
Alignment explanation
Indices: 59980597--59980685 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
59980587 GTCCCCTCCC
* * * * *
59980597 AAGG-CTAGGTAGTCTTGTTGTGAGTCTTGGGCTTGGGAGGG
1 AAGGACTAAGTAGTCTTATGGTGAGTCTTGGGCATGGGAAGG
*
59980638 AAGGACTAAGTAGTCTTATGGTGAGTTTTGGGCATGGGAAGG
1 AAGGACTAAGTAGTCTTATGGTGAGTCTTGGGCATGGGAAGG
*
59980680 ATGGAC
1 AAGGAC
59980686 CAAGACTAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.10
42 36 0.90
ACGTcount: A:0.21, C:0.09, G:0.40, T:0.29
Consensus pattern (42 bp):
AAGGACTAAGTAGTCTTATGGTGAGTCTTGGGCATGGGAAGG
Found at i:59984272 original size:53 final size:53
Alignment explanation
Indices: 59984197--59984303 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
59984187 CATGGAAACT
* *
59984197 TGTGATATGTGATTTCCGTATAAGACCATAGTTGGGCTATGGCATCAGTGTGA
1 TGTGATATGTGATTTCCGTATAAGACCATAGTTGAGATATGGCATCAGTGTGA
* * *
59984250 TGTGATTATGTGCTTT-CGTATAAGACTATATTTGAGATATGGCATCAGTGTGA
1 TGTGA-TATGTGATTTCCGTATAAGACCATAGTTGAGATATGGCATCAGTGTGA
59984303 T
1 T
59984304 ATGTGCTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 39 0.81
54 9 0.19
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.37
Consensus pattern (53 bp):
TGTGATATGTGATTTCCGTATAAGACCATAGTTGAGATATGGCATCAGTGTGA
Found at i:59984352 original size:45 final size:46
Alignment explanation
Indices: 59984250--59984369 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 46
59984240 ATCAGTGTGA
* * *
59984250 TGTGATTATGTGCTT-TCGTATAAGACTATATTTGAGATATGGCATCAG
1 TGTGA-TATGTGCTTCT-GTGTAAGACCATATCTGAGATA-GGCATCAG
*
59984298 TGTGATATGTGCTTCTGTGTAAGACCATATCTGGGATA-GCATCAG
1 TGTGATATGTGCTTCTGTGTAAGACCATATCTGAGATAGGCATCAG
* *
59984343 TGTGGTATGTG-ATCTGTGTAAGACCAT
1 TGTGATATGTGCTTCTGTGTAAGACCAT
59984370 GGCTGGGCTA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 15 0.23
45 17 0.26
47 27 0.42
48 6 0.09
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (46 bp):
TGTGATATGTGCTTCTGTGTAAGACCATATCTGAGATAGGCATCAG
Found at i:59984376 original size:44 final size:45
Alignment explanation
Indices: 59984291--59984376 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
59984281 TTGAGATATG
* *
59984291 GCATCAGTGTGATATGTGCTTCTGTGTAAGACCATATCTGGGATA
1 GCATCAGTGTGATATGTGCATCTGTGTAAGACCATAGCTGGGATA
* *
59984336 GCATCAGTGTGGTATGTG-ATCTGTGTAAGACCATGGCTGGG
1 GCATCAGTGTGATATGTGCATCTGTGTAAGACCATAGCTGGG
59984377 CTATGGCTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.54
45 17 0.46
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.31
Consensus pattern (45 bp):
GCATCAGTGTGATATGTGCATCTGTGTAAGACCATAGCTGGGATA
Found at i:59987166 original size:130 final size:130
Alignment explanation
Indices: 59986917--59987288 Score: 442
Period size: 130 Copynumber: 2.9 Consensus size: 130
59986907 AAAATTCTTC
* * * *
59986917 AAAACGAAGACGAAATTTGATGTTCGGCGATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTACAA
* * * * *
59986982 TTTCGTATTTGCTCAAAATAATCAAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCT
66 TTTCGCATTTGTTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * *
59987047 TAAATGAAGATGAGATTTGATGTTTGGCCATTCGCGGAATCGTGCCCTAACGTGTTGGGTTACAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTACAA
* * * ** * * *
59987112 TTTCGCATTTGTTCAAAATAATCGAATATCACTTTAAAATTTTGCTCGTGTCTTTTAAAATCTCT
66 TTTCGCATTTGTTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * * *
59987177 AAAACGAAGGCGATATGTGATATTTGGCAATTCGCGGGATCATGCCCTAACGTGTTGGG-TAGCA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTA-CA
* *
59987241 ATTTCCCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTC
65 ATTTCGC-ATTTGTTCAAAATAATCAAATATCCCTTCAAAATTTCACTC
59987289 GGCTATTCTA
Statistics
Matches: 202, Mismatches: 38, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
129 2 0.01
130 199 0.99
131 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (130 bp):
AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTACAA
TTTCGCATTTGTTCAAAATAATCAAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
Found at i:59990904 original size:21 final size:21
Alignment explanation
Indices: 59990874--59990925 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
59990864 TGCATTCATG
59990874 CATT-TGCATTTGCATCATAT
1 CATTATGCATTTGCATCATAT
59990894 CATTATGCATTTGCATCATAT
1 CATTATGCATTTGCATCATAT
59990915 CATTATGCATT
1 CATTATGCATT
59990926 AAAGGCCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 27 0.87
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (21 bp):
CATTATGCATTTGCATCATAT
Found at i:59999184 original size:44 final size:44
Alignment explanation
Indices: 59999121--59999492 Score: 555
Period size: 44 Copynumber: 8.5 Consensus size: 44
59999111 TAAATTCTGT
* * *
59999121 AGATTTAGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATAGC
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
59999165 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
* *
59999209 AGATTTGACATCTCTGTATTGGCGGAGAACAGATCGAAGATAGC
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
* * * *
59999253 AGATTTGACATATCTGTATTGGCGGAGATCAGATCGAAAATAGC
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
* * * *
59999297 AGATTTGGCATATCTGTATTGGCGGAGAGCAGATCAAAGATCGT
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
***
59999341 AGATTTGGCATCTCTGTATTGGTAAAGAGCAGATCGAAGATAGC
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
* *
59999385 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGATAGC
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
*
59999429 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
**
59999473 AGATTTGGTGTCTCTGTATT
1 AGATTTGGCATCTCTGTATT
59999493 TACAAAGAGC
Statistics
Matches: 301, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 301 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
Found at i:60003611 original size:2 final size:2
Alignment explanation
Indices: 60003604--60003635 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
60003594 ATGTATCTAC
*
60003604 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60003636 TTAAACAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:60006165 original size:36 final size:37
Alignment explanation
Indices: 60006108--60006194 Score: 104
Period size: 36 Copynumber: 2.3 Consensus size: 37
60006098 TCGCTGGGGA
*
60006108 TGATTTTTTTTTTTAAAAAAAGTAGATACGAGATGAGG
1 TGATTTTTTTTTTT-AAAAAAGTAGATACGAGACGAGG
* * * *
60006146 TGATTTTTTTTTTT-GAAAAGTGGGTACGAGGCGAGG
1 TGATTTTTTTTTTTAAAAAAGTAGATACGAGACGAGG
60006182 TGGATTTTTTTTT
1 T-GATTTTTTTTT
60006195 ATGACCAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 18 0.42
37 11 0.26
38 14 0.33
ACGTcount: A:0.26, C:0.03, G:0.25, T:0.45
Consensus pattern (37 bp):
TGATTTTTTTTTTTAAAAAAGTAGATACGAGACGAGG
Found at i:60006369 original size:14 final size:14
Alignment explanation
Indices: 60006334--60006376 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
60006324 CCACATATTT
*
60006334 TTATGTTTAAAT-A
1 TTATGTTTGAATAA
60006347 TT-T-TTTGAATAA
1 TTATGTTTGAATAA
60006359 TTATGTTTGAATAA
1 TTATGTTTGAATAA
60006373 TTAT
1 TTAT
60006377 TTGGTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 6 0.23
12 4 0.15
13 3 0.12
14 13 0.50
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (14 bp):
TTATGTTTGAATAA
Found at i:60015416 original size:21 final size:21
Alignment explanation
Indices: 60015390--60015430 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60015380 ATCTGCTCAA
* *
60015390 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
60015411 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
60015431 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:60031752 original size:13 final size:14
Alignment explanation
Indices: 60031731--60031759 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
60031721 TGAAAAATGG
60031731 ATTAGAAAATATTT
1 ATTAGAAAATATTT
60031745 ATTA-AAAATATTT
1 ATTAGAAAATATTT
60031758 AT
1 AT
60031760 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:60032320 original size:31 final size:32
Alignment explanation
Indices: 60032271--60032334 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
60032261 ATATTAAATA
*
60032271 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
60032302 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
60032334 A
1 A
60032335 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:60033282 original size:15 final size:15
Alignment explanation
Indices: 60033259--60033303 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
60033249 TATCAAATTT
60033259 ATATTGATTGAAATA
1 ATATTGATTGAAATA
* * *
60033274 ATTTTGATTGAATTT
1 ATATTGATTGAAATA
60033289 ATATTGATTGAAATA
1 ATATTGATTGAAATA
60033304 TAATATATAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (15 bp):
ATATTGATTGAAATA
Found at i:60033830 original size:18 final size:19
Alignment explanation
Indices: 60033807--60033880 Score: 63
Period size: 19 Copynumber: 4.2 Consensus size: 19
60033797 AATGAAACGA
60033807 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
60033825 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
* * *
60033844 GAAA---ACATA-CA-CTT
1 GAAATTGAGATATGAGATT
60033858 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
60033877 GAAA
1 GAAA
60033881 ACATACACCA
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 4 0.09
17 4 0.09
18 9 0.21
19 15 0.35
20 4 0.09
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:60033861 original size:33 final size:33
Alignment explanation
Indices: 60033823--60033888 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
60033813 GAATTGAGAA
60033823 TTGAAATTGAGATATGAGATTGAAAACATACAC
1 TTGAAATTGAGATATGAGATTGAAAACATACAC
60033856 TTGAAATTGAGATATGAGATTGAAAACATACAC
1 TTGAAATTGAGATATGAGATTGAAAACATACAC
60033889 CAAAAGGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.27
Consensus pattern (33 bp):
TTGAAATTGAGATATGAGATTGAAAACATACAC
Found at i:60035151 original size:60 final size:60
Alignment explanation
Indices: 60035080--60035209 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 60
60035070 AACTGGGCAT
* *
60035080 TAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTACAGTGTC-AGAGTATATTGGGCC
1 TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACA-AGTCGAGA-TATATTGGGCC
* *
60035140 TAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATATTGGGCC
1 TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTGGGCC
*
60035200 TTGCCCATAT
1 TAGCCCATAT
60035210 TAACACAGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
60 55 0.87
61 8 0.13
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (60 bp):
TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACAAGTCGAGATATATTGGGCC
Done.