Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
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: 15579451
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 73860 characters in sequence are not A, C, G, or T
File 30 of 32
Found at i:14336041 original size:9 final size:9
Alignment explanation
Indices: 14336019--14336049 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
14336009 TTTTCAGTAT
14336019 ATATATAT-
1 ATATATATG
14336027 ATATATATG
1 ATATATATG
14336036 ATATATATG
1 ATATATATG
14336045 ATATA
1 ATATA
14336050 AGTGAAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (9 bp):
ATATATATG
Found at i:14340778 original size:149 final size:149
Alignment explanation
Indices: 14340508--14340802 Score: 527
Period size: 149 Copynumber: 2.0 Consensus size: 149
14340498 CAGTGTCGAA
14340508 GGGATACCTTATCTTGTTATGGTTGTGAGTTGCCTAGACATGTGATAAGGAAATGTCCTAAGGCT
1 GGGATACCTTATCTTGTTATGGTTGTGAGTTGCCTAGACATGTGATAAGGAAATGTCCTAAGGCT
* * * *
14340573 CGTTAGTTAGAGGGACCAGTTCACCCAGCTATAGCACCTACTTTTATTGTTGCACAATGATTAAA
66 CATTAGTCAGAGGGACCAGTTCACCAAGCTATAGCACCTACTTTTATTATTGCACAATGATTAAA
14340638 AAGGTTAAAAAAGCTAGGG
131 AAGGTTAAAAAAGCTAGGG
* *
14340657 GGGATACCTTATCTTGTTATGGTTGTGAGTTGCCTAGACATGTGATAAGGAAATGTCTTAAGGGT
1 GGGATACCTTATCTTGTTATGGTTGTGAGTTGCCTAGACATGTGATAAGGAAATGTCCTAAGGCT
14340722 CATTAGTCAGAGGGACCAGTTCACCAAGCTATAGCACCTACTTTTATTATTGCACAATGATTAAA
66 CATTAGTCAGAGGGACCAGTTCACCAAGCTATAGCACCTACTTTTATTATTGCACAATGATTAAA
*
14340787 GAGGTTAAAAAAGCTA
131 AAGGTTAAAAAAGCTA
14340803 AGGGTAAAGG
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 139 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (149 bp):
GGGATACCTTATCTTGTTATGGTTGTGAGTTGCCTAGACATGTGATAAGGAAATGTCCTAAGGCT
CATTAGTCAGAGGGACCAGTTCACCAAGCTATAGCACCTACTTTTATTATTGCACAATGATTAAA
AAGGTTAAAAAAGCTAGGG
Found at i:14349676 original size:10 final size:10
Alignment explanation
Indices: 14349661--14349685 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14349651 TAGGTGGTAG
14349661 AAATTAAAAT
1 AAATTAAAAT
14349671 AAATTAAAAT
1 AAATTAAAAT
14349681 AAATT
1 AAATT
14349686 TATATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:14349759 original size:15 final size:13
Alignment explanation
Indices: 14349739--14349772 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
14349729 TTAATATTTC
14349739 AAAAAAAGAAATTGA
1 AAAAAAAGAAA--GA
14349754 AAAAAAAGAAAGA
1 AAAAAAAGAAAGA
14349767 AAAAAA
1 AAAAAA
14349773 TAAATTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
15 11 0.58
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
AAAAAAAGAAAGA
Found at i:14357574 original size:19 final size:20
Alignment explanation
Indices: 14357538--14357580 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
14357528 CAATTAGGAG
14357538 GCCATGATGCATTTCTAGAT
1 GCCATGATGCATTTCTAGAT
14357558 GCCATGATGCA-TTCTAGAT
1 GCCATGATGCATTTCTAGAT
14357577 GCCA
1 GCCA
14357581 ATATTAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (20 bp):
GCCATGATGCATTTCTAGAT
Found at i:14360695 original size:2 final size:2
Alignment explanation
Indices: 14360690--14360719 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14360680 TGTTTGTTTG
14360690 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14360720 GCCTAGATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14366471 original size:76 final size:76
Alignment explanation
Indices: 14366345--14366496 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
14366335 CTTACCCTAG
*
14366345 AAGCCATTATAAAATAATCTTTATAGGCATAGCATAGTTGCCAAAGAATCACATCGAATTCAATT
1 AAGCCATTATAAAATAATCTTTATAGGCATAGCATAGTTGCCAAAGAATCACATCAAATTCAATT
14366410 TCATTTTCGCT
66 TCATTTTCGCT
14366421 AAGCCATTATAAAATAATCTTTATAGGCATAGCATAGTTGCCAAAGAATCACATCAAATTCAATT
1 AAGCCATTATAAAATAATCTTTATAGGCATAGCATAGTTGCCAAAGAATCACATCAAATTCAATT
14366486 TCATTTTCGCT
66 TCATTTTCGCT
14366497 TACTATGAAG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (76 bp):
AAGCCATTATAAAATAATCTTTATAGGCATAGCATAGTTGCCAAAGAATCACATCAAATTCAATT
TCATTTTCGCT
Found at i:14385220 original size:19 final size:18
Alignment explanation
Indices: 14385160--14385218 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 18
14385150 AAGTAATTAG
*
14385160 GAGAGAGA-AAATGAGGA
1 GAGAGAGAGAAAGGAGGA
* * *
14385177 TAGAGAGACAAAGGAGAA
1 GAGAGAGAGAAAGGAGGA
14385195 G-GAGA-AGAAAGGAGGA
1 GAGAGAGAGAAAGGAGGA
14385211 GAGAGAGA
1 GAGAGAGA
14385219 AGGGAGTGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
16 10 0.30
17 15 0.45
18 8 0.24
ACGTcount: A:0.53, C:0.02, G:0.42, T:0.03
Consensus pattern (18 bp):
GAGAGAGAGAAAGGAGGA
Found at i:14387368 original size:108 final size:108
Alignment explanation
Indices: 14387179--14387378 Score: 310
Period size: 108 Copynumber: 1.9 Consensus size: 108
14387169 AACTATATTG
* * * * *
14387179 ATTTAGTTACAATTTTCACAATTTGCAAATACACATTTTTTTGAAATTATTTAACTCTTACCCAA
1 ATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTGAAATGATTCAACTCTTACCCAA
* *
14387244 TTTGCTTTTTATTTAAATTTGCTCAAATTAGCAAAATATGTTA
66 TTTACCTTTTATTTAAATTTGCTCAAATTAGCAAAATATGTTA
* *
14387287 ATTTAGTTGCAACTTTCACAATTTACAAATATACATTCTTTTGAAATGATTCAACTCTTACCCAA
1 ATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTGAAATGATTCAACTCTTACCCAA
*
14387352 TTTACCTTTTATTTAAATTTTCTCAAA
66 TTTACCTTTTATTTAAATTTGCTCAAA
14387379 ATTTCTTATA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 82 1.00
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.45
Consensus pattern (108 bp):
ATTTAGTTACAACTTTCACAATTTACAAATACACATTCTTTTGAAATGATTCAACTCTTACCCAA
TTTACCTTTTATTTAAATTTGCTCAAATTAGCAAAATATGTTA
Found at i:14388359 original size:14 final size:15
Alignment explanation
Indices: 14388338--14388375 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
14388328 TCTCAATGCC
*
14388338 ACATCATCAAAAGTG
1 ACATCATCAAAACTG
*
14388353 ACA-CATCAACACTG
1 ACATCATCAAAACTG
14388367 ACATCATCA
1 ACATCATCA
14388376 TTGACGTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.45, C:0.29, G:0.08, T:0.18
Consensus pattern (15 bp):
ACATCATCAAAACTG
Found at i:14389983 original size:48 final size:48
Alignment explanation
Indices: 14389908--14390005 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 48
14389898 ACCCTAATTG
* *
14389908 CAATTTTGTCTAACAAGTTTCTAAACAACATTT-AGGGTTTATGACTAT
1 CAATTTTGTCTAACAAGTTCCTAAACAACATTTGA-GGTTAATGACTAT
* * *
14389956 CAATTTTGTCTAATTAA-TTCCTGAACAATATTTGAGGTTAATGACTAT
1 CAATTTTGTCTAA-CAAGTTCCTAAACAACATTTGAGGTTAATGACTAT
14390004 CA
1 CA
14390006 TAATATAGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
48 40 0.93
49 3 0.07
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (48 bp):
CAATTTTGTCTAACAAGTTCCTAAACAACATTTGAGGTTAATGACTAT
Found at i:14390648 original size:31 final size:31
Alignment explanation
Indices: 14390607--14390670 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
14390597 AACTTAGTTT
* * *
14390607 TTCTTGATGAACTGGTACTGCAAATTATCTC
1 TTCTTCATGAACTAGTACTGCAAATTAACTC
* *
14390638 TTCTTCATGAACTAGTGCTGCAACTTAACTC
1 TTCTTCATGAACTAGTACTGCAAATTAACTC
14390669 TT
1 TT
14390671 TTAAAGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTCTTCATGAACTAGTACTGCAAATTAACTC
Found at i:14392925 original size:2 final size:2
Alignment explanation
Indices: 14392920--14392953 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14392910 TGCGCACGTG
14392920 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14392954 AACATATCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14396886 original size:462 final size:462
Alignment explanation
Indices: 14395805--14397652 Score: 3154
Period size: 462 Copynumber: 4.0 Consensus size: 462
14395795 AATCAGATTT
* * * *
14395805 AATGATTAAAGGATATGATGCGTAAAGGGAGTTAGCAAAGAGCTTTAGAGCCTTTAGAATAGCCA
1 AATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCCTTTAGAATAGCCA
* *
14395870 TTAGCTTTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTACCA
66 TTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTATCA
* * *
14395935 TGAGAAACCGTACCTAGCATAATGCGAAGAGAATCTAATTCGTTAAAAATACTCCATTTGTCGCA
131 TCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCATTTGTCTCA
* *
14396000 CGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAGTGCGTGAATCAGATTCAATGATTAAAG
196 TGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGATTAAAG
14396065 AATATGATGCGTAAGGGGAGTCAGCAAAGAGCTTTTAGAGCCTTTAGAATGGCCATTAGCTCTGC
261 AATATGATGCGTAAGGGGAGTCAGCAAAGAGC-TTTAGAGCCTTTAGAATGGCCATTAGCTCTGC
*
14396130 ATAGTTGGAGTCATGTAAGCCAAAATGGT-AAAGAAATAAGCCAACTACATTACTATCAGGATCT
325 ATAGTTGGAGTCATGTAAGCCAAAAGGGTAAAAG-AATAAGCCAACTACATTACTATCAGGATCT
14396194 CAAAGAACATCA-CACAACTAGTAGGTCCTAGCTTGCCTTTGGCCGAGTCGTCAAC-TTAAATTT
389 CAAAGAACATCACCACAACTAGTAGGTCCTAGCTTGCCTTTGGCCGAGTCGTCAACATTAAATTT
14396257 GAATTCACC
454 GAATTCACC
*
14396266 AATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCTTTTAGAATAGCCA
1 AATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCCTTTAGAATAGCCA
14396331 TTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTATCA
66 TTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTATCA
*
14396396 TCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCTATTTGTCTCA
131 TCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCATTTGTCTCA
14396461 TGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGATTAAAG
196 TGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGATTAAAG
14396526 AATATGATGCGTAAGGGGAGTCAGCAAAGAGCTTTAGAGCCTTTAGAATGGCCATTAGCTCTGCA
261 AATATGATGCGTAAGGGGAGTCAGCAAAGAGCTTTAGAGCCTTTAGAATGGCCATTAGCTCTGCA
*
14396591 TAGTTGGAGTCATGTAAGCCAAAATGGTAAAAGAATAAGCCAACTACATTACTATCAGGATCTCA
326 TAGTTGGAGTCATGTAAGCCAAAAGGGTAAAAGAATAAGCCAACTACATTACTATCAGGATCTCA
*
14396656 AAGAACATCACCACAACTAGTAGGTCCTAGCTTGCCTTTGGCCGAGTCGTCAACGTTAAATTTGA
391 AAGAACATCACCACAACTAGTAGGTCCTAGCTTGCCTTTGGCCGAGTCGTCAACATTAAATTTGA
14396721 ATTCACC
456 ATTCACC
*
14396728 AATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCTTTTAGAATAGCCA
1 AATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCCTTTAGAATAGCCA
14396793 TTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTATCA
66 TTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTATCA
*
14396858 TCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCTATTTGTCTCA
131 TCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCATTTGTCTCA
14396923 TGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGATTAAAG
196 TGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGATTAAAG
*
14396988 -ATATGATGCAT-AGGGGAGTCAGCAAAGAGCTTTAGAGCCTTTAGAATGGCCATTAGCTCTGC-
261 AATATGATGCGTAAGGGGAGTCAGCAAAGAGCTTTAGAGCCTTTAGAATGGCCATTAGCTCTGCA
* * *
14397050 TAGTTGGGGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTACTATCAGGATCTCG
326 TAGTTGGAGTCATGTAAGCCAAAAGGGTAAAAGAATAAGCCAACTACATTACTATCAGGATCTCA
* *
14397115 AAGAACATCACCACAACTAGTAGGTCTTGGCTTGCCTTTGGCCGAGTCGTCAACATTAAATTTGA
391 AAGAACATCACCACAACTAGTAGGTCCTAGCTTGCCTTTGGCCGAGTCGTCAACATTAAATTTGA
*
14397180 ATTGACC
456 ATTCACC
*
14397187 AATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGCTTTAGAGCCTTTAGAATAGCCA
1 AATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCCTTTAGAATAGCCA
* ******
14397252 TTAGCTCTGTGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACANNNNNN
66 TTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTATCA
****
14397317 NNNNAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCATTTGTCTCA
131 TCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCATTTGTCTCA
* *
14397382 TGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAGTGCGTGAATCAGATTCAATTATTAAAG
196 TGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGATTAAAG
* * *
14397447 AATATGATGTGTTAA-GGGAGTCAACAAAGAGCTTTAGAGCCTTTAGAATGGCCATTAGCTCTGA
261 AATATGATGCG-TAAGGGGAGTCAGCAAAGAGCTTTAGAGCCTTTAGAATGGCCATTAGCTCTGC
* * * *
14397511 ATAGTTAGAGTCATGTAAGCTAAGAGGGTAAAAGAATAAGCCAACTACATTACTATCAGAATCTC
325 ATAGTTGGAGTCATGTAAGCCAAAAGGGTAAAAGAATAAGCCAACTACATTACTATCAGGATCTC
* * * *
14397576 GAAGAACATCACCACAACCAGTAGCT-CTTGTCTTGCCTTTGGCCGAGTCGTCAACATTAAATTT
390 AAAGAACATCACCACAACTAGTAGGTCCTAG-CTTGCCTTTGGCCGAGTCGTCAACATTAAATTT
14397640 GAATTCACC
454 GAATTCACC
14397649 AATG
1 AATG
14397653 GGGGGTGGAG
Statistics
Matches: 1328, Mismatches: 51, Indels: 15
0.95 0.04 0.01
Matches are distributed among these distances:
459 373 0.28
460 162 0.12
461 386 0.29
462 407 0.31
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (462 bp):
AATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCCTTTAGAATAGCCA
TTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTATCA
TCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCATTTGTCTCA
TGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGATTAAAG
AATATGATGCGTAAGGGGAGTCAGCAAAGAGCTTTAGAGCCTTTAGAATGGCCATTAGCTCTGCA
TAGTTGGAGTCATGTAAGCCAAAAGGGTAAAAGAATAAGCCAACTACATTACTATCAGGATCTCA
AAGAACATCACCACAACTAGTAGGTCCTAGCTTGCCTTTGGCCGAGTCGTCAACATTAAATTTGA
ATTCACC
Found at i:14397588 original size:921 final size:923
Alignment explanation
Indices: 14395805--14397652 Score: 3152
Period size: 921 Copynumber: 2.0 Consensus size: 923
14395795 AATCAGATTT
* *
14395805 AATGATTAAAGGATATGATGCGTAAAGGGAGTTAGCAAAGAGCTTTAGAGCCTTTAGAATAGCCA
1 AATGATTAAAGGATATGATGCATAAAGGGAGTTAGCAAAGAGATTTAGAGCCTTTAGAATAGCCA
*
14395870 TTAGCTTTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTACCA
66 TTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTACCA
* *
14395935 TGAGAAACCGTACCTAGCATAATGCGAAGAGAATCTAATTCGTTAAAAATACTCCATTTGTCGCA
131 TCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCATTTGTCGCA
*
14396000 CGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAGTGCGTGAATCAGATTCAATGATTAAAG
196 CGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGATTAAAG
*
14396065 AATATGATGCGTAAGGGGAGTCAGCAAAGAGCTTTTAGAGCCTTTAGAATGGCCATTAGCTCTGC
261 AATATGATGCATAAGGGGAGTCAGCAAAGAGCTTTTAGAGCCTTTAGAATGGCCATTAGCTCTGC
*
14396130 ATAGTTGGAGTCATGTAAGCCAAAATGGTAAAGAAATAAGCCAACTACATTACTATCAGGATCTC
326 ATAGTTGGAGTCATGTAAGCCAAAAGGGTAAAGAAATAAGCCAACTACATTACTATCAGGATCTC
14396195 AAAGAACATCACACAACTAGTAGGTCCTAGCTTGCCTTTGGCCGAGTCGTCAACTTAAATTTGAA
391 AAAGAACATCACACAACTAGTAGGTCCTAGCTTGCCTTTGGCCGAGTCGTCAACTTAAATTTGAA
*
14396260 TTCACCAATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCTTTTAGAA
456 TTCACCAATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCCTTTAGAA
14396325 TAGCCATTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACA
521 TAGCCATTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACA
*
14396390 TTATCATCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCTATTT
586 TTATCATCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCATTT
14396455 GTCTCATGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGA
651 GTCTCATGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGA
*
14396520 TTAAAGAATATGATGCGTAAGGGGAGTCAGCAAAGAGCTTTAGAGCCTTTAGAATGGCCATTAGC
716 TTAAAGAATATGATGCGTAAGGGGAGTCAACAAAGAGCTTTAGAGCCTTTAGAATGGCCATTAGC
* * * *
14396585 TCTGCATAGTTGGAGTCATGTAAGCCAAAATGGTAAAAGAATAAGCCAACTACATTACTATCAGG
781 TCTGAATAGTTAGAGTCATGTAAGCCAAAAGGGTAAAAGAATAAGCCAACTACATTACTATCAGA
* * *
14396650 ATCTCAAAGAACATCACCACAACTAGTAGGTCCTAG-CTTGCCTTTGGCCGAGTCGTCAACGTTA
846 ATCTCAAAGAACATCACCACAACCAGTAGCT-CTAGTCTTGCCTTTGGCCGAGTCGTCAACATTA
14396714 AATTTGAATTCACC
910 AATTTGAATTCACC
* * *
14396728 AATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCTTTTAGAATAGCCA
1 AATGATTAAAGGATATGATGCATAAAGGGAGTTAGCAAAGAGATTTAGAGCCTTTAGAATAGCCA
*
14396793 TTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTATCA
66 TTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTACCA
* *
14396858 TCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCTATTTGTCTCA
131 TCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCATTTGTCGCA
*
14396923 TGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGATTAAAG
196 CGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGATTAAAG
14396988 -ATATGATGCAT-AGGGGAGTCAGCAAAGAGC-TTTAGAGCCTTTAGAATGGCCATTAGCTCTGC
261 AATATGATGCATAAGGGGAGTCAGCAAAGAGCTTTTAGAGCCTTTAGAATGGCCATTAGCTCTGC
* *
14397050 -TAGTTGGGGTCATGTAAGCCAAGAGGGTAAA-AGAATAAGCCAACTACATTACTATCAGGATCT
326 ATAGTTGGAGTCATGTAAGCCAAAAGGGTAAAGA-AATAAGCCAACTACATTACTATCAGGATCT
* * *
14397113 CGAAGAACATCACCACAACTAGTAGGTCTTGGCTTGCCTTTGGCCGAGTCGTCAACATTAAATTT
390 CAAAGAACATCA-CACAACTAGTAGGTCCTAGCTTGCCTTTGGCCGAGTCGTCAAC-TTAAATTT
* *
14397178 GAATTGACCAATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGCTTTAGAGCCTTTA
453 GAATTCACCAATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCCTTTA
*
14397243 GAATAGCCATTAGCTCTGTGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACT
518 GAATAGCCATTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACT
**********
14397308 ACANNNNNNNNNNAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCA
583 ACATTATCATCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCA
*
14397373 TTTGTCTCATGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAGTGCGTGAATCAGATTCAA
648 TTTGTCTCATGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAA
* *
14397438 TTATTAAAGAATATGATGTGTTAA-GGGAGTCAACAAAGAGCTTTAGAGCCTTTAGAATGGCCAT
713 TGATTAAAGAATATGATGCG-TAAGGGGAGTCAACAAAGAGCTTTAGAGCCTTTAGAATGGCCAT
* *
14397502 TAGCTCTGAATAGTTAGAGTCATGTAAGCTAAGAGGGTAAAAGAATAAGCCAACTACATTACTAT
777 TAGCTCTGAATAGTTAGAGTCATGTAAGCCAAAAGGGTAAAAGAATAAGCCAACTACATTACTAT
* *
14397567 CAGAATCTCGAAGAACATCACCACAACCAGTAGCTCTTGTCTTGCCTTTGGCCGAGTCGTCAACA
842 CAGAATCTCAAAGAACATCACCACAACCAGTAGCTCTAGTCTTGCCTTTGGCCGAGTCGTCAACA
14397632 TTAAATTTGAATTCACC
907 TTAAATTTGAATTCACC
14397649 AATG
1 AATG
14397653 GGGGGTGGAG
Statistics
Matches: 870, Mismatches: 50, Indels: 12
0.93 0.05 0.01
Matches are distributed among these distances:
918 1 0.00
919 69 0.08
920 76 0.09
921 464 0.53
922 13 0.01
923 247 0.28
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (923 bp):
AATGATTAAAGGATATGATGCATAAAGGGAGTTAGCAAAGAGATTTAGAGCCTTTAGAATAGCCA
TTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACATTACCA
TCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCATTTGTCGCA
CGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGATTAAAG
AATATGATGCATAAGGGGAGTCAGCAAAGAGCTTTTAGAGCCTTTAGAATGGCCATTAGCTCTGC
ATAGTTGGAGTCATGTAAGCCAAAAGGGTAAAGAAATAAGCCAACTACATTACTATCAGGATCTC
AAAGAACATCACACAACTAGTAGGTCCTAGCTTGCCTTTGGCCGAGTCGTCAACTTAAATTTGAA
TTCACCAATGATTAAAGGATATTATGCATAAGGGGAGTTAGCAAAGAGATTTAGAGCCTTTAGAA
TAGCCATTAGCTCTGCGTAGTTGGAGTCATGTAAGCCAAGAGGGTAAAAGAATAAGCCAACTACA
TTATCATCAGAAACCGTACCTAGCATAATGCAAAGAGAATCTAATTCGTTAAAAATACTCCATTT
GTCTCATGGTCACTTTTCAATTGAGTTAATCCATGAGATAGCAATGCGTGAATCAGATTCAATGA
TTAAAGAATATGATGCGTAAGGGGAGTCAACAAAGAGCTTTAGAGCCTTTAGAATGGCCATTAGC
TCTGAATAGTTAGAGTCATGTAAGCCAAAAGGGTAAAAGAATAAGCCAACTACATTACTATCAGA
ATCTCAAAGAACATCACCACAACCAGTAGCTCTAGTCTTGCCTTTGGCCGAGTCGTCAACATTAA
ATTTGAATTCACC
Found at i:14403707 original size:28 final size:28
Alignment explanation
Indices: 14403667--14403722 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
14403657 CAATGATTTT
* *
14403667 GCAAAACTATATGAAGCAAATTTTGCCA
1 GCAAAACAATATGAAGCAAAGTTTGCCA
14403695 GCAAAACAATATGAAGCAAAGTTTGCCA
1 GCAAAACAATATGAAGCAAAGTTTGCCA
14403723 ACCATGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (28 bp):
GCAAAACAATATGAAGCAAAGTTTGCCA
Found at i:14410576 original size:34 final size:33
Alignment explanation
Indices: 14410519--14410594 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 33
14410509 TTTATAATGT
14410519 TATAAT-TAAAATAAAAATATTAAAATAAAATA
1 TATAATATAAAATAAAAATATTAAAATAAAATA
14410551 TATAATATAAGAATCAAAAA-ATTAAAATAAAATA
1 TATAATATAA-AAT-AAAAATATTAAAATAAAATA
14410585 -A-AATATAAAA
1 TATAATATAAAA
14410595 AATTAAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
31 2 0.05
32 13 0.32
33 4 0.10
34 17 0.41
35 5 0.12
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (33 bp):
TATAATATAAAATAAAAATATTAAAATAAAATA
Found at i:14410640 original size:82 final size:83
Alignment explanation
Indices: 14410539--14410710 Score: 196
Period size: 82 Copynumber: 2.1 Consensus size: 83
14410529 ATAAAAATAT
14410539 TAAAATAAAATATATAATATAAGAATCAAAAAATTA-A-AATAAAATAAAATATAAAAAAT-TAA
1 TAAAATAAAATATATAATAT-AGAAT-AAAAAATTATATAA-AAAATAAAA-ATAAAAAATATAA
14410601 AATT-TATATAATATAGGTAAAA
62 AATTATA-ATAATATAGGTAAAA
* * *
14410623 TAAATTAAAATA-A-AATATATAATAAAAAATTATATTAAAAAATAAAAATATAAAATATAAAAT
1 TAAAATAAAATATATAATATAGAATAAAAAATTATA-TAAAAAATAAAAATAAAAAATATAAAAT
* *
14410686 TATAATAATAAATG-AAAA
65 TATAATAATATAGGTAAAA
14410704 TAAAATA
1 TAAAATA
14410711 TATGACATTA
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
80 9 0.12
81 23 0.30
82 29 0.38
83 5 0.06
84 11 0.14
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (83 bp):
TAAAATAAAATATATAATATAGAATAAAAAATTATATAAAAAATAAAAATAAAAAATATAAAATT
ATAATAATATAGGTAAAA
Found at i:14410669 original size:5 final size:5
Alignment explanation
Indices: 14410525--14410649 Score: 53
Period size: 5 Copynumber: 25.0 Consensus size: 5
14410515 ATGTTATAAT
* * * * * *
14410525 TAAAA TAAAA -ATAT TAAAA TAAAA T-ATA TAATA TAAGAA TCAAA -AAAT
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA TAAAA
* ** * **
14410573 TAAAA TAAAA TAAAA TATAAA -AAAT TAAAA T-TTA TATAA TATAGG TAAAA
1 TAAAA TAAAA TAAAA TA-AAA TAAAA TAAAA TAAAA TAAAA TA-AAA TAAAA
*
14410623 TAAAT TAAAA TAAAA TATATAA TAAAA
1 TAAAA TAAAA TAAAA TA-A-AA TAAAA
14410650 AATTATATTA
Statistics
Matches: 88, Mismatches: 22, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
4 11 0.12
5 63 0.72
6 10 0.11
7 4 0.05
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (5 bp):
TAAAA
Found at i:14410671 original size:33 final size:32
Alignment explanation
Indices: 14410629--14410710 Score: 103
Period size: 33 Copynumber: 2.6 Consensus size: 32
14410619 AAAATAAATT
* *
14410629 AAAATAAAATATATAATAAAAAATTATATTAA
1 AAAATAAAATATAAAATAAAAAATTATAATAA
*
14410661 AAAATAAAAATATAAAATATAAAATTATAATAA
1 AAAAT-AAAATATAAAATAAAAAATTATAATAA
* *
14410694 TAAATGAAA-ATAAAATA
1 AAAATAAAATATAAAATA
14410711 TATGACATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
31 8 0.18
32 8 0.18
33 28 0.64
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (32 bp):
AAAATAAAATATAAAATAAAAAATTATAATAA
Found at i:14410715 original size:15 final size:14
Alignment explanation
Indices: 14410525--14410713 Score: 78
Period size: 14 Copynumber: 13.1 Consensus size: 14
14410515 ATGTTATAAT
14410525 TAAAATAAAA-ATA
1 TAAAATAAAATATA
14410538 TTAAAATAAAATATA
1 -TAAAATAAAATATA
*
14410553 TAATATAAGAATCA-A
1 TAAAATAA-AAT-ATA
*
14410568 -AAAAT-TAA-A-A
1 TAAAATAAAATATA
14410578 TAAAATAAAATATA
1 TAAAATAAAATATA
*
14410592 AAAAATTAAAATTTATA
1 TAAAA-TAAAA--TATA
*
14410609 TAATATAGGTAAAATAAA
1 TAA-A-A--TAAAATATA
14410627 TTAAAATAAAATATA
1 -TAAAATAAAATATA
14410642 TAATAA-AAAATTATA
1 TAA-AATAAAA-TATA
14410657 TTAAAAAATAAAA-ATA
1 -T--AAAATAAAATATA
14410673 TAAAATATAAA-AT-
1 TAAAATA-AAATATA
*
14410686 TATAATAATAA-AT-
1 TAAAATAA-AATATA
*
14410699 GAAAATAAAATATA
1 TAAAATAAAATATA
14410713 T
1 T
14410714 GACATTAAAA
Statistics
Matches: 138, Mismatches: 13, Indels: 48
0.69 0.07 0.24
Matches are distributed among these distances:
10 2 0.01
11 5 0.04
12 7 0.05
13 25 0.18
14 38 0.28
15 27 0.20
16 5 0.04
17 9 0.07
18 11 0.08
19 4 0.03
20 5 0.04
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.30
Consensus pattern (14 bp):
TAAAATAAAATATA
Found at i:14413757 original size:81 final size:82
Alignment explanation
Indices: 14413607--14413808 Score: 300
Period size: 81 Copynumber: 2.5 Consensus size: 82
14413597 CTTATGTCTA
* * * *
14413607 TTACAACATGAATTAAAGAAAATTGAACCTGATTTTTAGTTATTTAGTTTATTTTTTATTAAATA
1 TTACAACATGAATTAGAGAAAATTGAACCTGATTTTTAGTTATTCAGTTTATTTTCTATTAAAAA
*
14413672 A-TTTTTATATTAATAC
66 ATTTTTTACATTAATAC
* *
14413688 TTACAACATGAATTAGAGAAAATTGAACTTGATTTTTAGTTATTCAGTTTCTTTTCT-TTAAAAA
1 TTACAACATGAATTAGAGAAAATTGAACCTGATTTTTAGTTATTCAGTTTATTTTCTATTAAAAA
*
14413752 CATTTTTTACATTAATAT
66 -ATTTTTTACATTAATAC
*
14413770 TTACAACATGAATTAGAGAAAATTGAACCAGATTTTTAG
1 TTACAACATGAATTAGAGAAAATTGAACCTGATTTTTAG
14413809 ATAATGAAAT
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
80 6 0.06
81 53 0.49
82 50 0.46
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.44
Consensus pattern (82 bp):
TTACAACATGAATTAGAGAAAATTGAACCTGATTTTTAGTTATTCAGTTTATTTTCTATTAAAAA
ATTTTTTACATTAATAC
Found at i:14414021 original size:31 final size:31
Alignment explanation
Indices: 14413986--14414047 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
14413976 TAAGTCTATA
* *
14413986 TAATTTATAACCTACTATCATTGACCAAATT
1 TAATTCATAACATACTATCATTGACCAAATT
*
14414017 TAATTCATAACATACTATCATTGGCCAAATT
1 TAATTCATAACATACTATCATTGACCAAATT
14414048 GATGCTTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (31 bp):
TAATTCATAACATACTATCATTGACCAAATT
Found at i:14417333 original size:22 final size:21
Alignment explanation
Indices: 14417286--14417325 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
14417276 GATTTAAATT
14417286 AATTGCATTGCATAAATTATTA
1 AATTGCATTGCAT-AATTATTA
*
14417308 AATTGCGTTGCAT-ATTAT
1 AATTGCATTGCATAATTAT
14417326 GTACAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (21 bp):
AATTGCATTGCATAATTATTA
Found at i:14418651 original size:25 final size:25
Alignment explanation
Indices: 14418624--14418672 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
14418614 TAGTAACTTT
*
14418624 TTTTTTTCAA-ATAATATGTAATAA
1 TTTTTTTAAACATAATATGTAATAA
*
14418648 TTTTTTTAAACATGATATGTAATAA
1 TTTTTTTAAACATAATATGTAATAA
14418673 CAAAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (25 bp):
TTTTTTTAAACATAATATGTAATAA
Found at i:14418681 original size:29 final size:29
Alignment explanation
Indices: 14418649--14418727 Score: 140
Period size: 29 Copynumber: 2.7 Consensus size: 29
14418639 ATGTAATAAT
*
14418649 TTTTTTAAACATGATATGTAATAACAAAA
1 TTTTTTAAACATGATGTGTAATAACAAAA
14418678 TTTTTTAAACATGATGTGTAATAACAAAA
1 TTTTTTAAACATGATGTGTAATAACAAAA
14418707 TTTTTTAAAACATGATGTGTA
1 TTTTTT-AAACATGATGTGTA
14418728 GCTTGTTTCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 34 0.71
30 14 0.29
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (29 bp):
TTTTTTAAACATGATGTGTAATAACAAAA
Found at i:14419022 original size:26 final size:27
Alignment explanation
Indices: 14418977--14419035 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
14418967 AATAAAAAAT
* * *
14418977 ATAGTGTGTAATAAT-TTTTTTTTAAC
1 ATAGTGTATAACAATATTTTTTTCAAC
14419003 ATAGTGTATAACAATATTTTTTTCAAC
1 ATAGTGTATAACAATATTTTTTTCAAC
14419030 AT-GTGT
1 ATAGTGT
14419036 GCTTAAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (27 bp):
ATAGTGTATAACAATATTTTTTTCAAC
Found at i:14419210 original size:23 final size:23
Alignment explanation
Indices: 14419167--14419215 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 23
14419157 AATCATCACA
14419167 AAAAATTTCTTATAAAATAT-AC
1 AAAAATTTCTTATAAAATATAAC
*
14419189 AAAAA-TTGTTATAAAATGTATAAC
1 AAAAATTTCTTATAAAA--TATAAC
14419213 AAA
1 AAA
14419216 TGATTAGCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 10 0.43
22 5 0.22
23 3 0.13
24 5 0.22
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAAATTTCTTATAAAATATAAC
Found at i:14421913 original size:12 final size:12
Alignment explanation
Indices: 14421896--14421920 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14421886 AAAACACAGA
14421896 CTTTAACTTTAG
1 CTTTAACTTTAG
14421908 CTTTAACTTTAG
1 CTTTAACTTTAG
14421920 C
1 C
14421921 ACTAACTTTG
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:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (12 bp):
CTTTAACTTTAG
Found at i:14424299 original size:41 final size:40
Alignment explanation
Indices: 14424214--14424299 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
14424204 TCATAATAAT
* *
14424214 TTAAATTATAAATAAATATTGATATTTACAAATATTAATGA
1 TTAAATTATAAATAAATATTAATATTTA-AAATATCAATGA
* *
14424255 TTAAATTATGAATAAAATATTAATATTT-AAATGATCAATTA
1 TTAAATTATAAAT-AAATATTAATATTTAAAAT-ATCAATGA
14424296 TTAA
1 TTAA
14424300 TGTTTTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
40 4 0.10
41 22 0.56
42 13 0.33
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (40 bp):
TTAAATTATAAATAAATATTAATATTTAAAATATCAATGA
Found at i:14429458 original size:17 final size:18
Alignment explanation
Indices: 14429418--14429461 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
14429408 CAAGAATTGA
14429418 CAACTCTTTGTTTCTCTCT
1 CAACT-TTTGTTTCTCTCT
*
14429437 CAACTTTTGTTTTTCT-T
1 CAACTTTTGTTTCTCTCT
*
14429454 TAACTTTT
1 CAACTTTT
14429462 TTTGACTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 10 0.43
19 5 0.22
ACGTcount: A:0.14, C:0.23, G:0.05, T:0.59
Consensus pattern (18 bp):
CAACTTTTGTTTCTCTCT
Found at i:14432955 original size:21 final size:21
Alignment explanation
Indices: 14432927--14433034 Score: 119
Period size: 21 Copynumber: 5.2 Consensus size: 21
14432917 AAATTGCTTC
*
14432927 AATGATCTTTCAACTTGTTTG
1 AATGATCTTTGAACTTGTTTG
* *
14432948 AGTGATCTTTGAACTTGTTTA
1 AATGATCTTTGAACTTGTTTG
*
14432969 AATGAT-TTTGAATTTGTTTG
1 AATGATCTTTGAACTTGTTTG
* * *
14432989 AGTGACCCTTGAACTTGTTTG
1 AATGATCTTTGAACTTGTTTG
* * *
14433010 AATGATTTTTAAAATTGTTTG
1 AATGATCTTTGAACTTGTTTG
14433031 AATG
1 AATG
14433035 TGGTTTTGAA
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 16 0.23
21 54 0.77
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (21 bp):
AATGATCTTTGAACTTGTTTG
Found at i:14432987 original size:41 final size:41
Alignment explanation
Indices: 14432927--14433018 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
14432917 AAATTGCTTC
* *
14432927 AATGATCTTTCAACTTGTTTGAGTGATCTTTGAACTTGTTTA
1 AATGAT-TTTCAACTTGTTTGAGTGACCCTTGAACTTGTTTA
* * *
14432969 AATGATTTTGAATTTGTTTGAGTGACCCTTGAACTTGTTTG
1 AATGATTTTCAACTTGTTTGAGTGACCCTTGAACTTGTTTA
14433010 AATGATTTT
1 AATGATTTT
14433019 TAAAATTGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 39 0.87
42 6 0.13
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.48
Consensus pattern (41 bp):
AATGATTTTCAACTTGTTTGAGTGACCCTTGAACTTGTTTA
Found at i:14433201 original size:21 final size:21
Alignment explanation
Indices: 14433148--14433210 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
14433138 TTTGAACCTT
* *
14433148 TTTGAATTA-TTTTTGAAGTTG
1 TTTGAA-TAGTTTTTAAACTTG
14433169 TTTGAATGAGTTTTTAAACTTG
1 TTTGAAT-AGTTTTTAAACTTG
14433191 TTTGAATAGTTTTTAAACTT
1 TTTGAATAGTTTTTAAACTT
14433211 CTTTAAGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.03
21 20 0.53
22 17 0.45
ACGTcount: A:0.27, C:0.03, G:0.16, T:0.54
Consensus pattern (21 bp):
TTTGAATAGTTTTTAAACTTG
Found at i:14433278 original size:21 final size:21
Alignment explanation
Indices: 14433252--14433324 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 21
14433242 TCCATGTAAA
*
14433252 AAGTTTTAAAATTACTTGAAT
1 AAGTTTTAAAATTGCTTGAAT
*
14433273 AAGTTTTGAAATTGCTTGAAT
1 AAGTTTTAAAATTGCTTGAAT
* * * *
14433294 AATTTTTGAACTTGTTTGAAT
1 AAGTTTTAAAATTGCTTGAAT
*
14433315 AATTTTTAAA
1 AAGTTTTAAA
14433325 CTTGTTTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (21 bp):
AAGTTTTAAAATTGCTTGAAT
Found at i:14433326 original size:21 final size:21
Alignment explanation
Indices: 14433267--14433331 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
14433257 TTAAAATTAC
* *
14433267 TTGAATAAGTTTTGAAA-TTGC
1 TTGAATAA-TTTTTAAACTTGT
*
14433288 TTGAATAATTTTTGAACTTGT
1 TTGAATAATTTTTAAACTTGT
14433309 TTGAATAATTTTTAAACTTGT
1 TTGAATAATTTTTAAACTTGT
14433330 TT
1 TT
14433332 AAATTAGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.15
21 33 0.85
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.51
Consensus pattern (21 bp):
TTGAATAATTTTTAAACTTGT
Found at i:14433345 original size:21 final size:21
Alignment explanation
Indices: 14433302--14433345 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
14433292 ATAATTTTTG
* * *
14433302 AACTTGTTTGAATAATTTTTA
1 AACTTGTTTAAATAAGTTATA
*
14433323 AACTTGTTTAAATTAGTTATA
1 AACTTGTTTAAATAAGTTATA
14433344 AA
1 AA
14433346 TCTCTCTTCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.48
Consensus pattern (21 bp):
AACTTGTTTAAATAAGTTATA
Found at i:14433531 original size:21 final size:21
Alignment explanation
Indices: 14433487--14433531 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14433477 TGGTTCTACC
* * *
14433487 CAAAATGTATGGACACATTTT
1 CAAAATGTATCGACACACTAT
*
14433508 CAAAATGTATCGATACACTAT
1 CAAAATGTATCGACACACTAT
14433529 CAA
1 CAA
14433532 TACATTTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (21 bp):
CAAAATGTATCGACACACTAT
Found at i:14442614 original size:14 final size:15
Alignment explanation
Indices: 14442592--14442626 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
14442582 AACAGTTGTG
*
14442592 CTTTCTTTTTTGTTT
1 CTTTTTTTTTTGTTT
14442607 -TTTTTTTTTTGTTT
1 CTTTTTTTTTTGTTT
14442621 CTTTTT
1 CTTTTT
14442627 AACGTGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.86
Consensus pattern (15 bp):
CTTTTTTTTTTGTTT
Found at i:14447804 original size:2 final size:2
Alignment explanation
Indices: 14447797--14447832 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
14447787 GAACGATGCT
14447797 GA GA GA GA GA G- GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
14447833 GAATACCGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14447978 original size:3 final size:3
Alignment explanation
Indices: 14447970--14447994 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14447960 ACCTGAATGC
14447970 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
14447995 GCGATTCCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14451726 original size:27 final size:27
Alignment explanation
Indices: 14451675--14451731 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
14451665 AAACACCCTA
*
14451675 AACATGACGTGTAATATATATTTTTTT
1 AACATGACGTGTAAAATATATTTTTTT
14451702 AACATGACGTGTAACAACT-TATTTTTTT
1 AACATGACGTGTAA-AA-TATATTTTTTT
14451730 AA
1 AA
14451732 TATGGAGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 14 0.52
28 12 0.44
29 1 0.04
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (27 bp):
AACATGACGTGTAAAATATATTTTTTT
Found at i:14452087 original size:29 final size:29
Alignment explanation
Indices: 14452028--14452112 Score: 118
Period size: 28 Copynumber: 2.9 Consensus size: 29
14452018 TACTTTAAAC
* *
14452028 ATGACGTGTAAAAATAATTTTTTT-CAAT
1 ATGACGTGTAACAATAATTTTTTTAAAAT
*
14452056 ATGGCGTGTAACAATAATTTTTTTAAAAT
1 ATGACGTGTAACAATAATTTTTTTAAAAT
*
14452085 ATGACGTGTAACAATATTATTTTTTAAA
1 ATGACGTGTAACAATAAT-TTTTTTAAA
14452113 CATGATGTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
28 22 0.44
29 19 0.38
30 9 0.18
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (29 bp):
ATGACGTGTAACAATAATTTTTTTAAAAT
Found at i:14452108 original size:156 final size:155
Alignment explanation
Indices: 14451934--14452233 Score: 356
Period size: 156 Copynumber: 1.9 Consensus size: 155
14451924 TTTTCAATAT
* * * *
14451934 GTGTAACAACTTT-TTTTTTCAACATGGCT-TGTAATTTGGT-TTCTATTTTTGCATTTTACAAA
1 GTGTAACAACTTTATTTTTTAAACAT-GATGTGTAATTTGATCTT-TACTTTTGCA-TTTACAAA
* * *
14451996 GACATAAACTCTCGGAGTTAAATACTTTAAACATGACGTGTAAAAATAATTTTTTTCAATATGGC
63 GACATAAACTCTCGGAGTTAAACACCTTAAACATGACGTGTAAAAATAATTTTTTTCAACATGGC
*
14452061 GTGTAACAATAATTTTTTTAAAATATGAC
128 ATGTAACAAT-ATTTTTTTAAAATATGAC
* * *
14452090 GTGTAACAA-TATTATTTTTTAAACATGATGTGTAATTTGATCTTTACTTTTGTATTTACTAGGA
1 GTGTAACAACT-TTATTTTTTAAACATGATGTGTAATTTGATCTTTACTTTTGCATTTACAAAGA
* ** ** * **
14452154 CATAAACTCTTGGAGTTAAACACCTTAAATGTGGTGTGTAACAATTTTTTTTTTCAACATGGCAT
65 CATAAACTCTCGGAGTTAAACACCTTAAACATGACGTGTAAAAATAATTTTTTTCAACATGGCAT
14452219 GTAACAATATTTTTT
130 GTAACAATATTTTTT
14452234 GTTGAGTTTT
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
155 8 0.07
156 82 0.68
157 29 0.24
158 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (155 bp):
GTGTAACAACTTTATTTTTTAAACATGATGTGTAATTTGATCTTTACTTTTGCATTTACAAAGAC
ATAAACTCTCGGAGTTAAACACCTTAAACATGACGTGTAAAAATAATTTTTTTCAACATGGCATG
TAACAATATTTTTTTAAAATATGAC
Found at i:14452117 original size:29 final size:28
Alignment explanation
Indices: 14452021--14452124 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
14452011 AGTTAAATAC
* *
14452021 TTTAAACATGACGTGTAAAAATAATTTT
1 TTTAAACATGACGTGTAACAATATTTTT
* * *
14452049 TTTCAATATGGCGTGTAACAATAATTTTT
1 TTTAAACATGACGTGTAACAAT-ATTTTT
* *
14452078 TTAAAATATGACGTGTAACAATATTATTT
1 TTTAAACATGACGTGTAACAATATT-TTT
*
14452107 TTTAAACATGATGTGTAA
1 TTTAAACATGACGTGTAA
14452125 TTTGATCTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
28 21 0.33
29 42 0.67
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.41
Consensus pattern (28 bp):
TTTAAACATGACGTGTAACAATATTTTT
Found at i:14453654 original size:17 final size:18
Alignment explanation
Indices: 14453621--14453654 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14453611 AAAGGAAAAA
*
14453621 TGAAAAATCTACTATTTG
1 TGAAAAAGCTACTATTTG
14453639 TGAAAAAGCTAC-ATTT
1 TGAAAAAGCTACTATTT
14453655 ATCAGTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAAAAAGCTACTATTTG
Found at i:14458038 original size:23 final size:23
Alignment explanation
Indices: 14457994--14458041 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14457984 AGTTAAATGT
* *
14457994 AGAATGAAAGAATGATTTAAAGA
1 AGAATGAAAGAAAGATTAAAAGA
14458017 AGAATGAAATGAAAGA-TAAAAGA
1 AGAATGAAA-GAAAGATTAAAAGA
14458040 AG
1 AG
14458042 GTAGACAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (23 bp):
AGAATGAAAGAAAGATTAAAAGA
Found at i:14458815 original size:74 final size:74
Alignment explanation
Indices: 14458637--14458817 Score: 247
Period size: 74 Copynumber: 2.4 Consensus size: 74
14458627 TGCATGATAG
* * * * * *
14458637 CATACTTCTTAGTCGATTAAGTCTTCTCTGCCTTGTAATTGAATTCTCTGGCAATGAGTTCTTAG
1 CATACTTTTTAGTCGACTAAGTCTTCTCTGTCTTGTAATTGAAGTCTCTAGCAATGAGCTCTTAG
14458702 TTGACTAAC
66 TTGACTAAC
* * *
14458711 CATATTTTTTGGTCGACTAAGT-TCTCTCTGTCTTGTAATTGAAGTCTCTAGCAGTGAGCTCTTA
1 CATACTTTTTAGTCGACTAAGTCT-TCTCTGTCTTGTAATTGAAGTCTCTAGCAATGAGCTCTTA
14458775 GTTGACTAAC
65 GTTGACTAAC
* *
14458785 CATGCTTTTTAGTCGACTATGTCTTCTCTGTCT
1 CATACTTTTTAGTCGACTAAGTCTTCTCTGTCT
14458818 CTGAACTGGT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
73 1 0.01
74 90 0.98
75 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.42
Consensus pattern (74 bp):
CATACTTTTTAGTCGACTAAGTCTTCTCTGTCTTGTAATTGAAGTCTCTAGCAATGAGCTCTTAG
TTGACTAAC
Found at i:14467047 original size:27 final size:28
Alignment explanation
Indices: 14466985--14467051 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
14466975 CTATATTGAA
14466985 ACATTTTTCAATATAGCATGTAAAAACT
1 ACATTTTTCAATATAGCATGTAAAAACT
* * * *
14467013 AAAATTTT-AATAT-GACATGTAATAGCT
1 ACATTTTTCAATATAG-CATGTAAAAACT
14467040 ACATTTTTCAAT
1 ACATTTTTCAAT
14467052 GTGCTGTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 21 0.68
28 9 0.29
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (28 bp):
ACATTTTTCAATATAGCATGTAAAAACT
Found at i:14467073 original size:28 final size:28
Alignment explanation
Indices: 14467042--14467129 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
14467032 TAATAGCTAC
14467042 ATTTTTCAATGTGCTGTGTAACAATTAA
1 ATTTTTCAATGTGCTGTGTAACAATTAA
* *
14467070 ATTTTTGACATG-G-TGTGTAACAATTAT
1 ATTTTTCA-ATGTGCTGTGTAACAATTAA
* ** *
14467097 ATTTTTTAACATGAC-GTGTAACAACTAA
1 ATTTTTCAATGTG-CTGTGTAACAATTAA
14467125 ATTTT
1 ATTTT
14467130 CAACATAACG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
26 1 0.02
27 21 0.43
28 24 0.49
29 3 0.06
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (28 bp):
ATTTTTCAATGTGCTGTGTAACAATTAA
Found at i:14467086 original size:27 final size:27
Alignment explanation
Indices: 14467056--14467135 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
14467046 TTCAATGTGC
* *
14467056 TGTGTAACAATTAAATTTTTGACATGG
1 TGTGTAACAATTAAATTTTTAACATGA
*
14467083 TGTGTAACAATTATATTTTTTAACATGA
1 TGTGTAACAATTA-AATTTTTAACATGA
* * *
14467111 CGTGTAACAACTAAATTTTCAACAT
1 TGTGTAACAATTAAATTTTTAACAT
14467136 AACGTATAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 23 0.51
28 22 0.49
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.40
Consensus pattern (27 bp):
TGTGTAACAATTAAATTTTTAACATGA
Found at i:14467140 original size:27 final size:27
Alignment explanation
Indices: 14467003--14467149 Score: 89
Period size: 27 Copynumber: 5.3 Consensus size: 27
14466993 CAATATAGCA
* * * *
14467003 TGTAAAAACTAAAATTTTAATATGACA
1 TGTAACAACTAAATTTTTAACATGACG
* * * * *
14467030 TGTAATAGCTACATTTTTCA-ATGTGCTG
1 TGTAACAACTAAATTTTTAACATG-AC-G
* * **
14467058 TGTAACAATTAAATTTTTGACATGGTG
1 TGTAACAACTAAATTTTTAACATGACG
* *
14467085 TGTAACAATTATATTTTTTAACATGACG
1 TGTAACAACTA-AATTTTTAACATGACG
* *
14467113 TGTAACAACTAAATTTTCAACATAACG
1 TGTAACAACTAAATTTTTAACATGACG
*
14467140 TATAATCAAC
1 TGTAA-CAAC
14467150 ATGAAGTGTA
Statistics
Matches: 93, Mismatches: 22, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
26 3 0.03
27 45 0.48
28 42 0.45
29 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
TGTAACAACTAAATTTTTAACATGACG
Found at i:14469212 original size:9 final size:8
Alignment explanation
Indices: 14469199--14469237 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
14469189 TGTTTATCTC
14469199 ATTTTTTT
1 ATTTTTTT
14469207 ATTTTTTT
1 ATTTTTTT
*
14469215 ATTTTTAT
1 ATTTTTTT
*
14469223 ATATTTATT
1 AT-TTTTTT
14469232 ATTTTT
1 ATTTTT
14469238 AAAATTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
ATTTTTTT
Found at i:14469453 original size:43 final size:43
Alignment explanation
Indices: 14469350--14469696 Score: 259
Period size: 43 Copynumber: 8.0 Consensus size: 43
14469340 AAAGAAGATG
* ** *
14469350 CTCCTCATTTGGAATAAGGCTATGTAACTTTGAAAAAAAAATGAA
1 CTCCTCATTTGGAATGAGGCTATGTAACTTT--AAAATGAATAAA
* * * * * * *
14469395 CTCTTCATCTAGAATGAGGCTATTTAATTTTAAAGTTAATAAA
1 CTCCTCATTTGGAATGAGGCTATGTAACTTTAAAATGAATAAA
* *
14469438 CTCCTCATTTGGAATGAGGCTATGTAACTTTAAAAAGGAATAAG
1 CTCCTCATTTGGAATGAGGCTATGTAACTTT-AAAATGAATAAA
* * * *
14469482 CTCCTCATTTGAAATGAGGTTATGTAA-TCTTGAAATTAATAAA
1 CTCCTCATTTGGAATGAGGCTATGTAACT-TTAAAATGAATAAA
* * * * * * * * * *
14469525 TTCTTCATCTAGAATAAGACTACGTAACTTTGAAATGAACAGA
1 CTCCTCATTTGGAATGAGGCTATGTAACTTTAAAATGAATAAA
* * *
14469568 CTTCTCATTTAGAATGAGG-T-TGCATAACTTTAAAAGGAATAAA
1 CTCCTCATTTGGAATGAGGCTATG--TAACTTTAAAATGAATAAA
* * * *
14469611 CTCCTTATTTGGAATAAGGCTACGTAACTTTGAAATGAATAAA
1 CTCCTCATTTGGAATGAGGCTATGTAACTTTAAAATGAATAAA
* * *** *
14469654 CTCCTCATATGGAATGAGACTGCATAACTTTAAAAGGAATAAA
1 CTCCTCATTTGGAATGAGGCTATGTAACTTTAAAATGAATAAA
14469697 TTTGTCATCT
Statistics
Matches: 232, Mismatches: 63, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 167 0.72
44 37 0.16
45 26 0.11
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (43 bp):
CTCCTCATTTGGAATGAGGCTATGTAACTTTAAAATGAATAAA
Found at i:14469498 original size:44 final size:44
Alignment explanation
Indices: 14469349--14469508 Score: 148
Period size: 44 Copynumber: 3.6 Consensus size: 44
14469339 CAAAGAAGAT
* * *
14469349 GCTCCTCATTTGGAATAAGGCTATGTAACTTTGAAAAAAAAATGAA
1 GCTCCTCATTTGAAATGAGGCTATGTAACTTT-AAAAAGAAAT-AA
* * * * *
14469395 -CTCTTCATCT-AGAATGAGGCTATTTAA-TTT-TAAAGTTAATAA
1 GCTCCTCATTTGA-AATGAGGCTATGTAACTTTAAAAAG-AAATAA
* * *
14469437 ACTCCTCATTTGGAATGAGGCTATGTAACTTTAAAAAGGAATAA
1 GCTCCTCATTTGAAATGAGGCTATGTAACTTTAAAAAGAAATAA
*
14469481 GCTCCTCATTTGAAATGAGGTTATGTAA
1 GCTCCTCATTTGAAATGAGGCTATGTAA
14469509 TCTTGAAATT
Statistics
Matches: 91, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
42 5 0.05
43 25 0.27
44 36 0.40
45 25 0.27
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (44 bp):
GCTCCTCATTTGAAATGAGGCTATGTAACTTTAAAAAGAAATAA
Found at i:14469674 original size:129 final size:129
Alignment explanation
Indices: 14469350--14469730 Score: 374
Period size: 129 Copynumber: 2.9 Consensus size: 129
14469340 AAAGAAGATG
* * *
14469350 CTCCTCATTTGGAATAAGGCTATGTAACTTTGAAAAAAAAATGAACTCTTCATCTAGAATGAGGC
1 CTCCTCATTTGGAATAAGGCTATGTAACTTTG--AAATAAATAAACTCTTCATCTAGAATGAGAC
** * * * * *
14469415 TATTTAATTTTAAAGTTAATAAACTCCTCATTTGGAATGAGGCTATG--TAACTTTAAAAAGGAA
64 TACATAACTTTAAAATGAATAAACTTCTCATTTAGAATGAGG-T-TGCATAACTTT-AAAAGGAA
*
14469478 TAAG
126 TAAA
* * * * * *
14469482 CTCCTCATTTGAAATGAGGTTATGTAA-TCTTGAAATTAATAAATTCTTCATCTAGAATAAGACT
1 CTCCTCATTTGGAATAAGGCTATGTAACT-TTGAAATAAATAAACTCTTCATCTAGAATGAGACT
* * * *
14469546 ACGTAACTTTGAAATGAACAGACTTCTCATTTAGAATGAGGTTGCATAACTTTAAAAGGAATAAA
65 ACATAACTTTAAAATGAATAAACTTCTCATTTAGAATGAGGTTGCATAACTTTAAAAGGAATAAA
* * * * * * *
14469611 CTCCTTATTTGGAATAAGGCTACGTAACTTTGAAATGAATAAACTCCTCATATGGAATGAGACTG
1 CTCCTCATTTGGAATAAGGCTATGTAACTTTGAAATAAATAAACTCTTCATCTAGAATGAGACTA
* * * * * *
14469676 CATAACTTTAAAAGGAATAAATTTGTCATCTAGAAGGAGGTTACAT-ACTTTAAAA
66 CATAACTTTAAAATGAATAAACTTCTCATTTAGAATGAGGTTGCATAACTTTAAAA
14469731 TGATTTTTAA
Statistics
Matches: 203, Mismatches: 42, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
128 11 0.05
129 99 0.49
130 65 0.32
131 1 0.00
132 27 0.13
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (129 bp):
CTCCTCATTTGGAATAAGGCTATGTAACTTTGAAATAAATAAACTCTTCATCTAGAATGAGACTA
CATAACTTTAAAATGAATAAACTTCTCATTTAGAATGAGGTTGCATAACTTTAAAAGGAATAAA
Found at i:14481932 original size:25 final size:26
Alignment explanation
Indices: 14481876--14481939 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
14481866 GGGCAAAAAG
*
14481876 AATATTTTGA-AATAAAATAATATTTTT
1 AATATTTTAATAATAAAATAATA--TTT
*
14481903 TATATTTTAATAATAAAATAATA-TT
1 AATATTTTAATAATAAAATAATATTT
*
14481928 AATATATTAATA
1 AATATTTTAATA
14481940 TATTAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.38
27 8 0.25
28 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
AATATTTTAATAATAAAATAATATTT
Found at i:14492145 original size:32 final size:33
Alignment explanation
Indices: 14492086--14492147 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
14492076 TTAGTGTCAA
*
14492086 TTGTGCTTGCTCTTGTAAAAAGGCAATTGTAGG
1 TTGTGCTTGCTCTCGTAAAAAGGCAATTGTAGG
*
14492119 TTGTGCTTGCTCTCGT-GAAAGGCAATTGT
1 TTGTGCTTGCTCTCGTAAAAAGGCAATTGT
14492148 GGGTGGCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (33 bp):
TTGTGCTTGCTCTCGTAAAAAGGCAATTGTAGG
Found at i:14493611 original size:33 final size:32
Alignment explanation
Indices: 14493569--14493630 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
14493559 TTAGTGTGGA
*
14493569 TTGTGCTTGCTGTGGTGAAAAGGCAATTGTTGG
1 TTGTGCTTGCTCTGGTGAAAA-GCAATTGTTGG
*
14493602 TTGTGCTTGCTCTTGTGAAAAGCAATTGT
1 TTGTGCTTGCTCTGGTGAAAAGCAATTGT
14493631 GAGGGTTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.19, C:0.11, G:0.31, T:0.39
Consensus pattern (32 bp):
TTGTGCTTGCTCTGGTGAAAAGCAATTGTTGG
Found at i:14495605 original size:32 final size:32
Alignment explanation
Indices: 14495568--14495628 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
14495558 ATAGTTTGGG
14495568 AGCAATTCTGTCTGTTATTTTATTTTTTAAAA
1 AGCAATTCTGTCTGTTATTTTATTTTTTAAAA
14495600 AGCAATTCTGTCTGTTATTTTATTTTTTA
1 AGCAATTCTGTCTGTTATTTTATTTTTTA
14495629 GCGTCAGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.56
Consensus pattern (32 bp):
AGCAATTCTGTCTGTTATTTTATTTTTTAAAA
Found at i:14498049 original size:35 final size:35
Alignment explanation
Indices: 14498023--14498272 Score: 263
Period size: 35 Copynumber: 7.2 Consensus size: 35
14498013 CTTAATTGTT
*
14498023 TAATTTAATCAATTAGGCCTAATAACTTAATTAAA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
* * * *
14498058 CAATTTAATCAATTAAGCCTAATAACTTGATTAAA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
* * *
14498093 CAAATTTAATCAATTAAGCCGAATAACTTAATTAAA
1 -TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
*
14498129 CAATTTAATCAATTAGGCCCAATAACTTAATTAAA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
* * * ***
14498164 CAAATTTAATCAATTAGACCCAATAAATTAATTGTT
1 -TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
* * * *
14498200 TAATTTAATTAATTAGACCCAATGACTTGATTAAA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
* *
14498235 TAATTTAATGAATTAGG--C-ACAACTTAATTAAA
1 TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
*
14498267 CAATTT
1 TAATTT
14498273 TAATGAAGTA
Statistics
Matches: 184, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
32 16 0.09
33 1 0.01
35 106 0.58
36 61 0.33
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (35 bp):
TAATTTAATCAATTAGGCCCAATAACTTAATTAAA
Found at i:14498107 original size:71 final size:70
Alignment explanation
Indices: 14498024--14498272 Score: 299
Period size: 71 Copynumber: 3.6 Consensus size: 70
14498014 TTAATTGTTT
*
14498024 AATTTAATCAATTAGGCCTAATAACTTAATTAAACAATTTAATCAATTAAGCCTAATAACTTGAT
1 AATTTAATCAATTAGGCC-AATAACTTAATTAAACAATTTAATCAATTAAGCCCAATAACTTGAT
14498089 TAAACA
65 TAAACA
* * *
14498095 AATTTAATCAATTAAGCCGAATAACTTAATTAAACAATTTAATCAATTAGGCCCAATAACTTAAT
1 AATTTAATCAATTAGGCC-AATAACTTAATTAAACAATTTAATCAATTAAGCCCAATAACTTGAT
14498160 TAAACA
65 TAAACA
* * **** * *
14498166 AATTTAATCAATTAGACCCAATAAATTAATTGTTTAATTTAATTAATT-AGACCCAATGACTTGA
1 AATTTAATCAATTAG-GCCAATAACTTAATTAAACAATTTAATCAATTAAG-CCCAATAACTTGA
*
14498230 TTAAA-T
64 TTAAACA
* *
14498236 AATTTAATGAATTAGG-C-ACAACTTAATTAAACAATTT
1 AATTTAATCAATTAGGCCAATAACTTAATTAAACAATTT
14498273 TAATGAAGTA
Statistics
Matches: 151, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
67 14 0.09
68 1 0.01
70 15 0.10
71 119 0.79
72 2 0.01
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (70 bp):
AATTTAATCAATTAGGCCAATAACTTAATTAAACAATTTAATCAATTAAGCCCAATAACTTGATT
AAACA
Found at i:14498205 original size:106 final size:107
Alignment explanation
Indices: 14498024--14498276 Score: 295
Period size: 106 Copynumber: 2.4 Consensus size: 107
14498014 TTAATTGTTT
* * * *
14498024 AATTTAATCAATTAGGCCTAATAACTTAATTAAAC-AATTTAATCAATTAAGCCTAATAACTTGA
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAAATTTAATCAATTAAGCCCAATAAATTAA
*
14498088 TTAAACAAATTTAATCAATTA-AGCCGAATAACTTAATTAAAC
66 TTAAACAAATTTAATCAATTAGA-CCCAATAACTTAATTAAAC
14498130 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAAATTTAATCAATT-AGACCCAATAAATTA
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAAATTTAATCAATTAAG-CCCAATAAATTA
**** * * * *
14498194 ATT-GTTTAATTTAATTAATTAGACCCAATGACTTGATTAAAT
65 ATTAAACAAATTTAATCAATTAGACCCAATAACTTAATTAAAC
* * *
14498236 AATTTAATGAATTAGG--C-ACAACTTAATTAAACAATTTTAAT
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAACAAATTTAAT
14498277 GAAGTACTTG
Statistics
Matches: 128, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
103 22 0.17
104 1 0.01
106 79 0.62
107 26 0.20
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (107 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAACAAATTTAATCAATTAAGCCCAATAAATTAA
TTAAACAAATTTAATCAATTAGACCCAATAACTTAATTAAAC
Found at i:14508200 original size:14 final size:15
Alignment explanation
Indices: 14508178--14508217 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
14508168 AAATAATATT
14508178 TTAAATAATTAA-AA
1 TTAAATAATTAATAA
*
14508192 TTAATTAATTAATAA
1 TTAAATAATTAATAA
14508207 TTATAATAATT
1 TTA-AATAATT
14508218 TATTTATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 11 0.50
15 5 0.23
16 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATAATTAATAA
Found at i:14510055 original size:76 final size:77
Alignment explanation
Indices: 14509967--14510112 Score: 249
Period size: 77 Copynumber: 1.9 Consensus size: 77
14509957 CCGAAAAAAG
** *
14509967 AAAGACAATAATTCTATTAATTAATATTCGACA-TATCTACAAATAAGATTTGTTACAAAATGTA
1 AAAGACAATAATTCTACCAATTAATATTCGACATTATCTACAAATAACATTTGTTACAAAATGTA
*
14510031 CAAAATTGTTAC
66 AAAAATTGTTAC
14510043 AAAGACAATAATTCTACCAATTAATATTCGACATTATCTACAAATAACATTTGTTACAAAATGTA
1 AAAGACAATAATTCTACCAATTAATATTCGACATTATCTACAAATAACATTTGTTACAAAATGTA
14510108 AAAAA
66 AAAAA
14510113 AAAAAAAGGG
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 31 0.48
77 34 0.52
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (77 bp):
AAAGACAATAATTCTACCAATTAATATTCGACATTATCTACAAATAACATTTGTTACAAAATGTA
AAAAATTGTTAC
Found at i:14510965 original size:20 final size:20
Alignment explanation
Indices: 14510940--14510996 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
14510930 AATCTGGGCA
14510940 AAATGTATCGATACATTAGC
1 AAATGTATCGATACATTAGC
14510960 AAATGTATCGATACATTAGC
1 AAATGTATCGATACATTAGC
14510980 AAATGTATCGATACATT
1 AAATGTATCGATACATT
14510997 CTTGGCAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (20 bp):
AAATGTATCGATACATTAGC
Found at i:14514114 original size:33 final size:33
Alignment explanation
Indices: 14514068--14514155 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
14514058 CATGTGATGT
* *
14514068 TAACATGACATGTTAATATATTAAAATTGATAA
1 TAACATGATATGTTAATATATCAAAATTGATAA
** * * *
14514101 TAATGTGATATGTTGATATATCATAATTGATGA
1 TAACATGATATGTTAATATATCAAAATTGATAA
*
14514134 TAACATGATATGCTAATTATAT
1 TAACATGATATGTTAA-TATAT
14514156 ATTTGATAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
33 38 0.88
34 5 0.12
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (33 bp):
TAACATGATATGTTAATATATCAAAATTGATAA
Found at i:14528063 original size:21 final size:21
Alignment explanation
Indices: 14528039--14528080 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14528029 TAAGCTTTAT
*
14528039 CCAAGTAACGAAAA-GAACAAG
1 CCAAGCAAC-AAAAGGAACAAG
14528060 CCAAGCAACAAAAGGAACAAG
1 CCAAGCAACAAAAGGAACAAG
14528081 TTGTTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.57, C:0.21, G:0.19, T:0.02
Consensus pattern (21 bp):
CCAAGCAACAAAAGGAACAAG
Found at i:14529676 original size:21 final size:20
Alignment explanation
Indices: 14529648--14529686 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14529638 GAGCACTTTG
*
14529648 TTGAAAATCTATCGATACAT
1 TTGAAAATCTATCAATACAT
*
14529668 TTGAGAAATGTATCAATAC
1 TTGA-AAATCTATCAATAC
14529687 TTTTAGGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
TTGAAAATCTATCAATACAT
Found at i:14536544 original size:9 final size:9
Alignment explanation
Indices: 14536530--14536558 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
14536520 CATGAAATGA
14536530 CATTTCTCC
1 CATTTCTCC
14536539 CATTTCTCC
1 CATTTCTCC
14536548 CATTTCTCC
1 CATTTCTCC
14536557 CA
1 CA
14536559 GTTCAACGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.14, C:0.45, G:0.00, T:0.41
Consensus pattern (9 bp):
CATTTCTCC
Found at i:14557047 original size:157 final size:157
Alignment explanation
Indices: 14556828--14557146 Score: 620
Period size: 157 Copynumber: 2.0 Consensus size: 157
14556818 TTAATTATGC
14556828 AATCAACATTAAAGGTTTAAGAGTTAAGAGTGTTTTTTGAATAATTAATCCCCTAATTGGTGATT
1 AATCAACATTAAAGGTTTAAGAGTTAAGAGTGTTTTTTGAATAATTAATCCCCTAATTGGTGATT
14556893 GGTTAGTGATAATGTGATACAATTTGATTAAAAATTATAATATTATAATATTTTACTAGGATAGT
66 GGTTAGTGATAATGTGATACAATTTGATTAAAAATTATAATATTATAATATTTTACTAGGATAGT
*
14556958 GCCCGTAGATTGTGAAGCTACAGAAAA
131 GCCAGTAGATTGTGAAGCTACAGAAAA
14556985 AATCAACATTAAAGGTTTAAGAGTTAAGAGTGTTTTTTGAATAATTAATCCCCTAATTGGTGATT
1 AATCAACATTAAAGGTTTAAGAGTTAAGAGTGTTTTTTGAATAATTAATCCCCTAATTGGTGATT
14557050 GGTTAGTGATAATGTGATACAATTTGATTAAAAATTATAATATTATAATATTTTACTAGGATAGT
66 GGTTAGTGATAATGTGATACAATTTGATTAAAAATTATAATATTATAATATTTTACTAGGATAGT
*
14557115 GCCAGTAGATTGTGACGCTACAGAAAA
131 GCCAGTAGATTGTGAAGCTACAGAAAA
14557142 AATCA
1 AATCA
14557147 CGGGAAATAT
Statistics
Matches: 160, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 160 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (157 bp):
AATCAACATTAAAGGTTTAAGAGTTAAGAGTGTTTTTTGAATAATTAATCCCCTAATTGGTGATT
GGTTAGTGATAATGTGATACAATTTGATTAAAAATTATAATATTATAATATTTTACTAGGATAGT
GCCAGTAGATTGTGAAGCTACAGAAAA
Found at i:14557192 original size:36 final size:36
Alignment explanation
Indices: 14557123--14557193 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
14557113 GTGCCAGTAG
*
14557123 ATTGTGACGCTACAGAAAAAATCACGGGAAATATAA
1 ATTGTGACGCTACAGAAAAAATCACAGGAAATATAA
* * *
14557159 ATTGTGACGCTACCGGAAAAATTACAAGG-AATATA
1 ATTGTGACGCTACAGAAAAAATCAC-AGGAAATATA
14557194 GATTATGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 28 0.93
37 2 0.07
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (36 bp):
ATTGTGACGCTACAGAAAAAATCACAGGAAATATAA
Found at i:14559228 original size:230 final size:230
Alignment explanation
Indices: 14558825--14559259 Score: 674
Period size: 230 Copynumber: 1.9 Consensus size: 230
14558815 GCATTGTAGT
* * * * *
14558825 ACCATCCATTTGGTGTTTCTATATTTACTATTATTGTTGTGACTTCAAACTTTTTATTTTGTAAG
1 ACCATCCATTTGGTGCTTCTATATTTACTATCATTATTGTGACCTCAAACTTTTTATTTTATAAG
* * ** **
14558890 AGGATGTAAATGTTTTTGTTAATTTTGATAGTATGTTGAATTGGTTTAATTTGATGTTATAGTTA
66 AGGATGTAAATGTTATTGTTAATTTTGATAGCATGGCGAATTAATTTAATTTGATGTTATAGTTA
** * *
14558955 AGAATTTATGTTTTTGTAGTTAAGAGCTGTATTTTTTCTTAAATGATTATAAGTAATCTTTGTTG
131 AGAATACATGTTTTTGTAGTTAAGAGCTGTAATTTTTCTTAAATAATTATAAGTAATCTTTGTTG
*
14559020 CTGAAAATATTTCAATCTTTTTTCACATTCGTTGA
196 CTAAAAATATTTCAATCTTTTTTCACATTCGTTGA
* *
14559055 ACCATCCATTTGGTGCTTCTATATTTACTATCGTTATTGTGACCTCAAACTTTTTATTTTATGAG
1 ACCATCCATTTGGTGCTTCTATATTTACTATCATTATTGTGACCTCAAACTTTTTATTTTATAAG
14559120 AGGATGTAAATGTTATTGTTAATTTTGATAGCATGGCGAATTAATTTAATTTGATGTTATAGTT-
66 AGGATGTAAATGTTATTGTTAATTTTGATAGCATGGCGAATTAATTTAATTTGATGTTATAGTTA
* *
14559184 AGAAATACATGTTTTTGTGGTTAGGAGCTGTAATTTTTCTTAAATAATTATAAGTAATCTTTGTT
131 AG-AATACATGTTTTTGTAGTTAAGAGCTGTAATTTTTCTTAAATAATTATAAGTAATCTTTGTT
14559249 GCTAAAAATAT
195 GCTAAAAATAT
14559260 AGTAGTATAA
Statistics
Matches: 184, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
229 2 0.01
230 182 0.99
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.48
Consensus pattern (230 bp):
ACCATCCATTTGGTGCTTCTATATTTACTATCATTATTGTGACCTCAAACTTTTTATTTTATAAG
AGGATGTAAATGTTATTGTTAATTTTGATAGCATGGCGAATTAATTTAATTTGATGTTATAGTTA
AGAATACATGTTTTTGTAGTTAAGAGCTGTAATTTTTCTTAAATAATTATAAGTAATCTTTGTTG
CTAAAAATATTTCAATCTTTTTTCACATTCGTTGA
Found at i:14574774 original size:745 final size:738
Alignment explanation
Indices: 14573160--14575306 Score: 2818
Period size: 745 Copynumber: 2.9 Consensus size: 738
14573150 AATCAATTAG
* *
14573160 AAAAAAGTCTACCAGATTCTAAAATTAAGTAATCAATGCATTAGCAAAATACCCATTAAGTGAAA
1 AAAAAAGTCTATCAGATTCTAAAATTAAGTAATCAATGCATTAGCAAAATACCCACTAAGTGAAA
* *
14573225 CTACAAAAATTTGATTTATTCTGGTTTAATTTTTTCTATCTGGCTTCATTGCATGTCAATCCAAC
66 CTACAAAAATTTGATTTATTCTGGTTTAATTTTTTCTATCTAGCTTCATTGCATGTCAATCCAAA
* * *
14573290 AACTAACATCTTTTCAAAAAATATAGGCAGGAATAGGACTACTAGCAGGCAATGAACCATAATAT
131 AACTGACATCTTTT-AAAAAATATGGGTAGGAATAGGACTACTAGCAGGCAATGAACCATAATAT
* *
14573355 TATAGAAGATATTAT-CATAAATTACCTTTAGCATTTGACTTTGTTCATCCTTTGCTCCATAGAA
195 TATAAAAGATATTATCCA-AAATTACCTTTAGCATTTGACTTTGTTCATCCTTTGCTCCACAGAA
* * * *
14573419 TTCCT-ATAGAATGAACATTTTTGTCATTAATTTTATGAGGAACAAATATATCAGATGCACATAA
259 TTCCTAATA-AA--CACACTTTTGTCATTAATTTTATG-GGAACAAATATATCAGATGGACTTAA
* * * * * *
14573483 TC-AGGACAAAACCAAATCGTAAAGAAATAAAATAAAATTCCTTTCTTTTGTATCAAGTTCACCT
320 TCAAGG-CGAAACAAAATAGTAAAGAAATAAAATAAAATTCCTTTCCTTTGCATCAAGTTCACCC
* * * * *
14573547 AGATGCTCAATTCATCTTCTAAGATGATTTCCATTTACTTCCAATAAGT-AAAATGAAT-AAACA
384 AGATGCTCAATTCATTTTCTAAGTTGATTTTCATTTACTTCTAATAAGTAAAAATGAATAAAAAA
* * * *
14573610 AATAAGCGAAAAACAATTGAGTTCCTCACATAACACCTTAAATGTTTTTTGTAAAAATATTTTAC
449 AAT-AG-G-AAAACAACTGATTTCCCCACATAACAACTTAAATGTTTTTTGTAAAAATATTTTAC
* * * * * *
14573675 AACTATAGGGGAAAATATATGAGAAAAATGGGTAATTGAA-CCTAACCTACATGTCATTAACAAA
511 AACTACA-GAGAAAAAATAAGAGAAAAATGGCTAATTGAACCCT-ACCTACAGGTCATTAACAAA
* * * * *
14573739 ACCTTCAACAGAATGATAGGGTGCATAAACCATGAGATC-GATAAAAAGTAAGGCAATAGATCAA
574 ACCTTCAACTGAATGATAAGGTGCATAAACAATGAGATCAAATAAAAAATAAGGCAATAGATCAA
* *
14573803 GAAAAAAT--AAAAAAAAAATTCTATTGAATCAATATTGAAGTAATAAAAGATCCTTTTATTTCA
639 GAAAAAATAAAAAAAAAAAATTCAACTGAATCAATATTGAAGTAATAAAAGATCCTTTTATTTCA
* *
14573866 TTTATGATATGAATCTGATGACTAAAACACATGTA
704 TTTATGATATGAATCTAATGACCAAAACACATGTA
** * *
14573901 AAAAATAGTCTATTGGATTCTAAAATTAAGTAATCACTGCATTAGTAAAATACCCACTAAGTG-A
1 AAAAA-AGTCTATCAGATTCTAAAATTAAGTAATCAATGCATTAGCAAAATACCCACTAAGTGAA
* * * * * * *
14573965 ACTACGAAAATTTGATTTATTTTGATTTAATATTTTCTATGTAACTTCATTGCATGTAAATCCAA
65 ACTACAAAAATTTGATTTATTCTGGTTTAATTTTTTCTATCTAGCTTCATTGCATGTCAATCCAA
* * * * * **
14574030 AAATTGACATCTTTCTACAAAATATGGGTAGGAACAAGACTACTAGTAACCAATGAA-CAGTAAT
130 AAACTGACATCTTT-TAAAAAATATGGGTAGGAATAGGACTACTAGCAGGCAATGAACCA-TAAT
* *
14574094 ATTACAAAAGATATTATCCAAAATTA-TTTTCAGCATTTGACTTTGTTCATCCTTTGCTCCACAG
193 ATTATAAAAGATATTATCCAAAATTACCTTT-AGCATTTGACTTTGTTCATCCTTTGCTCCACAG
* * * *
14574158 AATTCCTAATAAACACACTTTTGTTATTAATTTTATAGGGAACAAATTTATAATATGGACTTAAT
257 AATTCCTAATAAACACACTTTTGTCATTAATTTTAT-GGGAACAAATATATCAGATGGACTTAAT
* *
14574223 CAAGGCGAAACAAAATAGTAAAGAAATAAAATAAAACTT-CGTTCCTTTGCATCAGGTTCACCCA
321 CAAGGCGAAACAAAATAGTAAAGAAATAAAATAAAA-TTCCTTTCCTTTGCATCAAGTTCACCCA
* *
14574287 GATGCTCAATTCATTTTGTAAGTTGATTTTTATTTACTTCTAATAAGTAAAAATGAATAAAAAAA
385 GATGCTCAATTCATTTTCTAAGTTGATTTTCATTTACTTCTAATAAGTAAAAATGAATAAAAAAA
* * *
14574352 ATAGGAAAATAACTGATTTCCCCATATATCAACTTAAATGTTTTTTGTAAAAATATTTTACAACT
450 ATAGGAAAACAACTGATTTCCCCACATAACAACTTAAATGTTTTTTGTAAAAATATTTTACAACT
* * * * * * *
14574417 ACCGAGAAAAAAAAAGAAAAAAATGGCTAACTCAACCCTAGCTATAGGTCATTAACAAAACCTTC
515 ACAGAGAAAAAATAAGAGAAAAATGGCTAATTGAACCCTACCTACAGGTCATTAACAAAACCTTC
14574482 AACTGAATGATAAGGTGCATAAACAATGAGATCAAATAAAAAAAATAAGGCAATAGATCAAGAAA
580 AACTGAATGATAAGGTGCATAAACAATGAGATCAAAT--AAAAAATAAGGCAATAGATCAAGAAA
* *
14574547 AAATCCAAAAAAAAAAAGATTCAACTGAGTCAATATTGAAGTAATAAAAGATTCTTTTATTTCAT
643 AAAT--AAAAAAAAAAA-ATTCAACTGAATCAATATTGAAGTAATAAAAGATCCTTTTATTTCAT
*
14574612 TTATGATATGAATCTAATGACCGAAACACATGTA
705 TTATGATATGAATCTAATGACCAAAACACATGTA
* *
14574646 AAAAAAGTCTATCAGATTCTAAAATTAAGTAATCAATGTATTAGCAAAATATCCACTAAGTGAAA
1 AAAAAAGTCTATCAGATTCTAAAATTAAGTAATCAATGCATTAGCAAAATACCCACTAAGTGAAA
* ** *
14574711 TTACAAAAATTTGATTTATTCTGGTTTAATTTTTTCTATCTAGCTTTTTTGCATATCAATCCAAA
66 CTACAAAAATTTGATTTATTCTGGTTTAATTTTTTCTATCTAGCTTCATTGCATGTCAATCCAAA
* * * *
14574776 AACTGACATCTCTTTAGAAAATATGGGTAGGAATAGGACTATTAGCAGGTAATGAACCATAACAT
131 AACTGACATCT-TTTAAAAAATATGGGTAGGAATAGGACTACTAGCAGGCAATGAACCATAATAT
* * ** *
14574841 TATAGAAA-ATATTATCAAAAATTACCTTTAGCATTTGGCTTTGTTCATCCTTTGCTGTACAAAA
195 TATA-AAAGATATTATCCAAAATTACCTTTAGCATTTGACTTTGTTCATCCTTTGCTCCACAGAA
* * * *
14574905 TTCCTACAGAATCAACACTTTTGTCATTAATTATATGGGGAATAAATATATCAGATGGACTTAAT
259 TTCCTA-ATAAAC-ACACTTTTGTCATTAATTTTAT-GGGAACAAATATATCAGATGGACTTAAT
* *
14574970 CAAGACGAAACAAAATAGTAAAGAAATAAAATAAAATTCCTTTCCTTTACATCAAGTTCACCCAG
321 CAAGGCGAAACAAAATAGTAAAGAAATAAAATAAAATTCCTTTCCTTTGCATCAAGTTCACCCAG
*
14575035 ATGCTCAATTCATTTTCTAAGTTAATTTTCATTTACTTCTAATAAGTAAAAATGAATAAACAAAA
386 ATGCTCAATTCATTTTCTAAGTTGATTTTCATTTACTTCTAATAAGTAAAAATGAATAAA-AAAA
* * * *
14575100 AAAGG--AACAACTGATTTCCCCACATAACAACTTAAATGTTTTCTGCAAATATATTTTACAACT
450 ATAGGAAAACAACTGATTTCCCCACATAACAACTTAAATGTTTTTTGTAAAAATATTTTACAACT
* *
14575163 ACAGAAGAAAAGAATAAGAGAAAAATAGCTAATTGAACCCTACCTACATGG-CATTAACAAAACT
515 ACAG-AGAAAA-AATAAGAGAAAAATGGCTAATTGAACCCTACCTACA-GGTCATTAACAAAACC
* ** *
14575227 TTGAA-TGGAACAATATGGTGCATAAACAATGAGATCAAATAAAAAATAAGGCAATAGATCAAGA
577 TTCAACT-GAATGATAAGGTGCATAAACAATGAGATCAAATAAAAAATAAGGCAATAGATCAAGA
*
14575291 AAAAATTAAAAAAAAA
641 AAAAATAAAAAAAAAA
14575307 TTGATTGAGA
Statistics
Matches: 1218, Mismatches: 155, Indels: 63
0.85 0.11 0.04
Matches are distributed among these distances:
737 77 0.06
738 59 0.05
739 134 0.11
740 51 0.04
741 180 0.15
742 57 0.05
744 69 0.06
745 239 0.20
746 101 0.08
747 166 0.14
748 83 0.07
749 2 0.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.31
Consensus pattern (738 bp):
AAAAAAGTCTATCAGATTCTAAAATTAAGTAATCAATGCATTAGCAAAATACCCACTAAGTGAAA
CTACAAAAATTTGATTTATTCTGGTTTAATTTTTTCTATCTAGCTTCATTGCATGTCAATCCAAA
AACTGACATCTTTTAAAAAATATGGGTAGGAATAGGACTACTAGCAGGCAATGAACCATAATATT
ATAAAAGATATTATCCAAAATTACCTTTAGCATTTGACTTTGTTCATCCTTTGCTCCACAGAATT
CCTAATAAACACACTTTTGTCATTAATTTTATGGGAACAAATATATCAGATGGACTTAATCAAGG
CGAAACAAAATAGTAAAGAAATAAAATAAAATTCCTTTCCTTTGCATCAAGTTCACCCAGATGCT
CAATTCATTTTCTAAGTTGATTTTCATTTACTTCTAATAAGTAAAAATGAATAAAAAAAATAGGA
AAACAACTGATTTCCCCACATAACAACTTAAATGTTTTTTGTAAAAATATTTTACAACTACAGAG
AAAAAATAAGAGAAAAATGGCTAATTGAACCCTACCTACAGGTCATTAACAAAACCTTCAACTGA
ATGATAAGGTGCATAAACAATGAGATCAAATAAAAAATAAGGCAATAGATCAAGAAAAAATAAAA
AAAAAAAATTCAACTGAATCAATATTGAAGTAATAAAAGATCCTTTTATTTCATTTATGATATGA
ATCTAATGACCAAAACACATGTA
Found at i:14575275 original size:24 final size:23
Alignment explanation
Indices: 14575248--14575296 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
14575238 AATATGGTGC
*
14575248 ATAA-ACAATGAGATCAAATAAAAA
1 ATAAGACAAT-AGATC-AAGAAAAA
*
14575272 ATAAGGCAATAGATCAAGAAAAA
1 ATAAGACAATAGATCAAGAAAAA
14575295 AT
1 AT
14575297 TAAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 9 0.41
24 9 0.41
25 4 0.18
ACGTcount: A:0.63, C:0.08, G:0.12, T:0.16
Consensus pattern (23 bp):
ATAAGACAATAGATCAAGAAAAA
Found at i:14583687 original size:21 final size:21
Alignment explanation
Indices: 14583644--14583683 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
14583634 AAGAAGTTCA
* *
14583644 AAAAACAGAAAGAAGAGGAAG
1 AAAAACAGAAACAAGAGAAAG
14583665 AAAAACAG-AACAAGAGAAA
1 AAAAACAGAAACAAGAGAAA
14583684 AGAATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.70, C:0.07, G:0.23, T:0.00
Consensus pattern (21 bp):
AAAAACAGAAACAAGAGAAAG
Found at i:14603853 original size:25 final size:25
Alignment explanation
Indices: 14603824--14603873 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
14603814 ATGTGGTCGC
*
14603824 AACCACGA-ATATCAACTTGTGGCCT
1 AACCAC-ATATATCAACTTATGGCCT
*
14603849 AACCACATATATCATCTTATGGCCT
1 AACCACATATATCAACTTATGGCCT
14603874 TGCCATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (25 bp):
AACCACATATATCAACTTATGGCCT
Found at i:14623293 original size:35 final size:35
Alignment explanation
Indices: 14623213--14623295 Score: 114
Period size: 35 Copynumber: 2.4 Consensus size: 35
14623203 ACGCTTATTC
14623213 ATGGGATCAACCAATAACCCTCACAATGGTTTTTA
1 ATGGGATCAACCAATAACCCTCACAATGGTTTTTA
** *
14623248 ATAAGATCAACC-ATAAACCCTCACAATTGTTTTTA
1 ATGGGATCAACCAAT-AACCCTCACAATGGTTTTTA
*
14623283 ATGGGCTCAACCA
1 ATGGGATCAACCA
14623296 GCAACCCTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.05
35 38 0.95
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (35 bp):
ATGGGATCAACCAATAACCCTCACAATGGTTTTTA
Found at i:14637707 original size:2 final size:2
Alignment explanation
Indices: 14637700--14637775 Score: 125
Period size: 2 Copynumber: 38.0 Consensus size: 2
14637690 AGTCCATACA
* * *
14637700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14637742 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14637776 TATCAACAGA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14642400 original size:15 final size:15
Alignment explanation
Indices: 14642380--14642418 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
14642370 TTTACAATGC
14642380 AATGTGATTACAGGT
1 AATGTGATTACAGGT
14642395 AATGTGATTACAGGT
1 AATGTGATTACAGGT
14642410 AATGTGATT
1 AATGTGATT
14642419 GCAAGCAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (15 bp):
AATGTGATTACAGGT
Found at i:14642672 original size:15 final size:15
Alignment explanation
Indices: 14642635--14642699 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
14642625 CATCTTTTAA
* *
14642635 ATATATTTTGAATGTC
1 ATATATTTT-ATTTTC
14642651 ATATATTTTATTTTC
1 ATATATTTTATTTTC
* *
14642666 ATTTATTATATAATCTT-
1 ATATATT-T-T-ATTTTC
14642683 ATATATTTTATTTTC
1 ATATATTTTATTTTC
14642698 AT
1 AT
14642700 TTTTTAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
14 4 0.10
15 13 0.33
16 11 0.28
17 7 0.18
18 4 0.10
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (15 bp):
ATATATTTTATTTTC
Found at i:14642687 original size:32 final size:33
Alignment explanation
Indices: 14642651--14642712 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
14642641 TTTGAATGTC
14642651 ATATATTTTATTTTCATTTATT-ATATAATCTT
1 ATATATTTTATTTTCATTTATTAATATAATCTT
*
14642683 ATATATTTTATTTTCATTTTTTAATATAAT
1 ATATATTTTATTTTCATTTATTAATATAAT
14642713 TTACTTGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (33 bp):
ATATATTTTATTTTCATTTATTAATATAATCTT
Found at i:14642744 original size:19 final size:20
Alignment explanation
Indices: 14642692--14642759 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
14642682 TATATATTTT
*
14642692 ATTTTCATTTTTTA-ATATA
1 ATTTTAATTTTTTATATATA
* *
14642711 A-TTTACTTGTATTATATA-A
1 ATTTTAATT-TTTTATATATA
* *
14642730 ATTTTAATTTTTTATATTTT
1 ATTTTAATTTTTTATATATA
14642750 ATTTT-ATTTT
1 ATTTTAATTTT
14642760 AATATTTGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 5 0.13
19 19 0.50
20 14 0.37
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (20 bp):
ATTTTAATTTTTTATATATA
Found at i:14642802 original size:14 final size:14
Alignment explanation
Indices: 14642783--14642809 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14642773 TATATTATAT
14642783 ATTTTATTTTAATA
1 ATTTTATTTTAATA
14642797 ATTTTATTTTAAT
1 ATTTTATTTTAAT
14642810 TATAATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTATTTTAATA
Found at i:14662267 original size:2 final size:2
Alignment explanation
Indices: 14662260--14662284 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14662250 TTCTTTTATC
14662260 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14662285 CACATGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14666159 original size:23 final size:25
Alignment explanation
Indices: 14666133--14666190 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
14666123 AAATTATTTA
*
14666133 TGGAAACTTTCCTAAATC-A-TTGT
1 TGGAAACTTTCCTAAAACTATTTGT
* *
14666156 TGGAAACATTCCTAAAACTATTTTT
1 TGGAAACTTTCCTAAAACTATTTGT
14666181 TGGAAACTTT
1 TGGAAACTTT
14666191 GTTCAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 16 0.55
24 1 0.03
25 12 0.41
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (25 bp):
TGGAAACTTTCCTAAAACTATTTGT
Found at i:14671837 original size:25 final size:24
Alignment explanation
Indices: 14671786--14671837 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
14671776 GCAATTGTGA
* *
14671786 ATAACACTTGTGGCCTAGCCACAT
1 ATAACACTCGTGACCTAGCCACAT
* *
14671810 ATAACAACTCGTGACCTTGCCACGT
1 ATAAC-ACTCGTGACCTAGCCACAT
14671835 ATA
1 ATA
14671838 TCACATACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (24 bp):
ATAACACTCGTGACCTAGCCACAT
Found at i:14677736 original size:20 final size:20
Alignment explanation
Indices: 14677703--14677750 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14677693 ATGTTTCGTA
* *
14677703 ATTTAAAATGGTATGAATAT
1 ATTTATAATGGTATAAATAT
*
14677723 ATTTATAATTGTATAAATAT
1 ATTTATAATGGTATAAATAT
14677743 ATTATATA
1 ATT-TATA
14677751 TACATATACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (20 bp):
ATTTATAATGGTATAAATAT
Found at i:14678042 original size:2 final size:2
Alignment explanation
Indices: 14678035--14678091 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
14678025 TCATTAATTT
* * *
14678035 TA TA TA TA CA TA TA TA TA -A TA -A TG TA -A TA TA T- TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
14678073 TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA T
14678092 TTAATTTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
1 4 0.09
2 40 0.91
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:14679602 original size:21 final size:21
Alignment explanation
Indices: 14679577--14679617 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14679567 TTAAAGAAAT
14679577 TTAAAATAAAATAATATAAAA
1 TTAAAATAAAATAATATAAAA
* *
14679598 TTAAACTAAAATAATTTAAA
1 TTAAAATAAAATAATATAAA
14679618 TCAAATTAAT
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:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TTAAAATAAAATAATATAAAA
Found at i:14688048 original size:65 final size:63
Alignment explanation
Indices: 14687922--14688179 Score: 282
Period size: 64 Copynumber: 4.0 Consensus size: 63
14687912 AAGATATCAT
* * *
14687922 AACCTTCACAAATGCCTTTTAATGAGAGCAAGTACAACCCATGGGTTTTAACGAGCTTAACCACA
1 AACCTT-ACAAATGCCTTTT-ACGAGAGCAAGCACAACCCATGGTTTTTAACGAGCTTAACCACA
* * * * *
14687987 AACCTTACAAATGCTTTTTACCGAGAGAAAACACAACCCATGGATTTTTAATGAGCTTAACCCCA
1 AACCTTACAAATGCCTTTTA-CGAGAGCAAGCACAACCCATGG-TTTTTAACGAGCTTAACCACA
* * * * *
14688052 AACCTTACAAATGCCTTTTATCGAGAGCAAGCACAACTCTTGGTTTTTAACAAGCTCAACAACA
1 AACCTTACAAATGCCTTTTA-CGAGAGCAAGCACAACCCATGGTTTTTAACGAGCTTAACCACA
* * * * ** *
14688116 AACCTTGCAAATGCTTTTTACTAGGAGCAAGCACAACCCATGTTTTTTATTGGGCTTAACCACA
1 AACCTTACAAATGCCTTTTACGA-GAGCAAGCACAACCCATGGTTTTTAACGAGCTTAACCACA
14688180 GATCCGCACT
Statistics
Matches: 159, Mismatches: 31, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
63 3 0.02
64 95 0.60
65 61 0.38
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (63 bp):
AACCTTACAAATGCCTTTTACGAGAGCAAGCACAACCCATGGTTTTTAACGAGCTTAACCACA
Found at i:14689796 original size:19 final size:19
Alignment explanation
Indices: 14689768--14689820 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
14689758 TGAGAAGAAA
* *
14689768 TAATTCTAAAGCTTGATGC
1 TAATTATAAAGCTTGATAC
*
14689787 TAATTATAAAGCTAGATAC
1 TAATTATAAAGCTTGATAC
*
14689806 TAATTGAGAAAGCTT
1 TAATT-ATAAAGCTT
14689821 AAGGTTTGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (19 bp):
TAATTATAAAGCTTGATAC
Found at i:14699518 original size:2 final size:2
Alignment explanation
Indices: 14699511--14699537 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14699501 AAGTAATCAT
14699511 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
14699538 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14700244 original size:53 final size:54
Alignment explanation
Indices: 14700163--14700275 Score: 210
Period size: 53 Copynumber: 2.1 Consensus size: 54
14700153 CAAATGTAGA
14700163 ACTCTTTGGATACCATAATCCTAAGTTTGGTGTATCTTTTAAATATCTAAAGAT
1 ACTCTTTGGATACCATAATCCTAAGTTTGGTGTATCTTTTAAATATCTAAAGAT
*
14700217 -CTCTTTGGATACCATAATCCTAAGTTTGGTGTATCTTTTAAATGTCTAAAGAT
1 ACTCTTTGGATACCATAATCCTAAGTTTGGTGTATCTTTTAAATATCTAAAGAT
14700270 ACTCTT
1 ACTCTT
14700276 AACAATGCCT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
53 52 0.91
54 5 0.09
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (54 bp):
ACTCTTTGGATACCATAATCCTAAGTTTGGTGTATCTTTTAAATATCTAAAGAT
Found at i:14706981 original size:27 final size:26
Alignment explanation
Indices: 14706951--14707038 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
14706941 GGAGCTCAAG
* *
14706951 CTTCCACTTCCGCCTTCGGCGCTCCTT
1 CTTCCAC-TCCGCCTTCGGCACTCCCT
* * *
14706978 CTTCAACGCC-CTCGTTTGGCACTCCCT
1 CTTCCACTCCGC-C-TTCGGCACTCCCT
14707005 CTTCCACTCCTGCCTTCGGCACTCCCT
1 CTTCCACTCC-GCCTTCGGCACTCCCT
14707032 CTTCCAC
1 CTTCCAC
14707039 GACGGCGTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
25 1 0.02
26 3 0.06
27 43 0.88
28 1 0.02
29 1 0.02
ACGTcount: A:0.08, C:0.49, G:0.12, T:0.31
Consensus pattern (26 bp):
CTTCCACTCCGCCTTCGGCACTCCCT
Found at i:14707035 original size:54 final size:53
Alignment explanation
Indices: 14706951--14707069 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 53
14706941 GGAGCTCAAG
* * * * *
14706951 CTTCCACTTCCGCCTTCGGCGCTCCTTCTTCAACGCCCTCGTTTGGCACTCCCT
1 CTTCCAC-TCCGCCTTCGGCACTCCCTCTTCAACGACCGCGTTTGGAACTCCCT
* * *
14707005 CTTCCACTCCTGCCTTCGGCACTCCCTCTTCCACGACGGCGTTTGGAACTCCGT
1 CTTCCACTCC-GCCTTCGGCACTCCCTCTTCAACGACCGCGTTTGGAACTCCCT
*
14707059 CTTCGACTCCG
1 CTTCCACTCCG
14707070 GGTTTTGGTA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
53 4 0.07
54 51 0.93
ACGTcount: A:0.09, C:0.45, G:0.17, T:0.29
Consensus pattern (53 bp):
CTTCCACTCCGCCTTCGGCACTCCCTCTTCAACGACCGCGTTTGGAACTCCCT
Found at i:14707055 original size:27 final size:27
Alignment explanation
Indices: 14706990--14707062 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
14706980 TCAACGCCCT
** *
14706990 CGTTTGGCACTCCCTCTTCCACTCCTG
1 CGTTTGGCACTCCCTCTTCCACGACGG
* *
14707017 CCTTCGGCACTCCCTCTTCCACGACGG
1 CGTTTGGCACTCCCTCTTCCACGACGG
* *
14707044 CGTTTGGAACTCCGTCTTC
1 CGTTTGGCACTCCCTCTTC
14707063 GACTCCGGGT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.10, C:0.42, G:0.18, T:0.30
Consensus pattern (27 bp):
CGTTTGGCACTCCCTCTTCCACGACGG
Found at i:14707076 original size:27 final size:27
Alignment explanation
Indices: 14707041--14707110 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
14707031 TCTTCCACGA
* *
14707041 CGGCGTTTGGAACTCCGTCTTCGACTC
1 CGGCGTTTGGAACTCCGTCCTCGACGC
*
14707068 CGG-GTTTTGGTACTCCGTCCTCGACGC
1 CGGCG-TTTGGAACTCCGTCCTCGACGC
*
14707095 CGGCGTTTGGGACTCC
1 CGGCGTTTGGAACTCC
14707111 TTCAACGCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 35 0.95
28 1 0.03
ACGTcount: A:0.09, C:0.33, G:0.30, T:0.29
Consensus pattern (27 bp):
CGGCGTTTGGAACTCCGTCCTCGACGC
Found at i:14720118 original size:17 final size:17
Alignment explanation
Indices: 14720096--14720138 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
14720086 AAAAAATTCA
14720096 AATATAAGCAAATATAC
1 AATATAAGCAAATATAC
14720113 AATATAAGCAAATATAC
1 AATATAAGCAAATATAC
14720130 AATATAAGC
1 AATATAAGC
14720139 TCTTAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.07, T:0.23
Consensus pattern (17 bp):
AATATAAGCAAATATAC
Found at i:14723569 original size:35 final size:35
Alignment explanation
Indices: 14723500--14723752 Score: 232
Period size: 35 Copynumber: 7.3 Consensus size: 35
14723490 CAAGCACTTG
* *
14723500 ATTAAATTGTTTAATTAAG---TTGTACTTAATTA
1 ATTAAATTATTTAATTAAGTCATTGGACTTAATTA
* *
14723532 ATTAAATTCTTTAATTAAATCATTGGACTTAATTA
1 ATTAAATTATTTAATTAAGTCATTGGACTTAATTA
*
14723567 ATTAAATTATTTAATTAAGTCATT-GAGCCTAATTA
1 ATTAAATTATTTAATTAAGTCATTGGA-CTTAATTA
*** * *
14723602 ATTAAATTAAACAATTAAGTTATTGG-GTCTAATTA
1 ATTAAATTATTTAATTAAGTCATTGGACT-TAATTA
* * * *
14723637 ATTAAATT-TGTTCAATGAAGTCATTGGGCCTAATTG
1 ATTAAATTAT-TT-AATTAAGTCATTGGACTTAATTA
* *
14723673 ATTAAAATTATTTAATTAAATTATTGGACTTAATTA
1 ATT-AAATTATTTAATTAAGTCATTGGACTTAATTA
* * *
14723709 ATTACATTATTTAATTAAGTTATTAGG-CTTAATTG
1 ATTAAATTATTTAATTAAGTCATT-GGACTTAATTA
14723744 ATTAAATTA
1 ATTAAATTA
14723753 AACAGTTAAG
Statistics
Matches: 179, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
32 17 0.09
34 2 0.01
35 109 0.61
36 43 0.24
37 7 0.04
38 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (35 bp):
ATTAAATTATTTAATTAAGTCATTGGACTTAATTA
Found at i:14723707 original size:107 final size:105
Alignment explanation
Indices: 14723524--14723751 Score: 264
Period size: 107 Copynumber: 2.2 Consensus size: 105
14723514 TTAAGTTGTA
* * *
14723524 CTTAATTAATTAAATTCTTTAATTAAATCATTGGACTTAATTAATTAAATTATTTAATTAAGTCA
1 CTTAATTAATTAAATTCTTTAATGAAATCATTGGACCTAATTAATTAAATTATTTAATTAAATCA
14723589 TTGAGCCTAATTAATTAAATTAAACAATTAAGTTATT-GG
66 TTGAGCCTAATTAATTAAATTAAACAATTAAGTTATTAGG
* * * *
14723628 GTCTAATTAATTAAATT-TGTTCAATGAAGTCATTGGGCCTAATTGATTAAAATTATTTAATTAA
1 CT-TAATTAATTAAATTCT-TT-AATGAAATCATTGGACCTAATTAATT-AAATTATTTAATTAA
* * * ***
14723692 ATTATTG-GACTTAATTAATTACATTATTTAATTAAGTTATTAGG
62 ATCATTGAG-CCTAATTAATTAAATTAAACAATTAAGTTATTAGG
*
14723736 CTTAATTGATTAAATT
1 CTTAATTAATTAAATT
14723752 AAACAGTTAA
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
104 2 0.02
105 16 0.16
106 22 0.21
107 60 0.58
108 3 0.03
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (105 bp):
CTTAATTAATTAAATTCTTTAATGAAATCATTGGACCTAATTAATTAAATTATTTAATTAAATCA
TTGAGCCTAATTAATTAAATTAAACAATTAAGTTATTAGG
Found at i:14725581 original size:36 final size:36
Alignment explanation
Indices: 14725515--14725609 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 36
14725505 GTAGAAAGGC
* *
14725515 TATGCCTTAA-CCT-TT-AAAAGGTAGTGTGTGAGGT
1 TATG-CTTAATCCTCTTGAAAAGGCAGTATGTGAGGT
* * *
14725549 TATGCTTAATCTTTTTGAAAGGGCAGTATGTGAGGT
1 TATGCTTAATCCTCTTGAAAAGGCAGTATGTGAGGT
*
14725585 TATGCTTGATCCTCTTGAAAAGGCA
1 TATGCTTAATCCTCTTGAAAAGGCA
14725610 AGAGTTATGC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
33 5 0.10
34 6 0.12
35 2 0.04
36 37 0.74
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (36 bp):
TATGCTTAATCCTCTTGAAAAGGCAGTATGTGAGGT
Found at i:14730532 original size:26 final size:25
Alignment explanation
Indices: 14730475--14730532 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
14730465 TACGACATGG
*
14730475 TATAAAATAATAAATAATATTTTGAT
1 TATAAAATAATAAATAATA-TTTAAT
14730501 TA-AAAATAATTAAATAATCA-TTAAT
1 TATAAAATAA-TAAATAAT-ATTTAAT
14730526 TATAAAA
1 TATAAAA
14730533 ATTTATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 13 0.46
26 14 0.50
27 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
TATAAAATAATAAATAATATTTAAT
Found at i:14732288 original size:2 final size:2
Alignment explanation
Indices: 14732281--14732308 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14732271 ACTATGCATA
14732281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14732309 TCTTATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14733607 original size:21 final size:21
Alignment explanation
Indices: 14733568--14733607 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14733558 CGATGCATTA
*
14733568 AATATAAATATTTAATTTTAT
1 AATATAAATATGTAATTTTAT
* *
14733589 AATATAAATGTGTATTTTT
1 AATATAAATATGTAATTTT
14733608 TGTGGATGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
AATATAAATATGTAATTTTAT
Found at i:14741028 original size:81 final size:81
Alignment explanation
Indices: 14740890--14741038 Score: 226
Period size: 81 Copynumber: 1.8 Consensus size: 81
14740880 ATCAAGCATG
* * ** * *
14740890 TAATCTGATCGATGTAAACCCAAGCGTATTTCCTGTTCCAAAAACGGCATATGATTAGATTCTTT
1 TAATCTGATCAAGGTAAACCCAAGCGTATTTCCCATTCCAAAAACGGCATATCATTAGATGCTTT
14740955 CATTTAATGAAAACCC
66 CATTTAATGAAAACCC
* *
14740971 TAATCTGATCAAGGTAAACTCAAGCGTATTTCCCATTCCAAAAACTGCATATCATTAGATGCTTT
1 TAATCTGATCAAGGTAAACCCAAGCGTATTTCCCATTCCAAAAACGGCATATCATTAGATGCTTT
14741036 CAT
66 CAT
14741039 GCGATGAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (81 bp):
TAATCTGATCAAGGTAAACCCAAGCGTATTTCCCATTCCAAAAACGGCATATCATTAGATGCTTT
CATTTAATGAAAACCC
Found at i:14742395 original size:35 final size:36
Alignment explanation
Indices: 14742324--14742396 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 36
14742314 TCTCATTGGG
** * **
14742324 AAAATAAATAAATAATTTTTTTCTGAAAAAGTTGAA
1 AAAATAAATAAATAATACTTTACTGAAAAACCTGAA
14742360 AAAATAAATAAATAA-ACTTTACTGAAAAACCTGAA
1 AAAATAAATAAATAATACTTTACTGAAAAACCTGAA
14742395 AA
1 AA
14742397 TTTCTATCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 17 0.53
36 15 0.47
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (36 bp):
AAAATAAATAAATAATACTTTACTGAAAAACCTGAA
Found at i:14742921 original size:19 final size:19
Alignment explanation
Indices: 14742897--14742935 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
14742887 GTTTATTCAT
14742897 TTTTTATATTAAAATATTA
1 TTTTTATATTAAAATATTA
14742916 TTTTTATATTAAAATATTA
1 TTTTTATATTAAAATATTA
14742935 T
1 T
14742936 ATCTAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTATATTAAAATATTA
Found at i:14743025 original size:44 final size:45
Alignment explanation
Indices: 14742977--14743072 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
14742967 ATTATCAAAT
14742977 ATTTAAATATTAT-ATTATAATT-TA-AAGATACAAAATAA-AATAAC
1 ATTTAAA-ATTATAATTATAATTATATAA-ATACAAAA-AATAATAAC
* * *
14743021 ATTTAAACTTATAATTATAATTATATAATTACAAAAAATATTAAC
1 ATTTAAAATTATAATTATAATTATATAAATACAAAAAATAATAAC
14743066 ATTTAAA
1 ATTTAAA
14743073 GTTAATATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
43 4 0.09
44 18 0.40
45 21 0.47
46 2 0.04
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (45 bp):
ATTTAAAATTATAATTATAATTATATAAATACAAAAAATAATAAC
Found at i:14743408 original size:16 final size:18
Alignment explanation
Indices: 14743387--14743419 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
14743377 ATTATACATT
14743387 TAAAAA-TTAAA-ATTTG
1 TAAAAAGTTAAATATTTG
14743403 TAAAAAGTTAAATATTT
1 TAAAAAGTTAAATATTT
14743420 TTTACTCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
TAAAAAGTTAAATATTTG
Found at i:14744585 original size:21 final size:21
Alignment explanation
Indices: 14744561--14744601 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14744551 AGTATCAAGG
*
14744561 CACAAGGAAAGCGCATCGAGT
1 CACAAAGAAAGCGCATCGAGT
* *
14744582 CACAAAGAAAGTGTATCGAG
1 CACAAAGAAAGCGCATCGAG
14744602 ACTTTGAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.20, G:0.27, T:0.12
Consensus pattern (21 bp):
CACAAAGAAAGCGCATCGAGT
Found at i:14746866 original size:15 final size:15
Alignment explanation
Indices: 14746825--14746867 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
14746815 GTTATTTTCT
*
14746825 CTGTAATTACATTAT
1 CTGTAATTACATTAC
* *
14746840 TTGCAATTACATTAC
1 CTGTAATTACATTAC
*
14746855 CTGTAATCACATT
1 CTGTAATTACATT
14746868 GCATTGTAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.42
Consensus pattern (15 bp):
CTGTAATTACATTAC
Found at i:14749764 original size:2 final size:2
Alignment explanation
Indices: 14749757--14749783 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14749747 GCAATCTGAC
14749757 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
14749784 TTGTGAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14752508 original size:12 final size:13
Alignment explanation
Indices: 14752493--14752521 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
14752483 AACACACGCC
14752493 CAAACAAAC-AAA
1 CAAACAAACAAAA
14752505 CAAACAAACAAAA
1 CAAACAAACAAAA
14752518 CAAA
1 CAAA
14752522 AATTTATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAACAAACAAAA
Found at i:14753732 original size:22 final size:22
Alignment explanation
Indices: 14753684--14753731 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
14753674 CATGCTTAAG
*
14753684 CTTTTATTTTTAGTAATTTTTA
1 CTTTTATTTTTAGTAATTATTA
*
14753706 CTTTTATTTTTA-TTATTATTA
1 CTTTTATTTTTAGTAATTATTA
*
14753727 TTTTT
1 CTTTT
14753732 TTAAATTACG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (22 bp):
CTTTTATTTTTAGTAATTATTA
Found at i:14756966 original size:17 final size:18
Alignment explanation
Indices: 14756939--14756972 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14756929 TTTGACTAGT
*
14756939 TATTCTATTATTTTTATA
1 TATTCTATTATTATTATA
14756957 TATT-TATTATTATTAT
1 TATTCTATTATTATTAT
14756973 TTTTATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTCTATTATTATTATA
Found at i:14758137 original size:18 final size:18
Alignment explanation
Indices: 14758114--14758148 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14758104 TCACCATATG
14758114 TTTTTTAAGTTTTTTGTA
1 TTTTTTAAGTTTTTTGTA
* *
14758132 TTTTTTTATTTTTTTGT
1 TTTTTTAAGTTTTTTGT
14758149 GCCGGTTGAT
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:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (18 bp):
TTTTTTAAGTTTTTTGTA
Found at i:14758668 original size:17 final size:16
Alignment explanation
Indices: 14758632--14758674 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
14758622 ATGAAAGATG
*
14758632 AAATAATAATAAAAATA
1 AAATAA-AATAAAAAGA
14758649 AAATAAAATAAATAAGA
1 AAATAAAATAAA-AAGA
14758666 AAATGAAAA
1 AAAT-AAAA
14758675 CTCAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 13 0.57
18 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (16 bp):
AAATAAAATAAAAAGA
Found at i:14763559 original size:204 final size:204
Alignment explanation
Indices: 14763159--14763568 Score: 553
Period size: 204 Copynumber: 2.0 Consensus size: 204
14763149 GTGATTCAAC
*
14763159 TGAACAACCATGACCTATATAAAACAGCTCACTGCAATTTCTCCTGTCGCCTAACATTTCTCTAT
1 TGAACAACCATGACCTATATAAAACAGCTCACAGCAATTTCTCCTGTCGCCTAACATTTCTCTAT
* *
14763224 ATCTTCAAAATAGGGACTTTATTGCAAACAAGAGCAACAAAACATACACTAAAATGCATACTTCT
66 ATCTTCAAAATAGGGACCTTATTGCAAACAAGAG-AACAAAACACACACT-AAATGCATACTTCT
* *
14763289 TGTTGCCCATCACTTTTGCATCTGGTGCTGGGTGAGAAACCACAAGTTTTCACAGCTCCTTTCCT
129 TGTTGCCCATCACTTTTGCATCTGGTGCTGGGTGAGAAACCACAAGTTTTCACAGCCCCCTTCCT
14763354 AGGATCTGCTT
194 AGGATCTGCTT
** *
14763365 TGAACAACTGTGACCTATATTAAACAGCTCACAGCAATTTCTCCT-TCCTGTGTCCTAACATTTC
1 TGAACAACCATGACCTATATAAAACAGCTCACAGCAATTTCTCCTGT-C---G-CCTAACATTTC
* * * ** *
14763429 TGTATATCTTTAAAATAGGGACCTTATTGCAAACAAGTG-ACAAAACACACACT-AA-GTTTCCT
61 TCTATATCTTCAAAATAGGGACCTTATTGCAAACAAGAGAACAAAACACACACTAAATGCATACT
* * *
14763491 TCTTGTT-CCCATCAC-TTTGACATCTGGTGCTGGGTGAGAAACTATAATTTTTCACAGCCCCCT
126 TCTTGTTGCCCATCACTTTTG-CATCTGGTGCTGGGTGAGAAACCACAAGTTTTCACAGCCCCCT
14763554 TCCTAGGATCTGCTT
190 TCCTAGGATCTGCTT
14763569 CTGTTTGTTA
Statistics
Matches: 181, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
203 4 0.02
204 61 0.34
205 12 0.07
206 44 0.24
208 13 0.07
209 1 0.01
210 46 0.25
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (204 bp):
TGAACAACCATGACCTATATAAAACAGCTCACAGCAATTTCTCCTGTCGCCTAACATTTCTCTAT
ATCTTCAAAATAGGGACCTTATTGCAAACAAGAGAACAAAACACACACTAAATGCATACTTCTTG
TTGCCCATCACTTTTGCATCTGGTGCTGGGTGAGAAACCACAAGTTTTCACAGCCCCCTTCCTAG
GATCTGCTT
Found at i:14772932 original size:19 final size:19
Alignment explanation
Indices: 14772908--14772954 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
14772898 AAGTTTAAAC
*
14772908 AATAAAAACA-AACTAAGAA
1 AATAAAAACATAA-TAAAAA
14772927 AATAAAAGA-ATAATAAAAA
1 AATAAAA-ACATAATAAAAA
14772946 AATAAAAAC
1 AATAAAAAC
14772955 TCAAGAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 20 0.83
20 3 0.12
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.13
Consensus pattern (19 bp):
AATAAAAACATAATAAAAA
Done.