Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 219 of 310
Found at i:71826776 original size:16 final size:16
Alignment explanation
Indices: 71826754--71826790 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
71826744 TGATTCAATA
71826754 ATGGTTATGGATATTT
1 ATGGTTATGGATATTT
*
71826770 GTGGTTATGGATATTT
1 ATGGTTATGGATATTT
71826786 ATGGT
1 ATGGT
71826791 GATATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (16 bp):
ATGGTTATGGATATTT
Found at i:71846138 original size:40 final size:40
Alignment explanation
Indices: 71846094--71846226 Score: 230
Period size: 40 Copynumber: 3.3 Consensus size: 40
71846084 AGGTTTTGTT
*
71846094 TCTAGTAGGCTTATTGTCAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGTCAGTGAAATTTTCAGACTTAATG
*
71846134 TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGTCAGTGAAATTTTCAGACTTAATG
*
71846174 TCTAGCAGGCTTATTGTTAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGTCAGTGAAATTTTCAGACTTAATG
*
71846214 TCTAACAGGCTTA
1 TCTAGCAGGCTTA
71846227 ATGCCGGTGT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (40 bp):
TCTAGCAGGCTTATTGTCAGTGAAATTTTCAGACTTAATG
Found at i:71849776 original size:273 final size:271
Alignment explanation
Indices: 71849291--71849836 Score: 961
Period size: 273 Copynumber: 2.0 Consensus size: 271
71849281 TGTCGTTACG
*
71849291 TATTTTATTAAGAATTTACAACAAAAAATCTTGTTGTTAAAATTAATAAGAAGAAAAATAAATTA
1 TATTTTATTAAGAATTGACAACAAAAAATCTTGTTGTTAAAATTAATAAGAAGAAAAATAAATTA
71849356 CGTAACAACATTTTAGCCATAGCTAATATTATAAGATTTAACAACAATTTATTTTATCATTATGT
66 CGTAACAACATTTTAGCCATAGCTAATATTATAAGATTTAACAACAATTTATTTTATCATTATGT
71849421 ATAAAATAAAAAATTCACAATCACTAACCTTGTTGTTAGGATTAGTATTTTAAAAAATTAAATTT
131 ATAAAATAAAAAATTCACAATCACTAACCTTGTTGTTAGGATTAGTATTTTAAAAAATTAAATTT
*
71849486 AATAGCGGCATCTAAAATTGAAAATACTTCAATTTCCACAATAACATTTAATGAAATTAATTATT
196 AATAGCGGCATCTAAAATTGAAAATACTTCAATTTCCACAATAACATTTAATGAAATTAATTATA
71849551 ACATCACAACA
261 ACATCACAACA
*
71849562 TATTTTATTAAGAATTGACAACAACAAATCTTGTTGTTAAAATTAATAAGAAGAAAAATAAATTA
1 TATTTTATTAAGAATTGACAACAAAAAATCTTGTTGTTAAAATTAATAAGAAGAAAAATAAATTA
* * *
71849627 CGTAACAACATTTTAAAGTCATAGCTAATATTATAATATTTAACAACAATTTATTTTATCGTTAT
66 CGTAACAACATTTT--AGCCATAGCTAATATTATAAGATTTAACAACAATTTATTTTATCATTAT
*
71849692 GTATAAAATAAAAAATTTCACAATCGCTAACC-TGTTGTT-GGTATTAGTATTTTAAAAAATTAA
129 GTATAAAATAAAAAA-TTCACAATCACTAACCTTGTTGTTAGG-ATTAGTATTTTAAAAAATTAA
* *
71849755 ATTTAATAGCGGCATCTAAAATTGCAAATACTTCAATTTCCACAATAACATTTAATGAAGTTAAT
192 ATTTAATAGCGGCATCTAAAATTGAAAATACTTCAATTTCCACAATAACATTTAATGAAATTAAT
71849820 TATAACATCACAACA
257 TATAACATCACAACA
71849835 TA
1 TA
71849837 AAATCTCCAG
Statistics
Matches: 262, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
271 77 0.29
272 2 0.01
273 168 0.64
274 15 0.06
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.36
Consensus pattern (271 bp):
TATTTTATTAAGAATTGACAACAAAAAATCTTGTTGTTAAAATTAATAAGAAGAAAAATAAATTA
CGTAACAACATTTTAGCCATAGCTAATATTATAAGATTTAACAACAATTTATTTTATCATTATGT
ATAAAATAAAAAATTCACAATCACTAACCTTGTTGTTAGGATTAGTATTTTAAAAAATTAAATTT
AATAGCGGCATCTAAAATTGAAAATACTTCAATTTCCACAATAACATTTAATGAAATTAATTATA
ACATCACAACA
Found at i:71851292 original size:13 final size:13
Alignment explanation
Indices: 71851276--71851301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71851266 ATATTTTAAT
71851276 TTTATTTTGTGTG
1 TTTATTTTGTGTG
71851289 TTTATTTTGTGTG
1 TTTATTTTGTGTG
71851302 CATTTGATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.23, T:0.69
Consensus pattern (13 bp):
TTTATTTTGTGTG
Found at i:71852385 original size:114 final size:114
Alignment explanation
Indices: 71852255--71852611 Score: 635
Period size: 114 Copynumber: 3.1 Consensus size: 114
71852245 TTAAATCAGC
*
71852255 ATATATATATGTATATCTATTGTATATTTTATGAGCTATAATTAAAAATATATGAATTGAAATTA
1 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTA
71852320 GTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATAT
66 GTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATAT
71852369 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTA
1 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTA
*
71852434 GTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGT
66 GTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATAT
* * * *
71852483 AAATATATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTA
1 ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTA
*
71852548 GTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATGTAT
66 GTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATAT
71852597 ATATGA-ATATGTATA
1 ATAT-ATATATGTATA
71852612 AGATCTTGAG
Statistics
Matches: 233, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
114 232 1.00
115 1 0.00
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.41
Consensus pattern (114 bp):
ATATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTA
GTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATAT
Found at i:71853128 original size:41 final size:41
Alignment explanation
Indices: 71853079--71853961 Score: 1631
Period size: 41 Copynumber: 21.5 Consensus size: 41
71853069 GACTTTATGT
* * * **
71853079 CTAGCAGGCTAAGTGCCGGTGATCTGAAACATGCTATAAGT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853120 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853161 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853202 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853243 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853284 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853325 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853366 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853407 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853448 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853489 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853530 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853571 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853612 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853653 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853694 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853735 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
71853776 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* **
71853817 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
71853858 CTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAGAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
** *
71853899 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGACTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
71853940 TTAGCAGGTTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
71853962 ATATGTTAAA
Statistics
Matches: 822, Mismatches: 20, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 822 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:71873787 original size:40 final size:40
Alignment explanation
Indices: 71873726--71874572 Score: 1372
Period size: 40 Copynumber: 21.2 Consensus size: 40
71873716 ATTTGAATGA
* * *
71873726 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
71873766 TATCCGGGTTAAGACCAGAAGGCATTTATGCTTGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
71873806 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
71873846 TATCCGGGTTAAGACCAGAAGGCATTTATGCTTGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
71873886 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
71873926 TATCCGGGTTAAGACCAGAAGGCATTTATGCTTGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
71873966 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
71874006 TATCCGGGTTAAGACCAGAAGGCATTTATGCTTGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
71874046 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
71874086 TATCCGGGTTAAGACCAGAAGGCATTTATGCTTGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
71874126 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
71874166 TATCCGGGTTAAGACCAGAAGGCATTTATGCTTGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
71874206 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
71874246 TATCCGGGTTAAGACCAGAAGGCATTTATGCTTGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
71874286 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
71874326 TATCCGGGTTAAGACCAGAAGGCATTTATGCTTGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
71874366 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
* *
71874406 TATCCGGGTTAAGACCAGAAGGCATTTATGCTTGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
71874446 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * * * *
71874486 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
71874526 TACCCGGGTTAGGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
71874566 TATCCGG
1 TATCCGG
71874573 CTAAATTCCG
Statistics
Matches: 753, Mismatches: 52, Indels: 4
0.93 0.06 0.00
Matches are distributed among these distances:
39 2 0.00
40 749 0.99
41 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:71874572 original size:80 final size:80
Alignment explanation
Indices: 71873726--71874512 Score: 1520
Period size: 80 Copynumber: 9.8 Consensus size: 80
71873716 ATTTGAATGA
* * *
71873726 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
71873791 TTATGCTTGTGATTT
66 TTATGCTTGTGATTT
71873806 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
71873871 TTATGCTTGTGATTT
66 TTATGCTTGTGATTT
71873886 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
71873951 TTATGCTTGTGATTT
66 TTATGCTTGTGATTT
71873966 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
71874031 TTATGCTTGTGATTT
66 TTATGCTTGTGATTT
71874046 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
71874111 TTATGCTTGTGATTT
66 TTATGCTTGTGATTT
71874126 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
71874191 TTATGCTTGTGATTT
66 TTATGCTTGTGATTT
71874206 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
71874271 TTATGCTTGTGATTT
66 TTATGCTTGTGATTT
71874286 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
71874351 TTATGCTTGTGATTT
66 TTATGCTTGTGATTT
71874366 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
71874431 TTATGCTTGTGATTT
66 TTATGCTTGTGATTT
* * *
71874446 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
71874511 TT
66 TT
71874513 GTGCGAGTTG
Statistics
Matches: 701, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 701 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (80 bp):
TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCAGAAGGCAT
TTATGCTTGTGATTT
Found at i:71878393 original size:3 final size:3
Alignment explanation
Indices: 71878385--71878449 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
71878375 TATAACGATA
71878385 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
71878433 AAA AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AA
71878450 ATAGACACAC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:71894524 original size:39 final size:39
Alignment explanation
Indices: 71894470--71894547 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
71894460 TTACATGCTT
71894470 AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
1 AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
71894509 AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
1 AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
71894548 GACAAGATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (39 bp):
AATTGAAATATTAGTTGATATGATACTACGAAAATTCTC
Found at i:71895882 original size:55 final size:55
Alignment explanation
Indices: 71895798--71895929 Score: 194
Period size: 55 Copynumber: 2.4 Consensus size: 55
71895788 TTTAATGAAG
* * *
71895798 CCAAGTCAGTGAGTTACATGGGCTAGTCACAC-GAGCGTGTGGTTAGTCGTGTGAC
1 CCAAGTCAGTGAGTTACACGGGCTAGTCACACAG-GCATGTGGTTAGCCGTGTGAC
* * *
71895853 CCAAGTGAGTCAGTTACACGGGCTAGTCACACAGGCATGTGGTTGGCCGTGTGAC
1 CCAAGTCAGTGAGTTACACGGGCTAGTCACACAGGCATGTGGTTAGCCGTGTGAC
71895908 CCAAGTCAGTGAGTTACACGGG
1 CCAAGTCAGTGAGTTACACGGG
71895930 GTTGAACACG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 67 0.99
56 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.33, T:0.23
Consensus pattern (55 bp):
CCAAGTCAGTGAGTTACACGGGCTAGTCACACAGGCATGTGGTTAGCCGTGTGAC
Found at i:71907981 original size:26 final size:26
Alignment explanation
Indices: 71907952--71908003 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
71907942 GAAAAGTAGT
71907952 TTTCAGCATATCACAATCTTTAACTA
1 TTTCAGCATATCACAATCTTTAACTA
71907978 TTTCAGCATATCACAATCTTTAACTA
1 TTTCAGCATATCACAATCTTTAACTA
71908004 GCAACTGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (26 bp):
TTTCAGCATATCACAATCTTTAACTA
Found at i:71910314 original size:6 final size:6
Alignment explanation
Indices: 71910303--71910337 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
71910293 AAAACCACCG
71910303 CTTTCT CTTTCT CTTTCT CTTTCT CTTTCTT CTTT
1 CTTTCT CTTTCT CTTTCT CTTTCT CTTTC-T CTTT
71910338 TTATAGGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
CTTTCT
Found at i:71914238 original size:22 final size:22
Alignment explanation
Indices: 71914203--71914344 Score: 162
Period size: 22 Copynumber: 6.3 Consensus size: 22
71914193 CAAAAATATT
*
71914203 GATACTTAACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
* *
71914225 GACACATGACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
*
71914247 AATACTTGACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
*
71914269 GATACTTAGCTAAATCAAAAA--TATC
1 GATACTT-G----ACCAAAAAGGTATC
*
71914294 GATACTTAACCAAAAAGGTATC
1 GATACTTGACCAAAAAGGTATC
*
71914316 GATACTTGACCAAAAAGGTATT
1 GATACTTGACCAAAAAGGTATC
71914338 GATACTT
1 GATACTT
71914345 TTGACCTGGA
Statistics
Matches: 101, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
20 7 0.07
22 75 0.74
23 1 0.01
25 11 0.11
27 7 0.07
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (22 bp):
GATACTTGACCAAAAAGGTATC
Found at i:71914311 original size:47 final size:44
Alignment explanation
Indices: 71914192--71914322 Score: 149
Period size: 47 Copynumber: 2.9 Consensus size: 44
71914182 AATTGATATT
* * *
71914192 TCAAAAATATTGATACTTAACCAAAAAGGTATCGACAC--ATGA
1 TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTTATAA
* * *
71914234 CCAAAAAGGTATCAATACTTGACCAAAAAGGTATCGATACTTAGCTAAA
1 TCAAAAA--TATCGATACTTAACCAAAAAGGTATCGATACTTA--T-AA
71914283 TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTT
1 TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTT
71914323 GACCAAAAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 6 0.08
44 27 0.37
46 1 0.01
47 31 0.42
48 1 0.01
49 7 0.10
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (44 bp):
TCAAAAATATCGATACTTAACCAAAAAGGTATCGATACTTATAA
Found at i:71914726 original size:19 final size:20
Alignment explanation
Indices: 71914701--71914739 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
71914691 GGCCTAAATA
*
71914701 AAAAATTGACATACATTTTC
1 AAAATTTGACATACATTTTC
*
71914721 AAAATTTGACATTCATTTT
1 AAAATTTGACATACATTTT
71914740 TACTTTGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAATTTGACATACATTTTC
Found at i:71919793 original size:12 final size:12
Alignment explanation
Indices: 71919776--71919802 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
71919766 TTTCCTCTCA
71919776 TCTATTGTAAGC
1 TCTATTGTAAGC
71919788 TCTATTGTAAGC
1 TCTATTGTAAGC
71919800 TCT
1 TCT
71919803 TTTAGAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (12 bp):
TCTATTGTAAGC
Found at i:71922747 original size:22 final size:22
Alignment explanation
Indices: 71922722--71922764 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
71922712 CGATGAGATC
71922722 ATTGACTTGTATAAACAACATT
1 ATTGACTTGTATAAACAACATT
* *
71922744 ATTGGCTTGTATGAACAACAT
1 ATTGACTTGTATAAACAACAT
71922765 CATTCTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (22 bp):
ATTGACTTGTATAAACAACATT
Found at i:71935568 original size:18 final size:18
Alignment explanation
Indices: 71935526--71935571 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
71935516 ATGAAGTTGA
*
71935526 TGTTGCAGAAGCAGAAGT
1 TGTTGCTGAAGCAGAAGT
71935544 TGTTGCTGAAG-AGGAAGT
1 TGTTGCTGAAGCA-GAAGT
71935562 TGTTGCTGAA
1 TGTTGCTGAA
71935572 AATGAGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.28, C:0.09, G:0.35, T:0.28
Consensus pattern (18 bp):
TGTTGCTGAAGCAGAAGT
Found at i:71939770 original size:19 final size:19
Alignment explanation
Indices: 71939723--71939758 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
71939713 GAACACAACT
71939723 TCTTTGTTTCTTCATTTTA
1 TCTTTGTTTCTTCATTTTA
71939742 TCTTTGTTTCTTC-TTTT
1 TCTTTGTTTCTTCATTTT
71939759 TCATTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.72
Consensus pattern (19 bp):
TCTTTGTTTCTTCATTTTA
Found at i:71940239 original size:10 final size:10
Alignment explanation
Indices: 71940226--71940310 Score: 61
Period size: 10 Copynumber: 8.9 Consensus size: 10
71940216 TACATTTATT
71940226 ATTTTTAATA
1 ATTTTTAATA
71940236 ATTTTTAATA
1 ATTTTTAATA
71940246 ATTTTT-ATA
1 ATTTTTAATA
* ** *
71940255 CTACTT-AGA
1 ATTTTTAATA
*
71940264 ATTATTAAT-
1 ATTTTTAATA
*
71940273 ATTTTT-ATC
1 ATTTTTAATA
71940282 ATTTTTAATA
1 ATTTTTAATA
* *
71940292 ATTATTACTA
1 ATTTTTAATA
*
71940302 ATTATTAAT
1 ATTTTTAAT
71940311 TATATATGCT
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
8 2 0.03
9 22 0.37
10 35 0.59
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:71946001 original size:33 final size:33
Alignment explanation
Indices: 71945949--71946058 Score: 130
Period size: 33 Copynumber: 3.3 Consensus size: 33
71945939 CATTAGGATG
* * * *
71945949 GTAAACACATAATAGAGATAGTCCGATGGGACA
1 GTAAACACATAACAAAGATAGTCCGCTAGGACA
* *
71945982 GTAAACACAAAACAAAGATAGTCTGCTAGGACA
1 GTAAACACATAACAAAGATAGTCCGCTAGGACA
* *
71946015 GTAAACACATAACATAGAGAAAGTACGCTAGGACA
1 GTAAACACATAACA-A-AGATAGTCCGCTAGGACA
71946050 GTAAACACA
1 GTAAACACA
71946059 GATAGAGTTC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 40 0.62
34 1 0.02
35 24 0.37
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (33 bp):
GTAAACACATAACAAAGATAGTCCGCTAGGACA
Found at i:71948499 original size:12 final size:11
Alignment explanation
Indices: 71948464--71948499 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
71948454 AAATAAACTA
*
71948464 TTTTTTCCTTT
1 TTTTTTTCTTT
71948475 TTTTTTTCTTT
1 TTTTTTTCTTT
*
71948486 TTTTTTTCTAT
1 TTTTTTTCTTT
71948497 TTT
1 TTT
71948500 AGGTTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:71950280 original size:14 final size:13
Alignment explanation
Indices: 71950260--71950298 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
71950250 ATTTTAAAAA
*
71950260 ATAAAATTATTTC
1 ATAAAATAATTTC
*
71950273 ATTAAAATAATGTC
1 A-TAAAATAATTTC
71950287 ATAAAATAATTT
1 ATAAAATAATTT
71950299 TTTTATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (13 bp):
ATAAAATAATTTC
Found at i:71962352 original size:5 final size:5
Alignment explanation
Indices: 71962342--71962366 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
71962332 TTTGAGAGTC
71962342 GAGGA GAGGA GAGGA GAGGA GAGGA
1 GAGGA GAGGA GAGGA GAGGA GAGGA
71962367 ATGGATTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
GAGGA
Found at i:71962615 original size:6 final size:6
Alignment explanation
Indices: 71962604--71962639 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
71962594 AGAATAGAAC
71962604 CTATTT CTATTT CTATTT CTATTT CTATTT CTATTT
1 CTATTT CTATTT CTATTT CTATTT CTATTT CTATTT
71962640 GGTTGGTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
CTATTT
Found at i:71962969 original size:18 final size:18
Alignment explanation
Indices: 71962946--71962988 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
71962936 GAATAGATTT
71962946 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
71962964 TTAATTAAAAACTTTAAA
1 TTAATTAAAAAATTTAAA
71962982 TTAATTA
1 TTAATTA
71962989 CACCTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:71967146 original size:26 final size:26
Alignment explanation
Indices: 71967074--71967142 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
71967064 TTCTCATCCT
*
71967074 AATTTTACTCC-AGTAAAATTTTAAC
1 AATTTTACCCCGAGTAAAATTTTAAC
* *
71967099 AATTTTACCCCTAGTAAAATTTTGAC
1 AATTTTACCCCGAGTAAAATTTTAAC
*
71967125 GATTTTACCCCGA-TAAAA
1 AATTTTACCCCGAGTAAAA
71967143 ATTTGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 15 0.38
26 24 0.62
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (26 bp):
AATTTTACCCCGAGTAAAATTTTAAC
Found at i:71976178 original size:405 final size:405
Alignment explanation
Indices: 71975354--71977376 Score: 3672
Period size: 405 Copynumber: 5.0 Consensus size: 405
71975344 TTGTGTGATA
* *
71975354 ATTTCTTTTTTTCATAGAGAGGGACTTGACTTTAAGCTTGTTTGTTTTTTAGTGAAAGGCTAGAT
1 ATTT-TTTTTTTCATAGAGACGGACTTGACTTTAAG-TT-TTT-TTTTTTAGTGAAAGGCTGGAT
* * * * *
71975419 TATATTAAGGAAATATGCAATAACCTATTTTCAATGGTTTTGAACACTATGGTTACTTCACCACA
62 TATATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACA
* *
71975484 ATTCCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAATTTGTTGGAGTGTAGTAT
127 ATTCCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTAT
* * *
71975549 TAAAATTTGGTCT-GTAACTTTAAAGTTTGAATAGTTAATTAAGTAAAAAGGACTAAATCGTAAA
192 TAAAATTTGGTCTAGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAATGACTAAATCGTAAA
* * *
71975613 AGCTACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGG
257 AGCTCCAAAATTTAATCACTATTATTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGG
71975678 TTTTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAAT
322 TTTTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAAT
71975743 TTTAGTTAATATTGTTATG
387 TTTAGTTAATATTGTTATG
*
71975762 ATTTCTTTTTTTCATAGAGA-GAGACTTGACTTTAAGTTTGTTTTTTTAGTGAAAGGCTGGATTA
1 ATTT-TTTTTTTCATAGAGACG-GACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTA
71975826 TATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAAT
64 TATTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAAT
* *
71975891 TCTGACCAATGAGTTAGAAAATTTAATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTATTA
129 TCCGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTATTA
71975956 AAATTTGGTCTAGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAATGACTAAATCGTAAAAG
194 AAATTTGGTCTAGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAATGACTAAATCGTAAAAG
71976021 CTCCAAAATTTAATCACTATTATTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTT
259 CTCCAAAATTTAATCACTATTATTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTT
71976086 TTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTT
324 TTAAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTT
71976151 TAGTTAATATTGTTATG
389 TAGTTAATATTGTTATG
71976168 ATTTTTTTTTTCATAGAGACGGACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTATA
1 ATTTTTTTTTTCATAGAGACGGACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTATA
71976233 TTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATTC
66 TTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATTC
* *
71976298 TGACCAATGAGTTAGAAAATTTAATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTATTAAA
131 CGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTATTAAA
71976363 ATTTGGTCTAGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAATGACTAAATCGTAAAAGCT
196 ATTTGGTCTAGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAATGACTAAATCGTAAAAGCT
71976428 CCAAAATTTAATCACTATTATTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTTTT
261 CCAAAATTTAATCACTATTATTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTTTT
71976493 AAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTTTA
326 AAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTTTA
71976558 GTTAATATTGTTATG
391 GTTAATATTGTTATG
71976573 ATTTTTTTTTTCATAGAGACGGACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTATA
1 ATTTTTTTTTTCATAGAGACGGACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTATA
71976638 TTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATTC
66 TTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATTC
* *
71976703 CGACCAATAAGTTAGAAAATTTTATTTATTTGATATTTATAAAGTTGTTGAAGTGTAGTATTAAA
131 CGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTATTAAA
71976768 ATTTGGTCTAGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAATGACTAAATCGTAAAAGCT
196 ATTTGGTCTAGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAATGACTAAATCGTAAAAGCT
71976833 CCAAAATTTAATCACTATTATTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTTTT
261 CCAAAATTTAATCACTATTATTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTTTT
71976898 AAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTTTA
326 AAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTTTA
71976963 GTTAATATTGTTATG
391 GTTAATATTGTTATG
71976978 ATTTTTTTTTTCATAGAGACGGACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTATA
1 ATTTTTTTTTTCATAGAGACGGACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTATA
71977043 TTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATTC
66 TTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATTC
* *
71977108 CGACCAATAAGTTAGAAAATTTTATTTATTTGATATTTATAAAGTTGTTGAAGTGTAGTATTAAA
131 CGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTATTAAA
* *
71977173 ATTTGGTCTGGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAAGGACTAAATCGTAAAAGCT
196 ATTTGGTCTAGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAATGACTAAATCGTAAAAGCT
* * * * *
71977238 ACAAAAGTTAATCACTATTAGTTTATAGGTGCTTAATGGTTTTGTAAACATGAAATGATGGTTTT
261 CCAAAATTTAATCACTATTATTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTTTT
* * *
71977303 AAAAGTTAATTAGACCTTATTACTTTATAGTGGACGGTTAAGATGTAGTTATTTATGAAATTTTA
326 AAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTTTA
71977368 GTTAATATT
391 GTTAATATT
71977377 AAATGGAAAA
Statistics
Matches: 1580, Mismatches: 32, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
405 1342 0.85
406 201 0.13
407 3 0.00
408 34 0.02
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (405 bp):
ATTTTTTTTTTCATAGAGACGGACTTGACTTTAAGTTTTTTTTTTTAGTGAAAGGCTGGATTATA
TTAAGGAAATATGCAACAACCTGTTTTCAATGGTGTTGAACACTATGGTTTCTTGACCACAATTC
CGACCAATGAGTTAGAAAATTTTATTTATTTAATATTTATAAAGTTGTTGAAGTGTAGTATTAAA
ATTTGGTCTAGTAATTTTAAAGTTTGGATAGTTAATTAAGTAAAAATGACTAAATCGTAAAAGCT
CCAAAATTTAATCACTATTATTTTATAGGTGCTTAATGGTTTTATAAACATGAAGTGATGGTTTT
AAAAGGTAATTAGACCTTATTACTTTATAATGGATGGTTAAGATGTAGTTATTTATGAAATTTTA
GTTAATATTGTTATG
Found at i:71978445 original size:28 final size:28
Alignment explanation
Indices: 71978413--71978502 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
71978403 GCACTTTGTG
71978413 CCGGTGATATATTTCTAGGTACTATGTA
1 CCGGTGATATATTTCTAGGTACTATGTA
* * * ** * * *
71978441 TCGGT-ATTATAGTTCCAGACACTCTATG
1 CCGGTGA-TATATTTCTAGGTACTATGTA
71978469 CCGGTGATATATTT-TCAGGTACTATGTA
1 CCGGTGATATATTTCT-AGGTACTATGTA
71978497 CCGGTG
1 CCGGTG
71978503 GTGGATACCA
Statistics
Matches: 43, Mismatches: 16, Indels: 6
0.66 0.25 0.09
Matches are distributed among these distances:
27 1 0.02
28 41 0.95
29 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (28 bp):
CCGGTGATATATTTCTAGGTACTATGTA
Found at i:71980244 original size:81 final size:81
Alignment explanation
Indices: 71980150--71980318 Score: 266
Period size: 81 Copynumber: 2.1 Consensus size: 81
71980140 TTAATAAATT
* * * *
71980150 GATATTTGCTTATGATATGGACTAAATCATAAAGAAACGATAAATTCATTTATAAATTGAATATG
1 GATATTTGATTATGACATGGAATAAATCATAAAGAAACGATAAAATCATTTATAAATTGAATATG
*
71980215 ATAACTTATAATTTGA
66 ATAAATTATAATTTGA
* *
71980231 GATATTTGATTATGGCATGGAATAAATCATAAAGAAACGATAAAATGATTTATAAATTGAATATG
1 GATATTTGATTATGACATGGAATAAATCATAAAGAAACGATAAAATCATTTATAAATTGAATATG
71980296 ATAAATTATAATTTGA
66 ATAAATTATAATTTGA
*
71980312 TATATTT
1 GATATTT
71980319 AATGAATTGG
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.37
Consensus pattern (81 bp):
GATATTTGATTATGACATGGAATAAATCATAAAGAAACGATAAAATCATTTATAAATTGAATATG
ATAAATTATAATTTGA
Found at i:71981296 original size:91 final size:91
Alignment explanation
Indices: 71981018--71981319 Score: 322
Period size: 91 Copynumber: 3.3 Consensus size: 91
71981008 CAATGTGTTG
* * * *
71981018 CTTAAATGTGATTTAAGTGATGTTCGAAAGTGGTTAAATTACAATTTTAATTGCTGAAAATTATG
1 CTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATG
*
71981083 GTGTTTGATTGTATGCTTTAATGATA
66 GTGTTTGATTGTATGCTTTGATGATA
* * * * *** * * *
71981109 CTCAAA-GATGATTTAAATGATG-TCTAAAAGATGTTAACTGGTCATTTTAATTGCCGTAAGTTA
1 CTTAAATG-TGATTTAAATGATGTTC-GAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTA
* *
71981172 TGGTGTTTGAATGTATG-TGTTGATGATG
64 TGGTGTTTGATTGTATGCT-TTGATGATA
*
71981200 CTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATA
1 CTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATG
* *
71981265 GTGTCTGATTGTAGGCTTTGATGATA
66 GTGTTTGATTGTATGCTTTGATGATA
* * * * * *
71981291 TTTAAAGGCGCTTAAAATGATGTTTGAAA
1 CTTAAATGTGATTTAAATGATGTTCGAAA
71981320 ATGGTAAACT
Statistics
Matches: 168, Mismatches: 37, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
90 4 0.02
91 160 0.95
92 4 0.02
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (91 bp):
CTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTATG
GTGTTTGATTGTATGCTTTGATGATA
Found at i:71981342 original size:182 final size:182
Alignment explanation
Indices: 71981016--71981344 Score: 464
Period size: 182 Copynumber: 1.8 Consensus size: 182
71981006 CGCAATGTGT
* * *
71981016 TGCTTAAATGTGATTTAAGTGATGTTCGAAAGTGGTTAAATTACAATTTTAATTGCTGAAAATTA
1 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTGGTTAAATGAAAATTTTAATTGCTGAAAATTA
* * * * * *
71981081 TGGTGTTTGATTGTATGCTTTAATGATACTCAAAGATGATTTAAATGATGTCTAAAAGATGTTAA
66 TAGTGTCTGATTGTAGGCTTTAATGATACTCAAAGACGATTAAAATGATGTCTAAAAGATGTAAA
*
71981146 CTGGTCATTTTAATTGCCGTAAGTTATGGTGTTTGAATGTATGTGTTGATGA
131 CTGGTCACTTTAATTGCCGTAAGTTATGGTGTTTGAATGTATGTGTTGATGA
*
71981198 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGAAAATTTTAATTGCTGAAAATTA
1 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTGGTTAAATGAAAATTTTAATTGCTGAAAATTA
* * * * * * *
71981263 TAGTGTCTGATTGTAGGCTTTGATGATATTTAAAGGCGCTTAAAATGATGTTTGAAA-ATGGTAA
66 TAGTGTCTGATTGTAGGCTTTAATGATACTCAAAGACGATTAAAATGATGTCTAAAAGAT-GTAA
71981327 ACTGG-CAGCTTTAATTGC
130 ACTGGTCA-CTTTAATTGC
71981345 TATGAATTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
181 4 0.03
182 123 0.97
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (182 bp):
TGCTTAAATGTGATTTAAATGATGTTCGAAAGTGGTTAAATGAAAATTTTAATTGCTGAAAATTA
TAGTGTCTGATTGTAGGCTTTAATGATACTCAAAGACGATTAAAATGATGTCTAAAAGATGTAAA
CTGGTCACTTTAATTGCCGTAAGTTATGGTGTTTGAATGTATGTGTTGATGA
Found at i:71982337 original size:17 final size:18
Alignment explanation
Indices: 71982312--71982345 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
71982302 ATCGTACAAC
*
71982312 AAAATAAAAATA-AAAAT
1 AAAACAAAAATAGAAAAT
71982329 AAAACAAAAATAGAAAA
1 AAAACAAAAATAGAAAA
71982346 ATGAAACAAG
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:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (18 bp):
AAAACAAAAATAGAAAAT
Found at i:71987013 original size:4 final size:4
Alignment explanation
Indices: 71987004--71987064 Score: 50
Period size: 4 Copynumber: 14.2 Consensus size: 4
71986994 AGGAATAAAG
* * *
71987004 ATAA ATAA ATAA CATAA ATAA ATAA ATAA TGAGAA ATAA AGAA ACGAA
1 ATAA ATAA ATAA -ATAA ATAA ATAA ATAA --ATAA ATAA ATAA A-TAA
*
71987052 CTAA ATAA ATAA A
1 ATAA ATAA ATAA A
71987065 CCAATAAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 37 0.79
5 7 0.15
6 3 0.06
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:71987022 original size:13 final size:12
Alignment explanation
Indices: 71987004--71987064 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
71986994 AGGAATAAAG
71987004 ATAAATAAATAA
1 ATAAATAAATAA
71987016 CATAAATAAATAA
1 -ATAAATAAATAA
*
71987029 ATAATGAGAAATAA
1 ATAA--ATAAATAA
* * *
71987043 AGAAACGAACTAA
1 ATAAA-TAAATAA
71987056 ATAAATAAA
1 ATAAATAAA
71987065 CCAATAAGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
12 7 0.18
13 22 0.56
14 10 0.26
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.20
Consensus pattern (12 bp):
ATAAATAAATAA
Found at i:71987026 original size:17 final size:17
Alignment explanation
Indices: 71987004--71987064 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
71986994 AGGAATAAAG
71987004 ATAAATAAATAACATAA
1 ATAAATAAATAACATAA
* *
71987021 ATAAATAAATAATGAGAA
1 ATAAATAAATAA-CATAA
* *
71987039 ATAAAGAAACGAAC-TAA
1 ATAAATAAA-TAACATAA
71987056 ATAAATAAA
1 ATAAATAAA
71987065 CCAATAAGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
17 22 0.63
18 11 0.31
19 2 0.06
ACGTcount: A:0.69, C:0.05, G:0.07, T:0.20
Consensus pattern (17 bp):
ATAAATAAATAACATAA
Found at i:72001337 original size:20 final size:21
Alignment explanation
Indices: 72001312--72001354 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
72001302 AGGCGAAAGG
72001312 TTTCCATTATTAACAT-TTTT
1 TTTCCATTATTAACATGTTTT
72001332 TTTCCATTATTAACATGTTTT
1 TTTCCATTATTAACATGTTTT
72001353 TT
1 TT
72001355 AGACTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.23, C:0.14, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTCCATTATTAACATGTTTT
Found at i:72003743 original size:21 final size:20
Alignment explanation
Indices: 72003714--72003759 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
72003704 ATTTTTTAAG
*
72003714 TAATAATTTTAAAATAAATTA
1 TAATTATTTTAAAATAAA-TA
* *
72003735 TAATTATTTTTAAATATATA
1 TAATTATTTTAAAATAAATA
72003755 TAATT
1 TAATT
72003760 CTAACTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTATTTTAAAATAAATA
Found at i:72006026 original size:3 final size:3
Alignment explanation
Indices: 72006018--72006101 Score: 64
Period size: 3 Copynumber: 27.3 Consensus size: 3
72006008 TAGCAATTTT
* *
72006018 TTA TTA TTA TTTA GTTA TTA TTA TTA TTA TCA TTA TTA TCT- TTA CTA
1 TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * *
72006065 TTA TTA TTA -TA TTTA TTA ATA CTA TTG TTA GTA TTA T
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T
72006102 GTTTTCTTAT
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
2 3 0.05
3 52 0.81
4 9 0.14
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:72010455 original size:16 final size:16
Alignment explanation
Indices: 72010434--72010468 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
72010424 GCACTTTGAC
72010434 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
72010450 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
72010466 TAA
1 TAA
72010469 GACTTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (16 bp):
TAAAATTAATAGGCTG
Found at i:72015905 original size:17 final size:18
Alignment explanation
Indices: 72015871--72015916 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
72015861 CCGTTATGTC
72015871 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
72015886 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
72015903 CGCGACCGCGACCG
1 CGCGACCGCGACCG
72015917 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:72019020 original size:25 final size:26
Alignment explanation
Indices: 72018986--72019037 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
72018976 ATAAAAATAT
*
72018986 TTATTATATTTAT-TTGTGTTTTTTA
1 TTATTATATTTATGTAGTGTTTTTTA
72019011 TTATTATATTTATGGTAGTGTTTTTTA
1 TTATTATATTTAT-GTAGTGTTTTTTA
72019038 AATATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 13 0.54
27 11 0.46
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (26 bp):
TTATTATATTTATGTAGTGTTTTTTA
Found at i:72024853 original size:18 final size:19
Alignment explanation
Indices: 72024825--72024871 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
72024815 ATTATAAAAA
*
72024825 AAATTTAATAAAAAATAAT
1 AAATATAATAAAAAATAAT
*
72024844 AAA-ATAATAAAAGATAAT
1 AAATATAATAAAAAATAAT
72024862 AAATATAATA
1 AAATATAATA
72024872 TTGGGCTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAATATAATAAAAAATAAT
Found at i:72027188 original size:12 final size:12
Alignment explanation
Indices: 72027168--72027201 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
72027158 CGAAGCCACA
* *
72027168 AGGCTGTGTGGT
1 AGGCCGTGTAGT
72027180 AGGCCGTGTAGT
1 AGGCCGTGTAGT
72027192 AGGCCGTGTA
1 AGGCCGTGTA
72027202 CTATAACACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.44, T:0.26
Consensus pattern (12 bp):
AGGCCGTGTAGT
Found at i:72028896 original size:21 final size:21
Alignment explanation
Indices: 72028870--72028911 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
72028860 CTATTTAGCC
*
72028870 ACAAAAATTAGGGGAAAATGT
1 ACAAAAATTAAGGGAAAATGT
72028891 ACAAAAATTAAGGGAAAATGT
1 ACAAAAATTAAGGGAAAATGT
72028912 TTTATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.21, T:0.19
Consensus pattern (21 bp):
ACAAAAATTAAGGGAAAATGT
Found at i:72029683 original size:14 final size:15
Alignment explanation
Indices: 72029666--72029697 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
72029656 AAAATATGTG
72029666 AATGAAATA-ATAGA
1 AATGAAATACATAGA
72029680 AATGAAATACATAGA
1 AATGAAATACATAGA
72029695 AAT
1 AAT
72029698 TTGATATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.22
Consensus pattern (15 bp):
AATGAAATACATAGA
Found at i:72032157 original size:50 final size:50
Alignment explanation
Indices: 72032082--72032184 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
72032072 ATGGCTAGAA
*
72032082 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATGTTAAATTTTT
1 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
72032132 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
1 GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
72032182 GTG
1 GTG
72032185 GATATTGAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.51
Consensus pattern (50 bp):
GTGTTAGTTCGGTTTAGAAATTAGGTTGAGTATTTTTATATTAAATTTTT
Found at i:72039837 original size:14 final size:14
Alignment explanation
Indices: 72039816--72039856 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
72039806 CTTACCTAAT
72039816 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* *
72039830 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTGA
72039844 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
72039857 CAAGTTGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:72044413 original size:14 final size:14
Alignment explanation
Indices: 72044392--72044432 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
72044382 CTTACCTAAT
72044392 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* *
72044406 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTGA
72044420 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
72044433 CAAGTTGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:72046669 original size:3 final size:3
Alignment explanation
Indices: 72046661--72046687 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
72046651 ATCTAGTTTT
72046661 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
72046688 ATTTAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:72048916 original size:13 final size:13
Alignment explanation
Indices: 72048898--72048923 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72048888 ATTATTTGGT
72048898 TATAAGTTGTTCA
1 TATAAGTTGTTCA
72048911 TATAAGTTGTTCA
1 TATAAGTTGTTCA
72048924 AATAGGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TATAAGTTGTTCA
Found at i:72051269 original size:28 final size:28
Alignment explanation
Indices: 72051237--72051290 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
72051227 CCACATGGTA
*
72051237 GATGAATGGGCCCATATTCGTTTCAGGG
1 GATGAATGGACCCATATTCGTTTCAGGG
72051265 GATGAATGGACCCATATTCGTTTCAG
1 GATGAATGGACCCATATTCGTTTCAG
72051291 AAATGCAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (28 bp):
GATGAATGGACCCATATTCGTTTCAGGG
Found at i:72057757 original size:40 final size:40
Alignment explanation
Indices: 72057708--72057832 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
72057698 CATTTGGATA
*
72057708 AAAACGCCGCTATAGATTGAGCATTAGCGACGCTTTCAAAC
1 AAAA-GCCGCTATAGATTGAGAATTAGCGACGCTTTCAAAC
* * * * *
72057749 AAAAGCCGCTATAGAACT-AGTATTAGCGGCGCAAATT-GAA-
1 AAAAGCCGCTATAG-ATTGAGAATTAGCGACGC--TTTCAAAC
* *
72057789 AAATGCCGCTATAGATCGAGAATTAGCGACGCTTTCCAAAC
1 AAAAGCCGCTATAGATTGAGAATTAGCGACGCTTT-CAAAC
72057830 AAA
1 AAA
72057833 CATCGTTATA
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
38 2 0.03
39 1 0.02
40 49 0.75
41 11 0.17
42 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (40 bp):
AAAAGCCGCTATAGATTGAGAATTAGCGACGCTTTCAAAC
Found at i:72059796 original size:40 final size:40
Alignment explanation
Indices: 72059731--72059808 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
72059721 TGCGGTACCT
* * *
72059731 TATGGTGTGTAGGGTTGGATAGGTCGATTATATCCCCATA
1 TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCATA
* * *
72059771 TATGGTGTGCAGGGATGGGTGGGTCGATTTTACCCCCA
1 TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCA
72059809 CATAGTGTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.32
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATAGGTCGATTATACCCCCATA
Found at i:72067930 original size:14 final size:15
Alignment explanation
Indices: 72067911--72068093 Score: 82
Period size: 14 Copynumber: 12.6 Consensus size: 15
72067901 TCCTAAAGCT
72067911 CTAAA-CCTTAAACC
1 CTAAATCCTTAAACC
* *
72067925 CTAAA--CTTGAATCA
1 CTAAATCCTT-AAACC
* *
72067939 GTAAATCCTTAAGCC
1 CTAAATCCTTAAACC
* * *
72067954 CTTAAATAC-AAAATC
1 C-TAAATCCTTAAACC
* *
72067969 CTAAATCCTAAAACT
1 CTAAATCCTTAAACC
72067984 CTAAA-CCTTAAACC
1 CTAAATCCTTAAACC
* *
72067998 CTAAA-CC-AAAATCA
1 CTAAATCCTTAAA-CC
* *
72068012 CTAAACCCTTAAGCC
1 CTAAATCCTTAAACC
* * *
72068027 CTTAAATAC-AAAATC
1 C-TAAATCCTTAAACC
* *
72068042 CTAAATCCTAAAACT
1 CTAAATCCTTAAACC
72068057 CTAAA-CCTTAAACC
1 CTAAATCCTTAAACC
72068071 CTAAA-CAC-TAAACC
1 CTAAATC-CTTAAACC
72068085 CTAAATCCT
1 CTAAATCCT
72068094 ATACCATAAA
Statistics
Matches: 126, Mismatches: 30, Indels: 25
0.70 0.17 0.14
Matches are distributed among these distances:
13 6 0.05
14 69 0.55
15 35 0.28
16 16 0.13
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (15 bp):
CTAAATCCTTAAACC
Found at i:72067963 original size:73 final size:73
Alignment explanation
Indices: 72067871--72068076 Score: 331
Period size: 73 Copynumber: 2.8 Consensus size: 73
72067861 TATAAACACT
* * * * ***
72067871 CCCTTAAACCCTTAAATACAAATTCCTATATCCTAAAGCTCTAAACCTTAAACCCTAAACTTGAA
1 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
*
72067936 TCAGTAAA
66 TCACTAAA
*
72067944 TCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
1 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
72068009 TCACTAAA
66 TCACTAAA
72068017 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAAC
1 CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAAC
72068077 ACTAAACCCT
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 123 1.00
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.25
Consensus pattern (73 bp):
CCCTTAAGCCCTTAAATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACCAAAA
TCACTAAA
Found at i:72067974 original size:7 final size:7
Alignment explanation
Indices: 72067964--72068094 Score: 63
Period size: 7 Copynumber: 18.1 Consensus size: 7
72067954 CTTAAATACA
72067964 AAATCCT
1 AAATCCT
72067971 AAATCCT
1 AAATCCT
*
72067978 AAAACTCT
1 AAATC-CT
72067986 AAA-CCTT
1 AAATCC-T
*
72067993 AAACCCT
1 AAATCCT
*
72068000 AAA-CCA
1 AAATCCT
72068006 AAATCACT
1 AAATC-CT
*
72068014 AAACCCTT
1 AAATCC-T
**
72068022 AAGCCCTT
1 AAATCC-T
* *
72068030 AAATACA
1 AAATCCT
72068037 AAATCCT
1 AAATCCT
72068044 AAATCCT
1 AAATCCT
*
72068051 AAAACTCT
1 AAATC-CT
72068059 AAA-CCTT
1 AAATCC-T
*
72068066 AAACCCT
1 AAATCCT
72068073 AAA-CACT
1 AAATC-CT
*
72068080 AAACCCT
1 AAATCCT
72068087 AAATCCT
1 AAATCCT
72068094 A
1 A
72068095 TACCATAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
6 8 0.08
7 61 0.61
8 31 0.31
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.22
Consensus pattern (7 bp):
AAATCCT
Found at i:72068016 original size:21 final size:22
Alignment explanation
Indices: 72067992--72068172 Score: 86
Period size: 22 Copynumber: 8.3 Consensus size: 22
72067982 CTCTAAACCT
72067992 TAAACCCTAAA-CC-AAAATCAC
1 TAAACCCTAAACCCTAAAA-CAC
* * *
72068013 TAAACCCTTAAGCCCTTAAATAC
1 TAAACCC-TAAACCCTAAAACAC
* * * *
72068036 AAAATCCTAAATCCTAAAACTC
1 TAAACCCTAAACCCTAAAACAC
*
72068058 TAAACCTTAAACCCT-AAACAC
1 TAAACCCTAAACCCTAAAACAC
* * *
72068079 TAAACCCTAAATCCTATACCA-
1 TAAACCCTAAACCCTAAAACAC
* *
72068100 TAAAACCATAAA--CTATAGACAC
1 T-AAACCCTAAACCCTA-AAACAC
* * *
72068122 TAAACCCTTAAGCCCTTAAATAC
1 TAAACCC-TAAACCCTAAAACAC
* * ** *
72068145 AAAATCCTAAATGCTAAAACTC
1 TAAACCCTAAACCCTAAAACAC
72068167 TAAACC
1 TAAACC
72068173 AAATCATTAA
Statistics
Matches: 112, Mismatches: 38, Indels: 19
0.66 0.22 0.11
Matches are distributed among these distances:
20 3 0.03
21 33 0.29
22 53 0.47
23 18 0.16
24 5 0.04
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (22 bp):
TAAACCCTAAACCCTAAAACAC
Found at i:72068082 original size:109 final size:109
Alignment explanation
Indices: 72067969--72068388 Score: 309
Period size: 109 Copynumber: 3.9 Consensus size: 109
72067959 ATACAAAATC
* * *
72067969 CTAAATCCTAAAACTCTAAACC-TTAAACCCTAAACCA-AAATCACTAAACCCTTAAGCCCTTAA
1 CTAAACCCTAAAAC-CTAAACCATAAAACCATAAACCATAAA-CACTAAACCCTTAAGCCCTTAA
72068032 ATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACA
64 ATACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACA
* * * *
72068078 CTAAACCCTAAATCCTATACCATAAAACCATAAACTATAGACACTAAACCCTTAAGCCCTTAAAT
1 CTAAACCCTAAAACCTAAACCATAAAACCATAAACCATAAACACTAAACCCTTAAGCCCTTAAAT
* ** *
72068143 ACAAAATCCTAAATGCTAAAACTCTAAACC--AAATCATTAAACC
66 ACAAAATCCTAAATCCTAAAACTCTAAACCTTAAA-CCCTAAACA
* * * * * *
72068186 CTTAAGCCCTTAAATA-CGAAATCCA-AAATCCA-AAATCC-TAAATC-CTAAAACCATAA-ACC
1 C-TAAACCC-TAAA-ACCTAAA-CCATAAAACCATAAA-CCATAAA-CACTAAACCCTTAAGCCC
** * * * * * * *
72068245 TTAAACCCTAAATCCTAACA-CATAAAACCCAAAATC-AAAACCC---ATA
60 TTAAATACAAAATCCTAA-ATCCTAAAACTCTAAACCTTAAACCCTAAACA
* * * * * *
72068291 --AAACCC-AAAATCATAACCCATAAAACCCTAAACTATAGACACTAAACCCTTAAACCCTTAAA
1 CTAAACCCTAAAA-CCTAAACCATAAAACCATAAACCATAAACACTAAACCCTTAAGCCCTTAAA
* *
72068353 TACAAAATCCTAAATCCTAAAACTATAAACCGTAAA
65 TACAAAATCCTAAATCCTAAAACTCTAAACCTTAAA
72068389 AATATATTTC
Statistics
Matches: 238, Mismatches: 53, Indels: 45
0.71 0.16 0.13
Matches are distributed among these distances:
99 1 0.00
100 6 0.03
101 9 0.04
102 22 0.09
103 28 0.12
104 3 0.01
105 1 0.00
107 3 0.01
108 42 0.18
109 103 0.43
110 17 0.07
111 3 0.01
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.21
Consensus pattern (109 bp):
CTAAACCCTAAAACCTAAACCATAAAACCATAAACCATAAACACTAAACCCTTAAGCCCTTAAAT
ACAAAATCCTAAATCCTAAAACTCTAAACCTTAAACCCTAAACA
Found at i:72068089 original size:73 final size:72
Alignment explanation
Indices: 72067840--72068089 Score: 326
Period size: 73 Copynumber: 3.4 Consensus size: 72
72067830 TTAAATTTCC
** * * *
72067840 CTAAACCCGAAACCCTAAACCTATAAACACT---CCCTTAAACCCTTAAATACAAATTCCTATAT
1 CTAAACCTTAAACCCTAAACC--TAAACACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAAT
*
72067902 CCTAAAGCT
64 CCTAAAACT
* * * *
72067911 CTAAACCTTAAACCCTAAACTTGAATCAGTAAATCCTTAAGCCCTTAAATACAAAATCCTAAATC
1 CTAAACCTTAAACCCTAAACCT-AAACACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATC
72067976 CTAAAACT
65 CTAAAACT
*
72067984 CTAAACCTTAAACCCTAAACCAAAATCACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATC
1 CTAAACCTTAAACCCTAAACCTAAA-CACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATC
72068049 CTAAAACT
65 CTAAAACT
*
72068057 CTAAACCTTAAACCCTAAACACTAAACCCTAAA
1 CTAAACCTTAAACCCTAAAC-CTAAACACTAAA
72068090 TCCTATACCA
Statistics
Matches: 156, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
69 1 0.01
70 5 0.03
71 18 0.12
72 2 0.01
73 126 0.81
74 4 0.03
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.23
Consensus pattern (72 bp):
CTAAACCTTAAACCCTAAACCTAAACACTAAACCCTTAAGCCCTTAAATACAAAATCCTAAATCC
TAAAACT
Found at i:72068247 original size:58 final size:58
Alignment explanation
Indices: 72068122--72068257 Score: 156
Period size: 58 Copynumber: 2.4 Consensus size: 58
72068112 CTATAGACAC
* * *
72068122 TAAACCCTTAAGCCCTTAAATACAAAATCCTAAATGCTAAAACTCTAAACCAAATCAT
1 TAAACCCTTAAGCCCTTAAATACAAAATCCAAAATGCCAAAACTCTAAACCAAACCAT
*
72068180 TAAACCCTTAAGCCCTTAAATACGAAATCCAAAAT-CCAAAA-TCCTAAATCCTAAAACCA-
1 TAAACCCTTAAGCCCTTAAATACAAAATCCAAAATGCCAAAACT-CTAAA-CC--AAACCAT
*
72068239 TAAA-CCTTAAACCC-TAAAT
1 TAAACCCTTAAGCCCTTAAAT
72068258 CCTAACACAT
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
56 1 0.01
57 15 0.22
58 44 0.64
59 4 0.06
60 5 0.07
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (58 bp):
TAAACCCTTAAGCCCTTAAATACAAAATCCAAAATGCCAAAACTCTAAACCAAACCAT
Found at i:72068261 original size:7 final size:7
Alignment explanation
Indices: 72068204--72068262 Score: 57
Period size: 7 Copynumber: 8.3 Consensus size: 7
72068194 CTTAAATACG
*
72068204 AAATCCA
1 AAATCCT
*
72068211 AAATCCA
1 AAATCCT
72068218 AAATCCT
1 AAATCCT
72068225 AAATCCT
1 AAATCCT
*
72068232 AAAACCAT
1 AAATCC-T
72068240 AAA-CCTT
1 AAATCC-T
*
72068247 AAACCCT
1 AAATCCT
72068254 AAATCCT
1 AAATCCT
72068261 AA
1 AA
72068263 CACATAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 40 0.87
8 6 0.13
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (7 bp):
AAATCCT
Found at i:72068272 original size:22 final size:22
Alignment explanation
Indices: 72068247--72068318 Score: 108
Period size: 22 Copynumber: 3.3 Consensus size: 22
72068237 CATAAACCTT
* * *
72068247 AAACCCTAAATCCTAACACATA
1 AAACCCAAAATCATAACCCATA
*
72068269 AAACCCAAAATCAAAACCCATA
1 AAACCCAAAATCATAACCCATA
72068291 AAACCCAAAATCATAACCCATA
1 AAACCCAAAATCATAACCCATA
72068313 AAACCC
1 AAACCC
72068319 TAAACTATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.12
Consensus pattern (22 bp):
AAACCCAAAATCATAACCCATA
Found at i:72068691 original size:3 final size:3
Alignment explanation
Indices: 72068683--72068720 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
72068673 CATTTTAGTA
72068683 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
72068721 AGAGAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:72068958 original size:116 final size:114
Alignment explanation
Indices: 72068830--72069185 Score: 396
Period size: 115 Copynumber: 3.1 Consensus size: 114
72068820 GCCCGTTTTG
* * *
72068830 TAGCTTTGTTATTAGTGGCGCTTTTAAAAAAATGCCGCAAAAGGTATGTATTACCGACGTTTTTA
1 TAGCCTTGTTATTAGTGGCGCTTTTAAAAAAA-GCCGCAAAAGGTATGTATTACCGGCGTTTTCA
*
72068895 TCTAAAACGCCACAAAACATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
65 -CTAAAACGCCACAAAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
* * *
72068946 TAGCCTTGTTATTAGTGGCGCTTTCT-AAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCA
1 TAGCCTTGTTATTAGTGGCGCTTT-TAAAAAAAGCCGCAAAAGGTATGTATTACCGGCGTTTTCA
* * *
72069010 CCTAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
65 -CTAAAACGCCACAAAA--TATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
* * * ** *
72069063 TAGCCTTGTTATAAGTGGCGC-TTTAATAAACA-CCGCAAAAGGTGTAAATTACCGGTGTTTTCA
1 TAGCCTTGTTATTAGTGGCGCTTTTAA-AAAAAGCCGCAAAAGGTATGTATTACCGGCGTTTTCA
* * * ** *
72069126 CGAGAAAACGCCAC-AAATATCTATTAACAGATTGCAAAAACATCGTCATTTA
65 C--TAAAACGCCACAAAATATCTATTAAGAGATTG-TAAAACGGCGTCGTTTA
72069178 TAGCCTTG
1 TAGCCTTG
72069186 AAACTAGTGG
Statistics
Matches: 203, Mismatches: 29, Indels: 17
0.82 0.12 0.07
Matches are distributed among these distances:
114 15 0.07
115 65 0.32
116 59 0.29
117 64 0.32
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (114 bp):
TAGCCTTGTTATTAGTGGCGCTTTTAAAAAAAGCCGCAAAAGGTATGTATTACCGGCGTTTTCAC
TAAAACGCCACAAAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
Found at i:72069067 original size:117 final size:114
Alignment explanation
Indices: 72068830--72069105 Score: 374
Period size: 117 Copynumber: 2.4 Consensus size: 114
72068820 GCCCGTTTTG
* * * *
72068830 TAGCTTTGTTATTAGTGGCGCTTTTAAAAAAATGCCGCAAAAGGTATGTATTACCGACGTTTTTA
1 TAGCCTTGTTATTAGTGGCGCTTTT--AAAAACGCCGCAAAAGGTACGTATTACCGACGTTTTCA
* * *
72068895 TCTAAAACGCCACAAAACATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
64 CCTAAAACGCCAAAAAACATCTATTAAGAGATTGTAAAACGGCATCGTTTA
* *
72068946 TAGCCTTGTTATTAGTGGCGCTTTCTAAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCAC
1 TAGCCTTGTTATTAGTGGCGCTTT-TAAAAACGCCGCAAAAGGTACGTATTACCGACGTTTTCAC
* *
72069011 CTAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
65 CTAAAACGCCAAAAAA--CATCTATTAAGAGATTGTAAAACGGCATCGTTTA
* *
72069063 TAGCCTTGTTATAAGTGGCGC-TTTAATAAACACCGCAAAAGGT
1 TAGCCTTGTTATTAGTGGCGCTTTTAA-AAACGCCGCAAAAGGT
72069106 GTAAATTACC
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
115 51 0.36
116 39 0.27
117 52 0.37
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (114 bp):
TAGCCTTGTTATTAGTGGCGCTTTTAAAAACGCCGCAAAAGGTACGTATTACCGACGTTTTCACC
TAAAACGCCAAAAAACATCTATTAAGAGATTGTAAAACGGCATCGTTTA
Found at i:72069134 original size:117 final size:116
Alignment explanation
Indices: 72068830--72069138 Score: 317
Period size: 117 Copynumber: 2.6 Consensus size: 116
72068820 GCCCGTTTTG
* * * * ** * *
72068830 TAGCTTTGTTATTAGTGGCGCTTT-TAAAAAAATGCCGCAAAAGGTATGTATTACCGACGTTTTT
1 TAGCCTTGTTATAAGTGGCGCTTTCTAAAAACA--CCGCAAAATGTA-CAATTACCGGCGTTTTC
* * * * *
72068894 ATC-TAAAACGCCACAAAA--CATCTATTAAGAGATTGTAAAACGGCGTCGTTTA
63 A-CAGAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
* * *
72068946 TAGCCTTGTTATTAGTGGCGCTTTCTAAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCAC
1 TAGCCTTGTTATAAGTGGCGCTTTCTAAAAACACCGCAAAATGTAC-AATTACCGGCGTTTTCAC
**
72069011 CTAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
65 AGAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
*
72069063 TAGCCTTGTTATAAGTGGCGC-TT-TAATAAACACCGCAAAAGGTGTA-AATTACCGGTGTTTTC
1 TAGCCTTGTTATAAGTGGCGCTTTCTAA-AAACACCGCAAAA--TGTACAATTACCGGCGTTTTC
72069125 ACGAGAAAACGCCA
63 AC-AGAAAACGCCA
72069139 CAAATATCTA
Statistics
Matches: 167, Mismatches: 17, Indels: 17
0.83 0.08 0.08
Matches are distributed among these distances:
114 1 0.01
115 43 0.26
116 53 0.32
117 66 0.40
118 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (116 bp):
TAGCCTTGTTATAAGTGGCGCTTTCTAAAAACACCGCAAAATGTACAATTACCGGCGTTTTCACA
GAAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTA
Found at i:72069207 original size:115 final size:111
Alignment explanation
Indices: 72068898--72069207 Score: 325
Period size: 117 Copynumber: 2.7 Consensus size: 111
72068888 GTTTTTATCT
*
72068898 AAAACGCCACAAAACATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTATTAGTG
1 AAAACGCCAC-AAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTA-TAGTG
* * * **
72068963 GCGCTTTCTAAAAACGCCGCAAAATGTACGTATTACCGGCGTTTTCACCT
64 GCGCTTTC-ATAAACACCGCAAAATGTAC-AATTACCGGCGTTTTCACAG
* * *
72069013 AAAACGCCAAAAAAGGTATGTATTAAGAGATTGTAAAACGGCATCGTTTATAGCCTTGTTATAAG
1 AAAACGCC-ACAAA--TATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTAT-AG
* *
72069078 TGGCGCTTTAATAAACACCGCAAAAGGTGTA-AATTACCGGTGTTTTCACGAG
62 TGGCGCTTTCATAAACACCGCAAAA--TGTACAATTACCGGCGTTTTCAC-AG
* * ** * **
72069130 AAAACGCCACAAATATCTATTAACAGATTGCAAAAACATCGTCATTTATAGCCTTGAAACTAGTG
1 AAAACGCCACAAATATCTATTAAGAGATTG-TAAAACGGCGTCGTTTATAGCCTTGTTA-TAGTG
*
72069195 GCGTTTTCATAAA
64 GCGCTTTCATAAA
72069208 AAAACGCCAC
Statistics
Matches: 163, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
114 15 0.09
115 47 0.29
116 36 0.22
117 61 0.37
118 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (111 bp):
AAAACGCCACAAATATCTATTAAGAGATTGTAAAACGGCGTCGTTTATAGCCTTGTTATAGTGGC
GCTTTCATAAACACCGCAAAATGTACAATTACCGGCGTTTTCACAG
Found at i:72071594 original size:9 final size:9
Alignment explanation
Indices: 72071576--72071764 Score: 165
Period size: 9 Copynumber: 21.0 Consensus size: 9
72071566 GTTTAAATTT
72071576 CATAACTTA
1 CATAACTTA
*
72071585 CATAATTTA
1 CATAACTTA
72071594 CATAACTTA
1 CATAACTTA
72071603 CATAA--TA
1 CATAACTTA
*
72071610 CATAA-ATA
1 CATAACTTA
* *
72071618 TATATCATATA
1 CATAAC-T-TA
72071629 -ATAACTTA
1 CATAACTTA
*
72071637 TATAACTTA
1 CATAACTTA
72071646 -ATAACTTA
1 CATAACTTA
*
72071654 CATATATCATA
1 CATA-A-CTTA
72071665 TCATAACTTA
1 -CATAACTTA
*
72071675 CATAACTCA
1 CATAACTTA
72071684 CATAACTTA
1 CATAACTTA
72071693 CATAACTTA
1 CATAACTTA
72071702 CATAAC-TA
1 CATAACTTA
72071710 CATAACTTAA
1 CATAACTT-A
* *
72071720 CATACCTCA
1 CATAACTTA
* *
72071729 GAAAACTTA
1 CATAACTTA
* *
72071738 CGTAACTCA
1 CATAACTTA
72071747 CATAACTTA
1 CATAACTTA
72071756 CATAACTTA
1 CATAACTTA
72071765 TTCGTGTAAT
Statistics
Matches: 147, Mismatches: 22, Indels: 22
0.77 0.12 0.12
Matches are distributed among these distances:
7 7 0.05
8 23 0.16
9 92 0.63
10 15 0.10
11 6 0.04
12 4 0.03
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:72071659 original size:21 final size:21
Alignment explanation
Indices: 72071617--72071678 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
72071607 ATACATAAAT
*
72071617 ATATATCATATAATAACTT--
1 ATATATAATATAATAACTTAC
*
72071636 ATATA-ACT-TAATAACTTAC
1 ATATATAATATAATAACTTAC
* *
72071655 ATATATCATATCATAACTTAC
1 ATATATAATATAATAACTTAC
72071676 ATA
1 ATA
72071679 ACTCACATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 9 0.26
18 1 0.03
19 10 0.29
20 1 0.03
21 13 0.38
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATATAATATAATAACTTAC
Found at i:72071665 original size:38 final size:39
Alignment explanation
Indices: 72071576--72071696 Score: 127
Period size: 38 Copynumber: 3.3 Consensus size: 39
72071566 GTTTAAATTT
72071576 CATAACTTACATA-AT--T-TACATAACTTACATAA-T-A
1 CATAACTTACATATATCATATA-ATAACTTACATAACTCA
* * *
72071610 CATAA---ATATATATCATATAATAACTTATATAACTTA
1 CATAACTTACATATATCATATAATAACTTACATAACTCA
*
72071646 -ATAACTTACATATATCATATCATAACTTACATAACTCA
1 CATAACTTACATATATCATATAATAACTTACATAACTCA
72071684 CATAACTTACATA
1 CATAACTTACATA
72071697 ACTTACATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
31 4 0.06
32 2 0.03
34 18 0.25
35 7 0.10
36 1 0.01
38 27 0.38
39 12 0.17
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (39 bp):
CATAACTTACATATATCATATAATAACTTACATAACTCA
Found at i:72074178 original size:27 final size:27
Alignment explanation
Indices: 72074148--72074202 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
72074138 AGAAAGGTGC
72074148 TAATTTATTTGTAAAGTATTCATTCAT
1 TAATTTATTTGTAAAGTATTCATTCAT
72074175 TAATTTATTTGTAAAGTATTCATTCAT
1 TAATTTATTTGTAAAGTATTCATTCAT
72074202 T
1 T
72074203 CACCTCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (27 bp):
TAATTTATTTGTAAAGTATTCATTCAT
Found at i:72076785 original size:13 final size:14
Alignment explanation
Indices: 72076769--72076797 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
72076759 TTTTAAATAT
72076769 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
72076782 TTATAATGGTTTAA
1 TTATAATGGTTTAA
72076796 TT
1 TT
72076798 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:72080557 original size:30 final size:28
Alignment explanation
Indices: 72080519--72080592 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 28
72080509 ATAACATTGA
*
72080519 ATTTTTTATTTTTTTTTATATTTTTAAA-
1 ATTTTTTATTTTTTTTTA-AATTTTAAAT
72080547 ATCATTTTTATGTTTATTTTTAAATTTTAAAT
1 AT--TTTTTAT-TTT-TTTTTAAATTTTAAAT
72080579 ATTTTTTATTTTTT
1 ATTTTTTATTTTTT
72080593 CACAATTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
28 4 0.10
29 3 0.08
30 14 0.35
31 11 0.28
32 8 0.20
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (28 bp):
ATTTTTTATTTTTTTTTAAATTTTAAAT
Found at i:72083089 original size:3 final size:3
Alignment explanation
Indices: 72083070--72083291 Score: 61
Period size: 3 Copynumber: 70.3 Consensus size: 3
72083060 ATATTATAAA
* *
72083070 ATT ATT -TT ATAT ATT ATT ATT ATT ATT ATT CATT ATAT GTT ATT CTT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT
** *
72083117 CACA AGTT ATT ATT ATT -TT GCATC ATT ATTT ATAT ATT ATTT ATAT ATT
1 -ATT A-TT ATT ATT ATT ATT --ATT ATT A-TT AT-T ATT A-TT AT-T ATT
* * *
72083166 A-T ATGT -TT ACT ATAT ATT ATAT ATT ATT TTT A-T ATAT ATG ATT -TT
1 ATT AT-T ATT ATT AT-T ATT AT-T ATT ATT ATT ATT AT-T ATT ATT ATT
* *
72083211 A-T ATT A-T ATT ATA ATT ATT -TT ATAT ATT ATT AAGTC ATT -TT -TGT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT -A-TT ATT ATT AT-T
* *
72083255 ATT ATT ATAT ATT TTT ATCT ATAT ATT ATT ATC ATT A
1 ATT ATT AT-T ATT ATT AT-T AT-T ATT ATT ATT ATT A
72083292 AAGGTCTTAA
Statistics
Matches: 163, Mismatches: 25, Indels: 62
0.65 0.10 0.25
Matches are distributed among these distances:
2 20 0.12
3 95 0.58
4 46 0.28
5 2 0.01
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:72083157 original size:11 final size:11
Alignment explanation
Indices: 72083141--72083241 Score: 83
Period size: 11 Copynumber: 9.5 Consensus size: 11
72083131 ATTTTGCATC
72083141 ATTATTTATAT
1 ATTATTTATAT
72083152 ATTATTTATAT
1 ATTATTTATAT
*
72083163 ATTA--TATGT
1 ATTATTTATAT
*
72083172 -TTA-CTATAT
1 ATTATTTATAT
*
72083181 ATTATATAT-T
1 ATTATTTATAT
72083191 ATT-TTTATAT
1 ATTATTTATAT
72083201 ATATGATTT-TAT
1 AT-T-ATTTATAT
72083213 ATTATATTATA-
1 ATTAT-TTATAT
72083224 ATTATTTTATAT
1 ATTA-TTTATAT
72083236 ATTATT
1 ATTATT
72083242 AAGTCATTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
8 3 0.04
9 12 0.16
10 12 0.16
11 33 0.44
12 12 0.16
13 3 0.04
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (11 bp):
ATTATTTATAT
Found at i:72083187 original size:36 final size:37
Alignment explanation
Indices: 72083141--72083240 Score: 129
Period size: 36 Copynumber: 2.8 Consensus size: 37
72083131 ATTTTGCATC
72083141 ATTAT-TTATATATTATTTATATATTATATG-TTTACT
1 ATTATATTATATATTATTTATATATTATATGATTTA-T
*
72083177 A-TATATTATATATTATTTTTATA-TATATGATTTTAT
1 ATTATATTATATATTATTTATATATTATATGA-TTTAT
72083213 ATTATATTATA-ATTATTTTATATATTAT
1 ATTATATTATATATTA-TTTATATATTAT
72083241 TAAGTCATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
35 9 0.16
36 24 0.43
37 20 0.36
38 3 0.05
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (37 bp):
ATTATATTATATATTATTTATATATTATATGATTTAT
Found at i:72083272 original size:10 final size:10
Alignment explanation
Indices: 72083054--72083283 Score: 75
Period size: 9 Copynumber: 23.6 Consensus size: 10
72083044 TTATTTTTTA
72083054 TATTATATAT
1 TATTATATAT
*
72083064 TA-TA-AAAT
1 TATTATATAT
*
72083072 TATTTTATA-
1 TATTATATAT
72083081 TATTAT-TAT
1 TATTATATAT
72083090 TATTAT-TAT
1 TATTATATAT
*
72083099 TCATTATATGT
1 T-ATTATATAT
* *
72083110 TATTCTTCACAAGT
1 TATT-AT-A-TA-T
72083124 TATTAT-TAT
1 TATTATATAT
**
72083133 T-TTGCATCAT
1 TATTATAT-AT
72083143 TATTTATATAT
1 TA-TTATATAT
72083154 TATT-TATA-
1 TATTATATAT
*
72083162 TATTATATGTT
1 TATTATAT-AT
*
72083173 TACTATATAT
1 TATTATATAT
72083183 TA-TATATTAT
1 TATTATA-TAT
*
72083193 TTTTATATA-
1 TATTATATAT
*
72083202 TATGAT-T-T
1 TATTATATAT
72083210 TA-TATTATAT
1 TATTA-TATAT
*
72083220 TATAAT-TAT
1 TATTATATAT
72083229 T-TTATATAT
1 TATTATATAT
72083238 TATTA-AGTCAT
1 TATTATA-T-AT
*
72083249 T-TT-TGTAT
1 TATTATATAT
72083257 TATTATATAT
1 TATTATATAT
* *
72083267 TTTTATCTAT
1 TATTATATAT
72083277 ATATTAT
1 -TATTAT
72083284 TATCATTAAA
Statistics
Matches: 161, Mismatches: 28, Indels: 61
0.64 0.11 0.24
Matches are distributed among these distances:
7 1 0.01
8 23 0.14
9 49 0.30
10 49 0.30
11 28 0.17
12 5 0.03
13 1 0.01
14 5 0.03
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (10 bp):
TATTATATAT
Found at i:72083279 original size:14 final size:14
Alignment explanation
Indices: 72083147--72083287 Score: 60
Period size: 13 Copynumber: 10.9 Consensus size: 14
72083137 CATCATTATT
*
72083147 TATA-TATTATTTA
1 TATATTATTATCTA
*
72083160 TATATTA-TATGT-
1 TATATTATTATCTA
*
72083172 T-TACTATATAT-TA
1 TATATTAT-TATCTA
*
72083185 TATATTATT-TTTA
1 TATATTATTATCTA
* *
72083198 TATA-TATGAT-TT
1 TATATTATTATCTA
72083210 TATATTA-TAT-TA
1 TATATTATTATCTA
72083222 TA-ATTATT-T-TA
1 TATATTATTATCTA
72083233 TATATTATTAAGTC-A
1 TATATTATT-A-TCTA
* *
72083248 TTTTTGTATTAT-TA
1 TATAT-TATTATCTA
*
72083262 TATATTTTTATCTA
1 TATATTATTATCTA
72083276 TATATTATTATC
1 TATATTATTATC
72083288 ATTAAAGGTC
Statistics
Matches: 98, Mismatches: 13, Indels: 33
0.68 0.09 0.23
Matches are distributed among these distances:
11 13 0.13
12 23 0.23
13 27 0.28
14 25 0.26
15 6 0.06
16 4 0.04
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (14 bp):
TATATTATTATCTA
Found at i:72087262 original size:14 final size:16
Alignment explanation
Indices: 72087243--72087275 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
72087233 CGATATCCTT
72087243 TTTGCATTT-AT-GCA
1 TTTGCATTTCATAGCA
72087257 TTTGCATTTCATAGCA
1 TTTGCATTTCATAGCA
72087273 TTT
1 TTT
72087276 CATCACATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTGCATTTCATAGCA
Found at i:72095884 original size:210 final size:210
Alignment explanation
Indices: 72095320--72096301 Score: 1642
Period size: 210 Copynumber: 4.7 Consensus size: 210
72095310 CTTTATCAGG
* * *
72095320 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCAGCGGGGAGAAAATTGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAAATCGAAGACATAGCTG
* * *
72095385 ATTTGGCTTTCACGTGTTTACGATGAAGCAAACCTAAGATGATTTGTCGTCTTTGTATTATCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
72095450 GAACAAATCGAAGTTTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
*
72095515 AATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * * *
72095530 GCAGATCCAAGATGACAGATCTTATCTCTCGGTATTCGG-TGGGAGCAGATCGAAGACATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAAATCGAAGACATAGCTG
72095594 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
72095659 GAACAAATCGAAGTCTGGCCTTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
*
72095724 GATGTTTATGCTGAA
196 GATGTTTACGCTGAA
* * *
72095739 GTAGATCCAAGATGATAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAAATCGAAGACATAGCTG
* ** *
72095804 ATTTGGCTTTCATGTGTTTGTGATGAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
72095869 GAACAAATCGAAGTCTGCCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
72095934 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
*
72095949 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAAATCAAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAAATCGAAGACATAGCTG
72096014 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * *
72096079 GAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAAGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
72096144 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* *
72096159 GCAGATCCACGGTGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAAATCGAAGACATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAAATCGAAGACATAGCTG
* * * * * * *
72096224 ATTTGGTTTTCACGTGCTTACAATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTATCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
72096289 GAACAAATCGAAG
131 GAACAAATCGAAG
72096302 AAGCAGATTT
Statistics
Matches: 722, Mismatches: 49, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
209 194 0.27
210 528 0.73
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAGAGCAGATACATAGCAGATCTTACCTTCA
GATGTTTACGCTGAA
Found at i:72097961 original size:27 final size:27
Alignment explanation
Indices: 72097905--72098103 Score: 108
Period size: 27 Copynumber: 7.1 Consensus size: 27
72097895 TTTTTTTACC
* *
72097905 TTATTTTTTATATTA--TATATTATAAAA
1 TTATTTTATATATTATTTATATTAT--TA
72097932 TTATTTTATATATTATTTATATTATTA
1 TTATTTTATATATTATTTATATTATTA
* *
72097959 TTATTCATTATATGTTATTCTTCACAAGTTATTA
1 TTATT--TTATATATTA-T-TT-A-TA-TTATTA
**
72097993 TTATTTTGCATCATTATTTATA-TATTA
1 TTATTTTATAT-ATTATTTATATTATTA
* *
72098020 TTATATTATATGTTTATTATATATTATATA
1 TTATTTTATAT-ATTATT-TATATTAT-TA
* *
72098050 TTATTTT-TATA-TATATGATTTTA-TA
1 TTATTTTATATATTAT-TTATATTATTA
*
72098075 TTATATTATA-ATTATTT-TATATATTA
1 TTATTTTATATATTATTTATAT-TATTA
72098101 TTA
1 TTA
72098104 AGTCATTTTT
Statistics
Matches: 134, Mismatches: 20, Indels: 37
0.70 0.10 0.19
Matches are distributed among these distances:
24 2 0.01
25 12 0.09
26 10 0.07
27 46 0.34
28 5 0.04
29 24 0.18
30 10 0.07
31 4 0.03
32 6 0.04
33 4 0.03
34 11 0.08
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (27 bp):
TTATTTTATATATTATTTATATTATTA
Found at i:72098023 original size:30 final size:27
Alignment explanation
Indices: 72097987--72098103 Score: 75
Period size: 26 Copynumber: 4.3 Consensus size: 27
72097977 TCTTCACAAG
72097987 TTATTATTATTTTGCATCATTATTTATATA
1 TTATTATTATTTT--ATCATTA-TTATATA
* **
72098017 TTATTA-TATTATATGTTTATTATATA
1 TTATTATTATTTTATCATTATTATATA
72098043 TTATATATTATTTT-T-A-TA-TATATGA
1 TTAT-TATTATTTTATCATTATTATAT-A
* * * *
72098068 TTTTATATTATATTATAATTATTTTATA
1 TTAT-TATTATTTTATCATTATTATATA
72098096 -TATTATTA
1 TTATTATTA
72098104 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 18
0.72 0.09 0.18
Matches are distributed among these distances:
24 5 0.07
25 15 0.21
26 17 0.24
27 11 0.15
28 8 0.11
29 9 0.13
30 6 0.08
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.62
Consensus pattern (27 bp):
TTATTATTATTTTATCATTATTATATA
Found at i:72098052 original size:33 final size:33
Alignment explanation
Indices: 72098010--72098103 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 33
72098000 GCATCATTAT
* *
72098010 TTATATATTATTATATTATATGT-TTATTATATA
1 TTATATATTATTAT-TTATATATATGATTATATA
*
72098043 TTATATATTATT-TTTATATATATGATTTTATA
1 TTATATATTATTATTTATATATATGATTATATA
* *
72098075 TTATATTATAATTATTT-TATATATTATTA
1 TTATA-TATTATTATTTATATATATGATTA
72098104 AGTCATTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
31 7 0.13
32 14 0.27
33 28 0.54
34 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (33 bp):
TTATATATTATTATTTATATATATGATTATATA
Found at i:72098097 original size:48 final size:50
Alignment explanation
Indices: 72098006--72098102 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
72097996 TTTTGCATCA
* *
72098006 TTATTTATATATTATTATATTATATGTTTATTATATATTATATATTATTT
1 TTATATATATATTATTATATTATATGTTAATTATATATTATATATTATTT
72098056 TTATATATATGATT-TTATATTATAT-TATAATTAT-T-TTATATATTATT
1 TTATATATAT-ATTATTATATTATATGT-TAATTATATATTATATATTATT
72098103 AAGTCATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
48 12 0.28
49 2 0.05
50 26 0.60
51 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (50 bp):
TTATATATATATTATTATATTATATGTTAATTATATATTATATATTATTT
Found at i:72098123 original size:3 final size:3
Alignment explanation
Indices: 72097931--72098103 Score: 62
Period size: 3 Copynumber: 56.3 Consensus size: 3
72097921 ATATTATAAA
*
72097931 ATT ATT -TT ATAT ATT ATT -TAT ATT ATT ATT ATT CATT ATAT GTT ATT
1 ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT ATT -ATT AT-T ATT ATT
* ** *
72097978 CTT CACA AGTT ATT ATT ATT -TT GCATC ATT ATTT ATAT ATT ATT A-T
1 ATT -ATT A-TT ATT ATT ATT ATT --ATT ATT A-TT AT-T ATT ATT ATT
* *
72098024 ATT A-T ATGT -TT ATT ATAT ATT ATAT ATT ATT TTT A-T ATAT ATG ATT
1 ATT ATT AT-T ATT ATT AT-T ATT AT-T ATT ATT ATT ATT AT-T ATT ATT
*
72098070 -TT A-T ATT A-T ATT ATA ATT ATT -TT ATAT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT A
72098104 AGTCATTTTT
Statistics
Matches: 128, Mismatches: 16, Indels: 52
0.65 0.08 0.27
Matches are distributed among these distances:
2 20 0.16
3 78 0.61
4 29 0.23
5 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:72101350 original size:3 final size:3
Alignment explanation
Indices: 72101342--72101366 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
72101332 ATGAGTTTTT
72101342 CAC CAC CAC CAC CAC CAC CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC C
72101367 TGTCTTTGCT
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:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:72107297 original size:43 final size:42
Alignment explanation
Indices: 72107236--72107318 Score: 130
Period size: 43 Copynumber: 2.0 Consensus size: 42
72107226 AACCTAATTA
72107236 GAAAAAAAAATCTATTATTCTAATAAACTACTAAAAGATAAGG
1 GAAAAAAAAATCTATTATTCTAATAAACTACTAAAA-ATAAGG
* * *
72107279 GAAAAATAATTCTCTTATTCTAATAAACTACTAAAAATAA
1 GAAAAAAAAATCTATTATTCTAATAAACTACTAAAAATAA
72107319 AATAAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 4 0.11
43 33 0.89
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (42 bp):
GAAAAAAAAATCTATTATTCTAATAAACTACTAAAAATAAGG
Found at i:72110208 original size:28 final size:28
Alignment explanation
Indices: 72110177--72110232 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
72110167 TATTTTCGTC
* * *
72110177 CACACAAGCGTGTGTCTTAGTCGTGTGT
1 CACACAAGCGTGTGGCCTAGCCGTGTGT
* *
72110205 CACATAGGCGTGTGGCCTAGCCGTGTGT
1 CACACAAGCGTGTGGCCTAGCCGTGTGT
72110233 TCCCTACATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.16, C:0.23, G:0.32, T:0.29
Consensus pattern (28 bp):
CACACAAGCGTGTGGCCTAGCCGTGTGT
Found at i:72117105 original size:42 final size:42
Alignment explanation
Indices: 72116990--72117126 Score: 148
Period size: 42 Copynumber: 3.3 Consensus size: 42
72116980 GTTTAACTCA
* * * * *
72116990 TATGAGTTTCCGTTCAACCCTAACAGGTTTCCGTTCAACTCT
1 TATGAGCTTCTGTTCAACCCTTACAGGTTTCTGTTCAGCTCT
* * * * *
72117032 TCTAAGCTTCTGTTGAACCCTTATAGGTTTCTATTCAGCTCT
1 TATGAGCTTCTGTTCAACCCTTACAGGTTTCTGTTCAGCTCT
* * *
72117074 TATGAGCTTTTGTTCAACCCTTACAGGTTTCTGTTTAGCACT
1 TATGAGCTTCTGTTCAACCCTTACAGGTTTCTGTTCAGCTCT
*
72117116 TATGTGCTTCT
1 TATGAGCTTCT
72117127 ATTTAGACTT
Statistics
Matches: 75, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCTGTTCAACCCTTACAGGTTTCTGTTCAGCTCT
Found at i:72117108 original size:21 final size:21
Alignment explanation
Indices: 72116995--72117108 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 21
72116985 ACTCATATGA
* *
72116995 GTTTCCGTTCAACCCTAACAG
1 GTTTCTGTTCAACCCTTACAG
* * *
72117016 GTTTCCGTTCAACTCTT-CTAA
1 GTTTCTGTTCAACCCTTAC-AG
* * *
72117037 GCTTCTGTTGAACCCTTATAG
1 GTTTCTGTTCAACCCTTACAG
* * * *
72117058 GTTTCTATTCAGCTCTTATGAG
1 GTTTCTGTTCAACCCTTA-CAG
*
72117080 CTTT-TGTTCAACCCTTACAG
1 GTTTCTGTTCAACCCTTACAG
72117100 GTTTCTGTT
1 GTTTCTGTT
72117109 TAGCACTTAT
Statistics
Matches: 68, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
20 6 0.09
21 57 0.84
22 5 0.07
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.41
Consensus pattern (21 bp):
GTTTCTGTTCAACCCTTACAG
Found at i:72119325 original size:25 final size:23
Alignment explanation
Indices: 72119297--72119353 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 23
72119287 TACCGGTCAA
72119297 GATGCTCACAGGAA-CTATATAACAG
1 GATGCTCA-A-GAAGCT-TATAACAG
*
72119322 GATGCTCAAGAAGGCTTTTAACAG
1 GATGCTCAAGAA-GCTTATAACAG
72119346 GATGCTCA
1 GATGCTCA
72119354 TCCGAGCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 16 0.55
25 10 0.34
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (23 bp):
GATGCTCAAGAAGCTTATAACAG
Found at i:72121358 original size:22 final size:20
Alignment explanation
Indices: 72121321--72121360 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
72121311 GCACCTAAGG
72121321 AAAATTTTAAAATTTTGGGA
1 AAAATTTTAAAATTTTGGGA
*
72121341 AAAATTCTCTAAACTTTTGG
1 AAAATT-T-TAAAATTTTGG
72121361 TTTAGTCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (20 bp):
AAAATTTTAAAATTTTGGGA
Found at i:72126690 original size:17 final size:18
Alignment explanation
Indices: 72126670--72126704 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
72126660 AGATTTAGGT
72126670 TTAAAAA-TTTTAATTAA
1 TTAAAAATTTTTAATTAA
72126687 TTAAAAATTTTTAATTAA
1 TTAAAAATTTTTAATTAA
72126705 AAATCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAAATTTTTAATTAA
Found at i:72132411 original size:14 final size:14
Alignment explanation
Indices: 72132392--72132423 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
72132382 TCCAATCACC
72132392 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
72132406 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
72132420 GGGC
1 GGGC
72132424 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:72140599 original size:126 final size:125
Alignment explanation
Indices: 72140374--72140768 Score: 517
Period size: 126 Copynumber: 3.1 Consensus size: 125
72140364 GGCCAAACAG
* *
72140374 GAACTACTATAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCAA
1 GAACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTG-AA
*
72140438 CTTGT-TTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
64 -TTCTCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* * * * * *
72140500 GAACTACTATAGAAAAAAAACGTCCACGTGGGAGATTTTTTCAGTATTTTTACTGACTGTGGATT
1 GAACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGAATT
* * *
72140565 CTACTTGAAGCGTTTTTAACACTATTTATTTAGAACCATCTTCTCAAAATTATTTTTTGAA
66 CT-CTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* * * * *
72140626 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGAATT
* * * *
72140691 CTGCTTGAAGCATTTTTGACATTATTTGTTTAGAACCATCTCCTCAAAATTATTTTTTCAG
66 CT-CTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
* *
72140752 GAATTACTGTA-AAAAAA
1 GAACTACTATAGAAAAAA
72140769 CAAAATCCTT
Statistics
Matches: 234, Mismatches: 32, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
124 3 0.01
125 6 0.03
126 224 0.96
127 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (125 bp):
GAACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGAATT
CTCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCATCTTCTCAAAATTATTTTTTCAA
Found at i:72140959 original size:36 final size:36
Alignment explanation
Indices: 72140827--72140963 Score: 131
Period size: 36 Copynumber: 3.9 Consensus size: 36
72140817 CTAAACAAAA
* *
72140827 AATTATTTTAAAAAAAC--TAAACCCTAATTTAATT
1 AATTTTTTTTAAAAAACTATAAACCCTAATTTAATT
* *
72140861 AATTTTCTTT--AAAACTCTAAACCCTAATTTAATT
1 AATTTTTTTTAAAAAACTATAAACCCTAATTTAATT
* * ** * * *
72140895 TA-TTTATTTAAAACCCCTAAAAAACCTAATATAATT
1 AATTTTTTTTAAAA-AACTATAAACCCTAATTTAATT
72140931 AATTTTTTTTAAAAAACTATAAACCCTAATTTA
1 AATTTTTTTTAAAAAACTATAAACCCTAATTTA
72140964 TTTTTTAAAA
Statistics
Matches: 79, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
32 5 0.06
33 6 0.08
34 25 0.32
35 2 0.03
36 31 0.39
37 10 0.13
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (36 bp):
AATTTTTTTTAAAAAACTATAAACCCTAATTTAATT
Found at i:72140967 original size:28 final size:27
Alignment explanation
Indices: 72140933--72140987 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
72140923 ATATAATTAA
72140933 TTTTTTTTAAAAAACTATAAACCCTAAT
1 TTTTTTTTAAAAAACT-TAAACCCTAAT
**
72140961 TTATTTTTTAAAATTCTTAAACCCTAA
1 TT-TTTTTTAAAAAACTTAAACCCTAA
72140988 ACTTAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (27 bp):
TTTTTTTTAAAAAACTTAAACCCTAAT
Found at i:72141025 original size:41 final size:41
Alignment explanation
Indices: 72140978--72141070 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
72140968 TTAAAATTCT
*
72140978 TAAACCCTAAACTTAAATTA-TTTTAATAAA-ACCCTAACCC
1 TAAACCCTAAACCTAAATTATTTTTAA-AAAGACCCTAACCC
* *
72141018 TACAACCCTAAACCTAAATTATTTTTAAAAAGATCCTAACCT
1 TA-AACCCTAAACCTAAATTATTTTTAAAAAGACCCTAACCC
72141060 TAAACCCTAAA
1 TAAACCCTAAA
72141071 AACCCTAAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
40 2 0.04
41 29 0.62
42 16 0.34
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.29
Consensus pattern (41 bp):
TAAACCCTAAACCTAAATTATTTTTAAAAAGACCCTAACCC
Found at i:72141457 original size:26 final size:25
Alignment explanation
Indices: 72141410--72141466 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
72141400 TTAAAATTGA
*
72141410 TTTTATTTTGAAATTTAAATCTTATT
1 TTTTATTTAGAAATTTAAATCTT-TT
**
72141436 TTTTATTTAGAAATTTTGATCTTTT
1 TTTTATTTAGAAATTTAAATCTTTT
72141461 TATTTA
1 T-TTTA
72141467 GTTTTTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (25 bp):
TTTTATTTAGAAATTTAAATCTTTT
Found at i:72142711 original size:29 final size:26
Alignment explanation
Indices: 72142653--72142722 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 26
72142643 TATAATTTTT
*
72142653 TAAAACAATAAAAAAATCTTTAAAAA
1 TAAAAAAATAAAAAAATCTTTAAAAA
72142679 TAAAAAAATAAAAACACAT-TTTAAAAATA
1 TAAAAAAATAAAAA-A-ATCTTT-AAAA-A
72142708 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
72142723 TTCAATGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 13 0.33
27 4 0.10
28 7 0.18
29 15 0.38
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (26 bp):
TAAAAAAATAAAAAAATCTTTAAAAA
Found at i:72156316 original size:24 final size:24
Alignment explanation
Indices: 72156280--72156420 Score: 185
Period size: 24 Copynumber: 5.9 Consensus size: 24
72156270 TCGGTCAAGG
* *
72156280 AAATTCACACACATAGTGCCATGC
1 AAATCCACACACATAGTGCCATTC
* * *
72156304 TAACCCGCACACATAGTGCC-TTGC
1 AAATCCACACACATAGTGCCATT-C
* *
72156328 TAATCCACACACGTAGTGCCATTC
1 AAATCCACACACATAGTGCCATTC
*
72156352 AAATCCCCACACATAGTGCCATTC
1 AAATCCACACACATAGTGCCATTC
*
72156376 AAATCCGCACACATAGTGCCATTC
1 AAATCCACACACATAGTGCCATTC
72156400 AAATCCACACACATAGTGCCA
1 AAATCCACACACATAGTGCCA
72156421 ATGTCATTTC
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
23 1 0.01
24 99 0.97
25 2 0.02
ACGTcount: A:0.33, C:0.34, G:0.12, T:0.21
Consensus pattern (24 bp):
AAATCCACACACATAGTGCCATTC
Found at i:72156384 original size:72 final size:72
Alignment explanation
Indices: 72156287--72156420 Score: 207
Period size: 72 Copynumber: 1.9 Consensus size: 72
72156277 AGGAAATTCA
* * *
72156287 CACACATAGTGCCATGCTAACCCGCACACATAGTGCC-TTGCTAATCCACACACGTAGTGCCATT
1 CACACATAGTGCCATGCAAACCCGCACACATAGTGCCATT-CAAATCCACACACATAGTGCCATT
72156351 CAAATCCC
65 CAAATCCC
* *
72156359 CACACATAGTGCCATTCAAATCCGCACACATAGTGCCATTCAAATCCACACACATAGTGCCA
1 CACACATAGTGCCATGCAAACCCGCACACATAGTGCCATTCAAATCCACACACATAGTGCCA
72156421 ATGTCATTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 54 0.96
73 2 0.04
ACGTcount: A:0.32, C:0.35, G:0.13, T:0.20
Consensus pattern (72 bp):
CACACATAGTGCCATGCAAACCCGCACACATAGTGCCATTCAAATCCACACACATAGTGCCATTC
AAATCCC
Found at i:72157757 original size:17 final size:17
Alignment explanation
Indices: 72157735--72157768 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
72157725 CCCCACTTAA
*
72157735 TATATTATAACTTATTT
1 TATATTATAACATATTT
72157752 TATATTATAACATATTT
1 TATATTATAACATATTT
72157769 CAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:72161963 original size:19 final size:20
Alignment explanation
Indices: 72161939--72161976 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
72161929 ATGATATACC
*
72161939 ACATTTAACCATC-ACATGA
1 ACATTTAAACATCAACATGA
72161958 ACATTTAAACATCAACATG
1 ACATTTAAACATCAACATG
72161977 CATAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (20 bp):
ACATTTAAACATCAACATGA
Found at i:72162930 original size:14 final size:14
Alignment explanation
Indices: 72162911--72162941 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
72162901 CATGCAATCA
72162911 ATATCTAAATTAAC
1 ATATCTAAATTAAC
72162925 ATATCTAAATTAAC
1 ATATCTAAATTAAC
72162939 ATA
1 ATA
72162942 CATTTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATCTAAATTAAC
Found at i:72164928 original size:39 final size:39
Alignment explanation
Indices: 72164885--72165007 Score: 201
Period size: 39 Copynumber: 3.2 Consensus size: 39
72164875 GCAATTAGCA
* *
72164885 TGCTAGGTATAAACCTGAACTTATCACCGGCATGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
* *
72164924 TGCTAGGTATAAACTTGAACTTATCACTGGCACGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
*
72164963 TACTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
1 TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
72165002 TGCTAG
1 TGCTAG
72165008 ACATTAAGTC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (39 bp):
TGCTAGGTATAAACATGAACTTATCACCGGCACGAGGCC
Found at i:72172742 original size:39 final size:39
Alignment explanation
Indices: 72172688--72172771 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 39
72172678 GCAATTAGCA
*
72172688 TGCTAGGTATAAACCTAAACTTATCATCGACACGAGGCC
1 TGCTAGGTATAAACCTAAACTTATCACCGACACGAGGCC
* * * * *
72172727 TGCTAGGTATAAACCTGAATTTATCACCGGCATGAGGCT
1 TGCTAGGTATAAACCTAAACTTATCACCGACACGAGGCC
72172766 TGCTAG
1 TGCTAG
72172772 ACATTAAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (39 bp):
TGCTAGGTATAAACCTAAACTTATCACCGACACGAGGCC
Found at i:72174246 original size:25 final size:25
Alignment explanation
Indices: 72174218--72174267 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
72174208 TCCAAATATA
72174218 CAAAGATTTTAAATGAAAGAGCATT
1 CAAAGATTTTAAATGAAAGAGCATT
72174243 CAAAGATTTTAAATGAAAGAGCATT
1 CAAAGATTTTAAATGAAAGAGCATT
72174268 AAACATACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (25 bp):
CAAAGATTTTAAATGAAAGAGCATT
Found at i:72176788 original size:21 final size:20
Alignment explanation
Indices: 72176762--72176809 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
72176752 CAGATAATAA
* *
72176762 TTAACTATTAACTAACTGTGT
1 TTAACTACTAACTAACTCT-T
72176783 TTAACTACTAACTAACTCTT
1 TTAACTACTAACTAACTCTT
72176803 TTAACTA
1 TTAACTA
72176810 ACTTTATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (20 bp):
TTAACTACTAACTAACTCTT
Found at i:72179477 original size:10 final size:10
Alignment explanation
Indices: 72179452--72179496 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
72179442 TCTTAAAAAA
72179452 TAAAAAAGATT
1 TAAAAAA-ATT
*
72179463 T-AAAAATTT
1 TAAAAAAATT
72179472 TAAAAAAATT
1 TAAAAAAATT
72179482 TAAAAAAATT
1 TAAAAAAATT
72179492 TAAAA
1 TAAAA
72179497 CTCAAAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 3 0.10
10 27 0.87
11 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:72181646 original size:20 final size:21
Alignment explanation
Indices: 72181609--72181658 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
72181599 AGAAACAAAT
*
72181609 TATTTTATTCATTCATTTA-A
1 TATTTTATTCATTAATTTATA
**
72181629 TATTTTATTTTTTAATTTATA
1 TATTTTATTCATTAATTTATA
*
72181650 TAATTTATT
1 TATTTTATT
72181659 AAATCACTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTTTATTCATTAATTTATA
Found at i:72181770 original size:9 final size:9
Alignment explanation
Indices: 72181753--72181801 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
72181743 TTATATTTTT
72181753 AAATATTAA
1 AAATATTAA
*
72181762 AAATTTTAA
1 AAATATTAA
*
72181771 AAA-ATAAAA
1 AAATAT-TAA
72181780 AAATATTAA
1 AAATATTAA
72181789 AAATATTAA
1 AAATATTAA
72181798 AAAT
1 AAAT
72181802 TAAAGTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 1 0.03
9 31 0.91
10 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAATATTAA
Found at i:72181783 original size:27 final size:27
Alignment explanation
Indices: 72181753--72181805 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
72181743 TTATATTTTT
*
72181753 AAATATTAAAAATTTTAAAAAATAAAA
1 AAATATTAAAAATATTAAAAAATAAAA
*
72181780 AAATATTAAAAATATTAAAAATTAAA
1 AAATATTAAAAATATTAAAAAATAAA
72181806 GTTTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (27 bp):
AAATATTAAAAATATTAAAAAATAAAA
Found at i:72195411 original size:30 final size:30
Alignment explanation
Indices: 72195377--72195438 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
72195367 ACTGAATTGG
72195377 TTGAAATTTGGAGACAGAAATACATCATTT
1 TTGAAATTTGGAGACAGAAATACATCATTT
72195407 TTGAAATTTGGAGACAGAAATACATCATTT
1 TTGAAATTTGGAGACAGAAATACATCATTT
72195437 TT
1 TT
72195439 TCACATCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (30 bp):
TTGAAATTTGGAGACAGAAATACATCATTT
Found at i:72202554 original size:9 final size:9
Alignment explanation
Indices: 72202530--72202607 Score: 120
Period size: 9 Copynumber: 8.3 Consensus size: 9
72202520 TTCATTTAAC
72202530 AAACACATT
1 AAACACATT
72202539 GAAACACATT
1 -AAACACATT
72202549 AAACACATT
1 AAACACATT
72202558 AAACACATT
1 AAACACATT
72202567 AAACACATT
1 AAACACATT
*
72202576 AATTAGACATT
1 AA--ACACATT
72202587 AAACACATT
1 AAACACATT
72202596 AAACACATT
1 AAACACATT
72202605 AAA
1 AAA
72202608 TTATTCCAGC
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
9 47 0.73
10 9 0.14
11 8 0.12
ACGTcount: A:0.55, C:0.19, G:0.03, T:0.23
Consensus pattern (9 bp):
AAACACATT
Found at i:72205043 original size:26 final size:25
Alignment explanation
Indices: 72205013--72205082 Score: 97
Period size: 24 Copynumber: 2.8 Consensus size: 25
72205003 GAGTAACGGT
* *
72205013 TAGTAAGCTCCTCTTGAGCTGGTAAA
1 TAGTAAGCT-CTATTGAGCTGGAAAA
72205039 TAGTAAGCTCTATTGAGCT-GAAAA
1 TAGTAAGCTCTATTGAGCTGGAAAA
*
72205063 TGGTAAGCTCTATTGAGCTG
1 TAGTAAGCTCTATTGAGCTG
72205083 AACATAAGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 22 0.55
25 9 0.22
26 9 0.22
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (25 bp):
TAGTAAGCTCTATTGAGCTGGAAAA
Found at i:72205068 original size:24 final size:23
Alignment explanation
Indices: 72205015--72205105 Score: 96
Period size: 24 Copynumber: 3.9 Consensus size: 23
72205005 GTAACGGTTA
* *
72205015 GTAAGCTCCTCTTGAGCTGGTAAAT
1 GTAAGCT-CTATTGAGCT-GAAAAT
72205040 AGTAAGCTCTATTGAGCTGAAAAT
1 -GTAAGCTCTATTGAGCTGAAAAT
*
72205064 GGTAAGCTCTATTGAGCTGAACA-
1 -GTAAGCTCTATTGAGCTGAAAAT
*
72205087 -TAAGCTCTATCGAGCTGAA
1 GTAAGCTCTATTGAGCTGAA
72205106 TCGGTAAGCT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.30
24 26 0.43
25 9 0.15
26 7 0.12
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAAAT
Found at i:72205092 original size:21 final size:22
Alignment explanation
Indices: 72205014--72205140 Score: 96
Period size: 23 Copynumber: 5.5 Consensus size: 22
72205004 AGTAACGGTT
*
72205014 AGTAAGCTCCTCTTGAGCTGGTAAA
1 AGTAAGCT-CTATTGAGCT-G-AAA
72205039 TAGTAAGCTCTATTGAGCTGAAA
1 -AGTAAGCTCTATTGAGCTGAAA
*
72205062 ATGGTAAGCTCTATTGAGCTGAAC
1 A--GTAAGCTCTATTGAGCTGAAA
* *
72205086 A-TAAGCTCTATCGAGCTGAATC
1 AGTAAGCTCTATTGAGCTGAA-A
* * *
72205108 GGTAAGCT-TCAATGAACTGAAA
1 AGTAAGCTCT-ATTGAGCTGAAA
72205130 CAGTAAGCTCT
1 -AGTAAGCTCT
72205141 TACAAGCTGA
Statistics
Matches: 85, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
21 18 0.21
22 3 0.04
23 24 0.28
24 23 0.27
25 9 0.11
26 8 0.09
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (22 bp):
AGTAAGCTCTATTGAGCTGAAA
Done.