Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 124 of 144
Found at i:38474447 original size:239 final size:240
Alignment explanation
Indices: 38474021--38474453 Score: 755
Period size: 239 Copynumber: 1.8 Consensus size: 240
38474011 ATTTAATCAT
38474021 ATTTAATCATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAATCATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
38474086 ATCAATATTCTTATATGAATTTACTCAAAGCATAATATATGATACTATAAAATATAATTTAACAT
66 ATCAATATTCTTATATGAATTTACTAAAAGCATAATATATGATACTATAAAATATAATTTAACAT
* *
38474151 AATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTC
131 AATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTAAATAATTAATATTC
38474216 TTATATGAATTTACTCAAATCATAATATATGATATATAAAAGATA
196 TTATATGAATTTACTCAAATCATAATATATGATATATAAAAGATA
*
38474261 ATTTAA-CATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAATCATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
38474325 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA-A
66 ATCAATATTCTTATATGAATTTACTAAAAGCATAATATATGATACTATAAAATATAATTT-AACA
* * *
38474389 TAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT-TAAAATAATTATTAT
130 TAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCT-AAATAATTAATAT
38474453 T
194 T
38474454 AAATATAATT
Statistics
Matches: 183, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
238 1 0.01
239 174 0.95
240 8 0.04
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (240 bp):
ATTTAATCATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAAGCATAATATATGATACTATAAAATATAATTTAACAT
AATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTAAATAATTAATATTC
TTATATGAATTTACTCAAATCATAATATATGATATATAAAAGATA
Found at i:38474466 original size:54 final size:54
Alignment explanation
Indices: 38474375--38474483 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 54
38474365 GATACTATAA
* * * *
38474375 AATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTT
1 AATAAAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTT
*
38474429 AATAAAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTT
1 AATAAAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTT
38474483 A
1 A
38474484 TTCCTTGAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
53 3 0.06
54 46 0.94
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTT
Found at i:38474539 original size:13 final size:13
Alignment explanation
Indices: 38474521--38474546 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38474511 CCAAATACTT
38474521 GTTTTTTAATCAA
1 GTTTTTTAATCAA
38474534 GTTTTTTAATCAA
1 GTTTTTTAATCAA
38474547 TCATAATAAC
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:0.08, T:0.54
Consensus pattern (13 bp):
GTTTTTTAATCAA
Found at i:38474721 original size:24 final size:26
Alignment explanation
Indices: 38474669--38474718 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
38474659 TATATGTAAT
38474669 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
38474696 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
38474719 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:38480164 original size:43 final size:43
Alignment explanation
Indices: 38480097--38480319 Score: 206
Period size: 43 Copynumber: 5.2 Consensus size: 43
38480087 TTTTCATGAC
* * **
38480097 CTTTAGCGGCATTTTTGGGAAAAGTGTTGCTAAAAGTCATGTT
1 CTTTAGCGGCGTTTTAGGGAAAAGTGCCGCTAAAAGTCATGTT
* * * * *
38480140 TTTTAACGGCGTTTTAGGGGAAAGTGCCGCTAAAGGTTATGTT
1 CTTTAGCGGCGTTTTAGGGAAAAGTGCCGCTAAAAGTCATGTT
* * *
38480183 CTTTAGCGGCGTCTTTAGGG--AAGCGCCACTAAAGGTCATGTT
1 CTTTAGCGGCGT-TTTAGGGAAAAGTGCCGCTAAAAGTCATGTT
* *
38480225 CTTTAGCGGC-ATTTATGGGAAAAGTGCCGCT-AAAGATCATGCT
1 CTTTAGCGGCGTTTTA-GGGAAAAGTGCCGCTAAAAG-TCATGTT
* * *
38480268 CTTTAACGGCGTTTT-CGGAAAAGCGCCGCT-AAAGATCATGTT
1 CTTTAGCGGCGTTTTAGGGAAAAGTGCCGCTAAAAG-TCATGTT
*
38480310 CTATAGCGGC
1 CTTTAGCGGC
38480320 ATTTGTCCAC
Statistics
Matches: 148, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
40 4 0.03
41 3 0.02
42 64 0.43
43 67 0.45
44 10 0.07
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTAGGGAAAAGTGCCGCTAAAAGTCATGTT
Found at i:38480221 original size:85 final size:85
Alignment explanation
Indices: 38480126--38480323 Score: 229
Period size: 85 Copynumber: 2.3 Consensus size: 85
38480116 AAAAGTGTTG
* * * * * * * *
38480126 CTAAAAGTCATGTTTTTTAACGGCGTTT-TAGGGGAAAGTGCCGCTAAAGGTTATGTTCTTTAGC
1 CTAAAGGTCATGTTCTTTAACGGCATTTAT-GGGAAAAGTGCCGCTAAAGATCATGCTCTTTAAC
*
38480190 GGCGTCTTTAGG-GAAGCGCCA
65 GGCGT-TTTAGGAAAAGCGCCA
*
38480211 CTAAAGGTCATGTTCTTTAGCGGCATTTATGGGAAAAGTGCCGCTAAAGATCATGCTCTTTAACG
1 CTAAAGGTCATGTTCTTTAACGGCATTTATGGGAAAAGTGCCGCTAAAGATCATGCTCTTTAACG
* *
38480276 GCGTTTTCGGAAAAGCGCCG
66 GCGTTTTAGGAAAAGCGCCA
* * *
38480296 CTAAAGATCATGTTCTATAGCGGCATTT
1 CTAAAGGTCATGTTCTTTAACGGCATTT
38480324 GTCCACATAA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
84 5 0.05
85 91 0.94
86 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (85 bp):
CTAAAGGTCATGTTCTTTAACGGCATTTATGGGAAAAGTGCCGCTAAAGATCATGCTCTTTAACG
GCGTTTTAGGAAAAGCGCCA
Found at i:38481350 original size:44 final size:44
Alignment explanation
Indices: 38481300--38481769 Score: 531
Period size: 44 Copynumber: 10.7 Consensus size: 44
38481290 CTGATCATCT
* * * *
38481300 GATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTC
38481344 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
*
38481388 GACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
* ***** *
38481432 GA-CTTGCTCCACTACTGCTTAAGGAGATAGGA-CTGGTGGCTTA
1 GATC-TGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
* * * * * * *
38481475 AATCTGCTTCACTACTGTTTAGGAAGATAAGAT-TCGCCGTCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTC
*
38481519 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTT
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
*
38481563 GACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
* *
38481607 GACCTGCTCCACTACTGCTTAAGGAGATAGGATCTACCATCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
***** *
38481651 GA-CTTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTA
1 GATC-TGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
* * * * * *
38481694 AATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTC
38481738 GATCTGCTCCACTACTGCTTAGGGAGATAGGA
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGA
38481770 CTTGATATGG
Statistics
Matches: 364, Mismatches: 52, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
43 64 0.18
44 298 0.82
45 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
Found at i:38481592 original size:175 final size:175
Alignment explanation
Indices: 38481301--38481769 Score: 647
Period size: 175 Copynumber: 2.7 Consensus size: 175
38481291 TGATCATCTG
38481301 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
38481366 GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTT
66 GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTT
*
38481431 CGACTTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAA
131 CGACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAA
* *
38481476 ATCTGCTTCACTACTGTTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
*
38481541 GGAGATAGGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTT
66 GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTT
***** **
38481606 CGACCTGCTCCACTACTGCTTAAGGAGATAGGATCTACCATCTTCG
131 CGACCTGCTCCACTACTGCTTAAGGAGATAGGA-CTGGTGGCTTAA
* * * * *** * ** *
38481652 A-CTTGCTCCACTACTGCTTAGGGAGATAGGACT-GGTGGCTTAAATCTGCTTCACTACTGCTTA
1 ATC-TGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTA
* * * * *
38481715 GGAAGATAAGAT-TCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGA
65 GGGAGATAGGATCT-ACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGA
38481770 CTTGATATGG
Statistics
Matches: 263, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
174 1 0.00
175 231 0.88
176 31 0.12
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (175 bp):
ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
GGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTT
CGACCTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAA
Found at i:38481679 original size:219 final size:219
Alignment explanation
Indices: 38481300--38481769 Score: 843
Period size: 219 Copynumber: 2.1 Consensus size: 219
38481290 CTGATCATCT
* * * * *
38481300 GATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATTCACCATCTTCGACCTGCTCCACTACTGCTTA
*
38481365 GGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCT
66 GGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGATCTACCATCT
*
38481430 TCGACTTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGTTT
131 TCGACTTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTT
38481495 AGGAAGATAAGATTCGCCGTCTTC
196 AGGAAGATAAGATTCGCCGTCTTC
*
38481519 GATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTACCATCTTTGACCTGCTCCACTACTGCTT
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGATTC-ACCATCTTCGACCTGCTCCACTACTGCTT
38481583 AGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGATCTACCATC
65 AGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGATCTACCATC
*
38481648 TTCGACTTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCT
130 TTCGACTTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCT
38481713 TAGGAAGATAAGATTCGCCGTCTTC
195 TAGGAAGATAAGATTCGCCGTCTTC
38481738 GATCTGCTCCACTACTGCTTAGGGAGATAGGA
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGA
38481770 CTTGATATGG
Statistics
Matches: 241, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
218 2 0.01
219 239 0.99
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (219 bp):
GATCTGCTCCACTACTGCTTAGGGAGATAGGATTCACCATCTTCGACCTGCTCCACTACTGCTTA
GGGAGATAGGATCTACCATCTTCGACCTGCTCCACTACTGCTTAAGGAGATAGGATCTACCATCT
TCGACTTGCTCCACTACTGCTTAAGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTT
AGGAAGATAAGATTCGCCGTCTTC
Found at i:38482111 original size:24 final size:24
Alignment explanation
Indices: 38482084--38482137 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
38482074 TCGGATTGCC
*
38482084 TCCACTACAATCTTCAAAGTTTAA-
1 TCCACTACAATCTTC-AAGGTTAAG
**
38482108 TCCACTGTAATCTTCAAGGTTAAG
1 TCCACTACAATCTTCAAGGTTAAG
38482132 TCCACT
1 TCCACT
38482138 TGTAATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.33
Consensus pattern (24 bp):
TCCACTACAATCTTCAAGGTTAAG
Found at i:38482769 original size:108 final size:110
Alignment explanation
Indices: 38482560--38482771 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
38482550 TCGTTATTTC
* * *
38482560 AATGAAAAATGCTTGAAAAAGATTATCAAAATGGACAAGATAGAATTTAATTGAGAATAAGGCTC
1 AATGAAAAATGATTGAAAAAGATTAGCAAAATGGACAAGATAGAATTTAATTGAGAATAAAGCTC
*
38482625 AAAATGAATAAATTAATCAAGATAGCAAATTTTGCTAAGGTTCAG
66 AAAATGAATAAATTAATCAAAATAGCAAATTTTGCTAAGGTTCAG
* * * *
38482670 AATGAAAAA-GATT-AAAAGGATTAGCACAATGGATAAGAT-GAAATTTTATTGAGAATAAAGCT
1 AATGAAAAATGATTGAAAAAGATTAGCAAAATGGACAAGATAG-AATTTAATTGAGAATAAAGCT
* *
38482732 CGAAATGAATAAATTAATCAAAATAGTAAATTTTGCTAAG
65 CAAAATGAATAAATTAATCAAAATAGCAAATTTTGCTAAG
38482772 ATACAAAATG
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 78 0.86
109 3 0.03
110 9 0.10
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (110 bp):
AATGAAAAATGATTGAAAAAGATTAGCAAAATGGACAAGATAGAATTTAATTGAGAATAAAGCTC
AAAATGAATAAATTAATCAAAATAGCAAATTTTGCTAAGGTTCAG
Found at i:38494717 original size:13 final size:13
Alignment explanation
Indices: 38494699--38494728 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
38494689 AAAAATCAAA
*
38494699 CTCTCCCCCTTTT
1 CTCTCCCCCTTCT
38494712 CTCTCCCCCTTCT
1 CTCTCCCCCTTCT
38494725 CTCT
1 CTCT
38494729 AGGCTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (13 bp):
CTCTCCCCCTTCT
Found at i:38499778 original size:16 final size:16
Alignment explanation
Indices: 38499759--38499800 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
38499749 GTTATTTTTA
38499759 TGTTTTGTTTTAAAGT
1 TGTTTTGTTTTAAAGT
38499775 TGTTTTGTTTTAAAGT
1 TGTTTTGTTTTAAAGT
*
38499791 TATTTTGTTT
1 TGTTTTGTTT
38499801 ATTGTGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (16 bp):
TGTTTTGTTTTAAAGT
Found at i:38502280 original size:33 final size:33
Alignment explanation
Indices: 38502216--38502484 Score: 201
Period size: 33 Copynumber: 7.8 Consensus size: 33
38502206 ATATAAAGGG
*
38502216 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
38502243 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
38502276 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* *
38502318 GGTTGCTAAGTGTTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
38502351 GGTTGCTAAGTGCTGATTTCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
38502384 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAAG-
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG----GT
* *
38502426 GGTTGCTAAGTGCTAATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
38502459 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
38502485 AACGGATAAC
Statistics
Matches: 194, Mismatches: 21, Indels: 47
0.74 0.08 0.18
Matches are distributed among these distances:
27 22 0.11
31 2 0.01
32 3 0.02
33 87 0.45
34 10 0.05
35 2 0.01
36 4 0.02
37 7 0.04
38 6 0.03
39 4 0.02
40 2 0.01
41 6 0.03
42 38 0.20
43 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:38502397 original size:108 final size:108
Alignment explanation
Indices: 38502243--38502483 Score: 410
Period size: 108 Copynumber: 2.2 Consensus size: 108
38502233 TCCCCCAAGG
* *
38502243 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAA
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAA
* * *
38502308 ATGTGAAAGGGGTTGCTAAGTGTTGATTCCCCGACTCATTGGT
66 ATGTGAAAAGGGTTGCTAAGTGCTAATTCCCCGACTCATTGGT
*
38502351 GGTTGCTAAGTGCTGATTTCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAA
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAA
38502416 ATGTGAAAAGGGTTGCTAAGTGCTAATTCCCCGACTCATTGGT
66 ATGTGAAAAGGGTTGCTAAGTGCTAATTCCCCGACTCATTGGT
*
38502459 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
38502484 TAACGGATAA
Statistics
Matches: 124, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
108 120 0.97
109 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (108 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAA
ATGTGAAAAGGGTTGCTAAGTGCTAATTCCCCGACTCATTGGT
Found at i:38506020 original size:48 final size:47
Alignment explanation
Indices: 38505960--38506060 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 47
38505950 CCAATGTACC
* * *
38505960 TAATTTATATTACAAAGTTTGTTTCAATTTTTAATGTTGTAATGTATT
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT-TG
* *
38506008 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAGTGTTTTAATGTTG
1 TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTTG
38506055 TAATTT
1 TAATTT
38506061 TGCAATTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 7 0.15
48 41 0.85
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (47 bp):
TAATTTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTTG
Found at i:38506628 original size:6 final size:6
Alignment explanation
Indices: 38506613--38506658 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
38506603 CTTCGGTTGT
* * *
38506613 GGCTCA GGCTCG GGCTCG GTCTTG GGCTCG GGCTCG GGCTCG GGCT
1 GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG GGCTCG GGCT
38506659 TTGCCTCTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.02, C:0.30, G:0.46, T:0.22
Consensus pattern (6 bp):
GGCTCG
Found at i:38507340 original size:14 final size:14
Alignment explanation
Indices: 38507321--38507351 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
38507311 TTACATGTTT
*
38507321 GAATAGTATCGTTA
1 GAATAGTATCATTA
38507335 GAATAGTATCATTA
1 GAATAGTATCATTA
38507349 GAA
1 GAA
38507352 AAAAAAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (14 bp):
GAATAGTATCATTA
Found at i:38508837 original size:33 final size:33
Alignment explanation
Indices: 38508798--38508861 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
38508788 AAACATAAAC
38508798 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
1 TCTTATTCTCAATTATAAAATCTTAAAAAATGT
38508831 TCTTATTCTCAATTATAAAATCTTAAAAAAT
1 TCTTATTCTCAATTATAAAATCTTAAAAAAT
38508862 TAGAACATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (33 bp):
TCTTATTCTCAATTATAAAATCTTAAAAAATGT
Found at i:38509340 original size:17 final size:19
Alignment explanation
Indices: 38509318--38509361 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
38509308 AACAACAAAC
*
38509318 TCTCCTTTCCT-TCTCT-T
1 TCTCCTTCCCTCTCTCTAT
38509335 TCTCCTTCCCTCTCTCTAT
1 TCTCCTTCCCTCTCTCTAT
38509354 TCTCCTTC
1 TCTCCTTC
38509362 TCTTTTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 10 0.42
18 5 0.21
19 9 0.38
ACGTcount: A:0.02, C:0.45, G:0.00, T:0.52
Consensus pattern (19 bp):
TCTCCTTCCCTCTCTCTAT
Found at i:38509426 original size:17 final size:17
Alignment explanation
Indices: 38509404--38509437 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
38509394 ACCCTCTCCT
38509404 TCTTCTTCTTC-TTCTTC
1 TCTTCTT-TTCTTTCTTC
38509421 TCTTCTTTTCTTTCTTC
1 TCTTCTTTTCTTTCTTC
38509438 AAAAATGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
TCTTCTTTTCTTTCTTC
Found at i:38510152 original size:10 final size:10
Alignment explanation
Indices: 38510137--38510161 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38510127 GTTGAATCAA
38510137 TTTTTTTATT
1 TTTTTTTATT
38510147 TTTTTTTATT
1 TTTTTTTATT
38510157 TTTTT
1 TTTTT
38510162 GAATTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:38510415 original size:30 final size:32
Alignment explanation
Indices: 38510380--38510438 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
38510370 GTATACTTTA
*
38510380 TCAAAA-TTTAAAAATATACATA-AAAATGAT
1 TCAAAACTTCAAAAATATACATACAAAATGAT
*
38510410 TCAAAACTTCAAAAATATTCATACAAAAT
1 TCAAAACTTCAAAAATATACATACAAAAT
38510439 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 14 0.56
32 5 0.20
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.29
Consensus pattern (32 bp):
TCAAAACTTCAAAAATATACATACAAAATGAT
Found at i:38520268 original size:19 final size:20
Alignment explanation
Indices: 38520229--38520268 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
38520219 TCTTTTCATA
* *
38520229 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
38520249 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
38520268 T
1 T
38520269 AAACACAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:38521464 original size:36 final size:36
Alignment explanation
Indices: 38521422--38521493 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
38521412 GTAACAAGAG
*
38521422 GTCAATCTCAAGGAAAATAGAAAATGAGGTGAACAA
1 GTCAATCTCAAGGAAAAGAGAAAATGAGGTGAACAA
38521458 GTCAATCTCAAGGAAAAGAGAAAATGAGGTGAACAA
1 GTCAATCTCAAGGAAAAGAGAAAATGAGGTGAACAA
38521494 CACGAGTTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.50, C:0.11, G:0.24, T:0.15
Consensus pattern (36 bp):
GTCAATCTCAAGGAAAAGAGAAAATGAGGTGAACAA
Found at i:38523572 original size:13 final size:13
Alignment explanation
Indices: 38523554--38523578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38523544 TAAATCAATT
38523554 TCTTTGTTATCCA
1 TCTTTGTTATCCA
38523567 TCTTTGTTATCC
1 TCTTTGTTATCC
38523579 TCGACAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTTTGTTATCCA
Found at i:38524615 original size:132 final size:132
Alignment explanation
Indices: 38524385--38525212 Score: 1372
Period size: 132 Copynumber: 6.3 Consensus size: 132
38524375 GTTGATGGTA
* * *
38524385 GATTTTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGGCAAC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
* *
38524450 AGTGGAATATATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGATGG
66 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
38524515 CG
131 CG
38524517 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
* * * *
38524582 AGTGTAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGA
66 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
38524647 CG
131 CG
* *
38524649 GATTTTACCTCCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGT
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
* * * *
38524714 AGTGGAATAGATTAAAGATTCCAGATCTTA--TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGA
66 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
38524777 CG
131 CG
* *
38524779 GATTTTACCTCCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGTAGC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
* * *
38524844 AATGGAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGG
66 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
38524909 CG
131 CG
* *
38524911 GATTTTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGT
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
* * *
38524976 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCTGACCAAGGATGG
66 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
38525041 CG
131 CG
* * *
38525043 GATTTTACCTCCCTGAGGTTACAGTGGAGCATATTGAAGCCAGTAATTCTATCTCCGTGGGCAGC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
* *
38525108 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAGGATGG
66 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
38525173 CG
131 CG
38525175 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
38525213 AAACTAATGT
Statistics
Matches: 654, Mismatches: 40, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
130 123 0.19
132 531 0.81
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
CG
Found at i:38525114 original size:394 final size:395
Alignment explanation
Indices: 38524385--38525212 Score: 1374
Period size: 394 Copynumber: 2.1 Consensus size: 395
38524375 GTTGATGGTA
*
38524385 GATTTTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGGCAAC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGGCAAC
* * *
38524450 AGTGGAATATATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGATGG
66 AATGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
38524515 CGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
131 CGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
* * *
38524580 GCAGTGTAATAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGAT
196 GCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCCAAGAT
* *
38524645 GACGGATTTTACCTCCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGG
261 GACGGATTTTACCTCCCTGAGGTTACAGTGGAGCACATTGAAGCCAGTAATTCTATCTCCCTGGG
* *
38524710 CAGTAGTGGAATAGATTAAAGATTCCAGATCTTA-TCCCTAAGCAGTAGTGGAGCAGATCGAA-G
326 CAGCAGTGGAATAGATTAAAGATTACAGATCTTACTCCCTAAGCAGTAGTGGAGCAGATC-AAGG
38524773 ATGACG
390 ATGACG
* * * *
38524779 GATTTTACCTCCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGTAGC
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGGCAAC
* *
38524844 AATGGAATAGATTGAAGATTACATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGG
66 AATGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
*
38524909 CGGATTTTATCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
131 CGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
* *
38524974 GTAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCTGA-CCAAGGA
196 GCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCCAA-GA
* * *
38525038 TGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGCATATTGAAGCCAGTAATTCTATCTCCGTGG
260 TGACGGATTTTACCTCCCTGAGGTTACAGTGGAGCACATTGAAGCCAGTAATTCTATCTCCCTGG
* *
38525103 GCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAG
325 GCAGCAGTGGAATAGATTAAAGATTACAGATCTTA-CTCCCTAAGCAGTAGTGGAGCAGATCAAG
*
38525168 GATGGCG
389 GATGACG
38525175 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
1 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
38525213 AAACTAATGT
Statistics
Matches: 403, Mismatches: 27, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
393 3 0.01
394 331 0.82
395 2 0.00
396 67 0.17
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (395 bp):
GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCCCCCTGGGCAAC
AATGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
CGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCA
GCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCCAAGAT
GACGGATTTTACCTCCCTGAGGTTACAGTGGAGCACATTGAAGCCAGTAATTCTATCTCCCTGGG
CAGCAGTGGAATAGATTAAAGATTACAGATCTTACTCCCTAAGCAGTAGTGGAGCAGATCAAGGA
TGACG
Found at i:38529211 original size:42 final size:42
Alignment explanation
Indices: 38529113--38529211 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
38529103 CTATATGAAC
* * *
38529113 GGCACTAAGTGTGCAAAACTAAAATGACGATGTTGAATAATG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGCTGAATAACG
* *
38529155 GGCACTAAGTGTGCGAAATTAAAATGATGATGCTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGCTGAATAACG
38529197 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
38529212 GTACCAAGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.23
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGACGATGCTGAATAACG
Found at i:38532650 original size:917 final size:907
Alignment explanation
Indices: 38530840--38532657 Score: 3510
Period size: 917 Copynumber: 2.0 Consensus size: 907
38530830 TCTATGGTTA
*
38530840 AATATATTTTGATTGAAATGTATATATATAATAAGCCATGCGAAAATGGCTTGTTTATTTTTGAC
1 AATATATTTTGAATGAAATGTATATATATAATAAGCCATGCGAAAATGGCTTGTTTATTTTTGAC
38530905 ATGAATGGTTTCATGCTTTGATTAAATATTATGGTTGATGATTTTGCTATGTTTCTTAAATGGTT
66 ATGAATGGTTTCATGCTTTGATTAAATATTATGGTTGATGATTTTGCTATGTTTCTTAAATGGTT
38530970 AAGACTAATATAAGTGATGTTATGCTTTGGAGGATTTTGAATTTTGATAATTATGAATATTGATT
131 AAGACTAATATAAGTGATGTTATGCTTTGGAGGATTTTGAATTTTGATAATTATGAATATTGATT
38531035 GTGATAGACAAGTAAAGTTGATTGATATGATACGGTATAAGTATAAGCTATGTTTGAAATCATGG
196 GTGATAGACAAGTAAAGTTGATTGATATGATACGGTATAAGTATAAGCTATGTTTGAAATCATGG
38531100 ATGGAAATATTTTAATTTTCGGTAATTGAGATTGAATTTGAATTATCATTTACTATGTGAAAGTT
261 ATGGAAATATTTTAATTTTCGGTAATTGAGATTGAATTTGAATTATCATTTACTATGTGAAAGTT
38531165 GTATATTTATTTACTATGAATATAGAGTAGTTGAAATTGATAAATTGCATAATGAGCATTGTTTA
326 GTATATTTATTTACTATGAATATAGAGTAGTTGAAATTGATAAATTGCATAATGAGCATTGTTTA
38531230 TGGAATTGGTCTTGTAAATGACCTTTGAAACATTGAGGGATAAATAATACATAGTAAATAAATAT
391 TGGAATTGGTCTTGTAAATGACCTTTGAAACATTGAGGGATAAATAATACATAGTAAATAAATAT
38531295 ATATATAGGATCGGTCTTGGTATGTTATGCATGGAATTGTTTGGGTATTGATGAATTTGACATTG
456 ATATATAGGATCGGTCTTGGTATGTTATGCATGGAATTGTTTGGGTATTGATGAATTTGACATTG
38531360 GTTAAAGCATAAGTATTTAAGCTTAATTGTATTCGAATAAAGCTTGGGAAATTGGCCATATGAAT
521 GTTAAAGCATAAGTATTTAAGCTTAATTGTATTCGAATAAAGCTTGGGAAATTGGCCATATGAAT
38531425 AGTTATTTTATTTATTTGATGAATAAATAGTTGTATGCAATTTGATAAGTGGTTTTGAGTGTATG
586 AGTTATTTTATTTATTTGATGAATAAATAGTTGTATGCAATTTGATAAGTGGTTTTGAGTGTATG
38531490 AATAATAATAAGTGAATATACTATGAAATGATACAAATGCTTATGGCATATTCAGCCCAATGTTG
651 AATAATAATAAGTGAATATACTATGAAATGATACAAATGCTTATGGCATATTCAGCCCAATGTTG
38531555 TTACTTATAAAGGTTGATATAGGCACATATGTTAAAATATAATGATTACATGTAAAATAGGTAAA
716 TTACTTATAAAGGTTGATATAGGCACATATGTTAAAATATAATGATTACATGTAAAATAGGTAAA
38531620 ATTTTAAATATGAGTTTTATATACACATTTGTGTCGTTGTTTGTAATTGATTTGTTAGTCGAGTA
781 ATTTTAAATATGAGTTTTATATACACATTTGTGTCGTTGTTTGTAATTGATTTGTTAGTCGAGTA
38531685 GGCGAAATGAGGTATGACCAAAAGTGGTGTTTGAAATATTCTGCATAAATTTTTTTTTTTTG
846 GGCGAAATGAGGTATGACCAAAAGTGGTGTTTGAAATATTCTGCATAAATTTTTTTTTTTTG
* * *
38531747 AATATATTTTGAATGAAGTGTGTATATATAATAAGCCATGCGAAAATGTCTTGTTTATTTTTGAC
1 AATATATTTTGAATGAAATGTATATATATAATAAGCCATGCGAAAATGGCTTGTTTATTTTTGAC
38531812 ATGAATGGTTTCATGCTTTGATTAAATATTATGGTTGATGATTTTGCTATGTTTCTTAAATGGTT
66 ATGAATGGTTTCATGCTTTGATTAAATATTATGGTTGATGATTTTGCTATGTTTCTTAAATGGTT
38531877 AAGACTAATATAAGTGATGTTATGCTTTGGAGGATTTTGAATTTTGATAATTATGAATATTGATT
131 AAGACTAATATAAGTGATGTTATGCTTTGGAGGATTTTGAATTTTGATAATTATGAATATTGATT
38531942 GTGATAGACAAGTAAAGTTGATTGATATGATACGGTATAAGTATAAGCTATGTTTGAAATCATGG
196 GTGATAGACAAGTAAAGTTGATTGATATGATACGGTATAAGTATAAGCTATGTTTGAAATCATGG
38532007 ATGGAAATATTTTAATTTTCGGTAATTGAGATTGAATTTGAATTATCATTTACTATGTGAAAGTT
261 ATGGAAATATTTTAATTTTCGGTAATTGAGATTGAATTTGAATTATCATTTACTATGTGAAAGTT
38532072 GTATATTTATTTACTATGAATATAGAGTAGTTGAAATTGATAAATTGCATAATGAGCATTGTTTA
326 GTATATTTATTTACTATGAATATAGAGTAGTTGAAATTGATAAATTGCATAATGAGCATTGTTTA
38532137 TGGAATTGGTCTTGTAAATGACCTTTGAAACATTGAGGGATAAATAATACATAGTAAATAAATAA
391 TGGAATTGGTCTTGTAAATGACCTTTGAAACATTGAGGGATAAATAATACATAG--------TAA
38532202 ATAAATATATATATATAGGATCGGTCTTGGTATGTTATGCATGGAATTGTTTGGGTATTGATGAA
448 AT-AA-ATATATATATAGGATCGGTCTTGGTATGTTATGCATGGAATTGTTTGGGTATTGATGAA
38532267 TTTGACATTGGTTAAAGCATAAGTATTTAAGCTTAATTGTATTCGAATAAAGCTTGGGAAATTGG
511 TTTGACATTGGTTAAAGCATAAGTATTTAAGCTTAATTGTATTCGAATAAAGCTTGGGAAATTGG
38532332 CCATATGAATAGTTATTTTATTTATTTGATGAATAAATAGTTGTATGCAATTTGATAAGTGGTTT
576 CCATATGAATAGTTATTTTATTTATTTGATGAATAAATAGTTGTATGCAATTTGATAAGTGGTTT
38532397 TGAGTGTATGAATAATAATAAGTGAATATACTATGAAATGATACAAATGCTTATGGCATATTCAG
641 TGAGTGTATGAATAATAATAAGTGAATATACTATGAAATGATACAAATGCTTATGGCATATTCAG
38532462 CCCAATGTTGTTACTTATAAAGGTTGATATAGGCACATATGTTAAAATATAATGATTACATGTAA
706 CCCAATGTTGTTACTTATAAAGGTTGATATAGGCACATATGTTAAAATATAATGATTACATGTAA
38532527 AATAGGTAAAATTTTAAATATGAGTTTTATATACACATTTGTGTCGTTGTTTGTAATTGATTTGT
771 AATAGGTAAAATTTTAAATATGAGTTTTATATACACATTTGTGTCGTTGTTTGTAATTGATTTGT
38532592 TAGTCGAGTAGGCGAAATGAGGTATGACCAAAAGTGGTGTTTGAAATATTCTGCATAAATTTTTT
836 TAGTCGAGTAGGCGAAATGAGGTATGACCAAAAGTGGTGTTTGAAATATTCTGCATAAATTTTTT
38532657 T
901 T
38532658 ATTATGAGTT
Statistics
Matches: 897, Mismatches: 4, Indels: 10
0.98 0.00 0.01
Matches are distributed among these distances:
907 440 0.49
915 5 0.01
916 2 0.00
917 450 0.50
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.40
Consensus pattern (907 bp):
AATATATTTTGAATGAAATGTATATATATAATAAGCCATGCGAAAATGGCTTGTTTATTTTTGAC
ATGAATGGTTTCATGCTTTGATTAAATATTATGGTTGATGATTTTGCTATGTTTCTTAAATGGTT
AAGACTAATATAAGTGATGTTATGCTTTGGAGGATTTTGAATTTTGATAATTATGAATATTGATT
GTGATAGACAAGTAAAGTTGATTGATATGATACGGTATAAGTATAAGCTATGTTTGAAATCATGG
ATGGAAATATTTTAATTTTCGGTAATTGAGATTGAATTTGAATTATCATTTACTATGTGAAAGTT
GTATATTTATTTACTATGAATATAGAGTAGTTGAAATTGATAAATTGCATAATGAGCATTGTTTA
TGGAATTGGTCTTGTAAATGACCTTTGAAACATTGAGGGATAAATAATACATAGTAAATAAATAT
ATATATAGGATCGGTCTTGGTATGTTATGCATGGAATTGTTTGGGTATTGATGAATTTGACATTG
GTTAAAGCATAAGTATTTAAGCTTAATTGTATTCGAATAAAGCTTGGGAAATTGGCCATATGAAT
AGTTATTTTATTTATTTGATGAATAAATAGTTGTATGCAATTTGATAAGTGGTTTTGAGTGTATG
AATAATAATAAGTGAATATACTATGAAATGATACAAATGCTTATGGCATATTCAGCCCAATGTTG
TTACTTATAAAGGTTGATATAGGCACATATGTTAAAATATAATGATTACATGTAAAATAGGTAAA
ATTTTAAATATGAGTTTTATATACACATTTGTGTCGTTGTTTGTAATTGATTTGTTAGTCGAGTA
GGCGAAATGAGGTATGACCAAAAGTGGTGTTTGAAATATTCTGCATAAATTTTTTTTTTTTG
Found at i:38533029 original size:43 final size:43
Alignment explanation
Indices: 38532972--38533067 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
38532962 GTGGCAGTTC
* * * *
38532972 ATCTACAAATATGTTGCGCATCTC-CAACCCAGTGGCAGTTTTT
1 ATCTGCAAATATGTTGCACAT-TCACAACCCAGTGACAGTTTAT
* *
38533015 ATCTGCAAATATGTTGTACATTCACAACCTAGTGACAGTTTAT
1 ATCTGCAAATATGTTGCACATTCACAACCCAGTGACAGTTTAT
*
38533058 ATCTGTAAAT
1 ATCTGCAAAT
38533068 TAGTGGTGGT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.04
43 43 0.96
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (43 bp):
ATCTGCAAATATGTTGCACATTCACAACCCAGTGACAGTTTAT
Found at i:38534274 original size:44 final size:44
Alignment explanation
Indices: 38534219--38534304 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
38534209 TATTTTAGAA
* *
38534219 AAAAATTTAAATTTT-AACTTTTTATATAAT-TTTTAGAATTTTTT
1 AAAAATATAAATTTTGAAATTTTTATA-AATATTTT-GAATTTTTT
38534263 AAAAATATAAATTTTGAAATTTTTATAAATATTTTGAATTTT
1 AAAAATATAAATTTTGAAATTTTTATAAATATTTTGAATTTT
38534305 AAAAATTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 24 0.63
45 14 0.37
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (44 bp):
AAAAATATAAATTTTGAAATTTTTATAAATATTTTGAATTTTTT
Found at i:38534275 original size:26 final size:27
Alignment explanation
Indices: 38534241--38534291 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
38534231 TTTAACTTTT
*
38534241 TATATAATTTTTAGAATTTTT-TAAAAA
1 TATATAATTTTGA-AATTTTTATAAAAA
38534268 TATA-AATTTTGAAATTTTTATAAA
1 TATATAATTTTGAAATTTTTATAAA
38534292 TATTTTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 11 0.50
27 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
TATATAATTTTGAAATTTTTATAAAAA
Found at i:38534292 original size:24 final size:25
Alignment explanation
Indices: 38534242--38534294 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
38534232 TTAACTTTTT
* *
38534242 ATATAATTTTTAGAATTTTTTAAAA
1 ATATAAATTTTAGAAATTTTTAAAA
*
38534267 ATATAAATTTT-GAAATTTTTATAA
1 ATATAAATTTTAGAAATTTTTAAAA
38534291 ATAT
1 ATAT
38534295 TTTGAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
ATATAAATTTTAGAAATTTTTAAAA
Found at i:38534304 original size:18 final size:20
Alignment explanation
Indices: 38534273--38534310 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
38534263 AAAAATATAA
*
38534273 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTTAAAAAT
38534293 ATTTTG-AA-TTTTAAAAAT
1 ATTTTGAAATTTTTAAAAAT
38534311 TATTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAAAT
Found at i:38534440 original size:9 final size:9
Alignment explanation
Indices: 38534426--38534455 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
38534416 ACACCAATCT
38534426 ATTATTCGA
1 ATTATTCGA
38534435 ATTATTCGA
1 ATTATTCGA
*
38534444 GTTATTCGA
1 ATTATTCGA
38534453 ATT
1 ATT
38534456 GTGAAATCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (9 bp):
ATTATTCGA
Found at i:38534523 original size:16 final size:16
Alignment explanation
Indices: 38534502--38534547 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 16
38534492 CAAATTACAA
38534502 AACTCAAAATTTAAAT
1 AACTCAAAATTTAAAT
* *
38534518 AACTC--AATTCAATT
1 AACTCAAAATTTAAAT
38534532 AACTCAAAATTTAAAT
1 AACTCAAAATTTAAAT
38534548 TTTTTTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 12 0.50
16 12 0.50
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (16 bp):
AACTCAAAATTTAAAT
Found at i:38538140 original size:27 final size:27
Alignment explanation
Indices: 38538104--38538158 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
38538094 ATTAGTAGAG
* *
38538104 ATATATAAATTCTAAAA-TTCTAAAAAT
1 ATATAAAAATTC-AAAATTTATAAAAAT
38538131 ATATAAAAATTCAAAATTTATAAAAAT
1 ATATAAAAATTCAAAATTTATAAAAAT
38538158 A
1 A
38538159 AAAATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (27 bp):
ATATAAAAATTCAAAATTTATAAAAAT
Found at i:38538146 original size:17 final size:16
Alignment explanation
Indices: 38538124--38538170 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
38538114 TCTAAAATTC
38538124 TAAAAATATATAAAAA
1 TAAAAATATATAAAAA
* *
38538140 TTCAAAATTTATAAAAA
1 -TAAAAATATATAAAAA
*
38538157 TAAAAATATTTAAA
1 TAAAAATATATAAA
38538171 TATATTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAAATATATAAAAA
Found at i:38538265 original size:30 final size:27
Alignment explanation
Indices: 38538188--38538271 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
38538178 AAAAGTTAAG
*
38538188 AAAATGTATAGAAAAATTAAAAATATA
1 AAAAAGTATAGAAAAATTAAAAATATA
* *
38538215 AAAGA-T-TAGAAACA-TAAAAATATCCAA
1 AAAAAGTATAGAAAAATTAAAAATAT---A
38538242 AAAAAGTATAGAAAAATTAAAAATATA
1 AAAAAGTATAGAAAAATTAAAAATATA
38538269 AAA
1 AAA
38538272 GATTAGTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
24 9 0.20
25 7 0.15
26 1 0.02
27 12 0.26
28 1 0.02
29 7 0.15
30 9 0.20
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.21
Consensus pattern (27 bp):
AAAAAGTATAGAAAAATTAAAAATATA
Found at i:38538291 original size:20 final size:19
Alignment explanation
Indices: 38538267--38538330 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 19
38538257 ATTAAAAATA
*
38538267 TAAAAGATTAGTTAAATTC
1 TAAAAAATTAGTTAAATTC
* *
38538286 TAAAAAATT--TAAAATTA
1 TAAAAAATTAGTTAAATTC
*
38538303 TAAAAAAATAGTTAAACTTC
1 TAAAAAATTAGTTAAA-TTC
38538323 TAGAAAAA
1 TA-AAAAA
38538331 GCATTTAGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 14 0.40
19 12 0.34
20 4 0.11
21 5 0.14
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (19 bp):
TAAAAAATTAGTTAAATTC
Found at i:38538305 original size:36 final size:37
Alignment explanation
Indices: 38538250--38538330 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 37
38538240 AAAAAAAGTA
* *
38538250 TAGAAAAATTAAAAATATAAAAGATTAGTTAAA-TTC
1 TAGAAAAATTAAAAATATAAAAAAATAGTTAAACTTC
*
38538286 TA-AAAAATTTAAAATTATAAAAAAATAGTTAAACTTC
1 TAGAAAAA-TTAAAAATATAAAAAAATAGTTAAACTTC
38538323 TAGAAAAA
1 TAGAAAAA
38538331 GCATTTAGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
35 5 0.13
36 24 0.62
37 5 0.13
38 5 0.13
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (37 bp):
TAGAAAAATTAAAAATATAAAAAAATAGTTAAACTTC
Found at i:38538306 original size:17 final size:17
Alignment explanation
Indices: 38538243--38538309 Score: 55
Period size: 17 Copynumber: 3.8 Consensus size: 17
38538233 AATATCCAAA
*
38538243 AAAAGTATAGAAAAA-TT
1 AAAATTATA-AAAAATTT
* *
38538260 AAAAATATAAAAGATTAGT
1 AAAATTATAAAAAATT--T
* *
38538279 TAAATTCTAAAAAATTT
1 AAAATTATAAAAAATTT
38538296 AAAATTATAAAAAA
1 AAAATTATAAAAAA
38538310 ATAGTTAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
16 4 0.10
17 22 0.56
19 13 0.33
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAATTATAAAAAATTT
Found at i:38538606 original size:11 final size:11
Alignment explanation
Indices: 38538567--38538617 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
38538557 AGCCCATTTT
38538567 TATTTTAAAAA
1 TATTTTAAAAA
38538578 T-TTTT-AAAA
1 TATTTTAAAAA
*
38538587 -A-TTAAAAAA
1 TATTTTAAAAA
38538596 GTATTTTAAAAA
1 -TATTTTAAAAA
38538608 TATTTTAAAA
1 TATTTTAAAA
38538618 TTAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
8 2 0.06
9 8 0.24
10 4 0.12
11 12 0.36
12 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:38538627 original size:40 final size:39
Alignment explanation
Indices: 38538567--38538737 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 39
38538557 AGCCCATTTT
**
38538567 TATTTTAAAAATTTTTAAAAATTAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTTAAAAAAATTAAAAAAGTA-TTTAAAAA
*
38538608 TATTTTAAAATTAAAAAAAATTAAAAAA--A--T-----
1 TATTTTAAAATTTAAAAAAATTAAAAAAGTATTTAAAAA
38538638 TATTTTAAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAAATT-AAAAAAGTA-TTTAAAAA
* *
38538678 TATTTAAAAATTTAAAAAAATTAAAAAAGTATGTAAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAAGTATTTAAAAA
38538717 TATTTTAAAATTTAAAAAAAT
1 TATTTTAAAATTTAAAAAAAT
38538738 AAATATATTT
Statistics
Matches: 111, Mismatches: 7, Indels: 26
0.77 0.05 0.18
Matches are distributed among these distances:
29 10 0.09
30 16 0.14
32 1 0.01
35 2 0.02
38 1 0.01
39 27 0.24
40 37 0.33
41 17 0.15
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (39 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAGTATTTAAAAA
Found at i:38538635 original size:29 final size:30
Alignment explanation
Indices: 38538618--38538676 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
38538608 TATTTTAAAA
*
38538618 TTAAAAAAAATTAAAAAAATTATTTTAAAA
1 TTAAAAAAAATTAAAAAAAGTATTTTAAAA
38538648 TT-AAAAAAATTAAAAAAAGTATTTTAAAA
1 TTAAAAAAAATTAAAAAAAGTATTTTAAAA
38538677 ATATTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (30 bp):
TTAAAAAAAATTAAAAAAAGTATTTTAAAA
Found at i:38538656 original size:30 final size:30
Alignment explanation
Indices: 38538573--38538700 Score: 136
Period size: 30 Copynumber: 4.3 Consensus size: 30
38538563 TTTTTATTTT
* * **
38538573 AAAAATT-TTTAAAAATTAAAAAAGTATTTT
1 AAAAATTATTTTAAAATTAAAAAA-AATTAA
38538603 AAAAA-TATTTTAAAATTAAAAAAAATTAA
1 AAAAATTATTTTAAAATTAAAAAAAATTAA
38538632 AAAAATTATTTTAAAATT-AAAAAAATTAA
1 AAAAATTATTTTAAAATTAAAAAAAATTAA
* ** *
38538661 AAAAAGTATTTTAAAAATATTTAAAAATTTAA
1 AAAAATTATTTT-AAAAT-TAAAAAAAATTAA
38538693 AAAAATTA
1 AAAAATTA
38538701 AAAAAGTATG
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
29 31 0.36
30 37 0.44
31 1 0.01
32 16 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAAATTATTTTAAAATTAAAAAAAATTAA
Found at i:38538662 original size:8 final size:9
Alignment explanation
Indices: 38538614--38538737 Score: 68
Period size: 9 Copynumber: 12.6 Consensus size: 9
38538604 AAAATATTTT
38538614 AAAATTAAAA
1 AAAATT-AAA
38538624 AAAATTAAA
1 AAAATTAAA
**
38538633 AAAATTATTTT
1 AAAATTA--AA
38538644 AAAATTAAA
1 AAAATTAAA
38538653 AAAATTAAAA
1 AAAATT-AAA
38538663 AAAGTATTTTAAA
1 AAA--A--TTAAA
* *
38538676 AATATTTAA
1 AAAATTAAA
*
38538685 AAATTTAAA
1 AAAATTAAA
38538694 AAAATTAAA
1 AAAATTAAA
38538703 AAAGTATGTAAA
1 AAA--AT-TAAA
* **
38538715 AATATTTTA
1 AAAATTAAA
*
38538724 AAATTTAAA
1 AAAATTAAA
38538733 AAAAT
1 AAAAT
38538738 AAATATATTT
Statistics
Matches: 86, Mismatches: 18, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
9 48 0.56
10 14 0.16
11 10 0.12
12 7 0.08
13 5 0.06
14 2 0.02
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAATTAAA
Found at i:38538726 original size:10 final size:10
Alignment explanation
Indices: 38538570--38538727 Score: 64
Period size: 10 Copynumber: 15.9 Consensus size: 10
38538560 CCATTTTTAT
38538570 TTTAAAAAT-
1 TTTAAAAATA
*
38538579 TTTTAAAA-A
1 TTTAAAAATA
*
38538588 TTAAAAAAGTA
1 TTTAAAAA-TA
38538599 TTTTAAAAATA
1 -TTTAAAAATA
*
38538610 TTT-TAAA-A
1 TTTAAAAATA
* *
38538618 TTAAAAAAAA
1 TTTAAAAATA
*
38538628 TTAAAAAAATTA
1 TT-TAAAAA-TA
*
38538640 TTT-TAAA-A
1 TTTAAAAATA
*
38538648 -TTAAAAAAA
1 TTTAAAAATA
*
38538657 TTAAAAAAAGTA
1 TT-TAAAAA-TA
38538669 TTTTAAAAATA
1 -TTTAAAAATA
38538680 TTT-AAAA-A
1 TTTAAAAATA
*
38538688 TTTAAAAAAA
1 TTTAAAAATA
*
38538698 TTAAAAAAGTA
1 TTTAAAAA-TA
*
38538709 TGTAAAAATA
1 TTTAAAAATA
*
38538719 TTTTAAAAT
1 TTTAAAAAT
38538728 TTAAAAAAAT
Statistics
Matches: 112, Mismatches: 20, Indels: 33
0.68 0.12 0.20
Matches are distributed among these distances:
7 2 0.02
8 11 0.10
9 28 0.25
10 30 0.27
11 23 0.21
12 16 0.14
13 2 0.02
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:38538727 original size:70 final size:70
Alignment explanation
Indices: 38538572--38538736 Score: 217
Period size: 70 Copynumber: 2.3 Consensus size: 70
38538562 ATTTTTATTT
*
38538572 TAAAAATTTTTAAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAA
1 TAAAAATTTTT-AAAATTAAAAAAAGTATTTTAAAAATATTTAAAAATTAAAAAAAATTAAAAAA
* *
38538636 ATTATT
65 AGTATG
* *** *
38538642 TTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTAAAAATTTAAAAAAATT-AAAAAA
1 TAAAAATTTTTAAAATTAAAAAAAGTATTTTAAAAATATTTAAAAATTAAAAAAAATTAAAAAAA
38538706 GTATG
66 GTATG
38538711 TAAAAATATTTTAAAATTTAAAAAAA
1 TAAAAAT-TTTTAAAA-TTAAAAAAA
38538737 TAAATATATT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
69 21 0.26
70 50 0.62
71 9 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (70 bp):
TAAAAATTTTTAAAATTAAAAAAAGTATTTTAAAAATATTTAAAAATTAAAAAAAATTAAAAAAA
GTATG
Found at i:38542974 original size:25 final size:25
Alignment explanation
Indices: 38542944--38542994 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
38542934 TTTTTGCTTA
*
38542944 TTTAAATTTCTTGTATAT-TATTTAT
1 TTTAAATTT-TTGTACATATATTTAT
38542969 TTTAAATTTTTGTACATATATTTAT
1 TTTAAATTTTTGTACATATATTTAT
38542994 T
1 T
38542995 GATTTACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTAAATTTTTGTACATATATTTAT
Found at i:38543000 original size:28 final size:26
Alignment explanation
Indices: 38542942--38543007 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
38542932 AATTTTTGCT
*
38542942 TATTTAAATTTCTTGTATATTATTTA
1 TATTTAAATTTCTTGTACATTATTTA
38542968 T-TTTAAATTT-TTGTACATATATTTA
1 TATTTAAATTTCTTGTACAT-TATTTA
38542993 TTGATTTACAATTTC
1 -T-ATTTA-AATTTC
38543008 CATTTCTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
24 7 0.21
25 15 0.45
26 2 0.06
28 4 0.12
29 5 0.15
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (26 bp):
TATTTAAATTTCTTGTACATTATTTA
Found at i:38549164 original size:26 final size:26
Alignment explanation
Indices: 38549131--38549190 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
38549121 TATCCGGAGC
* *
38549131 TCCTGATTAAAGGCTCTTCGTGAGCT
1 TCCTGATTAAAAGCTCTTCGTGAACT
* * *
38549157 TCTTGATTAAAAGTTCTTTGTGAACT
1 TCCTGATTAAAAGCTCTTCGTGAACT
38549183 TCCTGATT
1 TCCTGATT
38549191 TTGGCTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (26 bp):
TCCTGATTAAAAGCTCTTCGTGAACT
Found at i:38560279 original size:20 final size:20
Alignment explanation
Indices: 38560242--38560281 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
38560232 CATATAATCA
**
38560242 TTAAAATTAAATGGTTATTT
1 TTAAAATTAAATAATTATTT
*
38560262 TTAAAATTAATTAATTATTT
1 TTAAAATTAAATAATTATTT
38560282 AAATTGAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
TTAAAATTAAATAATTATTT
Found at i:38563034 original size:41 final size:41
Alignment explanation
Indices: 38562941--38563139 Score: 193
Period size: 41 Copynumber: 4.9 Consensus size: 41
38562931 TTTCTACCTT
* * * * *
38562941 TCGGGGCTTTAGCGGTGTTTTTAAAAAAGCGCCACTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
* *** * * * *
38562982 TCAGATTTTTAGTGGCGTTTTTGATA-AAGCACAGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCA-AGAAGCGCCGCTAATGC
* *
38563023 TCGGGGCTTTAGCGGCATTTTTCAAGAAGCGCCTCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
* * * * *
38563064 TAGGGGCTTTAACGGCGTTTATCAATAAGCGCCGCTAATGT
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
*
38563105 TCGAGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGC
38563140 AAAAACATTT
Statistics
Matches: 123, Mismatches: 33, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
40 1 0.01
41 121 0.98
42 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGC
Found at i:38571166 original size:14 final size:15
Alignment explanation
Indices: 38571133--38571166 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
38571123 TAAGGTTTAT
38571133 AGATTATGGAATTAG
1 AGATTATGGAATTAG
*
38571148 GGATTATGG-ATTAG
1 AGATTATGGAATTAG
38571162 AGATT
1 AGATT
38571167 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:38571366 original size:96 final size:96
Alignment explanation
Indices: 38571256--38571436 Score: 281
Period size: 96 Copynumber: 1.9 Consensus size: 96
38571246 TGGATTTGGT
* * *
38571256 GTCAAGTTGGGGTTTAAGGTTTAGATTAGTTAGTGTATTTTAATTTATATATTAAATAATGTTTA
1 GTCAAGTTAGGGTTTAAGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTA
*
38571321 GGGGTTAGAGGTTAGGGGTTAGGGATTCGAG
66 GGGGTTAGAGGTTAAGGGTTAGGGATTCGAG
* ** *
38571352 GTCAGGTTAGGGTTTGGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTA
1 GTCAAGTTAGGGTTTAAGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTA
*
38571417 GGGGTTAGGGGTTAAGGGTT
66 GGGGTTAGAGGTTAAGGGTT
38571437 TGGGGTTAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 76 1.00
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.42
Consensus pattern (96 bp):
GTCAAGTTAGGGTTTAAGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTA
GGGGTTAGAGGTTAAGGGTTAGGGATTCGAG
Found at i:38571432 original size:21 final size:21
Alignment explanation
Indices: 38571411--38571451 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
38571401 TATTAAATAA
*
38571411 GGTTTAGGGGTTAGGGGTTAAG
1 GGTTT-GGGGTTAGGAGTTAAG
38571433 GGTTTGGGGTTAGGAGTTA
1 GGTTTGGGGTTAGGAGTTA
38571452 GTAATTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.00, G:0.49, T:0.34
Consensus pattern (21 bp):
GGTTTGGGGTTAGGAGTTAAG
Found at i:38571434 original size:8 final size:7
Alignment explanation
Indices: 38571414--38571452 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
38571404 TAAATAAGGT
38571414 TTAGGGG
1 TTAGGGG
38571421 TTAGGGG
1 TTAGGGG
*
38571428 TTAAGGG
1 TTAGGGG
*
38571435 TTTGGGG
1 TTAGGGG
*
38571442 TTAGGAG
1 TTAGGGG
38571449 TTAG
1 TTAG
38571453 TAATTTAGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:38572566 original size:123 final size:124
Alignment explanation
Indices: 38572398--38572634 Score: 377
Period size: 123 Copynumber: 1.9 Consensus size: 124
38572388 AAAAAACGCC
* * * *
38572398 ACAAAAAATAATTTTACTTTAAAAAAAATAGTGTCATTTTATATAGCAAAACAGTGTCGTTTTAT
1 ACAAAAAATAATTTTACTTTAAAAAAAATAGCGCCATTTTATATAGCAAAACAATATCGTTTTAT
** * *
38572463 TCCAAATGAAATAATTTTTTGTGGCGTTTTTATGGAAAACGCCGCAAAAGGTAAGCAAT
66 TCCAAATGAAATAATTTTTTGTCACATTTTTATGAAAAACGCCGCAAAAGGTAAGCAAT
*
38572522 ACAAAAAATAATTTTACTTT-TAAAAAATAGCGCCATTTTATATAGCAAAACAATATCGTTTTAT
1 ACAAAAAATAATTTTACTTTAAAAAAAATAGCGCCATTTTATATAGCAAAACAATATCGTTTTAT
*
38572586 TCCAAATGAAATAATTTTTTGTCACATTTTTATGAAAAATGCCGCAAAA
66 TCCAAATGAAATAATTTTTTGTCACATTTTTATGAAAAACGCCGCAAAA
38572635 AATAATTTTA
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
123 83 0.81
124 20 0.19
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (124 bp):
ACAAAAAATAATTTTACTTTAAAAAAAATAGCGCCATTTTATATAGCAAAACAATATCGTTTTAT
TCCAAATGAAATAATTTTTTGTCACATTTTTATGAAAAACGCCGCAAAAGGTAAGCAAT
Found at i:38572713 original size:22 final size:22
Alignment explanation
Indices: 38572680--38572745 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
38572670 TAAAATCCCC
38572680 TCCCCCC-GAAATCCCCAACTT
1 TCCCCCCTGAAATCCCCAACTT
* * *
38572701 TCCCCCCTAAAATCTCTAA-TT
1 TCCCCCCTGAAATCCCCAACTT
*
38572722 TCCCCCCTTGAAACCCCCAACTT
1 TCCCCCC-TGAAATCCCCAACTT
38572745 T
1 T
38572746 ACAAACATAC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 16 0.46
22 16 0.46
23 3 0.09
ACGTcount: A:0.24, C:0.47, G:0.03, T:0.26
Consensus pattern (22 bp):
TCCCCCCTGAAATCCCCAACTT
Found at i:38576580 original size:90 final size:90
Alignment explanation
Indices: 38576427--38576606 Score: 342
Period size: 90 Copynumber: 2.0 Consensus size: 90
38576417 ATATTTAATT
38576427 TGCTCTTTTGTAGTTTTTGATACTTCCTCTTACCTTATACATGAGTTGACTATGTATCAAACCCA
1 TGCTCTTTTGTAGTTTTTGATACTTCCTCTTACCTTATACATGAGTTGACTATGTATCAAACCCA
38576492 ACATTCCTCCCATAAATTTGTCCAC
66 ACATTCCTCCCATAAATTTGTCCAC
*
38576517 TGCTCTTTTGTAGTTTTTGATACTTCCTCTTACCTTATACATGGGTTGACTATGTATCAAACCCA
1 TGCTCTTTTGTAGTTTTTGATACTTCCTCTTACCTTATACATGAGTTGACTATGTATCAAACCCA
*
38576582 ATATTCCTCCCATAAATTTGTCCAC
66 ACATTCCTCCCATAAATTTGTCCAC
38576607 CATACATAAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.41
Consensus pattern (90 bp):
TGCTCTTTTGTAGTTTTTGATACTTCCTCTTACCTTATACATGAGTTGACTATGTATCAAACCCA
ACATTCCTCCCATAAATTTGTCCAC
Found at i:38576765 original size:43 final size:43
Alignment explanation
Indices: 38576704--38576809 Score: 185
Period size: 43 Copynumber: 2.5 Consensus size: 43
38576694 AGTGATTCGG
* *
38576704 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGT
*
38576747 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGT
38576790 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
38576810 ACCAATGAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGT
Found at i:38576832 original size:33 final size:33
Alignment explanation
Indices: 38576790--38576945 Score: 126
Period size: 33 Copynumber: 4.6 Consensus size: 33
38576780 AAGATACGGT
38576790 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
*
38576823 GGAATCAGCACTTAGCAACC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
38576850 GGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACAGT
1 GGAATCAGCACTTAGCAACCACC---A-A--T-GA-AT-C-GG
* *
38576893 CGAATCAGCACTTAGCAACCACCAATGAGTCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
38576926 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
38576946 CCTTCATATT
Statistics
Matches: 98, Mismatches: 9, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
27 23 0.23
28 2 0.02
30 1 0.01
32 2 0.02
33 40 0.41
34 1 0.01
35 1 0.01
36 2 0.02
37 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
43 22 0.22
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:38576926 original size:103 final size:103
Alignment explanation
Indices: 38576747--38576949 Score: 361
Period size: 103 Copynumber: 2.0 Consensus size: 103
38576737 AAGATATGGT
* *
38576747 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACAGTCGAATCAGCACTTAGCAACCAC
38576812 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
66 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
* *
38576850 GGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACAGTCGAATCAGCACTTAGCAACCAC
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACAGTCGAATCAGCACTTAGCAACCAC
*
38576915 CAATGAGTCGGGGAATCAGCACTTAGCAACCCCTT
66 CAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
38576950 CATATTCAAT
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 95 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (103 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACAGTCGAATCAGCACTTAGCAACCAC
CAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
Found at i:38578244 original size:42 final size:43
Alignment explanation
Indices: 38578198--38578295 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 43
38578188 GCTTGTCAAA
** *
38578198 AAGCGCCGCTAAAAGCCATCTT-TATAGTGGCGTTTGTGGTAT
1 AAGCGCCGCTAAAAGCCATCTTCTATAGCAGCGTTTGTGGTAG
* * * * * *
38578240 AAGCGTCGTTAAAGGTCATGTTCTTTAGCAGCGTTTGTGGTAG
1 AAGCGCCGCTAAAAGCCATCTTCTATAGCAGCGTTTGTGGTAG
*
38578283 AAGCACCGCTAAA
1 AAGCGCCGCTAAA
38578296 GGTCATGATC
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
42 17 0.40
43 26 0.60
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
AAGCGCCGCTAAAAGCCATCTTCTATAGCAGCGTTTGTGGTAG
Found at i:38578275 original size:43 final size:42
Alignment explanation
Indices: 38578227--38578361 Score: 146
Period size: 43 Copynumber: 3.1 Consensus size: 42
38578217 CTTTATAGTG
* *
38578227 GCGTTTGTGGTATAAGCGTCGTTAAAGGTCATGTTCTTTAGCA
1 GCGTTTGTGGTAAAAGCGCCGTTAAAGGTCATG-TCTTTAGCA
* * * *
38578270 GCGTTTGTGGTAGAAGCACCGCTAAAGGTCATGATCTTTAGCG
1 GCGTTTGTGGTAAAAGCGCCGTTAAAGGTCATG-TCTTTAGCA
* * *
38578313 GCATTTGTGAG-AAAAGCGCCGTTAAAGATCATGACTTTTAGCA
1 GCGTTTGTG-GTAAAAGCGCCGTTAAAGGTCATGTC-TTTAGCA
38578356 GCGTTT
1 GCGTTT
38578362 ATTTTTAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.01
43 74 0.97
44 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
GCGTTTGTGGTAAAAGCGCCGTTAAAGGTCATGTCTTTAGCA
Found at i:38580318 original size:196 final size:196
Alignment explanation
Indices: 38579984--38580379 Score: 765
Period size: 196 Copynumber: 2.0 Consensus size: 196
38579974 AATTACATGA
38579984 TAGATGGAAAAGTAACATGACTACGAGTCATTTCTCTAGGAAAAATGATTTAATTACTATTTGCT
1 TAGATGGAAAAGTAACATGACTACGAGTCATTTCTCTAGGAAAAATGATTTAATTACTATTTGCT
*
38580049 AGTAATTGACTTTTCATGAAGAAAGATGTAATGGTTACTATAAGATAAAATATGATCATATTGGG
66 AGTAATTGACTTTTCATGAAGAAAGATGTAATGGTTACTATAAGATAAAATATAATCATATTGGG
38580114 TGAACAAATATAACCCAAAGAGATTAAGGATATCCTATAAGGGTAACACAGTAATGACAAGATCA
131 TGAACAAATATAACCCAAAGAGATTAAGGATATCCTATAAGGGTAACACAGTAATGACAAGATCA
38580179 T
196 T
*
38580180 TAGATGGAAAAGTAACATGACTACGGGTCATTTCTCTAGGAAAAATGATTTAATTACTATTTGCT
1 TAGATGGAAAAGTAACATGACTACGAGTCATTTCTCTAGGAAAAATGATTTAATTACTATTTGCT
38580245 AGTAATTGACTTTTCATGAAGAAAGATGTAATGGTTACTATAAGATAAAATATAATCATATTGGG
66 AGTAATTGACTTTTCATGAAGAAAGATGTAATGGTTACTATAAGATAAAATATAATCATATTGGG
*
38580310 TGAACAAATATAACCCAAAGAGATTGAGGATATCCTATAAGGGTAACACAGTAATGACAAGATCA
131 TGAACAAATATAACCCAAAGAGATTAAGGATATCCTATAAGGGTAACACAGTAATGACAAGATCA
38580375 T
196 T
38580376 TAGA
1 TAGA
38580380 CAAGCCTTTA
Statistics
Matches: 197, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
196 197 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (196 bp):
TAGATGGAAAAGTAACATGACTACGAGTCATTTCTCTAGGAAAAATGATTTAATTACTATTTGCT
AGTAATTGACTTTTCATGAAGAAAGATGTAATGGTTACTATAAGATAAAATATAATCATATTGGG
TGAACAAATATAACCCAAAGAGATTAAGGATATCCTATAAGGGTAACACAGTAATGACAAGATCA
T
Found at i:38582429 original size:45 final size:45
Alignment explanation
Indices: 38582365--38582597 Score: 412
Period size: 45 Copynumber: 5.2 Consensus size: 45
38582355 CATGAAATTA
*
38582365 AGGAAGCATTTGACCAACATCATGCATAATTCATGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
38582410 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
38582455 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
38582500 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * *
38582545 AGGAAGCATTTGGCCAACATCATGCATAATTTATGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
38582590 AGGAAGCA
1 AGGAAGCA
38582598 CCATGGCCGA
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 181 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:38583402 original size:18 final size:17
Alignment explanation
Indices: 38583379--38583422 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
38583369 ATTCGGTATT
38583379 AAAAAAAAGAGAAATTCA
1 AAAAAAAAGAGAAATT-A
***
38583397 AAAAAAATTCGAAATTA
1 AAAAAAAAGAGAAATTA
38583414 AAAAAAAAG
1 AAAAAAAAG
38583423 TGATTGAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.14
Consensus pattern (17 bp):
AAAAAAAAGAGAAATTA
Found at i:38588772 original size:45 final size:45
Alignment explanation
Indices: 38588722--38588851 Score: 215
Period size: 45 Copynumber: 2.9 Consensus size: 45
38588712 GAAGAGGTGG
38588722 CCAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGA
1 CCAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGA
* *
38588767 CCAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGG
1 CCAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGA
* * *
38588812 CCAACATCATGCATAATTTATGGAACAAATTGAGGAAGCA
1 CCAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
38588852 CCATGGCCGA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 79 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
CCAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGA
Found at i:38591599 original size:24 final size:24
Alignment explanation
Indices: 38591565--38591614 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
38591555 TTTCTAGAAG
* *
38591565 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
38591589 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
38591613 AT
1 AT
38591615 GTGACTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:38598886 original size:24 final size:24
Alignment explanation
Indices: 38598823--38598874 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
38598813 TTTCTAGAAG
* * *
38598823 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
38598847 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
38598871 ATTT
1 ATTT
38598875 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:38612444 original size:5 final size:5
Alignment explanation
Indices: 38612434--38612459 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
38612424 GGATACTTAA
38612434 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
38612460 GTCGAAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:38613202 original size:10 final size:11
Alignment explanation
Indices: 38613187--38613216 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
38613177 AAGTTGAGAT
38613187 AAGAAAAAAA-
1 AAGAAAAAAAG
38613197 AAGAAAAAAAG
1 AAGAAAAAAAG
38613208 AAGAAAAAA
1 AAGAAAAAA
38613217 GGTAATGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAG
Found at i:38626408 original size:9 final size:9
Alignment explanation
Indices: 38626394--38626431 Score: 53
Period size: 8 Copynumber: 4.4 Consensus size: 9
38626384 ACTAAGATTT
*
38626394 TAAACTAAG
1 TAAACTAAA
38626403 TAAACTAAA
1 TAAACTAAA
38626412 TAAA-TAAA
1 TAAACTAAA
38626420 TAAA-TAAA
1 TAAACTAAA
38626428 TAAA
1 TAAA
38626432 TCTCAACTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 16 0.57
9 12 0.43
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (9 bp):
TAAACTAAA
Found at i:38626417 original size:4 final size:4
Alignment explanation
Indices: 38626403--38626432 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
38626393 TTAAACTAAG
38626403 TAAA CTAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA -TAAA TAAA TAAA TAAA TAAA TAAA T
38626433 CTCAACTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:38643965 original size:18 final size:18
Alignment explanation
Indices: 38643937--38643979 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
38643927 GATTCGTATT
38643937 CAAAA-GTTATTC-TCTTG
1 CAAAACGTTATTCAT-TTG
*
38643954 CAAAACGTTATTCATTTT
1 CAAAACGTTATTCATTTG
38643972 CAAAACGT
1 CAAAACGT
38643980 CAATTATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 17 0.74
19 1 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (18 bp):
CAAAACGTTATTCATTTG
Found at i:38646591 original size:21 final size:22
Alignment explanation
Indices: 38646549--38646592 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
38646539 CCTCGTTTAT
*
38646549 TTGTGTTATAATTGTTGCAAAA
1 TTGTGTTATAATTGTTACAAAA
38646571 TTGTGTT-TAATT-TTACTAAAA
1 TTGTGTTATAATTGTTAC-AAAA
38646592 T
1 T
38646593 CTATTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 10 0.50
22 7 0.35
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (22 bp):
TTGTGTTATAATTGTTACAAAA
Found at i:38652331 original size:29 final size:28
Alignment explanation
Indices: 38652271--38652326 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
38652261 TTAGATTTTT
38652271 TGGCCCATTTCGATAAATAATTTGTTAAA
1 TGGCCCATTTCGATAAATAA-TTGTTAAA
*
38652300 TGGCCCATTTCTATAAATAA-TGTTAAA
1 TGGCCCATTTCGATAAATAATTGTTAAA
38652327 AATGGGTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 7 0.27
29 19 0.73
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (28 bp):
TGGCCCATTTCGATAAATAATTGTTAAA
Found at i:38655518 original size:22 final size:21
Alignment explanation
Indices: 38655473--38655520 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
38655463 CATGTCTTTA
38655473 TTTTATTAAAAAATATATAAT
1 TTTTATTAAAAAATATATAAT
*
38655494 TTTTATT-AAATATATATAGACT
1 TTTTATTAAAAAATATATA-A-T
38655516 TTTTA
1 TTTTA
38655521 AAGTATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 10 0.42
21 8 0.33
22 6 0.25
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTTATTAAAAAATATATAAT
Found at i:38666870 original size:38 final size:39
Alignment explanation
Indices: 38666809--38666886 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 39
38666799 GTTATGAAAG
*
38666809 TTTGAGTATTTAATTATGCCATAATTTGAACATCATTAA
1 TTTGAGTATTTAACTATGCCATAATTTGAACATCATTAA
* *
38666848 TTTGAGT-TTTAACTATGTCATAATTTGAACATCTTTAA
1 TTTGAGTATTTAACTATGCCATAATTTGAACATCATTAA
38666886 T
1 T
38666887 ATGTGATAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 29 0.81
39 7 0.19
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (39 bp):
TTTGAGTATTTAACTATGCCATAATTTGAACATCATTAA
Found at i:38671720 original size:20 final size:20
Alignment explanation
Indices: 38671686--38671723 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38671676 CTAAATCGAG
**
38671686 GATAATTAATTATTTAATTA
1 GATAATTAAGGATTTAATTA
38671706 GATAATTAAGGATTTAAT
1 GATAATTAAGGATTTAAT
38671724 CGATCATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
GATAATTAAGGATTTAATTA
Found at i:38674951 original size:29 final size:28
Alignment explanation
Indices: 38674918--38675263 Score: 291
Period size: 29 Copynumber: 11.9 Consensus size: 28
38674908 AAGCATCGAA
** * *
38674918 TATGAAAAGGGATAAATTCGACTATCAAC
1 TATGAAAAGGGAT-GGTACGACCATCAAC
*
38674947 TATGAAAAGGGATGGGAACGACCATCAAC
1 TATGAAAAGGGAT-GGTACGACCATCAAC
* *
38674976 TATGAAAAGGGATGGTGACAACCATCAAA
1 TATGAAAAGGGATGGT-ACGACCATCAAC
* * *
38675005 TATGAAAAGGGATAGTTTCGACTATCAAC
1 TATGAAAAGGGAT-GGTACGACCATCAAC
*
38675034 TATGAAAAGGGATGGTGACAACCATCAAC
1 TATGAAAAGGGATGGT-ACGACCATCAAC
* * * *
38675063 TATGAAAATGGATAGTGACGACAATTGAA-
1 TATGAAAAGGGATGGT-ACGACCA-TCAAC
* ** * *
38675092 TATGAAAAGGGATAGTTTTGACTATCGAC
1 TATGAAAAGGGAT-GGTACGACCATCAAC
*
38675121 TATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGT-ACGACCATCAAC
* * *
38675150 TATGAAAAGGGATGGTGACGACTATCGAT
1 TATGAAAAGGGATGGT-ACGACCATCAAC
*
38675179 TAATGAAAAGGGATGGTTCCGACCATCGAA-
1 T-ATGAAAAGGGATGG-TACGACCATC-AAC
* *
38675209 TATGAAAAGGGATGGTGACAACCATCAAA
1 TATGAAAAGGGATGGT-ACGACCATCAAC
*
38675238 TATGAAAAGGGATGGTTATGACCATC
1 TATGAAAAGGGATGG-TACGACCATC
38675264 GTTTAGCACA
Statistics
Matches: 258, Mismatches: 46, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
28 11 0.04
29 216 0.84
30 29 0.11
31 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (28 bp):
TATGAAAAGGGATGGTACGACCATCAAC
Found at i:38675062 original size:87 final size:87
Alignment explanation
Indices: 38674911--38675264 Score: 478
Period size: 87 Copynumber: 4.1 Consensus size: 87
38674901 TATTGATAAG
** *
38674911 CATCGAATATGAAAAGGGATAAATTCGACTATCAACTATGAAAAGGGATGG-GAACGACCATCAA
1 CATCGAATATGAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTG-ACAACCATCAA
*
38674975 CTATGAAAAGGGATGGTGACAAC
65 CTATGAAAAGGGATGGTGACGAC
*
38674998 CATCAAATATGAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTGACAACCATCAAC
1 CATCGAATATGAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTGACAACCATCAAC
* *
38675063 TATGAAAATGGATAGTGACGAC
66 TATGAAAAGGGATGGTGACGAC
* * * * **
38675085 AATTGAATATGAAAAGGGATAGTTTTGACTATCGACTATGAAAAGGGATGGTGATGACCATCAAC
1 CATCGAATATGAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTGACAACCATCAAC
38675150 TATGAAAAGGGATGGTGACGAC
66 TATGAAAAGGGATGGTGACGAC
* * * * *
38675172 TATCGATTAATGAAAAGGGATGGTTCCGACCATCGAA-TATGAAAAGGGATGGTGACAACCATCA
1 CATCGAAT-ATGAAAAGGGATAGTTTCGACTATC-AACTATGAAAAGGGATGGTGACAACCATCA
* * *
38675236 AATATGAAAAGGGATGGTTATGAC
64 ACTATGAAAAGGGATGGTGACGAC
38675260 CATCG
1 CATCG
38675265 TTTAGCACAC
Statistics
Matches: 234, Mismatches: 30, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
87 161 0.69
88 72 0.31
89 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.22
Consensus pattern (87 bp):
CATCGAATATGAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTGACAACCATCAAC
TATGAAAAGGGATGGTGACGAC
Found at i:38675264 original size:58 final size:58
Alignment explanation
Indices: 38674941--38675263 Score: 362
Period size: 58 Copynumber: 5.6 Consensus size: 58
38674931 AAATTCGACT
**
38674941 ATCAACTATGAAAAGGGATGGGAACGACCATCAACTATGAAAAGGGATGGTGACAACC
1 ATCAACTATGAAAAGGGATGGTTACGACCATCAACTATGAAAAGGGATGGTGACAACC
* * * *
38674999 ATCAAATATGAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGGTGACAACC
1 ATCAACTATGAAAAGGGATGGTTACGACCATCAACTATGAAAAGGGATGGTGACAACC
* * * * * * **** *
38675057 ATCAACTATGAAAATGGATAGTGACGACAATTGAA-TATGAAAAGGGATAGTTTTGACT
1 ATCAACTATGAAAAGGGATGGTTACGACCA-TCAACTATGAAAAGGGATGGTGACAACC
* * * * *
38675115 ATCGACTATGAAAAGGGATGGTGATGACCATCAACTATGAAAAGGGATGGTGACGACT
1 ATCAACTATGAAAAGGGATGGTTACGACCATCAACTATGAAAAGGGATGGTGACAACC
* * *
38675173 ATCGATTAATGAAAAGGGATGGTTCCGACCATCGAA-TATGAAAAGGGATGGTGACAACC
1 ATCAACT-ATGAAAAGGGATGGTTACGACCATC-AACTATGAAAAGGGATGGTGACAACC
* *
38675232 ATCAAATATGAAAAGGGATGGTTATGACCATC
1 ATCAACTATGAAAAGGGATGGTTACGACCATC
38675264 GTTTAGCACA
Statistics
Matches: 223, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
57 3 0.01
58 167 0.75
59 51 0.23
60 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.22
Consensus pattern (58 bp):
ATCAACTATGAAAAGGGATGGTTACGACCATCAACTATGAAAAGGGATGGTGACAACC
Found at i:38681673 original size:30 final size:30
Alignment explanation
Indices: 38681616--38681674 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
38681606 TGCCTTTAAA
* *
38681616 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
*
38681646 AATATTTATAAAAAGA-ACAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
38681675 GAAAATAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:38693125 original size:592 final size:592
Alignment explanation
Indices: 38692001--38693537 Score: 2966
Period size: 592 Copynumber: 2.6 Consensus size: 592
38691991 ACAAGGAGGT
38692001 TGAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCAC
1 TGAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCAC
38692066 CAAAAGAGCTTATAGAATTAAAGGCTTAACTTTAATAACTTCTTGATCGAGGGTTCATCAGGCCA
66 CAAAAGAGCTTATAGAATTAAAGGCTTAACTTTAATAACTTCTTGATCGAGGGTTCATCAGGCCA
38692131 AGTGTGTCCCCATAGGAAGCACTTTGTAAAGAAGGATGGCATGATGAGAATGCGTGTAGATTATC
131 AGTGTGTCCCCATAGGAAGCACTTTGTAAAGAAGGATGGCATGATGAGAATGCGTGTAGATTATC
38692196 ATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACCTATTTGAT
196 ATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACCTATTTGAT
38692261 CAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGACCACAAGGT
261 CAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGACCACAAGGT
38692326 TAAAGAGACTGATATGTATAAGATTGTTTTTAGGACTCGTTATGGCCATTACGAGTTCCTAGTCA
326 TAAAGAGACTGATATGTATAAGATTGTTTTTAGGACTCGTTATGGCCATTACGAGTTCCTAGTCA
38692391 TGCCATTCATTTTGACGAACTCTCCGAGTGCATTTATGGATCTGATGAATCTGGTGTTTTAGTCG
391 TGCCATTCATTTTGACGAACTCTCCGAGTGCATTTATGGATCTGATGAATCTGGTGTTTTAGTCG
38692456 TATTTGGATCAGTTCATCGCGGTTTTTATCGAGGATATTTTGATTTATTCTAAAAATAAGGATGA
456 TATTTGGATCAGTTCATCGCGGTTTTTATCGAGGATATTTTGATTTATTCTAAAAATAAGGATGA
38692521 GCATGATGAACACCTTAAAATAGTTCTGCAGATACTCCATAAAAAACAACTTTACGCTAAGTTGA
521 GCATGATGAACACCTTAAAATAGTTCTGCAGATACTCCATAAAAAACAACTTTACGCTAAGTTGA
38692586 ATAAATG
586 ATAAATG
38692593 TGAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCAC
1 TGAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCAC
38692658 CAAAAGAGCTTATAGAATTAAAGGCTTAACTTTAATAACTTCTTGATCGAGGGTTCATCAGGCCA
66 CAAAAGAGCTTATAGAATTAAAGGCTTAACTTTAATAACTTCTTGATCGAGGGTTCATCAGGCCA
38692723 AGTGTGTCCCCATAGGAAGCACTTTGTAAAGAAGGATGGCATGATGAGAATGCGTGTAGATTATC
131 AGTGTGTCCCCATAGGAAGCACTTTGTAAAGAAGGATGGCATGATGAGAATGCGTGTAGATTATC
38692788 ATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACCTATTTGAT
196 ATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACCTATTTGAT
38692853 CAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGACCACAAGGT
261 CAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGACCACAAGGT
38692918 TAAAGAGACTGATATGTATAAGATTGTTTTTAGGACTCGTTATGGCCATTACGAGTTCCTAGTCA
326 TAAAGAGACTGATATGTATAAGATTGTTTTTAGGACTCGTTATGGCCATTACGAGTTCCTAGTCA
38692983 TGCCATTCATTTTGACGAACTCTCCGAGTGCATTTATGGATCTGATGAATCTGGTGTTTTAGTCG
391 TGCCATTCATTTTGACGAACTCTCCGAGTGCATTTATGGATCTGATGAATCTGGTGTTTTAGTCG
38693048 TATTTGGATCAGTTCATCGCGGTTTTTATCGAGGATATTTTGATTTATTCTAAAAATAAGGATGA
456 TATTTGGATCAGTTCATCGCGGTTTTTATCGAGGATATTTTGATTTATTCTAAAAATAAGGATGA
38693113 GCATGATGAACACCTTAAAATAGTTCTGCAGATACTCCATAAAAAACAACTTTACGCTAAGTTGA
521 GCATGATGAACACCTTAAAATAGTTCTGCAGATACTCCATAAAAAACAACTTTACGCTAAGTTGA
38693178 ATAAATG
586 ATAAATG
*
38693185 AGAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCAC
1 TGAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCAC
*
38693250 CAAAAGAGCTTATAGAATTAAAGGCTTAACTTTAAGAACTTCTTGATCGAGGGTTCATCAGGCCA
66 CAAAAGAGCTTATAGAATTAAAGGCTTAACTTTAATAACTTCTTGATCGAGGGTTCATCAGGCCA
* *
38693315 AGTGTGTCCCCATGGGAAGCACTAGTTCTGTTTGTAAAGAAGGATGGCACGATGAGAATGCGTGT
131 AGTGTGTCCCCATAGGAAG--C-A---C--TTTGTAAAGAAGGATGGCATGATGAGAATGCGTGT
38693380 AGATTATCATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACC
188 AGATTATCATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACC
38693445 TATTTGATCAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGAC
253 TATTTGATCAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGAC
38693510 CACAAGGTTAAAGAGACTGATATGTATA
318 CACAAGGTTAAAGAGACTGATATGTATA
38693538 TCTGTTTAGA
Statistics
Matches: 933, Mismatches: 4, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
592 738 0.79
594 1 0.00
595 1 0.00
598 1 0.00
600 192 0.21
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (592 bp):
TGAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCAC
CAAAAGAGCTTATAGAATTAAAGGCTTAACTTTAATAACTTCTTGATCGAGGGTTCATCAGGCCA
AGTGTGTCCCCATAGGAAGCACTTTGTAAAGAAGGATGGCATGATGAGAATGCGTGTAGATTATC
ATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACCTATTTGAT
CAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGACCACAAGGT
TAAAGAGACTGATATGTATAAGATTGTTTTTAGGACTCGTTATGGCCATTACGAGTTCCTAGTCA
TGCCATTCATTTTGACGAACTCTCCGAGTGCATTTATGGATCTGATGAATCTGGTGTTTTAGTCG
TATTTGGATCAGTTCATCGCGGTTTTTATCGAGGATATTTTGATTTATTCTAAAAATAAGGATGA
GCATGATGAACACCTTAAAATAGTTCTGCAGATACTCCATAAAAAACAACTTTACGCTAAGTTGA
ATAAATG
Found at i:38695134 original size:600 final size:600
Alignment explanation
Indices: 38693994--38695199 Score: 2376
Period size: 600 Copynumber: 2.0 Consensus size: 600
38693984 CAAGGAGGTT
38693994 GAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCACC
1 GAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCACC
38694059 AAAAGAGCTTATAGAATTAAAGGCTTAACTTTAAGAACTTCTTGATCGAGGGTTCATCAGGCCAA
66 AAAAGAGCTTATAGAATTAAAGGCTTAACTTTAAGAACTTCTTGATCGAGGGTTCATCAGGCCAA
38694124 GTGTGTCCCCATGGGAAGCACTAGTTCTGTTTGTAAAGAAGGATGGCACGATGAGAATGCGTGTA
131 GTGTGTCCCCATGGGAAGCACTAGTTCTGTTTGTAAAGAAGGATGGCACGATGAGAATGCGTGTA
38694189 GATTATCATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACCT
196 GATTATCATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACCT
38694254 ATTTGATCAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGACC
261 ATTTGATCAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGACC
38694319 ACAAGGTTAAAGAGACTGATATGTATATGATTGTTTTTAGGACTCGTTATGGCCATTACGAGTTC
326 ACAAGGTTAAAGAGACTGATATGTATATGATTGTTTTTAGGACTCGTTATGGCCATTACGAGTTC
38694384 CTAGTCATGCCATTCATTTTGACGAACTCTCCGGGTGCATTTATGGATCTGATGAATCTGGTGTT
391 CTAGTCATGCCATTCATTTTGACGAACTCTCCGGGTGCATTTATGGATCTGATGAATCTGGTGTT
* *
38694449 TTAGTCGTATTTGGATCAGTTCATCGCGGTTTTTATCGAGGATATTTTGATTTATTCTAAAAATA
456 TTAGCCGTATTTGGATCAGTTCATCGCAGTTTTTATCGAGGATATTTTGATTTATTCTAAAAATA
38694514 AGGATGAGCATGATGAACACCTTAAAATAGTTCTGCAGATACTCCATAAAAAACAACTTTACGCT
521 AGGATGAGCATGATGAACACCTTAAAATAGTTCTGCAGATACTCCATAAAAAACAACTTTACGCT
38694579 AAGTTGAATAAATGA
586 AAGTTGAATAAATGA
38694594 GAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCACC
1 GAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCACC
38694659 AAAAGAGCTTATAGAATTAAAGGCTTAACTTTAAGAACTTCTTGATCGAGGGTTCATCAGGCCAA
66 AAAAGAGCTTATAGAATTAAAGGCTTAACTTTAAGAACTTCTTGATCGAGGGTTCATCAGGCCAA
38694724 GTGTGTCCCCATGGGAAGCACTAGTTCTGTTTGTAAAGAAGGATGGCACGATGAGAATGCGTGTA
131 GTGTGTCCCCATGGGAAGCACTAGTTCTGTTTGTAAAGAAGGATGGCACGATGAGAATGCGTGTA
38694789 GATTATCATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACCT
196 GATTATCATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACCT
38694854 ATTTGATCAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGACC
261 ATTTGATCAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGACC
38694919 ACAAGGTTAAAGAGACTGATATGTATATGATTGTTTTTAGGACTCGTTATGGCCATTACGAGTTC
326 ACAAGGTTAAAGAGACTGATATGTATATGATTGTTTTTAGGACTCGTTATGGCCATTACGAGTTC
38694984 CTAGTCATGCCATTCATTTTGACGAACTCTCCGGGTGCATTTATGGATCTGATGAATCTGGTGTT
391 CTAGTCATGCCATTCATTTTGACGAACTCTCCGGGTGCATTTATGGATCTGATGAATCTGGTGTT
*
38695049 TTAGCCGTATTTGGATCAGTTCATCGCAGTTTTTATCGAGGATATTTTGATTTATTCTAAAACTA
456 TTAGCCGTATTTGGATCAGTTCATCGCAGTTTTTATCGAGGATATTTTGATTTATTCTAAAAATA
38695114 AGGATGAGCATGATGAACACCTTAAAATAGTTCTGCAGATACTCCATAAAAAACAACTTTACGCT
521 AGGATGAGCATGATGAACACCTTAAAATAGTTCTGCAGATACTCCATAAAAAACAACTTTACGCT
*
38695179 AAGTTGAATAAATGC
586 AAGTTGAATAAATGA
38695194 GAGTTT
1 GAGTTT
38695200 TGGTTGCGAG
Statistics
Matches: 602, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
600 602 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (600 bp):
GAGTTTGGTATTGAACTCCTGCCAAGTACAGCTCCTGTGTTCATTGCCCCTTATTGCATGGCACC
AAAAGAGCTTATAGAATTAAAGGCTTAACTTTAAGAACTTCTTGATCGAGGGTTCATCAGGCCAA
GTGTGTCCCCATGGGAAGCACTAGTTCTGTTTGTAAAGAAGGATGGCACGATGAGAATGCGTGTA
GATTATCATCAGCTGAATAAGTTGACGGTAAAGAATAAGTATCCACTTCCGAGAATTGACGACCT
ATTTGATCAATTTCGTGGAGCATCCGTATTTTCTAAAATCGACCTTCATTCTAGGTACCATGACC
ACAAGGTTAAAGAGACTGATATGTATATGATTGTTTTTAGGACTCGTTATGGCCATTACGAGTTC
CTAGTCATGCCATTCATTTTGACGAACTCTCCGGGTGCATTTATGGATCTGATGAATCTGGTGTT
TTAGCCGTATTTGGATCAGTTCATCGCAGTTTTTATCGAGGATATTTTGATTTATTCTAAAAATA
AGGATGAGCATGATGAACACCTTAAAATAGTTCTGCAGATACTCCATAAAAAACAACTTTACGCT
AAGTTGAATAAATGA
Found at i:38700676 original size:3 final size:3
Alignment explanation
Indices: 38700630--38700656 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38700620 AATAAAGACC
38700630 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
38700657 AAGTTGTTTT
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:38701634 original size:18 final size:18
Alignment explanation
Indices: 38701607--38701642 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
38701597 TTATAGTGTG
*
38701607 CATAAAAAAATTAAAATA
1 CATAAAAAAATCAAAATA
*
38701625 CATAAGAAAATCAAAATA
1 CATAAAAAAATCAAAATA
38701643 AAGTTTTGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (18 bp):
CATAAAAAAATCAAAATA
Found at i:38702264 original size:22 final size:21
Alignment explanation
Indices: 38702235--38702277 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
38702225 TTGATTAAAG
*
38702235 ATTTTA-TTAATAGTATAAATT
1 ATTTTATTTAAAAG-ATAAATT
38702256 ATTTCTATTTAAAAGATAAATT
1 ATTT-TATTTAAAAGATAAATT
38702278 TCTTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (21 bp):
ATTTTATTTAAAAGATAAATT
Found at i:38703530 original size:126 final size:126
Alignment explanation
Indices: 38703279--38703631 Score: 555
Period size: 126 Copynumber: 2.8 Consensus size: 126
38703269 TAATTTCGAG
* * * *
38703279 TTGACGTTTCTAATCAAATAGTATAAAATCACTTCTAGCAGGATGCTATTTGGGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * **
38703344 AAATCACGCCCTCGTGGACACGCTTTTGCTACAGTAGGTCCGGAAGAAATAATTATTTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAAGTCCAAAAGAAATAATTATTTTTT
* * *
38703405 TTTACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATGTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
38703470 AAATCGCGCCATCGAGGACGCGCTTTTGCTACAGTAAGTCACAAAAGAAATAATTA-TTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAAGTC-CAAAAGAAATAATTATTTTTT
38703531 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
38703596 AAATCGCGCCCTCGTGGACGCGCTTTTGCTATAGTA
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTA
38703632 GCATGTTTGG
Statistics
Matches: 206, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
126 193 0.94
127 13 0.06
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAAGTCCAAAAGAAATAATTATTTTTT
Found at i:38706819 original size:23 final size:23
Alignment explanation
Indices: 38706793--38707251 Score: 192
Period size: 29 Copynumber: 18.3 Consensus size: 23
38706783 CTTTGTTTAT
38706793 GGTTTTTAATTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
****
38706816 GGTTTAGGGTTAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
*
38706839 GGTTTTT-A--AAGTTAAGGTTTAG
1 GGTTTTTAATTAAATT-AGG-TTAG
* *
38706861 GGTTTCTAATT---TAAGGTTTAG
1 GGTTTTTAATTAAATTAGG-TTAG
38706882 GGTTTTTAATTAAATTAGGTTAGGG
1 GGTTTTTAATTAAATTAGGTTA--G
38706907 TTAGGATTTTTAATTAAATTAGGTTAGGG
1 ---GG-TTTTTAATTAAATTAGGTTA--G
38706936 TTAAGGTTTTTAATTAAATTAAGGTAGGGTTAG
1 ----GGTTTTTAATTAAA-T----TA-GGTTAG
*
38706969 GGTTTTTAATTAAAATTAGGTAAG
1 GGTTTTTAATT-AAATTAGGTTAG
38706993 GGTTTTGT-ATTAAATTAGGTTAG
1 GGTTTT-TAATTAAATTAGGTTAG
*
38707016 GG-TTTT--TTAAGTTAAGGTTTAG
1 GGTTTTTAATTAAATT-AGG-TTAG
38707038 GGTTTTTAAGTT--A--AGGTTTAG
1 GGTTTTTAA-TTAAATTAGG-TTAG
38707059 GGTTTTTAATTAAATTATGTTAGGGTTAG
1 GGTTTTTAATT-AA--A--TTA-GGTTAG
38707088 GGTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTTTTAATT-AA--A--TTA-GGTTAG
** *
38707117 GGTTTTTAATCCAATTAGGGTAG
1 GGTTTTTAATTAAATTAGGTTAG
38707140 GGTTTTGT-ATTAAATTAGGTTAATGTTAG
1 GGTTTT-TAATTAAATTA-G-----GTTAG
38707169 GGTTTTTAATTAAATTAGGTTAGGG
1 GGTTTTTAATTAAATTAGGTTA--G
38707194 TTAAGGTTTTTAATTAAATTAGGTTAG
1 ----GGTTTTTAATTAAATTAGGTTAG
**** *
38707221 GGTTTAGGGTTAAATTAAGTTAG
1 GGTTTTTAATTAAATTAGGTTAG
38707244 GGTTTTTA
1 GGTTTTTA
38707252 TTACATCAAA
Statistics
Matches: 351, Mismatches: 32, Indels: 106
0.72 0.07 0.22
Matches are distributed among these distances:
20 12 0.03
21 42 0.12
22 20 0.06
23 90 0.26
24 23 0.07
25 6 0.02
26 3 0.01
27 1 0.00
28 5 0.01
29 131 0.37
30 10 0.03
33 1 0.00
34 2 0.01
35 5 0.01
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (23 bp):
GGTTTTTAATTAAATTAGGTTAG
Found at i:38706874 original size:21 final size:21
Alignment explanation
Indices: 38706835--38706892 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
38706825 TTAAATTAGG
*
38706835 TTAGGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTT-AATTTAAGGT
*
38706857 TTAGGGTTTCTAATTTAAGGT
1 TTAGGGTTTTTAATTTAAGGT
38706878 TTAGGGTTTTTAATT
1 TTAGGGTTTTTAATT
38706893 AAATTAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 23 0.70
22 10 0.30
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (21 bp):
TTAGGGTTTTTAATTTAAGGT
Found at i:38707066 original size:21 final size:21
Alignment explanation
Indices: 38707012--38707071 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
38707002 TTAAATTAGG
38707012 TTAGGGTTTTTTAAGTTAAGGT
1 TTAGGG-TTTTTAAGTTAAGGT
38707034 TTAGGGTTTTTAAGTTAAGGT
1 TTAGGGTTTTTAAGTTAAGGT
38707055 TTAGGGTTTTTAA-TTAA
1 TTAGGGTTTTTAAGTTAA
38707072 ATTATGTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.11
21 28 0.74
22 6 0.16
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGGT
Found at i:38707100 original size:177 final size:176
Alignment explanation
Indices: 38706793--38707143 Score: 576
Period size: 177 Copynumber: 2.0 Consensus size: 176
38706783 CTTTGTTTAT
* *
38706793 GGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTT
1 GGTTTTTAATTAAATTAGGTAAGGGTTTAGGATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTT
*
38706858 TAGGGTTTCTAATTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTA
66 TAGGGTTTCTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTA
*
38706923 AATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAAGGTAGGGTTAG
131 AATTAGGTTAGGGTTAAGGTTTTTAATCAAATTAAGGTAGGGTTAG
* * *
38706969 GGTTTTTAATTAAAATTAGGTAAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTTAAGTTAAGGT
1 GGTTTTTAATT-AAATTAGGTAAGGGTTTAGGATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGT
* * *
38707034 TTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTATGTTAGGGTTAGGGTTTTTAATT
65 TTAGGGTTTCTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATT
* * *
38707099 AAATTAGGTTAGGGTTAGGGTTTTTAATCCAATTAGGGTAGGGTT
130 AAATTAGGTTAGGGTTAAGGTTTTTAATCAAATTAAGGTAGGGTT
38707144 TTGTATTAAA
Statistics
Matches: 161, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
176 11 0.07
177 150 0.93
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (176 bp):
GGTTTTTAATTAAATTAGGTAAGGGTTTAGGATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTT
TAGGGTTTCTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTA
AATTAGGTTAGGGTTAAGGTTTTTAATCAAATTAAGGTAGGGTTAG
Found at i:38707152 original size:81 final size:81
Alignment explanation
Indices: 38707056--38707247 Score: 269
Period size: 81 Copynumber: 2.4 Consensus size: 81
38707046 AGTTAAGGTT
* *
38707056 TAGGGTTTT-TAATTAAATTATGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 TAGGGTTTTGT-ATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGT
*
38707120 TTTTAATCCAATTAGGG
65 TTTTAATCAAATTAGGG
* **
38707137 TAGGGTTTTGTATTAAATTAGGTTAATGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTT
1 TAGGGTTTTGTATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTT
* *
38707202 TTTAATTAAATTAGGT
66 TTTAATCAAATTAGGG
* **
38707218 TAGGGTTTAGGGTTAAATTAAGTTAGGGTT
1 TAGGGTTTTGTATTAAATTAAGTTAGGGTT
38707248 TTTATTACAT
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
81 96 0.99
82 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (81 bp):
TAGGGTTTTGTATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTT
TTTAATCAAATTAGGG
Found at i:38707192 original size:34 final size:29
Alignment explanation
Indices: 38706882--38707224 Score: 277
Period size: 29 Copynumber: 11.9 Consensus size: 29
38706872 TAAGGTTTAG
38706882 GGTTTTTAATTAAATTAGGTTAGGGTT-A
1 GGTTTTTAATTAAATTAGGTTAGGGTTAA
38706910 GGATTTTTAATTAAATTAGGTTAGGGTTAA
1 GG-TTTTTAATTAAATTAGGTTAGGGTTAA
*
38706940 GGTTTTTAATTAAATTAAGG-TAGGGTTAG
1 GGTTTTTAATTAAATT-AGGTTAGGGTTAA
38706969 GGTTTTTAATTAAA--A--TTA-GG-TAA
1 GGTTTTTAATTAAATTAGGTTAGGGTTAA
38706992 GGGTTTTGT-ATTAAATTAGGTTAGGGTTTTTTAA
1 -GGTTTT-TAATTAAATTAGGTTAGGG----TTAA
****** * * *
38707026 -GTTAAGGTTTAGGGTTTTTAAGTTAAGGTTTAG
1 GGTT----TTTAATTAAATTAGGTTAGGG-TTAA
* *
38707059 GGTTTTTAATTAAATTATGTTAGGGTTAG
1 GGTTTTTAATTAAATTAGGTTAGGGTTAA
*
38707088 GGTTTTTAATTAAATTAGGTTAGGGTTAG
1 GGTTTTTAATTAAATTAGGTTAGGGTTAA
** *
38707117 GGTTTTTAATCCAATTAGGGTAGGG-T--
1 GGTTTTTAATTAAATTAGGTTAGGGTTAA
* ** *
38707143 --TTTGT-ATTAAATTAGGTTAATGTTAG
1 GGTTTTTAATTAAATTAGGTTAGGGTTAA
38707169 GGTTTTTAATTAAATTAGGTTAGGGTTAA
1 GGTTTTTAATTAAATTAGGTTAGGGTTAA
38707198 GGTTTTTAATTAAATTAGGTTAGGGTT
1 GGTTTTTAATTAAATTAGGTTAGGGTT
38707225 TAGGGTTAAA
Statistics
Matches: 254, Mismatches: 33, Indels: 55
0.74 0.10 0.16
Matches are distributed among these distances:
23 14 0.06
24 19 0.07
25 3 0.01
26 2 0.01
28 10 0.04
29 162 0.64
30 19 0.07
32 3 0.01
33 4 0.02
34 6 0.02
35 1 0.00
36 11 0.04
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.45
Consensus pattern (29 bp):
GGTTTTTAATTAAATTAGGTTAGGGTTAA
Found at i:38707234 original size:52 final size:51
Alignment explanation
Indices: 38706878--38707247 Score: 214
Period size: 52 Copynumber: 7.0 Consensus size: 51
38706868 AATTTAAGGT
*
38706878 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGG----GT--TTAAATTA-GTTAGGG
* * *
38706936 TTAAGGTTTTTAATTAAATTAAGG-TAGGGTTAGGGTTTTTAATTAAAATTA-GG
1 TTAGGGTTTTTAATTAAATT-AGGTTAGGGTTAGGG-TTTAAATT--AGTTAGGG
* * * *
38706989 TAAGGGTTTTGT-ATTAAATTAGGTTAGGGTT---TTTTAAGTTA---AGGT
1 TTAGGGTTTT-TAATTAAATTAGGTTAGGGTTAGGGTTTAAATTAGTTAGGG
*****
38707034 TTAGGGTTTTTAAGTT--A--AGGTTTAGGGTTTTTAATTAAATTATGTTAGGG
1 TTAGGGTTTTTAA-TTAAATTAGG-TTAGGGTTAGGGTTTAAATTA-GTTAGGG
* * *
38707084 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCCAATTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTTAAAT-TAGTTAGGG
**
38707137 -TAGGGTTTTGT-ATTAAATTAGGTTAATGTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTT-TAATTAAATTAGGTTAGGGTTAGGG----T--TTAAATTA-GTTAGGG
*
38707194 TTAAGGTTTTTAATTAAATTAGGTTAGGGTTTAGGG-TTAAATTAAGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTAAATT-AGTTAGGG
38707246 TT
1 TT
38707248 TTTATTACAT
Statistics
Matches: 247, Mismatches: 31, Indels: 74
0.70 0.09 0.21
Matches are distributed among these distances:
42 3 0.01
43 8 0.03
44 3 0.01
45 11 0.04
46 9 0.04
47 1 0.00
49 8 0.03
50 16 0.06
51 1 0.00
52 57 0.23
53 47 0.19
54 5 0.02
55 4 0.02
56 1 0.00
57 12 0.05
58 52 0.21
59 9 0.04
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.45
Consensus pattern (51 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTAAATTAGTTAGGG
Found at i:38708117 original size:7 final size:7
Alignment explanation
Indices: 38708107--38708131 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38708097 TTATATACAT
38708107 AATACTA
1 AATACTA
38708114 AATACTA
1 AATACTA
38708121 AATACTA
1 AATACTA
38708128 AATA
1 AATA
38708132 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:38709260 original size:509 final size:509
Alignment explanation
Indices: 38708303--38709300 Score: 1755
Period size: 509 Copynumber: 2.0 Consensus size: 509
38708293 TTATTTTTAA
38708303 AAATCTACATAATAATTGTAAAATCTAATATAAAATGTACCTCGTTATGAGTGGGAATGTATATG
1 AAATCTACATAATAATTGTAAAATCTAATATAAAATGTACCTCGTTATGAGTGGGAATGTATATG
38708368 GGTGGTCCACTCGAGGACGTAGAAATGGAAAGCGAAACCGTGCCCACGACTGTAGTAGTGATAAA
66 GGTGGTCCACTCGAGGACGTAGAAATGGAAAGCGAAACCGTGCCCACGACTGTAGTAGTGATAAA
38708433 CAACCTCTGATTTTTGCTCTCCTCAGTCGCGTCGCCCCGCACATCTCCCGATATAACGTTGCCAA
131 CAACCTCTGATTTTTGCTCTCCTCAGTCGCGTCGCCCCGCACATCTCCCGATATAACGTTGCCAA
38708498 GACGACGGACCTCCAACTCATTTTACCGGCTGCTCTAAAATCAACGAGTTTTAGCAGCCATCTTA
196 GACGACGGACCTCCAACTCATTTTACCGGCTGCTCTAAAATCAACGAGTTTTAGCAGCCATCTTA
*
38708563 GATGTACGCGGCTCCGTGACGTGTTGGGCATCAGATAACCTCCAATTAATTGAAGAATGTATGCC
261 GATGTACGCGGCTCCGTGACGTGTTGGGCATCAGATAACCTCCAATTAATTGAAGAATGTATGAC
* *
38708628 CGAGCATATCGGATTCTTTCAATTTCGGTTGAATCTTCATCCGGATCAGGGAATGTGTCACGTAA
326 CGAGCATATCGGATTCTTTCAATTTCGATTGAATCTTCATCCGGATCAGGGAATGTGGCACGTAA
* * * * * * * *
38708693 CCAGCCCATCTCGATCTTATCTCCCTCTATTTTCTCCAGAATAGTGCTCAAAAGCTCGTACCACA
391 CCAGCCCATCTCCACCTTACCTCCATCCATTTTATCCAGAACAGTGCCCAAAAGCTCGTACCACA
*
38708758 CCTCCCCCCAATCGCTAGATTGGGCAGACCCGGTGGCTGGGCTTCCGTCCACTT
456 CCGCCCCCCAATCGCTAGATTGGGCAGACCCGGTGGCTGGGCTTCCGTCCACTT
* * *
38708812 AAATCTACGTAATAATTGTAAAATCTAATTTAAAATTTACCTCGTTATGAGTGGGAATGTATATG
1 AAATCTACATAATAATTGTAAAATCTAATATAAAATGTACCTCGTTATGAGTGGGAATGTATATG
38708877 GGTGGTCCACTCGAGGACGTAGAAATGGAAAGCGAAACCGTGCCCACGACTGTAGTAGTGATAAA
66 GGTGGTCCACTCGAGGACGTAGAAATGGAAAGCGAAACCGTGCCCACGACTGTAGTAGTGATAAA
38708942 CAACCTCTGATTTTTGCTCTCCTCAGTCGCGTCGCCCCGCACATCTCCCGATATAACGTTGCCAA
131 CAACCTCTGATTTTTGCTCTCCTCAGTCGCGTCGCCCCGCACATCTCCCGATATAACGTTGCCAA
38709007 GACGACGGACCTCCAACTCATTTTACCGGCTGCTCTAAAATCAACGAGTTTTAGCAGCCATCTTA
196 GACGACGGACCTCCAACTCATTTTACCGGCTGCTCTAAAATCAACGAGTTTTAGCAGCCATCTTA
* *
38709072 GATGTACGCGGCTCCGTGACGTGTTGGGCATCAGATAACCTCCAATTATTTGAAGAATGTATGAT
261 GATGTACGCGGCTCCGTGACGTGTTGGGCATCAGATAACCTCCAATTAATTGAAGAATGTATGAC
* * *
38709137 CGAGCATATCGGATTCTTTCAATTTTGATTGAAT-TTGCATTCGGATCGGGGAATGTGGCACGTA
326 CGAGCATATCGGATTCTTTCAATTTCGATTGAATCTT-CATCCGGATCAGGGAATGTGGCACGTA
* **
38709201 ACCAGCCCATCTCCACCTTACCTCCATCCATTTTATCCGGAACAGTGCCCAAAAGCTCGTAGTAC
390 ACCAGCCCATCTCCACCTTACCTCCATCCATTTTATCCAGAACAGTGCCCAAAAGCTCGTACCAC
* *
38709266 ACCGCCTCCCAATTGCTAGATTGGGCAGACCCGGT
455 ACCGCCCCCCAATCGCTAGATTGGGCAGACCCGGT
38709301 CACTGGGTGC
Statistics
Matches: 463, Mismatches: 25, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
508 2 0.00
509 461 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (509 bp):
AAATCTACATAATAATTGTAAAATCTAATATAAAATGTACCTCGTTATGAGTGGGAATGTATATG
GGTGGTCCACTCGAGGACGTAGAAATGGAAAGCGAAACCGTGCCCACGACTGTAGTAGTGATAAA
CAACCTCTGATTTTTGCTCTCCTCAGTCGCGTCGCCCCGCACATCTCCCGATATAACGTTGCCAA
GACGACGGACCTCCAACTCATTTTACCGGCTGCTCTAAAATCAACGAGTTTTAGCAGCCATCTTA
GATGTACGCGGCTCCGTGACGTGTTGGGCATCAGATAACCTCCAATTAATTGAAGAATGTATGAC
CGAGCATATCGGATTCTTTCAATTTCGATTGAATCTTCATCCGGATCAGGGAATGTGGCACGTAA
CCAGCCCATCTCCACCTTACCTCCATCCATTTTATCCAGAACAGTGCCCAAAAGCTCGTACCACA
CCGCCCCCCAATCGCTAGATTGGGCAGACCCGGTGGCTGGGCTTCCGTCCACTT
Found at i:38709767 original size:12 final size:12
Alignment explanation
Indices: 38709743--38709788 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
38709733 TTTTTTACGG
38709743 TTTAAAAAA-AT
1 TTTAAAAAATAT
38709754 TTTAAAAAATAT
1 TTTAAAAAATAT
* *
38709766 TTTTAAAATTAT
1 TTTAAAAAATAT
*
38709778 TTAAAAAAATA
1 TTTAAAAAATA
38709789 GTAAAATCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTTAAAAAATAT
Found at i:38709779 original size:24 final size:24
Alignment explanation
Indices: 38709743--38709788 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
38709733 TTTTTTACGG
*
38709743 TTTAAAAAAATTTTAAAAAATATT
1 TTTAAAAAAATTTAAAAAAATATT
**
38709767 TTTAAAATTATTTAAAAAAATA
1 TTTAAAAAAATTTAAAAAAATA
38709789 GTAAAATCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTAAAAAAATTTAAAAAAATATT
Found at i:38710476 original size:748 final size:748
Alignment explanation
Indices: 38709042--38710537 Score: 2611
Period size: 748 Copynumber: 2.0 Consensus size: 748
38709032 CCGGCTGCTC
38709042 TAAAATCAACGAGTTTTAGCAGCCATCTTAGATGTACGCGGCTCCGTGACGTGTTGGGCATCAGA
1 TAAAATCAACGAGTTTTAGCAGCCATCTTAGATGTACGCGGCTCCGTGACGTGTTGGGCATCAGA
* * * *
38709107 TAACCTCCAATTATTTGAAGAATGTATGATCGAGCATATCGGATTCTTTCAATTTTGATTGAATT
66 TAACCTCCAAGTAATTGAAGAATGTATGACCGAGCATATCGGATTCTTTCAATTTCGATTGAATT
* *
38709172 TGCATTCGGATCGGGGAATGTGGCACGTAACCAGCCCATCTCCACCTTACCTCCATCCATTTTAT
131 TGCATCCGGATCAGGGAATGTGGCACGTAACCAGCCCATCTCCACCTTACCTCCATCCATTTTAT
* ** * *
38709237 CCGGAACAGTGCCCAAAAGCTCGTAGTACACCGCCTCCCAATTGCTAGATTGGGCAGACCCGGTC
196 CCAGAACAGTGCCCAAAAGCTCGTACCACACCGCCCCCCAATCGCTAGATTGGGCAGACCCGGTC
*
38709302 ACTGGGTGCCCGTCTACCGGCAATCCCAAATGCAGATGGACATCTTCTAGAGTGATAGTGCACTC
261 ACTGGGTGCCCGTCCACCGGCAATCCCAAATGCAGATGGACATCTTCTAGAGTGATAGTGCACTC
*
38709367 TCCACATGGAAGATGAAATGTGTGCGTCTCGGGTCTCCACCTCTCGATCAACGCACTGATCAGTT
326 TCCACATGGAAGATGAAATGTGTGCGTCTCAGGTCTCCACCTCTCGATCAACGCACTGATCAGTT
*
38709432 TCGGCTCCAACTTGCATCCCCGGCCTACCGTCGCCACGTGCCAAAAACCCGCTTCCCGCAGGTAG
391 TCGGCTCCAACTTGCATCCCCGGCCTACCATCGCCACGTGCCAAAAACCCGCTTCCCGCAGGTAG
38709497 TTCTCTACCAACGGTGATGAAGGAGCATGCATATTCCGGATATTGCATTCCAATACCCGATCTAC
456 TTCTCTACCAACGGTGATGAAGGAGCATGCATATTCCGGATATTGCATTCCAATACCCGATCTAC
38709562 AGACTTTTATAACAAATAAAAAATTAATAATTATCTAAAAATGCATAAATAAAAAATTAATAAAT
521 AGACTTTTATAACAAATAAAAAATTAATAATTATCTAAAAATGCATAAATAAAAAATTAATAAAT
38709627 AATATTTAAAAATTAAATTTAATACTTACCATTTTCATTTGTTCCACCGATATGTGATGCTCATC
586 AATATTTAAAAATTAAATTTAATACTTACCATTTTCATTTGTTCCACCGATATGTGATGCTCATC
38709692 AAGACGAGTCAAATCTCCGGCCATTGCTGAAATCGTACAAATTTTTTACGGTTTAAAAAAATTTT
651 AAGACGAGTCAAATCTCCGGCCATTGCTGAAATCGTACAAATTTTTTACGGTTTAAAAAAATTTT
38709757 AAAAAATATTTTTAAAATTATTTAAAAAAATAG
716 AAAAAATATTTTTAAAATTATTTAAAAAAATAG
38709790 TAAAATCAACGAGTTTTAGCAGCCATCTTAGATGTACGCGGCTCCGTGACGTGTTGGGCATCAGA
1 TAAAATCAACGAGTTTTAGCAGCCATCTTAGATGTACGCGGCTCCGTGACGTGTTGGGCATCAGA
* *
38709855 TAACCTCCAAGTAATTGAAGAATGTATGCCCGAGCATATCGGATTCTTTCAATTTCGGTTGAATC
66 TAACCTCCAAGTAATTGAAGAATGTATGACCGAGCATATCGGATTCTTTCAATTTCGATTGAAT-
* * * * * * *
38709920 TT-CATCCGGATCAGGGAATGTGTCACGTAACCAGCCCATCTCGATCTTATCTCCCTCTATTTTC
130 TTGCATCCGGATCAGGGAATGTGGCACGTAACCAGCCCATCTCCACCTTACCTCCATCCATTTTA
* * *
38709984 TCCAGAATAGTGCTCAAAAGCTCGTACCACACCTCCCCCCAATCGCTAGATTGGGCAGACCCGGT
195 TCCAGAACAGTGCCCAAAAGCTCGTACCACACCGCCCCCCAATCGCTAGATTGGGCAGACCCGGT
** * * *
38710049 GGCTGGGCT-TCCGTCCACCGGCAATCCCAATTGTAGACT-GACATCTTCTAGAGTGATAGTGCA
260 CACTGGG-TGCCCGTCCACCGGCAATCCCAAATGCAGA-TGGACATCTTCTAGAGTGATAGTGCA
* *
38710112 CTCTCCACATGGAAGATGGAATGTGTGCGTCTCAGGTCTCCACCTCTCGATCAACGCACTGATTA
323 CTCTCCACATGGAAGATGAAATGTGTGCGTCTCAGGTCTCCACCTCTCGATCAACGCACTGATCA
* * *
38710177 GTTTCGGGTCCACCTTTCATCCCCGGCCTACCATCGCCACGTGCCAAAAACCCGCTTCCCGCAGG
388 GTTTCGGCTCCAACTTGCATCCCCGGCCTACCATCGCCACGTGCCAAAAACCCGCTTCCCGCAGG
*
38710242 TAGTTCTCTACCAACGGTGATGGAGGAGCATGCATATTCCGGATATTGCATTCCAATACCCGATC
453 TAGTTCTCTACCAACGGTGATGAAGGAGCATGCATATTCCGGATATTGCATTCCAATACCCGATC
38710307 TACAGACTTTTATAACAAATAAAAAATTAATAATTATCTAAAAATGCATAAATAAAAAATTAATA
518 TACAGACTTTTATAACAAATAAAAAATTAATAATTATCTAAAAATGCATAAATAAAAAATTAATA
38710372 AATAATATTTAAAAATTAAATTTAATACTTACCATTTTCATTTGTTCCACCGATATGTGATGCTC
583 AATAATATTTAAAAATTAAATTTAATACTTACCATTTTCATTTGTTCCACCGATATGTGATGCTC
38710437 ATCAAGACGAGTCAAATCTCCGGCCATTGCTGAAATCGTACAAATTTTTTACGGTTTAAAAAAAT
648 ATCAAGACGAGTCAAATCTCCGGCCATTGCTGAAATCGTACAAATTTTTTACGGTTTAAAAAAAT
38710502 TTTAAAAAATATTTTTAAAATTATTTAAAAAAATAG
713 TTTAAAAAATATTTTTAAAATTATTTAAAAAAATAG
38710538 AGTTAAGAGA
Statistics
Matches: 708, Mismatches: 37, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
748 704 0.99
749 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (748 bp):
TAAAATCAACGAGTTTTAGCAGCCATCTTAGATGTACGCGGCTCCGTGACGTGTTGGGCATCAGA
TAACCTCCAAGTAATTGAAGAATGTATGACCGAGCATATCGGATTCTTTCAATTTCGATTGAATT
TGCATCCGGATCAGGGAATGTGGCACGTAACCAGCCCATCTCCACCTTACCTCCATCCATTTTAT
CCAGAACAGTGCCCAAAAGCTCGTACCACACCGCCCCCCAATCGCTAGATTGGGCAGACCCGGTC
ACTGGGTGCCCGTCCACCGGCAATCCCAAATGCAGATGGACATCTTCTAGAGTGATAGTGCACTC
TCCACATGGAAGATGAAATGTGTGCGTCTCAGGTCTCCACCTCTCGATCAACGCACTGATCAGTT
TCGGCTCCAACTTGCATCCCCGGCCTACCATCGCCACGTGCCAAAAACCCGCTTCCCGCAGGTAG
TTCTCTACCAACGGTGATGAAGGAGCATGCATATTCCGGATATTGCATTCCAATACCCGATCTAC
AGACTTTTATAACAAATAAAAAATTAATAATTATCTAAAAATGCATAAATAAAAAATTAATAAAT
AATATTTAAAAATTAAATTTAATACTTACCATTTTCATTTGTTCCACCGATATGTGATGCTCATC
AAGACGAGTCAAATCTCCGGCCATTGCTGAAATCGTACAAATTTTTTACGGTTTAAAAAAATTTT
AAAAAATATTTTTAAAATTATTTAAAAAAATAG
Found at i:38710515 original size:12 final size:12
Alignment explanation
Indices: 38710491--38710536 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
38710481 TTTTTTACGG
38710491 TTTAAAAAA-AT
1 TTTAAAAAATAT
38710502 TTTAAAAAATAT
1 TTTAAAAAATAT
* *
38710514 TTTTAAAATTAT
1 TTTAAAAAATAT
*
38710526 TTAAAAAAATA
1 TTTAAAAAATA
38710537 GAGTTAAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTTAAAAAATAT
Found at i:38710527 original size:24 final size:24
Alignment explanation
Indices: 38710491--38710536 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
38710481 TTTTTTACGG
*
38710491 TTTAAAAAAATTTTAAAAAATATT
1 TTTAAAAAAATTTAAAAAAATATT
**
38710515 TTTAAAATTATTTAAAAAAATA
1 TTTAAAAAAATTTAAAAAAATA
38710537 GAGTTAAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTAAAAAAATTTAAAAAAATATT
Found at i:38710556 original size:11 final size:11
Alignment explanation
Indices: 38710540--38710581 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
38710530 AAAAATAGAG
38710540 TTAAGAGAAAC
1 TTAAGAGAAAC
*
38710551 TTAAGAGGAAC
1 TTAAGAGAAAC
*
38710562 TTAAGAAAAAC
1 TTAAGAGAAAC
38710573 TTAAGAGAA
1 TTAAGAGAA
38710582 TTTTTGAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.55, C:0.07, G:0.19, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:38710612 original size:11 final size:11
Alignment explanation
Indices: 38710540--38710629 Score: 60
Period size: 11 Copynumber: 8.2 Consensus size: 11
38710530 AAAAATAGAG
38710540 TTAAGA-GAAA
1 TTAAGAGGAAA
*
38710550 CTTAAGAGGAAC
1 -TTAAGAGGAAA
*
38710562 TTAAGA-AAAA
1 TTAAGAGGAAA
*
38710572 CTTAAGA-GAAT
1 -TTAAGAGGAAA
** *
38710583 TTTTGAAGGAAC
1 TTAAG-AGGAAA
*
38710595 TTGAGAGGAAA
1 TTAAGAGGAAA
38710606 TTAAGAGGAAA
1 TTAAGAGGAAA
*
38710617 TTGAGAGGAAA
1 TTAAGAGGAAA
38710628 TT
1 TT
38710630 TGAGAGAGGA
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
10 5 0.08
11 48 0.77
12 9 0.15
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.23
Consensus pattern (11 bp):
TTAAGAGGAAA
Found at i:38710614 original size:22 final size:22
Alignment explanation
Indices: 38710540--38710629 Score: 76
Period size: 22 Copynumber: 4.1 Consensus size: 22
38710530 AAAAATAGAG
*
38710540 TTAAGAGAAACTTAAGAGGAAC
1 TTAAGAGAAACTTAAGAGGAAA
* *
38710562 TTAAGAAAAACTTAAGA-GAAT
1 TTAAGAGAAACTTAAGAGGAAA
** * *
38710583 TTTTGAAGGAACTTGAGAGGAAA
1 TTAAG-AGAAACTTAAGAGGAAA
*
38710606 TTAAGAGGAAA-TTGAGAGGAAA
1 TTAAGA-GAAACTTAAGAGGAAA
38710628 TT
1 TT
38710630 TGAGAGAGGA
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
21 6 0.11
22 39 0.72
23 9 0.17
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.23
Consensus pattern (22 bp):
TTAAGAGAAACTTAAGAGGAAA
Found at i:38711775 original size:18 final size:19
Alignment explanation
Indices: 38711721--38711776 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
38711711 AAAAAAAGAA
*
38711721 TCAAAATAATTT-TCAAAAAT
1 TCAAAATAATTTAT--AAAAC
*
38711741 TCAAAATAATTTCTAAAAC
1 TCAAAATAATTTATAAAAC
38711760 TCAAAAT-ATTTATAAAA
1 TCAAAATAATTTATAAAA
38711777 ATTCTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.27
19 11 0.33
20 12 0.36
21 1 0.03
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (19 bp):
TCAAAATAATTTATAAAAC
Found at i:38711777 original size:19 final size:20
Alignment explanation
Indices: 38711721--38711785 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 20
38711711 AAAAAAAGAA
38711721 TCAAAATAATTT-TCAAAAAT
1 TCAAAATAATTTAT-AAAAAT
* *
38711741 TCAAAATAATTTCT-AAAAC
1 TCAAAATAATTTATAAAAAT
38711760 TCAAAAT-ATTTATAAAAAT
1 TCAAAATAATTTATAAAAAT
*
38711779 TCTAAAT
1 TCAAAAT
38711786 TTTATATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
18 5 0.13
19 21 0.54
20 12 0.31
21 1 0.03
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (20 bp):
TCAAAATAATTTATAAAAAT
Found at i:38713097 original size:20 final size:20
Alignment explanation
Indices: 38713086--38713127 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
38713076 AAAATATTTT
38713086 AAAT-TTATAAAAAATTTAA
1 AAATGTTATAAAAAATTTAA
*
38713105 AAATGTTAT-AAAAATTAAA
1 AAATGTTATAAAAAATTTAA
38713124 AAAT
1 AAAT
38713128 ATAGAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATGTTATAAAAAATTTAA
Found at i:38713624 original size:18 final size:20
Alignment explanation
Indices: 38713582--38713651 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 20
38713572 GGTTAAATTT
*
38713582 TAATTTTCATAATTTC-AAGA
1 TAATTTT-ATAATTTCTAATA
*
38713602 T--TTTTGTAA-TTCT-ATA
1 TAATTTTATAATTTCTAATA
*
38713618 TAATTTTATAATTTTTAATA
1 TAATTTTATAATTTCTAATA
*
38713638 TAATTTTAAAATTT
1 TAATTTTATAATTT
38713652 TGTATGCTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
16 6 0.15
17 3 0.08
18 11 0.28
19 3 0.08
20 17 0.43
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (20 bp):
TAATTTTATAATTTCTAATA
Found at i:38713640 original size:20 final size:20
Alignment explanation
Indices: 38713615--38713652 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38713605 TTGTAATTCT
*
38713615 ATATAATTTTATAATTTTTA
1 ATATAATTTTAAAATTTTTA
38713635 ATATAATTTTAAAATTTT
1 ATATAATTTTAAAATTTT
38713653 GTATGCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATAATTTTAAAATTTTTA
Found at i:38716118 original size:28 final size:26
Alignment explanation
Indices: 38716064--38716118 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
38716054 AAAATTTTCT
*
38716064 AAAAGAAAACTAAAGAAAAATTCTTA
1 AAAAGAAAACTAAAGAAAAATTATTA
* *
38716090 AAAAGAAAAACTCAAAGAGAATTTATTA
1 AAAAG-AAAACT-AAAGAAAAATTATTA
38716118 A
1 A
38716119 CTCAAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 6 0.25
28 13 0.54
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (26 bp):
AAAAGAAAACTAAAGAAAAATTATTA
Found at i:38716426 original size:157 final size:157
Alignment explanation
Indices: 38716140--38716456 Score: 634
Period size: 157 Copynumber: 2.0 Consensus size: 157
38716130 AGTTGTTGAA
38716140 TAATAACGAATTTATTGTTGTACAATGCAAATGCCTTTATATAGTCTAGCTAAATAAATCTAAAT
1 TAATAACGAATTTATTGTTGTACAATGCAAATGCCTTTATATAGTCTAGCTAAATAAATCTAAAT
38716205 AAAACTTTTAAATATACTAGAACTTTAATTAACCTAAACAATAAGTAGTTTTAAACTAAACTTTC
66 AAAACTTTTAAATATACTAGAACTTTAATTAACCTAAACAATAAGTAGTTTTAAACTAAACTTTC
38716270 TTGTTGACATAAAACTCCTAAATAACT
131 TTGTTGACATAAAACTCCTAAATAACT
38716297 TAATAACGAATTTATTGTTGTACAATGCAAATGCCTTTATATAGTCTAGCTAAATAAATCTAAAT
1 TAATAACGAATTTATTGTTGTACAATGCAAATGCCTTTATATAGTCTAGCTAAATAAATCTAAAT
38716362 AAAACTTTTAAATATACTAGAACTTTAATTAACCTAAACAATAAGTAGTTTTAAACTAAACTTTC
66 AAAACTTTTAAATATACTAGAACTTTAATTAACCTAAACAATAAGTAGTTTTAAACTAAACTTTC
38716427 TTGTTGACATAAAACTCCTAAATAACT
131 TTGTTGACATAAAACTCCTAAATAACT
38716454 TAA
1 TAA
38716457 AATACTTAAC
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 160 1.00
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.36
Consensus pattern (157 bp):
TAATAACGAATTTATTGTTGTACAATGCAAATGCCTTTATATAGTCTAGCTAAATAAATCTAAAT
AAAACTTTTAAATATACTAGAACTTTAATTAACCTAAACAATAAGTAGTTTTAAACTAAACTTTC
TTGTTGACATAAAACTCCTAAATAACT
Found at i:38725509 original size:17 final size:17
Alignment explanation
Indices: 38725489--38725526 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
38725479 GATTTAATGG
*
38725489 CTAAA-AACCTTTAAATA
1 CTAAATAACATTTAAA-A
38725506 CTAAATAACATTTAAAA
1 CTAAATAACATTTAAAA
38725523 CTAA
1 CTAA
38725527 TGGGAAGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (17 bp):
CTAAATAACATTTAAAA
Found at i:38730125 original size:27 final size:28
Alignment explanation
Indices: 38730095--38730149 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
38730085 AAAGATTGTT
*
38730095 AAAACTCTTCTAAAAG-AAAACT-AAAGA
1 AAAACTCTT-GAAAAGAAAAACTCAAAGA
*
38730122 AAAATTCTTGAAAAGAAAAACTCAAAGA
1 AAAACTCTTGAAAAGAAAAACTCAAAGA
38730150 GAATTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 14 0.58
28 5 0.21
ACGTcount: A:0.60, C:0.13, G:0.09, T:0.18
Consensus pattern (28 bp):
AAAACTCTTGAAAAGAAAAACTCAAAGA
Found at i:38738468 original size:147 final size:146
Alignment explanation
Indices: 38738148--38738469 Score: 358
Period size: 147 Copynumber: 2.2 Consensus size: 146
38738138 ATATCATCAG
* * * *
38738148 TTTATCCGACTAGCACTAGGCGCAAAGCAATATCAGTTTATCCGACTAGTGTTGGGCACACATTT
1 TTTATCCGACTAGCGCTGGGCGCAAAACAATATCAGTTTATCCGACTAGTGCTGGGCACACATTT
* ** * *
38738213 AATATAATCAATTATCCGACTTGCGTTGGGCGCAAAACATTGTCGATTTACTCGACCAGTGCTGG
66 AATATAATCAATTATCCGACTAGCACTGGCCACAAAACATTGTCGATTTACTCGACCAGTGCTGG
* *
38738278 GAACATCTATTGTCGA
131 GAACACCTATTGTCAA
* ** ** * * *
38738294 TTTATCCAACTAGCGCTGAACGCAAAACAATATTGGTTTATCCTATTAGTGCTGGGCACAGATTT
1 TTTATCCGACTAGCGCTGGGCGCAAAACAATATCAGTTTATCCGACTAGTGCTGGGCACACATTT
** * * * * * *
38738359 AATATCGTCAGTTTATTCGACTAGCACTGGCCATAAAATATTGTTGGTTTAC-CAGACCAGTGCT
66 AATATAATCA-ATTATCCGACTAGCACTGGCCACAAAACATTGTCGATTTACTC-GACCAGTGCT
*
38738423 GGGCACACCTATTGTCAA
129 GGGAACACCTATTGTCAA
*
38738441 TTTATCCGACTAGCGCTGGGCGTAAAACA
1 TTTATCCGACTAGCGCTGGGCGCAAAACA
38738470 TTGCTACGGT
Statistics
Matches: 142, Mismatches: 32, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
146 62 0.44
147 80 0.56
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (146 bp):
TTTATCCGACTAGCGCTGGGCGCAAAACAATATCAGTTTATCCGACTAGTGCTGGGCACACATTT
AATATAATCAATTATCCGACTAGCACTGGCCACAAAACATTGTCGATTTACTCGACCAGTGCTGG
GAACACCTATTGTCAA
Done.