Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 102 of 292
Found at i:31238761 original size:80 final size:80
Alignment explanation
Indices: 31238593--31238781 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
31238583 GCTGGAAATT
* * * *
31238593 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCAGGCTAAGACCCGAAGGCA
***
31238658 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
31238673 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCAGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCAGGCTAAGACCCGAAGG
* * *
31238736 CCTTGGTGCAGGTTACC
64 CATTCGTGCAAGTTACC
* * *
31238753 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
31238782 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCAGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:31242606 original size:27 final size:27
Alignment explanation
Indices: 31242576--31242658 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
31242566 GATGCAAAAG
* *
31242576 TATATAGTGAGTCCGCACACTTAGTGC
1 TATATAATAAGTCCGCACACTTAGTGC
*
31242603 TATATAATCAG-CTCGCACACTTAGTGC
1 TATATAATAAGTC-CGCACACTTAGTGC
* *
31242630 TATATAATCAAATTCGCACACTTAGTGC
1 TATATAAT-AAGTCCGCACACTTAGTGC
31242658 T
1 T
31242659 GTACAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 31 0.65
28 16 0.33
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (27 bp):
TATATAATAAGTCCGCACACTTAGTGC
Found at i:31242655 original size:28 final size:27
Alignment explanation
Indices: 31242589--31242658 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
31242579 ATAGTGAGTC
*
31242589 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
*
31242616 CGCACACTTAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
31242644 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31242659 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:31248672 original size:40 final size:40
Alignment explanation
Indices: 31248610--31248856 Score: 219
Period size: 40 Copynumber: 6.2 Consensus size: 40
31248600 CGGATGATAA
*
31248610 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGT-GCTAATAT
* * *
31248650 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGCTAATAT
* * * *
31248690 CCGGGCTAAGTCCTGAAGGCGTTTGTAC--GAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGCTA--ATAT
*
31248730 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGT--TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGCTAATAT
* * *
31248768 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGCTAATAT
*
31248809 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GCTAATAT
31248849 CC-GGCTAA
1 CCGGGCTAA
31248857 ACTCCGAAGG
Statistics
Matches: 170, Mismatches: 22, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
37 2 0.01
38 4 0.02
39 38 0.22
40 119 0.70
41 5 0.03
42 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGCTAATAT
Found at i:31248794 original size:79 final size:80
Alignment explanation
Indices: 31248649--31248833 Score: 264
Period size: 79 Copynumber: 2.3 Consensus size: 80
31248639 AGTGGCTAAT
* * *
31248649 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCTGAAGGCGTTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTT
* *
31248714 GTACGAGCTATTATA
66 GTACAAGCTACTATA
* * *
31248729 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTT
* *
31248793 GTGCAAGTTACTATA
66 GTACAAGCTACTATA
*
31248808 ACCGGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31248834 AGCTAGTGGC
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 58 0.62
80 36 0.38
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTACAAGCTACTATA
Found at i:31248855 original size:79 final size:79
Alignment explanation
Indices: 31248650--31248856 Score: 249
Period size: 79 Copynumber: 2.6 Consensus size: 79
31248640 GTGGCTAATT
* * * *
31248650 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCTGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
31248715 TACGAGCTATTATAT
65 TACAAGCTACTATAA
*
31248730 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TACTATATCCGGGCTAAGTCCCGAAGGCATTT
* *
31248793 GTGCAAGTTACTATAA
64 GTACAAGCTACTATAA
* *
31248809 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-ACTATATCCGGGCTAA
31248857 ACTCCGAAGG
Statistics
Matches: 109, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 71 0.65
80 37 0.34
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
ACAAGCTACTATAA
Found at i:31250457 original size:40 final size:40
Alignment explanation
Indices: 31250413--31250685 Score: 474
Period size: 40 Copynumber: 6.8 Consensus size: 40
31250403 TAGCAACTCA
31250413 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
* *
31250453 CACAAATGCCTTCGGGTGTTAGCCCGGATAAAGTCACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
*
31250493 CACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
*
31250533 CACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
31250573 CACAAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
1 CAC-AAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
*
31250614 CACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
*
31250654 CACAAAATGCCTTCGGGTCTTAGCCCAGATAT
1 CAC-AAATGCCTTCGGGTCTTAGCCCGGATAT
31250686 CATCTGAATA
Statistics
Matches: 222, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
40 157 0.71
41 65 0.29
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
Found at i:31250628 original size:81 final size:81
Alignment explanation
Indices: 31250382--31250685 Score: 492
Period size: 81 Copynumber: 3.8 Consensus size: 81
31250372 AACCCAAGTA
* *
31250382 CCTTCGGGATTTAG-CCAGATATAG-CAACT--CACACAAATGCCTTCGGGTCTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACA-AAATGCCTTCGGGTCTTAGCCCGGATA
31250443 TAGTCACTAGCACAAATG
64 TAGTCACTAGCACAAATG
** * *
31250461 CCTTCGGGTGTTAGCCCGGATAAAGTCACTAGCAC-AAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATA
31250525 GTCACTAGCACAAATG
66 GTCACTAGCACAAATG
31250541 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATA
31250606 GTCACTAGCACAAATG
66 GTCACTAGCACAAATG
*
31250622 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATAT
31250686 CATCTGAATA
Statistics
Matches: 210, Mismatches: 10, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
79 12 0.06
80 87 0.41
81 108 0.51
82 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATA
GTCACTAGCACAAATG
Found at i:31253931 original size:40 final size:42
Alignment explanation
Indices: 31253883--31253974 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
31253873 GCTCTCGATA
*
31253883 TAATATATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGG
* *
31253925 TAATATATATATCCGGGTTAAATTCCGCAGGCTTAGTGCTGG
1 TAATATATATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGG
*
31253967 TACTATAT
1 TAATATAT
31253975 CCGGACTTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (42 bp):
TAATATATATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGG
Found at i:31257725 original size:47 final size:47
Alignment explanation
Indices: 31257664--31258010 Score: 516
Period size: 47 Copynumber: 7.4 Consensus size: 47
31257654 GATGTACAAG
* * *
31257664 GTGTGTATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
31257711 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* **
31257758 GTGTGTATATGTGATAAGGCCTAATGGCTGATGT-ATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
31257804 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
31257851 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * * * *
31257898 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
31257945 GTGTATATATGTGATAAGGCCTGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCT-AATGGCCAATGTGATGAATGTGAAA
*
31257993 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
31258011 TCCCGAAGGG
Statistics
Matches: 271, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
46 42 0.15
47 189 0.70
48 40 0.15
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:31257879 original size:140 final size:141
Alignment explanation
Indices: 31257664--31258010 Score: 552
Period size: 140 Copynumber: 2.5 Consensus size: 141
31257654 GATGTACAAG
* * * *
31257664 GTGTGTATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * * * *
31257729 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCTGATGT-A
66 GCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCGATGTGA
31257793 TGAATGTGAAA
131 TGAATGTGAAA
31257804 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
31257869 GCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCGATGTGA
66 GCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCGATGTGA
* *
31257934 TGGATGTGAAG
131 TGAATGTGAAA
* *
31257945 GTGTATATATGTGATAAGGCCTGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 GTGTATATATGTGATAAGGCC-GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
31258010 G
65 G
31258011 TCCCGAAGGG
Statistics
Matches: 191, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
140 118 0.62
141 31 0.16
142 42 0.22
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (141 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATGGCCGATGTGA
TGAATGTGAAA
Found at i:31259916 original size:40 final size:40
Alignment explanation
Indices: 31259861--31260331 Score: 660
Period size: 40 Copynumber: 11.8 Consensus size: 40
31259851 CAGTATGTTA
*
31259861 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
31259901 TATCCGAGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * *
31259941 TATCCGGACTAGGTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
31259981 TATCCGGGCTAAGTCCCAAAG-GCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * * *
31260020 TATCCGGACTAGGTTCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * * *
31260060 TATCCAGACTAGGTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
31260100 TATCAGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * *
31260140 TATCCGGACT-AGTTTCTGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTGGTGATG
* *
31260180 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
31260220 TATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
31260260 TACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
31260300 TATCCGGGCTAAGCCCCAAAG-GCATTCGTGCT
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
31260332 TGGACAAAAT
Statistics
Matches: 385, Mismatches: 43, Indels: 7
0.89 0.10 0.02
Matches are distributed among these distances:
39 47 0.12
40 336 0.87
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:31264321 original size:47 final size:47
Alignment explanation
Indices: 31264270--31264617 Score: 536
Period size: 47 Copynumber: 7.4 Consensus size: 47
31264260 ATTGATGTAC
* * *
31264270 AAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
31264317 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
31264364 AAGTGTGTATAT-TGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
31264410 AAGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
31264457 AAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
31264504 AAGTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
31264551 AGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
31264598 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
31264618 TCCCGAAGGG
Statistics
Matches: 275, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 44 0.16
47 231 0.84
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:31266526 original size:40 final size:40
Alignment explanation
Indices: 31266471--31267021 Score: 741
Period size: 40 Copynumber: 13.8 Consensus size: 40
31266461 CAGTATGTTA
*
31266471 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
31266511 TATCCGAGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * **
31266551 TATCCGGACTAGGTTTCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
31266591 TATCCGGGCTAAGTGCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * *
31266631 TATCCGGACTAGGTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * *
31266671 TATCCGGGCTAAGTCCCAAAGGGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * * *
31266711 TATCCGGACTAGGTTCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * * *
31266751 TATCCAGACTAGGTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * *
31266791 TATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
31266831 TATCCGGACT-AGTTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTGGTGATG
* *
31266871 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
31266911 TATCTGGGCTAAGT-CCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
31266950 TA-CCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCC-GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * *
31266990 TATTCGGGCTAAG-CCCCAAAAGCATTCGTGCT
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
31267022 TGGACAAAAT
Statistics
Matches: 453, Mismatches: 53, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
38 1 0.00
39 53 0.12
40 396 0.87
41 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:31271022 original size:47 final size:47
Alignment explanation
Indices: 31270963--31271309 Score: 523
Period size: 47 Copynumber: 7.4 Consensus size: 47
31270953 GATGTACAAG
* * * *
31270963 GTGTGTATATGTGATAACGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
31271010 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
31271057 GTGTGTATATTTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
31271104 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
31271151 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
31271198 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
31271245 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
31271292 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
31271310 TCCCGAAGGG
Statistics
Matches: 272, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 272 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:31285949 original size:16 final size:15
Alignment explanation
Indices: 31285922--31285955 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
31285912 ATAACTAGTA
*
31285922 TATAATTATATTTAT
1 TATAATTATATTAAT
31285937 TATAATATATATTAAT
1 TATAAT-TATATTAAT
31285953 TAT
1 TAT
31285956 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:31291566 original size:46 final size:45
Alignment explanation
Indices: 31291462--31291638 Score: 155
Period size: 46 Copynumber: 3.8 Consensus size: 45
31291452 TGGGTTATTG
* * * *
31291462 TGAGCTAGTGTAGGACCATGTCTGGGACATGGCATCGGCATTGA-AACGA
1 TGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CT-ACGA-GA
* * *
31291511 -GAGCTAGTGTAAGACACGCCTGGGACATGCATCGGCCT-CGAGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGA
* *
31291554 TGTAAGCCAGTGTAAGATATGTCTGGGACATGTATCGG-CTACGAGA
1 TG--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGA
*
31291600 TGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 TGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
31291639 ATCCTACCTC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 2 0.02
44 15 0.14
45 15 0.14
46 50 0.47
47 12 0.11
48 13 0.12
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (45 bp):
TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGA
Found at i:31298664 original size:22 final size:23
Alignment explanation
Indices: 31298638--31298682 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
31298628 AAAATTGGGT
31298638 ATCGCGAT-TCCCAAATTTTTGG
1 ATCGCGATATCCCAAATTTTTGG
**
31298660 ATCGCGATATCCCATGTTTTTGG
1 ATCGCGATATCCCAAATTTTTGG
31298683 GCCATTCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (23 bp):
ATCGCGATATCCCAAATTTTTGG
Found at i:31302082 original size:40 final size:40
Alignment explanation
Indices: 31302038--31302114 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
31302028 AGATAACATA
* *
31302038 AAATACACATT-TAGATTTTCAAGCATCCATAGGCAAAATG
1 AAATACAC-TTCTAGATTTTCAAACATCCATAAGCAAAATG
31302078 AAATACACTTCTAGATTTTCAAACATCCATAAGCAAA
1 AAATACACTTCTAGATTTTCAAACATCCATAAGCAAA
31302115 TCAAGGAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 2 0.06
40 32 0.94
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.27
Consensus pattern (40 bp):
AAATACACTTCTAGATTTTCAAACATCCATAAGCAAAATG
Found at i:31303985 original size:27 final size:27
Alignment explanation
Indices: 31303947--31304002 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
31303937 TTTTAACTTT
31303947 TACGCCCTAATTGTTGAGGTAAGTTCG
1 TACGCCCTAATTGTTGAGGTAAGTTCG
31303974 TACGCCCTAATTGTTGAGGTAAGTTCG
1 TACGCCCTAATTGTTGAGGTAAGTTCG
31304001 TA
1 TA
31304003 TAATGGTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (27 bp):
TACGCCCTAATTGTTGAGGTAAGTTCG
Found at i:31305085 original size:202 final size:202
Alignment explanation
Indices: 31304739--31305135 Score: 713
Period size: 202 Copynumber: 2.0 Consensus size: 202
31304729 TGGAAGCTCA
31304739 TCGGAGATCTATCACACTATCCAACATATATATCAATAGTTTTTGAATGTTTTGGCCAAGGTTAT
1 TCGGAGATCTATCACACTATCCAACATATATATCAATAGTTTTTGAATGTTTTGGCCAAGGTTAT
* * *
31304804 AATGGCATATATAGGTGGACTCGTACTGGTATTTAATTGAATGTTTTGTTGATGATTGGTATGTA
66 AATGGCATATATAGGTGCACTCGTAATGGTATTTAATTGAATGTTTAGTTGATGATTGGTATGTA
* *
31304869 TAAGTTGTGTAAGTTAATTTTGTTGCTACCATTTGATGCCTTGTTAGATTGTGTCATTGTGGCAA
131 GAAGTTGTGTAAGTTAATTTTGTTGCTACCATTTGATGCCTTGCTAGATTGTGTCATTGTGGCAA
31304934 TAACCTC
196 TAACCTC
*
31304941 TCGGAGATCTATCACACTATCCAACATATATATCAGTAGTTTTTGAATGTTTTGGCCAAGGTTAT
1 TCGGAGATCTATCACACTATCCAACATATATATCAATAGTTTTTGAATGTTTTGGCCAAGGTTAT
* *
31305006 AATGGCATGTATAGGTGCACTTGTAATGGTATTTAATTGAATGTTTAGTTGATGATTGGTATGTA
66 AATGGCATATATAGGTGCACTCGTAATGGTATTTAATTGAATGTTTAGTTGATGATTGGTATGTA
*
31305071 GAAGTTGTGTAAGTTAGTTTTGTTGCTACCATTTGATGCCTTGCTAGATTGTGTCATTGTGGCAA
131 GAAGTTGTGTAAGTTAATTTTGTTGCTACCATTTGATGCCTTGCTAGATTGTGTCATTGTGGCAA
31305136 CATTATGTTA
Statistics
Matches: 186, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
202 186 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (202 bp):
TCGGAGATCTATCACACTATCCAACATATATATCAATAGTTTTTGAATGTTTTGGCCAAGGTTAT
AATGGCATATATAGGTGCACTCGTAATGGTATTTAATTGAATGTTTAGTTGATGATTGGTATGTA
GAAGTTGTGTAAGTTAATTTTGTTGCTACCATTTGATGCCTTGCTAGATTGTGTCATTGTGGCAA
TAACCTC
Found at i:31308280 original size:6 final size:6
Alignment explanation
Indices: 31308269--31308351 Score: 100
Period size: 6 Copynumber: 13.8 Consensus size: 6
31308259 AACCAAAATG
* *
31308269 AGAATC AGAATC AGAATC AGTAA-C AAAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
31308317 AGTAA-C AGAATC AGAATC AGAATC AGAATC AGAAT
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT
31308352 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
5 5 0.07
6 58 0.87
7 3 0.04
8 1 0.01
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:31308284 original size:30 final size:29
Alignment explanation
Indices: 31308248--31308345 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 29
31308238 AAGAAACATT
* *
31308248 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAAAATCAGAATCAGA
*
31308278 ATCAGAATCAGTAACAAAATCAGAATCAGA
1 ATCAGAAT-TGTAACAAAATCAGAATCAGA
*
31308308 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAAAATCAGAATCAGA
31308338 ATCAGAAT
1 ATCAGAAT
31308346 CAGAATGTGA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
29 1 0.02
30 54 0.92
31 4 0.07
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.19
Consensus pattern (29 bp):
ATCAGAATTGTAACAAAATCAGAATCAGA
Found at i:31308506 original size:27 final size:26
Alignment explanation
Indices: 31308469--31308534 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
31308459 AGCATGGCTG
*
31308469 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
31308495 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
*
31308522 CCAAAATCAGATA
1 CCAGAA-CAGATA
31308535 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:31312602 original size:27 final size:26
Alignment explanation
Indices: 31312563--31312645 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
31312553 TCGATCGGTC
*
31312563 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGACAGAGCCACCAG
*
31312589 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAG
* * *
31312616 AACAGATATTTGTGGCATAGCCACAAG
1 AACAGATA-TTGTGACAGAGCCACCAG
31312643 AAC
1 AAC
31312646 GCTTTCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAG
Found at i:31312893 original size:27 final size:27
Alignment explanation
Indices: 31312873--31313031 Score: 221
Period size: 27 Copynumber: 5.9 Consensus size: 27
31312863 GGTATCTAGT
*
31312873 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
31312900 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
31312927 TAATTCTACCCTACGGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
31312954 TAATTCTACCCTATAAGGGTATTT-TA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
31312980 GTAATTCTACCCTATAGGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
31313008 TAATTCTACCCTACAGGGGTATTT
1 TAATTCTACCCTACAGGGGTATTT
31313032 TAGTAATTTC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 115 0.99
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:31312910 original size:54 final size:53
Alignment explanation
Indices: 31312844--31313039 Score: 257
Period size: 54 Copynumber: 3.6 Consensus size: 53
31312834 GGGGCAAAAT
* * * *
31312844 GGTAATTTTACCCCACAAAGGTATCTAGTTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTAG-TAATTCTACCCTACAGGGGTATTTC
* * *
31312898 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTAG-TAATTCTACCCTACAGGGGTATTTC
* * *
31312952 GATAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTA-TTTAGTAATTCTACCCTACAGGGGTATTTC
*
31313006 GGTAATTCTACCCTACAGGGGTATTTTAGTAATT
1 GGTAATTCTACCCTACAAGGGTA-TTTAGTAATT
31313040 TCACAATTGA
Statistics
Matches: 124, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 120 0.97
55 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (53 bp):
GGTAATTCTACCCTACAAGGGTATTTAGTAATTCTACCCTACAGGGGTATTTC
Found at i:31313039 original size:81 final size:81
Alignment explanation
Indices: 31312863--31313039 Score: 230
Period size: 81 Copynumber: 2.2 Consensus size: 81
31312853 ACCCCACAAA
* * * * *
31312863 GGTATCTAGTTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGAT
1 GGTATTTAGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
*
31312928 AATTCTACCCTACGGG
66 AATTCTACCCTACAGG
* * * * * *
31312944 GGTATTTCGATAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATTTAGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
31313009 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
31313025 GGTATTTTAG-TAATT
1 GGTA-TTTAGATAATT
31313040 TCACAATTGA
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 78 0.95
82 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
GGTATTTAGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
AATTCTACCCTACAGG
Found at i:31313078 original size:27 final size:27
Alignment explanation
Indices: 31313048--31313426 Score: 432
Period size: 27 Copynumber: 14.0 Consensus size: 27
31313038 TTTCACAATT
*
31313048 GAGGGTAAAATAGTAATTCTGTAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
* * *
31313075 GAGGGTAAAA-TGATAATTTTGTAAACC
1 GAGGGTAAAACAG-TAATTCTGTAAATC
*
31313102 GAGGGT-AAACTAGTAATTCTATAAATC
1 GAGGGTAAAAC-AGTAATTCTGTAAATC
* * **
31313129 GAGGGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
*
31313156 GAGGGTAAAATAGTAATTCTGTAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
31313183 GAGGGTAAAACAGTAATTCTGTAAA-C
1 GAGGGTAAAACAGTAATTCTGTAAATC
31313209 TGAGGGTAAAACAGTAATTCTGTAAA-C
1 -GAGGGTAAAACAGTAATTCTGTAAATC
** *
31313236 TGAGGGTAAAATGGTAATTCTATAAA-C
1 -GAGGGTAAAACAGTAATTCTGTAAATC
* * **
31313263 TGAGGGTAAAACGGTAATTTTAAAAATC
1 -GAGGGTAAAACAGTAATTCTGTAAATC
31313291 GAGGGTAAAAC-GATAATTCTGTAAATC
1 GAGGGTAAAACAG-TAATTCTGTAAATC
31313318 GAGGGTAAAAC-GATAATTCTGTAAATC
1 GAGGGTAAAACAG-TAATTCTGTAAATC
* * **
31313345 GAGGGTAAAACGGTAATTTTAAAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
31313372 GAGGGTAAAAC-GATAATTCTGTAAATC
1 GAGGGTAAAACAG-TAATTCTGTAAATC
*
31313399 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACAGTAATTCTGTAAATC
31313426 G
1 G
31313427 GAGTACTTTG
Statistics
Matches: 311, Mismatches: 31, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
26 7 0.02
27 296 0.95
28 8 0.03
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.27
Consensus pattern (27 bp):
GAGGGTAAAACAGTAATTCTGTAAATC
Found at i:31313424 original size:81 final size:81
Alignment explanation
Indices: 31313048--31313426 Score: 484
Period size: 81 Copynumber: 4.7 Consensus size: 81
31313038 TTTCACAATT
* * * *
31313048 GAGGGTAAAA-TAGTAATTCTGTAAATCGAGGGTAAAATGATAATTTTGTAAACCGAGGGT-AAA
1 GAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA
* *
31313111 CTAGTAATTCTATAAATC
65 C-AGTAATTTTAAAAATC
* * ** *
31313129 GAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAC
1 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
*
31313194 AGTAATTCTGT-AAACT-
66 AGTAATT-T-TAAAAATC
*
31313210 GAGGGTAAAAC-AGTAATTCTGTAAA-CTGAGGGTAAAATGGTAATTCTATAAA-CTGAGGGTAA
1 GAGGGTAAAACGA-TAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTGTAAATC-GAGGGTAA
*
31313272 AACGGTAATTTTAAAAATC
63 AACAGTAATTTTAAAAATC
* *
31313291 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
1 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
*
31313356 GGTAATTTTAAAAATC
66 AGTAATTTTAAAAATC
*
31313372 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
1 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCG
31313427 GAGTACTTTG
Statistics
Matches: 262, Mismatches: 24, Indels: 24
0.85 0.08 0.08
Matches are distributed among these distances:
79 1 0.00
80 7 0.03
81 243 0.93
82 10 0.04
83 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.27
Consensus pattern (81 bp):
GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
AGTAATTTTAAAAATC
Found at i:31315453 original size:6 final size:6
Alignment explanation
Indices: 31315442--31315549 Score: 114
Period size: 6 Copynumber: 17.8 Consensus size: 6
31315432 AACCAAAATG
* * *
31315442 AGAATC AGAATC AGAATC AGTAGC AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGA-ATC
* *
31315490 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
31315539 AGAATC AGAAT
1 AGAATC AGAAT
31315550 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
5 4 0.05
6 76 0.89
7 3 0.04
8 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:31315457 original size:30 final size:29
Alignment explanation
Indices: 31315421--31315554 Score: 126
Period size: 30 Copynumber: 4.4 Consensus size: 29
31315411 AAGAAACATT
* *
31315421 ATCAGAATTGAAACCAAAATGAGAATCAGA
1 ATCAGAATTGAAA-CAGAATCAGAATCAGA
* * *
31315451 ATCAGAATCAGTAGCAGAATCAGAATCAGA
1 ATCAGAAT-TGAAACAGAATCAGAATCAGA
*
31315481 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GAAACAGAATCAGAATCAGA
**
31315511 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GAAACAGAATCAGAATCAGA
31315542 ATCAGAATGTGAA
1 ATCAGAAT-TGAA
31315555 TGCAATCCCA
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
29 1 0.01
30 55 0.63
31 30 0.34
32 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (29 bp):
ATCAGAATTGAAACAGAATCAGAATCAGA
Found at i:31315704 original size:27 final size:26
Alignment explanation
Indices: 31315667--31315732 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
31315657 AGCATGGCTG
*
31315667 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
31315693 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
31315720 CCAGAATCAGATA
1 CCAGAA-CAGATA
31315733 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:31315737 original size:27 final size:27
Alignment explanation
Indices: 31315667--31315740 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
31315657 AGCATGGCTG
* *
31315667 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
31315693 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
31315720 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
31315741 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:31315747 original size:27 final size:27
Alignment explanation
Indices: 31315691--31315748 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
31315681 GTGACAGAGT
* * *
31315691 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
31315718 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
31315745 CACC
1 CACC
31315749 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:31315953 original size:22 final size:22
Alignment explanation
Indices: 31315905--31315963 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
31315895 GTAAATACGT
*
31315905 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
31315927 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
31315949 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
31315964 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:31316095 original size:27 final size:26
Alignment explanation
Indices: 31316054--31316133 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 26
31316044 ATCGGTCAAT
* *
31316054 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
31316081 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
31316107 AGATATTTGTGGCATG-GCCACCAGAAC
1 AGATA-TTGTGGCA-GAGCCACCAGAAC
31316134 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.14
27 41 0.84
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:31316381 original size:27 final size:27
Alignment explanation
Indices: 31316332--31316518 Score: 214
Period size: 27 Copynumber: 7.0 Consensus size: 27
31316322 GGGGCAAAAT
* * ** *
31316332 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
31316359 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
31316386 AGTATTTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31316413 GAT-ATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
31316439 GCTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
31316466 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
31316493 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
31316519 TAGTAATTTC
Statistics
Matches: 133, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 21 0.16
27 112 0.84
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:31316475 original size:80 final size:81
Alignment explanation
Indices: 31316351--31316518 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 81
31316341 ACCCCACAAA
* * * * *
31316351 GGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTATCCTACAAGGGTATTTCGAT
1 GGTATTTCGCTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
*
31316416 -ATTCTACCCTACGGG
66 AATTCTACCCTACAGG
* * * * *
31316431 GGTATTTCGCTAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATTTCGCTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
31316496 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
31316512 GGTATTT
1 GGTATTT
31316519 TAGTAATTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
80 55 0.72
81 21 0.28
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (81 bp):
GGTATTTCGCTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
AATTCTACCCTACAGG
Found at i:31316565 original size:27 final size:27
Alignment explanation
Indices: 31316535--31316912 Score: 387
Period size: 27 Copynumber: 14.0 Consensus size: 27
31316525 TTTCACAATT
** *
31316535 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAACCGTAATTCTGTAAATC
* *
31316562 GAGGGTAAAA-CGATAATTTTGTAAACC
1 GAGGGTAAAACCG-TAATTCTGTAAATC
*
31316589 GAGGGT-AAACCAGTAATTCTATAAATC
1 GAGGGTAAAACC-GTAATTCTGTAAATC
* * **
31316616 GAGGGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACCGTAATTCTGTAAATC
**
31316643 GAGGGTAAAATAGTAATTCTGTAAATC
1 GAGGGTAAAACCGTAATTCTGTAAATC
*
31316670 GAGGGTAAAACAGTAATTCTGTAAA-C
1 GAGGGTAAAACCGTAATTCTGTAAATC
31316696 TGAGGGTAAAA-CGATAATTCTGTAAATC
1 -GAGGGTAAAACCG-TAATTCTGTAAATC
** *
31316724 GAGGGTAAAATGGTAATTCTATAAA-C
1 GAGGGTAAAACCGTAATTCTGTAAATC
* * **
31316750 TGAGGG-AAAACGGTAATTTTAAAAATC
1 -GAGGGTAAAACCGTAATTCTGTAAATC
31316777 GAGGGTAAAA-CGATAATTCTGTAAATC
1 GAGGGTAAAACCG-TAATTCTGTAAATC
* *
31316804 GAAGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAACCGTAATTCTGTAAATC
* * **
31316831 GAGGGTAAAACGGTAATTTTAAAAATC
1 GAGGGTAAAACCGTAATTCTGTAAATC
31316858 GAGGGTAAAA-CGATAATTCTGTAAATC
1 GAGGGTAAAACCG-TAATTCTGTAAATC
31316885 GAGGGTAAAA-CGATAATTCTGTAAATC
1 GAGGGTAAAACCG-TAATTCTGTAAATC
31316912 G
1 G
31316913 GGAGTACTTT
Statistics
Matches: 301, Mismatches: 36, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
26 30 0.10
27 263 0.87
28 8 0.03
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (27 bp):
GAGGGTAAAACCGTAATTCTGTAAATC
Found at i:31316929 original size:54 final size:54
Alignment explanation
Indices: 31316535--31316912 Score: 458
Period size: 54 Copynumber: 7.0 Consensus size: 54
31316525 TTTCACAATT
** * * *
31316535 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAACC
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC
* * * * * **
31316589 GAGGGTAAACCAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC
**
31316643 GAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTGTAAA-C
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATC
* * * *
31316696 TGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAA-C
1 -GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC
* **
31316750 TGAGGG-AAAACGGTAATTTTAAAAATCGAGGGTAAAACGATAATTCTGTAAATC
1 -GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC
* * * **
31316804 GAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTAAAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC
*
31316858 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC
31316912 G
1 G
31316913 GGAGTACTTT
Statistics
Matches: 279, Mismatches: 40, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
53 44 0.16
54 235 0.84
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (54 bp):
GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC
Found at i:31316943 original size:81 final size:81
Alignment explanation
Indices: 31316535--31316912 Score: 489
Period size: 81 Copynumber: 4.7 Consensus size: 81
31316525 TTTCACAATT
* * * * *
31316535 GAGGGTAAAA-TAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAACCGAGGGTAAAC
1 GAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAA
* * *
31316599 CAGTAATTCTATAAATC
65 CGGTAATTTTAAAAATC
* * ** *
31316616 GAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCGAGGGTAAAA
1 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAA
* *
31316680 CAGTAATTCTGT-AAACT-
65 CGGTAATT-T-TAAAAATC
* * *
31316697 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAA-CTGAGGG-AAAA
1 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC-GAGGGTAAAA
31316760 CGGTAATTTTAAAAATC
65 CGGTAATTTTAAAAATC
* *
31316777 GAGGGTAAAACGATAATTCTGTAAATCGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
1 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
31316842 GGTAATTTTAAAAATC
66 GGTAATTTTAAAAATC
31316858 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCG
1 GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCG
31316913 GGAGTACTTT
Statistics
Matches: 262, Mismatches: 25, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.00
79 5 0.02
80 67 0.26
81 185 0.71
82 3 0.01
83 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (81 bp):
GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAC
GGTAATTTTAAAAATC
Found at i:31319362 original size:27 final size:27
Alignment explanation
Indices: 31319324--31319418 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
31319314 CCTTAGGGGC
31319324 ATTTCAGTAATTTTACAAGTTGAAGGT
1 ATTTCAGTAATTTTACAAGTTGAAGGT
* * * *
31319351 ATTTCGGTAATTGTACAGGTTGAGGGT
1 ATTTCAGTAATTTTACAAGTTGAAGGT
* *
31319378 ATTTCAGTAATTTCACAAATT-AAGGGT
1 ATTTCAGTAATTTTACAAGTTGAA-GGT
**
31319405 ATTTTGGTAATTTT
1 ATTTCAGTAATTTT
31319419 CCTTTATTAT
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
ATTTCAGTAATTTTACAAGTTGAAGGT
Found at i:31319820 original size:29 final size:29
Alignment explanation
Indices: 31319713--31319810 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
31319703 AAGTCTACAT
*
31319713 ACATGCATATGGCCCA-TAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
31319740 TCATTCAAATGTCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
31319769 ACATTTATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
31319798 ATATTCATATGGC
1 ACATTCATATGGC
31319811 TCGGTTGGCC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 12 0.20
28 7 0.12
29 40 0.68
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:31326791 original size:47 final size:47
Alignment explanation
Indices: 31326737--31327164 Score: 624
Period size: 47 Copynumber: 9.1 Consensus size: 47
31326727 TTAGGATTTT
** * *
31326737 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
31326784 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
31326831 ATGTG-TGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
31326877 ATATGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
31326924 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
31326971 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
31327018 ATATGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** * *
31327065 ATGTGATGAAACTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
31327112 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
31327159 ATGTGA
1 ATGTGA
31327165 AATATATATA
Statistics
Matches: 339, Mismatches: 41, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
46 41 0.12
47 298 0.88
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:31327051 original size:141 final size:141
Alignment explanation
Indices: 31326740--31327155 Score: 744
Period size: 141 Copynumber: 3.0 Consensus size: 141
31326730 GGATTTTATG
** * *
31326740 TGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAGCATGC
1 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
31326805 ATATGTGTGATAAGGCCGAATGGCCAATGT-GTGAATATGAACATGCATATATGTGATAAGGCCG
66 ATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAGGCCG
31326869 AATGGCCTATA
131 AATGGCCTATA
31326880 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
*
31326945 ATATGTGTGATAAGGCCAAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAGGCCG
66 ATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAGGCCG
31327010 AATGGCCTATA
131 AATGGCCTATA
**
31327021 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAACTGAGCATGC
1 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
* *
31327086 ATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCG
66 ATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAGGCCG
31327151 AATGG
131 AATGG
31327156 TCAATGTGAA
Statistics
Matches: 265, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
140 90 0.34
141 175 0.66
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (141 bp):
TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
ATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAGGCCG
AATGGCCTATA
Found at i:31327120 original size:25 final size:25
Alignment explanation
Indices: 31327045--31327120 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
31327035 ATGCATATAT
31327045 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* *
31327070 ATGA-AA--CTGAGCAT-G-CATATGT-
1 GTGATAAGGCCGA--ATGGCCA-ATGTG
31327092 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
31327117 GTGA
1 GTGA
31327121 ATATGAACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
22 8 0.21
23 9 0.24
24 9 0.24
25 12 0.32
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:31329211 original size:77 final size:78
Alignment explanation
Indices: 31329116--31329266 Score: 259
Period size: 77 Copynumber: 1.9 Consensus size: 78
31329106 AATGTTCGAG
31329116 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
31329180 ATTGTGCGAGCTA
66 ATTGTGCGAGCTA
* *
31329193 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
*
31329258 ATTTGTGCG
65 AATTGTGCG
31329267 GGTTACCATA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 53 0.77
79 16 0.23
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
ATTGTGCGAGCTA
Found at i:31329264 original size:40 final size:39
Alignment explanation
Indices: 31329115--31329266 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
31329105 GAATGTTCGA
*
31329115 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31329154 GTGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
31329192 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
31329231 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
31329267 GGTTACCATA
Statistics
Matches: 104, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 35 0.34
39 52 0.50
40 17 0.16
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:31329282 original size:40 final size:40
Alignment explanation
Indices: 31329116--31329297 Score: 237
Period size: 39 Copynumber: 4.7 Consensus size: 40
31329106 AATGTTCGAG
* *
31329116 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
*
31329155 TGATATCCGGGCTAAG--CCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
*
31329193 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* * *
31329232 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
** * *
31329272 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAGTCCCGAAGGC
31329298 GTTTGAACGA
Statistics
Matches: 127, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 35 0.28
39 51 0.40
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (40 bp):
TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:31333901 original size:37 final size:37
Alignment explanation
Indices: 31333851--31333973 Score: 237
Period size: 37 Copynumber: 3.3 Consensus size: 37
31333841 TTATTACGAA
*
31333851 GTCTTACCCGGACATAATCTCTACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
31333888 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
31333925 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
31333962 GTCTTACCCGGA
1 GTCTTACCCGGA
31333974 ATATATTTCC
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 85 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:31334089 original size:48 final size:48
Alignment explanation
Indices: 31334018--31334526 Score: 984
Period size: 48 Copynumber: 10.6 Consensus size: 48
31334008 TGTTACAACA
* *
31334018 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
31334066 TTCACATTAGCCATTCTGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31334114 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31334162 TTCACATTAGCCATTCGGCTTTACCACATATACATA-CACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31334209 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31334257 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31334305 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31334353 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31334401 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31334449 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31334497 TTCACATTAGCCATTCGGCTTTACCACATA
1 TTCACATTAGCCATTCGGCTTTACCACATA
31334527 ATTACACTTT
Statistics
Matches: 456, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
47 47 0.10
48 409 0.90
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
Found at i:31336053 original size:13 final size:13
Alignment explanation
Indices: 31336035--31336059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31336025 CACTAAATTT
31336035 TCATGGATTCAAA
1 TCATGGATTCAAA
31336048 TCATGGATTCAA
1 TCATGGATTCAA
31336060 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:31338249 original size:40 final size:40
Alignment explanation
Indices: 31338205--31338498 Score: 261
Period size: 40 Copynumber: 7.5 Consensus size: 40
31338195 CCAGCATGAT
* * *
31338205 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACAAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACAAA
*
31338245 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCAC---
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACAAA
* *
31338282 T-CT-TT--GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACAAA
* *
31338318 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACAAA
* * * *
31338358 TGCTCTTCGGAACTTAG-CCGGATATAACCACAAGCACAAT
1 TGCTCTTCGGAACTTAGCCCGGATA-CATCACTAGCACAAA
** * * * *
31338398 TGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
1 TGCTCTTCGGAACTTAGCCCGGATACATC-ACT-AGCACAAA
** * *
31338438 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAA
1 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACAAA
*
31338478 TGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGAACTTAGCCCGG
31338499 GTATCATTCA
Statistics
Matches: 219, Mismatches: 22, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
33 28 0.13
35 2 0.01
36 3 0.01
37 3 0.01
38 2 0.01
39 20 0.09
40 159 0.73
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACAAA
Found at i:31340469 original size:37 final size:37
Alignment explanation
Indices: 31340419--31340574 Score: 303
Period size: 37 Copynumber: 4.2 Consensus size: 37
31340409 TTATTACGAA
*
31340419 GTCTTACCCGGACATAATCTCTACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
31340456 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
31340493 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
31340530 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
31340567 GTCTTACC
1 GTCTTACC
31340575 GGAATATATT
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 118 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.26
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:31340693 original size:48 final size:48
Alignment explanation
Indices: 31340622--31341082 Score: 870
Period size: 48 Copynumber: 9.6 Consensus size: 48
31340612 TGTTACAACA
* *
31340622 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
31340670 TTCACATTAGCCATTCTGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
31340718 TTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31340766 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31340814 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31340862 TTCACATTAGCCATTCGGCTTTACCACATATACATA-CACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31340909 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
31340957 TTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31341005 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
31341053 TTCACATTAGCCATTCGGCTTTACCACATA
1 TTCACATTAGCCATTCGGCTTTACCACATA
31341083 ATTACACTTT
Statistics
Matches: 404, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 0.12
48 357 0.88
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
Found at i:31341042 original size:239 final size:240
Alignment explanation
Indices: 31340622--31341082 Score: 888
Period size: 239 Copynumber: 1.9 Consensus size: 240
31340612 TGTTACAACA
* *
31340622 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCACACATATATTTCACATTAGCCATTCT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
31340687 GCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACA
31340752 TAACACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTC
131 TAACACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTC
31340817 ACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
196 ACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
31340862 TTCACATTAGCCATTCGGCTTTACCACATATACATA-CACACATGTATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
31340926 GCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACA
31340991 TAACACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTC
131 TAACACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTC
31341056 ACATTAGCCATTCGGCTTTACCACATA
196 ACATTAGCCATTCGGCTTTACCACATA
31341083 ATTACACTTT
Statistics
Matches: 218, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
239 183 0.84
240 35 0.16
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.33
Consensus pattern (240 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCG
GCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACA
TAACACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTC
ACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
Found at i:31341131 original size:191 final size:190
Alignment explanation
Indices: 31340622--31341082 Score: 841
Period size: 191 Copynumber: 2.4 Consensus size: 190
31340612 TGTTACAACA
* * *
31340622 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCACACATATATTTCACATTAGCCATTCT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCG
31340687 GCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACATATACATAT-ACACATGTA-TTCACATTAGCCATTCGGCTTTACCACATATACA
*
31340752 TAACACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
129 TAACACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
31340814 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCG
*
31340879 GCTTTACCACATATACATACACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACAT
66 GCTTTACCACATATACATATACACATGTA-TTCACATTAGCCATTCGGCTTTACCACATATACAT
*
31340944 ATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
130 AACACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
31341005 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCG
31341070 GCTTTACCACATA
66 GCTTTACCACATA
31341083 ATTACACTTT
Statistics
Matches: 263, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
191 182 0.69
192 81 0.31
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.33
Consensus pattern (190 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCG
GCTTTACCACATATACATATACACATGTATTCACATTAGCCATTCGGCTTTACCACATATACATA
ACACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATACATAACACACATGTAT
Found at i:31342609 original size:13 final size:13
Alignment explanation
Indices: 31342591--31342615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31342581 CACTAAATTT
31342591 TCATGGATTCAAA
1 TCATGGATTCAAA
31342604 TCATGGATTCAA
1 TCATGGATTCAA
31342616 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:31348194 original size:39 final size:39
Alignment explanation
Indices: 31348139--31348251 Score: 172
Period size: 39 Copynumber: 2.9 Consensus size: 39
31348129 AATGTTCGAG
*
31348139 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
31348178 TGATATCCGGGTTAAGCCCGAGGGCAATTGTGCGAGTTG
1 TGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTA
*
31348217 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGTTAAG-CCCGAAGGCAATTGTGCG
31348252 GGTTAACATA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 51 0.76
40 16 0.24
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:31348249 original size:40 final size:39
Alignment explanation
Indices: 31348139--31348282 Score: 171
Period size: 39 Copynumber: 3.6 Consensus size: 39
31348129 AATGTTCGAG
*
31348139 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
31348178 TGATATCCGGGTTAAGCCCGAGGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
31348217 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
31348257 ACATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
31348283 GTTTGAACGA
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 51 0.56
40 40 0.44
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:31349829 original size:37 final size:37
Alignment explanation
Indices: 31349688--31349826 Score: 197
Period size: 37 Copynumber: 3.8 Consensus size: 37
31349678 ATTATGTCTA
* *
31349688 GGTAAGACCCGATGACTACGTGTTGAGAGTATGCCCG
1 GGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCG
31349725 GGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCG
* * * *
31349762 GGTAAGACTCAATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCG
* * *
31349799 GGTAAGACCTGATAACTTCGTGTGGAGA
1 GGTAAGACCCGATGACTACGTGTGGAGA
31349827 TTTCGTCTGA
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 91 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.24
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGAGTATGTCCG
Found at i:31360997 original size:21 final size:22
Alignment explanation
Indices: 31360961--31361002 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
31360951 TAAACCCCAC
31360961 ATGGTGTGTAGGGATGGTCGGAG
1 ATGGTGTGTA-GGATGGTCGGAG
31360984 ATGGTGTGTA-GATGGTCGG
1 ATGGTGTGTAGGATGGTCGG
31361003 GGGTAGGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.17, C:0.05, G:0.50, T:0.29
Consensus pattern (22 bp):
ATGGTGTGTAGGATGGTCGGAG
Found at i:31361115 original size:39 final size:40
Alignment explanation
Indices: 31361038--31361121 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
31361028 GTATGCATAG
*
31361038 TGTATCTGAGATGGGCTAAGGCCCTAATTCATATCTGAAAC
1 TGTATCTGAGATGGGCTAAGGCCCTAATTCA-ACCTGAAAC
* *
31361079 TGTATTTG-GATGGGCTAAGG-CCTAAATTGC-ACCTGAATC
1 TGTATCTGAGATGGGCTAAGGCCCT-AATT-CAACCTGAAAC
31361118 TGTA
1 TGTA
31361122 ATGGGCTTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
39 14 0.37
40 16 0.42
41 8 0.21
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (40 bp):
TGTATCTGAGATGGGCTAAGGCCCTAATTCAACCTGAAAC
Found at i:31364464 original size:25 final size:25
Alignment explanation
Indices: 31364433--31364493 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
31364423 CCACAGCTTT
31364433 TATGAGCTTACCAATT-TGCAGCTCA
1 TATGAGCTTACCAATTCT-CAGCTCA
*
31364458 TGA-GAGCTTACCGATTCTCAGCTCA
1 T-ATGAGCTTACCAATTCTCAGCTCA
31364483 TATGAGCTTAC
1 TATGAGCTTAC
31364494 TTATTTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 1 0.03
25 29 0.91
26 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (25 bp):
TATGAGCTTACCAATTCTCAGCTCA
Found at i:31371154 original size:16 final size:16
Alignment explanation
Indices: 31371130--31371161 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31371120 TTTAAAACTA
*
31371130 CTTTTATTTTATTTTT
1 CTTTAATTTTATTTTT
31371146 CTTTAATTTTATTTTT
1 CTTTAATTTTATTTTT
31371162 ACTACATCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (16 bp):
CTTTAATTTTATTTTT
Found at i:31374376 original size:30 final size:30
Alignment explanation
Indices: 31374337--31374398 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
31374327 TACATGAAAT
31374337 ACATGGAAAT-GA-TATTACATGATATATTGAA
1 ACATGGAAATGGATTA-TACATG-TATA-TGAA
31374368 ACAT-GAAATGGATTATACATGTATATGAA
1 ACATGGAAATGGATTATACATGTATATGAA
31374397 AC
1 AC
31374399 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 12 0.41
32 2 0.07
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (30 bp):
ACATGGAAATGGATTATACATGTATATGAA
Found at i:31379034 original size:26 final size:25
Alignment explanation
Indices: 31378992--31379040 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
31378982 GGATTTGAGC
*
31378992 TTTTTTTTGAATGAAAGGGATTTCA
1 TTTTTTTTGAATAAAAGGGATTTCA
*
31379017 TTTTTTTTGGACTAAAAGGGATTT
1 TTTTTTTT-GAATAAAAGGGATTT
31379041 AATGTGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (25 bp):
TTTTTTTTGAATAAAAGGGATTTCA
Found at i:31379150 original size:25 final size:26
Alignment explanation
Indices: 31379122--31379187 Score: 82
Period size: 24 Copynumber: 2.6 Consensus size: 26
31379112 GATTTATTTT
31379122 AGGGATTTGAGTTTTTTTTAAGGA-A
1 AGGGATTTGAGTTTTTTTTAAGGAGA
**
31379147 AGGGATTTGA-TTTTTTTTTTGGAGTA
1 AGGGATTTGAGTTTTTTTTAAGGAG-A
*
31379173 AGGGAGTTGAGTTTT
1 AGGGATTTGAGTTTT
31379188 AATTTAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.31
25 10 0.29
26 10 0.29
27 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (26 bp):
AGGGATTTGAGTTTTTTTTAAGGAGA
Found at i:31379453 original size:26 final size:26
Alignment explanation
Indices: 31379394--31379450 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
31379384 TTAAATTTGG
* *
31379394 AATAAATAAATAAAATATAATTTTTT
1 AATAAATAAATAAAATATAATTTATA
* *
31379420 TATCAATAAATAAAATAT-ATTTATA
1 AATAAATAAATAAAATATAATTTATA
31379445 AATAAA
1 AATAAA
31379451 ATATAATTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
AATAAATAAATAAAATATAATTTATA
Found at i:31381941 original size:3 final size:3
Alignment explanation
Indices: 31381935--31381971 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
31381925 ATTATTATGA
31381935 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
31381972 CAAAGAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:31384564 original size:24 final size:25
Alignment explanation
Indices: 31384528--31384593 Score: 91
Period size: 24 Copynumber: 2.7 Consensus size: 25
31384518 CCAATGGATT
*
31384528 TAGCAAACTATGATCGCCT-GTGGA
1 TAGCAAACAATGATCGCCTAGTGGA
* *
31384552 TAGCGAGCAATGATCG-CTAGTGGA
1 TAGCAAACAATGATCGCCTAGTGGA
31384576 TAGCAAACAATGATCGCC
1 TAGCAAACAATGATCGCC
31384594 AGTAAGTCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 2 0.06
24 32 0.91
25 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (25 bp):
TAGCAAACAATGATCGCCTAGTGGA
Found at i:31384804 original size:13 final size:13
Alignment explanation
Indices: 31384788--31384815 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31384778 CAATTAAGAG
31384788 AATGTTTTAAACT
1 AATGTTTTAAACT
31384801 AATGTTTTAAACT
1 AATGTTTTAAACT
31384814 AA
1 AA
31384816 CACTAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (13 bp):
AATGTTTTAAACT
Found at i:31393441 original size:2 final size:2
Alignment explanation
Indices: 31393434--31393459 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31393424 AGTATATTCC
31393434 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
31393460 GGGAGATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31394110 original size:7 final size:7
Alignment explanation
Indices: 31394087--31394134 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
31394077 ATAACGTTGA
31394087 TATAAAT
1 TATAAAT
31394094 TATAATAT
1 TATAA-AT
*
31394102 TATCAAT
1 TATAAAT
31394109 TATAAAT
1 TATAAAT
31394116 TATAAAT
1 TATAAAT
31394123 TAT-AAT
1 TATAAAT
31394129 TATAAA
1 TATAAA
31394135 ACATATAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 6 0.16
7 25 0.68
8 6 0.16
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (7 bp):
TATAAAT
Found at i:31394112 original size:22 final size:20
Alignment explanation
Indices: 31394087--31394134 Score: 78
Period size: 22 Copynumber: 2.3 Consensus size: 20
31394077 ATAACGTTGA
31394087 TATAAATTATAATATTATCAAT
1 TATAAATTATAA-ATTAT-AAT
31394109 TATAAATTATAAATTATAAT
1 TATAAATTATAAATTATAAT
31394129 TATAAA
1 TATAAA
31394135 ACATATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 9 0.35
21 5 0.19
22 12 0.46
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATAAATTATAAATTATAAT
Found at i:31396269 original size:19 final size:19
Alignment explanation
Indices: 31396237--31396277 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
31396227 TGTGTGGTAA
*
31396237 GATACACTCTGTGTGCTAG
1 GATACACTCTGTGTGCCAG
31396256 GATACACT-TCGTGTGCCAG
1 GATACACTCT-GTGTGCCAG
31396275 GAT
1 GAT
31396278 GTGCTTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (19 bp):
GATACACTCTGTGTGCCAG
Found at i:31396270 original size:21 final size:19
Alignment explanation
Indices: 31396227--31396263 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31396217 TTATGCATAT
*
31396227 TGTGTGGTAAGATACACTC
1 TGTGTGCTAAGATACACTC
*
31396246 TGTGTGCTAGGATACACT
1 TGTGTGCTAAGATACACT
31396264 TCGTGTGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
TGTGTGCTAAGATACACTC
Found at i:31402619 original size:37 final size:37
Alignment explanation
Indices: 31402518--31402632 Score: 169
Period size: 37 Copynumber: 3.1 Consensus size: 37
31402508 AGACGAAATC
* * * *
31402518 TCCACACGAAGTCATCGGGTCTTACCCAGACATACTC
1 TCCACACGTAGTCATCGGGTCTTACCCGGACATAATT
31402555 TCCACACGTAGTCATCGGGTCTTACCCGGACATAATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGACATAATT
*
31402592 TCCACACGTAGTCGTCGGGTCTTACCCGGA-ATATATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGACATA-ATT
31402629 TCCA
1 TCCA
31402633 AGTTTCATGT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 3 0.04
37 69 0.96
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (37 bp):
TCCACACGTAGTCATCGGGTCTTACCCGGACATAATT
Found at i:31402737 original size:48 final size:48
Alignment explanation
Indices: 31402666--31403145 Score: 692
Period size: 48 Copynumber: 10.0 Consensus size: 48
31402656 TGTTACAACC
*
31402666 TTCACATTAGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
31402714 TTCACATTAGCCATTCGACTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * ** *
31402762 TTTACATTCA-CCATTCGGCTTTACCACGTATACATATCTCGTATGTAT
1 TTCACATT-AGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
31402810 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
31402858 TTCACATTAGCCATTCGGCTTTACCACGTATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * ** *
31402906 TTCACATTCGCCATTCGGCTTTACCACGTATACATATCTCGTATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
31402954 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
31403002 TTCACATTAGCCATTCGGCTTTACCACGTATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * ** *
31403050 TTCACATTCGCCATTCGGCTTTACCACGTATACATATCTCGTATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
31403098 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
31403146 ATATTTATCT
Statistics
Matches: 385, Mismatches: 45, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
48 384 1.00
49 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:31402860 original size:144 final size:144
Alignment explanation
Indices: 31402666--31403145 Score: 915
Period size: 144 Copynumber: 3.3 Consensus size: 144
31402656 TGTTACAACC
*
31402666 TTCACATTAGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
1 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
* * * *
31402731 ACTTTACCACATATACATATCACACATATATTTTACATTCACCATTCGGCTTTACCACGTATACA
66 GCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCGGCTTTACCACGTATACA
31402796 TATCTCGTATGTAT
131 TATCTCGTATGTAT
31402810 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
1 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
31402875 GCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCGGCTTTACCACGTATACA
66 GCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCGGCTTTACCACGTATACA
31402940 TATCTCGTATGTAT
131 TATCTCGTATGTAT
31402954 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
1 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
31403019 GCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCGGCTTTACCACGTATACA
66 GCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCGGCTTTACCACGTATACA
31403084 TATCTCGTATGTAT
131 TATCTCGTATGTAT
31403098 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
31403146 ATATTTATCT
Statistics
Matches: 331, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 331 1.00
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.36
Consensus pattern (144 bp):
TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
GCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCGGCTTTACCACGTATACA
TATCTCGTATGTAT
Found at i:31407218 original size:40 final size:40
Alignment explanation
Indices: 31407174--31407525 Score: 542
Period size: 40 Copynumber: 8.8 Consensus size: 40
31407164 CCAGCATGAT
* * * *
31407174 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * * **
31407214 TGCTCTTCGGGACTTAGTCCAGTTGCATTTCTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
31407254 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
31407294 TGCTCTTCAGAACTTAGTCCGGTTGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
31407334 TGCTATTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
31407374 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
31407414 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
31407454 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
31407494 TGCTCTTCGGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
31407526 CTCAATTCTC
Statistics
Matches: 286, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 286 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:31408810 original size:37 final size:37
Alignment explanation
Indices: 31408756--31408863 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
31408746 GCTCAGACGA
*
31408756 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
31408793 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
31408830 AATTTCCACACGTAGTCGTCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
31408864 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:31409092 original size:48 final size:48
Alignment explanation
Indices: 31408908--31409475 Score: 828
Period size: 48 Copynumber: 12.0 Consensus size: 48
31408898 TGTTACAACC
*
31408908 TTCACATTAGCCATTCGGCTTTACCACATATACAT-TCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
31408955 TTCACATTAGCCATTC-GCTTTACCACATATACATAT--CACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
31409000 TT-ACATTCGCCATTCGGCTTTA-C-CATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
31409045 TTCACATTAGCCATTCGACTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * ** *
31409093 TTTACATTCGCCATTCGGCTTTACCACGTATACATATCTCGTATGTAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
31409141 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
31409189 TTCACATTAGCCATTCGGCTTTACCACGTATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * ** *
31409237 TTCACATTCGCCATTCGGCTTTACCACGTATACATATCTCGTATGTAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
31409285 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
31409333 TTCACATTAGCCATTCGGCTTTACCACGTATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * ** *
31409381 TTCACATTC-CCATTCGGCTTTACCACGTATACATATCTCGTATGTAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
31409428 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
31409476 ATATTTATCT
Statistics
Matches: 465, Mismatches: 48, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
43 10 0.02
44 13 0.03
45 28 0.06
46 36 0.08
47 61 0.13
48 317 0.68
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (48 bp):
TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:31409198 original size:144 final size:144
Alignment explanation
Indices: 31408908--31409475 Score: 1008
Period size: 144 Copynumber: 4.0 Consensus size: 144
31408898 TGTTACAACC
*
31408908 TTCACATTAGCCATTCGGCTTTACCACATATACAT-TCACACATATATTTCACATTAGCCATTC-
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTCGCCATTCG
* * *
31408971 GCTTTACCACATATACATATCAC--ATATATTT-ACATTCGCCATTCGGCTTTA-C-CATATACA
66 GCTTTACCACGTATACATATCTCGTATGTATTTCACATTCGCCATTCGGCTTTACCACATATACA
31409031 TTTCACACATATAT
131 TTTCACACATATAT
* *
31409045 TTCACATTAGCCATTCGACTTTACCACATATACATATCACACATATATTTTACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTCGCCATTCG
31409110 GCTTTACCACGTATACATATCTCGTATGTATTTCACATTCGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACGTATACATATCTCGTATGTATTTCACATTCGCCATTCGGCTTTACCACATATACA
31409175 TTTCACACATATAT
131 TTTCACACATATAT
*
31409189 TTCACATTAGCCATTCGGCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTCGCCATTCG
31409254 GCTTTACCACGTATACATATCTCGTATGTATTTCACATTCGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACGTATACATATCTCGTATGTATTTCACATTCGCCATTCGGCTTTACCACATATACA
31409319 TTTCACACATATAT
131 TTTCACACATATAT
*
31409333 TTCACATTAGCCATTCGGCTTTACCACGTATACATATCACACATATATTTCACATTC-CCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTCGCCATTCG
31409397 GCTTTACCACGTATACATATCTCGTATGTATTTCACATTCGCCATTCGGCTTTACCACATATACA
66 GCTTTACCACGTATACATATCTCGTATGTATTTCACATTCGCCATTCGGCTTTACCACATATACA
31409462 TTTCACACATATAT
131 TTTCACACATATAT
31409476 ATATTTATCT
Statistics
Matches: 415, Mismatches: 9, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
137 34 0.08
138 26 0.06
139 21 0.05
141 7 0.02
142 20 0.05
143 87 0.21
144 220 0.53
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (144 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTCGCCATTCG
GCTTTACCACGTATACATATCTCGTATGTATTTCACATTCGCCATTCGGCTTTACCACATATACA
TTTCACACATATAT
Found at i:31413551 original size:40 final size:40
Alignment explanation
Indices: 31413502--31413813 Score: 462
Period size: 40 Copynumber: 7.8 Consensus size: 40
31413492 CCAGCATGAT
* * *
31413502 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * ** **
31413542 TGCTCTTCGGGACTTAGTCCAGTTGTATTTCTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
31413582 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
31413622 TGCTCTTCAGAACTTAGTCCGGTTGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
31413662 TGCTATTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
31413702 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
31413742 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
31413782 TGCTCTTCGGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
31413814 CTCAATTCTC
Statistics
Matches: 245, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 245 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:31415098 original size:37 final size:37
Alignment explanation
Indices: 31415044--31415151 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
31415034 GCTCAGACGA
*
31415044 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
31415081 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
31415118 AATTTCCACACGTAGTCGTCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
31415152 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:31415283 original size:48 final size:48
Alignment explanation
Indices: 31415196--31415673 Score: 681
Period size: 48 Copynumber: 10.0 Consensus size: 48
31415186 TCTTACAACC
* *
31415196 TTCACATTAGCCATTCGGCTTT-CCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
31415243 TTCACATTAGCCATTCGACTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * ** *
31415291 TTTACATTCGCCATTCGGCTTTACCACGTATACATATCTCGTATGTAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
31415339 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
31415387 TTCACATTAGCCATTCGGCTTTACCACGTATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * * ** *
31415435 TTCACATTCGCCATTCGGCTTCACCACGTATATATATCTCGTATGTAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
31415483 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
31415531 TTCACATTAGCCATTCGGCTTTACCACGTATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * ** *
31415579 TTCACATTC-CCATTCGGCTTTACCACGTATACATATCTCGTATGTAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
31415626 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
31415674 ATATTTATCT
Statistics
Matches: 380, Mismatches: 49, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
47 64 0.17
48 316 0.83
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (48 bp):
TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:31415390 original size:144 final size:144
Alignment explanation
Indices: 31415196--31415673 Score: 888
Period size: 144 Copynumber: 3.3 Consensus size: 144
31415186 TCTTACAACC
*
31415196 TTCACATTAGCCATTCGGCTTT-CCACATATACATTTCACACATATATTTCACATTAGCCATTCG
1 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
* * *
31415260 ACTTTACCACATATACATATCACACATATATTTTACATTCGCCATTCGGCTTTACCACGTATACA
66 GCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCGGCTTTACCACGTATACA
31415325 TATCTCGTATGTAT
131 TATCTCGTATGTAT
31415339 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
1 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
* *
31415404 GCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCGGCTTCACCACGTATATA
66 GCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCGGCTTTACCACGTATACA
31415469 TATCTCGTATGTAT
131 TATCTCGTATGTAT
31415483 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
1 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
31415548 GCTTTACCACGTATACATATCACACATATATTTCACATTC-CCATTCGGCTTTACCACGTATACA
66 GCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCGGCTTTACCACGTATACA
31415612 TATCTCGTATGTAT
131 TATCTCGTATGTAT
31415626 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
31415674 ATATTTATCT
Statistics
Matches: 326, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
143 105 0.32
144 221 0.68
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (144 bp):
TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATATTTCACATTAGCCATTCG
GCTTTACCACGTATACATATCACACATATATTTCACATTCGCCATTCGGCTTTACCACGTATACA
TATCTCGTATGTAT
Found at i:31428520 original size:14 final size:16
Alignment explanation
Indices: 31428487--31428521 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
31428477 TGAACTTCTG
31428487 ATATTTGTTACATAAA
1 ATATTTGTTACATAAA
31428503 ATATTTGTTA-AT-AA
1 ATATTTGTTACATAAA
31428517 ATATT
1 ATATT
31428522 GAATTGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 2 0.11
16 10 0.53
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (16 bp):
ATATTTGTTACATAAA
Found at i:31436732 original size:47 final size:48
Alignment explanation
Indices: 31436658--31437021 Score: 242
Period size: 47 Copynumber: 7.7 Consensus size: 48
31436648 AGGGTATAAT
**
31436658 GCCGATGCCATGTCCCAGATGTGGTCTTACACTAGCTCATTC-ATCAA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCA-TCAATCAAG
* * * *
31436705 GTCGGTGCCATGTCCCAGACATGGTCTTACACTAACT-ATCGAAATGAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC--AATCAAG
*
31436754 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATTCG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCA-ATCA--AG
* * * * * *
31436803 TGCCGATGCCATGTCCTAGAAATGGTCTTACACT-GACACCTCTAT-ACG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCAATCAAG
* * *
31436851 TGCCGATGCCATGT-CAAAACATGGTCTTACACTGAG-ACATC--TCATA-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCATCAATCA-AG
* * * * * **
31436897 GCCGAT-ACATGTCCCAAACAT-GTCTTACACTGGCTTA-CATTTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCA-ATCAAG
* *
31436943 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCATCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCA-ATCAAG
* *
31436989 GTCGATGCCATGTCCTAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
31437022 GGCTTTCATA
Statistics
Matches: 257, Mismatches: 35, Indels: 49
0.75 0.10 0.14
Matches are distributed among these distances:
43 2 0.01
44 16 0.06
45 17 0.07
46 46 0.18
47 67 0.26
48 32 0.12
49 39 0.15
50 36 0.14
51 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCAATCAAG
Found at i:31436771 original size:49 final size:47
Alignment explanation
Indices: 31436653--31437070 Score: 231
Period size: 47 Copynumber: 8.9 Consensus size: 47
31436643 AACATAGGGT
* **
31436653 ATAATGCCGATGCCATGTCCCAGATGTGGTCTTACACTAGCTCATTC--
1 ATAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-A-TCAA
* * *
31436700 ATCAA-GTCGGTGCCATGTCCCAGACATGGTCTTACACTAACTATCGAA
1 AT-AAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-AA
*
31436748 ATGAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA
1 AT-AAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCA-A
** * * *
31436797 TATTCGTGCCGATGCCATGTCCTAGAAATGGTCTTACACT-GAC-ACCTC-T
1 -ATAAG-GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTA--TCAA
* * * **
31436846 ATACGTGCCGATGCCATGT-CAAAACATGGTCTTACACTGAGAC-ATCTC
1 ATAAG-GCCGATGCCATGTCCCAGACATGGTCTTACACT-AG-CTATCAA
* * * *
31436894 AT-A-GCCGAT-ACATGTCCCAAACAT-GTCTTACACTGGCT-TACATT
1 ATAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CA-A
* * * *
31436938 TTGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT
1 ATAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAA
* * * * * *
31436983 CTCAATGTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTTTCATA
1 AT-AAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCA-A
** * * *
31437032 ATGTGGCCAAT-ACATGTCCCATACAT-GTCTTACACTAGC
1 ATAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
31437071 ACACAAATAA
Statistics
Matches: 297, Mismatches: 48, Indels: 53
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 16 0.05
45 18 0.06
46 54 0.18
47 78 0.26
48 47 0.16
49 44 0.15
50 34 0.11
51 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
ATAAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAA
Found at i:31436829 original size:50 final size:47
Alignment explanation
Indices: 31436754--31436885 Score: 151
Period size: 50 Copynumber: 2.7 Consensus size: 47
31436744 CGAAATGAAG
* * *
31436754 GCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATTCGT
1 GCCGATGCCATGT-CCAGAAATGGTCTTACACTGA-CAC-CAC-TATACGT
*
31436804 GCCGATGCCATGTCCTAGAAATGGTCTTACACTGACACCTCTATACGT
1 GCCGATGCCATGTCC-AGAAATGGTCTTACACTGACACCACTATACGT
*
31436852 GCCGATGCCATGT-CAAAACATGGTCTTACACTGA
1 GCCGATGCCATGTCCAGAA-ATGGTCTTACACTGA
31436886 GACATCTCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
46 3 0.04
47 16 0.22
48 19 0.26
49 4 0.05
50 31 0.42
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCAGAAATGGTCTTACACTGACACCACTATACGT
Found at i:31436954 original size:46 final size:45
Alignment explanation
Indices: 31436897--31437067 Score: 162
Period size: 46 Copynumber: 3.7 Consensus size: 45
31436887 ACATCTCATA
* *
31436897 GCCGATACATGTCCCAAACATGTCTTACACTGGCTTACATTTTGAG
1 GCCGATACATGTCCCAGACATGTCTTACACTGGCTT-CATATTGAG
* * * ** *
31436943 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATACATGTCCCAGACATGTCTTACACTGGCT-TCATATTGAG
* * * * *
31436989 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTTTCATAATGTG
1 GCCGAT-ACATGTCCCAGACAT-GTCTTACACTGGC-TTCATATTGAG
* *
31437037 GCCAATACATGTCCCATACATGTCTTACACT
1 GCCGATACATGTCCCAGACATGTCTTACACT
31437068 AGCACACAAA
Statistics
Matches: 99, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
46 52 0.53
47 26 0.26
48 20 0.20
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (45 bp):
GCCGATACATGTCCCAGACATGTCTTACACTGGCTTCATATTGAG
Found at i:31443311 original size:21 final size:20
Alignment explanation
Indices: 31443278--31443317 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
31443268 CTTTGAAACA
*
31443278 GGGCACATGCCCGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
31443298 GGGCAACACGCCCGTGTGGA
1 GGGC-ACACGCCCGTGTGGA
31443318 ACTTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.28, G:0.40, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:31444609 original size:48 final size:51
Alignment explanation
Indices: 31444490--31444617 Score: 156
Period size: 48 Copynumber: 2.6 Consensus size: 51
31444480 GAGGGCGACA
* * * *
31444490 CCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCTGTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGAGCACTCACATATATGTGCCAATG
* * *
31444540 CCATGCCCCCAGACATGGTCTTGCACTGA-CAC-CTC-TATATGTGCCAATG
1 CCATG-TCCCAGACATGGTCTTACACTGAGCACTCACATATATGTGCCAATG
31444589 CCATGTCCCAGACATGGTCTTACACTGAG
1 CCATGTCCCAGACATGGTCTTACACTGAG
31444618 ACATCTCATA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
48 21 0.32
49 16 0.24
50 7 0.11
51 21 0.32
52 1 0.02
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.27
Consensus pattern (51 bp):
CCATGTCCCAGACATGGTCTTACACTGAGCACTCACATATATGTGCCAATG
Found at i:31444727 original size:48 final size:45
Alignment explanation
Indices: 31444590--31444713 Score: 121
Period size: 48 Copynumber: 2.7 Consensus size: 45
31444580 GTGCCAATGC
*
31444590 CATGTCCCAGACATGGTCTTACACTGAGACATCTC-AT--A-GCTGATG
1 CATGTCCCAAACAT-GTCTTACACT-AG-C-TCTCGATCAATGCTGATG
*
31444635 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTCG-ATCAATGCTGATG
* *
31444681 TCATGTCCCAAACATGGTGTTACACTGGCTCTC
1 -CATGTCCCAAACAT-GTCTTACACTAGCTCTC
31444714 ATAATGTGGC
Statistics
Matches: 68, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
41 4 0.06
42 1 0.01
43 3 0.04
44 10 0.15
45 14 0.21
46 7 0.10
47 14 0.21
48 15 0.22
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCGATCAATGCTGATG
Found at i:31450107 original size:24 final size:24
Alignment explanation
Indices: 31450080--31450152 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
31450070 GAAATAAAAA
31450080 TAAAAGTTGTGATAATTATACATT
1 TAAAAGTTGTGATAATTATACATT
*
31450104 TAAAAATAAT-TG-TAATT-TA-A--
1 TAAAAGT--TGTGATAATTATACATT
* *
31450124 TAGAAGTTGTGATAATTACACATT
1 TAAAAGTTGTGATAATTATACATT
31450148 TAAAA
1 TAAAA
31450153 ATAATTATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 16
0.63 0.09 0.28
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 10 0.28
21 1 0.03
22 2 0.06
23 2 0.06
24 15 0.42
25 2 0.06
26 1 0.03
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (24 bp):
TAAAAGTTGTGATAATTATACATT
Found at i:31450131 original size:44 final size:44
Alignment explanation
Indices: 31450078--31450163 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
31450068 TTGAAATAAA
* *
31450078 AATAAAAGTTGTGATAATTATACATTTAAAAATAATTGTAATTT
1 AATAAAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
*
31450122 AATAGAAGTTGTGATAATTACACATTTAAAAATAATTATAAT
1 AATAAAAGTTGTGATAATTACACATTTAAAAATAATTATAAT
31450164 CTAAATTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.38
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTACACATTTAAAAATAATTATAATTT
Found at i:31450174 original size:18 final size:18
Alignment explanation
Indices: 31450153--31450187 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
31450143 ACATTTAAAA
31450153 ATAATTA-TAATCTAAATT
1 ATAATTATTAAT-TAAATT
31450171 ATAATTATTAATTAAAT
1 ATAATTATTAATTAAAT
31450188 ATTGTACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAATTATTAATTAAATT
Found at i:31451135 original size:13 final size:13
Alignment explanation
Indices: 31451105--31451142 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
31451095 TAATTATCAC
31451105 TTAATTAA-TATT
1 TTAATTAATTATT
**
31451117 AGAATTAATTATT
1 TTAATTAATTATT
31451130 TTAATTAATTATT
1 TTAATTAATTATT
31451143 GTTTCGAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TTAATTAATTATT
Found at i:31451873 original size:55 final size:55
Alignment explanation
Indices: 31451789--31451898 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
31451779 GCATCCATTG
31451789 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATAAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATAAATAATTAATTTGCAA
*
31451844 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATAAATAATTAATTTGCAA
31451899 TCTATAATTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATAAATAATTAATTTGCAA
Found at i:31454714 original size:24 final size:24
Alignment explanation
Indices: 31454678--31454732 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
31454668 TTCTTGATAT
* *
31454678 ATGGCTATCTAGAGCTTCCCATTA
1 ATGGCTCTCTAGAGCTACCCATTA
* *
31454702 ATGGCTCTTTAGAGCTACCCGTTA
1 ATGGCTCTCTAGAGCTACCCATTA
*
31454726 TTGGCTC
1 ATGGCTC
31454733 GCATGAGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (24 bp):
ATGGCTCTCTAGAGCTACCCATTA
Found at i:31458478 original size:14 final size:14
Alignment explanation
Indices: 31458459--31458485 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31458449 TAAGAATGTC
31458459 ATAAGAAAATTTTG
1 ATAAGAAAATTTTG
31458473 ATAAGAAAATTTT
1 ATAAGAAAATTTT
31458486 ATCAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
ATAAGAAAATTTTG
Found at i:31463206 original size:40 final size:40
Alignment explanation
Indices: 31463079--31463208 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
31463069 ATGCTGGAAA
* * *
31463079 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * *
31463119 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
31463159 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
31463199 TTATATCCGG
1 TTATATCCGG
31463209 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:31468321 original size:2 final size:2
Alignment explanation
Indices: 31468314--31468352 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
31468304 GAGACTAGTC
31468314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31468353 CATGTCATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31479517 original size:42 final size:42
Alignment explanation
Indices: 31479471--31479562 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
31479461 ATGGCCTTAG
* ** *
31479471 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
31479513 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
31479555 GCCCATTT
1 GCCCATTT
31479563 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:31479775 original size:26 final size:26
Alignment explanation
Indices: 31479704--31479824 Score: 169
Period size: 25 Copynumber: 4.8 Consensus size: 26
31479694 CCTCTTTAAT
**
31479704 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
31479729 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
31479754 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
31479780 AAC--GGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
31479804 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
31479825 GCACTTCCTC
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
24 21 0.25
25 33 0.39
26 31 0.36
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:31479793 original size:50 final size:50
Alignment explanation
Indices: 31479704--31479824 Score: 201
Period size: 50 Copynumber: 2.4 Consensus size: 50
31479694 CCTCTTTAAT
*
31479704 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAAC-GGGGCAAAGCCATTTTCAATA
31479754 AACTGGGGCATAAGCCCTTTTCGGTAAAC-GGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACGGGGCA-AAGCCATTTTCAATA
31479804 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
31479825 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
49 5 0.07
50 45 0.66
51 18 0.26
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (50 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACGGGGCAAAGCCATTTTCAATA
Found at i:31480661 original size:27 final size:27
Alignment explanation
Indices: 31480604--31480663 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
31480594 TTACGGTCAC
* *
31480604 TTTACCCTACAGGGGCTTTACGGTTTG
1 TTTACCCTACAAGGGCTTTACAGTTTG
31480631 TTTACCCTACAAGGGCTTTACAGTCTT-
1 TTTACCCTACAAGGGCTTTACAGT-TTG
31480658 TTTACC
1 TTTACC
31480664 TAATAGGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.38
Consensus pattern (27 bp):
TTTACCCTACAAGGGCTTTACAGTTTG
Found at i:31480747 original size:27 final size:27
Alignment explanation
Indices: 31480714--31480969 Score: 146
Period size: 27 Copynumber: 9.6 Consensus size: 27
31480704 TTGGTAAATC
*
31480714 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** * * *
31480741 TGTAAACCAATGGCATTTCCA-TAATTTT
1 TACAAATCAAGGGTATTT-CAGTAA-TTT
* * *
31480769 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCAAGGGTATTTCAGTAATTT
** * ** *
31480797 TGTAAAT-TAGGGTATTTTGGTTATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
31480823 TACAAGTGAAGGGTATTT-AGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
31480849 CACAAA-CTAGTGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCAGTAATTT
* **
31480876 TACAAA-CTAGGGTATTTTGGTAA-TT
1 TACAAATCAAGGGTATTTCAGTAATTT
**
31480901 TACAAATTTAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
31480928 TACAAACCAGGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
31480955 TGTAAATCGAGGGTA
1 TACAAATCAAGGGTA
31480970 AAATGGTAAT
Statistics
Matches: 177, Mismatches: 43, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
25 10 0.06
26 62 0.35
27 77 0.44
28 16 0.09
29 12 0.07
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:31480889 original size:79 final size:79
Alignment explanation
Indices: 31480804--31480955 Score: 216
Period size: 79 Copynumber: 1.9 Consensus size: 79
31480794 CTTTGTAAAT
* * * *
31480804 TAGGGTATTTTGGTTATTTTACAAGTGAAGGGTATTT-AGTAATTTCACAAACTAGTGGTATTTT
1 TAGGGTATTTTGG-TAATTTACAAATGAAGGGTATTTCAGTAATTTCACAAACCAGGGGTATTTT
*
31480868 GGTAATTTTACAAAC
65 AGTAATTTTACAAAC
** *
31480883 TAGGGTATTTTGGTAATTTACAAATTTAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTA
1 TAGGGTATTTTGGTAATTTACAAATGAAGGGTATTTCAGTAATTTCACAAACCAGGGGTATTTTA
31480948 GTAATTTT
66 GTAATTTT
31480956 GTAAATCGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
78 19 0.30
79 45 0.70
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (79 bp):
TAGGGTATTTTGGTAATTTACAAATGAAGGGTATTTCAGTAATTTCACAAACCAGGGGTATTTTA
GTAATTTTACAAAC
Found at i:31480899 original size:53 final size:52
Alignment explanation
Indices: 31480800--31481062 Score: 176
Period size: 54 Copynumber: 5.0 Consensus size: 52
31480790 GTAACTTTGT
* *
31480800 AAAT-TAGGGTATTTTGGTTATTTTAC-AAGTGAAGGGTA-TTTAGTAATTTCAC
1 AAATCTAGGGTATTTTGGTAATTTTACAAACT--AGGGTATTTTAGTAATTT-AC
*
31480852 AAA-CTAGTGGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTAC
1 AAATCTAG-GGTATTTTGGTAATTTTACAAACTAGGGTATTTTAGTAATTTAC
* ** * **
31480904 AAATTTAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTGT
1 AAATCTAGGGTATTTTGGTAATTTTACAAACTA-GGGTATTTTAGTAA-TTTAC
* *** * * *** * *
31480958 AAATCGAGGGTAAAATGGTAATTCTGTA-AATCGAGGGTAAAATAATAATTCTAT
1 AAATCTAGGGTATTTTGGTAATT-T-TACAAACTAGGGTATTTTAGTAATT-TAC
* * ** *
31481012 AAATCGAGGGTACTTTGGTAATTTTACAATTTGAGGGCATTTTAGTAATTT
1 AAATCTAGGGTATTTTGGTAATTTTACAAACT-AGGGTATTTTAGTAATTT
31481063 GGTAAACTAA
Statistics
Matches: 165, Mismatches: 34, Indels: 23
0.74 0.15 0.10
Matches are distributed among these distances:
52 41 0.25
53 51 0.31
54 66 0.40
55 5 0.03
56 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (52 bp):
AAATCTAGGGTATTTTGGTAATTTTACAAACTAGGGTATTTTAGTAATTTAC
Found at i:31481033 original size:27 final size:27
Alignment explanation
Indices: 31480805--31481062 Score: 159
Period size: 27 Copynumber: 9.7 Consensus size: 27
31480795 TTTGTAAATT
* *
31480805 AGGGTATTTTGGTTATTTTACAAGT-G
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
31480831 AAGGGTA-TTTAGTAATTTCACAAA-CT
1 -AGGGTATTTTGGTAATTTTACAAATCG
*
31480857 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTACAAATCG
**
31480884 AGGGTATTTTGGTAA-TTTACAAATTT
1 AGGGTATTTTGGTAATTTTACAAATCG
** *
31480910 AGGGTATTTCAGTAATTTTACAAA-CC
1 AGGGTATTTTGGTAATTTTACAAATCG
* **
31480936 AGGGGTATTTTAGTAATTTTGTAAATCG
1 A-GGGTATTTTGGTAATTTTACAAATCG
*** * **
31480964 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
*** ** * *
31480991 AGGGTAAAATAATAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
31481018 AGGGTACTTTGGTAATTTTACAATTTG
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
31481045 AGGGCATTTTAGTAATTT
1 AGGGTATTTTGGTAATTT
31481063 GGTAAACTAA
Statistics
Matches: 188, Mismatches: 36, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
25 10 0.05
26 45 0.24
27 131 0.70
28 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:31483457 original size:20 final size:20
Alignment explanation
Indices: 31483432--31483469 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31483422 GTTTATTCGC
*
31483432 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
31483452 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
31483470 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:31485130 original size:28 final size:28
Alignment explanation
Indices: 31485098--31485166 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
31485088 GCGTAGATCA
31485098 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
31485126 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
31485154 CGATA-TACCCCTA
1 CGAAATTACCCCTA
31485167 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:31491467 original size:20 final size:20
Alignment explanation
Indices: 31491442--31491479 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31491432 GTTTATTCGC
*
31491442 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
31491462 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
31491480 TTTGGATGTG
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:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:31493132 original size:28 final size:28
Alignment explanation
Indices: 31493100--31493168 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
31493090 GCGTAGATCA
31493100 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
31493128 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
31493156 CGATA-TACCCCTA
1 CGAAATTACCCCTA
31493169 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:31494631 original size:25 final size:25
Alignment explanation
Indices: 31494603--31494681 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
31494593 ACTCGGCCCT
*
31494603 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
31494628 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
31494650 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
31494675 ATCACAT
1 ATCACAT
31494682 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:31494727 original size:49 final size:48
Alignment explanation
Indices: 31494553--31494916 Score: 455
Period size: 49 Copynumber: 7.3 Consensus size: 48
31494543 CCCTTTGAGA
* * * * * * *
31494553 CTTATCACATTTATAC-ACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACAACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31494600 CCTATCACATATATAC-ACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAACTTTCACATTCATCACATCGGCCATTAGGC
*
31494647 CTTATCACATATATAC-ACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACAACTTTCACATTCATCACATCGGCCATTAGGC
*
31494694 CTTATCACATATATACATACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACA-ACTTTCACATTCATCACATCGGCCATTAGGC
31494743 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGTGTGATATTAGGC
1 CTTATCACATATATACA-ACTTTCACATTCATCACATCGGCC------------ATTAGGC
31494804 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACA-ACTTTCACATTCATCACATCGGCCATTAGGC
31494853 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACA-ACTTTCACATTCATCACATCGGCCATTAGGC
31494902 CTTATCACATATATA
1 CTTATCACATATATA
31494917 TATCTCATAC
Statistics
Matches: 289, Mismatches: 14, Indels: 26
0.88 0.04 0.08
Matches are distributed among these distances:
47 100 0.35
49 140 0.48
61 49 0.17
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (48 bp):
CTTATCACATATATACAACTTTCACATTCATCACATCGGCCATTAGGC
Done.