Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 165 of 211
Found at i:48759694 original size:60 final size:61
Alignment explanation
Indices: 48759600--48759759 Score: 205
Period size: 60 Copynumber: 2.6 Consensus size: 61
48759590 TAGGATTTTA
* *
48759600 CTAACTTGGACAAAAAAAAAAGTTCAAGCCCCAATGTGGGAATAATTGCCAAGTTCAGGGC
1 CTAACTTGGACAAAAAAAAAAGTTCAAACCCCAATGTGGGAACAATTGCCAAGTTCAGGGC
* * * * *
48759661 CTAACTTGG-CCAAAAAAGAAGTTTAAACCCCAATGTGGGAACAATTGCCAAGTTCAAGGT
1 CTAACTTGGACAAAAAAAAAAGTTCAAACCCCAATGTGGGAACAATTGCCAAGTTCAGGGC
* * ***
48759721 ATAACTTGAACAAAAAAAAAAGTTCGGGCCCCAATGTGG
1 CTAACTTGGACAAAAAAAAAAGTTCAAACCCCAATGTGG
48759760 AAAAAGTTGC
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
60 51 0.61
61 32 0.39
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (61 bp):
CTAACTTGGACAAAAAAAAAAGTTCAAACCCCAATGTGGGAACAATTGCCAAGTTCAGGGC
Found at i:48760865 original size:30 final size:29
Alignment explanation
Indices: 48760809--48760881 Score: 92
Period size: 30 Copynumber: 2.5 Consensus size: 29
48760799 AACCTGGAAG
*
48760809 TTTTGGGGTTTAATTAAACCTTTCAAAAT
1 TTTTGGGGTTTAATTAAACCTTTCAAAAA
**
48760838 TTTTGGGGTTTAATTAAAAGTTTTCAAAAA
1 TTTTGGGGTTTAATT-AAACCTTTCAAAAA
**
48760868 TTTTAAGGTTTAAT
1 TTTTGGGGTTTAAT
48760882 GATTTTTTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
29 15 0.39
30 23 0.61
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (29 bp):
TTTTGGGGTTTAATTAAACCTTTCAAAAA
Found at i:48761149 original size:6 final size:6
Alignment explanation
Indices: 48761140--48761184 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
48761130 GAAAAAGAAA
* *
48761140 GTGATT GTGATT GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTG
1 GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTG
48761185 GGAATTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.38
Consensus pattern (6 bp):
GTGAAT
Found at i:48764328 original size:2 final size:2
Alignment explanation
Indices: 48764321--48764346 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48764311 AAATTTGAAA
48764321 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
48764347 GAAAATCCTG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48768723 original size:46 final size:46
Alignment explanation
Indices: 48768649--48768738 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
48768639 TATCTATTAG
* * *
48768649 GATATTATTATGGGATATTTTATTTTAGCAATTTGATTCTTAATAA
1 GATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAATAA
*
48768695 GATATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAAT
1 GATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAAT
48768739 GGGACATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (46 bp):
GATATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAATAA
Found at i:48768748 original size:46 final size:46
Alignment explanation
Indices: 48768652--48768748 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
48768642 CTATTAGGAT
* * * *
48768652 ATTATTATGGGATATTTTATTTTAGCAATTTGATTCTTAATAAGAT
1 ATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAATAAGAC
* **
48768698 ATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGAC
1 ATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAATAAGAC
48768744 ATTAT
1 ATTAT
48768749 AGGATATTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.46
Consensus pattern (46 bp):
ATTATTATGGGATATTATATCTTAGCAATTTGATTCCTAATAAGAC
Found at i:48768760 original size:46 final size:44
Alignment explanation
Indices: 48768655--48768761 Score: 110
Period size: 46 Copynumber: 2.4 Consensus size: 44
48768645 TTAGGATATT
* * *
48768655 ATTATGGGATATT-TTATTTTAGCAATTTGATTCTTAATAAGAT
1 ATTATAGGATATTATTATTTTAGCAATTTGATTCCTAATAAGAC
* * **
48768698 ATTATTATGGGATATTA-TCTCTTAGCAATTTGATTCCTAATGGGAC
1 ATTA-TA--GGATATTATTATTTTAGCAATTTGATTCCTAATAAGAC
48768744 ATTATAGGATATTATTAT
1 ATTATAGGATATTATTAT
48768762 GAGATATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
43 12 0.24
44 3 0.06
45 2 0.04
46 34 0.67
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (44 bp):
ATTATAGGATATTATTATTTTAGCAATTTGATTCCTAATAAGAC
Found at i:48770879 original size:21 final size:21
Alignment explanation
Indices: 48770841--48770922 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
48770831 GGTGGATCAA
* * *
48770841 CTCTTTTGAGCTTATGTTCAG
1 CTCTTATGAACTTATGTTAAG
*
48770862 CTCTTATGAACTTCTGTTAAG
1 CTCTTATGAACTTATGTTAAG
* * * **
48770883 CTCTTTTTAGCTTCCGTTAAAG
1 CTCTTATGAACTTATGTT-AAG
*
48770905 CTCTTATGAGCTTATGTT
1 CTCTTATGAACTTATGTT
48770923 GTCGTGTTCA
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
21 31 0.65
22 17 0.35
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (21 bp):
CTCTTATGAACTTATGTTAAG
Found at i:48774098 original size:21 final size:21
Alignment explanation
Indices: 48774069--48774175 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 21
48774059 AAAGCTCAAA
* *
48774069 AGCTGAACAGAAGCTAATGAG
1 AGCTAAACAGAAGCTAATAAG
*
48774090 AGCTAAACAGAAGCTCATAAG
1 AGCTAAACAGAAGCTAATAAG
* **
48774111 AGCTAAACAGAAACCCATAAG
1 AGCTAAACAGAAGCTAATAAG
* * * *
48774132 GGTTGAACAGAAGCTCGA-AAG
1 AGCTAAACAGAAGCT-AATAAG
* * *
48774153 AGCTAAATAGAAACTCATAAG
1 AGCTAAACAGAAGCTAATAAG
48774174 AG
1 AG
48774176 TTGAACAAAA
Statistics
Matches: 67, Mismatches: 17, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
20 1 0.01
21 65 0.97
22 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (21 bp):
AGCTAAACAGAAGCTAATAAG
Found at i:48774141 original size:42 final size:42
Alignment explanation
Indices: 48774066--48774249 Score: 163
Period size: 42 Copynumber: 4.4 Consensus size: 42
48774056 TCAAAAGCTC
* * * * * *
48774066 AAAAGCTGAACAGAAGCTAATGAGAGCTAAACAGAAGCTCAT
1 AAAAGCTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCAT
* * *
48774108 AAGAGCTAAACAGAAACCCATAAGGGTTGAACAGAAGCTCGA-
1 AAAAGCTAAACAGAAACTCATAAGAGTTGAACAGAAGCTC-AT
* * * * *
48774150 AAGAGCTAAATAGAAACTCATAAGAGTTGAACAAAAGTTCAA
1 AAAAGCTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCAT
* * ** * * *
48774192 AAAAGTTGAATGGAAACTCATATGAGTTAAACAGAAGCTCGT
1 AAAAGCTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCAT
48774234 AAAAGCTAAACAGAAA
1 AAAAGCTAAACAGAAA
48774250 GTAAAACACG
Statistics
Matches: 112, Mismatches: 28, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 1 0.01
42 110 0.98
43 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.20, T:0.16
Consensus pattern (42 bp):
AAAAGCTAAACAGAAACTCATAAGAGTTGAACAGAAGCTCAT
Found at i:48781006 original size:21 final size:21
Alignment explanation
Indices: 48780981--48781152 Score: 121
Period size: 21 Copynumber: 8.2 Consensus size: 21
48780971 CCGAAAGTTG
* *
48780981 AACAGAAGCTCATGAGAGCTA
1 AACAGAAACTCATAAGAGCTA
*
48781002 AACAGAAACCCATAAGAGCTA
1 AACAGAAACTCATAAGAGCTA
* * * * *
48781023 AATAGAAACCCATAAGGGTTG
1 AACAGAAACTCATAAGAGCTA
*
48781044 AACAGAAGCTCATAAGAGCTA
1 AACAGAAACTCATAAGAGCTA
* * * *
48781065 AATAGAAACTCATAATAGTTT
1 AACAGAAACTCATAAGAGCTA
* *
48781086 AACAGAAGCTCGA-AAGAGCTG
1 AACAGAAACTC-ATAAGAGCTA
** ** *
48781107 AATGGAAACTCATATTAGTTA
1 AACAGAAACTCATAAGAGCTA
* * *
48781128 AGCAGAAGCTCCTAAGAGCTA
1 AACAGAAACTCATAAGAGCTA
48781149 AACA
1 AACA
48781153 AAAAGTAAAA
Statistics
Matches: 110, Mismatches: 39, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
20 1 0.01
21 108 0.98
22 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.18
Consensus pattern (21 bp):
AACAGAAACTCATAAGAGCTA
Found at i:48781061 original size:42 final size:41
Alignment explanation
Indices: 48781002--48781150 Score: 174
Period size: 42 Copynumber: 3.6 Consensus size: 41
48780992 ATGAGAGCTA
* * * **
48781002 AACAGAAACCCATAAGAGCTAAATAGAAACCCATAAGGGTT
1 AACAGAAGCTCATAAGAGCTAAATAGAAACTCATAATAGTT
48781043 GAACAGAAGCTCATAAGAGCTAAATAGAAACTCATAATAGTTT
1 -AACAGAAGCTCATAAGAGCTAAATAGAAACTCATAATAG-TT
* * *
48781086 AACAGAAGCTCGA-AAGAGCTGAATGGAAACTCATATTAGTT
1 AACAGAAGCTC-ATAAGAGCTAAATAGAAACTCATAATAGTT
*
48781127 AAGCAGAAGCTCCTAAGAGCTAAA
1 AA-CAGAAGCTCATAAGAGCTAAA
48781151 CAAAAAGTAA
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.04
42 86 0.92
43 3 0.03
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (41 bp):
AACAGAAGCTCATAAGAGCTAAATAGAAACTCATAATAGTT
Found at i:48788096 original size:21 final size:21
Alignment explanation
Indices: 48788067--48788274 Score: 199
Period size: 21 Copynumber: 9.9 Consensus size: 21
48788057 TTCGGGTGGA
48788067 TCAGCTCTTTTGAGCTTCTGT
1 TCAGCTCTTTTGAGCTTCTGT
* *
48788088 TCAGGTCTTATGAGCTTCTGT
1 TCAGCTCTTTTGAGCTTCTGT
* * *
48788109 TCAGATCTTTTAAGCTTATGT
1 TCAGCTCTTTTGAGCTTCTGT
* * *
48788130 TTAGCTCTTTTGAGCTTTTGC
1 TCAGCTCTTTTGAGCTTCTGT
** *
48788151 TCAGCTCTTACGAGCTTTTGT
1 TCAGCTCTTTTGAGCTTCTGT
*
48788172 TCAACTCTTTTGAGCTTTCAT-T
1 TCAGCTCTTTTGAGC-TTC-TGT
*
48788194 T-AGCTCTTTTGAGTTTCTGT
1 TCAGCTCTTTTGAGCTTCTGT
* * *
48788214 TTAGCTCTTATGAGCTTCCGT
1 TCAGCTCTTTTGAGCTTCTGT
48788235 TCAGCTCTTTTGAGCTT-TCGT
1 TCAGCTCTTTTGAGCTTCT-GT
*
48788256 TTAGCT-TTTATGAGCTTCT
1 TCAGCTCTTT-TGAGCTTCT
48788275 ATTGACGATG
Statistics
Matches: 152, Mismatches: 28, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
19 1 0.01
20 8 0.05
21 137 0.90
22 5 0.03
23 1 0.01
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (21 bp):
TCAGCTCTTTTGAGCTTCTGT
Found at i:48788173 original size:63 final size:63
Alignment explanation
Indices: 48788069--48788272 Score: 254
Period size: 63 Copynumber: 3.2 Consensus size: 63
48788059 CGGGTGGATC
* * *
48788069 AGCTCTTTTGAGCTTCTGTTCAGGTCTTATGAGCTTCTGTTCAGATCTTTTAAGCTTAT-GTTT
1 AGCTCTTTTGAGCTTTTGTTCAGCTCTTATGAGCTTCTGTTCAGATCTTTTGAGCTT-TCGTTT
* * * *
48788132 AGCTCTTTTGAGCTTTTGCTCAGCTCTTACGAGCTTTTGTTCA-ACTCTTTTGAGCTTTCATTT
1 AGCTCTTTTGAGCTTTTGTTCAGCTCTTATGAGCTTCTGTTCAGA-TCTTTTGAGCTTTCGTTT
* * *
48788195 AGCTCTTTTGAG-TTTCTGTTTAGCTCTTATGAGCTTCCGTTCAGCTCTTTTGAGCTTTCGTTT
1 AGCTCTTTTGAGCTTT-TGTTCAGCTCTTATGAGCTTCTGTTCAGATCTTTTGAGCTTTCGTTT
48788258 AGCT-TTTATGAGCTT
1 AGCTCTTT-TGAGCTT
48788273 CTATTGACGA
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
62 8 0.07
63 111 0.92
64 2 0.02
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (63 bp):
AGCTCTTTTGAGCTTTTGTTCAGCTCTTATGAGCTTCTGTTCAGATCTTTTGAGCTTTCGTTT
Found at i:48792405 original size:46 final size:46
Alignment explanation
Indices: 48792338--48792440 Score: 152
Period size: 46 Copynumber: 2.2 Consensus size: 46
48792328 AGGGGGGTGT
* *
48792338 TAGGATATTATTATAGGATATTATCTTTTAACAATTTGATTCCTAA
1 TAGGATATTATTATAGAATATTATCTCTTAACAATTTGATTCCTAA
* *
48792384 TAGGATGTTATTATAGAATATTATCTCTTATCAATTTGATTCCTAA
1 TAGGATATTATTATAGAATATTATCTCTTAACAATTTGATTCCTAA
* *
48792430 TGGGACATTAT
1 TAGGATATTAT
48792441 ACTATATTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.45
Consensus pattern (46 bp):
TAGGATATTATTATAGAATATTATCTCTTAACAATTTGATTCCTAA
Found at i:48793074 original size:7 final size:7
Alignment explanation
Indices: 48793062--48793090 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
48793052 TAATTTATTT
48793062 TTTCAAA
1 TTTCAAA
48793069 TTTCAAA
1 TTTCAAA
48793076 TTTCAAA
1 TTTCAAA
48793083 TTTCAAA
1 TTTCAAA
48793090 T
1 T
48793091 CCATATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (7 bp):
TTTCAAA
Found at i:48793443 original size:3 final size:3
Alignment explanation
Indices: 48793423--48793468 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
48793413 TTACGGTTAG
* *
48793423 AGA AAA AGA AGG AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
48793469 TAAAGATGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:48793866 original size:36 final size:36
Alignment explanation
Indices: 48793826--48793895 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
48793816 ATATAGTTGC
48793826 TGGTATATTGTTACGTATGTTGTTATACATGGCTGT
1 TGGTATATTGTTACGTATGTTGTTATACATGGCTGT
* *
48793862 TGGTATATTGTTGCTTATGTTGTTATACATGGCT
1 TGGTATATTGTTACGTATGTTGTTATACATGGCT
48793896 AACCAGCTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.19, C:0.09, G:0.24, T:0.49
Consensus pattern (36 bp):
TGGTATATTGTTACGTATGTTGTTATACATGGCTGT
Found at i:48795464 original size:24 final size:24
Alignment explanation
Indices: 48795433--48795492 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
48795423 ATATTATTTC
48795433 AATTTATCATATA-TCCTAATTTAA
1 AATTTATCATATACT-CTAATTTAA
* * *
48795457 AATTTATCATGTACTGTAATTTTA
1 AATTTATCATATACTCTAATTTAA
*
48795481 AACTTATCATAT
1 AATTTATCATAT
48795493 TATTATTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (24 bp):
AATTTATCATATACTCTAATTTAA
Found at i:48803498 original size:44 final size:44
Alignment explanation
Indices: 48803427--48803956 Score: 712
Period size: 44 Copynumber: 12.0 Consensus size: 44
48803417 AGTGACGTTA
* * *
48803427 TAAATCCTATCTCCCTGGACAGTAGTGGAATAGGTTAAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
48803471 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
** *
48803515 TAAGCCCTATCTCCCTGG-TCAGTAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGAT-AGCAGTGGAATAGGTTGAAGATTG
* * * *
48803559 TGAATCCTATCTCCCGGGACAGCAATGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
* * *
48803603 TAAATACTATCTCCTTGGACAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
*
48803647 TAAGTCCTATCTCCCTGG-TCAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGAT-AGCAGTGGAATAGGTTGAAGATTG
* * *
48803691 TAAGTTCTATCTCCCTGG-TCAGCAATGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGAT-AGCAGTGGAATAGGTTGAAGATTG
*
48803735 TAAGTCCTATCTCCCTGG-TCAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGAT-AGCAGTGGAATAGGTTGAAGATTG
* * *
48803779 TGAATCCTATCTCCTTGGACAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
*
48803823 TAAATCCTATCTCCCTAGATAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
* ** *
48803867 TAAGTCCTATCTCCCTGG-TCAATAATGGAATAGGTTGAAGATTG
1 TAAATCCTATCTCCCTGGAT-AGCAGTGGAATAGGTTGAAGATTG
* *
48803911 T-AACCCTTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG
1 TAAATCC-TATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
48803955 TA
1 TA
48803957 GGCATTATCT
Statistics
Matches: 433, Mismatches: 45, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
43 5 0.01
44 428 0.99
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (44 bp):
TAAATCCTATCTCCCTGGATAGCAGTGGAATAGGTTGAAGATTG
Found at i:48804008 original size:88 final size:87
Alignment explanation
Indices: 48803478--48804916 Score: 643
Period size: 88 Copynumber: 16.4 Consensus size: 87
48803468 TTGTAAATCC
* * * * *
48803478 TATCTCCCTG-GATAGCAGTGGAATAGGTTGAAGATTGTAAGCCCTATCTCCCTG-GTCAGTAGT
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAAG-CTTATCTCCCTGAGT-AGCAAT
* * ** *
48803541 GGAATAGGTTGAAGATT-GTGAATCC
63 GGAGTAGGTTGAAAATTACAG-ATCT
* * * * * * *
48803566 TATCTCCC-GGGACAGCAATGGAATAGGTTGAAGATTGTAA-ATACTATCTCCTTG-GACAGCAG
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAAGCT--TATCTCCCTGAG-TAGCAA
* * *
48803628 TGGAATAGGTTGAAGATTGTA-AG-TCC
62 TGGAGTAGGTTGAA-AAT-TACAGATCT
* *
48803654 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTAAGTTCTATCTCCCTG-GTCAGCAAT
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAAGCT-TATCTCCCTGAGT-AGCAAT
* * *
48803717 GGAATAGGTTGAAGATTGTA-AG-TCC
63 GGAGTAGGTTGAA-AAT-TACAGATCT
* * * * * *
48803742 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCTTG-GACAGCAGT
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGT-AAGCTTATCTCCCTGAG-TAGCAAT
* * ** * *
48803805 GGAATAGGTTGAAGATTGTAAATCC
63 GGAGTAGGTTGAAAATTACAGATCT
* * * **
48803830 TATCTCCCT-AGATAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTG-GTCAATAAT
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAAG-CTTATCTCCCTGAGT-AGCAAT
* * ** *
48803893 GGAATAGGTTGAAGATTGTA-ACCCT
63 GGAGTAGGTTGAAAATTACAGA-TCT
* *
48803918 TATCTCCCTG-GACAGCAGTGGAATAGGTTGAAGATTGTAGGCATTATCTCCCTGAGTAGCAATG
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAAGC-TTATCTCCCTGAGTAGCAATG
48803982 GAGTAGGTTGAAAATTACAGATCT
64 GAGTAGGTTGAAAATTACAGATCT
* * * * * * * * * * * *
48804006 TATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGGCGAATCTTATCTTCCTAATGTAG-TAGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTG-TAAGCTTATCTCCCTGA-GTAGCAATG
* * * *** *
48804070 GAAGCAGATT-TAAGCCACTA-ACCT
64 G-AGTAGGTTGAAAATTAC-AGATCT
* * *
48804094 TATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAATGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTA-AGCTTATCTCCCTGAGTAGCAATGG
48804159 AGTAGGTTGAAAATTACAGATCT
65 AGTAGGTTGAAAATTACAGATCT
* * * * * * * * * *
48804182 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCC-AAGGTAG-TAG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGT-AAGCTTATC-TCCCTGA-GTAGCAAT
* * *** *
48804245 GGAAGTAGATT-TAAGCCACTAG-CCT
63 GG-AGTAGGTTGAAAATTAC-AGATCT
* * * * *
48804270 TATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTAAGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAAG-CTTATCTCCCTGAGTAGCAATGG
48804335 AGTAGGTTGAAAATTACAGATCT
65 AGTAGGTTGAAAATTACAGATCT
* * * * * * * * * *
48804358 TATCGT-CCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCTAAATAG----G
1 TATC-TCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGT-AAGCTTATCTCCCTGAGTAGCAATG
* * * *** *
48804418 GAAGCAGATT-TAAGCCACTAG-CCT
64 G-AGTAGGTTGAAAATTAC-AGATCT
* * * * * * *
48804442 TATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGGCCTTATCTCTCTGAGCAACAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAAG-CTTATCTCCCTGAGTAGCAATGG
*
48804507 AGTAAGTTGAAAATTACAGATCT
65 AGTAGGTTGAAAATTACAGATCT
* * * * ** * * * *
48804530 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAATCTTATCTTCCC-AAGGTAG-TAG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGT-AAGCTTATC-TCCCTGA-GTAGCAAT
* * * ***
48804593 GGAAGCAGATT-TAAGCCACTAG-TCT
63 GG-AGTAGGTTGAAAATTAC-AGATCT
* * * * *
48804618 TATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAAG-CTTATCTCCCTGAGTAGCAATGG
* *
48804683 AGTAGGTTGAAAATTATATATCT
65 AGTAGGTTGAAAATTACAGATCT
* * * * ** * * * * *
48804706 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAATCTTATCTTCCTAATGTAG-TAGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGT-AAGCTTATCTCCCTGA-GTAGCAATG
* * * *** *
48804770 GAAGCAGATT-TAAGCCACTAG-CCT
64 G-AGTAGGTTGAAAATTAC-AGATCT
* * * *
48804794 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTAAGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTA-AGCTTATCTCCCTGAGTAGCAATGG
48804859 AGTAGGTTGAAAATTACAGATCT
65 AGTAGGTTGAAAATTACAGATCT
* * * * *
48804882 TATCTCCCTAAGCAGTAATGGAGTAGATCGAAGAT
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAT
48804917 GGCGAATCTT
Statistics
Matches: 1018, Mismatches: 262, Indels: 142
0.72 0.18 0.10
Matches are distributed among these distances:
83 2 0.00
84 47 0.05
85 8 0.01
86 1 0.00
87 69 0.07
88 824 0.81
89 65 0.06
90 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (87 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAAGCTTATCTCCCTGAGTAGCAATGGA
GTAGGTTGAAAATTACAGATCT
Found at i:48804009 original size:44 final size:44
Alignment explanation
Indices: 48803654--48804907 Score: 181
Period size: 44 Copynumber: 28.6 Consensus size: 44
48803644 TTGTAAGTCC
* * * *
48803654 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTA-AGTTC-
1 TATCTCCCTGAG-CAGCAATGGAGTAGGTTGAA-AAT-TACAGATCT
* * *
48803698 TATCTCCCTG-GTCAGCAATGGAATAGGTTGAAGATTGTA-AG-TCC
1 TATCTCCCTGAG-CAGCAATGGAGTAGGTTGAA-AAT-TACAGATCT
* * * ** *
48803742 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATT-GTGAATCC
1 TATCTCCCTGAG-CAGCAATGGAGTAGGTTGAAAATTACAG-ATCT
* * * * ** * *
48803786 TATCTCCTTG-GACAGCAGTGGAATAGGTTGAAGATTGTAAATCC
1 TATCTCCCTGAG-CAGCAATGGAGTAGGTTGAAAATTACAGATCT
* * * * *
48803830 TATCTCCCT-AGATAGCAGTGGAATAGGTTGAAGATTGTA-AG-TCC
1 TATCTCCCTGAG-CAGCAATGGAGTAGGTTGAA-AAT-TACAGATCT
** * * ** *
48803874 TATCTCCCTG-GTCAATAATGGAATAGGTTGAAGATTGTA-ACCCT
1 TATCTCCCTGAG-CAGCAATGGAGTAGGTTGAAAATTACAGA-TCT
* * * ** *
48803918 TATCTCCCTG-GACAGCAGTGGAATAGGTTGAAGATTGTAG-GCAT
1 TATCTCCCTGAG-CAGCAATGGAGTAGGTTGAAAATTACAGATC-T
*
48803962 TATCTCCCTGAGTAGCAATGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
* * * * * * * **
48804006 TATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGGC-GAATCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAG-ATCT
* * * * * * * * *** *
48804050 TATCTTCCTAATGTAG-TAGGGAAGCAGATT-TAAGCCACTA-ACCT
1 TATCTCCCTGA-GCAGCAATGG-AGTAGGTTGAAAATTAC-AGATCT
* * * ** *
48804094 TATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGACCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
48804138 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
* * * * * * * *
48804182 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT-GA-ATCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAAT--TACAGATCT
* * * * * * *** *
48804226 TATCTTCCC-AAGGTAG-TAGGGAAGTAGATT-TAAGCCACTAG-CCT
1 TATC-TCCCTGA-GCAGCAATGG-AGTAGGTTGAAAATTAC-AGATCT
** * ** **
48804270 TATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
* *
48804314 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
* * * * * * * *
48804358 TATCGT-CCTAAGCAGTAGTGGAGCAGATCGAAGATGGT-GA-ATCT
1 TATC-TCCCTGAGCAGCAATGGAGTAGGTTGAAAAT--TACAGATCT
* * * * * *** *
48804402 TATCTTCCT-A--A--ATAGGGAAGCAGATT-TAAGCCACTAG-CCT
1 TATCTCCCTGAGCAGCA-ATGG-AGTAGGTTGAAAATTAC-AGATCT
** ** **
48804442 TATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGGCCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
* * * *
48804486 TATCTCTCTGAGCAACAGTGGAGTAAGTTGAAAATTACAGATCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
* * * * * ** *
48804530 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGT-GA-ATCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAA-A-ATTACAGATCT
* * * * * * * ***
48804574 TATCTTCCC-AAGGTAG-TAGGGAAGCAGATT-TAAGCCACTAG-TCT
1 TATC-TCCCTGA-GCAGCAATGG-AGTAGGTTGAAAATTAC-AGATCT
** * ** **
48804618 TATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
* * * *
48804662 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTATATATCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
* * * * * ** *
48804706 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGT-GA-ATCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAA-A-ATTACAGATCT
* * * * * * * * *** *
48804750 TATCTTCCTAATGTAG-TAGGGAAGCAGATT-TAAGCCACTAG-CCT
1 TATCTCCCTGA-GCAGCAATGG-AGTAGGTTGAAAATTAC-AGATCT
* * ** *
48804794 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
* *
48804838 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
* *
48804882 TATCTCCCTAAGCAGTAATGGAGTAG
1 TATCTCCCTGAGCAGCAATGGAGTAG
48804908 ATCGAAGATG
Statistics
Matches: 893, Mismatches: 243, Indels: 148
0.70 0.19 0.12
Matches are distributed among these distances:
39 1 0.00
40 14 0.02
41 9 0.01
42 5 0.01
43 71 0.08
44 732 0.82
45 56 0.06
46 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTACAGATCT
Found at i:48804182 original size:132 final size:131
Alignment explanation
Indices: 48803961--48804209 Score: 295
Period size: 132 Copynumber: 1.9 Consensus size: 131
48803951 ATTGTAGGCA
* * * * *
48803961 TTATCTCCCTGAGTAGCAATGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTA
1 TTATCTCCCTGAGCAACAATGGAGTAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAGCAATA
* * * *
48804026 GAGTAGATCGAAGATGGCGAATCTTATCTTCCTAATGTAGTAG-GGAAGCAGATTTAAGCCACTA
66 GAGTAGATCGAAAATGACGAATCTTATCTCCCTAA-GCAGTAGTGG-AGCAGATTTAAGCCACTA
48804090 ACC
129 ACC
* * ** * *
48804093 TTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAATG
1 TTATCTCCCTGAGCAACAATGGAGTAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAGCAATA
* * *
48804158 GAGTAGGTTGAAAATTAC-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
66 GAGTAGATCGAAAATGACGA-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
48804210 CGAAGATGGT
Statistics
Matches: 97, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
131 14 0.14
132 83 0.86
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (131 bp):
TTATCTCCCTGAGCAACAATGGAGTAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAGCAATA
GAGTAGATCGAAAATGACGAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACTAAC
C
Found at i:48804912 original size:524 final size:526
Alignment explanation
Indices: 48803915--48805009 Score: 1793
Period size: 524 Copynumber: 2.1 Consensus size: 526
48803905 AGATTGTAAC
* * *
48803915 CCTTATCTCCCTG-GACAGCAGTGGAATAGGTTGAAGATTGTAGGCATTATCTCCCTGAGTAGCA
1 CCTTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAGGCATTATCTCCCTGAGCAACA
* *
48803979 ATGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGGC
65 ATGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGACGGC
* *
48804044 GAATCTTATCTTCCTAATGTAGTAGGGAAGCAGATTTAAGCCACTAACCTTATCTCCCTGAGCAA
130 GAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAACCTTATCTCCCTGAGCAA
*
48804109 CAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATT
195 CAGCGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATT
*
48804174 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGG
260 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGG
*
48804239 TAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGA
325 TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGA
*
48804304 TTGTAGGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCGTCCTAA
390 TTGTAGACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCGTCCTAA
* * *
48804369 GCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCTAA-A-TAGGGAAGCAGATTTAAG
455 GCAGTAATGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGAGTAGGGAAGCAGATTTAAG
48804432 CCACTAG
520 CCACTAG
* * * * *
48804439 CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGGCCTTATCTCTCTGAGCAACAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCATTATCTCCCTGAGCAACAA
* *
48804504 TGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTG
66 TGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGACGGCG
** *
48804569 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTCTTATCTCCCTGAGCAGC
131 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAACCTTATCTCCCTGAGCAAC
* * *
48804634 AGCGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTA
196 AGCGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTA
* * * * *
48804699 TATATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGAATCTTATCTTCCTAATGT
261 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGT
*
48804764 AGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAT
326 AGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGAT
48804829 TGTAGACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATC-TCCCTAA
391 TGTAGACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCGT-CCTAA
*
48804893 GCAGTAATGGAGTAGATCGAAGATGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
455 GCAGTAATGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAA-G-AGTAGGGAAGCAGATTTA
48804958 AGCCACTAG
518 AGCCACTAG
* * *
48804967 CCTTATCTCCTTGAGCAACAGTGGAGTAGGTCGAAGATTGTAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG
48805010 ATCTTGTCTT
Statistics
Matches: 526, Mismatches: 39, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
523 1 0.00
524 460 0.87
525 1 0.00
527 1 0.00
528 63 0.12
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (526 bp):
CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCATTATCTCCCTGAGCAACAA
TGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGACGGCG
AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAACCTTATCTCCCTGAGCAAC
AGCGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTA
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGT
AGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGAT
TGTAGACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCGTCCTAAG
CAGTAATGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGAGTAGGGAAGCAGATTTAAGC
CACTAG
Found at i:48804926 original size:44 final size:44
Alignment explanation
Indices: 48804002--48804930 Score: 310
Period size: 44 Copynumber: 21.2 Consensus size: 44
48803992 AAAATTACAG
* *
48804002 ATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
* * * * *** *
48804046 ATCTTATCTTCCTAATGTAGTAG-GGAAGCAGATTTAAG-CCACTA
1 ATCTTATCTCCCTAA-GCAGTAGTGG-AGTAGATTGAAGATGGCGA
* * ** * * *
48804090 ACCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTG-TA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
* * * * * * **
48804133 GACCTTATCTCCCTGAGCAGCAATGGAGTAGGTTGAAAATTAC-A
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
* * *
48804177 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
* * *** *
48804222 ATCTTATCTTCCC-AAGGTAGTAG-GGAAGTAGATTTAAG-CCACTA
1 ATCTTATC-TCCCTAA-GCAGTAGTGG-AGTAGATTGAAGATGGCGA
** * * * * * *
48804266 GCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTG-TA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
** * * * **
48804309 GGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTAC-A
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
* * *
48804353 GATCTTATCGT-CCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGA
1 -ATCTTATC-TCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
* * * *** *
48804398 ATCTTATCTTCCTAA--A-TAG-GGAAGCAGATTTAAG-CCACTA
1 ATCTTATCTCCCTAAGCAGTAGTGG-AGTAGATTGAAGATGGCGA
** * * * * * * *
48804438 GCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTG-TA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
** * * ** * **
48804481 GGCCTTATCTCTCTGAGCAACAGTGGAGTA-AGTTGAAAATTAC-A
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGA-TTGAAGATGGCGA
* * *
48804525 GATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
* * * *** *
48804570 ATCTTATCTTCCC-AAGGTAGTAG-GGAAGCAGATTTAAG-CCACTA
1 ATCTTATC-TCCCTAA-GCAGTAGTGG-AGTAGATTGAAGATGGCGA
* * * * * * *
48804614 GTCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTG-TA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
** * * * ***
48804657 GGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAAT-TATA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
* * *
48804701 TATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
* * * * *** *
48804746 ATCTTATCTTCCTAATGTAGTAG-GGAAGCAGATTTAAG-CCACTA
1 ATCTTATCTCCCTAA-GCAGTAGTGG-AGTAGATTGAAGATGGCGA
** * * * * *
48804790 GCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTG-TA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
* * * * **
48804833 GACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTAC-A
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
* *
48804877 GATCTTATCTCCCTAAGCAGTAATGGAGTAGATCGAAGATGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
48804922 ATCTTATCT
1 ATCTTATCT
48804931 TCCCAAGGTA
Statistics
Matches: 667, Mismatches: 173, Indels: 90
0.72 0.19 0.10
Matches are distributed among these distances:
40 14 0.02
41 13 0.02
42 2 0.00
43 85 0.13
44 478 0.72
45 75 0.11
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGA
Found at i:48805010 original size:176 final size:176
Alignment explanation
Indices: 48803915--48805009 Score: 1779
Period size: 176 Copynumber: 6.2 Consensus size: 176
48803905 AGATTGTAAC
* * *
48803915 CCTTATCTCCCTG-GACAGCAGTGGAATAGGTTGAAGATTGTAGGCATTATCTCCCTGAGTAGCA
1 CCTTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCA
* * *
48803979 ATGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGGC
65 GTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGT
* * *
48804044 GAATCTTATCTTCCTAATGTAGTAGGGAAGCAGATTTAAGCCACTAA
130 GAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
* * *
48804091 CCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAA
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
*
48804156 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTG
66 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTG
*
48804221 AATCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACTAG
131 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
* *
48804267 CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTAAGCAGCAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
*
48804332 TGGAGTAGGTTGAAAATTACAGATCTTATCGT-CCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
66 TGGAGTAGGTTGAAAATTACAGATCTTATC-TCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGT
*
48804396 GAATCTTATCTTCCTAA---A-TAGGGAAGCAGATTTAAGCCACTAG
130 GAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
* * * *
48804439 CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGGCCTTATCTCTCTGAGCAACAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
* *
48804504 TGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTG
66 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTG
48804569 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
131 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
* * *
48804615 TCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGTAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
* * *
48804680 TGGAGTAGGTTGAAAATTATATATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTG
66 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTG
* *
48804745 AATCTTATCTTCCTAATGTAGTAGGGAAGCAGATTTAAGCCACTAG
131 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
* *
48804791 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCTTATCTCCCTAAGCAGCAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
* *
48804856 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAATGGAGTAGATCGAAGATGGCG
66 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTG
48804921 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
131 AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
* * *
48804967 CCTTATCTCCTTGAGCAACAGTGGAGTAGGTCGAAGATTGTAG
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG
48805010 ATCTTGTCTT
Statistics
Matches: 860, Mismatches: 52, Indels: 14
0.93 0.06 0.02
Matches are distributed among these distances:
171 1 0.00
172 160 0.19
173 1 0.00
175 1 0.00
176 695 0.81
177 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (176 bp):
CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGGCCTTATCTCCCTGAGCAGCAG
TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGTG
AATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
Found at i:48805014 original size:88 final size:88
Alignment explanation
Indices: 48804003--48805020 Score: 579
Period size: 88 Copynumber: 11.6 Consensus size: 88
48803993 AAATTACAGA
* * * * ** * * *
48804003 TCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGA-TGGCGAATCTTATCTTCCTAATGTAGT
1 TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAG-ATCTTATCTTCCCAAGGCAGT
* *
48804067 AGGGAAGCAGATTTAAGCCACTAA
65 AGGGAAGTAGATTTAAGCCACTAG
* * * * *
48804091 CCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGACCTTATC-TCCC-TGAGCAGC
1 TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTTCCCAAG-GCAG-
* * * * ***
48804154 AATGG-AGTAGGTTGAAAATTAC-AG
64 TAGGGAAGTAGATT-TAAGCCACTAG
* * * * * *
48804178 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT-GAATCTTATCTTCCCAAGGTAG
1 -TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAG-ATCTTATCTTCCCAAGGCAG
48804242 TAGGGAAGTAGATTTAAGCCACTAG
64 TAGGGAAGTAGATTTAAGCCACTAG
* * * ** *
48804267 CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCTTATC-TCCCTAA-GCAGC
1 TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTTCCC-AAGGCAGT
* * ***
48804330 AGTGG-AGTAGGTTGAAAATTAC-AG
65 AG-GGAAGTAGATT-TAAGCCACTAG
* * * * * *
48804354 ATCTTATCGT-CCTAAGCAGTAGTGGAGCAGATCGAAGATGGT-GAATCTTATCTTCCTAA---A
1 -TCTTATC-TCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAG-ATCTTATCTTCCCAAGGCA
*
48804414 -TAGGGAAGCAGATTTAAGCCACTAG
63 GTAGGGAAGTAGATTTAAGCCACTAG
* * * * ** * * **
48804439 CCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGGCCTTATC-TCTC-TGAGCAAC
1 TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTTCCCAAG-GCAGT
* ***
48804502 AGTGG-AGTA-AGTTGAAAATTAC-AG
65 AG-GGAAGTAGA-TT-TAAGCCACTAG
* * * ** *
48804526 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGT-GAATCTTATCTTCCCAAGGTAG
1 -TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAG-ATCTTATCTTCCCAAGGCAG
*
48804590 TAGGGAAGCAGATTTAAGCCACTAG
64 TAGGGAAGTAGATTTAAGCCACTAG
* * ** *
48804615 TCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGGCCTTATC-TCCC-TGAGCAGT
1 TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTTCCCAAG-GCAGT
* * *** *
48804678 AGTGG-AGTAGGTTGAAAATTA-TATA
65 AG-GGAAGTAGATT-TAAGCCACTA-G
* * * ** * * *
48804703 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGT-GAATCTTATCTTCCTAATGTAGT
1 TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAG-ATCTTATCTTCCCAAGGCAGT
*
48804767 AGGGAAGCAGATTTAAGCCACTAG
65 AGGGAAGTAGATTTAAGCCACTAG
* * * *
48804791 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCTTATC-TCCCTAA-GCAGC
1 TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTTCCC-AAGGCAGT
* * ***
48804854 AGTGG-AGTAGGTTGAAAATTAC-AG
65 AG-GGAAGTAGATT-TAAGCCACTAG
* * * * ** *
48804878 ATCTTATCTCCCTAAGCAGTAATGGAGTAGATCGAAGA-TGGCGAATCTTATCTTCCCAAGGTAG
1 -TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAG-ATCTTATCTTCCCAAGGCAG
*
48804942 TAGGGAAGCAGATTTAAGCCACTAG
64 TAGGGAAGTAGATTTAAGCCACTAG
* * * *
48804967 CCTTATCTCCTTGAGCAACAGTGGAGTAGGTCGAAGATTGTAGATCTTGTCTTC
1 TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTTC
48805021 TTGTACTGGC
Statistics
Matches: 673, Mismatches: 199, Indels: 116
0.68 0.20 0.12
Matches are distributed among these distances:
83 3 0.00
84 42 0.06
85 11 0.02
86 4 0.01
87 81 0.12
88 452 0.67
89 77 0.11
90 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTTCCCAAGGCAGTA
GGGAAGTAGATTTAAGCCACTAG
Found at i:48806801 original size:24 final size:24
Alignment explanation
Indices: 48806770--48806829 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
48806760 ATATTATTTC
*
48806770 AATTTATCATATA-TCCTAATTTAA
1 AATTTATCATATACT-ATAATTTAA
* *
48806794 AATTTATCATGTACTATAATTTTA
1 AATTTATCATATACTATAATTTAA
*
48806818 AACTTATCATAT
1 AATTTATCATAT
48806830 TATTATTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.47
Consensus pattern (24 bp):
AATTTATCATATACTATAATTTAA
Found at i:48808493 original size:22 final size:24
Alignment explanation
Indices: 48808457--48808501 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
48808447 TGAAAAAAAA
*
48808457 ACATTTGTATTTCTCAATTCTCAC
1 ACATTTGTATTTCTCAATACTCAC
48808481 ACATTT-T-TTTCTCAATACTCA
1 ACATTTGTATTTCTCAATACTCA
48808502 TATGTTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (24 bp):
ACATTTGTATTTCTCAATACTCAC
Found at i:48809711 original size:25 final size:26
Alignment explanation
Indices: 48809677--48809737 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
48809667 ACATGCATAT
*
48809677 TATTAAAAAATACTC-ACCGCATGCA
1 TATTAAAAAATACTCAACAGCATGCA
* *
48809702 TATTAAAAAATAGTCAACAGCATGTA
1 TATTAAAAAATACTCAACAGCATGCA
48809728 TATTAAAAAA
1 TATTAAAAAA
48809738 ATAGTCATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 14 0.44
26 18 0.56
ACGTcount: A:0.51, C:0.15, G:0.08, T:0.26
Consensus pattern (26 bp):
TATTAAAAAATACTCAACAGCATGCA
Found at i:48809724 original size:26 final size:25
Alignment explanation
Indices: 48809652--48809744 Score: 98
Period size: 28 Copynumber: 3.5 Consensus size: 25
48809642 CACACACACC
48809652 TAAAAAATAGTCACTA-CATGCATATTAT
1 TAAAAAATAGTCAC-AGCATGC--A-TAT
* *
48809680 TAAAAAATACTCACCGCATGCATAT
1 TAAAAAATAGTCACAGCATGCATAT
*
48809705 TAAAAAATAGTCAACAGCATGTATAT
1 TAAAAAATAGTC-ACAGCATGCATAT
48809731 TAAAAAAATAGTCA
1 T-AAAAAATAGTCA
48809745 TACACACCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
25 14 0.25
26 14 0.25
27 11 0.19
28 18 0.32
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (25 bp):
TAAAAAATAGTCACAGCATGCATAT
Found at i:48811518 original size:15 final size:15
Alignment explanation
Indices: 48811500--48811545 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
48811490 CTTTCAACTG
*
48811500 TATCACTACCAGATA
1 TATCACTACCAGACA
48811515 TATCACTACCAGACA
1 TATCACTACCAGACA
**
48811530 CGTCACTACCAGACA
1 TATCACTACCAGACA
48811545 T
1 T
48811546 TTCTTCTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.37, C:0.33, G:0.09, T:0.22
Consensus pattern (15 bp):
TATCACTACCAGACA
Found at i:48812008 original size:6 final size:6
Alignment explanation
Indices: 48811991--48812050 Score: 84
Period size: 6 Copynumber: 10.0 Consensus size: 6
48811981 AACCCTAAAC
* * * *
48811991 CAAAAT TAAAAT CGAAAT CGAAAT CAAAAT TAAAAT CAAAAT CAAAAT
1 CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT CAAAAT
48812039 CAAAAT CAAAAT
1 CAAAAT CAAAAT
48812051 TGAAATCGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.20
Consensus pattern (6 bp):
CAAAAT
Found at i:48812018 original size:24 final size:24
Alignment explanation
Indices: 48811991--48812062 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
48811981 AACCCTAAAC
48811991 CAAAATTAAAATCGAAATCGAAAT
1 CAAAATTAAAATCGAAATCGAAAT
* *
48812015 CAAAATTAAAATCAAAATCAAAAT
1 CAAAATTAAAATCGAAATCGAAAT
* *
48812039 CAAAATCAAAATTGAAATCGAAAT
1 CAAAATTAAAATCGAAATCGAAAT
48812063 AACCCTAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (24 bp):
CAAAATTAAAATCGAAATCGAAAT
Found at i:48812056 original size:6 final size:6
Alignment explanation
Indices: 48811999--48812062 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
48811989 ACCAAAATTA
* ** * * * *
48811999 AAATCG AAATCG AAATCA AAATTA AAATCA AAATCA AAATCA AAATCA
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG
*
48812047 AAATTG AAATCG AAAT
1 AAATCG AAATCG AAAT
48812063 AACCCTAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.20
Consensus pattern (6 bp):
AAATCG
Found at i:48821106 original size:13 final size:13
Alignment explanation
Indices: 48821073--48821099 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48821063 TTTTAAAAAG
48821073 TATTTTTGAGAAA
1 TATTTTTGAGAAA
48821086 TATTTTTGAGAAA
1 TATTTTTGAGAAA
48821099 T
1 T
48821100 TTGTTTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TATTTTTGAGAAA
Found at i:48823673 original size:11 final size:11
Alignment explanation
Indices: 48823657--48823688 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
48823647 TCAAACTCTT
48823657 AATCAACAGCA
1 AATCAACAGCA
*
48823668 AATCAACAACA
1 AATCAACAGCA
48823679 AATCAACAGC
1 AATCAACAGC
48823689 TTCAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.56, C:0.28, G:0.06, T:0.09
Consensus pattern (11 bp):
AATCAACAGCA
Found at i:48830867 original size:97 final size:97
Alignment explanation
Indices: 48830745--48831270 Score: 656
Period size: 97 Copynumber: 5.4 Consensus size: 97
48830735 TCGCATATCG
* * * *
48830745 GTGCCGATGACATGTCCCAGACATGGTCTTACATTGGTACTCATCTCGAGCTGATGCCATGTCCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCC
* * *
48830810 ATACATGGTCTTACACTGACTCTCCTCTGTCT
66 AGACATGGTCTTACACTAACTCTCCTCGGTCT
* *
48830842 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCTGATGCCATGTCCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCC
48830907 AGACATGGTCTTACACTAACTCTCCTCGGTCT
66 AGACATGGTCTTACACTAACTCTCCTCGGTCT
*
48830939 GTGCCGATGCCATGTTCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCC
* ** *
48831004 AAACATGGTCTTACACTAACTCTCCTCTATCC
66 AGACATGGTCTTACACTAACTCTCCTCGGTCT
* * * * * * * *
48831036 GTGTCGATGTCATGTTCCAGACATGTTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATAT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC--TC-GAGCCGATGCCATGT
** * *
48831101 CCCAGACATGGTCTTACACTGGCACTCATCGGTCT
63 CCCAGACATGGTCTTACACTAACTCTCCTCGGTCT
* * * * *
48831136 GTGCCAATGCCATGTCCCAGACATGGTCTTACACTGACTCTCCTCTGTCTGTGCCGATGCCATGT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC--TC-GAGCCGATGCCATGT
* * * *
48831201 TCCAGACATGGTCTTACACTAGCACTACTCGGTCT
63 CCCAGACATGGTCTTACACTAACTCTCCTCGGTCT
* * *
48831236 ATGCCGATGCCATGTCCCTGTCATGGTCTTACACT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACT
48831271 AGAACATTCA
Statistics
Matches: 379, Mismatches: 47, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
97 220 0.58
99 2 0.01
100 157 0.41
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.29
Consensus pattern (97 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCGAGCCGATGCCATGTCCC
AGACATGGTCTTACACTAACTCTCCTCGGTCT
Found at i:48831271 original size:50 final size:50
Alignment explanation
Indices: 48830745--48831272 Score: 583
Period size: 50 Copynumber: 10.7 Consensus size: 50
48830735 TCGCATATCG
* * * * *
48830745 GTGCCGATGACATGTCCCAGACATGGTCTTACATTGGTACTCATC--TC-
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCT
* * * * *
48830792 GAGCTGATGCCATGTCCCATACATGGTCTTACACT-GACTCTCCTCTGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CACTCCTCGGTCT
* *
48830842 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC--TC-
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCT
* * * * *
48830889 GAGCTGATGCCATGTCCTAGACATGGTCTTACACTAACTCTCCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCT
* * *
48830939 GTGCCGATGCCATGTTCCAGACATGGTCTTACACTGGCACTCATC--TC-
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCT
* * * * ** *
48830986 GAGCCGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCCTCTATCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCT
* * * *
48831036 GTGTCGATGTCATGTTCCAGACATGTTCTTACACTAGCACTCCTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCT
* * *
48831086 GTGCCGATGCCATATCCCAGACATGGTCTTACACTGGCACTCATCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCT
* * *
48831136 GTGCCAATGCCATGTCCCAGACATGGTCTTACACT-GACTCTCCTCTGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CACTCCTCGGTCT
* *
48831186 GTGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCACTACTCGGTCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCT
* * *
48831236 ATGCCGATGCCATGTCCCTGTCATGGTCTTACACTAG
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
48831273 AACATTCACT
Statistics
Matches: 401, Mismatches: 67, Indels: 23
0.82 0.14 0.05
Matches are distributed among these distances:
46 1 0.00
47 111 0.28
48 4 0.01
49 7 0.02
50 276 0.69
51 2 0.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (50 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGGTCT
Found at i:48831299 original size:150 final size:146
Alignment explanation
Indices: 48830745--48831299 Score: 547
Period size: 147 Copynumber: 3.8 Consensus size: 146
48830735 TCGCATATCG
* * * * * * * *
48830745 GTGCCGATGACATGTCCCAGACATGGTCTTACATTGGTACTCATC--TC-GAGCTGATGCCATGT
1 GTGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATGT
* * * * * *
48830807 CCCATACATGGTCTTACACTGACTCTCCTCTGTC-TGTGCCGATGCCATGTCCCAGACATGGTCT
66 CCCAGACATGGTCTTACACTGGCACTCATCTGCCATGT-CC-A-ACCATGTCCCAGACATGGTCT
* * *
48830871 TACACTGGCACTCATC-TC
128 TACACTGACTCTCCTCTTC
* * * *
48830889 GAGCTGATGCCATG-TCCTAGACATGGTCTTACACTAACTCTCCTCGGTCTGTGCCGATGCCATG
1 GTGCCGATGCCATGTTCC-AGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATG
* * * *
48830953 TTCCAGACATGGTCTTACACTGGCACTCATCT-CGA-G-CCGATGCCATGTCCCAAACATGGTCT
65 TCCCAGACATGGTCTTACACTGGCACTCATCTGCCATGTCC-A-ACCATGTCCCAGACATGGTCT
*
48831015 TACACTAACTCTCCTCTATCC
128 TACACTGACTCTCCTCT-T-C
* * * *
48831036 GTGTCGATGTCATGTTCCAGACATGTTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATAT
1 GTGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATGT
* *
48831101 CCCAGACATGGTCTTACACTGGCACTCATCGGTC-TGTGCCAATGCCATGTCCCAGACATGGTCT
66 CCCAGACATGGTCTTACACTGGCACTCATCTGCCATGT-CCAA--CCATGTCCCAGACATGGTCT
48831165 TACACTGACTCTCCTCTGTC
128 TACACTGACTCTCCTCT-TC
* *
48831185 TGTGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCACTACTCGGTCTATGCCGATGCCATG
1 -GTGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATG
* * * *
48831250 TCCCTGTCATGGTCTTACACTAGAACATTCA-CTGCCATGGTCCAACCATG
65 TCCCAGACATGGTCTTACACT-G-GCACTCATCTGCCAT-GTCCAACCATG
48831300 GTCTTTTCGG
Statistics
Matches: 339, Mismatches: 52, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
143 2 0.01
144 69 0.20
146 4 0.01
147 122 0.36
148 4 0.01
149 2 0.01
150 120 0.35
151 4 0.01
152 10 0.03
153 2 0.01
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.29
Consensus pattern (146 bp):
GTGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCACTCCTCGGTCTGTGCCGATGCCATGT
CCCAGACATGGTCTTACACTGGCACTCATCTGCCATGTCCAACCATGTCCCAGACATGGTCTTAC
ACTGACTCTCCTCTTC
Found at i:48834761 original size:41 final size:41
Alignment explanation
Indices: 48834716--48834836 Score: 111
Period size: 41 Copynumber: 3.0 Consensus size: 41
48834706 AATCTAGATA
*
48834716 TGATACACC-GACACGAAGCCTGCTAGACATAAAGCCTGATC
1 TGATACACCAG-CACAAAGCCTGCTAGACATAAAGCCTGATC
* * * *
48834757 TGATACACCAGCATAAAGTCTGCTAGGCATAAAGCCTGATA
1 TGATACACCAGCACAAAGCCTGCTAGACATAAAGCCTGATC
** * * * *
48834798 AAACT-CACCGGCATAAAGCCTGCTAGGCACAAAGCCTGA
1 TGA-TACACCAGCACAAAGCCTGCTAGACATAAAGCCTGA
48834837 ATATCACTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 66 0.97
42 2 0.03
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (41 bp):
TGATACACCAGCACAAAGCCTGCTAGACATAAAGCCTGATC
Found at i:48835015 original size:14 final size:15
Alignment explanation
Indices: 48834995--48835032 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
48834985 ATCAGTAGGA
48834995 AAAATTCATACA-AT
1 AAAATTCATACATAT
*
48835009 TAAATTCA-ACATAT
1 AAAATTCATACATAT
48835023 AAAATTCATA
1 AAAATTCATA
48835033 TACATTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATTCATACATAT
Found at i:48838221 original size:30 final size:30
Alignment explanation
Indices: 48838166--48838222 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
48838156 CTGAACTTTG
*
48838166 GGGCAAAAGCGTAATTATGTAAAAGTTTAA
1 GGGCAAAAGCGTAATTATGCAAAAGTTTAA
* * *
48838196 GGGCAAAATCGTAATTTTGCCAAAGTT
1 GGGCAAAAGCGTAATTATGCAAAAGTT
48838223 AGAGTCAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.28
Consensus pattern (30 bp):
GGGCAAAAGCGTAATTATGCAAAAGTTTAA
Found at i:48838640 original size:50 final size:50
Alignment explanation
Indices: 48838560--48838752 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
48838550 ATTTGGGTAA
*
48838560 AGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
48838610 AGAGGTCACATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
48838660 AGAAGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
48838710 AGAATATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 AG-AGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
48838753 TGTTATTATC
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 91 0.73
51 33 0.27
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:48838695 original size:100 final size:101
Alignment explanation
Indices: 48838564--48838752 Score: 290
Period size: 100 Copynumber: 1.9 Consensus size: 101
48838554 GGGTAAAGAG
* *
48838564 GTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAG-AGGTCACATGTAAGAC
1 GTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAAGATCACATGTAAGAC
*
48838628 CATGTCTGGGACATGGCGTTGGCACCGAGATGAGAA
66 CATGTCTGGGACATGACGTTGGCACCGAGATGAGAA
* * * * *
48838664 GTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAATATCCCATGTAAGAC
1 GTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAAGATCACATGTAAGAC
*
48838729 CATGTCTGGGACATGACTTTGGCA
66 CATGTCTGGGACATGACGTTGGCA
48838753 TGTTATTATC
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 44 0.56
101 35 0.44
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (101 bp):
GTCCCACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAAGATCACATGTAAGAC
CATGTCTGGGACATGACGTTGGCACCGAGATGAGAA
Found at i:48839308 original size:31 final size:31
Alignment explanation
Indices: 48839273--48839334 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
48839263 TGATATGTAA
48839273 GTATCTGATGATGAATGGTTGTTAAAATGGC
1 GTATCTGATGATGAATGGTTGTTAAAATGGC
*
48839304 GTATCTGATGATGAATGGTTTTTAAAATGGC
1 GTATCTGATGATGAATGGTTGTTAAAATGGC
48839335 TAAGTATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.37
Consensus pattern (31 bp):
GTATCTGATGATGAATGGTTGTTAAAATGGC
Found at i:48840451 original size:40 final size:38
Alignment explanation
Indices: 48840383--48840519 Score: 125
Period size: 40 Copynumber: 3.5 Consensus size: 38
48840373 CCAGTTTGGT
**
48840383 ACCCAGTGTCTCATCGGA-TAATTTGAAGTAATAGTTTGAC
1 ACCCAGTGTCTCATC-GACTAATCCGAAGTAATA--TTGAC
* *
48840423 ACCCAGTGTCTCATCGACTAAACCGAAGTAA-ATTGGC
1 ACCCAGTGTCTCATCGACTAATCCGAAGTAATATTGAC
* * * * *
48840460 ACCCAATGCCTCATCGAATTAATCCAAAGTAGTAAATTGAC
1 ACCCAGTGTCTCATCG-ACTAATCCGAAGTA--ATATTGAC
48840501 ACCCAGTGTCTCATCGACT
1 ACCCAGTGTCTCATCGACT
48840520 CGAAGTCAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
37 18 0.23
38 11 0.14
39 3 0.04
40 28 0.35
41 19 0.24
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (38 bp):
ACCCAGTGTCTCATCGACTAATCCGAAGTAATATTGAC
Found at i:48841466 original size:5 final size:5
Alignment explanation
Indices: 48841458--48841513 Score: 94
Period size: 5 Copynumber: 10.8 Consensus size: 5
48841448 ATTTTATTAT
48841458 TATAA TATAA TATAA TATAA TATAA TATAATA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TAT-A-A TATAA TATAA TATAA TATAA
48841510 TATA
1 TATA
48841514 TACTTAAGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
5 43 0.88
6 2 0.04
7 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:48841495 original size:22 final size:22
Alignment explanation
Indices: 48841458--48841515 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
48841448 ATTTTATTAT
48841458 TATAATAT-A-ATATAATATAA
1 TATAATATAATATATAATATAA
48841478 TATAATATAATATATAATATAA
1 TATAATATAATATATAATATAA
48841500 TATAATATAATATATA
1 TATAATATAATATATA
48841516 CTTAAGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.22
21 1 0.03
22 27 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TATAATATAATATATAATATAA
Found at i:48841532 original size:24 final size:24
Alignment explanation
Indices: 48841505--48841563 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
48841495 TATAATATAA
48841505 TATAATATATACTTAAGTAAATAT
1 TATAATATATACTTAAGTAAATAT
48841529 TATAATATATACTTAAGTAAATAT
1 TATAATATATACTTAAGTAAATAT
48841553 TATAATATATA
1 TATAATATATA
48841564 TTTTTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (24 bp):
TATAATATATACTTAAGTAAATAT
Found at i:48841532 original size:29 final size:26
Alignment explanation
Indices: 48841471--48841563 Score: 117
Period size: 24 Copynumber: 3.7 Consensus size: 26
48841461 AATATAATAT
48841471 AATATAATATAATATAATA-TATAA-TA
1 AATATAATATAATAT-ATACT-TAAGTA
48841497 TAATATAATATAATATATACTTAAGTA
1 -AATATAATATAATATATACTTAAGTA
48841524 AATAT--TATAATATATACTTAAGTA
1 AATATAATATAATATATACTTAAGTA
48841548 AATAT--TATAATATATA
1 AATATAATATAATATATA
48841564 TTTTTAATTT
Statistics
Matches: 64, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
24 35 0.55
26 11 0.17
27 18 0.28
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
AATATAATATAATATATACTTAAGTA
Found at i:48844899 original size:30 final size:29
Alignment explanation
Indices: 48844869--48844923 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
48844859 AAAAGCCTTT
48844869 TTTTTTAA--ATTTACCGAAATGGGCCAC
1 TTTTTTAATTATTTACCGAAATGGGCCAC
*
48844896 TTTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTTAATTATTTACCGAAATGGGCCA
48844924 ATTCCGCGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 8 0.32
29 17 0.68
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (29 bp):
TTTTTTAATTATTTACCGAAATGGGCCAC
Found at i:48845182 original size:22 final size:22
Alignment explanation
Indices: 48845126--48845184 Score: 100
Period size: 22 Copynumber: 2.6 Consensus size: 22
48845116 TTTGCACAAA
*
48845126 CAAATATTCTCTCAATTTCCTTC
1 CAAA-ATTCTCTTAATTTCCTTC
48845149 CAAAATTCTCTTAATTTCCTTC
1 CAAAATTCTCTTAATTTCCTTC
48845171 CAAAATTCTCTTAA
1 CAAAATTCTCTTAA
48845185 ACTCTCAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
CAAAATTCTCTTAATTTCCTTC
Found at i:48845217 original size:52 final size:52
Alignment explanation
Indices: 48845134--48845233 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
48845124 AACAAATATT
* * * * *
48845134 CTCTCAATTTCCTTCCAAAATTCTCTTAATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
48845186 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
48845234 CAAATCCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.30, C:0.31, G:0.00, T:0.39
Consensus pattern (52 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
Found at i:48845225 original size:21 final size:22
Alignment explanation
Indices: 48845186--48845238 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
48845176 TTCTCTTAAA
48845186 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
48845208 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
48845230 CTCTCAAAT
1 CTCTCAAAT
48845239 CCATATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:48845308 original size:18 final size:18
Alignment explanation
Indices: 48845284--48845334 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
48845274 TTTTAAGAAA
*
48845284 ATTTTAAATATTTTTATT
1 ATTTTAAATATTTTTAAT
* *
48845302 TTTTTAAAATAATTTTAAT
1 ATTTT-AAATATTTTTAAT
*
48845321 ATTTTGAATATTTT
1 ATTTTAAATATTTT
48845335 CAACAATGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTAAATATTTTTAAT
Found at i:48845308 original size:29 final size:28
Alignment explanation
Indices: 48845270--48845325 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
48845260 ATTCAATTTC
48845270 ATTTTTTTAAGAA-AATTTTAAATATTTTT
1 ATTTTTTTAA-AATAATTTT-AATATTTTT
48845299 ATTTTTTTAAAATAATTTTAATATTTT
1 ATTTTTTTAAAATAATTTTAATATTTT
48845326 GAATATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
ATTTTTTTAAAATAATTTTAATATTTTT
Found at i:48845334 original size:29 final size:29
Alignment explanation
Indices: 48845273--48845334 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
48845263 CAATTTCATT
* *
48845273 TTTTTAAGAAAATTTTAAATATTTTTATT
1 TTTTTAAGAAAATTTTAAATATTTTAATA
48845302 TTTTTAA-AATAATTTT-AATATTTTGAATA
1 TTTTTAAGAA-AATTTTAAATATTTT-AATA
48845331 TTTT
1 TTTT
48845335 CAACAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (29 bp):
TTTTTAAGAAAATTTTAAATATTTTAATA
Found at i:48845454 original size:14 final size:15
Alignment explanation
Indices: 48845425--48845458 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
48845415 AAATTTTAAA
48845425 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
48845440 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
48845454 TTTTA
1 TTTTA
48845459 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:48846429 original size:7 final size:7
Alignment explanation
Indices: 48846417--48846441 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48846407 AGTGGATTGA
48846417 TATTTAG
1 TATTTAG
48846424 TATTTAG
1 TATTTAG
48846431 TATTTAG
1 TATTTAG
48846438 TATT
1 TATT
48846442 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:48847322 original size:24 final size:24
Alignment explanation
Indices: 48847295--48847350 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
48847285 GCATGGCTTT
48847295 CAAACACCCTCGCCGTTCATGATG
1 CAAACACCCTCGCCGTTCATGATG
*
48847319 CAAACACCGTCGCCGTTCATGATG
1 CAAACACCCTCGCCGTTCATGATG
48847343 CAAACACC
1 CAAACACC
48847351 TCCACATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.38, G:0.16, T:0.18
Consensus pattern (24 bp):
CAAACACCCTCGCCGTTCATGATG
Found at i:48847684 original size:29 final size:29
Alignment explanation
Indices: 48847630--48849826 Score: 2482
Period size: 29 Copynumber: 74.6 Consensus size: 29
48847620 TTTTGATATT
* *
48847630 ATTTGATTAAAAACCCTAA-CTTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48847658 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
***
48847687 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
48847716 TTTTAATTAAAAACCCTAACCCTATTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
48847745 ATTTAATTAAAAACCCTAACATTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48847774 ATTTAATTAAAAACTCTAACTCTAACCCTAATTTA
1 ATTTAATTAAAAA--C---C-CTAACCCTAATTTA
48847809 ATTTAATTTAATTAAAAACCCTAACCCTAATTTA
1 A--T--T-TAATTAAAAACCCTAACCCTAATTTA
48847843 ATTTAATTAAAAACCTTAACCCTAACCCTAATTTA
1 ATTTAATT--AAA----AACCCTAACCCTAATTTA
*
48847878 ATTTAATTAAAAACCCTAACCC-ATTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
48847906 A-TT-A--AAAAACCCAAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48847931 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* ***
48847960 ATTTAATTAAAAATCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
48847989 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48848018 ATTTAATT-AAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48848046 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
48848075 ATTTAATTAAATTAAAAACTCTAAACCCTAACCTA
1 A--T--TT-AATTAAAAACCCT-AACCCTAATTTA
* *
48848110 ATTTAAATAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48848139 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
48848168 ATTTAATT-AAAACCCTAAACTCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
48848197 ATTTAATTAAAAACCCTAAGCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48848226 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48848255 ATTTAATT-AAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48848283 ATTTAATTTAGTTAAAAACCCTAACCC--A--T-
1 ATTT-A---A-TTAAAAACCCTAACCCTAATTTA
*
48848312 -TTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48848340 ATTTAATTAAAAACCCTAACCCTAAATTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
48848369 ATTTAATT-AAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
48848398 ATTTAATTAAAAACCTTAACCCTACTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
48848427 ATTTAATT-AAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
*
48848456 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48848485 ATTTAATTAAAAATCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48848514 ATTTAATTAAAAACCCTAACCCTAATTTAATATA
1 ATTTAATTAAAAACCCTAACCCTAA--T--T-TA
***
48848548 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
48848577 TTTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48848606 ATTTAATTAAAAACCCTAACCCTAAATTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
48848635 ATTTAATT-AAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
48848664 ATTTAAATAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
48848693 ATTTAATT-AAAACCCTAAACTCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
48848722 ATTTAAATAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48848751 ATTTAATT-AAAACCCTAA--C----TTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48848773 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48848802 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48848831 ATTTAATTAAAAA-CCTAACCCTAATTTAATTTA
1 ATTTAATTAAAAACCCTAACCC-----TAATTTA
* *
48848864 ATTTAATTAAAAATCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48848893 ATTTAATTAAAAACCCTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48848922 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
48848951 ATTTAATTAAAAACCCTAACCATAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48848980 ATTTAATT-AAAACCCTAAACCCTAATCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
*
48849009 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48849038 ATTTAATTAAAAAACCCTAACCCTAATTTAATTTA
1 ATTTAATT-AAAAACCCTAACCC-----TAATTTA
***
48849073 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* * *
48849102 TTTTAATTAAAAATCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48849131 ATTTAATTAAAAACCCTAACCCTAATTTAATTTA
1 ATTTAATTAAAAACCCTAACCC-----TAATTTA
*
48849165 ATTTAATTAAAAACCCTAACCCTAATTTC
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
48849194 ATTTAATT-AAAACCCTAAACCC-AAACTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
48849222 ATTTAAAT-AAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48849250 ATTTAATTAAAAACCTTAACCCTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48849279 ATTTAATTAAAAATCCTAACCCTAATTTAATTTA
1 ATTTAATTAAAAACCCTAACCC-----TAATTTA
***
48849313 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* * *
48849342 TTTTAATTAAGAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48849371 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48849400 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**
48849429 ATTTAATT-AAAACCCTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
*
48849458 ATTTAATTAAAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48849487 ATTTAATTAAAAACCCTAACCTTAATTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* *
48849516 ATTTAATTAAAAATCTTAACCCTAATTTAATTTA
1 ATTTAATTAAAAACCCTAACCC-----TAATTTA
***
48849550 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* * * *
48849579 TTTTAATTAAAAATCCTAACTCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
*
48849608 ATTTAATTAAAAACCCTAACCCTAATATA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
48849637 ATTTAATT-AAAACCTTAAACCCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
* *
48849666 ATTTAATTAAAAACCCTAACCTTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
**** *
48849695 ATTTAACCCTAAACCCTAACCCTAGTTTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* * **
48849724 ATTTAATT-AAAACCTTAAACTCTAACCTA
1 ATTTAATTAAAAACCCT-AACCCTAATTTA
***
48849753 ATTTAATTAAAAACCCTAACCCTAACCCA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
* **
48849782 TTTTAATTAAAAACCCTAACCCTAAACTA
1 ATTTAATTAAAAACCCTAACCCTAATTTA
48849811 ATTTAATTAAAAACCC
1 ATTTAATTAAAAACCC
48849827 ATTTTAATTA
Statistics
Matches: 1862, Mismatches: 205, Indels: 203
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.01
23 26 0.01
24 14 0.01
25 7 0.00
26 4 0.00
27 10 0.01
28 200 0.11
29 1203 0.65
30 96 0.05
31 8 0.00
32 3 0.00
33 29 0.02
34 173 0.09
35 65 0.03
37 1 0.00
38 1 0.00
39 1 0.00
40 10 0.01
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.34
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAATTTA
Found at i:48847896 original size:23 final size:23
Alignment explanation
Indices: 48847866--48847949 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
48847856 CCTTAACCCT
48847866 AACCCTAATTTAATTTAATTAAA
1 AACCCTAATTTAATTTAATTAAA
**
48847889 AACCCTAACCCATTTTAA-TTAAAAAACCCA
1 AACCCT-A---A-TTTAATTTAATTAA---A
*
48847919 AACCCTAGTTTAATTTAATTAAA
1 AACCCTAATTTAATTTAATTAAA
48847942 AACCCTAA
1 AACCCTAA
48847950 CCCTAATTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 18
0.66 0.09 0.26
Matches are distributed among these distances:
23 14 0.30
24 1 0.02
25 5 0.11
26 6 0.13
27 7 0.15
28 5 0.11
29 1 0.02
30 7 0.15
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.31
Consensus pattern (23 bp):
AACCCTAATTTAATTTAATTAAA
Found at i:48847922 original size:24 final size:24
Alignment explanation
Indices: 48847879--48847933 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
48847869 CCTAATTTAA
* *
48847879 TTTAATTAAAAACCCTAACCC-AT
1 TTTAATTAAAAACCCAAACCCTAG
48847902 TTTAATTAAAAAACCCAAACCCTAG
1 TTTAATT-AAAAACCCAAACCCTAG
48847927 TTTAATT
1 TTTAATT
48847934 TAATTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 13 0.46
25 8 0.29
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.33
Consensus pattern (24 bp):
TTTAATTAAAAACCCAAACCCTAG
Found at i:48853240 original size:125 final size:125
Alignment explanation
Indices: 48853018--48853299 Score: 399
Period size: 125 Copynumber: 2.3 Consensus size: 125
48853008 CCACGAGGGC
* *
48853018 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAGC
* ** **
48853083 GAAATCGCATCCACGAGGGTGCGATTTCACAATTTCTTCTCAT-ATAGCATACTGGTATCA
66 GAAATCGCATCCACGAGAGCACGATTTCACAATTTCTTCTC-TGATAGCATACTGGTAGAA
* *
48853143 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAA-AATTATTTCTTACATGACCAACTGTAT
1 GCGATTTTATACTATTTGCTCAG-AAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAG
* * *
48853207 TGAAATCGCATCCACGAGAGCACGATTTCACAATTTCTTCTCTGATAGTATCCTGGTAGAA
65 CGAAATCGCATCCACGAGAGCACGATTTCACAATTTCTTCTCTGATAGCATACTGGTAGAA
*
48853268 ACGATTTTATACTATTTGAC-CAGAAACGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
48853300 CTCGAAATAA
Statistics
Matches: 141, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
124 10 0.07
125 117 0.83
126 14 0.10
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (125 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCATCCACGAGAGCACGATTTCACAATTTCTTCTCTGATAGCATACTGGTAGAA
Found at i:48853578 original size:29 final size:28
Alignment explanation
Indices: 48853518--48853577 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
48853508 GATTTCGCGG
48853518 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGGTAAATAATTAA
* * *
48853546 AAAAGTGGTCCATTTCGGTAAAT-TTTAA
1 AAAA-TGGCCCATTCCGGTAAATAATTAA
48853574 AAAA
1 AAAA
48853578 AAAAGGCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (28 bp):
AAAATGGCCCATTCCGGTAAATAATTAA
Found at i:48860828 original size:124 final size:118
Alignment explanation
Indices: 48860626--48860873 Score: 322
Period size: 124 Copynumber: 2.1 Consensus size: 118
48860616 TGCAATAGCA
* * * *
48860626 AATTAAATAATAAATTTAATGTATTTACTTAGCATTTCACAAAGAGGTTCATTTGAATAATATTG
1 AATTAAATAATAAATTTAATGTATTTACTTAGCATTTCACAAACAGGTTCATCTGAAGAACATTG
* * *
48860691 TGATGCCATCCAATTAAAATAAGA-TGGATTACCATATTATATT-TCAACCGTTT
66 TGATACCATCCAATTAAAATAA-ATTGAATTACCATATTAT-TTGTCAACAGTTT
*
48860744 AATTAAATAATCAAA-TTAATGTATTTAGCTCCTATTGACATTTCACCAACAGGTTCATCTGAAG
1 AATTAAATAAT-AAATTTAATGTATTTA-CT--TA--G-CATTTCACAAACAGGTTCATCTGAAG
48860808 AACATTGTGATACCATCCAATTAAAATAAATTGAATTACCATATTATTTGTCAACAGTTT
59 AACATTGTGATACCATCCAATTAAAATAAATTGAATTACCATATTATTTGTCAACAGTTT
48860868 AATTAA
1 AATTAA
48860874 TTTCAAATTA
Statistics
Matches: 113, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
118 23 0.20
119 5 0.04
121 2 0.02
123 4 0.04
124 79 0.70
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (118 bp):
AATTAAATAATAAATTTAATGTATTTACTTAGCATTTCACAAACAGGTTCATCTGAAGAACATTG
TGATACCATCCAATTAAAATAAATTGAATTACCATATTATTTGTCAACAGTTT
Found at i:48867667 original size:34 final size:34
Alignment explanation
Indices: 48867624--48867692 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
48867614 AATGAGATTC
48867624 TATTAGAACAAGTTGATAATAATGATGAATTTTA
1 TATTAGAACAAGTTGATAATAATGATGAATTTTA
* *
48867658 TATTGGAACAAGTTGGTAATAATGATGAATTTTA
1 TATTAGAACAAGTTGATAATAATGATGAATTTTA
48867692 T
1 T
48867693 CAAGAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (34 bp):
TATTAGAACAAGTTGATAATAATGATGAATTTTA
Found at i:48871683 original size:18 final size:17
Alignment explanation
Indices: 48871662--48871702 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
48871652 AAACAAAAAC
*
48871662 AAAAATCATAATAATTAT
1 AAAAATCATAA-AAATAT
*
48871680 AAAAATTATAAAAATAT
1 AAAAATCATAAAAATAT
48871697 AAAAAT
1 AAAAAT
48871703 GAAAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATCATAAAAATAT
Found at i:48871686 original size:9 final size:9
Alignment explanation
Indices: 48871662--48871702 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
48871652 AAACAAAAAC
*
48871662 AAAAATCAT
1 AAAAATTAT
*
48871671 AATAATTAT
1 AAAAATTAT
48871680 AAAAATTAT
1 AAAAATTAT
48871689 AAAAA-TAT
1 AAAAATTAT
48871697 AAAAAT
1 AAAAAT
48871703 GAAAATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 8 0.29
9 20 0.71
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:48871697 original size:17 final size:18
Alignment explanation
Indices: 48871662--48871716 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
48871652 AAACAAAAAC
*
48871662 AAAAATCATAATAATTAT
1 AAAAATCATAATAAATAT
*
48871680 AAAAATTATAA-AAATAT
1 AAAAATCATAATAAATAT
* * *
48871697 AAAAATGAAAATATATAT
1 AAAAATCATAATAAATAT
48871715 AA
1 AA
48871717 TTACAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATCATAATAAATAT
Found at i:48871777 original size:20 final size:19
Alignment explanation
Indices: 48871730--48871785 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
48871720 CAAAAAGTTG
*
48871730 AAAAAATA-ATAGAAAATTT
1 AAAAAATATATA-AATATTT
* *
48871749 TAAATATATATATAATATTT
1 AAAAAATATATA-AATATTT
48871769 AAAAAATATATAAATAT
1 AAAAAATATATAAATAT
48871786 CTACAATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAAAATATATAAATATTT
Found at i:48872158 original size:16 final size:16
Alignment explanation
Indices: 48872141--48872173 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
48872131 CTTTTTGCAA
48872141 TTTATATAATTTTTAAT
1 TTTA-ATAATTTTTAAT
48872158 TTTAATAATTTTTAAT
1 TTTAATAATTTTTAAT
48872174 ATTTTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAATAATTTTTAAT
Found at i:48872276 original size:20 final size:21
Alignment explanation
Indices: 48872248--48872296 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
48872238 TATTTTCAAT
48872248 AAATATTTTTT-TA-ATTTTTA
1 AAAT-TTTTTTGTATATTTTTA
48872268 AAA-TTTTTTGTATATTTTTA
1 AAATTTTTTTGTATATTTTTA
*
48872288 TAATTTTTT
1 AAATTTTTT
48872297 ATAATAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.24
19 2 0.08
20 12 0.48
21 5 0.20
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
AAATTTTTTTGTATATTTTTA
Found at i:48872300 original size:10 final size:10
Alignment explanation
Indices: 48872252--48872301 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
48872242 TTCAATAAAT
48872252 ATTTTTT-TA
1 ATTTTTTATA
*
48872261 A-TTTTTAAA
1 ATTTTTTATA
*
48872270 ATTTTTTGT-
1 ATTTTTTATA
48872279 ATATTTTTATA
1 AT-TTTTTATA
48872290 ATTTTTTATA
1 ATTTTTTATA
48872300 AT
1 AT
48872302 AATTATAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
8 5 0.15
9 5 0.15
10 21 0.64
11 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:48877893 original size:3 final size:3
Alignment explanation
Indices: 48877885--48877912 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
48877875 TTATGATAGT
48877885 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
48877913 CAAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:48880801 original size:29 final size:26
Alignment explanation
Indices: 48880758--48880811 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 26
48880748 TATTGAATCA
*
48880758 ATTTTTTTATTTTTAATATATATTTTTT
1 ATTTTTTGATTTTTAATA-AT-TTTTTT
48880786 ATTTTTATGATTTTTAATAATTTTTT
1 ATTTTT-TGATTTTTAATAATTTTTT
48880812 CAATTGAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
28 8 0.33
29 11 0.46
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (26 bp):
ATTTTTTGATTTTTAATAATTTTTTT
Found at i:48888707 original size:43 final size:43
Alignment explanation
Indices: 48888647--48888757 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 43
48888637 TGTCCCAGAC
* ** *
48888647 ATGGTCTTACATGGAAATATCGTATCGATGTCAATAGCCCAGCT
1 ATGGTCTTACA-CGAAATATCAAATCGATGCCAATAGCCCAGCT
* *
48888691 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCTAGCT
1 ATGGTCTTACACGAAATATCAAATCGATGCCAATAGCCCAGCT
*
48888734 ATGGTCTTACACGAAATCTCAAAT
1 ATGGTCTTACACGAAATATCAAAT
48888758 TGATACACGA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 50 0.82
44 11 0.18
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGAAATATCAAATCGATGCCAATAGCCCAGCT
Found at i:48888973 original size:31 final size:31
Alignment explanation
Indices: 48888932--48889046 Score: 160
Period size: 31 Copynumber: 3.7 Consensus size: 31
48888922 ATCCAATGCT
*
48888932 CAAATC-AATTCGGCAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
48888962 CGAATCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
48888993 CAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
**
48889024 CAAATCAAATTCAACAATGTATA
1 CAAATCAAATTCGGCAATGTATA
48889047 AAACATATAC
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
30 5 0.07
31 69 0.93
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:48889066 original size:62 final size:62
Alignment explanation
Indices: 48888932--48889057 Score: 191
Period size: 62 Copynumber: 2.0 Consensus size: 62
48888922 ATCCAATGCT
* * *
48888932 CAAATC-AATTCGGCAATATATATCCATATACGAATCAAATTCGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATATATATCCATATACAAATCAAATTCAACAATGTATAAACATATA
* *
48888993 CAAATCAAATTCGGCAATGTATATCTATATACAAATCAAATTCAACAATGTATAAAACATATA
1 CAAATCAAATTCGGCAATATATATCCATATACAAATCAAATTCAACAATGTAT-AAACATATA
48889056 CA
1 CA
48889058 TTTAAATTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 6 0.10
62 42 0.72
63 10 0.17
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.28
Consensus pattern (62 bp):
CAAATCAAATTCGGCAATATATATCCATATACAAATCAAATTCAACAATGTATAAACATATA
Found at i:48891848 original size:31 final size:33
Alignment explanation
Indices: 48891813--48891882 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
48891803 TCCTTGGAAC
48891813 TCCAA-AAAGT-TAATTCTTTATGTAACACTCT
1 TCCAAGAAAGTCTAATTCTTTATGTAACACTCT
* **
48891844 TCCAAGTACTTCTAATTCTTTATGTAACACTCT
1 TCCAAGAAAGTCTAATTCTTTATGTAACACTCT
48891877 TCCAAG
1 TCCAAG
48891883 TACTTCTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 5 0.15
32 2 0.06
33 27 0.79
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (33 bp):
TCCAAGAAAGTCTAATTCTTTATGTAACACTCT
Found at i:48891860 original size:33 final size:33
Alignment explanation
Indices: 48891823--48891890 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
48891813 TCCAAAAAGT
48891823 TAATTCTTTATGTAACACTCTTCCAAGTACTTC
1 TAATTCTTTATGTAACACTCTTCCAAGTACTTC
48891856 TAATTCTTTATGTAACACTCTTCCAAGTACTTC
1 TAATTCTTTATGTAACACTCTTCCAAGTACTTC
48891889 TA
1 TA
48891891 CCTTGTCTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.43
Consensus pattern (33 bp):
TAATTCTTTATGTAACACTCTTCCAAGTACTTC
Found at i:48899330 original size:52 final size:52
Alignment explanation
Indices: 48899273--48899471 Score: 209
Period size: 52 Copynumber: 3.8 Consensus size: 52
48899263 TTTTATGAAC
* * *
48899273 TTTGAATCTATTGTTTATATGTTCAAATCGATTGTCATGTTGGAAAACTACT
1 TTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGTTGGAAAACTTCT
** * * * * *
48899325 TTTGAATTGATTGTTTATATGTTTAAATTGACTGTTATGTTAGAATATTGCTTCT
1 TTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGTTGGAA-A--ACTTCT
* * * ** * *
48899380 TTTAAATAAACTGTTTATATGTTTAAATAAATTGTTATGTTGGAATACTTCT
1 TTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGTTGGAAAACTTCT
*
48899432 TTTGAATCAATTGTTTATATGTTTAAATCGATTATCATGT
1 TTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGT
48899472 AGCACATCTA
Statistics
Matches: 118, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
52 76 0.64
53 1 0.01
55 41 0.35
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (52 bp):
TTTGAATCAATTGTTTATATGTTTAAATCGATTGTCATGTTGGAAAACTTCT
Found at i:48899399 original size:55 final size:52
Alignment explanation
Indices: 48899336--48899459 Score: 158
Period size: 55 Copynumber: 2.3 Consensus size: 52
48899326 TTGAATTGAT
**
48899336 TGTTTATATGTTTAAATTGACTGTTATGTTAGAATATTGCTTCTTTTAAATAAAC
1 TGTTTATATGTTTAAATAAACTGTTATGTTAGAATA---CTTCTTTTAAATAAAC
* * * * *
48899391 TGTTTATATGTTTAAATAAATTGTTATGTTGGAATACTTCTTTTGAATCAAT
1 TGTTTATATGTTTAAATAAACTGTTATGTTAGAATACTTCTTTTAAATAAAC
48899443 TGTTTATATGTTTAAAT
1 TGTTTATATGTTTAAAT
48899460 CGATTATCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
52 30 0.48
55 32 0.52
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.51
Consensus pattern (52 bp):
TGTTTATATGTTTAAATAAACTGTTATGTTAGAATACTTCTTTTAAATAAAC
Found at i:48901357 original size:43 final size:43
Alignment explanation
Indices: 48901284--48901432 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 43
48901274 ATATCCCAGA
* * * *
48901284 TATGGTCTTACATGTAATCTCGTATTGATGCCAATAGCCCAAC
1 TATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCCAAC
*
48901327 TATGGTCTTACACGAAATCACATATCGATGCCAAT-GTCCCAGAC
1 TATGGTCTTACACGAAATCTCATATCGATGCCAATAG-CCCA-AC
* * * **
48901371 -ATGGTCTTACATGAATTCTCATATCGATGCC-ATATCCCAGG
1 TATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCCAAC
*
48901412 TATGGTCTTACACGTAATCTC
1 TATGGTCTTACACGAAATCTC
48901433 GGTAACCCTA
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 24 0.27
43 62 0.70
44 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (43 bp):
TATGGTCTTACACGAAATCTCATATCGATGCCAATAGCCCAAC
Found at i:48904766 original size:46 final size:46
Alignment explanation
Indices: 48904620--48904881 Score: 352
Period size: 46 Copynumber: 5.6 Consensus size: 46
48904610 CTTACGTATG
* * * *
48904620 ATCACTAATCAC-TTGTC-CCTGATTAGATAAGTGTAGCT-AGGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
* *
48904663 ACCACTTATCAGTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG------C-T
48904716 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
*
48904762 ATCACTTATCACTTTGTAACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
*
48904808 ATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
*
48904854 ACCACTTATCACTTTGTCAC-TGATCAGA
1 ATCACTTATCACTTTGTCACTTGATCAGA
48904882 AGTACTCAAA
Statistics
Matches: 196, Mismatches: 13, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
43 9 0.05
44 5 0.03
45 27 0.14
46 110 0.56
47 1 0.01
52 1 0.01
53 43 0.22
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (46 bp):
ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
Found at i:48909752 original size:23 final size:22
Alignment explanation
Indices: 48909726--48909913 Score: 101
Period size: 23 Copynumber: 8.2 Consensus size: 22
48909716 AGTGTTGCAT
*
48909726 ATTGAAGTATTTAAATGCTGTGA
1 ATTGAAGT-TTTAAATGCTGTAA
* *
48909749 ATTGAAGTGTTAAAGTGCTGCAA
1 ATTGAAGTTTTAAA-TGCTGTAA
* *
48909772 ATTGAAGTGTTTAAATGTTTTAA
1 ATTGAAGT-TTTAAATGCTGTAA
* * *
48909795 ATTGAAGTGTTTTAAGTACTGCAA
1 ATTGAA--GTTTTAAATGCTGTAA
* ** *
48909819 ATTGAATTGTTTAGTTGCTGAAA
1 ATTGAAGT-TTTAAATGCTGTAA
*
48909842 ATTGAGATGTTTT-ATTGCTGT-A
1 ATTGA-A-GTTTTAAATGCTGTAA
* * *
48909864 ATTGAGGTGTATAAATGTTGTAA
1 ATTGAAGT-TTTAAATGCTGTAA
* * *
48909887 ATTGAAGTGTTTTATTGCTGAAA
1 ATTGAAGT-TTTAAATGCTGTAA
48909910 ATTG
1 ATTG
48909914 GATGGTAAAT
Statistics
Matches: 125, Mismatches: 30, Indels: 20
0.71 0.17 0.11
Matches are distributed among these distances:
20 2 0.02
21 2 0.02
22 18 0.14
23 76 0.61
24 24 0.19
25 3 0.02
ACGTcount: A:0.32, C:0.04, G:0.22, T:0.41
Consensus pattern (22 bp):
ATTGAAGTTTTAAATGCTGTAA
Found at i:48909776 original size:46 final size:46
Alignment explanation
Indices: 48909704--48909897 Score: 167
Period size: 46 Copynumber: 4.2 Consensus size: 46
48909694 TTTATCATGT
* * *
48909704 TTGAAGTGTTAAAGTGTTGCATATTGAAGTATTTAAATGCTGTGAA
1 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
* * *
48909750 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTTTAAA
1 TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
* * * * ** *
48909796 TTGAAGTGTTTTAAGTACTGCAAATTGAATTGTTTAGTTGCTGAAAA
1 TTGAAGTG-TTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
** * * * * * *
48909843 TTG-AGATGTTTTATTGCTG-TAATTGAGGTGTATAAATGTTGTAAA
1 TTGAAG-TGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
48909888 TTGAAGTGTT
1 TTGAAGTGTT
48909898 TTATTGCTGA
Statistics
Matches: 120, Mismatches: 25, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
45 25 0.21
46 60 0.50
47 35 0.29
ACGTcount: A:0.31, C:0.04, G:0.23, T:0.41
Consensus pattern (46 bp):
TTGAAGTGTTAAAGTGCTGCAAATTGAAGTATTTAAATGCTGTAAA
Found at i:48909820 original size:24 final size:23
Alignment explanation
Indices: 48909704--48909831 Score: 102
Period size: 23 Copynumber: 5.5 Consensus size: 23
48909694 TTTATCATGT
* *
48909704 TTGAAGTG-TTAAAGTGTTGCATA
1 TTGAAGTGTTTAAAGT-CTGCAAA
* **
48909727 TTGAAGTATTTAAA-TGCTGTGAA
1 TTGAAGTGTTTAAAGT-CTGCAAA
48909750 TTGAAGTG-TTAAAGTGCTGCAAA
1 TTGAAGTGTTTAAAGT-CTGCAAA
**
48909773 TTGAAGTGTTTAAATGT-TTTAAA
1 TTGAAGTGTTTAAA-GTCTGCAAA
*
48909796 TTGAAGTGTTTTAAGTACTGCAAA
1 TTGAAGTGTTTAAAGT-CTGCAAA
*
48909820 TTGAATTGTTTA
1 TTGAAGTGTTTA
48909832 GTTGCTGAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
22 7 0.08
23 51 0.61
24 24 0.29
25 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.41
Consensus pattern (23 bp):
TTGAAGTGTTTAAAGTCTGCAAA
Found at i:48910220 original size:21 final size:21
Alignment explanation
Indices: 48910182--48910221 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48910172 AATAAAGTAG
**
48910182 ATTATATATTATTTTTATAGT
1 ATTATATATTATGATTATAGT
48910203 ATTATATATTATGATTATA
1 ATTATATATTATGATTATA
48910222 ATAAATTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTATATATTATGATTATAGT
Found at i:48910521 original size:45 final size:44
Alignment explanation
Indices: 48910439--48910534 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 44
48910429 ATTAGAACAT
* *
48910439 CATTCCATTCGACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
48910483 CATTACATTCAACCAAACA-AATGAATTACTATTACAGTTCTATTC
1 CATTACATTCAACCAAACACAA-GAA-TACTATTACAGTTCTATTC
48910528 CATTACA
1 CATTACA
48910535 GCTCTATTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
43 2 0.04
44 20 0.42
45 26 0.54
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:48910534 original size:16 final size:16
Alignment explanation
Indices: 48910513--48910550 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
48910503 ATGAATTACT
*
48910513 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
48910529 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
48910545 ATTACA
1 ATTACA
48910551 ACGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:48914494 original size:25 final size:25
Alignment explanation
Indices: 48914457--48914524 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
48914447 TAAACCCATT
48914457 TTCACAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
*
48914482 TTTACAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
* *
48914507 TTCACAACTTGTGTGAGC
1 TTCACAGCTCGTGTGAGC
48914525 TATCCCGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:48915139 original size:20 final size:19
Alignment explanation
Indices: 48915116--48915158 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
48915106 TAAAGAAAGT
48915116 AAATGC-AATAGAAAGTAATG
1 AAATGCAAAT-GAAAGTAA-G
48915136 AAATGCAAATGAAAGTAAG
1 AAATGCAAATGAAAGTAAG
48915155 AAAT
1 AAAT
48915159 TTTGGAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 14 0.64
21 3 0.14
ACGTcount: A:0.58, C:0.05, G:0.19, T:0.19
Consensus pattern (19 bp):
AAATGCAAATGAAAGTAAG
Found at i:48916071 original size:29 final size:29
Alignment explanation
Indices: 48916029--48916085 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
48916019 TATGATGCTA
48916029 AATGTTAAATTGTAAATTAAGTACATATG
1 AATGTTAAATTGTAAATTAAGTACATATG
48916058 AATGTTAAATTGTAAATTAAGTACATAT
1 AATGTTAAATTGTAAATTAAGTACATAT
48916086 AAGTGTGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.39
Consensus pattern (29 bp):
AATGTTAAATTGTAAATTAAGTACATATG
Found at i:48916459 original size:42 final size:42
Alignment explanation
Indices: 48916400--48916503 Score: 181
Period size: 42 Copynumber: 2.5 Consensus size: 42
48916390 GTCAGGTAGT
48916400 TACACGGCCTGGCACACGGGCGTGTGACGCTATTTCGAAGGG
1 TACACGGCCTGGCACACGGGCGTGTGACGCTATTTCGAAGGG
*
48916442 TACACGGCCTGGCACACGGGCGTGTGAGGCTATTTCGAAGGG
1 TACACGGCCTGGCACACGGGCGTGTGACGCTATTTCGAAGGG
* *
48916484 TACACGACCTGGAACACGGG
1 TACACGGCCTGGCACACGGG
48916504 TGTATGGCTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.21, C:0.26, G:0.36, T:0.17
Consensus pattern (42 bp):
TACACGGCCTGGCACACGGGCGTGTGACGCTATTTCGAAGGG
Found at i:48928305 original size:23 final size:23
Alignment explanation
Indices: 48928257--48928305 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
48928247 ATTTCATCAA
* *
48928257 TAAAATAAATATAATTATAAATT
1 TAAAATAAATATAATTAAAAAGT
* *
48928280 TAAAATTAATATATTTAAAAAGT
1 TAAAATAAATATAATTAAAAAGT
48928303 TAA
1 TAA
48928306 CCTAATTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAAATAAATATAATTAAAAAGT
Found at i:48937521 original size:13 final size:13
Alignment explanation
Indices: 48937503--48937549 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
48937493 AACTTGCGAG
48937503 ATCGAAAGGAAAA
1 ATCGAAAGGAAAA
* * *
48937516 ATCGAAACAGAGAG
1 ATCGAAA-GGAAAA
48937530 ATCGAAAGGAAAA
1 ATCGAAAGGAAAA
48937543 ATCGAAA
1 ATCGAAA
48937550 CAGAGATTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.57, C:0.11, G:0.23, T:0.09
Consensus pattern (13 bp):
ATCGAAAGGAAAA
Found at i:48937535 original size:14 final size:14
Alignment explanation
Indices: 48937514--48937555 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
48937504 TCGAAAGGAA
48937514 AAATCGAAACAGAG
1 AAATCGAAACAGAG
* * *
48937528 AGATCGAAA-GGAA
1 AAATCGAAACAGAG
48937541 AAATCGAAACAGAG
1 AAATCGAAACAGAG
48937555 A
1 A
48937556 TTAGAATGGT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.57, C:0.12, G:0.24, T:0.07
Consensus pattern (14 bp):
AAATCGAAACAGAG
Found at i:48937536 original size:27 final size:27
Alignment explanation
Indices: 48937500--48937555 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
48937490 TACAACTTGC
48937500 GAGATCGAAAGGAAAAATCGAAACAGA
1 GAGATCGAAAGGAAAAATCGAAACAGA
48937527 GAGATCGAAAGGAAAAATCGAAACAGA
1 GAGATCGAAAGGAAAAATCGAAACAGA
48937554 GA
1 GA
48937556 TTAGAATGGT
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:0.55, C:0.11, G:0.27, T:0.07
Consensus pattern (27 bp):
GAGATCGAAAGGAAAAATCGAAACAGA
Found at i:48940693 original size:50 final size:50
Alignment explanation
Indices: 48940610--48940704 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
48940600 ATTCCCCTAT
* * *
48940610 TGAAGTCGTGACATCAAGCTATTGGCTCCATGGTTATGGCATTCCTCTGC
1 TGAAGTCGTGACATCAAGCTACTGGCTCCATGGTTACGACATTCCTCTGC
* * *
48940660 TGAAGTTGTGACATCAAGTTACT-GCTTCTATGGTTACGACATTCC
1 TGAAGTCGTGACATCAAGCTACTGGC-TCCATGGTTACGACATTCC
48940705 CTTAGTAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.05
50 36 0.95
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (50 bp):
TGAAGTCGTGACATCAAGCTACTGGCTCCATGGTTACGACATTCCTCTGC
Found at i:48941731 original size:31 final size:31
Alignment explanation
Indices: 48941696--48941760 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
48941686 TTACATTTTG
*
48941696 GTCACTAAACTATTCAAAAATTTTCATTTAA
1 GTCACTAAACTATTCAAAAATTTTCACTTAA
* * *
48941727 GTCACTGAACTATTCAAAAGTTTTTACTTAA
1 GTCACTAAACTATTCAAAAATTTTCACTTAA
48941758 GTC
1 GTC
48941761 CTTGGGCTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (31 bp):
GTCACTAAACTATTCAAAAATTTTCACTTAA
Found at i:48953904 original size:18 final size:18
Alignment explanation
Indices: 48953861--48953904 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
48953851 ACTCAATCCA
*
48953861 AACCCAAGTATCCAACCC
1 AACCCAATTATCCAACCC
48953879 AACCCAATTA-CCTAACCC
1 AACCCAATTATCC-AACCC
48953897 AACCCAAT
1 AACCCAAT
48953905 CATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.41, C:0.43, G:0.02, T:0.14
Consensus pattern (18 bp):
AACCCAATTATCCAACCC
Found at i:48953954 original size:6 final size:6
Alignment explanation
Indices: 48953945--48953973 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
48953935 AAATAAAATT
48953945 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
48953974 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:48954073 original size:9 final size:9
Alignment explanation
Indices: 48954056--48954131 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
48954046 GTAGTGATTC
48954056 AATTCGGTT
1 AATTCGGTT
*
48954065 AATTTGGTT
1 AATTCGGTT
48954074 AATTCAGG-T
1 AATTC-GGTT
48954083 AATTCGGTT
1 AATTCGGTT
* *
48954092 AATACAGTT
1 AATTCGGTT
48954101 AATTCGAG-T
1 AATTCG-GTT
*
48954110 AATTCAGTT
1 AATTCGGTT
48954119 AATTCGGTT
1 AATTCGGTT
48954128 AATT
1 AATT
48954132 TTTAACTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
8 3 0.05
9 49 0.89
10 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:48954085 original size:18 final size:18
Alignment explanation
Indices: 48954056--48954131 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 18
48954046 GTAGTGATTC
* *
48954056 AATTCGGTTAATTTGGTT
1 AATTCAGTTAATTCGGTT
*
48954074 AATTCAGGTAATTCGGTT
1 AATTCAGTTAATTCGGTT
*
48954092 AATACAGTTAATTCGAG-T
1 AATTCAGTTAATTCG-GTT
48954110 AATTCAGTTAATTCGGTT
1 AATTCAGTTAATTCGGTT
48954128 AATT
1 AATT
48954132 TTTAACTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.02
18 48 0.96
19 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (18 bp):
AATTCAGTTAATTCGGTT
Found at i:48954088 original size:27 final size:27
Alignment explanation
Indices: 48954056--48954131 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
48954046 GTAGTGATTC
*
48954056 AATTCGGTTAATTTGGTTAATTC-AGGT
1 AATTCGGTTAATTCGGTTAATTCGA-GT
* *
48954083 AATTCGGTTAATACAGTTAATTCGAGT
1 AATTCGGTTAATTCGGTTAATTCGAGT
*
48954110 AATTCAGTTAATTCGGTTAATT
1 AATTCGGTTAATTCGGTTAATT
48954132 TTTAACTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGAGT
Found at i:48954252 original size:27 final size:28
Alignment explanation
Indices: 48954194--48954252 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
48954184 GAATTAACCG
* *** *
48954194 AAAAAATTTTGGTTCGGTTAATTTTTTG
1 AAAAAATTTCGGTTCGGTTAATCGGTTA
48954222 AAAAAATTTCGGTTCGGTTAA-CGGTTA
1 AAAAAATTTCGGTTCGGTTAATCGGTTA
48954249 AAAA
1 AAAA
48954253 TTTTGAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.39
Consensus pattern (28 bp):
AAAAAATTTCGGTTCGGTTAATCGGTTA
Found at i:48956555 original size:18 final size:18
Alignment explanation
Indices: 48956512--48956555 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
48956502 ACTCAATCCA
*
48956512 AACCCAAGTATCCAACCC
1 AACCCAATTATCCAACCC
48956530 AACCCAATTA-CCTAACCC
1 AACCCAATTATCC-AACCC
48956548 AACCCAAT
1 AACCCAAT
48956556 CATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.41, C:0.43, G:0.02, T:0.14
Consensus pattern (18 bp):
AACCCAATTATCCAACCC
Found at i:48956605 original size:6 final size:6
Alignment explanation
Indices: 48956596--48956624 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
48956586 AAATAAAATT
48956596 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
48956625 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:48956724 original size:9 final size:9
Alignment explanation
Indices: 48956707--48956782 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
48956697 GTAGTGATTC
48956707 AATTCGGTT
1 AATTCGGTT
*
48956716 AATTTGGTT
1 AATTCGGTT
48956725 AATTCAGG-T
1 AATTC-GGTT
48956734 AATTCGGTT
1 AATTCGGTT
* *
48956743 AATACAGTT
1 AATTCGGTT
48956752 AATTCGAG-T
1 AATTCG-GTT
*
48956761 AATTCAGTT
1 AATTCGGTT
48956770 AATTCGGTT
1 AATTCGGTT
48956779 AATT
1 AATT
48956783 TTTAACTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
8 3 0.05
9 49 0.89
10 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:48956736 original size:18 final size:18
Alignment explanation
Indices: 48956707--48956782 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 18
48956697 GTAGTGATTC
* *
48956707 AATTCGGTTAATTTGGTT
1 AATTCAGTTAATTCGGTT
*
48956725 AATTCAGGTAATTCGGTT
1 AATTCAGTTAATTCGGTT
*
48956743 AATACAGTTAATTCGAG-T
1 AATTCAGTTAATTCG-GTT
48956761 AATTCAGTTAATTCGGTT
1 AATTCAGTTAATTCGGTT
48956779 AATT
1 AATT
48956783 TTTAACTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.02
18 48 0.96
19 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (18 bp):
AATTCAGTTAATTCGGTT
Found at i:48956739 original size:27 final size:27
Alignment explanation
Indices: 48956707--48956782 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
48956697 GTAGTGATTC
*
48956707 AATTCGGTTAATTTGGTTAATTC-AGGT
1 AATTCGGTTAATTCGGTTAATTCGA-GT
* *
48956734 AATTCGGTTAATACAGTTAATTCGAGT
1 AATTCGGTTAATTCGGTTAATTCGAGT
*
48956761 AATTCAGTTAATTCGGTTAATT
1 AATTCGGTTAATTCGGTTAATT
48956783 TTTAACTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGAGT
Found at i:48956903 original size:27 final size:28
Alignment explanation
Indices: 48956845--48956903 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
48956835 GAATTAACCG
* *** *
48956845 AAAAAATTTTGGTTCGGTTAATTTTTTG
1 AAAAAATTTCGGTTCGGTTAATCGGTTA
48956873 AAAAAATTTCGGTTCGGTTAA-CGGTTA
1 AAAAAATTTCGGTTCGGTTAATCGGTTA
48956900 AAAA
1 AAAA
48956904 TTTTGAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.39
Consensus pattern (28 bp):
AAAAAATTTCGGTTCGGTTAATCGGTTA
Found at i:48959206 original size:18 final size:18
Alignment explanation
Indices: 48959163--48959206 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
48959153 ACTCAATCCA
*
48959163 AACCCAAGTATCCAACCC
1 AACCCAATTATCCAACCC
48959181 AACCCAATTA-CCTAACCC
1 AACCCAATTATCC-AACCC
48959199 AACCCAAT
1 AACCCAAT
48959207 CATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.41, C:0.43, G:0.02, T:0.14
Consensus pattern (18 bp):
AACCCAATTATCCAACCC
Found at i:48959256 original size:6 final size:6
Alignment explanation
Indices: 48959247--48959275 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
48959237 AAATAAAATT
48959247 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
48959276 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:48959375 original size:9 final size:9
Alignment explanation
Indices: 48959358--48959433 Score: 84
Period size: 9 Copynumber: 8.4 Consensus size: 9
48959348 GTAGTGATTC
48959358 AATTCGGTT
1 AATTCGGTT
*
48959367 AATTTGGTT
1 AATTCGGTT
48959376 AATTCAGG-T
1 AATTC-GGTT
48959385 AATTCGGTT
1 AATTCGGTT
* *
48959394 AATACAGTT
1 AATTCGGTT
48959403 AATTCGAG-T
1 AATTCG-GTT
*
48959412 AATTCAGTT
1 AATTCGGTT
48959421 AATTCGGTT
1 AATTCGGTT
48959430 AATT
1 AATT
48959434 TTTAACTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
8 3 0.05
9 49 0.89
10 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:48959387 original size:18 final size:18
Alignment explanation
Indices: 48959358--48959433 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 18
48959348 GTAGTGATTC
* *
48959358 AATTCGGTTAATTTGGTT
1 AATTCAGTTAATTCGGTT
*
48959376 AATTCAGGTAATTCGGTT
1 AATTCAGTTAATTCGGTT
*
48959394 AATACAGTTAATTCGAG-T
1 AATTCAGTTAATTCG-GTT
48959412 AATTCAGTTAATTCGGTT
1 AATTCAGTTAATTCGGTT
48959430 AATT
1 AATT
48959434 TTTAACTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.02
18 48 0.96
19 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (18 bp):
AATTCAGTTAATTCGGTT
Found at i:48959390 original size:27 final size:27
Alignment explanation
Indices: 48959358--48959433 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
48959348 GTAGTGATTC
*
48959358 AATTCGGTTAATTTGGTTAATTC-AGGT
1 AATTCGGTTAATTCGGTTAATTCGA-GT
* *
48959385 AATTCGGTTAATACAGTTAATTCGAGT
1 AATTCGGTTAATTCGGTTAATTCGAGT
*
48959412 AATTCAGTTAATTCGGTTAATT
1 AATTCGGTTAATTCGGTTAATT
48959434 TTTAACTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGAGT
Found at i:48959554 original size:27 final size:28
Alignment explanation
Indices: 48959496--48959554 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
48959486 GAATTAACCG
* *** *
48959496 AAAAAATTTTGGTTCGGTTAATTTTTTG
1 AAAAAATTTCGGTTCGGTTAATCGGTTA
48959524 AAAAAATTTCGGTTCGGTTAA-CGGTTA
1 AAAAAATTTCGGTTCGGTTAATCGGTTA
48959551 AAAA
1 AAAA
48959555 TTTTGAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.39
Consensus pattern (28 bp):
AAAAAATTTCGGTTCGGTTAATCGGTTA
Done.