Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 163 of 284
Found at i:54730741 original size:24 final size:24
Alignment explanation
Indices: 54730689--54730741 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
54730679 GCCATAATCG
* *
54730689 GGAAGTTCACAGAGAACCTTGTCA
1 GGAAGTTCACAAAGAACCTTATCA
*
54730713 AGAAGTTCACAAAGAA-CTATATCA
1 GGAAGTTCACAAAGAACCT-TATCA
54730737 GGAAG
1 GGAAG
54730742 CTCCAGATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.19
Consensus pattern (24 bp):
GGAAGTTCACAAAGAACCTTATCA
Found at i:54730850 original size:25 final size:26
Alignment explanation
Indices: 54730785--54730852 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
54730775 GCACTATCGA
**
54730785 GAAGCTCACAAAGAGCCAATTTAACGG
1 GAAGCTCATGAAGAGCC-ATTTAACGG
*
54730812 GAAGTTCATGAAGAGCC-TTTAATCGG
1 GAAGCTCATGAAGAGCCATTTAA-CGG
*
54730838 GATGCTCAT-AAGAGC
1 GAAGCTCATGAAGAGC
54730853 TAAGGTGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 11 0.31
26 10 0.29
27 14 0.40
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (26 bp):
GAAGCTCATGAAGAGCCATTTAACGG
Found at i:54733236 original size:43 final size:42
Alignment explanation
Indices: 54733113--54733279 Score: 149
Period size: 43 Copynumber: 3.9 Consensus size: 42
54733103 TATTGCTCGT
* * * * *
54733113 ACAATGCC-ATATCCCAGATATGGTCATACATGTTATCACATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATATAATCA-ATA
* * * * * * *
54733155 TCGATGCCACTGTCCCAAATAGGGTCTTACACGA-AATCAATTA
1 ACAATGCCAATGTCCCAGACATGGTCTTACA-TATAATCAA-TA
*
54733198 ACAATGCCAATGTCCCAGACATGGTCTTACATATAATCAAAA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATATAATCAATA
* *
54733240 TACAATGCCAATGTCCCAGGCATGGTCTTACATGTAATCA
1 -ACAATGCCAATGTCCCAGACATGGTCTTACATATAATCA
54733280 CATCTCCGTA
Statistics
Matches: 100, Mismatches: 20, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
42 9 0.09
43 91 0.91
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (42 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACATATAATCAATA
Found at i:54733805 original size:21 final size:21
Alignment explanation
Indices: 54733758--54733805 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
54733748 CATATTTCAC
*
54733758 ATTT-ATTTCACATTTTAACC
1 ATTTAATTTCACATTTTAACA
** *
54733778 ACATAATTTCACATTTTTACA
1 ATTTAATTTCACATTTTAACA
54733799 ATTTAAT
1 ATTTAAT
54733806 CCCTAATTGA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTAATTTCACATTTTAACA
Found at i:54736553 original size:93 final size:93
Alignment explanation
Indices: 54736445--54736615 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
54736435 CGCCCATAAG
* * * *
54736445 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
54736510 ACGAGTTCAGATGCCTAGTTACATTTCA
66 ACGAGTTCAGATGCCTAGTTACATTTCA
* *
54736538 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATACGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
54736603 ACGAGTTCGGATG
66 ACGAGTTCAGATG
54736616 TTCGCATCCA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATTTCA
Found at i:54736660 original size:46 final size:46
Alignment explanation
Indices: 54736438--54736661 Score: 254
Period size: 46 Copynumber: 4.8 Consensus size: 46
54736428 TGTAACCCGC
* * ** *
54736438 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * * *
54736484 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * **
54736530 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
54736577 CCATACGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
54736623 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
54736662 CCCAAATATC
Statistics
Matches: 146, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
45 1 0.01
46 110 0.75
47 33 0.23
48 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:54738949 original size:47 final size:47
Alignment explanation
Indices: 54738849--54739171 Score: 502
Period size: 47 Copynumber: 6.8 Consensus size: 47
54738839 NNNNNNAATG
* *
54738849 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATG
1 GCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATA
*
54738898 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATA
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
*
54738945 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATA
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
54738992 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
*
54739039 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
* * * * *
54739086 GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
* * * *
54739133 GCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
54739172 TCCCGAAGGG
Statistics
Matches: 259, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 235 0.91
49 24 0.09
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
Found at i:54739346 original size:37 final size:37
Alignment explanation
Indices: 54739290--54739368 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
54739280 CCGAGCTCTA
* * *
54739290 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
54739327 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
54739364 AAGAC
1 AAGAC
54739369 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:54740945 original size:40 final size:40
Alignment explanation
Indices: 54740582--54740933 Score: 542
Period size: 40 Copynumber: 8.8 Consensus size: 40
54740572 GAGAATTGAG
54740582 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
54740622 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
54740662 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTACT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
54740702 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
54740742 AGTAATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
54740782 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
54740822 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * **
54740862 AGTGATATATCTGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
54740902 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
54740934 ATCATGCTGG
Statistics
Matches: 286, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 286 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:54744879 original size:39 final size:40
Alignment explanation
Indices: 54744779--54744963 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
54744769 TCGAATGATG
* * *
54744779 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
54744818 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
54744859 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
54744898 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
54744937 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
54744964 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:54744915 original size:79 final size:81
Alignment explanation
Indices: 54744780--54744963 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
54744770 CGAATGATGT
*
54744780 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
54744844 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * * **
54744860 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
* *
54744922 TGTGTGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
54744939 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54744964 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 31 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATAA
Found at i:54744985 original size:79 final size:79
Alignment explanation
Indices: 54744832--54744996 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
54744822 GGACTAAGAT
** **
54744832 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
54744897 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
54744911 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
54744974 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54744990 CCGAAGG
1 CCGAAGG
54744997 TATGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54745259 original size:47 final size:47
Alignment explanation
Indices: 54745188--54745355 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
54745178 AAGGGTTGGT
*
54745188 AATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
54745235 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
54745282 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54745329 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
54745356 TCCCGAAGGG
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 110 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:54745530 original size:37 final size:37
Alignment explanation
Indices: 54745474--54745552 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
54745464 CCGAGCTCTA
* * *
54745474 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
54745511 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
54745548 AAGAC
1 AAGAC
54745553 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:54747440 original size:40 final size:40
Alignment explanation
Indices: 54747299--54747483 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
54747289 TCGAATGATG
* * * * *
54747299 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
54747339 TCCGGACAAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
54747379 TTCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54747418 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
54747459 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54747484 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
39 32 0.27
40 75 0.64
41 10 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54747505 original size:79 final size:79
Alignment explanation
Indices: 54747352--54747516 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
54747342 GGACAAAGAT
** * ***
54747352 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
54747417 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
54747431 CCGAAGGCATTTGTGCGAGTTACT-ATAACCAGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
54747494 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54747510 CCGAAGG
1 CCGAAGG
54747517 TACGTGATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54747637 original size:50 final size:50
Alignment explanation
Indices: 54747560--54747659 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
54747550 AAATTTCAGT
*
54747560 TAATACGCTTGTAACATCCCAATATTGAGGTATGTTTCGTATGTGCTTTG
1 TAATACGCTTGTAACATCCCAACATTGAGGTATGTTTCGTATGTGCTTTG
54747610 TAATACGCTTGTAACATCCCAACATTGAGGTATGTTTCGTATGTGCTTTG
1 TAATACGCTTGTAACATCCCAACATTGAGGTATGTTTCGTATGTGCTTTG
54747660 AATTAGTTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (50 bp):
TAATACGCTTGTAACATCCCAACATTGAGGTATGTTTCGTATGTGCTTTG
Found at i:54755337 original size:834 final size:834
Alignment explanation
Indices: 54753729--54755380 Score: 3223
Period size: 834 Copynumber: 2.0 Consensus size: 834
54753719 TGGGGGAGAG
* * *
54753729 TTGTGACAGCCCTAAAGCGACCCTAGTAGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAA
1 TTGTGACACCCCTAAAGCGACCCTAGTAGAAAAGCGATTTCGGGACCGCTAAACCGAGTCACCAA
54753794 ATTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTA
66 ATTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTA
54753859 AATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTTTTGAAATGTGATAGATCAAAAC
131 AATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTTTTGAAATGTGATAGATCAAAAC
54753924 ATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAAATTTTCCCCCCATCTAG
196 ATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAAATTTTCCCCCCATCTAG
54753989 TAGTGGCCGGCCATGACATTAGAATGGACAAAGGGTGATGGGCAAAAGATGTCATAGACATGTTG
261 TAGTGGCCGGCCATGACATTAGAATGGACAAAGGGTGATGGGCAAAAGATGTCATAGACATGTTG
54754054 TGTTGGTGCATCATGGGAGGAAACAATAAAATAAAGTTAGTGATAAAGAAATGGAAAAAAGAAAG
326 TGTTGGTGCATCATGGGAGGAAACAATAAAATAAAGTTAGTGATAAAGAAATGGAAAAAAGAAAG
54754119 AAGGTGTGTGATTGTTTCTCCCCCCTCCCCATTGCCGTGAATGTAATAAAGAAAACAAAAAAAAA
391 AAGGTGTGTGATTGTTTCTCCCCCCTCCCCATTGCCGTGAATGTAATAAAGAAAACAAAAAAAAA
54754184 GTGTCCATCTTTTTTTCATTTCTCTTGGCCGAATGTTCTAAGGAAGAAAGGAAACAAGTTGTGTT
456 GTGTCCATCTTTTTTTCATTTCTCTTGGCCGAATGTTCTAAGGAAGAAAGGAAACAAGTTGTGTT
54754249 CTTTGGTTCTTCTTGGCCAGATTGAGAGGAGGAAGGAAGGAGTGAAGCAATCGGTCATCTTAGGT
521 CTTTGGTTCTTCTTGGCCAGATTGAGAGGAGGAAGGAAGGAGTGAAGCAATCGGTCATCTTAGGT
54754314 CGATATTAAGGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCA
586 CGATATTAAGGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCA
54754379 AGTTATTGTTGGTAACCCATGTTGAAATTGTGATTTTGGAATAAGTAAGGTTTTTGGCTATGGAG
651 AGTTATTGTTGGTAACCCATGTTGAAATTGTGATTTTGGAATAAGTAAGGTTTTTGGCTATGGAG
54754444 ATTAATAAGGGTGACGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCT
716 ATTAATAAGGGTGACGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCT
54754509 TGATGATTATGAGTTTCTTTCTTGGTTCTACCTTAGATCCATGAAGTATATTTT
781 TGATGATTATGAGTTTCTTTCTTGGTTCTACCTTAGATCCATGAAGTATATTTT
*** * *
54754563 TTGTGACACCCCTAATTTGACCCTAGTCGAAAAGCGATTTTGGGACCGCTAAACCGAGTCACCAA
1 TTGTGACACCCCTAAAGCGACCCTAGTAGAAAAGCGATTTCGGGACCGCTAAACCGAGTCACCAA
54754628 ATTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTA
66 ATTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTA
*
54754693 AATTTCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTTTTGAAATGTGATAGATCAAAAC
131 AATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTTTTGAAATGTGATAGATCAAAAC
54754758 ATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAAATTTTCCCCCCATCTAG
196 ATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAAATTTTCCCCCCATCTAG
54754823 TAGTGGCCGGCCATGACATTAGAATGGACAAAGGGTGATGGGCAAAAGATGTCATAGACATGTTG
261 TAGTGGCCGGCCATGACATTAGAATGGACAAAGGGTGATGGGCAAAAGATGTCATAGACATGTTG
54754888 TGTTGGTGCATCATGGGAGGAAACAATAAAATAAAGTTAGTGATAAAGAAATGGAAAAAAGAAAG
326 TGTTGGTGCATCATGGGAGGAAACAATAAAATAAAGTTAGTGATAAAGAAATGGAAAAAAGAAAG
54754953 AAGGTGTGTGATTGTTTCTCCCCCCTCCCCATTGCCGTGAATGTAATAAAGAAAACAAAAAAAAA
391 AAGGTGTGTGATTGTTTCTCCCCCCTCCCCATTGCCGTGAATGTAATAAAGAAAACAAAAAAAAA
54755018 GTGTCCATCTTTTTTTCATTTCTCTTGGCCGAATGTTCTAAGGAAGAAAGGAAACAAGTTGTGTT
456 GTGTCCATCTTTTTTTCATTTCTCTTGGCCGAATGTTCTAAGGAAGAAAGGAAACAAGTTGTGTT
54755083 CTTTGGTTCTTCTTGGCCAGATTGAGAGGAGGAAGGAAGGAGTGAAGCAATCGGTCATCTTAGGT
521 CTTTGGTTCTTCTTGGCCAGATTGAGAGGAGGAAGGAAGGAGTGAAGCAATCGGTCATCTTAGGT
54755148 CGATATTAAGGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCA
586 CGATATTAAGGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCA
54755213 AGTTATTGTTGGTAACCCATGTTGAAATTGTGATTTTGGAATAAGTAAGGTTTTTGGCTATGGAG
651 AGTTATTGTTGGTAACCCATGTTGAAATTGTGATTTTGGAATAAGTAAGGTTTTTGGCTATGGAG
54755278 ATTAATAAGGGTGACGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCT
716 ATTAATAAGGGTGACGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCT
54755343 TGATGATTATGAGTTTCTTTCTTGGTTCTACCTTAGAT
781 TGATGATTATGAGTTTCTTTCTTGGTTCTACCTTAGAT
54755381 AATAAGGGTG
Statistics
Matches: 809, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
834 809 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (834 bp):
TTGTGACACCCCTAAAGCGACCCTAGTAGAAAAGCGATTTCGGGACCGCTAAACCGAGTCACCAA
ATTATTTGAATATGATATTTATTGTCTAAAATAAATGTGTGAAAATTTTAAGCTTCGATTTAGTA
AATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACATTTTTGAAATGTGATAGATCAAAAC
ATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCATGTCAAATTTTCCCCCCATCTAG
TAGTGGCCGGCCATGACATTAGAATGGACAAAGGGTGATGGGCAAAAGATGTCATAGACATGTTG
TGTTGGTGCATCATGGGAGGAAACAATAAAATAAAGTTAGTGATAAAGAAATGGAAAAAAGAAAG
AAGGTGTGTGATTGTTTCTCCCCCCTCCCCATTGCCGTGAATGTAATAAAGAAAACAAAAAAAAA
GTGTCCATCTTTTTTTCATTTCTCTTGGCCGAATGTTCTAAGGAAGAAAGGAAACAAGTTGTGTT
CTTTGGTTCTTCTTGGCCAGATTGAGAGGAGGAAGGAAGGAGTGAAGCAATCGGTCATCTTAGGT
CGATATTAAGGTAAGGAAGTTGATACTAGTTCTTGAAATCCTAGTTGATTTTGAGTGAGATATCA
AGTTATTGTTGGTAACCCATGTTGAAATTGTGATTTTGGAATAAGTAAGGTTTTTGGCTATGGAG
ATTAATAAGGGTGACGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCT
TGATGATTATGAGTTTCTTTCTTGGTTCTACCTTAGATCCATGAAGTATATTTT
Found at i:54755408 original size:100 final size:100
Alignment explanation
Indices: 54755280--54755480 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
54755270 CTATGGAGAT
54755280 TAATAAGGGTGACGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCTTG
1 TAATAAGGGTGACGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCTTG
54755345 ATGATTATGAGTTTCTTTCTTGGTTCTACCTTAGA
66 ATGATTATGAGTTTCTTTCTTGGTTCTACCTTAGA
54755380 TAATAAGGGTGACGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCTTG
1 TAATAAGGGTGACGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCTTG
54755445 ATGATTATGAGTTTCTTTCTTGGTTCTACCTTAGA
66 ATGATTATGAGTTTCTTTCTTGGTTCTACCTTAGA
54755480 T
1 T
54755481 CCATGAAGTA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (100 bp):
TAATAAGGGTGACGGTTGTGTTTCATGCTAAATCTAGATGAACAATGGTAGTTGCTTACATCTTG
ATGATTATGAGTTTCTTTCTTGGTTCTACCTTAGA
Found at i:54758028 original size:39 final size:40
Alignment explanation
Indices: 54757928--54758112 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
54757918 TCGAATGATG
* * *
54757928 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
54757967 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
54758008 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
54758047 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
54758086 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
54758113 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:54758064 original size:79 final size:81
Alignment explanation
Indices: 54757929--54758112 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
54757919 CGAATGATGT
*
54757929 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
54757993 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * * **
54758009 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
* *
54758071 TGTGTGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
54758088 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54758113 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 31 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATAA
Found at i:54758134 original size:79 final size:79
Alignment explanation
Indices: 54757981--54758145 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
54757971 GGACTAAGAT
** **
54757981 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
54758046 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
54758060 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
54758123 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54758139 CCGAAGG
1 CCGAAGG
54758146 TATGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54758223 original size:35 final size:35
Alignment explanation
Indices: 54758177--54758245 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
54758167 ATCTTGCCGT
54758177 AAAAATTTCAGTTAATACGCTTGAAACATCCCAAC
1 AAAAATTTCAGTTAATACGCTTGAAACATCCCAAC
*
54758212 AAAAATTTCAGTTAATACGCTTGTAACATCCCAA
1 AAAAATTTCAGTTAATACGCTTGAAACATCCCAA
54758246 TATTGAGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (35 bp):
AAAAATTTCAGTTAATACGCTTGAAACATCCCAAC
Found at i:54758441 original size:47 final size:47
Alignment explanation
Indices: 54758372--54758492 Score: 170
Period size: 47 Copynumber: 2.6 Consensus size: 47
54758362 AAGGGTTGGT
* * *
54758372 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
* * *
54758419 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
* *
54758466 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
54758493 TCCCGAAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
Found at i:54758667 original size:37 final size:37
Alignment explanation
Indices: 54758611--54758689 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
54758601 CCGAGCTCTA
* * *
54758611 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
54758648 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
54758685 AAGAC
1 AAGAC
54758690 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:54760577 original size:40 final size:40
Alignment explanation
Indices: 54760436--54760620 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
54760426 TCGAATGATG
* * * * *
54760436 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
54760476 TCCGGACAAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
54760516 TTCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54760555 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
54760596 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54760621 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
39 32 0.27
40 75 0.64
41 10 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54760642 original size:79 final size:79
Alignment explanation
Indices: 54760489--54760653 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
54760479 GGACAAAGAT
** * ***
54760489 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
54760554 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
54760568 CCGAAGGCATTTGTGCGAGTTACT-ATAACCAGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
54760631 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
54760647 CCGAAGG
1 CCGAAGG
54760654 TACGTGATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:54777778 original size:21 final size:21
Alignment explanation
Indices: 54777752--54777792 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
54777742 GAAGCAGAAG
*
54777752 TTGTTGCAA-AAGAGGAAGTTC
1 TTGTTG-AATAAGAGAAAGTTC
54777773 TTGTTGAATAAGAGAAAGTT
1 TTGTTGAATAAGAGAAAGTT
54777793 GCTAAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGTTGAATAAGAGAAAGTTC
Found at i:54778269 original size:17 final size:17
Alignment explanation
Indices: 54778247--54778280 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54778237 GATAAGTATA
*
54778247 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
54778264 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
54778281 TGTGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.53
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:54785902 original size:42 final size:41
Alignment explanation
Indices: 54785742--54785904 Score: 127
Period size: 42 Copynumber: 3.9 Consensus size: 41
54785732 ACCATACCAG
** *
54785742 TGCCATAT-CCTAGATATGGTCTTACATGAGATC-TCG-TACGA
1 TGCCATATACC-AGATATGGTCTTACACAAG-TCTTAGATA-GA
* * * * *
54785783 TGCCA-ATAGCCCAGCTATGGTTTTACACAAAGTCTCATATTGA
1 TGCCATATA--CCAGATATGGTCTTACAC-AAGTCTTAGATAGA
* *
54785826 TGCCATATCCCAAATATGGTCTTACACGAAGTCTTAGATAGA
1 TGCCATATACCAGATATGGTCTTACAC-AAGTCTTAGATAGA
*
54785868 TGTCATATACCAGATATGGTCTTACACATAGTCTTAG
1 TGCCATATACCAGATATGGTCTTACACA-AGTCTTAG
54785905 TAACCCTAAT
Statistics
Matches: 95, Mismatches: 19, Indels: 15
0.74 0.15 0.12
Matches are distributed among these distances:
40 2 0.02
41 6 0.06
42 73 0.77
43 11 0.12
44 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (41 bp):
TGCCATATACCAGATATGGTCTTACACAAGTCTTAGATAGA
Found at i:54792062 original size:27 final size:27
Alignment explanation
Indices: 54792028--54792235 Score: 224
Period size: 27 Copynumber: 7.7 Consensus size: 27
54792018 TGGATAAGTT
54792028 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
** *
54792055 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
** * *
54792082 GTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
** * *
54792109 GTAGAATTATTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
54792136 GTAGAATTACCGAAATACCCCTAT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
54792162 GATAGAATTACTGAAATACCCTTGTAAG
1 G-TAGAATTACCGAAATACCCCTGTAAG
*
54792190 GTCA-AAATACCGAAATACCCCTGT-AG
1 GT-AGAATTACCGAAATACCCCTGTAAG
*
54792216 GATAGAATTACCGAGATACC
1 G-TAGAATTACCGAAATACC
54792236 TTTGTGGGGT
Statistics
Matches: 157, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
26 6 0.04
27 147 0.94
28 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:54792112 original size:54 final size:54
Alignment explanation
Indices: 54792028--54792254 Score: 287
Period size: 54 Copynumber: 4.2 Consensus size: 54
54792018 TGGATAAGTT
* *
54792028 GTAGAATTACCGAAATACCCCTGTAAGG-TAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTAT-AGGATAGAATTATTGAAATACCCTTGTAGG
** *
54792082 GTAGAATTATTGAAATACCCCTATAGGGTAGAATTATTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTATAGGATAGAATTATTGAAATACCCTTGTAGG
* *
54792136 GTAGAATTACCGAAATACCCCTATAGGATAGAATTACTGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCCTATAGGATAGAATTATTGAAATACCCTTGTAGG
* * ** * * *
54792190 GTCA-AAATACCGAAATACCCCTGTAGGATAGAATTACCGAGATACCTTTGTGGG
1 GT-AGAATTACCGAAATACCCCTATAGGATAGAATTATTGAAATACCCTTGTAGG
*
54792244 GTAAAATTACC
1 GTAGAATTACC
54792255 ATTTTGCCCC
Statistics
Matches: 153, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
53 4 0.03
54 148 0.97
55 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTATAGGATAGAATTATTGAAATACCCTTGTAGG
Found at i:54792168 original size:81 final size:81
Alignment explanation
Indices: 54792028--54792235 Score: 265
Period size: 81 Copynumber: 2.6 Consensus size: 81
54792018 TGGATAAGTT
* ** * * *
54792028 GTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTATT
1 GTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGATAGAATTACT
*
54792093 GAAATACCCCTATAGG
66 GAAATACCCCTATAAG
** *
54792109 GTAGAATTATTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGATAGAATTACT
1 GTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGATAGAATTACT
* *
54792174 GAAATACCCTTGTAAG
66 GAAATACCCCTATAAG
* * *
54792190 GTCA-AAATACCGAAATACCCCTGTAGGATAGAATTACCGAGATACC
1 GT-AGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACC
54792236 TTTGTGGGGT
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 107 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGATAGAATTACT
GAAATACCCCTATAAG
Found at i:54796952 original size:41 final size:41
Alignment explanation
Indices: 54796907--54796988 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
54796897 GACTCGATTT
54796907 GGGTAATTGTGAATAGGTTGACCAAATCTGATCATTTCATA
1 GGGTAATTGTGAATAGGTTGACCAAATCTGATCATTTCATA
* *
54796948 GGGTAATTGTGGATAGGTTGACCAAATCTGCTCATTTCATA
1 GGGTAATTGTGAATAGGTTGACCAAATCTGATCATTTCATA
54796989 CCTGTCCGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (41 bp):
GGGTAATTGTGAATAGGTTGACCAAATCTGATCATTTCATA
Found at i:54801733 original size:27 final size:27
Alignment explanation
Indices: 54801692--54801835 Score: 171
Period size: 27 Copynumber: 5.3 Consensus size: 27
54801682 TAGATAAGTT
* *
54801692 GTAGAATTACCGAAATACCCATGTGGG
1 GTAGAATTATCGAAATACCCATGTAGG
* * *
54801719 GTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTATCGAAATACCCATGTAGG
*
54801746 GTAGAATTATTGAAATACCCATGTAGG
1 GTAGAATTATCGAAATACCCATGTAGG
* *
54801773 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTATCGAAATACCCATGTAGG
* * * *
54801800 TTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTATCGAAATACCCATGTAGG
*
54801827 GTAAAATTA
1 GTAGAATTA
54801836 CTATTTTGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAGAATTATCGAAATACCCATGTAGG
Found at i:54801775 original size:54 final size:54
Alignment explanation
Indices: 54801692--54801836 Score: 191
Period size: 54 Copynumber: 2.7 Consensus size: 54
54801682 TAGATAAGTT
* **
54801692 GTAGAATTACCGAAATACCCATGTGGGGTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTATCGAAATACCCATGTGGGGTAGAATTACCGAAATACCCCTATAGG
* * * *
54801746 GTAGAATTATTGAAATACCCATGTAGGGTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTATCGAAATACCCATGTGGGGTAGAATTACCGAAATACCCCTATAGG
* * * *
54801800 TTAGAATTATCGAGATACCCTTGTGGGGTAAAATTAC
1 GTAGAATTATCGAAATACCCATGTGGGGTAGAATTAC
54801837 TATTTTGCCC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (54 bp):
GTAGAATTATCGAAATACCCATGTGGGGTAGAATTACCGAAATACCCCTATAGG
Found at i:54802623 original size:27 final size:26
Alignment explanation
Indices: 54802571--54802629 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
54802561 CCACATATAT
*
54802571 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
54802597 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
54802624 ATATCT
1 ATATCT
54802630 AATAGCTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:54804018 original size:35 final size:36
Alignment explanation
Indices: 54803958--54804045 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 36
54803948 CTTGGCCCAT
* *
54803958 TGCAGTAACAGTAAACAATAAAGTAACAGT-AATAG
1 TGCAGTAATAGTAAACAATAAAGTAACAATAAATAG
* *
54803993 TGCATTAATAGTAAACAATACAGTAACAATAAATAG
1 TGCAGTAATAGTAAACAATAAAGTAACAATAAATAG
* *
54804029 TGTAGTAATAATAAACA
1 TGCAGTAATAGTAAACA
54804046 GTATGCAAGT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 26 0.58
36 19 0.42
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (36 bp):
TGCAGTAATAGTAAACAATAAAGTAACAATAAATAG
Found at i:54804399 original size:27 final size:27
Alignment explanation
Indices: 54804368--54804542 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
54804358 ACAAAGGAGT
* *
54804368 AAAACAGTCATCTTACCAT-AAAAGGGC
1 AAAACAGTCATTTTACC-TCATAAGGGC
*
54804395 AAAACAGTCATTTTACCACATAAGGGC
1 AAAACAGTCATTTTACCTCATAAGGGC
* * * *
54804422 AAAACAATGATTTTACCTCATAAAGGA
1 AAAACAGTCATTTTACCTCATAAGGGC
* *
54804449 AAAACAGTGATTTTACCTCATAAGGGA
1 AAAACAGTCATTTTACCTCATAAGGGC
*
54804476 AAAATAGTCATTTTACCTCATAAGGGC
1 AAAACAGTCATTTTACCTCATAAGGGC
54804503 AAAACAGTCA-TTTATCC-CATAAGGG-
1 AAAACAGTCATTTTA-CCTCATAAGGGC
*
54804528 AAAAAAGTCATTTTA
1 AAAACAGTCATTTTA
54804543 TCGATTAAGG
Statistics
Matches: 130, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
25 9 0.07
26 16 0.12
27 105 0.81
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (27 bp):
AAAACAGTCATTTTACCTCATAAGGGC
Found at i:54814105 original size:18 final size:18
Alignment explanation
Indices: 54814048--54814134 Score: 79
Period size: 18 Copynumber: 4.9 Consensus size: 18
54814038 CTTGGCCCAT
* *
54814048 TGCAGTAACAGT-AACAA
1 TGCAGTAATAGTAAACAG
* *
54814065 TGCAGTAACAGT-AACAA
1 TGCAGTAATAGTAAACAG
** *
54814082 CACAGTAATAGCAAACAG
1 TGCAGTAATAGTAAACAG
*
54814100 TGCAGTAACAGTAAACAG
1 TGCAGTAATAGTAAACAG
*
54814118 TGCAATAATAGTAAACA
1 TGCAGTAATAGTAAACA
54814135 ATATGCAAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
17 25 0.43
18 33 0.57
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
TGCAGTAATAGTAAACAG
Found at i:54814555 original size:27 final size:27
Alignment explanation
Indices: 54814448--54814658 Score: 216
Period size: 27 Copynumber: 7.9 Consensus size: 27
54814438 AACATACATA
* * *
54814448 CATAGGGGTAAAACAATCATCTTACCAT
1 CATAAGGGCAAAACAATCATTTTACC-T
* * * * *
54814476 -AAAAGCGCAAAACAGTCATCTTACCA
1 CATAAGGGCAAAACAATCATTTTACCT
* * *
54814502 CATAAGAGCAAAAAAATGATTTTACCT
1 CATAAGGGCAAAACAATCATTTTACCT
*
54814529 CATAAGGGCAAAACAATGATTTTACCT
1 CATAAGGGCAAAACAATCATTTTACCT
* *
54814556 CATAACGG-AAAAAAAGTCATTTTACCT
1 CATAAGGGCAAAACAA-TCATTTTACCT
*
54814583 CATAAAGGCAAAA-AAGTCATTTTACCT
1 CATAAGGGCAAAACAA-TCATTTTACCT
*
54814610 CATAAGGG-AAAA-AGTCATTTTACCT
1 CATAAGGGCAAAACAATCATTTTACCT
54814635 CATAAGGGCAAAACAATCATTTTA
1 CATAAGGGCAAAACAATCATTTTA
54814659 TGCCATAAGT
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
25 19 0.12
26 15 0.10
27 118 0.76
28 4 0.03
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.25
Consensus pattern (27 bp):
CATAAGGGCAAAACAATCATTTTACCT
Found at i:54818524 original size:735 final size:735
Alignment explanation
Indices: 54817099--54818569 Score: 2550
Period size: 735 Copynumber: 2.0 Consensus size: 735
54817089 GGGTTCGACC
*
54817099 ATAAGCCAAGGATTCGATAGCCCAAAAGGAAAACCATAATAATAAGGGAGAAGTTTCTCAAAAGC
1 ATAAGCCAAGGATTCGATAGCCCAAAAGGAAAACCATAATAACAAGGGAGAAGTTTCTCAAAAGC
*
54817164 AGAAAGAGTAGAGGAAAAGAGGAGAAGAACTATTCGGCAACAATACCAATGTGGAAGGAGAGGGA
66 AGAAAGAGTAGAGGAAAAGAGAAGAAGAACTATTCGGCAACAATACCAATGTGGAAGGAGAGGGA
* *
54817229 AACATTGAAACTTAAAAGAATTGAGAAGGAGGAAGGAAAAAGGGTATTCGGCCAAAGAGGGAATC
131 AACATTAAAACTTAAAAGAATTGAGAAGGAGGAAGGAAAAAGGGTATTCGGCCAAAGAAGGAATC
* *
54817294 AATTGAGGAAGAGGGAGAAAAGAAAGAATTGGTTTAGACCCAGGAGCTAAAAGCTGAACAACTTT
196 AATTGAGGAAGAGGGAGAAAAGAAAGAATCGATTTAGACCCAGGAGCTAAAAGCTGAACAACTTT
* *
54817359 GAGATAGGAGAAAGGAGTATTCGACCAAGGAGAGAAGGGAAAATGATCCAAAACATAAATCCAAA
261 AAGAGAGGAGAAAGGAGTATTCGACCAAGGAGAGAAGGGAAAATGATCCAAAACATAAATCCAAA
*
54817424 AAGCACAAATGAGAGAAACAGTGAAGCCTCTTAGCACCAATCGGTTTCCAAAGAAATGAAGCAAC
326 AAGCACAAATGAGAGAAACAGTGAAGCCTCTTAGCACCAATCAGTTTCCAAAGAAATGAAGCAAC
54817489 CAAAACAAAGTGCTAAAACTCACCGAAATCAAATTCTTCCCCAAAGTCGATTCCTTTGAGTGCCT
391 CAAAACAAAGTGCTAAAACTCACCGAAATCAAATTCTTCCCCAAAGTCGATTCCTTTGAGTGCCT
*
54817554 AAAGTTCAAATCCGTCACACCACTTCCTCTCACCTCAACCCCCCATGATTTTCTCTTAAAATTTG
456 AAAGTTCAAATCCGTCACACCACTTCCTCTCACCTCAACCCCCCATGATTTTCTCCTAAAATTTG
*
54817619 GCTACACAATCCTCACACCCTCAAACACTCCCCCTAGCATCAGAATCCTACTGACACACAAACAC
521 GCTACACAATCCCCACACCCTCAAACACTCCCCCTAGCATCAGAATCCTACTGACACACAAACAC
* *
54817684 TCACACGACATTCAACAAAATAAAATGCACCCTGTGCATAGCAGGACTCGAACTCAAGACCTTTA
586 TCACACGACATTCAACAAAATAAAATGCACCCTGCGCATAGCAGGACTCGAACTCAAGACCTTCA
*
54817749 GTTACAGTAACAAGCCACCATTCCTTAGACTAACAGGCCCATTCTGTCATGAAATACTCACATTT
651 GTTACAGTAACAAGCCACCATTCCTTAGACCAACAGGCCCATTCTGTCATGAAATACTCACATTT
54817814 ATTTAAAAGGCCTACTGACT
716 ATTTAAAAGGCCTACTGACT
* * *
54817834 ATAAGCTAAGGATTCGATAGCCTAAAAGGAAAACCATAATAACAAGGGAGAAGTTTCTCAAAAGT
1 ATAAGCCAAGGATTCGATAGCCCAAAAGGAAAACCATAATAACAAGGGAGAAGTTTCTCAAAAGC
*
54817899 AGAAAGAGTAGAGGAAAAGAGAAGAAGAACTATTTGGCAACAATACCAATGTGGAAGGAGAGGGA
66 AGAAAGAGTAGAGGAAAAGAGAAGAAGAACTATTCGGCAACAATACCAATGTGGAAGGAGAGGGA
* *
54817964 AACATTAAAACTTGAAAGAATTGAGAAGGAGGAAGGAAAAAGGGTATTCGGCTAAAGAAGGAATC
131 AACATTAAAACTTAAAAGAATTGAGAAGGAGGAAGGAAAAAGGGTATTCGGCCAAAGAAGGAATC
54818029 AATTGAGGAAGAGGGAGAAAAGAAAGAATCGATTTAGACCCAGGAGCTAAAAGCTGAACAACTTT
196 AATTGAGGAAGAGGGAGAAAAGAAAGAATCGATTTAGACCCAGGAGCTAAAAGCTGAACAACTTT
* ** **
54818094 AAGAGAGGAGAAAGGAGTATTCGGCCAAGGAGAGAAGGGAAAATGATCCAAAATTTAAATCTGAA
261 AAGAGAGGAGAAAGGAGTATTCGACCAAGGAGAGAAGGGAAAATGATCCAAAACATAAATCCAAA
54818159 AAGCACAAATGAGAGAAACAGTGAAGCCTCTTAGCACCAATCAGTTTCCAAAGAAATGAAGCAAC
326 AAGCACAAATGAGAGAAACAGTGAAGCCTCTTAGCACCAATCAGTTTCCAAAGAAATGAAGCAAC
* * *
54818224 CAAAACGAAGTGCTAAAACTCACTGAAATCAAATTCTTCCCTAAAGTCGATTCCTTTGAGTGCCT
391 CAAAACAAAGTGCTAAAACTCACCGAAATCAAATTCTTCCCCAAAGTCGATTCCTTTGAGTGCCT
* * *
54818289 AAAGTTCAAATCTGTCACACCACTTCCTTTCACCTCAACTCCCCATGATTTTCTCCTAAAATTTG
456 AAAGTTCAAATCCGTCACACCACTTCCTCTCACCTCAACCCCCCATGATTTTCTCCTAAAATTTG
* *
54818354 GCTACACAATCCCCACACCCTCAAACACTCCTCCTAGCATCAGAATCCTACTGGCACACAAACAC
521 GCTACACAATCCCCACACCCTCAAACACTCCCCCTAGCATCAGAATCCTACTGACACACAAACAC
**
54818419 TCACACGACATTCAGTAAAATAAAATGCACCCTGCGCATAGCAGGACTCGAACTCAAGACC-TCA
586 TCACACGACATTCAACAAAATAAAATGCACCCTGCGCATAGCAGGACTCGAACTCAAGACCTTCA
** *
54818483 GGTTACAGTAA-AATGCCACCATTCCTTAGACCAGTAGGCCCATTTTGTCATGAAATACTCACAT
651 -GTTACAGTAACAA-GCCACCATTCCTTAGACCAACAGGCCCATTCTGTCATGAAATACTCACAT
* *
54818547 TTATTTAAAAGGTCTATTGACT
714 TTATTTAAAAGGCCTACTGACT
54818569 A
1 A
54818570 GAGACAGGGT
Statistics
Matches: 694, Mismatches: 40, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
734 4 0.01
735 690 0.99
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (735 bp):
ATAAGCCAAGGATTCGATAGCCCAAAAGGAAAACCATAATAACAAGGGAGAAGTTTCTCAAAAGC
AGAAAGAGTAGAGGAAAAGAGAAGAAGAACTATTCGGCAACAATACCAATGTGGAAGGAGAGGGA
AACATTAAAACTTAAAAGAATTGAGAAGGAGGAAGGAAAAAGGGTATTCGGCCAAAGAAGGAATC
AATTGAGGAAGAGGGAGAAAAGAAAGAATCGATTTAGACCCAGGAGCTAAAAGCTGAACAACTTT
AAGAGAGGAGAAAGGAGTATTCGACCAAGGAGAGAAGGGAAAATGATCCAAAACATAAATCCAAA
AAGCACAAATGAGAGAAACAGTGAAGCCTCTTAGCACCAATCAGTTTCCAAAGAAATGAAGCAAC
CAAAACAAAGTGCTAAAACTCACCGAAATCAAATTCTTCCCCAAAGTCGATTCCTTTGAGTGCCT
AAAGTTCAAATCCGTCACACCACTTCCTCTCACCTCAACCCCCCATGATTTTCTCCTAAAATTTG
GCTACACAATCCCCACACCCTCAAACACTCCCCCTAGCATCAGAATCCTACTGACACACAAACAC
TCACACGACATTCAACAAAATAAAATGCACCCTGCGCATAGCAGGACTCGAACTCAAGACCTTCA
GTTACAGTAACAAGCCACCATTCCTTAGACCAACAGGCCCATTCTGTCATGAAATACTCACATTT
ATTTAAAAGGCCTACTGACT
Found at i:54833400 original size:30 final size:30
Alignment explanation
Indices: 54833364--54833425 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
54833354 TTCCCGAGCC
54833364 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
54833394 TAGGGGAAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
54833424 TA
1 TA
54833426 AGTTAAGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:54840636 original size:16 final size:17
Alignment explanation
Indices: 54840605--54840637 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54840595 TTCATAAGTA
54840605 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
54840622 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
54840638 GCTCTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:54841192 original size:46 final size:46
Alignment explanation
Indices: 54840923--54841196 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
54840913 TTTGACATGA
* * * * *
54840923 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * * *
54840969 TGCCATGGTATCTTTTAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * * * *
54841015 TGCCAAGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
54841061 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
54841107 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
54841153 TGCCATGGTATCTTTCAACCATGGTGTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
54841197 AGAACACACT
Statistics
Matches: 206, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 202 0.98
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:54841614 original size:273 final size:273
Alignment explanation
Indices: 54841127--54841654 Score: 966
Period size: 273 Copynumber: 1.9 Consensus size: 273
54841117 TCTTTCAACC
** *
54841127 ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTGTTACACATTTCAT
1 ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGACTTACACATTTAAT
* *
54841192 ATCAGAGAACACACTCCCGCGAACCTCATCCTTATAGTGGGATTACCAGTCCAGGCTAAATCCCC
66 ATCAGAGAACACACTCCCGCGAACCTCATCCTTATACTGGGATTACCAGTCCAAGCTAAATCCCC
* *
54841257 TGTAATATAAACTCATAGAGTATTGTCGGGATTACCAGTCCAGGCTAAATCCCTTGCAACGACAA
131 TGTAATATAAACTCATAGAGTATTGTCAGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAA
54841322 TTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGCTAAATTTAGACCCTAATTCGGATTAC
196 TTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGCTAAATTTAGACCCTAATTCGGATTAC
54841387 CCGTCCGGGCTAA
261 CCGTCCGGGCTAA
54841400 ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGACTTACACATTTAAT
1 ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGACTTACACATTTAAT
*
54841465 ATCAGAGAGCACACTCCCGCGAACCTCATCCTTATACTGGGATTACCAGTCCAAGCTAAATCCCC
66 ATCAGAGAACACACTCCCGCGAACCTCATCCTTATACTGGGATTACCAGTCCAAGCTAAATCCCC
*
54841530 TGTAATGTAAACTCATAGAGTATTGTCAGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAA
131 TGTAATATAAACTCATAGAGTATTGTCAGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAA
*
54841595 TTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGCTAAATTTAGACCCTGATTCGG
196 TTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGCTAAATTTAGACCCTAATTCGG
54841655 GAGGGCTATA
Statistics
Matches: 245, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
273 245 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (273 bp):
ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGACTTACACATTTAAT
ATCAGAGAACACACTCCCGCGAACCTCATCCTTATACTGGGATTACCAGTCCAAGCTAAATCCCC
TGTAATATAAACTCATAGAGTATTGTCAGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAA
TTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGCTAAATTTAGACCCTAATTCGGATTAC
CCGTCCGGGCTAA
Found at i:54843100 original size:47 final size:47
Alignment explanation
Indices: 54843046--54843136 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
54843036 TTTCTATTTC
*
54843046 TTGAATCCAACTTGATATTCTTGCTCCCCATCATCTTCTTGCTATAT
1 TTGAATCCAACTTGATATTCTTGCTCCCCATCATCTCCTTGCTATAT
* *
54843093 TTGAATCCAACTTGATATTCTTGCTCTCGATCATCTCCTTGCTA
1 TTGAATCCAACTTGATATTCTTGCTCCCCATCATCTCCTTGCTA
54843137 CCTTTCTCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.21, C:0.27, G:0.10, T:0.42
Consensus pattern (47 bp):
TTGAATCCAACTTGATATTCTTGCTCCCCATCATCTCCTTGCTATAT
Found at i:54847018 original size:13 final size:13
Alignment explanation
Indices: 54847000--54847024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54846990 AAATGAGCAC
54847000 GGGCTAGACACAT
1 GGGCTAGACACAT
54847013 GGGCTAGACACA
1 GGGCTAGACACA
54847025 CAGGCGTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.32, T:0.12
Consensus pattern (13 bp):
GGGCTAGACACAT
Found at i:54852448 original size:27 final size:26
Alignment explanation
Indices: 54852369--54852656 Score: 213
Period size: 27 Copynumber: 10.7 Consensus size: 26
54852359 CTTGGTTTAC
* *
54852369 AAAATTACCAAAATACCCTCGATTAGC
1 AAAATTACCAAAATACCCT-GATTTGT
*
54852396 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATA-CCCTGATTTGT
* *
54852423 ATAATTACCAAAATGCCTCTGATTTGT
1 AAAATTACCAAAATACC-CTGATTTGT
* * * **
54852450 GAAATTATCGAAATACCCTCGACCTG-
1 AAAATTACCAAAATACCCT-GATTTGT
* * * ** *
54852476 AAAATTACCGAAATTCCTTTGACCTAT
1 AAAATTACCAAAATACC-CTGATTTGT
* *
54852503 AAAATTACCAAAATACCATCGACTTGT
1 AAAATTACCAAAATACCCT-GATTTGT
*
54852530 AAAATTACCGAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCT-GATTTGT
*
54852557 AAAATTTCCAAAATACGCCTGATTTGT
1 AAAATTACCAAAATAC-CCTGATTTGT
** *
54852584 AAAATTACTGAAATACCATTGATTTAG-
1 AAAATTACCAAAATACC-CTGATTT-GT
* *
54852611 AAAATTACAAAAATACCCCTGATTTAT
1 AAAATTACCAAAATA-CCCTGATTTGT
*
54852638 AGAATTA-CAGAAATACCCT
1 AAAATTACCA-AAATACCCT
54852657 TGACTTTCAA
Statistics
Matches: 211, Mismatches: 38, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
26 30 0.14
27 171 0.81
28 10 0.05
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTGATTTGT
Found at i:54852598 original size:81 final size:80
Alignment explanation
Indices: 54852369--54852656 Score: 253
Period size: 81 Copynumber: 3.6 Consensus size: 80
54852359 CTTGGTTTAC
* * * *
54852369 AAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCCCTGGTTTGTATAATTACCAA
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATA-CCCTGATTTGTAAAATTACCAA
*
54852434 AATGCC-TCTGATTTGT
65 AATACCATC-GATTTGT
* * * ** * * * ** *
54852450 GAAATTATCGAAATACCCTCGACCTG-AAAATTACCGAAATTCCTTTGACCTATAAAATTACCAA
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACC-CTGATTTGTAAAATTACCAA
*
54852514 AATACCATCGACTTGT
65 AATACCATCGATTTGT
* * **
54852530 AAAATTACCGAAATACCCTCGATTTGTAAAATTTCCAAAATACGCCTGATTTGTAAAATTACTGA
1 AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATAC-CCTGATTTGTAAAATTACCAA
*
54852595 AATACCATTGATTTAG-
65 AATACCATCGATTT-GT
* * *
54852611 AAAATTACAAAAATACCC-CTGATTTATAGAATTA-CAGAAATACCCT
1 AAAATTACCAAAATACCCTC-GATTTGTAAAATTACCA-AAATACCCT
54852657 TGACTTTCAA
Statistics
Matches: 164, Mismatches: 36, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
79 2 0.01
80 66 0.40
81 94 0.57
82 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTGATTTGTAAAATTACCAAA
ATACCATCGATTTGT
Found at i:54852717 original size:27 final size:27
Alignment explanation
Indices: 54852344--54852718 Score: 170
Period size: 27 Copynumber: 13.9 Consensus size: 27
54852334 TAGAGGGTAG
* *
54852344 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACTGAAATACCCTTGATTTGCAA
** * *
54852371 AATTACCAAAATACCCTCGATTAGCAA
1 AATTACTGAAATACCCTTGATTTGCAA
** * * * *
54852398 AATTACCAAAATACCCCTGGTTTGTAT
1 AATTACTGAAATACCCTTGATTTGCAA
** * **
54852425 AATTACCAAAAT-GCCTCTGATTTGTGA
1 AATTACTGAAATACCCT-TGATTTGCAA
* **
54852452 AATTA-TCGAAATACCCTCGACCTG-AA
1 AATTACT-GAAATACCCTTGATTTGCAA
* * * ** **
54852478 AATTACCGAAATTCCTTTGACCTATAA
1 AATTACTGAAATACCCTTGATTTGCAA
** * * * *
54852505 AATTACCAAAATACCATCGACTTGTAA
1 AATTACTGAAATACCCTTGATTTGCAA
* * *
54852532 AATTACCGAAATACCCTCGATTTGTAA
1 AATTACTGAAATACCCTTGATTTGCAA
* ** *
54852559 AATTTCCAAAATACGCC-TGATTTGTAA
1 AATTACTGAAATAC-CCTTGATTTGCAA
*
54852586 AATTACTGAAATACCATTGATTTAG-AA
1 AATTACTGAAATACCCTTGATTT-GCAA
** * ** *
54852613 AATTACAAAAATACCCCTGATTTATAG
1 AATTACTGAAATACCCTTGATTTGCAA
*
54852640 AATTACAGAAATACCCTTGACTTT-CAAA
1 AATTACTGAAATACCCTTGA-TTTGC-AA
**
54852668 AATTACTGAAATATCATTTG-TTTGCAA
1 AATTACTGAAATA-CCCTTGATTTGCAA
* *
54852695 AATTACTGAAATACCTTTGGTTTG
1 AATTACTGAAATACCCTTGATTTG
54852719 TAGATTTACC
Statistics
Matches: 275, Mismatches: 59, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
26 27 0.10
27 221 0.80
28 23 0.08
29 4 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGATTTGCAA
Found at i:54854223 original size:83 final size:83
Alignment explanation
Indices: 54854079--54854238 Score: 257
Period size: 83 Copynumber: 1.9 Consensus size: 83
54854069 TGGCTAAAGG
* *
54854079 TTTTAAATAGTAAGAAGGGTTTTAAATGAGAACACGGTTTTCGAAAAACACTTCAATGTGACACG
1 TTTTAAATAGTAAGAAGGATTTTAAATGAGAACACGGTTTTCGAAAAACACTTCAAAGTGACACG
54854144 CAAGATTTCGGCCATAAA
66 CAAGATTTCGGCCATAAA
* * *
54854162 TTTTAAATAGTAAGAAGGATTTTCAATGAGAACATGGTTTTCGAAAATCACTTCAAAGTGACACG
1 TTTTAAATAGTAAGAAGGATTTTAAATGAGAACACGGTTTTCGAAAAACACTTCAAAGTGACACG
* *
54854227 CCAGGTTTCGGC
66 CAAGATTTCGGC
54854239 TATAGTGTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 70 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (83 bp):
TTTTAAATAGTAAGAAGGATTTTAAATGAGAACACGGTTTTCGAAAAACACTTCAAAGTGACACG
CAAGATTTCGGCCATAAA
Found at i:54856476 original size:42 final size:41
Alignment explanation
Indices: 54856387--54856549 Score: 116
Period size: 42 Copynumber: 3.9 Consensus size: 41
54856377 CAACACCAAC
** *
54856387 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCA
1 GTCCCAGACAAGGTCTTACATGTAATCACATATCGATACCA
* * *
54856428 GTTCCCAGACAAGGTCTTATATGTACTCATATA-CGATACCGA
1 G-TCCCAGACAAGGTCTTACATGTAATCACATATCGATACC-A
** * * *
54856470 TGTCCCAGACATA-GTCTTACACATAAATTACAAATCGATGCCAA
1 -GTCCCAGACA-AGGTCTTACATGT-AATCACATATCGATACC-A
* *
54856514 CGTCCCAGACATGGTCTTACATGAAAT-AGCATATCG
1 -GTCCCAGACAAGGTCTTACATGTAATCA-CATATCG
54856550 GAATCCTATG
Statistics
Matches: 93, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
41 7 0.08
42 45 0.48
43 16 0.17
44 25 0.27
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (41 bp):
GTCCCAGACAAGGTCTTACATGTAATCACATATCGATACCA
Found at i:54868008 original size:5 final size:5
Alignment explanation
Indices: 54867998--54868022 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
54867988 AGTAATAATA
54867998 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
54868023 GCAAGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:54870416 original size:41 final size:41
Alignment explanation
Indices: 54870357--54870479 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
54870347 AAAAGCCACC
*
54870357 GGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAATT
1 GGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATT
* *
54870398 GTTGGATCCACGATCGTCAAGCAACCATGCGATTCTCAATT
1 GGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATT
* *
54870439 GGTGGATCTACGATCGTCAAGCAACTATGCGATCCTCAATT
1 GGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATT
54870480 TCTTCCTTCG
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
GGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATT
Found at i:54870769 original size:27 final size:27
Alignment explanation
Indices: 54870739--54870791 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
54870729 CCTAAATCTA
54870739 CAAACCAATAGTATTT-TGATAATTTTG
1 CAAACCAATAGTATTTCTG-TAATTTTG
*
54870766 CAAACCAATGGTATTTCTGTAATTTT
1 CAAACCAATAGTATTTCTGTAATTTT
54870792 TGAAAGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (27 bp):
CAAACCAATAGTATTTCTGTAATTTTG
Found at i:54870806 original size:28 final size:27
Alignment explanation
Indices: 54870749--54871059 Score: 195
Period size: 27 Copynumber: 11.6 Consensus size: 27
54870739 CAAACCAATA
* *
54870749 GTATTT-TGATAATTTTGC-AAACCAATG
1 GTATTTCTG-TAATTTT-CTAAATCAAGG
*
54870776 GTATTTCTGTAATTTT-TGAAAGTTAAGG
1 GTATTTCTGTAATTTTCT-AAA-TCAAGG
* *
54870804 GTATTTTTGTAATTTTCTAAATCAGGG
1 GTATTTCTGTAATTTTCTAAATCAAGG
*
54870831 GTATTTCTGTAATTTTCCAAATCAAAGG
1 GTATTTCTGTAATTTTCTAAATC-AAGG
** ** *
54870859 G-ATTTCAATAATTTTAC-AGGTCGAGG
1 GTATTTCTGTAATTTT-CTAAATCAAGG
54870885 GTATTT-TGGTAA-TTTCATAAATCAAGG
1 GTATTTCT-GTAATTTTC-TAAATCAAGG
*
54870912 GTATTT-TGGTAATTTTAC-AAATCAGGG
1 GTATTTCT-GTAATTTT-CTAAATCAAGG
*
54870939 GTATTT-TGGTAATTTTAC-AAAGT-AGGG
1 GTATTTCT-GTAATTTT-CTAAA-TCAAGG
54870966 GTATTT-TGGTAATTTTGCT-AATCAAGG
1 GTATTTCT-GTAATTTT-CTAAATCAAGG
* * *
54870993 GTA-TTCAGTAATTTTGTAAACCAAGG
1 GTATTTCTGTAATTTTCTAAATCAAGG
* * *
54871019 GTA-TTCAGTAATTTTGTAAACCAAGG
1 GTATTTCTGTAATTTTCTAAATCAAGG
*
54871045 GTATTTCAGTAATTT
1 GTATTTCTGTAATTT
54871060 ACCCTACAGG
Statistics
Matches: 240, Mismatches: 25, Indels: 38
0.79 0.08 0.13
Matches are distributed among these distances:
25 2 0.01
26 54 0.22
27 150 0.62
28 32 0.13
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GTATTTCTGTAATTTTCTAAATCAAGG
Found at i:54870914 original size:81 final size:82
Alignment explanation
Indices: 54870749--54871033 Score: 257
Period size: 81 Copynumber: 3.5 Consensus size: 82
54870739 CAAACCAATA
* * * ** ** *
54870749 GTATTT-TGATAATTTTGCAAACCAATGGTATTTCTGTAATTTTTGAAAGTTA-AGGGTATTTTT
1 GTATTTCTG-TAATTTTACAAATCAAGGGTATTTCAATAATTTTACAAAG-TAGAGGGTATTTTG
*
54870812 GTAATTTTCTAAATCAGGG
64 GTAATTTTCTAAATCAAGG
* * *
54870831 GTATTTCTGTAATTTTCCAAATCAAAGGG-ATTTCAATAATTTTAC-AGGTCGAGGGTATTTTGG
1 GTATTTCTGTAATTTTACAAATC-AAGGGTATTTCAATAATTTTACAAAGTAGAGGGTATTTTGG
54870894 TAA-TTTCATAAATCAAGG
65 TAATTTTC-TAAATCAAGG
* ***
54870912 GTATTT-TGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAGTAG-GGGTATTTTGG
1 GTATTTCT-GTAATTTTACAAATCAAGGGTATTTCAATAATTTTACAAAGTAGAGGGTATTTTGG
54870975 TAATTTTGCT-AATCAAGG
65 TAATTTT-CTAAATCAAGG
* ** * *
54870993 GTA-TTCAGTAATTTTGTAAACCAAGGGTA-TTCAGTAATTTT
1 GTATTTCTGTAATTTTACAAATCAAGGGTATTTCAATAATTTT
54871034 GTAAACCAAG
Statistics
Matches: 168, Mismatches: 25, Indels: 23
0.78 0.12 0.11
Matches are distributed among these distances:
79 10 0.06
80 30 0.18
81 83 0.49
82 38 0.23
83 7 0.04
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (82 bp):
GTATTTCTGTAATTTTACAAATCAAGGGTATTTCAATAATTTTACAAAGTAGAGGGTATTTTGGT
AATTTTCTAAATCAAGG
Found at i:54871008 original size:26 final size:26
Alignment explanation
Indices: 54870974--54871059 Score: 138
Period size: 26 Copynumber: 3.3 Consensus size: 26
54870964 GGGTATTTTG
*
54870974 GTAATTTTGCT-AATCAAGGGTATTCA
1 GTAATTTTG-TAAACCAAGGGTATTCA
54871000 GTAATTTTGTAAACCAAGGGTATTCA
1 GTAATTTTGTAAACCAAGGGTATTCA
54871026 GTAATTTTGTAAACCAAGGGTATTTCA
1 GTAATTTTGTAAACCAAGGGTA-TTCA
54871053 GTAATTT
1 GTAATTT
54871060 ACCCTACAGG
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
25 1 0.02
26 45 0.79
27 11 0.19
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (26 bp):
GTAATTTTGTAAACCAAGGGTATTCA
Found at i:54871103 original size:27 final size:26
Alignment explanation
Indices: 54871040--54871103 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 26
54871030 TTTTGTAAAC
54871040 CAAGGGTATTTCAGTAATTTACCCTA
1 CAAGGGTATTTCAGTAATTTACCCTA
* *
54871066 C-AGGGAAATTTCAGTAATTGTACCTTA
1 CAAGGG-TATTTCAGTAATT-TACCCTA
54871093 CAAGGGTATTT
1 CAAGGGTATTT
54871104 TAGAAATCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 4 0.12
26 13 0.41
27 11 0.34
28 4 0.12
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (26 bp):
CAAGGGTATTTCAGTAATTTACCCTA
Found at i:54873417 original size:24 final size:24
Alignment explanation
Indices: 54873390--54873452 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
54873380 ATTAAAATCA
* * *
54873390 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACAACACC
*
54873414 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACAACACC
54873438 GCACACATAGTGCCA
1 GCACACATAGTGCCA
54873453 ATGTGCACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACAACACC
Found at i:54885764 original size:29 final size:29
Alignment explanation
Indices: 54885697--54885821 Score: 198
Period size: 29 Copynumber: 4.3 Consensus size: 29
54885687 AAGTCTATAT
* *
54885697 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
54885725 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
54885754 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
54885783 ACATTCATATGGACCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
54885812 ACATTCATAT
1 ACATTCATAT
54885822 TCATACTTTC
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 21 0.24
29 68 0.76
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:54886073 original size:16 final size:16
Alignment explanation
Indices: 54886031--54886065 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
54886021 GTAGCCAAAC
* *
54886031 TTTCAAATTTTTGGCA
1 TTTCAACTTTTCGGCA
54886047 TTTCAACTTTTCGGCA
1 TTTCAACTTTTCGGCA
54886063 TTT
1 TTT
54886066 TGACTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (16 bp):
TTTCAACTTTTCGGCA
Found at i:54892498 original size:27 final size:27
Alignment explanation
Indices: 54892466--54892528 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
54892456 ACCCCCTATA
*
54892466 TATATGATAAAATGACTATTTTGCCCT
1 TATATGATAAAATGACTATTTTGCCCC
* * *
54892493 TATATGTTAAGATGACTGTTTTGCCCC
1 TATATGATAAAATGACTATTTTGCCCC
*
54892520 TATGTGATA
1 TATATGATA
54892529 TATATATGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (27 bp):
TATATGATAAAATGACTATTTTGCCCC
Found at i:54894391 original size:93 final size:93
Alignment explanation
Indices: 54894279--54894450 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
54894269 GCCCATAAGT
* *
54894279 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTTAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TCAGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
54894343 ACGAGCTCGAATGCCTAGTTACATCTCTC
65 ACGAGCTCGAATGCCTAGTTACATCTCTC
** *
54894372 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
54894437 CGAGTTCGGATGCC
66 CGAGCTCGAATGCC
54894451 CAAATATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTCAGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCTC
Found at i:54894442 original size:46 final size:46
Alignment explanation
Indices: 54894271--54894441 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
54894261 TGTAACCCGC
* *
54894271 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCTGGACATTCGCAT
** * *
54894317 CCATAAGTGAACTTAGACTCAACTCAACGAG-CTCGA-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTCTGGACATTCGC-A--T
* *** *
54894363 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTCTGGACATTCGCAT
54894410 CCATAAGTGAACTCGGACTCAACTCAACGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT
54894442 TCGGATGCCC
Statistics
Matches: 98, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
46 58 0.59
47 26 0.27
48 3 0.03
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTCTGGACATTCGCAT
Found at i:54897413 original size:566 final size:566
Alignment explanation
Indices: 54896341--54897472 Score: 1991
Period size: 566 Copynumber: 2.0 Consensus size: 566
54896331 AGGAAGTCTT
* *
54896341 TGTAATATCCTGAATTAGGGCTTAATCAGAATAGTGGTTTCATGACCACAAATCTGAGATAGAAA
1 TGTAATATCCTGAATTAGGGCTTAATCAGAATAGTGGTTTCATGACCACAAATCCGAGATAAAAA
* *
54896406 TAATTATTTTATAATTATTTTGATGATTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAT
66 TAATTATTTTATAATGATTTTGATGAATATGATATGATTGCATGATTGTGTGAAAATTTCGTGAT
54896471 AAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAACTTG
131 AAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAACTTG
** * *
54896536 CATTCTAGAAGTTTTTAGTATGAAATTATTTTGGAATATTAATGAGGAGGTCTTAAATAGCAATT
196 CATTCTAGAAGTTTTTAGTATGAAATTACATTGAAATATTAATGAGGAGGTCTTAAATAACAATT
* *
54896601 TGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTGGAAAGTTTAGTAGTA
261 TGACCAATTCTAAGTTCATGGACAAAATTAGGACATGGAAGAAATTTTTGGAAAGTTTAGTAGTA
* *
54896666 AGGGTATTTTTGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCC
326 AGGGCATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCC
*
54896731 ATCTTCTTCATTAGGCCGAAATTTCAAGGGTTCTCCATAGCTAGGGTTTGCTTCAAGCTTCCAAG
391 ATCTTCTTCATTAGGCCGAAATTTCAAGGGTCCTCCATAGCTAGGGTTTGCTTCAAGCTTCCAAG
*
54896796 CTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCCCGGTAGCT
456 CTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAAGCT
*
54896861 CGATTAAGCTTATGTTAGCAATAATTCAACCTAGGGTTTATATTTG
521 CGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATTTG
*
54896907 TGTAATATCCTGAATTAGGGCTTAATC-GAAATAGTGGTTTCGTGACCACAAATCCGAGATAAAA
1 TGTAATATCCTGAATTAGGGCTTAATCAG-AATAGTGGTTTCATGACCACAAATCCGAGATAAAA
*
54896971 ATAATTATTTTATAATGATTTTGATGAATATGATATGATTGCATGATTGTGTGAAAATTTTGTGA
65 ATAATTATTTTATAATGATTTTGATGAATATGATATGATTGCATGATTGTGTGAAAATTTCGTGA
* *
54897036 TGAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAATTT
130 TAAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAACTT
* *
54897101 GCATTCTAGAAGTTTTTAGTATGAAATTGCATTGAAATATTAATTAGGAGGTCTTAAATAACAAT
195 GCATTCTAGAAGTTTTTAGTATGAAATTACATTGAAATATTAATGAGGAGGTCTTAAATAACAAT
* *
54897166 TTTACCAATTCTAAG-TCTATGGACAAAAATT-GGACATGGATGAAATTTTTGGAAAGTTTAGTA
260 TTGACCAATTCTAAGTTC-ATGGAC-AAAATTAGGACATGGAAGAAATTTTTGGAAAGTTTAGTA
54897229 GTAAGGGCATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTG
323 GTAAGGGCATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTG
*
54897294 TCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTCCTCCATAGCTAGGGTTTGTTTCAAGCTTCC
388 TCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTCCTCCATAGCTAGGGTTTGCTTCAAGCTTCC
*
54897359 AAGCTCCATAGTAAGTGATTCCAAGCCTCGTTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAA
453 AAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAA
54897424 GCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATTTG
518 GCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATTTG
54897473 GAAAAATACC
Statistics
Matches: 538, Mismatches: 25, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
565 3 0.01
566 529 0.98
567 6 0.01
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (566 bp):
TGTAATATCCTGAATTAGGGCTTAATCAGAATAGTGGTTTCATGACCACAAATCCGAGATAAAAA
TAATTATTTTATAATGATTTTGATGAATATGATATGATTGCATGATTGTGTGAAAATTTCGTGAT
AAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAACTTG
CATTCTAGAAGTTTTTAGTATGAAATTACATTGAAATATTAATGAGGAGGTCTTAAATAACAATT
TGACCAATTCTAAGTTCATGGACAAAATTAGGACATGGAAGAAATTTTTGGAAAGTTTAGTAGTA
AGGGCATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCC
ATCTTCTTCATTAGGCCGAAATTTCAAGGGTCCTCCATAGCTAGGGTTTGCTTCAAGCTTCCAAG
CTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAAGCT
CGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATTTG
Found at i:54898360 original size:93 final size:93
Alignment explanation
Indices: 54898201--54898371 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
54898191 GGATGGTTGA
* *
54898201 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
54898266 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
54898294 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
54898359 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
54898372 ACTTATGGAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54898420 original size:46 final size:46
Alignment explanation
Indices: 54898205--54898422 Score: 291
Period size: 46 Copynumber: 4.7 Consensus size: 46
54898195 GGTTGAGCAT
* * *
54898205 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
54898251 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
54898296 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
54898344 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
54898390 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54898423 GGGGCGGGTT
Statistics
Matches: 153, Mismatches: 10, Indels: 18
0.85 0.06 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
45 2 0.01
46 106 0.69
47 28 0.18
48 4 0.03
50 4 0.03
51 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:54900528 original size:46 final size:46
Alignment explanation
Indices: 54900474--54900643 Score: 295
Period size: 46 Copynumber: 3.7 Consensus size: 46
54900464 GTTGAGCATT
* * *
54900474 CGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
54900520 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
*
54900566 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
*
54900612 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54900644 GGGGCGGGTT
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 120 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
Found at i:54905478 original size:46 final size:46
Alignment explanation
Indices: 54905411--54905585 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
54905401 TGTAACCCGC
*
54905411 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
54905457 CCATAAGTGAACTCAGACTCAACTCAACAAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * *
54905507 CTC-T---TGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
54905550 CCATAAGTGAACTCGAACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
54905586 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 59 0.57
47 25 0.24
48 1 0.01
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:54905526 original size:93 final size:93
Alignment explanation
Indices: 54905418--54905590 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 93
54905408 CGCCCATAAG
* * *
54905418 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-AGACTCAACTC
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGA-ACTCAACTC
54905482 AACAAGCTCGGATGCCTAGTTACATCTCT
65 AACAAGCTCGGATGCCTAGTTACATCTCT
* *
54905511 TGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
** *
54905576 ATGAGTTCGGATGCC
66 ACAAGCTCGGATGCC
54905591 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCT
Found at i:54910813 original size:47 final size:45
Alignment explanation
Indices: 54910712--54910873 Score: 165
Period size: 47 Copynumber: 3.5 Consensus size: 45
54910702 GTGCTGATAC
*
54910712 CATGTCCC-AACATGGTCTTACACTGACAC-CTCTC-ATAGCCGATG
1 CATGTCCCAAACAT-GTCTTACACTG-CACTCTCTCAATAGTCGATG
54910756 CATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAAT-GTCGATG
1 CATGTCCCAAACATGTCTTACACT-GCACTC-TCTCAATAGTCGATG
* * *
54910802 CCATGTCCCAAACATTGTCTTACACTG-GCTCTCAT-AATGTGGTTGATG
1 -CATGTCCCAAACA-TGTCTTACACTGCACTCTC-TCAA--TAGTCGATG
54910850 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAAACATGTCTTACACT
54910874 AGCTGACTCA
Statistics
Matches: 104, Mismatches: 3, Indels: 20
0.82 0.02 0.16
Matches are distributed among these distances:
44 21 0.20
45 11 0.11
46 25 0.24
47 30 0.29
48 17 0.16
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.29
Consensus pattern (45 bp):
CATGTCCCAAACATGTCTTACACTGCACTCTCTCAATAGTCGATG
Found at i:54917978 original size:13 final size:13
Alignment explanation
Indices: 54917960--54917990 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
54917950 CCCCGTACCC
54917960 GAGTCCGTCGCCG
1 GAGTCCGTCGCCG
54917973 GAGTCCGTCGCCG
1 GAGTCCGTCGCCG
54917986 GAGTC
1 GAGTC
54917991 GGACACGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.10, C:0.35, G:0.39, T:0.16
Consensus pattern (13 bp):
GAGTCCGTCGCCG
Found at i:54919459 original size:79 final size:82
Alignment explanation
Indices: 54919348--54919532 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
54919338 GCTACTCGTT
* *
54919348 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
54919411 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
54919428 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
54919491 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
54919508 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54919533 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:54919532 original size:40 final size:40
Alignment explanation
Indices: 54919329--54919532 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
54919319 CGGAATTTAA
** *
54919329 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54919369 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
54919409 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54919448 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
54919488 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
54919528 CCGGA
1 CCGGA
54919533 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:54927492 original size:79 final size:79
Alignment explanation
Indices: 54927324--54927506 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 79
54927314 GCTACTCGTT
* **
54927324 CAAATGCCTTCGGGACATAGCCCG-GTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGAAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
54927388 GATTTAGTAACTCGTAC
64 GATATAGTAACTC-TAC
* **
54927405 CAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
54927468 ATATGGTCACT-TAGC
65 ATATAGTAACTCTA-C
54927483 ACAAAGCCTTCGGGACTTAGCCCG
1 -CAAAGCCTTCGGGACTTAGCCCG
54927507 GACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
77 2 0.02
78 4 0.05
79 59 0.68
80 19 0.22
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTCTAC
Found at i:54927508 original size:40 final size:40
Alignment explanation
Indices: 54927324--54927508 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
54927314 GCTACTCGTT
* * *
54927324 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
54927364 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
54927404 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* * *
54927443 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
54927484 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54927509 CATCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 4 0.03
39 28 0.23
40 76 0.62
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:54929114 original size:46 final size:46
Alignment explanation
Indices: 54929055--54929178 Score: 146
Period size: 46 Copynumber: 2.7 Consensus size: 46
54929045 CTCTTGTAGT
*
54929055 CGATGCATATCCCAGACATGTCTTACACTGGCTTA-T-GTCTCCAA-AC
1 CGATGCATATCCCAGACATGTCTTACACT-AC-TACTCGTCT-CAATAC
* * *
54929101 CGATGCATGTCCCAGACATGTCTTATACTACTACTCGTCTCAATGC
1 CGATGCATATCCCAGACATGTCTTACACTACTACTCGTCTCAATAC
54929147 CGATGCCATATCCCAGACATAGTCTTACACTA
1 CGATG-CATATCCCAGACAT-GTCTTACACTA
54929179 GCTCTCATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 2 0.03
45 5 0.07
46 37 0.55
47 13 0.19
48 10 0.15
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (46 bp):
CGATGCATATCCCAGACATGTCTTACACTACTACTCGTCTCAATAC
Found at i:54932064 original size:43 final size:43
Alignment explanation
Indices: 54932017--54932108 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
54932007 TCCCAGATTT
* *
54932017 GGTCTTACATGTAAATACAT-AT-CGATGCCATTGTCCCAGACAG
1 GGTCTTACACG-AAAT-CATAATACGATGCCAGTGTCCCAGACAG
* * *
54932060 GGTCTTATACGAAATCATAATACGATGCCAGTGTCCTAGACAT
1 GGTCTTACACGAAATCATAATACGATGCCAGTGTCCCAGACAG
54932103 GGTCTT
1 GGTCTT
54932109 GATGCCAGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.07
42 6 0.14
43 33 0.79
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (43 bp):
GGTCTTACACGAAATCATAATACGATGCCAGTGTCCCAGACAG
Found at i:54932119 original size:26 final size:26
Alignment explanation
Indices: 54932083--54932134 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
54932073 ATCATAATAC
54932083 GATGCCAGTGTCCTAGACATGGTCTT
1 GATGCCAGTGTCCTAGACATGGTCTT
54932109 GATGCCAGTGTCCTAGACATGGTCTT
1 GATGCCAGTGTCCTAGACATGGTCTT
54932135 ACACGTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (26 bp):
GATGCCAGTGTCCTAGACATGGTCTT
Found at i:54932157 original size:69 final size:69
Alignment explanation
Indices: 54932040--54932177 Score: 163
Period size: 69 Copynumber: 2.0 Consensus size: 69
54932030 AATACATATC
* * * * *
54932040 GATGCCATTGTCCCAGACAGGGTCTTATACGAAATCATAATACGATGCCAGTGTC-CTAGACATG
1 GATGCCAGTGTCCCAGACAGGGTCTTACACGAAATCATAATACAATGCCAATGTCTC-AAACATG
54932104 GTCTT
65 GTCTT
* * * *
54932109 GATGCCAGTGTCCTAGACATGGTCTTACACGTAATC-TCAATATAATGCCAATGTCTCAAACATG
1 GATGCCAGTGTCCCAGACAGGGTCTTACACGAAATCAT-AATACAATGCCAATGTCTCAAACATG
54932173 GTCTT
65 GTCTT
54932178 ACATGTAATC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
68 1 0.02
69 56 0.97
70 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (69 bp):
GATGCCAGTGTCCCAGACAGGGTCTTACACGAAATCATAATACAATGCCAATGTCTCAAACATGG
TCTT
Found at i:54938975 original size:430 final size:430
Alignment explanation
Indices: 54938170--54939030 Score: 1305
Period size: 430 Copynumber: 2.0 Consensus size: 430
54938160 TATTCTGATC
* *
54938170 ATAAAAGTTTGAAATATCTAATGACTCAGAAAGATTTGAATCTGTGACAGAGAAGATGGCTAGAA
1 ATAAAAGTTTGAAATATCTAATGACTCAGAAAGACTTGAACCTGTGACAGAGAAGATGGCTAGAA
* *
54938235 CTGCTAAAAGATTATAAGCTTGTTATCGATTATCATCTGGGAAAAGAAAATGTTGTTGCTGATGC
66 CTACTAAAAGATTATAAGCTTGTTATCGATTATCATCTGGGAAAAGAAAATGTTGTTGCTCATGC
* *
54938300 TTTGAGTCGGAAATCATTGTTTGTATTGCGTACAATGAATACTCATTTAATTTTGTCCAATGATG
131 TTTGAGTCGAAAATCATTGTTTGTATTGCGTACAATGAATACTCATTTAATTTTATCCAATGATG
* ** * * * *
54938365 GTTCGAATTTAGCTGAATTGAAAGTGAGACTGCTATTTTTACAACAGATTATTGATGCTCAGAAA
196 GTCCGAATTTAGCCAAATTGAAAGCGAGACCGCTATTTTTACAACAAATTATTGATGCTAAGAAA
* *
54938430 CTTGATAATGAGATAATAGCAAAACGAGCTCAGTATAATTTGGATTTTGAGTCTGAATATCGAAT
261 CTTGATAATGAGATAATAGCAAAACGAGCTCAGTATAATTTGGATTTTGAGTCTAAATATCAAAT
** * * * * *
54938495 TGATAATGATGATTGTTTGAGATTTCGAGGTTAGATTTGTGTCATGAGAAATTTAGAGTTGATTT
326 TGATAATGACAACTGTTTGAGATTTCGAGGTGAGATTTGTGTCATGAGAAATTCAGAGTTAATTC
*
54938560 AGATGATTTTGAACAAAACTCACAATAGTCATTTACCTGT
391 AGATGATTTTGAACAAAACTCACAACAGTCATTTACCTGT
* *
54938600 ATAAAAGTTTGAAATATCTTATGGCTCAGAAAGACTTGAACCTGTGACAGAGAAGATGGCTAGAA
1 ATAAAAGTTTGAAATATCTAATGACTCAGAAAGACTTGAACCTGTGACAGAGAAGATGGCTAGAA
* *
54938665 CTACTAAAAGATTATAAGCTTGTTATCGATTATCATCTGGGAAAAGCAAATGTTGTTGCTCATTC
66 CTACTAAAAGATTATAAGCTTGTTATCGATTATCATCTGGGAAAAGAAAATGTTGTTGCTCATGC
* * ***
54938730 -TTGAAGTTGAAAATCATTGTTTGTATTGTGTGTGATGAATACTCATTTAATTTTATCCAATGAT
131 TTTG-AGTCGAAAATCATTGTTTGTATTGCGTACAATGAATACTCATTTAATTTTATCCAATGAT
* * * *
54938794 GGTCCGATTTTAGCCAAATTGAAAGCGAGACCGTTGTTTTTACAACAAATTATTGATGTTAAGAA
195 GGTCCGAATTTAGCCAAATTGAAAGCGAGACCGCTATTTTTACAACAAATTATTGATGCTAAGAA
* *
54938859 AGTTGATAATGAGATAATAGCAAAACGAGCTCAGTATAATTTGGATTTTGATTCTAAATATCAAA
260 ACTTGATAATGAGATAATAGCAAAACGAGCTCAGTATAATTTGGATTTTGAGTCTAAATATCAAA
54938924 TTGATAATGACAACTGTTTGAGATTTCGAGGTCGA-ATTTGTGTTC-TGAGAAATTCAGAGTTAA
325 TTGATAATGACAACTGTTTGAGATTTCGAGGT-GAGATTTGTG-TCATGAGAAATTCAGAGTTAA
* * *
54938987 TTCAGATGATTTTGAACAAAGCTCACAACAGTCGTTTATCTGT
388 TTCAGATGATTTTGAACAAAACTCACAACAGTCATTTACCTGT
54939030 A
1 A
54939031 CATCCGGGTA
Statistics
Matches: 387, Mismatches: 41, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
429 3 0.01
430 381 0.98
431 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (430 bp):
ATAAAAGTTTGAAATATCTAATGACTCAGAAAGACTTGAACCTGTGACAGAGAAGATGGCTAGAA
CTACTAAAAGATTATAAGCTTGTTATCGATTATCATCTGGGAAAAGAAAATGTTGTTGCTCATGC
TTTGAGTCGAAAATCATTGTTTGTATTGCGTACAATGAATACTCATTTAATTTTATCCAATGATG
GTCCGAATTTAGCCAAATTGAAAGCGAGACCGCTATTTTTACAACAAATTATTGATGCTAAGAAA
CTTGATAATGAGATAATAGCAAAACGAGCTCAGTATAATTTGGATTTTGAGTCTAAATATCAAAT
TGATAATGACAACTGTTTGAGATTTCGAGGTGAGATTTGTGTCATGAGAAATTCAGAGTTAATTC
AGATGATTTTGAACAAAACTCACAACAGTCATTTACCTGT
Found at i:54941675 original size:42 final size:43
Alignment explanation
Indices: 54941611--54941694 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
54941601 TTGAGACTTA
* *
54941611 CGTGTAAGACCATGTCTGGGACATCGA-CATCG-TATTTGATTT
1 CGTGTAAGACCATATCTAGGACA-CGAGCATCGATATTTGATTT
* *
54941653 CGTGTAAGACCCTATCTAGGACACTAGCATCGATATTTGATT
1 CGTGTAAGACCATATCTAGGACACGAGCATCGATATTTGATT
54941695 ACATGTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.06
42 25 0.69
43 9 0.25
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATATCTAGGACACGAGCATCGATATTTGATTT
Found at i:54942960 original size:18 final size:18
Alignment explanation
Indices: 54942937--54942974 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
54942927 GTGACCTTTG
*
54942937 TAACTTAGAAAAATTGTT
1 TAACTTAGAAAAATTATT
*
54942955 TAACTTTGAAAAATTATT
1 TAACTTAGAAAAATTATT
54942973 TA
1 TA
54942975 TGTGTTCGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (18 bp):
TAACTTAGAAAAATTATT
Found at i:54950901 original size:22 final size:22
Alignment explanation
Indices: 54950874--54950995 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
54950864 CATGCATATG
54950874 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
54950896 TGTGATGAATG-TGAATATG-CATA
1 TGTGAT-AAGGCCGAAT-GGCCA-A
54950919 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* *
54950943 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
54950966 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
54950990 TGTGAT
1 TGTGAT
54950996 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 32
0.64 0.09 0.28
Matches are distributed among these distances:
22 27 0.36
23 13 0.18
24 13 0.18
25 21 0.28
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:54950969 original size:23 final size:23
Alignment explanation
Indices: 54950942--54951016 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
54950932 CGAATGGCCA
54950942 ATGTGATGAATGTGAACATGCAT
1 ATGTGATGAATGTGAACATGCAT
* *
54950965 ATGTG-TGATAAG-G-CCGAATGGCCA-
1 ATGTGATGA-ATGTGAAC--AT-G-CAT
54950989 ATGTGATGAATGTGAACATGCAT
1 ATGTGATGAATGTGAACATGCAT
54951012 ATGTG
1 ATGTG
54951017 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 6 0.15
23 15 0.38
24 10 0.26
25 6 0.15
26 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCAT
Found at i:54951111 original size:25 final size:25
Alignment explanation
Indices: 54951083--54951161 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
54951073 CGAATGGCCA
54951083 ATGTGATGAATGTGAATATGCATAT
1 ATGTGATGAATGTGAATATGCATAT
* * * *
54951108 ATGTGAT-AAGGCCGAAT-GGC-CA-
1 ATGTGATGAATG-TGAATATGCATAT
*
54951130 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAATATGCATAT
54951155 ATGTGAT
1 ATGTGAT
54951162 AAGGCTGAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 10 0.25
23 6 0.15
24 6 0.15
25 18 0.45
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAATATGCATAT
Found at i:54951170 original size:25 final size:24
Alignment explanation
Indices: 54951095--54951170 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 24
54951085 GTGATGAATG
54951095 TGAATATGCATATATGTGATAAGGC
1 TGAA-ATGCATATATGTGATAAGGC
* * *
54951120 CG-AATGGC-CA-ATGTGATGAATG-
1 TGAAAT-GCATATATGTGAT-AAGGC
54951142 TGAACATGCATATATGTGATAAGGC
1 TGAA-ATGCATATATGTGATAAGGC
54951167 TGAA
1 TGAA
54951171 TTGCCAATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 8 0.21
23 9 0.24
24 9 0.24
25 12 0.32
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.28
Consensus pattern (24 bp):
TGAAATGCATATATGTGATAAGGC
Found at i:54951183 original size:22 final size:22
Alignment explanation
Indices: 54951062--54951183 Score: 68
Period size: 22 Copynumber: 5.3 Consensus size: 22
54951052 CATGCATATG
* * *
54951062 TGTGAAAAGGCCGAATGGCCAA
1 TGTGATAAGGCTGAATTGCCAA
* *
54951084 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCTGAAT-TGC-CA-A
* *
54951109 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCTGAATTGCCAA
* * *
54951131 TGTGATGAATG-TGAACATGCATATA
1 TGTGAT-AAGGCTGAA-TTGC-CA-A
54951156 TGTGATAAGGCTGAATTGCCAA
1 TGTGATAAGGCTGAATTGCCAA
54951178 TGTGAT
1 TGTGAT
54951184 GAACGTGGAT
Statistics
Matches: 73, Mismatches: 17, Indels: 20
0.66 0.15 0.18
Matches are distributed among these distances:
22 26 0.36
23 12 0.16
24 13 0.18
25 22 0.30
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCTGAATTGCCAA
Found at i:54951206 original size:47 final size:47
Alignment explanation
Indices: 54950801--54951186 Score: 664
Period size: 47 Copynumber: 8.2 Consensus size: 47
54950791 TTAGGATTTT
* * *
54950801 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGACTGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
54950848 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
54950895 ATGTGATGAATGTGAATATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
54950942 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
54950989 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
54951036 CTGTGAAGAATGTGAACATGCATATGTGTGAAAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
54951083 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
54951130 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATTGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
54951177 ATGTGATGAA
1 ATGTGATGAA
54951187 CGTGGATGTG
Statistics
Matches: 323, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 323 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:54951273 original size:46 final size:46
Alignment explanation
Indices: 54951200--54951349 Score: 264
Period size: 46 Copynumber: 3.3 Consensus size: 46
54951190 GGATGTGTAT
* *
54951200 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
54951246 GTATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
54951292 ATATGAGGTAAAGCCGAATGGCTAATGTGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
54951338 ATATGAGGTAAA
1 ATATGAGGTAAA
54951350 TGAATTACAA
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 99 1.00
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:54952622 original size:44 final size:44
Alignment explanation
Indices: 54952571--54952658 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
54952561 ATTTTGATTT
*
54952571 GGATTGAATTATAAGGGTATAAGTGATGCAATTTTGAAAGAGTG
1 GGATTGAATTATAAGGGTATAAGTGATGCAATTTTAAAAGAGTG
54952615 GGATTGAATTATAAGGGTATAAGTGATGCAATTTTAAAAGAGTG
1 GGATTGAATTATAAGGGTATAAGTGATGCAATTTTAAAAGAGTG
54952659 TTATGACTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.38, C:0.02, G:0.28, T:0.32
Consensus pattern (44 bp):
GGATTGAATTATAAGGGTATAAGTGATGCAATTTTAAAAGAGTG
Found at i:54953243 original size:40 final size:40
Alignment explanation
Indices: 54952807--54953242 Score: 683
Period size: 40 Copynumber: 10.9 Consensus size: 40
54952797 TGAGAGTTAT
54952807 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
54952847 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
54952887 ATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
54952927 ATGTATCCGAGCTAAGTCCCGAAGAGCATTCGTGCTAATG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
54952967 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * **
54953007 ATATATCTGAGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
54953047 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
54953087 ATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCAAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
54953127 ATATATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
54953167 TTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
54953207 TTATATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
54953243 GATGATGTGT
Statistics
Matches: 363, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 363 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:54955966 original size:49 final size:47
Alignment explanation
Indices: 54955840--54956154 Score: 468
Period size: 47 Copynumber: 6.6 Consensus size: 47
54955830 CCCTTCGGGA
* * * * *
54955840 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54955887 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54955934 CTTATCACATATATATACACTTTCACATTCATCACATCGGCGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATC-G-GCCATTAGGC
*
54955985 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54956032 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54956079 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54956128 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
54956155 ACCAACCCTT
Statistics
Matches: 246, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
47 127 0.52
48 1 0.00
49 100 0.41
50 1 0.00
51 17 0.07
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54956103 original size:145 final size:143
Alignment explanation
Indices: 54955840--54956154 Score: 522
Period size: 145 Copynumber: 2.2 Consensus size: 143
54955830 CCCTTCGGGA
* * * * * *
54955840 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCATTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
54955905 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
54955970 TCGGCGCCATTCGGC
131 T-GG-GCCATTCGAC
* *
54955985 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
54956050 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
54956115 TTGGCCATTCGAC
131 TGGGCCATTCGAC
54956128 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
54956155 ACCAACCCTT
Statistics
Matches: 160, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
143 36 0.22
144 1 0.01
145 123 0.77
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TGGGCCATTCGAC
Found at i:54956484 original size:40 final size:41
Alignment explanation
Indices: 54956379--54956521 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 41
54956369 GCTACTCGTT
*
54956379 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
*
54956419 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * * *
54956459 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
*
54956500 CAAA-GCCCTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
54956522 AGACATCATT
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
39 4 0.04
40 72 0.81
41 13 0.15
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:54960333 original size:40 final size:40
Alignment explanation
Indices: 54960289--54960366 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
54960279 GTGTAAAAAT
*
54960289 AGGCATGATTGTGCAAACAAAGGAACCGAAGTGCAAACAG
1 AGGCACGATTGTGCAAACAAAGGAACCGAAGTGCAAACAG
* ** *
54960329 AGGCACGATTGTGCAATCAAAGTTACCTAAGTGCAAAC
1 AGGCACGATTGTGCAAACAAAGGAACCGAAGTGCAAAC
54960367 CCGTACAAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (40 bp):
AGGCACGATTGTGCAAACAAAGGAACCGAAGTGCAAACAG
Found at i:54960342 original size:20 final size:20
Alignment explanation
Indices: 54960289--54960350 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
54960279 GTGTAAAAAT
*
54960289 AGGCATGATTGTGCAAACAA
1 AGGCACGATTGTGCAAACAA
* * *
54960309 AGGAACCGA-AGTGCAAACAG
1 AGGCA-CGATTGTGCAAACAA
*
54960329 AGGCACGATTGTGCAATCAA
1 AGGCACGATTGTGCAAACAA
54960349 AG
1 AG
54960351 TTACCTAAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 3 0.09
20 27 0.84
21 2 0.06
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.15
Consensus pattern (20 bp):
AGGCACGATTGTGCAAACAA
Found at i:54970761 original size:27 final size:26
Alignment explanation
Indices: 54970717--54970768 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54970707 CTCGCTGCAA
*
54970717 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
54970744 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
54970769 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:54970856 original size:27 final size:26
Alignment explanation
Indices: 54970815--54970874 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
54970805 ACATATATAT
* *
54970815 ATATCTGTTCTGGTGTCCTAGCCACA
1 ATATCTGATCTGGTGACCTAGCCACA
* * *
54970841 ATATCTGAATCTGGTGACTTCGTCACA
1 ATATCTG-ATCTGGTGACCTAGCCACA
54970868 ATATCTG
1 ATATCTG
54970875 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGATCTGGTGACCTAGCCACA
Found at i:54972638 original size:14 final size:14
Alignment explanation
Indices: 54972619--54972645 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54972609 TACTAAGCAT
54972619 ACACATACACATAC
1 ACACATACACATAC
54972633 ACACATACACATA
1 ACACATACACATA
54972646 TATATACAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (14 bp):
ACACATACACATAC
Found at i:54987678 original size:17 final size:18
Alignment explanation
Indices: 54987656--54987690 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
54987646 TCACATTGAA
54987656 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
54987673 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
54987691 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:54988809 original size:29 final size:28
Alignment explanation
Indices: 54988752--54988882 Score: 167
Period size: 29 Copynumber: 4.6 Consensus size: 28
54988742 TACCTGTATC
* *
54988752 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCATCTT-ATA
54988780 TGGCCCATTAGGCCCAAATCATCTATATA
1 TGGCCCATTAGGCCCAAATCATCT-TATA
54988809 TGGCCCATTAGGCCCAAATCATCTGTATA
1 TGGCCCATTAGGCCCAAATCATCT-TATA
54988838 TGGCCCATTAGGCCCAAATCA-CATTTATA
1 TGGCCCATTAGGCCCAAATCATC--TTATA
**
54988867 TGGCTTATTAGGCCCA
1 TGGCCCATTAGGCCCA
54988883 GTCACATTCA
Statistics
Matches: 94, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
28 15 0.16
29 77 0.82
30 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCATCTTATA
Found at i:54990654 original size:15 final size:14
Alignment explanation
Indices: 54990624--54990657 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
54990614 GCAAATAAAC
54990624 TGTTAAATGATACA
1 TGTTAAATGATACA
*
54990638 TGTTAAAGTGTTACA
1 TGTTAAA-TGATACA
54990653 TGTTA
1 TGTTA
54990658 CTAACCATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (14 bp):
TGTTAAATGATACA
Found at i:54992328 original size:20 final size:18
Alignment explanation
Indices: 54992303--54992360 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 18
54992293 ATCAACTTTA
54992303 AATCAAGTTGAAATGGTTTC
1 AATCAAGTT-AAAT-GTTTC
*
54992323 AATCAAGTTAGAATTTTTC
1 AATCAAGTTA-AATGTTTC
54992342 AATCAAAGTTAAATTGTTT
1 AATC-AAGTTAAA-TGTTT
54992361 TTAAAACAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 11 0.33
20 22 0.67
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (18 bp):
AATCAAGTTAAATGTTTC
Found at i:54992343 original size:19 final size:19
Alignment explanation
Indices: 54992319--54992356 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
54992309 GTTGAAATGG
54992319 TTTCAATC-AAGTTAGAATT
1 TTTCAATCAAAGTTA-AATT
54992338 TTTCAATCAAAGTTAAATT
1 TTTCAATCAAAGTTAAATT
54992357 GTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (19 bp):
TTTCAATCAAAGTTAAATT
Found at i:55000891 original size:244 final size:245
Alignment explanation
Indices: 55000462--55000950 Score: 935
Period size: 244 Copynumber: 2.0 Consensus size: 245
55000452 AATAATTTAT
55000462 TTTAATATGTTTCATTAATAAATTGAGTTTTAATTAATTAAGTAAATTGATTAATTAAAGTGGTT
1 TTTAATATGTTTCATTAATAAATTGAGTTTTAATTAATTAAGTAAATTGATTAATTAAAGTGGTT
55000527 AAATTAATTCTTTGGACCTCTAAATTATCTACTATTGCTGGACAGGTCTGAGAGCTTTATGTTGA
66 AAATTAATTCTTTGGACCTCTAAATTATCTACTATTGCTGGACAGGTCTGAGAGCTTTATGTTGA
55000592 TTACAAAACCATCCAAATGGAGGACCAAGTCAACCCAAAATTCGGCTGCATGTGGATGTTCATAA
131 TTACAAAACCATCCAAATGGAGGACCAAGTCAACCCAAAATTCGGCTGCATGTGGATGTTCATAA
*
55000657 ATCAAATTTTGGTTTAATTACA-AAGGTCTTTAAAGAGTTGAAGAAATCA
196 ATCAAATTTTGGTTTAATTACACAAGGTCCTTAAAGAGTTGAAGAAATCA
55000706 TTTAATATGTTTCATTAATAAATTGAGTTTTAATTAATTAAGTAAATTGATTAATTAAAGTGGTT
1 TTTAATATGTTTCATTAATAAATTGAGTTTTAATTAATTAAGTAAATTGATTAATTAAAGTGGTT
55000771 AAATTAATTCTTTGGACCTCTAAATTATCTACTATTGCTGGACAGGTCTGAGAGCTTTATGTTGA
66 AAATTAATTCTTTGGACCTCTAAATTATCTACTATTGCTGGACAGGTCTGAGAGCTTTATGTTGA
* *
55000836 TTACAAAACCATCCAAATGGAGGACCAAGTCAACCCAAAATTTGGCTGCATGTGGATGTTTATAA
131 TTACAAAACCATCCAAATGGAGGACCAAGTCAACCCAAAATTCGGCTGCATGTGGATGTTCATAA
*
55000901 ATCAAATTTTGGTTTAATTACACAAGGTCCTTGAAGAGTTGAAGAAATCA
196 ATCAAATTTTGGTTTAATTACACAAGGTCCTTAAAGAGTTGAAGAAATCA
55000951 GAGATTTACC
Statistics
Matches: 240, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
244 215 0.90
245 25 0.10
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (245 bp):
TTTAATATGTTTCATTAATAAATTGAGTTTTAATTAATTAAGTAAATTGATTAATTAAAGTGGTT
AAATTAATTCTTTGGACCTCTAAATTATCTACTATTGCTGGACAGGTCTGAGAGCTTTATGTTGA
TTACAAAACCATCCAAATGGAGGACCAAGTCAACCCAAAATTCGGCTGCATGTGGATGTTCATAA
ATCAAATTTTGGTTTAATTACACAAGGTCCTTAAAGAGTTGAAGAAATCA
Found at i:55007164 original size:14 final size:16
Alignment explanation
Indices: 55007145--55007183 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
55007135 AAGAAAATGA
*
55007145 TGATATATGACA-A-G
1 TGATATATGAAATAGG
55007159 TGATATATGAAATAGG
1 TGATATATGAAATAGG
55007175 TGATATATG
1 TGATATATG
55007184 TGATGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (16 bp):
TGATATATGAAATAGG
Found at i:55012528 original size:21 final size:21
Alignment explanation
Indices: 55012503--55012544 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
55012493 AAAAAGTGAA
55012503 AGAGAGATTTGATTCAATTTT
1 AGAGAGATTTGATTCAATTTT
55012524 AGAGAGATTTGATTCAATTTT
1 AGAGAGATTTGATTCAATTTT
55012545 CAAGCATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (21 bp):
AGAGAGATTTGATTCAATTTT
Found at i:55015865 original size:173 final size:173
Alignment explanation
Indices: 55015569--55016089 Score: 943
Period size: 173 Copynumber: 3.0 Consensus size: 173
55015559 ATTATCTACT
* *
55015569 ATTGCTGGACAGGTCTGAAATCTTTATGTTGATTACAAAACCATCCAAATGGAGGACCAAGTCAA
1 ATTGCTAGACAGGTCTGAAAGCTTTATGTTGATTACAAAACCATCCAAATGGAGGACCAAGTCAA
*
55015634 CCCAAAATTCGGCTGCATGTGGATGTTCATAAATCAAATTTTAGTTTAATTACACAAGGTCCTTG
66 CCCAAAATTCGGCTGCATGTGGATGTTCATAAATCAAATTTTGGTTTAATTACACAAGGTCCTTG
*
55015699 AAGAGTTGAAGAAATCGGAGATTTACCTGGAGATTTGCAATTG
131 AAGAGTTGAAGAAATCGGAGATTTACCCGGAGATTTGCAATTG
*
55015742 ATTGCTAGACAGGTCTGAAAGCTTTATGTTGATTACAAAACTATCCAAATGGAGGACCAAGTCAA
1 ATTGCTAGACAGGTCTGAAAGCTTTATGTTGATTACAAAACCATCCAAATGGAGGACCAAGTCAA
*
55015807 CCCAAAATTCGACTGCATGTGGATGTTCATAAATCAAATTTTGGTTTAATTACACAAGGTCCTTG
66 CCCAAAATTCGGCTGCATGTGGATGTTCATAAATCAAATTTTGGTTTAATTACACAAGGTCCTTG
*
55015872 AAGAGTTGAAGAAATCGGAGATTTACCCAGAGATTTGCAATTG
131 AAGAGTTGAAGAAATCGGAGATTTACCCGGAGATTTGCAATTG
*
55015915 ATTGCTAGACAGGTCTGAGAGCTTTATGTTGATTACAAAACCATCCAAATGGAGGACCAAGTCAA
1 ATTGCTAGACAGGTCTGAAAGCTTTATGTTGATTACAAAACCATCCAAATGGAGGACCAAGTCAA
* *
55015980 CCCAAAATTCGGCTACATGTGGATATTCATAAATCAAATTTTGGTTTAATTACACAAGGTCCTTG
66 CCCAAAATTCGGCTGCATGTGGATGTTCATAAATCAAATTTTGGTTTAATTACACAAGGTCCTTG
*
55016045 AAGAGTTGAAGAAATCGGAGATTTACCCGGAGATTTACAATTG
131 AAGAGTTGAAGAAATCGGAGATTTACCCGGAGATTTGCAATTG
55016088 AT
1 AT
55016090 CGAGTCTTGA
Statistics
Matches: 334, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
173 334 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (173 bp):
ATTGCTAGACAGGTCTGAAAGCTTTATGTTGATTACAAAACCATCCAAATGGAGGACCAAGTCAA
CCCAAAATTCGGCTGCATGTGGATGTTCATAAATCAAATTTTGGTTTAATTACACAAGGTCCTTG
AAGAGTTGAAGAAATCGGAGATTTACCCGGAGATTTGCAATTG
Found at i:55018848 original size:25 final size:26
Alignment explanation
Indices: 55018788--55018836 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
55018778 ATTTGTCTTA
*
55018788 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
55018812 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
55018837 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:55019106 original size:17 final size:17
Alignment explanation
Indices: 55019062--55019106 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
55019052 AACATAATTC
*
55019062 TTTTGAATTTTAAAAAT
1 TTTTGAATTTTTAAAAT
*
55019079 TTTTG--TTTTTATAAT
1 TTTTGAATTTTTAAAAT
55019094 TTTTGAATTTTTA
1 TTTTGAATTTTTA
55019107 NAAAAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 13 0.54
17 11 0.46
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (17 bp):
TTTTGAATTTTTAAAAT
Found at i:55020197 original size:20 final size:20
Alignment explanation
Indices: 55020172--55020215 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
55020162 CTTCCTTCTA
*
55020172 TTTTTTGAATTTTTTTATAT
1 TTTTTTGAATTTTTGTATAT
*
55020192 TTTTTTGTATTTTTGTATAT
1 TTTTTTGAATTTTTGTATAT
55020212 TTTT
1 TTTT
55020216 AATGTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (20 bp):
TTTTTTGAATTTTTGTATAT
Found at i:55020212 original size:10 final size:10
Alignment explanation
Indices: 55020170--55020215 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
55020160 TACTTCCTTC
*
55020170 TATTTTTTGA
1 TATTTTTTTA
55020180 -ATTTTTTTA
1 TATTTTTTTA
*
55020189 TATTTTTTTG
1 TATTTTTTTA
*
55020199 TATTTTTGTA
1 TATTTTTTTA
55020209 TATTTTT
1 TATTTTT
55020216 AATGTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (10 bp):
TATTTTTTTA
Found at i:55020224 original size:20 final size:19
Alignment explanation
Indices: 55020181--55020229 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
55020171 ATTTTTTGAA
*
55020181 TTTTTT-TATATTTTTTTG
1 TTTTTTGTATATTTTTATG
55020199 TATTTTTGTATATTTTTAATG
1 T-TTTTTGTATATTTTT-ATG
55020220 TTTTTATGTA
1 TTTTT-TGTA
55020230 ATATAGTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 5 0.19
20 13 0.50
21 7 0.27
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.73
Consensus pattern (19 bp):
TTTTTTGTATATTTTTATG
Found at i:55021356 original size:14 final size:14
Alignment explanation
Indices: 55021314--55021357 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
55021304 GAATTTAAAT
55021314 ATAAATATAATTACA
1 ATAAATATAATTA-A
* *
55021329 ATAAATACATTTAA
1 ATAAATATAATTAA
*
55021343 ATAACTATAATTAA
1 ATAAATATAATTAA
55021357 A
1 A
55021358 ATTAATTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAAATATAATTAA
Found at i:55021398 original size:25 final size:26
Alignment explanation
Indices: 55021350--55021399 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
55021340 TAAATAACTA
** *
55021350 TAATTAAAATTAATTGTTATAATATC
1 TAATTAAAATTAATAATTAAAATATC
55021376 TAATT-AAATTAATAATTAAAATAT
1 TAATTAAAATTAATAATTAAAATAT
55021400 ATTTAACCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
TAATTAAAATTAATAATTAAAATATC
Found at i:55021935 original size:36 final size:33
Alignment explanation
Indices: 55021868--55021935 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 33
55021858 AAAAAATATG
* * *
55021868 ATTTTATTTTTTTTTTAAATTATAAATTTTAAA
1 ATTTTATTTTTTATTTAAAATATAAAATTTAAA
55021901 ATTTTATGGTTTTTATTTAAAATATGAAAATTTAA
1 ATTTTAT--TTTTTATTTAAAATAT-AAAATTTAA
55021936 TTTTAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 7 0.24
35 14 0.48
36 8 0.28
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (33 bp):
ATTTTATTTTTTATTTAAAATATAAAATTTAAA
Found at i:55022701 original size:29 final size:29
Alignment explanation
Indices: 55022652--55022719 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
55022642 AATAAATTTT
* * *
55022652 AAAAATTAAATTTTCATATTT-TAAATAA
1 AAAAATAAAATTTTAAAATTTATAAATAA
**
55022680 AAAACATAAAATTTTAAAATTTATATTTAA
1 AAAA-ATAAAATTTTAAAATTTATAAATAA
55022710 AAAAATAAAA
1 AAAAATAAAA
55022720 ATCATATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
28 4 0.12
29 20 0.61
30 9 0.27
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAAATAAAATTTTAAAATTTATAAATAA
Done.