Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 175 of 290
Found at i:60078841 original size:40 final size:40
Alignment explanation
Indices: 60078643--60078846 Score: 206
Period size: 40 Copynumber: 5.1 Consensus size: 40
60078633 TTGAATGATG
* *
60078643 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
60078683 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
* * * *
60078722 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTATTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
*
60078762 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTATA
* **
60078802 TCCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
60078842 TCCGG
1 TCCGG
60078847 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 16, Indels: 20
0.79 0.09 0.11
Matches are distributed among these distances:
39 35 0.25
40 92 0.67
41 10 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:60078849 original size:79 final size:79
Alignment explanation
Indices: 60078696--60078860 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
60078686 GGACTAAGAT
** *
60078696 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTATTAA
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
60078761 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
60078775 CCGAAGGCATTTGTGCGA-ATTACT-ATATCCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-
* *
60078837 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
60078854 CCGAAGG
1 CCGAAGG
60078861 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 48 0.65
80 23 0.31
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:60082801 original size:27 final size:27
Alignment explanation
Indices: 60082771--60082907 Score: 118
Period size: 27 Copynumber: 5.1 Consensus size: 27
60082761 ACAGTCATCC
*
60082771 TACCACATAAGGGCAAAATAGTTATTT
1 TACCACATAAGGGCAAAATAGTCATTT
* * **
60082798 TACCTCATAA-GGCAACACCGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
* *
60082824 TACCACATAAGGGCAATATTGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
*
60082851 TAACACATAAGGGCAAACAT--TCATTT
1 TACCACATAAGGGCAAA-ATAGTCATTT
** * * **
60082877 TACCTTATAGGGGTATTATAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
60082904 TACC
1 TACC
60082908 CCTATGGGGG
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.02
26 37 0.42
27 47 0.53
28 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (27 bp):
TACCACATAAGGGCAAAATAGTCATTT
Found at i:60082823 original size:26 final size:26
Alignment explanation
Indices: 60082747--60082880 Score: 119
Period size: 27 Copynumber: 5.0 Consensus size: 26
60082737 AAACATACAT
**
60082747 CACAT-AGGGACAAGACAGTCATCCTAC
1 CACATAAGGG-CAA-ACAGTCATTTTAC
* *
60082774 CACATAAGGGCAAAATAGTTATTTTAC
1 CACATAAGGGC-AAACAGTCATTTTAC
* *
60082801 CTCATAA-GGCAACACCGTCATTTTAC
1 CACATAAGGGCAA-ACAGTCATTTTAC
** *
60082827 CACATAAGGGCAATATTGTCATTTTAA
1 CACATAAGGGCAA-ACAGTCATTTTAC
*
60082854 CACATAAGGGCAAACATTCATTTTAC
1 CACATAAGGGCAAACAGTCATTTTAC
60082880 C
1 C
60082881 TTATAGGGGT
Statistics
Matches: 86, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
25 2 0.02
26 29 0.34
27 49 0.57
28 6 0.07
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (26 bp):
CACATAAGGGCAAACAGTCATTTTAC
Found at i:60082828 original size:53 final size:53
Alignment explanation
Indices: 60082747--60082880 Score: 146
Period size: 53 Copynumber: 2.5 Consensus size: 53
60082737 AAACATACAT
** * *
60082747 CACAT-AGGGACAAGACAGTCATCCTACCACATAAGGGCAAAATAGTTATTTTAC
1 CACATAAGGG-CAA-ACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTAA
* * * *
60082801 CTCATAA-GGCAACACCGTCATTTTACCACATAAGGGCAATATTGTCATTTTAA
1 CACATAAGGGCAA-ACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTAA
*
60082854 CACATAAGGGCAAACATTCATTTTACC
1 CACATAAGGGCAAACAGTCATTTTACC
60082881 TTATAGGGGT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
53 54 0.82
54 11 0.17
55 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (53 bp):
CACATAAGGGCAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTAA
Found at i:60082916 original size:27 final size:26
Alignment explanation
Indices: 60082871--60082993 Score: 120
Period size: 27 Copynumber: 4.5 Consensus size: 26
60082861 GGGCAAACAT
* *
60082871 TCATTTTACCTTATAGGGGTATTATAG
1 TCATTTTACCCTATAGGGGTATT-TGG
*
60082898 TCATTTTACCCCTATGGGGGTATTTCGG
1 TCATTTTA-CCCTATAGGGGTATTT-GG
* * *
60082926 TAATTTTACCTTATGGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTA-TTTGG
** *
60082953 TCATTTTACCCTATAAAGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTT-GG
60082980 TCATTTTACCCTAT
1 TCATTTTACCCTAT
60082994 GGGTTCCTGA
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.04
27 54 0.67
28 24 0.30
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (26 bp):
TCATTTTACCCTATAGGGGTATTTGG
Found at i:60082989 original size:54 final size:55
Alignment explanation
Indices: 60082871--60082996 Score: 164
Period size: 55 Copynumber: 2.3 Consensus size: 55
60082861 GGGCAAACAT
* *** *
60082871 TCATTTTACCTTATAGGGGTATTATAGTCATTTTACCCCTATGGGGGTATTTCGG
1 TCATTTTACCTTATGGGGGTATTATAGTCATTTTACCCCTATAAAGGTATTTCGA
* * *
60082926 TAATTTTACCTTATGGGGGTATTTTGGTCATTTTA-CCCTATAAAGGTATTTCGA
1 TCATTTTACCTTATGGGGGTATTATAGTCATTTTACCCCTATAAAGGTATTTCGA
*
60082980 TCATTTTACCCTATGGG
1 TCATTTTACCTTATGGG
60082997 TTCCTGATGA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 30 0.49
55 31 0.51
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (55 bp):
TCATTTTACCTTATGGGGGTATTATAGTCATTTTACCCCTATAAAGGTATTTCGA
Found at i:60083395 original size:41 final size:40
Alignment explanation
Indices: 60083350--60083483 Score: 130
Period size: 40 Copynumber: 3.3 Consensus size: 40
60083340 TATAATCTCT
*
60083350 CACACTAAGTGCCTTTTATAGCCAAAGCTATCTCAGTCTCG
1 CACACTAAGTGCCTTTTATAGCCGAAGCTATCTCAGT-TCG
* * * *
60083391 CACACTAAGTGCCATATATAGTCGAAGCTAT-TCTGATTCG
1 CACACTAAGTGCCTTTTATAGCCGAAGCTATCTCAG-TTCG
** * *
60083431 CACACTAACAG-CTTTATATAGCCGAGGCTATCTCTA-TACG
1 CACACTAAGTGCCTTT-TATAGCCGAAGCTATCTC-AGTTCG
60083471 CACACTAAGTGCC
1 CACACTAAGTGCC
60083484 AAACATAATC
Statistics
Matches: 73, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
39 2 0.03
40 40 0.55
41 31 0.42
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (40 bp):
CACACTAAGTGCCTTTTATAGCCGAAGCTATCTCAGTTCG
Found at i:60083452 original size:81 final size:82
Alignment explanation
Indices: 60083309--60083484 Score: 198
Period size: 81 Copynumber: 2.2 Consensus size: 82
60083299 TTGCTCTCTT
* * * **
60083309 ACACTAGGTGCCATAGCATAGTTGAAGCTATTATAATCTCTCACACTAAGTGCCTTTTATAGCCA
1 ACACTAAGTGCCATAGCATAGTCGAAGCTATTATAATCTCGCACACTAACAGCCTTTTATAGCCA
*
60083374 AAGCTATCTC-AGTCTCGC
66 AAGCTATCTCTA-T-ACGC
* * *
60083392 ACACTAAGTGCCATA-TATAGTCGAAGCTATTCTGAT-TCGCACACTAACAG-CTTTATATAGCC
1 ACACTAAGTGCCATAGCATAGTCGAAGCTATTATAATCTCGCACACTAACAGCCTTT-TATAGCC
* *
60083454 GAGGCTATCTCTATACGC
65 AAAGCTATCTCTATACGC
60083472 ACACTAAGTGCCA
1 ACACTAAGTGCCA
60083485 AACATAATCA
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
80 20 0.25
81 28 0.35
82 18 0.22
83 14 0.17
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (82 bp):
ACACTAAGTGCCATAGCATAGTCGAAGCTATTATAATCTCGCACACTAACAGCCTTTTATAGCCA
AAGCTATCTCTATACGC
Found at i:60087683 original size:56 final size:56
Alignment explanation
Indices: 60087616--60087847 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
60087606 TATTAGTTTA
* *
60087616 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
60087672 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
60087728 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
60087784 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
60087840 TTGCCCAT
1 TTGCCCAT
60087848 CATCCCTTGT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:60090086 original size:32 final size:32
Alignment explanation
Indices: 60090049--60090114 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
60090039 AAATAGATAA
* *
60090049 TGATGCCAAATCTTTCACACAAATACAATAGC
1 TGATGCCAAATCTTTAACACAAACACAATAGC
*
60090081 TGATGCCAAATCTTTAACGCAAACACAATAGC
1 TGATGCCAAATCTTTAACACAAACACAATAGC
60090113 TG
1 TG
60090115 CTAACTCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (32 bp):
TGATGCCAAATCTTTAACACAAACACAATAGC
Found at i:60092512 original size:9 final size:9
Alignment explanation
Indices: 60092498--60092530 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
60092488 AACAGTCTTT
60092498 AATAAGAAA
1 AATAAGAAA
60092507 AATAAGAAA
1 AATAAGAAA
60092516 AATAAGAAA
1 AATAAGAAA
60092525 AATAAG
1 AATAAG
60092531 CTTCACAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
AATAAGAAA
Found at i:60098672 original size:245 final size:243
Alignment explanation
Indices: 60098214--60098701 Score: 861
Period size: 245 Copynumber: 2.0 Consensus size: 243
60098204 CCACTATATA
*
60098214 TTGAGATGATACGTCAATCAAAAGGGCTTTAGAGGGTTGTAACGTGGCTTTGGTTAGGGGGTGTG
1 TTGAGATGATACATCAATCAAAAGGGCTTTAGAGGGTTGTAACGTGGCTTTGGTTAGGGGGTGTG
*
60098279 GTCACAAGCTGAATGAAAAGCGTTAGAATCGAGATTGAATAGAAAAATTACTGGTACGTGATATT
66 GTCACAAGCTGAAAGAAAAGCGTTAGAATCGAGATTGAATAGAAAAATTACTGGTACGTGATATT
60098344 CGTGATAGGTTTTAAAGATTTATGAAAGAATCATTCTTGAGACTAACTTATTATCACGATTAAGG
131 CGTGATAGGTTTTAAAGATTTATGAAAGAATCATTCTTGAGACTAACTTATTATCACGATTAAGG
60098409 CAAGTGTACCTATCGAACAGCAGTATAGTTCAGCAAGACTGAATTGCC
196 CAAGTGTACCTATCGAACAGCAGTATAGTTCAGCAAGACTGAATTGCC
* * * *
60098457 TTGAGCTGATACATCAATCAAAAAGGTCTTTTTAGAGGGTTGTAACGTGGCTTTTGTTTGGGGGT
1 TTGAGATGATACATCAATC-AAAAGGGC--TTTAGAGGGTTGTAACGTGGCTTTGGTTAGGGGGT
* *
60098522 GTGGTCACAAGCTGAAAGAAGA-TGTTAGAATCGAGATTGAATAGAAAAATTACTGGTACGTGAT
63 GTGGTCACAAGCTGAAAGAAAAGCGTTAGAATCGAGATTGAATAGAAAAATTACTGGTACGTGAT
*
60098586 ATTTGTGATAGGTTTTAAAGATTTATGAAAGAATCATTCTTGAGACTAACTTATTATCACGATTA
128 ATTCGTGATAGGTTTTAAAGATTTATGAAAGAATCATTCTTGAGACTAACTTATTATCACGATTA
60098651 AGGCAAGTGTACCTATCGAACAGCAGTATAGTTCAGCAAGACTGAATTGCC
193 AGGCAAGTGTACCTATCGAACAGCAGTATAGTTCAGCAAGACTGAATTGCC
60098702 GAACCCAAAG
Statistics
Matches: 233, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
243 17 0.07
244 7 0.03
245 156 0.67
246 53 0.23
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (243 bp):
TTGAGATGATACATCAATCAAAAGGGCTTTAGAGGGTTGTAACGTGGCTTTGGTTAGGGGGTGTG
GTCACAAGCTGAAAGAAAAGCGTTAGAATCGAGATTGAATAGAAAAATTACTGGTACGTGATATT
CGTGATAGGTTTTAAAGATTTATGAAAGAATCATTCTTGAGACTAACTTATTATCACGATTAAGG
CAAGTGTACCTATCGAACAGCAGTATAGTTCAGCAAGACTGAATTGCC
Found at i:60100233 original size:662 final size:662
Alignment explanation
Indices: 60099001--60101053 Score: 2855
Period size: 662 Copynumber: 3.0 Consensus size: 662
60098991 GTTGAATAAT
60099001 TGAAATCTCTTTCTAATTAACACCTTAGAATTGCATTAACTCGATCTATGGATTCCCTTATTAGG
1 TGAAATCTCTTTCTAATTAACACCTTAGAATTGCATTAACTCGATCTATGGATTCCCTTATTAGG
60099066 TTTCACCCTAATCCGACAAAATCTTATCACCCTATCTCTTGGCGTGCAATCAGTTCCGCTTAATT
66 TTTCACCCTAATCCGACAAAATCTTATCACCCTATCTCTTGGCGTGCAATCAGTTCCGCTTAATT
60099131 ATGACAAATTTACTCTTAGACAGGGTCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATA
131 ATGACAAATTTACTCTTAGACAGGGTCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATA
60099196 TCCTGGAATTTCAAGACAAGAATTAATAACACATAATTAAGAACAAGTCAAATATTTATCATACA
196 TCCTGGAATTTCAAGACAAGAATTAATAACACATAATTAAGAACAAGTCAAATATTTATCATACA
60099261 ATTCAAATAACAAGATTCAAATAATAATAACAACATCCTCACTAAAGATTCACTCAAATCACTCA
261 ATTCAAATAACAAGATTCAAATAATAATAACAACATCCTCACTAAAGATTCACTCAAATCACTCA
60099326 AGGTGTTTAAGGACATCAATAAAAGTACGCATTAGTCAATATGAAAAGTTATTACCATAGGCTTG
326 AGGTGTTTAAGGACATCAATAAAAGTACGCATTAGTCAATATGAAAAGTTATTACCATAGGCTTG
60099391 CGTGAAAATCAAATCTCCACCACTATATATTGAGCTGATACATCAATCAAAAAGGTCTTTTTAGA
391 CGTGAAAATCAAATCTCCACCACTATATATTGAGCTGATACATCAATCAAAAAGGTCTTTTTAGA
60099456 GGGTTGTAACGTGGCTTTTGTTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTTAGAATCGAGA
456 GGGTTGTAACGTGGCTTTTGTTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTTAGAATCGAGA
60099521 TTGAATTGAAAAATTACCTAGCTAGAAAAATAACTAGTCATCAGTTGAATACAAGTGAGCTTATT
521 TTGAATTGAAAAATTACCTAGCTAGAAAAATAACTAGTCATCAGTTGAATACAAGTGAGCTTATT
60099586 CTCAGAGTATGAAATTAACACTCAAGCTCAAAAATGACAAATTACTACTAATATGTATGTAAGTA
586 CTCAGAGTATGAAATTAACACTCAAGCTCAAAAATGACAAATTACTACTAATATGTATGTAAGTA
60099651 TTGTTTTTTTTC
651 TTGTTTTTTTTC
60099663 TGAAATCTCTTTCTAATTAACACCTTAGAATTGCATTAACTCGATCTATGGATTCCCTTATTAGG
1 TGAAATCTCTTTCTAATTAACACCTTAGAATTGCATTAACTCGATCTATGGATTCCCTTATTAGG
60099728 TTTCACCCTAATCCGACAAAATCTTATCACCCTATCTCTTGGCGTGCAATCAGTTCCGCTTAATT
66 TTTCACCCTAATCCGACAAAATCTTATCACCCTATCTCTTGGCGTGCAATCAGTTCCGCTTAATT
60099793 ATGACAAATTTACTCTTAGACAGGGTCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATA
131 ATGACAAATTTACTCTTAGACAGGGTCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATA
60099858 TCCTGGAATTTCAAGACAAGAATTAATAACACATAATTAAGAACAAGTCAAATATTTATCATACA
196 TCCTGGAATTTCAAGACAAGAATTAATAACACATAATTAAGAACAAGTCAAATATTTATCATACA
60099923 ATTCAAATAACAAGATTCAAATAATAATAACAACATCCTCACTAAAGATTCACTCAAATCACTCA
261 ATTCAAATAACAAGATTCAAATAATAATAACAACATCCTCACTAAAGATTCACTCAAATCACTCA
60099988 AGGTGTTTAAGGACATCAATAAAAGTACGCATTAGTCAATATGAAAAGTTATTACCATAGGCTTG
326 AGGTGTTTAAGGACATCAATAAAAGTACGCATTAGTCAATATGAAAAGTTATTACCATAGGCTTG
60100053 CGTGAAAATCAAATCTCCACCACTATATATTGAGCTGATACATCAATCAAAAAGGTCTTTTTAGA
391 CGTGAAAATCAAATCTCCACCACTATATATTGAGCTGATACATCAATCAAAAAGGTCTTTTTAGA
60100118 GGGTTGTAACGTGGCTTTTGTTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTTAGAATCGAGA
456 GGGTTGTAACGTGGCTTTTGTTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTTAGAATCGAGA
60100183 TTGAATTGAAAAATTACCTAGCTAGAAAAATAACTAGTCATCAGTTGAATACAAGTGAGCTTATT
521 TTGAATTGAAAAATTACCTAGCTAGAAAAATAACTAGTCATCAGTTGAATACAAGTGAGCTTATT
60100248 CTCAGAGTATGAAATTAACACTCAAGCTCAAAAATGACAAATTACTACTAATATGTATGTAAGTA
586 CTCAGAGTATGAAATTAACACTCAAGCTCAAAAATGACAAATTACTACTAATATGTATGTAAGTA
60100313 TTGTTTTTTTTC
651 TTGTTTTTTTTC
* ** ** * * *
60100325 TTTTAGAACAAGTCAAATATTTAGAAGCACAAAACATAACTAAGCAATTTGTTCAAATCAAATCT
1 ---T-G-A-AA-TC---TCTTT-CTA--A-TTAAC--ACCTTAG-AA-TTG--C--AT-TAA-CT
* **** ** ** ** * * *
60100390 CGA-CAAAAATAGGGATGAAATTA-GGGGATTTCAACAATAATGGGTTATGAGTTAATATTAAGG
42 CGATC-----TATGGATTCCCTTATTAGG-TTTC-ACCCTAATCCG--A-CA--AAATCTT-A--
* ** * ** * * * ***** * * * ** * *
60100453 GTAAATCAAT-TAATGGCTTGTTAGGCTCAAAAAGGGTTCAATAAGGTTTAAATGTGGA-T-GTA
92 -TCACCCTATCTCTTGGCGTG-CA--ATCAGTTCCGCTT-AATTATG-ACAAAT-T-TACTCTTA
* * ** * ** * *
60100515 GGCTTTTGTGGAGTGAGT--TGGT-TAAACCTAAGTGCCTTTATCATCTTGTCATATCAA-ATCA
149 GAC---AG-GGTCT-ATTCCTCCTCTGAA--TAAGAG-C-TTA--A-CTTG--A-ATCAATATC-
* ** * *
60100576 AATAGTGTGGTCTTGATATGCATAATCAAAAATTAATAACACATAATTAAGAACAAGTCAAATAT
198 -CT-G-G-AAT-TTCA-A-G----A-CAAGAATTAATAACACATAATTAAGAACAAGTCAAATAT
60100641 TTATCATACAATTCAAATAACAAGATTCAAATAATAATAACAACATCCTCACTAAAGATTCACTC
251 TTATCATACAATTCAAATAACAAGATTCAAATAATAATAACAACATCCTCACTAAAGATTCACTC
60100706 AAATCACTCAAGGTGTTTAAGGACATCAATAAAAGTACGCATTAGTCAATATGAAAAGTTATTAC
316 AAATCACTCAAGGTGTTTAAGGACATCAATAAAAGTACGCATTAGTCAATATGAAAAGTTATTAC
60100771 CATAGGCTTGCGTGAAAATCAAATCTCCACCACTATATATTGAGCTGATACATCAATCAAAAAGG
381 CATAGGCTTGCGTGAAAATCAAATCTCCACCACTATATATTGAGCTGATACATCAATCAAAAAGG
60100836 TCTTTTTAGAGGGTTGTAACGTGGCTTTTGTTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTT
446 TCTTTTTAGAGGGTTGTAACGTGGCTTTTGTTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTT
60100901 AGAATCGAGATTGAATTGAAAAATTACCTAGCTAGAAAAATAACTAGTCATCAGTTGAATACAAG
511 AGAATCGAGATTGAATTGAAAAATTACCTAGCTAGAAAAATAACTAGTCATCAGTTGAATACAAG
60100966 TGAGCTTATTCTCAGAGTATGAAATTAACACTCAAGCTCAAAAATGACAAATTACTACTAATATG
576 TGAGCTTATTCTCAGAGTATGAAATTAACACTCAAGCTCAAAAATGACAAATTACTACTAATATG
60101031 TATGTAAGTATTGTTTTTTTTC
641 TATGTAAGTATTGTTTTTTTTC
60101053 T
1 T
60101054 TTTAGAACAA
Statistics
Matches: 1259, Mismatches: 57, Indels: 87
0.90 0.04 0.06
Matches are distributed among these distances:
662 662 0.53
665 1 0.00
666 1 0.00
667 1 0.00
668 2 0.00
669 2 0.00
672 4 0.00
673 1 0.00
675 1 0.00
676 3 0.00
678 5 0.00
679 2 0.00
680 3 0.00
682 1 0.00
684 2 0.00
685 3 0.00
686 5 0.00
689 2 0.00
690 13 0.01
691 7 0.01
693 1 0.00
694 1 0.00
696 5 0.00
697 1 0.00
699 7 0.01
700 6 0.00
702 6 0.00
703 5 0.00
704 8 0.01
705 2 0.00
706 4 0.00
707 3 0.00
708 8 0.01
709 3 0.00
710 3 0.00
712 1 0.00
713 4 0.00
715 4 0.00
716 5 0.00
717 1 0.00
718 1 0.00
719 1 0.00
720 1 0.00
721 3 0.00
722 1 0.00
723 1 0.00
725 1 0.00
727 1 0.00
728 450 0.36
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (662 bp):
TGAAATCTCTTTCTAATTAACACCTTAGAATTGCATTAACTCGATCTATGGATTCCCTTATTAGG
TTTCACCCTAATCCGACAAAATCTTATCACCCTATCTCTTGGCGTGCAATCAGTTCCGCTTAATT
ATGACAAATTTACTCTTAGACAGGGTCTATTCCTCCTCTGAATAAGAGCTTAACTTGAATCAATA
TCCTGGAATTTCAAGACAAGAATTAATAACACATAATTAAGAACAAGTCAAATATTTATCATACA
ATTCAAATAACAAGATTCAAATAATAATAACAACATCCTCACTAAAGATTCACTCAAATCACTCA
AGGTGTTTAAGGACATCAATAAAAGTACGCATTAGTCAATATGAAAAGTTATTACCATAGGCTTG
CGTGAAAATCAAATCTCCACCACTATATATTGAGCTGATACATCAATCAAAAAGGTCTTTTTAGA
GGGTTGTAACGTGGCTTTTGTTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTTAGAATCGAGA
TTGAATTGAAAAATTACCTAGCTAGAAAAATAACTAGTCATCAGTTGAATACAAGTGAGCTTATT
CTCAGAGTATGAAATTAACACTCAAGCTCAAAAATGACAAATTACTACTAATATGTATGTAAGTA
TTGTTTTTTTTC
Found at i:60101274 original size:728 final size:728
Alignment explanation
Indices: 60099878--60101333 Score: 2912
Period size: 728 Copynumber: 2.0 Consensus size: 728
60099868 TCAAGACAAG
60099878 AATTAATAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAAATAACAAGATTCAA
1 AATTAATAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAAATAACAAGATTCAA
60099943 ATAATAATAACAACATCCTCACTAAAGATTCACTCAAATCACTCAAGGTGTTTAAGGACATCAAT
66 ATAATAATAACAACATCCTCACTAAAGATTCACTCAAATCACTCAAGGTGTTTAAGGACATCAAT
60100008 AAAAGTACGCATTAGTCAATATGAAAAGTTATTACCATAGGCTTGCGTGAAAATCAAATCTCCAC
131 AAAAGTACGCATTAGTCAATATGAAAAGTTATTACCATAGGCTTGCGTGAAAATCAAATCTCCAC
60100073 CACTATATATTGAGCTGATACATCAATCAAAAAGGTCTTTTTAGAGGGTTGTAACGTGGCTTTTG
196 CACTATATATTGAGCTGATACATCAATCAAAAAGGTCTTTTTAGAGGGTTGTAACGTGGCTTTTG
60100138 TTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTTAGAATCGAGATTGAATTGAAAAATTACCTA
261 TTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTTAGAATCGAGATTGAATTGAAAAATTACCTA
60100203 GCTAGAAAAATAACTAGTCATCAGTTGAATACAAGTGAGCTTATTCTCAGAGTATGAAATTAACA
326 GCTAGAAAAATAACTAGTCATCAGTTGAATACAAGTGAGCTTATTCTCAGAGTATGAAATTAACA
60100268 CTCAAGCTCAAAAATGACAAATTACTACTAATATGTATGTAAGTATTGTTTTTTTTCTTTTAGAA
391 CTCAAGCTCAAAAATGACAAATTACTACTAATATGTATGTAAGTATTGTTTTTTTTCTTTTAGAA
60100333 CAAGTCAAATATTTAGAAGCACAAAACATAACTAAGCAATTTGTTCAAATCAAATCTCGACAAAA
456 CAAGTCAAATATTTAGAAGCACAAAACATAACTAAGCAATTTGTTCAAATCAAATCTCGACAAAA
60100398 ATAGGGATGAAATTAGGGGATTTCAACAATAATGGGTTATGAGTTAATATTAAGGGTAAATCAAT
521 ATAGGGATGAAATTAGGGGATTTCAACAATAATGGGTTATGAGTTAATATTAAGGGTAAATCAAT
60100463 TAATGGCTTGTTAGGCTCAAAAAGGGTTCAATAAGGTTTAAATGTGGATGTAGGCTTTTGTGGAG
586 TAATGGCTTGTTAGGCTCAAAAAGGGTTCAATAAGGTTTAAATGTGGATGTAGGCTTTTGTGGAG
60100528 TGAGTTGGTTAAACCTAAGTGCCTTTATCATCTTGTCATATCAAATCAAATAGTGTGGTCTTGAT
651 TGAGTTGGTTAAACCTAAGTGCCTTTATCATCTTGTCATATCAAATCAAATAGTGTGGTCTTGAT
60100593 ATGCATAATCAAA
716 ATGCATAATCAAA
60100606 AATTAATAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAAATAACAAGATTCAA
1 AATTAATAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAAATAACAAGATTCAA
60100671 ATAATAATAACAACATCCTCACTAAAGATTCACTCAAATCACTCAAGGTGTTTAAGGACATCAAT
66 ATAATAATAACAACATCCTCACTAAAGATTCACTCAAATCACTCAAGGTGTTTAAGGACATCAAT
60100736 AAAAGTACGCATTAGTCAATATGAAAAGTTATTACCATAGGCTTGCGTGAAAATCAAATCTCCAC
131 AAAAGTACGCATTAGTCAATATGAAAAGTTATTACCATAGGCTTGCGTGAAAATCAAATCTCCAC
60100801 CACTATATATTGAGCTGATACATCAATCAAAAAGGTCTTTTTAGAGGGTTGTAACGTGGCTTTTG
196 CACTATATATTGAGCTGATACATCAATCAAAAAGGTCTTTTTAGAGGGTTGTAACGTGGCTTTTG
60100866 TTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTTAGAATCGAGATTGAATTGAAAAATTACCTA
261 TTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTTAGAATCGAGATTGAATTGAAAAATTACCTA
60100931 GCTAGAAAAATAACTAGTCATCAGTTGAATACAAGTGAGCTTATTCTCAGAGTATGAAATTAACA
326 GCTAGAAAAATAACTAGTCATCAGTTGAATACAAGTGAGCTTATTCTCAGAGTATGAAATTAACA
60100996 CTCAAGCTCAAAAATGACAAATTACTACTAATATGTATGTAAGTATTGTTTTTTTTCTTTTAGAA
391 CTCAAGCTCAAAAATGACAAATTACTACTAATATGTATGTAAGTATTGTTTTTTTTCTTTTAGAA
60101061 CAAGTCAAATATTTAGAAGCACAAAACATAACTAAGCAATTTGTTCAAATCAAATCTCGACAAAA
456 CAAGTCAAATATTTAGAAGCACAAAACATAACTAAGCAATTTGTTCAAATCAAATCTCGACAAAA
60101126 ATAGGGATGAAATTAGGGGATTTCAACAATAATGGGTTATGAGTTAATATTAAGGGTAAATCAAT
521 ATAGGGATGAAATTAGGGGATTTCAACAATAATGGGTTATGAGTTAATATTAAGGGTAAATCAAT
60101191 TAATGGCTTGTTAGGCTCAAAAAGGGTTCAATAAGGTTTAAATGTGGATGTAGGCTTTTGTGGAG
586 TAATGGCTTGTTAGGCTCAAAAAGGGTTCAATAAGGTTTAAATGTGGATGTAGGCTTTTGTGGAG
60101256 TGAGTTGGTTAAACCTAAGTGCCTTTATCATCTTGTCATATCAAATCAAATAGTGTGGTCTTGAT
651 TGAGTTGGTTAAACCTAAGTGCCTTTATCATCTTGTCATATCAAATCAAATAGTGTGGTCTTGAT
60101321 ATGCATAATCAAA
716 ATGCATAATCAAA
60101334 CAAGTTCTAG
Statistics
Matches: 728, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
728 728 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (728 bp):
AATTAATAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAAATAACAAGATTCAA
ATAATAATAACAACATCCTCACTAAAGATTCACTCAAATCACTCAAGGTGTTTAAGGACATCAAT
AAAAGTACGCATTAGTCAATATGAAAAGTTATTACCATAGGCTTGCGTGAAAATCAAATCTCCAC
CACTATATATTGAGCTGATACATCAATCAAAAAGGTCTTTTTAGAGGGTTGTAACGTGGCTTTTG
TTTGGGGGTGTGGTCACAAGCTGAAAGAAGATGTTAGAATCGAGATTGAATTGAAAAATTACCTA
GCTAGAAAAATAACTAGTCATCAGTTGAATACAAGTGAGCTTATTCTCAGAGTATGAAATTAACA
CTCAAGCTCAAAAATGACAAATTACTACTAATATGTATGTAAGTATTGTTTTTTTTCTTTTAGAA
CAAGTCAAATATTTAGAAGCACAAAACATAACTAAGCAATTTGTTCAAATCAAATCTCGACAAAA
ATAGGGATGAAATTAGGGGATTTCAACAATAATGGGTTATGAGTTAATATTAAGGGTAAATCAAT
TAATGGCTTGTTAGGCTCAAAAAGGGTTCAATAAGGTTTAAATGTGGATGTAGGCTTTTGTGGAG
TGAGTTGGTTAAACCTAAGTGCCTTTATCATCTTGTCATATCAAATCAAATAGTGTGGTCTTGAT
ATGCATAATCAAA
Found at i:60109798 original size:25 final size:25
Alignment explanation
Indices: 60109746--60109803 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
60109736 ATAAAACCTA
*
60109746 AAAATGAAATAGTATTAAATGAAAAT
1 AAAAT-AAAAAGTATTAAATGAAAAT
*
60109772 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAATGAAAAT
60109797 -AAATAAA
1 AAAATAAA
60109804 GATAAATGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAAAT
Found at i:60111528 original size:13 final size:13
Alignment explanation
Indices: 60111507--60111539 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
60111497 TCAGTTTTGA
60111507 GCACAGGTGGTGG
1 GCACAGGTGGTGG
*
60111520 GCACGGGTGGTGG
1 GCACAGGTGGTGG
60111533 GCACAGG
1 GCACAGG
60111540 CGTGTCGCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.55, T:0.12
Consensus pattern (13 bp):
GCACAGGTGGTGG
Found at i:60113401 original size:46 final size:46
Alignment explanation
Indices: 60113300--60113387 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
60113290 TGTAACCCGC
* * * *
60113300 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
60113346 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
60113388 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:60117179 original size:63 final size:66
Alignment explanation
Indices: 60116995--60117179 Score: 191
Period size: 68 Copynumber: 2.8 Consensus size: 66
60116985 TACAGATAGT
** * * *
60116995 ATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGTGTACAAGAGAGCTACAAGACATT
1 ATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTG-ACAAGAGAGCTAC-AGACATT
*
60117060 ATG
64 ATA
* * *
60117063 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTAC-GAGA-T
1 ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGT-GACAAGAGAGCTACAGACATT
60117125 A-A
64 ATA
* *
60117127 AT-TAGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGTGCACAAAAGAGC
1 ATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTG-ACAAGAGAGC
60117180 CGAACTATAT
Statistics
Matches: 100, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
63 43 0.43
64 3 0.03
65 2 0.02
66 3 0.03
67 1 0.01
68 46 0.46
69 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (66 bp):
ATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTGACAAGAGAGCTACAGACATTAT
A
Found at i:60121197 original size:68 final size:67
Alignment explanation
Indices: 60121125--60121274 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
60121115 CATCATGTGT
* * * *
60121125 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
60121187 ATGTAG
62 ATGTAG
** * *
60121193 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
60121258 AG
66 AG
60121260 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
60121275 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:60121230 original size:64 final size:64
Alignment explanation
Indices: 60121149--60121332 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
60121139 AGACATTATG
* *
60121149 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
60121213 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
60121278 AA
63 AA
* * * *
60121280 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
60121333 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:60125340 original size:40 final size:40
Alignment explanation
Indices: 60125294--60125525 Score: 295
Period size: 40 Copynumber: 5.8 Consensus size: 40
60125284 TATAACCACA
* * * **
60125294 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGGAACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATAACT
* * *
60125334 CGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAT-AACT
* * *
60125374 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATAACT
* *
60125414 AGCACAAATGCCTTCGGGTCTTAACCCAGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATAACT
* *
60125454 AGCATAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATAACT
* *
60125494 AGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATA
60125526 TCATTCAAAT
Statistics
Matches: 172, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 169 0.98
41 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATAACT
Found at i:60125440 original size:120 final size:120
Alignment explanation
Indices: 60125294--60125525 Score: 331
Period size: 120 Copynumber: 1.9 Consensus size: 120
60125284 TATAACCACA
* * * * * * *
60125294 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGGAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAAATGCCTTCGGGTCTTAACCCAGATAAAAGAACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
60125359 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
66 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAAATCACT
** *
60125414 AGCACAAATGCCTTCGGGTCTTAACCCAGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 AGCACAAATGCCTTCGGGTCTTAACCCAGATAAAAGAACTAGCACAAATGCCTTCGGGTCTTAAC
60125479 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA
66 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA
60125526 TCATTCAAAT
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
120 94 0.96
121 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (120 bp):
AGCACAAATGCCTTCGGGTCTTAACCCAGATAAAAGAACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAAAATCACT
Found at i:60130941 original size:68 final size:68
Alignment explanation
Indices: 60130792--60130949 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
60130782 CTAGCCGATT
* * * *
60130792 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
60130857 TTTA
65 TATA
* * *
60130861 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
60130923 CTATATA
63 C-ATATA
60130930 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
60130950 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:60134716 original size:28 final size:28
Alignment explanation
Indices: 60134648--60134745 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
60134638 CATGAGATTG
* * * *
60134648 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
60134677 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60134705 GCACTAAGTGTGCAAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60134732 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60134746 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60134759 original size:29 final size:27
Alignment explanation
Indices: 60134676--60134759 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
60134666 TAAATTGTAC
** *
60134676 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTAATTATAT
* *
60134704 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTAATTATAT
* *
60134731 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-AACTTAAT-TATAT
60134760 TTTTGAATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.50
28 19 0.40
29 5 0.10
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTAATTATAT
Found at i:60150626 original size:6 final size:6
Alignment explanation
Indices: 60150608--60150727 Score: 77
Period size: 6 Copynumber: 19.3 Consensus size: 6
60150598 AAGAAACATT
* *
60150608 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
60150657 ATCAAA ATCAGT ATCAAGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
60150708 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
60150728 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
5 6 0.07
6 65 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:60150655 original size:31 final size:31
Alignment explanation
Indices: 60150592--60150727 Score: 150
Period size: 31 Copynumber: 4.4 Consensus size: 31
60150582 TAACCAATTA
* * *
60150592 CAAAATAAGAAACATTATCA-G-AACTAGAAT
1 CAAAATCAGAATCAGTATCAGGTAAC-AGAAT
* * * *
60150622 CAGAATCAGAATCAGAATTAGGTGACAGAAT
1 CAAAATCAGAATCAGTATCAGGTAACAGAAT
* * *
60150653 CAGAATCAAAATCAGTATCAAGTAACAGAAT
1 CAAAATCAGAATCAGTATCAGGTAACAGAAT
60150684 CAAAATCAGAATCAGTATCAGGTAACAGAAT
1 CAAAATCAGAATCAGTATCAGGTAACAGAAT
60150715 CAAAAATCAGAAT
1 C-AAAATCAGAAT
60150728 GTGAATGCAA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
30 14 0.16
31 61 0.69
32 13 0.15
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (31 bp):
CAAAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:60151205 original size:26 final size:28
Alignment explanation
Indices: 60151163--60151238 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
60151153 GGTATCTCGG
*
60151163 TAATTCCACCCTACAGGGGTATTTTAG-
1 TAATTCTACCCTACAGGGGTATTTTAGA
*
60151190 TAA-TCTACCCTACAGGGGTA-TTTCGA
1 TAATTCTACCCTACAGGGGTATTTTAGA
60151216 TAATTCTACCCTACAGGGGTATT
1 TAATTCTACCCTACAGGGGTATT
60151239 CCGGTAATTG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 4 0.09
26 19 0.43
27 20 0.45
28 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (28 bp):
TAATTCTACCCTACAGGGGTATTTTAGA
Found at i:60151246 original size:27 final size:27
Alignment explanation
Indices: 60151135--60151247 Score: 115
Period size: 26 Copynumber: 4.3 Consensus size: 27
60151125 GGGGTAAAAT
* * *
60151135 GGTAATTTTACCCCACA-AGGTA-TCTC
1 GGTAATTCTACCCTACAGGGGTATTC-C
* **
60151161 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTCC
* *
60151188 AGTAA-TCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTCC
*
60151214 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTCC
60151241 GGTAATT
1 GGTAATT
60151248 GGGTATTCCG
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
26 36 0.51
27 34 0.48
28 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTCC
Found at i:60151253 original size:16 final size:16
Alignment explanation
Indices: 60151232--60151263 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
60151222 TACCCTACAG
60151232 GGGTATTCCGGTAATT
1 GGGTATTCCGGTAATT
60151248 GGGTATTCCGGTAATT
1 GGGTATTCCGGTAATT
60151264 CTACCCTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (16 bp):
GGGTATTCCGGTAATT
Found at i:60151266 original size:43 final size:43
Alignment explanation
Indices: 60151205--60151290 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
60151195 TACCCTACAG
*
60151205 GGGTATTTCGATAATTCTACCCTACAGGGGTATTCCGGTAATT
1 GGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGGTAATT
*
60151248 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATT
1 GGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGGTAATT
60151291 CTACCCTACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (43 bp):
GGGTATTCCGATAATTCTACCCTACAGGGGTATTCCGGTAATT
Found at i:60151278 original size:27 final size:27
Alignment explanation
Indices: 60151248--60151479 Score: 347
Period size: 27 Copynumber: 8.6 Consensus size: 27
60151238 TCCGGTAATT
*
60151248 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
60151275 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
60151302 GGGTATTTCGGTAATTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* **
60151329 AGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
60151356 GGGTATTTCGGTAATTCTACCCTATAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
60151383 GGGTATTTCGATAATTCTACCCTATAA
1 GGGTATTTCGGTAATTCTACCCTACAG
60151410 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
60151437 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
60151464 GGGTATTCCGGTAATT
1 GGGTATTTCGGTAATT
60151480 GGGTATTCCG
Statistics
Matches: 189, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 189 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:60151334 original size:54 final size:54
Alignment explanation
Indices: 60151248--60152348 Score: 1472
Period size: 54 Copynumber: 20.8 Consensus size: 54
60151238 TCCGGTAATT
60151248 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* ** ***
60151302 GGGTATTTCGGTAATTCTACCCTACAAAGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* * * * * * *
60151356 GGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCGATAATTCTACCCTATAA
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
*
60151410 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
*
60151464 GGGTATTCCGGTAA---T----T----GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* * * *
60151507 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
*
60151561 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* * * * *
60151615 GGGTATTTCGGCAATTTTACCCTACATGGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* * * *
60151669 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
*
60151723 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* * * * *
60151777 GGGTATTTCGGCAATTTTACCCTACATGGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* * * *
60151831 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
*
60151885 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* * * * *
60151939 GGGTATTTCGGCAATTTTACCCTACATGGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* * * *
60151993 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
*
60152047 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* * * *
60152101 GGGTATTTCGGCAATTTTACCCTACATGGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
60152155 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAA---T----T----
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
*
60152198 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* * * * *
60152252 GGGTATTTCGGCAATTTTACCCTACATGGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
* * * *
60152306 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATT
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATT
60152349 TCACAAATCA
Statistics
Matches: 913, Mismatches: 112, Indels: 44
0.85 0.10 0.04
Matches are distributed among these distances:
43 80 0.09
46 2 0.00
47 2 0.00
50 2 0.00
51 2 0.00
54 825 0.90
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (54 bp):
GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAG
Found at i:60151387 original size:81 final size:81
Alignment explanation
Indices: 60151247--60152349 Score: 1800
Period size: 81 Copynumber: 13.9 Consensus size: 81
60151237 TTCCGGTAAT
*
60151247 TGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
* *
60151312 GTAATTCTACCCTACA
66 GCAATTTTACCCTACA
** *** * * * *
60151328 AAGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAAGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
** * *
60151393 ATAATTCTACCCTATA
66 GCAATTTTACCCTACA
* * * *
60151409 AGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
*
60151474 G------TA----A-T
66 GCAATTTTACCCTACA
60151479 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
60151544 GCAATTTTACCCTACA
66 GCAATTTTACCCTACA
60151560 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
60151625 GCAATTTTACCCTACA
66 GCAATTTTACCCTACA
60151641 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
60151706 GCAATTTTACCCTACA
66 GCAATTTTACCCTACA
60151722 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
60151787 GCAATTTTACCCTACA
66 GCAATTTTACCCTACA
60151803 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
60151868 GCAATTTTACCCTACA
66 GCAATTTTACCCTACA
60151884 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
60151949 GCAATTTTACCCTACA
66 GCAATTTTACCCTACA
60151965 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
60152030 GCAATTTTACCCTACA
66 GCAATTTTACCCTACA
60152046 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
60152111 GCAATTTTACCCTACA
66 GCAATTTTACCCTACA
* *
60152127 TGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
*
60152192 G------TA----A-T
66 GCAATTTTACCCTACA
60152197 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
60152262 GCAATTTTACCCTACA
66 GCAATTTTACCCTACA
* * *
60152278 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCG
1 TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
*
60152343 GTAATTT
66 GCAATTT
60152350 CACAAATCAG
Statistics
Matches: 966, Mismatches: 34, Indels: 44
0.93 0.03 0.04
Matches are distributed among these distances:
70 126 0.13
71 2 0.00
75 4 0.00
76 4 0.00
80 2 0.00
81 828 0.86
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (81 bp):
TGGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCG
GCAATTTTACCCTACA
Found at i:60151485 original size:16 final size:16
Alignment explanation
Indices: 60151464--60151495 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
60151454 TACCCTACAG
60151464 GGGTATTCCGGTAATT
1 GGGTATTCCGGTAATT
60151480 GGGTATTCCGGTAATT
1 GGGTATTCCGGTAATT
60151496 CTACCCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (16 bp):
GGGTATTCCGGTAATT
Found at i:60151498 original size:43 final size:43
Alignment explanation
Indices: 60151437--60151522 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
60151427 TACCCTACAG
60151437 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATT
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATT
*
60151480 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATT
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATT
60151523 CTACCCTACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (43 bp):
GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATT
Found at i:60151510 original size:27 final size:27
Alignment explanation
Indices: 60151480--60152197 Score: 1076
Period size: 27 Copynumber: 26.6 Consensus size: 27
60151470 TCCGGTAATT
*
60151480 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAG
60151507 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAG
* * * *
60151534 GGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAG
*
60151561 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAG
60151588 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAG
* * * *
60151615 GGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAG
*
60151642 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAG
60151669 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAG
* * * *
60151696 GGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAG
*
60151723 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAG
60151750 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAG
* * * *
60151777 GGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAG
*
60151804 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAG
60151831 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAG
* * * *
60151858 GGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAG
*
60151885 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAG
60151912 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAG
* * * *
60151939 GGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAG
*
60151966 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAG
60151993 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAG
* * * *
60152020 GGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAG
*
60152047 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAG
60152074 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAG
* * * *
60152101 GGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAG
60152128 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAG
60152155 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAG
60152182 GGGTATTCCGGTAATT
1 GGGTATTCCGGTAATT
60152198 GGGTATTCCG
Statistics
Matches: 612, Mismatches: 79, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 612 1.00
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (27 bp):
GGGTATTCCGGTAATTCTACCCTACAG
Found at i:60152203 original size:16 final size:16
Alignment explanation
Indices: 60152182--60152213 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
60152172 TACCCTACAG
60152182 GGGTATTCCGGTAATT
1 GGGTATTCCGGTAATT
60152198 GGGTATTCCGGTAATT
1 GGGTATTCCGGTAATT
60152214 CTACCCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (16 bp):
GGGTATTCCGGTAATT
Found at i:60152216 original size:43 final size:43
Alignment explanation
Indices: 60152155--60152240 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
60152145 TACCCTACAG
60152155 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATT
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATT
*
60152198 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATT
1 GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATT
60152241 CTACCCTACA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (43 bp):
GGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGGTAATT
Found at i:60152228 original size:27 final size:27
Alignment explanation
Indices: 60152198--60152348 Score: 212
Period size: 27 Copynumber: 5.6 Consensus size: 27
60152188 TCCGGTAATT
*
60152198 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAG
60152225 GGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTCCGGTAATTCTACCCTACAG
* * * *
60152252 GGGTATTTCGGCAATTTTACCCTACAT
1 GGGTATTCCGGTAATTCTACCCTACAG
*
60152279 GGGTATTCCGGTAATTCTACCCTATAG
1 GGGTATTCCGGTAATTCTACCCTACAG
* * *
60152306 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTCCGGTAATTCTACCCTACAG
*
60152333 GGGTATTTCGGTAATT
1 GGGTATTCCGGTAATT
60152349 TCACAAATCA
Statistics
Matches: 109, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 109 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
GGGTATTCCGGTAATTCTACCCTACAG
Found at i:60152362 original size:54 final size:53
Alignment explanation
Indices: 60152198--60152371 Score: 190
Period size: 54 Copynumber: 3.2 Consensus size: 53
60152188 TCCGGTAATT
* * * **
60152198 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTACAAT-CAG
* * * *
60152252 GGGTATTTCGGCAATTTTACCCTACATGGGTATTCCGGTAATTCTACCCTAT-AG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTA--CAATCAG
* *
60152306 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATT-TCACAAATCAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCT-AC-AATCAG
60152360 GGGTATTTCGGT
1 GGGTATTTCGGT
60152372 CATTTTACAA
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
52 1 0.01
53 3 0.03
54 95 0.94
56 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (53 bp):
GGGTATTTCGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTACAATCAG
Found at i:60152364 original size:81 final size:81
Alignment explanation
Indices: 60152198--60152371 Score: 251
Period size: 81 Copynumber: 2.1 Consensus size: 81
60152188 TCCGGTAATT
* *
60152198 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCAGTAATTCTACCCTACAAGGGTATTTCGG
* ** *
60152263 CAATTTTACCCTACAT
66 CAATTTCACAATACAG
*
60152279 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
1 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCAGTAATTCTACCCTACAAGGGTATTTCGG
*
60152344 TAATTTCACAA-ATCAG
66 CAATTTCACAATA-CAG
*
60152360 GGGTATTTCGGT
1 GGGTATTCCGGT
60152372 CATTTTACAA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 82 0.99
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (81 bp):
GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCAGTAATTCTACCCTACAAGGGTATTTCGG
CAATTTCACAATACAG
Found at i:60152401 original size:81 final size:81
Alignment explanation
Indices: 60152198--60152402 Score: 216
Period size: 81 Copynumber: 2.5 Consensus size: 81
60152188 TCCGGTAATT
** * * *
60152198 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATTCCGGTAATTCTACCAAACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
* ** *
60152263 CAATTTTACCCTACAT
66 CAATTTCACAATACAG
** * *
60152279 GGGTATTCCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
1 GGGTATTCCGGTAATTCTACCAAACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
*
60152344 TAATTTCACAA-ATCAG
66 CAATTTCACAATA-CAG
* * * *
60152360 GGGTATTTCGGTCATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 GGGTATTCCGGTAATTCTACCAAA-CAGGGGTATTTCGGTAATT
60152403 TTATTGATTG
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 3 0.03
81 103 0.97
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (81 bp):
GGGTATTCCGGTAATTCTACCAAACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGG
CAATTTCACAATACAG
Found at i:60152404 original size:27 final size:27
Alignment explanation
Indices: 60152223--60152833 Score: 247
Period size: 27 Copynumber: 22.7 Consensus size: 27
60152213 TCTACCCTAT
* * **
60152223 AGGGGTATTCCGGTAATTCTAC-CCTAC
1 AGGGGTATTTCGGTAATTTTACAAAT-C
* **
60152250 AGGGGTATTTCGGCAATTTTAC-CCTAC
1 AGGGGTATTTCGGTAATTTTACAAAT-C
* * * **
60152277 ATGGGTATTCCGGTAATTCTACCCTAT-
1 AGGGGTATTTCGGTAATTTTA-CAAATC
* * **
60152304 AGGGGTATTTCAGTAATTCTAC-CCTAC
1 AGGGGTATTTCGGTAATTTTACAAAT-C
* *
60152331 AAGGGTATTTCGGTAATTTCACAAATC
1 AGGGGTATTTCGGTAATTTTACAAATC
* *
60152358 AGGGGTATTTCGGTCATTTTACAAACC
1 AGGGGTATTTCGGTAATTTTACAAATC
* ***
60152385 AGGGGTATTTTGGTAATTTTATTGAT-
1 AGGGGTATTTCGGTAATTTTACAAATC
* * * *
60152411 TGAGGGTATTTTGGTAATTTTATAAACC
1 AG-GGGTATTTCGGTAATTTTACAAATC
** * **
60152439 AATGGTATTTCAGTAATTTTGTAAAT-
1 AGGGGTATTTCGGTAATTTTACAAATC
* ** * **
60152465 TGAGGGTAAAAT-GGTAATTCTGTAAATC
1 AG-GGGT-ATTTCGGTAATTTTACAAATC
** * **
60152493 -GAGGGTAAAAT-GGTAATTCTATCTTA-C
1 AG-GGGT-ATTTCGGTAATTTTA-CAAATC
* *
60152520 AGGAGTATTTCAGTAATTTTACAAATC
1 AGGGGTATTTCGGTAATTTTACAAATC
* *
60152547 -GAGGGTATTTCAGTAATTTTGCAAA-C
1 AG-GGGTATTTCGGTAATTTTACAAATC
* * *
60152573 TAAGGGTATTTTGATAATTTTACAAATC
1 -AGGGGTATTTCGGTAATTTTACAAATC
* * *
60152601 -GAGGATATTTGGGTAATTTTATAAATC
1 AG-GGGTATTTCGGTAATTTTACAAATC
* * *
60152628 GGGGGTACTTT-GGTAATTTAACAAGTC
1 AGGGGTA-TTTCGGTAATTTTACAAATC
* **
60152655 AAGGGTATTTCAATAATTTTACAAATC
1 AGGGGTATTTCGGTAATTTTACAAATC
*
60152682 -GAGGGTATTTCAGTAATTTTACAAA-C
1 AG-GGGTATTTCGGTAATTTTACAAATC
* *
60152708 TAAGGGTATTTCAGTAATTTTACAAATC
1 -AGGGGTATTTCGGTAATTTTACAAATC
** * *
60152736 -GAGGGTATTTTAGTAATTTTACAATTG
1 AG-GGGTATTTCGGTAATTTTACAAATC
* *
60152763 A-CGGTATTTCGGTAATTTTATAAA-C
1 AGGGGTATTTCGGTAATTTTACAAATC
* *
60152788 CGGTGGTACTTT-GGTAATTTTACAACT-
1 AGG-GGTA-TTTCGGTAATTTTACAAATC
**
60152815 AGGGGTATTTAAGTAATTT
1 AGGGGTATTTCGGTAATTT
60152834 GGTAAACTAA
Statistics
Matches: 451, Mismatches: 100, Indels: 67
0.73 0.16 0.11
Matches are distributed among these distances:
25 4 0.01
26 41 0.09
27 390 0.86
28 15 0.03
29 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTTACAAATC
Found at i:60152418 original size:54 final size:54
Alignment explanation
Indices: 60152330--60152833 Score: 281
Period size: 54 Copynumber: 9.4 Consensus size: 54
60152320 TTCTACCCTA
* * * * *
60152330 CAAGGGTATTTCGGTAATTTCACAAA-TCAGGGGTATTTCGGTCATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATTGA-GGGTATTTCGGTAATTTTACAAAC
* ** ** * *
60152384 CAGGGGTATTTTGGTAATTTTATTGATTGAGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATTGAGGGTATTTCGGTAATTTTACAAAC
* * ** * ** *
60152438 CAATGGTATTTCAGTAATTTTGTAAATTGAGGGTAAAAT-GGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAATTGAGGGT-ATTTCGGTAATTTTACAAAC
* ** * * * * * *
60152492 CGAGGGTAAAAT-GGTAATTCTAT--CTTACAGGAGTATTTCAGTAATTTTACAAAT
1 CAAGGGT-ATTTCAGTAATTTTATAAATT-GAGG-GTATTTCGGTAATTTTACAAAC
* ** * * * * *
60152546 CGAGGGTATTTCAGTAATTTTGCAAACTAAGGGTATTTTGATAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTATAAATTGAGGGTATTTCGGTAATTTTACAAAC
* * ** * * * **
60152600 CGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTT-GGTAATTTAACAAGT
1 CAAGGGTATTTCAGTAATTTTATAAATTGAGGGTA-TTTCGGTAATTTTACAAAC
* * * *
60152654 CAAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATTGAGGGTATTTCGGTAATTTTACAAAC
* * * ** *
60152708 TAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC-AAT
1 CAAGGGTATTTCAGTAATTTTATAAATTGAGGGTATTTCGGTAATTTTACAAAC
** * * **
60152761 TGACGGTATTTCGGTAATTTTATAAACCG-GTGGTACTTT-GGTAATTTTAC-AAC
1 CAAGGGTATTTCAGTAATTTTATAAATTGAG-GGTA-TTTCGGTAATTTTACAAAC
* * *
60152814 TAGGGGTATTTAAGTAATTT
1 CAAGGGTATTTCAGTAATTT
60152834 GGTAAACTAA
Statistics
Matches: 349, Mismatches: 88, Indels: 27
0.75 0.19 0.06
Matches are distributed among these distances:
52 3 0.01
53 67 0.19
54 266 0.76
55 12 0.03
56 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTATAAATTGAGGGTATTTCGGTAATTTTACAAAC
Found at i:60152591 original size:81 final size:82
Alignment explanation
Indices: 60152520--60152833 Score: 308
Period size: 81 Copynumber: 3.9 Consensus size: 82
60152510 TCTATCTTAC
*
60152520 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAA-CTAAGGGTATTT
1 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATC-AAGGGTATTT
*
60152584 TGATAATTTTACAAATCG
65 TAATAATTTTACAAATCG
** * * * * *
60152602 AGGA-TATTTGGGTAATTTTATAAATCGGGGGTACTTT-GGTAATTTAACAAGTCAAGGGTATTT
1 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTACAAATCAAGGGTATTT
*
60152665 CAATAATTTTACAAATCG
65 TAATAATTTTACAAATCG
* *
60152683 AGG-GTATTTCAGTAATTTTACAAA-CTAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTT
1 AGGAGTATTTCAGTAATTTTACAAATC-GAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTT
* *
60152746 TAGTAATTTTAC-AATTG
65 TAATAATTTTACAAATCG
* * * * * * *
60152763 ACG-GTATTTCGGTAATTTTATAAACCG-GTGGTACTTT-GGTAATTTTACAACT-AGGGGTA-T
1 AGGAGTATTTCAGTAATTTTACAAATCGAG-GGTA-TTTCAGTAATTTTACAAATCAAGGGTATT
60152823 TTAAGTAATTT
64 TTAA-TAATTT
60152834 GGTAAACTAA
Statistics
Matches: 192, Mismatches: 31, Indels: 21
0.79 0.13 0.09
Matches are distributed among these distances:
78 4 0.02
79 12 0.06
80 46 0.24
81 122 0.64
82 8 0.04
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (82 bp):
AGGAGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTT
AATAATTTTACAAATCG
Found at i:60155635 original size:23 final size:24
Alignment explanation
Indices: 60155596--60155687 Score: 73
Period size: 24 Copynumber: 3.8 Consensus size: 24
60155586 GATGATGGAT
*
60155596 AGTAAGCTC-TATTGAGCTG-AAAC
1 AGTAAGCTCTTA-CGAGCTGAAAAC
*
60155619 GGTAAGCT-TTGACGAGCTGAAAAC
1 AGTAAGCTCTT-ACGAGCTGAAAAC
* *
60155643 AGTAAGCTCTTACGAGTTGATATATC
1 AGTAAGCTCTTACGAGCTGA-A-AAC
* *
60155669 AGTAGGCTCATACGAGCTG
1 AGTAAGCTCTTACGAGCTG
60155688 TTGTGAGTCC
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
23 14 0.25
24 20 0.36
25 3 0.05
26 18 0.33
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (24 bp):
AGTAAGCTCTTACGAGCTGAAAAC
Found at i:60159149 original size:35 final size:35
Alignment explanation
Indices: 60159110--60159180 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
60159100 ACTTTATTCT
* * *
60159110 TTCCCTGATCTATGTTTGTATTTCTCCTTTCTTGA
1 TTCCCTAATCTAAGTCTGTATTTCTCCTTTCTTGA
60159145 TTCCCTAATCTAAGTCTGTATTTCTCCTTTCTTGA
1 TTCCCTAATCTAAGTCTGTATTTCTCCTTTCTTGA
60159180 T
1 T
60159181 ATAAATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.14, C:0.24, G:0.10, T:0.52
Consensus pattern (35 bp):
TTCCCTAATCTAAGTCTGTATTTCTCCTTTCTTGA
Found at i:60165559 original size:101 final size:99
Alignment explanation
Indices: 60165341--60165538 Score: 261
Period size: 99 Copynumber: 2.0 Consensus size: 99
60165331 TATGTAGCCA
* * * * *
60165341 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
* * *
60165406 TAGTAGCCTGCACTTAGTACTGCACACGTGACCT
66 TAGTAGCCTACACTTAGTACTACACACGCGACCT
* * * *
60165440 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACA
*
60165505 CATAGTAGCCTACACTTAGTACTACACATGCGAC
64 CATAGTAGCCTACACTTAGTACTACACACGCGAC
60165539 TTAGCTACAT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 42 0.50
100 3 0.04
101 39 0.46
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
TAGTAGCCTACACTTAGTACTACACACGCGACCT
Found at i:60167481 original size:12 final size:12
Alignment explanation
Indices: 60167464--60167493 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
60167454 CCACAATCAC
60167464 TCATACATTCAA
1 TCATACATTCAA
60167476 TCATACATTCAA
1 TCATACATTCAA
*
60167488 ACATAC
1 TCATAC
60167494 TCTATAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (12 bp):
TCATACATTCAA
Found at i:60170106 original size:22 final size:22
Alignment explanation
Indices: 60170066--60170119 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
60170056 CATCCATCCT
*
60170066 CTACACTCTACTCCATCCAAG-C
1 CTACACTCCACTCCATCC-AGTC
* *
60170088 CTACACTCCACTTCGTCCAGTC
1 CTACACTCCACTCCATCCAGTC
*
60170110 CTCCACTCCA
1 CTACACTCCA
60170120 TGTGGGGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.22, C:0.48, G:0.06, T:0.24
Consensus pattern (22 bp):
CTACACTCCACTCCATCCAGTC
Found at i:60184751 original size:20 final size:20
Alignment explanation
Indices: 60184726--60184764 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
60184716 AAAATTTCAA
60184726 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
60184746 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
60184765 AATAACCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:60190884 original size:32 final size:32
Alignment explanation
Indices: 60190846--60190908 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
60190836 CTTAGGCTAT
60190846 TTTCCAAGCCTGCATGTTACCCATAAACCCTA
1 TTTCCAAGCCTGCATGTTACCCATAAACCCTA
*
60190878 TTTCCAAGCCTTCATGTTACCCATAAACCCT
1 TTTCCAAGCCTGCATGTTACCCATAAACCCT
60190909 TACAAACTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.35, G:0.08, T:0.30
Consensus pattern (32 bp):
TTTCCAAGCCTGCATGTTACCCATAAACCCTA
Found at i:60196585 original size:46 final size:46
Alignment explanation
Indices: 60196448--60196663 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 46
60196438 GGGTTATTGT
* * ***
60196448 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTTTGA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GACGA
* **
60196494 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATCGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACGA
* *
60196542 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACG-A
* * *
60196589 -AGCCAGAGTAAGACATGTC-AGGGACATGCATCGG-CTACAAGAAGA
1 GAGCCAGTGTAAGACATGTCTA-GGACATGCATCGGCCT-CGAGACGA
* * *
60196634 TAGTCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTAGGACATG
60196664 ACAGTGGCAC
Statistics
Matches: 140, Mismatches: 21, Indels: 17
0.79 0.12 0.10
Matches are distributed among these distances:
45 4 0.03
46 73 0.52
47 40 0.29
48 22 0.16
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGA
Found at i:60199757 original size:23 final size:25
Alignment explanation
Indices: 60199707--60199759 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
60199697 ATGTCATAAA
*
60199707 CATAACTTCATCATATAACTTATAC
1 CATAACTTCATCATATAACCTATAC
60199732 CATAAC-TCATTCATA-AACCTAT-C
1 CATAACTTCA-TCATATAACCTATAC
60199755 CATAA
1 CATAA
60199760 TCAAGCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.23
24 9 0.35
25 11 0.42
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (25 bp):
CATAACTTCATCATATAACCTATAC
Found at i:60202316 original size:40 final size:40
Alignment explanation
Indices: 60202261--60203368 Score: 2108
Period size: 40 Copynumber: 27.7 Consensus size: 40
60202251 GAGCATTGGA
60202261 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60202301 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60202341 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202381 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202421 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202461 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202501 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202541 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202581 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202621 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202661 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202701 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202741 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202781 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202821 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202861 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202901 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202941 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60202981 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60203021 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60203061 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60203101 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60203141 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
60203181 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60203221 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
60203261 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60203301 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
60203341 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
60203369 AGGTGTTTGC
Statistics
Matches: 1053, Mismatches: 15, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 1053 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:60210971 original size:80 final size:80
Alignment explanation
Indices: 60210838--60210999 Score: 306
Period size: 80 Copynumber: 2.0 Consensus size: 80
60210828 TATTTGAAGC
*
60210838 ATTGTGGGGCTGAGTCATAATGACTGTTGGATTCCCTGTTCTGTTTTTAGAAAATCATTATAAAT
1 ATTGTGGGGCTGAGTCATAATGACTGCTGGATTCCCTGTTCTGTTTTTAGAAAATCATTATAAAT
60210903 TGTACAAAAATGATT
66 TGTACAAAAATGATT
*
60210918 ATTGTGGGGCTGAGTCATACTGACTGCTGGATTCCCTGTTCTGTTTTTAGAAAATCATTATAAAT
1 ATTGTGGGGCTGAGTCATAATGACTGCTGGATTCCCTGTTCTGTTTTTAGAAAATCATTATAAAT
60210983 TGTACAAAAATGATT
66 TGTACAAAAATGATT
60210998 AT
1 AT
60211000 AAGATAAAAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (80 bp):
ATTGTGGGGCTGAGTCATAATGACTGCTGGATTCCCTGTTCTGTTTTTAGAAAATCATTATAAAT
TGTACAAAAATGATT
Found at i:60211869 original size:40 final size:40
Alignment explanation
Indices: 60211810--60212002 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
60211800 GAACATTGGA
* *
60211810 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60211850 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
60211890 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
60211930 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTC
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
60211970 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATG
60212003 TTTGCGGCTG
Statistics
Matches: 139, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:60216776 original size:34 final size:33
Alignment explanation
Indices: 60216738--60216815 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
60216728 CGAAGAGAAT
**
60216738 AAAATTTAAAA-AAAAGTTAAAAAATTGAGGATTG
1 AAAATTTAAAATAAAA-TT-AAAAATTGAAAATTG
* *
60216772 AAAATTCAAAATTAAAATTGAAAATTGAAAATTG
1 AAAATTTAAAA-TAAAATTAAAAATTGAAAATTG
60216806 AAAATTTAAA
1 AAAATTTAAA
60216816 TTTTAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 31 0.84
35 2 0.05
36 4 0.11
ACGTcount: A:0.60, C:0.01, G:0.10, T:0.28
Consensus pattern (33 bp):
AAAATTTAAAATAAAATTAAAAATTGAAAATTG
Found at i:60216782 original size:7 final size:7
Alignment explanation
Indices: 60216758--60216869 Score: 86
Period size: 7 Copynumber: 16.1 Consensus size: 7
60216748 AAAAAGTTAA
60216758 AAAATTG
1 AAAATTG
**
60216765 AGGATTG
1 AAAATTG
*
60216772 AAAATTC
1 AAAATTG
60216779 AAAATT-
1 AAAATTG
60216785 AAAATTG
1 AAAATTG
60216792 AAAATTG
1 AAAATTG
60216799 AAAATTG
1 AAAATTG
*
60216806 AAAATTT
1 AAAATTG
* *
60216813 AAATTTT
1 AAAATTG
*
60216820 AAATTTG
1 AAAATTG
*
60216827 AAGATTG
1 AAAATTG
60216834 AAAATCT-
1 AAAAT-TG
60216841 AAAATT-
1 AAAATTG
60216847 AGAAATTG
1 A-AAATTG
**
60216855 AGGATTG
1 AAAATTG
*
60216862 AAGATTG
1 AAAATTG
60216869 A
1 A
60216870 GGATTGAGAA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
6 8 0.09
7 77 0.89
8 2 0.02
ACGTcount: A:0.51, C:0.02, G:0.15, T:0.32
Consensus pattern (7 bp):
AAAATTG
Found at i:60216860 original size:28 final size:27
Alignment explanation
Indices: 60216768--60216863 Score: 95
Period size: 28 Copynumber: 3.5 Consensus size: 27
60216758 AAAATTGAGG
* *
60216768 ATTGAAAATTCAAAATTAAAATT-GAAA
1 ATTGAAGATTGAAAATTAAAATTAG-AA
* * **
60216795 ATTGAAAATTGAAAATTTAAATTTTAA
1 ATTGAAGATTGAAAATTAAAATTAGAA
60216822 ATTTGAAGATTGAAAATCTAAAATTAGAA
1 A-TTGAAGATTGAAAAT-TAAAATTAGAA
*
60216851 ATTGAGGATTGAA
1 ATTGAAGATTGAA
60216864 GATTGAGGAT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 24 0.41
28 25 0.43
29 9 0.16
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (27 bp):
ATTGAAGATTGAAAATTAAAATTAGAA
Found at i:60216886 original size:14 final size:13
Alignment explanation
Indices: 60216848--60216886 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
60216838 TCTAAAATTA
60216848 GAAATTGAGGATT
1 GAAATTGAGGATT
60216861 GAAGATTGAGGATT
1 GAA-ATTGAGGATT
*
60216875 GAGAATTTAGGA
1 GA-AATTGAGGA
60216887 AGGAAGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 19 0.83
15 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.28
Consensus pattern (13 bp):
GAAATTGAGGATT
Found at i:60218736 original size:17 final size:17
Alignment explanation
Indices: 60218695--60218737 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
60218685 TTAAAGGTAT
*
60218695 ATATTTTTATTTTAAAA
1 ATATTTTTATTCTAAAA
*
60218712 ATACTTTTTCTTCTAAAA
1 ATA-TTTTTATTCTAAAA
*
60218730 TTATTTTT
1 ATATTTTT
60218738 TAGAAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATTTTTATTCTAAAA
Found at i:60221211 original size:43 final size:43
Alignment explanation
Indices: 60221163--60221263 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 43
60221153 TTATTTGAAA
* * **
60221163 AAACGCTGCTAAAGGTC-GGAACCTTTAGCGGCGCTTTTCCCGT
1 AAACGCCGCTAAAGGTCAAG-ACCTTTAGCGGCGCTTTTCCCAC
*
60221206 AAACGCCGATAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
60221249 AAACGCCGCTAAAGG
1 AAACGCCGCTAAAGG
60221264 ACATAAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
43 50 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:60221450 original size:16 final size:16
Alignment explanation
Indices: 60221425--60221455 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60221415 ACTACACCAG
*
60221425 AAATATAACAAAATAC
1 AAATAGAACAAAATAC
60221441 AAATAGAACAAAATA
1 AAATAGAACAAAATA
60221456 ATGATAGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.03, T:0.16
Consensus pattern (16 bp):
AAATAGAACAAAATAC
Found at i:60221946 original size:12 final size:12
Alignment explanation
Indices: 60221929--60221961 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
60221919 TTGAAGAACC
60221929 ATTAATCATGTT
1 ATTAATCATGTT
60221941 ATTAATCATGTT
1 ATTAATCATGTT
60221953 ATTAATCAT
1 ATTAATCAT
60221962 ATATGCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (12 bp):
ATTAATCATGTT
Found at i:60222069 original size:13 final size:13
Alignment explanation
Indices: 60222051--60222096 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
60222041 TTATATGCCC
60222051 ATTTACATGCAGA
1 ATTTACATGCAGA
*
60222064 ATTT--A--CAGT
1 ATTTACATGCAGA
60222073 ATTTACATGCAGA
1 ATTTACATGCAGA
60222086 ATTTACATGCA
1 ATTTACATGCA
60222097 TCAACAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
9 7 0.26
11 2 0.07
13 18 0.67
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (13 bp):
ATTTACATGCAGA
Found at i:60222077 original size:22 final size:22
Alignment explanation
Indices: 60222051--60222092 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
60222041 TTATATGCCC
60222051 ATTTACATGCAGAATTTACAGT
1 ATTTACATGCAGAATTTACAGT
60222073 ATTTACATGCAGAATTTACA
1 ATTTACATGCAGAATTTACA
60222093 TGCATCAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (22 bp):
ATTTACATGCAGAATTTACAGT
Found at i:60222263 original size:89 final size:89
Alignment explanation
Indices: 60222154--60222645 Score: 975
Period size: 89 Copynumber: 5.5 Consensus size: 89
60222144 TTTAAGCTCC
*
60222154 TTAGAATTATACTTTTGAATCATCTTTTGCATCAAGTGAATTATATGCCCATTTAGAATTTAATG
1 TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATGCCCATTTAGAATTTAATG
60222219 CCAGAAAATGAAACAATGTACCAT
66 CCAGAAAATGAAACAATGTACCAT
60222243 TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATGCCCATTTAGAATTTAATG
1 TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATGCCCATTTAGAATTTAATG
60222308 CCAGAAAATGAAACAATGTACCAT
66 CCAGAAAATGAAACAATGTACCAT
60222332 TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATGCCCATTTAGAATTTAATG
1 TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATGCCCATTTAGAATTTAATG
60222397 CCAGAAAATGAAACAATGTACCAT
66 CCAGAAAATGAAACAATGTACCAT
60222421 TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATGCCCATTTAGAATTTAATG
1 TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATGCCCATTTAGAATTTAATG
60222486 CCAGAAAATGAAACAATGTACCAT
66 CCAGAAAATGAAACAATGTACCAT
60222510 TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATGCCCATTTAGAATTTAATG
1 TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATGCCCATTTAGAATTTAATG
60222575 CCAGAAAATGAAACAATGTACCAT
66 CCAGAAAATGAAACAATGTACCAT
60222599 TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATG
1 TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATG
60222646 AATTATGATT
Statistics
Matches: 402, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 402 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (89 bp):
TTAGAATTATTCTTTTGAATCATCTTTTGCATCAAGTGAATTATATGCCCATTTAGAATTTAATG
CCAGAAAATGAAACAATGTACCAT
Found at i:60228315 original size:15 final size:15
Alignment explanation
Indices: 60228272--60228318 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
60228262 AAGAATGATC
*
60228272 TAATTGGAATCGAAT
1 TAATTGGAATTGAAT
* *
60228287 TAAGTGTAGA-TGAAT
1 TAATTGGA-ATTGAAT
60228302 TAATTGGAATTGAAT
1 TAATTGGAATTGAAT
60228317 TA
1 TA
60228319 TTTTTAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.36
Consensus pattern (15 bp):
TAATTGGAATTGAAT
Found at i:60228420 original size:66 final size:67
Alignment explanation
Indices: 60228309--60228443 Score: 263
Period size: 66 Copynumber: 2.0 Consensus size: 67
60228299 AATTAATTGG
60228309 AATTGAATTATTTTTAATATATCAAAATATTTTTAGATTAAATCTTAAACCATTTAATATATATA
1 AATTGAATTATTTTTAATATATCAAAATATTTTTAGATTAAATCTTAAACCATTTAATATATATA
60228374 TA
66 TA
60228376 AATT-AATTATTTTTAATATATCAAAATATTTTTAGATTAAATCTTAAACCATTTAATATATATA
1 AATTGAATTATTTTTAATATATCAAAATATTTTTAGATTAAATCTTAAACCATTTAATATATATA
60228440 TA
66 TA
60228442 AA
1 AA
60228444 GTATATCTAT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 64 0.94
67 4 0.06
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (67 bp):
AATTGAATTATTTTTAATATATCAAAATATTTTTAGATTAAATCTTAAACCATTTAATATATATA
TA
Found at i:60228748 original size:72 final size:70
Alignment explanation
Indices: 60228657--60228792 Score: 177
Period size: 72 Copynumber: 1.9 Consensus size: 70
60228647 CCTTAAACTC
* * *
60228657 TAACCCTAACCCCTAAACCCTAAATCATA-ATCCTTAAACTCATAATTCA-TCATAAACCTTCAA
1 TAACCCTAAACCCTAAACCCTAAACCATATAT-CTTAAAC-CATAATTAACTCATAAACCTT-AA
60228720 ACACTAGT
63 ACACTAGT
* *
60228728 TAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACCATAGTTAACTCATAAACCTTAAAC
1 TAAC-CCTAAACCCTAAACCCTAAACCATATATCTTAAACCATAATTAACTCATAAACCTTAAAC
60228793 CCTAAACCAT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
71 15 0.26
72 40 0.70
73 2 0.04
ACGTcount: A:0.42, C:0.29, G:0.01, T:0.27
Consensus pattern (70 bp):
TAACCCTAAACCCTAAACCCTAAACCATATATCTTAAACCATAATTAACTCATAAACCTTAAACA
CTAGT
Found at i:60228777 original size:46 final size:46
Alignment explanation
Indices: 60228724--60228817 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
60228714 CTTCAAACAC
*
60228724 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
60228770 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
60228816 TA
1 TA
60228818 AACCATAATG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.43, C:0.27, G:0.02, T:0.29
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:60228789 original size:25 final size:25
Alignment explanation
Indices: 60228681--60228793 Score: 94
Period size: 25 Copynumber: 4.6 Consensus size: 25
60228671 AAACCCTAAA
* * *
60228681 TCATAATCCTTAAACTCATAATTCA-
1 TCATAAACCTTAAAC-CATAGTTAAC
60228706 TCATAAACCTTCAAA-CACTAGTTAAC
1 TCATAAACCTT-AAACCA-TAGTTAAC
* *
60228732 TCCTAAACCTTAAACCCTA---AAC
1 TCATAAACCTTAAACCATAGTTAAC
* *
60228754 -CATATATCTTAAACCATAGTTAAC
1 TCATAAACCTTAAACCATAGTTAAC
60228778 TCATAAACCTTAAACC
1 TCATAAACCTTAAACC
60228794 CTAAACCATA
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
21 14 0.20
22 3 0.04
24 5 0.07
25 33 0.48
26 14 0.20
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (25 bp):
TCATAAACCTTAAACCATAGTTAAC
Found at i:60228822 original size:7 final size:7
Alignment explanation
Indices: 60228735--60228825 Score: 56
Period size: 7 Copynumber: 12.4 Consensus size: 7
60228725 AGTTAACTCC
*
60228735 TAAACCT
1 TAAACCA
*
60228742 TAAACCC
1 TAAACCA
60228749 TAAACCA
1 TAAACCA
* * *
60228756 TATATCT
1 TAAACCA
60228763 TAAACCA
1 TAAACCA
60228770 TAGTTAACTCA
1 TA---AAC-CA
*
60228781 TAAACCT
1 TAAACCA
*
60228788 TAAACCC
1 TAAACCA
60228795 TAAACCA
1 TAAACCA
* * *
60228802 TATATCT
1 TAAACCA
60228809 TAAACCA
1 TAAACCA
60228816 TAAACCA
1 TAAACCA
60228823 TAA
1 TAA
60228826 TGATAATTAA
Statistics
Matches: 63, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
7 53 0.84
8 3 0.05
10 3 0.05
11 4 0.06
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.26
Consensus pattern (7 bp):
TAAACCA
Found at i:60229046 original size:41 final size:41
Alignment explanation
Indices: 60228983--60229201 Score: 316
Period size: 41 Copynumber: 5.4 Consensus size: 41
60228973 GTTATATGAC
* *
60228983 TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTCCGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
* * *
60229024 TTTTAGCAGCGTTTTGCTAAAAGCGCCGCTAATTCTCTGG-
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
* * *
60229064 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATTCTCTAGA
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
60229105 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGTT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
60229146 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
60229186 TTTTCGCGGCGCTTTT
1 TTTTAGCGGCG-TTTT
60229202 TACTAAAACG
Statistics
Matches: 162, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 48 0.30
41 114 0.70
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:60229118 original size:81 final size:82
Alignment explanation
Indices: 60228983--60229232 Score: 335
Period size: 81 Copynumber: 3.1 Consensus size: 82
60228973 GTTATATGAC
* ** *
60228983 TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTCCGGTTTTTAGCAGCGTTTTGCTAAAAGC
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTGCTAAAAGC
*
60229048 GCCGCTAATTCTCTG-G
66 GCCGCTAATGCTCTGTG
* * *
60229064 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATTCTCTAGATTTTAGCGGCGTTTTGCCAAAAGC
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTGCTAAAAGC
*
60229129 GCCGCTAATGCTCTGTT
66 GCCGCTAATGCTCTGTG
* *
60229146 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTA-TTTTTCGCGGCGCTTTTTACTAAAA
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCG--TTTTGCTAAAA
* * *
60229210 -CGCCGCTATTGCTATGAG
64 GCGCCGCTAATGCTCTGTG
60229228 TTTTA
1 TTTTA
60229233 CAATTTTTGC
Statistics
Matches: 148, Mismatches: 18, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
81 82 0.55
82 57 0.39
83 9 0.06
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTGCTAAAAGC
GCCGCTAATGCTCTGTG
Found at i:60229513 original size:15 final size:15
Alignment explanation
Indices: 60229495--60229524 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
60229485 TATCTGAACT
60229495 GATCATTTTCACTAA
1 GATCATTTTCACTAA
60229510 GATCATTTTCACTAA
1 GATCATTTTCACTAA
60229525 CTTCCTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (15 bp):
GATCATTTTCACTAA
Found at i:60234960 original size:43 final size:43
Alignment explanation
Indices: 60234906--60235053 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 43
60234896 TATCCCAGAT
* *
60234906 ATGGTCTTTACATGTTATCATATATCGATGCCAACGT-CCTAGAC
1 ATGGTC-TTACATGTAATCATATAACGATGCCAACGTCCCT-GAC
* *** *
60234950 GTGGTCTTACACAAAATCATATAACGATGCCAATGTCCCTGAC
1 ATGGTCTTACATGTAATCATATAACGATGCCAACGTCCCTGAC
* * * * * * *
60234993 ATGTTCTTACATGTAAACACA-ATACAATGCCAATGGCCCAGAC
1 ATGGTCTTACATGTAATCATATA-ACGATGCCAACGTCCCTGAC
60235036 ATGGTCTTACATGTAATC
1 ATGGTCTTACATGTAATC
60235054 TCATCTTGAT
Statistics
Matches: 83, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
42 1 0.01
43 74 0.89
44 8 0.10
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCATATAACGATGCCAACGTCCCTGAC
Found at i:60238710 original size:50 final size:48
Alignment explanation
Indices: 60238622--60238787 Score: 219
Period size: 50 Copynumber: 3.4 Consensus size: 48
60238612 CCTCTTTTAG
* * * *
60238622 TAACTAGGGCAAAAACCCTTTTTATAACTGGGGCATAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTATCA
* *
60238671 TAACTGGGGCATAAGCCCTTCATCATAACTGGGACATAAGCCCTTTATCA
1 TAACTGGGGCATAAGCCCTT--TAATAACTGGGGCATAAGCCCTTTATCA
*
60238721 TAACTGGGGCATAAGCCCTTTAATAATTGGGGCATAAGCCCTTTA--A
1 TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTATCA
*
60238767 TAACTAGGGCATAAGCCCTTT
1 TAACTGGGGCATAAGCCCTTT
60238788 TGCACTTCCT
Statistics
Matches: 106, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
46 21 0.20
48 24 0.23
49 15 0.14
50 46 0.43
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (48 bp):
TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTATCA
Found at i:60238751 original size:23 final size:23
Alignment explanation
Indices: 60238617--60238787 Score: 198
Period size: 25 Copynumber: 7.1 Consensus size: 23
60238607 CCTAGCCTCT
* * * *
60238617 TTTAGTAACTAGGGCAAAAACCC
1 TTTAATAACTGGGGCATAAGCCC
*
60238640 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
60238664 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
* *
60238689 TTCATCATAACTGGGACATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
60238714 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
*
60238739 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
60238762 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
60238785 TTT
1 TTT
60238788 TGCACTTCCT
Statistics
Matches: 128, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
23 46 0.36
24 18 0.14
25 63 0.49
27 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:60238860 original size:9 final size:9
Alignment explanation
Indices: 60238846--60238902 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
60238836 ATCTCATGTG
60238846 CATATCATA
1 CATATCATA
*
60238855 CATATCATGTG
1 CATATCA--TA
60238866 CATATCATA
1 CATATCATA
* *
60238875 CATGTCATGTG
1 CATATCA--TA
60238886 CATATCATA
1 CATATCATA
60238895 CATATCAT
1 CATATCAT
60238903 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:60238862 original size:20 final size:20
Alignment explanation
Indices: 60238834--60238904 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
60238824 GCATTTATGA
*
60238834 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
60238854 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
60238874 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
60238894 ACATATCATGT
1 ACATATCATGT
60238905 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:60238869 original size:11 final size:11
Alignment explanation
Indices: 60238839--60238893 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
60238829 TATGAACATC
60238839 TCATGTGCATA
1 TCATGTGCATA
*
60238850 TCA--TACATA
1 TCATGTGCATA
60238859 TCATGTGCATA
1 TCATGTGCATA
* *
60238870 TCA--TACATG
1 TCATGTGCATA
60238879 TCATGTGCATA
1 TCATGTGCATA
60238890 TCAT
1 TCAT
60238894 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:60240204 original size:27 final size:27
Alignment explanation
Indices: 60240148--60240204 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
60240138 GGGCATATTC
* *
60240148 GTCATTTTACCATACAGGGGTATTATG
1 GTCACTTTACCATACAGGGGTATTACG
*
60240175 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCACTTTACCATACAGGGG-TATTACG
60240202 GTC
1 GTC
60240205 TTTTACCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGTATTACG
Found at i:60240295 original size:27 final size:27
Alignment explanation
Indices: 60240262--60240574 Score: 177
Period size: 27 Copynumber: 11.6 Consensus size: 27
60240252 TTGGTAAATC
*
60240262 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** * *
60240289 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAATCAAGGGTATTTC-AGTAA-TTT
* * *
60240317 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCAAGGGTATTTCAGTAATTT
** * **
60240345 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
60240372 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
60240399 CACAAA-CCAGTGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCAGTAATTT
* **
60240426 TACAAA-CTAGGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTCAGTAATTT
** *
60240453 TACAAATTGAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
60240480 TACAAACCAAGGGTATTTTAGCAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
60240507 TACAGA-CTAGGGTA-TTCTAGTAATTT
1 TACAAATCAAGGGTATTTC-AGTAATTT
** * *** *
60240533 TGTAAATCGAGGGTAAAACAGTAATTC
1 TACAAATCAAGGGTATTTCAGTAATTT
**
60240560 TGTAAATCAAGGGTA
1 TACAAATCAAGGGTA
60240575 AAATAGTAAT
Statistics
Matches: 225, Mismatches: 51, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
25 2 0.01
26 19 0.08
27 174 0.77
28 16 0.07
29 14 0.06
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:60240448 original size:81 final size:81
Alignment explanation
Indices: 60240353--60240547 Score: 277
Period size: 81 Copynumber: 2.4 Consensus size: 81
60240343 TTTGTAAATC
60240353 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATTT
* *
60240417 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* *
60240434 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
*
60240499 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
* * ** *
60240515 A-GGGTATTCTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
60240548 AAACAGTAAT
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
80 27 0.26
81 74 0.72
82 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:60240498 original size:54 final size:54
Alignment explanation
Indices: 60240244--60240533 Score: 200
Period size: 54 Copynumber: 5.4 Consensus size: 54
60240234 TCATCCTACA
* * * * ** *
60240244 AGGGTGTTT-TGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACC
1 AGGGTATTTCTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATC
* * * * * **
60240297 AATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAATC
1 -AGGGTATTTCTGGTAA-TTTTACAAA-CCAAGGGTATTT-TAGTAATTTTACAAATC
*** ** * *
60240353 AGGGGTATTT-TGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC
1 A-GGGTATTTCTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATC
* * * *
60240407 AGTGGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 AG-GGTATTTCTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAA-TC
* *
60240462 AGGGTATTTCT-GTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGA-C
1 AGGGTATTTCTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATC
*
60240514 TAGGGTA-TTCTAGTAATTTT
1 -AGGGTATTTCTGGTAATTTT
60240534 GTAAATCGAG
Statistics
Matches: 190, Mismatches: 34, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
52 4 0.02
53 15 0.08
54 117 0.62
55 20 0.11
56 34 0.18
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATC
Found at i:60240571 original size:80 final size:81
Alignment explanation
Indices: 60240353--60240574 Score: 198
Period size: 81 Copynumber: 2.8 Consensus size: 81
60240343 TTTGTAAATC
* * * *** *
60240353 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATT-TCACAAACC-AGTGGTATT
1 AGGGGTATTCTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCT-ACAAACCAAG-GGTATT
* *
60240416 TTGGTAATTTTACAAACT
64 TTAGCAATTTTACAAACT
* * * *** * *
60240434 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTCTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAACCAAGGGTATTTT
*
60240499 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
** ** *
60240515 A-GGGTATTCTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTA
1 AGGGGTATTCTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAACCAAGGGTA
60240575 AAATAGTAAT
Statistics
Matches: 122, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
80 46 0.38
81 73 0.60
82 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (81 bp):
AGGGGTATTCTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:60240575 original size:27 final size:27
Alignment explanation
Indices: 60240525--60240658 Score: 160
Period size: 27 Copynumber: 5.0 Consensus size: 27
60240515 AGGGTATTCT
*
60240525 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
60240552 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
60240579 AGTAATTCTATATATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
60240606 GGTACTTCTGTAAATCGATGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
60240633 GGTAATTCTGTAAGTCGAGGGTAAAA
1 AGTAATTCTGTAAATCGAGGGTAAAA
60240659 TGGGGGTAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:60240673 original size:65 final size:65
Alignment explanation
Indices: 60240597--60240720 Score: 167
Period size: 65 Copynumber: 1.9 Consensus size: 65
60240587 TATATATCAA
* * * * *
60240597 GGGTAAAATGGTACTTCTGTAAATCGATGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATGG
1 GGGTAAAATGGTAATTATATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
* * * *
60240662 GGGTAAAATGGTAATTATATAAATTGGGGGTAAAATGGTAATTCTGTAAATCGGGGGTA
1 GGGTAAAATGGTAATTATATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
60240721 CTTTGGTAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 50 1.00
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.29
Consensus pattern (65 bp):
GGGTAAAATGGTAATTATATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
Found at i:60240711 original size:27 final size:27
Alignment explanation
Indices: 60240653--60240720 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
60240643 TAAGTCGAGG
*
60240653 GTAAAATGGGGGTAAAATGGTAATTAT
1 GTAAATTGGGGGTAAAATGGTAATTAT
* *
60240680 ATAAATTGGGGGTAAAATGGTAATTCT
1 GTAAATTGGGGGTAAAATGGTAATTAT
*
60240707 GTAAATCGGGGGTA
1 GTAAATTGGGGGTA
60240721 CTTTGGTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.37, C:0.03, G:0.31, T:0.29
Consensus pattern (27 bp):
GTAAATTGGGGGTAAAATGGTAATTAT
Found at i:60240740 original size:92 final size:92
Alignment explanation
Indices: 60240570--60240747 Score: 203
Period size: 92 Copynumber: 1.9 Consensus size: 92
60240560 TGTAAATCAA
* * * *
60240570 GGGTAAAATAGTAATTCTATATATCAAGGGTAAAATGGTACTTCTGTAAATCGATGGTAAAACGG
1 GGGTAAAATAGTAATTATATAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGG
** *
60240635 TAATTCTGTAAGTCGAGGGTAAAATGG
66 TAATTCTACAAGTCGAAGGTAAAATGG
* *** * ****
60240662 GGGTAAAATGGTAATTATATAAATTGGGGGTAAAATGGTAATTCTGTAAATCGGGGGTACTTTGG
1 GGGTAAAATAGTAATTATATAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGG
*
60240727 TAATTTTACAAGTCGAAGGTA
66 TAATTCTACAAGTCGAAGGTA
60240748 CTTCAGTAAT
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
92 69 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.31
Consensus pattern (92 bp):
GGGTAAAATAGTAATTATATAAATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGG
TAATTCTACAAGTCGAAGGTAAAATGG
Found at i:60240747 original size:27 final size:27
Alignment explanation
Indices: 60240717--60240792 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
60240707 GTAAATCGGG
* *
60240717 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTACTTTAGTAATTTTACAAATCGAA
* *
60240744 GGTACTTCAGTAATTTTACAAATCGAG
1 GGTACTTTAGTAATTTTACAAATCGAA
*
60240771 GGTA-TTTCAGTATTTTTACAAA
1 GGTACTTT-AGTAATTTTACAAA
60240793 CTAAGCGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTACTTTAGTAATTTTACAAATCGAA
Found at i:60240802 original size:27 final size:27
Alignment explanation
Indices: 60240726--60240815 Score: 87
Period size: 27 Copynumber: 3.3 Consensus size: 27
60240716 GGGTACTTTG
* *
60240726 GTAATTTTACAAGTCGAAG-GTACTTCA
1 GTAATTTTACAAATC-AAGCGTATTTCA
* *
60240753 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCAAGCGTATTTCA
*
60240780 GTATTTTTACAAA-CTAAGCGTATTTC-
1 GTAATTTTACAAATC-AAGCGTATTTCA
60240806 GATAATTTTA
1 G-TAATTTTA
60240816 GTAAATTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.08
27 49 0.92
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCAAGCGTATTTCA
Found at i:60248379 original size:15 final size:16
Alignment explanation
Indices: 60248359--60248398 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
60248349 ATCTTAAGAA
60248359 AAAAATAAATA-AAAT
1 AAAAATAAATAGAAAT
*
60248374 AAAAATAAAAAGAAAT
1 AAAAATAAATAGAAAT
60248390 -AAAATAAAT
1 AAAAATAAAT
60248399 GGACTCAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAAATAAATAGAAAT
Found at i:60250062 original size:25 final size:24
Alignment explanation
Indices: 60250034--60250116 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 24
60250024 AATACTACTT
60250034 AATAAAAAATATAATGAATAATAA
1 AATAAAAAATATAATGAATAATAA
*
60250058 CAAT-AAAAATAATAATGAAGAATAA
1 -AATAAAAAAT-ATAATGAATAATAA
* *
60250083 TAATTAAAAATA-AATAAATAAATAA
1 -AATAAAAAATATAATGAAT-AATAA
60250108 ATATAAAAA
1 A-ATAAAAA
60250117 GGTAAAAAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 12 0.24
25 31 0.63
26 6 0.12
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (24 bp):
AATAAAAAATATAATGAATAATAA
Found at i:60250084 original size:22 final size:23
Alignment explanation
Indices: 60250034--60250085 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
60250024 AATACTACTT
*
60250034 AATAA-AAAATATAATGAATAAT
1 AATAATAAAATATAATGAATAAG
*
60250056 AACAATAAAA-ATAAT-AATGAAG
1 AATAATAAAATATAATGAAT-AAG
60250078 AATAATAA
1 AATAATAA
60250086 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 3 0.12
22 18 0.72
23 4 0.16
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (23 bp):
AATAATAAAATATAATGAATAAG
Found at i:60250094 original size:13 final size:13
Alignment explanation
Indices: 60250033--60250095 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
60250023 TAATACTACT
*
60250033 TAATAAAAAAT-A
1 TAATGAAAAATAA
*
60250045 TAATGAATAATAA
1 TAATGAAAAATAA
*
60250058 CAAT-AAAAATAA
1 TAATGAAAAATAA
*
60250070 TAATGAAGAATAA
1 TAATGAAAAATAA
*
60250083 TAATTAAAAATAA
1 TAATGAAAAATAA
60250096 ATAAATAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 19 0.46
13 22 0.54
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (13 bp):
TAATGAAAAATAA
Found at i:60255769 original size:43 final size:43
Alignment explanation
Indices: 60255705--60255819 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
60255695 AGCTCACACA
* * *** *
60255705 ATGCC-ATATCCCAGATATGGTCTTACATTTTATCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAACG
* *
60255747 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAACG
*
60255790 ATGCCAATGTCCCAGACATGTTCTTACATG
1 ATGCCAATGTCCCAGACATGGTCTTACATG
60255820 TAAACACAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 5 0.08
43 56 0.92
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAACG
Found at i:60255837 original size:43 final size:43
Alignment explanation
Indices: 60255702--60255848 Score: 120
Period size: 43 Copynumber: 3.4 Consensus size: 43
60255692 TAGAGCTCAC
* * **** *
60255702 ACAATGCC-ATATCCCAGATATGGTCTTACATTTTATCATATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA
* * * *
60255744 TCGATGCCAATGTCCCAGACGTGGTCTTACACGAAATCATATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA
* * *
60255787 ACGATGCCAATGTCCCAGACATGTTCTTACATGTAAA-CACAAT-
1 ACAATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AATA
*
60255830 ACAATGCCAATGCCCCAGA
1 ACAATGCCAATGTCCCAGA
60255849 TGTAACACCC
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 6 0.07
43 75 0.87
44 5 0.06
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA
Found at i:60257852 original size:50 final size:50
Alignment explanation
Indices: 60257798--60258123 Score: 323
Period size: 50 Copynumber: 6.5 Consensus size: 50
60257788 GGTACGCATG
*
60257798 GTAGCCTGCACTTAGTACTACATATGCGACCTATCAATCTGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
* *** * * * *
60257848 GTAGCCTGCACTTATTACTACACACATGACTTAACCATCTGATACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
* * ** * * * *
60257898 GTAGCCTGCATTTAGTACTACACATGTGATCAAAGTTAA-CGGGTACGCATA
1 GTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTGGTACACGTA
60257949 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
* * * * ** * * * *
60257999 GTAGCATGCACTTAGTGCTACACACGTGATCAAAGTTAAT-GGGTACGCATA
1 GTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTGGTACACGTA
* * **
60258050 GTAGCTTGCACTTAGTACTACACATGCAACCTATCAATCTGGTACTTGTA
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
60258100 GTAGCCTGCACTTAGTACTACACA
1 GTAGCCTGCACTTAGTACTACACA
60258124 CGTGACTCAC
Statistics
Matches: 217, Mismatches: 53, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
49 7 0.03
50 134 0.62
51 71 0.33
52 5 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTA
Found at i:60257957 original size:51 final size:51
Alignment explanation
Indices: 60257896--60258075 Score: 220
Period size: 51 Copynumber: 3.5 Consensus size: 51
60257886 CTGATACACG
*
60257896 TAGTAGCCTGCATTTAGTACTACACATGTGATCAAAGTTAACGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAACGGGTACGCA
* ** * * * *
60257947 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAA-CGGGTACGCA
* * * *
60257997 TAGTAGCATGCACTTAGTGCTACACACGTGATCAAAGTTAATGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAACGGGTACGCA
*
60258048 TAGTAGCTTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
60258076 CAACCTATCA
Statistics
Matches: 104, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
49 3 0.03
50 36 0.35
51 62 0.60
52 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAACGGGTACGCA
Found at i:60257972 original size:101 final size:101
Alignment explanation
Indices: 60257846--60258128 Score: 390
Period size: 101 Copynumber: 2.8 Consensus size: 101
60257836 CTGGTACACG
* * * * * *
60257846 TAGTAGCCTGCACTTATTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTGCATTT
1 TAGTAGCCTGCACTTAGTACTACACACATGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
*
60257911 AGTACTACACATGTGATCAAAGTTAACGGGTACGCA
66 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
*** *
60257947 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCATGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACATGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
* *
60258012 AGTGCTACACACGTGATCAAAGTTAATGGGTACGCA
66 AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
* **
60258048 TAGTAGCTTGCACTTAGTACT--ACACATGCAACCTATCAATCTGGTACTTGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACATG--ACCTATCAATCTGGTACACGTAGTAGCCTGCAC
60258111 TTAGTACTACACACGTGA
64 TTAGTACTACACACGTGA
60258129 CTCACAACAG
Statistics
Matches: 159, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
99 4 0.03
101 155 0.97
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACATGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCAAAGTTAACGGGTACGCA
Found at i:60258094 original size:151 final size:152
Alignment explanation
Indices: 60257785--60258123 Score: 407
Period size: 151 Copynumber: 2.2 Consensus size: 152
60257775 ACCGAAGCTC
* *
60257785 TCTGGTACGCATGGTAGCCTGCACTTAGTACTACATATGCGACCTATCAATCTGGTACACGTAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGT
* * * * * * *
60257850 AGCCTGCACTTATTACTACACACATGACTTAACCATCTGATACACGTAGTAGCCTGCATTTAGTA
66 AGCATGCACTTAGTACTACACACATGACTCAAACATATGATACACATAGTAGCCTGCACTTAGTA
* * *
60257915 CTACACATGTGATCAAAGTTAA
131 CTACACATGTCAACAAAGTCAA
*
60257937 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGT
* * ** * * *
60258001 AGCATGCACTTAGTGCTACACACGTGA-TCAAAGTTAATGGGTACGCATAGTAGCTTGCACTTAG
66 AGCATGCACTTAGTACTACACACATGACTCAAACAT-AT-GATACACATAGTAGCCTGCACTTAG
**
60258065 TACTACACATG-CAACCTA-TCAA
129 TACTACACATGTCAACAAAGTCAA
***
60258087 TCTGGTACTTGTAGTAGCCTGCACTTAGTACTACACA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACA
60258124 CGTGACTCAC
Statistics
Matches: 158, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
150 7 0.04
151 120 0.76
152 31 0.20
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (152 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGT
AGCATGCACTTAGTACTACACACATGACTCAAACATATGATACACATAGTAGCCTGCACTTAGTA
CTACACATGTCAACAAAGTCAA
Found at i:60261474 original size:69 final size:69
Alignment explanation
Indices: 60261391--60261524 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 69
60261381 TAAAATAAAA
* *
60261391 TTTAAGAAACATCATTTAATCCAAACCAAACTATTTTAAAACTCTGAGATCACCGATTTGTCGAG
1 TTTAAGAAAAATCATTTAATCCAAACCAAACTATTTTAAAACTCTGAGATCACCGATTTGCCGAG
60261456 AAAT
66 AAAT
* * *
60261460 TTTAAGAAAAATCATTTAATCCAAACCAAGCTCTTTTAAAACTCTGAGATCACCGGTTTGCCGAG
1 TTTAAGAAAAATCATTTAATCCAAACCAAACTATTTTAAAACTCTGAGATCACCGATTTGCCGAG
60261525 TCCAACTTCT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (69 bp):
TTTAAGAAAAATCATTTAATCCAAACCAAACTATTTTAAAACTCTGAGATCACCGATTTGCCGAG
AAAT
Found at i:60263983 original size:27 final size:26
Alignment explanation
Indices: 60263935--60264022 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 26
60263925 ATGTGACGGT
*
60263935 CACCAGATACAGATAATCGTGGCAGAGC
1 CACCAGA-ACAGA-AATTGTGGCAGAGC
60263963 CACCAGAACAGAAATATGTGGCAGAGC
1 CACCAGAACAGAAAT-TGTGGCAGAGC
* * *
60263990 CACCAGATCAGGTAATTGTGGCATAGC
1 CACCAGAACA-GAAATTGTGGCAGAGC
60264017 CACCAG
1 CACCAG
60264023 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.06
27 40 0.74
28 11 0.20
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (26 bp):
CACCAGAACAGAAATTGTGGCAGAGC
Found at i:60265472 original size:24 final size:24
Alignment explanation
Indices: 60265452--60265511 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
60265442 CCTTTATCTG
*
60265452 CTCCTAAATCCTATGACTTATCAA
1 CTCCTAAATCCTATCACTTATCAA
*
60265476 CTCCTAAATCCTATCCCTTATCAA
1 CTCCTAAATCCTATCACTTATCAA
60265500 CTCCTAAATCCT
1 CTCCTAAATCCT
60265512 CTCCTGACAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.30, C:0.35, G:0.02, T:0.33
Consensus pattern (24 bp):
CTCCTAAATCCTATCACTTATCAA
Found at i:60267114 original size:62 final size:62
Alignment explanation
Indices: 60266990--60267114 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
60266980 GGCTCCAGGA
* * * ** * * *
60266990 GATAAAATTAGAAAACATGGGGCTGAAGAATTTAGGGCTACAGTGGATGACGATCTAGAGAG
1 GATAAAATCAAAAAACATGGGGCTGAAAAATTTAGGGCTACAGCAGATGACAATCCAAAGAG
*
60267052 GATAAAATCAAAAAACATGGGGCTGAAAAATTTAGGGCTACGGCAGATGACAATCCAAAGAG
1 GATAAAATCAAAAAACATGGGGCTGAAAAATTTAGGGCTACAGCAGATGACAATCCAAAGAG
60267114 G
1 G
60267115 GCTGAGTTCT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.18
Consensus pattern (62 bp):
GATAAAATCAAAAAACATGGGGCTGAAAAATTTAGGGCTACAGCAGATGACAATCCAAAGAG
Found at i:60269568 original size:16 final size:16
Alignment explanation
Indices: 60269547--60269589 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
60269537 ACAAAAGCCG
*
60269547 AAAAGCTGAAATGCCA
1 AAAAGCCGAAATGCCA
* *
60269563 AAAAGCCAAAATGTCA
1 AAAAGCCGAAATGCCA
60269579 AAAAGCCGAAA
1 AAAAGCCGAAA
60269590 GTTTGGCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.19, G:0.16, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCA
Found at i:60269842 original size:29 final size:28
Alignment explanation
Indices: 60269813--60269946 Score: 139
Period size: 28 Copynumber: 4.7 Consensus size: 28
60269803 ATAATGTGAT
*
60269813 TTGGGCCGGATGGGCCATATAAATGAGA
1 TTGGGCCTGATGGGCCATATAAATGAGA
* * * *
60269841 TTAGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTGATGGGCCATATAAATGAG-A
60269870 TTGGGCCTGATGGGCCATATGAACATGA-A
1 TTGGGCCTGATGGGCCATAT-AA-ATGAGA
* *
60269899 TTGGG-CTATATGGGCCATATAAGTGAGA
1 TTGGGCCT-GATGGGCCATATAAATGAGA
60269927 TTGGGCCT-AGTGGGCCATAT
1 TTGGGCCTGA-TGGGCCATAT
60269947 GCATGTATGT
Statistics
Matches: 88, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
27 4 0.05
28 42 0.48
29 38 0.43
30 1 0.01
31 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATAAATGAGA
Found at i:60269930 original size:57 final size:58
Alignment explanation
Indices: 60269801--60269947 Score: 182
Period size: 57 Copynumber: 2.6 Consensus size: 58
60269791 GTGAGCATGA
* *
60269801 ATAT-AATGTGATTTGGGCCGGATGGGCCATAT-AAATGAGATTAGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCCATATGAAATGAGATTAGGCCTAATGGGCC
*
60269857 ATATGAATGTGAATTGGGCCTGATGGGCCATATGAACATGA-ATT-GGGCTATATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCCATATGAA-ATGAGATTAGGCCTA-ATGGGCC
60269915 ATAT-AA-GTGAGATTGGGCCT-AGTGGGCCATATG
1 ATATGAATGTGA-ATTGGGCCTGA-TGGGCCATATG
60269948 CATGTATGTT
Statistics
Matches: 82, Mismatches: 3, Indels: 11
0.85 0.03 0.11
Matches are distributed among these distances:
56 9 0.11
57 53 0.65
58 16 0.20
59 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (58 bp):
ATATGAATGTGAATTGGGCCTGATGGGCCATATGAAATGAGATTAGGCCTAATGGGCC
Found at i:60275970 original size:13 final size:13
Alignment explanation
Indices: 60275952--60275980 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
60275942 GGTTATTTAT
60275952 TAAACTAATTAAC
1 TAAACTAATTAAC
60275965 TAAACTAATTAAC
1 TAAACTAATTAAC
60275978 TAA
1 TAA
60275981 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:60290167 original size:78 final size:78
Alignment explanation
Indices: 60290038--60290298 Score: 522
Period size: 78 Copynumber: 3.3 Consensus size: 78
60290028 AATGGAATCT
60290038 TGTAATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTTATGTGATTAACATGTTT
1 TGTAATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTTATGTGATTAACATGTTT
60290103 GATTAAGTGTTTG
66 GATTAAGTGTTTG
60290116 TGTAATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTTATGTGATTAACATGTTT
1 TGTAATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTTATGTGATTAACATGTTT
60290181 GATTAAGTGTTTG
66 GATTAAGTGTTTG
60290194 TGTAATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTTATGTGATTAACATGTTT
1 TGTAATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTTATGTGATTAACATGTTT
60290259 GATTAAGTGTTTG
66 GATTAAGTGTTTG
60290272 TGTAATGTGATGAGCTAATTTATGTTT
1 TGTAATGTGATGAGCTAATTTATGTTT
60290299 GATTAAGTCG
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 183 1.00
ACGTcount: A:0.26, C:0.05, G:0.22, T:0.48
Consensus pattern (78 bp):
TGTAATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTTATGTGATTAACATGTTT
GATTAAGTGTTTG
Found at i:60290168 original size:44 final size:44
Alignment explanation
Indices: 60290120--60290248 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 44
60290110 TGTTTGTGTA
60290120 ATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTT
1 ATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTT
* * * * * *
60290164 ATGTGAT----TAA--CATGTTTGA-TTAAGT-GT-T-TG-TGTA
1 ATGTGATGAGCTAATTTATGTTT-ACTTGATTCTTATATGAGGTT
60290198 ATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTT
1 ATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTT
60290242 ATGTGAT
1 ATGTGAT
60290249 TAACATGTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 24
0.63 0.12 0.25
Matches are distributed among these distances:
34 9 0.15
35 2 0.03
36 1 0.02
37 1 0.02
38 13 0.21
39 2 0.03
40 13 0.21
41 1 0.02
42 1 0.02
43 2 0.03
44 16 0.26
ACGTcount: A:0.26, C:0.05, G:0.22, T:0.47
Consensus pattern (44 bp):
ATGTGATGAGCTAATTTATGTTTACTTGATTCTTATATGAGGTT
Found at i:60291946 original size:44 final size:44
Alignment explanation
Indices: 60291827--60291959 Score: 146
Period size: 44 Copynumber: 3.0 Consensus size: 44
60291817 TTAGGTGATA
*
60291827 TGTGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTAG
1 TGTGTGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTAG
* * *
60291870 AGATATACAAGCTAGTGTAA-ACCTGTCTGGGACATGGCATCAG-CTTG
1 TG-TGT----GCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTAG
*
60291917 TTGTGTGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCT
1 -TGTGTGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCT
60291960 CGATATATGA
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
43 11 0.15
44 24 0.32
45 2 0.03
47 19 0.26
48 18 0.24
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (44 bp):
TGTGTGCTAGTGTAAGACCTGTCTGGGACATGGCATCAGCCTAG
Found at i:60293656 original size:109 final size:109
Alignment explanation
Indices: 60293459--60293767 Score: 516
Period size: 109 Copynumber: 2.8 Consensus size: 109
60293449 ATCCTTTTGA
* * * * * * *
60293459 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCTTTGCCTTATG-AA-CTCACCAA
1 AACTTATCAATGCAATGTCTTGACAT-GCCTTACATGGTATCCTTGCCTTA-GAAACCTTACCAA
60293522 -TGCCATGCCTTGGCATGGTCTTACATGGGTCATTTTCCTTATAGT
64 TTGCCATGCCTTGGCATGGTCTTACATGGGTCATTTTCCTTATAGT
60293567 AACTTATCAATGCAATGTCTTGACATGCCTTACATGGTATCCTTGCCTTAGAAACCTTACCAATT
1 AACTTATCAATGCAATGTCTTGACATGCCTTACATGGTATCCTTGCCTTAGAAACCTTACCAATT
60293632 GCCATGCCTTGGCATGGTCTTACATGGGTCATTTTCCTTATAGT
66 GCCATGCCTTGGCATGGTCTTACATGGGTCATTTTCCTTATAGT
60293676 AACTTATCAATGCAATGTCTTGACATGCCTTACATGGTATCCTTGCCTTAGAAACCTTACCAATT
1 AACTTATCAATGCAATGTCTTGACATGCCTTACATGGTATCCTTGCCTTAGAAACCTTACCAATT
60293741 GCCATGCCTTGGCATGGTCTTACATGG
66 GCCATGCCTTGGCATGGTCTTACATGG
60293768 TATCCTTAAA
Statistics
Matches: 191, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
106 1 0.01
107 24 0.13
108 29 0.15
109 137 0.72
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (109 bp):
AACTTATCAATGCAATGTCTTGACATGCCTTACATGGTATCCTTGCCTTAGAAACCTTACCAATT
GCCATGCCTTGGCATGGTCTTACATGGGTCATTTTCCTTATAGT
Found at i:60293770 original size:55 final size:54
Alignment explanation
Indices: 60293428--60293774 Score: 301
Period size: 55 Copynumber: 6.5 Consensus size: 54
60293418 ATTTCCTTGA
* * *
60293428 CTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAACTTACC-ATTGCCATGT
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATTGCCATGC
* * *
60293477 CTCGACATGGTCTTACATGGTATCTTTGCCTTATG-AACTCACCAA-TGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACTTACCAATTGCCATGC
* * * * * *
60293530 CTTGGCATGGTCTTACATGGGTCAT--TTTCCTTATAGTAACTTATCAA-TGCAATGT
1 CTTGACATGGTCTTACAT-GGT-ATCCTTGCC-T-TAGAAACTTACCAATTGCCATGC
*
60293585 CTTGACAT-GCCTTACATGGTATCCTTGCCTTAGAAACCTTACCAATTGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA-CTTACCAATTGCCATGC
* * * * * *
60293639 CTTGGCATGGTCTTACATGGGTCAT--TTTCCTTATAGTAACTTATCAA-TGCAATGT
1 CTTGACATGGTCTTACAT-GGT-ATCCTTGCC-T-TAGAAACTTACCAATTGCCATGC
*
60293694 CTTGACAT-GCCTTACATGGTATCCTTGCCTTAGAAACCTTACCAATTGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA-CTTACCAATTGCCATGC
*
60293748 CTTGGCATGGTCTTACATGGTATCCTT
1 CTTGACATGGTCTTACATGGTATCCTT
60293775 AAACCCTAAT
Statistics
Matches: 237, Mismatches: 36, Indels: 44
0.75 0.11 0.14
Matches are distributed among these distances:
49 23 0.10
52 16 0.07
53 56 0.24
54 57 0.24
55 67 0.28
56 11 0.05
57 7 0.03
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACTTACCAATTGCCATGC
Found at i:60299513 original size:27 final size:25
Alignment explanation
Indices: 60299455--60299513 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
60299445 TAATCAATGA
*
60299455 GCACTAACGTGCTAATAATCAGAGG
1 GCACTAACGTGCTAAAAATCAGAGG
*
60299480 GTACTAACGTGCTAAAAATCAGAGAG
1 GCACTAACGTGCTAAAAATCAGAG-G
60299506 CGCACTAA
1 -GCACTAA
60299514 GGTTCCTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 22 0.76
26 1 0.03
27 6 0.21
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (25 bp):
GCACTAACGTGCTAAAAATCAGAGG
Done.