Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 27 of 126
Found at i:8422857 original size:14 final size:14
Alignment explanation
Indices: 8422838--8422865 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8422828 CTGATTCTAC
8422838 CAATATTCATCCAT
1 CAATATTCATCCAT
8422852 CAATATTCATCCAT
1 CAATATTCATCCAT
8422866 TCATTACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (14 bp):
CAATATTCATCCAT
Found at i:8426850 original size:31 final size:30
Alignment explanation
Indices: 8426811--8426883 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
8426801 AATATTTGAG
8426811 AAACCTTTATTTAAGCAATTTT-GAAAAAGTT
1 AAACCTTTATTTAAG--ATTTTCGAAAAAGTT
* * *
8426842 TAACCTTTATTTGAGATTTTCGAAAAGGTT
1 AAACCTTTATTTAAGATTTTCGAAAAAGTT
*
8426872 AAACCCTTATTT
1 AAACCTTTATTT
8426884 GACTATTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.14
30 18 0.50
31 13 0.36
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (30 bp):
AAACCTTTATTTAAGATTTTCGAAAAAGTT
Found at i:8429266 original size:59 final size:59
Alignment explanation
Indices: 8429224--8429598 Score: 511
Period size: 59 Copynumber: 6.4 Consensus size: 59
8429214 TTTAGATGCC
* *
8429224 CGGGGGTGAAATGGTAATTTTTGGT-AGAATCGGGGTTAAAAATGAGATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGA-AATCGGGGTTAAAAATGGGATTTTGGAAAGTT
** * *
8429283 TAGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATAGGATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
** * * **
8429342 CAAGGGTAGAATGGTAATTTTTGATGAAATTAGGGTTAAAAATGGGATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
** *
8429401 TTGGGGTAAAATGGTGATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
* * *
8429460 CGAGGGTGAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
* **
8429519 TGGGGGTAAAATGGTAATTTTTGGTGAAATCAAGGTTAAAAATGGGATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
* **
8429578 -TGGGGTGGAATGGTAATTTTT
1 CGGGGGTAAAATGGTAATTTTT
8429599 CAGAAGTTTC
Statistics
Matches: 280, Mismatches: 35, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
58 18 0.06
59 261 0.93
60 1 0.00
ACGTcount: A:0.32, C:0.02, G:0.32, T:0.34
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
Found at i:8431555 original size:17 final size:17
Alignment explanation
Indices: 8431535--8431575 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
8431525 AAATGTATTC
8431535 AAATTTAAAACAAATTT
1 AAATTTAAAACAAATTT
*
8431552 AAATTT-AAATAAATTT
1 AAATTTAAAACAAATTT
*
8431568 AAAATTAA
1 AAATTTAA
8431576 TTTCAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTTAAAACAAATTT
Found at i:8431572 original size:23 final size:24
Alignment explanation
Indices: 8431546--8431595 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
8431536 AATTTAAAAC
8431546 AAATTTAAATTT-AAA-TAAATTTA
1 AAATTT-AATTTCAAACTAAATTTA
*
8431569 AAA-TTAATTTCAAACTTAATTTA
1 AAATTTAATTTCAAACTAAATTTA
8431592 AAAT
1 AAAT
8431596 CCAAGTTGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 5 0.22
22 5 0.22
23 13 0.57
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATTTAATTTCAAACTAAATTTA
Found at i:8431577 original size:27 final size:28
Alignment explanation
Indices: 8431535--8431587 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
8431525 AAATGTATTC
*
8431535 AAATTTAAAACAAATTT-AAATTTAAAT
1 AAATTTAAAACAAATTTCAAACTTAAAT
**
8431562 AAATTTAAAATTAATTTCAAACTTAA
1 AAATTTAAAACAAATTTCAAACTTAA
8431588 TTTAAAATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (28 bp):
AAATTTAAAACAAATTTCAAACTTAAAT
Found at i:8431589 original size:12 final size:11
Alignment explanation
Indices: 8431553--8431595 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
8431543 AACAAATTTA
*
8431553 AATTT-AAATA
1 AATTTAAAATT
8431563 AATTTAAAATT
1 AATTTAAAATT
*
8431574 AATTTCAAACTT
1 AATTT-AAAATT
8431586 AATTTAAAAT
1 AATTTAAAAT
8431596 CCAAGTTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 10 0.36
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:8434382 original size:18 final size:16
Alignment explanation
Indices: 8434350--8434393 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
8434340 ATGGGATGAG
8434350 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
8434366 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
8434380 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
8434394 ACCTTAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:8434885 original size:15 final size:15
Alignment explanation
Indices: 8434865--8434910 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
8434855 ACAAAATAAT
8434865 AACATAAGTGACTAA
1 AACATAAGTGACTAA
* *
8434880 AACATAA-T-ATTTCA
1 AACATAAGTGA-CTAA
8434894 AACATAAGTGACTAA
1 AACATAAGTGACTAA
8434909 AA
1 AA
8434911 TGTAACCTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
13 1 0.04
14 10 0.42
15 12 0.50
16 1 0.04
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (15 bp):
AACATAAGTGACTAA
Found at i:8442190 original size:17 final size:17
Alignment explanation
Indices: 8442168--8442206 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8442158 AGGTGGAGAA
* *
8442168 CTTGTTCATTGAGAGTT
1 CTTGTTCATAGAGAATT
*
8442185 CTTGTTCGTAGAGAATT
1 CTTGTTCATAGAGAATT
8442202 CTTGT
1 CTTGT
8442207 CAATGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (17 bp):
CTTGTTCATAGAGAATT
Found at i:8445945 original size:23 final size:24
Alignment explanation
Indices: 8445903--8445956 Score: 83
Period size: 23 Copynumber: 2.2 Consensus size: 24
8445893 AAATCTCATT
8445903 AAATAATTTAATATAATGATAGATA
1 AAAT-ATTTAATATAATGATAGATA
*
8445928 AAATATTTAA-ATAATGATATATA
1 AAATATTTAATATAATGATAGATA
8445951 AAATAT
1 AAATAT
8445957 AAATTAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 18 0.64
24 6 0.21
25 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATTTAATATAATGATAGATA
Found at i:8448937 original size:24 final size:24
Alignment explanation
Indices: 8448910--8448959 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
8448900 TAATCCTTAA
*
8448910 ATTTTTATGTTTTCTACCAATTTG
1 ATTTTTATGCTTTCTACCAATTTG
8448934 ATTTTTATGCTTTCTACCAATTTG
1 ATTTTTATGCTTTCTACCAATTTG
8448958 AT
1 AT
8448960 CATGGTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTTTATGCTTTCTACCAATTTG
Found at i:8455346 original size:20 final size:22
Alignment explanation
Indices: 8455323--8455362 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
8455313 TTAATAAGCT
8455323 TTAATTAA-TTAA-ACTAAACC
1 TTAATTAACTTAATACTAAACC
8455343 TTAATTAACTTAATACTAAA
1 TTAATTAACTTAATACTAAA
8455363 ATTACTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAATTAACTTAATACTAAACC
Found at i:8458905 original size:3 final size:3
Alignment explanation
Indices: 8458897--8458924 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8458887 TCAAGTTTGC
8458897 GTG GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG G
8458925 AGGAGGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:8464697 original size:26 final size:27
Alignment explanation
Indices: 8464668--8464728 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
8464658 CGTTATTCTG
*
8464668 TCTGGACTCGTAAGAGCTAAACTCT-T
1 TCTGGACTCGTAAGAGCCAAACTCTAT
* *
8464694 TCTGGGCTCGTGAGAGCCAAACTCTAT
1 TCTGGACTCGTAAGAGCCAAACTCTAT
8464721 TCTGGACT
1 TCTGGACT
8464729 TGAATGAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (27 bp):
TCTGGACTCGTAAGAGCCAAACTCTAT
Found at i:8474678 original size:18 final size:18
Alignment explanation
Indices: 8474655--8474689 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8474645 TATTATTTGT
8474655 ATAATAGGGAGATAACAA
1 ATAATAGGGAGATAACAA
8474673 ATAATAGGGAGATAACA
1 ATAATAGGGAGATAACA
8474690 CATGACAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.17
Consensus pattern (18 bp):
ATAATAGGGAGATAACAA
Found at i:8475127 original size:17 final size:18
Alignment explanation
Indices: 8475094--8475133 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8475084 AAATGATACT
*
8475094 TTTTAAAATTAATTTTAA
1 TTTTAAAAATAATTTTAA
8475112 TTTTAAAAAT-ATTTTAA
1 TTTTAAAAATAATTTTAA
*
8475129 ATTTA
1 TTTTA
8475134 TGTTTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTAAAAATAATTTTAA
Found at i:8476140 original size:20 final size:20
Alignment explanation
Indices: 8476115--8476156 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
8476105 ATTCAAAAAT
8476115 AAAAATTTATAA-AATTATAA
1 AAAAATTTA-AAGAATTATAA
8476135 AAAAATTTAAAGAATTATAA
1 AAAAATTTAAAGAATTATAA
8476155 AA
1 AA
8476157 TTTTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAATTTAAAGAATTATAA
Found at i:8476165 original size:20 final size:19
Alignment explanation
Indices: 8476113--8476165 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
8476103 AAATTCAAAA
8476113 ATAAAAATTTAT-AAAATT
1 ATAAAAATTTATAAAAATT
*
8476131 ATAAAAAAATTTA-AAGAATT
1 AT--AAAAATTTATAAAAATT
*
8476151 ATAAAATTTTATAAA
1 ATAAAAATTTATAAA
8476166 TATATATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 10 0.36
19 2 0.07
20 16 0.57
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAAAATTTATAAAAATT
Found at i:8477777 original size:24 final size:24
Alignment explanation
Indices: 8477757--8477815 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
8477747 CAATTATCTT
8477757 TGTATAACAACATACTATTATAGG
1 TGTATAACAACATACTATTATAGG
8477781 TGTATAACAACATACTATTATAGG
1 TGTATAACAACATACTATTATAGG
8477805 TGTATAACAAC
1 TGTATAACAAC
8477816 CATCTCTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (24 bp):
TGTATAACAACATACTATTATAGG
Found at i:8483217 original size:21 final size:21
Alignment explanation
Indices: 8483191--8483234 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
8483181 TATTACATGT
8483191 ATGAGCATGAACGAGCAAGGC
1 ATGAGCATGAACGAGCAAGGC
*
8483212 ATGAGCATGAACGAGCGAGGC
1 ATGAGCATGAACGAGCAAGGC
8483233 AT
1 AT
8483235 AGTCTTGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.34, T:0.11
Consensus pattern (21 bp):
ATGAGCATGAACGAGCAAGGC
Found at i:8483221 original size:105 final size:105
Alignment explanation
Indices: 8483112--8483306 Score: 300
Period size: 105 Copynumber: 1.9 Consensus size: 105
8483102 CGAGCATAAA
* * **
8483112 CATGACCGAGTGAGGCATAGTCTTCACAGACAAGTGGTAGAGGTGCCAAGAACCATAAATGATAA
1 CATGAACGAGCGAGGCATAGTCTTCACAGACAAAAGGTAGAGGTGCCAAGAACCATAAATGATAA
* *
8483177 CTTTTATTACATGTATGAGCATGAACGAGCAAGGCATGAG
66 CTTGTATTACATGCATGAGCATGAACGAGCAAGGCATGAG
* * * *
8483217 CATGAACGAGCGAGGCATAGTCTTGACAGACAAAAGGTAGAGGTGCCAAGAACCTTACATGGTAA
1 CATGAACGAGCGAGGCATAGTCTTCACAGACAAAAGGTAGAGGTGCCAAGAACCATAAATGATAA
8483282 CTTGTATTACATGCATGAGCATGAA
66 CTTGTATTACATGCATGAGCATGAA
8483307 AATAGTCTTG
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 80 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (105 bp):
CATGAACGAGCGAGGCATAGTCTTCACAGACAAAAGGTAGAGGTGCCAAGAACCATAAATGATAA
CTTGTATTACATGCATGAGCATGAACGAGCAAGGCATGAG
Found at i:8483356 original size:75 final size:75
Alignment explanation
Indices: 8483233--8483377 Score: 238
Period size: 75 Copynumber: 1.9 Consensus size: 75
8483223 CGAGCGAGGC
* * *
8483233 ATAGTCTTGACAGACAAAAGGTAGAGGTGCCAAGAACCTTACATGGTAACTTGTATTACATGCAT
1 ATAGTCTTGACAGACAAAAGATAGAGATGCCAAGAACCTTACATGGTAACTCGTATTACATGCAT
8483298 GAGCATGAAA
66 GAGCATGAAA
*
8483308 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTA-AGTGGTAACTCGTATTACATGCA
1 ATAGTCTTGACAGACAAAAGATAGAGATGCCAAGAACCTTACA-TGGTAACTCGTATTACATGCA
8483372 TGAGCA
65 TGAGCA
8483378 CAAGCCAGCG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
74 1 0.02
75 64 0.98
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (75 bp):
ATAGTCTTGACAGACAAAAGATAGAGATGCCAAGAACCTTACATGGTAACTCGTATTACATGCAT
GAGCATGAAA
Found at i:8483457 original size:84 final size:84
Alignment explanation
Indices: 8483308--8483461 Score: 229
Period size: 84 Copynumber: 1.8 Consensus size: 84
8483298 GAGCATGAAA
* * *
8483308 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAGTGGTAACTCGTATTACATGCAT
1 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAGTGGTAACTAGTACTACAGGCAT
8483373 GAGCACAAGCCAGCGAGGC
66 GAGCACAAGCCAGCGAGGC
* * * *
8483392 ATAGTGTTGACAGACCAATGGTAGAGATGCCAAGAGCCTTGAA-TGGTAACTAGTACTACAGGCA
1 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTT-AAGTGGTAACTAGTACTACAGGCA
8483456 TGAGCA
65 TGAGCA
8483462 TGAGCATAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
84 60 0.97
85 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (84 bp):
ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAGTGGTAACTAGTACTACAGGCAT
GAGCACAAGCCAGCGAGGC
Found at i:8484310 original size:78 final size:78
Alignment explanation
Indices: 8484181--8484335 Score: 274
Period size: 78 Copynumber: 2.0 Consensus size: 78
8484171 ATCCATGTAA
* * *
8484181 GCAACTTGTTTAGATGTAATCAATAATCATATGAATTTAGAATTAGTTAGGCCCTAAACATCAAG
1 GCAACTTGTTTAGATGTAATCAATAATCATAAGAATTTACAATTAGTTAGGCACTAAACATCAAG
8484246 TAAAGCAAAGCAT
66 TAAAGCAAAGCAT
*
8484259 GCAACTTGTTTAGATGTAGTCAATAATCATAAGAATTTACAATTAGTTAGGCACTAAACATCAAG
1 GCAACTTGTTTAGATGTAATCAATAATCATAAGAATTTACAATTAGTTAGGCACTAAACATCAAG
8484324 TAAAGCAAAGCA
66 TAAAGCAAAGCA
8484336 ACCAAAGATA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.28
Consensus pattern (78 bp):
GCAACTTGTTTAGATGTAATCAATAATCATAAGAATTTACAATTAGTTAGGCACTAAACATCAAG
TAAAGCAAAGCAT
Found at i:8484772 original size:84 final size:81
Alignment explanation
Indices: 8484628--8484882 Score: 292
Period size: 84 Copynumber: 3.1 Consensus size: 81
8484618 AAGTTCATGC
* * *
8484628 TCATGCTCATGCCTGTAGTACAAGTTACCATTCAAGGCTCTTGGCATCTCTACCATTTGTCTGTC
1 TCATGCTCATGCATGTAATACAAGTTACCATT-AAGGTTCTTGGCATCTCTACCATTTGTCTGTC
*
8484693 AACACTATGCCTAGCTGGCT
65 AAGACTATGCCT-GCT-G-T
* * *
8484713 TC-TGCTCATGCATGTAATACGAGTTACCACTTAAGGTTCTTGGCATCTCTATCATTTGTCGGTC
1 TCATGCTCATGCATGTAATACAAGTTACCA-TTAAGGTTCTTGGCATCTCTACCATTTGTCTGTC
8484777 AAGACTA----T--T-T
65 AAGACTATGCCTGCTGT
* * *
8484787 TCATGCTCATGAATGTAATACAAGTTACCATGTAAGGTTCTTGGCACCTCTACCTTTTGTCTGTC
1 TCATGCTCATGCATGTAATACAAGTTACCAT-TAAGGTTCTTGGCATCTCTACCATTTGTCTGTC
8484852 AAGACTATGCCTCGCTCGT
65 AAGACTATGCCT-GCT-GT
8484871 TCATGCTCATGC
1 TCATGCTCATGC
8484883 CTTGCTCGTT
Statistics
Matches: 144, Mismatches: 14, Indels: 25
0.79 0.08 0.14
Matches are distributed among these distances:
74 4 0.03
75 61 0.42
77 1 0.01
79 1 0.01
80 1 0.01
82 1 0.01
84 71 0.49
85 4 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (81 bp):
TCATGCTCATGCATGTAATACAAGTTACCATTAAGGTTCTTGGCATCTCTACCATTTGTCTGTCA
AGACTATGCCTGCTGT
Found at i:8484838 original size:75 final size:75
Alignment explanation
Indices: 8484715--8484859 Score: 220
Period size: 75 Copynumber: 1.9 Consensus size: 75
8484705 AGCTGGCTTC
* * * *
8484715 TGCTCATGCATGTAATACGAGTTACCACTTAAGGTTCTTGGCATCTCTATCATTTGTCGGTCAAG
1 TGCTCATGAATGTAATACAAGTTACCACTTAAGGTTCTTGGCACCTCTACCATTTGTCGGTCAAG
8484780 ACTATTTTCA
66 ACTATTTTCA
* *
8484790 TGCTCATGAATGTAATACAAGTTACCA-TGTAAGGTTCTTGGCACCTCTACCTTTTGTCTGTCAA
1 TGCTCATGAATGTAATACAAGTTACCACT-TAAGGTTCTTGGCACCTCTACCATTTGTCGGTCAA
8484854 GACTAT
65 GACTAT
8484860 GCCTCGCTCG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 1 0.02
75 62 0.98
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (75 bp):
TGCTCATGAATGTAATACAAGTTACCACTTAAGGTTCTTGGCACCTCTACCATTTGTCGGTCAAG
ACTATTTTCA
Found at i:8484884 original size:21 final size:21
Alignment explanation
Indices: 8484858--8484901 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
8484848 TGTCAAGACT
8484858 ATGCCTCGCTCGTTCATGCTC
1 ATGCCTCGCTCGTTCATGCTC
*
8484879 ATGCCTTGCTCGTTCATGCTC
1 ATGCCTCGCTCGTTCATGCTC
8484900 AT
1 AT
8484902 ACATGTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.34, G:0.18, T:0.36
Consensus pattern (21 bp):
ATGCCTCGCTCGTTCATGCTC
Found at i:8484968 original size:105 final size:105
Alignment explanation
Indices: 8484786--8485072 Score: 334
Period size: 105 Copynumber: 2.8 Consensus size: 105
8484776 CAAGACTATT
* **
8484786 TTCATGCTCATGA-ATGTAATACAAGTTACCATGTAAGGTTCTTGGCACCTCTACCTTTTGTCTG
1 TTCATGCTCAT-ACATGTAATACAAGTTA-CATTTAAGGTTCTTGGCACCTCTACCAATTGTCTG
* *
8484850 TCAAGACTATGCCTCGCTCGTTCATGCTCATGC-CTTGCTCG
64 TCAAGACTATGCCTCACTCGTTCATGCTCATGCTCGTGCTCG
* * *
8484891 TTCATGCTCATACATGTAATACAAGTTATCATTTATGGTTCTTGGCAACTCTACCACTTGTCTGT
1 TTCATGCTCATACATGTAATACAAGTTA-CATTTAAGGTTCTTGGCACCTCTACCAATTGTCTGT
* * *
8484956 GAAGACTATGCCTCACTTGTTCATGCTTATGCTCGTGCTCG
65 CAAGACTATGCCTCACTCGTTCATGCTCATGCTCGTGCTCG
* ** * *
8484997 ----TGCTCATGCATGTAAGGCAAGTTACAATTCAAGGTTCTCGGCACCTCTACCAATTGTCTGT
1 TTCATGCTCATACATGTAATACAAGTTAC-ATTTAAGGTTCTTGGCACCTCTACCAATTGTCTGT
* *
8485058 CAAGACCAGGCCTCA
65 CAAGACTATGCCTCA
8485073 AGCTTCCTAG
Statistics
Matches: 157, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
101 1 0.01
102 63 0.40
104 1 0.01
105 85 0.54
106 7 0.04
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (105 bp):
TTCATGCTCATACATGTAATACAAGTTACATTTAAGGTTCTTGGCACCTCTACCAATTGTCTGTC
AAGACTATGCCTCACTCGTTCATGCTCATGCTCGTGCTCG
Found at i:8522016 original size:58 final size:58
Alignment explanation
Indices: 8521943--8522226 Score: 290
Period size: 58 Copynumber: 4.9 Consensus size: 58
8521933 ATTTTTGACC
* *
8521943 TTCGGGGGTAAAAAT-GTAATTTTTCGTGAAATTGGGGTCAAAAATGGAATTTTAGAAAA
1 TTCGGGGGT-AAAATGGTAA-TTTTGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAAA
* * * * ** * *
8522002 TTTGGTGGTAAAATGGTAATTTTCGGTGAAATCGAGCCTAAAAATAGG--TTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTT-GGTGAAATTGGGGTTAAAAAT-GGAATTTTAGAAAA
* ** * * * *
8522060 TTTGGGGGTAAAA-AATAATTTTTGGTTAAATCGGGGTTAAAGATGGAATTTTAGAAAG
1 TTCGGGGGTAAAATGGTAA-TTTTGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAAA
* * *
8522118 TTCGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGGAAA
1 TTCGGGGGTAAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAAA
* *
8522176 TTC-GGGGTAAAATGGTAATTTTGGTGAAATTAGGGTTAAAAATGAAATTTT
1 TTCGGGGGTAAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGGAATTTT
8522227 GGAATGGGTA
Statistics
Matches: 188, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
56 2 0.01
57 64 0.34
58 91 0.48
59 29 0.15
60 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (58 bp):
TTCGGGGGTAAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGGAATTTTAGAAAA
Found at i:8522111 original size:29 final size:28
Alignment explanation
Indices: 8522079--8522228 Score: 146
Period size: 29 Copynumber: 5.2 Consensus size: 28
8522069 AAAAAATAAT
*
8522079 TTTTGGTTAAATCGGGGTTAAAGATGGAA
1 TTTTGGTGAAATCGGGGTTAAA-ATGGAA
* *
8522108 TTTT--AGAAAGTTCGGGGGTAAAATGGTAA
1 TTTTGGTGAAA--TCGGGGTTAAAATGG-AA
8522137 TTTTGGTGAAATCGGGGTTAAAAATGGAA
1 TTTTGGTGAAATCGGGGTT-AAAATGGAA
8522166 TTTTGG-GAAATTCGGGG-TAAAATGGTAA
1 TTTTGGTGAAA-TCGGGGTTAAAATGG-AA
** *
8522194 TTTTGGTGAAATTAGGGTTAAAAATGAAA
1 TTTTGGTGAAATCGGGGTT-AAAATGGAA
8522223 TTTTGG
1 TTTTGG
8522229 AATGGGTAAA
Statistics
Matches: 102, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
27 10 0.10
28 21 0.21
29 54 0.53
30 13 0.13
31 4 0.04
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.34
Consensus pattern (28 bp):
TTTTGGTGAAATCGGGGTTAAAATGGAA
Found at i:8524052 original size:11 final size:11
Alignment explanation
Indices: 8524022--8524098 Score: 79
Period size: 11 Copynumber: 7.0 Consensus size: 11
8524012 TAATACTATT
8524022 TTAAATTT-AA
1 TTAAATTTAAA
8524032 TTAAATTTTAAA
1 TTAAA-TTTAAA
8524044 TTAAATTTAAA
1 TTAAATTTAAA
*
8524055 CTTAAA-GTAAA
1 -TTAAATTTAAA
8524066 TTTAAATTTAAA
1 -TTAAATTTAAA
8524078 -TAAATTTAAA
1 TTAAATTTAAA
* *
8524088 ATCAATTTAAA
1 TTAAATTTAAA
8524099 CCTCAATTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
10 15 0.26
11 27 0.47
12 16 0.28
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:8524087 original size:6 final size:6
Alignment explanation
Indices: 8524021--8524087 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
8524011 TTAATACTAT
* *
8524021 TTTAAA TTT-AA -TTAAA TTTTAAA -TTAAA TTTAAA CTTAAA -GTAAA
1 TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
8524066 TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
8524088 ATCAATTTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
4 6 0.12
5 13 0.25
6 27 0.53
7 5 0.10
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:8524089 original size:17 final size:17
Alignment explanation
Indices: 8524032--8524087 Score: 78
Period size: 17 Copynumber: 3.3 Consensus size: 17
8524022 TTAAATTTAA
*
8524032 TTAAATTTTAAATTAAAT
1 TTAAA-TTTAAAGTAAAT
*
8524050 TTAAACTTAAAGTAAAT
1 TTAAATTTAAAGTAAAT
8524067 TTAAATTTAAA-TAAAT
1 TTAAATTTAAAGTAAAT
8524083 TTAAA
1 TTAAA
8524088 ATCAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
16 10 0.29
17 20 0.57
18 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAATTTAAAGTAAAT
Found at i:8524705 original size:118 final size:119
Alignment explanation
Indices: 8524571--8524796 Score: 319
Period size: 118 Copynumber: 1.9 Consensus size: 119
8524561 AGCATATTAG
* * * * **
8524571 TTCTTTGGTTAGATGGTTAGGTAGTTACAATTACATCCTTGAGTCTCGAGTTTAATTTCTCTTTT
1 TTCTTTCGTTAGATGGTTAGATAATTACAATTACATCCTTGAGTCTCGAGTTTAATTCCTCTACT
*
8524636 ACTCATATTTGTA-TTTTTTATTTCATGTTGCTTCAAGCTTTTAAAATTTTTAA
66 ACTCATATTTGTATTTTTTTATTTCAGGTTGCTTCAAGCTTTTAAAATTTTTAA
* * * * * *
8524689 TTCTTTCGTTAGATGGTTAGATAATTATAATTACATTCTTGAGTTTTGTGTTTCATTCCTCTACT
1 TTCTTTCGTTAGATGGTTAGATAATTACAATTACATCCTTGAGTCTCGAGTTTAATTCCTCTACT
*
8524754 GCTCATATTTGTATTTTTTTATTTCAGGTTGCTTCAAGCTTTT
66 ACTCATATTTGTATTTTTTTATTTCAGGTTGCTTCAAGCTTTT
8524797 TTTTAATTAA
Statistics
Matches: 93, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
118 65 0.70
119 28 0.30
ACGTcount: A:0.21, C:0.13, G:0.14, T:0.52
Consensus pattern (119 bp):
TTCTTTCGTTAGATGGTTAGATAATTACAATTACATCCTTGAGTCTCGAGTTTAATTCCTCTACT
ACTCATATTTGTATTTTTTTATTTCAGGTTGCTTCAAGCTTTTAAAATTTTTAA
Found at i:8525003 original size:22 final size:20
Alignment explanation
Indices: 8524968--8525007 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
8524958 ATGATATTTT
8524968 TTAATTATTTTTATTTTTAA
1 TTAATTATTTTTATTTTTAA
8524988 TTAATGTATTTTTTATTTTT
1 TTAAT-TA-TTTTTATTTTT
8525008 TATTCTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTAATTATTTTTATTTTTAA
Found at i:8535542 original size:24 final size:24
Alignment explanation
Indices: 8535510--8535556 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
8535500 TTTGCTGGAA
*
8535510 ATCTTAGTAATTGATCCCCTTGTC
1 ATCTAAGTAATTGATCCCCTTGTC
*
8535534 ATCTAAGTAATTGATCTCCTTGT
1 ATCTAAGTAATTGATCCCCTTGT
8535557 AACTAGTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (24 bp):
ATCTAAGTAATTGATCCCCTTGTC
Found at i:8538364 original size:18 final size:17
Alignment explanation
Indices: 8538341--8538379 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
8538331 GTTAAAGTGC
8538341 AGAAACACAAAAGATAAA
1 AGAAACACAAAA-ATAAA
* *
8538359 AGAAACCCATAAATAAA
1 AGAAACACAAAAATAAA
8538376 AGAA
1 AGAA
8538380 CATAGAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.69, C:0.13, G:0.10, T:0.08
Consensus pattern (17 bp):
AGAAACACAAAAATAAA
Found at i:8539799 original size:20 final size:20
Alignment explanation
Indices: 8539771--8539883 Score: 73
Period size: 20 Copynumber: 5.9 Consensus size: 20
8539761 TCACGTTAGC
*
8539771 AAATAATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
8539791 AAATTATTTTTTAAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
*
8539811 AAATTA--TTAAATTTATTTTA
1 AAATTATTTTAAAATTA--TTA
* * * *
8539831 AAATTAATTT-AATTTTTTT
1 AAATTATTTTAAAATTATTA
8539850 AAA-TA---TAAAATTATTA
1 AAATTATTTTAAAATTATTA
8539866 AAATTATTTTAAAATTAT
1 AAATTATTTTAAAATTAT
8539884 AATAATCATC
Statistics
Matches: 73, Mismatches: 7, Indels: 26
0.69 0.07 0.25
Matches are distributed among these distances:
15 1 0.01
16 14 0.19
17 4 0.05
18 2 0.03
19 5 0.07
20 30 0.41
21 7 0.10
22 10 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:8539844 original size:29 final size:29
Alignment explanation
Indices: 8539780--8539834 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
8539770 CAAATAATTT
*
8539780 TAAAATTATTAAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATTATATTTTAAAATA
8539809 TAAAATTATT-AAATT-TATTTTAAAAT
1 TAAAATTATTAAAATTATATTTTAAAAT
8539835 TAATTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
28 5 0.20
29 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TAAAATTATTAAAATTATATTTTAAAATA
Found at i:8540711 original size:29 final size:29
Alignment explanation
Indices: 8540678--8540747 Score: 115
Period size: 28 Copynumber: 2.4 Consensus size: 29
8540668 AAAATTATTT
* *
8540678 AATAATTTTAATAATTTTATATTTTAAAA
1 AATAATTTTAAAAATGTTATATTTTAAAA
8540707 AATAA-TTTAAAAATGTTATATTTTAAAA
1 AATAATTTTAAAAATGTTATATTTTAAAA
8540735 AATAATTTTAAAA
1 AATAATTTTAAAA
8540748 CCATTTGCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 26 0.68
29 12 0.32
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
AATAATTTTAAAAATGTTATATTTTAAAA
Found at i:8540733 original size:16 final size:15
Alignment explanation
Indices: 8540682--8540747 Score: 52
Period size: 16 Copynumber: 4.6 Consensus size: 15
8540672 TTATTTAATA
*
8540682 ATTTTAATAATTTTAT
1 ATTTTAA-AAATTTAT
8540698 ATTTTAAAAA---AT
1 ATTTTAAAAATTTAT
*
8540710 AATTTAAAAATGTTAT
1 ATTTTAAAAAT-TTAT
*
8540726 ATTTTAAAAA-ATA-
1 ATTTTAAAAATTTAT
8540739 ATTTTAAAA
1 ATTTTAAAA
8540748 CCATTTGCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
12 11 0.26
13 9 0.21
14 2 0.05
15 2 0.05
16 18 0.43
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
ATTTTAAAAATTTAT
Found at i:8543633 original size:43 final size:43
Alignment explanation
Indices: 8543544--8543636 Score: 123
Period size: 43 Copynumber: 2.2 Consensus size: 43
8543534 TTATTATGAA
* * * * *
8543544 ATATTATCTTTTAGCAATTTGATTCTTAAAGGGGTATTATAAG
1 ATATTATCTATTAACAATTTGATTCTTAAAGAGATATGATAAG
* *
8543587 ATATTATCTATTAACAATTTGATTCTTAATGAGATATGATAGG
1 ATATTATCTATTAACAATTTGATTCTTAAAGAGATATGATAAG
8543630 ATATTAT
1 ATATTAT
8543637 TATGAGATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.44
Consensus pattern (43 bp):
ATATTATCTATTAACAATTTGATTCTTAAAGAGATATGATAAG
Found at i:8545591 original size:20 final size:20
Alignment explanation
Indices: 8545563--8545605 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8545553 TTAGCAAGCA
*
8545563 AATAAAGATGTGTAATCTTC
1 AATAAAGATATGTAATCTTC
* *
8545583 AATATAGATATGTAATTTTC
1 AATAAAGATATGTAATCTTC
8545603 AAT
1 AAT
8545606 CTGTTTTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (20 bp):
AATAAAGATATGTAATCTTC
Found at i:8546883 original size:13 final size:13
Alignment explanation
Indices: 8546833--8546875 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
8546823 TATAGGAGAT
*
8546833 TGTCATGTCAAAC
1 TGTCATGCCAAAC
8546846 TGTCATGCCAAAC
1 TGTCATGCCAAAC
*
8546859 TATCCA-GCCAAAC
1 TGT-CATGCCAAAC
8546872 TGTC
1 TGTC
8546876 CTGTCAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 1 0.04
13 23 0.88
14 2 0.08
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (13 bp):
TGTCATGCCAAAC
Found at i:8547421 original size:13 final size:13
Alignment explanation
Indices: 8547369--8547421 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
8547359 TGCGTAGGAG
* *
8547369 ACTGTCATGTCAA
1 ACTGTCCTGCCAA
8547382 ACTGTCCTGCCAA
1 ACTGTCCTGCCAA
* *
8547395 ACTATCCAGCCAA
1 ACTGTCCTGCCAA
*
8547408 ACTGTCCTGTCAA
1 ACTGTCCTGCCAA
8547421 A
1 A
8547422 ATTACTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (13 bp):
ACTGTCCTGCCAA
Found at i:8547539 original size:188 final size:189
Alignment explanation
Indices: 8547200--8547545 Score: 534
Period size: 189 Copynumber: 1.8 Consensus size: 189
8547190 TGGACCATCA
* *
8547200 TGCCAAACTACTCAGCTAAACTGCCCTGCCAAAATTACTTCTTAAAAGAAATTGCGCCATGAGAT
1 TGCCAAACTACTCAGCCAAACTGCCCTGCCAAAATTACTTCTTAAAAGAAATTGCACCATGAGAT
* * * * *
8547265 GGAAACCCTTATTTTCTCTCTCATTACGTATATTTTTTATTCCCTTTCTCTTTGCATTGTTTTGC
66 GAAAACCCCTATTTTCTCCCCCATTACGTATATTCTTTATTCCCTTTCTCTTTGCATTGTTTTGC
*
8547330 ATTGCATGAGATAGGGTTTATATAGACTTTGCGTAGGAGACTGTCATGTCAAACTGTCC
131 ATTGCATGAGATAGAGTTTATATAGACTTTGCGTAGGAGACTGTCATGTCAAACTGTCC
* * * * * *
8547389 TGCCAAACTA-TCCAGCCAAACTGTCCTGTCAAAATTACTTTTTAAAAGGACTTGTACCATGAGA
1 TGCCAAACTACT-CAGCCAAACTGCCCTGCCAAAATTACTTCTTAAAAGAAATTGCACCATGAGA
*
8547453 TGAAAACCCCTATTTTCTCCCCCATTATGTATA-TCTTTATTCCCTTTCTCTTTGCATTGTTTTG
65 TGAAAACCCCTATTTTCTCCCCCATTACGTATATTCTTTATTCCCTTTCTCTTTGCATTGTTTTG
8547517 CATTGCATGAGATAGAGTTTATATAGACT
130 CATTGCATGAGATAGAGTTTATATAGACT
8547546 CTATAGGAGA
Statistics
Matches: 141, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
188 59 0.42
189 82 0.58
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (189 bp):
TGCCAAACTACTCAGCCAAACTGCCCTGCCAAAATTACTTCTTAAAAGAAATTGCACCATGAGAT
GAAAACCCCTATTTTCTCCCCCATTACGTATATTCTTTATTCCCTTTCTCTTTGCATTGTTTTGC
ATTGCATGAGATAGAGTTTATATAGACTTTGCGTAGGAGACTGTCATGTCAAACTGTCC
Found at i:8548143 original size:29 final size:28
Alignment explanation
Indices: 8548098--8548152 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
8548088 AAGTTTTCGT
*
8548098 TTTGGTCACTTAA-TTTTAAAAGTTATAA
1 TTTGGTCACTAAATTTTTAAAA-TTATAA
*
8548126 TTTGGTCTCTAAACTTTTTAAAATTAT
1 TTTGGTCACTAAA-TTTTTAAAATTAT
8548153 TTTTTTGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.48
29 4 0.17
30 8 0.35
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (28 bp):
TTTGGTCACTAAATTTTTAAAATTATAA
Found at i:8548914 original size:12 final size:11
Alignment explanation
Indices: 8548885--8548920 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
8548875 TAAAAGTATT
8548885 TTAATTTTAAA
1 TTAATTTTAAA
*
8548896 TTTATTTTAAA
1 TTAATTTTAAA
8548907 TTCAATTTTAAA
1 TT-AATTTTAAA
8548919 TT
1 TT
8548921 TAATATTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTAATTTTAAA
Found at i:8550792 original size:30 final size:30
Alignment explanation
Indices: 8550752--8550942 Score: 197
Period size: 30 Copynumber: 6.4 Consensus size: 30
8550742 ACAGTCCAGG
*
8550752 AATTACATTTTAACCCCAAAACTTTTCAAA
1 AATTACATTTTAACCCCAAAACTTTTCTAA
* *
8550782 AATTATATTTTAACCTCAAAACTTTT-TCAA
1 AATTACATTTTAACCCCAAAACTTTTCT-AA
** * * *
8550812 AATTATGTTTTGACCCTAAAACTCTTCTAA
1 AATTACATTTTAACCCCAAAACTTTTCTAA
* *
8550842 TATTACATTTTAACCTCAAAACTTTTCTAA
1 AATTACATTTTAACCCCAAAACTTTTCTAA
* * * *
8550872 TATTACATTTTGACCCTAAAAC-TTCCTAAA
1 AATTACATTTTAACCCCAAAACTTTTCT-AA
* * *
8550902 AATTATATTTTAACCCCAATACTTTTTTAA
1 AATTACATTTTAACCCCAAAACTTTTCTAA
8550932 AATTACATTTT
1 AATTACATTTT
8550943 GATCCCCCGA
Statistics
Matches: 130, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
29 4 0.03
30 122 0.94
31 4 0.03
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (30 bp):
AATTACATTTTAACCCCAAAACTTTTCTAA
Found at i:8550906 original size:90 final size:90
Alignment explanation
Indices: 8550752--8550942 Score: 231
Period size: 90 Copynumber: 2.1 Consensus size: 90
8550742 ACAGTCCAGG
* ** *
8550752 AATTACATTTTAACCCCAAAACTTTTCAAAAATTATATTTTAACCTCAAAACTTTTTCAAAATTA
1 AATTACATTTTAACCCCAAAACTTTTCAAAAATTACATTTTAACCTCAAAACTTCCTAAAAATTA
* * *
8550817 TGTTTTGACCCTAAAACTCTTCTAA
66 TATTTTAACCCCAAAACTCTTCTAA
* * * * *
8550842 TATTACATTTTAACCTCAAAACTTTTCTAATATTACATTTTGACC-CTAAAACTTCCTAAAAATT
1 AATTACATTTTAACCCCAAAACTTTTCAAAAATTACATTTTAACCTC-AAAACTTCCTAAAAATT
* * *
8550906 ATATTTTAACCCCAATACTTTTTTAA
65 ATATTTTAACCCCAAAACTCTTCTAA
8550932 AATTACATTTT
1 AATTACATTTT
8550943 GATCCCCCGA
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
89 1 0.01
90 83 0.99
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (90 bp):
AATTACATTTTAACCCCAAAACTTTTCAAAAATTACATTTTAACCTCAAAACTTCCTAAAAATTA
TATTTTAACCCCAAAACTCTTCTAA
Found at i:8550961 original size:60 final size:59
Alignment explanation
Indices: 8550752--8550964 Score: 239
Period size: 60 Copynumber: 3.5 Consensus size: 59
8550742 ACAGTCCAGG
* * *
8550752 AATTACATTTTAACCCCAAAACTTTTCAAAAATTATATTTTAACCTCAAAACTTTTTCAA
1 AATTACATTTTGACCCCAAAACTTCT-AAAAATTATATTTTAACCTCAAAACTTTTTTAA
** * * * *
8550812 AATTATGTTTTGACCCTAAAACTCTTCT-AATATTACATTTTAACCTCAAAACTTTTCTAA
1 AATTACATTTTGACCCCAAAA--CTTCTAAAAATTATATTTTAACCTCAAAACTTTTTTAA
* * * *
8550872 TATTACATTTTGACCCTAAAACTTCCTAAAAATTATATTTTAACCCCAATACTTTTTTAA
1 AATTACATTTTGACCCCAAAACTT-CTAAAAATTATATTTTAACCTCAAAACTTTTTTAA
**
8550932 AATTACATTTTGATCCCCCGAACTTCTAAAAAT
1 AATTACATTTTGA-CCCCAAAACTTCTAAAAAT
8550965 CCCATTTTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
58 3 0.02
59 2 0.02
60 110 0.87
61 8 0.06
62 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.39
Consensus pattern (59 bp):
AATTACATTTTGACCCCAAAACTTCTAAAAATTATATTTTAACCTCAAAACTTTTTTAA
Found at i:8553621 original size:50 final size:50
Alignment explanation
Indices: 8553488--8553673 Score: 148
Period size: 50 Copynumber: 3.7 Consensus size: 50
8553478 AAGTCACAAT
* * *
8553488 GGCAGACCGTGTACCTCAGAAG-CATGACGGGAAAGATCTAAGACCGCAAT
1 GGCAGATCGTGTACCTCAAAAGACA-GACGGGAAAGATCTAAGACCGCAAC
** * * *
8553538 GGTGGATC-TAGTACCGT-AAAA-ACAGAAAAGGGAAAGGTCTAAG-TCGCAAC
1 GGCAGATCGT-GTACC-TCAAAAGACAG--ACGGGAAAGATCTAAGACCGCAAC
*
8553588 GGCAAATCGTGTACCTCAAAAGACACGACGGGAAAGATCTAAGACCGCAAC
1 GGCAGATCGTGTACCTCAAAAGACA-GACGGGAAAGATCTAAGACCGCAAC
** * * *
8553639 GGCAGATCCAGTACCGCAAAAAGACAAAAGGGAAA
1 GGCAGATCGTGTACCTC-AAAAGACAGACGGGAAA
8553674 AGTATTTATC
Statistics
Matches: 105, Mismatches: 20, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
49 3 0.03
50 48 0.46
51 45 0.43
52 9 0.09
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (50 bp):
GGCAGATCGTGTACCTCAAAAGACAGACGGGAAAGATCTAAGACCGCAAC
Found at i:8553653 original size:51 final size:50
Alignment explanation
Indices: 8553498--8553673 Score: 144
Period size: 51 Copynumber: 3.5 Consensus size: 50
8553488 GGCAGACCGT
* * ** *
8553498 GTACCTCAGAAG-CATGACGGGAAAGATCTAAGACCGCAATGGTGGATCTA
1 GTACCTCAAAAGACA-GACGGGAAAGATCTAAGACCGCAACGGCAGATCCA
* * * * **
8553548 GTACCGT-AAAA-ACAGAAAAGGGAAAGGTCTAAG-TCGCAACGGCAAATCGT
1 GTACC-TCAAAAGACAG--ACGGGAAAGATCTAAGACCGCAACGGCAGATCCA
8553598 GTACCTCAAAAGACACGACGGGAAAGATCTAAGACCGCAACGGCAGATCCA
1 GTACCTCAAAAGACA-GACGGGAAAGATCTAAGACCGCAACGGCAGATCCA
* * *
8553649 GTACCGCAAAAAGACAAAAGGGAAA
1 GTACCTC-AAAAGACAGACGGGAAA
8553674 AGTATTTATC
Statistics
Matches: 98, Mismatches: 19, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
49 2 0.02
50 43 0.44
51 44 0.45
52 9 0.09
ACGTcount: A:0.41, C:0.21, G:0.26, T:0.12
Consensus pattern (50 bp):
GTACCTCAAAAGACAGACGGGAAAGATCTAAGACCGCAACGGCAGATCCA
Found at i:8553660 original size:101 final size:100
Alignment explanation
Indices: 8553456--8553673 Score: 294
Period size: 101 Copynumber: 2.2 Consensus size: 100
8553446 TTAGCACCAC
* * * *
8553456 AAAACACAACAA-GGAAAGGTCTAAGTCACAATGGCAGACCGTGTACCTCAGAAGCATGACGGGA
1 AAAACACAA-AAGGGAAAGGTCTAAGTCACAACGGCAAACCGTGTACCTCAAAAGCACGACGGGA
* ** * *
8553520 AAGATCTAAGACCGCAATGGTGGATCTAGTACCGTA
65 AAGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
* * *
8553556 AAAACAGAAAAGGGAAAGGTCTAAGTCGCAACGGCAAATCGTGTACCTCAAAAGACACGACGGGA
1 AAAACACAAAAGGGAAAGGTCTAAGTCACAACGGCAAACCGTGTACCTCAAAAG-CACGACGGGA
8553621 AAGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
65 AAGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
*
8553657 AAAAGACAAAAGGGAAA
1 AAAACACAAAAGGGAAA
8553674 AGTATTTATC
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
99 2 0.02
100 45 0.44
101 55 0.54
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (100 bp):
AAAACACAAAAGGGAAAGGTCTAAGTCACAACGGCAAACCGTGTACCTCAAAAGCACGACGGGAA
AGATCTAAGACCGCAACGGCAGATCCAGTACCGCA
Found at i:8553962 original size:93 final size:93
Alignment explanation
Indices: 8553678--8554227 Score: 890
Period size: 93 Copynumber: 5.9 Consensus size: 93
8553668 GGGAAAAGTA
*
8553678 TTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTTAAATGTC-AATTTTTATCCTCTTG
1 TTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCTTG
8553742 AAGTTATAGTAAAGTTGGATAATGAATC
66 AAGTTATAGTAAAGTTGGATAATGAATC
* *
8553770 TTTATCTCTTTGAAGTTATAGTAAGAGCAAGATAAAGCTTTAAATGTC-AATTTTTATCCTCTTG
1 TTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCTTG
8553834 AAGTTATAGTAAAGTTGGATAATGAATC
66 AAGTTATAGTAAAGTTGGATAATGAATC
*
8553862 TTTATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCTTG
1 TTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCTTG
8553927 AAGTTATAGTAAAGTTGGATAATGAATC
66 AAGTTATAGTAAAGTTGGATAATGAATC
* * **
8553955 TTCATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAAATTTTTATCCTCTTG
1 TTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCTTG
8554020 AAGTTATAGTAAAGTTGGATAATGAATC
66 AAGTTATAGTAAAGTTGGATAATGAATC
* * **
8554048 TTCATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAAATTTTTATCCTCTTG
1 TTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCTTG
* *
8554113 AAGTTATAGTAAAGTTGGATAATAAATT
66 AAGTTATAGTAAAGTTGGATAATGAATC
* * * *
8554141 TTTATCTCTCTAAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAGATTTTTGTCCTCTTG
1 TTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCTTG
* *
8554206 AAATTGA-AGTAAAGCTGGATAA
66 AAGTT-ATAGTAAAGTTGGATAA
8554228 CAAGCCTTCG
Statistics
Matches: 435, Mismatches: 21, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
92 136 0.31
93 298 0.69
94 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (93 bp):
TTTATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCTTG
AAGTTATAGTAAAGTTGGATAATGAATC
Found at i:8554242 original size:93 final size:90
Alignment explanation
Indices: 8553697--8554859 Score: 823
Period size: 92 Copynumber: 12.6 Consensus size: 90
8553687 CTGAAGTTAT
* * * * *
8553697 AGTAAGAGCAAGATAAAGCTTTAAATGTCAATTTTTATCCTCTTGAAGTT-ATAGTAAAGTTGGA
1 AGTAAGAGCAAGATGAAGCATCAAATGTC-ATTTTTATCCTCTTGAAATTGA-AGTAAAGCTGGA
* * * * *
8553761 TAATGAA-TCTTTATCTCTTTGAAGTT-A
64 TAA-CAAGCCTTCATCTCTCT-AAATTGA
* * * * *
8553788 TAGTAAGAGCAAGATAAAGCTTTAAATGTCAATTTTTATCCTCTTGAAGTT-ATAGTAAAGTTGG
1 -AGTAAGAGCAAGATGAAGCATCAAATGTC-ATTTTTATCCTCTTGAAATTGA-AGTAAAGCTGG
* * * *
8553852 ATAATGAA-TCTTTATCTCTCTGAAGTT-A
63 ATAA-CAAGCCTTCATCTCTCT-AAATTGA
* * * * *
8553880 TAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCTTGAAGTT-ATAGTAAAGTTG
1 -AGTAAGAGCAAGATGAAGCATCAAATGTC--ATTTTTATCCTCTTGAAATTGA-AGTAAAGCTG
* * *
8553944 GATAATGAA-TCTTCATCTCTCTGAAGTT-A
62 GATAA-CAAGCCTTCATCTCTCT-AAATTGA
*** * *
8553973 TAGTAAGAGCAAGATGAATTTTCAAATGTCAAATTTTTATCCTCTTGAAGTT-ATAGTAAAGTTG
1 -AGTAAGAGCAAGATGAAGCATCAAATGTC--ATTTTTATCCTCTTGAAATTGA-AGTAAAGCTG
* * *
8554037 GATAATGAA-TCTTCATCTCTCTGAAGTT-A
62 GATAA-CAAGCCTTCATCTCTCT-AAATTGA
*** * *
8554066 TAGTAAGAGCAAGATGAATTTTCAAATGTCAAATTTTTATCCTCTTGAAGTT-ATAGTAAAGTTG
1 -AGTAAGAGCAAGATGAAGCATCAAATGTC--ATTTTTATCCTCTTGAAATTGA-AGTAAAGCTG
* *** *
8554130 GATAATAAATTTTTATCTCTCTAAAGTT-A
62 GATAACAAGCCTTCATCTCTCTAAA-TTGA
* * * *
8554159 TAGTAAGAGTAAGATAAAGCTTCAAATGTCAGATTTTTGTCCTCTTGAAATTGAAGTAAAGCTGG
1 -AGTAAGAGCAAGATGAAGCATCAAATGTC--ATTTTTATCCTCTTGAAATTGAAGTAAAGCTGG
*
8554224 ATAACAAGCCTTCGTCTCTCTACAATTGA
63 ATAACAAGCCTTCATCTCTCTA-AATTGA
* * *
8554253 AGTAAGAGTAAGATGAAGCACCAACA--TCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGG
1 AGTAAGAGCAAGATGAAGCATCAA-ATGTCATTTT--TATCCTCTTGAAATTGAAGTAAAGCTGG
* * *
8554316 ATATCAAGTCTTTATCTCTCTGAAATTGA
63 ATAACAAGCCTTCATCTCTCT-AAATTGA
* * ** * *
8554345 AGTAAGAGCTAGATAAAGCATCAAACATCATTATCCTATCCTCTTAAAATTGAAGTAAAGCTGGA
1 AGTAAGAGCAAGATGAAGCATCAAATGTCATT-T-TTATCCTCTTGAAATTGAAGTAAAGCTGGA
* *
8554410 TAACAAGCCTTCGTCCCTCTGAAATTGA
64 TAACAAGCCTTCATCTCTCT-AAATTGA
* * *
8554438 AGTAAGAGCAAGATGAAGCACCAACA--TCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTAG
1 AGTAAGAGCAAGATGAAGCATCAA-ATGTCATTTT--TATCCTCTTGAAATTGAAGTAAAGCTGG
* * *
8554501 ATATCAAGCCTTCGTCCCTCTGAAATTGA
63 ATAACAAGCCTTCATCTCTCT-AAATTGA
* *
8554530 AGTAAGAGCAAGATGAAGCACCAACA--TCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGG
1 AGTAAGAGCAAGATGAAGCATCAA-ATGTCATTTT--TATCCTCTTGAAATTGAAGTAAAGCTGG
* **
8554593 ATATCAAGCCTTTGTCTCTCTGAAATTGA
63 ATAACAAGCCTTCATCTCTCT-AAATTGA
* * * *
8554622 AGTAAGAGTAAGATGAAACACCAACA--TCATTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGG
1 AGTAAGAGCAAGATGAAGCATCAA-ATGTCATTTT--TATCCTCTTGAAATTGAAGTAAAGCTGG
* **
8554685 ATATCAAGCCTTTGTCTCTCTGAAATTGA
63 ATAACAAGCCTTCATCTCTCT-AAATTGA
* * *
8554714 AGTAAGAGCAAGATGAAGCACCGACA--TC-TTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGG
1 AGTAAGAGCAAGATGAAGCATC-AAATGTCATTTT--TATCCTCTTGAAATTGAAGTAAAGCTGG
* * *
8554776 ATATCAAGCCTTCGTCCCTCTGAAATTGA
63 ATAACAAGCCTTCATCTCTCT-AAATTGA
* * **
8554805 AGTAAGAGCAAGATGAAGCA-CCAATATCATTTTCGTCC-CTCTGAAATTGAAGTAA
1 AGTAAGAGCAAGATGAAGCATCAAATGTCATTTTTATCCTCT-TGAAATTGAAGTAA
8554860 GAGCAAGATG
Statistics
Matches: 979, Mismatches: 70, Indels: 46
0.89 0.06 0.04
Matches are distributed among these distances:
89 3 0.00
90 22 0.02
91 85 0.09
92 457 0.47
93 405 0.41
94 7 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (90 bp):
AGTAAGAGCAAGATGAAGCATCAAATGTCATTTTTATCCTCTTGAAATTGAAGTAAAGCTGGATA
ACAAGCCTTCATCTCTCTAAATTGA
Found at i:8554244 original size:186 final size:184
Alignment explanation
Indices: 8553681--8554456 Score: 853
Period size: 186 Copynumber: 4.2 Consensus size: 184
8553671 AAAAGTATTT
* *
8553681 ATCTCTCTGAAGTTATAGTAAGAGCAAGATAAAGCTTTAAATGTCAATTTTTATCCTCTTGAAGT
1 ATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAATGTCAATTTTTATCCTCTTGAAGT
* * * *
8553746 TATAGTAAAGTTGGATAATGAATCTTTATCTCTTTGAAGTTATAGTAAGAGCAAGATAAAGCTTT
66 TATAGTAAAGTTGGATAATAAATCTTTATCTCTCTAAAGTTATAGTAAGAGCAAGATAAAGCTTC
* * * * *
8553811 AAATGTCAATTTTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAATCTTT
131 AAATGTCAATTTTTATCCTCTTGAAATTATAGTAAAGCTGGATAATCAACCTTC
* *
8553865 ATCTCTCTGAAGTTATAGTAAGAGTAAGATAAAGCTTCAAATGTCAAATTTTTATCCTCTTGAAG
1 ATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAATGTC-AATTTTTATCCTCTTGAAG
* * * * **
8553930 TTATAGTAAAGTTGGATAATGAATCTTCATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTT
65 TTATAGTAAAGTTGGATAATAAATCTTTATCTCTCTAAAGTTATAGTAAGAGCAAGATAAAGCTT
* * * *
8553995 CAAATGTCAAATTTTTATCCTCTTGAAGTTATAGTAAAGTTGGATAATGAATCTTC
130 CAAATGTC-AATTTTTATCCTCTTGAAATTATAGTAAAGCTGGATAATCAACCTTC
**
8554051 ATCTCTCTGAAGTTATAGTAAGAGCAAGATGAATTTTCAAATGTCAAATTTTTATCCTCTTGAAG
1 ATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAATGTC-AATTTTTATCCTCTTGAAG
* *
8554116 TTATAGTAAAGTTGGATAATAAATTTTTATCTCTCTAAAGTTATAGTAAGAGTAAGATAAAGCTT
65 TTATAGTAAAGTTGGATAATAAATCTTTATCTCTCTAAAGTTATAGTAAGAGCAAGATAAAGCTT
*
8554181 CAAATGTCAGATTTTTGTCCTCTTGAAATTGA-AGTAAAGCTGGATAA-CAAGCCTTC
130 CAAATGTCA-ATTTTTATCCTCTTGAAATT-ATAGTAAAGCTGGATAATCAA-CCTTC
* * * **
8554237 GTCTCTCT-ACAATTGA-AGTAAGAGTAAGATGAAGCACCAACA--TC-ATTTTCCTATCCTCTT
1 ATCTCTCTGA-AGTT-ATAGTAAGAGCAAGATGAAGCTTCAA-ATGTCAATTTT--TATCCTCTT
* * * * *
8554297 GAAATTGA-AGTAGAGCTGGAT-ATCAAGTCTTTATCTCTCTGAAA-TTGA-AGTAAGAGCTAGA
61 GAAGTT-ATAGTAAAGTTGGATAAT-AAATCTTTATCTCTCT-AAAGTT-ATAGTAAGAGCAAGA
* ** * *
8554358 TAAAGCATCAAACATC-ATTATCCTATCCTCTTAAAATTGA-AGTAAAGCTGGATAA-CAAGCCT
122 TAAAGCTTCAAATGTCAATT-T-TTATCCTCTTGAAATT-ATAGTAAAGCTGGATAATCAA-CCT
8554420 TC
183 TC
* * *
8554422 GTCCCTCTGAAATTGA-AGTAAGAGCAAGATGAAGC
1 ATCTCTCTGAAGTT-ATAGTAAGAGCAAGATGAAGC
8554457 ACCAACATCA
Statistics
Matches: 527, Mismatches: 48, Indels: 33
0.87 0.08 0.05
Matches are distributed among these distances:
183 8 0.02
184 46 0.09
185 227 0.43
186 243 0.46
187 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (184 bp):
ATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAATGTCAATTTTTATCCTCTTGAAGT
TATAGTAAAGTTGGATAATAAATCTTTATCTCTCTAAAGTTATAGTAAGAGCAAGATAAAGCTTC
AAATGTCAATTTTTATCCTCTTGAAATTATAGTAAAGCTGGATAATCAACCTTC
Found at i:8554334 original size:92 final size:92
Alignment explanation
Indices: 8554198--8554863 Score: 1052
Period size: 92 Copynumber: 7.2 Consensus size: 92
8554188 CAGATTTTTG
* * *
8554198 TCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCTCTCT-ACAATTGAAGTAAGAGT
1 TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTCGTCTCTCTGA-AATTGAAGTAAGAGC
8554262 AAGATGAAGCACCAACATCATTTTCCTA
65 AAGATGAAGCACCAACATCATTTTCCTA
* ** *
8554290 TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGTCTTTATCTCTCTGAAATTGAAGTAAGAGCT
1 TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTCGTCTCTCTGAAATTGAAGTAAGAGCA
* * *
8554355 AGATAAAGCATCAAACATCATTATCCTA
66 AGATGAAGCA-CCAACATCATTTTCCTA
* * * *
8554383 TCCTCTTAAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCA
1 TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTCGTCTCTCTGAAATTGAAGTAAGAGCA
8554448 AGATGAAGCACCAACATCATTTTCCTA
66 AGATGAAGCACCAACATCATTTTCCTA
* *
8554475 TCCTCTTGAAATTGAAGTAGAGCTAGATATCAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCA
1 TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTCGTCTCTCTGAAATTGAAGTAAGAGCA
8554540 AGATGAAGCACCAACATCATTTTCCTA
66 AGATGAAGCACCAACATCATTTTCCTA
* *
8554567 TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGTA
1 TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTCGTCTCTCTGAAATTGAAGTAAGAGCA
*
8554632 AGATGAAACACCAACATCATTTTCCTA
66 AGATGAAGCACCAACATCATTTTCCTA
*
8554659 TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGAAATTGAAGTAAGAGCA
1 TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTCGTCTCTCTGAAATTGAAGTAAGAGCA
*
8554724 AGATGAAGCACCGACATC-TTTTCCTA
66 AGATGAAGCACCAACATCATTTTCCTA
*
8554750 TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTCGTCCCTCTGAAATTGAAGTAAGAGCA
1 TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTCGTCTCTCTGAAATTGAAGTAAGAGCA
* *
8554815 AGATGAAGCACCAATATCATTTTCGT-
66 AGATGAAGCACCAACATCATTTTCCTA
*
8554841 CCCTC-TGAAATTGAAGTAAGAGC
1 TCCTCTTGAAATTGAAGT-AGAGC
8554864 AAGATGAAGC
Statistics
Matches: 531, Mismatches: 39, Indels: 9
0.92 0.07 0.02
Matches are distributed among these distances:
90 12 0.02
91 96 0.18
92 341 0.64
93 82 0.15
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (92 bp):
TCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTCGTCTCTCTGAAATTGAAGTAAGAGCA
AGATGAAGCACCAACATCATTTTCCTA
Found at i:8554845 original size:50 final size:49
Alignment explanation
Indices: 8554786--8554920 Score: 211
Period size: 50 Copynumber: 2.7 Consensus size: 49
8554776 ATATCAAGCC
*
8554786 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAATATCATT
1 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATC-TT
8554836 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCTT
1 TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCTT
*
8554885 TTAC-TATCCTCTGAAATTGAA-TAAGAGCAAGATGAA
1 TT-CGT-CCCTCTGAAATTGAAGTAAGAGCAAGATGAA
8554921 ATCTCGACAT
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
49 20 0.25
50 61 0.75
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (49 bp):
TTCGTCCCTCTGAAATTGAAGTAAGAGCAAGATGAAGCACCAACATCTT
Found at i:8555230 original size:12 final size:11
Alignment explanation
Indices: 8555201--8555236 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
8555191 TAAAATTATT
8555201 TTAATTTTAAA
1 TTAATTTTAAA
*
8555212 TTTATTTTAAA
1 TTAATTTTAAA
8555223 TTCAATTTTAAA
1 TT-AATTTTAAA
8555235 TT
1 TT
8555237 TAAATTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTAATTTTAAA
Found at i:8557130 original size:30 final size:30
Alignment explanation
Indices: 8557094--8557348 Score: 298
Period size: 30 Copynumber: 8.5 Consensus size: 30
8557084 CCAAACAGTC
8557094 CAAAAATTACATTTTAACCCCAAAACTTTT
1 CAAAAATTACATTTTAACCCCAAAACTTTT
* **
8557124 CAAAAATTACATTTTGATGCCAAAACTTTT
1 CAAAAATTACATTTTAACCCCAAAACTTTT
*
8557154 CTAAAATTACATTTTAACCCCAAAACTTTT
1 CAAAAATTACATTTTAACCCCAAAACTTTT
* * *
8557184 CCAAAATTACATTTTGACCCTAAAACTTTT
1 CAAAAATTACATTTTAACCCCAAAACTTTT
* * *
8557214 CCAAAATTACATTTTAACCCTAAAACTCTT
1 CAAAAATTACATTTTAACCCCAAAACTTTT
* *
8557244 CTAATATTACATTTTAACCCCAAAACTTTT
1 CAAAAATTACATTTTAACCCCAAAACTTTT
* * * *
8557274 CCAATATTACATTTTAACCCTAAAAC-TTC
1 CAAAAATTACATTTTAACCCCAAAACTTTT
* * * *
8557303 CTAAAAATTATATTTTAGCCCTAATAC-TTT
1 C-AAAAATTACATTTTAACCCCAAAACTTTT
8557333 CTAAAAATTACATTTT
1 C-AAAAATTACATTTT
8557349 GATCCCTCGA
Statistics
Matches: 198, Mismatches: 26, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
29 3 0.02
30 195 0.98
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (30 bp):
CAAAAATTACATTTTAACCCCAAAACTTTT
Found at i:8557246 original size:90 final size:89
Alignment explanation
Indices: 8557096--8557348 Score: 341
Period size: 90 Copynumber: 2.8 Consensus size: 89
8557086 AAACAGTCCA
* * **
8557096 AAAATTACATTTTAACCCCAAAACTTTTCAAAAATTACATTTTGATGCC-AAAACTTTTCTAAAA
1 AAAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTT-AACCCTAAAAC-TTTCTAAAA
8557160 TTACATTTTAACCCCAAAACTTTTCC
64 TTACATTTTAACCCCAAAACTTTTCC
* *
8557186 AAAATTACATTTTGACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTCTTCTAATAT
1 AAAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACT-TTCTAAAAT
8557251 TACATTTTAACCCCAAAACTTTTCC
65 TACATTTTAACCCCAAAACTTTTCC
* * * *
8557276 AATATTACATTTTAACCCTAAAAC--TTCCTAAAAATTATATTTTAGCCCTAATACTTTCTAAAA
1 AAAATTACATTTTAACCCTAAAACTTTTCC--AAAATTACATTTTAACCCTAAAACTTTCT-AAA
8557339 ATTACATTTT
63 ATTACATTTT
8557349 GATCCCTCGA
Statistics
Matches: 146, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
88 4 0.03
89 8 0.05
90 134 0.92
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.38
Consensus pattern (89 bp):
AAAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTTTCTAAAATT
ACATTTTAACCCCAAAACTTTTCC
Found at i:8565561 original size:22 final size:22
Alignment explanation
Indices: 8565536--8565591 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 22
8565526 CAAGGGAGCC
8565536 TTGTCTTGAGACA-ATCGAGC-AA
1 TTGTCTTGAGACATAT-G-GCAAA
8565558 TTGTCTTGAGACATATGGCAAA
1 TTGTCTTGAGACATATGGCAAA
8565580 TTGTCTTGAGAC
1 TTGTCTTGAGAC
8565592 TAGCCTATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 2 0.06
22 28 0.88
23 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (22 bp):
TTGTCTTGAGACATATGGCAAA
Found at i:8569457 original size:6 final size:6
Alignment explanation
Indices: 8569446--8569482 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
8569436 GTTACTTTCA
8569446 CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT C
1 CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT C
8569483 GAGGTATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (6 bp):
CCTTCT
Found at i:8571535 original size:21 final size:21
Alignment explanation
Indices: 8571488--8571536 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
8571478 TTTTTTAGAC
8571488 ATTTAA-TATTTTAAATTTGT
1 ATTTAATTATTTTAAATTTGT
* * *
8571508 CTGTTAATTATTTTAATTTTTT
1 AT-TTAATTATTTTAAATTTGT
8571530 ATTTAAT
1 ATTTAAT
8571537 ATAAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 9 0.39
22 13 0.57
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (21 bp):
ATTTAATTATTTTAAATTTGT
Found at i:8598961 original size:73 final size:73
Alignment explanation
Indices: 8598842--8598985 Score: 216
Period size: 73 Copynumber: 2.0 Consensus size: 73
8598832 GAGCATACTT
* * *
8598842 TGCAAAATGAAGTCTAAGTGGTATTCGCTCTGCAAGATGCATTCATTATGTGTTATATTCCAAGT
1 TGCAAAATGAAGTCTAAGTGGCATTCACTCTGCAAGATGCATTCATTATGTATTATATTCCAAGT
8598907 CAATGGTA
66 CAATGGTA
* * * * *
8598915 TGCAAAATGAAGTCTAAGTGGCATTCATTCTGCAGGATGCATTCATTCTGTATTATATTTCGAGT
1 TGCAAAATGAAGTCTAAGTGGCATTCACTCTGCAAGATGCATTCATTATGTATTATATTCCAAGT
8598980 CAATGG
66 CAATGG
8598986 AATCTTATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (73 bp):
TGCAAAATGAAGTCTAAGTGGCATTCACTCTGCAAGATGCATTCATTATGTATTATATTCCAAGT
CAATGGTA
Found at i:8599718 original size:3 final size:3
Alignment explanation
Indices: 8599710--8599737 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8599700 TAGAAATGGG
8599710 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
8599738 GGTTATAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:8603415 original size:6 final size:6
Alignment explanation
Indices: 8603376--8603469 Score: 65
Period size: 6 Copynumber: 16.2 Consensus size: 6
8603366 ATCGGGCCCT
* * * *
8603376 TTTAAA TTT-AT TTTGAA TTTAAA ATT-AT TTTAAA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
8603420 TTCTAAAA TTTAAA TTTATA TTTAAA TTTAAA ATT--A TTATAAA TTTAAA
1 TT-T-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
8603469 T
1 T
8603470 AATAAAATGT
Statistics
Matches: 68, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
4 5 0.07
5 9 0.13
6 47 0.69
7 4 0.06
8 3 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:8603430 original size:18 final size:17
Alignment explanation
Indices: 8603376--8603469 Score: 125
Period size: 17 Copynumber: 5.4 Consensus size: 17
8603366 ATCGGGCCCT
*
8603376 TTTAAATTTATTTTGAA
1 TTTAAATTTATTTTAAA
*
8603393 TTTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
*
8603410 TTTAAATTTATTCTAAAA
1 TTTAAATTTATT-TTAAA
8603428 TTTAAATTTATATTTAAA
1 TTTAAATTTAT-TTTAAA
* *
8603446 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
8603463 TTTAAAT
1 TTTAAAT
8603470 AATAAAATGT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
17 37 0.55
18 29 0.43
19 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:8604216 original size:10 final size:10
Alignment explanation
Indices: 8604203--8604227 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8604193 GTAATAATAA
8604203 TAAATATTAT
1 TAAATATTAT
8604213 TAAATATTAT
1 TAAATATTAT
8604223 TAAAT
1 TAAAT
8604228 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TAAATATTAT
Found at i:8605339 original size:29 final size:30
Alignment explanation
Indices: 8605291--8605404 Score: 160
Period size: 29 Copynumber: 3.8 Consensus size: 30
8605281 AAGGTCCCTA
*
8605291 AACTGTCCAAAAATTACATTTTTGACCCCCG
1 AACT-TCCAAAAATTACATTTTTGACCCTCG
* **
8605322 AACTTCC-AAAATTCCATTTTTGACCCTAA
1 AACTTCCAAAAATTACATTTTTGACCCTCG
8605351 AACTTCCAAAAATTACATTTTT-ACCCTCG
1 AACTTCCAAAAATTACATTTTTGACCCTCG
*
8605380 AACTTCCAAAAATTCCATTTTTGAC
1 AACTTCCAAAAATTACATTTTTGAC
8605405 TCGATTTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
29 51 0.70
30 18 0.25
31 4 0.05
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (30 bp):
AACTTCCAAAAATTACATTTTTGACCCTCG
Found at i:8605392 original size:59 final size:59
Alignment explanation
Indices: 8605286--8605404 Score: 197
Period size: 59 Copynumber: 2.0 Consensus size: 59
8605276 CCTTGAAGGT
8605286 CCCTAAACTGTCCAAAAATTACATTTTTGACCCCCGAACTTCCAAAATTCCATTTTTGA
1 CCCTAAACTGTCCAAAAATTACATTTTTGACCCCCGAACTTCCAAAATTCCATTTTTGA
*
8605345 CCCTAAAACT-TCCAAAAATTACATTTTT-ACCCTCGAACTTCCAAAAATTCCATTTTTGA
1 CCCT-AAACTGTCCAAAAATTACATTTTTGACCCCCGAACTTCC-AAAATTCCATTTTTGA
8605404 C
1 C
8605405 TCGATTTTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
58 13 0.23
59 39 0.68
60 5 0.09
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.33
Consensus pattern (59 bp):
CCCTAAACTGTCCAAAAATTACATTTTTGACCCCCGAACTTCCAAAATTCCATTTTTGA
Found at i:8605432 original size:58 final size:58
Alignment explanation
Indices: 8605290--8605437 Score: 154
Period size: 59 Copynumber: 2.5 Consensus size: 58
8605280 GAAGGTCCCT
** * *
8605290 AAACTGTCCAAAAATTACATTTTTGACCCCCGAACTTCCAAAATTCCATTTTTGACCCTA
1 AAACT-TCCAAAAATTACACGTTT-ACCCTCGAACTTCCAAAATTCCATTTTTGACCCGA
** *
8605350 AAACTTCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACTCGA
1 AAACTTCCAAAAATTACACGTTTACCCTCGAACTTCC-AAAATTCCATTTTTGACCCGA
**** *
8605409 TTTTTTCTAAAAATTAC-CGTTTACCCTCG
1 AAACTTCCAAAAATTACACGTTTACCCTCG
8605438 GGTGTCTAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
58 23 0.30
59 49 0.64
60 5 0.06
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (58 bp):
AAACTTCCAAAAATTACACGTTTACCCTCGAACTTCCAAAATTCCATTTTTGACCCGA
Found at i:8606602 original size:19 final size:20
Alignment explanation
Indices: 8606580--8606617 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8606570 AAAAAGGATG
8606580 GTTTCGAC-AAAAAAATTAT
1 GTTTCGACGAAAAAAATTAT
* *
8606599 GTTTTGACGAAAAATATTA
1 GTTTCGACGAAAAAAATTA
8606618 ACACATTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (20 bp):
GTTTCGACGAAAAAAATTAT
Found at i:8606806 original size:16 final size:18
Alignment explanation
Indices: 8606769--8606806 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
8606759 TTACCCAAAA
8606769 AAATTATGTATAATAAAT
1 AAATTATGTATAATAAAT
*
8606787 AAATTAT-TAT-ATACAT
1 AAATTATGTATAATAAAT
8606803 AAAT
1 AAAT
8606807 CAAGAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 3 0.16
18 7 0.37
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (18 bp):
AAATTATGTATAATAAAT
Found at i:8610985 original size:16 final size:16
Alignment explanation
Indices: 8610939--8610990 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
8610929 TTTTCAGTTG
*
8610939 TATTTAATTTAAAA-T
1 TATTTAATTAAAAATT
*
8610954 T-TTCAATTAATTAAATT
1 TATTTAATTAA--AAATT
8610971 TATTTAATTAAAAATT
1 TATTTAATTAAAAATT
8610987 TATT
1 TATT
8610991 CTCATCTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 7 0.23
15 1 0.03
16 12 0.40
17 2 0.07
18 8 0.27
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTTAATTAAAAATT
Found at i:8611615 original size:18 final size:18
Alignment explanation
Indices: 8611589--8611623 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8611579 AAAGATATAT
* *
8611589 TAATTAATAATATTATTA
1 TAATAAATAATAATATTA
8611607 TAATAAATAATAATATT
1 TAATAAATAATAATATT
8611624 TTTTTATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAAATAATAATATTA
Found at i:8611617 original size:21 final size:21
Alignment explanation
Indices: 8611584--8611623 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8611574 TTTCAAAAGA
* *
8611584 TATATTAATTAATAATATTAT
1 TATAATAAATAATAATATTAT
8611605 TATAATAAATAATAATATT
1 TATAATAAATAATAATATT
8611624 TTTTTATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAATAAATAATAATATTAT
Found at i:8613073 original size:18 final size:19
Alignment explanation
Indices: 8613046--8613082 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
8613036 TTCTTTATTG
8613046 TGTGAATTAAA-TTGATTA
1 TGTGAATTAAATTTGATTA
*
8613064 TGTGATTTAAATTTGATTA
1 TGTGAATTAAATTTGATTA
8613083 AAAAACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (19 bp):
TGTGAATTAAATTTGATTA
Found at i:8614692 original size:21 final size:21
Alignment explanation
Indices: 8614658--8614712 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
8614648 TTAATTATTC
*
8614658 TAAAAATTATAAAAAAAAGT-
1 TAAAAATTAAAAAAAAAAGTA
*
8614678 TAAAAATTCAAAAAAAAAGTA
1 TAAAAATTAAAAAAAAAAGTA
* *
8614699 TAAAATTTTAAAAA
1 TAAAAATTAAAAAA
8614713 GTAAACATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (21 bp):
TAAAAATTAAAAAAAAAAGTA
Found at i:8614839 original size:8 final size:8
Alignment explanation
Indices: 8614826--8614871 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
8614816 AAAAAGTAAA
8614826 AAAAAATT
1 AAAAAATT
*
8614834 AGAAAATT
1 AAAAAATT
8614842 AAAAAATCT
1 AAAAAAT-T
8614851 AAAAAATT
1 AAAAAATT
*
8614859 -AGAAATT
1 AAAAAATT
8614866 AAAAAA
1 AAAAAA
8614872 AATAGACTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 6 0.19
8 18 0.56
9 8 0.25
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (8 bp):
AAAAAATT
Found at i:8614979 original size:30 final size:30
Alignment explanation
Indices: 8614945--8615003 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
8614935 TTTTCTAAAA
* *
8614945 TTTCAACAGTATTTTTATT-TTTTTTGAAAT
1 TTTCAAAAATATTTTT-TTATTTTTTGAAAT
8614975 TTTCAAAAATATTTTTTTATTTTTTGAAA
1 TTTCAAAAATATTTTTTTATTTTTTGAAA
8615004 AATTTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (30 bp):
TTTCAAAAATATTTTTTTATTTTTTGAAAT
Found at i:8615007 original size:32 final size:31
Alignment explanation
Indices: 8614941--8615025 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 31
8614931 GTAATTTTCT
* *
8614941 AAAA-TTTCAACAGTATTTTTATTTTTTTTG
1 AAAATTTTCAAAAATATTTTTATTTTTTTTG
8614971 -AAATTTTCAAAAATATTTTT-TTATTTTTTG
1 AAAATTTTCAAAAATATTTTTATT-TTTTTTG
* *
8615001 AAAAATTT---AAATAATTTTATTTTTT
1 AAAATTTTCAAAAATATTTTTATTTTTT
8615026 AAAATTATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
28 13 0.28
29 7 0.15
30 21 0.45
31 6 0.13
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (31 bp):
AAAATTTTCAAAAATATTTTTATTTTTTTTG
Found at i:8620087 original size:92 final size:93
Alignment explanation
Indices: 8619929--8620116 Score: 360
Period size: 92 Copynumber: 2.0 Consensus size: 93
8619919 CATTAATGGT
8619929 TAATTAATGAGCATGAGACACATAAGAATGTTTTTCCTGAAGTTTCATTGCATTCATATTAAGGC
1 TAATTAATGAGCATGAGACACATAAGAATGTTTTTCCTGAAGTTTCATTGCATTCATATTAAGGC
8619994 AACAAAAACCTTTAACATTAAGCTGATC
66 AACAAAAACCTTTAACATTAAGCTGATC
*
8620022 TAATTAATGTGCATGAGACACATAAGAATG-TTTTCCTGAAGTTTCATTGCATTCATATTAAGGC
1 TAATTAATGAGCATGAGACACATAAGAATGTTTTTCCTGAAGTTTCATTGCATTCATATTAAGGC
8620086 AACAAAAACCTTTAACATTAAGCTGATC
66 AACAAAAACCTTTAACATTAAGCTGATC
8620114 TAA
1 TAA
8620117 ATTCAAAGTG
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
92 65 0.69
93 29 0.31
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (93 bp):
TAATTAATGAGCATGAGACACATAAGAATGTTTTTCCTGAAGTTTCATTGCATTCATATTAAGGC
AACAAAAACCTTTAACATTAAGCTGATC
Found at i:8621993 original size:156 final size:147
Alignment explanation
Indices: 8621693--8621996 Score: 410
Period size: 156 Copynumber: 2.0 Consensus size: 147
8621683 CCTAATTGTA
* * * *
8621693 TGTATTGTGAAAAAAGTGGCCACGTACGTGATACATGTTGGGCTCTACATAGCCGACCTTCTGAT
1 TGTATTGTGAAAAAAGTGGCCACATACATGATACATGTTGGGCTCTACATAGCCAACCTTCTCAT
* * * *
8621758 AATATTCAGCCCATAGACTAGGTTCAAGGAGATGGACTTCTTTCGCTTAGAATTGCTCAAGGGGC
66 AATATTCAGCCCATAGACTAGGTTCAAGCAGATGGACTTCTTCCGCTTACAATTGCTCAAGAGGC
8621823 CAAATTATGATGAATAT
131 CAAATTATGATGAATAT
* *
8621840 TGTATTTTGAAAAAAGTGGCCACATACATGATACATGTTGGGCTCTACATGGCCAACCTTCTCAT
1 TGTATTGTGAAAAAAGTGGCCACATACATGATACATGTTGGGCTCTACATAGCCAACCTTCTCAT
** *
8621905 AATATTTGGCCCATTGTTCATTTAGCCTAGGTTCAAGCAGATGGACTTCTTCCGCTTACAATTGC
66 AATA-TT----CA--GCCCA--TAGACTAGGTTCAAGCAGATGGACTTCTTCCGCTTACAATTGC
8621970 TCAAGAGGCCAAATTATGATGAATAT
122 TCAAGAGGCCAAATTATGATGAATAT
8621996 T
1 T
8621997 TACAATATCA
Statistics
Matches: 135, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
147 63 0.47
148 2 0.01
152 2 0.01
154 3 0.02
156 65 0.48
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (147 bp):
TGTATTGTGAAAAAAGTGGCCACATACATGATACATGTTGGGCTCTACATAGCCAACCTTCTCAT
AATATTCAGCCCATAGACTAGGTTCAAGCAGATGGACTTCTTCCGCTTACAATTGCTCAAGAGGC
CAAATTATGATGAATAT
Found at i:8636020 original size:20 final size:20
Alignment explanation
Indices: 8635997--8636041 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
8635987 TTGAGATGCA
8635997 TTAATTACATTTTT-ATTATT
1 TTAATT-CATTTTTCATTATT
* *
8636017 TTAATTCTTTTTTCATTTTT
1 TTAATTCATTTTTCATTATT
8636037 TTAAT
1 TTAAT
8636042 ATGTATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (20 bp):
TTAATTCATTTTTCATTATT
Found at i:8638774 original size:51 final size:51
Alignment explanation
Indices: 8638701--8638977 Score: 430
Period size: 51 Copynumber: 5.4 Consensus size: 51
8638691 TTTCATTTAA
* * * * *
8638701 TACTTACGATGACA-TATTGTCATCGGACCTTTAATTCGTCATGGATTCATT
1 TACTCACGATGACACT-TAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
8638752 TACTCACGATAACACTTAGTCATCGGACCTTTAATCCGTAAAGGATCCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
8638803 TACTCACGATGACATTTAGTCATCGGACCTTTAATCTGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
8638854 TACTCACGATGACACTTAGTCACCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
8638905 TACTCACGATGACACTTAGTCACCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
8638956 TGCTCACGATGACACTTAGTCA
1 TACTCACGATGACACTTAGTCA
8638978 CTGTACCCTT
Statistics
Matches: 210, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
51 209 1.00
52 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:8646055 original size:51 final size:51
Alignment explanation
Indices: 8645982--8646258 Score: 394
Period size: 51 Copynumber: 5.4 Consensus size: 51
8645972 TTTCATTTAA
* * * * *
8645982 TACTCACGATGACA-TATTGTCATCGGACCTTTACTTCGTCATGGATTCATT
1 TACTCACGATGACACT-TAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
8646033 TACTCACGATGACACTTAGTCATTGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
8646084 TACTCACGATGACATTTAGTCATCGGACCTTTAATCCGTAAAAGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * *
8646135 TACTCACGATGACACTTAGTCACCGGACATTTAATCCGTAAATGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* *
8646186 TACTCACGATGACACTTAGTCACCGGACCTTTAATCTGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
** *
8646237 TGTTCACAATGACACTTAGTCA
1 TACTCACGATGACACTTAGTCA
8646259 CCAGACCCTT
Statistics
Matches: 206, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
51 205 1.00
52 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:8648035 original size:4 final size:4
Alignment explanation
Indices: 8648026--8648052 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8648016 TTCCACACTT
8648026 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
8648053 TTATTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:8648169 original size:21 final size:21
Alignment explanation
Indices: 8648143--8648187 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
8648133 TCTCAAGTCC
8648143 TCATAGAAACATGATATTCAA
1 TCATAGAAACATGATATTCAA
8648164 TCATAGAAACATGATATTCAA
1 TCATAGAAACATGATATTCAA
8648185 TCA
1 TCA
8648188 AAGATAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (21 bp):
TCATAGAAACATGATATTCAA
Found at i:8648258 original size:26 final size:26
Alignment explanation
Indices: 8648227--8648279 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
8648217 AATATTTAAG
* *
8648227 TTTTACAAATTAGATCATTGGAGGAC
1 TTTTACAAATAAGACCATTGGAGGAC
8648253 TTTTACAAATAAGACCATTGGAGGAC
1 TTTTACAAATAAGACCATTGGAGGAC
8648279 T
1 T
8648280 CGCACTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (26 bp):
TTTTACAAATAAGACCATTGGAGGAC
Found at i:8650994 original size:28 final size:27
Alignment explanation
Indices: 8650963--8651060 Score: 81
Period size: 28 Copynumber: 3.4 Consensus size: 27
8650953 GTCTAATTTT
8650963 TTTTAAAAGGCCCAAATTTTTTTTTAAC
1 TTTT-AAAGGCCCAAATTTTTTTTTAAC
* * *
8650991 TTTTACAGGTCAAAATTTTTTTTTATCAAC
1 TTTTAAAGGCCCAAA-TTTTTTTT-T-AAC
* *
8651021 TTTT-AAGGACCCCAATTTTTTTTTTAAT
1 TTTTAAAGG--CCCAAATTTTTTTTTAAC
*
8651049 TTTTAACGGCCC
1 TTTTAAAGGCCC
8651061 TTAATCTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
27 11 0.20
28 18 0.33
29 8 0.15
30 15 0.27
31 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (27 bp):
TTTTAAAGGCCCAAATTTTTTTTTAAC
Found at i:8651038 original size:30 final size:30
Alignment explanation
Indices: 8651004--8651085 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
8650994 TACAGGTCAA
8651004 AATTTTTTTTTATCAACTTTTAAGGACCC-C
1 AATTTTTTTTTATCAACTTTTAAGG-CCCTC
* *
8651034 AATTTTTTTTT-T-AATTTTTAACGGCCCTT
1 AATTTTTTTTTATCAACTTTTAA-GGCCCTC
* *
8651063 AA-TCTTTTTTACCAACTTTTAAG
1 AATTTTTTTTTATCAACTTTTAAG
8651086 AGACTTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
28 18 0.42
29 6 0.14
30 19 0.44
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (30 bp):
AATTTTTTTTTATCAACTTTTAAGGCCCTC
Found at i:8651039 original size:29 final size:29
Alignment explanation
Indices: 8651007--8651085 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
8650997 AGGTCAAAAT
8651007 TTTTTTTTATCAACTTTTAAGGACCC-CAA
1 TTTTTTTTATCAACTTTTAAGG-CCCTCAA
* * *
8651036 TTTTTTTT-TTAATTTTTAACGGCCCTTAA
1 TTTTTTTTATCAACTTTTAA-GGCCCTCAA
* *
8651065 TCTTTTTTACCAACTTTTAAG
1 TTTTTTTTATCAACTTTTAAG
8651086 AGACTTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
28 12 0.30
29 20 0.50
30 8 0.20
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (29 bp):
TTTTTTTTATCAACTTTTAAGGCCCTCAA
Found at i:8653339 original size:26 final size:27
Alignment explanation
Indices: 8653302--8653360 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
8653292 TATATTTATA
*
8653302 TTATAT-TATTTTA-ATATTTAATATTT
1 TTATATATATTTTATATATTGAAT-TTT
*
8653328 TTATATAT-TTTTATTTATTGAATTTT
1 TTATATATATTTTATATATTGAATTTT
8653354 TTATATA
1 TTATATA
8653361 ATTATCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (27 bp):
TTATATATATTTTATATATTGAATTTT
Found at i:8654136 original size:15 final size:16
Alignment explanation
Indices: 8654116--8654155 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
8654106 CCCGCTCATA
*
8654116 TTATATTTTA-AATAT
1 TTATATTATATAATAT
8654131 TTATATTATATAATAT
1 TTATATTATATAATAT
*
8654147 TAATATTAT
1 TTATATTAT
8654156 TTTTATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATATTATATAATAT
Found at i:8655033 original size:17 final size:16
Alignment explanation
Indices: 8655012--8655052 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
8655002 TAAAATATTC
8655012 AAAAAAATAAAAATAA
1 AAAAAAATAAAAATAA
* *
8655028 ATAAAAAATTAAAATTA
1 A-AAAAAATAAAAATAA
8655045 AAAAAAAT
1 AAAAAAAT
8655053 TAACTTGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAAAATAAAAATAA
Found at i:8655033 original size:18 final size:17
Alignment explanation
Indices: 8655012--8655051 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
8655002 TAAAATATTC
8655012 AAAAAAATAAAAATAAA
1 AAAAAAATAAAAATAAA
* *
8655029 TAAAAAATTAAAATTAAA
1 -AAAAAAATAAAAATAAA
8655047 AAAAA
1 AAAAA
8655052 TTAACTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAAAATAAAAATAAA
Found at i:8655672 original size:6 final size:6
Alignment explanation
Indices: 8655661--8655685 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8655651 GATACTGCCT
8655661 TCGCCA TCGCCA TCGCCA TCGCCA T
1 TCGCCA TCGCCA TCGCCA TCGCCA T
8655686 GTCGCTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.48, G:0.16, T:0.20
Consensus pattern (6 bp):
TCGCCA
Found at i:8661141 original size:21 final size:21
Alignment explanation
Indices: 8661117--8661168 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
8661107 TGAGACAATA
*
8661117 CTACCGATACAAGT-GTGACTT
1 CTACCGATACAAGTCATG-CTT
* * *
8661138 CTACTGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
8661159 CTACCGATAC
1 CTACCGATAC
8661169 TAAAAACTCC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:8661565 original size:66 final size:66
Alignment explanation
Indices: 8661462--8661598 Score: 274
Period size: 66 Copynumber: 2.1 Consensus size: 66
8661452 GTTTCCCAAG
8661462 TCATTTCATTGTACTTCCAATACTATATTCTATCTTGAACATGCATACATTACTACATTCAATAT
1 TCATTTCATTGTACTTCCAATACTATATTCTATCTTGAACATGCATACATTACTACATTCAATAT
8661527 T
66 T
8661528 TCATTTCATTGTACTTCCAATACTATATTCTATCTTGAACATGCATACATTACTACATTCAATAT
1 TCATTTCATTGTACTTCCAATACTATATTCTATCTTGAACATGCATACATTACTACATTCAATAT
8661593 T
66 T
8661594 TCATT
1 TCATT
8661599 AAAGTATAAC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 71 1.00
ACGTcount: A:0.31, C:0.21, G:0.04, T:0.43
Consensus pattern (66 bp):
TCATTTCATTGTACTTCCAATACTATATTCTATCTTGAACATGCATACATTACTACATTCAATAT
T
Found at i:8665176 original size:52 final size:52
Alignment explanation
Indices: 8665099--8665443 Score: 435
Period size: 52 Copynumber: 6.6 Consensus size: 52
8665089 ATGCATTTTT
* * * **
8665099 TATACTCACGATGACATAGAGTCATCGGACCT-TTAATCCGTATTGGGAATT-A
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTA-AAGG-ATTCA
* * *
8665151 TATACTCACGATGACACATAATCATCGAACCTCATAATCTGTAAAGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
*
8665203 TATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAAGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGT-AAAGGATTCA
* * * * *
8665256 TATACTTATGATGACACATAGTCATCGGAACTCAAAATCTGTAAAAGGAATT-A
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGT-AAAGG-ATTCA
* *
8665309 TATACTCACGATGACACATAGTCATCAGACCTCATAATCCGTAAGGGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
* * *
8665361 TATACTCATGATGAGACATAGTCATCGGACCTCATAATCCGTAAAAGATTCA
1 TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
* *
8665413 TATACTCACGATGACACATAATCATCTGACC
1 TATACTCACGATGACACATAGTCATCGGACC
8665444 CTTTTTCATA
Statistics
Matches: 254, Mismatches: 34, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
51 6 0.02
52 148 0.58
53 97 0.38
54 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (52 bp):
TATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCA
Found at i:8665386 original size:158 final size:157
Alignment explanation
Indices: 8665144--8665438 Score: 484
Period size: 158 Copynumber: 1.9 Consensus size: 157
8665134 ATCCGTATTG
*
8665144 GGAATTATATACTCACGATGACACATAATCATCGAACCTCATAATCTGTAAAGGATTCATATACT
1 GGAATTATATACTCACGATGACACATAATCATCGAACCTCATAATCCGTAAAGGATTCATATACT
* *
8665209 CACGATGACACATAGTCATCAGACCTCATAATCCGTAAAAGGATTCATATACTTATGATGACACA
66 CACGATGACACATAGTCATCAGACCTCATAATCCGTAAAA-GATTCATATACTCACGATGACACA
*
8665274 TAGTCATCGGAACTCAAAATCTGTAAAA
130 TAATCATCGGAACTCAAAATCTGTAAAA
* *
8665302 GGAATTATATACTCACGATGACACATAGTCATC-AGACCTCATAATCCGTAAGGGATTCATATAC
1 GGAATTATATACTCACGATGACACATAATCATCGA-ACCTCATAATCCGTAAAGGATTCATATAC
* * *
8665366 TCATGATGAGACATAGTCATCGGACCTCATAATCCGTAAAAGATTCATATACTCACGATGACACA
65 TCACGATGACACATAGTCATCAGACCTCATAATCCGTAAAAGATTCATATACTCACGATGACACA
8665431 TAATCATC
130 TAATCATC
8665439 TGACCCTTTT
Statistics
Matches: 127, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
157 30 0.24
158 97 0.76
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (157 bp):
GGAATTATATACTCACGATGACACATAATCATCGAACCTCATAATCCGTAAAGGATTCATATACT
CACGATGACACATAGTCATCAGACCTCATAATCCGTAAAAGATTCATATACTCACGATGACACAT
AATCATCGGAACTCAAAATCTGTAAAA
Found at i:8668538 original size:23 final size:23
Alignment explanation
Indices: 8668464--8668677 Score: 160
Period size: 23 Copynumber: 9.5 Consensus size: 23
8668454 GAAACGGAAC
* * *
8668464 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
8668486 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
8668508 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
8668534 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
8668554 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8668573 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8668596 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8668619 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
8668644 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
8668667 AATCAGAGAGC
1 AAACAGAGAGC
8668678 GCGCTAGTGT
Statistics
Matches: 153, Mismatches: 23, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 79 0.52
24 2 0.01
25 29 0.19
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:8668543 original size:48 final size:44
Alignment explanation
Indices: 8668465--8668677 Score: 168
Period size: 48 Copynumber: 4.8 Consensus size: 44
8668455 AAACGGAACA
* * * * *
8668465 AACAGAGAGTAC-CGAAGTACTGAACAGAGAGCACATAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* * *
8668508 GGGCAACAGAGAGCACACAAAGTGCTAAACAGAGAGTACACAA-AG-T
1 ----AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* *
8668554 -AC--TGAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACA-GAAGTGCT
* *
8668596 AATCAGAGAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCT
1 AA-CAGAGAGCACACAAAGTGCT-A-AACAGAGAGCAC-AGAAGTGCT
* *
8668644 AAACAGAGAGCACACACAGTGCTAATCAGAGAGC
1 -AACAGAGAGCACACAAAGTGCTAAACAGAGAGC
8668678 GCGCTAGTGT
Statistics
Matches: 137, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
39 28 0.20
40 2 0.01
41 3 0.02
42 1 0.01
43 1 0.01
44 1 0.01
46 25 0.18
47 14 0.10
48 59 0.43
49 3 0.02
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (44 bp):
AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
Found at i:8668572 original size:39 final size:39
Alignment explanation
Indices: 8668518--8668592 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
8668508 GGGCAACAGA
*
8668518 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
8668557 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
8668593 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:8674950 original size:23 final size:23
Alignment explanation
Indices: 8674876--8675089 Score: 160
Period size: 23 Copynumber: 9.5 Consensus size: 23
8674866 TAAACGGAAC
* * *
8674876 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
8674898 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
8674920 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
8674946 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
8674966 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8674985 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8675008 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8675031 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
8675056 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
8675079 AATCAGAGAGC
1 AAACAGAGAGC
8675090 GCGCTAGTGT
Statistics
Matches: 153, Mismatches: 23, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 79 0.52
24 2 0.01
25 29 0.19
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:8674955 original size:48 final size:44
Alignment explanation
Indices: 8674877--8675089 Score: 168
Period size: 48 Copynumber: 4.8 Consensus size: 44
8674867 AAACGGAACA
* * * * *
8674877 AACAGAGAGTAC-CGAAGTACTGAACAGAGAGCACATAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* * *
8674920 GGGCAACAGAGAGCACACAAAGTGCTAAACAGAGAGTACACAA-AG-T
1 ----AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* *
8674966 -AC--TGAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACA-GAAGTGCT
* *
8675008 AATCAGAGAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCT
1 AA-CAGAGAGCACACAAAGTGCT-A-AACAGAGAGCAC-AGAAGTGCT
* *
8675056 AAACAGAGAGCACACACAGTGCTAATCAGAGAGC
1 -AACAGAGAGCACACAAAGTGCTAAACAGAGAGC
8675090 GCGCTAGTGT
Statistics
Matches: 137, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
39 28 0.20
40 2 0.01
41 3 0.02
42 1 0.01
43 1 0.01
44 1 0.01
46 25 0.18
47 14 0.10
48 59 0.43
49 3 0.02
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (44 bp):
AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
Found at i:8674984 original size:39 final size:39
Alignment explanation
Indices: 8674930--8675004 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
8674920 GGGCAACAGA
*
8674930 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
8674969 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
8675005 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:8682686 original size:16 final size:16
Alignment explanation
Indices: 8682656--8682709 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
8682646 AATAGGTTTA
8682656 AATTTATTATTAAATAT
1 AATTTATT-TTAAATAT
*
8682673 AATTTATTTTAAATTT
1 AATTTATTTTAAATAT
** *
8682689 AAAATATTTGAAATA-
1 AATTTATTTTAAATAT
8682704 AATTTA
1 AATTTA
8682710 AATTTAATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 4 0.13
16 18 0.60
17 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
AATTTATTTTAAATAT
Found at i:8684497 original size:59 final size:58
Alignment explanation
Indices: 8684368--8684854 Score: 526
Period size: 59 Copynumber: 8.3 Consensus size: 58
8684358 AATTATTCAT
* ** * * *
8684368 AAATTACCATTGTACCCTTGAACTTTCCAAAA-CCCTATTTTTAA--CCAATTTTACCAA
1 AAATTACCATTTTACCC-CAAACTTTCCAAAATTCC-ATTTTTAACCCCAGTTTCACCAA
* *
8684425 AAATTACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTGACCCCAGTTTCACCAA
1 AAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAA
* * * *
8684484 AAAATACCATTTTATCCCCGAACTTTCCAAAATCCCATTTTTAACCTC-GTTTCACCAA
1 AAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAA
* * *
8684542 AAATTACCATTTTACCTCCAAACTTTCCAAAATTCTATTTTTAACCTCGGTTTCACCAA
1 AAATTACCATTTTACC-CCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAA
* *
8684601 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTC-GATTTCACCAAA
1 AAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCCAG-TTTCACC-AA
* * * *
8684661 AAATTATCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCAGTTTTACCAA
1 AAATTACCATTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAA
* * *
8684720 AAATTATCATTTTACCCCTAAACTTTCCAAAA-CCCTATTTTTAACCCTAGATTT-ACCAA
1 AAATTACCATTTTACCCC-AAACTTTCCAAAATTCC-ATTTTTAACCCCAG-TTTCACCAA
* * *
8684779 AAATTACCATTTTACCCCCAAAACTTTCC-AAATTCCATTTTTTACCCTAATTTCACC-A
1 AAATTACCATTTTA-CCCC-AAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAA
8684837 AAATTA-CATTTTTACCCC
1 AAATTACCA-TTTTACCCC
8684855 CGAAAGTCAA
Statistics
Matches: 381, Mismatches: 31, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
57 42 0.11
58 76 0.20
59 185 0.49
60 77 0.20
61 1 0.00
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (58 bp):
AAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAA
Found at i:8684544 original size:29 final size:29
Alignment explanation
Indices: 8684453--8684662 Score: 77
Period size: 29 Copynumber: 7.1 Consensus size: 29
8684443 TAAACTTTCT
* * *
8684453 AAAATTCCATTTTTGACCCCAGTTTCACCAA
1 AAAATACCATTTTTAACCTC-GTTTCACC-A
* *
8684484 AAAATACCA-TTTTATCCCCGAACTTT--CC-
1 AAAATACCATTTTTAACCTCG---TTTCACCA
*
8684512 AAAATCCCATTTTTAACCTCGTTTCACCA
1 AAAATACCATTTTTAACCTCGTTTCACCA
*
8684541 AAAATTACCA-TTTT-ACCTCCAAACTTT--CC-
1 AAAA-TACCATTTTTAACCT-C---GTTTCACCA
* *
8684570 AAAATTCTATTTTTAACCTCGGTTTCACCA
1 AAAATACCATTTTTAACCTC-GTTTCACCA
* *
8684600 AAAATTACCA-TTTTACCCCCGAACTTT--CC-
1 AAAA-TACCATTTTTAACCTCG---TTTCACCA
*
8684629 AAAATTCCATTTTTAACCTCGATTTCACCA
1 AAAATACCATTTTTAACCTCG-TTTCACCA
8684659 AAAA
1 AAAA
8684663 ATTATCATTT
Statistics
Matches: 134, Mismatches: 20, Indels: 51
0.65 0.10 0.25
Matches are distributed among these distances:
26 3 0.02
27 6 0.04
28 21 0.16
29 46 0.34
30 38 0.28
31 11 0.08
32 9 0.07
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATACCATTTTTAACCTCGTTTCACCA
Found at i:8684582 original size:117 final size:118
Alignment explanation
Indices: 8684368--8684854 Score: 602
Period size: 117 Copynumber: 4.2 Consensus size: 118
8684358 AATTATTCAT
* * *
8684368 AAATTACCATTGTACCCTTGAACTTTCCAAAACCCTATTTTTAACC-A-ATTTTACCAAAAATTA
1 AAATTACCATTTTACCC-CGAACTTTCCAAAACCCTATTTTTAACCTAGATTTCACCAAAAATTA
* * *
8684431 CCATTTTA-CCCCTAAACTTTCTAAAATTCCATTTTTGACCCCAGTTTCACCAA
65 CCATTTTACCCCCAAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAA
* *
8684484 AAAATACCATTTTATCCCCGAACTTTCCAAAATCCC-ATTTTTAACCTCG-TTTCACCAAAAATT
1 AAATTACCATTTTA-CCCCGAACTTTCCAAAA-CCCTATTTTTAACCTAGATTTCACCAAAAATT
* * * *
8684547 ACCATTTTACCTCC-AAACTTTCCAAAATTCTATTTTTAACCTCGGTTTCACCAA
64 ACCATTTTACCCCCAAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAA
* *
8684601 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCC-ATTTTTAACCTCGATTTCACCAAAAAAT
1 AAATTACCATTTTA-CCCCGAACTTTCCAAAA-CCCTATTTTTAACCTAGATTTCACC-AAAAAT
* * * *
8684665 TATCATTTTACCCCC-GAACTTTCCAAAATCCCATTTTTAACCCCAGTTTTACCAA
63 TACCATTTTACCCCCAAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAA
* *
8684720 AAATTATCATTTTACCCCTAAACTTTCCAAAACCCTATTTTTAACCCTAGATTT-ACCAAAAATT
1 AAATTACCATTTTACCCC-GAACTTTCCAAAACCCTATTTTTAA-CCTAGATTTCACCAAAAATT
* * *
8684784 ACCATTTTACCCCCAAAACTTTCC-AAATTCCATTTTTTACCCTAATTTCACC-A
64 ACCATTTTACCCCCAAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAA
8684837 AAATTA-CATTTTTACCCC
1 AAATTACCA-TTTTACCCC
8684855 CGAAAGTCAA
Statistics
Matches: 326, Mismatches: 33, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
116 37 0.11
117 125 0.38
118 59 0.18
119 97 0.30
120 8 0.02
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (118 bp):
AAATTACCATTTTACCCCGAACTTTCCAAAACCCTATTTTTAACCTAGATTTCACCAAAAATTAC
CATTTTACCCCCAAAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCAA
Found at i:8684702 original size:29 final size:28
Alignment explanation
Indices: 8684484--8684819 Score: 106
Period size: 29 Copynumber: 11.5 Consensus size: 28
8684474 GTTTCACCAA
*
8684484 AAAATACCATTTTATCCCCGAACTTTCC
1 AAAATACCATTTTAACCCCGAACTTTCC
* *
8684512 AAAATCCCATTTTTAACCTCG---TTTCACC
1 AAAATACCA-TTTTAACCCCGAACTTT--CC
*
8684540 AAAAATTACCATTTT-ACCTCCAAACTTTCC
1 -AAAA-TACCATTTTAACC-CCGAACTTTCC
* * * *
8684570 AAAATTCTATTTTTAACCTCG--GTTTCACC
1 AAAATACCA-TTTTAACCCCGAACTTT--CC
*
8684599 AAAAATTACCATTTTACCCCCGAACTTTCC
1 -AAAA-TACCATTTTAACCCCGAACTTTCC
* *
8684629 AAAATTCCATTTTTAACCTCG-A-TTTCACC
1 AAAATACCA-TTTTAACCCCGAACTTT--CC
* *
8684658 AAAAAATTATCATTTTACCCCCGAACTTTCC
1 --AAAA-TACCATTTTAACCCCGAACTTTCC
* **
8684689 AAAATCCCATTTTTAACCCC-AGTTTTACC
1 AAAATACCA-TTTTAACCCCGAACTTT-CC
* *
8684718 AAAAATTATCATTTT-ACCCCTAAACTTTCC
1 -AAAA-TACCATTTTAACCCC-GAACTTTCC
* *
8684748 AAAA-CCCTATTTTTAA-CCCTAGA-TTTACC
1 AAAATACC-A-TTTTAACCCCGA-ACTTT-CC
* *
8684777 AAAAATTACCATTTTACCCCCAAAACTTTCC
1 -AAAA-TACCATTTTAACCCC-GAACTTTCC
*
8684808 -AAATTCCATTTT
1 AAAATACCATTTT
8684820 TTACCCTAAT
Statistics
Matches: 227, Mismatches: 39, Indels: 84
0.65 0.11 0.24
Matches are distributed among these distances:
26 3 0.01
27 7 0.03
28 41 0.18
29 81 0.36
30 44 0.19
31 32 0.14
32 16 0.07
33 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAATACCATTTTAACCCCGAACTTTCC
Found at i:8689334 original size:31 final size:31
Alignment explanation
Indices: 8689296--8689393 Score: 121
Period size: 31 Copynumber: 3.2 Consensus size: 31
8689286 TGGCTTAGGC
8689296 ATCAAATTAAACATTAAAACCAATCTCAAGT
1 ATCAAATTAAACATTAAAACCAATCTCAAGT
* *
8689327 ATCAAATTGAAA-A-AAAAACAAAT-TCAAGT
1 ATCAAATT-AAACATTAAAACCAATCTCAAGT
* * *
8689356 ATCAAATTAAACATTGAAACCAAACTCGAGT
1 ATCAAATTAAACATTAAAACCAATCTCAAGT
8689387 ATCAAAT
1 ATCAAAT
8689394 GTTATGTCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
28 3 0.05
29 15 0.27
30 14 0.25
31 21 0.38
32 3 0.05
ACGTcount: A:0.54, C:0.16, G:0.06, T:0.23
Consensus pattern (31 bp):
ATCAAATTAAACATTAAAACCAATCTCAAGT
Found at i:8693826 original size:3 final size:3
Alignment explanation
Indices: 8693818--8693845 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8693808 AATGTACAAT
8693818 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC A
8693846 AGGTTCGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:8700760 original size:18 final size:15
Alignment explanation
Indices: 8700736--8700776 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 15
8700726 AGTAAAAAAA
8700736 TATAATTTCATCATTTT
1 TATAATTT-AT-ATTTT
8700753 TAATAATTTATATTTT
1 T-ATAATTTATATTTT
8700769 TATAATTT
1 TATAATTT
8700777 TTAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.30
16 6 0.26
17 3 0.13
18 7 0.30
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TATAATTTATATTTT
Found at i:8700800 original size:30 final size:30
Alignment explanation
Indices: 8700764--8700828 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
8700754 AATAATTTAT
*
8700764 ATTTTTATAATTTTTA-AAAATTAAAATTAA
1 ATTTTTAT-ATTTTTAGAAAATCAAAATTAA
* *
8700794 ATTTTTATATTTTTAGACAATCAAAATTTA
1 ATTTTTATATTTTTAGAAAATCAAAATTAA
8700824 ATTTT
1 ATTTT
8700829 ATCGGCCCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTTTATATTTTTAGAAAATCAAAATTAA
Found at i:8702058 original size:17 final size:17
Alignment explanation
Indices: 8702038--8702078 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
8702028 ATTTTTTAAC
8702038 TTAATTTAACTT-AATAA
1 TTAATTT-ACTTAAATAA
8702055 TTAA-TTACTTAAAATAA
1 TTAATTTACTT-AAATAA
8702072 TTAATTT
1 TTAATTT
8702079 TTAACTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.19
16 2 0.10
17 13 0.62
18 2 0.10
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATTTACTTAAATAA
Done.