Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 132 of 259
Found at i:42898007 original size:17 final size:18
Alignment explanation
Indices: 42897985--42898024 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
42897975 AGGCCAATTT
*
42897985 GGGCATGTGGGCC-ACAC
1 GGGCATGTAGGCCTACAC
*
42898002 GGGCATGTAGGCCTATAC
1 GGGCATGTAGGCCTACAC
42898020 GGGCA
1 GGGCA
42898025 AGACACACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (18 bp):
GGGCATGTAGGCCTACAC
Found at i:42910789 original size:26 final size:26
Alignment explanation
Indices: 42910760--42910828 Score: 111
Period size: 26 Copynumber: 2.7 Consensus size: 26
42910750 AGAGCAACCA
* * *
42910760 CCAATTCCCCTGCTGTAGCCTCGAAG
1 CCAATTACCCTACTGCAGCCTCGAAG
42910786 CCAATTACCCTACTGCAGCCTCGAAG
1 CCAATTACCCTACTGCAGCCTCGAAG
42910812 CCAATTACCCTACTGCA
1 CCAATTACCCTACTGCA
42910829 TCTCCAAGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.25, C:0.39, G:0.14, T:0.22
Consensus pattern (26 bp):
CCAATTACCCTACTGCAGCCTCGAAG
Found at i:42910843 original size:26 final size:26
Alignment explanation
Indices: 42910762--42910845 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
42910752 AGCAACCACC
* * * * *
42910762 AATTCCCCTGCTGTAGCCTCGAAGCC
1 AATTACCCTACTGCAGCCTCCAAGCA
* *
42910788 AATTACCCTACTGCAGCCTCGAAGCC
1 AATTACCCTACTGCAGCCTCCAAGCA
*
42910814 AATTACCCTACTGCA-TCTCCAAGTCA
1 AATTACCCTACTGCAGCCTCCAAG-CA
42910840 AATTAC
1 AATTAC
42910846 TTTTATTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
25 6 0.12
26 45 0.88
ACGTcount: A:0.27, C:0.36, G:0.13, T:0.24
Consensus pattern (26 bp):
AATTACCCTACTGCAGCCTCCAAGCA
Found at i:42915863 original size:61 final size:58
Alignment explanation
Indices: 42915791--42915918 Score: 150
Period size: 60 Copynumber: 2.2 Consensus size: 58
42915781 TTAAATATAA
* *** * * *
42915791 AAAAATTAATAAATTTAACCTTCAGTGTTTACAAAATTTGTCATTTTAGTT-TGAATTCT
1 AAAAATTAATAAAATTAACC-TCAACATTTACAAAATTCGTCAATTTAATTCT-AATTCT
42915850 AACAAATTCAATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCT
1 AA-AAATT-AATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCT
42915910 AAAAATTAA
1 AAAAATTAA
42915919 AGAAAAAGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
58 2 0.03
59 7 0.12
60 37 0.63
61 13 0.22
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (58 bp):
AAAAATTAATAAAATTAACCTCAACATTTACAAAATTCGTCAATTTAATTCTAATTCT
Found at i:42918058 original size:27 final size:27
Alignment explanation
Indices: 42918017--42918144 Score: 172
Period size: 27 Copynumber: 4.8 Consensus size: 27
42918007 ACCAGATGCA
42918017 ATAT-TGTGGCAGAGCCACCAGAACAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
42918043 ATATATGTGGCAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
42918070 ATA-ATCGTGGCATAGCCACCAGAACAG
1 ATATAT-GTGGCAGAGCCACCAGAACAG
* *
42918097 ATATATATGGCAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
42918124 ATA-ATTGTGGCATAGCCACCA
1 ATATA-TGTGGCAGAGCCACCA
42918145 AGACGCTTCC
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
26 7 0.08
27 81 0.90
28 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
ATATATGTGGCAGAGCCACCAGAACAG
Found at i:42918087 original size:54 final size:54
Alignment explanation
Indices: 42918006--42918144 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 54
42917996 GTGACGAAGT
* *
42918006 CACCAGATGCA-AT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
*
42918059 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
42918113 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
42918145 AGACGCTTCC
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
52 2 0.03
53 10 0.12
54 68 0.85
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
Found at i:42921540 original size:44 final size:44
Alignment explanation
Indices: 42921482--42921705 Score: 270
Period size: 44 Copynumber: 5.1 Consensus size: 44
42921472 AAGAACACCG
* * * ** *
42921482 ATCTGTTATTTTTGATCTGCTCTCTGCAAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCAGCTACAGAGATGCCAA
* * * *
42921526 ATCTGTCATCTTTGATCTGCTCTCTTGACA-ATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTC-CG-CAGCTACAGAGATGCCAA
* * * *
42921571 ATCCGTTATCTTCGATCTGCTCTCCGCTGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCAGCTACAGAGATGCCAA
* *
42921615 ATCTGTTATCTTCGATCTACTCTCCGCTGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCAGCTACAGAGATGCCAA
*
42921659 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCAGCTACAGAGATGCCAA
42921703 ATC
1 ATC
42921706 ATCTTGGATT
Statistics
Matches: 160, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
43 1 0.01
44 120 0.75
45 37 0.23
46 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCAGCTACAGAGATGCCAA
Found at i:42921787 original size:88 final size:87
Alignment explanation
Indices: 42921667--42921856 Score: 308
Period size: 88 Copynumber: 2.2 Consensus size: 87
42921657 AAATCTGTTA
* * *
42921667 TCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTGGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCCGCCGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACA
42921732 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
42921754 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCC-GATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
* *
42921819 ACGTGAAAGTCAAATCAGCTCTG
65 ACGTGAAAGCCAAATCAGCTATG
* *
42921842 TCTCCGATCAGCTCC
1 TCTTCGATCTGCTCC
42921857 TTGTAAGCAC
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 19 0.20
88 76 0.80
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCCGCCGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:42922481 original size:138 final size:138
Alignment explanation
Indices: 42921871--42922474 Score: 1028
Period size: 138 Copynumber: 4.4 Consensus size: 138
42921861 AAGCACAAGA
42921871 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* * * *
42921936 TTAAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTTAATCTACTTCACTGCAA
66 TTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTACTCCACTGCAA
*
42922001 CTTCAAGG
131 CTTCAGGG
* * *
42922009 AGATAAGACTTGTAACTTCGAACTGCACTACTGTAACTTCAGAGAGATAAGATCTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* * * * *
42922074 TTCAATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTACTCCAGTGTAA
66 TTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTACTCCACTGCAA
42922139 CTTCAGGG
131 CTTCAGGG
*
42922147 AGATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* *
42922212 TTCAATCTGTTCCACTGCAACTCCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGCAA
66 TTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTACTCCACTGCAA
42922277 CTTCAGGG
131 CTTCAGGG
*
42922285 AGATAAGACTTGTAACTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
* *
42922350 TTCAATCTGTTCCATTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGCAA
66 TTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTACTCCACTGCAA
42922415 CTTCAGGG
131 CTTCAGGG
*
42922423 AGATAAGACTTATAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA
42922475 CTTGTAACTT
Statistics
Matches: 436, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 436 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (138 bp):
AGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGC
TTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTACTCCACTGCAA
CTTCAGGG
Found at i:42922587 original size:138 final size:138
Alignment explanation
Indices: 42922256--42923713 Score: 2200
Period size: 138 Copynumber: 10.6 Consensus size: 138
42922246 GATTTACTAT
* * * * * ** *
42922256 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAACCTGCTCTACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* * * * * * *
42922320 ACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTCAATCTGTTCCATTGCAACTTCAG-GAAAATA
66 ACTTCAGGGAGATAAGACT-TGT-A---A-CTTCGACCTGCTCTACTGCAACTTCAGAG-AGATA
* *
42922383 AGAT-T-T-A-CTAT
124 AGATCTGTAATTTAG
* * * * * * * *
42922394 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-ATAACTTC-GACCTGCTCTACTGC
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAG-TCTGCTCCACTGC
*
42922457 AACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
65 AACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
42922522 GTAATTTAG
130 GTAATTTAG
* * * *
42922531 CTTCAATCTGTTCCACTGCAACGTCAGGGAAATATGATTTTCTATCTTTAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* *
42922596 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTACTCTACTGCAACTTCAGAGAGATAAGATCTC
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
42922661 TAATTTAG
131 TAATTTAG
* * *
42922669 CTTCAATCTGTTCTACTGCAACTTCAGGGAAATAAAATTTACTATCTTCAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
42922734 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACT-CAACTTCAGAGAGATAAGATCTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
42922798 TAATTTAG
131 TAATTTAG
* * *
42922806 CTTAAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
42922871 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA-CTT
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATC-T
*
42922935 GTAACTTAG
130 GTAATTTAG
42922944 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* *
42923009 ACTTCAAGGAGATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
42923074 TAATTTAG
131 TAATTTAG
*
42923082 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
*
42923147 ACTTCAGGGAGATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
42923212 TAATTTAG
131 TAATTTAG
* * * *
42923220 CTTAAATCTGTTCCACTGCAACTTTAGGGAAATATGATTTGCTATATTCAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
*
42923285 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTACTCTACTGCAACTTCAGAGAGATAAGATCTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
42923350 TAATTTAG
131 TAATTTAG
* *
42923358 TTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTCAGTCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* * *
42923423 ACTTCAAGGAGATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGTGATAAGATCTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
42923488 TAATTTAG
131 TAATTTAG
* * * *
42923496 CTTCAATTTATTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
* *
42923561 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTTTACTGCAACTTCAGAGAGATAAGATTTG
66 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
42923626 TAATTTAG
131 TAATTTAG
* * *
42923634 CTTCAATCTATTCCACTGCAACTTCAGGGAAATACGATTTGCTATCTTCAGGCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
42923699 ACTTCAGGGAGATAA
66 ACTTCAGGGAGATAA
42923714 AATTTGTGAA
Statistics
Matches: 1232, Mismatches: 75, Indels: 26
0.92 0.06 0.02
Matches are distributed among these distances:
133 30 0.02
134 3 0.00
135 1 0.00
136 1 0.00
137 170 0.14
138 1024 0.83
139 3 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (138 bp):
CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCA
ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
TAATTTAG
Found at i:42922596 original size:276 final size:280
Alignment explanation
Indices: 42921993--42923713 Score: 2037
Period size: 276 Copynumber: 6.2 Consensus size: 280
42921983 TAATCTACTT
* * * * * * * * *
42921993 CACTGCAACTTCAAGGAGATAAGACTTG-TAACTTC-GAACTGCACTACTGTAACTTCAGAGAGA
1 CACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAG-TCTGCTCCACTGCAACTTCAGGGAGA
* * * * *
42922056 TAAGA-TCTGTAATTTAGCTTCAATCTGTTCTACTGCAACTTCAGGGAAATAAGAT-T-T--GCT
65 TAAGACT-TGTAATTTAGCTTC-ACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATCT
* * ** * * * * * * *
42922116 ATCTTCAGTCTACTCCAGTGTAACTTCAGGGAGATAAGACTTG-TAACTT-TGACCTGCTCTACT
128 AGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAACTTCAG-TCTGCTCCACT
* * * * * *
42922179 GCAACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTCCAG-GAAA
192 GCAACTTCAGAGAGATAAGACT-TGT-A---A-CTTCGACCTGCTCTACTGCAACTTCAGAG-AG
* * * *
42922242 ATAAGAT-T-T-A-CTATCTTCAGTCTGCTC
250 ATAAGATCTGTAATTTAGCTTCAATCTGTTC
* * * ** * *
42922269 CACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAACCTGCTCTACTGCAACTTCAGAGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* * * * *
42922333 AAGA-TCTGTAATTTAGCTTCAATCTGTTCCATTGCAACTTCAG-GAAAATAAGAT-T-T-A-CT
66 AAGACT-TGTAATTTAGCTTC-ACCTGCTCTACTGCAACTTCAGAG-AGATAAGATCTGTAATCT
* * * * * * * *
42922392 ATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-ATAACTTC-GACCTGCTCTACT
128 AGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAACTTCAG-TCTGCTCCACT
42922455 GCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGAT
192 GCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGAT
42922520 CTGTAATTTAGCTTCAATCTGTTC
257 CTGTAATTTAGCTTCAATCTGTTC
* * * *
42922544 CACTGCAACGTCAGGGAAATATGATTTTCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* * *
42922609 AAGACTTGT-A---A-CTTCGACCTACTCTACTGCAACTTCAGAGAGATAAGATCTCTAATTTAG
66 AAGACTTGTAATTTAGCTTC-ACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAG
* * * *
42922669 CTTCAATCTGTTCTACTGCAACTTCAGGGAAATAAAATTTACTATCTTCAGTCTGCTCCACTGCA
130 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAACTTCAGTCTGCTCCACTGCA
*
42922734 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTACT-CAACTTCAGAGAGATAAGATCTG
195 ACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
*
42922798 TAATTTAGCTTAAATCTGTTC
260 TAATTTAGCTTCAATCTGTTC
* *
42922819 CACTGCAACTTCAGGAAAATAAGATTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
42922884 AAGACTTGT-A---A-CTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGA-CTTGTAA-CTT
66 AAGACTTGTAATTTAGCTTC-ACCTGCTCTACTGCAACTTCAGAGAGATAAGATC-TGTAATC-T
*
42922942 AGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTG
128 AGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAACTTCAGTCTGCTCCACTG
*
42923007 CAACTTCA-AGGAGATAAGACTTGTAACTTTGACCTGCTCTACTGCAACTTCAGAGAGATAAGAT
193 CAACTTCAGA-GAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGAT
42923071 CTGTAATTTAGCTTCAATCTGTTC
257 CTGTAATTTAGCTTCAATCTGTTC
*
42923095 CACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
*
42923160 AAGACTTGTAACTTT-G----ACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAG
66 AAGACTTGTAA-TTTAGCTTCACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAG
* * *
42923220 CTTAAATCTGTTCCACTGCAACTTTAGGGAAATATGATTTGCTATA-TTCAGTCTGCTCCACTGC
130 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTA-ACTTCAGTCTGCTCCACTGC
* *
42923284 AACTTCAGGGAGATAAGACTTGTAACTTCGACCTACTCTACTGCAACTTCAGAGAGATAAGATCT
194 AACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
*
42923349 GTAATTTAGTTTCAATCTGTTC
259 GTAATTTAGCTTCAATCTGTTC
* *
42923371 CACTGCAACTTCAGGGAAATAAGATTTGCTATATTCAGTCTGCTCCACTGCAACTTCAAGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* *
42923436 AAGACTTGTAACTTT-G----ACCTGCTCTACTGCAACTTCAGAGTGATAAGATCTGTAATTTAG
66 AAGACTTGTAA-TTTAGCTTCACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAG
* * * * *
42923496 CTTCAATTTATTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCA
130 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAACTTCAGTCTGCTCCACTGCA
* * *
42923561 ACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTTTACTGCAACTTCAGAGAGATAAGATTTG
195 ACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
*
42923626 TAATTTAGCTTCAATCTATTC
260 TAATTTAGCTTCAATCTGTTC
* *
42923647 CACTGCAACTTCAGGGAAATACGATTTGCTATCTTCAGGCTGCTCCACTGCAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
42923712 AA
66 AA
42923714 AATTTGTGAA
Statistics
Matches: 1311, Mismatches: 99, Indels: 70
0.89 0.07 0.05
Matches are distributed among these distances:
271 59 0.05
272 6 0.00
273 2 0.00
274 3 0.00
275 332 0.25
276 904 0.69
277 5 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (280 bp):
CACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
AAGACTTGTAATTTAGCTTCACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATCTAGC
TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAACTTCAGTCTGCTCCACTGCAA
CTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
AATTTAGCTTCAATCTGTTC
Found at i:42922734 original size:414 final size:418
Alignment explanation
Indices: 42921893--42923713 Score: 2039
Period size: 414 Copynumber: 4.4 Consensus size: 418
42921883 TAACTTCGAC
* * * * *
42921893 CTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTAAATCTGTTCCACTGCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGTAATTTAGCTTCAACCTGCTCCACTGCAAC
* * * * * *
42921957 TTCAG-GAAAATAAGAT-T-T-A-CTATCTTTAATCTACTTCACTGCAACTTCAAGGAGATAAGA
65 TTCAGAG-AAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGA
* * * * * * *
42922017 CTTGTAACTTC-GAACTGCACTACTGTAACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTCAAT
129 CTTATAACTTCAG-TCTGCTCCACTGCAACTTCAGAGAGATAAGACT-TGT-A---A-CTTCGAC
* * * * * ** * *
42922080 CTGTTCTACTGCAACTTCAGGGAAATAAGATTTGCT-A--T--CTTCAGTCTACTCCAGTGTAAC
187 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-TAATTTAGCTTCAATCTGTTCCACTGCAAC
* * * * * *
42922140 TTCAGGGAGATAAGACTTG-TAACTT-TGACCTGCTCTACTGCAACTTC-AGAGAGATAAGA-TC
251 TTCAGGGAAATAAGATTTGCTATCTTCAG-TCTGCTCCACTGCAACTTCAAG-GAGATAAGACT-
* * * * * * * *
42922201 TGTAATTTAGCTTCAATCTGTTCCACTGCAACTCCAG-GAAAATAAGAT-T-T-A-CTATCTTCA
313 TGT-A---A-CTTCGACCTGCTCTACTGCAACTTCAGAG-AGATAAGATCTGTAATTTAGCTTCA
* * * * * *
42922261 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAAC
372 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAAT
* * * * *
42922307 CTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAGCTTCAATCTGTTCCATTGCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGTAATTTAGCTTCAACCTGCTCCACTGCAAC
* * * *
42922371 TTCAG-GAAAATAAGAT-T-T-A-CTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
65 TTCAGAG-AAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGA
* *
42922431 CTTATAACTTC-GACCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTC
129 CTTATAACTTCAG-TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTC
*
42922495 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACGTCAGGG
193 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGG
* * * *
42922560 AAATATGATTTTCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCG
258 AAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCG
* * *
42922625 ACCTACTCTACTGCAACTTCAGAGAGATAAGATCTCTAATTTAGCTTCAATCTGTTCTACTGCAA
323 ACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAA
* * *
42922690 CTTCAGGGAAATAAAATTTACTATCTTCAGT
388 CTTCAGGGAAATAAGATTTGCTATCTTCAAT
* *
42922721 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A---A-CTTCGACCTGCTCTACT-CAACT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTAGCTTCAACCTGCTCCACTGCAACT
* * * * *
42922780 TCAGAGAGATAAGATCTGTAATTTAGCTTAAATCTGTTCCACTGCAACTTCAGGAAAATAAGATT
66 TCAGAGAAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGACT
* *
42922845 TACTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCTCTA
131 TA-TAACTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTA
*
42922910 CTGCAACTTCAGAGAGATAAGA-CTTGTAACTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGA
195 CTGCAACTTCAGAGAGATAAGATC-TGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGA
*
42922974 AATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTGA
259 AATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCGA
42923039 CCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAAC
324 CCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAAC
42923104 TTCAGGGAAATAAGATTTGCTATCTTCAAT
389 TTCAGGGAAATAAGATTTGCTATCTTCAAT
*
42923134 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTT-G-----ACCTGCTCTACTGCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA-TTTAGCTTCAACCTGCTCCACTGCAAC
* * * * * *
42923193 TTCAGAGAGATAAGATCTGTAATTTAGCTTAAATCTGTTCCACTGCAACTTTAGGGAAATATGAT
65 TTCAGAGAAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGAC
* * *
42923258 TTGCTATA-TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTACTC
130 TT-ATA-ACTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTC
*
42923322 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGTTTCAATCTGTTCCACTGCAACTTCAGGG
193 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGG
* *
42923387 AAATAAGATTTGCTATATTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTTG
258 AAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCG
* * *
42923452 ACCTGCTCTACTGCAACTTCAGAGTGATAAGATCTGTAATTTAGCTTCAATTTATTCCACTGCAA
323 ACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAA
*
42923517 CTTCAGGAAAATAAGATTTGCTATCTTCAAT
388 CTTCAGGGAAATAAGATTTGCTATCTTCAAT
* **
42923548 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-A---A-CTTCGACCTGCTTTACTGCAACT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTAGCTTCAACCTGCTCCACTGCAACT
* * * * ** * *
42923608 TCAGAGAGATAAGATTTGTAATTTAGCTTCAATCTATTCCACTGCAACTTCAGGGAAATACGATT
66 TCAGAGAAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGACT
* * * *
42923673 TGCTATCTTCAGGCTGCTCCACTGCAACTTCAGGGAGATAA
131 T-ATAACTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAA
42923714 AATTTGTGAA
Statistics
Matches: 1260, Mismatches: 105, Indels: 84
0.87 0.07 0.06
Matches are distributed among these distances:
408 18 0.01
409 79 0.06
410 6 0.00
411 3 0.00
412 39 0.03
413 383 0.30
414 726 0.58
415 6 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (418 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTAGCTTCAACCTGCTCCACTGCAACT
TCAGAGAAATAAGATCTGTAATCTAGCTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGACT
TATAACTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCGACCTGCTCTAC
TGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAA
TAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCGACC
TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTT
CAGGGAAATAAGATTTGCTATCTTCAAT
Found at i:42927664 original size:19 final size:19
Alignment explanation
Indices: 42927640--42927706 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
42927630 GGGAAAATCT
*
42927640 AATGCAAATGATGCAATAC
1 AATGCAAATGATGCAATGC
*
42927659 AATGCATATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
42927678 AATGCACATGATGCAATGC
1 AATGCAAATGATGCAATGC
42927697 AATGCAAATG
1 AATGCAAATG
42927707 CATGGGATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.22
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:42927677 original size:5 final size:5
Alignment explanation
Indices: 42927650--42927708 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
42927640 AATGCAAATG
*
42927650 ATGCA ATACA ATGCA TATG-- ATGCA ATGCA ATGCA CATG-- ATGCA ATGCA
1 ATGCA ATGCA ATGCA -ATGCA ATGCA ATGCA ATGCA -ATGCA ATGCA ATGCA
42927698 ATGCAA ATGCA
1 ATGC-A ATGCA
42927709 TGGGATGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
3 6 0.13
5 28 0.62
6 11 0.24
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATGCA
Found at i:42927719 original size:24 final size:24
Alignment explanation
Indices: 42927669--42927722 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
42927659 AATGCATATG
*
42927669 ATGCAATGCAATGCACATGATGCA
1 ATGCAATGCAATGCACAGGATGCA
**
42927693 ATGCAATGCAAATGCATGGGATG-A
1 ATGCAATGC-AATGCACAGGATGCA
42927717 ATGCAA
1 ATGCAA
42927723 AGGAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (24 bp):
ATGCAATGCAATGCACAGGATGCA
Found at i:42927720 original size:38 final size:38
Alignment explanation
Indices: 42927640--42927723 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
42927630 GGGAAAATCT
*
42927640 AATGCAAATGATGCAATACAATGCATATGATGCAATGC
1 AATGCAAATGATGCAATACAATGCAAATGATGCAATGC
* * **
42927678 AATGCACATGATGCAATGCAATGCAAATGCATGGGATG-
1 AATGCAAATGATGCAATACAATGCAAATG-ATGCAATGC
42927716 AATGCAAA
1 AATGCAAA
42927724 GGAAAGAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 33 0.85
39 6 0.15
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (38 bp):
AATGCAAATGATGCAATACAATGCAAATGATGCAATGC
Found at i:42930113 original size:13 final size:13
Alignment explanation
Indices: 42930095--42930120 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42930085 AGAACACTAC
42930095 TATAAAAGTAATA
1 TATAAAAGTAATA
42930108 TATAAAAGTAATA
1 TATAAAAGTAATA
42930121 CAAAGACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
TATAAAAGTAATA
Found at i:42931345 original size:12 final size:11
Alignment explanation
Indices: 42931316--42931345 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
42931306 TTGTAAACAA
42931316 AAATAAAAAAG
1 AAATAAAAAAG
42931327 AAATAAAAAAG
1 AAATAAAAAAG
42931338 AAACTAAA
1 AAA-TAAA
42931346 GAACAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (11 bp):
AAATAAAAAAG
Found at i:42931414 original size:13 final size:14
Alignment explanation
Indices: 42931387--42931419 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
42931377 GAAATCCACC
42931387 TTTTCTTTGTGTTT
1 TTTTCTTTGTGTTT
*
42931401 TTTTCTTT-TTTTT
1 TTTTCTTTGTGTTT
42931414 TTTTCT
1 TTTTCT
42931420 GAAATCCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (14 bp):
TTTTCTTTGTGTTT
Found at i:42933332 original size:26 final size:26
Alignment explanation
Indices: 42933301--42933408 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
42933291 TGAAATGTCC
* *
42933301 ATCATGGAACATTTAACTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
42933327 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
42933353 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
42933379 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
42933405 ATCA
1 ATCA
42933409 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:42939537 original size:13 final size:13
Alignment explanation
Indices: 42939519--42939544 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42939509 ATCTTTGTAC
42939519 GGTAAATATTTTA
1 GGTAAATATTTTA
42939532 GGTAAATATTTTA
1 GGTAAATATTTTA
42939545 AAAATTCAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GGTAAATATTTTA
Found at i:42940170 original size:11 final size:10
Alignment explanation
Indices: 42940121--42940182 Score: 51
Period size: 11 Copynumber: 6.3 Consensus size: 10
42940111 TATAAGATTT
42940121 AAAATTAT-A
1 AAAATTATAA
42940130 AAAATATATAA
1 AAAAT-TATAA
*
42940141 AAACTTCATAA
1 AAAATT-ATAA
*
42940152 ACAA--ATAA
1 AAAATTATAA
42940160 AAAA-TATATA
1 AAAATTATA-A
42940170 AAAATTATAA
1 AAAATTATAA
42940180 AAA
1 AAA
42940183 TGTATTGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
8 7 0.16
9 8 0.19
10 13 0.30
11 15 0.35
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAATTATAA
Found at i:42940182 original size:9 final size:9
Alignment explanation
Indices: 42940121--42940183 Score: 65
Period size: 9 Copynumber: 6.6 Consensus size: 9
42940111 TATAAGATTT
42940121 AAAATTATA
1 AAAATTATA
42940130 AAAATATATA
1 AAAAT-TATA
42940140 AAAACTTCATA
1 AAAA-TT-ATA
*
42940151 AACAAATA-A
1 AA-AATTATA
42940160 AAAATATATA
1 AAAAT-TATA
42940170 AAAATTATA
1 AAAATTATA
42940179 AAAAT
1 AAAAT
42940184 GTATTGCATT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
8 2 0.04
9 19 0.41
10 16 0.35
11 7 0.15
12 2 0.04
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATTATA
Found at i:42942556 original size:121 final size:121
Alignment explanation
Indices: 42942342--42942586 Score: 454
Period size: 121 Copynumber: 2.0 Consensus size: 121
42942332 AGTCGAAGTA
* * *
42942342 AGATGAGAAGTTTACTGATTGTTTTAACCAACAACGGTGTTGTTGGTAGAGGACAGACTCTTTGT
1 AGATGAAAAGTTTACTGATTGTTTTAACCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
42942407 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
66 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
*
42942463 AGATGAAAAGTTTACTGATTGTTTTAGCCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
1 AGATGAAAAGTTTACTGATTGTTTTAACCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
42942528 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
66 TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
42942584 AGA
1 AGA
42942587 CACAGCCTGA
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 120 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (121 bp):
AGATGAAAAGTTTACTGATTGTTTTAACCAACAACAGTGTAGTTGGTAGAGGACAGACTCTTTGT
TCCAATGTTCAGGTTTTGATCCTAGCAATGCCACGTATCAAAAGAGAGAGAGACAG
Found at i:42946805 original size:30 final size:29
Alignment explanation
Indices: 42946765--42946823 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
42946755 TAAAAAAAAG
42946765 TAAATTTTTTTTGAAATCAAGAACAAACC
1 TAAATTTTTTTTGAAATCAAGAACAAACC
42946794 TAAATTTTTTTTGAAATCAAGAACAAACC
1 TAAATTTTTTTTGAAATCAAGAACAAACC
42946823 T
1 T
42946824 GCGCAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (29 bp):
TAAATTTTTTTTGAAATCAAGAACAAACC
Found at i:42949305 original size:28 final size:30
Alignment explanation
Indices: 42949258--42949315 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 30
42949248 TATTTTATTA
42949258 TTAATTTTGTTATTATTTTA-AAGGCATTTG
1 TTAATTTTGTTATTATTTTAGAA-GCATTTG
42949288 TTAATTTT-TT-TTATTTTAGAAGCATTTG
1 TTAATTTTGTTATTATTTTAGAAGCATTTG
42949316 CTTGTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 15 0.56
29 4 0.15
30 8 0.30
ACGTcount: A:0.26, C:0.03, G:0.12, T:0.59
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAGAAGCATTTG
Found at i:42950290 original size:18 final size:18
Alignment explanation
Indices: 42950267--42950310 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
42950257 CCACGTTAGT
*
42950267 AAAAAAAGTATATTTT-CA
1 AAAAAAAATAT-TTTTACA
*
42950285 AAAAAAAATCTTTTTACA
1 AAAAAAAATATTTTTACA
42950303 AAAAAAAA
1 AAAAAAAA
42950311 AAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAAAAAATATTTTTACA
Found at i:42950798 original size:17 final size:18
Alignment explanation
Indices: 42950759--42950799 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
42950749 TATTATTGAA
42950759 AATAAAATAAAATAAATT
1 AATAAAATAAAATAAATT
* *
42950777 -TTAAAAT-ATATAAATT
1 AATAAAATAAAATAAATT
42950793 AATAAAA
1 AATAAAA
42950800 AAATTACATC
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAAATAAAATAAATT
Found at i:42950941 original size:27 final size:29
Alignment explanation
Indices: 42950887--42950977 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 29
42950877 TTTATATATT
* **
42950887 TATATTTATTATAAATTTTAGTTCTTTTA
1 TATATTTATTATAAATTTAAACTCTTTTA
42950916 TATATTT-TTATAAATTTAAACT-TTTTA
1 TATATTTATTATAAATTTAAACTCTTTTA
* * * * *
42950943 T-TACTATATTATATATTTTAATTTTTTTA
1 TATA-TTTATTATAAATTTAAACTCTTTTA
42950972 TATATT
1 TATATT
42950978 CTTCAAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
26 2 0.04
27 8 0.16
28 24 0.48
29 14 0.28
30 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (29 bp):
TATATTTATTATAAATTTAAACTCTTTTA
Found at i:42968063 original size:39 final size:39
Alignment explanation
Indices: 42968004--42968166 Score: 227
Period size: 39 Copynumber: 4.2 Consensus size: 39
42967994 TTTAACCCGA
** * *
42968004 ATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCTAG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCTGG
* * *
42968043 ATATATTTCTAGCATATAGCCTGCGGACCTCATGTCCGG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCTGG
* **
42968082 ATATTTTTCCAGCATATAGCTTGCAAACCTCATGTCTGG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCTGG
*
42968121 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCTGG
42968160 ATATTTT
1 ATATTTT
42968167 CAATCTCATA
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (39 bp):
ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCTGG
Found at i:42975186 original size:19 final size:19
Alignment explanation
Indices: 42975159--42975195 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
42975149 TTTTGGATAC
*
42975159 TATTGACATGTCAGTAAGT
1 TATTCACATGTCAGTAAGT
42975178 TATTCACATGTCAGTAAG
1 TATTCACATGTCAGTAAG
42975196 CCCGGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (19 bp):
TATTCACATGTCAGTAAGT
Found at i:42988699 original size:57 final size:57
Alignment explanation
Indices: 42988630--42988760 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 57
42988620 TCGATTTTGA
*
42988630 AAATGGCACTTAGTGTGCGAGTTA-CTGAGGACGACACTTAGTGTGCGAAACATCCAG
1 AAATGGCACTTAGTGTGCGAATTATC-GAGGACGACACTTAGTGTGCGAAACATCCAG
* * * * * *
42988687 AAATGGCTCTTAGTGAGCGAATTATCGAGGATGGCACTTAGTGTGCGAGATATCCAG
1 AAATGGCACTTAGTGTGCGAATTATCGAGGACGACACTTAGTGTGCGAAACATCCAG
* *
42988744 -GACGGCACTTAGTGTGC
1 AAATGGCACTTAGTGTGC
42988761 AATACATCCG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
56 13 0.21
57 48 0.77
58 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (57 bp):
AAATGGCACTTAGTGTGCGAATTATCGAGGACGACACTTAGTGTGCGAAACATCCAG
Found at i:42988729 original size:28 final size:28
Alignment explanation
Indices: 42988632--42988760 Score: 118
Period size: 28 Copynumber: 4.6 Consensus size: 28
42988622 GATTTTGAAA
* *
42988632 ATGGCACTTAGTGTGCGAGTTA-CTGAGG
1 ATGGCACTTAGTGTGCGAATTATC-CAGG
* * ** *
42988660 ACGACACTTAGTGTGCGAAACATCCAGAA
1 ATGGCACTTAGTGTGCGAATTATCCAG-G
* * *
42988689 ATGGCTCTTAGTGAGCGAATTATCGAGG
1 ATGGCACTTAGTGTGCGAATTATCCAGG
42988717 ATGGCACTTAGTGTGCGAGA-TATCCAGG
1 ATGGCACTTAGTGTGCGA-ATTATCCAGG
*
42988745 ACGGCACTTAGTGTGC
1 ATGGCACTTAGTGTGC
42988761 AATACATCCG
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
28 57 0.72
29 22 0.28
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAATTATCCAGG
Found at i:42990949 original size:76 final size:76
Alignment explanation
Indices: 42990861--42991001 Score: 230
Period size: 76 Copynumber: 1.9 Consensus size: 76
42990851 GGACTAAGAT
42990861 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGATACT
42990925 AATTCGGTAAGC
65 AATTCGGTAAGC
* ** *
42990937 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTA
42991002 TAACCGGGCT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
75 1 0.02
76 59 0.98
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (76 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATTCGGTAAGC
Found at i:42991036 original size:40 final size:40
Alignment explanation
Indices: 42990810--42991029 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
42990800 TGAATGATGT
* * * *
42990810 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATC
* *
42990850 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAATC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
* * *
42990890 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AATT
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
42990929 C-GG-TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
42990966 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
42991006 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
42991030 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 12, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
36 23 0.14
37 8 0.05
38 3 0.02
39 8 0.05
40 107 0.67
41 11 0.07
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:42998930 original size:79 final size:80
Alignment explanation
Indices: 42998770--42998994 Score: 255
Period size: 79 Copynumber: 2.8 Consensus size: 80
42998760 TTGAATGATG
* * * * * *
42998770 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGACTAAGTCCTGAAGGCATTTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
42998832 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGATACTAAA
*
42998850 TCCGGACTAAGATCC-GAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCTGAAGGCATTTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
42998912 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
** * *
42998929 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCTGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
42998994 G
66 G
42998995 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
78 3 0.02
79 67 0.53
80 44 0.35
81 12 0.09
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCTGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:42998986 original size:119 final size:120
Alignment explanation
Indices: 42998770--42998994 Score: 298
Period size: 119 Copynumber: 1.9 Consensus size: 120
42998760 TTGAATGATG
*
42998770 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
42998835 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
42998890 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGATCC-GAAGGCAT
* * *
42998952 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGATACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
42998995 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
118 4 0.04
119 68 0.74
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:42999001 original size:40 final size:40
Alignment explanation
Indices: 42998770--42998994 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
42998760 TTGAATGATG
* * * *
42998770 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
42998810 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
42998850 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
42998890 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42998929 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42998970 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42998995 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42999016 original size:79 final size:78
Alignment explanation
Indices: 42998823--42999027 Score: 247
Period size: 79 Copynumber: 2.6 Consensus size: 78
42998813 GGACTAAGAT
*
42998823 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGATACTA
*
42998888 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
* *
42998902 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCC-GGTTAAGATCC-GAAGGCATTTGTGCGAGATACT
*
42998966 -ATAACCGGGCTATGTC
64 AAT-ACCGGGCTAAG-C
** *
42998982 CCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA-ATTCCGAAGG
1 CCGAAGGCATTTGTGCGAGATA-CTAAATCCGGTTAAGA-TCCGAAGG
42999028 TACGTGATTT
Statistics
Matches: 111, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
78 5 0.05
79 76 0.68
80 30 0.27
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGTTAAGATCCGAAGGCATTTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:43014815 original size:39 final size:40
Alignment explanation
Indices: 43014772--43014939 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
43014762 CTCGTTCAAG
* * * *
43014772 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
43014811 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
43014851 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
43014891 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
43014931 TGCCTTCGG
1 TGCCTTCGG
43014940 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:43014923 original size:80 final size:80
Alignment explanation
Indices: 43014807--43014992 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
43014797 AGTAACTCAT
* * *
43014807 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
43014871 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
43014886 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
43014950 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
43014967 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
43014993 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:43014952 original size:40 final size:40
Alignment explanation
Indices: 43014809--43014992 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
43014799 TAACTCATAC
* *
43014809 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
43014849 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
43014889 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
43014929 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
43014970 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43014993 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:43022750 original size:39 final size:39
Alignment explanation
Indices: 43022707--43022923 Score: 167
Period size: 39 Copynumber: 5.5 Consensus size: 39
43022697 CTCGTTCAAG
* * *
43022707 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAA
1 TGCCTTCGGGACTTAACCCGGTTATAGTAACTCACACAA
* * *
43022746 TGCCTTCGGGACTTAACCCGATTTTA-AAACTC-CACGAA
1 TGCCTTCGGGACTTAACCCGGTTATAGTAACTCACAC-AA
* * *
43022784 TGCCTTCGGGACTTAACCCGG-AATTAGTATCTCGCACAA
1 TGCCTTCGGGACTTAACCCGGTTA-TAGTAACTCACACAA
* *
43022823 AGCCTTCGGGACTTAACCCGGAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG--TTATAGTAACTCACAC-AA
** * * *
43022863 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAACCCGGTTATAGTAACTCA-CACAA
* *
43022903 AGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAACCCGG
43022924 ACAGCATTCA
Statistics
Matches: 142, Mismatches: 23, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
37 2 0.01
38 31 0.22
39 61 0.43
40 41 0.29
41 6 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAACCCGGTTATAGTAACTCACACAA
Found at i:43022804 original size:77 final size:77
Alignment explanation
Indices: 43022707--43022922 Score: 231
Period size: 77 Copynumber: 2.8 Consensus size: 77
43022697 CTCGTTCAAG
* * * *
43022707 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAATGCCTTCGGGACTTAACCCGATTTTA
1 TGCCTTCGGGACTTAGCCCGG-TATAGTAACTCACACAAAGCCTTCGGGACTTAACCCGA-ATTA
*
43022772 A-AACTC-CACGAA
64 ATAACTCGCACAAA
* * * *
43022784 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGCCTTCGGGACTTAACCCGGAATTA
1 TGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCACACAAAGCCTTCGGGACTTAACCC-GAATTA
43022849 ATAACTCGCACAAA
64 ATAACTCGCACAAA
* * * *
43022863 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 TGCCTTCGGGA-CTTAGCCCGG-TATAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
43022923 GACAGCATTC
Statistics
Matches: 115, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
76 1 0.01
77 53 0.46
78 10 0.09
79 27 0.23
80 24 0.21
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (77 bp):
TGCCTTCGGGACTTAGCCCGGTATAGTAACTCACACAAAGCCTTCGGGACTTAACCCGAATTAAT
AACTCGCACAAA
Found at i:43022884 original size:40 final size:40
Alignment explanation
Indices: 43022744--43022924 Score: 187
Period size: 39 Copynumber: 4.6 Consensus size: 40
43022734 TAACTCATAC
* *
43022744 AATGCCTTCGGGACTTAACCC-GATTTTAA-AACTC-CACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
43022782 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
43022822 AA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
43022861 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
43022902 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43022925 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
38 24 0.20
39 48 0.39
40 39 0.32
41 11 0.09
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:43022915 original size:80 final size:78
Alignment explanation
Indices: 43022742--43022924 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 78
43022732 AGTAACTCAT
* * *
43022742 ACAATGCCTTCGGGACTTAACCC-GATTTTAAAACTCCACGAATGCCTTCGGGACTTAACCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCCACAAATGCCTTCGGGACTTAACCCGGA
*
43022806 ATTAGTATCTCGC
66 ATTAGTATCTAGC
**
43022819 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAA-AACTC-CACAAATGCCTTCGGGA-CTTAACCC
43022882 GG-ATATAGTCA-CTTAGC
63 GGAAT-TAGT-ATC-TAGC
*
43022899 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
43022925 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
77 26 0.28
78 12 0.13
79 25 0.27
80 29 0.32
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (78 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCCACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTATCTAGC
Found at i:43059807 original size:25 final size:25
Alignment explanation
Indices: 43059779--43059848 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
43059769 CTCTTTTAAT
*
43059779 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
43059804 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
43059829 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
43059849 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:43060802 original size:27 final size:27
Alignment explanation
Indices: 43060772--43060823 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
43060762 GTAAATCTAC
43060772 AAACCAAGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
43060799 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCTATAATTTT
43060824 TAGAAAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:43060875 original size:27 final size:27
Alignment explanation
Indices: 43060845--43060985 Score: 169
Period size: 27 Copynumber: 5.2 Consensus size: 27
43060835 GGGTCTTTCT
*
43060845 GTAATTTT-CTAAATTAGGGGTATTTTG
1 GTAATTTTAC-AAACTAGGGGTATTTTG
* *
43060872 GTAATTTTACAAA-TTGAGGGTATTTCG
1 GTAATTTTACAAACTAG-GGGTATTTTG
* * * *
43060899 ATAATTTCACAAACTAGTGGTATTTCG
1 GTAATTTTACAAACTAGGGGTATTTTG
43060926 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* *
43060953 ATAATTTTACACACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
43060980 GTAATT
1 GTAATT
43060986 CTATCCTATA
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.02
27 93 0.95
28 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
GTAATTTTACAAACTAGGGGTATTTTG
Found at i:43060921 original size:54 final size:54
Alignment explanation
Indices: 43060859--43061018 Score: 191
Period size: 54 Copynumber: 3.0 Consensus size: 54
43060849 TTTTCTAAAT
*
43060859 TAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGATAATTTCACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGATAATTTCACAAAC
* * * * *
43060913 TAGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACACAC
1 TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAAC
* **
43060967 TAGGGGTATTTTGGTAATTCTATCCTA-TAGGGGTATTTC-AGTAATTTCACAA
1 TAGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGA-TAATTTCACAA
43061019 TCGAGGGTAA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
53 1 0.01
54 84 0.94
55 4 0.04
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (54 bp):
TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGATAATTTCACAAAC
Found at i:43061002 original size:81 final size:81
Alignment explanation
Indices: 43060835--43061018 Score: 187
Period size: 81 Copynumber: 2.3 Consensus size: 81
43060825 AGAAAGTTAA
* * * * *
43060835 GGGTCTTTCTGTAATTTT-CTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCG
1 GGGTATTTCAGTAATTTTAC-AAACTAGGGGTATTTTGATAATTTTACAAATAGAGGGTATTTCG
43060899 ATAATTTCACAAACTAG
65 ATAATTTCACAAACTAG
* * * *
43060916 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACACACTAG-GGGTATTTTG
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACA-AATAGAGGGTATTTCG
* **
43060980 GTAA-TTCTATCCTA-TAG
65 ATAATTTC-A-CAAACTAG
*
43060997 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
43061019 TCGAGGGTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
80 3 0.04
81 76 0.89
82 6 0.07
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAATAGAGGGTATTTCGA
TAATTTCACAAACTAG
Found at i:43061025 original size:27 final size:27
Alignment explanation
Indices: 43060859--43061025 Score: 119
Period size: 27 Copynumber: 6.2 Consensus size: 27
43060849 TTTTCTAAAT
* *
43060859 TAGGGGTATTTTGGTAATTTTACAAAT-
1 TAGGGGTATTTCGGTAATTTCAC-AATC
* *
43060886 T-GAGGGTATTTCGATAATTTCACAAAC
1 TAG-GGGTATTTCGGTAATTTCACAATC
* * *
43060913 TAGTGGTATTTCGGTAATTTTACAAAC
1 TAGGGGTATTTCGGTAATTTCACAATC
* * *
43060940 TAGGGGTATTTTGATAATTTTACACA-C
1 TAGGGGTATTTCGGTAATTTCACA-ATC
* * *
43060967 TAGGGGTATTTTGGTAA-TTCTATC-CTA
1 TAGGGGTATTTCGGTAATTTC-A-CAATC
*
43060994 TAGGGGTATTTCAGTAATTTCACAATC
1 TAGGGGTATTTCGGTAATTTCACAATC
*
43061021 GAGGG
1 TAGGG
43061026 TAAAACAGTA
Statistics
Matches: 112, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
26 6 0.05
27 100 0.89
28 6 0.05
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.39
Consensus pattern (27 bp):
TAGGGGTATTTCGGTAATTTCACAATC
Found at i:43061051 original size:27 final size:27
Alignment explanation
Indices: 43061017--43061214 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
43061007 GTAATTTCAC
*
43061017 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
43061044 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
43061071 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
43061098 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
43061125 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
43061152 AATCGAGGGTGAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
43061179 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
43061206 AATCGAGGG
1 AATCGAGGG
43061215 CATTTCAATA
Statistics
Matches: 150, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 148 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:43061134 original size:81 final size:81
Alignment explanation
Indices: 43061017--43061214 Score: 281
Period size: 81 Copynumber: 2.4 Consensus size: 81
43061007 GTAATTTCAC
** * * *
43061017 AATCGAGGGTAAAACAGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGGTAATTTTGTAAATCGAGGGT
* * *
43061081 AAAACGGTAATTTTGTA
65 AAAACAGTAATTCTATA
* *
43061098 AATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
43061163 AAACAGTAATTCTATA
66 AAACAGTAATTCTATA
*
43061179 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
43061215 CATTTCAATA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 103 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:43061227 original size:81 final size:81
Alignment explanation
Indices: 43061061--43061234 Score: 231
Period size: 81 Copynumber: 2.1 Consensus size: 81
43061051 GGTAAAATGG
* * * * *
43061061 TAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAA
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAA
* **
43061126 ATCGAGGGTAAAACGG
66 ATCGAGGGCAAAACAA
*
43061142 TAATTTTGTAAATCGAGGGTGAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAA
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAA
***
43061207 ATCGAGGGCATTTCAA
66 ATCGAGGGCAAAACAA
*
43061223 TAATTTGGTAAA
1 TAATTTTGTAAA
43061235 CTAAAGTATT
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAA
ATCGAGGGCAAAACAA
Found at i:43078548 original size:40 final size:40
Alignment explanation
Indices: 43078493--43078644 Score: 268
Period size: 40 Copynumber: 3.8 Consensus size: 40
43078483 CGGATGATAA
43078493 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
43078533 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* **
43078573 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
43078613 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
43078645 AGCTATATCT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:43086794 original size:39 final size:40
Alignment explanation
Indices: 43086675--43086851 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
43086665 CGGATGATAA
*
43086675 CCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
43086715 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
43086755 CCGGGCTAAGTCCCGAAGGCATTT-TGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
43086794 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
**
43086834 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43086852 TACTTGGTTG
Statistics
Matches: 128, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 55 0.43
40 73 0.57
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:43086807 original size:79 final size:80
Alignment explanation
Indices: 43086675--43086851 Score: 270
Period size: 79 Copynumber: 2.2 Consensus size: 80
43086665 CGGATGATAA
* *
43086675 CCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTACTATTTTCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTG
* *
43086740 TGCGAGTTA-CTATTT
66 AGCGAG-TAGCTATAT
43086755 CCGGGCTAAGTCCCGAAGGCATTT-TGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTG
43086819 AGCGAGTAGCTATAT
66 AGCGAGTAGCTATAT
**
43086834 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43086852 TACTTGGTTG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
78 16 0.18
79 50 0.56
80 24 0.27
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTAGCTATAT
Found at i:43089429 original size:9 final size:9
Alignment explanation
Indices: 43089415--43089441 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
43089405 AATGTGAACA
43089415 TTAAATAAG
1 TTAAATAAG
43089424 TTAAATAAG
1 TTAAATAAG
43089433 TTAAATAAG
1 TTAAATAAG
43089442 AACATGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (9 bp):
TTAAATAAG
Found at i:43094138 original size:24 final size:24
Alignment explanation
Indices: 43094087--43094147 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
43094077 AATATCCAAT
* * *
43094087 GCACTATGTGTGCGGTTTACTATG
1 GCACTATGTGTGCGGTGTAATATA
43094111 GCACTATGTGTGCGAGTGTAAT-TA
1 GCACTATGTGTGCG-GTGTAATATA
*
43094135 GCACTACGTGTGC
1 GCACTATGTGTGC
43094148 AAATTCGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGGTGTAATATA
Found at i:43101994 original size:24 final size:24
Alignment explanation
Indices: 43101943--43102003 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
43101933 AATATCCAAT
* * *
43101943 GCACTATGTGTGCGGTTTACTATG
1 GCACTATGTGTGCGGTGTAATATA
43101967 GCACTATGTGTGCGAGTGTAAT-TA
1 GCACTATGTGTGCG-GTGTAATATA
*
43101991 GCACTACGTGTGC
1 GCACTATGTGTGC
43102004 AGATTCGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGGTGTAATATA
Found at i:43103843 original size:40 final size:40
Alignment explanation
Indices: 43103788--43104032 Score: 311
Period size: 40 Copynumber: 6.2 Consensus size: 40
43103778 CGGATGATAA
* * *
43103788 CGAAGGCATTTGTGCTAATGACTA-ATTCCAGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
*
43103828 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATA-TCCGGGCTAAGTCC
* *
43103868 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAGGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
* *
43103908 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCAAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
43103948 CGAAGGCATTTGTGCGAGCT-ACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCC
* * * *
43103988 CGAAGGCATTTGAGCAAGT-AGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTGA-CTATATCCGGGCTAAGTCC
43104027 CGAAGG
1 CGAAGG
43104033 TACTTGGTTT
Statistics
Matches: 190, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.08
40 172 0.91
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCC
Found at i:43111808 original size:47 final size:47
Alignment explanation
Indices: 43111754--43111947 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
43111744 TTAGGATTTT
** * *
43111754 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
43111801 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
43111848 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
43111895 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCTGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
43111942 ATGTGA
1 ATGTGA
43111948 AATATGTATG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:43111854 original size:22 final size:22
Alignment explanation
Indices: 43111783--43111854 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
43111773 GTATATATGA
43111783 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
43111805 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
43111830 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
43111852 GAT
1 GAT
43111855 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:43111903 original size:25 final size:25
Alignment explanation
Indices: 43111828--43111903 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
43111818 ATGCATATAT
43111828 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
43111853 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
43111875 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
43111900 GTGA
1 GTGA
43111904 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:43112256 original size:37 final size:37
Alignment explanation
Indices: 43112148--43112256 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
43112138 GGAAATATAT
* *
43112148 TCCGGGTAAGACCCGATGACTACGTGCGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
43112185 TCCGGGTAAGACCCGATGACTACGTGTGGTGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
43112222 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
43112257 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:43113656 original size:79 final size:79
Alignment explanation
Indices: 43113525--43113794 Score: 443
Period size: 79 Copynumber: 3.4 Consensus size: 79
43113515 GAGAATTGAG
* *
43113525 AGTGATATATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATATATCC-GGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT-CCG
43113589 AAGAGCATTCGTGCT
65 AAGAGCATTCGTGCT
* * *
43113604 AGTGATATATCCGAGCTAAGTCCCGAAGAGGATTCGTGCTAGTGATGTATCCGGGCTAAGTCCAA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGA
43113669 AGAGCATTCGTGCT
66 AGAGCATTCGTGCT
43113683 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAG-TCCG
43113748 AAGAGCATTCGTGCT
65 AAGAGCATTCGTGCT
* * *
43113763 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
43113795 ATCATGCTGG
Statistics
Matches: 178, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
79 123 0.69
80 55 0.31
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (79 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGA
AGAGCATTCGTGCT
Found at i:43113741 original size:119 final size:118
Alignment explanation
Indices: 43113525--43113794 Score: 423
Period size: 119 Copynumber: 2.3 Consensus size: 118
43113515 GAGAATTGAG
*
43113525 AGTGATATATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATATATCCGGCTAAGTCCCGA
1 AGTGATATATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATATATCCGGCTAAGTCCCGA
*
43113590 AGAGCATTCGTGCTAGTGATATATCCGAGCTAAGTCCCGAAGAGGATTCGTGCT
65 AGAGCATTCGTGCTAGTGATATATCCGAGCTAAGTCCCGAAGAGCATTCGTGCT
* *
43113644 AGTGATGTATCCGGGCTAAGTCCAAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCC-GGCTAAGTCCCGA
* * *
43113709 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
65 AGAGCATTCGTGCTAGTGATATATCCGAGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
43113763 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGT-CCGAAGAGCA
43113795 ATCATGCTGG
Statistics
Matches: 137, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
118 29 0.21
119 99 0.72
120 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (118 bp):
AGTGATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGCTAAGTCCCGAA
GAGCATTCGTGCTAGTGATATATCCGAGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:43113806 original size:40 final size:40
Alignment explanation
Indices: 43113525--43113794 Score: 436
Period size: 40 Copynumber: 6.8 Consensus size: 40
43113515 GAGAATTGAG
*
43113525 AGTGATATATCCGGGCTAAGCCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
43113565 AGTGATATATCC-GGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
43113604 AGTGATATATCCGAGCTAAGTCCCGAAGAGGATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
43113644 AGTGATGTATCCGGGCTAAGT-CCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
43113683 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
43113723 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
43113763 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
43113795 ATCATGCTGG
Statistics
Matches: 212, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 74 0.35
40 138 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:43117875 original size:47 final size:47
Alignment explanation
Indices: 43117821--43118014 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
43117811 TTAGGATTTT
** * *
43117821 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
43117868 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
43117915 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
43117962 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
43118009 ATGTGA
1 ATGTGA
43118015 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:43117921 original size:22 final size:22
Alignment explanation
Indices: 43117850--43117921 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
43117840 GTATATATGA
43117850 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
43117872 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
43117897 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
43117919 GAT
1 GAT
43117922 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:43117970 original size:25 final size:25
Alignment explanation
Indices: 43117895--43117970 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
43117885 ATGCATATAT
43117895 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
43117920 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
43117942 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
43117967 GTGA
1 GTGA
43117971 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:43118270 original size:37 final size:37
Alignment explanation
Indices: 43118220--43118322 Score: 154
Period size: 37 Copynumber: 2.8 Consensus size: 37
43118210 ATATATTCCG
43118220 GGTAAGACCCGATGACTATGTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTATGTGTGGAGATTATGTCCA
* * *
43118257 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTATGTGTGGAGATTATGTCCA
*
43118294 GGTAAGACCCGATAACT-TCGTGTGGAGAT
1 GGTAAGACCCGATGACTAT-GTGTGGAGAT
43118323 GTCGTCTGAG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (37 bp):
GGTAAGACCCGATGACTATGTGTGGAGATTATGTCCA
Found at i:43124631 original size:18 final size:18
Alignment explanation
Indices: 43124608--43124671 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
43124598 TGTAACTTAG
43124608 AAAAATTTTCATGTTTTC
1 AAAAATTTTCATGTTTTC
* **
43124626 AAAAA-TTTCAATCGGTTAG
1 AAAAATTTTC-AT-GTTTTC
43124645 AAAAATTTTCATGTTTTC
1 AAAAATTTTCATGTTTTC
*
43124663 GAAAATTTT
1 AAAAATTTT
43124672 GATTGGTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 4 0.11
18 18 0.50
19 10 0.28
20 4 0.11
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (18 bp):
AAAAATTTTCATGTTTTC
Found at i:43136603 original size:40 final size:40
Alignment explanation
Indices: 43136548--43136751 Score: 254
Period size: 40 Copynumber: 5.1 Consensus size: 40
43136538 CGAAATTTAA
* ** *
43136548 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43136588 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43136628 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43136667 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
43136707 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43136747 CCGGA
1 CCGGA
43136752 CATCATTCGA
Statistics
Matches: 142, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 96 0.68
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43136678 original size:79 final size:81
Alignment explanation
Indices: 43136569--43136751 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
43136559 AACTCGTTCA
* *
43136569 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
43136632 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
43136649 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
43136712 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
43136728 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
43136752 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:43138761 original size:40 final size:40
Alignment explanation
Indices: 43138709--43138900 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
43138699 ATAACCACAA
* * *
43138709 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
43138749 GTACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
43138789 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
43138829 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
43138869 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
43138901 TATTCAAATG
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 135 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:43138793 original size:80 final size:80
Alignment explanation
Indices: 43138680--43138899 Score: 239
Period size: 80 Copynumber: 2.8 Consensus size: 80
43138670 ACCCAAGTTT
* * * * * * * * *
43138680 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
* *
43138743 CAACTCGTACAAATGC
66 C-ACTAGCACAAATGC
* * *
43138759 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
43138823 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
43138839 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
43138900 TTATTCAAAT
Statistics
Matches: 116, Mismatches: 21, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
79 12 0.10
80 97 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:43148097 original size:40 final size:40
Alignment explanation
Indices: 43148042--43148245 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
43148032 CGGAATTTAA
* * ** *
43148042 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43148082 CC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43148122 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43148161 CCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
43148201 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43148241 CCGGA
1 CCGGA
43148246 CATCATTCGA
Statistics
Matches: 142, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 36 0.25
40 89 0.63
41 15 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43148172 original size:79 final size:80
Alignment explanation
Indices: 43148028--43148245 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 80
43148018 AAATCACGTA
* * * ** * * *
43148028 CCTTCGGAATTTAACCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCC-GATTATAG
1 CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
43148092 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
43148107 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATA
43148170 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * * *
43148186 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCGGA
43148246 CATCATTCGA
Statistics
Matches: 119, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 70 0.59
80 46 0.39
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
TAACTCGCACAAATG
Found at i:43152400 original size:82 final size:81
Alignment explanation
Indices: 43152284--43152434 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
43152274 AAATTGTACA
* * * *
43152284 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
43152348 TGCGAAATGACCATGCG
65 TGCGAAATGACCATGCG
** *
43152365 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
43152430 TGCGA
65 TGCGA
43152435 GTTGATTGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 18 0.30
82 43 0.70
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAAATGACCATGCG
Found at i:43152441 original size:27 final size:27
Alignment explanation
Indices: 43152284--43152439 Score: 154
Period size: 27 Copynumber: 5.7 Consensus size: 27
43152274 AAATTGTACA
*
43152284 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
43152311 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* * *
43152338 GCACTAAGTGTGCGAAATGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
43152365 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
43152393 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
43152420 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
43152440 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:43152450 original size:27 final size:27
Alignment explanation
Indices: 43152283--43152460 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
43152273 TAAATTGTAC
*
43152283 AGCACTAAGTGTGCGA-TTCGACTATGT
1 AGCACTAAGTGTGCGAGTT-GATTATGT
* ** *
43152310 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
** ** *
43152336 ATGCACTAAGTGTGCGAAATGACCATGC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
43152364 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
43152392 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
43152419 GGCACTAAGTGTGCGAGTTGATTGTAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
43152446 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43152461 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:43152451 original size:82 final size:81
Alignment explanation
Indices: 43152276--43152460 Score: 201
Period size: 82 Copynumber: 2.3 Consensus size: 81
43152266 GCAGGATTAA
* * * *
43152276 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
43152341 CTAAGTGTGCGAAATG
66 CTAAGTGTGCGAAATG
*** * * ** *
43152357 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
**
43152421 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAAATG
* *
43152439 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
43152461 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
81 21 0.26
82 60 0.74
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAAATG
Found at i:43158110 original size:7 final size:7
Alignment explanation
Indices: 43158100--43158127 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
43158090 TTAATAAGAC
43158100 ATAAATA
1 ATAAATA
43158107 ATAAATA
1 ATAAATA
43158114 ATAAATA
1 ATAAATA
43158121 ATAAATA
1 ATAAATA
43158128 GGGCCAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAATA
Found at i:43159812 original size:34 final size:35
Alignment explanation
Indices: 43159741--43159821 Score: 119
Period size: 34 Copynumber: 2.3 Consensus size: 35
43159731 TACTACTAAT
* *
43159741 AAATTTTTTTACATATTTACTTTAAATCGAAAAAA
1 AAATATTTTTAAATATTTACTTTAAATCGAAAAAA
*
43159776 AAATATTTTTAAATATTTACTTT-AATCGAAAGAA
1 AAATATTTTTAAATATTTACTTTAAATCGAAAAAA
*
43159810 AAATATGTTTAA
1 AAATATTTTTAA
43159822 CGCATTTCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 21 0.50
35 21 0.50
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (35 bp):
AAATATTTTTAAATATTTACTTTAAATCGAAAAAA
Found at i:43161359 original size:27 final size:27
Alignment explanation
Indices: 43161321--43161377 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
43161311 AAGATAGACA
43161321 AAGATGCACTAACTGATTTTTCTGTCT
1 AAGATGCACTAACTGATTTTTCTGTCT
43161348 AAGATGCACTAACTGATTTTTCTGTCT
1 AAGATGCACTAACTGATTTTTCTGTCT
43161375 AAG
1 AAG
43161378 TACTCAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (27 bp):
AAGATGCACTAACTGATTTTTCTGTCT
Found at i:43171207 original size:15 final size:15
Alignment explanation
Indices: 43171183--43171212 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43171173 TTTATATCTT
43171183 TATAAATTTTTTAAA
1 TATAAATTTTTTAAA
*
43171198 TATAATTTTTTTAAA
1 TATAAATTTTTTAAA
43171213 GGGTTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATAAATTTTTTAAA
Found at i:43173908 original size:18 final size:18
Alignment explanation
Indices: 43173885--43173921 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
43173875 TGGAAAAAAC
43173885 TATTTTTATACCTAGATG
1 TATTTTTATACCTAGATG
43173903 TATTTTTATACCTAGATG
1 TATTTTTATACCTAGATG
43173921 T
1 T
43173922 TCTAAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (18 bp):
TATTTTTATACCTAGATG
Found at i:43176322 original size:19 final size:19
Alignment explanation
Indices: 43176298--43176346 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
43176288 TTATAACTTA
43176298 TAAATAAATAAAATTA-TAC
1 TAAATAAATAAAATTAGT-C
* *
43176317 TAAATATATAATATTAGTC
1 TAAATAAATAAAATTAGTC
43176336 TAATATAAATA
1 TAA-ATAAATA
43176347 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAATAAATAAAATTAGTC
Found at i:43177256 original size:26 final size:26
Alignment explanation
Indices: 43177214--43177264 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43177204 AAGCACTGAA
* *
43177214 AAACAAAGTTATTCCAATTT-TTTTG
1 AAACAAAATTATCCCAATTTGTTTTG
43177239 AAACGAAAATTATCCCAATTTGTTTT
1 AAAC-AAAATTATCCCAATTTGTTTT
43177265 TAAAATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 14 0.64
27 4 0.18
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (26 bp):
AAACAAAATTATCCCAATTTGTTTTG
Found at i:43178591 original size:21 final size:20
Alignment explanation
Indices: 43178565--43178613 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
43178555 ATATAAATAA
**
43178565 ATTATTTATATTAAATTTTTT
1 ATTATTTAT-TTAAAAATTTT
43178586 ATTA-TTATTTAAAAATTTT
1 ATTATTTATTTAAAAATTTT
43178605 ATATATTTA
1 AT-TATTTA
43178614 GTAGTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.46
20 6 0.25
21 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTATTTATTTAAAAATTTT
Found at i:43179108 original size:32 final size:30
Alignment explanation
Indices: 43179049--43179112 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
43179039 CTTTTTTAAA
*
43179049 ATTAAAAAAATCATAATTATCTTAAAAATT
1 ATTAAAAAAATCATAATCATCTTAAAAATT
43179079 ATTAAAAAAATCA-AATCATTCATTAAAAAATT
1 ATTAAAAAAATCATAATCA-TC-TT-AAAAATT
43179111 AT
1 AT
43179113 AAATTTCAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 4 0.13
30 15 0.50
31 2 0.07
32 9 0.30
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (30 bp):
ATTAAAAAAATCATAATCATCTTAAAAATT
Found at i:43180010 original size:24 final size:24
Alignment explanation
Indices: 43179982--43180063 Score: 62
Period size: 24 Copynumber: 3.3 Consensus size: 24
43179972 TTCTCTTCAC
43179982 AATAAAAATAATTGAATCTTGCAA
1 AATAAAAATAATTGAATCTTGCAA
*
43180006 AAT-AAAATATTCTGAAATCTTATG-AA
1 AATAAAAATAAT-TG-AATC-T-TGCAA
* *
43180032 CAA-AAACAAAAATTGAGTCTTGCAA
1 -AATAAA-AATAATTGAATCTTGCAA
43180057 AATAAAA
1 AATAAAA
43180064 TATTTCAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
23 7 0.16
24 10 0.22
25 10 0.22
26 6 0.13
27 8 0.18
28 4 0.09
ACGTcount: A:0.55, C:0.10, G:0.09, T:0.27
Consensus pattern (24 bp):
AATAAAAATAATTGAATCTTGCAA
Found at i:43183871 original size:15 final size:15
Alignment explanation
Indices: 43183851--43183884 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
43183841 GAGTTCCATA
*
43183851 AGAAATATATCAGCC
1 AGAAATATATCAACC
*
43183866 AGAAATTTATCAACC
1 AGAAATATATCAACC
43183881 AGAA
1 AGAA
43183885 CCACAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (15 bp):
AGAAATATATCAACC
Found at i:43186198 original size:40 final size:40
Alignment explanation
Indices: 43186114--43186338 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
43186104 TTGAATGATG
* * * *
43186114 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
43186154 TCCGGACTAAGAT-CTGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43186194 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43186233 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43186273 TCCGGGTTAAGTCCCGAAGGAATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
43186314 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43186339 AATGAGGAGC
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 32 0.20
40 116 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43186356 original size:80 final size:80
Alignment explanation
Indices: 43186188--43186371 Score: 196
Period size: 80 Copynumber: 2.3 Consensus size: 80
43186178 TGTGCGAGAT
* * * * *
43186188 ACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGAATTGGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAG
** *
43186252 GCATTTGTGCGAGTT
66 GCATTTGAACGAGTG
* *
43186267 ACTAAATCCGGGTTAAGTCCCGAAGGAATTTGTGCGAGTTACTATAA-CCAGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAGTCCCGAAGGAATTGGTGCGAGTTACTA-AATCCAGGCTAAGTCCCGAA
*
43186331 GGCATTTGAATGAG-G
65 GGCATTTGAACGAGTG
* * *
43186346 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
43186372 TACGTGATTT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
79 30 0.34
80 56 0.64
81 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGAATTGGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAG
GCATTTGAACGAGTG
Found at i:43189715 original size:44 final size:44
Alignment explanation
Indices: 43189639--43189722 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
43189629 ATTATCACCC
* ** *
43189639 GGGAAAGGCTAATGTTGGGCAATTTAGAAATTCCTGTAATTCCT
1 GGGAAAAGCTAATGTTGGGCAAACTAGAAATTCCCGTAATTCCT
* * *
43189683 GGGAAAAGCTAATGTTGTGCAAACTCGTAATTCCCGTAAT
1 GGGAAAAGCTAATGTTGGGCAAACTAGAAATTCCCGTAAT
43189723 AATCCATTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (44 bp):
GGGAAAAGCTAATGTTGGGCAAACTAGAAATTCCCGTAATTCCT
Found at i:43196382 original size:39 final size:40
Alignment explanation
Indices: 43196270--43196452 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
43196260 TACTCGTTCA
* *
43196270 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACC
*
43196310 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
*
43196350 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
* * * * * *
43196389 AATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA-C
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACC
*
43196429 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
43196453 CATCATTCGA
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 79 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
Found at i:43196412 original size:79 final size:81
Alignment explanation
Indices: 43196270--43196452 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
43196260 TACTCGTTCA
* *
43196270 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
43196334 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* * **
43196350 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACCAATGCCTT-TGGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
43196412 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
43196429 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
43196453 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:43215736 original size:38 final size:38
Alignment explanation
Indices: 43215636--43215799 Score: 229
Period size: 38 Copynumber: 4.2 Consensus size: 38
43215626 TCGAAATATG
*
43215636 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
43215674 ATATCTGGGTTGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATC-CGG--GTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
43215715 ATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
43215753 ATATCCAGGTTAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
43215791 ATATTCGGG
1 ATATCCGGG
43215800 CCTTTAAGCC
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
38 74 0.66
39 2 0.02
40 2 0.02
41 34 0.30
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:43215889 original size:45 final size:45
Alignment explanation
Indices: 43215793--43215920 Score: 140
Period size: 46 Copynumber: 2.9 Consensus size: 45
43215783 CTGGTATTAT
* * * * *
43215793 ATTCGGGCCTTT-AAGCCTAACAGACTATTATGCCGGTGAGACATT
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-ACATG
43215838 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA-ATG
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAACATG
* *
43215882 ATATCGGGCC--TCGAGCCTAGCAGGCGA-AATGCTGGTGAA
1 AT-TCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
43215921 TGAATAAAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 11 0.15
43 16 0.22
44 4 0.05
45 20 0.27
46 23 0.31
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (45 bp):
ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAACATG
Found at i:43219293 original size:43 final size:42
Alignment explanation
Indices: 43219196--43219300 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
43219186 CTCATCCATA
* *
43219196 ATGAACTCGAACCTCTCAACAAGTTCAAGTGCCACATAAATC
1 ATGAACTCGGACCACTCAACAAGTTCAAGTGCCACATAAATC
* * * * *
43219238 ACGAACTTGGACCACTCAACAAGTTC-GGATTCTCACATATATC
1 ATGAACTCGGACCACTCAACAAGTTCAAG-TGC-CACATAAATC
43219281 ATGAACTCGGACCACTCAAC
1 ATGAACTCGGACCACTCAAC
43219301 GAGCTCGAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 24 0.46
43 27 0.52
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (42 bp):
ATGAACTCGGACCACTCAACAAGTTCAAGTGCCACATAAATC
Found at i:43229499 original size:119 final size:120
Alignment explanation
Indices: 43229317--43229539 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
43229307 TCCTTGTTCA
* *
43229317 AATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAGCTCGCACAAATACCTTCGGGACTTAACCCGGAT
* *
43229382 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
43229437 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAGCTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
43229499 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
43229540 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAGCTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:43229539 original size:40 final size:39
Alignment explanation
Indices: 43229315--43229539 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 39
43229305 GCTCCTTGTT
* *
43229315 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTA-CTCGCA
* *
43229355 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTCGCA
* *
43229395 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTCGCA
*
43229435 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA-CTCGCA
* * * *
43229474 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AC-TCGCA
43229515 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43229540 CATCATTCAA
Statistics
Matches: 162, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
38 3 0.02
39 29 0.18
40 116 0.72
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTCGCA
Found at i:43237502 original size:39 final size:40
Alignment explanation
Indices: 43237345--43237569 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
43237335 GCTCCTCGTT
* * *
43237345 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
43237385 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
43237425 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
43237465 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
43237504 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
43237545 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
43237570 CATCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 114 0.72
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:43237529 original size:119 final size:120
Alignment explanation
Indices: 43237347--43237569 Score: 276
Period size: 119 Copynumber: 1.9 Consensus size: 120
43237337 TCCTCGTTCA
* *
43237347 AATGCCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAGCTCGCACAAATACCTTCGGGACTTAACCCGGAT
* *
43237412 TTAGTAAC-TCGCACAAATGCCTTC-AGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGA-GACTTAACCCGGATTTAGTAACTCGCACC
* * **
43237467 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAGCTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
43237529 ATATGGTCACTTAGCACAAAGCCTTCGAGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGAGACTTAACCCGGA
43237570 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
118 4 0.05
119 63 0.72
120 21 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAGCTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:43243686 original size:26 final size:26
Alignment explanation
Indices: 43243657--43243706 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
43243647 AATCATGCAT
*
43243657 CACATA-AGGGCAAAACAGTCATTTGC
1 CACATAGA-GGCAAAACAATCATTTGC
*
43243683 CACATAGAGGCATAACAATCATTT
1 CACATAGAGGCAAAACAATCATTT
43243707 TATCAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (26 bp):
CACATAGAGGCAAAACAATCATTTGC
Found at i:43244798 original size:22 final size:23
Alignment explanation
Indices: 43244773--43244848 Score: 84
Period size: 24 Copynumber: 3.3 Consensus size: 23
43244763 AATGGGGACA
* *
43244773 GGAAATAGCAAATTGGCAG-CAG
1 GGAAATAGCAAATCGGCAGAAAG
43244795 GGAAATAGC-AATCGGCAGTAAAG
1 GGAAATAGCAAATCGGCAG-AAAG
* *
43244818 GGAAATAGCAAATCGACAGTAGAG
1 GGAAATAGCAAATCGGCAG-AAAG
43244842 GGAAATA
1 GGAAATA
43244849 AAATCAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.17
22 9 0.19
23 11 0.23
24 19 0.40
ACGTcount: A:0.45, C:0.12, G:0.30, T:0.13
Consensus pattern (23 bp):
GGAAATAGCAAATCGGCAGAAAG
Found at i:43244823 original size:23 final size:24
Alignment explanation
Indices: 43244793--43244848 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
43244783 AATTGGCAGC
*
43244793 AGGGAAATAGC-AATCGGCAGTAA
1 AGGGAAATAGCAAATCGACAGTAA
*
43244816 AGGGAAATAGCAAATCGACAGTAG
1 AGGGAAATAGCAAATCGACAGTAA
43244840 AGGGAAATA
1 AGGGAAATA
43244849 AAATCAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 11 0.37
24 19 0.63
ACGTcount: A:0.46, C:0.11, G:0.30, T:0.12
Consensus pattern (24 bp):
AGGGAAATAGCAAATCGACAGTAA
Found at i:43248391 original size:19 final size:18
Alignment explanation
Indices: 43248369--43248407 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
43248359 ATGAAATTTG
43248369 ATTAGTATTATGAGAGAAA
1 ATTAGTATTATGAGA-AAA
* *
43248388 ATTATTATTATTAGAAAA
1 ATTAGTATTATGAGAAAA
43248406 AT
1 AT
43248408 ATTACTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (18 bp):
ATTAGTATTATGAGAAAA
Found at i:43250912 original size:20 final size:20
Alignment explanation
Indices: 43250889--43250927 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
43250879 TAAACATGGT
43250889 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
43250909 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
43250928 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:43251024 original size:25 final size:25
Alignment explanation
Indices: 43250977--43251129 Score: 192
Period size: 24 Copynumber: 6.2 Consensus size: 25
43250967 GGAGGAAGTG
43250977 TAAAGGGCTTATG-CCCAGTTATGA
1 TAAAGGGCTTATGCCCCAGTTATGA
43251001 TAAAGGGCTTATGCCCCAGTTATGA
1 TAAAGGGCTTATGCCCCAGTTATGA
*
43251026 TAAAGGGCTTATGCCCCAGTTATTA
1 TAAAGGGCTTATGCCCCAGTTATGA
*
43251051 -AAAGGGCTTATGCCCCAGTTATTA
1 TAAAGGGCTTATGCCCCAGTTATGA
*
43251075 -AAAGGGCTT-TGCCCCAGTTATTA
1 TAAAGGGCTTATGCCCCAGTTATGA
*
43251098 -AAAGAGGC-TAGGCCTCCAGATATATGA
1 TAAAG-GGCTTATGCC-CCAG-T-TATGA
43251125 TAAAG
1 TAAAG
43251130 CAGCTATGCT
Statistics
Matches: 119, Mismatches: 3, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
23 19 0.16
24 52 0.44
25 39 0.33
26 1 0.01
27 4 0.03
28 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (25 bp):
TAAAGGGCTTATGCCCCAGTTATGA
Found at i:43251055 original size:49 final size:49
Alignment explanation
Indices: 43250977--43251129 Score: 206
Period size: 49 Copynumber: 3.1 Consensus size: 49
43250967 GGAGGAAGTG
*
43250977 TAAAGGGCTTATG-CCCAGTTATGATAAAGGGCTTATGCCCCAGTTATGA
1 TAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTATGCCCCAGTTATGA
*
43251026 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA
1 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATGA
*
43251075 -AAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGATATATGA
1 TAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAG-T-TATGA
43251125 TAAAG
1 TAAAG
43251130 CAGCTATGCT
Statistics
Matches: 94, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
47 23 0.24
48 16 0.17
49 37 0.39
50 14 0.15
51 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (49 bp):
TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATGA
Found at i:43251349 original size:31 final size:31
Alignment explanation
Indices: 43251314--43251377 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
43251304 TGTTTACAGT
*
43251314 AAAGGCTTCGGCCCAATAATGTGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* **
43251345 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
43251376 AA
1 AA
43251378 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:43254923 original size:43 final size:42
Alignment explanation
Indices: 43254819--43255086 Score: 195
Period size: 43 Copynumber: 6.2 Consensus size: 42
43254809 AGGATTTTCA
* * * ** *
43254819 ATATATGATTACGTGTAAGACCATGTATGGGACATCGGCATCG
1 ATATGTGATT-CGTGTAAGACCACGTCTGGGATGTTGGCATCG
* *
43254862 -TATTTGATTCGTGTAAGACCACGTCTGCGATGTTGGCATCG
1 ATATGTGATTCGTGTAAGACCACGTCTGGGATGTTGGCATCG
* ** *
43254903 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCG
1 ATATGTGATT-CGTGTAAGACCACGTCTGGGATGTTGGCATCG
* * *
43254946 -TATTTGATTCGTGTAAGTACC-CTATCTGGGACAG-TGGCATCG
1 ATATGTGATTCGTGTAAG-ACCAC-GTCTGGGA-TGTTGGCATCG
*
43254988 ATATGTGATTCCATGTAAGACCACGTCTGGGATGTTGGCATTGTACG
1 ATATGTGATT-CGTGTAAGACCACGTCTGGGATGTTGGCA---T-CG
* * ****
43255035 ATATGTG-TGTGCGAGTAAGACCACGTTTAATTTGTTGGCATCG
1 ATATGTGAT-T-CGTGTAAGACCACGTCTGGGATGTTGGCATCG
43255078 ATATGTGAT
1 ATATGTGAT
43255087 CCCGATATGT
Statistics
Matches: 179, Mismatches: 31, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
41 34 0.19
42 42 0.23
43 59 0.33
44 10 0.06
46 2 0.01
47 32 0.18
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
ATATGTGATTCGTGTAAGACCACGTCTGGGATGTTGGCATCG
Found at i:43254974 original size:42 final size:42
Alignment explanation
Indices: 43254819--43255019 Score: 219
Period size: 43 Copynumber: 4.7 Consensus size: 42
43254809 AGGATTTTCA
* *
43254819 ATATATGATTACGTGTAAGACCATGTATGGGACATCGGCATCG
1 ATATGTGATT-CGTGTAAGACCATGTCTGGGACATCGGCATCG
* * * ** *
43254862 -TATTTGATTCGTGTAAGACCACGTCTGCGATGTTGGCATCG
1 ATATGTGATTCGTGTAAGACCATGTCTGGGACATCGGCATCG
43254903 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCG
1 ATATGTGATT-CGTGTAAGACCATGTCTGGGACATCGGCATCG
* * *
43254946 -TATTTGATTCGTGTAAGTACCCTATCTGGGACAGT-GGCATCG
1 ATATGTGATTCGTGTAAG-ACCATGTCTGGGACA-TCGGCATCG
* *
43254988 ATATGTGATTCCATGTAAGACCACGTCTGGGA
1 ATATGTGATT-CGTGTAAGACCATGTCTGGGA
43255020 TGTTGGCATT
Statistics
Matches: 131, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
41 34 0.26
42 44 0.34
43 46 0.35
44 7 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
ATATGTGATTCGTGTAAGACCATGTCTGGGACATCGGCATCG
Found at i:43255028 original size:85 final size:84
Alignment explanation
Indices: 43254819--43255019 Score: 280
Period size: 84 Copynumber: 2.4 Consensus size: 84
43254809 AGGATTTTCA
* * *
43254819 ATATATGATTACGTGTAAGACCATGTATGGGACATCGGCATCGTATTTGATTCGTGTAAGACCAC
1 ATATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCGTGTAAGACCAC
* *
43254884 GTCTGCGATGTTGGCATCG
66 ATCTGCGAAGTTGGCATCG
*
43254903 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCGTGTAAGTACC-
1 ATATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCGTGTAAG-ACCA
*
43254967 CTATCTGGGACAG-TGGCATCG
65 C-ATCTGCGA-AGTTGGCATCG
* *
43254988 ATATGTGATTCCATGTAAGACCACGTCTGGGA
1 ATATGTGATTACATGTAAGACCATGTCTGGGA
43255020 TGTTGGCATT
Statistics
Matches: 106, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
84 59 0.56
85 46 0.43
86 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (84 bp):
ATATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCGTGTAAGACCAC
ATCTGCGAAGTTGGCATCG
Found at i:43256478 original size:13 final size:14
Alignment explanation
Indices: 43256450--43256482 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
43256440 CATTTCAACC
*
43256450 ATGTTTATATTTAT
1 ATGTTTATATTGAT
43256464 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
43256477 ATGTTT
1 ATGTTT
43256483 GTTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:43257836 original size:48 final size:48
Alignment explanation
Indices: 43257631--43257865 Score: 146
Period size: 48 Copynumber: 4.9 Consensus size: 48
43257621 TATGCCGGAT
** * * * *
43257631 ATGGTCTTACATGGGGCCACGTATCAATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACATAACGATGCCAATGCCATGTCCCAAAC
* * * *
43257679 ATGGTCTTACATGGGATCACACTTATCGAAGCCGAT---A-G-CCC-AGC
1 ATGGTCTTACATGGGATCACA--TAACGATGCCAATGCCATGTCCCAAAC
* * * * * *
43257723 TACGGTCTTACACGATG-TGCTCATATCGATGCCAATGCCATGTCCCAGAC
1 -ATGGTCTTACATG-GGAT-CACATAACGATGCCAATGCCATGTCCCAAAC
* *
43257773 ATGGTCTTATATGGGATCACATAACGATGCCAATGCCGTG-CACCAAAC
1 ATGGTCTTACATGGGATCACATAACGATGCCAATGCCATGTC-CCAAAC
* * * *
43257821 ATGGTCTTACATGGGATCATA-AACCAATGCCGATGCCATATCCCA
1 ATGGTCTTACATGGGATCACATAA-CGATGCCAATGCCATGTCCCA
43257866 GATATGGCCT
Statistics
Matches: 142, Mismatches: 30, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
44 12 0.08
45 15 0.11
46 5 0.04
47 5 0.04
48 79 0.56
49 15 0.11
50 11 0.08
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACATAACGATGCCAATGCCATGTCCCAAAC
Done.