Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 68 of 175
Found at i:20311938 original size:23 final size:23
Alignment explanation
Indices: 20311899--20313261 Score: 443
Period size: 23 Copynumber: 60.0 Consensus size: 23
20311889 TTTCCAGCAC
* *
20311899 TTAAACACTTCAATTTACATCAA
1 TTAAACACCTCAATTTACAACAA
* *
20311922 TTGAGCACCTCAATTTACAACAA
1 TTAAACACCTCAATTTACAACAA
* * *
20311945 TTAAACACTTCAATTTACAGCAT
1 TTAAACACCTCAATTTACAACAA
* *
20311968 TTAAACACCTCAACTTACAACAC
1 TTAAACACCTCAATTTACAACAA
* * *
20311991 TTTAACATCC-CAATTAACAACAT
1 TTAAACA-CCTCAATTTACAACAA
* * * * *
20312014 TTATACAACTCTA-TTACAGCGA
1 TTAAACACCTCAATTTACAACAA
*
20312036 -TAAACATCTCAATTT-CAAGCAA
1 TTAAACACCTCAATTTACAA-CAA
* * * * *
20312058 CTAAACTA-TTCAATTTGCAGCAC
1 TTAAAC-ACCTCAATTTACAACAA
* * ** *
20312081 TTGAACACTTCAATTTACTTCAT
1 TTAAACACCTCAATTTACAACAA
* * * *
20312104 TTGAGCACCTAAATTTACATCAA
1 TTAAACACCTCAATTTACAACAA
* * * *
20312127 TTAAACACTTCAATTTATAGCAT
1 TTAAACACCTCAATTTACAACAA
* * *
20312150 TTAAACACCTCAACTTCCAACAC
1 TTAAACACCTCAATTTACAACAA
* * * * *
20312173 TTTAACACCCCAAATAACAACAT
1 TTAAACACCTCAATTTACAACAA
* * *
20312196 TTATACACCTCAA-TTACAGCGA
1 TTAAACACCTCAATTTACAACAA
** * * * *
20312218 -TAAACATTTAAAATTCCAGCAA
1 TTAAACACCTCAATTTACAACAA
* * * *
20312240 CTAAACAACTCAATTTGCAACAC
1 TTAAACACCTCAATTTACAACAA
* * * * *
20312263 TTACACACTTTAATTTACATCAT
1 TTAAACACCTCAATTTACAACAA
* *
20312286 TTGAGCACCTCAATTTACAACAA
1 TTAAACACCTCAATTTACAACAA
* * * *
20312309 TTAAACACTTCAATTTATAGCAT
1 TTAAACACCTCAATTTACAACAA
* * *
20312332 TTAAACACTTCAACTTACAACAC
1 TTAAACACCTCAATTTACAACAA
* * * *
20312355 TTTAACATCTCAATTAACAACAT
1 TTAAACACCTCAATTTACAACAA
* * * *
20312378 TTATACACCTCAA-TAACAGCGA
1 TTAAACACCTCAATTTACAACAA
* **
20312400 -TAAACATCTCAATTT-CTGGCAA
1 TTAAACACCTCAATTTAC-AACAA
* * ** * * *
20312422 CTAAAAAATTCAATTTGCAGCAC
1 TTAAACACCTCAATTTACAACAA
* * *
20312445 TTAAACACTTCAACTTACATA-AT
1 TTAAACACCTCAATTTACA-ACAA
*
20312468 TTGAACACCTCAA-TTAGCAACAA
1 TTAAACACCTCAATTTA-CAACAA
* * * *
20312491 TTAAACACTTCAATTTATAGCAT
1 TTAAACACCTCAATTTACAACAA
* *
20312514 TTAAACACCTCAAATTACAACAC
1 TTAAACACCTCAATTTACAACAA
* * *
20312537 TTGAACATCC-CAATTAACAACAT
1 TTAAACA-CCTCAATTTACAACAA
* * * *
20312560 TTATACACCTTAA-TTACAGCGA
1 TTAAACACCTCAATTTACAACAA
* * **
20312582 -TAAACATCTCAATTTCCAGGAA
1 TTAAACACCTCAATTTACAACAA
* ** ** * *
20312604 CTAAACAATTCAATTTTTATCAC
1 TTAAACACCTCAATTTACAACAA
* * *
20312627 TTAAACACTTCAATTTACATCAT
1 TTAAACACCTCAATTTACAACAA
* * * * *
20312650 TTGAGCTCCTTAATTTATAACAA
1 TTAAACACCTCAATTTACAACAA
* * * * *
20312673 TTACACACTTCAATTTATAGCAT
1 TTAAACACCTCAATTTACAACAA
*
20312696 TTAAACACCTC-ATCTTACAACAC
1 TTAAACACCTCAAT-TTACAACAA
* *
20312719 TTTAACATCC-CAATTAACAAC-A
1 TTAAACA-CCTCAATTTACAACAA
*
20312741 TTAATACACCTCAA-TTACAACGA
1 TTAA-ACACCTCAATTTACAACAA
* **
20312764 -TAAACATCTCAATTT-CTGGCAA
1 TTAAACACCTCAATTTAC-AACAA
* ** * *
20312786 CTAAACAATTCAATTTGCAGA-AC
1 TTAAACACCTCAATTTACA-ACAA
* * * *
20312809 TTAAACACTTTAATTTACATCAT
1 TTAAACACCTCAATTTACAACAA
* * *
20312832 TTGAGCACCTCAGTTTACAACAA
1 TTAAACACCTCAATTTACAACAA
* * * *
20312855 TTAAACACTTCAATTTATAGCAT
1 TTAAACACCTCAATTTACAACAA
* *
20312878 TTAAACACCTCAACTTACAACAC
1 TTAAACACCTCAATTTACAACAA
* * *
20312901 TTTACCATCC-CAATTAACAAC-A
1 TTAAACA-CCTCAATTTACAACAA
* *
20312923 TTAATACACCTCAA-TTACAGCGA
1 TTAA-ACACCTCAATTTACAACAA
* *
20312946 -TAAACATCTCAATTT-CTAGCAA
1 TTAAACACCTCAATTTAC-AACAA
* ** * *
20312968 CTAAACAATTCAATTTGCAGCAA
1 TTAAACACCTCAATTTACAACAA
* * *
20312991 TT--ACACTTCAATTTACATCAT
1 TTAAACACCTCAATTTACAACAA
* * * *
20313012 TTGAGCACATCAAATTACAACAA
1 TTAAACACCTCAATTTACAACAA
** * * *
20313035 TTAAACAATTCAATTGACAGCAT
1 TTAAACACCTCAATTTACAACAA
* * *
20313058 TTAAACAACTCAACTTACAACAC
1 TTAAACACCTCAATTTACAACAA
* * *
20313081 TTTAACATCC-CAATTAACAACAT
1 TTAAACA-CCTCAATTTACAACAA
* * *
20313104 TTATACACCTCAA-TTACAGCGA
1 TTAAACACCTCAATTTACAACAA
* * **
20313126 -TAAACATCTCAATTTCCTGCAA
1 TTAAACACCTCAATTTACAACAA
* * ** * * *
20313148 CTAAAAAATTCAATTTGCAGCAC
1 TTAAACACCTCAATTTACAACAA
* * * *
20313171 TTAAACACTTCAACTTACATCAT
1 TTAAACACCTCAATTTACAACAA
* * *
20313194 TTGAGCACCTCAA-TTAGCAATAA
1 TTAAACACCTCAATTTA-CAACAA
* * * *
20313217 TTAAACACTTCAATTTATAGCAT
1 TTAAACACCTCAATTTACAACAA
*
20313240 TTAAACACCTCAAATTACAACA
1 TTAAACACCTCAATTTACAACA
20313262 CTTGAACATC
Statistics
Matches: 969, Mismatches: 321, Indels: 100
0.70 0.23 0.07
Matches are distributed among these distances:
21 84 0.09
22 105 0.11
23 757 0.78
24 23 0.02
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (23 bp):
TTAAACACCTCAATTTACAACAA
Found at i:20312200 original size:182 final size:182
Alignment explanation
Indices: 20311893--20313271 Score: 2136
Period size: 182 Copynumber: 7.6 Consensus size: 182
20311883 ACATAGTTTC
*
20311893 CAGCACTTAAACACTTCAATTTACATCAATTGAGCACCTCAATTTACAACAATTAAACACTTCAA
1 CAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAACAATTAAACACTTCAA
* *
20311958 TTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACAAC
66 TTTATAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACC
* * *
20312023 TCTATTACAGCGATAAACATCTCAATTTCAAGCAACTAAACTATTCAATTTG
131 TCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTG
* * * *
20312075 CAGCACTTGAACACTTCAATTTACTTCATTTGAGCACCTAAATTTACATCAATTAAACACTTCAA
1 CAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAACAATTAAACACTTCAA
* * *
20312140 TTTATAGCATTTAAACACCTCAACTTCCAACACTTTAACACCCCAAATAACAACATTTATACACC
66 TTTATAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACC
* * * *
20312205 TCAATTACAGCGATAAACATTTAAAATTCCAGCAACTAAACAACTCAATTTG
131 TCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTG
* * *
20312257 CAACACTTACACACTTTAATTTACATCATTTGAGCACCTCAATTTACAACAATTAAACACTTCAA
1 CAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAACAATTAAACACTTCAA
* *
20312322 TTTATAGCATTTAAACACTTCAACTTACAACACTTTAACATCTCAATTAACAACATTTATACACC
66 TTTATAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACC
* ** *
20312387 TCAATAACAGCGATAAACATCTCAATTTCTGGCAACTAAAAAATTCAATTTG
131 TCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTG
* * *
20312439 CAGCACTTAAACACTTCAACTTACATAATTTGAACACCTCAA-TTAGCAACAATTAAACACTTCA
1 CAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTA-CAACAATTAAACACTTCA
* *
20312503 ATTTATAGCATTTAAACACCTCAAATTACAACACTTGAACATCCCAATTAACAACATTTATACAC
65 ATTTATAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACAC
* * *
20312568 CTTAATTACAGCGATAAACATCTCAATTTCCAGGAACTAAACAATTCAATTTT
130 CTCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTG
* * * * * *
20312621 TATCACTTAAACACTTCAATTTACATCATTTGAGCTCCTTAATTTATAACAATTACACACTTCAA
1 CAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAACAATTAAACACTTCAA
* *
20312686 TTTATAGCATTTAAACACCTCATCTTACAACACTTTAACATCCCAATTAACAACATTAATACACC
66 TTTATAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACC
* **
20312751 TCAATTACAACGATAAACATCTCAATTTCTGGCAACTAAACAATTCAATTTG
131 TCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTG
* * *
20312803 CAGAACTTAAACACTTTAATTTACATCATTTGAGCACCTCAGTTTACAACAATTAAACACTTCAA
1 CAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAACAATTAAACACTTCAA
* *
20312868 TTTATAGCATTTAAACACCTCAACTTACAACACTTTACCATCCCAATTAACAACATTAATACACC
66 TTTATAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACC
*
20312933 TCAATTACAGCGATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTG
131 TCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTG
* * * *
20312985 CAGCAATT--ACACTTCAATTTACATCATTTGAGCACATCAAATTACAACAATTAAACAATTCAA
1 CAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAACAATTAAACACTTCAA
* * *
20313048 TTGACAGCATTTAAACAACTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACC
66 TTTATAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACC
* *
20313113 TCAATTACAGCGATAAACATCTCAATTTCCTGCAACTAAAAAATTCAATTTG
131 TCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTG
* *
20313165 CAGCACTTAAACACTTCAACTTACATCATTTGAGCACCTCAA-TTAGCAATAATTAAACACTTCA
1 CAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTA-CAACAATTAAACACTTCA
* *
20313229 ATTTATAGCATTTAAACACCTCAAATTACAACACTTGAACATC
65 ATTTATAGCATTTAAACACCTCAACTTACAACACTTTAACATC
20313272 AGCAATTTAA
Statistics
Matches: 1081, Mismatches: 111, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
180 166 0.15
181 6 0.01
182 906 0.84
183 3 0.00
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.30
Consensus pattern (182 bp):
CAGCACTTAAACACTTCAATTTACATCATTTGAGCACCTCAATTTACAACAATTAAACACTTCAA
TTTATAGCATTTAAACACCTCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACC
TCAATTACAGCGATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTG
Found at i:20312412 original size:113 final size:113
Alignment explanation
Indices: 20312294--20312504 Score: 257
Period size: 113 Copynumber: 1.9 Consensus size: 113
20312284 ATTTGAGCAC
* * * * *
20312294 CTCAATTTAC-AACAATTAAACACTTCAATTTATAGCATTTAAACACTTCAACTTACA-ACACTT
1 CTCAATTT-CTAACAACTAAAAAATTCAATTTACAGCACTTAAACACTTCAACTTACATA-A-TT
* * *
20312357 T-AACATCTCAATTAACAACATTTATACACCTCAATAACAGCGATAAACAT
63 TGAACACCTCAATTAACAACAATTAAACACCTCAATAACAGCGATAAACAT
** *
20312407 CTCAATTTCTGGCAACTAAAAAATTCAATTTGCAGCACTTAAACACTTCAACTTACATAATTTGA
1 CTCAATTTCTAACAACTAAAAAATTCAATTTACAGCACTTAAACACTTCAACTTACATAATTTGA
* *
20312472 ACACCTCAATTAGCAACAATTAAACACTTCAAT
66 ACACCTCAATTAACAACAATTAAACACCTCAAT
20312505 TTATAGCATT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
112 4 0.05
113 77 0.94
114 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.04, T:0.30
Consensus pattern (113 bp):
CTCAATTTCTAACAACTAAAAAATTCAATTTACAGCACTTAAACACTTCAACTTACATAATTTGA
ACACCTCAATTAACAACAATTAAACACCTCAATAACAGCGATAAACAT
Found at i:20313912 original size:37 final size:37
Alignment explanation
Indices: 20313862--20313999 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
20313852 CTTATATAAT
* *
20313862 ATTACATAACTTATATAATGTTAAGATAAAATATCGA
1 ATTACATAACTTATACAATATTAAGATAAAATATCGA
20313899 ATTACATAACTTATACAATATTAAGATAAAATATCGA
1 ATTACATAACTTATACAATATTAAGATAAAATATCGA
*
20313936 ATTACATAACTTATACAATATTAAGATAAAATTTCGA
1 ATTACATAACTTATACAATATTAAGATAAAATATCGA
*
20313973 ATTACATAACTTATATAATATTAAGAT
1 ATTACATAACTTATACAATATTAAGAT
20314000 TACTTTTATA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (37 bp):
ATTACATAACTTATACAATATTAAGATAAAATATCGA
Found at i:20314025 original size:57 final size:57
Alignment explanation
Indices: 20313944--20314165 Score: 340
Period size: 57 Copynumber: 3.9 Consensus size: 57
20313934 GAATTACATA
*
20313944 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* *
20314001 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * * *
20314058 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTACATAA-ATT-ACATA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * *
20314113 ACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTAA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAA
20314166 CGTAAAATTT
Statistics
Matches: 149, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
55 45 0.30
56 6 0.04
57 98 0.66
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (57 bp):
ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
Found at i:20314102 original size:9 final size:9
Alignment explanation
Indices: 20314088--20314122 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
20314078 AAATTTCTAA
20314088 TTACATAAC
1 TTACATAAC
*
20314097 TTACATAAA
1 TTACATAAC
20314106 TTACATAAC
1 TTACATAAC
*
20314115 TTATATAA
1 TTACATAA
20314123 TGTTAAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (9 bp):
TTACATAAC
Found at i:20314107 original size:18 final size:18
Alignment explanation
Indices: 20314086--20314122 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
20314076 TAAAATTTCT
20314086 AATTACATAACTTACATA
1 AATTACATAACTTACATA
*
20314104 AATTACATAACTTATATA
1 AATTACATAACTTACATA
20314122 A
1 A
20314123 TGTTAAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTACATAACTTACATA
Found at i:20314154 original size:37 final size:37
Alignment explanation
Indices: 20314104--20314205 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
20314094 AACTTACATA
*
20314104 AATTACATAACTTATATAATGTTAAGATAAAATATCG
1 AATTACATAACTTATATAATATTAAGATAAAATATCG
* *
20314141 AATTACATAACTTATACAATATTAACG-TAAAATTTCG
1 AATTACATAACTTATATAATATTAA-GATAAAATATCG
20314178 AATTACATAACTTATATAATATTAAGAT
1 AATTACATAACTTATATAATATTAAGAT
20314206 TACTTTTATA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
36 1 0.02
37 57 0.97
38 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (37 bp):
AATTACATAACTTATATAATATTAAGATAAAATATCG
Found at i:20314154 original size:206 final size:205
Alignment explanation
Indices: 20313898--20314534 Score: 1193
Period size: 206 Copynumber: 3.1 Consensus size: 205
20313888 TAAAATATCG
* *
20313898 AATTACATAACTTATACAATATTAAGATAAAATATCGAATTACATAACTTATACAATATTAAGAT
1 AATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTAAG-T
20313963 AAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTC
65 AAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTC
20314028 GAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
130 GAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
20314093 TAACTTACATA
195 TAACTTACATA
20314104 AATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTAACGT
1 AATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTAA-GT
20314169 AAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTC
65 AAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTC
20314234 GAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
130 GAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
20314299 TAACTTACATA
195 TAACTTACATA
20314310 AATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTAAGGT
1 AATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTAA-GT
* *
20314375 AAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATAAAATTTT
65 AAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTC
*
20314440 GAATTACATAACTTATATAATATTAAGATTACTTAAATAATATTAAGATAAAATTTCTAATTACA
130 GAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACA
20314505 TAACTTACATA
195 TAACTTACATA
*
20314516 AATTACATAACTTACATAA
1 AATTACATAACTTATATAA
20314535 ATTAAATAAC
Statistics
Matches: 423, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
206 422 1.00
207 1 0.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.38
Consensus pattern (205 bp):
AATTACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTAAGTA
AAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTATAATATTAAGATCAAATTTCG
AATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACAT
AACTTACATA
Found at i:20314198 original size:149 final size:150
Alignment explanation
Indices: 20313792--20314465 Score: 628
Period size: 149 Copynumber: 4.5 Consensus size: 150
20313782 TAAAATTTCT
* *
20313792 TAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAT
1 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTAT
* ** * * * * * *
20313857 ATAATATT-ACATAACTTATATAATGTTAAGATAA--AATATCGA-ATT-ACATAACTTATACAA
66 ATAATATTAACATAAATT-TCGAA--TT-ACATAACTTATAT-AATATTAAGATTACTTATATAA
*
20313917 TATTAAGATAAAATATCGAATTACA
126 TATTAAGATAAAATTTCGAATTACA
* * * ** * * ** * *
20313942 TAACTTATACAATATTAAGATAAAATT-T-CGA-ATT-ACAT-AACTTATATAATATTAAGATTA
1 TAACTTATATAATATTAAGAT-TACTTATATAATATTAAGATAAAATT-T-CGA-ATT-ACATAA
* *
20314002 CTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTATATA
61 CTTATATAATATTAACAT-AAATTTCGAATTACATAACTTATATAATATTAAGATTACTTATATA
*
20314067 ATATTAAGATAAAATTTCTAATTACA
125 ATATTAAGATAAAATTTCGAATTACA
* * * * *
20314093 TAACTTACATAA-ATT-ACATAACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTAT
1 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTAT
* * *
20314156 ACAATATTAACGTAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTATAATATT
66 ATAATATTAACAT-AAATTTCGAATTACATAACTTATATAATATTAAGATTACTTATATAATATT
*
20314221 AAGATCAAATTTCGAATTACA
130 AAGATAAAATTTCGAATTACA
* *
20314242 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTAC
1 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTAT
* ** * * * * * *
20314307 ATAA-ATT-ACATAACTTATATAATGTTAAGATAA--AATATCGA-ATT-ACATAACTTATACAA
66 ATAATATTAACATAAATT-TCGAA--TT-ACATAACTTATAT-AATATTAAGATTACTTATATAA
*
20314366 TATTAAGGTAAAATTTCGAATTACA
126 TATTAAGATAAAATTTCGAATTACA
* *
20314391 TAACTTATATAATATTAAGATTACTTTTATAATATTAAGATAAAATTTTGAATTACATAACTTAT
1 TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTAT
20314456 ATAATATTAA
66 ATAATATTAA
20314466 GATTACTTAA
Statistics
Matches: 429, Mismatches: 70, Indels: 49
0.78 0.13 0.09
Matches are distributed among these distances:
146 4 0.01
147 4 0.01
148 17 0.04
149 214 0.50
150 67 0.16
151 107 0.25
152 13 0.03
153 3 0.01
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (150 bp):
TAACTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTAT
ATAATATTAACATAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTATATAATATTA
AGATAAAATTTCGAATTACA
Found at i:20314231 original size:57 final size:57
Alignment explanation
Indices: 20314150--20314372 Score: 326
Period size: 57 Copynumber: 3.9 Consensus size: 57
20314140 GAATTACATA
*
20314150 ACTTATACAATATTAACG-TAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAA-GATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* *
20314207 ACTTTTATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * * *
20314264 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTACATAA-ATT-ACATA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
* * *
20314319 ACTTATATAATGTTAAGATAAAATATCGAATTACATAACTTATACAATATTAAG
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
20314373 GTAAAATTTC
Statistics
Matches: 148, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
55 45 0.30
56 7 0.05
57 96 0.65
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.39
Consensus pattern (57 bp):
ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
Found at i:20314249 original size:94 final size:92
Alignment explanation
Indices: 20314058--20314262 Score: 295
Period size: 94 Copynumber: 2.2 Consensus size: 92
20314048 TATTAAGATT
*
20314058 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTACATAAATTACATAACTTATATAA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTACATAAATTACATAACTTATATAA
*
20314123 TGTTAAGATAAAATATCGAATTACATA
66 TATTAAGATAAAATATCGAATTACATA
* * * * *
20314150 ACTTATACAATATTAACG-TAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTA
1 ACTTATATAATATTAA-GATAAAATTTCGAATTACATAACTTACATAA-ATT-ACATAACTTATA
* *
20314214 TAATATTAAGATCAAATTTCGAATTACATA
63 TAATATTAAGATAAAATATCGAATTACATA
20314244 ACTTATATAATATTAAGAT
1 ACTTATATAATATTAAGAT
20314263 TACTTATATA
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
92 42 0.42
93 5 0.05
94 52 0.53
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.39
Consensus pattern (92 bp):
ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTACATAAATTACATAACTTATATAA
TATTAAGATAAAATATCGAATTACATA
Found at i:20314308 original size:9 final size:9
Alignment explanation
Indices: 20314294--20314328 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
20314284 AAATTTCTAA
20314294 TTACATAAC
1 TTACATAAC
*
20314303 TTACATAAA
1 TTACATAAC
20314312 TTACATAAC
1 TTACATAAC
*
20314321 TTATATAA
1 TTACATAA
20314329 TGTTAAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (9 bp):
TTACATAAC
Found at i:20314313 original size:18 final size:18
Alignment explanation
Indices: 20314292--20314328 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
20314282 TAAAATTTCT
20314292 AATTACATAACTTACATA
1 AATTACATAACTTACATA
*
20314310 AATTACATAACTTATATA
1 AATTACATAACTTACATA
20314328 A
1 A
20314329 TGTTAAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTACATAACTTACATA
Found at i:20314360 original size:37 final size:37
Alignment explanation
Indices: 20314310--20314411 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
20314300 AACTTACATA
*
20314310 AATTACATAACTTATATAATGTTAAGATAAAATATCG
1 AATTACATAACTTATATAATATTAAGATAAAATATCG
* * *
20314347 AATTACATAACTTATACAATATTAAGGTAAAATTTCG
1 AATTACATAACTTATATAATATTAAGATAAAATATCG
20314384 AATTACATAACTTATATAATATTAAGAT
1 AATTACATAACTTATATAATATTAAGAT
20314412 TACTTTTATA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (37 bp):
AATTACATAACTTATATAATATTAAGATAAAATATCG
Found at i:20314435 original size:57 final size:57
Alignment explanation
Indices: 20314364--20314520 Score: 253
Period size: 57 Copynumber: 2.8 Consensus size: 57
20314354 TAACTTATAC
* **
20314364 AATATTAAGGTAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTAT
1 AATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTAAAT
*
20314421 AATATTAAGATAAAATTTTGAATTACATAACTTATATAATATTAAGATTACTTAAAT
1 AATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTAAAT
* *
20314478 AATATTAAGATAAAATTTCTAATTACATAACTTACATAA-ATTA
1 AATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTA
20314521 CATAACTTAC
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
56 4 0.04
57 89 0.96
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (57 bp):
AATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTAAAT
Found at i:20314454 original size:94 final size:92
Alignment explanation
Indices: 20314264--20314468 Score: 302
Period size: 94 Copynumber: 2.2 Consensus size: 92
20314254 TATTAAGATT
*
20314264 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTACATAAATTACATAACTTATATAA
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTACATAAATTACATAACTTATATAA
*
20314329 TGTTAAGATAAAATATCGAATTACATA
66 TATTAAGATAAAATATCGAATTACATA
* * * * * *
20314356 ACTTATACAATATTAAGGTAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTTTAT
1 ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTACATAA-ATT-ACATAACTTATAT
* *
20314421 AATATTAAGATAAAATTTTGAATTACATA
64 AATATTAAGATAAAATATCGAATTACATA
20314450 ACTTATATAATATTAAGAT
1 ACTTATATAATATTAAGAT
20314469 TACTTAAATA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
92 43 0.43
93 3 0.03
94 53 0.54
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (92 bp):
ACTTATATAATATTAAGATAAAATTTCGAATTACATAACTTACATAAATTACATAACTTATATAA
TATTAAGATAAAATATCGAATTACATA
Found at i:20314514 original size:9 final size:9
Alignment explanation
Indices: 20314500--20314690 Score: 171
Period size: 9 Copynumber: 21.9 Consensus size: 9
20314490 AAATTTCTAA
20314500 TTACATAAC
1 TTACATAAC
*
20314509 TTACATAAA
1 TTACATAAC
20314518 TTACATAAC
1 TTACATAAC
*
20314527 TTACATAAA
1 TTACATAAC
*
20314536 TTAAATAAC
1 TTACATAAC
*
20314545 TTGCATAAC
1 TTACATAAC
*
20314554 TTAAATAAC
1 TTACATAAC
20314563 TTACATAA-
1 TTACATAAC
20314571 -TACATAACC
1 TTACATAA-C
*
20314580 TT-CCTAAC
1 TTACATAAC
* *
20314588 TTACATTAT
1 TTACATAAC
*
20314597 TTAGATAA-
1 TTACATAAC
* *
20314605 -TACGTAGC
1 TTACATAAC
*
20314613 CTACATAAC
1 TTACATAAC
20314622 TTACATAAC
1 TTACATAAC
*
20314631 TTACATAAA
1 TTACATAAC
*
20314640 TTAAATAAC
1 TTACATAAC
*
20314649 TTCCATAAC
1 TTACATAAC
*
20314658 TCACATAA-
1 TTACATAAC
*
20314666 -TACACAAC
1 TTACATAAC
20314674 TTACATAAC
1 TTACATAAC
20314683 TTACATAA
1 TTACATAA
20314691 TACATAAAAA
Statistics
Matches: 142, Mismatches: 32, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
7 16 0.11
8 3 0.02
9 122 0.86
10 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:20314588 original size:34 final size:34
Alignment explanation
Indices: 20314501--20314726 Score: 145
Period size: 34 Copynumber: 6.8 Consensus size: 34
20314491 AATTTCTAAT
*
20314501 TACATAA-CTTACATAAATTACATAACTTACATAAA
1 TACATAACCTT-CATAACTTACATAACTTACAT-AA
* *
20314536 TTAAATAA-CTTGCATAACTTAAATAACTTACATAA
1 -TACATAACCTT-CATAACTTACATAACTTACATAA
* * * *
20314571 TACATAACCTTCCTAACTTACATTATTTAGATAA
1 TACATAACCTTCATAACTTACATAACTTACATAA
* * *
20314605 TACGTAGCCTACATAACTTACATAACTTACATAA
1 TACATAACCTTCATAACTTACATAACTTACATAA
* * *
20314639 -A-TTAA-----ATAACTTCCATAACTCACATAA
1 TACATAACCTTCATAACTTACATAACTTACATAA
*
20314666 TACACAA-CTTACATAACTTACATAA--TACATAA
1 TACATAACCTT-CATAACTTACATAACTTACATAA
* *
20314698 -AAATATATCATATCATAACTTACATAACT
1 TACATA-A-CCT-TCATAACTTACATAACT
20314727 CATTTATAGT
Statistics
Matches: 148, Mismatches: 28, Indels: 28
0.73 0.14 0.14
Matches are distributed among these distances:
27 20 0.14
28 1 0.01
29 2 0.01
31 3 0.02
32 9 0.06
33 1 0.01
34 78 0.53
35 6 0.04
36 28 0.19
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.32
Consensus pattern (34 bp):
TACATAACCTTCATAACTTACATAACTTACATAA
Found at i:20314675 original size:86 final size:85
Alignment explanation
Indices: 20314496--20314693 Score: 213
Period size: 86 Copynumber: 2.3 Consensus size: 85
20314486 GATAAAATTT
* * * * *
20314496 CTAA-TTACATAACTTACATAAATTACATAACTTACATAAATTAAATAACTTGCATAACTTAAAT
1 CTAACTTACATAACTTACAT-AA-TACGTAGCCTACATAAATTAAATAACTTACATAAATTAAAT
*
20314560 AACTTACATAATACATAACCTTC
64 AACTTACATAATACATAA-CTAC
* * * * *
20314583 CTAACTTACATTATTTAGATAATACGTAGCCTACATAACTTACATAACTTACATAAATTAAATAA
1 CTAACTTACATAACTTACATAATACGTAGCCTACATAAATTAAATAACTTACATAAATTAAATAA
*
20314648 CTTCCATAACTCACATAA-TAC
66 CTTACATAA-T-ACATAACTAC
20314669 AC-AACTTACATAACTTACATAATAC
1 -CTAACTTACATAACTTACATAATAC
20314694 ATAAAAATAT
Statistics
Matches: 92, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
86 66 0.72
87 8 0.09
88 18 0.20
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (85 bp):
CTAACTTACATAACTTACATAATACGTAGCCTACATAAATTAAATAACTTACATAAATTAAATAA
CTTACATAATACATAACTAC
Found at i:20320589 original size:12 final size:12
Alignment explanation
Indices: 20320572--20320596 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20320562 CGCTAAAGAA
20320572 CATGTTCTTTAG
1 CATGTTCTTTAG
20320584 CATGTTCTTTAG
1 CATGTTCTTTAG
20320596 C
1 C
20320597 GGTGCTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (12 bp):
CATGTTCTTTAG
Found at i:20320646 original size:42 final size:42
Alignment explanation
Indices: 20320584--20320687 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
20320574 TGTTCTTTAG
* * *
20320584 CATGTTCTTTAGCGGTGCTTAGAAAAAAACGCTGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACACCGCTAAAGAC
20320626 CATGTTCTTTAGCGGCGCTTAGAAAAAAACACCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACACCGCTAAAGAC
*
20320668 CATGTTCTTTAGAGGCGCTT
1 CATGTTCTTTAGCGGCGCTT
20320688 GCTAAAGACC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
CATGTTCTTTAGCGGCGCTTAGAAAAAAACACCGCTAAAGAC
Found at i:20320692 original size:29 final size:29
Alignment explanation
Indices: 20320659--20320716 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
20320649 AAAAAACACC
20320659 GCTAAAGACCATGTTCTTTAGAGGCGCTT
1 GCTAAAGACCATGTTCTTTAGAGGCGCTT
*
20320688 GCTAAAGACCATGTTCTTTAGCGGCGCTT
1 GCTAAAGACCATGTTCTTTAGAGGCGCTT
20320717 AAGAAAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (29 bp):
GCTAAAGACCATGTTCTTTAGAGGCGCTT
Found at i:20320732 original size:71 final size:71
Alignment explanation
Indices: 20320616--20320755 Score: 228
Period size: 71 Copynumber: 2.0 Consensus size: 71
20320606 AAAAAAACGC
* *
20320616 TGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACACCGCTAAAGACCATGTTCTTTAGA
1 TGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACACCGCTAAAGAACATGATCTTTAGA
20320681 GGCGCT
66 GGCGCT
*
20320687 TGCTAAAGACCATGTTCTTTAGCGGCGCTTA-AGAAAAAACGCCGCTAAAGAACATGATCTTTAG
1 TGCTAAAGACCATGTTCTTTAGCGGCGCTTAGA-AAAAAACACCGCTAAAGAACATGATCTTTAG
*
20320751 CGGCG
65 AGGCG
20320756 TTTTTATCTA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 1 0.02
71 63 0.98
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (71 bp):
TGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACACCGCTAAAGAACATGATCTTTAGA
GGCGCT
Found at i:20320827 original size:40 final size:40
Alignment explanation
Indices: 20320726--20320844 Score: 168
Period size: 40 Copynumber: 2.9 Consensus size: 40
20320716 TAAGAAAAAA
*
20320726 CGCCGCTAAAGAACATGATCTTTAGC-GGCGTTTTTATCTAAG
1 CGCCGCTAAAGAACATGGTCTTTA-CTGGCGTTTTT-T-TAAG
* *
20320768 TGCCTCTAAAGAACATGGTCTTTACTGGCGTTTTTTTAAG
1 CGCCGCTAAAGAACATGGTCTTTACTGGCGTTTTTTTAAG
*
20320808 CGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTTTTT
1 CGCCGCTAAAGAACATGGTCTTTACTGGCGTTTTTTT
20320845 TTGTAAACGC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
40 38 0.54
41 2 0.03
42 30 0.43
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (40 bp):
CGCCGCTAAAGAACATGGTCTTTACTGGCGTTTTTTTAAG
Found at i:20321959 original size:46 final size:46
Alignment explanation
Indices: 20321909--20323323 Score: 678
Period size: 46 Copynumber: 31.1 Consensus size: 46
20321899 ACTAAACAAT
* * * * *
20321909 TCAATTTCCAGCACTTAAACACTTT-AATTTACATCATTTGAGCACC
1 TCAATTTACAACACTTAAACA-TTTCAATTTACAACATTTAAACACC
*
20321955 TCAATTTACAACAGTTAAACATTTCAATTTACAACATTTAAACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * ** * *
20322001 TCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * * * **
20322047 TTAA-TTACAACGA--TAAACATCTCAATTTCCAACAATTAAACAAT
1 TCAATTTACAAC-ACTTAAACATTTCAATTTACAACATTTAAACACC
* * * * * *
20322091 TCAATTTGCAACGCTTAAACACTTCAATTTACATCATTTGAGCACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * * *
20322137 TCAATTTACAATAATTAAACAATTCAATTTACAGCATTTAAACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* ** * * * *
20322183 TCAACTTACAACACTTTCACA-TCCAAATTAACAACATTTATACAAC
1 TCAATTTACAACACTTAAACATTTC-AATTTACAACATTTAAACACC
* * * * ** **
20322229 TTAA-TTACAGCGA--TAAACATCTCAATTT-CTAGCAACTAAACAAT
1 TCAATTTACAAC-ACTTAAACATTTCAATTTAC-AACATTTAAACACC
* * * * * * * *
20322273 TCAATTTGCAGCAATT--ACACTTCAATTTACATCATTTGAGCACA
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * * * *
20322317 TCAAATTACAACAATTAAACAATTCAATTGACAGCATTTAAACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * ** * *
20322363 TCAACTTACAACACTTTAACATCCCAATTAACAACATTTATACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * * * ** **
20322409 TCAA-TTACAGCGA--TAAACATCTCAATTTCCAGCAACTAAACAAT
1 TCAATTTACAAC-ACTTAAACATTTCAATTTACAACATTTAAACACC
* ** * *
20322453 TCAATTTGCAACACTTAAACATTTCAATTTACGTCATTTGAGCACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * *
20322499 TCAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* ** ** * *
20322545 TCAACTTACAACACTTTCACATCCCAATTAACAACATTTATACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * * * ** **
20322591 TTAA-TTACAGCGA--TAAACATCTCAATTT-CTAGCAACTAAACAAT
1 TCAATTTACAAC-ACTTAAACATTTCAATTTAC-AACATTTAAACACC
* * * * * * * *
20322635 TCAATGTGCAGCACTT--ACACTTCAATTTACATCATTTGAGCACA
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * * *
20322679 TCAATTTACAACAATTAAACAATTCAATTGACAGCATTTAAACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * ** * * * ***
20322725 TCAACTTACAACACTTTAACATCCCAGTTAACAATATTTATTGACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * * * * ** *
20322771 TTAA-TTACAGCGA--TAAACATCTCAATTTCCAGCAACTAAACACT
1 TCAATTTACAAC-ACTTAAACATTTCAATTTACAACATTTAAACACC
* * * * *
20322815 TCAATTTGA-AGCACTTAAACACTTCAATTTACATCATTTGAGCACC
1 TCAATTT-ACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * * * * * * * *
20322861 TCAATTTATAGCAATTAAACACTTCTATTTATAGCCTTTAACCACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * ** ** *
20322907 TCAACTTACAACACTTTAACATCCCAATAAACAACATTTATACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * ** ** ** **
20322953 TCAA-TTATAGCA-AGAAAC-TTGTCAATTT-CTGGCAACTAAACAAT
1 TCAATTTACAACACTTAAACATT-TCAATTTAC-AACATTTAAACACC
* * * *
20322997 TCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * ** * * *
20323043 TCAACTTACAACACTTTAACATCCCAATTAACAAAATTTATACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * * ** **
20323089 TCAA-TTACAACGA--TAAACATCTCAATTTTCAGCAAGTAAACAAT
1 TCAATTTACAAC-ACTTAAACATTTCAATTTACAACATTTAAACACC
* * ** * *
20323133 TTAATTTGCAGTACTTAAAACACTTCAATTTACAACATTTAAACACT
1 TCAATTTACAACACTT-AAACATTTCAATTTACAACATTTAAACACC
* ** * * * * * *
20323180 TCAATTTGCTGCACTTTAACACTTCAATTCACAACACTTAAATACT
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
** * * * * *
20323226 TCAATTTGTAACACTTTAACACTTCAATATACACCATTTAAACACT
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
* * * * * * *
20323272 TCAATTTACAGCACTTTAACATCTCTATTAACAATATTTATACACC
1 TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
20323318 TCAATT
1 TCAATT
20323324 ACAGTAATAA
Statistics
Matches: 1011, Mismatches: 314, Indels: 88
0.72 0.22 0.06
Matches are distributed among these distances:
43 4 0.00
44 219 0.22
45 90 0.09
46 660 0.65
47 38 0.04
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (46 bp):
TCAATTTACAACACTTAAACATTTCAATTTACAACATTTAAACACC
Found at i:20321960 original size:23 final size:23
Alignment explanation
Indices: 20321909--20323323 Score: 483
Period size: 23 Copynumber: 62.3 Consensus size: 23
20321899 ACTAAACAAT
* * * *
20321909 TCAATTTCCAGCACTTAAACACT
1 TCAATTTACAACATTTAAACACC
* * * *
20321932 TTAATTTACATCATTTGAGCACC
1 TCAATTTACAACATTTAAACACC
* **
20321955 TCAATTTACAACAGTTAAACATT
1 TCAATTTACAACATTTAAACACC
20321978 TCAATTTACAACATTTAAACACC
1 TCAATTTACAACATTTAAACACC
*
20322001 TCAACTTACAACACTTT-AACATCC
1 TCAATTTACAACA-TTTAAACA-CC
* *
20322025 -CAATTAACAACATTTATACACC
1 TCAATTTACAACATTTAAACACC
* *
20322047 TTAA-TTACAACGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* * **
20322068 TCAATTTCCAACAATTAAACAAT
1 TCAATTTACAACATTTAAACACC
* ** *
20322091 TCAATTTGCAACGCTTAAACACT
1 TCAATTTACAACATTTAAACACC
* * *
20322114 TCAATTTACATCATTTGAGCACC
1 TCAATTTACAACATTTAAACACC
* * **
20322137 TCAATTTACAATAATTAAACAAT
1 TCAATTTACAACATTTAAACACC
*
20322160 TCAATTTACAGCATTTAAACACC
1 TCAATTTACAACATTTAAACACC
* *
20322183 TCAACTTACAACACTTT-CACATCC
1 TCAATTTACAACA-TTTAAACA-CC
* * * *
20322207 -AAATTAACAACATTTATACAAC
1 TCAATTTACAACATTTAAACACC
* * *
20322229 TTAA-TTACAGCGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* ** **
20322250 TCAATTT-CTAGCAACTAAACAAT
1 TCAATTTAC-AACATTTAAACACC
* * * *
20322273 TCAATTTGCAGCAATT--ACACT
1 TCAATTTACAACATTTAAACACC
* * * *
20322294 TCAATTTACATCATTTGAGCACA
1 TCAATTTACAACATTTAAACACC
* * **
20322317 TCAAATTACAACAATTAAACAAT
1 TCAATTTACAACATTTAAACACC
* *
20322340 TCAATTGACAGCATTTAAACACC
1 TCAATTTACAACATTTAAACACC
*
20322363 TCAACTTACAACACTTT-AACATCC
1 TCAATTTACAACA-TTTAAACA-CC
* *
20322387 -CAATTAACAACATTTATACACC
1 TCAATTTACAACATTTAAACACC
* *
20322409 TCAA-TTACAGCGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* * ** **
20322430 TCAATTTCCAGCAACTAAACAAT
1 TCAATTTACAACATTTAAACACC
* * **
20322453 TCAATTTGCAACACTTAAACATT
1 TCAATTTACAACATTTAAACACC
** * *
20322476 TCAATTTACGTCATTTGAGCACC
1 TCAATTTACAACATTTAAACACC
* *
20322499 TCAATTTACAACAATTAAACACT
1 TCAATTTACAACATTTAAACACC
*
20322522 TCAATTTACAGCATTTAAACACC
1 TCAATTTACAACATTTAAACACC
* *
20322545 TCAACTTACAACACTTT-CACATCC
1 TCAATTTACAACA-TTTAAACA-CC
* *
20322569 -CAATTAACAACATTTATACACC
1 TCAATTTACAACATTTAAACACC
* * *
20322591 TTAA-TTACAGCGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* ** **
20322612 TCAATTT-CTAGCAACTAAACAAT
1 TCAATTTAC-AACATTTAAACACC
* * * * *
20322635 TCAATGTGCAGCACTT--ACACT
1 TCAATTTACAACATTTAAACACC
* * * *
20322656 TCAATTTACATCATTTGAGCACA
1 TCAATTTACAACATTTAAACACC
* **
20322679 TCAATTTACAACAATTAAACAAT
1 TCAATTTACAACATTTAAACACC
* *
20322702 TCAATTGACAGCATTTAAACACC
1 TCAATTTACAACATTTAAACACC
*
20322725 TCAACTTACAACACTTT-AACATCC
1 TCAATTTACAACA-TTTAAACA-CC
* * * ***
20322749 -CAGTTAACAATATTTATTGACC
1 TCAATTTACAACATTTAAACACC
* * *
20322771 TTAA-TTACAGCGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* * ** *
20322792 TCAATTTCCAGCAACTAAACACT
1 TCAATTTACAACATTTAAACACC
* * *
20322815 TCAATTTGA-AGCACTTAAACACT
1 TCAATTT-ACAACATTTAAACACC
* * *
20322838 TCAATTTACATCATTTGAGCACC
1 TCAATTTACAACATTTAAACACC
* * * *
20322861 TCAATTTATAGCAATTAAACACT
1 TCAATTTACAACATTTAAACACC
* * * * *
20322884 TCTATTTATAGCCTTTAACCACC
1 TCAATTTACAACATTTAAACACC
*
20322907 TCAACTTACAACACTTT-AACATCC
1 TCAATTTACAACA-TTTAAACA-CC
** *
20322931 -CAATAAACAACATTTATACACC
1 TCAATTTACAACATTTAAACACC
* * ** ***
20322953 TCAA-TTATAGCA-AGAAACTTG
1 TCAATTTACAACATTTAAACACC
** ** **
20322974 TCAATTT-CTGGCAACTAAACAAT
1 TCAATTTAC-AACATTTAAACACC
* * * *
20322997 TCAATTTGCAGCACTTAAACACT
1 TCAATTTACAACATTTAAACACC
*
20323020 TCAATTTACAGCATTTAAACACC
1 TCAATTTACAACATTTAAACACC
*
20323043 TCAACTTACAACACTTT-AACATCC
1 TCAATTTACAACA-TTTAAACA-CC
* * *
20323067 -CAATTAACAAAATTTATACACC
1 TCAATTTACAACATTTAAACACC
*
20323089 TCAA-TTACAACGA--TAAACATC
1 TCAATTTACAAC-ATTTAAACACC
* * ** **
20323110 TCAATTTTCAGCAAGTAAACAAT
1 TCAATTTACAACATTTAAACACC
* * * *
20323133 TTAATTTGCAGTAC-TTAAAACACT
1 TCAATTTACA--ACATTTAAACACC
*
20323157 TCAATTTACAACATTTAAACACT
1 TCAATTTACAACATTTAAACACC
* ** *
20323180 TCAATTTGCTGCACTTT-AACACT
1 TCAATTTACAACA-TTTAAACACC
* * * *
20323203 TCAATTCACAACACTTAAATACT
1 TCAATTTACAACATTTAAACACC
** *
20323226 TCAATTTGTAACACTTT-AACACT
1 TCAATTTACAACA-TTTAAACACC
* * *
20323249 TCAATATACACCATTTAAACACT
1 TCAATTTACAACATTTAAACACC
* *
20323272 TCAATTTACAGCACTTT-AACATC
1 TCAATTTACAACA-TTTAAACACC
* * * *
20323295 TCTATTAACAATATTTATACACC
1 TCAATTTACAACATTTAAACACC
20323318 TCAATT
1 TCAATT
20323324 ACAGTAATAA
Statistics
Matches: 1030, Mismatches: 287, Indels: 150
0.70 0.20 0.10
Matches are distributed among these distances:
21 102 0.10
22 117 0.11
23 750 0.73
24 60 0.06
25 1 0.00
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (23 bp):
TCAATTTACAACATTTAAACACC
Found at i:20322184 original size:182 final size:182
Alignment explanation
Indices: 20321877--20323381 Score: 1878
Period size: 182 Copynumber: 8.3 Consensus size: 182
20321867 GGGGTGTTAC
* * * *
20321877 ATAAACATCTCAATTTCTAGAAACTAAACAATTCAATTTCCAGCACTTAAACACTTTAATTTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
* * *
20321942 TCATTTGAGCACCTCAATTTACAACAGTTAAACATTTCAATTTACAACATTTAAACACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
*
20322007 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAACG
131 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* * * *
20322059 ATAAACATCTCAATTTCCAACAATTAAACAATTCAATTTGCAACGCTTAAACACTTCAATTTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
*
20322124 TCATTTGAGCACCTCAATTTACAATAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
* * *
20322189 TACAACACTTTCACATCCAAATTAACAACATTTATACAACTTAATTACAGCG
131 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* *
20322241 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCAATT--ACACTTCAATTTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
* * *
20322304 TCATTTGAGCACATCAAATTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
*
20322369 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTCAATTACAGCG
131 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* * *
20322421 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAACACTTAAACATTTCAATTTACG
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
*
20322486 TCATTTGAGCACCTCAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
*
20322551 TACAACACTTTCACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
131 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* *
20322603 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATGTGCAGCACTT--ACACTTCAATTTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
* *
20322666 TCATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
* * **
20322731 TACAACACTTTAACATCCCAGTTAACAATATTTATTGACCTTAATTACAGCG
131 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* *
20322783 ATAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGAAGCACTTAAACACTTCAATTTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
* * * * * * *
20322848 TCATTTGAGCACCTCAATTTATAGCAATTAAACACTTCTATTTATAGCCTTTAACCACCTCAACT
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
* * * *
20322913 TACAACACTTTAACATCCCAATAAACAACATTTATACACCTCAATTATAGCA
131 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* * * **
20322965 AGAAACTTGTCAATTTCTGGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
1 ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
* * * * * * * * ** *
20323030 GCATTTAAACACCTCAACTTACAACACTTTAAC-ATCCCAATTAACAAAATTTATACACCTCAA-
66 TCATTTGAGCACCTCAATTTACAACAATTAAACAAT-TCAATTTACAGCATTTAAACACCTCAAC
* * ** * ** * ** *
20323093 TTACAACGA--TAAACATCTCAATTTTCAGCAAGTAAACAATTTAATTTGCAGTAC-
130 TTACAAC-ACTTTAACATCCCAATTAACAACATTTATACACCTTAA-TTACAG--CG
* * * ** * * * *
20323147 TTAAAACA-CTTCAATTTACAACATTTAAACACTTCAATTTGCTGCACTTTAACACTTCAATTCA
1 AT-AAACATC-TCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTA
* * * ** * ** * * * * * *
20323211 CAACACTTAAATACTTCAATTTGTAACACTTTAACACTTCAATATACACCATTTAAACACTTCAA
64 CATCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAA
* * * * * * **
20323276 TTTACAGCACTTTAACATCTCTATTAACAATATTTATACACCTCAATTACAGTA
129 CTTACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
* * * *
20323330 ATAAAACATCTCAATTTCCAGCAACTAAACACTTCAAATTACAGTACTTAAA
1 AT-AAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAA
20323382 TAGGGCTTTA
Statistics
Matches: 1138, Mismatches: 168, Indels: 33
0.85 0.13 0.02
Matches are distributed among these distances:
180 358 0.31
181 12 0.01
182 594 0.52
183 138 0.12
184 13 0.01
185 23 0.02
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (182 bp):
ATAAACATCTCAATTTCCAGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
TCATTTGAGCACCTCAATTTACAACAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACT
TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCG
Found at i:20322599 original size:362 final size:363
Alignment explanation
Indices: 20321877--20323380 Score: 1928
Period size: 362 Copynumber: 4.1 Consensus size: 363
20321867 GGGGTGTTAC
* * *
20321877 ATAAACATCTCAATTTCTAGAAACTAAACAATTCAATTTCCAGCACTTAAACACTTTAATTTACA
1 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTT-AACACTTCAATTTACA
* * * *
20321942 TCATTTGAGCACCTCAATTTACAACAGTTAAACATTTCAATTTACAACATTTAAACACCTCAACT
65 TCATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAACATTTAAACACCTCAACT
*
20322007 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAACGATAAACATCTCAA
130 TACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCGATAAACATCTCAA
* *
20322072 TTTCCAACAATTAAACAATTCAATTTGCAACGCTTAAACACTTCAATTTACATCATTTGAGCACC
195 TTTCCAACAACTAAACAATTCAATTTGCAACACTTAAACACTTCAATTTACATCATTTGAGCACC
* * *
20322137 TCAATTTACAATAATTAAACAATTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTCA
260 TCAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
* * * *
20322202 CATCCAAATTAACAACATTTATACAACTTAATTACAGCG
325 CATCCCAATTAACAACATTTATACACCTCAATTACAGCA
*
20322241 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCAATT-ACACTTCAATTTACAT
1 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTTAACACTTCAATTTACAT
* *
20322305 CATTTGAGCACATCAAATTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACTT
66 CATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAACATTTAAACACCTCAACTT
*
20322370 ACAACACTTTAACATCCCAATTAACAACATTTATACACCTCAATTACAGCGATAAACATCTCAAT
131 ACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCGATAAACATCTCAAT
* * *
20322435 TTCCAGCAACTAAACAATTCAATTTGCAACACTTAAACATTTCAATTTACGTCATTTGAGCACCT
196 TTCCAACAACTAAACAATTCAATTTGCAACACTTAAACACTTCAATTTACATCATTTGAGCACCT
*
20322500 CAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTCAC
261 CAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAAC
* *
20322565 ATCCCAATTAACAACATTTATACACCTTAATTACAGCG
326 ATCCCAATTAACAACATTTATACACCTCAATTACAGCA
*
20322603 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATGTGCAGCACTT-ACACTTCAATTTACAT
1 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTTAACACTTCAATTTACAT
*
20322667 CATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAGCATTTAAACACCTCAACTT
66 CATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAACATTTAAACACCTCAACTT
* * **
20322732 ACAACACTTTAACATCCCAGTTAACAATATTTATTGACCTTAATTACAGCGATAAACATCTCAAT
131 ACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCGATAAACATCTCAAT
* *
20322797 TTCCAGCAACTAAACACTTCAATTTG-AAGCACTTAAACACTTCAATTTACATCATTTGAGCACC
196 TTCCAACAACTAAACAATTCAATTTGCAA-CACTTAAACACTTCAATTTACATCATTTGAGCACC
* * * * * *
20322861 TCAATTTATAGCAATTAAACACTTCTATTTATAGCCTTTAACCACCTCAACTTACAACACTTTAA
260 TCAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
* *
20322926 CATCCCAATAAACAACATTTATACACCTCAATTATAGCA
325 CATCCCAATTAACAACATTTATACACCTCAATTACAGCA
* * * *
20322965 AGAAACTTGTCAATTTCTGGCAACTAAACAATTCAATTTGCAGCACTTAAACACTTCAATTTACA
1 ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTT-AACACTTCAATTTACA
* * * * * * * * * * *
20323030 GCATTTAAACACCTCAACTTACAACACTTTAAC-ATCCCAATTAACAAAATTTATACACCTCAA-
65 TCATTTGAGCACATCAATTTACAACAATTAAACAAT-TCAATTGACAACATTTAAACACCTCAAC
* * ** * ** * ** * *
20323093 TTACAACGA--TAAACATCTCAATTTTCAGCAAGTAAACAATTTAATTTGCAGTAC-TTAAAACA
129 TTACAAC-ACTTTAACATCCCAATTAACAACATTTATACACCTTAA-TTACAG--CGAT-AAACA
* ** * ** * * * *
20323155 -CTTCAATTTACAACATTTAAACACTTCAATTTGCTGCACTTTAACACTTCAATTCACAACACTT
189 TC-TCAATTTCCAACAACTAAACAATTCAATTTGCAACACTTAAACACTTCAATTTACATCATTT
* ** * ** * * * * * * *
20323219 AAATACTTCAATTTGTAACACTTTAACACTTCAATATACACCATTTAAACACTTCAATTTACAGC
253 GAGCACCTCAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAAC
* * * *
20323284 ACTTTAACATCTCTATTAACAATATTTATACACCTCAATTACAGTA
318 ACTTTAACATCCCAATTAACAACATTTATACACCTCAATTACAGCA
* * * * *
20323330 ATAAAACATCTCAATTTCCAGCAACTAAACACTTCAAATTACAGTACTTAA
1 AT-AAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTTAA
20323381 ATAGGGCTTT
Statistics
Matches: 1010, Mismatches: 118, Indels: 23
0.88 0.10 0.02
Matches are distributed among these distances:
361 2 0.00
362 697 0.69
363 14 0.01
364 111 0.11
365 148 0.15
366 38 0.04
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (363 bp):
ATAAACATCTCAATTTCTAGCAACTAAACAATTCAATTTGCAGCACTTAACACTTCAATTTACAT
CATTTGAGCACATCAATTTACAACAATTAAACAATTCAATTGACAACATTTAAACACCTCAACTT
ACAACACTTTAACATCCCAATTAACAACATTTATACACCTTAATTACAGCGATAAACATCTCAAT
TTCCAACAACTAAACAATTCAATTTGCAACACTTAAACACTTCAATTTACATCATTTGAGCACCT
CAATTTACAACAATTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAAC
ATCCCAATTAACAACATTTATACACCTCAATTACAGCA
Found at i:20323037 original size:136 final size:136
Alignment explanation
Indices: 20322861--20323183 Score: 432
Period size: 136 Copynumber: 2.4 Consensus size: 136
20322851 TTTGAGCACC
** * * * * *
20322861 TCAATTTATAGCAATTAAACACTTCTATTTATAGCCTTTAACCACCTCAACTTACAACACTTTAA
1 TCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
* * * * * *
20322926 CATCCCAATAAACAACATTTATACACCTCAATTATAGCAAGAAACTTGTCAA-TTTCTGGCAACT
66 CATCCCAATAAACAAAATTTATACACCTCAATTACAACAAGAAACATCTCAATTTTC-AGCAACT
20322990 AAACAAT
130 AAACAAT
20322997 TCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
1 TCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
* * * *
20323062 CATCCCAATTAACAAAATTTATACACCTCAATTACAACGATAAACATCTCAATTTTCAGCAAGTA
66 CATCCCAATAAACAAAATTTATACACCTCAATTACAACAAGAAACATCTCAATTTTCAGCAACTA
20323127 AACAAT
131 AACAAT
* * * *
20323133 TTAATTTGCAGTACTTAAAACACTTCAATTTACAACATTTAAACACTTCAA
1 TCAATTTGCAGCACTT-AAACACTTCAATTTACAGCATTTAAACACCTCAA
20323184 TTTGCTGCAC
Statistics
Matches: 164, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
136 128 0.78
137 36 0.22
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.31
Consensus pattern (136 bp):
TCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAA
CATCCCAATAAACAAAATTTATACACCTCAATTACAACAAGAAACATCTCAATTTTCAGCAACTA
AACAAT
Found at i:20333108 original size:20 final size:20
Alignment explanation
Indices: 20333054--20333108 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
20333044 ACACCACACT
*
20333054 AGAGGCATCGAAGTGAAAAC
1 AGAGGCACCGAAGTGAAAAC
* * *
20333074 AGAGACACCAAAGTGTAAAC
1 AGAGGCACCGAAGTGAAAAC
*
20333094 AGAGGCACCGGAGTG
1 AGAGGCACCGAAGTG
20333109 CAAATCCCCT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.31, T:0.09
Consensus pattern (20 bp):
AGAGGCACCGAAGTGAAAAC
Found at i:20340132 original size:12 final size:14
Alignment explanation
Indices: 20340110--20340148 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
20340100 AGGAAAATTT
*
20340110 TAATAATAATATAAA
1 TAATAAT-ATATACA
*
20340125 TGATAATATATACA
1 TAATAATATATACA
20340139 TAATAATATA
1 TAATAATATA
20340149 CAAAAGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATAATATATACA
Found at i:20341588 original size:8 final size:8
Alignment explanation
Indices: 20341575--20341608 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
20341565 AAACTGGACG
20341575 TTTTTTGT
1 TTTTTTGT
20341583 TTTTTT-T
1 TTTTTTGT
*
20341590 TTTGTTGT
1 TTTTTTGT
20341598 TTTTTTGT
1 TTTTTTGT
20341606 TTT
1 TTT
20341609 GTTTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTTGT
Found at i:20341592 original size:12 final size:12
Alignment explanation
Indices: 20341575--20341613 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
20341565 AAACTGGACG
20341575 TTTTTTGTTTTT
1 TTTTTTGTTTTT
*
20341587 TTTTTTG-TTGT
1 TTTTTTGTTTTT
20341598 TTTTTTGTTTTGT
1 TTTTTTGTTTT-T
20341611 TTT
1 TTT
20341614 AATTTGGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 10 0.43
12 9 0.39
13 4 0.17
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:20342048 original size:100 final size:100
Alignment explanation
Indices: 20341894--20342205 Score: 489
Period size: 100 Copynumber: 3.1 Consensus size: 100
20341884 TGTGGTGTCA
* * * * *
20341894 AGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCAGGGAAGCAAGATTCA
1 AGGAAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
* * * *
20341959 CCGATGTGGCTTTAATTTGTTCCACTGCATCGCCT
66 CTGTTGTGGCTTTAATCTGTTCCACTGCACCGCCT
*
20341994 AGGAAGTAAGATTTGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
1 AGGAAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
*
20342059 CTGTTGTGGCTTTAATCTATTCCACTGCACCGCCT
66 CTGTTGTGGCTTTAATCTGTTCCACTGCACCGCCT
* * *
20342094 AGGAAGTAAGATTCGTTATTGTAGCTTCAACCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
1 AGGAAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
20342159 CTGTTGTGGCTTTAATCTGTTCCACTGCACCGCCT
66 CTGTTGTGGCTTTAATCTGTTCCACTGCACCGCCT
*
20342194 AGAAAGTAAGAT
1 AGGAAGTAAGAT
20342206 CTGTAATTCT
Statistics
Matches: 195, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 195 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (100 bp):
AGGAAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCG
CTGTTGTGGCTTTAATCTGTTCCACTGCACCGCCT
Found at i:20342186 original size:50 final size:50
Alignment explanation
Indices: 20341895--20342187 Score: 239
Period size: 50 Copynumber: 5.9 Consensus size: 50
20341885 GTGGTGTCAA
* * * *
20341895 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCAG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGG
* * * * * * **
20341945 GGAAGCAAGATTCACCGATGTGGCTTTAAT-TTGTTCCACTGC-ATCGCCTA
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTT-TTCAACTGCAAT-GTCGG
* * * *
20341995 GGAAGTAAGATTTGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGG
* * * * ** * **
20342045 GGAAGCATGATTCGCTGTTGTGGCTTTAATCTATTCCACTGCACCGCCTA
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGG
* * * * * *
20342095 GGAAGTAAGATTCGTTATTGTAGCTTCAACCTTTTTAACTGCAATGTCGG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGG
* * * *
20342145 GGAAGCATGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCA
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCA
20342188 CCGCCTAGAA
Statistics
Matches: 178, Mismatches: 61, Indels: 8
0.72 0.25 0.03
Matches are distributed among these distances:
49 4 0.02
50 170 0.96
51 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (50 bp):
GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTCGG
Found at i:20342583 original size:217 final size:217
Alignment explanation
Indices: 20342200--20342882 Score: 1150
Period size: 217 Copynumber: 3.1 Consensus size: 217
20342190 GCCTAGAAAG
*
20342200 TAAGATCTGTAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
1 TAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
* *
20342265 CTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
66 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
* * *
20342330 ATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCCAATTTCAATTA
131 ATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
*
20342395 GCTTCACTACTGCTTAGGGAGA
196 GCTCCACTACTGCTTAGGGAGA
* * * *
20342417 TAAGATCTAAAATTCTTCGGTCTATTCCACTATAATCTCAGGGAGATAAGACCTGATGCGATCTA
1 TAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
*
20342482 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTTCACTGTAATCTTAGGGAA
66 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
* *
20342547 ATAGGATTACTAGCTTCAATCTACTCCGCGGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
131 ATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
20342612 GCTCCACTACTGCTTAGGGAGA
196 GCTCCACTACTGCTTAGGGAGA
* * *
20342634 TAAGGTCTGAAATTCATCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
1 TAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
* * * *
20342699 CTCTACTGTAATCTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAG
66 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
* *
20342764 ATAGTATTACTAGCTTCAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
131 ATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
20342829 GCTCCACTACTGCTTAGGGAGA
196 GCTCCACTACTGCTTAGGGAGA
*
20342851 TAAGATCTGAAATTCTTCAATCTATTCCACTG
1 TAAGATCTGAAATTCTTCAGTCTATTCCACTG
20342883 CTGATCAGGG
Statistics
Matches: 434, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 434 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (217 bp):
TAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
ATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
GCTCCACTACTGCTTAGGGAGA
Found at i:20342708 original size:41 final size:44
Alignment explanation
Indices: 20342654--20342814 Score: 143
Period size: 44 Copynumber: 3.7 Consensus size: 44
20342644 AATTCATCGG
* *
20342654 TCTATTCCACTGTAATCTCAGGGAGATAAGA-CC-TGA-TGTGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTGATTGTAA
* * * *
20342695 TCTACTCTACTGTAATCTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTGATTGTAA
* * * * *
20342739 TCTGCTCCACTGTAATCTCAGGGAGAT-AGTATTACTAGCTT-CAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAG-A-TCCTTGATTGTAA
* **
20342783 TCTGCTCCGTTGTAATCTCAGGGAGATAAGAT
1 TCTACTCCACTGTAATCTCAGGGAGATAAGAT
20342815 TCCATTTTCG
Statistics
Matches: 98, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 28 0.29
42 2 0.02
43 5 0.05
44 56 0.57
45 7 0.07
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
TCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTGATTGTAA
Found at i:20342756 original size:44 final size:41
Alignment explanation
Indices: 20342654--20342766 Score: 136
Period size: 41 Copynumber: 2.7 Consensus size: 41
20342644 AATTCATCGG
* *
20342654 TCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATGTAA
* * * *
20342695 TCTACTCTACTGTAATCTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGA-CC-TGA-TGTAA
*
20342739 TCTGCTCCACTGTAATCTCAGGGAGATA
1 TCTACTCCACTGTAATCTCAGGGAGATA
20342767 GTATTACTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
41 28 0.47
42 2 0.03
43 2 0.03
44 28 0.47
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (41 bp):
TCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATGTAA
Found at i:20342966 original size:129 final size:129
Alignment explanation
Indices: 20342821--20343255 Score: 653
Period size: 129 Copynumber: 3.4 Consensus size: 129
20342811 AGATTCCATT
* * *
20342821 TTCGAT-TAGCTCCACTACTGCTTAGGGAGATAAGATCTGAAA-TTCTTCAATCTATTCCACTGC
1 TTCGATCT-GCTCCACTACTGCTTAGGGAGACAAGATCTGAAATTTC-CCAACCTATTCCACTGC
*
20342884 TGATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGT
64 TGATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGT
20342949 C
129 C
*
20342950 TTCGATCTGCTCCACTATTGCTTAGGGAGACAAGATCT-ATAATTTCCCAACCTATTCCACTGCT
1 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA-AATTTCCCAACCTATTCCACTGCT
* *
20343014 GATCAGGGATATAGAACTTGTGGCTTAAATCTGCTTCCTTACACTTAAAGATAAGATTCGCCGTC
65 GATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTC
* ** * *
20343079 TTCGATTTGCTCCGTTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTG
1 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATTTCCCAACCTATTCCACTGCTG
* * *
20343144 ATCAGGGATATATGACTTGTGGCTTAAATTTGCTTTCTTACACTTGAAGATAAGATTCGCCGTC
66 ATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTC
* * *
20343208 TTCGATCTGCTCCGCTACTACTTA-GGAGACAAGATCTGTAATTTCCCA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATTTCCCA
20343256 GATCTGTTCT
Statistics
Matches: 282, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
128 25 0.09
129 253 0.90
130 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (129 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATTTCCCAACCTATTCCACTGCTG
ATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTC
Found at i:20344492 original size:7 final size:7
Alignment explanation
Indices: 20344473--20344517 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
20344463 TCAGCCTCTC
20344473 CATTTTT
1 CATTTTT
20344480 -ACTTTTT
1 CA-TTTTT
20344487 CATTTTTT
1 CA-TTTTT
20344495 CATTTTT
1 CATTTTT
20344502 CA-TTTT
1 CATTTTT
20344508 CATTTTT
1 CATTTTT
20344515 CAT
1 CAT
20344518 AATTTTTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
6 7 0.21
7 19 0.56
8 8 0.24
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:20344500 original size:15 final size:15
Alignment explanation
Indices: 20344473--20344517 Score: 60
Period size: 13 Copynumber: 3.2 Consensus size: 15
20344463 TCAGCCTCTC
*
20344473 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
20344487 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
20344502 CA--TTTTCATTTTT
1 CATTTTTTCATTTTT
20344515 CAT
1 CAT
20344518 AATTTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 13 0.46
14 8 0.29
15 7 0.25
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:20345410 original size:13 final size:13
Alignment explanation
Indices: 20345387--20345424 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
20345377 TTGGCCTCTC
20345387 CTTTTTA-TTTTT
1 CTTTTTATTTTTT
20345399 CTTTTTATTTTTT
1 CTTTTTATTTTTT
* *
20345412 ATTTTCATTTTTT
1 CTTTTTATTTTTT
20345425 GATTTTGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTTATTTTTT
Found at i:20345423 original size:14 final size:14
Alignment explanation
Indices: 20345400--20345448 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 14
20345390 TTTATTTTTC
*
20345400 TTTTTATTTTTT-A
1 TTTTCATTTTTTGA
20345413 TTTTCATTTTTTGA
1 TTTTCATTTTTTGA
*
20345427 TTTTGA--TTTTGA
1 TTTTCATTTTTTGA
*
20345439 TTTTGATTTT
1 TTTTCATTTT
20345449 GATTTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 12 0.39
13 11 0.35
14 8 0.26
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (14 bp):
TTTTCATTTTTTGA
Found at i:20345430 original size:6 final size:6
Alignment explanation
Indices: 20345421--20345464 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
20345411 TATTTTCATT
*
20345421 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTCGA TT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TT
20345465 GATTTTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.02, G:0.16, T:0.66
Consensus pattern (6 bp):
TTTTGA
Found at i:20345489 original size:40 final size:41
Alignment explanation
Indices: 20345445--20345530 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 41
20345435 TTGATTTTGA
*
20345445 TTTTGATTTTGA-TTTCGA-TTGATTTTTT-TCTTTTTCATTT
1 TTTTGACTTTGACTTT-GATTTGATTTTTTCT-TTTTTCATTT
*
20345485 TTTTGACTTTGACTTTGATTTTGATTTTTTCTTTTTTCTTTT
1 TTTTGACTTTGACTTTGA-TTTGATTTTTTCTTTTTTCATTT
20345527 TTTT
1 TTTT
20345531 TTTGAATTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
40 13 0.32
41 3 0.08
42 23 0.57
43 1 0.03
ACGTcount: A:0.10, C:0.08, G:0.09, T:0.72
Consensus pattern (41 bp):
TTTTGACTTTGACTTTGATTTGATTTTTTCTTTTTTCATTT
Found at i:20355257 original size:12 final size:14
Alignment explanation
Indices: 20355235--20355273 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
20355225 AGGAAAATTT
*
20355235 TAATAATAATATAAA
1 TAATAAT-ATATACA
*
20355250 TGATAATATATACA
1 TAATAATATATACA
20355264 TAATAATATA
1 TAATAATATA
20355274 CAAAAGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATAATATATACA
Found at i:20360870 original size:19 final size:20
Alignment explanation
Indices: 20360845--20360883 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20360835 TTTTCAAATT
20360845 TATATATTTTATAAAAAATGA
1 TATAT-TTTTATAAAAAATGA
*
20360866 TATATTTTTATTAAAAAT
1 TATATTTTTATAAAAAAT
20360884 ATTACATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATTTTTATAAAAAATGA
Found at i:20361182 original size:10 final size:9
Alignment explanation
Indices: 20361152--20361210 Score: 57
Period size: 10 Copynumber: 6.4 Consensus size: 9
20361142 TTTGCATCCT
20361152 TCTCTCAAC
1 TCTCTCAAC
*
20361161 TCTCT-AAT
1 TCTCTCAAC
20361169 TCTCTCAAAC
1 TCTCTC-AAC
20361179 TCTCTCAAAC
1 TCTCTC-AAC
* * *
20361189 CCTCTCGAG
1 TCTCTCAAC
20361198 TCTCTCAAC
1 TCTCTCAAC
20361207 TCTC
1 TCTC
20361211 GTTTTAATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 7 0.17
9 16 0.40
10 17 0.43
ACGTcount: A:0.22, C:0.41, G:0.03, T:0.34
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:20365831 original size:81 final size:81
Alignment explanation
Indices: 20365727--20365893 Score: 262
Period size: 81 Copynumber: 2.1 Consensus size: 81
20365717 ATCAATAATG
*
20365727 CCTTGGAAAAATGGTATCTACTTTATTGCACAGAAGAGTTCTAAAATGGCCTACCTCTAATGAAA
1 CCTTGGAAAAATGGTAACTACTTTATTGCACAGAAGAGTTCTAAAATGGCCTACCTCTAATGAAA
*
20365792 GCAAAACTGCAAGTTA
66 GCAAAACCGCAAGTTA
* * * ** *
20365808 CCTTGGCAAAATGGTAACTACTTTATTGTACAGAAGAGTTCTAAAATGGCCTACCTTTCGTGAGA
1 CCTTGGAAAAATGGTAACTACTTTATTGCACAGAAGAGTTCTAAAATGGCCTACCTCTAATGAAA
20365873 GCAAAACCGCAAGTTA
66 GCAAAACCGCAAGTTA
20365889 CCTTG
1 CCTTG
20365894 CCTGTTTCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (81 bp):
CCTTGGAAAAATGGTAACTACTTTATTGCACAGAAGAGTTCTAAAATGGCCTACCTCTAATGAAA
GCAAAACCGCAAGTTA
Found at i:20371242 original size:10 final size:9
Alignment explanation
Indices: 20371216--20371254 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
20371206 ATATATCTAA
20371216 TTCTCTTTTT
1 TTCT-TTTTT
*
20371226 TTCTTTTCT
1 TTCTTTTTT
20371235 TTCTTTTTT
1 TTCTTTTTT
20371244 TTCCTTTTTT
1 TT-CTTTTTT
20371254 T
1 T
20371255 AATGGAAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:20372049 original size:5 final size:6
Alignment explanation
Indices: 20372034--20372064 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
20372024 TACATGAGAG
*
20372034 AAAAAC AAAAAC AAAAAC AAAAAT AAAAAC A
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC A
20372065 TAACTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:20394454 original size:51 final size:51
Alignment explanation
Indices: 20394399--20394592 Score: 175
Period size: 51 Copynumber: 3.8 Consensus size: 51
20394389 ATGTAAAAGT
* * *
20394399 GAAAGTGAT-GGTCACGTGTCTAGTACTATGTGTAGGCTACTACGTGTACTA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-TA
* * *
20394450 GAAA--GATAGGTCATATGTGTAGTACTATGTGCAGGCTACTATGCGTATCA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAT-A
** * * * * *
20394500 GATACCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACTTGTATTG
1 GA-AAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-TA
* *
20394551 GATAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
20394593 TGTGAACCGG
Statistics
Matches: 114, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
49 4 0.04
50 37 0.32
51 71 0.62
52 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (51 bp):
GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATA
Found at i:20394670 original size:46 final size:44
Alignment explanation
Indices: 20394598--20394686 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 44
20394588 TACTATGTGA
*
20394598 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCT-AATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCCC
* *
20394641 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
20394687 ACAGTGTATC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 5 0.13
44 11 0.28
45 2 0.05
46 16 0.41
47 5 0.13
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (44 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCCC
Found at i:20394868 original size:37 final size:38
Alignment explanation
Indices: 20394797--20394869 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
20394787 ATGTGCAGAA
* *
20394797 TTGAATTGAATAATGACTTCAAAATGACAAAGTGAATT
1 TTGAATTAAATAATGACTTCAAAATGAAAAAGTGAATT
* * *
20394835 TTGAATTAAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTAAATAATGACTTCAAAATGAAAAAGTGAA
20394870 ATTATGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 16 0.53
38 14 0.47
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (38 bp):
TTGAATTAAATAATGACTTCAAAATGAAAAAGTGAATT
Found at i:20396544 original size:24 final size:25
Alignment explanation
Indices: 20396517--20396583 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
20396507 ATTGTTGTTT
20396517 TATCTATTTAAAAA-AAGAGCCATA
1 TATCTATTTAAAAAGAAGAGCCATA
* *
20396541 TATC-ATTATTAAAAAGAGGAGTCATA
1 TATCTA-T-TTAAAAAGAAGAGCCATA
* *
20396567 TATATATTTTAAAAGAA
1 TATCTATTTAAAAAGAA
20396584 TTCAAATATG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
23 1 0.03
24 5 0.15
25 15 0.44
26 12 0.35
27 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.33
Consensus pattern (25 bp):
TATCTATTTAAAAAGAAGAGCCATA
Found at i:20402393 original size:24 final size:24
Alignment explanation
Indices: 20402367--20402411 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
20402357 ATAATTCATT
* *
20402367 TTTTATTTCATTAA-TAAATTGGG
1 TTTTAATTAATTAAGTAAATTGGG
20402390 TTTTAATTAATTAAGTAAATTG
1 TTTTAATTAATTAAGTAAATTG
20402412 ATTAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTTAATTAATTAAGTAAATTGGG
Found at i:20402849 original size:19 final size:19
Alignment explanation
Indices: 20402827--20402864 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20402817 TCAATCATTC
20402827 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
20402846 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
20402865 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:20413152 original size:23 final size:24
Alignment explanation
Indices: 20413126--20413170 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
20413116 ATAGTTCATT
* *
20413126 TTTTATTTCATTAA-TAAATTGGG
1 TTTTAATTAATTAAGTAAATTGGG
20413149 TTTTAATTAATTAAGTAAATTG
1 TTTTAATTAATTAAGTAAATTG
20413171 ATTAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTTAATTAATTAAGTAAATTGGG
Found at i:20413608 original size:19 final size:19
Alignment explanation
Indices: 20413586--20413623 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20413576 TCAATCATTC
20413586 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
20413605 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
20413624 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:20424212 original size:21 final size:20
Alignment explanation
Indices: 20424172--20424212 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20424162 GCAAGTATGA
* *
20424172 TTTTTTATTTTATCTGAGTT
1 TTTTTTATGTTATCTAAGTT
20424192 TTTTTTATGTTATCATAAGTT
1 TTTTTTATGTTATC-TAAGTT
20424213 ATGGAATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTTTATGTTATCTAAGTT
Found at i:20427785 original size:22 final size:23
Alignment explanation
Indices: 20427736--20427794 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
20427726 TCTTCTATTT
* *
20427736 CTTGATTCTCTCTTGGTGGTTTTC
1 CTTGATTCTCTCTAGGTGG-TTTA
20427760 CTTGATTCTCTCTAGGTGG-TTA
1 CTTGATTCTCTCTAGGTGGTTTA
*
20427782 CTTGATTTTCTCT
1 CTTGATTCTCTCT
20427795 TCCTCCAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 14 0.44
24 18 0.56
ACGTcount: A:0.08, C:0.20, G:0.19, T:0.53
Consensus pattern (23 bp):
CTTGATTCTCTCTAGGTGGTTTA
Found at i:20428869 original size:23 final size:23
Alignment explanation
Indices: 20428826--20428869 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20428816 TTTGTTAACA
* * *
20428826 CACTTCGGTGTTGTCCTATTAAG
1 CACTTCGGTGCTATCCCATTAAG
20428849 CACTTCGGTGCTATCCCATTA
1 CACTTCGGTGCTATCCCATTA
20428870 CACGCTCCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (23 bp):
CACTTCGGTGCTATCCCATTAAG
Found at i:20433137 original size:51 final size:51
Alignment explanation
Indices: 20433077--20433179 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
20433067 GTTTTGGAAG
20433077 TTTGTGAGTTTATATATTTGCTTATGTTCATGAACTTTAATGATGACTTGA
1 TTTGTGAGTTTATATATTTGCTTATGTTCATGAACTTTAATGATGACTTGA
*
20433128 TTTGTGAGTTTATATATTTGCTTATGTTCATGAACTTTAATGATGGCTTGA
1 TTTGTGAGTTTATATATTTGCTTATGTTCATGAACTTTAATGATGACTTGA
20433179 T
1 T
20433180 GTATCTTGCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (51 bp):
TTTGTGAGTTTATATATTTGCTTATGTTCATGAACTTTAATGATGACTTGA
Found at i:20433176 original size:26 final size:27
Alignment explanation
Indices: 20433096--20433181 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 27
20433086 TTATATATTT
20433096 GCTT-ATGTTCATGAACTTTAATGATG
1 GCTTGATGTTCATGAACTTTAATGATG
* * * *
20433122 ACTTGAT-TT-GTG-AGTTTATAT-ATTT
1 GCTTGATGTTCATGAACTTTA-ATGA-TG
20433147 GCTT-ATGTTCATGAACTTTAATGATG
1 GCTTGATGTTCATGAACTTTAATGATG
20433173 GCTTGATGT
1 GCTTGATGT
20433182 ATCTTGCTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
24 8 0.18
25 10 0.23
26 14 0.32
27 12 0.27
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.47
Consensus pattern (27 bp):
GCTTGATGTTCATGAACTTTAATGATG
Found at i:20434965 original size:30 final size:32
Alignment explanation
Indices: 20434929--20434990 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
20434919 ACTCTTTTTT
* *
20434929 TCTCTCCTATTTT-TTT-TTTGAAACCAAAAA
1 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
20434959 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
1 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
20434991 AAATTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 12 0.43
31 3 0.11
32 13 0.46
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.44
Consensus pattern (32 bp):
TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
Found at i:20436829 original size:125 final size:124
Alignment explanation
Indices: 20436586--20437151 Score: 710
Period size: 125 Copynumber: 4.5 Consensus size: 124
20436576 GATAAAATCA
* * * * *
20436586 AAGCAGGATGAC-TTATCAGAAGGATTTTTGAAGTCGCGCCCTCGTGTACGCGCTTTTGCTACAA
1 AAGCAGGATG-CTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTAC-A
* * *
20436650 G-AGGTCTTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTC
64 GTAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTT-AAAAACACTTC
* * * *
20436711 AAGTAGGATGCTTTGTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * *
20436776 TGGTCCTGGAAGAAATAATTTTGAGTTGACATTTTTGAGCAAATAGCTTAAAAACACTTC
66 AGGTCCTGGAA-AAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTTAAAAACACTTC
* * *
20436836 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * * *
20436901 AGGTCCT-GAAAAAGTAATTTTGAGTTGACGTTTCCGAGAAAATAG-TATAAAAAAATGCTGC
66 AGGTCCTGGAAAAA-TAATTTTGACTTGACGTTTCTGAGCAAATAGCT-TAAAAACA--CTTC
* * *
20436962 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * * *
20437026 TTGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCATAAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTTAAAAACACTTC
* * *
20437086 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
20437151 A
66 A
20437152 ACATGTTTGG
Statistics
Matches: 378, Mismatches: 52, Indels: 23
0.83 0.11 0.05
Matches are distributed among these distances:
123 6 0.02
124 99 0.26
125 135 0.36
126 130 0.34
127 8 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (124 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCTTAAAAACACTTC
Found at i:20437008 original size:126 final size:124
Alignment explanation
Indices: 20436586--20437151 Score: 701
Period size: 126 Copynumber: 4.5 Consensus size: 124
20436576 GATAAAATCA
* * * * *
20436586 AAGCAGGATGAC-TTATCAGAAGGATTTTTGAAGTCGCGCCCTCGTGTACGCGCTTTTGCTACAA
1 AAGCAGGATG-CTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTAC-A
* * *
20436650 G-AGGTCTTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTC
64 GTAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAAAA-ACTTC
* * * *
20436711 AAGTAGGATGCTTTGTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * * *
20436776 TGGTCCTGGAAGAAATAATTTTGAGTTGACATTTTTGAGCAAATAGCT-TAAAAACACTTC
66 AGGTCCTGGAA-AAATAATTTTGACTTGACGTTTCTGAGCAAATAG-TATAAAAAAACTTC
* * *
20436836 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * *
20436901 AGGTCCT-GAAAAAGTAATTTTGAGTTGACGTTTCCGAGAAAATAGTATAAAAAAATGCTGC
66 AGGTCCTGGAAAAA-TAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAAAAA--CTTC
* * *
20436962 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * ***
20437026 TTGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGCATAAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAAAAACTTC
* * *
20437086 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
20437151 A
66 A
20437152 ACATGTTTGG
Statistics
Matches: 378, Mismatches: 52, Indels: 23
0.83 0.11 0.05
Matches are distributed among these distances:
123 6 0.02
124 99 0.26
125 129 0.34
126 135 0.36
127 9 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (124 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAAAAACTTC
Found at i:20437044 original size:250 final size:250
Alignment explanation
Indices: 20436586--20437151 Score: 784
Period size: 250 Copynumber: 2.3 Consensus size: 250
20436576 GATAAAATCA
* * * * *
20436586 AAGCAGGATGAC-TTATCAGAAGGATTTTTGAAGTCGCGCCCTCGTGTACGCGCTTTTGCTACAA
1 AAGCAGGATG-CTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTAC-A
* * * * *
20436650 G-AGGTCTTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACACTTCAAG
64 GTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCCGAGAAAATAGTATAAAAAACACTGCAAG
* * * * *
20436714 TAGGATGCTTTGTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTACTACAGTTGG
129 CAGCATGCTTTGTGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTACTACAGTTGG
* * *
20436779 TCCTGGAAGAAATAATTTTGAGTTGACATTTTTGAGCAAATAGCTTAAAAACACTTC
194 TCCTGGAAGAAATAATTTTGACTTGACATTTCTGAGCAAATAGCATAAAAACACTTC
20436836 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
20436901 AGGTCCT-GAAAAAGTAATTTTGAGTTGACGTTTCCGAGAAAATAGTATAAAAAA-ATGCTGCAA
66 AGGTCCTGGAAAAA-TAATTTCGACTTGACGTTTCCGAGAAAATAGTATAAAAAACA--CTGCAA
*
20436964 GCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTGCTACAGTT
128 GCAGCATGCT-TTGTGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTACTACAGTT
* * *
20437028 GGTCCTGGAA-AAATAATTTTGACTTGACGTTTCTGAGCAAATAGCATAAAATCGCTTC
192 GGTCCTGGAAGAAATAATTTTGACTTGACATTTCTGAGCAAATAGCATAAAAACACTTC
* * * *
20437086 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
20437151 A
66 A
20437152 ACATGTTTGG
Statistics
Matches: 282, Mismatches: 28, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
249 10 0.04
250 200 0.71
251 70 0.25
252 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (250 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCCGAGAAAATAGTATAAAAAACACTGCAAGCA
GCATGCTTTGTGAGAAGAATTTGTGAAATCGCCCCCTCGTGGACGCCCTTTTACTACAGTTGGTC
CTGGAAGAAATAATTTTGACTTGACATTTCTGAGCAAATAGCATAAAAACACTTC
Found at i:20438338 original size:22 final size:22
Alignment explanation
Indices: 20438297--20438679 Score: 334
Period size: 22 Copynumber: 17.0 Consensus size: 22
20438287 TCAAATTATA
20438297 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
20438318 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
20438340 TTAAAGTTAAAGGTCTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
20438362 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
20438384 TTCAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
20438405 TTTAGGTTAAGGGTTTATGGG-T
1 TTTAAGTTAAGGGTTTA-GGGTT
*
20438427 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
20438448 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
20438470 TTTAAGTTAAAGTTTTAAGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
20438491 TTTAAGGTTTTAA-AGTTAAGGGTTT
1 TTTAA-G--TTAAGGGTTTAGGG-TT
* *
20438516 AGAGTATTAAAGTTAAAGGTCTAGGGTT
1 ----T-TT-AAGTTAAGGGTTTAGGGTT
*
20438544 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
20438565 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
20438586 TTTAATTTAAAGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
20438608 TTTAAGTTAAGGGGTTAAGGG-T
1 TTTAAGTTAA-GGGTTTAGGGTT
20438630 TTTAAGTTAAGGGTTAGGATTAGGGTT
1 TTTAAGTTAAGGG-T----TTAGGGTT
* *
20438657 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
20438679 T
1 T
20438680 GTCAATTAAA
Statistics
Matches: 297, Mismatches: 40, Indels: 49
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.01
21 92 0.31
22 143 0.48
23 16 0.05
24 5 0.02
25 1 0.00
26 6 0.02
27 13 0.04
28 6 0.02
29 7 0.02
30 3 0.01
31 2 0.01
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.43
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:20438419 original size:43 final size:43
Alignment explanation
Indices: 20438297--20438671 Score: 378
Period size: 43 Copynumber: 8.3 Consensus size: 43
20438287 TCAAATTATA
*
20438297 TTTAAGTTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
20438340 TTAAAGTTAAAGGTCTATGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
20438384 TTCAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GGGTT
* *
20438427 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
20438470 TTTAAGTTAAAGTTTTAAGGTTTTAAGGTTTTAAAGTTAAGGGTTTAGAGTA
1 TTTAAGTT-AAG------GG--TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
20438522 TTAAAGTTAAAGGTCTAGGGTTTTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
20438565 TTTAGGTTAAGGGTTAGGGTTTTTAATTTAAAGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
20438608 TTTAAGTTAAGGGGTTAAGGG-TTTTAAGTTAAGGGTTAGGATTAGGGTT
1 TTTAAGTTAA-GGGTT-AGGGTTTTTAAGTTAAGGG-T----TTAGGGTT
*
20438657 TTTAGGTTAAGGGTT
1 TTTAAGTTAAGGGTT
20438672 TAAGGTTTGT
Statistics
Matches: 276, Mismatches: 35, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
42 19 0.07
43 112 0.41
44 81 0.29
45 7 0.03
48 5 0.02
49 16 0.06
50 2 0.01
51 2 0.01
52 32 0.12
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.43
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:20438492 original size:8 final size:8
Alignment explanation
Indices: 20438454--20438503 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
20438444 GGTTTTTAAG
*
20438454 TTAAGGGT
1 TTAAGGTT
20438462 TTAAGGTTT
1 TTAAGG-TT
20438471 TTAA-G--
1 TTAAGGTT
*
20438476 TTAAAGTT
1 TTAAGGTT
20438484 TTAAGGTT
1 TTAAGGTT
20438492 TTAAGGTT
1 TTAAGGTT
20438500 TTAA
1 TTAA
20438504 AGTTAAGGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
5 4 0.11
6 1 0.03
8 26 0.72
9 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (8 bp):
TTAAGGTT
Found at i:20438515 original size:52 final size:52
Alignment explanation
Indices: 20438444--20438547 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
20438434 TAAGGGTTAG
* * * * *
20438444 GGTTTTTAAGTTAAGGGTTTA-AGGTTTTTAAGTTAAAGTTTTAAGGTTTTAA
1 GGTTTTAAAGTTAAGGGTTTAGA-GTATTAAAGTTAAAGGTCTAAGGTTTTAA
*
20438496 GGTTTTAAAGTTAAGGGTTTAGAGTATTAAAGTTAAAGGTCTAGGGTTTTAA
1 GGTTTTAAAGTTAAGGGTTTAGAGTATTAAAGTTAAAGGTCTAAGGTTTTAA
20438548 AGTTAAGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 44 0.98
53 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.25, T:0.43
Consensus pattern (52 bp):
GGTTTTAAAGTTAAGGGTTTAGAGTATTAAAGTTAAAGGTCTAAGGTTTTAA
Found at i:20438543 original size:160 final size:160
Alignment explanation
Indices: 20438324--20438639 Score: 467
Period size: 160 Copynumber: 2.0 Consensus size: 160
20438314 GGTTTTAAAG
* * * * * *
20438324 TTAAGGGTTTAGGGTTTTAAAGTTAAAGGTCTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTCAA
1 TTAAGGGTTTAAGGTTTTAAAGTTAAAGGTCTATGGTATTAAAGTTAAAGGTCTAGGGTTTTAAA
*
20438389 GTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGG-TTTTAATTT-AAGGGTTAGGGTTTTTA
66 GTTAAGGGTTAGGGTTTTTAGGTTAAGGG-TTA-GGGTTTTTAATTTAAAGGGTTAAGGTTTTTA
* *
20438452 AGTTAAGGGTTTAAGGTTTTTAAGTTAAAGTT
129 AGTTAAGGGGTTAAGGGTTTTAAGTTAAAGTT
* * *
20438484 TTAAGGTTTTAAGGTTTTAAAGTTAAGGGTTTA-GAGTATTAAAGTTAAAGGTCTAGGGTTTTAA
1 TTAAGGGTTTAAGGTTTTAAAGTTAAAGGTCTATG-GTATTAAAGTTAAAGGTCTAGGGTTTTAA
*
20438548 AGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAATTTAAAGGTTTAAGGTTTTTAA
65 AGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAATTTAAAGGGTTAAGGTTTTTAA
20438613 GTTAAGGGGTTAAGGGTTTTAAGTTAA
130 GTTAAGGGGTTAAGGGTTTTAAGTTAA
20438640 GGGTTAGGAT
Statistics
Matches: 140, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
158 3 0.02
159 13 0.09
160 124 0.89
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.43
Consensus pattern (160 bp):
TTAAGGGTTTAAGGTTTTAAAGTTAAAGGTCTATGGTATTAAAGTTAAAGGTCTAGGGTTTTAAA
GTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAATTTAAAGGGTTAAGGTTTTTAAG
TTAAGGGGTTAAGGGTTTTAAGTTAAAGTT
Found at i:20439257 original size:18 final size:18
Alignment explanation
Indices: 20439231--20439273 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
20439221 GAGTCGAAAA
* *
20439231 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
20439249 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
20439267 AGGAAAC
1 AGGAAAC
20439274 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:20439901 original size:7 final size:7
Alignment explanation
Indices: 20439891--20439922 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
20439881 TTATATACAT
20439891 AATACTA
1 AATACTA
20439898 AATACTA
1 AATACTA
20439905 AATACT-
1 AATACTA
20439911 AATACTA
1 AATACTA
20439918 AATAC
1 AATAC
20439923 CAATTGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:20439916 original size:13 final size:14
Alignment explanation
Indices: 20439891--20439922 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
20439881 TTATATACAT
20439891 AATACTAAATACTA
1 AATACTAAATACTA
20439905 AATACT-AATACTA
1 AATACTAAATACTA
20439918 AATAC
1 AATAC
20439923 CAATTGACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (14 bp):
AATACTAAATACTA
Found at i:20440128 original size:20 final size:20
Alignment explanation
Indices: 20440091--20440128 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20440081 TTTATTTTTA
*
20440091 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
20440111 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
20440129 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:20441121 original size:51 final size:51
Alignment explanation
Indices: 20441066--20441163 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
20441056 AATTATTTAA
20441066 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
20441117 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
20441164 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:20441139 original size:11 final size:11
Alignment explanation
Indices: 20441125--20441201 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
20441115 ATAAATATGG
20441125 ATTTGAGAGAA
1 ATTTGAGAGAA
*
20441136 ATTTTGA-AGGA
1 A-TTTGAGAGAA
20441147 ATTTGAGAGCAA
1 ATTTGAGAG-AA
20441159 A-TTGAGAGGAA
1 ATTTGAGA-GAA
20441170 ATTT-AGAAGAA
1 ATTTGAG-AGAA
20441181 A-TTGAGAGAAA
1 ATTTGAGAG-AA
20441192 ATTTGAGAGA
1 ATTTGAGAGA
20441202 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
10 9 0.16
11 28 0.51
12 18 0.33
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:20441164 original size:33 final size:33
Alignment explanation
Indices: 20441125--20441201 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
20441115 ATAAATATGG
* * *
20441125 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAGAAA
20441159 A-TTGAGAGGAAATTTAGAAGAAATTGAGAGAAA
1 ATTTGAGA-GAAATTTAGAAGAAATTGAGAGAAA
20441192 ATTTGAGAGA
1 ATTTGAGAGA
20441202 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAGAAA
Found at i:20441954 original size:22 final size:21
Alignment explanation
Indices: 20441932--20441971 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20441922 AATTATTAAT
* *
20441932 ATAATTAT-TAATTTTTTGAA
1 ATAAATATATAATATTTTGAA
20441952 ATAAATATATAATATTTTGA
1 ATAAATATATAATATTTTGA
20441972 GTATACTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
ATAAATATATAATATTTTGAA
Found at i:20442608 original size:61 final size:61
Alignment explanation
Indices: 20442513--20442635 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
20442503 TAACGACGAG
*
20442513 TATGCTTGAAACAAATTTGTACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
1 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
20442574 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
1 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
20442635 T
1 T
20442636 GATCTATCCC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (61 bp):
TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
Found at i:20449382 original size:27 final size:26
Alignment explanation
Indices: 20449337--20449389 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
20449327 TTCCTATTTA
*
20449337 AAAAAGCTTTAATTTTTTAATTATTTTT
1 AAAAAGCTTTAATATTTT-ATT-TTTTT
*
20449365 AAAAAGTTTTAA-ATTTTATTTTTTT
1 AAAAAGCTTTAATATTTTATTTTTTT
20449390 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.22
26 3 0.13
27 4 0.17
28 11 0.48
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (26 bp):
AAAAAGCTTTAATATTTTATTTTTTT
Found at i:20450506 original size:7 final size:7
Alignment explanation
Indices: 20450492--20450538 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
20450482 TAGTCGATTG
20450492 GTATTTA
1 GTATTTA
*
20450499 GCATTTA
1 GTATTTA
20450506 GTATTTA
1 GTATTTA
20450513 GTATTTA
1 GTATTTA
20450520 GTATTTA
1 GTATTTA
20450527 GTATTTA
1 GTATTTA
20450534 GTATT
1 GTATT
20450539 ATGTATTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.55
Consensus pattern (7 bp):
GTATTTA
Found at i:20451213 original size:18 final size:18
Alignment explanation
Indices: 20451190--20451232 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
20451180 TGCCAGGTAC
* *
20451190 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
20451208 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
20451226 GTTTCCT
1 GTATCCT
20451233 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:20455106 original size:126 final size:126
Alignment explanation
Indices: 20454882--20455296 Score: 640
Period size: 126 Copynumber: 3.3 Consensus size: 126
20454872 CCAAACATGC
* * *
20454882 GCTACTGTAGCAAAAGCGCGT-C-CATGTGAAGCTTCTTTCAGTACT-TCTGCTGACAAAGCATC
1 GCTACTATACCAAAAGCGCGTCCACATG-GGAGCTTCTTTCAGTACTAT-TGCTGACAAAGCATC
*
20454944 CTGCTTAAAGCATTTTTGACACCATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
64 CTGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
20455007 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
1 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
* *
20455072 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAAGTATTTTTTCAAGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
*
20455133 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGTTGACAAAGCATCCT
1 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
* * *
20455198 GCTTAAAGCCTTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTT-AGGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
* * * * **
20455258 GCTACTGTAGCAAAAACGCGTCCACGTAAGAGCTTCTTT
1 GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTT
20455297 AAATTAACAA
Statistics
Matches: 270, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
125 55 0.20
126 210 0.78
127 5 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (126 bp):
GCTACTATACCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
Found at i:20455511 original size:98 final size:98
Alignment explanation
Indices: 20455336--20455513 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 98
20455326 CTAAACCCCA
* * * * *
20455336 AACCCTAATTTATTTGTGTTTTTACTTAAAAATCCTAAACACTAAAGCCTAATCTAATTTTTTTA
1 AACCCTAATTTATTTGTATTTTTACTTAAAAATCATAAACACGAAAGCCTAATCCAA-TTTTTGA
20455401 AAAATTTATAA-TTAATTTACTCAAGTAACCCTG
65 AAAATTTATAATTTAATTTACTCAAGTAACCCTG
*
20455434 AACCCTAATTTATTTG-ATTTTTCCTTAAAAA-CAATAAACACGAAA-CCTAATCCAA-TTTTGA
1 AACCCTAATTTATTTGTATTTTTACTTAAAAATC-ATAAACACGAAAGCCTAATCCAATTTTTGA
*
20455495 AAAATTTATGA-TTAATTTA
65 AAAATTTATAATTTAATTTA
20455514 ATTGACAAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
94 23 0.32
96 10 0.14
97 23 0.32
98 16 0.22
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (98 bp):
AACCCTAATTTATTTGTATTTTTACTTAAAAATCATAAACACGAAAGCCTAATCCAATTTTTGAA
AAATTTATAATTTAATTTACTCAAGTAACCCTG
Found at i:20455604 original size:35 final size:33
Alignment explanation
Indices: 20455564--20455629 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
20455554 TTTTCTCTAA
*
20455564 AACCCTAAACCTAAAAACACCAAAACTCTAACCCT
1 AACCCTAAACC-AAAAAC-CCAAAACCCTAACCCT
*
20455599 AACCCTAAACCAATAACCCAAAACCCTAACC
1 AACCCTAAACCAAAAACCCAAAACCCTAACC
20455630 GCAGACACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 13 0.45
34 5 0.17
35 11 0.38
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.12
Consensus pattern (33 bp):
AACCCTAAACCAAAAACCCAAAACCCTAACCCT
Found at i:20457601 original size:48 final size:47
Alignment explanation
Indices: 20457538--20457628 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
20457528 AACACACCAT
* **
20457538 TTGTGGACAAGCCACCACATAATTGCTGATAAACGGCAACATAACACA
1 TTGTAGACAAGCCACCACATAATTGCCAAT-AACGGCAACATAACACA
*
20457586 TTGTAGACAAGCCACCACATAATTGCCAATAACGGCCACATAA
1 TTGTAGACAAGCCACCACATAATTGCCAATAACGGCAACATAA
20457629 TTGCAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 12 0.31
48 27 0.69
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (47 bp):
TTGTAGACAAGCCACCACATAATTGCCAATAACGGCAACATAACACA
Found at i:20464530 original size:27 final size:27
Alignment explanation
Indices: 20464500--20464668 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
20464490 CCCCATGCTC
* * *
20464500 AGTGCTATATAATCAACTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* *
20464527 AGTGCTACGTAATCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
20464554 AGTGCTACATAGTCAAACTCGCACACTT
1 AGTGCTACATAGTCAAA-TCGCACACTT
** * *
20464582 AGTGCCGCATGGTCAATTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* **
20464609 AGTGC-ATCATATTCATTTCGCACACTT
1 AGTGCTA-CATAGTCAAATCGCACACTT
*
20464636 AGTGCAACATAGTCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
20464663 AGTGCT
1 AGTGCT
20464669 GTACAACTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
AGTGCTACATAGTCAAATCGCACACTT
Found at i:20464637 original size:82 final size:81
Alignment explanation
Indices: 20464512--20464667 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20464502 TGCTATATAA
* *
20464512 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
20464577 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
20464594 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
20464658 CACTTAGTGC
65 CACTTAGTGC
20464668 TGTACAACTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:20465962 original size:1 final size:1
Alignment explanation
Indices: 20465958--20465999 Score: 66
Period size: 1 Copynumber: 42.0 Consensus size: 1
20465948 AAAAAGCTTT
* *
20465958 AAAAAAATAAAAATAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20466000 CTTTGTACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.95, C:0.00, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:20466043 original size:13 final size:13
Alignment explanation
Indices: 20466025--20466049 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20466015 GTCTTTTTGA
20466025 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
20466038 AAAAAAAAAAAA
1 AAAAAAAAAAAA
20466050 TTTTTCAGAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:20467467 original size:79 final size:80
Alignment explanation
Indices: 20467360--20467531 Score: 265
Period size: 79 Copynumber: 2.2 Consensus size: 80
20467350 GCTCCTCGTT
*
20467360 CAAATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
20467425 ATTTAACAACTCGCA
66 ATTTAACAACTCGCA
* * *
20467440 CGAATGCCTTCGGGACTTAACCC-GATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
** *
20467504 ATTTAGTATCTCGCA
66 ATTTAACAACTCGCA
*
20467519 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
20467532 ATCTTAATCC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 63 0.76
80 20 0.24
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
ATTTAACAACTCGCA
Found at i:20467478 original size:39 final size:40
Alignment explanation
Indices: 20467362--20467584 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 40
20467352 TCCTCGTTCA
* *
20467362 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
20467402 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
20467442 AATGCCTTCGGGACTTAACCC-GATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
20467481 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
20467521 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
20467561 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20467585 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 41 0.25
40 113 0.70
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:20467538 original size:79 final size:80
Alignment explanation
Indices: 20467360--20467584 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 80
20467350 GCTCCTCGTT
* * * *
20467360 CAAATGCCTTCGGGACAT-AGCCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CAAAGGCCTTCGGGACTTAATCCC-GATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCG
20467424 GATTTAACAACTCGCA
65 GATTTAACAACTCGCA
* *
20467440 CGAATGCCTTCGGGACTTAA-CCCGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAATCCCGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
** *
20467504 ATTTAGTATCTCGCA
66 ATTTAACAACTCGCA
* * * * * * *
20467519 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCC
1 CAAAGGCCTTCGGGA-CTTAATCCCGATTTAATAAC-TCGCACGAATGCCTTCGGGACTTAACCC
20467582 GGA
64 GGA
20467585 CAGCATTCAA
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.02
79 66 0.52
80 51 0.40
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
CAAAGGCCTTCGGGACTTAATCCCGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
ATTTAACAACTCGCA
Found at i:20467568 original size:119 final size:119
Alignment explanation
Indices: 20467362--20467582 Score: 277
Period size: 119 Copynumber: 1.9 Consensus size: 119
20467352 TCCTCGTTCA
* * *
20467362 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAT
* * *
20467427 TTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGATTTAATAACTCGCACG
66 ATAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGATTTAATAACTCGCACG
* ** * *
20467481 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGA
* *
20467545 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCG
65 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCG
20467583 GACAGCATTC
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
118 3 0.03
119 77 0.90
120 6 0.07
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAT
ATAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGATTTAATAACTCGCACG
Found at i:20475286 original size:40 final size:40
Alignment explanation
Indices: 20475242--20475465 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
20475232 TCCTCGTTCA
* *
20475242 AATGCCTTCGGGACATAGCCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
20475282 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
20475322 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
20475362 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
20475402 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
20475442 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20475466 CAGCATTCAA
Statistics
Matches: 164, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.93
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:20477404 original size:41 final size:41
Alignment explanation
Indices: 20477347--20477532 Score: 311
Period size: 41 Copynumber: 4.5 Consensus size: 41
20477337 TTTGACATAT
* *
20477347 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA-A
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT-CAGA
*
20477388 TCACCGGCACTTAGCCTACTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
20477429 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
20477470 TCACCGGCTCTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
20477511 TCACCGGCTCTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
20477533 ACTTAAAGTC
Statistics
Matches: 139, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
40 2 0.01
41 137 0.99
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:20477556 original size:82 final size:81
Alignment explanation
Indices: 20477347--20477586 Score: 290
Period size: 82 Copynumber: 2.9 Consensus size: 81
20477337 TTTGACATAT
* * * *
20477347 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA-ATCACCGGCACTTAGCCTACTAGG
1 TCACCGGCACTTAGCCTGCTAGACTTATAACCTAATT-CAGATCACCGGC-CTTAGCCTGCTAGG
20477411 TTTATAACCTGATTCAGA
64 TTTATAACCTGATTCAGA
** *
20477429 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCTCTTAGCCTGCTAGGT
1 TCACCGGCACTTAGCCTGCTAGACTTATAACCTAATTCAGATCACCGGC-CTTAGCCTGCTAGGT
20477494 TTATAACCTGATTCAGA
65 TTATAACCTGATTCAGA
* * **
20477511 TCACCGGCTCTTAGCCTGCTAGACTTA-AAGTCTAAATT-ATTTCACCGGCCTTAAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAGACTTATAA-CCT-AATTCAGATCACCGGCCTT-AGCCTGCTAG
20477574 GTTT-TAAACCTGA
63 GTTTAT-AACCTGA
20477587 AAATTTCAAT
Statistics
Matches: 142, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
81 8 0.06
82 131 0.92
83 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (81 bp):
TCACCGGCACTTAGCCTGCTAGACTTATAACCTAATTCAGATCACCGGCCTTAGCCTGCTAGGTT
TATAACCTGATTCAGA
Found at i:20477568 original size:123 final size:123
Alignment explanation
Indices: 20477347--20477586 Score: 301
Period size: 123 Copynumber: 2.0 Consensus size: 123
20477337 TTTGACATAT
* **
20477347 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCAATCACCGGCACTTAGCCTACTAGGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCCAATCACCGGCACTTAGCCTACTAGAC
*
20477412 TTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG-TTTATAACCTGATTCAGA
66 TTATAACCTAATTCAGATCACCGGCACTTAGCCTGCTAGGTTTTA-AACCTGATTCAGA
* * * *
20477470 TCACCGGCTCTTAGCCTGCTAGGTTTATAACCTGATT-CAGATCACCGGCTCTTAGCCTGCTAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCCA-ATCACCGGCACTTAGCCTACTAGA
* **
20477534 CTTA-AAGTCTAAATT-ATTTCACCGGC-CTTAAGCCTGCTAGGTTTTAAACCTGA
65 CTTATAA-CCT-AATTCAGATCACCGGCACTT-AGCCTGCTAGGTTTTAAACCTGA
20477587 AAATTTCAAT
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
122 7 0.07
123 87 0.86
124 7 0.07
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (123 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCCAATCACCGGCACTTAGCCTACTAGAC
TTATAACCTAATTCAGATCACCGGCACTTAGCCTGCTAGGTTTTAAACCTGATTCAGA
Found at i:20483436 original size:82 final size:81
Alignment explanation
Indices: 20483299--20483538 Score: 335
Period size: 82 Copynumber: 2.9 Consensus size: 81
20483289 TTTAACATAT
* *
20483299 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCTAATCACCGGCACTTAGCCTGCTAGGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTC-ATTCACCGGCACTTAGCCTGCTAGGT
20483364 TTATAACCTGATTCAGA
65 TTATAACCTGATTCAGA
*
20483381 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCA-TTCACCGGCACTTAGCCTGCTAGGT
20483446 TTATAACCTGATTCAGA
65 TTATAACCTGATTCAGA
* * *
20483463 TCACCGGCTCTTAGCCTGCTAGACTTA-AAGTCTGAATT-ATTTCACCGGC-CTTAAGCCTGCTA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTG-ATTCA-TTCACCGGCACTT-AGCCTGCTA
20483525 GGTTT-TAAACCTGA
62 GGTTTAT-AACCTGA
20483539 AAATTTCAAT
Statistics
Matches: 145, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
81 7 0.05
82 135 0.93
83 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (81 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCATTCACCGGCACTTAGCCTGCTAGGTT
TATAACCTGATTCAGA
Found at i:20483511 original size:41 final size:41
Alignment explanation
Indices: 20483299--20483484 Score: 320
Period size: 41 Copynumber: 4.5 Consensus size: 41
20483289 TTTAACATAT
* *
20483299 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCTA-A
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTC-AGA
20483340 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
20483381 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGT
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
20483422 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
20483463 TCACCGGCTCTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
20483485 ACTTAAAGTC
Statistics
Matches: 139, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
40 1 0.01
41 138 0.99
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:20483520 original size:123 final size:123
Alignment explanation
Indices: 20483298--20483538 Score: 330
Period size: 123 Copynumber: 2.0 Consensus size: 123
20483288 ATTTAACATA
* *
20483298 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCTAATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCTAATCACCGGCACTTAGCCTGCTAGA
*
20483363 TTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG-TTTATAACCTGATTCAG
66 CTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTTA-AACCTGATTCAG
* *
20483421 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTC-AGATCACCGGCTCTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCTA-ATCACCGGCACTTAGCCTGCTAG
* **
20483485 ACTTA-AAGTCTGAATT-ATTTCACCGGC-CTTAAGCCTGCTAGGTTTTAAACCTGA
65 ACTTATAA-CCTG-ATTCAGATCACCGGCACTT-AGCCTGCTAGGTTTTAAACCTGA
20483539 AAATTTCAAT
Statistics
Matches: 105, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
122 6 0.06
123 92 0.88
124 7 0.07
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (123 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCTAATCACCGGCACTTAGCCTGCTAGA
CTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTTAAACCTGATTCAG
Found at i:20487769 original size:20 final size:18
Alignment explanation
Indices: 20487722--20487828 Score: 53
Period size: 20 Copynumber: 5.8 Consensus size: 18
20487712 CAAGATAAAC
20487722 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
*
20487739 ATGAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
20487759 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
20487778 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
*
20487795 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
20487815 ATTAAAATAATATT
1 ATTAAATTAATATT
20487829 AATTCTAGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
16 1 0.01
17 14 0.21
18 9 0.13
19 21 0.31
20 23 0.34
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:20487816 original size:37 final size:36
Alignment explanation
Indices: 20487754--20487831 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 36
20487744 GATAATCACT
*
20487754 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
20487791 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
20487827 TTAAT
1 TTAAT
20487832 TCTAGAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
36 12 0.33
37 22 0.61
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:20489200 original size:28 final size:28
Alignment explanation
Indices: 20489121--20489246 Score: 144
Period size: 28 Copynumber: 4.4 Consensus size: 28
20489111 ATACAATATG
* * * *
20489121 CAGTAACAGTCTGGGCCTGAGCCCTATT
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
*
20489149 CAGTAACAGTACAGTGTGGCCTTAGCCCGATA
1 CAGTAACAGT---GTG-GGCCTTAGCCCAATA
* *
20489181 CAGTAATAGTGTGGGCCTTAGCCTAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
*
20489209 CAGTAACAGTGTGGACCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
20489237 CAGTAACAGT
1 CAGTAACAGT
20489247 ATAGTGCAGT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
28 58 0.69
29 3 0.04
31 2 0.02
32 21 0.25
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:20489214 original size:60 final size:56
Alignment explanation
Indices: 20489121--20489246 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 56
20489111 ATACAATATG
* * *
20489121 CAGTAACAGTCTGGGCCTGAGCCCTATTCAGTAACAGTACAGTGTGGCCTTAGCCCGATA
1 CAGTAACAGTCTGGGCCTGAGCCCTATACAGTAACAGT---GTG-GACCTTAGCCCAATA
* * *
20489181 CAGTAATAGTGTGGGCCTTAG-CCTAATACAGTAACAGTGTGGACCTTAGCCCAATA
1 CAGTAACAGTCTGGGCCTGAGCCCT-ATACAGTAACAGTGTGGACCTTAGCCCAATA
20489237 CAGTAACAGT
1 CAGTAACAGT
20489247 ATAGTGCAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
56 22 0.38
57 3 0.05
59 3 0.05
60 30 0.52
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (56 bp):
CAGTAACAGTCTGGGCCTGAGCCCTATACAGTAACAGTGTGGACCTTAGCCCAATA
Found at i:20490172 original size:15 final size:15
Alignment explanation
Indices: 20490148--20490179 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20490138 TATGCATGTA
*
20490148 AAATATAAAAGACAT
1 AAATACAAAAGACAT
20490163 AAATACAAAAGACAT
1 AAATACAAAAGACAT
20490178 AA
1 AA
20490180 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:20495018 original size:72 final size:71
Alignment explanation
Indices: 20494893--20495032 Score: 217
Period size: 72 Copynumber: 2.0 Consensus size: 71
20494883 TGCTTTGGGT
* *
20494893 AATGGAACTTAGATACTGTCGCACCCAAGGCCAATGTGGATGTTCCCAAGCCCAAGAAGTTCAAG
1 AATGGAACTTAGATACTATCGCACCCAAGGCCAATGTGAATGTTCCCAAGCCCAAGAAGTTCAAG
20494958 GGAGGC
66 GGAGGC
* * * *
20494964 AATGGAAGGTTAGATACTATCGCACCCAAGGCTAGTGTGAATGTTCCCAAGCCCAAGGAGTTCAA
1 AATGGAA-CTTAGATACTATCGCACCCAAGGCCAATGTGAATGTTCCCAAGCCCAAGAAGTTCAA
20495029 GGGA
65 GGGA
20495033 ATAAGGTCCA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 7 0.11
72 55 0.89
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.19
Consensus pattern (71 bp):
AATGGAACTTAGATACTATCGCACCCAAGGCCAATGTGAATGTTCCCAAGCCCAAGAAGTTCAAG
GGAGGC
Found at i:20495541 original size:15 final size:15
Alignment explanation
Indices: 20495521--20495551 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20495511 TATGATTTTG
20495521 TGGTTGGATTAAGTT
1 TGGTTGGATTAAGTT
20495536 TGGTTGGATTAAGTT
1 TGGTTGGATTAAGTT
20495551 T
1 T
20495552 CCTTGATCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.48
Consensus pattern (15 bp):
TGGTTGGATTAAGTT
Found at i:20495800 original size:100 final size:100
Alignment explanation
Indices: 20495626--20495826 Score: 348
Period size: 100 Copynumber: 2.0 Consensus size: 100
20495616 CAATGCATGG
20495626 TGAGAATGACAAGGAACAGAAACATGGAGGGAAAAACATTGTTGACAATCCAATTTGCTAAAGGA
1 TGAGAATGACAAGGAACAGAAACATGGAGGGAAAAACATTGTTGACAATCCAATTTGCTAAAGGA
*
20495691 ATACATAGAGATGAAGTCTCCTATTTAGCCACATT
66 ATACATAGAGATAAAGTCTCCTATTTAGCCACATT
* *
20495726 TGAGAATGACAAGGAAGAGAAACATGGAGGGAAAAACATTGTTGACAATCCAATTTTCTAAAGGA
1 TGAGAATGACAAGGAACAGAAACATGGAGGGAAAAACATTGTTGACAATCCAATTTGCTAAAGGA
* * *
20495791 GTACGTAGAGATAAAGTCTCCTATTTAGCTACATT
66 ATACATAGAGATAAAGTCTCCTATTTAGCCACATT
20495826 T
1 T
20495827 AAGATCAAAA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 95 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (100 bp):
TGAGAATGACAAGGAACAGAAACATGGAGGGAAAAACATTGTTGACAATCCAATTTGCTAAAGGA
ATACATAGAGATAAAGTCTCCTATTTAGCCACATT
Found at i:20500389 original size:17 final size:18
Alignment explanation
Indices: 20500350--20500393 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
20500340 ATGAAATTAG
*
20500350 AATTTGATTGAGAAAAAT
1 AATTTAATTGAGAAAAAT
*
20500368 AATTTAATTGAG-AAATT
1 AATTTAATTGAGAAAAAT
20500385 AATTTAATT
1 AATTTAATT
20500394 AATTAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (18 bp):
AATTTAATTGAGAAAAAT
Found at i:20500395 original size:9 final size:9
Alignment explanation
Indices: 20500380--20500475 Score: 70
Period size: 9 Copynumber: 10.4 Consensus size: 9
20500370 TTTAATTGAG
20500380 AAATTAATT
1 AAATTAATT
*
20500389 TAATTAATT
1 AAATTAATT
*
20500398 AAATTAACT
1 AAATTAATT
20500407 AAACTAATAGATT
1 AAA-T--TA-ATT
*
20500420 AATTTAA-T
1 AAATTAATT
20500428 AAATTAATT
1 AAATTAATT
*
20500437 TAATTAATT
1 AAATTAATT
*
20500446 AAATTAACT
1 AAATTAATT
*
20500455 AAACTAA-T
1 AAATTAATT
* *
20500463 AGATTAAAT
1 AAATTAATT
20500472 AAAT
1 AAAT
20500476 AATATTTTGA
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
8 13 0.19
9 45 0.66
10 3 0.04
12 3 0.04
13 4 0.06
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (9 bp):
AAATTAATT
Found at i:20500397 original size:13 final size:13
Alignment explanation
Indices: 20500383--20500452 Score: 61
Period size: 13 Copynumber: 5.3 Consensus size: 13
20500373 AATTGAGAAA
20500383 TTAATTTAATTAAT
1 TTAA-TTAATTAAT
* * *
20500397 TAAATTAACTAAA
1 TTAATTAATTAAT
*
20500410 CTAA-TAGATTAAT
1 TTAATTA-ATTAAT
*
20500423 TTAATAAATTAAT
1 TTAATTAATTAAT
*
20500436 TTAATTAATTAAA
1 TTAATTAATTAAT
20500449 TTAA
1 TTAA
20500453 CTAAACTAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
12 2 0.05
13 37 0.86
14 4 0.09
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (13 bp):
TTAATTAATTAAT
Found at i:20500477 original size:48 final size:48
Alignment explanation
Indices: 20500380--20500477 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
20500370 TTTAATTGAG
* *
20500380 AAATTAATTTAATTAATTAAATTAACTAAACTAATAGATTAATTTAAT
1 AAATTAATTTAATTAATTAAATTAACTAAACTAATAGATTAAATAAAT
20500428 AAATTAATTTAATTAATTAAATTAACTAAACTAATAGATTAAATAAAT
1 AAATTAATTTAATTAATTAAATTAACTAAACTAATAGATTAAATAAAT
20500476 AA
1 AA
20500478 TATTTTGAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (48 bp):
AAATTAATTTAATTAATTAAATTAACTAAACTAATAGATTAAATAAAT
Found at i:20505552 original size:17 final size:18
Alignment explanation
Indices: 20505530--20505563 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20505520 AAAAAGTTGT
20505530 TATAAG-GTTAGATAAAC
1 TATAAGTGTTAGATAAAC
*
20505547 TATAAGTGTTGGATAAA
1 TATAAGTGTTAGATAAA
20505564 AGTCTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (18 bp):
TATAAGTGTTAGATAAAC
Found at i:20513240 original size:2 final size:2
Alignment explanation
Indices: 20513233--20513279 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
20513223 TCTCATTCTC
20513233 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20513275 AG AG A
1 AG AG A
20513280 CGTATATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20518502 original size:22 final size:22
Alignment explanation
Indices: 20518474--20518518 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
20518464 AGGGGGAGTG
20518474 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
20518496 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
20518518 T
1 T
20518519 TTTTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Done.