Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 155 of 313
Found at i:49024966 original size:87 final size:87
Alignment explanation
Indices: 49024875--49025035 Score: 200
Period size: 87 Copynumber: 1.9 Consensus size: 87
49024865 TTTCAGATCT
* * * * *
49024875 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTG-AGATTACAG
1 TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAAG-TTACAG
49024938 CAGAGCAGATCAAAGACACTATTC
64 CAGAGCAGATCAAAGACACTATTC
* * * *
49024962 TATCTCCCTAAAGTTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCA
1 TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAAGTTACAGCA
*
49025027 GAGTAGATC
66 GAGCAGATC
49025036 GCATCAGGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 58 0.94
88 4 0.06
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (87 bp):
TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAAGTTACAGCA
GAGCAGATCAAAGACACTATTC
Found at i:49024994 original size:218 final size:218
Alignment explanation
Indices: 49024610--49025588 Score: 1660
Period size: 218 Copynumber: 4.5 Consensus size: 218
49024600 ATATTTCAAA
* ** * *
49024610 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTGAGGTT
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTCAGATCTTATCTCCCTGAGGTT
* * *
49024672 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTACAGCAGAGCAGATCGAATAC
65 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGAC
* * * *
49024737 ACTA-TCATATCTCCCTAAAGTTACAGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTAAAG
130 ACTATTC-TATCTCCCTAAAGTTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG
49024801 TTACAGCAGAGTAGATCGCATCAGG
194 TTACAGCAGAGTAGATCGCATCAGG
*
49024826 TCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
49024891 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGACA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGACA
49024956 CTATTCTATCTCCCTAAAGTTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
131 CTATTCTATCTCCCTAAAGTTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
49025021 ACAGCAGAGTAGATCGCATCAGG
196 ACAGCAGAGTAGATCGCATCAGG
49025044 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
*
49025109 CAGTGGAGCAAATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGACA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGACA
* *
49025174 CTATTCTATCTCCCTAAAGTTATAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTTAAGTT
131 CTATTCTATCTCCCTAAAGTTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
* *
49025239 ACAGCAAAGTAGATCACATCAGG
196 ACAGCAGAGTAGATCGCATCAGG
*
49025262 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
* * * * *
49025327 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTATAGCGGAACAGATCGAATACA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGACA
* * *
49025392 CTATCCAATCTCCCTGAAGTTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
131 CTATTCTATCTCCCTAAAGTTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
49025457 ACAGCAGAGTAGATCGCATCAGG
196 ACAGCAGAGTAGATCGCATCAGG
*
49025480 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
49025545 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
49025589 TAGTGAAGTA
Statistics
Matches: 724, Mismatches: 35, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
215 1 0.00
216 33 0.05
218 688 0.95
219 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (218 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGACA
CTATTCTATCTCCCTAAAGTTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
ACAGCAGAGTAGATCGCATCAGG
Found at i:49025599 original size:131 final size:129
Alignment explanation
Indices: 49024604--49025601 Score: 480
Period size: 131 Copynumber: 7.6 Consensus size: 129
49024594 CAGTGAATAT
* *
49024604 TTCAAATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAG
1 TTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAG
* * * * * * **
49024669 GTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTACAGCAGAGCAGATC--G
66 ATTACAGTGAAGCAGATCGAA-TCAG-G-TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCAAG
49024732 AA
128 AA
* * * * * * * * * *
49024734 TACACTATCATATCTCCCTAAAGTTACAGTGGAACAGATT-AAAATAAAGGATCTTATCTCTCT-
1 TTCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAGA-GATCTTATCTCCCTG
* * * * * * *
49024797 AAAGTTACAG-CAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGA
64 AGA-TTACAGTGA-AGCAGATCGAATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGATC-A
49024861 AGAA
126 AGAA
*
49024865 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
1 -TTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGA
* * * * * * * * * *
49024930 GATTACAG-CAGAGCAGATCAAAGACA-CTATTCTATCTCCCTAAAGTTATAGTGGAGCGGATTA
65 GATTACAGTGA-AGCAGATCGAA-TCAGGT-CT-TATCTCCCTGAGGTTACAGTGGAGCAGATCA
49024993 A-AA
126 AGAA
** * * ** * * * *
49024996 TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA-TCAG-G-TCTTATCTCCCTGA
1 TTCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGA
* * * * * *
49025058 GGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAAATT
65 GATTACAGTGAAGCAGATC---GAA--TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGA-T
* *
49025123 GAAGCCA
124 CAAG-AA
* * ** ** **
49025130 --GAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATCAAAGACA-CTAT-TCTATCTCCCT-A
1 TTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAGAGATCT-TATCTCCCTGA
* * * * ** * * * * * *** *
49025190 AAGTTATAGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTTAAGTTACAGCAAAGTAGATC-
65 GA-TTACAGTGAAGCAGA-TCGAAT-CAGG-TCTTATCTCCCTGAGGTTACAGTGGAGCAGATCA
*
49025254 A-CA
126 AGAA
* * ** *
49025257 -TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTTAGATCTTATCTCCCT
1 TTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACA---GAGATCTTATCTCCCT
* * * * * * * *
49025320 GAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTATAGCGGAACAGATC
63 GAGATTACAGTGAAGCAGATCGAA-TCAG-G-TCTTATCTCCCTGAGGTTACAGTGGAGCAGATC
49025385 --GAA
125 AAGAA
* * ** * * * * * * *
49025388 TACACTATCCAATCTCCCTGAAGTTATAGTGGAGCGGATT-AAAATAAAGGATCTTATCTCTCTG
1 TTCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAGA-GATCTTATCTCCCTG
* * * *
49025452 A-AGTTACAG-CAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGA
64 AGA-TTACAGTGA-AGCAGATCGAATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGATC-A
49025515 AGAA
126 AGAA
*
49025519 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGA
1 -TTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGA
* *
49025584 GATTATAGTGAAGTAGAT
65 GATTACAGTGAAGCAGAT
49025602 TTAAGCCACC
Statistics
Matches: 637, Mismatches: 177, Indels: 107
0.69 0.19 0.12
Matches are distributed among these distances:
127 3 0.00
128 115 0.18
129 5 0.01
130 28 0.04
131 373 0.59
132 41 0.06
133 71 0.11
134 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (129 bp):
TTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAGAGATCTTATCTCCCTGAG
ATTACAGTGAAGCAGATCGAATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGATCAAGAA
Found at i:49025621 original size:44 final size:44
Alignment explanation
Indices: 49025522--49025625 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 44
49025512 CGAAGAATTT
* * *
49025522 CAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 CAGATCCTATCTCCCTGAGATTACAGTGAAGCAGATTGAAGCCA
* * * * *
49025566 GAGATCTTATCTCCCTGAGATTATAGTGAAGTAGATTTAAGCCA
1 CAGATCCTATCTCCCTGAGATTACAGTGAAGCAGATTGAAGCCA
49025610 CCAG-TCCTATCTCCCT
1 -CAGATCCTATCTCCCT
49025626 AAGCAGTAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 49 0.96
45 2 0.04
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CAGATCCTATCTCCCTGAGATTACAGTGAAGCAGATTGAAGCCA
Found at i:49025623 original size:262 final size:261
Alignment explanation
Indices: 49025257--49025772 Score: 569
Period size: 262 Copynumber: 2.0 Consensus size: 261
49025247 GTAGATCACA
* * *
49025257 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTTAGATCTTATCTCCCTGA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAA--TGAGATCTTATCTCCCTGA
* * * * * * * *
49025322 GGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAG-ATTA-T-AGCGGAACAGAT
64 GATTACAGTGAAGCAGATTGAAGCCACAGATCCTATCTCCCTAAGCAGTAGTGAGCAG-ACA-AA
* * * * * *
49025384 CGAATACACTATCCAATCTCCCTGAAGTTATAGTGGAGCGGATTAAAA-TAAAGGATCTTATCTC
127 AGAA-AC-CAATCCAATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCAAA-GATCTTATCCC
* * *
49025448 TCTGAAGTTACAGCAGAGTAGATCGCAT-CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGAT
189 TCTGAAGTTACAGCAGAGCAGATCGCATCCA-GTCTTATCTCCCTGAAGTCACAGTGGAGTAGAT
49025512 CGAAGAATT
253 CGAAGAATT
** *
49025521 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-GAGATCTTATCTCCCTGAG
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAG-AATGAGATCTTATCTCCCTGAG
* * *
49025585 ATTATAGTGAAGTAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGACAAAA
65 ATTACAGTGAAGCAGATTGAAGCCA-CAGATCCTATCTCCCTAAGCAGTAGT-GAGCAGACAAAA
* * * *
49025649 GAAACCAATCCTATCTCCCTAAAGTTGCATTGGAGCGGATTAAAACCATAGATCTTATCCCTCTG
128 GAAACCAATCCAATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCAAAGATCTTATCCCTCTG
** * * *
49025714 AAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTCTCTGAAGTCGCAGTGGAGTAGA
193 AAGTTACAGCAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTCACAGTGGAGTAGA
49025773 CTAAAACCAC
Statistics
Matches: 209, Mismatches: 35, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
262 147 0.70
263 11 0.05
264 43 0.21
265 4 0.02
266 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (261 bp):
TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATGAGATCTTATCTCCCTGAGA
TTACAGTGAAGCAGATTGAAGCCACAGATCCTATCTCCCTAAGCAGTAGTGAGCAGACAAAAGAA
ACCAATCCAATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCAAAGATCTTATCCCTCTGAAG
TTACAGCAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTCACAGTGGAGTAGATCGAAGAAT
T
Found at i:49027584 original size:16 final size:16
Alignment explanation
Indices: 49027563--49027601 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
49027553 AATGTATACA
49027563 TATATATACATACTTT
1 TATATATACATACTTT
*
49027579 TATATATACATGCTTT
1 TATATATACATACTTT
*
49027595 CATATAT
1 TATATAT
49027602 CTCCATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:49027601 original size:34 final size:35
Alignment explanation
Indices: 49027547--49027649 Score: 97
Period size: 34 Copynumber: 3.0 Consensus size: 35
49027537 TTTTATATAA
*
49027547 ATATATA-ATGTATA-CATATATATACATACTTTT
1 ATATATACATGCATATCATATATATACATACTTTT
* * * *
49027580 ATATATACATGC-TTTCATATATCTCCATAATTTT
1 ATATATACATGCATATCATATATATACATACTTTT
* * *
49027614 ATGTATATATGCATAT-ATATATATATATATCTTTT
1 ATATATACATGCATATCATATATATACATA-CTTTT
49027649 A
1 A
49027650 CATTTTTATA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
33 8 0.15
34 39 0.72
35 7 0.13
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.48
Consensus pattern (35 bp):
ATATATACATGCATATCATATATATACATACTTTT
Found at i:49028502 original size:21 final size:21
Alignment explanation
Indices: 49028459--49028504 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
49028449 TTGAATCTCA
* **
49028459 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCTCTCGCTGCCGCAACT
*
49028480 GCTTCTCTCGTTGCCGCAACT
1 GCTTCTCTCGCTGCCGCAACT
49028501 GCTT
1 GCTT
49028505 TAAGTTGTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.39, G:0.20, T:0.37
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCAACT
Found at i:49029556 original size:39 final size:38
Alignment explanation
Indices: 49029511--49029588 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 38
49029501 CCTTCTTTAT
*
49029511 ATAAGCATCGGAGACCTCTAGAGCAAATCTTGCCTACA
1 ATAAGCATCGGAGACCTCTAGAGCAAATCTCGCCTACA
49029549 NATAAGCATCGGAGACCTCTAGAGCAAATCTCGCCTACA
1 -ATAAGCATCGGAGACCTCTAGAGCAAATCTCGCCTACA
49029588 A
1 A
49029589 AAAACACAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 1 0.03
39 37 0.97
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.19
Consensus pattern (38 bp):
ATAAGCATCGGAGACCTCTAGAGCAAATCTCGCCTACA
Found at i:49040714 original size:9 final size:9
Alignment explanation
Indices: 49040651--49040953 Score: 207
Period size: 9 Copynumber: 35.3 Consensus size: 9
49040641 TATGTATTAA
*
49040651 GTAAATTAT
1 GTAAGTTAT
49040660 GTAAGTTAT
1 GTAAGTTAT
49040669 G-AACGTGTA-
1 GTAA-GT-TAT
49040678 -TAAGTTAT
1 GTAAGTTAT
*
49040686 GTAAGTCAT
1 GTAAGTTAT
*
49040695 GT-A-TTAA
1 GTAAGTTAT
*
49040702 GTAAGCTAT
1 GTAAGTTAT
*
49040711 GTAAGTTGT
1 GTAAGTTAT
*
49040720 GTAAGATAT
1 GTAAGTTAT
*
49040729 TTAAGTTAT
1 GTAAGTTAT
*
49040738 GTAAGTTTT
1 GTAAGTTAT
49040747 GT-A-TTAT
1 GTAAGTTAT
49040754 GTAAGTTAT
1 GTAAGTTAT
49040763 G-AACGTGTA-
1 GTAA-GT-TAT
49040772 -TAAGTTAT
1 GTAAGTTAT
*
49040780 GTAAGTCAT
1 GTAAGTTAT
*
49040789 GT-A-TTAA
1 GTAAGTTAT
*
49040796 GTAAGCTAT
1 GTAAGTTAT
*
49040805 GTAAGTTGT
1 GTAAGTTAT
*
49040814 GTAAGATAT
1 GTAAGTTAT
*
49040823 TTAAGTTAT
1 GTAAGTTAT
*
49040832 GTAAGTTTT
1 GTAAGTTAT
49040841 GT-A-TTAT
1 GTAAGTTAT
49040848 GTAAGTTAT
1 GTAAGTTAT
49040857 G-AACGTGTA-
1 GTAA-GT-TAT
49040866 -TAAGTTAT
1 GTAAGTTAT
*
49040874 GTAAGTCAT
1 GTAAGTTAT
*
49040883 GT-A-TTAA
1 GTAAGTTAT
*
49040890 GTAAGCTAT
1 GTAAGTTAT
*
49040899 GTAAGTTGT
1 GTAAGTTAT
*
49040908 GTAAGATAT
1 GTAAGTTAT
*
49040917 TTAAGTTAT
1 GTAAGTTAT
*
49040926 GTAAGTTTT
1 GTAAGTTAT
49040935 GT-A-TTAT
1 GTAAGTTAT
49040942 GTAAGTTAT
1 GTAAGTTAT
49040951 GTA
1 GTA
49040954 TGCTATGTAT
Statistics
Matches: 224, Mismatches: 43, Indels: 54
0.70 0.13 0.17
Matches are distributed among these distances:
7 33 0.15
8 24 0.11
9 161 0.72
10 6 0.03
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.43
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:49040753 original size:94 final size:94
Alignment explanation
Indices: 49040655--49040951 Score: 594
Period size: 94 Copynumber: 3.2 Consensus size: 94
49040645 TATTAAGTAA
49040655 ATTATGTAAGTTATGAACGTGTATAAGTTATGTAAGTCATGTATTAAGTAAGCTATGTAAGTTGT
1 ATTATGTAAGTTATGAACGTGTATAAGTTATGTAAGTCATGTATTAAGTAAGCTATGTAAGTTGT
49040720 GTAAGATATTTAAGTTATGTAAGTTTTGT
66 GTAAGATATTTAAGTTATGTAAGTTTTGT
49040749 ATTATGTAAGTTATGAACGTGTATAAGTTATGTAAGTCATGTATTAAGTAAGCTATGTAAGTTGT
1 ATTATGTAAGTTATGAACGTGTATAAGTTATGTAAGTCATGTATTAAGTAAGCTATGTAAGTTGT
49040814 GTAAGATATTTAAGTTATGTAAGTTTTGT
66 GTAAGATATTTAAGTTATGTAAGTTTTGT
49040843 ATTATGTAAGTTATGAACGTGTATAAGTTATGTAAGTCATGTATTAAGTAAGCTATGTAAGTTGT
1 ATTATGTAAGTTATGAACGTGTATAAGTTATGTAAGTCATGTATTAAGTAAGCTATGTAAGTTGT
49040908 GTAAGATATTTAAGTTATGTAAGTTTTGT
66 GTAAGATATTTAAGTTATGTAAGTTTTGT
49040937 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
49040952 TATGCTATGT
Statistics
Matches: 203, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 203 1.00
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.43
Consensus pattern (94 bp):
ATTATGTAAGTTATGAACGTGTATAAGTTATGTAAGTCATGTATTAAGTAAGCTATGTAAGTTGT
GTAAGATATTTAAGTTATGTAAGTTTTGT
Found at i:49040806 original size:25 final size:25
Alignment explanation
Indices: 49040772--49040953 Score: 101
Period size: 25 Copynumber: 7.4 Consensus size: 25
49040762 TGAACGTGTA
49040772 TAAGTTATGTAAGTCATGTATTAAG
1 TAAGTTATGTAAGTCATGTATTAAG
* ** * **
49040797 TAAGCTATGTAAGTTGTGTAAGATATT
1 TAAGTTATGTAAGTCATGT-A-TTAAG
** *
49040824 TAAGTTATGTAAGTTTTGTATTATG
1 TAAGTTATGTAAGTCATGTATTAAG
*
49040849 TAAGTTATG-AA--C--GT-GT-A-
1 TAAGTTATGTAAGTCATGTATTAAG
49040866 TAAGTTATGTAAGTCATGTATTAAG
1 TAAGTTATGTAAGTCATGTATTAAG
* ** * **
49040891 TAAGCTATGTAAGTTGTGTAAGATATT
1 TAAGTTATGTAAGTCATGT-A-TTAAG
** *
49040918 TAAGTTATGTAAGTTTTGTATTATG
1 TAAGTTATGTAAGTCATGTATTAAG
49040943 TAAGTTATGTA
1 TAAGTTATGTA
49040954 TGCTATGTAT
Statistics
Matches: 121, Mismatches: 24, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
17 9 0.07
18 2 0.02
19 1 0.01
20 3 0.02
22 2 0.02
23 1 0.01
24 3 0.02
25 58 0.48
26 4 0.03
27 38 0.31
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.43
Consensus pattern (25 bp):
TAAGTTATGTAAGTCATGTATTAAG
Found at i:49040943 original size:16 final size:16
Alignment explanation
Indices: 49040870--49041096 Score: 85
Period size: 16 Copynumber: 13.6 Consensus size: 16
49040860 CGTGTATAAG
*
49040870 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
* *
49040886 TTAAGTAAGCTATGTAA
1 TTATGTAAGTTATGT-A
* * *
49040903 GTTGTGTAAGATATTTAA
1 -TTATGTAAGTTATGT-A
*
49040921 GTTATGTAAGTTTTGTA
1 -TTATGTAAGTTATGTA
49040938 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
49040954 TGCTATGT-A-TTATGTGA
1 T--TATGTAAGTTATGT-A
* * *
49040971 GTTTATATAA--AAT-TT
1 --TTATGTAAGTTATGTA
*
49040986 TTATATAAGTTATGTA
1 TTATGTAAGTTATGTA
*
49041002 TTATGCAAGGTAACATATAAGT-
1 TTATGTAA-GT----TAT--GTA
49041024 TTATGTAAGTTATG-A
1 TTATGTAAGTTATGTA
49041039 --ATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
49041053 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGT--A
* *
49041071 TTATTTAAGTTGTGTA
1 TTATGTAAGTTATGTA
*
49041087 TTAAGTAAGT
1 TTATGTAAGT
49041097 CATGCAGGCT
Statistics
Matches: 161, Mismatches: 26, Indels: 48
0.69 0.11 0.20
Matches are distributed among these distances:
13 20 0.12
14 1 0.01
15 3 0.02
16 63 0.39
17 15 0.09
18 44 0.27
19 1 0.01
21 5 0.03
22 7 0.04
23 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:49040962 original size:25 final size:25
Alignment explanation
Indices: 49040866--49040973 Score: 92
Period size: 25 Copynumber: 4.2 Consensus size: 25
49040856 TGAACGTGTA
*
49040866 TAAGTTATGTAAG-TCATGTATTAAG
1 TAAGTTATGTAAGCT-ATGTATTATG
* * * * *
49040891 TAAGCTATGTAAGTTGTGTAAGATATT
1 TAAGTTATGTAAGCTATGT-A-TTATG
* *
49040918 TAAGTTATGTAAGTTTTGTATTATG
1 TAAGTTATGTAAGCTATGTATTATG
*
49040943 TAAGTTATGTATGCTATGTATTATG
1 TAAGTTATGTAAGCTATGTATTATG
*
49040968 TGAGTT
1 TAAGTT
49040974 TATATAAAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
25 45 0.67
26 3 0.04
27 19 0.28
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (25 bp):
TAAGTTATGTAAGCTATGTATTATG
Found at i:49041044 original size:13 final size:15
Alignment explanation
Indices: 49041025--49041065 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
49041015 CATATAAGTT
49041025 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
49041039 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
49041053 TTATGTAAGTTAT
1 -TATGTAAGTTAT
49041066 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:49041176 original size:19 final size:20
Alignment explanation
Indices: 49041154--49041200 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49041144 TTTTTCAAAT
* *
49041154 ATATATAAAATTTTA-ATAA
1 ATATATAAAACTGTATATAA
49041173 ATATATTAAAACTGTATATAA
1 ATATA-TAAAACTGTATATAA
49041194 ATATATA
1 ATATATA
49041201 TATCAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
ATATATAAAACTGTATATAA
Found at i:49041176 original size:21 final size:22
Alignment explanation
Indices: 49041150--49041202 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
49041140 TAAATTTTTC
* *
49041150 AAATATATATAAAATTTTA-AT
1 AAATATATATAAAACTGTATAT
49041171 AAATATAT-TAAAACTGTATAT
1 AAATATATATAAAACTGTATAT
49041192 AAATATATATA
1 AAATATATATA
49041203 TCAAAGATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATATATATAAAACTGTATAT
Found at i:49044062 original size:27 final size:27
Alignment explanation
Indices: 49044014--49044065 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
49044004 TCTTACATTT
* *
49044014 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
**
49044041 AAATAAATAATTACTTACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
49044066 TTTGTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:49044498 original size:17 final size:18
Alignment explanation
Indices: 49044464--49044504 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
49044454 ACCCCGGCCA
*
49044464 AACCCCTAAAACCTCTCT
1 AACCCTTAAAACCTCTCT
*
49044482 AACCCTTAAATCC-CTCT
1 AACCCTTAAAACCTCTCT
49044499 AACCCT
1 AACCCT
49044505 AATTAACCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (18 bp):
AACCCTTAAAACCTCTCT
Found at i:49045939 original size:14 final size:14
Alignment explanation
Indices: 49045920--49045987 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
49045910 ATGACCGTTG
49045920 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
49045934 AAACCCCTAAACCTC
1 AAA-CCCTAAATCTC
*
49045949 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
* *
49045962 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
49045975 AAACCTTAAATCT
1 AAACCCTAAATCT
49045988 ATACCCCGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 17 0.40
16 2 0.05
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:49045943 original size:15 final size:15
Alignment explanation
Indices: 49045923--49045960 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
49045913 ACCGTTGAAA
49045923 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
49045938 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
49045953 CCCTAAAT
1 CCCTAAAT
49045961 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:49046499 original size:41 final size:40
Alignment explanation
Indices: 49046435--49046673 Score: 194
Period size: 41 Copynumber: 5.8 Consensus size: 40
49046425 TTTTGTTACT
49046435 ATTAGCGGCGCTTAGA-AACAAACGCCGCTAAAGGCAGGAGA
1 ATTAGCGGCGCTTAGATAA-AAACGCCGCTAAAGGCA-GAGA
* * * * * * *
49046476 ATTAGTGGCGCTCAGATAAAAACGTCACTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAG-GCAGAGA
** * *
49046517 ATTAGCGGTTCTTAGACAAAAACGCCGCTAAAGGCCAGAGG
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG-CAGAGA
* * * * * *
49046558 ATTAGTGGCGCTGAGATAAAAACGCCACTAAAGCTCCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAG-GCAGAGA
* * * *
49046599 CTTAGCGGCGCTTAGACAAAAATGTCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGG-CAGAGA
* *
49046640 TTTAGCGGCGCTCATG-TAAAAACGCCGCTAAAGG
1 ATTAGCGGCGCTTA-GATAAAAACGCCGCTAAAGG
49046674 TTTAAAAATC
Statistics
Matches: 151, Mismatches: 41, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
41 147 0.97
42 4 0.03
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (40 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCAGAGA
Found at i:49046575 original size:82 final size:82
Alignment explanation
Indices: 49046435--49046672 Score: 313
Period size: 82 Copynumber: 2.9 Consensus size: 82
49046425 TTTTGTTACT
*
49046435 ATTAGCGGCGCTTAGA-AACAAACGCCGCTAAAGG-CAGGAGAATTAGTGGCGCTCAGATAAAAA
1 ATTAGCGGCGCTTAGACAA-AAACGCCGCTAAAGGCCA-GAGGATTAGTGGCGCTCAGATAAAAA
*
49046498 CGTCACTAAAGATCCGAGC
64 CGCCACTAAAGATCCGAGC
** *
49046517 ATTAGCGGTTCTTAGACAAAAACGCCGCTAAAGGCCAGAGGATTAGTGGCGCTGAGATAAAAACG
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAGGATTAGTGGCGCTCAGATAAAAACG
*
49046582 CCACTAAAGCTCCGAGC
66 CCACTAAAGATCCGAGC
* * * *
49046599 CTTAGCGGCGCTTAGACAAAAATGTCGCTAAAGGCCAGA-GATTTAGCGGCGCTCATG-TAAAAA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAGGA-TTAGTGGCGCTCA-GATAAAAA
*
49046662 CGCCGCTAAAG
64 CGCCACTAAAG
49046673 GTTTAAAAAT
Statistics
Matches: 138, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
81 2 0.01
82 131 0.95
83 5 0.04
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (82 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAGGATTAGTGGCGCTCAGATAAAAACG
CCACTAAAGATCCGAGC
Found at i:49047974 original size:22 final size:22
Alignment explanation
Indices: 49047909--49047976 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
49047899 ATTTGGAAAT
*
49047909 CAACAATTCAATATTTTATATG
1 CAACAATTCAATAATTTATATG
* *
49047931 CAGAAAATT-AATAA---AAAT-
1 CA-ACAATTCAATAATTTATATG
49047949 CAACAATTCAATAATTTATATG
1 CAACAATTCAATAATTTATATG
49047971 CAACAA
1 CAACAA
49047977 AGTAGTCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
17 5 0.14
18 7 0.20
19 3 0.09
21 3 0.09
22 12 0.34
23 5 0.14
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (22 bp):
CAACAATTCAATAATTTATATG
Found at i:49049343 original size:21 final size:21
Alignment explanation
Indices: 49049317--49049374 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
49049307 AAAACTGAGA
49049317 AATTTTTTAATAAATATTTT-
1 AATTTTTTAATAAATATTTTG
**
49049337 AATTTTTTGAAT-GCTATTTTG
1 AATTTTTT-AATAAATATTTTG
*
49049358 AAATTTTTAATAAATAT
1 AATTTTTTAATAAATAT
49049375 AATGGATACC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (21 bp):
AATTTTTTAATAAATATTTTG
Found at i:49056491 original size:21 final size:21
Alignment explanation
Indices: 49056465--49056505 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49056455 ATCTGCTCAA
* *
49056465 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
49056486 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
49056506 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:49065069 original size:15 final size:13
Alignment explanation
Indices: 49065029--49065061 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
49065019 TATATTTTTC
49065029 TTTATATATAATA
1 TTTATATATAATA
49065042 TTTATATATAATA
1 TTTATATATAATA
49065055 TTTATAT
1 TTTATAT
49065062 GTCAAATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTATATATAATA
Found at i:49065828 original size:12 final size:12
Alignment explanation
Indices: 49065811--49065839 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
49065801 ATTTTGTTGA
49065811 AGATGAATAACC
1 AGATGAATAACC
49065823 AGATGAATAACC
1 AGATGAATAACC
49065835 AGATG
1 AGATG
49065840 TTTTTAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (12 bp):
AGATGAATAACC
Found at i:49067683 original size:44 final size:44
Alignment explanation
Indices: 49067635--49067718 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
49067625 TTTAATCTTG
* * *
49067635 TTTTTAAATTATTGGTATCTATTCATAATTTATTTTTAATTCTA
1 TTTTTAAATTATCGATATATATTCATAATTTATTTTTAATTCTA
*
49067679 TTTTTAAATTATCGATATATGTTCATAATTTATTTTTAAT
1 TTTTTAAATTATCGATATATATTCATAATTTATTTTTAAT
49067719 CCTGTTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (44 bp):
TTTTTAAATTATCGATATATATTCATAATTTATTTTTAATTCTA
Found at i:49068961 original size:11 final size:11
Alignment explanation
Indices: 49068915--49068971 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
49068905 ATTGCTTCAG
*
49068915 TATTAGTATAA
1 TATTCGTATAA
* *
49068926 TATCCGTACAA
1 TATTCGTATAA
* *
49068937 TATTTGT-TCA
1 TATTCGTATAA
49068947 -ATTCGTATAA
1 TATTCGTATAA
49068957 TATTCGTATAA
1 TATTCGTATAA
49068968 TATT
1 TATT
49068972 TCCTTACCAT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
9 5 0.14
10 3 0.09
11 27 0.77
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (11 bp):
TATTCGTATAA
Found at i:49071895 original size:50 final size:50
Alignment explanation
Indices: 49071781--49072026 Score: 339
Period size: 50 Copynumber: 4.9 Consensus size: 50
49071771 GATAATAACA
* * **
49071781 TGCCAAAGCCATGCCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * * *
49071832 AGCCCATGCCATGTCCAAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
49071882 TGCCAACACCATGTCCTAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
49071932 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
49071982 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
49072027 GATCTATGTC
Statistics
Matches: 174, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
50 144 0.83
51 30 0.17
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:49079180 original size:13 final size:13
Alignment explanation
Indices: 49079159--49079190 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
49079149 GCTTGGATCA
*
49079159 TCATCAAATAAAT
1 TCATAAAATAAAT
49079172 TCATAAAATAAAT
1 TCATAAAATAAAT
49079185 TCATAA
1 TCATAA
49079191 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:49079436 original size:30 final size:30
Alignment explanation
Indices: 49079402--49079459 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
49079392 CCTCGACTAT
**
49079402 AACTTTTTTAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
49079432 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
49079460 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:49081082 original size:17 final size:17
Alignment explanation
Indices: 49081060--49081092 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49081050 TTGTAGTATG
49081060 ATATTTCAAATATTTTT
1 ATATTTCAAATATTTTT
*
49081077 ATATTTGAAATATTTT
1 ATATTTCAAATATTTT
49081093 AATTAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (17 bp):
ATATTTCAAATATTTTT
Found at i:49081446 original size:20 final size:20
Alignment explanation
Indices: 49081421--49081467 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49081411 CTACTATGTT
*
49081421 AAAAATATT-AATTAAAAATA
1 AAAAATATTAAAAT-AAAATA
*
49081441 AAAAATCTTAAAATAAAATA
1 AAAAATATTAAAATAAAATA
49081461 AAAAATA
1 AAAAATA
49081468 AAAAATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATATTAAAATAAAATA
Found at i:49081479 original size:20 final size:20
Alignment explanation
Indices: 49081435--49081479 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
49081425 ATATTAATTA
**
49081435 AAAATAAAAAATCTTAAAAT
1 AAAATAAAAAATCAAAAAAT
49081455 AAAATAAAAAAT-AAAAAAT
1 AAAATAAAAAATCAAAAAAT
49081474 ACAAAT
1 A-AAAT
49081480 GTAAGTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAATAAAAAATCAAAAAAT
Found at i:49093768 original size:16 final size:18
Alignment explanation
Indices: 49093742--49093774 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49093732 AAAATTTAAA
49093742 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
49093759 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
49093775 ACCAATTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:49099267 original size:6 final size:6
Alignment explanation
Indices: 49099256--49099288 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
49099246 AATAAATTAT
49099256 TATTTA TATTTA TATTTA TATTTA TATTTA TAT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TAT
49099289 AAAACAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:49100970 original size:66 final size:66
Alignment explanation
Indices: 49100846--49100975 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
49100836 CACCATGGCT
* * * * *
49100846 TTCAGAATTAGAAGTTTGATGAAAATAAGCCGTAGCATATTTGTCTCCCAAGCTCTTCACTTCTG
1 TTCAGAATCAGAAGTTTGATGAAAATAAGCCGTAGCATACTTGCCTCCCAAACCCTTCACTTCTG
49100911 A
66 A
* *
49100912 TTCAGAATCAGAAGTTTTG-TGAAAGTAAGCCGTAGCATACTTGCCTTCCAAACCCTTCACTTCT
1 TTCAGAATCAGAAG-TTTGATGAAAATAAGCCGTAGCATACTTGCCTCCCAAACCCTTCACTTCT
49100976 TTCCCTTCGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 52 0.93
67 4 0.07
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (66 bp):
TTCAGAATCAGAAGTTTGATGAAAATAAGCCGTAGCATACTTGCCTCCCAAACCCTTCACTTCTG
A
Found at i:49101047 original size:81 final size:81
Alignment explanation
Indices: 49100912--49101537 Score: 615
Period size: 81 Copynumber: 7.7 Consensus size: 81
49100902 TCACTTCTGA
*
49100912 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGCCTTCCAAACCCTTCACTTCTT
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTCTT
49100977 TCCCTTCGTCATGGCT
66 TCCCTTCGTCATGGCT
*
49100993 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGTATACTTGTCTTCCAAACCCTTCACTTCTT
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTCTT
*
49101058 TCCCTTCGCCATGGCT
66 TCCCTTCGTCATGGCT
* *
49101074 TTCAGAATTAGAAGTTTTGTGAAAGTAAGCGGTAGCATACTTGTCTTCCAAACCCTTCACTTCTT
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTCTT
** * * **
49101139 TTTC-TCTATCAAGATT
66 TCCCTTC-GTCATGGCT
* * * * * * * ** *
49101155 TTCGGCAGCA-AAGGCTTTGTGGAAGTAAGCCGTAGAATATTTGTCTTCCAAATTCTTCACATCA
1 TTCAGAATCAGAA-GTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTC-
** * * **
49101219 CCTCCATT-G-AAGTGATT
64 TTTCCCTTCGTCA-TGGCT
49101236 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTCTT
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTCTT
* *
49101301 TCCCTTCGCCATTGCT
66 TCCCTTCGTCATGGCT
* *
49101317 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACTCGTCACTTCCT
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTT-CT
* * * **
49101382 TT-TC-TCTATCAAGATT
65 TTCCCTTC-GTCATGGCT
* * * * * * ** *
49101398 TTCAGCATCAAAAGCTTTGTGGAAGTAAGCCGTAGAATATTTGTCTTCCAAATTCTTCACATC--
1 TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTCTT
* * * * *
49101461 -ACCTCCATCAAAGTGAT
66 TCCCTTCGTC-ATG-GCT
* *
49101478 TTGCAGAATCAGAAGTTTTGTGAAAGTAAGCTGTAGCATA-TTTTCCTTCCAAATCCCTTC
1 TT-CAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGT-CTTCCAAA-CCCTTC
49101538 CTGCATTGCC
Statistics
Matches: 447, Mismatches: 81, Indels: 33
0.80 0.14 0.06
Matches are distributed among these distances:
78 4 0.01
79 4 0.01
80 19 0.04
81 407 0.91
82 12 0.03
83 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (81 bp):
TTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTCTT
TCCCTTCGTCATGGCT
Found at i:49101362 original size:243 final size:243
Alignment explanation
Indices: 49100992--49101537 Score: 932
Period size: 243 Copynumber: 2.2 Consensus size: 243
49100982 TCGTCATGGC
*
49100992 TTTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGTATACTTGTCTTCCAAACCCTTCACTTCT
1 TTTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTCT
* *
49101057 TTCCCTTCGCCATGGCTTTCAGAATTAGAAGTTTTGTGAAAGTAAGCGGTAGCATACTTGTCTTC
66 TTCCCTTCGCCATGGCTTTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTC
* * * *
49101122 CAAACCCTTCACTTCTTTTTCTCTATCAAGATTTTCGGCAGCAAAGGCTTTGTGGAAGTAAGCCG
131 CAAACCCGTCACTTCCTTTTCTCTATCAAGATTTTCAGCAGCAAAAGCTTTGTGGAAGTAAGCCG
**
49101187 TAGAATATTTGTCTTCCAAATTCTTCACATCACCTCCATTGAAGTGAT
196 TAGAATATTTGTCTTCCAAATTCTTCACATCACCTCCATCAAAGTGAT
49101235 TTTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTCT
1 TTTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTCT
*
49101300 TTCCCTTCGCCATTGCTTTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTC
66 TTCCCTTCGCCATGGCTTTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTC
* *
49101365 CAAACTCGTCACTTCCTTTTCTCTATCAAGATTTTCAGCATCAAAAGCTTTGTGGAAGTAAGCCG
131 CAAACCCGTCACTTCCTTTTCTCTATCAAGATTTTCAGCAGCAAAAGCTTTGTGGAAGTAAGCCG
49101430 TAGAATATTTGTCTTCCAAATTCTTCACATCACCTCCATCAAAGTGAT
196 TAGAATATTTGTCTTCCAAATTCTTCACATCACCTCCATCAAAGTGAT
* * *
49101478 TTGCAGAATCAGAAGTTTTGTGAAAGTAAGCTGTAGCATA-TTTTCCTTCCAAATCCCTTC
1 TTTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGT-CTTCCAAA-CCCTTC
49101538 CTGCATTGCC
Statistics
Matches: 286, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
242 3 0.01
243 277 0.97
244 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (243 bp):
TTTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTCCAAACCCTTCACTTCT
TTCCCTTCGCCATGGCTTTCAGAATCAGAAGTTTTGTGAAAGTAAGCCGTAGCATACTTGTCTTC
CAAACCCGTCACTTCCTTTTCTCTATCAAGATTTTCAGCAGCAAAAGCTTTGTGGAAGTAAGCCG
TAGAATATTTGTCTTCCAAATTCTTCACATCACCTCCATCAAAGTGAT
Found at i:49104548 original size:26 final size:23
Alignment explanation
Indices: 49104498--49104547 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
49104488 TCCAAAAGAA
49104498 TTAATAAATTTGACTCTAAAATT
1 TTAATAAATTTGACTCTAAAATT
49104521 TTAAGTAAACTTTCGACTC-AAAATT
1 TTAA-TAAA-TTT-GACTCTAAAATT
49104546 TT
1 TT
49104548 TGTGTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 4 0.17
24 4 0.17
25 11 0.46
26 5 0.21
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (23 bp):
TTAATAAATTTGACTCTAAAATT
Found at i:49108034 original size:14 final size:15
Alignment explanation
Indices: 49108003--49108035 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
49107993 AAAAAAACTC
*
49108003 AAAAATAAATGTTGG
1 AAAAATAAATATTGG
49108018 AAAAATAAATATT-G
1 AAAAATAAATATTGG
49108032 AAAA
1 AAAA
49108036 TTTAAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (15 bp):
AAAAATAAATATTGG
Found at i:49108867 original size:3 final size:3
Alignment explanation
Indices: 49108859--49108896 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
49108849 GGATGAGTCT
49108859 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
49108897 TGTAATGACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:49110577 original size:49 final size:49
Alignment explanation
Indices: 49110517--49110626 Score: 141
Period size: 49 Copynumber: 2.2 Consensus size: 49
49110507 CGGGTTATCT
*
49110517 AGGATGATAGAATAAGCAATTGGTAAAAGCCATC-GTTGCTAGGCCATTC
1 AGGATGGTAGAATAAGCAATTGGTAAAAGCCATCAGTTGCT-GGCCATTC
* * * * *
49110566 GGGATGGTAGAATAAGTAGTTGGTAAAAGCCATCATTTTCTGGCCATTC
1 AGGATGGTAGAATAAGCAATTGGTAAAAGCCATCAGTTGCTGGCCATTC
*
49110615 AAGATGGTAGAA
1 AGGATGGTAGAA
49110627 CATTTGAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 48 0.92
50 4 0.08
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (49 bp):
AGGATGGTAGAATAAGCAATTGGTAAAAGCCATCAGTTGCTGGCCATTC
Found at i:49114363 original size:36 final size:36
Alignment explanation
Indices: 49114316--49114388 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
49114306 TAATACATTA
49114316 GCTTTGAATTGGGGAGATAAAGGAATCGAAATTGAG
1 GCTTTGAATTGGGGAGATAAAGGAATCGAAATTGAG
49114352 GCTTTGAATTGGGGAGATAAAGGAATCGAAATTGAG
1 GCTTTGAATTGGGGAGATAAAGGAATCGAAATTGAG
49114388 G
1 G
49114389 TTTAAAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.34, T:0.25
Consensus pattern (36 bp):
GCTTTGAATTGGGGAGATAAAGGAATCGAAATTGAG
Found at i:49115865 original size:29 final size:30
Alignment explanation
Indices: 49115830--49115886 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
49115820 TTGATCTAAT
* *
49115830 GTGTAATTGTATACATAAACTT-TAATTTA
1 GTGTAATTATATACATAAAATTGTAATTTA
*
49115859 GTGTAATTATATACGTAAAATTGTAATT
1 GTGTAATTATATACATAAAATTGTAATT
49115887 GAGATTCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (30 bp):
GTGTAATTATATACATAAAATTGTAATTTA
Found at i:49116094 original size:29 final size:29
Alignment explanation
Indices: 49116062--49116119 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
49116052 GAAATTGGAT
* *
49116062 CAAATTAAAATTTCATGTATAAAATTACA
1 CAAAATAAAAGTTCATGTATAAAATTACA
* *
49116091 CAAAATCAAAGTTCATGTATACAATTACA
1 CAAAATAAAAGTTCATGTATAAAATTACA
49116120 TATTAAACCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (29 bp):
CAAAATAAAAGTTCATGTATAAAATTACA
Found at i:49116138 original size:31 final size:29
Alignment explanation
Indices: 49116073--49116142 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
49116063 AAATTAAAAT
*
49116073 TTCATGTATAAAATTACACAAAATCAAAG
1 TTCATGTATAAAATTACACAAAACCAAAG
* * *
49116102 TTCATGTATACAATTACATATTAAACCATAG
1 TTCATGTATAAAATTACACA--AAACCAAAG
49116133 TTCATGTATA
1 TTCATGTATA
49116143 GTTTTGGGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.51
31 17 0.49
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.34
Consensus pattern (29 bp):
TTCATGTATAAAATTACACAAAACCAAAG
Found at i:49118347 original size:9 final size:9
Alignment explanation
Indices: 49118333--49118382 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
49118323 TATTTTTCGA
*
49118333 TAATTCGGT
1 TAATTCGGG
* *
49118342 TAATTCAGT
1 TAATTCGGG
49118351 TAATTCGGG
1 TAATTCGGG
*
49118360 TAATTCGAG
1 TAATTCGGG
49118369 TAATTCGGG
1 TAATTCGGG
49118378 TAATT
1 TAATT
49118383 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (9 bp):
TAATTCGGG
Found at i:49118356 original size:18 final size:18
Alignment explanation
Indices: 49118328--49118382 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
49118318 TCGGGTATTT
*
49118328 TTCGA-TAATTCGGTTAA
1 TTCGAGTAATTCGGGTAA
49118345 TTC-AGTTAATTCGGGTAA
1 TTCGAG-TAATTCGGGTAA
49118363 TTCGAGTAATTCGGGTAA
1 TTCGAGTAATTCGGGTAA
49118381 TT
1 TT
49118383 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
16 1 0.03
17 3 0.09
18 28 0.82
19 2 0.06
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (18 bp):
TTCGAGTAATTCGGGTAA
Found at i:49123201 original size:15 final size:15
Alignment explanation
Indices: 49123181--49123211 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49123171 ATGATTAAAC
*
49123181 TAAAATGAAACTAAT
1 TAAAATAAAACTAAT
49123196 TAAAATAAAACTAAT
1 TAAAATAAAACTAAT
49123211 T
1 T
49123212 CTAATTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (15 bp):
TAAAATAAAACTAAT
Found at i:49124275 original size:290 final size:290
Alignment explanation
Indices: 49123753--49124334 Score: 1047
Period size: 290 Copynumber: 2.0 Consensus size: 290
49123743 AGAAATTCAA
*
49123753 TCTAACAATTAGAATAACATCTAAAAAGAAAGAAATAAATAAATACAAAATTATTCTAAAAGAAA
1 TCTAACAATTAGAATAACATCTAAAAAGAAAGAAAGAAATAAATACAAAATTATTCTAAAAGAAA
49123818 ACCTAGCCTAAAACTAATCTACTCTACTAAATATTTGTTTGTCTCCACTGAACGTCTCCCTTTAA
66 ACCTAGCCTAAAACTAATCTACTCTACTAAATATTTGTTTGTCTCCACTGAACGTCTCCCTTTAA
* * * * *
49123883 TTTTGAGTAGAATGTTGGTTACATAGTGAAGAATCCAAAGACCAATGTGCTCTTCCATTTATTAC
131 TTTTAAGTAGAACGTTGGTTACATAATGAAGAATCCAAAGACCAAAGTGCTCCTCCATTTATTAC
*
49123948 AACAATTAGGCTTTTAAATATGGAAAAAGATCTCGAATTGCCCTTAAAATCGAAGTCAGCACGTG
196 AACAATTAGGCTTTTAAATATGGAAAAAGACCTCGAATTGCCCTTAAAATCGAAGTCAGCACGTG
*
49124013 TAGGAAATCATTGTGACATCGGGTGTTTCC
261 TAGGAAATCATTGTGACATCAGGTGTTTCC
*
49124043 TCTAACAATTAGAATAACATCTAAAAAGAAAGAAAGAAATTAATACAAAATTATTCTAAAAGAAA
1 TCTAACAATTAGAATAACATCTAAAAAGAAAGAAAGAAATAAATACAAAATTATTCTAAAAGAAA
*
49124108 ACCTAGCTTAAAACTAATCTACTCTACTAAATATTTGTTTGTCTCCACTGAACGTCTCCCTTTAA
66 ACCTAGCCTAAAACTAATCTACTCTACTAAATATTTGTTTGTCTCCACTGAACGTCTCCCTTTAA
* *
49124173 TTTTAATTAGAACGTTGGTTATATAATGAAGAATCCAAAGACCAAAGTGCTCCTCCATTTATTAC
131 TTTTAAGTAGAACGTTGGTTACATAATGAAGAATCCAAAGACCAAAGTGCTCCTCCATTTATTAC
49124238 AACAATTAGGCTTTTAAATATGGAAAAAGACCTCGAATTGCCCTTAAAATCGAAGTCAGCACGTG
196 AACAATTAGGCTTTTAAATATGGAAAAAGACCTCGAATTGCCCTTAAAATCGAAGTCAGCACGTG
*
49124303 TAGGAAATCGTTGTGACATCAGGTGTTTCC
261 TAGGAAATCATTGTGACATCAGGTGTTTCC
49124333 TC
1 TC
49124335 GTCGTGATGT
Statistics
Matches: 279, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
290 279 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (290 bp):
TCTAACAATTAGAATAACATCTAAAAAGAAAGAAAGAAATAAATACAAAATTATTCTAAAAGAAA
ACCTAGCCTAAAACTAATCTACTCTACTAAATATTTGTTTGTCTCCACTGAACGTCTCCCTTTAA
TTTTAAGTAGAACGTTGGTTACATAATGAAGAATCCAAAGACCAAAGTGCTCCTCCATTTATTAC
AACAATTAGGCTTTTAAATATGGAAAAAGACCTCGAATTGCCCTTAAAATCGAAGTCAGCACGTG
TAGGAAATCATTGTGACATCAGGTGTTTCC
Found at i:49128860 original size:17 final size:18
Alignment explanation
Indices: 49128838--49128881 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
49128828 TATCAAGATA
49128838 AATATTAGAT-TCAATTT
1 AATATTAGATATCAATTT
*
49128855 AATATTAAGATCATCATTTT
1 AATATT-AGAT-ATCAATTT
49128875 AATATTA
1 AATATTA
49128882 AATTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 4 0.17
19 1 0.04
20 12 0.52
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (18 bp):
AATATTAGATATCAATTT
Found at i:49128876 original size:69 final size:68
Alignment explanation
Indices: 49128798--49128926 Score: 186
Period size: 69 Copynumber: 1.9 Consensus size: 68
49128788 ATTAAACTTA
* * * *
49128798 ATCACTTTAATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTCAATTTAATATTAA
1 ATCACTTTAATATTAAATTAATAAAATAC-TATCAAGATAAATATTAAATTAAATTAAATATTAA
49128863 GATC
65 GATC
* * *
49128867 ATCATTTTAATATTAAATTAATAAAATACTATCATGATAAGTATTAAATTAAATTAAATA
1 ATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTAAATA
49128927 CTAAATTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
68 26 0.49
69 27 0.51
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (68 bp):
ATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTAAATATTAAG
ATC
Found at i:49128949 original size:68 final size:69
Alignment explanation
Indices: 49128805--49128949 Score: 159
Period size: 68 Copynumber: 2.1 Consensus size: 69
49128795 TTAATCACTT
* * * * *
49128805 TAATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTCAATTTAATATTAAGATCATC
1 TAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTAAATACTAAGATCATC
***
49128870 ATTT
66 AAAA
* * *
49128874 TAATATTAAATTAATAAAATAC-TATCATGATAAGTATTAAATTAAATTAAATACTAA-ATTTAT
1 TAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTAAATACTAAGA-TCAT
*
49128937 TAAAA
65 CAAAA
49128942 TAATATTA
1 TAATATTA
49128950 TTTTTGGAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
67 1 0.02
68 41 0.65
69 21 0.33
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (69 bp):
TAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTAAATACTAAGATCATC
AAAA
Found at i:49131816 original size:107 final size:107
Alignment explanation
Indices: 49131625--49131836 Score: 361
Period size: 107 Copynumber: 2.0 Consensus size: 107
49131615 CTTTGAAGTT
* * * *
49131625 TTAAGAGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT
1 TTAAAAGGATACTTGGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCACGTTTC
*
49131690 CTCGATTTTCCAAGCGCGAAATATTGCCTTATTTAGAAAATC
66 CTCGATTTTCCAAACGCGAAATATTGCCTTATTTAGAAAATC
*
49131732 TTAAAAGGATACTTGGCTATTTGGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCACGTTTC
1 TTAAAAGGATACTTGGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCACGTTTC
*
49131797 CTCGATTTTCCAAACGCGAAATATTTCCTTATTTAGAAAA
66 CTCGATTTTCCAAACGCGAAATATTGCCTTATTTAGAAAA
49131837 ACCTTCCTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 98 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (107 bp):
TTAAAAGGATACTTGGCTATTTAGTCGAACGAGAAATCAAAACCCAGCACGTTAGGGCACGTTTC
CTCGATTTTCCAAACGCGAAATATTGCCTTATTTAGAAAATC
Found at i:49132163 original size:16 final size:17
Alignment explanation
Indices: 49132140--49132180 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
49132130 ATCGTAAAGT
*
49132140 ATAAAAATGTATA-TAA
1 ATAAAAATATATATTAA
*
49132156 ATATAAATATATATTAA
1 ATAAAAATATATATTAA
49132173 ATAAAAAT
1 ATAAAAAT
49132181 TTGTAAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
ATAAAAATATATATTAA
Found at i:49138054 original size:88 final size:87
Alignment explanation
Indices: 49137929--49138105 Score: 219
Period size: 88 Copynumber: 2.0 Consensus size: 87
49137919 TTCCACTTCC
* * * ** *
49137929 GCATGAAACTCTTGATATTTATCAAATGTTTTACTTTTACGCTGGCCACTCACGCACTACCATGT
1 GCATGAAACTCTCGAAATTTATCAAAAGTTCCACTTTTACACTGGCCACTCACGCACTACCATGT
* *
49137994 CTCACTCTTTTTGGCCTGAAAA
66 CTCACTCTCTTTGGCCTAAAAA
* * * * *
49138016 GCATGAAACTCTCGAAATTTTATCAAAAGTTCCCCTTTTGCATTGGCCACTCACGCATTGCCATG
1 GCATGAAACTCTCGAAA-TTTATCAAAAGTTCCACTTTTACACTGGCCACTCACGCACTACCATG
*
49138081 TGTCACTCTCTTTGGCCTAAAAA
65 TCTCACTCTCTTTGGCCTAAAAA
49138104 GC
1 GC
49138106 TGTCTCCTTT
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
87 15 0.20
88 60 0.80
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (87 bp):
GCATGAAACTCTCGAAATTTATCAAAAGTTCCACTTTTACACTGGCCACTCACGCACTACCATGT
CTCACTCTCTTTGGCCTAAAAA
Found at i:49140193 original size:23 final size:23
Alignment explanation
Indices: 49140150--49140193 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
49140140 TCCTAACGAT
* *
49140150 CCTTTTCTTCTTAACATTCTCTA
1 CCTTATCTTCTTAACACTCTCTA
49140173 CCTTATCTTCTTCAAC-CTCTC
1 CCTTATCTTCTT-AACACTCTC
49140194 CCTTCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (23 bp):
CCTTATCTTCTTAACACTCTCTA
Found at i:49145358 original size:6 final size:6
Alignment explanation
Indices: 49145335--49145372 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
49145325 AGTTGTGGAT
49145335 GAAGAG GAAGACG G-AGAG GAAGAG GAAGAG GAAGAG GA
1 GAAGAG GAAGA-G GAAGAG GAAGAG GAAGAG GAAGAG GA
49145373 TGATGATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 2 0.07
6 26 0.87
7 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.50, T:0.00
Consensus pattern (6 bp):
GAAGAG
Found at i:49147951 original size:23 final size:23
Alignment explanation
Indices: 49147908--49147951 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
49147898 TCCTAACGAT
* *
49147908 CCTTTTCTTCTTAACATTCTCTA
1 CCTTATCTTCTTAACACTCTCTA
49147931 CCTTATCTTCTTCAAC-CTCTC
1 CCTTATCTTCTT-AACACTCTC
49147952 CCTTCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (23 bp):
CCTTATCTTCTTAACACTCTCTA
Found at i:49152820 original size:6 final size:6
Alignment explanation
Indices: 49152797--49152834 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
49152787 AGTTGTGGAT
49152797 GAAGAG GAAGACG G-AGAG GAAGAG GAAGAG GAAGAG GA
1 GAAGAG GAAGA-G GAAGAG GAAGAG GAAGAG GAAGAG GA
49152835 TGATGATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 2 0.07
6 26 0.87
7 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.50, T:0.00
Consensus pattern (6 bp):
GAAGAG
Found at i:49160740 original size:296 final size:301
Alignment explanation
Indices: 49160198--49160793 Score: 866
Period size: 297 Copynumber: 2.0 Consensus size: 301
49160188 GACTTGCCAA
* *
49160198 CCCCCTAAATTCGCCTCTACTTCCATGTCCTACCTCCATGTTTTTGACATGTCGACCAAGCCGAA
1 CCCCCTAAATTCACCTCTACTTCCATGTCCTACCTCCATGTTTTTAACA-GTCGACCAAGCCGAA
* * *
49160263 TATTGATGATATTGGAGTAAGTAGATGAGGTAGATGCTGTAAGAAGAGGCATGAGAAAGGGGAAC
65 TATTGATGATATCGGAGTAAGTAGAGGAGGTAGATGCGGTAAGAAGAGGCATGAGAAAGGGGAAC
* *
49160328 ATGTCAAGGTTTTGTGCTTTTAGTGTAGTTATTTCATTATTTATGCCTATAATTTTTTTAAATAG
130 ATGTCAAGGTTTTGTCCTCTTAGTGTAGTTATTTCATTATTTATGCCTATAATTTTTTTAAATAG
*
49160393 ATTGGTTAATAAAATTTTATAGATAAATTATTATCTTTTGTAATTTTGTCTTCACTTG-TTTTGT
195 ATTGGTTAATAAAATTTTATAGATAAATTATTATCTTTTGTAATTTTGTCTTCACTTGTTTTTGC
*
49160457 ACG-AAA-AAAAT-ATAAAAGTAAATATTAACTCACTATCAT
260 ACGAAAACAAAATAATAAAAGCAAATATTAACTCACTATCAT
* * * **
49160496 CCCCCTTAAATTCACGTCTACTTCCATGTCCTACTTGCATGTTTTTAACA-TC-AGCCAAGTTGA
1 CCCCC-TAAATTCACCTCTACTTCCATGTCCTACCTCCATGTTTTTAACAGTCGA-CCAAGCCGA
* * * * * *
49160559 ATATTGGTGATATCGGAGTGAGTAGAGGAGGTAGATGCGGTAGGAAGAGGCATGTGAGAGGGGAG
64 ATATTGATGATATCGGAGTAAGTAGAGGAGGTAGATGCGGTAAGAAGAGGCATGAGAAAGGGGAA
* *
49160624 CATGTCGAGGTTTTGTCCTCTTAGTGTAGTTATTTC-TTATTTATTCCTATAATTTTTTTAAATA
129 CATGTCAAGGTTTTGTCCTCTTAGTGTAGTTATTTCATTATTTATGCCTATAATTTTTTTAAATA
*
49160688 GATTGGTTAAT-AAATTTTCATAGATAAATTATTATCTTTTGTATTTTTGTCTTCACTTGTTTTT
194 GATTGGTTAATAAAATTTT-ATAGATAAATTATTATCTTTTGTAATTTTGTCTTCACTTGTTTTT
*
49160752 GCACGAAAAGCAAAATAAATAAAAGCAAATATTGACTCACTA
258 GCACGAAAA-CAAAAT-AATAAAAGCAAATATTAACTCACTA
49160794 ATTACATAAT
Statistics
Matches: 265, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
295 7 0.03
296 78 0.29
297 106 0.40
298 8 0.03
299 39 0.15
300 5 0.02
302 22 0.08
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (301 bp):
CCCCCTAAATTCACCTCTACTTCCATGTCCTACCTCCATGTTTTTAACAGTCGACCAAGCCGAAT
ATTGATGATATCGGAGTAAGTAGAGGAGGTAGATGCGGTAAGAAGAGGCATGAGAAAGGGGAACA
TGTCAAGGTTTTGTCCTCTTAGTGTAGTTATTTCATTATTTATGCCTATAATTTTTTTAAATAGA
TTGGTTAATAAAATTTTATAGATAAATTATTATCTTTTGTAATTTTGTCTTCACTTGTTTTTGCA
CGAAAACAAAATAATAAAAGCAAATATTAACTCACTATCAT
Found at i:49164733 original size:699 final size:700
Alignment explanation
Indices: 49163181--49165300 Score: 3765
Period size: 707 Copynumber: 3.0 Consensus size: 700
49163171 GCTCTCCCTC
* *
49163181 GAGCTCCTCAGTTCTCAACATCATGGCCTAAAATTCCTCTTTCAAAGCCACGACCATAGCTTTTA
1 GAGCTCCTCAGTTCTCAACATCATGGCCTACAATTCCTCTTTCAAAGCCACGACCATAGCTTTGA
49163246 GAGCATCATTCTTCTTAATTAGCTTCTCGGACTTATCATCCATGACGGTATTGAGGGTTTCTCTC
66 GAGCATCATTCTTCTTAATTAGCTTCTCGGACTTATCATCCATGACGGTATTGAGGGTTTCTCTC
49163311 ATCGCACCTCGATTGGAACTAAGAGCCTCCGCCACATAGTCCCTGAGCTGTATTCTAATCGAGTC
131 ATCGCACCTCGATTGGAACTAAGAGCCTCCGCCACATAGTCCCTGAGCTGTATTCTAATCGAGTC
*
49163376 TAACTCATCAGTGTGTGCCTCAACCACCTCGAGTGTTTCCTTCACACCACCCATGTATTCCTCGA
196 TAACTCATCAGTGTGTCCCTCAACCACCTCGAGTGTTTCCTTCACACCACCCATGTATTCCTCGA
*
49163441 GATTGGTCACTCGACCTTCCAAATCCAACAACATATCCCTCGATCTGTTATTTTTCCTGAATCTC
261 GATTGGTCACTCGACCTTCCAAAGCCAACAACATATCCCTCGATCTGTTATTTTTCCTGAATCTC
* * *
49163506 CTATAAGTCTCCATAAGGACATTCTATTCGTCTCTTCATTTCGTCATCTCAACCGGTGCCTTCGA
326 CTATAAGTCTCCATAGGGACATTCTATTCGTCTCCTCATTTCGTCATCTCAACCGGCGCCTTCGA
49163571 ACACTGGCTCGGATACTAATTGTCACGGGGCTAGAACTTTAGTCTGACAAACCATGAAGCCTTAG
391 ACACTGGCTCGGATACTAATTGTCACGGGGCTAGAACTTTAGTCTGACAAACCATGAAGCCTTAG
49163636 GCGATTTCTTGGGTTCAAATTTGCTAAGTCAGTTTTACTCTCGAAAAATGAAAATTCTTGCAAAA
456 GCGATTTCTTGGGTTCAAATTTGCTAAGTCAG------T-TCGAAAAATGAAAATTCTTGCAAAA
*
49163701 ATTCTCTAAGACACTGAAACAAAACAAAAGCAAACTCGAAAGAGAAAAAAACCATGAACGAATAG
514 ATTCTCTAAGACACTGAAACAAAACAAAAGCAAACTCGAAAGAGAAAAAAACCATGAACGAACAG
* *
49163766 AAAAGTCACAAAAAAATAGTGCATACCAAATGTTTGAGTAAATGCTCTCAAAAATATTCTATTAC
579 AAAAGTCACAAAAAAATAGTGCACACCAAATGTTTGAGTAAATGCTCTCAAAAGTATTCTATTAC
49163831 TTTGAATGTTTACAATTAAGTGACTACAAATGAGTGGAAAGACCTCTATTTATAGTT
644 TTTGAATGTTTACAATTAAGTGACTACAAATGAGTGGAAAGACCTCTATTTATAGTT
* *
49163888 GAGCTCCTTAGTTCTGAACATCATGGCCTACAATTCCTCTTTCAAAGCCACGACCATAGCTTTGA
1 GAGCTCCTCAGTTCTCAACATCATGGCCTACAATTCCTCTTTCAAAGCCACGACCATAGCTTTGA
* *
49163953 GAGCATCATTCTTCTTAATTAGTTTCTCGAACTTATCATCCATGACGGTATTGAGGGTTTCTCTC
66 GAGCATCATTCTTCTTAATTAGCTTCTCGGACTTATCATCCATGACGGTATTGAGGGTTTCTCTC
* * *
49164018 ATCGCACCTTGATTGGAACTAAGAGCCTCCACCACATAGTCCCTGAGCTGCATTCTAATCGAGTC
131 ATCGCACCTCGATTGGAACTAAGAGCCTCCGCCACATAGTCCCTGAGCTGTATTCTAATCGAGTC
* * *
49164083 TAACTTATCAGTGTGTCCCTCAACCACCTCAAGTGTTTCCTTCACACCACCTATGTATTCCTCGA
196 TAACTCATCAGTGTGTCCCTCAACCACCTCGAGTGTTTCCTTCACACCACCCATGTATTCCTCGA
* *
49164148 GATTGGTAACTCGACCTTCCAAAGCCAACAACATATCCCTCGATCTATTATTTTTCCTGAATCTC
261 GATTGGTCACTCGACCTTCCAAAGCCAACAACATATCCCTCGATCTGTTATTTTTCCTGAATCTC
* * *
49164213 CTATAAGTCTCTATAGGGACATTCTATTCGTCTCCTCATTTCGTCATCTCAATCGGCGCCTTTGA
326 CTATAAGTCTCCATAGGGACATTCTATTCGTCTCCTCATTTCGTCATCTCAACCGGCGCCTTCGA
*
49164278 ACACTGGCTCGGATACTAATTGTCACGGGGCTAAAACTTTAGTCTGACAAACCATGAAGCCTTAG
391 ACACTGGCTCGGATACTAATTGTCACGGGGCTAGAACTTTAGTCTGACAAACCATGAAGCCTTAG
*
49164343 GCGATTTCTTGGGTTCAAATTTGCTAAGTCAG-TCGAAAAATGAAAATTCTTGGAAAAATTCTCT
456 GCGATTTCTTGGGTTCAAATTTGCTAAGTCAGTTCGAAAAATGAAAATTCTTGCAAAAATTCTCT
*
49164407 AAGACACTGAAACAAAACAAAAGTAAACTCGAAAGAGAAAAAAACCATGAACGAACAGAAAAGTC
521 AAGACACTGAAACAAAACAAAAGCAAACTCGAAAGAGAAAAAAACCATGAACGAACAGAAAAGTC
49164472 ACAAAAAAATAGTGCACACCAAATGTTTGAGTAAATGCTCTCAAAAGTATTCTATTACTTTGAAT
586 ACAAAAAAATAGTGCACACCAAATGTTTGAGTAAATGCTCTCAAAAGTATTCTATTACTTTGAAT
*
49164537 GTTTACAATTAAGTGACTACAAATGAGTGGAAAGACATCTATTTATAGTT
651 GTTTACAATTAAGTGACTACAAATGAGTGGAAAGACCTCTATTTATAGTT
49164587 GAGCTCCTCAGTTCTCAACATCATGGCCTACAATTCCTCTTTCAAAGCCACGACCATAGCTTTGA
1 GAGCTCCTCAGTTCTCAACATCATGGCCTACAATTCCTCTTTCAAAGCCACGACCATAGCTTTGA
* *
49164652 GAGCATCATTCTTCTTAATTAGCTTCTCGGACTTATCATCCATGGCAGTATTGAGGGTTTCTCTC
66 GAGCATCATTCTTCTTAATTAGCTTCTCGGACTTATCATCCATGACGGTATTGAGGGTTTCTCTC
49164717 ATCGCACCTCGATTGGAACTAAGAGCCTCCGCCACATAGTCCCTGAGCTGTATTCTAATCGAGTC
131 ATCGCACCTCGATTGGAACTAAGAGCCTCCGCCACATAGTCCCTGAGCTGTATTCTAATCGAGTC
49164782 TAACTCATCAGTGTGTCCCTCAACCACCTCGAGTGTTTCCTTCACACCACCCATGTATTCCTCGA
196 TAACTCATCAGTGTGTCCCTCAACCACCTCGAGTGTTTCCTTCACACCACCCATGTATTCCTCGA
*
49164847 GATTGGTCACTCGACCTTCCAAAGCCAACAACATATCCCTCGATCTGTTATTTTTCCTAAATCTC
261 GATTGGTCACTCGACCTTCCAAAGCCAACAACATATCCCTCGATCTGTTATTTTTCCTGAATCTC
*
49164912 CTATAAGTCTCCATAGGGACATTCTGTTCGTCTCCTCATTTCGTCATCTCAACCGGCGCCTTCGA
326 CTATAAGTCTCCATAGGGACATTCTATTCGTCTCCTCATTTCGTCATCTCAACCGGCGCCTTCGA
* * *
49164977 ACACTGGCTCAGATACTAATTGTCACGGGGCTAGAACTTTAGTCTGGCCAACCATGAAGCCTTAG
391 ACACTGGCTCGGATACTAATTGTCACGGGGCTAGAACTTTAGTCTGACAAACCATGAAGCCTTAG
49165042 GCGATTTCTTGGGTTCAAATTTGCTAAGTCAGTCTTACTCTCGAAAAATGAAAATTCTTGCAAAA
456 GCGATTTCTTGGGTTCAAATTTGCTAAGTCAG------T-TCGAAAAATGAAAATTCTTGCAAAA
*
49165107 ATTCTCTAAGACACTGAAACAAAACAAAAGCAAACTCGGAAGAGAAAAAAACCATGAACGAACAG
514 ATTCTCTAAGACACTGAAACAAAACAAAAGCAAACTCGAAAGAGAAAAAAACCATGAACGAACAG
*
49165172 AAAAGTCACAAAAAAATAGAGCACACCAAATGTTTGAGTAAATGCTCTCAAAAGTATTCTATTAC
579 AAAAGTCACAAAAAAATAGTGCACACCAAATGTTTGAGTAAATGCTCTCAAAAGTATTCTATTAC
49165237 TTTGAATGTTTACAATTAAGTGACTACAAATGAGTGGAAAGACCTCTATTTATAGTT
644 TTTGAATGTTTACAATTAAGTGACTACAAATGAGTGGAAAGACCTCTATTTATAGTT
49165294 GAGCTCC
1 GAGCTCC
49165301 CTCAAATCCA
Statistics
Matches: 1348, Mismatches: 57, Indels: 16
0.95 0.04 0.01
Matches are distributed among these distances:
699 670 0.50
707 678 0.50
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (700 bp):
GAGCTCCTCAGTTCTCAACATCATGGCCTACAATTCCTCTTTCAAAGCCACGACCATAGCTTTGA
GAGCATCATTCTTCTTAATTAGCTTCTCGGACTTATCATCCATGACGGTATTGAGGGTTTCTCTC
ATCGCACCTCGATTGGAACTAAGAGCCTCCGCCACATAGTCCCTGAGCTGTATTCTAATCGAGTC
TAACTCATCAGTGTGTCCCTCAACCACCTCGAGTGTTTCCTTCACACCACCCATGTATTCCTCGA
GATTGGTCACTCGACCTTCCAAAGCCAACAACATATCCCTCGATCTGTTATTTTTCCTGAATCTC
CTATAAGTCTCCATAGGGACATTCTATTCGTCTCCTCATTTCGTCATCTCAACCGGCGCCTTCGA
ACACTGGCTCGGATACTAATTGTCACGGGGCTAGAACTTTAGTCTGACAAACCATGAAGCCTTAG
GCGATTTCTTGGGTTCAAATTTGCTAAGTCAGTTCGAAAAATGAAAATTCTTGCAAAAATTCTCT
AAGACACTGAAACAAAACAAAAGCAAACTCGAAAGAGAAAAAAACCATGAACGAACAGAAAAGTC
ACAAAAAAATAGTGCACACCAAATGTTTGAGTAAATGCTCTCAAAAGTATTCTATTACTTTGAAT
GTTTACAATTAAGTGACTACAAATGAGTGGAAAGACCTCTATTTATAGTT
Found at i:49172604 original size:23 final size:22
Alignment explanation
Indices: 49172578--49172629 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
49172568 ATTAAATTTC
* *
49172578 TTAATTTTAATTAAAAAATCAAT
1 TTAATATTAAATAAAAAAT-AAT
*
49172601 TTAAAGATTAAATAAAAAATAAT
1 TT-AATATTAAATAAAAAATAAT
49172624 TTAATA
1 TTAATA
49172630 CATTTCAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 3 0.12
23 7 0.29
24 14 0.58
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TTAATATTAAATAAAAAATAAT
Found at i:49172728 original size:19 final size:19
Alignment explanation
Indices: 49172701--49172740 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
49172691 TAAACATAAA
49172701 AACTAAATACA-TAAAGTTT
1 AACTAAATA-ATTAAAGTTT
*
49172720 AACTTAATAATTAAAGTTT
1 AACTAAATAATTAAAGTTT
49172739 AA
1 AA
49172741 ATTTACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (19 bp):
AACTAAATAATTAAAGTTT
Found at i:49176565 original size:15 final size:15
Alignment explanation
Indices: 49176547--49176597 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
49176537 CGCACATGTT
49176547 GGGTTCACACATACA
1 GGGTTCACACATACA
49176562 GGGTTCACACAT-CTA
1 GGGTTCACACATAC-A
**
49176577 GGGTTTGCACATACA
1 GGGTTCACACATACA
49176592 GGGTTC
1 GGGTTC
49176598 GCATGCTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.94
16 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (15 bp):
GGGTTCACACATACA
Found at i:49176567 original size:30 final size:30
Alignment explanation
Indices: 49176531--49176600 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
49176521 GTTCACAAGA
* *
49176531 AGGGTTCGCACATGTTGGGTTCACACATAC
1 AGGGTTCGCACATCTAGGGTTCACACATAC
* **
49176561 AGGGTTCACACATCTAGGGTTTGCACATAC
1 AGGGTTCGCACATCTAGGGTTCACACATAC
49176591 AGGGTTCGCA
1 AGGGTTCGCA
49176601 TGCTAATTCG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (30 bp):
AGGGTTCGCACATCTAGGGTTCACACATAC
Found at i:49176713 original size:91 final size:90
Alignment explanation
Indices: 49176639--49176923 Score: 408
Period size: 91 Copynumber: 3.1 Consensus size: 90
49176629 TAAACATACG
* ** *
49176639 GGGTTCGCATATTACTACTTGTAGGGTTCACATAAATACATATATAGGGCTCGCATGATAAACAA
1 GGGTTCGCATATTACTACTTGTACGGTTTGCATAAATACATGTATAGGGCTCGCATGATAAACAA
49176704 ACAGGGTTCACATATTACAATATGTA
66 ACAGGGTTCACATATTACAATATG-A
* *
49176730 GGGTTCGCATATTACTAGTTGTACGATTTGCATAAATACATGTATAGGGCTCGCATGATAAACAA
1 GGGTTCGCATATTACTACTTGTACGGTTTGCATAAATACATGTATAGGGCTCGCATGATAAACAA
49176795 ACAGGGTTCACATATTACAATATGTA
66 ACAGGGTTCACATATTACAATATG-A
* * * * *
49176821 GGGTTCGCATATTACTACTTGTACGGTTTGCATAAATACATGTCTAGAGCTCGTATGATAAATAT
1 GGGTTCGCATATTACTACTTGTACGGTTTGCATAAATACATGTATAGGGCTCGCATGATAAACAA
* *
49176886 ACAGGGTTCGCATATTAAAATATGTA
66 ACAGGGTTCACATATTACAATATG-A
**
49176912 ATGTTCGCATAT
1 GGGTTCGCATAT
49176924 GCATATGTAG
Statistics
Matches: 177, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 177 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (90 bp):
GGGTTCGCATATTACTACTTGTACGGTTTGCATAAATACATGTATAGGGCTCGCATGATAAACAA
ACAGGGTTCACATATTACAATATGA
Found at i:49176716 original size:45 final size:45
Alignment explanation
Indices: 49176661--49176830 Score: 132
Period size: 45 Copynumber: 3.8 Consensus size: 45
49176651 TACTACTTGT
49176661 AGGGTTCACATAAATAC-ATATATAGGGCTCGCATGATAAACAAAC
1 AGGGTTCACAT-AATACAATATATAGGGCTCGCATGATAAACAAAC
* * * * ***
49176706 AGGGTTCACATATTACAATATGTAGGGTTCGCAT-AT-TACTAGTTGT
1 AGGGTTCACATAATACAATATATAGGGCTCGCATGATAAAC-A--AAC
* * ** *
49176752 ACGATTTGCATAAATAC-ATGTATAGGGCTCGCATGATAAACAAAC
1 AGGGTTCACAT-AATACAATATATAGGGCTCGCATGATAAACAAAC
* * *
49176797 AGGGTTCACATATTACAATATGTAGGGTTCGCAT
1 AGGGTTCACATAATACAATATATAGGGCTCGCAT
49176831 ATTACTACTT
Statistics
Matches: 90, Mismatches: 27, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
43 2 0.02
44 11 0.12
45 47 0.52
46 21 0.23
47 7 0.08
48 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (45 bp):
AGGGTTCACATAATACAATATATAGGGCTCGCATGATAAACAAAC
Found at i:49176843 original size:23 final size:23
Alignment explanation
Indices: 49176639--49176942 Score: 82
Period size: 23 Copynumber: 13.4 Consensus size: 23
49176629 TAAACATACG
*
49176639 GGGTTCGCATATTACTACT-TGTA
1 GGGTTCGCATATTAC-AATATGTA
* * *
49176662 GGGTTCACATAAATAC-ATATATA
1 GGGTTCGCAT-ATTACAATATGTA
* * *
49176685 GGGCTCGCATGATAAACAA-A--CA
1 GGGTTCGCAT-AT-TACAATATGTA
*
49176707 GGGTTCACATATTACAATATGTA
1 GGGTTCGCATATTACAATATGTA
*
49176730 GGGTTCGCATATTACTAGT-TGTA
1 GGGTTCGCATATTAC-AATATGTA
* * * * * *
49176753 CGATTTGCATAAATAC-ATGTATA
1 GGGTTCGCAT-ATTACAATATGTA
* * *
49176776 GGGCTCGCATGATAAACAA-A--CA
1 GGGTTCGCAT-AT-TACAATATGTA
*
49176798 GGGTTCACATATTACAATATGTA
1 GGGTTCGCATATTACAATATGTA
*
49176821 GGGTTCGCATATTACTACT-TGTA
1 GGGTTCGCATATTAC-AATATGTA
* * * * *
49176844 CGGTTTGCATAAATAC-ATGTCTA
1 GGGTTCGCAT-ATTACAATATGTA
* * * **
49176867 GAGCTCGTATGA-TA-AATATACA
1 GGGTTCGCAT-ATTACAATATGTA
*
49176889 GGGTTCGCATATTAAAATATGTA
1 GGGTTCGCATATTACAATATGTA
** *
49176912 ATGTTCGCATA-TGC-ATATGTA
1 GGGTTCGCATATTACAATATGTA
*
49176933 GGGTTTGCAT
1 GGGTTCGCAT
49176943 CGCAAGATAT
Statistics
Matches: 197, Mismatches: 63, Indels: 44
0.65 0.21 0.14
Matches are distributed among these distances:
20 8 0.04
21 21 0.11
22 37 0.19
23 108 0.55
24 21 0.11
25 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (23 bp):
GGGTTCGCATATTACAATATGTA
Found at i:49177615 original size:17 final size:18
Alignment explanation
Indices: 49177585--49177624 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
49177575 CTTTACTCTC
49177585 TTTTTTATTATTTTAAAA
1 TTTTTTATTATTTTAAAA
*
49177603 TTTTTTATT-TTTTAAGA
1 TTTTTTATTATTTTAAAA
49177620 TTTTT
1 TTTTT
49177625 AATCAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTTATTATTTTAAAA
Found at i:49178324 original size:21 final size:20
Alignment explanation
Indices: 49178298--49178367 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
49178288 TTATGACATC
49178298 TTTATAAGATTCAATTTTAAT
1 TTTATAAGATT-AATTTTAAT
* *
49178319 TTTATAAAAATAATATTTAAT
1 TTTATAAGATTAAT-TTTAAT
49178340 TTT-TAAAGTATT-ATTTTAAAT
1 TTTAT-AAG-ATTAATTTT-AAT
49178361 TTTATAA
1 TTTATAA
49178368 TAAGATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
20 7 0.17
21 30 0.75
22 3 0.08
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTATAAGATTAATTTTAAT
Found at i:49179328 original size:126 final size:126
Alignment explanation
Indices: 49179183--49179476 Score: 491
Period size: 126 Copynumber: 2.3 Consensus size: 126
49179173 AGTGTTAATT
* ** *
49179183 TAAAA-AAGCTCCCACGTGGACGCTTTTTTGCTATAGTAGCTCTTGAAAAAATAATTTCGAGTAG
1 TAAAAGAAGCTTCCACGTGGACGCACTTTTGCTATAGTAGCTCTTGAAAAAATAATTGCGAGTAG
*
49179247 ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTCAGCAAAAGTAC
49179308 TAAAAGAAGCTTCCACGTGGACGCACTTTTGCTATAGTAGCTCTTGAAAAAATAATTGCGAGTAG
1 TAAAAGAAGCTTCCACGTGGACGCACTTTTGCTATAGTAGCTCTTGAAAAAATAATTGCGAGTAG
49179373 ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTCAGCAAAAGTAC
* * * * *
49179434 TGAAAGAAGCTTTCACGTGGATGCGCTTTTGCTTTAGTAGCTC
1 TAAAAGAAGCTTCCACGTGGACGCACTTTTGCTATAGTAGCTC
49179477 ATGTTTCGCC
Statistics
Matches: 158, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
125 5 0.03
126 153 0.97
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (126 bp):
TAAAAGAAGCTTCCACGTGGACGCACTTTTGCTATAGTAGCTCTTGAAAAAATAATTGCGAGTAG
ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTCAGCAAAAGTAC
Found at i:49181048 original size:22 final size:22
Alignment explanation
Indices: 49181016--49181063 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
49181006 GCTTTTTTTA
*
49181016 AGAGGAGATT-GAGAGGAATTTG
1 AGAGGAGATTGGAGA-GAAATTG
*
49181038 AGAGGATATTGGAGAGAAATTG
1 AGAGGAGATTGGAGAGAAATTG
49181060 AGAG
1 AGAG
49181064 AAAAGATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.21
Consensus pattern (22 bp):
AGAGGAGATTGGAGAGAAATTG
Found at i:49181066 original size:10 final size:11
Alignment explanation
Indices: 49181016--49181063 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
49181006 GCTTTTTTTA
*
49181016 AGAGGAGATTG
1 AGAGGAAATTG
*
49181027 AGAGGAATTTG
1 AGAGGAAATTG
*
49181038 AGAGGATATTG
1 AGAGGAAATTG
49181049 -GAGAGAAATTG
1 AGAG-GAAATTG
49181060 AGAG
1 AGAG
49181064 AAAAGATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
10 3 0.10
11 24 0.80
12 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.21
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:49186258 original size:3 final size:3
Alignment explanation
Indices: 49186246--49186290 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
49186236 TACAATTTTA
* *
49186246 TAT T-T TAT TAT TAT TAA TAT TAG TAT TAT TA- TAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49186291 AATAATGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:49187186 original size:16 final size:16
Alignment explanation
Indices: 49187165--49187216 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
49187155 TTTGGTTCGC
49187165 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
49187181 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
* *
49187197 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
49187213 TGTA
1 TGTA
49187217 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:49187302 original size:39 final size:43
Alignment explanation
Indices: 49187197--49187306 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
49187187 GGATTAAAGG
49187197 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
49187242 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
49187282 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
49187307 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:49187467 original size:18 final size:17
Alignment explanation
Indices: 49187446--49187480 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49187436 TTATTATTAA
*
49187446 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49187464 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49187481 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49209087 original size:11 final size:11
Alignment explanation
Indices: 49209071--49209095 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49209061 TAAGTCTTGA
49209071 AATTAACACAT
1 AATTAACACAT
49209082 AATTAACACAT
1 AATTAACACAT
49209093 AAT
1 AAT
49209096 ATTAATGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
AATTAACACAT
Found at i:49212485 original size:52 final size:52
Alignment explanation
Indices: 49212429--49212533 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
49212419 TTCCAAAAAA
*
49212429 ATTAACCCTCAACATTTACACATTGTGCAATTTGGTCATCTTTTGCAATTTT
1 ATTAACCCTCAACATTTAAACATTGTGCAATTTGGTCATCTTTTGCAATTTT
*
49212481 ATTAACCCTCAACATTTAAACATTGTGCAATTTGGTCATTTTTTGCAATTTT
1 ATTAACCCTCAACATTTAAACATTGTGCAATTTGGTCATCTTTTGCAATTTT
49212533 A
1 A
49212534 CTTTTATTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (52 bp):
ATTAACCCTCAACATTTAAACATTGTGCAATTTGGTCATCTTTTGCAATTTT
Found at i:49213023 original size:18 final size:18
Alignment explanation
Indices: 49213000--49213034 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49212990 ATTTTGTAAT
*
49213000 TTTTTAATTTTTATTTTA
1 TTTTTAAGTTTTATTTTA
*
49213018 TTTTTAGGTTTTATTTT
1 TTTTTAAGTTTTATTTT
49213035 TAAATTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (18 bp):
TTTTTAAGTTTTATTTTA
Found at i:49232386 original size:15 final size:15
Alignment explanation
Indices: 49232366--49232400 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
49232356 TAATTAAGGT
*
49232366 TAAAATAGTAAATAA
1 TAAAATAGCAAATAA
*
49232381 TAAAATAGCATATAA
1 TAAAATAGCAAATAA
49232396 TAAAA
1 TAAAA
49232401 GTATATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (15 bp):
TAAAATAGCAAATAA
Found at i:49234155 original size:44 final size:44
Alignment explanation
Indices: 49234100--49234240 Score: 194
Period size: 44 Copynumber: 3.2 Consensus size: 44
49234090 AGTTGTTAAA
*
49234100 TGGTAAGAAATGAACATGCATTATAATTGTTTGATTGATTGTTT
1 TGGTAAGAAATGAACATGCATTATAATTGTTTGGTTGATTGTTT
* *
49234144 TGGTAATAAATGAACATGCATTATAAATGTTTGGTTGATTG-TT
1 TGGTAAGAAATGAACATGCATTATAATTGTTTGGTTGATTGTTT
* * * *
49234187 TGGTAAGAAATGGACATGTAATATAATTCTCTTGGTTGATTGTTT
1 TGGTAAGAAATGAACATGCATTATAATTGT-TTGGTTGATTGTTT
*
49234232 AGGTAAGAA
1 TGGTAAGAA
49234241 TTTCAATGGT
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
43 26 0.31
44 49 0.58
45 10 0.12
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (44 bp):
TGGTAAGAAATGAACATGCATTATAATTGTTTGGTTGATTGTTT
Found at i:49238794 original size:20 final size:20
Alignment explanation
Indices: 49238769--49238830 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
49238759 ATTAAAAGTC
49238769 TAAAAAATATATATATTTAA
1 TAAAAAATATATATATTTAA
* *
49238789 TAAAAAGTATATTTGA-TTAA
1 TAAAAAATATATAT-ATTTAA
*
49238809 -AAATAAAAATATATATTTAA
1 TAAA-AAATATATATATTTAA
49238829 TA
1 TA
49238831 TATAATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 4 0.12
20 27 0.82
21 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
TAAAAAATATATATATTTAA
Found at i:49238817 original size:42 final size:39
Alignment explanation
Indices: 49238713--49238824 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 39
49238703 GGCCCGGCCC
* *
49238713 ATATTTGATTAAAAATAAATATATATATATTTAATATAT
1 ATATTTGATTAAAAATAAAAATATATATATTTAATAAAT
* *
49238752 A-ATTCGAATTAAAAGTCTAAAAAATATATATATTTAATAAAAAGT
1 ATATTTG-ATTAAAA--AT-AAAAATATATATATTTAAT--AAA-T
49238797 ATATTTGATTAAAAATAAAAATATATAT
1 ATATTTGATTAAAAATAAAAATATATAT
49238825 TTAATATATA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
38 4 0.07
39 8 0.14
41 1 0.02
42 30 0.51
43 1 0.02
44 2 0.03
45 9 0.15
46 4 0.07
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (39 bp):
ATATTTGATTAAAAATAAAAATATATATATTTAATAAAT
Found at i:49238862 original size:29 final size:31
Alignment explanation
Indices: 49238804--49238868 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
49238794 AGTATATTTG
*
49238804 ATTAAAAATAAAAATATATATTTAATATATA
1 ATTAAAAACAAAAATATATATTTAATATATA
49238835 ATTAAAAACAAAAATATATATTTAATATATA
1 ATTAAAAACAAAAATATATATTTAATATATA
49238866 ATT
1 ATT
49238869 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
ATTAAAAACAAAAATATATATTTAATATATA
Found at i:49239757 original size:13 final size:13
Alignment explanation
Indices: 49239739--49239765 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49239729 TTATTCCTTT
49239739 TAATTTTAAAAAA
1 TAATTTTAAAAAA
49239752 TAATTTTAAAAAA
1 TAATTTTAAAAAA
49239765 T
1 T
49239766 GAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATTTTAAAAAA
Found at i:49247093 original size:16 final size:16
Alignment explanation
Indices: 49247072--49247102 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49247062 GTTAAAAATA
49247072 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
49247088 ATATAACATTTATAA
1 ATATAAAATTTATAA
49247103 AAAAAAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:49249220 original size:23 final size:23
Alignment explanation
Indices: 49249190--49249321 Score: 237
Period size: 23 Copynumber: 5.7 Consensus size: 23
49249180 CAAAGGAAAA
49249190 CCGAAGCTACCACTGATATGTAG
1 CCGAAGCTACCACTGATATGTAG
49249213 CCGAAGCTACCACTGATATGTAG
1 CCGAAGCTACCACTGATATGTAG
49249236 CCGAAGCTACCACTGATATGTAG
1 CCGAAGCTACCACTGATATGTAG
49249259 CCGAAGCTACCACTGATATGTAG
1 CCGAAGCTACCACTGATATGTAG
* * *
49249282 CTGTAGCTACCACTGAAATGTAG
1 CCGAAGCTACCACTGATATGTAG
49249305 CCGAAGCTACCACTGAT
1 CCGAAGCTACCACTGAT
49249322 CAATAACACT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 103 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (23 bp):
CCGAAGCTACCACTGATATGTAG
Found at i:49249421 original size:8 final size:8
Alignment explanation
Indices: 49249408--49249436 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
49249398 ACCCGGGACT
49249408 CACTGTAA
1 CACTGTAA
49249416 CACTGTAA
1 CACTGTAA
49249424 CACTGTAA
1 CACTGTAA
49249432 CACTG
1 CACTG
49249437 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:49250689 original size:318 final size:318
Alignment explanation
Indices: 49250112--49250747 Score: 1245
Period size: 318 Copynumber: 2.0 Consensus size: 318
49250102 AAATTAAATG
*
49250112 GTAGAAACATGAAATTCAAGCTTCAATAAGCATAAAAATACGAAAATAATTAAAAACGGGGCAAG
1 GTAGAAACATGAAATTCAAGCATCAATAAGCATAAAAATACGAAAATAATTAAAAACGGGGCAAG
49250177 AAATCACTTACAATTGAGCTTAGGAAAATCAAAACCCTTAACTATGGTAACCTGAAACTTTCGGC
66 AAATCACTTACAATTGAGCTTAGGAAAATCAAAACCCTTAACTATGGTAACCTGAAACTTTCGGC
49250242 AGCAAGCTTCTGATTTTTTTGAAGAAGATGGACACTTATTTTCTCTTTATTTTGTCTTTTACCCA
131 AGCAAGCTTCTGATTTTTTTGAAGAAGATGGACACTTATTTTCTCTTTATTTTGTCTTTTACCCA
49250307 ATTTGGACAAAAATGCCCTTGACCCATTACTTAGATATTTTTCTAGAAATACCCTTTTGTGTCCA
196 ATTTGGACAAAAATGCCCTTGACCCATTACTTAGATATTTTTCTAGAAATACCCTTTTGTGTCCA
49250372 TAACACTAATTTATGGTCTAATTGCCACATAAACACTTCCAATTTCATGCAATAATTC
261 TAACACTAATTTATGGTCTAATTGCCACATAAACACTTCCAATTTCATGCAATAATTC
*
49250430 GTAGAAACATGAAATTCAAGCATCAATAAGCATAAAATTACGAAAATAATTAAAAACGGGGCAAG
1 GTAGAAACATGAAATTCAAGCATCAATAAGCATAAAAATACGAAAATAATTAAAAACGGGGCAAG
49250495 AAATCACTTACAATTGAGCTTAGGAAAATCAAAACCCTTAACTATGGTAACCTGAAACTTTCGGC
66 AAATCACTTACAATTGAGCTTAGGAAAATCAAAACCCTTAACTATGGTAACCTGAAACTTTCGGC
49250560 AGCAAGCTTCTGATTTTTTTGAAGAAGATGGACACTTATTTTCTCTTTATTTTGTCTTTTACCCA
131 AGCAAGCTTCTGATTTTTTTGAAGAAGATGGACACTTATTTTCTCTTTATTTTGTCTTTTACCCA
*
49250625 ATTTGGACAAAAATGCCCTTGACCCGTTACTTAGATATTTTTCTAGAAATACCCTTTTGTGTCCA
196 ATTTGGACAAAAATGCCCTTGACCCATTACTTAGATATTTTTCTAGAAATACCCTTTTGTGTCCA
49250690 TAACACTAATTTATGGTCTAATTGCCACATAAACACTTCCAATTTCATGCAATAATTC
261 TAACACTAATTTATGGTCTAATTGCCACATAAACACTTCCAATTTCATGCAATAATTC
49250748 AATTAAGTCA
Statistics
Matches: 315, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
318 315 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (318 bp):
GTAGAAACATGAAATTCAAGCATCAATAAGCATAAAAATACGAAAATAATTAAAAACGGGGCAAG
AAATCACTTACAATTGAGCTTAGGAAAATCAAAACCCTTAACTATGGTAACCTGAAACTTTCGGC
AGCAAGCTTCTGATTTTTTTGAAGAAGATGGACACTTATTTTCTCTTTATTTTGTCTTTTACCCA
ATTTGGACAAAAATGCCCTTGACCCATTACTTAGATATTTTTCTAGAAATACCCTTTTGTGTCCA
TAACACTAATTTATGGTCTAATTGCCACATAAACACTTCCAATTTCATGCAATAATTC
Found at i:49254648 original size:150 final size:150
Alignment explanation
Indices: 49254371--49254668 Score: 488
Period size: 150 Copynumber: 2.0 Consensus size: 150
49254361 GAGAAAATAT
*
49254371 ACCAGTGATCACATCAGGAGAAGATGCTTCCTTTCTAGCTCGAATGGCATAAGCTCTCGCTGGAG
1 ACCAGTGATCACATCAGGAGAAGATGCTTCCTCTCTAGCTCGAATGGCATAAGCTCTCGCTGGAG
* * * *
49254436 CTCTCGCTTCAGATCTTACAGTAGTGTCTTTTGTTACACCTCTACCACTAGTTCCAGCCCCCATA
66 CTCCCACTTCAGATCTTACAGTAGTGTCTTTTGTTACACCTCTACCACTAGTTCCAACCCCCACA
*
49254501 TTTCTCGGTGGTTTTCCTTA
131 TTTCTCGGTGGTCTTCCTTA
* *
49254521 ACCAGTGATCACATCAGGAGAAGATGCTTCCTCTCTAGCTCGGATGGCATAAGCTCTTGCTGGAG
1 ACCAGTGATCACATCAGGAGAAGATGCTTCCTCTCTAGCTCGAATGGCATAAGCTCTCGCTGGAG
* * *
49254586 CTCCCACTTCAGATCTTACAGTCGTGTCTTTTGTTACGCCTCTACCACTAGTTCCAATCCCCACA
66 CTCCCACTTCAGATCTTACAGTAGTGTCTTTTGTTACACCTCTACCACTAGTTCCAACCCCCACA
*
49254651 TTTCTCTGTGGTCTTCCT
131 TTTCTCGGTGGTCTTCCT
49254669 CTAGTAGTCA
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
150 136 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.32
Consensus pattern (150 bp):
ACCAGTGATCACATCAGGAGAAGATGCTTCCTCTCTAGCTCGAATGGCATAAGCTCTCGCTGGAG
CTCCCACTTCAGATCTTACAGTAGTGTCTTTTGTTACACCTCTACCACTAGTTCCAACCCCCACA
TTTCTCGGTGGTCTTCCTTA
Found at i:49257970 original size:41 final size:41
Alignment explanation
Indices: 49257913--49258002 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
49257903 TAGCCCTTAC
* *
49257913 CGACCCTACGGTAGGCCCATAGTCAATCGGAACGACTCATG
1 CGACCCTACGGTAGGCCCATAGTCAATCAGAACGACCCATG
* * *
49257954 CGACCCTACGGTAGGCCCATAGTCGATCAGAACTACCCGTG
1 CGACCCTACGGTAGGCCCATAGTCAATCAGAACGACCCATG
49257995 CGACCCTA
1 CGACCCTA
49258003 GGGAAAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (41 bp):
CGACCCTACGGTAGGCCCATAGTCAATCAGAACGACCCATG
Found at i:49259645 original size:32 final size:32
Alignment explanation
Indices: 49259609--49259671 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
49259599 AGTGATGGAG
*
49259609 ACGGAGCTTTGGGGGATCTTGGATGGGTTGAA
1 ACGGAGCTTTGGGGGATCTTGGACGGGTTGAA
49259641 ACGGAGCTTTGGGGGATCTTGGACGGGTTGA
1 ACGGAGCTTTGGGGGATCTTGGACGGGTTGA
49259672 TCCTTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.17, C:0.11, G:0.44, T:0.27
Consensus pattern (32 bp):
ACGGAGCTTTGGGGGATCTTGGACGGGTTGAA
Found at i:49262470 original size:37 final size:37
Alignment explanation
Indices: 49262409--49262554 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
49262399 TACGTATGAT
* *
49262409 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
49262444 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
49262481 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
49262518 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
49262555 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:49262571 original size:46 final size:46
Alignment explanation
Indices: 49262518--49262786 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
49262508 TAAGTGTAGC
* **
49262518 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
49262564 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
49262610 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
49262662 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
49262708 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
49262760 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
49262787 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:49262637 original size:52 final size:52
Alignment explanation
Indices: 49262561--49262780 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
49262551 TAGCTAAAGC
* *
49262561 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
49262614 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
49262666 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
49262712 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
49262764 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
49262781 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:49262683 original size:98 final size:98
Alignment explanation
Indices: 49262518--49262786 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
49262508 TAAGTGTAGC
* * *
49262518 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
49262583 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
49262617 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
49262682 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
49262715 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
49262780 GATCAGA
66 GATCAGA
49262787 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:49267304 original size:3 final size:3
Alignment explanation
Indices: 49267298--49267323 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49267288 CAAAAAAAAA
49267298 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
49267324 AGAAATTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:49268279 original size:42 final size:41
Alignment explanation
Indices: 49268224--49268308 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 41
49268214 CTTGATGTAT
*
49268224 AAATTTTACCCATGAAAATCCTTAATATTAATATTAAAATA
1 AAATTTTACCCATGAAAATACTTAATATTAATATTAAAATA
* * *
49268265 AAATATTTACCCATGAATATACTTGATTTTAATATTAAAATA
1 AAAT-TTTACCCATGAAAATACTTAATATTAATATTAAAATA
49268307 AA
1 AA
49268309 TGGCAGAGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 4 0.10
42 35 0.90
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.38
Consensus pattern (41 bp):
AAATTTTACCCATGAAAATACTTAATATTAATATTAAAATA
Found at i:49269560 original size:26 final size:26
Alignment explanation
Indices: 49269509--49269562 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
49269499 AAACATATAT
* *
49269509 ATTTTTATTTTTAGAAAACAATTTTC
1 ATTTTTATCTTTAGAAAACAAGTTTC
*
49269535 ATTTGTTATCTTT-GAAAACACGTTTC
1 ATTT-TTATCTTTAGAAAACAAGTTTC
49269561 AT
1 AT
49269563 AAATAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.50
Consensus pattern (26 bp):
ATTTTTATCTTTAGAAAACAAGTTTC
Found at i:49271819 original size:11 final size:11
Alignment explanation
Indices: 49271803--49271851 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
49271793 TTTAGGGTTT
49271803 AAGAAGAGAAA
1 AAGAAGAGAAA
*
49271814 AAGAAGAAAAA
1 AAGAAGAGAAA
49271825 AAGAAGAAGAAGA
1 AAGAAG-AGAA-A
*
49271838 GGAGAAGAGAAA
1 -AAGAAGAGAAA
49271850 AA
1 AA
49271852 ATGGAGATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 17 0.55
12 4 0.13
13 5 0.16
14 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AAGAAGAGAAA
Found at i:49271843 original size:14 final size:14
Alignment explanation
Indices: 49271803--49271845 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
49271793 TTTAGGGTTT
*
49271803 AAGAAGAGAAAAAG
1 AAGAAGAGAAGAAG
* *
49271817 AAGAAAAAAAGAAG
1 AAGAAGAGAAGAAG
*
49271831 AAGAAGAGGAGAAG
1 AAGAAGAGAAGAAG
49271845 A
1 A
49271846 GAAAAAATGG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AAGAAGAGAAGAAG
Found at i:49272676 original size:30 final size:30
Alignment explanation
Indices: 49272612--49272679 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
49272602 ACTGTTAATC
* *
49272612 AGTGACTGTTTTGTCACTTTTTTATAATGT
1 AGTGACTGTTTTGTCACTTTTTAAAAATGT
*
49272642 AGTGACTGTTTTGTTA-TTTTTCAAAAAT-T
1 AGTGACTGTTTTGTCACTTTTT-AAAAATGT
49272671 GAGTGACTG
1 -AGTGACTG
49272680 AAATGAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 6 0.18
30 27 0.82
ACGTcount: A:0.24, C:0.09, G:0.19, T:0.49
Consensus pattern (30 bp):
AGTGACTGTTTTGTCACTTTTTAAAAATGT
Found at i:49274774 original size:43 final size:41
Alignment explanation
Indices: 49274612--49274776 Score: 133
Period size: 43 Copynumber: 3.9 Consensus size: 41
49274602 ATATCGAACA
* * * *
49274612 ATGCCAACGTCCCAGAC-GTGGTCTTACATGCTATCTCATATCG
1 ATGCC-ACGTCCCAGACAGTGGTCTTACACG-AAACACA-ATCG
*
49274655 ATGCCACTGTCCCAGACAG-GGTCTTACACGAATCA-AATACG
1 ATGCCAC-GTCCCAGACAGTGGTCTTACACGAAACACAAT-CG
* *
49274696 ATGCCAATGTCCTAGACA-TGGTCTTACACGTAAACACAAGTCG
1 ATGCC-ACGTCCCAGACAGTGGTCTTACACG-AAACACAA-TCG
*
49274739 ATGCCGACGTCCCAGA-AGTGGCCTTACACGAAAACACA
1 ATGCC-ACGTCCCAGACAGTGGTCTTACACG-AAACACA
49274777 TATCAGAGTA
Statistics
Matches: 102, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
40 2 0.02
41 28 0.27
42 11 0.11
43 59 0.58
44 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (41 bp):
ATGCCACGTCCCAGACAGTGGTCTTACACGAAACACAATCG
Found at i:49275231 original size:28 final size:27
Alignment explanation
Indices: 49275165--49275217 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
49275155 CTTTTGCCCC
*
49275165 TAACATTTTACATTTTTCACAAATTAA
1 TAACATTTCACATTTTTCACAAATTAA
49275192 TAACATTTCACATTTTTCACAAATTA
1 TAACATTTCACATTTTTCACAAATTA
49275218 GTCCCTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (27 bp):
TAACATTTCACATTTTTCACAAATTAA
Found at i:49276624 original size:27 final size:27
Alignment explanation
Indices: 49276603--49276680 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
49276593 GGCCAATCAC
*
49276603 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
* *
49276630 ATTGGTGGCACCAATGGTGCCAAAGTG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
49276657 ATTGGCGGCACCAATGGTGCCAAA
1 ATTGGCGGCACCAATGGTGCCAAA
49276681 TGACTAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.29, C:0.22, G:0.32, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:49276782 original size:19 final size:19
Alignment explanation
Indices: 49276755--49276824 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
49276745 TCAACTCATT
*
49276755 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
49276774 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
49276792 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
49276811 TTTTAATTTAATAA
1 TTTTAATTTAATAA
49276825 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:49276805 original size:37 final size:37
Alignment explanation
Indices: 49276760--49276830 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
49276750 TCATTTTTTT
49276760 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
49276797 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
49276831 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:49276892 original size:37 final size:37
Alignment explanation
Indices: 49276851--49276943 Score: 177
Period size: 37 Copynumber: 2.5 Consensus size: 37
49276841 TAATTTTTTT
*
49276851 AATTAAAATAGAGTTATTATATGAGAATAGTTTATTA
1 AATTAAAATAGAGTTATTAAATGAGAATAGTTTATTA
49276888 AATTAAAATAGAGTTATTAAATGAGAATAGTTTATTA
1 AATTAAAATAGAGTTATTAAATGAGAATAGTTTATTA
49276925 AATTAAAATAGAGTTATTA
1 AATTAAAATAGAGTTATTA
49276944 CTTAATTAGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (37 bp):
AATTAAAATAGAGTTATTAAATGAGAATAGTTTATTA
Found at i:49276948 original size:18 final size:19
Alignment explanation
Indices: 49276851--49276943 Score: 109
Period size: 18 Copynumber: 5.0 Consensus size: 19
49276841 TAATTTTTTT
49276851 AATTAAAATAGAGTTATTA
1 AATTAAAATAGAGTTATTA
* * * *
49276870 TATGAGAATAG-TTTATTA
1 AATTAAAATAGAGTTATTA
49276888 AATTAAAATAGAGTTATTA
1 AATTAAAATAGAGTTATTA
* * *
49276907 AATGAGAATAG-TTTATTA
1 AATTAAAATAGAGTTATTA
49276925 AATTAAAATAGAGTTATTA
1 AATTAAAATAGAGTTATTA
49276944 CTTAATTAGA
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
18 29 0.50
19 29 0.50
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (19 bp):
AATTAAAATAGAGTTATTA
Found at i:49277183 original size:37 final size:37
Alignment explanation
Indices: 49277141--49277211 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
49277131 AGTATTACTT
49277141 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
49277178 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
49277212 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:49277216 original size:19 final size:19
Alignment explanation
Indices: 49277147--49277215 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
49277137 ACTTAATAGT
49277147 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
49277166 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
49277184 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
49277203 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
49277216 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:49277321 original size:27 final size:27
Alignment explanation
Indices: 49277291--49277368 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
49277281 ATTTTAGTCA
49277291 TTTGGCACCATTGGTGCCGCCAATCAC
1 TTTGGCACCATTGGTGCCGCCAATCAC
* * *
49277318 TTTGGCGCCATTGGTGCCACCAATCTC
1 TTTGGCACCATTGGTGCCGCCAATCAC
*
49277345 TTTGGCACCTTTGGTGCCGCCAAT
1 TTTGGCACCATTGGTGCCGCCAAT
49277369 GTGATTAGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.15, C:0.32, G:0.23, T:0.29
Consensus pattern (27 bp):
TTTGGCACCATTGGTGCCGCCAATCAC
Found at i:49278556 original size:3 final size:3
Alignment explanation
Indices: 49278548--49278597 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
49278538 TCATTTTACA
* * * *
49278548 TAT TAT TAT TAC TAT TA- TAT TA- TAT TAT TAT AAA TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49278594 TAT T
1 TAT T
49278598 TACTCAACTA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:49278994 original size:35 final size:35
Alignment explanation
Indices: 49278954--49279126 Score: 128
Period size: 36 Copynumber: 5.3 Consensus size: 35
49278944 TATATCTTAT
49278954 TATATATATATCTTTATATACGTATTTTTAATTTTCA
1 TATATATATA-CTTTATATACGTATTTTT-ATTTTCA
*
49278991 TATATATATACTTTATAT-C------TTATTAT-A
1 TATATATATACTTTATATACGTATTTTTATTTTCA
49279018 TATATATAT-CTTTATATACGTATTTTTCATTTTCA
1 TATATATATACTTTATATACGTATTTTT-ATTTTCA
* * *
49279053 TATCTATATACTTTATAT-C-T-TATTTA-TCT-A
1 TATATATATACTTTATATACGTATTTTTATTTTCA
* * *
49279083 TATATCTTTA-TATATATA--TATTTTTAATTTTCA
1 TATATATATACTTTATATACGTATTTTT-ATTTTCA
49279116 TATATATATAC
1 TATATATATAC
49279127 ATGCTTGCAT
Statistics
Matches: 107, Mismatches: 13, Indels: 35
0.69 0.08 0.23
Matches are distributed among these distances:
26 8 0.07
27 11 0.10
28 4 0.04
29 9 0.08
30 12 0.11
31 3 0.03
32 3 0.03
33 15 0.14
34 5 0.05
35 11 0.10
36 16 0.15
37 10 0.09
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (35 bp):
TATATATATACTTTATATACGTATTTTTATTTTCA
Found at i:49279031 original size:62 final size:61
Alignment explanation
Indices: 49278912--49279126 Score: 309
Period size: 62 Copynumber: 3.6 Consensus size: 61
49278902 TATCCACATA
49278912 TTTATATAC--ATTTTTAATTTTC--ATATATATA--TTATATCTTA-TTATATATATATC
1 TTTATATACGTATTTTTAATTTTCATATATATATACTTTATATCTTATTTATATATATATC
49278966 TTTATATACGTATTTTTAATTTTCATATATATATACTTTATATCTTATTATATATATATATC
1 TTTATATACGTATTTTTAATTTTCATATATATATACTTTATATCTTATT-TATATATATATC
* * *
49279028 TTTATATACGTATTTTTCATTTTCATATCTATATACTTTATATCTTATTTATCTATATATC
1 TTTATATACGTATTTTTAATTTTCATATATATATACTTTATATCTTATTTATATATATATC
**
49279089 TTTATATATATATATTTTTAATTTTCATATATATATAC
1 -TT-TATATACGTATTTTTAATTTTCATATATATATAC
49279127 ATGCTTGCAT
Statistics
Matches: 144, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
54 9 0.06
56 13 0.09
58 9 0.06
60 10 0.07
61 12 0.08
62 61 0.42
63 30 0.21
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (61 bp):
TTTATATACGTATTTTTAATTTTCATATATATATACTTTATATCTTATTTATATATATATC
Done.