Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 82 of 221
Found at i:24562378 original size:88 final size:88
Alignment explanation
Indices: 24562193--24562385 Score: 275
Period size: 88 Copynumber: 2.2 Consensus size: 88
24562183 TAAGTAGAAT
* * *
24562193 TAAGTTATATAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATGTAAGTTATGAT
1 TAAGTTATGTAAGTTATAATATGATATATATTTATGTAAGTTATGTAAGTTATGTAAGATATGAT
24562258 ATGATATATATTTATGTATTATG
66 ATGATATATATTTATGTATTATG
* *
24562281 TAAGTTATGTAAGTTATAATATGATATATATTTATGTAGGTTATGTAAGTTATGATATGATAT-A
1 TAAGTTATGTAAGTTATAATATGATATATATTTATGTAAGTTATGTAAGTTATG-TAAGATATGA
* *
24562345 TAT-TTATGTA-TTATGTAAGTTATG
65 TATGATATATATTTATGT-A-TTATG
24562369 TAAGTTATGTAAGTTAT
1 TAAGTTATGTAAGTTAT
24562386 GATCCAAAGT
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
86 6 0.06
87 6 0.06
88 77 0.81
89 6 0.06
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (88 bp):
TAAGTTATGTAAGTTATAATATGATATATATTTATGTAAGTTATGTAAGTTATGTAAGATATGAT
ATGATATATATTTATGTATTATG
Found at i:24562459 original size:13 final size:13
Alignment explanation
Indices: 24562441--24562467 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24562431 TGATTGTCCT
24562441 CTTTAAATTTTAA
1 CTTTAAATTTTAA
24562454 CTTTAAATTTTAA
1 CTTTAAATTTTAA
24562467 C
1 C
24562468 CCTTTAATTA
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:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:24563744 original size:12 final size:12
Alignment explanation
Indices: 24563727--24563756 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24563717 GATAGCATGT
24563727 TCCATTCTCAAC
1 TCCATTCTCAAC
*
24563739 TCCATTCTCACC
1 TCCATTCTCAAC
24563751 TCCATT
1 TCCATT
24563757 TTAAACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.37
Consensus pattern (12 bp):
TCCATTCTCAAC
Found at i:24566105 original size:17 final size:18
Alignment explanation
Indices: 24566078--24566137 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
24566068 ATATTAGTTT
*
24566078 TAAAAATATAAATGTACA
1 TAAAAATATAAATATACA
24566096 TAAAAA-ATAAATATACA
1 TAAAAATATAAATATACA
* * *
24566113 TATATATATATATATTACA
1 TAAAAATATAAATA-TACA
24566132 TAAAAA
1 TAAAAA
24566138 ACGATGCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 14 0.41
18 12 0.35
19 8 0.24
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAAAATATAAATATACA
Found at i:24566177 original size:13 final size:14
Alignment explanation
Indices: 24566154--24566183 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
24566144 CATGCATATG
24566154 AATATAATAATAAT
1 AATATAATAATAAT
24566168 AATA-AATAATAAT
1 AATATAATAATAAT
24566181 AAT
1 AAT
24566184 TTATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATATAATAATAAT
Found at i:24567771 original size:44 final size:44
Alignment explanation
Indices: 24567719--24567831 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 44
24567709 GATCTACTCT
* * * * *
24567719 ACTGCAACTTTAGAGAGATAAGATCTGTGGT-TTTAATCCGCTTC
1 ACTGCAACTTCAGGGAGATAAGAT-TATGGTCTTTAATACGCTCC
* *
24567763 ACTGCAACTTCAGGGAGATAAGATTATTGTCTTTAATATGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTATGGTCTTTAATACGCTCC
24567807 ACTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
24567832 CGCCATCTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 4 0.07
44 57 0.93
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTATGGTCTTTAATACGCTCC
Found at i:24568016 original size:217 final size:219
Alignment explanation
Indices: 24567633--24568093 Score: 642
Period size: 217 Copynumber: 2.1 Consensus size: 219
24567623 AGTCTGCCCC
* *
24567633 ACTGCAA-TTTCAGGGGGATAAGACTTGCTTTGCTGAGTCTGCTCCATTACAACTTCAAGGAGAT
1 ACTGCAACTTT-AGGAGGATAAGACTTGCTTTACTGAGTCTGCTCCATTACAACTTCAAGGAGAT
* * * * *
24567697 AAGACCCGATGTGATCTACTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCGCTT
65 AAGACCAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTT
* * *
24567762 CACTGCAACTTCAGGGAGATAAGATTATTGTCTTTAATATGCTCCACTGCAACTTCAGGGAGATA
130 CACTGCAACTTCAGGGAGATAAGACTATTGGCTTTAATATGCTCCACTCCAACTTCAGGGAGATA
** *
24567827 AGATTCGC-CATCTTCCTTCTGCCTT
195 AGATTCGCTC-TCTTCAGTCTACCTT
* * ** *
24567852 ACTGCAACTTTAGGAGGATAAGACTTGC-TTACTTAGTCTGCTGCATTGTAACTTCAGGGAGATA
1 ACTGCAACTTTAGGAGGATAAGACTTGCTTTACTGAGTCTGCTCCATTACAACTTCAAGGAGATA
* *
24567916 AGACTAGATGCGATCTGCTCT-CTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTTC
66 AGACCAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTTC
* * *
24567980 ACTGTAACTTCAGGGAGATAGGACTATTGGCTTTAATCTGCTCCACTCCAACTTCAGGGAGATAA
131 ACTGCAACTTCAGGGAGATAAGACTATTGGCTTTAATATGCTCCACTCCAACTTCAGGGAGATAA
*
24568045 GATTCGCTCTCTTTAGTCTACCTT
196 GATTCGCTCTCTTCAGTCTACCTT
* *
24568069 ATTGCAACTTCAGGAGGATAAGACT
1 ACTGCAACTTTAGGAGGATAAGACT
24568094 GGATATGATC
Statistics
Matches: 214, Mismatches: 26, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
217 140 0.65
218 48 0.22
219 23 0.11
220 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (219 bp):
ACTGCAACTTTAGGAGGATAAGACTTGCTTTACTGAGTCTGCTCCATTACAACTTCAAGGAGATA
AGACCAGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTTC
ACTGCAACTTCAGGGAGATAAGACTATTGGCTTTAATATGCTCCACTCCAACTTCAGGGAGATAA
GATTCGCTCTCTTCAGTCTACCTT
Found at i:24568207 original size:44 final size:44
Alignment explanation
Indices: 24568159--24569025 Score: 602
Period size: 44 Copynumber: 20.0 Consensus size: 44
24568149 TGTTATCCTT
** * * **
24568159 GATCTACTTCATGCCAATACATGAAGACAAGATCTATTTTCTTC
1 GATCTACTTCACACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * * * *
24568203 GATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCTATCTTC
1 GATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * * * * *
24568248 AATCCACTTCGCTACCAATATAGGAAGGCAGGATTTGCTTTCTTC
1 GATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * * * * * *
24568293 GATCTACTTCACGCCAATACATGAAAACAAGATTTGATATCTTC
1 GATCTACTTCACACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * * * *
24568337 AATCCACTTTACTACCAATATAGGAAGACAGGATCTG-TTATTTTC
1 GATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCTT-TCTTC
* * * *
24568382 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTT
1 GATCTACTTCACACCAATATAGGAAGACAAGATCTGCTTTCTTC
* *
24568426 GATCTACTTCACCACTAATATGGGAAGACAAGA-------TCTTC
1 GATCTACTTCA-CACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * * *
24568464 GATCCACTTC-CTACCAATATAGGAAGACAGGATCAGCTGTCTTC
1 GATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * * *
24568508 GATCTACTTCACGCCAATACATGAAGACCAA-ATCTGATTTCTTC
1 GATCTACTTCACACCAATATAGGAAGA-CAAGATCTGCTTTCTTC
* * * *
24568552 GATCTACTTCGCCACCAATATGGGAAGACAAGGTCTGC-ATCTTC
1 GATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * * * *
24568596 GATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTT
1 GATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * * * * * * *
24568641 GAACTACTTCACGCTAATACATGAAGACAATATCTACTTTCTTA
1 GATCTACTTCACACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * *
24568685 TATCTACTTCGCCACCAATATGGGAAGACAAGA-------TCTTC
1 GATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCTTTCTTC
** * * * * *
24568723 GATCCGCTTC-CTACCAATATAGGAAGTCAGGATTTGCTGTCTTT
1 GATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCTTTCTTC
*
24568767 GATCTACTTCACACCAATATATGAAGACAAGATCTGCTTTCTTC
1 GATCTACTTCACACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * * * *
24568811 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAC-ATCTTC
1 GATCTACTTC-ACACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * * * *
24568855 GATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTT
1 GATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCTTTCTTC
* * * * *
24568900 GATCTACTTCACGCCAATACATGAAGACAATATCTGCTTTCTTT
1 GATCTACTTCACACCAATATAGGAAGACAAGATCTGCTTTCTTC
*
24568944 GATCTACTTCACCACCAATATGGGAAGACAAGA-------TCTTC
1 GATCTACTTCA-CACCAATATAGGAAGACAAGATCTGCTTTCTTC
* *
24568982 GATCTACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTC
1 GATCTACTTCAC-ACCAATATAGGAAGACAAGATCTGCTTTCTTC
24569026 ATTAATCTGT
Statistics
Matches: 631, Mismatches: 150, Indels: 84
0.73 0.17 0.10
Matches are distributed among these distances:
36 3 0.00
37 52 0.08
38 38 0.06
43 2 0.00
44 320 0.51
45 216 0.34
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (44 bp):
GATCTACTTCACACCAATATAGGAAGACAAGATCTGCTTTCTTC
Found at i:24568257 original size:89 final size:88
Alignment explanation
Indices: 24568132--24569025 Score: 429
Period size: 89 Copynumber: 10.3 Consensus size: 88
24568122 TCACTGTCAG
** * * * *
24568132 TATAGGAAGGTAAGATTTGTTATCCTT-GATCTACTTCATGCCAATACATGAAGACAAGATCTAT
1 TATAGGAAGACAAGATCTGCTAT-CTTCGATCCACTTCATACCAATACATGAAGACAAGATCTAT
*
24568196 TTTCTTCGATCTACTTCGCCACCAG
65 TTTCTTCGATCTACTTC-CCACCAA
* * * * * * * * * **
24568221 TATGGGAAGATAAGATCTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGGCAGGATTTGC
1 TATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-ATACCAATACATGAAGACAAGATCTAT
* *
24568286 TTTCTTCGATCTACTTCACGCCAA
65 TTTCTTCGATCTACTTCCCACCAA
* * * * * * * * * * *
24568310 TACATGAAAACAAGATTTGATATCTTCAATCCACTTTACTACCAATATAGGAAGACAGGATCTGT
1 TATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCA-TACCAATACATGAAGACAAGATCTAT
* *
24568375 TATT-TTCGATCTACTTCACGCCAA
65 T-TTCTTCGATCTACTTCCCACCAA
* * * * * * * ***
24568399 TACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACCACTAATATGGGAAGACAAG----A-
1 TATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCA-TACCAATACATGAAGACAAGATCTAT
* *
24568459 --TCTTCGATCCACTTCCTACCAA
65 TTTCTTCGATCTACTTCCCACCAA
* * * * **
24568481 TATAGGAAGACAGGATCAGCTGTCTTCGATCTACTTCACGCCAATACATGAAGACCAA-ATCTGA
1 TATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCATACCAATACATGAAGA-CAAGATCT-A
24568545 -TTTCTTCGATCTACTTCGCCACCAA
64 TTTTCTTCGATCTACTTC-CCACCAA
* * * * * * **
24568570 TATGGGAAGACAAGGTCTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGC
1 TATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-ATACCAATACATGAAGACAAGATCTAT
* * * * * *
24568634 TATCTTTGAACTACTTCACGCTAA
65 TTTCTTCGATCTACTTCCCACCAA
* * * * * ** * ** ***
24568658 TACATGAAGACAATATCTACTTTCTTATATCTACTTCGCCACCAATATGGGAAGACAAG----A-
1 TATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-ATACCAATACATGAAGACAAGATCTAT
** *
24568718 --TCTTCGATCCGCTTCCTACCAA
65 TTTCTTCGATCTACTTCCCACCAA
* * * * * * * * **
24568740 TATAGGAAGTCAGGATTTGCTGTCTTTGATCTACTTCACACCAATATATGAAGACAAGATCTGCT
1 TATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCATACCAATACATGAAGACAAGATCTATT
*
24568805 TTCTTCGATCTACTTCGCCACCAG
66 TTCTTCGATCTACTTC-CCACCAA
* * * * * * **
24568829 TATGGGAAGACAAGATCTAC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGC
1 TATAGGAAGACAAGATCTGCTATCTTCGATCCACTTC-ATACCAATACATGAAGACAAGATCTAT
* * * *
24568893 TATCTTTGATCTACTTCACGCCAA
65 TTTCTTCGATCTACTTCCCACCAA
* * * * * * * ***
24568917 TACATGAAGACAATATCTGCTTTCTTTGATCTACTTCACCACCAATATGGGAAGACAAG----A-
1 TATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCA-TACCAATACATGAAGACAAGATCTAT
*
24568977 --TCTTCGATCTACTTCCTACCAA
65 TTTCTTCGATCTACTTCCCACCAA
*
24568999 TATAGGAAGACAGGATCTGCTATCTTC
1 TATAGGAAGACAAGATCTGCTATCTTC
24569026 ATTAATCTGT
Statistics
Matches: 617, Mismatches: 159, Indels: 65
0.73 0.19 0.08
Matches are distributed among these distances:
81 30 0.05
82 131 0.21
86 1 0.00
88 96 0.16
89 322 0.52
90 37 0.06
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (88 bp):
TATAGGAAGACAAGATCTGCTATCTTCGATCCACTTCATACCAATACATGAAGACAAGATCTATT
TTCTTCGATCTACTTCCCACCAA
Found at i:24568363 original size:134 final size:132
Alignment explanation
Indices: 24568132--24568955 Score: 385
Period size: 133 Copynumber: 6.3 Consensus size: 132
24568122 TCACTGTCAG
* * *
24568132 TATAGGAAGGTAAGATTTG-TTATCCTTGATCTACTTCATGCCAATACATGAAGACAAGATCTAT
1 TATAGGAAGGCAAGATTTGCTT-T-CTTGATCTACTTCACGCCAATACATGAAAACAAGATCTAT
* * * * * * * *
24568196 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCTATCTTCAATCCACTTCGCT
64 TATCTTCAATCCACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCAATCCACTTCAC-
24568261 ACCAA
128 ACCAA
* *
24568266 TATAGGAAGGCAGGATTTGCTTTCTTCGATCTACTTCACGCCAATACATGAAAACAAGATTTGA-
1 TATAGGAAGGCAAGATTTGCTTTCTT-GATCTACTTCACGCCAATACATGAAAACAAGATCT-AT
* * * * * * * *
24568330 TATCTTCAATCCACTTTACTACCAATATAGGAAGACAGGATCTGTTATTTTCGATCTACTTCACG
64 TATCTTCAATCCACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCAATCCACTTCACA
24568395 CCAA
129 CCAA
* * * * * **** **
24568399 TACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCA--CCACTA-AT-ATGGGAAGA-C-AAG
1 TATAGGAAGGCAAGATTTGCTTTC-TTGATCTACTTCACGCCAATACATGAAAACAAGATCTATT
* * * * * * * *
24568458 ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCAGCTGTCTTCGATCTACTTCACGC
65 ATCTTCAATCCACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCAATCCACTTCACAC
24568522 CAA
130 CAA
* * * * * * * *** * *
24568525 TACATGAAGACCAA-ATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGGTCT-
1 TATAGGAAG-GCAAGATTTGCTTTCTT-GATCTACTTC-ACGCCAATACATGAAAACAAGATCTA
** * * * * * *
24568588 GCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTTGAA-CTACTTCA
63 TTATCTTCAATCCACTTCACCACCAATATAGGAAGACAAGATCTGCTATC-TTCAATCCACTTCA
* *
24568652 CGCTAA
127 CACCAA
* * * * * * * * * ** *
24568658 TACATGAAGACAATATCTACTTTCTTATATCTACTTCGCCACCAAT--ATG---GGAAGA-C-AA
1 TATAGGAAGGCAAGATTTGCTTTCTT-GATCTACTTC-ACGCCAATACATGAAAACAAGATCTAT
* * * * * * * * ** *
24568716 GATCTTCGATCCGCTTC-CTACCAATATAGGAAGTCAGGATTTGCTGTCTTTGATCTACTTCACA
64 TATCTTCAATCCACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCAATCCACTTCACA
24568780 CCAA
129 CCAA
* * * * * * *** *
24568784 TATATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTA-
1 TATAGGAAGGCAAGATTTGCTTTCTT-GATCTACTTC-ACGCCAATACATGAAAACAAGATCTAT
* * * * * ** * *
24568848 CATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTTGATCTACTTCACG
64 TATCTTCAATCCACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCAATCCACTTCACA
24568913 CCAA
129 CCAA
* * * * *
24568917 TACATGAAGACAATATCTGCTTTCTTTGATCTACTTCAC
1 TATAGGAAGGCAAGATTTGCTTTC-TTGATCTACTTCAC
24568956 CACCAATATG
Statistics
Matches: 567, Mismatches: 95, Indels: 58
0.79 0.13 0.08
Matches are distributed among these distances:
125 5 0.01
126 156 0.28
127 33 0.06
128 4 0.01
129 10 0.02
130 2 0.00
131 15 0.03
132 37 0.07
133 196 0.35
134 106 0.19
135 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (132 bp):
TATAGGAAGGCAAGATTTGCTTTCTTGATCTACTTCACGCCAATACATGAAAACAAGATCTATTA
TCTTCAATCCACTTCACCACCAATATAGGAAGACAAGATCTGCTATCTTCAATCCACTTCACACC
AA
Found at i:24568509 original size:126 final size:126
Alignment explanation
Indices: 24568331--24569025 Score: 971
Period size: 126 Copynumber: 5.4 Consensus size: 126
24568321 AAGATTTGAT
* * * *
24568331 ATCTTCAATCCACTTTACTACCAATATAGGAAGACAGGATCTGTTATTTTCGATCTACTTCACGC
1 ATCTTCGATCCAC-TTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGC
* *
24568396 CAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACCACTAATATGGGAAGACAAG
65 CAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGACAAG
* *
24568458 ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCAGCTGTCTTCGATCTACTTCACGCC
1 ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCC
* *
24568523 AATACATGAAGACCAA-ATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGGTC
66 AATACATGAAGA-CAAGATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGACAA----
24568587 TG
126 -G
* *
24568589 CATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTTGAACTACTTCACG
1 -ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACG
* * *
24568654 CTAATACATGAAGACAATATCTACTTTCTTAT-ATCTACTTCGCCACCAATATGGGAAGACAAG
64 CCAATACATGAAGACAAGATCTGCTTTCTT-TGATCTACTTCGCCACCAATATGGGAAGACAAG
* * * * * *
24568717 ATCTTCGATCCGCTTCCTACCAATATAGGAAGTCAGGATTTGCTGTCTTTGATCTACTTCACACC
1 ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCC
* * *
24568782 AATATATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
66 AATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGACAAG
*
24568843 ATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTTGATCTACT
1 ------ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACT
* *
24568908 TCACGCCAATACATGAAGACAATATCTGCTTTCTTTGATCTACTTCACCACCAATATGGGAAGAC
59 TCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGAC
24568973 AAG
124 AAG
*
24568976 ATCTTCGATCTACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTC
1 ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTC
24569026 ATTAATCTGT
Statistics
Matches: 508, Mismatches: 42, Indels: 37
0.87 0.07 0.06
Matches are distributed among these distances:
126 230 0.45
127 45 0.09
128 1 0.00
131 1 0.00
132 34 0.07
133 197 0.39
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (126 bp):
ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCC
AATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGACAAG
Found at i:24568615 original size:259 final size:259
Alignment explanation
Indices: 24568198--24569025 Score: 1151
Period size: 259 Copynumber: 3.2 Consensus size: 259
24568188 AGATCTATTT
* * * * * * * * * *
24568198 TCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCTATCTTCAATCCACTTCGCTAC
1 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCAC-AC
* * * * * * * * *** * *
24568263 CAATATAGGAAGGCAGGATTTGCTTTCTTCGATCTACTTC-ACGCCAATACATGAAAACAAGATT
64 CAATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
* * ** *
24568327 TGATATCTTCAATCCACTTTACTACCAATATAGGAAGACAGGATCTGTTAT-TTTCGATCTACTT
129 T-ACATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTT-GATCTACTT
* *
24568391 CACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACCACTAATATGGGAAGACA
192 CACGCCAATACATGAAGACAATATCTGCTTTCTTTGATCTACTTCACCACCAATATGGGAAGACA
24568456 AGA
257 AGA
* *
24568459 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCAGCTGTCTTCGATCTACTTCACGCCA
1 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACACCA
*
24568524 ATACATGAAGACCAA-ATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGGTCT
66 ATACATGAAGA-CAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
* *
24568588 GCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTTGAACTACTTCAC
130 ACATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTTGATCTACTTCAC
* * *
24568653 GCTAATACATGAAGACAATATCTACTTTCTTAT-ATCTACTTCGCCACCAATATGGGAAGACAAG
195 GCCAATACATGAAGACAATATCTGCTTTCTT-TGATCTACTTCACCACCAATATGGGAAGACAAG
24568717 A
259 A
* * * *
24568718 TCTTCGATCCGCTTCCTACCAATATAGGAAGTCAGGATTTGCTGTCTTTGATCTACTTCACACCA
1 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACACCA
* * *
24568783 ATATATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTA
66 ATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTA
24568848 CATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTTGATCTACTTCACG
131 CATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTTGATCTACTTCACG
24568913 CCAATACATGAAGACAATATCTGCTTTCTTTGATCTACTTCACCACCAATATGGGAAGACAAGA
196 CCAATACATGAAGACAATATCTGCTTTCTTTGATCTACTTCACCACCAATATGGGAAGACAAGA
* *
24568977 TCTTCGATCTACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTC
1 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTGTCTTC
24569026 ATTAATCTGT
Statistics
Matches: 502, Mismatches: 59, Indels: 14
0.87 0.10 0.02
Matches are distributed among these distances:
258 4 0.01
259 425 0.85
260 59 0.12
261 14 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (259 bp):
TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACACCA
ATACATGAAGACAAGATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTA
CATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTTGATCTACTTCACG
CCAATACATGAAGACAATATCTGCTTTCTTTGATCTACTTCACCACCAATATGGGAAGACAAGA
Found at i:24568625 original size:215 final size:216
Alignment explanation
Indices: 24568242--24568652 Score: 551
Period size: 215 Copynumber: 1.9 Consensus size: 216
24568232 AAGATCTGCT
* ** *
24568242 ATCTTCAATCCACTTCGCTACCAATATAGGAAGGCAGGATTTGCTTTCTTCGATCTACTTCACGC
1 ATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATCAGCTGTCTTCGATCTACTTCACGC
* * *
24568307 CAATACATGAAAACAAGATTTGATATCTTCAATCCACTTTACTACCAATATAGGAAGACAGGATC
66 CAATACATGAAAACAAGATCTGATATCTTCAATCCACTTCACCACCAATATAGGAAGACAGGATC
* * * * * * *
24568372 TGTTATTTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCA
131 TGTCATCTTCGATCCACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTTGAACTACTTCA
24568437 CCACTAATATGGGAAGACAAG
196 CCACTAATATGGGAAGACAAG
*
24568458 ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCAGCTGTCTTCGATCTACTTCACGC
1 ATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATCAGCTGTCTTCGATCTACTTCACGC
* * * * * *
24568522 CAATACATGAAGACCAA-ATCTGATTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGG-
66 CAATACATGAA-AACAAGATCTGATATCTTCAATCCACTTCACCACCAATATAGGAAGAC-AGGA
* * *
24568585 TCTG-CATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTTGAACTACT
129 TCTGTCATCTTCGATCCACTTCAC-ACCAATACAGGAAGACAAGATCTGCTATCTTTGAACTACT
24568649 TCAC
193 TCAC
24568653 GCTAATACAT
Statistics
Matches: 168, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
214 15 0.09
215 131 0.78
216 22 0.13
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (216 bp):
ATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATCAGCTGTCTTCGATCTACTTCACGC
CAATACATGAAAACAAGATCTGATATCTTCAATCCACTTCACCACCAATATAGGAAGACAGGATC
TGTCATCTTCGATCCACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTTGAACTACTTCA
CCACTAATATGGGAAGACAAG
Found at i:24569007 original size:37 final size:38
Alignment explanation
Indices: 24568939--24569016 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
24568929 ATATCTGCTT
* *
24568939 TCTTTGATCTACTTCACCACCAATATGGGAAGACAAGA
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGA
* *
24568977 TCTTCGATCTACTTC-CTACCAATATAGGAAGACAGGA
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGA
24569014 TCT
1 TCT
24569017 GCTATCTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 22 0.61
38 14 0.39
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (38 bp):
TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGA
Found at i:24573031 original size:26 final size:26
Alignment explanation
Indices: 24572977--24573037 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
24572967 AAGAAAATCC
* *
24572977 AAAAGAATGAAAAAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTACTTAA
*
24573003 AAAAGAATGAAAAAAT-ATTGGCTTAA
1 AAAAGAATGAAAAAATAATT-ACTTAA
*
24573029 AAATGAATG
1 AAAAGAATG
24573038 TAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 3 0.10
26 27 0.90
ACGTcount: A:0.59, C:0.03, G:0.13, T:0.25
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTACTTAA
Found at i:24577128 original size:17 final size:18
Alignment explanation
Indices: 24577101--24577162 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 18
24577091 ATATTAGTTT
*
24577101 TAAAAATATAAATGTACA
1 TAAAAATATAAATATACA
24577119 TAAAAA-ATAAATATACA
1 TAAAAATATAAATATACA
*
24577136 -AATATACATATATATATTACA
1 TAA-A-A-ATATAAATA-TACA
24577157 TAAAAA
1 TAAAAA
24577163 ACGATGCATG
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
16 2 0.06
17 11 0.31
18 7 0.19
19 2 0.06
20 7 0.19
21 5 0.14
22 2 0.06
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAAAATATAAATATACA
Found at i:24579196 original size:10 final size:8
Alignment explanation
Indices: 24579170--24579194 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24579160 AGCTACAGAT
24579170 GTAAGAGA
1 GTAAGAGA
24579178 GTAAGAGA
1 GTAAGAGA
24579186 GTAAGAGA
1 GTAAGAGA
24579194 G
1 G
24579195 AGAGTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.40, T:0.12
Consensus pattern (8 bp):
GTAAGAGA
Found at i:24580307 original size:125 final size:125
Alignment explanation
Indices: 24580085--24580411 Score: 530
Period size: 125 Copynumber: 2.6 Consensus size: 125
24580075 TCTAAATTGT
*
24580085 TAATGTATAACATTTGCGGCATTTTCAGTCAAAACGCCACTAAAAACTTAATTTCCTGTAGTGAA
1 TAATGTATAACCTTTGCGGCATTTTCAGTCAAAACGCCACTAAAAACTTAATTTCCTGTAGTGAA
* * * **
24580150 ACGGTGCCGTTTAATTCAAATTGTTATTGCAATATTTGCGGTGTTTATGAAAAACGCCAC
66 ACGGCGCCGTTTAAGTCAAATTGTTATTGCAATATTTGCAGCATTTATGAAAAACGCCAC
* *
24580210 TAATGTATAACCTTTGCGGCTTTTTCAGTCAAAATGCCACTAAAAACTTAATTTCCTGTAGTGAA
1 TAATGTATAACCTTTGCGGCATTTTCAGTCAAAACGCCACTAAAAACTTAATTTCCTGTAGTGAA
* *
24580275 ACTGCACCGTTTAAGTCAAATTGTTATTGCAATATTTGCAGCATTTATGAAAAACGCCAC
66 ACGGCGCCGTTTAAGTCAAATTGTTATTGCAATATTTGCAGCATTTATGAAAAACGCCAC
* *
24580335 TAATGTATAACCTTTGCGG-AGTTTTCAGTCAAAACGTCACTAAAAACTTAATTTTCTGTAGTGA
1 TAATGTATAACCTTTGCGGCA-TTTTCAGTCAAAACGCCACTAAAAACTTAATTTCCTGTAGTGA
24580399 AACGGCGCCGTTT
65 AACGGCGCCGTTT
24580412 TGCAAAATTT
Statistics
Matches: 185, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 185 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (125 bp):
TAATGTATAACCTTTGCGGCATTTTCAGTCAAAACGCCACTAAAAACTTAATTTCCTGTAGTGAA
ACGGCGCCGTTTAAGTCAAATTGTTATTGCAATATTTGCAGCATTTATGAAAAACGCCAC
Found at i:24582852 original size:23 final size:22
Alignment explanation
Indices: 24582825--24582869 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
24582815 AAATTAAATC
24582825 TCTAAGATTACAAGATCATATCT
1 TCTAAGATTAC-AGATCATATCT
* *
24582848 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAGATCATATCT
24582870 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAGATCATATCT
Found at i:24583604 original size:89 final size:89
Alignment explanation
Indices: 24583448--24583705 Score: 329
Period size: 89 Copynumber: 2.9 Consensus size: 89
24583438 CTTTAACCTA
* * * * * *
24583448 CTCCACTGCAAACTC-AGATAGGCAAGACTGGTGTTTTCGATCTGCTTCACTGTCAGTACAGGAA
1 CTCCACTGCAAAATCAAGA-AGGCAAGGCTAGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAA
* * *
24583512 GACAAAATCTGCTATTTTCATTCTG
65 GACAAGATCTGCTATCTTCAGTCTG
* * * * * * *
24583537 CTCCGCTGCAAACTTAGGGAGGTAAGGCTAGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAAG
1 CTCCACTGCAAAATCAAGAAGGCAAGGCTAGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
24583602 ACAAGATCTGCTATCTTCAGTCTG
66 ACAAGATCTGCTATCTTCAGTCTG
* * *
24583626 CTCCACTGTAAAATCAAGAAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAA
1 CTCCACTGCAAAATCAAGAAGGCAAGGCTAGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
24583691 ACAAGATCTGCTATC
66 ACAAGATCTGCTATC
24583706 GTTAGTTTAC
Statistics
Matches: 144, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
89 143 0.99
90 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (89 bp):
CTCCACTGCAAAATCAAGAAGGCAAGGCTAGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAG
ACAAGATCTGCTATCTTCAGTCTG
Found at i:24583626 original size:45 final size:45
Alignment explanation
Indices: 24583483--24583705 Score: 138
Period size: 45 Copynumber: 5.0 Consensus size: 45
24583473 GACTGGTGTT
* * * * *
24583483 TTCGATCTGCTTCACTGTCAGTACAGGAAGACAAAATCTGCTATT
1 TTCGATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * ** * *
24583528 TTC-ATTCTGCTCCGCTG-CAA-ACTTAGGGAGGTAAG-GCTAG-TGTC
1 TTCGA-TCTGCTTCGCTGCCAATAC--AGGAAGACAAGATCT-GCTATC
24583572 TTCGATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * * * * * * * *
24583617 TTC-AGTCTGCTCCACTG-TAAAATCAAGAAGGCAAG-GCTGGTGTT
1 TTCGA-TCTGCTTCGCTGCCAATA-CAGGAAGACAAGATCTGCTATC
*
24583661 TTCGATCTGCTTCGCTGCCAATACAGGAAAACAAGATCTGCTATC
1 TTCGATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
24583706 GTTAGTTTAC
Statistics
Matches: 127, Mismatches: 37, Indels: 28
0.66 0.19 0.15
Matches are distributed among these distances:
43 2 0.02
44 61 0.48
45 62 0.49
46 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (45 bp):
TTCGATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
Found at i:24583861 original size:44 final size:44
Alignment explanation
Indices: 24583808--24584150 Score: 162
Period size: 44 Copynumber: 7.7 Consensus size: 44
24583798 ATTTTAATCC
* * *
24583808 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTCAACCT
* ** * * **
24583852 GTTTTACTGCAACTTTAGGAAGATAAGATTGGTATTTTCAACCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTCAACCT
* * * *
24583896 GCTCCACTGCAACTTTAGGGAGATAAGGTT--T-GATGT-GATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCT-TCAACCT
* * * ** *
24583937 GCTCTACTGCAACTTCAGAGAGATAAGATCTTATGATTTATAGCTTTGATC-
1 GCTCCACTGCAACTTTAGGGAGATAAGA--TTA-G-----TAGCTTCAACCT
* ** * ** * * **
24583988 GATTCCACTGCAATCTTCCGGGAAACGAGATTTGCTATCTTCAGTCT
1 G-CTCCACTGCAA-CTTTAGGGAGATAAGATTAG-TAGCTTCAACCT
* *
24584035 GCTCCACTGCAACTTCAGGGAGATAAGACTT--TA-CTTCAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGA-TTAGTAGCTTCAACCT
* * * * * *
24584077 GCTCCACTACAACTTTAGGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTCAACCT
*
24584121 GCTCCACTGCAACTTTAGAGAGATAAGATT
1 GCTCCACTGCAACTTTAGGGAGATAAGATT
24584151 TGCCATGATC
Statistics
Matches: 228, Mismatches: 51, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
41 30 0.13
42 35 0.15
43 5 0.02
44 94 0.41
45 12 0.05
46 19 0.08
47 1 0.00
50 1 0.00
51 5 0.02
52 15 0.07
53 11 0.05
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (44 bp):
GCTCCACTGCAACTTTAGGGAGATAAGATTAGTAGCTTCAACCT
Found at i:24584078 original size:42 final size:41
Alignment explanation
Indices: 24584026--24584190 Score: 163
Period size: 42 Copynumber: 3.9 Consensus size: 41
24584016 GATTTGCTAT
* * *
24584026 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTTG
* * * *
24584068 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAGGATTATTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-T-TT-G
* *
24584112 CTTTAATCTGCTCCACTGCAACTTTAGAGAGATAAGATTTG
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG
* *
24584153 C--CATGATCTACTCTACTGCAACTTCAGAGAGATAAGAT
1 CTTCA--ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
24584191 CCGTGATTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
41 32 0.30
42 36 0.34
43 3 0.03
44 33 0.31
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (41 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG
Found at i:24584125 original size:225 final size:225
Alignment explanation
Indices: 24583803--24584288 Score: 559
Period size: 225 Copynumber: 2.2 Consensus size: 225
24583793 TCATCATTTT
* * * ** *
24583803 AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTAGTAGCTTCAATCTGTTTTACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTA-TAGCTTCAATCTGCTCCACTACAACTT
* * * * **
24583867 TAGGAAGATAAGATTGGTATTTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGATGT
65 TAGGAAGATAAGATTAGTACTTTCAACCTGCTCCACTGCAACTTTAGAGAGATAAGATTTGACAT
* * * *
24583932 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTATGATTTATAGCTTTGATC-GATTCCAC
130 GATCTACTCTACTGCAACTTCAGAGAGATAAGATC-CATGATTTACAGCTTTAATCTG-TTCCAC
* * * **
24583996 TGCAATCTTCCGGGAAACGAGATTTGCTATCTTC
193 TG-AAGCTTCAGGAAAACGAGATTCACTATCTTC
*
24584030 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-TA-CTTCAATCTGCTCCACTACAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAGCTTCAATCTGCTCCACTACAACTTT
* * * * * *
24584093 AGGGAGATAGGATTATTGGCTTT-AATCTGCTCCACTGCAACTTTAGAGAGATAAGATTTGCCAT
66 AGGAAGATAAGATTAGT-ACTTTCAACCTGCTCCACTGCAACTTTAGAGAGATAAGATTTGACAT
* * *
24584157 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCCGTGATTTACAGCTTTAATCTGTTCTATTG
130 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCCATGATTTACAGCTTTAATCTGTTCCACTG
* * *
24584222 TAGCTTTAGGAAAATGAGATTCACTATCTTC
195 AAGCTTCAGGAAAACGAGATTCACTATCTTC
* * *
24584253 AATCTGCCCCATTGCAACTTCAGGGGGATAAGACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
24584289 GCTTTCTTCA
Statistics
Matches: 218, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
223 55 0.25
224 22 0.10
225 104 0.48
226 5 0.02
227 30 0.14
228 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (225 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAGCTTCAATCTGCTCCACTACAACTTT
AGGAAGATAAGATTAGTACTTTCAACCTGCTCCACTGCAACTTTAGAGAGATAAGATTTGACATG
ATCTACTCTACTGCAACTTCAGAGAGATAAGATCCATGATTTACAGCTTTAATCTGTTCCACTGA
AGCTTCAGGAAAACGAGATTCACTATCTTC
Found at i:24584354 original size:44 final size:44
Alignment explanation
Indices: 24584299--24584752 Score: 337
Period size: 44 Copynumber: 10.2 Consensus size: 44
24584289 GCTTTCTTCA
* * *
24584299 ATAAGACTTGTAACTTTAATCTGCTCCATTGTAACTTCAGGGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* **
24584343 ATAAGATTTGTAACTTTAATCTGCTCCACTGTAACTTCAAAGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* ** *
24584387 ATAGGATTAT-TGGCTTTAATCTGCTCCATTGCAACTAT-AGGGAG
1 ATAAGATT-TGTAACTTTAATCTGCTCCACTGCAACT-TCAGGGAG
* * * ** * * *
24584431 ATAAGACTTGCCATCTGCAGTCTGCCCCACTGCAACTTCA-AGAGG
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGA-G
* ** * * *
24584476 ATAAGACTTGTTTTCTTCAGTCTACTCCACTGCAACTTCAGGGAG
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
24584521 ATAAGACTTGTAACTTTAATC-CCTCAACTGCTACTTCAGGGAG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* ** *
24584564 ATAGGATTAT-TGGCTTTAATCTGTTCCACTGCAACTTCAGGGAG
1 ATAAGATT-TGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
24584608 ATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGG-G
1 ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
** * * * *
24584652 AATAAGATTTGCTTTCTTCAGTCTGCTCCACTGTAACTTCAGAGAG
1 -ATAAGATTTG-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
24584698 ATAAGACTTGTAACTTTAATCTGCTCTATTGCAA-TCTCAGAGTG
1 ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACT-TCAGGGAG
24584742 ATAAGATTTGT
1 ATAAGATTTGT
24584753 GGTTTTACCG
Statistics
Matches: 329, Mismatches: 67, Indels: 28
0.78 0.16 0.07
Matches are distributed among these distances:
43 37 0.11
44 150 0.46
45 139 0.42
46 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
ATAAGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
Found at i:24584465 original size:45 final size:45
Alignment explanation
Indices: 24584406--24584707 Score: 224
Period size: 45 Copynumber: 6.8 Consensus size: 45
24584396 TTGGCTTTAA
*
24584406 TCTGCTCCATTGCAACTAT-AGGGAGATAAGACTTGCCATCTGCAG
1 TCTGCTCCACTGCAACT-TCAGGGAGATAAGACTTGCCATCTGCAG
* * *** *
24584451 TCTGCCCCACTGCAACTTCA-AGAGGATAAGACTTGTTTTCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCCATCTGCAG
* * * ** *
24584496 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTGCAG
* * * * * * * *
24584540 TC-CCTCAACTGCTACTTCAGGGAGATAGGATTATTGGC-T-T-TAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTGCCATCTGCAG
* * *
24584583 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTGCAG
* * ** *
24584628 TCTGCCCCACTGCAACTTCAGGG-GAATAAGATTTGCTTTCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAG-ATAAGACTTGCCATCTGCAG
* *
24584673 TCTGCTCCACTGTAACTTCAGAGAGATAAGACTTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
24584708 TAACTTTAAT
Statistics
Matches: 207, Mismatches: 38, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
42 4 0.02
43 30 0.14
44 36 0.17
45 134 0.65
46 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTGCAG
Found at i:24584599 original size:177 final size:178
Alignment explanation
Indices: 24584322--24584719 Score: 597
Period size: 177 Copynumber: 2.2 Consensus size: 178
24584312 CTTTAATCTG
* * * *
24584322 CTCCATTGTAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCTCCACTGTAACTTCAAAGAG
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTTAATCTCCTCAACTGTAACTTCAAAGAG
*
24584387 ATAGGATTATTGGCTTTAATCTGCTCCATTGCAACTAT-AGGGAGATAAGACTTGCCATCTGCAG
66 ATAGGATTATTGGCTTTAATCTGCTCCACTGCAACT-TCAGGGAGATAAGACTTGCCATCTGCAG
*
24584451 TCTGCCCCACTGCAACTTCAAGAGG-ATAAGACTTGTTTTCTTCAGTCTA
130 TCTGCCCCACTGCAACTTC-AGAGGAATAAGACTTGCTTTCTTCAGTCTA
* **
24584500 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATC-CCTCAACTGCT-ACTTCAGGGA
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTTAATCTCCTCAACTG-TAACTTCAAAGA
* * *
24584563 GATAGGATTATTGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
65 GATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTGCAG
* * *
24584628 TCTGCCCCACTGCAACTTCAGGGGAATAAGATTTGCTTTCTTCAGTCTG
130 TCTGCCCCACTGCAACTTCAGAGGAATAAGACTTGCTTTCTTCAGTCTA
*
24584677 CTCCACTGTAACTTCAGAGAGATAAGACTTGTAACTTTAATCT
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTTAATCT
24584720 GCTCTATTGC
Statistics
Matches: 199, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
176 5 0.03
177 154 0.77
178 40 0.20
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (178 bp):
CTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTTAATCTCCTCAACTGTAACTTCAAAGAG
ATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTGCAGT
CTGCCCCACTGCAACTTCAGAGGAATAAGACTTGCTTTCTTCAGTCTA
Found at i:24585056 original size:24 final size:24
Alignment explanation
Indices: 24585029--24585084 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
24585019 CAAATTTCCC
24585029 CCACTGTAATCTTCAAGGTTCAAA
1 CCACTGTAATCTTCAAGGTTCAAA
* *
24585053 CCACTATAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAA
*
24585077 CTACTGTA
1 CCACTGTA
24585085 CTTTTGAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAA
Found at i:24589850 original size:39 final size:40
Alignment explanation
Indices: 24589798--24590006 Score: 271
Period size: 40 Copynumber: 5.3 Consensus size: 40
24589788 GGACTAAGAT
* *
24589798 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGATATTAAA-TCCGGGTTAAGTC
* *
24589837 CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
*
24589877 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
* *
24589917 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
* * * * * *
24589957 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
24589996 CCGAAGGCATT
1 CCGAAGGCATT
24590007 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 67 0.42
40 91 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATATTAAATCCGGGTTAAGTC
Found at i:24589970 original size:119 final size:120
Alignment explanation
Indices: 24589745--24590006 Score: 300
Period size: 119 Copynumber: 2.2 Consensus size: 120
24589735 TTGAATGCTG
* *
24589745 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* * *
24589809 TGTGCGAGATACAAATTCCGGGTTAAGCCCGAAGGCCTTTGTGCGAGATATTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCGAAGGCCATTGTGCGAGATACTAAA
* * * * **
24589864 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
24589927 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAG-CCCGAAGGCCATTGTGCGAGATACTAAA
* *
24589983 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
24590007 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
118 1 0.01
119 102 0.85
120 17 0.14
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCGAAGGCCATTGTGCGAGATACTAAA
Found at i:24590026 original size:79 final size:80
Alignment explanation
Indices: 24589746--24590041 Score: 221
Period size: 79 Copynumber: 3.7 Consensus size: 80
24589736 TGAATGCTGT
* ** * * * **
24589746 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
24589809 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * ** *
24589826 CCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGAT-ATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
24589889 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
24589905 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
24589969 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
24589984 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
24590042 TACGTGATTT
Statistics
Matches: 184, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
78 16 0.09
79 101 0.55
80 67 0.36
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:24590026 original size:119 final size:119
Alignment explanation
Indices: 24589746--24590041 Score: 280
Period size: 119 Copynumber: 2.5 Consensus size: 119
24589736 TGAATGCTGT
* ** * * **
24589746 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGGGTTAAG-TCCCGAAGGCATT
* * * *
24589809 TGTGCGAGATACAAATTCCGGGTTAAGCCCGAAGGCCTTTGTGCGAGATATTAAAT
64 CGTGCGAGATACAAATTCCGGGTTAAGCCCGAAGGCCATTGTGCGAGATACTAAAA
* ** * * *
24589865 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTCG
* * * * *
24589930 TGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAA
66 TGCGAGATA-CAAATTCCGGGTTAAG-CCCGAAGGCCATTGTGCGAGATACTAAAA
* * *
24589984 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
24590042 TACGTGATTT
Statistics
Matches: 146, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
118 17 0.12
119 112 0.77
120 17 0.12
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGATACAAATTCCGGGTTAAGCCCGAAGGCCATTGTGCGAGATACTAAAA
Found at i:24597374 original size:40 final size:39
Alignment explanation
Indices: 24597337--24597441 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 39
24597327 ATATCCGGAC
24597337 TAAGATCCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGT
* * * *
24597377 TAAGCCCCGAAGGCCTTTGTGTGAGATATTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATATCAAATCCGGGT
*
24597417 TAAGTCCCGAAGGCATTCGTGCGAG
1 TAAGT-CCGAAGGCATTTGTGCGAG
24597442 TTATTTTAAG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 51 0.94
41 3 0.06
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATATCAAATCCGGGT
Found at i:24597563 original size:39 final size:40
Alignment explanation
Indices: 24597456--24597575 Score: 179
Period size: 40 Copynumber: 3.0 Consensus size: 40
24597446 TTTAAGTCCA
*
24597456 TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 TCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCAT
*
24597496 TCGTGCGAGTTATTAAATCCAGGTTATGTCCCGAAGGCAT
1 TCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCAT
* * * *
24597536 T-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAT
1 TCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCAT
24597575 T
1 T
24597576 TGAACGAGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.47
40 39 0.53
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCAT
Found at i:24602674 original size:80 final size:75
Alignment explanation
Indices: 24602521--24602675 Score: 220
Period size: 80 Copynumber: 2.0 Consensus size: 75
24602511 TAAGACAAGC
* *
24602521 CACAGAAAATAAGAACGCAGAGAGGGAGAATTGAGTGAATGTTCTTAAAATTATTATTGCTCCAA
1 CACAGAAAATAAGAACGCAGAGAAGGAGAATTGAGTGAATGCTCTTAAAATTATTATTGCTCCAA
24602586 ACTCAAGTGT
66 ACTCAAGTGT
* *
24602596 CACAGAAAATAAGAACGCAAGAGAATGAGAAATTTGAGTGAATGCCTCTTAAGATTTATTATTGC
1 CACAGAAAATAAGAACGC-AGAGAAGGAG-AA-TTGAGTGAATG-CTCTTAA-AATTATTATTGC
*
24602661 TCCAAACTGAAGTGT
61 TCCAAACTCAAGTGT
24602676 TTTACAATGA
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
75 18 0.26
76 8 0.11
77 2 0.03
78 11 0.16
79 6 0.09
80 25 0.36
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (75 bp):
CACAGAAAATAAGAACGCAGAGAAGGAGAATTGAGTGAATGCTCTTAAAATTATTATTGCTCCAA
ACTCAAGTGT
Found at i:24603326 original size:41 final size:41
Alignment explanation
Indices: 24603281--24603405 Score: 170
Period size: 41 Copynumber: 3.1 Consensus size: 41
24603271 CGAATATAAT
*
24603281 AAATA-TTTTTATTTTTATTTTTTAATTTTAAAATACTTTTA
1 AAATACTTTTTATTATTATTTTTTAATTTTAAAATA-TTTTA
**
24603322 AAATACTTTTT-TTAAAATTTTTTAATTTTAAAATATTTTTA
1 AAATACTTTTTATTATTATTTTTTAATTTTAAAATA-TTTTA
24603363 AAATACTTTTTA--ATT-TTTTTTAATTTTAAAATATTTTA
1 AAATACTTTTTATTATTATTTTTTAATTTTAAAATATTTTA
24603401 AAATA
1 AAATA
24603406 AAATTTTTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
38 10 0.13
39 18 0.24
40 1 0.01
41 42 0.55
42 5 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (41 bp):
AAATACTTTTTATTATTATTTTTTAATTTTAAAATATTTTA
Found at i:24603344 original size:13 final size:14
Alignment explanation
Indices: 24603306--24603373 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 14
24603296 TATTTTTTAA
24603306 TTTTAAAATAC---
1 TTTTAAAATACTTT
24603317 TTTTAAAATACTTT
1 TTTTAAAATACTTT
**
24603331 TTTTAAAATTTTTT
1 TTTTAAAATACTTT
24603345 AATTTTAAAATA---T
1 --TTTTAAAATACTTT
24603358 TTTTAAAATACTTT
1 TTTTAAAATACTTT
24603372 TT
1 TT
24603374 AATTTTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
11 21 0.46
13 1 0.02
14 15 0.33
16 9 0.20
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAAAATACTTT
Found at i:24603360 original size:29 final size:29
Alignment explanation
Indices: 24603317--24603379 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 29
24603307 TTTAAAATAC
24603317 TTTTAAAATACTTTTTTTAAAAT-TTTTTAA
1 TTTTAAAATAC--TTTTTAAAATATTTTTAA
24603347 TTTTAAAATA-TTTTTAAAATACTTTTTAA
1 TTTTAAAATACTTTTTAAAATA-TTTTTAA
24603376 TTTT
1 TTTT
24603380 TTTTAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 10 0.32
29 11 0.35
30 10 0.32
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTAAAATACTTTTTAAAATATTTTTAA
Found at i:24603421 original size:39 final size:38
Alignment explanation
Indices: 24603292--24603421 Score: 149
Period size: 41 Copynumber: 3.3 Consensus size: 38
24603282 AATATTTTTA
*
24603292 TTTTT-ATTTTTTAATTTTAAAATACTTTTAAAATACTT
1 TTTTTAATTTTTTAATTTTAAAATACTTTTAAAATA-AT
* *
24603330 TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAAT-AC
1 TTTTT--AATTTTTTAATTTTAAAATACTTTTAAAATAAT
24603369 TTTTTAATTTTTTTTAATTTTAAAATA-TTTTAAAATAAAAT
1 TTTTTAA--TTTTTTAATTTTAAAATACTTTTAAAAT--AAT
24603410 TTTTTAATTTTT
1 TTTTTAATTTTT
24603422 AAAATAAATT
Statistics
Matches: 80, Mismatches: 4, Indels: 15
0.81 0.04 0.15
Matches are distributed among these distances:
37 2 0.03
38 14 0.17
39 28 0.35
41 36 0.45
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (38 bp):
TTTTTAATTTTTTAATTTTAAAATACTTTTAAAATAAT
Found at i:24617558 original size:6 final size:6
Alignment explanation
Indices: 24617547--24617585 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
24617537 TGCTAACACA
*
24617547 TTCCTT TTCCTT TTCCTT TTCTTT TTCCTT TTCCTT TTC
1 TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TTC
24617586 ATTATTGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCCTT
Found at i:24622943 original size:18 final size:18
Alignment explanation
Indices: 24622920--24622964 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
24622910 GTAAATATCC
24622920 TATAAAAATTGTAT-GTTG
1 TATAAAAATTG-ATGGTTG
*
24622938 TATAAACATTGATGGTTG
1 TATAAAAATTGATGGTTG
24622956 T-TAAAAATT
1 TATAAAAATT
24622965 TGATTAGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (18 bp):
TATAAAAATTGATGGTTG
Found at i:24625782 original size:45 final size:45
Alignment explanation
Indices: 24625706--24625883 Score: 211
Period size: 45 Copynumber: 4.0 Consensus size: 45
24625696 ATCGGGTACA
* * * *
24625706 ATTGATTATAAAGGTGATTGTTGTGTGCTGATTCCACTATGTATC
1 ATTGATTATAAAGGTGGTTGCTATGTACTGATTCCACTATGTATC
* * *
24625751 ATTGATTATAAAGGTGGTTGCTATGTACTGATTCCACCAGGTATT
1 ATTGATTATAAAGGTGGTTGCTATGTACTGATTCCACTATGTATC
* *
24625796 ATTGATTATGAAGGTGGTTGCTATGTGCTGATTCCACTGA-GTATC
1 ATTGATTATAAAGGTGGTTGCTATGTACTGATTCCACT-ATGTATC
* *
24625841 ATTGACTATAAGGGTGG-TGCTATGTGA-TGA-TCCACTATGTATC
1 ATTGATTATAAAGGTGGTTGCTATGT-ACTGATTCCACTATGTATC
24625884 TGTTATTATT
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.01
43 11 0.10
44 11 0.10
45 91 0.79
46 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (45 bp):
ATTGATTATAAAGGTGGTTGCTATGTACTGATTCCACTATGTATC
Found at i:24628318 original size:69 final size:69
Alignment explanation
Indices: 24628185--24628331 Score: 197
Period size: 69 Copynumber: 2.1 Consensus size: 69
24628175 TTGTGTCATG
* * * * **
24628185 CTAAGGCTCACAAGATTAAAACTGCAACCTCCAATACTGTTAGAGAGAGCAAAGCTATTTACTGT
1 CTAAGGCTCACAAGATAAAAACTGCAACCTCCAACACAGTTAGAGAGAACAAAGCTATCAACTGT
24628250 CACA
66 CACA
*
24628254 CTAAGGCTCACAAG-TGAAAAACTGCAACCTCCAACACAGTTAGAGAGAACAAAGCTCTCAACTG
1 CTAAGGCTCACAAGAT-AAAAACTGCAACCTCCAACACAGTTAGAGAGAACAAAGCTATCAACTG
*
24628318 TCATA
65 TCACA
*
24628323 TTAAGGCTC
1 CTAAGGCTC
24628332 GTAGGTGAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 1 0.01
69 67 0.99
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.21
Consensus pattern (69 bp):
CTAAGGCTCACAAGATAAAAACTGCAACCTCCAACACAGTTAGAGAGAACAAAGCTATCAACTGT
CACA
Found at i:24628340 original size:69 final size:69
Alignment explanation
Indices: 24628208--24628718 Score: 312
Period size: 69 Copynumber: 7.4 Consensus size: 69
24628198 GATTAAAACT
* * * * ** * * ** *
24628208 GCAACCTCCAATACTGTTAGAGAGAGCAAAGCTATTTACTGTCACACTAAGGCTCACAAGTGAAA
1 GCAACCTCCAACACAGTTAGAGAGAACAAAGCTCTCAACTGTCATATTAAGGCTCGTAGGTGAAA
24628273 AA-C
66 AATC
24628276 TGCAACCTCCAACACAGTTAGAGAGAACAAAGCTCTCAACTGTCATATTAAGGCTCGTAGGTGAA
1 -GCAACCTCCAACACAGTTAGAGAGAACAAAGCTCTCAACTGTCATATTAAGGCTCGTAGGTGAA
24628341 AAATC
65 AAATC
* * * * * *
24628346 GTAGCC-ACGACACAGCTAGCAAGAGTTAA-AAA-CAT-TCAGA-TGTCATATTAAGGCTTGTAG
1 GCAACCTCCAACACAGTTAG--AGAG--AACAAAGC-TCTCA-ACTGTCATATTAAGGCTCGTAG
*
24628406 GTGAAAAACC
60 GTGAAAAATC
* * * * * *
24628416 ACAACCTCCAACACAGTTAGAGAGAACAAAGCTCCCAGCTGCCATCA-CAGGGCTCGTAGGTGAA
1 GCAACCTCCAACACAGTTAGAGAGAACAAAGCTCTCAACTGTCAT-ATTAAGGCTCGTAGGTGAA
24628480 AAATC
65 AAATC
* * ** * * * * *
24628485 GTAGCCTTTAACATAGTTAGCGAGAGTTACAAA-CTCCCAAATGTC--A-TAAGGCTCGCAGGTG
1 GCAACCTCCAACACAGTTA--GAGAG-AACAAAGCTCTCAACTGTCATATTAAGGCTCGTAGGTG
24628546 AAAAAATC
63 -AAAAATC
** * * * * * **
24628554 ATAGCCTCCAACACAGTTAGCA-AGAGCAAAGCTATTAGCTGTCATATTAAGGCTCACAGGTGAA
1 GCAACCTCCAACACAGTTAG-AGAGAACAAAGCTCTCAACTGTCATATTAAGGCTCGTAGGTGAA
*
24628618 AATTC
65 AAATC
* * ** * *
24628623 GCAGCCTCCAGCACAGTTAGCGAGAGTTAA-AAA-CTCTCAGGTGTAATATTAATGCTCGTAGGT
1 GCAACCTCCAACACAGTTA--GAGAG--AACAAAGCTCTCAACTGTCATATTAAGGCTCGTAGGT
*
24628686 TAAAAATC
62 GAAAAATC
*
24628694 ACAACCTCCAACACAGTTAGAGAGA
1 GCAACCTCCAACACAGTTAGAGAGA
24628719 GTTAAAAACT
Statistics
Matches: 342, Mismatches: 73, Indels: 56
0.73 0.15 0.12
Matches are distributed among these distances:
66 4 0.01
67 13 0.04
68 28 0.08
69 153 0.45
70 56 0.16
71 77 0.23
72 10 0.03
73 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (69 bp):
GCAACCTCCAACACAGTTAGAGAGAACAAAGCTCTCAACTGTCATATTAAGGCTCGTAGGTGAAA
AATC
Found at i:24628594 original size:138 final size:139
Alignment explanation
Indices: 24628255--24628718 Score: 438
Period size: 138 Copynumber: 3.3 Consensus size: 139
24628245 ACTGTCACAC
* * ** * *
24628255 TAAGGCTCACAAGTGAAAAACTGCAACCTCCAACACAGTTAGAGAGAACAAAGCT-CTCAACTGT
1 TAAGGCTCGCAGGTGAAAAACCACAACCTCCAACACAGTTAGAGAGAACAAAGCTAC-CAGCTGC
* * * * *
24628319 CATATTAAGGCTCGTAGGTGAAAAATCGTAGCC-ACGACACAGCTAGCAAGAGTTAAAAACAT-T
65 CATATCAAGGCTCGTAGGTGAAAAATCGTAGCCTACAACACAGTTAGCGAGAGTTAAAAAC-TCC
*
24628382 CAGATGTCATAT
129 CAAATGTCA-AT
* * *
24628394 TAAGGCTTGTAGGTGAAAAACCACAACCTCCAACACAGTTAGAGAGAACAAAGCTCCCAGCTGCC
1 TAAGGCTCGCAGGTGAAAAACCACAACCTCCAACACAGTTAGAGAGAACAAAGCTACCAGCTGCC
* ** * *
24628459 ATCA-CAGGGCTCGTAGGTGAAAAATCGTAGCCTTTAACATAGTTAGCGAGAGTTACAAACTCCC
66 AT-ATCAAGGCTCGTAGGTGAAAAATCGTAGCCTACAACACAGTTAGCGAGAGTTAAAAACTCCC
24628523 AAATGTC-A-
130 AAATGTCAAT
* * * * **
24628531 TAAGGCTCGCAGGTGAAAAAATCATAGCCTCCAACACAGTTAGCA-AGAGCAAAGCTATTAGCTG
1 TAAGGCTCGCAGGTG-AAAAACCACAACCTCCAACACAGTTAG-AGAGAACAAAGCTACCAGCTG
* * ** * * * * *
24628595 TCATATTAAGGCTCACAGGTGAAAATTCGCAGCCTCCAGCACAGTTAGCGAGAGTTAAAAACTCT
64 CCATATCAAGGCTCGTAGGTGAAAAATCGTAGCCTACAACACAGTTAGCGAGAGTTAAAAACTCC
** *
24628660 CAGGTGTAATAT
129 CAAATGTCA-AT
* * * *
24628672 TAATGCTCGTAGGTTAAAAATCACAACCTCCAACACAGTTAGAGAGA
1 TAAGGCTCGCAGGTGAAAAACCACAACCTCCAACACAGTTAGAGAGA
24628719 GTTAAAAACT
Statistics
Matches: 265, Mismatches: 49, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
137 14 0.05
138 95 0.36
139 86 0.32
140 58 0.22
141 12 0.05
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (139 bp):
TAAGGCTCGCAGGTGAAAAACCACAACCTCCAACACAGTTAGAGAGAACAAAGCTACCAGCTGCC
ATATCAAGGCTCGTAGGTGAAAAATCGTAGCCTACAACACAGTTAGCGAGAGTTAAAAACTCCCA
AATGTCAAT
Found at i:24628762 original size:71 final size:70
Alignment explanation
Indices: 24628255--24628832 Score: 287
Period size: 69 Copynumber: 8.3 Consensus size: 70
24628245 ACTGTCACAC
* * *
24628255 TAAGGCTCACAAGTGAAAAACTGCA-A-CCTCCAACACAGTTAGAGAGA---ACAAAGCTCTCAA
1 TAAGGCTCACAGGTGAAAAA-T-CACAGCCTCCAACACAGTTAGAGAGAGTTA-AAAACTC-CCA
*
24628315 CTGTCATAT
62 TTGTCATAT
** ** * * * * *
24628324 TAAGGCTCGTAGGTGAAAAATCGTAGCC-ACGACACAGCTAGCA-AGAGTTAAAAACAT-TCAGA
1 TAAGGCTCACAGGTGAAAAATCACAGCCTCCAACACAGTTAG-AGAGAGTTAAAAAC-TCCCA-T
24628386 TGTCATAT
63 TGTCATAT
*** * * * *
24628394 TAAGGCTTGTAGGTGAAAAACCACAACCTCCAACACAGTTAGAGAGA---ACAAAGCTCCCAGCT
1 TAAGGCTCACAGGTGAAAAATCACAGCCTCCAACACAGTTAGAGAGAGTTA-AAAACTCCCA-TT
*
24628456 GCCATCA-
64 GTCAT-AT
* * ** ** ** * * * *
24628463 CAGGGCTCGTAGGTGAAAAATCGTAGCCTTTAACATAGTTAGCGAGAGTTACAAACTCCCAAATG
1 TAAGGCTCACAGGTGAAAAATCACAGCCTCCAACACAGTTAGAGAGAGTTAAAAACTCCC-ATTG
24628528 TC--A-
65 TCATAT
* * * * *** *
24628531 TAAGGCTCGCAGGTGAAAAAATCATAGCCTCCAACACAGTTAGCA-AGAG--CAAAGCTATTAGC
1 TAAGGCTCACAGGTG-AAAAATCACAGCCTCCAACACAGTTAG-AGAGAGTTAAAAACTCCCA-T
24628593 TGTCATAT
63 TGTCATAT
* * * * * *
24628601 TAAGGCTCACAGGTGAAAATTCGCAGCCTCCAGCACAGTTAGCGAGAGTTAAAAACTCTCAGGTG
1 TAAGGCTCACAGGTGAAAAATCACAGCCTCCAACACAGTTAGAGAGAGTTAAAAACTCCCA-TTG
*
24628666 TAATAT
65 TCATAT
* ** * * *
24628672 TAATGCTCGTAGGTTAAAAATCACAACCTCCAACACAGTTAGAGAGAGTTAAAAACTCCCATCTA
1 TAAGGCTCACAGGTGAAAAATCACAGCCTCCAACACAGTTAGAGAGAGTTAAAAACTCCCAT-TG
*
24628737 TCATAC
65 TCATAT
* * * * * *
24628743 TAAGGCTCACAGGAGAAAAACCACAGCC-ACGACACAGTTAGCA-AGAATTAAAAACTCCTAGTT
1 TAAGGCTCACAGGTGAAAAATCACAGCCTCCAACACAGTTAG-AGAGAGTTAAAAACTCCCA-TT
24628806 GTCATAT
64 GTCATAT
* *
24628813 TAAGGCTCACAAGTGCAAAA
1 TAAGGCTCACAGGTGAAAAA
24628833 CCGTAGCCAC
Statistics
Matches: 385, Mismatches: 95, Indels: 57
0.72 0.18 0.11
Matches are distributed among these distances:
66 1 0.00
67 9 0.02
68 30 0.08
69 124 0.32
70 100 0.26
71 119 0.31
72 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (70 bp):
TAAGGCTCACAGGTGAAAAATCACAGCCTCCAACACAGTTAGAGAGAGTTAAAAACTCCCATTGT
CATAT
Found at i:24628799 original size:70 final size:70
Alignment explanation
Indices: 24628702--24628870 Score: 184
Period size: 70 Copynumber: 2.4 Consensus size: 70
24628692 TCACAACCTC
* *
24628702 CAACACAGTTAG-AGAGAGTTAAAAACTCCCA-TCTATCATACTAAGGCTCACAGGAGAAAAACC
1 CAACACAGTTAGCA-AGAATTAAAAACTCCCAGT-TATCATACTAAGGCTCACAAGAGAAAAACC
24628765 ACAGCCA
64 ACAGCCA
* * * * * * **
24628772 CGACACAGTTAGCAAGAATTAAAAACTCCTAGTTGTCATATTAAGGCTCACAAGTGCAAAACCGT
1 CAACACAGTTAGCAAGAATTAAAAACTCCCAGTTATCATACTAAGGCTCACAAGAGAAAAACCAC
24628837 AGCCA
66 AGCCA
* *
24628842 CAACACAGTTAGC--GAATCAAAAGCTCCCA
1 CAACACAGTTAGCAAGAATTAAAAACTCCCA
24628871 ACTAATTATT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
68 13 0.16
70 68 0.82
71 2 0.02
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (70 bp):
CAACACAGTTAGCAAGAATTAAAAACTCCCAGTTATCATACTAAGGCTCACAAGAGAAAAACCAC
AGCCA
Found at i:24642688 original size:14 final size:13
Alignment explanation
Indices: 24642648--24642690 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
24642638 GGCTCGACCC
*
24642648 ATATTATTT-TTT
1 ATATTATTTATAT
24642660 ATATTATTTATAT
1 ATATTATTTATAT
*
24642673 ATATTTTTTAATAT
1 ATATTATTT-ATAT
24642687 ATAT
1 ATAT
24642691 AATATATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 9 0.33
13 10 0.37
14 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATATTATTTATAT
Found at i:24642695 original size:23 final size:22
Alignment explanation
Indices: 24642648--24642697 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
24642638 GGCTCGACCC
*
24642648 ATAT-TATTTTTTATATTATTT
1 ATATATATTTTTTATATTATTA
24642669 ATATATATTTTTTA-ATATATATA
1 ATATATATTTTTTATAT-TAT-TA
24642692 ATATAT
1 ATATAT
24642698 CAAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 12 0.48
23 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATATATTTTTTATATTATTA
Found at i:24646315 original size:49 final size:49
Alignment explanation
Indices: 24646255--24646358 Score: 201
Period size: 49 Copynumber: 2.1 Consensus size: 49
24646245 AATTTAGATA
24646255 ATAAAA-TAACATTTCAAAACAACCAATAGCAAAATATTAATTAATTAG
1 ATAAAACTAACATTTCAAAACAACCAATAGCAAAATATTAATTAATTAG
24646303 ATAAAACTAACATTTCAAAACAACCAATAGCAAAATATTAATTAATTAG
1 ATAAAACTAACATTTCAAAACAACCAATAGCAAAATATTAATTAATTAG
24646352 ATAAAAC
1 ATAAAAC
24646359 AATTCGTAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 6 0.11
49 49 0.89
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (49 bp):
ATAAAACTAACATTTCAAAACAACCAATAGCAAAATATTAATTAATTAG
Found at i:24646548 original size:3 final size:3
Alignment explanation
Indices: 24646540--24646566 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24646530 AAGCATCTCA
24646540 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
24646567 CATACATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24647290 original size:11 final size:10
Alignment explanation
Indices: 24647271--24647300 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
24647261 ATATACTATC
24647271 ATATTAATTA
1 ATATTAATTA
24647281 ATATTTAATTA
1 ATA-TTAATTA
24647292 ATATTAATT
1 ATATTAATT
24647301 TTATTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATATTAATTA
Found at i:24647496 original size:33 final size:33
Alignment explanation
Indices: 24647452--24647521 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
24647442 ATGTGTGTGG
* *
24647452 AAATCATGTATTTATAACATAGATGTGTGTTAA
1 AAATCACGTATTTATAACACAGATGTGTGTTAA
*
24647485 AAATCACGTATTTATAACACAGATGTGTGTTTA
1 AAATCACGTATTTATAACACAGATGTGTGTTAA
24647518 AAAT
1 AAAT
24647522 GTTGGATCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (33 bp):
AAATCACGTATTTATAACACAGATGTGTGTTAA
Found at i:24647966 original size:19 final size:19
Alignment explanation
Indices: 24647942--24647984 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
24647932 ATTTTAAGGG
24647942 TGGAAGGATCTAGAAACTA
1 TGGAAGGATCTAGAAACTA
24647961 TGGAAGGATCTAGAAACTA
1 TGGAAGGATCTAGAAACTA
*
24647980 AGGAA
1 TGGAA
24647985 AAATGGATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (19 bp):
TGGAAGGATCTAGAAACTA
Found at i:24649557 original size:21 final size:21
Alignment explanation
Indices: 24649533--24649574 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24649523 TAAATTATAA
*
24649533 AAAAATATAAAAGTGTTATGT
1 AAAAATATAAAAGTGATATGT
* *
24649554 AAAAGTGTAAAAGTGATATGT
1 AAAAATATAAAAGTGATATGT
24649575 GTGCATGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (21 bp):
AAAAATATAAAAGTGATATGT
Found at i:24649686 original size:22 final size:23
Alignment explanation
Indices: 24649648--24649717 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 23
24649638 TTAAGGAAAT
24649648 TTTAGCGCGTTTATCGTCTT-GCAC
1 TTTAGCGCG-TTATCGT-TTCGCAC
24649672 TTTAGCGC-TTATCGTTTCGCAC
1 TTTAGCGCGTTATCGTTTCGCAC
** * *
24649694 TTCGGTGC-TTATCGTTCCGCAC
1 TTTAGCGCGTTATCGTTTCGCAC
24649716 TT
1 TT
24649718 CAGTGCCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.05
22 31 0.76
24 8 0.20
ACGTcount: A:0.11, C:0.27, G:0.20, T:0.41
Consensus pattern (23 bp):
TTTAGCGCGTTATCGTTTCGCAC
Found at i:24649718 original size:22 final size:22
Alignment explanation
Indices: 24649678--24649745 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 22
24649668 GCACTTTAGC
24649678 GCTTATCGTTTCGCACTTCGGT
1 GCTTATCGTTTCGCACTTCGGT
* *
24649700 GCTTATCGTTCCGCACTTCAGT
1 GCTTATCGTTTCGCACTTCGGT
* * *
24649722 GCCTATTGTTTTGCACTTCGGT
1 GCTTATCGTTTCGCACTTCGGT
24649744 GC
1 GC
24649746 CTATTGTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.10, C:0.28, G:0.22, T:0.40
Consensus pattern (22 bp):
GCTTATCGTTTCGCACTTCGGT
Found at i:24649746 original size:22 final size:22
Alignment explanation
Indices: 24649685--24649753 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
24649675 AGCGCTTATC
* *
24649685 GTTTCGCACTTCGGTGCTTATC
1 GTTTCGCACTTCGGTGCCTATT
* *
24649707 GTTCCGCACTTCAGTGCCTATT
1 GTTTCGCACTTCGGTGCCTATT
*
24649729 GTTTTGCACTTCGGTGCCTATT
1 GTTTCGCACTTCGGTGCCTATT
24649751 GTT
1 GTT
24649754 ATATTAGTGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.42
Consensus pattern (22 bp):
GTTTCGCACTTCGGTGCCTATT
Found at i:24651026 original size:23 final size:24
Alignment explanation
Indices: 24650945--24651035 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
24650935 TAAACACATG
* * * *
24650945 TTCTGTAAGTGCCCTTATGGCGTC
1 TTCTGTAAGTGCCTTTGTGGCATA
* *
24650969 TTCTATAAGTGCCTTTGTGGCTTA
1 TTCTGTAAGTGCCTTTGTGGCATA
* *
24650993 TTCTGTTAGTGCCTTTGTTGCAT-
1 TTCTGTAAGTGCCTTTGTGGCATA
24651016 TTCTGTAAGTGCCTTTGTGG
1 TTCTGTAAGTGCCTTTGTGG
24651036 AGTATTCGAG
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
23 18 0.32
24 38 0.68
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.45
Consensus pattern (24 bp):
TTCTGTAAGTGCCTTTGTGGCATA
Found at i:24665840 original size:43 final size:43
Alignment explanation
Indices: 24665779--24665868 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
24665769 TAAAGAGCAT
24665779 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
1 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
24665822 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
1 GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
24665865 GGGC
1 GGGC
24665869 TTGAAATGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.22, C:0.14, G:0.37, T:0.27
Consensus pattern (43 bp):
GGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGC
Found at i:24665885 original size:29 final size:29
Alignment explanation
Indices: 24665850--24665923 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
24665840 GTTGTGAGAT
* *
24665850 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
24665879 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
24665908 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24665924 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:24666291 original size:40 final size:40
Alignment explanation
Indices: 24666234--24666443 Score: 271
Period size: 40 Copynumber: 5.2 Consensus size: 40
24666224 TTGAATGATG
* *
24666234 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * *
24666274 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
24666314 TCCGGGCTAAGTCCCGAGGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
24666354 TCCGGGCTAAGTCCCGAGGAGCATTTGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
24666394 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
24666434 TCCGTGCTAA
1 TCCGGGCTAA
24666444 ACCTCGAAGA
Statistics
Matches: 149, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 135 0.91
41 7 0.05
42 7 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:24666462 original size:120 final size:120
Alignment explanation
Indices: 24666234--24666469 Score: 316
Period size: 120 Copynumber: 2.0 Consensus size: 120
24666224 TTGAATGATG
24666234 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGTTCCGAAGAGCATT
* * * * *
24666299 CGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCATGCTAGTGATATA
66 CGTGCTAGTAATATATCCGGGCTAAGACCCGAAGAGCAATCATGCTAGTGATATA
* ** *
24666354 TCCGGGCTAAGTCCCGAGGAGCATTTGTGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGTTCCGAAGAGCA
* * *
24666417 TTCGTGCTAGTAATATATCCGTGCTAA-ACCTCGAAGAGTAATCATGCTGGTGA
64 TTCGTGCTAGTAATATATCCGGGCTAAGACC-CGAAGAGCAATCATGCTAGTGA
24666470 CGTGTATTCG
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
119 2 0.02
120 84 0.83
121 7 0.07
122 8 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGTTCCGAAGAGCATT
CGTGCTAGTAATATATCCGGGCTAAGACCCGAAGAGCAATCATGCTAGTGATATA
Found at i:24669690 original size:21 final size:21
Alignment explanation
Indices: 24669645--24669701 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
24669635 AAGGTGGAAG
* * *
24669645 TTATGTGGCAATTTATCTACGA
1 TTATGTGGCCA-TTATCAACAA
24669667 TTATGTGGCCATTATCAACAA
1 TTATGTGGCCATTATCAACAA
24669688 TTATGTGGCTCATT
1 TTATGTGGC-CATT
24669702 GTCCACGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (21 bp):
TTATGTGGCCATTATCAACAA
Found at i:24675971 original size:24 final size:24
Alignment explanation
Indices: 24675944--24675998 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
24675934 CTTTGAGAGT
24675944 TACACGAGTGAGGACACAGGCTAG
1 TACACGAGTGAGGACACAGGCTAG
24675968 TACACGAGTGAGGACACAGGCTAG
1 TACACGAGTGAGGACACAGGCTAG
*
24675992 GACACGA
1 TACACGA
24675999 CTGTGAACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.33, T:0.11
Consensus pattern (24 bp):
TACACGAGTGAGGACACAGGCTAG
Found at i:24677800 original size:21 final size:20
Alignment explanation
Indices: 24677776--24677821 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
24677766 CGAAATGCAA
24677776 TCAACCTAAGAC-GAATTAAAT
1 TCAACCTAA-ACTG-ATTAAAT
*
24677797 TCAAGCTAAACTGATTAAAT
1 TCAACCTAAACTGATTAAAT
24677817 T-AACC
1 TCAACC
24677822 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 10 0.45
21 9 0.41
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.26
Consensus pattern (20 bp):
TCAACCTAAACTGATTAAAT
Found at i:24681489 original size:30 final size:30
Alignment explanation
Indices: 24681435--24681493 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
24681425 TTTTGAAAAC
* *
24681435 ATTTACAAAAAGAGGCATCTAATTTTTAAT
1 ATTTACAAAAAGAGGCACCAAATTTTTAAT
24681465 ATTTACAAAAAGA-GCAACCAAATTTTTAA
1 ATTTACAAAAAGAGGC-ACCAAATTTTTAA
24681494 AAAATAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
ATTTACAAAAAGAGGCACCAAATTTTTAAT
Found at i:24684425 original size:28 final size:28
Alignment explanation
Indices: 24684390--24684603 Score: 394
Period size: 28 Copynumber: 7.7 Consensus size: 28
24684380 GCATGTGGTG
24684390 ATATAGCACTAAGTGTGCGAGTTTGATT
1 ATATAGCACTAAGTGTGCGAGTTTGATT
24684418 ATATAGCACTAAGTGTGCGAGTTTGATT
1 ATATAGCACTAAGTGTGCGAGTTTGATT
24684446 ATATAGCACTAAGTGTGCGAGTTTGATT
1 ATATAGCACTAAGTGTGCGAGTTTGATT
24684474 ATATAGCACTAAGTGTGCGAGTTTGATT
1 ATATAGCACTAAGTGTGCGAGTTTGATT
*
24684502 ATATAGCACTAAGTGTGCAAGTTTGATT
1 ATATAGCACTAAGTGTGCGAGTTTGATT
*
24684530 ATGTAGCACTAAGTGTGCGAGTTTGATT
1 ATATAGCACTAAGTGTGCGAGTTTGATT
24684558 ATATAGCACTAAGTGTGCGAG-TTGATT
1 ATATAGCACTAAGTGTGCGAGTTTGATT
*
24684585 ATATAGCACTGAGTGTGCG
1 ATATAGCACTAAGTGTGCG
24684604 GACTTAATAT
Statistics
Matches: 181, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
27 24 0.13
28 157 0.87
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.35
Consensus pattern (28 bp):
ATATAGCACTAAGTGTGCGAGTTTGATT
Found at i:24692401 original size:55 final size:56
Alignment explanation
Indices: 24692335--24692564 Score: 343
Period size: 55 Copynumber: 4.2 Consensus size: 56
24692325 CATGAGATTG
* * *
24692335 GCACTAAGTGTGCGGGTTTAAATTGTATAGCACTAAGTGTGC-AGTTTGATTAT-TA
1 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
24692390 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
*
24692446 GC-CTAAGTGTGCGAGTTTGATTATAT--CA-TAAGTGTGC-A-TTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
24692496 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
*
24692551 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
24692565 GACTTAATAT
Statistics
Matches: 161, Mismatches: 6, Indels: 16
0.88 0.03 0.09
Matches are distributed among these distances:
50 13 0.08
51 25 0.16
52 9 0.06
53 4 0.02
54 29 0.18
55 77 0.48
56 4 0.02
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:24692428 original size:28 final size:28
Alignment explanation
Indices: 24692335--24692564 Score: 343
Period size: 27 Copynumber: 8.5 Consensus size: 28
24692325 CATGAGATTG
* * *
24692335 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
24692364 GCACTAAGTGTGC-AGTTTGATTAT-TA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24692390 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24692418 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24692446 GC-CTAAGTGTGCGAGTTTGATTATAT-
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24692472 -CA-TAAGTGTGC-A-TTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24692496 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24692524 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24692551 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
24692565 GACTTAATAT
Statistics
Matches: 187, Mismatches: 6, Indels: 18
0.89 0.03 0.09
Matches are distributed among these distances:
23 10 0.05
24 1 0.01
25 12 0.06
26 24 0.13
27 64 0.34
28 63 0.34
29 13 0.07
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:24692561 original size:106 final size:106
Alignment explanation
Indices: 24692368--24692564 Score: 353
Period size: 106 Copynumber: 1.9 Consensus size: 106
24692358 TGTATAGCAC
24692368 TAAGTGTGCAGTTTGATTATTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGA
1 TAAGTGTGCAGTTTGATTATTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGA
24692433 GTTTGATTATATAGCCTAAGTGTGCGAGTTTGATTATATCA
66 GTTTGATTATATAGCCTAAGTGTGCGAGTTTGATTATATCA
24692474 TAAGTGTGCA-TTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCG
1 TAAGTGTGCAGTTTGATTAT-TAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCG
*
24692538 AG-TTGATTATATAGCACTGAGTGTGCG
65 AGTTTGATTATATAGC-CTAAGTGTGCG
24692565 GACTTAATAT
Statistics
Matches: 88, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
105 22 0.25
106 66 0.75
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.37
Consensus pattern (106 bp):
TAAGTGTGCAGTTTGATTATTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGA
GTTTGATTATATAGCCTAAGTGTGCGAGTTTGATTATATCA
Found at i:24692575 original size:27 final size:27
Alignment explanation
Indices: 24692360--24692577 Score: 182
Period size: 28 Copynumber: 8.1 Consensus size: 27
24692350 GTTTAAATTG
* *
24692360 TATAGCACTAAGTGTGC-AGTTTGATTA
1 TATAGCACTAAGTGTGCGA-CTTGAATA
* *
24692387 T-TAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGA-CTTGAATA
* *
24692414 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGA-CTTGAATA
*
24692442 TATAGC-CTAAGTGTGCGAGTTTG-AT-
1 TATAGCACTAAGTGTGCGA-CTTGAATA
* * *
24692467 TATATCA-TAAGTGTGC-ATTTGATTA
1 TATAGCACTAAGTGTGCGACTTGAATA
* * *
24692492 TGTAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGA-CTTGAATA
* *
24692520 TATAGCACTAAGTGTGCGAGTTGATTA
1 TATAGCACTAAGTGTGCGACTTGAATA
*
24692547 TATAGCACTGAGTGTGCGGACTT-AATA
1 TATAGCACTAAGTGTGC-GACTTGAATA
24692574 TATA
1 TATA
24692578 CTTTTGAATC
Statistics
Matches: 172, Mismatches: 10, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
23 4 0.02
24 2 0.01
25 19 0.11
26 25 0.15
27 60 0.35
28 62 0.36
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.36
Consensus pattern (27 bp):
TATAGCACTAAGTGTGCGACTTGAATA
Found at i:24700420 original size:28 final size:28
Alignment explanation
Indices: 24700353--24700590 Score: 379
Period size: 28 Copynumber: 8.5 Consensus size: 28
24700343 CATGAGATTG
* * *
24700353 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
* *
24700382 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24700410 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24700438 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24700466 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
24700494 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24700522 GAACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24700550 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24700577 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
24700591 GACTTAATAT
Statistics
Matches: 195, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 24 0.12
28 154 0.79
29 17 0.09
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:24703482 original size:27 final size:27
Alignment explanation
Indices: 24703452--24703629 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
24703442 ATATTGAGCC
* *
24703452 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
24703479 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24703506 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
24703534 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
24703561 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
24703588 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24703615 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
24703630 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24703591 original size:82 final size:81
Alignment explanation
Indices: 24703473--24703628 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
24703463 TGCTATATAA
* * *
24703473 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
24703538 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
24703555 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24703619 CCCTTAGTGC
65 CCCTTAGTGC
24703629 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:24711468 original size:27 final size:27
Alignment explanation
Indices: 24711438--24711615 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
24711428 ATATTGAGCC
* *
24711438 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
24711465 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24711492 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
24711520 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
24711547 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
24711574 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24711601 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
24711616 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24711577 original size:82 final size:81
Alignment explanation
Indices: 24711459--24711614 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
24711449 TGCTATATAA
* * *
24711459 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
24711524 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
24711541 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24711605 CCCTTAGTGC
65 CCCTTAGTGC
24711615 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:24717217 original size:15 final size:15
Alignment explanation
Indices: 24717197--24717229 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
24717187 AAGCATCTGG
24717197 AACATGACTGGTTTC
1 AACATGACTGGTTTC
24717212 AACATGACTGGTTTC
1 AACATGACTGGTTTC
24717227 AAC
1 AAC
24717230 TTGAACTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (15 bp):
AACATGACTGGTTTC
Found at i:24718503 original size:21 final size:20
Alignment explanation
Indices: 24718474--24718515 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
24718464 CGAAATGCAA
24718474 TCAACCTAAGA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
24718495 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
24718515 T
1 T
24718516 AAACATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:24720583 original size:4 final size:4
Alignment explanation
Indices: 24720564--24720601 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
24720554 ATTAGAAAAT
*
24720564 TTAA CTAA TCTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA T-TAA TTAA TTAA TTAA TTAA TTAA TTAA T
24720602 ATTTATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (4 bp):
TTAA
Found at i:24722494 original size:18 final size:19
Alignment explanation
Indices: 24722468--24722506 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
24722458 TGTTTTTTAG
*
24722468 TTTTCCTTTC-TTTAATTT
1 TTTTACTTTCATTTAATTT
*
24722486 TTTTACTTTCATTTCATTT
1 TTTTACTTTCATTTAATTT
24722505 TT
1 TT
24722507 ATTATCAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTACTTTCATTTAATTT
Found at i:24727715 original size:18 final size:18
Alignment explanation
Indices: 24727692--24727728 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24727682 TAATCTAGAC
24727692 TTGCATGTGGACTTCTGA
1 TTGCATGTGGACTTCTGA
24727710 TTGCATGTGGACTTCTGA
1 TTGCATGTGGACTTCTGA
24727728 T
1 T
24727729 CAAGTAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (18 bp):
TTGCATGTGGACTTCTGA
Found at i:24729739 original size:20 final size:20
Alignment explanation
Indices: 24729716--24729790 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
24729706 ATGCTACCAG
*
24729716 AGGCATCGAAGTACATACAA
1 AGGCACCGAAGTACATACAA
* *
24729736 AGGCTCCGAAGTGCATACAA
1 AGGCACCGAAGTACATACAA
* *
24729756 AGGCACCAAAGTACAAACAA
1 AGGCACCGAAGTACATACAA
24729776 AGGCACCGAAGTACA
1 AGGCACCGAAGTACA
24729791 ATCCCGTACA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.44, C:0.24, G:0.21, T:0.11
Consensus pattern (20 bp):
AGGCACCGAAGTACATACAA
Found at i:24731588 original size:37 final size:37
Alignment explanation
Indices: 24731538--24731616 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
24731528 TTATTACGAA
* *
24731538 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
24731575 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
24731612 GTCTT
1 GTCTT
24731617 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:24731813 original size:47 final size:47
Alignment explanation
Indices: 24731735--24732178 Score: 728
Period size: 47 Copynumber: 9.4 Consensus size: 47
24731725 CCCTTCGGGA
* * * * * * *
24731735 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24731782 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24731829 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24731878 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24731925 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24731972 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24732019 CTTATCACATATATACACTTTCACATGCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24732066 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24732113 CTTATCACACT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-TATATACACTTTCACATTCATCACATCGGCCATTAGGC
24732160 CTTATCACATATATACACT
1 CTTATCACATATATACACT
24732179 GTCTTGGCTG
Statistics
Matches: 372, Mismatches: 21, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 324 0.87
48 1 0.00
49 46 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24735823 original size:40 final size:40
Alignment explanation
Indices: 24735712--24735828 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 40
24735702 CGAATACACG
* * * * * *
24735712 TCACCAGCATGATTGCTCTTCGGGATTTAGCACAGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
24735752 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
24735792 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
24735829 TTAGTAACTC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:24735853 original size:40 final size:41
Alignment explanation
Indices: 24735725--24735907 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 41
24735715 CCAGCATGAT
* * * *
24735725 TGCTCTTCGGGATTTAGCACAGATATA-TCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCACCAA
* **
24735765 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCACCAA
* * *
24735805 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCACCAA
* *
24735846 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAA
1 TGCTCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACCAA
*
24735886 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
24735908 CATCATTCGA
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 99 0.82
41 19 0.16
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (41 bp):
TGCTCTTCGGGACTTAGCCCGGATATAGTCACTAGCACCAA
Found at i:24736254 original size:29 final size:29
Alignment explanation
Indices: 24736215--24736290 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
24736205 CTTAATAATC
*
24736215 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
24736245 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
24736274 AGCCCGCACACTTAGTG
1 AACCCGCACACTTAGTG
24736291 TGTGACAGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 35 0.85
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:24738209 original size:39 final size:40
Alignment explanation
Indices: 24738108--24738409 Score: 390
Period size: 39 Copynumber: 7.7 Consensus size: 40
24738098 TTGAATGATG
*
24738108 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
24738147 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
24738188 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGGTACTATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
24738227 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
24738266 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
24738305 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
24738344 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
24738383 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24738410 AACGAGGAGC
Statistics
Matches: 237, Mismatches: 17, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
39 147 0.62
40 76 0.32
41 13 0.05
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:24739821 original size:43 final size:43
Alignment explanation
Indices: 24739760--24739851 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
24739750 GGGTGTTACA
* *
24739760 TAGTGCCAATCTCACAACCGTGAACACTTATTGGCTGCACACT
1 TAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACT
24739803 TAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACT
1 TAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACT
24739846 TAGTGC
1 TAGTGC
24739852 TGAAAACCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (43 bp):
TAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACT
Found at i:24754005 original size:50 final size:51
Alignment explanation
Indices: 24753930--24754031 Score: 152
Period size: 50 Copynumber: 2.0 Consensus size: 51
24753920 GGTTCATGGC
* *
24753930 ACCATATTGTGTAAGACCATAGCTGGT-GGGCTATAGCATCATATGGAAAG
1 ACCATATCGTATAAGACCATAGCTGGTAGGGCTATAGCATCATATGGAAAG
** *
24753980 ACCATATCGTATAAGACCATAGCTGGTAGGTTTATGGCATCATATGGAAAG
1 ACCATATCGTATAAGACCATAGCTGGTAGGGCTATAGCATCATATGGAAAG
24754031 A
1 A
24754032 ACTAAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 25 0.54
51 21 0.46
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (51 bp):
ACCATATCGTATAAGACCATAGCTGGTAGGGCTATAGCATCATATGGAAAG
Found at i:24754155 original size:27 final size:27
Alignment explanation
Indices: 24754111--24754171 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
24754101 CACGCCAAAA
24754111 AAAGGAAGCCTTTCTGGCAATCTAT-G
1 AAAGGAAGCCTTTCTGGCAATCTATGG
* *
24754137 AAATGGAAGCCTTTGTGGCTATCTATGG
1 AAA-GGAAGCCTTTCTGGCAATCTATGG
24754165 AAAGGAA
1 AAAGGAA
24754172 TTATGAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.10
27 24 0.77
28 4 0.13
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (27 bp):
AAAGGAAGCCTTTCTGGCAATCTATGG
Found at i:24754371 original size:27 final size:27
Alignment explanation
Indices: 24754245--24754372 Score: 114
Period size: 27 Copynumber: 4.7 Consensus size: 27
24754235 GAAGAATTAC
* *
24754245 ATATATGGTAAACTATGAAGGAATAGT
1 ATATATGGTGAACTCTGAAGGAATAGT
** ** *
24754272 AGCTATGGCAAACACTGAAGGAATAGT
1 ATATATGGTGAACTCTGAAGGAATAGT
* * * * * *
24754299 ATATGTTGTGTACTCTAAATGAATAAT
1 ATATATGGTGAACTCTGAAGGAATAGT
24754326 ATATATGGTGAA-TACTGAAGGAATAGT
1 ATATATGGTGAACT-CTGAAGGAATAGT
*
24754353 ATATATGGTGAACTTTGAAG
1 ATATATGGTGAACTCTGAAG
24754373 AAACGATTCT
Statistics
Matches: 76, Mismatches: 23, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
26 1 0.01
27 74 0.97
28 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
ATATATGGTGAACTCTGAAGGAATAGT
Found at i:24755830 original size:26 final size:25
Alignment explanation
Indices: 24755796--24755876 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
24755786 AATATGTGAT
*
24755796 TTAATTTGGTCTTAGTTTAGAACAAA
1 TTAAATTGGTCTTAGTTTAG-ACAAA
*
24755822 TTAAATTGGTCTTA-TTTCAGACACA
1 TTAAATTGGTCTTAGTTT-AGACAAA
* *
24755847 TT-AATTATGTCTATTGTTTAGACAAA
1 TTAAATT-GGTCT-TAGTTTAGACAAA
24755873 TTAA
1 TTAA
24755877 TTGTGTCCAG
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
24 4 0.09
25 13 0.29
26 24 0.53
27 4 0.09
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (25 bp):
TTAAATTGGTCTTAGTTTAGACAAA
Found at i:24755877 original size:26 final size:27
Alignment explanation
Indices: 24755840--24755892 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
24755830 GTCTTATTTC
* *
24755840 AGACACATTAATTATGTCTA-TTGTTT
1 AGACAAATTAATTATGTCCAGTTGTTT
*
24755866 AGACAAATTAATTGTGTCCAGTTGTTT
1 AGACAAATTAATTATGTCCAGTTGTTT
24755893 GTTTTGACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (27 bp):
AGACAAATTAATTATGTCCAGTTGTTT
Found at i:24758753 original size:20 final size:19
Alignment explanation
Indices: 24758730--24758780 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
24758720 TCCAGCTCCT
24758730 TTAGCTCGTTTCAGCTCCAA
1 TTAGCTCGTTTCAGCT-CAA
* *
24758750 TTAGCTCATTTGAGCTCAA
1 TTAGCTCGTTTCAGCTCAA
24758769 TTCAGCTCGTTT
1 TT-AGCTCGTTT
24758781 AAGCCTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (19 bp):
TTAGCTCGTTTCAGCTCAA
Found at i:24758790 original size:20 final size:19
Alignment explanation
Indices: 24758730--24758795 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
24758720 TCCAGCTCCT
* *
24758730 TTAGCTCGTTTCAGCTCCAA
1 TTAGCTCGTTTAAGC-CTAA
* *
24758750 TTAGCTCATTTGAG-CTCAA
1 TTAGCTCGTTTAAGCCT-AA
24758769 TTCAGCTCGTTTAAGCCTAA
1 TT-AGCTCGTTTAAGCCTAA
24758789 TTTAGCT
1 -TTAGCT
24758796 TTCTTTCAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 4 0.11
20 28 0.76
21 4 0.11
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (19 bp):
TTAGCTCGTTTAAGCCTAA
Found at i:24762802 original size:40 final size:40
Alignment explanation
Indices: 24762757--24763065 Score: 546
Period size: 40 Copynumber: 7.7 Consensus size: 40
24762747 GCAAACACAT
* *
24762757 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* * *
24762797 TTGCCTTCGGGTCTTAGCCCGGACATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
24762837 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24762877 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24762917 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24762957 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
24762997 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
24763037 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCATAGCCCGGATATATC
24763066 CCAATGCTCA
Statistics
Matches: 264, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 264 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
Found at i:24777941 original size:25 final size:25
Alignment explanation
Indices: 24777907--24777957 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
24777897 AGATAAAATC
*
24777907 AGAAACCATGCTTGCATTTGATCTA
1 AGAAACCATGCTTGCATTTGAGCTA
24777932 AGAAACCATGCTTGCATTTGAGCTA
1 AGAAACCATGCTTGCATTTGAGCTA
24777957 A
1 A
24777958 CTTATGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (25 bp):
AGAAACCATGCTTGCATTTGAGCTA
Found at i:24778653 original size:18 final size:18
Alignment explanation
Indices: 24778613--24778653 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24778603 ATTGAACATA
24778613 AAAATAAAATTAAAATTG
1 AAAATAAAATTAAAATTG
*
24778631 GAAATAAAAATTAAAA-TG
1 AAAAT-AAAATTAAAATTG
24778649 AAAAT
1 AAAAT
24778654 GTAAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (18 bp):
AAAATAAAATTAAAATTG
Found at i:24778658 original size:13 final size:12
Alignment explanation
Indices: 24778610--24778660 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
24778600 CTTATTGAAC
24778610 ATAAAAA-TAAA
1 ATAAAAATTAAA
* *
24778621 ATTAAAATTGGAA
1 ATAAAAATT-AAA
24778634 ATAAAAATTAAA
1 ATAAAAATTAAA
*
24778646 ATGAAAATGTAAA
1 ATAAAAAT-TAAA
24778659 AT
1 AT
24778661 TTCTTTTAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 6 0.19
12 10 0.31
13 16 0.50
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (12 bp):
ATAAAAATTAAA
Found at i:24778659 original size:19 final size:19
Alignment explanation
Indices: 24778612--24778661 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
24778602 TATTGAACAT
*
24778612 AAAAATAAAATTAAAATTG
1 AAAATTAAAATTAAAATTG
* *
24778631 GAAATAAAAATTAAAA-TG
1 AAAATTAAAATTAAAATTG
24778649 AAAATGTAAAATT
1 AAAAT-TAAAATT
24778662 TCTTTTAGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (19 bp):
AAAATTAAAATTAAAATTG
Found at i:24785265 original size:21 final size:22
Alignment explanation
Indices: 24785240--24785283 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24785230 ACATATTAAT
*
24785240 AATTA-ACATGAAAATAATATA
1 AATTATACATAAAAATAATATA
* *
24785261 AATTATGCATAAAAATCATATA
1 AATTATACATAAAAATAATATA
24785283 A
1 A
24785284 TACAACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
AATTATACATAAAAATAATATA
Found at i:24785702 original size:23 final size:24
Alignment explanation
Indices: 24785658--24785702 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
24785648 AATCATGTTA
* * *
24785658 TAAAACTTAATTAAATTTATAAGC
1 TAAAACATAATTAAAATAATAAGC
24785682 TAAAACATAA-TAAAATAATAA
1 TAAAACATAATTAAAATAATAA
24785703 TGTAACGCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (24 bp):
TAAAACATAATTAAAATAATAAGC
Found at i:24787365 original size:27 final size:27
Alignment explanation
Indices: 24787328--24787412 Score: 127
Period size: 27 Copynumber: 3.1 Consensus size: 27
24787318 GAGGTCAATT
* *
24787328 AAATGATCGAAATACCCTCGTAGGGTA
1 AAATGACCGAAATACCCTCATAGGGTA
*
24787355 AAATGACCGAAATATCCC-CATAGGATA
1 AAATGACCGAAATA-CCCTCATAGGGTA
24787382 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCTCATAGGGTA
24787409 AAAT
1 AAAT
24787413 AACTATTATA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
26 3 0.06
27 46 0.88
28 3 0.06
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCATAGGGTA
Found at i:24788989 original size:27 final size:27
Alignment explanation
Indices: 24788969--24789195 Score: 264
Period size: 27 Copynumber: 8.4 Consensus size: 27
24788959 GGGGTGTAAT
24788969 AGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
24788996 -GATCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
*
24789023 GGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
24789050 AGTCATTCTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
24789077 GGTCATTTTACCTTATGAGGGTATTT-
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
24789103 TGATCA-TTTACCCTATGAGGGTATTTT
1 AG-TCATTTTACCCTATGGGGGTATTTC
* * *
24789130 GGTTATTTTACCCTATTGGGGTATTT-
1 AGTCATTTTACCCTATGGGGGTATTTC
** *
24789156 AGGTCATTTTACCCTATTAGGGTATTTT
1 A-GTCATTTTACCCTATGGGGGTATTTC
*
24789184 GGTCATTTTACC
1 AGTCATTTTACC
24789196 TATTTTACGG
Statistics
Matches: 177, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
26 23 0.13
27 153 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTC
Found at i:24789017 original size:54 final size:54
Alignment explanation
Indices: 24788970--24789195 Score: 312
Period size: 54 Copynumber: 4.2 Consensus size: 54
24788960 GGGTGTAATA
24788970 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
*
24789024 GTCATTTTACCCTATGGGGGTATTTC-AGTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTCG
* * * * *
24789078 GTCATTTTACCTTATGAGGGTATTTTGATCA-TTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * * * ** *
24789131 GTTATTTTACCCTATTGGGGTATTTAGGTCATTTTACCCTATTAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
24789185 GTCATTTTACC
1 GTCATTTTACC
24789196 TATTTTACGG
Statistics
Matches: 154, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
53 45 0.29
54 108 0.70
55 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
Found at i:24789162 original size:107 final size:108
Alignment explanation
Indices: 24788970--24789196 Score: 332
Period size: 107 Copynumber: 2.1 Consensus size: 108
24788960 GGGTGTAATA
* * *
24788970 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCTTATGAGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACC
*
24789035 CTATGGGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTCG
66 CTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCG
* * *
24789078 GTCATTTTACCTTATGAGGGTATTTTGATCA-TTTACCCTATGAGGGTATTTTGGTTATTTTACC
1 GTCATTTTACCTTATGAGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACC
* * * *
24789142 CTATTGGGGTATTT-AGGTCATTTTACCCTATTAGGGTATTTTG
66 CTATGGGGGTATTTCA-GTCATTCTACCCTATGAGGGTATTTCG
24789185 GTCATTTTACCT
1 GTCATTTTACCT
24789197 ATTTTACGGT
Statistics
Matches: 107, Mismatches: 11, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
106 1 0.01
107 78 0.73
108 28 0.26
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.44
Consensus pattern (108 bp):
GTCATTTTACCTTATGAGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTTTACC
CTATGGGGGTATTTCAGTCATTCTACCCTATGAGGGTATTTCG
Found at i:24789198 original size:80 final size:81
Alignment explanation
Indices: 24788969--24789195 Score: 330
Period size: 80 Copynumber: 2.8 Consensus size: 81
24788959 GGGGTGTAAT
* * *
24788969 AGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTAC
1 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
*
24789034 CCTATGGGGGTATTTC
66 CCTATGAGGGTATTTC
* * *
24789050 AGTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGGGTATTTTGATCA-TTTAC
1 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
*
24789114 CCTATGAGGGTATTTT
66 CCTATGAGGGTATTTC
* * * * *
24789130 GGTTATTTTACCCTATTGGGGTATTTAGGTCATTTTACCCTATTAGGGTATTTTGGTCATTTTAC
1 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
24789195 C
66 C
24789196 TATTTTACGG
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 70 0.54
81 59 0.46
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (81 bp):
AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
CCTATGAGGGTATTTC
Found at i:24795749 original size:19 final size:19
Alignment explanation
Indices: 24795727--24795764 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24795717 AACCACTGTC
*
24795727 ACCCATCGTAATCAAATTT
1 ACCCACCGTAATCAAATTT
24795746 ACCCACCGTAATCAAATTT
1 ACCCACCGTAATCAAATTT
24795765 GTTATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (19 bp):
ACCCACCGTAATCAAATTT
Found at i:24796356 original size:30 final size:31
Alignment explanation
Indices: 24796310--24796371 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
24796300 GGGGGTGGGA
* *
24796310 TGGGAGGGGTGTAAAAGTTTTAAGGGGAAAG
1 TGGGAGGGGAGTAAAAGTATTAAGGGGAAAG
**
24796341 TGGGA-GGGAGTAAAAGTATTGGGGGGAAAG
1 TGGGAGGGGAGTAAAAGTATTAAGGGGAAAG
24796371 T
1 T
24796372 AAAAAGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.47, T:0.21
Consensus pattern (31 bp):
TGGGAGGGGAGTAAAAGTATTAAGGGGAAAG
Found at i:24797624 original size:25 final size:25
Alignment explanation
Indices: 24797588--24797637 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
24797578 TGCAGATTTT
* * *
24797588 AGAAAATTATTATTAAATTAATTAA
1 AGAAAATAATTACTAAACTAATTAA
24797613 AGAAAATAATTACTAAACTAATTAA
1 AGAAAATAATTACTAAACTAATTAA
24797638 TTTACAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (25 bp):
AGAAAATAATTACTAAACTAATTAA
Found at i:24800772 original size:13 final size:13
Alignment explanation
Indices: 24800754--24800783 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
24800744 AAACTAGATT
24800754 TTAACTAAGAAAA
1 TTAACTAAGAAAA
24800767 TTAACTAAGAAAA
1 TTAACTAAGAAAA
24800780 TTAA
1 TTAA
24800784 AAGGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:24803116 original size:90 final size:90
Alignment explanation
Indices: 24802963--24803142 Score: 360
Period size: 90 Copynumber: 2.0 Consensus size: 90
24802953 CTATTTCTTT
24802963 CCTCTCTTTTTTAAGCATTTGATACTTTTTTTCAACTCCCCCAAACTTATTTCAAAGAATATTCT
1 CCTCTCTTTTTTAAGCATTTGATACTTTTTTTCAACTCCCCCAAACTTATTTCAAAGAATATTCT
24803028 AAATAGTACTCAATCTAGTGTTTGG
66 AAATAGTACTCAATCTAGTGTTTGG
24803053 CCTCTCTTTTTTAAGCATTTGATACTTTTTTTCAACTCCCCCAAACTTATTTCAAAGAATATTCT
1 CCTCTCTTTTTTAAGCATTTGATACTTTTTTTCAACTCCCCCAAACTTATTTCAAAGAATATTCT
24803118 AAATAGTACTCAATCTAGTGTTTGG
66 AAATAGTACTCAATCTAGTGTTTGG
24803143 GACAATTTAA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (90 bp):
CCTCTCTTTTTTAAGCATTTGATACTTTTTTTCAACTCCCCCAAACTTATTTCAAAGAATATTCT
AAATAGTACTCAATCTAGTGTTTGG
Found at i:24804091 original size:23 final size:22
Alignment explanation
Indices: 24804056--24804115 Score: 95
Period size: 21 Copynumber: 2.7 Consensus size: 22
24804046 TGAGTGAAAA
24804056 TTCTCTTTGAGTTCTTCAATAATT
1 TTCTC-TTGAGTT-TTCAATAATT
24804080 TTCTCTTGAG-TTTCAATAATT
1 TTCTCTTGAGTTTTCAATAATT
24804101 TTCTCTTGAGTTTTC
1 TTCTCTTGAGTTTTC
24804116 TTTAGAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
21 20 0.57
22 5 0.14
23 5 0.14
24 5 0.14
ACGTcount: A:0.18, C:0.17, G:0.10, T:0.55
Consensus pattern (22 bp):
TTCTCTTGAGTTTTCAATAATT
Found at i:24807079 original size:23 final size:23
Alignment explanation
Indices: 24807013--24807080 Score: 127
Period size: 23 Copynumber: 3.0 Consensus size: 23
24807003 GCACACTAAT
*
24807013 ATGTAGCCGAAGCTACCACTGAT
1 ATGTAGCCGAAGCTACCACTGAA
24807036 ATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
24807059 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
24807081 TCAATAACAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.19
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:24807333 original size:18 final size:17
Alignment explanation
Indices: 24807307--24807345 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
24807297 ATTTTCCTTC
24807307 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
24807324 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
24807342 CACA
1 CACA
24807346 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:24826929 original size:14 final size:15
Alignment explanation
Indices: 24826903--24826931 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24826893 TATTTGGCGA
24826903 TATAAATTATAATTT
1 TATAAATTATAATTT
24826918 TATAAA-TATAATTT
1 TATAAATTATAATTT
24826932 AAATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATAAATTATAATTT
Found at i:24826945 original size:19 final size:21
Alignment explanation
Indices: 24826902--24826945 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
24826892 ATATTTGGCG
24826902 ATATAAATTATAATTTTATAA
1 ATATAAATTATAATTTTATAA
*
24826923 ATATAATTTA-AATTTTA-AA
1 ATATAAATTATAATTTTATAA
24826942 ATAT
1 ATAT
24826946 GGTAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 7 0.32
21 9 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATAAATTATAATTTTATAA
Found at i:24833390 original size:41 final size:41
Alignment explanation
Indices: 24833330--24833451 Score: 129
Period size: 41 Copynumber: 3.0 Consensus size: 41
24833320 AGATTAATGA
*
24833330 TGAATTACACACACATG-CCCTCGTTTGTACTTCGGTACCCC
1 TGAATTACACATACATGCCCCT-GTTTGTACTTCGGTACCCC
** * *
24833371 TGAATTACACATATGTGCCCCTGTTTGTACTTCGTTACCCT
1 TGAATTACACATACATGCCCCTGTTTGTACTTCGGTACCCC
* * ** * *
24833412 TGAATTGCACATACATACCCCTAATTGTCCTACGGTACCC
1 TGAATTACACATACATGCCCCTGTTTGTACTTCGGTACCC
24833452 TTATATATAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
41 62 0.94
42 4 0.06
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (41 bp):
TGAATTACACATACATGCCCCTGTTTGTACTTCGGTACCCC
Done.