Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 99 of 127
Found at i:18559343 original size:29 final size:30
Alignment explanation
Indices: 18559293--18559349 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
18559283 TTAAAATATA
* *
18559293 AAAATAATAATTTTAAATATTAAAAAAATT
1 AAAATAATAATTTGAAACATTAAAAAAATT
*
18559323 AAAAT-ATAATTTGAGACATTAAAAAAA
1 AAAATAATAATTTGAAACATTAAAAAAA
18559350 ACAAAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (30 bp):
AAAATAATAATTTGAAACATTAAAAAAATT
Found at i:18579016 original size:22 final size:21
Alignment explanation
Indices: 18578960--18579013 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
18578950 TTTTGTTATT
18578960 TATTT-AC-TTTTATTTTTTTA
1 TATTTAACATTTTA-TTTTTTA
**
18578980 TATTTAACAAATTATTTTTTA
1 TATTTAACATTTTATTTTTTA
*
18579001 TATTTTACATTTT
1 TATTTAACATTTT
18579014 TATATTATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 5 0.19
21 19 0.70
22 3 0.11
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTTAACATTTTATTTTTTA
Found at i:18579301 original size:28 final size:28
Alignment explanation
Indices: 18579252--18579312 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
18579242 TTTAATTTTA
* *
18579252 TATTTATATATTATATTAATAAAGTTAT
1 TATTTATATATTAAATTAATAAAATTAT
*
18579280 TATTTAATATTTTAAATT-ATAAAATTAT
1 TATTT-ATATATTAAATTAATAAAATTAT
18579308 TATTT
1 TATTT
18579313 TAAACTCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
TATTTATATATTAAATTAATAAAATTAT
Found at i:18579698 original size:19 final size:19
Alignment explanation
Indices: 18579674--18579714 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
18579664 CCTGCCGGCC
18579674 TTTTCAGTTT-TTTTTTTTT
1 TTTTCA-TTTCTTTTTTTTT
18579693 TTTTCATTTCTTTTTTTTT
1 TTTTCATTTCTTTTTTTTT
18579712 TTT
1 TTT
18579715 AGGGATAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.05, C:0.07, G:0.02, T:0.85
Consensus pattern (19 bp):
TTTTCATTTCTTTTTTTTT
Found at i:18579706 original size:18 final size:19
Alignment explanation
Indices: 18579674--18579714 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
18579664 CCTGCCGGCC
*
18579674 TTTTCAGTTTTTTTTTTTT
1 TTTTCAGTTTCTTTTTTTT
18579693 TTTTCA-TTTCTTTTTTTT
1 TTTTCAGTTTCTTTTTTTT
18579711 TTTT
1 TTTT
18579715 AGGGATAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.05, C:0.07, G:0.02, T:0.85
Consensus pattern (19 bp):
TTTTCAGTTTCTTTTTTTT
Found at i:18580509 original size:15 final size:15
Alignment explanation
Indices: 18580489--18580519 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18580479 ACAATGGATT
18580489 TTGATAAAATAATAA
1 TTGATAAAATAATAA
18580504 TTGATAAAATAATAA
1 TTGATAAAATAATAA
18580519 T
1 T
18580520 AAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
TTGATAAAATAATAA
Found at i:18584469 original size:16 final size:16
Alignment explanation
Indices: 18584450--18584524 Score: 64
Period size: 16 Copynumber: 4.8 Consensus size: 16
18584440 AAAATAGTTA
18584450 TTCATGGAACAACTCT
1 TTCATGGAACAACTCT
** **
18584466 TTCACAGAACAACAAT
1 TTCATGGAACAACTCT
*
18584482 TT-ATGGAACAACT-A
1 TTCATGGAACAACTCT
* *
18584496 TTCAAGAAACAACTCT
1 TTCATGGAACAACTCT
*
18584512 TTTATGGAACAAC
1 TTCATGGAACAAC
18584525 ACCTTTATAG
Statistics
Matches: 43, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
14 2 0.05
15 17 0.40
16 24 0.56
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (16 bp):
TTCATGGAACAACTCT
Found at i:18584491 original size:31 final size:31
Alignment explanation
Indices: 18584453--18584524 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
18584443 ATAGTTATTC
*
18584453 ATGGAACAACTCTTTCACAG-AACAAC-AATTT
1 ATGGAACAACT-ATTCA-AGAAACAACTAATTT
**
18584484 ATGGAACAACTATTCAAGAAACAACTCTTTT
1 ATGGAACAACTATTCAAGAAACAACTAATTT
18584515 ATGGAACAAC
1 ATGGAACAAC
18584525 ACCTTTATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 2 0.06
30 10 0.28
31 24 0.67
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (31 bp):
ATGGAACAACTATTCAAGAAACAACTAATTT
Found at i:18584653 original size:29 final size:29
Alignment explanation
Indices: 18584602--18584658 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
18584592 CTCTTTCACC
* * *
18584602 AAAAGTTGCTTCATTAAGAGTTATTTTAT
1 AAAAGATGCTTCACTAAGAGTTACTTTAT
18584631 AAAAGATGCTTCACTAA-ATGTTACTTTA
1 AAAAGATGCTTCACTAAGA-GTTACTTTA
18584659 CCGAATGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (29 bp):
AAAAGATGCTTCACTAAGAGTTACTTTAT
Found at i:18586470 original size:85 final size:85
Alignment explanation
Indices: 18586327--18586498 Score: 256
Period size: 85 Copynumber: 2.0 Consensus size: 85
18586317 TATTCCAAAC
* * *
18586327 GTTGAATGCTAACCTACAATTAAAGAAAAATCAAGTCCTATGTATTGTTATTTTCATAGAATCA-
1 GTTGAACGCCAACCTACAATTAAAGAAAAATCAAGTCCTATGTATTGTCATTTTCATAGAATCAT
*
18586391 TAGGACATCCCACCAAAGAAT
66 TA-GACATCCCACCAAAAAAT
* * *
18586412 GTTGAACGCCAACCTATAATTGAAGAAAAATCAAGTCTTATGTATTGTCATTTTCATAGAATCAT
1 GTTGAACGCCAACCTACAATTAAAGAAAAATCAAGTCCTATGTATTGTCATTTTCATAGAATCAT
*
18586477 TAGACATCCCACTAAAAAAT
66 TAGACATCCCACCAAAAAAT
18586497 GT
1 GT
18586499 AATGCTTTAA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 76 0.97
86 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (85 bp):
GTTGAACGCCAACCTACAATTAAAGAAAAATCAAGTCCTATGTATTGTCATTTTCATAGAATCAT
TAGACATCCCACCAAAAAAT
Found at i:18587089 original size:65 final size:65
Alignment explanation
Indices: 18586982--18587590 Score: 282
Period size: 65 Copynumber: 9.4 Consensus size: 65
18586972 TATTCTTACA
* * * * * *
18586982 AGAGAAATTGATCGTTGTGGTCTCTTGCACCA-TTTCTGTCACTCTCATACATAATTTCTTTCGA
1 AGAGAAGTCGATCGTTGTGGTCTCATGCACCACCTT-TGTCACTCTCATACACAATTTCTTTCAA
18587046 T
65 T
* * ** * * * * **
18587047 ATAGAAGTCGATCGTTGTGATCTCATGCATTACCTTTGTCACTTTCGTACATAA-GTCTACCAAT
1 AGAGAAGTCGATCGTTGTGGTCTCATGCACCACCTTTGTCACTCTCATACACAATTTCTTTCAAT
* * * * * * * **
18587111 AAAGAAGTTGATTGTTGTGGTCTCATGCACCACTTTTGTTA-TCTGATATACAATTT-TTTCCCC
1 AGAGAAGTCGATCGTTGTGGTCTCATGCACCACCTTTGTCACTCTCATACACAATTTCTTT-CAA
18587174 T
65 T
* ** * *
18587175 AGAGAAGTCGATCGTTGTGGTCTCATTCACCA-CTTCCATCATTCTCATATACAATTTCTTTCAA
1 AGAGAAGTCGATCGTTGTGGTCTCATGCACCACCTT-TGTCACTCTCATACACAATTTCTTTCAA
18587239 T
65 T
* ** * * *
18587240 AGAGAAGTCGATCGTTGTGGTTTCATGCACCA-CTTCTGTCACTCTTGTATACAA-ATCTTCCAA
1 AGAGAAGTCGATCGTTGTGGTCTCATGCACCACCTT-TGTCACTCTCATACACAATTTCTTTCAA
18587303 T
65 T
** ** * * * *
18587304 AGAGAAGTTTATTATT-TCGGTCTCATGCATCA-CTTCTGTCACTTTCATAAACAAGTTT-TTCC
1 AGAGAAGTCGATCGTTGT-GGTCTCATGCACCACCTT-TGTCACTCTCATACACAA-TTTCTTTC
*
18587366 AAG
63 AAT
* * * * * * * * *
18587369 AGAAAAGTCAATCGTTATGGTCTCATACACTA-CTTTCGTTACT-TTATAAATAAGTATTC--T-
1 AGAGAAGTCGATCGTTGTGGTCTCATGCACCACCTTT-GTCACTCTCATACACAA-T-TTCTTTC
18587429 AAT
63 AAT
* * * * * * * * * *
18587432 AAAAAAGTCAATTGTTGTGGTCTCATGCACCA-CTTTCATCACTTTTATATACAAGTTCTTCCAA
1 AGAGAAGTCGATCGTTGTGGTCTCATGCACCACCTTT-GTCACTCTCATACACAATTTCTTTCAA
18587496 T
65 T
* * * * * * ** * * *
18587497 AAAAAAGTTGATCATTGTGGTTTCATGCATCA-CTTCCATCACTCTAATACATAATTTCTTCCAA
1 AGAGAAGTCGATCGTTGTGGTCTCATGCACCACCTT-TGTCACTCTCATACACAATTTCTTTCAA
18587561 T
65 T
* *
18587562 AGAGAAGTC-AGTCATTATGGTCTCATGCA
1 AGAGAAGTCGA-TCGTTGTGGTCTCATGCA
18587591 TCATTTCCAT
Statistics
Matches: 420, Mismatches: 105, Indels: 38
0.75 0.19 0.07
Matches are distributed among these distances:
62 3 0.01
63 49 0.12
64 142 0.34
65 219 0.52
66 7 0.02
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (65 bp):
AGAGAAGTCGATCGTTGTGGTCTCATGCACCACCTTTGTCACTCTCATACACAATTTCTTTCAAT
Found at i:18587307 original size:129 final size:127
Alignment explanation
Indices: 18586991--18587674 Score: 372
Period size: 129 Copynumber: 5.3 Consensus size: 127
18586981 AAGAGAAATT
* * * * * *
18586991 GATCGTTGTGGTCTCTTGCACCATTTCTGTCACTCT-CATACATAATTTCTTTCGATATAGAAGT
1 GATCGTTGTGGTCTCATGCACCACTTCTGTCACTCTGTATACA-AA--TCTTCCAATAGAGAAGT
* * ** ** * * * * * *
18587055 CGATCGTTGTGATCTCATGCATTACCTT-TGTCACTTTCGTACATAA-GTCTACCAATAAAGAAG
63 C-ATCATTGTGGTCTCATGCACCA-CTTCCATCACTTTCATATACAATTTCTTCCAATAAAAAAG
*
18587118 TT
126 TC
* * * * * **
18587120 GATTGTTGTGGTCTCATGCACCACTTTTGTTA-TCTGATATACAATTTTTTCCCCTAGAGAAGTC
1 GATCGTTGTGGTCTCATGCACCACTTCTGTCACTCTG-TATACAA-ATCTTCCAATAGAGAAGTC
* * * * *
18587184 GATCGTTGTGGTCTCATTCACCACTTCCATCA-TTCTCATATACAATTTCTTTCAATAGAGAAGT
64 -ATCATTGTGGTCTCATGCACCACTTCCATCACTT-TCATATACAATTTCTTCCAATAAAAAAGT
18587248 C
127 C
* *
18587249 GATCGTTGTGGTTTCATGCACCACTTCTGTCACTCTTGTATACAAATCTTCCAATAGAGAAGTTT
1 GATCGTTGTGGTCTCATGCACCACTTCTGTCACTC-TGTATACAAATCTTCCAATAGAGAAG-TC
* * ** * * *
18587314 ATTATT-TCGGTCTCATGCATCACTTCTGTCACTTTCATAAACAAGTTT-TTCCAAGAGAAAAGT
64 ATCATTGT-GGTCTCATGCACCACTTCCATCACTTTCATATACAA-TTTCTTCCAATAAAAAAGT
18587377 C
127 C
* * * * * * * * * *
18587378 AATCGTTATGGTCTCATACACTACTT-TCGTTACT-T-TATAAATAAGTATTCTAATAAAAAAGT
1 GATCGTTGTGGTCTCATGCACCACTTCT-GTCACTCTGTATACA-AA-TCTTCCAATAGAGAAGT
** * * *
18587440 CAATTGTTGTGGTCTCATGCACCACTTTCATCACTTTTATATACAAGTTCTTCCAATAAAAAAGT
63 C-ATCATTGTGGTCTCATGCACCACTTCCATCACTTTCATATACAATTTCTTCCAATAAAAAAGT
*
18587505 T
127 C
* * * ** *
18587506 GATCATTGTGGTTTCATGCATCACTTCCATCACTCT-AATACATAATTTCTTCCAATAGAGAAGT
1 GATCGTTGTGGTCTCATGCACCACTTCTGTCACTCTGTATACA-AA--TCTTCCAATAGAGAAGT
* * * * * * *
18587570 CAGTCATTATGGTCTCATGCATCATTTCCATTACTCTTGTATATA-AA--TCTTTCAATAAATAA
63 CA-TCATTGTGGTCTCATGCACCACTTCCATCACT-TT-CATATACAATTTCTTCCAATAAAAAA
*
18587632 GTT
125 GTC
* ** * * *
18587635 AATTATTGTAGTCTCATTCACCACTTCTATCACTCT-TATA
1 GATCGTTGTGGTCTCATGCACCACTTCTGTCACTCTGTATA
18587675 TATAATAATA
Statistics
Matches: 429, Mismatches: 102, Indels: 48
0.74 0.18 0.08
Matches are distributed among these distances:
126 5 0.01
127 11 0.03
128 130 0.30
129 212 0.49
130 59 0.14
131 6 0.01
132 6 0.01
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (127 bp):
GATCGTTGTGGTCTCATGCACCACTTCTGTCACTCTGTATACAAATCTTCCAATAGAGAAGTCAT
CATTGTGGTCTCATGCACCACTTCCATCACTTTCATATACAATTTCTTCCAATAAAAAAGTC
Found at i:18587328 original size:193 final size:193
Alignment explanation
Indices: 18586982--18587338 Score: 452
Period size: 193 Copynumber: 1.8 Consensus size: 193
18586972 TATTCTTACA
* * ** * *
18586982 AGAGAAATTGATCGTTGTGGTCTCTTGCACCATTTCTGTCACTCTCATACATAATTTCTTTCGAT
1 AGAGAAATCGATCGTTGTGGTCTCTTGCACCACTTCCATCACTCTCATACACAATTTCTTTCAAT
* ** * *
18587047 ATAGAAGTCGATCGTTGTGATCTCATGCATTACCTTTGTCACTTTCGTACATAAGTCTACCAATA
66 AGAGAAGTCGATCGTTGTGATCTCATGCACCACCTTTGTCACTTTCGTACACAAATCTACCAATA
*
18587112 AAGAAGTTGATTGTTGTGGTCTCATGCACCACTTTTGTTATCTGATATACAATTTTTTCCCCT
131 AAGAAGTTGATTATTGTGGTCTCATGCACCACTTTTGTTATCTGATATACAATTTTTTCCCCT
* * *
18587175 AGAGAAGTCGATCGTTGTGGTCTCATT-CACCACTTCCATCATTCTCATATACAATTTCTTTCAA
1 AGAGAAATCGATCGTTGTGGTCTC-TTGCACCACTTCCATCACTCTCATACACAATTTCTTTCAA
* * * *
18587239 TAGAGAAGTCGATCGTTGTGGTTTCATGCACCA-CTTCTGTCACTCTT-GTATACAAATCTTCCA
65 TAGAGAAGTCGATCGTTGTGATCTCATGCACCACCTT-TGTCACT-TTCGTACACAAATCTACCA
* * *
18587302 ATAGAGAAGTTTATTATT-TCGGTCTCATGCATCACTT
128 ATAAAGAAGTTGATTATTGT-GGTCTCATGCACCACTT
18587339 CTGTCACTTT
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
192 4 0.03
193 130 0.94
194 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (193 bp):
AGAGAAATCGATCGTTGTGGTCTCTTGCACCACTTCCATCACTCTCATACACAATTTCTTTCAAT
AGAGAAGTCGATCGTTGTGATCTCATGCACCACCTTTGTCACTTTCGTACACAAATCTACCAATA
AAGAAGTTGATTATTGTGGTCTCATGCACCACTTTTGTTATCTGATATACAATTTTTTCCCCT
Found at i:18587591 original size:65 final size:65
Alignment explanation
Indices: 18587124--18587674 Score: 280
Period size: 65 Copynumber: 8.6 Consensus size: 65
18587114 GAAGTTGATT
*** * * * * **
18587124 GTTGTGGTCTCATGCACCACTTTTGTTA-TCTGATATACAATTTTTTCCCCTAGAGAAGTC-GAT
1 GTTGTGGTCTCATGCACCACTTCCATCACTCTTATAAACAATTTCTTCCAATAGAGAAGTCAG-T
18587187 C
65 C
* * * * *
18587188 GTTGTGGTCTCATTCACCACTTCCATCATTCTCATATACAATTTCTTTCAATAGAGAAGTC-GAT
1 GTTGTGGTCTCATGCACCACTTCCATCACTCTTATAAACAATTTCTTCCAATAGAGAAGTCAG-T
18587252 C
65 C
* ** * * * *
18587253 GTTGTGGTTTCATGCACCACTTCTGTCACTCTTGTATACAA-ATCTTCCAATAGAGAAGTTTA-T
1 GTTGTGGTCTCATGCACCACTTCCATCACTCTTATAAACAATTTCTTCCAATAGAGAAG-TCAGT
*
18587316 T
65 C
* * ** * *
18587317 ATT-TCGGTCTCATGCATCACTTCTGTCACT-TTCATAAACAAGTTT-TTCCAAGAGAAAAGTCA
1 GTTGT-GGTCTCATGCACCACTTCCATCACTCTT-ATAAACAA-TTTCTTCCAATAGAGAAGTCA
*
18587379 ATC
63 GTC
* * * * * * * * * * * * * *
18587382 GTTATGGTCTCATACACTACTTTCGTTACT-TTATAAATAA-GTATTCTAATAAAAAAGTCAATT
1 GTTGTGGTCTCATGCACCACTTCCATCACTCTTATAAACAATTTCTTCCAATAGAGAAGTCAGTC
* * * * * * *
18587445 GTTGTGGTCTCATGCACCACTTTCATCACTTTTATATACAAGTTCTTCCAATAAAAAAGT-TGAT
1 GTTGTGGTCTCATGCACCACTTCCATCACTCTTATAAACAATTTCTTCCAATAGAGAAGTCAG-T
18587509 C
65 C
* * * * * *
18587510 ATTGTGGTTTCATGCATCACTTCCATCACTCTAATACATAATTTCTTCCAATAGAGAAGTCAGTC
1 GTTGTGGTCTCATGCACCACTTCCATCACTCTTATAAACAATTTCTTCCAATAGAGAAGTCAGTC
* * * * * * * * * * * * * * *
18587575 ATTATGGTCTCATGCATCATTTCCATTACTCTTGTATATAA-ATCTTTCAATAAATAAGTTAATT
1 GTTGTGGTCTCATGCACCACTTCCATCACTCTTATAAACAATTTCTTCCAATAGAGAAGTCAGTC
* * * *
18587639 ATTGTAGTCTCATTCACCACTTCTATCACTCTTATA
1 GTTGTGGTCTCATGCACCACTTCCATCACTCTTATA
18587675 TATAATAATA
Statistics
Matches: 382, Mismatches: 91, Indels: 28
0.76 0.18 0.06
Matches are distributed among these distances:
62 1 0.00
63 44 0.12
64 131 0.34
65 203 0.53
66 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (65 bp):
GTTGTGGTCTCATGCACCACTTCCATCACTCTTATAAACAATTTCTTCCAATAGAGAAGTCAGTC
Found at i:18588263 original size:37 final size:36
Alignment explanation
Indices: 18588222--18588312 Score: 94
Period size: 36 Copynumber: 2.5 Consensus size: 36
18588212 TGTTTTTATG
** * *
18588222 ACTTATTCTTTTATTTTTTTAGGAAAACATTTTCATT
1 ACTTATTCTTTTATTTTTCAAAGAAAA-ACTTTCATT
** *
18588259 ACTTATTCTACTATTTTTCAAATAAAAACTTTCATT
1 ACTTATTCTTTTATTTTTCAAAGAAAAACTTTCATT
18588295 ACTTATT-TTTCTATTTTT
1 ACTTATTCTTT-TATTTTT
18588313 AAGGGAAACA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
35 1 0.02
36 22 0.50
37 21 0.48
ACGTcount: A:0.29, C:0.13, G:0.02, T:0.56
Consensus pattern (36 bp):
ACTTATTCTTTTATTTTTCAAAGAAAAACTTTCATT
Found at i:18588350 original size:47 final size:47
Alignment explanation
Indices: 18588299--18588560 Score: 196
Period size: 48 Copynumber: 5.5 Consensus size: 47
18588289 TTCATTACTT
* * *
18588299 ATTTTTCTATTTTTAAGGGAAACATGCCATTATTTATT-TTTTTAATA
1 ATTTTTCTATTTTTAAGAGAAACAT-CCATTATCTATTCCTTTTAATA
* * *
18588346 A-TTTTCTTATTTTTTAGAGAAACATTCC-TTACCTATTCCTTATAATA
1 ATTTTTC-TATTTTTAAGAGAAACA-TCCATTATCTATTCCTTTTAATA
* * * *
18588393 ATTCTCCTATTTTTAAGGGTAACACTCCATTATCTATTCCTTTTAATA
1 ATTTTTCTATTTTTAAGAGAAACA-TCCATTATCTATTCCTTTTAATA
* * * **
18588441 ATTTATT-TATTTTTAAAAGAAACATTCCTTTACCTATTCCTTCAAATA
1 ATTT-TTCTATTTTTAAGAGAAACA-TCCATTATCTATTCCTTTTAATA
* * * * *
18588489 ATTTTTTTATTTTT--GGGAAACACTCTCATCACCTATTCCTTTTAACA
1 ATTTTTCTATTTTTAAGAGAAACA-TC-CATTATCTATTCCTTTTAATA
* *
18588536 ATTCTTT-TATTTTTTAGCGAAACAT
1 ATT-TTTCTATTTTTAAGAGAAACAT
18588561 TCCCCCTACT
Statistics
Matches: 171, Mismatches: 33, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
46 20 0.12
47 71 0.42
48 72 0.42
49 8 0.05
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.48
Consensus pattern (47 bp):
ATTTTTCTATTTTTAAGAGAAACATCCATTATCTATTCCTTTTAATA
Found at i:18588441 original size:48 final size:48
Alignment explanation
Indices: 18588306--18588559 Score: 225
Period size: 47 Copynumber: 5.4 Consensus size: 48
18588296 CTTATTTTTC
** *
18588306 TATTTTTAAGGGAAACA-TGCCATTATTTATT-TTTTTAATAATT-TTCT
1 TATTTTTAAGGGAAACACT-CCATTACCTATTCCTTTTAATAATTCTT-T
* * * * **
18588353 TATTTTTTAGAGAAACATTCC-TTACCTATTCCTTATAATAATTCTCC
1 TATTTTTAAGGGAAACACTCCATTACCTATTCCTTTTAATAATTCTTT
* *
18588400 TATTTTTAAGGGTAACACTCCATTATCTATTCCTTTTAATAATT-TATT
1 TATTTTTAAGGGAAACACTCCATTACCTATTCCTTTTAATAATTCT-TT
** * * ** *
18588448 TATTTTTAAAAGAAACATTCCTTTACCTATTCCTTCAAATAATTTTTT
1 TATTTTTAAGGGAAACACTCCATTACCTATTCCTTTTAATAATTCTTT
* *
18588496 TATTTTT--GGGAAACACTCTCATCACCTATTCCTTTTAACAATTCTTT
1 TATTTTTAAGGGAAACACTC-CATTACCTATTCCTTTTAATAATTCTTT
* *
18588543 TATTTTTTAGCGAAACA
1 TATTTTTAAGGGAAACA
18588560 TTCCCCCTAC
Statistics
Matches: 164, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
46 15 0.09
47 74 0.45
48 67 0.41
49 8 0.05
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.48
Consensus pattern (48 bp):
TATTTTTAAGGGAAACACTCCATTACCTATTCCTTTTAATAATTCTTT
Found at i:18588467 original size:95 final size:95
Alignment explanation
Indices: 18588305--18588563 Score: 314
Period size: 95 Copynumber: 2.7 Consensus size: 95
18588295 ACTTATTTTT
* *
18588305 CTATTTTTAAGGGAAACA-TGCCATTATTTATT-TTTTTAATAATTTTCTTATTTTTTAGAGAAA
1 CTATTTTTAAGGGAAACACT-CCATTATCTATTCCTTTTAATAATTTT-TTATTTTTTAGAGAAA
18588368 CATTCC-TTACCTATTCCTT-ATAATAATTCTC
64 CATTCCTTTACCTATTCCTTCA-AATAATTCTC
* * *
18588399 CTATTTTTAAGGGTAACACTCCATTATCTATTCCTTTTAATAATTTATTTATTTTTAAAAGAAAC
1 CTATTTTTAAGGGAAACACTCCATTATCTATTCCTTTTAATAATTT-TTTATTTTTTAGAGAAAC
* *
18588464 ATTCCTTTACCTATTCCTTCAAATAATTTTT
65 ATTCCTTTACCTATTCCTTCAAATAATTCTC
* * * * *
18588495 TTATTTTT--GGGAAACACTCTCATCACCTATTCCTTTTAACAATTCTTTTATTTTTTAGCGAAA
1 CTATTTTTAAGGGAAACACTC-CATTATCTATTCCTTTTAATAATT-TTTTATTTTTTAGAGAAA
18588558 CATTCC
64 CATTCC
18588564 CCCTACTTAT
Statistics
Matches: 143, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
94 38 0.27
95 74 0.52
96 30 0.21
97 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.47
Consensus pattern (95 bp):
CTATTTTTAAGGGAAACACTCCATTATCTATTCCTTTTAATAATTTTTTATTTTTTAGAGAAACA
TTCCTTTACCTATTCCTTCAAATAATTCTC
Found at i:18588586 original size:36 final size:36
Alignment explanation
Indices: 18588536--18588633 Score: 115
Period size: 36 Copynumber: 2.7 Consensus size: 36
18588526 CCTTTTAACA
* * * *
18588536 ATTCTTTTATTTTTTAGCGAAACATTCCCCCTACTT
1 ATTCTTATACTTTTTAGAGAAACATTCCCACTACTT
* * * *
18588572 ATTTTTATACTTTTTAGGGAAATATTCCCATTACTT
1 ATTCTTATACTTTTTAGAGAAACATTCCCACTACTT
*
18588608 ATTCTTATATTTTTTAGAGAAACATT
1 ATTCTTATACTTTTTAGAGAAACATT
18588634 TTCAATAGTT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (36 bp):
ATTCTTATACTTTTTAGAGAAACATTCCCACTACTT
Found at i:18588869 original size:23 final size:24
Alignment explanation
Indices: 18588834--18588878 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
18588824 TGTTACTTTT
*
18588834 TTATTTATAACATTAAA-ATTTGC
1 TTATTTATAACATGAAACATTTGC
18588857 TTATTCTAT-ACATGAAACATTT
1 TTATT-TATAACATGAAACATTT
18588879 TTTTTTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (24 bp):
TTATTTATAACATGAAACATTTGC
Found at i:18589304 original size:16 final size:15
Alignment explanation
Indices: 18589270--18589308 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
18589260 AGTTATTCAC
*
18589270 GAAACAACTATTTAA
1 GAAATAACTATTTAA
*
18589285 GAAATAACTCATTTAT
1 GAAATAACT-ATTTAA
18589301 GAAATAAC
1 GAAATAAC
18589309 ACTTTTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (15 bp):
GAAATAACTATTTAA
Found at i:18592252 original size:16 final size:16
Alignment explanation
Indices: 18592231--18592279 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 16
18592221 ATTTTAATAT
18592231 TTTTATATAATAAAAA
1 TTTTATATAATAAAAA
*
18592247 TTTTATGTATAATAAAAT
1 TTTTA--TATAATAAAAA
*
18592265 TTTTTTA-AATAAAAA
1 TTTTATATAATAAAAA
18592280 AAATTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 7 0.25
16 7 0.25
18 14 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TTTTATATAATAAAAA
Found at i:18592259 original size:18 final size:17
Alignment explanation
Indices: 18592229--18592279 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
18592219 GTATTTTAAT
*
18592229 ATTTTTATATAATAAAA
1 ATTTTTGTATAATAAAA
18592246 ATTTTATGTATAAT-AAA
1 ATTTT-TGTATAATAAAA
*
18592263 ATTTTTTTA-AATAAAA
1 ATTTTTGTATAATAAAA
18592279 A
1 A
18592280 AAATTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 3 0.10
16 7 0.23
17 13 0.43
18 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
ATTTTTGTATAATAAAA
Found at i:18596351 original size:22 final size:21
Alignment explanation
Indices: 18596285--18596353 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
18596275 TTAGTGTAGT
* *
18596285 ATAAC-TTATAGTAAAATAATG
1 ATAACTTTTTAGT-AAATAATA
*
18596306 ATAA-TTTTGTAGTCAATAATTA
1 ATAACTTTT-TAGTAAATAA-TA
18596328 ATAACTTTTTAGTAAATCAATA
1 ATAACTTTTTAGTAAAT-AATA
18596350 ATAA
1 ATAA
18596354 TATAATAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 11 0.28
22 22 0.56
23 6 0.15
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (21 bp):
ATAACTTTTTAGTAAATAATA
Found at i:18596523 original size:23 final size:22
Alignment explanation
Indices: 18596494--18596545 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
18596484 AACTTATTAA
18596494 TAAATTAATAATAACTTAAATAG
1 TAAATTAATAATAA-TTAAATAG
* * *
18596517 TAAATTAGTAATAATTTAATTG
1 TAAATTAATAATAATTAAATAG
18596539 TAAATTA
1 TAAATTA
18596546 TTTTCAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (22 bp):
TAAATTAATAATAATTAAATAG
Found at i:18596606 original size:22 final size:22
Alignment explanation
Indices: 18596578--18596644 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
18596568 TTGATAGTAG
18596578 TAAATTATAAATAATTTAATAA
1 TAAATTATAAATAATTTAATAA
* * *
18596600 TAAATTA-ATGATAAATTAGTAA
1 TAAATTATA-AATAATTTAATAA
* *
18596622 TAAATAATTAATAATTTAATAA
1 TAAATTATAAATAATTTAATAA
18596644 T
1 T
18596645 TTATTACTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (22 bp):
TAAATTATAAATAATTTAATAA
Found at i:18596607 original size:11 final size:11
Alignment explanation
Indices: 18596578--18596644 Score: 66
Period size: 11 Copynumber: 6.1 Consensus size: 11
18596568 TTGATAGTAG
18596578 TAAATT-ATAAA
1 TAAATTAAT-AA
*
18596589 TAATTTAATAA
1 TAAATTAATAA
*
18596600 TAAATTAATGA
1 TAAATTAATAA
*
18596611 TAAATTAGTAA
1 TAAATTAATAA
18596622 TAAA-TAATTAA
1 TAAATTAA-TAA
*
18596633 TAATTTAATAA
1 TAAATTAATAA
18596644 T
1 T
18596645 TTATTACTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
10 2 0.04
11 39 0.85
12 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TAAATTAATAA
Found at i:18596624 original size:33 final size:33
Alignment explanation
Indices: 18596578--18596641 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
18596568 TTGATAGTAG
*
18596578 TAAATTATAAATAATTTAA-TAATAAATTAATGA
1 TAAATTATAAATAA-ATAATTAATAAATTAATGA
*
18596611 TAAATTAGT-AATAAATAATTAATAATTTAAT
1 TAAATTA-TAAATAAATAATTAATAAATTAAT
18596642 AATTTATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 3 0.11
33 23 0.85
34 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (33 bp):
TAAATTATAAATAAATAATTAATAAATTAATGA
Found at i:18596670 original size:44 final size:45
Alignment explanation
Indices: 18596576--18596670 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 45
18596566 AATTGATAGT
* *
18596576 AGTAAATTATAAATAATTTAATAATAAATTAATGATAAATTAGTA
1 AGTAAATAATAAATAATTTAATAATAAATTAATGATAAATTAGAA
* ** *
18596621 A-TAAATAATTAATAATTTAATAATTTATTACTGA-AAACTTA-AA
1 AGTAAATAATAAATAATTTAATAATAAATTAATGATAAA-TTAGAA
18596664 AGTAAAT
1 AGTAAAT
18596671 CAGTATAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
43 5 0.12
44 36 0.86
45 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (45 bp):
AGTAAATAATAAATAATTTAATAATAAATTAATGATAAATTAGAA
Found at i:18596691 original size:65 final size:65
Alignment explanation
Indices: 18596621--18596765 Score: 159
Period size: 65 Copynumber: 2.2 Consensus size: 65
18596611 TAAATTAGTA
* * * *
18596621 ATAAATAATTAATAATTTAATAATTTATTACTGAAAACTTAAAAGTAAATCA-GTATAATTTAGA
1 ATAAATAATTAATAATATAATAATTAATCAATGAAAACTTAAAAGTAAATCATGTATAATTTA-A
18596685 -
65 T
* * * * * *
18596685 AGTAAATTATTGATAATATAATAGTTAATCAATGATAATTTAATAGTAAATCATGTATAATTTAA
1 A-TAAATAATTAATAATATAATAATTAATCAATGAAAACTTAAAAGTAAATCATGTATAATTTAA
18596750 T
65 T
*
18596751 ATAAATAAGTAATAA
1 ATAAATAATTAATAA
18596766 CTTGGTAGTG
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
64 1 0.02
65 53 0.82
66 11 0.17
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (65 bp):
ATAAATAATTAATAATATAATAATTAATCAATGAAAACTTAAAAGTAAATCATGTATAATTTAAT
Found at i:18596720 original size:22 final size:21
Alignment explanation
Indices: 18596659--18596998 Score: 129
Period size: 22 Copynumber: 15.6 Consensus size: 21
18596649 TACTGAAAAC
*
18596659 TTAAAAGTAAATCA-GTATAAT
1 TTAATAGTAAATCATG-ATAAT
*
18596680 TTAGA-AGTAAATTATTGATAAT
1 TTA-ATAGTAAATCA-TGATAAT
* *
18596702 ATAATAGTTAATCAATGATAAT
1 TTAATAGTAAATC-ATGATAAT
18596724 TTAATAGTAAATCATGTATAAT
1 TTAATAGTAAATCATG-ATAAT
* * *
18596746 TTAATA-TAAATAAGTAATAAC
1 TTAATAGTAAATCA-TGATAAT
** *
18596767 TTGGTAGTGAA-CTATAGATAAT
1 TTAATAGTAAATC-AT-GATAAT
*
18596789 TTAATGGTAAATCAATGATAAT
1 TTAATAGTAAATC-ATGATAAT
* * * * *
18596811 TTTATCGTAAATAATAAAAAAT
1 TTAATAGTAAATCAT-GATAAT
* *
18596833 TAAATAGTAAATCAGTGATAAA
1 TTAATAGTAAATCA-TGATAAT
* * *
18596855 ATAATAGTAAATACATAAAAAAT
1 TTAATAGTAAAT-CAT-GATAAT
* * * *
18596878 ATATAATAATAAATAATTGTTAGT
1 -T-TAATAGTAAATCA-TGATAAT
* *
18596902 TTAGTAGTAAAT--TGATAAC
1 TTAATAGTAAATCATGATAAT
* * *
18596921 TTAGTAGTAAATTATTGATAAC
1 TTAATAGTAAATCA-TGATAAT
* *
18596943 ATAATAATAAATTGC-TCG-TAAT
1 TTAATAGTAAA-T-CAT-GATAAT
*
18596965 TTAATTGTAAATCAGTGATAAT
1 TTAATAGTAAATCA-TGATAAT
*
18596987 TTAATAATAAAT
1 TTAATAGTAAAT
18596999 TAGACGATTA
Statistics
Matches: 233, Mismatches: 59, Indels: 53
0.68 0.17 0.15
Matches are distributed among these distances:
19 16 0.07
20 1 0.00
21 34 0.15
22 154 0.66
23 14 0.06
24 3 0.01
25 11 0.05
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (21 bp):
TTAATAGTAAATCATGATAAT
Found at i:18597199 original size:22 final size:22
Alignment explanation
Indices: 18597008--18597228 Score: 91
Period size: 22 Copynumber: 10.1 Consensus size: 22
18596998 TTAGACGATT
*
18597008 ATTAATAACTTT-TTAGTAAATC
1 ATTAATAA-TTTAGTAGTAAATC
* * *
18597030 ATTAGTAAATTAGTAGTAAATGA
1 ATTAATAATTTAGTAGTAAAT-C
18597053 ATT-ATAATATTA-TAAG-AAATC
1 ATTAATAAT-TTAGT-AGTAAATC
* * *
18597074 ATTAATAACTTA-TTGATGAATC
1 ATTAATAATTTAGTAG-TAAATC
** * *
18597096 ACCAACAATTTAATAG-AAATC
1 ATTAATAATTTAGTAGTAAATC
* *
18597117 ATTAATAACTTAAG-GGTAAATC
1 ATTAATAA-TTTAGTAGTAAATC
* * * * * *
18597139 TTTTATAATTTAATGGCAAATT
1 ATTAATAATTTAGTAGTAAATC
* * *
18597161 ATTTATAAATTAATAGTAAATC
1 ATTAATAATTTAGTAGTAAATC
18597183 ATTAATAATTTAGTAGTAAAAT-
1 ATTAATAATTTAGTAGT-AAATC
***
18597205 ATTAATAGCCTAGTAGTAAA-C
1 ATTAATAATTTAGTAGTAAATC
18597226 ATT
1 ATT
18597229 TGATAACTTT
Statistics
Matches: 147, Mismatches: 39, Indels: 27
0.69 0.18 0.13
Matches are distributed among these distances:
20 1 0.01
21 28 0.19
22 104 0.71
23 14 0.10
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (22 bp):
ATTAATAATTTAGTAGTAAATC
Found at i:18597541 original size:22 final size:22
Alignment explanation
Indices: 18597475--18597583 Score: 101
Period size: 22 Copynumber: 5.0 Consensus size: 22
18597465 AAAATATTAG
* **
18597475 TAAATCAATAATAGGTTAATAA
1 TAAATTAATAATAACTTAATAA
* * * *
18597497 AAAACTAGTGATAACTTAATAA
1 TAAATTAATAATAACTTAATAA
* * *
18597519 TTAATTATTGATAACTTAATAA
1 TAAATTAATAATAACTTAATAA
* * *
18597541 TAAATCAATAATAACTTAACAG
1 TAAATTAATAATAACTTAATAA
18597563 TAAATTAATAATAACTTAATA
1 TAAATTAATAATAACTTAATA
18597584 GTACATCAAT
Statistics
Matches: 68, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 68 1.00
ACGTcount: A:0.53, C:0.07, G:0.06, T:0.34
Consensus pattern (22 bp):
TAAATTAATAATAACTTAATAA
Found at i:18597581 original size:11 final size:11
Alignment explanation
Indices: 18597507--18597583 Score: 75
Period size: 11 Copynumber: 7.0 Consensus size: 11
18597497 AAAACTAGTG
18597507 ATAACTTAATA
1 ATAACTTAATA
* *
18597518 ATTAA-TTATTG
1 A-TAACTTAATA
18597529 ATAACTTAATA
1 ATAACTTAATA
* *
18597540 ATAAATCAATA
1 ATAACTTAATA
*
18597551 ATAACTTAACA
1 ATAACTTAATA
* *
18597562 GTAAATTAATA
1 ATAACTTAATA
18597573 ATAACTTAATA
1 ATAACTTAATA
18597584 GTACATCAAT
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
10 3 0.06
11 44 0.88
12 3 0.06
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (11 bp):
ATAACTTAATA
Found at i:18597586 original size:22 final size:22
Alignment explanation
Indices: 18597507--18597810 Score: 101
Period size: 22 Copynumber: 13.9 Consensus size: 22
18597497 AAAACTAGTG
* * * *
18597507 ATAACTTAATAATTAATTATTG
1 ATAACTTAATAGTAAATTAATA
* *
18597529 ATAACTTAATAATAAATCAATA
1 ATAACTTAATAGTAAATTAATA
*
18597551 ATAACTTAACAGTAAATTAATA
1 ATAACTTAATAGTAAATTAATA
* *
18597573 ATAACTTAATAGTACATCAAT-
1 ATAACTTAATAGTAAATTAATA
* * * *
18597594 TTCAGTT--TAGTAATAATTAATTG
1 ATAACTTAATAGT-A-AATTAA-TA
* * **
18597617 ATAAAATTAGTAGTAAA-CCATAA
1 AT-AACTTAATAGTAAATTAAT-A
* *
18597640 ATAACTTAATAGTAAATAAATT
1 ATAACTTAATAGTAAATTAATA
* * * *
18597662 ATAATTTAGTAGTTAATCT-TTA
1 ATAACTTAATAGTAAAT-TAATA
* * *
18597684 AAAAC--AA-AGTAAGTAAAT-
1 ATAACTTAATAGTAAATTAATA
* *
18597702 ATAACTTAGTAGTAGTTAA-TCATCA
1 ATAACTTA--A-TAGTAAATTAAT-A
* *
18597727 ATAATTTAATAGTTAATTAATA
1 ATAACTTAATAGTAAATTAATA
* *
18597749 ATAATTTAATAGTAAATT-ATGG
1 ATAACTTAATAGTAAATTAAT-A
* * *
18597771 ATAATTTAATA-TAAATCAGTA
1 ATAACTTAATAGTAAATTAATA
*
18597792 ATAACTTAATAATAAATTA
1 ATAACTTAATAGTAAATTA
18597811 TGGTTAATTT
Statistics
Matches: 206, Mismatches: 53, Indels: 46
0.68 0.17 0.15
Matches are distributed among these distances:
18 4 0.02
19 10 0.05
20 3 0.01
21 25 0.12
22 131 0.64
23 12 0.06
24 9 0.04
25 8 0.04
26 4 0.02
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTAATA
Found at i:18597801 original size:43 final size:43
Alignment explanation
Indices: 18597727--18597830 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
18597717 TTAATCATCA
* * * *
18597727 ATAATTTAATAGTTAATTAATAATAATTTAATAGTAAATTATGG
1 ATAATTTAATA-TAAATCAATAATAACTTAATAATAAATTATGG
*
18597771 ATAATTTAATATAAATCAGTAATAACTTAATAATAAATTATGG
1 ATAATTTAATATAAATCAATAATAACTTAATAATAAATTATGG
* *
18597814 TTAATTTACTAATAAAT
1 ATAATTTAAT-ATAAAT
18597831 ATTTAATAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
43 35 0.67
44 17 0.33
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (43 bp):
ATAATTTAATATAAATCAATAATAACTTAATAATAAATTATGG
Found at i:18597826 original size:22 final size:22
Alignment explanation
Indices: 18597750--18597830 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
18597740 TAATTAATAA
* *
18597750 TAATTTAATAGTAAATTATGGA
1 TAATTTAATAATAAATTATGGT
*
18597772 TAATTTAAT-ATAAATCA--GT
1 TAATTTAATAATAAATTATGGT
*
18597791 AATAACTTAATAATAAATTATGGT
1 --TAATTTAATAATAAATTATGGT
*
18597815 TAATTTACTAATAAAT
1 TAATTTAATAATAAAT
18597831 ATTTAATAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
19 1 0.02
21 14 0.30
22 30 0.64
24 2 0.04
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (22 bp):
TAATTTAATAATAAATTATGGT
Found at i:18597942 original size:22 final size:22
Alignment explanation
Indices: 18597908--18598029 Score: 124
Period size: 22 Copynumber: 5.5 Consensus size: 22
18597898 AGTAATAAAT
*
18597908 TAATTAATCATTGATAACTTTA
1 TAATAAATCATTGATAACTTTA
* * * * *
18597930 TAGTAAATTATTGTTAAATTAA
1 TAATAAATCATTGATAACTTTA
18597952 TAATAAATCAATT-ATAACTTTA
1 TAATAAATC-ATTGATAACTTTA
*
18597974 TAACAAATCATTGATAA-TTTCA
1 TAATAAATCATTGATAACTTT-A
*
18597996 TAATAAATCATTCATAAC-TTA
1 TAATAAATCATTGATAACTTTA
18598017 GTAATAAATCATT
1 -TAATAAATCATT
18598030 AATATTTTAG
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
21 7 0.09
22 71 0.88
23 3 0.04
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (22 bp):
TAATAAATCATTGATAACTTTA
Found at i:18598044 original size:22 final size:22
Alignment explanation
Indices: 18597997--18598044 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
18597987 ATAATTTCAT
* *
18597997 AATAAATCATTCATAACTTAGT
1 AATAAATCATTAATAACTTAGC
**
18598019 AATAAATCATTAATATTTTAGC
1 AATAAATCATTAATAACTTAGC
18598041 AATA
1 AATA
18598045 TCTTATTGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (22 bp):
AATAAATCATTAATAACTTAGC
Found at i:18598443 original size:21 final size:21
Alignment explanation
Indices: 18598419--18598477 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
18598409 AATTTACATC
* *
18598419 AAAAGATTAACAAAATTTTAT
1 AAAAGATTATCAAAATTGTAT
**
18598440 AAAATTTTATCAAAATTGTAT
1 AAAAGATTATCAAAATTGTAT
18598461 AAAAGATTATCAAAATT
1 AAAAGATTATCAAAATT
18598478 ACATCATAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAAGATTATCAAAATTGTAT
Found at i:18598456 original size:11 final size:11
Alignment explanation
Indices: 18598429--18598477 Score: 57
Period size: 10 Copynumber: 4.6 Consensus size: 11
18598419 AAAAGATTAA
18598429 CAAAATTTTAT
1 CAAAATTTTAT
18598440 -AAAATTTTAT
1 CAAAATTTTAT
*
18598450 CAAAATTGTAT
1 CAAAATTTTAT
**
18598461 -AAAAGATTAT
1 CAAAATTTTAT
18598471 CAAAATT
1 CAAAATT
18598478 ACATCATAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
10 17 0.57
11 13 0.43
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (11 bp):
CAAAATTTTAT
Found at i:18610480 original size:20 final size:19
Alignment explanation
Indices: 18610445--18610484 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
18610435 ACAGATATGT
*
18610445 AATTATTTATATATAATTA
1 AATTATATATATATAATTA
18610464 AATTATATATAATATAATTA
1 AATTATATAT-ATATAATTA
18610484 A
1 A
18610485 TAAATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTATATATATATAATTA
Found at i:18612500 original size:16 final size:16
Alignment explanation
Indices: 18612479--18612510 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18612469 TTGACAAAAG
*
18612479 GGATTCCTTATCTCAT
1 GGATTCCTCATCTCAT
18612495 GGATTCCTCATCTCAT
1 GGATTCCTCATCTCAT
18612511 TCTCCTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.41
Consensus pattern (16 bp):
GGATTCCTCATCTCAT
Found at i:18614950 original size:39 final size:39
Alignment explanation
Indices: 18614902--18614992 Score: 173
Period size: 39 Copynumber: 2.3 Consensus size: 39
18614892 TTAATTTAAA
*
18614902 ATCAATTATTTTAATTCACCTCTAACAATTTTATAAAAG
1 ATCAATTATTTTAAATCACCTCTAACAATTTTATAAAAG
18614941 ATCAATTATTTTAAATCACCTCTAACAATTTTATAAAAG
1 ATCAATTATTTTAAATCACCTCTAACAATTTTATAAAAG
18614980 ATCAATTATTTTA
1 ATCAATTATTTTA
18614993 TGAGAAATGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (39 bp):
ATCAATTATTTTAAATCACCTCTAACAATTTTATAAAAG
Found at i:18614953 original size:19 final size:19
Alignment explanation
Indices: 18614929--18614993 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
18614919 ACCTCTAACA
18614929 ATTTTATAAAAGATCAATT
1 ATTTTATAAAAGATCAATT
* ** **
18614948 ATTTTA-AATCACCTCTAACA
1 ATTTTATAA-AAGATC-AATT
18614968 ATTTTATAAAAGATCAATT
1 ATTTTATAAAAGATCAATT
18614987 ATTTTAT
1 ATTTTAT
18614994 GAGAAATGAT
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
18 2 0.06
19 18 0.55
20 11 0.33
21 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (19 bp):
ATTTTATAAAAGATCAATT
Found at i:18614973 original size:20 final size:20
Alignment explanation
Indices: 18614909--18614973 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
18614899 AAAATCAATT
*
18614909 ATTTTAATTCACCTCTAACA
1 ATTTTAAATCACCTCTAACA
* ** **
18614929 ATTTTATAA-AAGATC-AATT
1 ATTTTA-AATCACCTCTAACA
18614948 ATTTTAAATCACCTCTAACA
1 ATTTTAAATCACCTCTAACA
18614968 ATTTTA
1 ATTTTA
18614974 TAAAAGATCA
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
18 2 0.06
19 11 0.35
20 17 0.55
21 1 0.03
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTTTAAATCACCTCTAACA
Found at i:18615375 original size:74 final size:74
Alignment explanation
Indices: 18615296--18615439 Score: 234
Period size: 74 Copynumber: 1.9 Consensus size: 74
18615286 TTGAATTAAT
* * *
18615296 TCAAAATATATCTTTCCCTTTCTATCAAAACTCATTAATTATTATCATTAAATTCTATTATTACT
1 TCAAAATATATCTTTCCATTTCTATCAAAACTCATTAATTACTATCATTAAATTCTATTATCACT
18615361 CTCTCTTAC
66 CTCTCTTAC
* *
18615370 TCAAAATATATCTTTTCATTTCTATCAAAACTCATTAATTACTATCATTTAATTCTATTATCACT
1 TCAAAATATATCTTTCCATTTCTATCAAAACTCATTAATTACTATCATTAAATTCTATTATCACT
*
18615435 TTCTC
66 CTCTC
18615440 ATTTATTCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (74 bp):
TCAAAATATATCTTTCCATTTCTATCAAAACTCATTAATTACTATCATTAAATTCTATTATCACT
CTCTCTTAC
Found at i:18616273 original size:8 final size:8
Alignment explanation
Indices: 18616252--18616298 Score: 67
Period size: 8 Copynumber: 5.8 Consensus size: 8
18616242 TTCATAAACC
18616252 AAATATTAT
1 AAATATT-T
18616261 AAATATTT
1 AAATATTT
18616269 AAATATTT
1 AAATATTT
*
18616277 AAATATCT
1 AAATATTT
*
18616285 AAATATCT
1 AAATATTT
18616293 AAATAT
1 AAATAT
18616299 ATAATTTGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
8 30 0.81
9 7 0.19
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (8 bp):
AAATATTT
Found at i:18617854 original size:161 final size:159
Alignment explanation
Indices: 18617616--18618788 Score: 912
Period size: 161 Copynumber: 7.3 Consensus size: 159
18617606 ACAAACTTGC
** * *
18617616 ATTTTTGCCTTTTAACAACACAAAAGTGCTAAACAGATATAAGCGATAA-TATTTTCACACATAT
1 ATTTTTGCCTTTTAACGGCACAAAAGTGCTAAACAAATATAAACGATAACT-TTTTCACACATAT
* * * *
18617680 CAATCGTAGAAACTAAGTTTAATCATTCATATAAGTTTAATATCATGTATTAAAACTATCTAAAT
65 CAATCGT-GAAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCTAAAT
18617745 TGTTAAAATATAAATATAACTACAAAAATAT
129 TGTTAAAATATAAATATAACTACAAAAATAT
* ** * * *
18617776 ATTTTTGCCTTTTAACAGCATCAAAAGTGCTAAACAAAGGTAAATGGTAACTTTTTCACACATAA
1 ATTTTTGCCTTTTAACGGCA-CAAAAGTGCTAAACAAATATAAACGATAACTTTTTCACACATAT
* * * *
18617841 CAATTGTAGAAACTAAATTCAATCATTC-GAACAAGTTTAATATCATGTATTGAAGCTATTTAAA
65 CAATCGT-GAAACTAAGTTCAATCATTCAG-ACAAGTTTAATATCATGTATTAAAGCTATCTAAA
* * **
18617905 CTATTAAAATAT--A-ATAA-TA-AATGCA-A-
128 TTGTTAAAATATAAATATAACTACAA-AAATAT
* * * * * * *
18617931 A--TTTGCATTTTAACGGCACAAAAACTGCTAAACATACATAAATGATAATTTTTTCATACATAT
1 ATTTTTGCCTTTTAACGGCAC-AAAAGTGCTAAACAAATATAAACGATAACTTTTTCACACATAT
* * * * *
18617994 CAATTGTGAAAACTAAGTTAAATCATT-TGAACAAGTTTAATAT-AGTGTATTTAAGCTATTTAA
65 CAATCGTG-AAACTAAGTTCAATCATTCAG-ACAAGTTTAATATCA-TGTATTAAAGCTATCTAA
* * *
18618057 ATTGTTATAATATAAATATAACTATAAAATTAT
127 ATTGTTAAAATATAAATATAACTACAAAAATAT
* * * * *
18618090 ATTTTTGCCCTTTAACGGCATAACAAAA-TCCTAAA-AAGAAATAAACAATAACCTTTTCACACA
1 ATTTTTGCCTTTTAACGGC---ACAAAAGTGCTAAACAA-ATATAAACGATAACTTTTTCACACA
* * * * * *
18618153 TATCAACCGTGAAAACCAAGTTTAATCATTCAAACAAGTTTAATATCATGTATGAAAGTTATCTA
62 TATCAATCGTG-AAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCTA
* * *
18618218 AACTGTTAAAATA-AAATAATAAATAC--AAATTT
126 AATTGTTAAAATATAAAT-ATAACTACAAAAATAT
* * * * * ** *
18618250 CATTTTGGCCTTTTAACGACACAAAAAGTCCTAAATATATATAAATAACAACTTTTTCACACATA
1 -ATTTTTGCCTTTTAACGGCAC-AAAAGTGCTAAACAAATATAAACGATAACTTTTTCACACATA
* * * ** * *
18618315 TCAACCATAGAAACAAAGTTCAATCATTTGGATAAGTTTAATATCATCTATTGAAA-CTATCTAA
64 TCAATCGT-GAAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATT-AAAGCTATCTAA
* * * ** **
18618379 ATTGTTAAAATA-GAATAATAAATGCAAATTTGC
127 ATTGTTAAAATATAAAT-ATAACTACAAAAATAT
* * * *
18618412 ATTTTGGCCTTTTAACGACATAAAAAGTGCTAAACAAATATAAACGATAACTTTTTCATACATAT
1 ATTTTTGCCTTTTAACGGCA-CAAAAGTGCTAAACAAATATAAACGATAACTTTTTCACACATAT
* * * * ** * *
18618477 CAATTGTGAAAACCAAATTTAATCATTTGGACAAGTTTAATATCATGTATTTAAGCAATCTAAAT
65 CAATCGTG-AAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCTAAAT
* * *
18618542 AGTTAAAACATAAATATAACTACAAAATTAT
129 TGTTAAAATATAAATATAACTACAAAAATAT
* * * * * * * *
18618573 ATTTTTACCCTTTAATGGCACAACAAAGTCCTAAAAAAACATAAACGATAACTTTTTTACATATA
1 ATTTTTGCCTTTTAACGGCAC-A-AAAGTGCTAAACAAATATAAACGATAACTTTTTCACACATA
* * ** * *
18618638 TCAACCGTGAAAATCAAGTTCAATCATTTGGATAAGTTTAATATCATGTATTAAAGCTATCCAAA
64 TCAATCGTGAAACT-AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCTAAA
* * * * ***
18618703 CTGTTAAAATAGAACA-ATAATTATAATTTTAT
128 TTGTTAAAATATAA-ATATAACTACAAAAATAT
* * * * * *
18618735 ATTTTTGCCCTTTAACGACAAAAAAAGTGATAAACAGATTTAAACGATAACTTT
1 ATTTTTGCCTTTTAACGGC-ACAAAAGTGCTAAACAAATATAAACGATAACTTT
18618789 CTTATTTATT
Statistics
Matches: 816, Mismatches: 156, Indels: 81
0.77 0.15 0.08
Matches are distributed among these distances:
152 3 0.00
153 115 0.14
155 2 0.00
156 7 0.01
157 5 0.01
158 9 0.01
159 6 0.01
160 126 0.15
161 309 0.38
162 225 0.28
163 7 0.01
164 2 0.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.34
Consensus pattern (159 bp):
ATTTTTGCCTTTTAACGGCACAAAAGTGCTAAACAAATATAAACGATAACTTTTTCACACATATC
AATCGTGAAACTAAGTTCAATCATTCAGACAAGTTTAATATCATGTATTAAAGCTATCTAAATTG
TTAAAATATAAATATAACTACAAAAATAT
Found at i:18618191 original size:162 final size:160
Alignment explanation
Indices: 18617939--18618762 Score: 766
Period size: 162 Copynumber: 5.1 Consensus size: 160
18617929 AAATTTGCAT
* * * * * ** * * **
18617939 TTTAACGGCACAAAAACTGCTAAACATACATAAATGATAATTTTTTCATACATATCAATTGTGAA
1 TTTAACGACACAAAAAGTCCTAAA-AAAAATAAACAATAACTTTTTCACACATATCAACCGTGAA
* * * * * *
18618004 AACTAAGTTAAATCATTTGAACAAGTTTAATAT-AGTGTATTTAAGCTATTTAAATTGTTATAAT
65 AACCAAGTTCAATCATTTGGACAAGTTTAATATCA-TGTATTAAAGCTATCTAAATTGTTAAAAT
18618068 ATAAATATAACTATAAAATTATATTTTTGCCC
129 ATAAATATAACTATAAAATTATATTTTTGCCC
* * * *
18618100 TTTAACGGCATAACAAAATCCTAAAAAGAAATAAACAATAACCTTTTCACACATATCAACCGTGA
1 TTTAACGACACAA-AAAGTCCTAAAAA-AAATAAACAATAACTTTTTCACACATATCAACCGTGA
* *** * * *
18618165 AAACCAAGTTTAATCATTCAAACAAGTTTAATATCATGTATGAAAGTTATCTAAACTGTTAAAAT
64 AAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTAAAGCTATCTAAATTGTTAAAAT
* *
18618230 A-AAATAATAA--ATACAAATT-TCATTTTGGCCT
129 ATAAAT-ATAACTATA-AAATTAT-ATTTTTGCCC
* * * * *
18618261 TTTAACGACACAAAAAGTCCTAAATATATATAAATAACAACTTTTTCACACATATCAACCAT-AG
1 TTTAACGACACAAAAAGTCCTAAA-AAAAATAAACAATAACTTTTTCACACATATCAACCGTGA-
* * *
18618325 AAACAAAGTTCAATCATTTGGATAAGTTTAATATCATCTATTGAAA-CTATCTAAATTGTTAAAA
64 AAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATT-AAAGCTATCTAAATTGTTAAAA
* * ** * ** * *
18618389 TA-GAATAATAAATGCAAATTTGCATTTTGGCCT
128 TATAAAT-ATAACTATAAAATTATATTTTTGCCC
* * * * * **
18618422 TTTAACGACATAAAAAGTGCTAAACAAATATAAACGATAACTTTTTCATACATATCAATTGTGAA
1 TTTAACGACACAAAAAGTCCTAAA-AAAAATAAACAATAACTTTTTCACACATATCAACCGTGAA
* * * * * *
18618487 AACCAAATTTAATCATTTGGACAAGTTTAATATCATGTATTTAAGCAATCTAAATAGTTAAAACA
65 AACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTAAAGCTATCTAAATTGTTAAAATA
* *
18618552 TAAATATAACTACAAAATTATATTTTTACCC
130 TAAATATAACTATAAAATTATATTTTTGCCC
* * * * *
18618583 TTTAATGGCACAACAAAGTCCTAAAAAAACATAAACGATAACTTTTTTACATATATCAACCGTGA
1 TTTAACGACACAA-AAAGTCCTAAAAAAA-ATAAACAATAACTTTTTCACACATATCAACCGTGA
* * * *
18618648 AAATCAAGTTCAATCATTTGGATAAGTTTAATATCATGTATTAAAGCTATCCAAACTGTTAAAAT
64 AAACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTAAAGCTATCTAAATTGTTAAAAT
* * **
18618713 AGAACA-ATAATTATAATTTTATATTTTTGCCC
129 ATAA-ATATAACTATAAAATTATATTTTTGCCC
*
18618745 TTTAACGACAAAAAAAGT
1 TTTAACGACACAAAAAGT
18618763 GATAAACAGA
Statistics
Matches: 539, Mismatches: 106, Indels: 36
0.79 0.16 0.05
Matches are distributed among these distances:
159 1 0.00
160 106 0.20
161 200 0.37
162 230 0.43
163 2 0.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.33
Consensus pattern (160 bp):
TTTAACGACACAAAAAGTCCTAAAAAAAATAAACAATAACTTTTTCACACATATCAACCGTGAAA
ACCAAGTTCAATCATTTGGACAAGTTTAATATCATGTATTAAAGCTATCTAAATTGTTAAAATAT
AAATATAACTATAAAATTATATTTTTGCCC
Found at i:18618571 original size:483 final size:474
Alignment explanation
Indices: 18617667--18618762 Score: 1333
Period size: 483 Copynumber: 2.3 Consensus size: 474
18617657 AGCGATAATA
* * *
18617667 TTTTCACACATATCAATCGT-AGAAACTAAGTTTAATCATTCATATAAGTTTAATATCATGTATT
1 TTTTCACACATATCAACCGTGA-AAACCAAGTTTAATCATTCAAATAAGTTTAATATCATGTATT
* * * *
18617731 AAAACTATCTAAATTGTTAAAATATAAAT-ATAACTACAAAAATATATTTTTGCCTTTTAAC-AG
65 AAAGCTATCTAAACTGTTAAAATA-AAATAATAAATAC--AAATTTATTTTTGCCTTTTAACGA-
* * *** ***
18617794 CATC-AAAAGTGCTAAACAAAGGTAAATGGTAACTTTTTCACACATAACAATTGTAGAAACTAAA
126 CA-CAAAAAGTCCTAAACAAAGATAAATAACAACTTTTTCACACATAACAACCATAGAAACTAAA
* * * *
18617858 TTCAATCATTCGAACAAGTTTAATATCATGTATTGAAGCTATTTAAACTATTAAAATATAATAAT
190 TTCAATCATTCGAACAAGTTTAATATCATCTATTGAAACTATCTAAACTATTAAAATAGAATAAT
* * * *
18617923 AAATGCAAATTTGCATTTTAACGGCACAAAAACTGCTAAACATACATAAATGATAATTTTTTCAT
255 AAATGCAAATTTGCATTTTAACGACACAAAAACTGCTAAACAAACATAAACGATAACTTTTTCAT
* * *
18617988 ACATATCAATTGTGAAAACTAAGTTAAATCATTTGAACAAGTTTAATATAGTGTATTTAAGCTAT
320 ACATATCAATTGTGAAAACCAAATTAAATCATTTGAACAAGTTTAATATAGTGTATTTAAGCAAT
* * * * * * *
18618053 TTAAATTGTTATAATATAAATATAACTATAAAATTATATTTTTGCCCTTTAACGGCATAACAAAA
385 CTAAATAGTTAAAACATAAATATAACTACAAAATTATATTTTTACCCTTTAACGGCACAACAAAA
18618118 TCCTAAAAAGAA-ATAAACAATAACC
450 TCCTAAAAA-AACATAAACAATAACC
* *
18618143 TTTTCACACATATCAACCGTGAAAACCAAGTTTAATCATTCAAACAAGTTTAATATCATGTATGA
1 TTTTCACACATATCAACCGTGAAAACCAAGTTTAATCATTCAAATAAGTTTAATATCATGTATTA
* *
18618208 AAGTTATCTAAACTGTTAAAATAAAATAATAAATACAAATTTCATTTTGGCCTTTTAACGACACA
66 AAGCTATCTAAACTGTTAAAATAAAATAATAAATACAAATTT-ATTTTTGCCTTTTAACGACACA
* * * *
18618273 AAAAGTCCTAAATATATATAAATAACAACTTTTTCACACATATCAACCATAGAAAC-AAAGTTCA
130 AAAAGTCCTAAACAAAGATAAATAACAACTTTTTCACACATAACAACCATAGAAACTAAA-TTCA
* * * * *
18618337 ATCATTTGGATAAGTTTAATATCATCTATTGAAACTATCTAAATTGTTAAAATAGAATAATAAAT
194 ATCATTCGAACAAGTTTAATATCATCTATTGAAACTATCTAAACTATTAAAATAGAATAATAAAT
* * *
18618402 GCAAATTTGCATTTTGGCCTTTTAACGACATAAAAAGTGCTAAACAAATATAAACGATAACTTTT
259 GCAAATTTGCA--------TTTTAACGACACAAAAACTGCTAAACAAACATAAACGATAACTTTT
* *
18618467 TCATACATATCAATTGTGAAAACCAAATTTAATCATTTGGACAAGTTTAATATCA-TGTATTTAA
316 TCATACATATCAATTGTGAAAACCAAATTAAATCATTTGAACAAGTTTAATAT-AGTGTATTTAA
*
18618531 GCAATCTAAATAGTTAAAACATAAATATAACTACAAAATTATATTTTTACCCTTTAATGGCACAA
380 GCAATCTAAATAGTTAAAACATAAATATAACTACAAAATTATATTTTTACCCTTTAACGGCACAA
* * *
18618596 CAAAGTCCTAAAAAAACATAAACGATAACT
445 CAAAATCCTAAAAAAACATAAACAATAACC
* * * * ***
18618626 TTTTTACATATATCAACCGTGAAAATCAAGTTCAATCATTTGGATAAGTTTAATATCATGTATTA
1 TTTTCACACATATCAACCGTGAAAACCAAGTTTAATCATTCAAATAAGTTTAATATCATGTATTA
* * * * * * * *
18618691 AAGCTATCCAAACTGTTAAAATAGAACAATAATTATAATTTTATATTTTTGCCCTTTAACGACAA
66 AAGCTATCTAAACTGTTAAAATAAAATAATAAATACAA-ATT-TATTTTTGCCTTTTAACGACAC
18618756 AAAAAGT
129 AAAAAGT
18618763 GATAAACAGA
Statistics
Matches: 528, Mismatches: 74, Indels: 28
0.84 0.12 0.04
Matches are distributed among these distances:
474 9 0.02
475 136 0.26
476 86 0.16
477 1 0.00
482 2 0.00
483 265 0.50
484 28 0.05
485 1 0.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (474 bp):
TTTTCACACATATCAACCGTGAAAACCAAGTTTAATCATTCAAATAAGTTTAATATCATGTATTA
AAGCTATCTAAACTGTTAAAATAAAATAATAAATACAAATTTATTTTTGCCTTTTAACGACACAA
AAAGTCCTAAACAAAGATAAATAACAACTTTTTCACACATAACAACCATAGAAACTAAATTCAAT
CATTCGAACAAGTTTAATATCATCTATTGAAACTATCTAAACTATTAAAATAGAATAATAAATGC
AAATTTGCATTTTAACGACACAAAAACTGCTAAACAAACATAAACGATAACTTTTTCATACATAT
CAATTGTGAAAACCAAATTAAATCATTTGAACAAGTTTAATATAGTGTATTTAAGCAATCTAAAT
AGTTAAAACATAAATATAACTACAAAATTATATTTTTACCCTTTAACGGCACAACAAAATCCTAA
AAAAACATAAACAATAACC
Found at i:18624853 original size:32 final size:32
Alignment explanation
Indices: 18624817--18624904 Score: 88
Period size: 35 Copynumber: 2.7 Consensus size: 32
18624807 ATATATGTTT
* *
18624817 AAAAGCATTTATAGATCTACAA-CATGATTACC
1 AAAAGCATTTATA-ATCAAAAAGCATGATTACC
*
18624849 AAAAGCATTTAAAATAATGAAAAAGCATGATTACC
1 AAAAGCATTT---ATAATCAAAAAGCATGATTACC
* *
18624884 AAAAGCATTTAAAATCTAAAA
1 AAAAGCATTTATAATCAAAAA
18624905 CACAACTATT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
32 18 0.39
34 5 0.11
35 23 0.50
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (32 bp):
AAAAGCATTTATAATCAAAAAGCATGATTACC
Found at i:18628417 original size:18 final size:18
Alignment explanation
Indices: 18628394--18628430 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
18628384 AAATGAATTT
18628394 TTAGAAAAAAAAATTTGA
1 TTAGAAAAAAAAATTTGA
*
18628412 TTAGAAAAAAAATTTTGA
1 TTAGAAAAAAAAATTTGA
18628430 T
1 T
18628431 GAATTGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (18 bp):
TTAGAAAAAAAAATTTGA
Found at i:18633717 original size:21 final size:21
Alignment explanation
Indices: 18633670--18633717 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
18633660 CCAAGATTGC
* *
18633670 AAAAGAGATCGATCACCTAGA
1 AAAAGGGATCGATCACCTAAA
** *
18633691 TTAAGGGATTGATCACCTAAA
1 AAAAGGGATCGATCACCTAAA
18633712 AAAAGG
1 AAAAGG
18633718 ATCAATTGGT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.19
Consensus pattern (21 bp):
AAAAGGGATCGATCACCTAAA
Found at i:18638603 original size:13 final size:13
Alignment explanation
Indices: 18638585--18638609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18638575 ATTTGCTAAA
18638585 ATATTATTGAAAG
1 ATATTATTGAAAG
18638598 ATATTATTGAAA
1 ATATTATTGAAA
18638610 TTACACCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATATTATTGAAAG
Found at i:18641215 original size:39 final size:39
Alignment explanation
Indices: 18641172--18641249 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
18641162 AGACAATATA
* *
18641172 TGAGAGTGAGACTTGAGGTTGAGGGAGACGAGCAGATAG
1 TGAGAGTGAGACTTAAGGTTGAGGGAGACGAGCAAATAG
18641211 TGAGAGTGAGACTTAAGGTTGAGGGAGACGAGCAAATAG
1 TGAGAGTGAGACTTAAGGTTGAGGGAGACGAGCAAATAG
18641250 CATACATAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.08, G:0.41, T:0.18
Consensus pattern (39 bp):
TGAGAGTGAGACTTAAGGTTGAGGGAGACGAGCAAATAG
Found at i:18641596 original size:20 final size:20
Alignment explanation
Indices: 18641568--18641619 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
18641558 TAATTAAATA
*
18641568 TATTATTTATTATGATTATT
1 TATTTTTTATTATGATTATT
*
18641588 TATTTTTTA-TATGTTTATT
1 TATTTTTTATTATGATTATT
18641607 TATCTTTTT-TTAT
1 TAT-TTTTTATTAT
18641620 TTTATAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
TATTTTTTATTATGATTATT
Found at i:18641605 original size:19 final size:19
Alignment explanation
Indices: 18641568--18641624 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
18641558 TAATTAAATA
* *
18641568 TATTATTTATTATGATTATT
1 TATTTTTTA-TATGTTTATT
18641588 TATTTTTTATATGTTTATT
1 TATTTTTTATATGTTTATT
*
18641607 TATCTTTTTTTAT-TTTAT
1 TAT-TTTTTATATGTTTAT
18641625 AATATCATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
TATTTTTTATATGTTTATT
Found at i:18647717 original size:3 final size:3
Alignment explanation
Indices: 18647709--18647744 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
18647699 CTCATGCTTT
18647709 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18647745 CTAAACAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18648561 original size:17 final size:16
Alignment explanation
Indices: 18648539--18648572 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
18648529 GTCAATTCTT
18648539 TTATATACTCTCTTTTA
1 TTATATACTCT-TTTTA
18648556 TTATATACTCTTTTTA
1 TTATATACTCTTTTTA
18648572 T
1 T
18648573 GGTTGAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATACTCTTTTTA
Found at i:18648985 original size:16 final size:17
Alignment explanation
Indices: 18648964--18648996 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18648954 CTTAATCGAA
18648964 TTTTTA-TATTTAAATT
1 TTTTTATTATTTAAATT
*
18648980 TTTTTATTATTTTAATT
1 TTTTTATTATTTAAATT
18648997 AATAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTATTATTTAAATT
Found at i:18652245 original size:155 final size:158
Alignment explanation
Indices: 18651960--18652270 Score: 493
Period size: 155 Copynumber: 2.0 Consensus size: 158
18651950 AGCATGCGTT
* * * *
18651960 ACAAATATGTTTTACGAACTTCTACAGTAACATTTTCAGATATAAGACAGAGCTGCCAATTTCCT
1 ACAAATATGTTTTACGAACTTCTACAGTAACATTTTCAAACATAACACAGACCTGCCAATTTCCT
*
18652025 TTTTTTTTTTTTTAATTACAGAACTGTTATTGAAACAAAATTCAAAACCTGTTTCTGCACCCCAT
66 TTTTTTTTTTTTTAATTACAGAACTGTTATTGAAACAAAATTCAAAACCGGTTTCTGCACCCCAT
*
18652090 TTGCAGTAAAGTCCATTCTTCTCCAAAA
131 TTGCAGCAAAGTCCATTCTTCTCCAAAA
* * * *
18652118 ACAAATATGTTTTATGAACTTTTACCGTACCATTTTCAAACATAACACAGACCTGCCAATTT-C-
1 ACAAATATGTTTTACGAACTTCTACAGTAACATTTTCAAACATAACACAGACCTGCCAATTTCCT
*
18652181 TTTTTTTTTTTTTAA-TACGGAACTGTTATTGAAACAAAATTCAAAACCGGTTTCTGCACCCCAT
66 TTTTTTTTTTTTTAATTACAGAACTGTTATTGAAACAAAATTCAAAACCGGTTTCTGCACCCCAT
*
18652245 TTTCAGCAAAGTCCATTCTTCTCCAA
131 TTGCAGCAAAGTCCATTCTTCTCCAA
18652271 CAATGTTCAA
Statistics
Matches: 141, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
155 71 0.50
156 15 0.11
157 1 0.01
158 54 0.38
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (158 bp):
ACAAATATGTTTTACGAACTTCTACAGTAACATTTTCAAACATAACACAGACCTGCCAATTTCCT
TTTTTTTTTTTTTAATTACAGAACTGTTATTGAAACAAAATTCAAAACCGGTTTCTGCACCCCAT
TTGCAGCAAAGTCCATTCTTCTCCAAAA
Found at i:18656056 original size:15 final size:15
Alignment explanation
Indices: 18656030--18656066 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
18656020 ATTGATAAAG
18656030 AGATTAATTTATTTTA
1 AGATT-ATTTATTTTA
*
18656046 ATATTATTTATTTTA
1 AGATTATTTATTTTA
18656061 AGATTA
1 AGATTA
18656067 AATATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
AGATTATTTATTTTA
Found at i:18660868 original size:18 final size:17
Alignment explanation
Indices: 18660840--18660874 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
18660830 TTTTAATGAT
18660840 ATTTTATTTTATTATTA
1 ATTTTATTTTATTATTA
18660857 ATTTTAATTTTATTATTA
1 ATTTT-ATTTTATTATTA
18660875 TAGTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTATTTTATTATTA
Found at i:18666728 original size:27 final size:27
Alignment explanation
Indices: 18666698--18666755 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
18666688 TGTACTTTAG
*
18666698 TTAAATAGTAAAATTAATCTCTTTATC
1 TTAAATAGTAAAATTAATCTATTTATC
*
18666725 TTAAATAGTAAAATTTATCTATTTATC
1 TTAAATAGTAAAATTAATCTATTTATC
18666752 TTAA
1 TTAA
18666756 TATGATCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (27 bp):
TTAAATAGTAAAATTAATCTATTTATC
Found at i:18667185 original size:15 final size:15
Alignment explanation
Indices: 18667165--18667196 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18667155 AGTCAACTCA
*
18667165 TAAACAAAGTTAATG
1 TAAACAAAGTCAATG
18667180 TAAACAAAGTCAATG
1 TAAACAAAGTCAATG
18667195 TA
1 TA
18667197 TAGATCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.25
Consensus pattern (15 bp):
TAAACAAAGTCAATG
Found at i:18668088 original size:21 final size:22
Alignment explanation
Indices: 18668050--18668090 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
18668040 CCAATTAATA
*
18668050 ATTTAAATATTCAAAAAAAATT
1 ATTTAAATATTAAAAAAAAATT
18668072 ATTTAAATA-TAAAAAAAAA
1 ATTTAAATATTAAAAAAAAA
18668091 GTCACGGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
ATTTAAATATTAAAAAAAAATT
Found at i:18668831 original size:30 final size:30
Alignment explanation
Indices: 18668790--18668847 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
18668780 TTTTTTATTT
* * *
18668790 ATATATATATTTATATAATGATATTTTAAA
1 ATATATATATTTAAAAAATAATATTTTAAA
*
18668820 ATATTTATATTTAAAAAATAATATTTTA
1 ATATATATATTTAAAAAATAATATTTTA
18668848 TTAATTTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTAAA
Found at i:18673689 original size:15 final size:15
Alignment explanation
Indices: 18673648--18673690 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18673638 ATACCCATTT
*
18673648 TAATTTCGAAAAAAA
1 TAATTTTGAAAAAAA
*
18673663 TAATTTTTAAAAAAA
1 TAATTTTGAAAAAAA
18673678 T-ATTATTGAAAAA
1 TAATT-TTGAAAAA
18673691 TTCAAGATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (15 bp):
TAATTTTGAAAAAAA
Found at i:18678341 original size:27 final size:26
Alignment explanation
Indices: 18678292--18678344 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
18678282 AAATAATAAT
* **
18678292 AAAAATTATTATAGTTACGATTAAAA
1 AAAAATTATTATAATTAAAATTAAAA
18678318 AAAAAGTTATTATAATTAAAATTAAAA
1 AAAAA-TTATTATAATTAAAATTAAAA
18678345 TATTCAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (26 bp):
AAAAATTATTATAATTAAAATTAAAA
Found at i:18690910 original size:13 final size:13
Alignment explanation
Indices: 18690888--18690924 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
18690878 CTTTTCATTG
*
18690888 TTTTTATTTTTCC
1 TTTTTCTTTTTCC
*
18690901 TTTTTCTTTTTCT
1 TTTTTCTTTTTCC
18690914 TTTTTCTTTTT
1 TTTTTCTTTTT
18690925 TCTCATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCTTTTTCC
Found at i:18690927 original size:7 final size:7
Alignment explanation
Indices: 18690894--18690927 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
18690884 ATTGTTTTTA
*
18690894 TTTTTCC
1 TTTTTCT
18690901 TTTTTC-
1 TTTTTCT
18690907 TTTTTCT
1 TTTTTCT
18690914 TTTTTCT
1 TTTTTCT
18690921 TTTTTCT
1 TTTTTCT
18690928 CATTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:18690936 original size:20 final size:19
Alignment explanation
Indices: 18690889--18690936 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
18690879 TTTTCATTGT
*
18690889 TTTTATTTTTCCTTTTTCTT
1 TTTT-TTTTTCCTTTTTCTA
*
18690909 TTTCTTTTTTCTTTTTTCTCA
1 TTT-TTTTTTCCTTTTTCT-A
18690930 TTTTTTT
1 TTTTTTT
18690937 AATTGGCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTTTTCCTTTTTCTA
Found at i:18691020 original size:12 final size:13
Alignment explanation
Indices: 18690994--18691022 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18690984 ATTTTATTAA
18690994 AAAATTAATAAAT
1 AAAATTAATAAAT
18691007 AAAATTAA-AAAT
1 AAAATTAATAAAT
18691019 AAAA
1 AAAA
18691023 ATTTCACCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATTAATAAAT
Found at i:18691023 original size:13 final size:14
Alignment explanation
Indices: 18690993--18691025 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
18690983 AATTTTATTA
18690993 AAAAATTAATAAAT
1 AAAAATTAATAAAT
18691007 -AAAATTAA-AAAT
1 AAAAATTAATAAAT
18691019 AAAAATT
1 AAAAATT
18691026 TCACCCGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAATTAATAAAT
Found at i:18703552 original size:11 final size:11
Alignment explanation
Indices: 18703538--18703577 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
18703528 TAAGTGTGCA
18703538 TTTAATTCACT
1 TTTAATTCACT
*
18703549 TTTAATT-AGT
1 TTTAATTCACT
18703559 ATTTAATTCACT
1 -TTTAATTCACT
18703571 TTTAATT
1 TTTAATT
18703578 AGTATTATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 2 0.08
11 21 0.84
12 2 0.08
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (11 bp):
TTTAATTCACT
Found at i:18703562 original size:22 final size:22
Alignment explanation
Indices: 18703537--18703583 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
18703527 TTAAGTGTGC
18703537 ATTTAATTCACTTTTAATTAGT
1 ATTTAATTCACTTTTAATTAGT
18703559 ATTTAATTCACTTTTAATTAGT
1 ATTTAATTCACTTTTAATTAGT
18703581 ATT
1 ATT
18703584 ATGATTTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTTAATTCACTTTTAATTAGT
Found at i:18712620 original size:20 final size:20
Alignment explanation
Indices: 18712595--18712635 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18712585 ATTTATCGAT
18712595 TTTTTAAATTTAAT-TTTTAA
1 TTTTT-AATTTAATATTTTAA
*
18712615 TTTTTAATTTATTATTTTAA
1 TTTTTAATTTAATATTTTAA
18712635 T
1 T
18712636 ATAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTAATTTAATATTTTAA
Found at i:18713928 original size:2 final size:2
Alignment explanation
Indices: 18713921--18713947 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18713911 CAAACTGTTG
18713921 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18713948 AGGGATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18714684 original size:82 final size:80
Alignment explanation
Indices: 18714538--18714686 Score: 181
Period size: 82 Copynumber: 1.8 Consensus size: 80
18714528 CACATCTCTT
* * * ** *
18714538 ATGTACTAAATTTTTTCACAATTTTTCTATAATTTTTGTGCAAATTTTGTAAGAAATTGTATGCA
1 ATGTACTAAACTTGTTCACAATTTTTCTATAACTTTAATGCAAATTTTGTAAGAAACTGTATGCA
18714603 ACCAACGCATCTATC
66 ACCAACGCATCTATC
** * * *
18714618 ATGTACTAAACTTGTTCACAATTTTTTTCTATAACTTTAATGGGAATTTTGTGATAGACTGTATG
1 ATGTACTAAACTTGTTCACAA--TTTTTCTATAACTTTAATGCAAATTTTGTAAGAAACTGTATG
18714683 CAAC
64 CAAC
18714687 AATTATACAA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 19 0.34
82 37 0.66
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (80 bp):
ATGTACTAAACTTGTTCACAATTTTTCTATAACTTTAATGCAAATTTTGTAAGAAACTGTATGCA
ACCAACGCATCTATC
Found at i:18728584 original size:21 final size:20
Alignment explanation
Indices: 18728560--18728598 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18728550 TGATTCTTTC
18728560 TTTTATATTT-ATAGATTTTGA
1 TTTTAT-TTTGAT-GATTTTGA
18728581 TTTTATTTTGATGATTTT
1 TTTTATTTTGATGATTTT
18728599 TTTGGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTTATTTTGATGATTTTGA
Found at i:18729083 original size:3 final size:3
Alignment explanation
Indices: 18729075--18729114 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18729065 ATAATTTTGC
18729075 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18729115 GGTTCCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18730110 original size:20 final size:18
Alignment explanation
Indices: 18730087--18730134 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
18730077 TATTTATTTA
* *
18730087 TTTTATTTTATATTTCCTCT
1 TTTTATTTT-CATTTCAT-T
18730107 TTTTATTATTCATTTCATT
1 TTTTATT-TTCATTTCATT
18730126 TTTTATTTT
1 TTTTATTTT
18730135 TGTATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 8 0.32
20 13 0.52
21 2 0.08
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTATTTTCATTTCATT
Found at i:18730210 original size:21 final size:22
Alignment explanation
Indices: 18730177--18730221 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
18730167 AGGATATGTT
*
18730177 AAAATAAATATAATAA-TGATAA
1 AAAACAAATATAATAAGT-ATAA
18730199 AAAACAAA-ATAATAAGTATAA
1 AAAACAAATATAATAAGTATAA
18730220 AA
1 AA
18730222 TTTAGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAACAAATATAATAAGTATAA
Found at i:18730392 original size:111 final size:111
Alignment explanation
Indices: 18730267--18730540 Score: 352
Period size: 111 Copynumber: 2.4 Consensus size: 111
18730257 AAAATATTAT
* * * *
18730267 AAAATAACTGTAAAATCACAAGTGATGATTTTATTAAAAATATTTACGCAAAGAAATTTTTTAAA
1 AAAATAATTATAAAATCACAAGTGATGATTTTATTAAAAATATTTACACAAAGAAATTTTCTAAA
18730332 ATATTCTAAAAGTGTTAGAAATATTTTAG-AATTTCTCAAGCATAAA
66 ATATTCTAAAAGTGTTAGAAATATTTTAGAAATTT-TCAAGCATAAA
* **
18730378 AAAATAATTATAAAATTACAAGTGATGATTTTATTAAAAATATTTACACAAAGAAATTTTCTATC
1 AAAATAATTATAAAATCACAAGTGATGATTTTATTAAAAATATTTACACAAAGAAATTTTCTAAA
* * *
18730443 ATATTTTAAAAGTGTTAGAAATATTTTAGAAATTTTTAAGTATAAA
66 ATATTCTAAAAGTGTTAGAAATATTTTAGAAATTTTCAAGCATAAA
* *
18730489 AGATACTATTAATAAAAATAAAATCACAAGTGGTGATTTTATTAAAAATATT
1 A-A-A--A-TAAT---TATAAAATCACAAGTGATGATTTTATTAAAAATATT
18730541 CAAAGTATTC
Statistics
Matches: 141, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
111 96 0.68
112 6 0.04
113 1 0.01
115 1 0.01
116 4 0.03
119 33 0.23
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (111 bp):
AAAATAATTATAAAATCACAAGTGATGATTTTATTAAAAATATTTACACAAAGAAATTTTCTAAA
ATATTCTAAAAGTGTTAGAAATATTTTAGAAATTTTCAAGCATAAA
Found at i:18731960 original size:19 final size:19
Alignment explanation
Indices: 18731936--18731986 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
18731926 GAATCTAGTT
*
18731936 GAAAAATTCAAACTCCATC
1 GAAAAATTCAAACTCCACC
* *
18731955 GAAAAATTTAAACTTCACC
1 GAAAAATTCAAACTCCACC
*
18731974 AAAAAATTCAAAC
1 GAAAAATTCAAAC
18731987 AATAAACCCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.53, C:0.22, G:0.04, T:0.22
Consensus pattern (19 bp):
GAAAAATTCAAACTCCACC
Found at i:18732428 original size:3 final size:3
Alignment explanation
Indices: 18732422--18732450 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18732412 TTGATAATAA
18732422 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
18732451 AATAATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:18732555 original size:29 final size:29
Alignment explanation
Indices: 18732514--18732570 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
18732504 ATTATCGGAA
18732514 ATAACTTAAAAAATTTTCAATATTCAAAT
1 ATAACTTAAAAAATTTTCAATATTCAAAT
*
18732543 ATAACTTAGAAAATTTTCAATATTCAAA
1 ATAACTTAAAAAATTTTCAATATTCAAA
18732571 AAATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (29 bp):
ATAACTTAAAAAATTTTCAATATTCAAAT
Found at i:18732584 original size:29 final size:28
Alignment explanation
Indices: 18732522--18732584 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
18732512 AAATAACTTA
* **
18732522 AAAAATTTTCAATATTCAAATATAACTT
1 AAAAATTTTCAATATTCAAAAATAAAAT
18732550 AGAAAATTTTCAATATTCAAAAAATAAAAT
1 A-AAAATTTTCAATATTC-AAAAATAAAAT
18732580 AAAAA
1 AAAAA
18732585 ATAAAAGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 20 0.67
30 9 0.30
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.32
Consensus pattern (28 bp):
AAAAATTTTCAATATTCAAAAATAAAAT
Found at i:18738762 original size:7 final size:7
Alignment explanation
Indices: 18738752--18738789 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
18738742 TTTTATGAGC
18738752 TTAGGGT
1 TTAGGGT
18738759 TTAGGGT
1 TTAGGGT
18738766 TTAGGGT
1 TTAGGGT
*
18738773 TTAAGGT
1 TTAGGGT
*
18738780 TTAAGGT
1 TTAGGGT
18738787 TTA
1 TTA
18738790 AGAATTATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (7 bp):
TTAGGGT
Found at i:18740177 original size:10 final size:10
Alignment explanation
Indices: 18740164--18740193 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
18740154 ATTAAGCTTT
18740164 TATATTTTAA
1 TATATTTTAA
18740174 TATATTTTAA
1 TATATTTTAA
18740184 T-TATTTTAA
1 TATATTTTAA
18740193 T
1 T
18740194 TGATAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:18742203 original size:21 final size:21
Alignment explanation
Indices: 18742140--18742203 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
18742130 GTATCTATAT
18742140 TTCTTTTA--TTGTTTTCATTA
1 TTCTTTTATTTTGTTTTCA-TA
* *
18742160 TTCATTCATTTT-TTTTC--A
1 TTCTTTTATTTTGTTTTCATA
18742178 -T-TTTTATTTTGTTTTCATA
1 TTCTTTTATTTTGTTTTCATA
18742197 TTCTTTT
1 TTCTTTT
18742204 GATCTCACCC
Statistics
Matches: 33, Mismatches: 4, Indels: 13
0.66 0.08 0.26
Matches are distributed among these distances:
16 7 0.21
17 6 0.18
18 1 0.03
19 1 0.03
20 7 0.21
21 9 0.27
22 2 0.06
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.72
Consensus pattern (21 bp):
TTCTTTTATTTTGTTTTCATA
Found at i:18747046 original size:43 final size:43
Alignment explanation
Indices: 18746966--18747047 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 43
18746956 ATTTAAAAAA
* * *
18746966 CCTTTTAAAATTTCAAAAATTATCGAGCTTCTACTTAGAGGAG
1 CCTTTTAAAATTTCAAAAATTATCAAACCTCTACTTAGAGGAG
* * * *
18747009 CCTTTTAAAATTTCAAAAGTTGTTAAACCTCTGCTTAGA
1 CCTTTTAAAATTTCAAAAATTATCAAACCTCTACTTAGA
18747048 AAAACTTTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 32 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (43 bp):
CCTTTTAAAATTTCAAAAATTATCAAACCTCTACTTAGAGGAG
Found at i:18753317 original size:24 final size:24
Alignment explanation
Indices: 18753275--18753345 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
18753265 AGTTAAAGGA
* *
18753275 ATTAATTAATTAATCTTTATTATGATT
1 ATTATTTAA-TAATTTTTATTAT--TT
18753302 ATT-TTTAA-AATTTTTATTATTT
1 ATTATTTAATAATTTTTATTATTT
*
18753324 ATTATTTAATTATTTTTATTAT
1 ATTATTTAATAATTTTTATTAT
18753346 AAAAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 5 0.13
23 5 0.13
24 22 0.56
26 4 0.10
27 3 0.08
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (24 bp):
ATTATTTAATAATTTTTATTATTT
Found at i:18753471 original size:3 final size:3
Alignment explanation
Indices: 18753463--18753525 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
18753453 CAAGATATAA
18753463 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18753511 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
18753526 TTACATTGTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18754799 original size:3 final size:3
Alignment explanation
Indices: 18754793--18754830 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
18754783 TTTTTTAGAT
18754793 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
18754831 TAAACAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18755043 original size:40 final size:40
Alignment explanation
Indices: 18754999--18755090 Score: 157
Period size: 40 Copynumber: 2.3 Consensus size: 40
18754989 AGAAAATTTG
* *
18754999 AAAGGCTCCTCTAAATAAAGGCTATGAAACTTTAAATTCA
1 AAAGGCTCCTCTAAACAAAGGCTATAAAACTTTAAATTCA
*
18755039 AAAGGCTCATCTAAACAAAGGCTATAAAACTTTAAATTCA
1 AAAGGCTCCTCTAAACAAAGGCTATAAAACTTTAAATTCA
18755079 AAAGGCTCCTCT
1 AAAGGCTCCTCT
18755091 GACTAGAGGC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (40 bp):
AAAGGCTCCTCTAAACAAAGGCTATAAAACTTTAAATTCA
Found at i:18755139 original size:40 final size:39
Alignment explanation
Indices: 18755025--18755315 Score: 184
Period size: 40 Copynumber: 7.3 Consensus size: 39
18755015 AAAGGCTATG
* * * *
18755025 AAACTTTAAAT-TCAAAAGGCTCATCTAAACAAAGGCTATA-
1 AAACTTTAAATGTTAAAAGGCTC-TCTTACCAGAGGC-A-AC
* * *
18755065 AAACTTTAAAT-TCAAAAGGCTCCTCTGACTAGAGGCAAC
1 AAACTTTAAATGTTAAAAGGCT-CTCTTACCAGAGGCAAC
* * * *
18755104 AAACTTTACATGTTAAAAAGCTTCTCTTACTAGAGGCAAT
1 AAACTTTAAATGTTAAAAGGC-TCTCTTACCAGAGGCAAC
* * * *
18755144 GAACTTTAAA--TTCAAAGGACTTCTCTCACTAGAGGCAAC
1 AAACTTTAAATGTTAAAAGG-C-TCTCTTACCAGAGGCAAC
* * * * *
18755183 AAACTTTATAT-TAAAAAAAGCTCAT-TTACCCAAAAGCAAC
1 AAACTTTAAATGT-TAAAAGGCTC-TCTTA-CCAGAGGCAAC
* * *
18755223 AAAACTTTAAATGTTAAAATGCTCTTTTAACCAAAGGCAAC
1 -AAACTTTAAATGTTAAAAGGCTCTCTT-ACCAGAGGCAAC
18755264 AAACTTTAAATGTTAAAAGGCTCAT-TTGACCAGAGGCAAC
1 AAACTTTAAATGTTAAAAGGCTC-TCTT-ACCAGAGGCAAC
*
18755304 GAACTTTAAATG
1 AAACTTTAAATG
18755316 GCTCATTTAA
Statistics
Matches: 205, Mismatches: 32, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
38 7 0.03
39 41 0.20
40 118 0.58
41 37 0.18
42 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (39 bp):
AAACTTTAAATGTTAAAAGGCTCTCTTACCAGAGGCAAC
Found at i:18755178 original size:39 final size:39
Alignment explanation
Indices: 18755065--18755190 Score: 139
Period size: 39 Copynumber: 3.2 Consensus size: 39
18755055 AAAGGCTATA
* *
18755065 AAACTTTAAATTCAAAAGG-CTCCTCTGACTAGAGGCAAC
1 AAACTTTAAATTC-AAAGGACTTCTCTCACTAGAGGCAAC
* * * * *
18755104 AAACTTTACATGTTAAA-AAGCTTCTCTTACTAGAGGCAAT
1 AAACTTTAAAT-TCAAAGGA-CTTCTCTCACTAGAGGCAAC
*
18755144 GAACTTTAAATTCAAAGGACTTCTCTCACTAGAGGCAAC
1 AAACTTTAAATTCAAAGGACTTCTCTCACTAGAGGCAAC
18755183 AAACTTTA
1 AAACTTTA
18755191 TATTAAAAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
39 42 0.60
40 28 0.40
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (39 bp):
AAACTTTAAATTCAAAGGACTTCTCTCACTAGAGGCAAC
Found at i:18755229 original size:41 final size:40
Alignment explanation
Indices: 18755178--18755353 Score: 154
Period size: 40 Copynumber: 4.6 Consensus size: 40
18755168 CTCACTAGAG
* *
18755178 GCAACAAACTTTATAT-TAAAAAAAGCTCATTTACCCAAAA
1 GCAACAAACTTTAAATGT-AAAAAAGCTCATTTAACCAAAA
* * * *
18755218 GCAACAAAACTTTAAATGTTAAAATGCTCTTTTAACCAAAG
1 GCAAC-AAACTTTAAATGTAAAAAAGCTCATTTAACCAAAA
* * * * *
18755259 GCAACAAACTTTAAATGTTAAAAGGCTCATTTGACCAGAG
1 GCAACAAACTTTAAATGTAAAAAAGCTCATTTAACCAAAA
* *
18755299 GCAACGAACTTTAAATG-------GCTCATTTAACCAAAG
1 GCAACAAACTTTAAATGTAAAAAAGCTCATTTAACCAAAA
18755332 GCAACAAACTTTAAAT-TAAAAA
1 GCAACAAACTTTAAATGTAAAAA
18755354 TTTGAAAGGA
Statistics
Matches: 114, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
33 29 0.25
40 52 0.46
41 32 0.28
42 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (40 bp):
GCAACAAACTTTAAATGTAAAAAAGCTCATTTAACCAAAA
Found at i:18755319 original size:33 final size:33
Alignment explanation
Indices: 18755276--18755347 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
18755266 ACTTTAAATG
* * * *
18755276 TTAAAAGGCTCATTTGACCAGAGGCAACGAACT
1 TTAAATGGCTCATTTAACCAAAGGCAACAAACT
18755309 TTAAATGGCTCATTTAACCAAAGGCAACAAACT
1 TTAAATGGCTCATTTAACCAAAGGCAACAAACT
18755342 TTAAAT
1 TTAAAT
18755348 TAAAAATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (33 bp):
TTAAATGGCTCATTTAACCAAAGGCAACAAACT
Found at i:18767422 original size:23 final size:23
Alignment explanation
Indices: 18767382--18767446 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
18767372 AATTAATTGA
* *
18767382 TTAATTAATCTTTATTATTATTATT
1 TTAA-TAATTTTTATTATTATT-CT
18767407 TTAA-AATTTTTATTATTTATTCT
1 TTAATAATTTTTATTA-TTATTCT
*
18767430 TTAATTATTTTTATTAT
1 TTAATAATTTTTATTAT
18767447 AAAAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 16 0.46
24 15 0.43
25 4 0.11
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (23 bp):
TTAATAATTTTTATTATTATTCT
Found at i:18767439 original size:24 final size:25
Alignment explanation
Indices: 18767382--18767446 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
18767372 AATTAATTGA
* *
18767382 TTAATTAATCTTTATTA-TTATTATT
1 TTAATT-ATTTTTATTATTTATTACT
*
18767407 TTAA-AATTTTTATTATTTATT-CT
1 TTAATTATTTTTATTATTTATTACT
18767430 TTAATTATTTTTATTAT
1 TTAATTATTTTTATTAT
18767447 AAAAAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 14 0.41
24 16 0.47
25 4 0.12
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (25 bp):
TTAATTATTTTTATTATTTATTACT
Found at i:18767774 original size:8 final size:8
Alignment explanation
Indices: 18767761--18767810 Score: 55
Period size: 8 Copynumber: 5.6 Consensus size: 8
18767751 ATTTAAACAA
18767761 TTTTATTT
1 TTTTATTT
18767769 TTTTATTT
1 TTTTATTT
18767777 TATTTATCATT
1 T-TTTAT--TT
18767788 TTTTATAATT
1 TTTTAT--TT
18767798 TTTTATTT
1 TTTTATTT
18767806 TTTTA
1 TTTTA
18767811 GAAAAAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
8 16 0.42
9 5 0.13
10 14 0.37
11 3 0.08
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTATTT
Found at i:18767802 original size:20 final size:20
Alignment explanation
Indices: 18767765--18767803 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18767755 AAACAATTTT
*
18767765 ATTTTTTTATTTTATTTATC
1 ATTTTTTTAATTTATTTATC
18767785 ATTTTTTATAATTT-TTTAT
1 ATTTTTT-TAATTTATTTAT
18767804 TTTTTTAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTTTTAATTTATTTATC
Found at i:18768025 original size:3 final size:3
Alignment explanation
Indices: 18768019--18768055 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
18768009 AACAACAACA
18768019 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18768056 TGATGAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18768943 original size:3 final size:3
Alignment explanation
Indices: 18768937--18768971 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18768927 TTTTTTAGAT
18768937 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
18768972 GAAAAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18769512 original size:2 final size:2
Alignment explanation
Indices: 18769501--18769532 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
18769491 ATGTTTCCTT
18769501 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18769533 ATAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18769538 original size:3 final size:3
Alignment explanation
Indices: 18769530--18769560 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
18769520 TATATATATT
*
18769530 ATA ATA ATA ATA ATA ATA ATA ATC ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18769561 ACCTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18770007 original size:13 final size:13
Alignment explanation
Indices: 18769991--18770020 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18769981 AAGAGCATGC
18769991 AAAAATTATTTAT
1 AAAAATTATTTAT
18770004 AAAAATTATTTAT
1 AAAAATTATTTAT
18770017 AAAA
1 AAAA
18770021 GTAAAATTAA
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:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAATTATTTAT
Found at i:18770201 original size:16 final size:15
Alignment explanation
Indices: 18770182--18770240 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 15
18770172 TTTTTTTGAT
18770182 TATTTACTTAATTTTA
1 TATTTA-TTAATTTTA
18770198 TATTTATATATGTATTTATA
1 TATTTAT-TA---ATTT-TA
18770218 TATTTATTTAATTTTA
1 TATTTA-TTAATTTTA
18770234 TATTTAT
1 TATTTAT
18770241 GTTTAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
15 2 0.05
16 16 0.43
17 4 0.11
19 4 0.11
20 10 0.27
21 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTTATTAATTTTA
Found at i:18770215 original size:12 final size:12
Alignment explanation
Indices: 18770198--18770227 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18770188 CTTAATTTTA
18770198 TATTTATATATG
1 TATTTATATATG
*
18770210 TATTTATATATT
1 TATTTATATATG
18770222 TATTTA
1 TATTTA
18770228 ATTTTATATT
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:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (12 bp):
TATTTATATATG
Found at i:18770253 original size:24 final size:25
Alignment explanation
Indices: 18770226--18770275 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
18770216 TATATTTATT
*
18770226 TAAT-TTTATATTTATGTTTAA-AAA
1 TAATATTT-TATTAATGTTTAATAAA
*
18770250 TAATATTTTATTAATTTTTAATAAA
1 TAATATTTTATTAATGTTTAATAAA
18770275 T
1 T
18770276 TTAATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TAATATTTTATTAATGTTTAATAAA
Found at i:18770917 original size:7 final size:7
Alignment explanation
Indices: 18770902--18770936 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
18770892 TTTTTATTAA
*
18770902 TTCATTT
1 TTCAATT
18770909 TTCAATT
1 TTCAATT
18770916 TTCAATT
1 TTCAATT
18770923 TTCAATT
1 TTCAATT
18770930 TTCAATT
1 TTCAATT
18770937 AATCATTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (7 bp):
TTCAATT
Found at i:18772045 original size:2 final size:2
Alignment explanation
Indices: 18772038--18772077 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
18772028 TGCATGTCTG
18772038 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18772078 TTGTGGAACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:18773276 original size:4 final size:4
Alignment explanation
Indices: 18773269--18773381 Score: 118
Period size: 4 Copynumber: 28.2 Consensus size: 4
18773259 GTGTTTGTAC
* * ** *
18773269 ATAT ATAT ATAC ATAT ATAT ATAT ATAT ACAT ACGT ATAT ATAT ACAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * ** *
18773317 ACAT ATAT ATGT ATAT ATAT ATAT GTAT ATAT GCAT ATAT ATAT ATGT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
*
18773365 ATAT ATAT ATAG ATAT A
1 ATAT ATAT ATAT ATAT A
18773382 AACACACACT
Statistics
Matches: 89, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 89 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (4 bp):
ATAT
Found at i:18773288 original size:14 final size:14
Alignment explanation
Indices: 18773269--18773381 Score: 118
Period size: 14 Copynumber: 8.1 Consensus size: 14
18773259 GTGTTTGTAC
*
18773269 ATATATATATACAT
1 ATATATATATATAT
18773283 ATATATATATATAT
1 ATATATATATATAT
* **
18773297 ACATACGTATATAT
1 ATATATATATATAT
* *
18773311 ATACATACATATAT
1 ATATATATATATAT
*
18773325 ATGTATATATATAT
1 ATATATATATATAT
* **
18773339 ATGTATATATGCAT
1 ATATATATATATAT
*
18773353 ATATATATATGTAT
1 ATATATATATATAT
*
18773367 ATATATATAGATAT
1 ATATATATATATAT
18773381 A
1 A
18773382 AACACACACT
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 81 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:18773297 original size:22 final size:22
Alignment explanation
Indices: 18773269--18773381 Score: 118
Period size: 22 Copynumber: 5.1 Consensus size: 22
18773259 GTGTTTGTAC
*
18773269 ATATATATATACATATATATAT
1 ATATATATATATATATATATAT
* **
18773291 ATATATACATACGTATATATAT
1 ATATATATATATATATATATAT
* * *
18773313 ACATACATATATATGTATATAT
1 ATATATATATATATATATATAT
* **
18773335 ATATATGTATATATGCATATAT
1 ATATATATATATATATATATAT
* *
18773357 ATATATGTATATATATATAGAT
1 ATATATATATATATATATATAT
18773379 ATA
1 ATA
18773382 AACACACACT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 76 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (22 bp):
ATATATATATATATATATATAT
Found at i:18777088 original size:3 final size:3
Alignment explanation
Indices: 18777080--18777110 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
18777070 TTCGAATTCC
18777080 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
18777111 TATTATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:18777155 original size:3 final size:3
Alignment explanation
Indices: 18777147--18777183 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
18777137 AATTCCGCAA
18777147 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18777184 CTCTTCCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Done.