Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold113
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: 3764034
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 4009 characters in sequence are not A, C, G, or T
File 13 of 23
Found at i:1985671 original size:61 final size:61
Alignment explanation
Indices: 1985414--1985753 Score: 257
Period size: 61 Copynumber: 5.4 Consensus size: 61
1985404 TCCTTATTCG
* * * * * * *
1985414 AAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACGACT-TCGTGGCACCTTTTATCCCTTT
1 AAGTCCACAACTCCGTGGCACCCTTT-T-AAAGTCCACAACTCT-ATGGCACCTTTT-T-CTTTT
1985478 T
61 T
*
1985479 AAGTCCATAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACT-TCATGGCACCTTTTTCTTT
1 AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGTCCACAACTCT-ATGGCACCTTTTTCTTT
*
1985543 TA
60 TT
* * * * *
1985545 AAGTCCGCAACTCCGTGACACCTTTTTCTTTTAAAGTCCACAACTCCATGGCACC-----CATTC
1 AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGTCCACAACTCTATGGCACCTTTTTCTTTT
*
1985605 A
61 T
*
1985606 AAGTCCATAACTCCGTGGCACCCTTTT-AAGTCCACAACTCTATGGCACCCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTATGGCA-CCTTTTTCTTTTT
* * * * * *
1985667 AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCTATAACTTTGTGGCACATTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTATGGCACCTTTTTCTTTTT
*
1985727 AAGTCCACAACTCCATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
1985754 TCTTTTAAAT
Statistics
Matches: 233, Mismatches: 30, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
55 19 0.08
56 7 0.03
60 37 0.16
61 68 0.29
65 18 0.08
66 54 0.23
67 1 0.00
68 25 0.11
69 1 0.00
70 3 0.01
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.34
Consensus pattern (61 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTATGGCACCTTTTTCTTTTT
Found at i:1985815 original size:93 final size:94
Alignment explanation
Indices: 1985527--1985845 Score: 291
Period size: 93 Copynumber: 3.5 Consensus size: 94
1985517 CACAACTTCA
* * * *
1985527 TGGCACCTTTTT-CTTTTAAAGTCCGCAACTCCGTGACA-CCTTTTTC-TTTTAAAGTCCACAAC
1 TGGCACATTTTTCCTTTT-AAGTCCACAACTCCATGGCACCCTTTTTCTTTTTAAA-TCCACAAC
* * ** * * *
1985589 TCCATGGCACCCATTCAAAGTCCATAACTCCG
64 TCCGTGACACCC-TTTTAAGTCCACAAATCTG
* *
1985621 TGGCAC------CCTTTTAAGTCCACAACTCTATGGCACCCTTTTTCTTTTTAAGTCCACAACTC
1 TGGCACATTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTTTCTTTTTAAATCCACAACTC
* * * * *
1985680 CGTGGCACCCTTTTAAGTCTATAACTTTG
66 CGTGACACCCTTTTAAGTCCACAAATCTG
*
1985709 TGGCACATTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTTTC-TTTTAAATCCACAACTT
1 TGGCACATTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTTTCTTTTTAAATCCACAACTC
*
1985773 TGTGACA-CCTCTTTAAGTCCACAAATCTG
66 CGTGACACCCT-TTTAAGTCCACAAATCTG
* * * * * *
1985802 TGGCACTTTTTTCCTTTTAAATCTACCACTCCGTGGCATCCTTT
1 TGGCACATTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTT
1985846 CAAAGTCTAC
Statistics
Matches: 189, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
88 36 0.19
89 32 0.17
90 6 0.03
92 3 0.02
93 72 0.38
94 40 0.21
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (94 bp):
TGGCACATTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTTTTCTTTTTAAATCCACAACTC
CGTGACACCCTTTTAAGTCCACAAATCTG
Found at i:1985865 original size:27 final size:27
Alignment explanation
Indices: 1985813--1985866 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
1985803 GGCACTTTTT
* *
1985813 TCCTTTTAAATCTACCACTCCGTGGCA
1 TCCTTTCAAATCTACAACTCCGTGGCA
*
1985840 TCCTTTCAAAGTCTACAATTCC-TGGCA
1 TCCTTTCAAA-TCTACAACTCCGTGGCA
1985867 CTTTTTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.33
Consensus pattern (27 bp):
TCCTTTCAAATCTACAACTCCGTGGCA
Found at i:1985912 original size:34 final size:33
Alignment explanation
Indices: 1985869--1985938 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 33
1985859 TCCTGGCACT
* *
1985869 TTTTTAAGTTTATAACTCCGTGGAACCCTTTTTC
1 TTTTTAAGTTTATAACTCCATGGAA-CATTTTTC
*
1985903 TTTTTAAGTTTATAACTCCATGGCACATTTTTC
1 TTTTTAAGTTTATAACTCCATGGAACATTTTTC
1985936 TTT
1 TTT
1985939 AAAATCCACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 10 0.30
34 23 0.70
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (33 bp):
TTTTTAAGTTTATAACTCCATGGAACATTTTTC
Found at i:1986054 original size:31 final size:31
Alignment explanation
Indices: 1986013--1986172 Score: 194
Period size: 31 Copynumber: 5.1 Consensus size: 31
1986003 AAGTCAATGA
* *
1986013 CAACCCTTCTAAATTCCACACAAGTTGGTGG
1 CAACCTTTCTAAAGTCCACACAAGTTGGTGG
*
1986044 CAACCTTTCTAAAGTCTACACAAGTTGGTGG
1 CAACCTTTCTAAAGTCCACACAAGTTGGTGG
** *
1986075 CAACCTTTCTAAAGTCCACACAAGTCAGTGC
1 CAACCTTTCTAAAGTCCACACAAGTTGGTGG
*
1986106 CAACCCCTTTCTAAAGCCCACACAAGTTGGTGG
1 CAA--CCTTTCTAAAGTCCACACAAGTTGGTGG
* * * *
1986139 CAACCCTCTCGAAAGCCCACACAAGTCGGTGG
1 CAA-CCTTTCTAAAGTCCACACAAGTTGGTGG
1986171 CA
1 CA
1986173 TCTTCTTCTA
Statistics
Matches: 113, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
31 58 0.51
32 28 0.25
33 27 0.24
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (31 bp):
CAACCTTTCTAAAGTCCACACAAGTTGGTGG
Found at i:1986182 original size:64 final size:63
Alignment explanation
Indices: 1986028--1986188 Score: 191
Period size: 64 Copynumber: 2.6 Consensus size: 63
1986018 CTTCTAAATT
* * * * * *
1986028 CCACACAAGTTGGTGGCAACCT-TTCTAAAGTCTACACAAGTTGGTGGCAACCTTTCTAAAGT
1 CCACACAAGTCGGTGGCAACCTCTTCTAAAGCCCACACAAGTTGGTGGCAACCTCTCGAAAGC
* * *
1986090 CCACACAAGTCAGTGCCAACCCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCCTCTCGAAAGC
1 CCACACAAGTCGGTGGCAACCTC-TTCTAAAGCCCACACAAGTTGGTGGCAA-CCTCTCGAAAGC
* *
1986155 CCACACAAGTCGGTGGCATCTTCTTCT-AAGCCCA
1 CCACACAAGTCGGTGGCAACCTCTTCTAAAGCCCA
1986189 ATGTCGTTGG
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
62 18 0.22
63 7 0.09
64 30 0.37
65 27 0.33
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (63 bp):
CCACACAAGTCGGTGGCAACCTCTTCTAAAGCCCACACAAGTTGGTGGCAACCTCTCGAAAGC
Found at i:1986316 original size:52 final size:52
Alignment explanation
Indices: 1986260--1986371 Score: 136
Period size: 52 Copynumber: 2.2 Consensus size: 52
1986250 GTCGTTGGCT
* * *
1986260 TTGAATCAACACATTAACACCTTTTTC-TTTCTTAAGTCTAATATTGCTAGAC
1 TTGAATCAACACATTAACACCTTTGTCATCT-TTAAGTCTAATATCGCTAGAC
* * ** *
1986312 TTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTAATATCGCTAGCC
1 TTGAATCAACACATTAACACCTTTGTCATCTTTAAGTCTAATATCGCTAGAC
1986364 TTGAATCA
1 TTGAATCA
1986372 GCATATTGGC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 49 0.96
53 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (52 bp):
TTGAATCAACACATTAACACCTTTGTCATCTTTAAGTCTAATATCGCTAGAC
Found at i:1986372 original size:52 final size:52
Alignment explanation
Indices: 1986291--1986541 Score: 213
Period size: 52 Copynumber: 4.9 Consensus size: 52
1986281 TTTTTCTTTC
* * *
1986291 TTAAGTCTAATATTGCTAGACTTGAATCAGCATATTGGCAC-CTTTGTCATCT
1 TTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCACTC-TTCTCATCT
*
1986343 TTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCA-TCTTTATCAT-T
1 TTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCACTC-TTCTCATCT
* * * * * * * * * * *
1986394 TTAAGCCCATTGTCGTTGGCCCTGAATCATCATATTGGCATTCTTCTAATTT
1 TTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCACTCTTCTCATCT
* * * *
1986446 TTAAGTCCAATGTCGCT-GCCTTGAATCAGCACATTGGCATTCTTCTCATCT
1 TTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCACTCTTCTCATCT
* * * * * * * *
1986497 TCAAGTCTAATGTTGCTCGTCGTGAATCATCACATTGGCACTCTT
1 TTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCACTCTT
1986542 TTTACCTTTA
Statistics
Matches: 167, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
51 81 0.49
52 86 0.51
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (52 bp):
TTAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCACTCTTCTCATCT
Found at i:1986428 original size:51 final size:50
Alignment explanation
Indices: 1986311--1986485 Score: 192
Period size: 51 Copynumber: 3.4 Consensus size: 50
1986301 TATTGCTAGA
* * * *
1986311 CTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCTAATATCGCTAGC
1 CTTGAATCAGCATATTGGCATCTTTATCAT-TTTAAGTCCAATGTCGCT-GC
* * *
1986363 CTTGAATCAGCATATTGGCATCTTTATCATTTTAAGCCCATTGTCGTTGGC
1 CTTGAATCAGCATATTGGCATCTTTATCATTTTAAGTCCAATGTCGCT-GC
* *
1986414 CCTGAATCATCATATTGGCATTCTTCTA--ATTTTTAAGTCCAATGTCGCTGC
1 CTTGAATCAGCATATTGGCA-TCTT-TATCA-TTTTAAGTCCAATGTCGCTGC
*
1986465 CTTGAATCAGCACATTGGCAT
1 CTTGAATCAGCATATTGGCAT
1986486 TCTTCTCATC
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
50 1 0.01
51 53 0.51
52 48 0.46
53 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (50 bp):
CTTGAATCAGCATATTGGCATCTTTATCATTTTAAGTCCAATGTCGCTGC
Found at i:1986523 original size:103 final size:102
Alignment explanation
Indices: 1986240--1986541 Score: 241
Period size: 103 Copynumber: 2.9 Consensus size: 102
1986230 CATCTCTTTC
* * * * ** * * *
1986240 TAAGTCCAATGTCGTTGGCTTTGAATCAACACATTAACACCTTTTTCT-TTCTTAAGTCTAATAT
1 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA--TTCTTCTCATCTTAAGTCTAATGT
* * * * *
1986304 TGCTAGACTTGAATCAGCATATTGGCACCTTTGTCATCTT
64 TGCTAGACCTGAATCATCATATTGGCATC-TTCTAATCTT
* * * * * * * * *
1986344 TAAGTCTAATATCGCTAGCCTTGAATCAGCATATTGGCA-TCTTTATCATTTTAAGCCCATTGTC
1 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTC-TTCTCATCTTAAGTCTAATGTT
* * * *
1986408 GTTGGCCCTGAATCATCATATTGGCATTCTTCTAATTTT
65 GCTAGACCTGAATCATCATATTGGCA-TCTTCTAATCTT
1986447 TAAGTCCAATGTCGCT-GCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTT
1 TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTCTTCTCATCTT-AAGTCTAATGTT
* * * *
1986511 GCTCGTCGTGAATCATCACATTGGCACTCTT
65 GCTAGACCTGAATCATCATATTGGCA-TCTT
1986542 TTTACCTTTA
Statistics
Matches: 151, Mismatches: 42, Indels: 11
0.74 0.21 0.05
Matches are distributed among these distances:
101 1 0.01
102 32 0.21
103 87 0.58
104 31 0.21
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (102 bp):
TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTAAGTCTAATGTTG
CTAGACCTGAATCATCATATTGGCATCTTCTAATCTT
Found at i:1986765 original size:52 final size:51
Alignment explanation
Indices: 1986613--1986765 Score: 162
Period size: 52 Copynumber: 2.9 Consensus size: 51
1986603 ATCTTTTTCT
* * * * *
1986613 AAGTCCAATGTCGCTGGCCTTGAATCAGGACATAGGCACCTTTGTCATTTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACC-TTCTCATCTTC
* * ** * * *
1986665 AAGCCCAGTGTTACTGACCTTAAATCAGTACATTGGCATTCTTCTCATCTTC
1 AAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCA-CCTTCTCATCTTC
*
1986717 AAGTCCAATGTCGTTGGCCTTGAATCAGTACATTGGCACCATTCTCATC
1 AAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACC-TTCTCATC
1986766 ATTATTATCT
Statistics
Matches: 79, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
51 1 0.01
52 77 0.97
53 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (51 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCTCATCTTC
Found at i:1987497 original size:20 final size:20
Alignment explanation
Indices: 1987472--1987510 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1987462 TGATACAATT
*
1987472 AGTGAATGTATCAATACATA
1 AGTGAATATATCAATACATA
*
1987492 AGTGAATATATCAGTACAT
1 AGTGAATATATCAATACAT
1987511 GCCTCAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (20 bp):
AGTGAATATATCAATACATA
Found at i:1988579 original size:28 final size:30
Alignment explanation
Indices: 1988535--1988595 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
1988525 CGAAAGTTTC
1988535 TTTTAACTTTTCATTATGATTTTT-TCATT
1 TTTTAACTTTTCATTATGATTTTTGTCATT
* *
1988564 TTTTATCTTTT-ATTATGATTTTTGTTATT
1 TTTTAACTTTTCATTATGATTTTTGTCATT
1988593 TTT
1 TTT
1988596 CTTTGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (30 bp):
TTTTAACTTTTCATTATGATTTTTGTCATT
Found at i:1988606 original size:28 final size:28
Alignment explanation
Indices: 1988535--1988607 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
1988525 CGAAAGTTTC
* *
1988535 TTTTAACTTTTCATTATGATTTTTTCATT
1 TTTTATCTTTTCATTATGATTTTTT-ATA
1988564 TTTTATCTTTT-ATTATGATTTTTGT-TA
1 TTTTATCTTTTCATTATGATTTTT-TATA
1988591 TTTT-TCTTTGTCATTAT
1 TTTTATCTTT-TCATTAT
1988608 TTTGATTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 5 0.13
27 6 0.15
28 17 0.44
29 11 0.28
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.68
Consensus pattern (28 bp):
TTTTATCTTTTCATTATGATTTTTTATA
Found at i:1989166 original size:167 final size:166
Alignment explanation
Indices: 1988971--1989827 Score: 727
Period size: 167 Copynumber: 5.2 Consensus size: 166
1988961 GAAAATGTTA
* * *
1988971 GATGAATTTTAAAAATTTTAAACCAAGAAAAATCCCCCCGAAAATATTTATAAAATAGAAAATTC
1 GATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCTCGAAAATATTTATAAAATAGAAAACTC
* * *
1989036 GATTTTTCGAAAATAGAAGAATTTCACAGAAAAAAATGAAAAACTT-ATTAAAAT-AAATGAATT
66 G-TATTTCGAAAATAGAAGAATTTCA-AGAAAAAAATGAAAAAATTCA-TAAAATAAAAGGAATT
* *
1989099 TTTCAAAATTAATTTAATATGAATTAAATGATAATATTT
128 TTTCAAAAATAATTTAATATGAATTAAATGATGATATTT
* * * * ** * *
1989138 TATGAATATTAAAAATCATAAACCAAGAAAAATTCCCTCGAAAATATTTATGGAGTAGAAAACAC
1 GATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCTCGAAAATATTTATAAAATAGAAAAC-T
* *
1989203 CATATTTTGAAAATAGAAGAA-TTCAAG-AAAAAATGAAAAAATTCATAAAATAAAAGGAATTTT
65 CGTATTTCGAAAATAGAAGAATTTCAAGAAAAAAATGAAAAAATTCATAAAATAAAAGGAATTTT
* * *
1989266 TTAAAAATAATTTAATTTGAAATAAATGATGATATTT
130 TCAAAAATAATTTAATATGAATTAAATGATGATATTT
* * * * * *
1989303 GATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCTTGAAAATATTTACAGAGTAAAAAACTT
1 GATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCTCGAAAATATTTATAAAATAGAAAAC-T
* * * *
1989368 TGTATTTCGAAAATA-AAGAAATTTCAAGAAAAGAATGAAAAAATTCATGAAATAAAAGGTATTT
65 CGTATTTCGAAAATAGAAG-AATTTCAAGAAAAAAATGAAAAAATTCATAAAATAAAAGGAATTT
* * *
1989432 TTCAAAACTGATTTAATGTGAATTAAATGATGATATTT
129 TTCAAAAATAATTTAATATGAATTAAATGATGATATTT
* * * *
1989470 GATGAATTTTAAAAATTATAAACTAAGAAAGAT-CCCTCAAAAACATTTA-AAAAGTAGAAAACT
1 GATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCTCGAAAATATTTATAAAA-TAGAAAACT
* * * *
1989533 CTGTATTTC-AGAAATAGGAGAATTTCAA-AGAAAAATG-AAAACTT-ATGAAATAAAAGGAATT
65 C-GTATTTCGA-AAATAGAAGAATTTCAAGAAAAAAATGAAAAAATTCATAAAATAAAAGGAATT
* * * * * * *
1989594 TTTCACAACTGA-TTAAGTGGTG-ATTAACTAATAATATTT
128 TTTCAAAAATAATTTAA-T-ATGAATTAAATGATGATATTT
* * * * * * *
1989633 GAT-AAATTTAAAAATTTTTAAACTAATG-AAAATCCTCTAGAAGAA-AATTACAAAGA-AGAAA
1 GATGAATTTTAAAAA-TTATAAACCAA-GAAAAATCCCCTCGAA-AATATTTATAAA-ATAGAAA
* ** * * * ** *
1989694 GCTTCGTATTTTAAAAATATGAGGAATTTCAA-AAGAAAATG-AAAAACTCATGGAATAAAATGA
62 AC-TCGTATTTCGAAAATA-GAAGAATTTCAAGAAAAAAATGAAAAAATTCATAAAATAAAAGGA
* * * *
1989757 ATTTTT-AAAAACTGATTTGAT-GGTAACTAAAT-A--ATATTT
125 ATTTTTCAAAAA-TAATTTAATATG-AATTAAATGATGATATTT
* *
1989796 GATGAATATTAAAAATTTTAAACCAATGAAAA
1 GATGAATTTTAAAAATTATAAACCAA-GAAAA
1989828 TCTTTCCAAA
Statistics
Matches: 574, Mismatches: 88, Indels: 59
0.80 0.12 0.08
Matches are distributed among these distances:
162 14 0.02
163 80 0.14
164 73 0.13
165 158 0.28
166 77 0.13
167 171 0.30
168 1 0.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (166 bp):
GATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCTCGAAAATATTTATAAAATAGAAAACTC
GTATTTCGAAAATAGAAGAATTTCAAGAAAAAAATGAAAAAATTCATAAAATAAAAGGAATTTTT
CAAAAATAATTTAATATGAATTAAATGATGATATTT
Found at i:1989569 original size:332 final size:328
Alignment explanation
Indices: 1988971--1989827 Score: 868
Period size: 332 Copynumber: 2.6 Consensus size: 328
1988961 GAAAATGTTA
* ** * * *
1988971 GATGAATTTTAAAAATTTTAAACCAAGAAAAATCCCCCCGAAAATATTTATAAAATAGAAAA-TT
1 GATGAATTTTAAAAATTTTAAACCAAGAAAAATCCTCTAGAAAATATTTACAAAGTAAAAAACTT
* * *
1989035 CGATTTTTCGAAAATAGAAGAATTTCACAGAAAAAAATGAAAAACTT-ATTAAA-ATAAATGAAT
66 CG-TATTTCGAAAATAGAAGAATTTCA-AG-AAAAAATGAAAAAATTCATGAAATA-AAATGAAT
* * * * *
1989098 TTTTCAAAATTAATTTAATATGAATTAAATGATAATATTTTATGAATATTAAAAATCATAAACCA
127 TTTTCAAAACTGATTTAATGTGAATTAAATGAT-ATATTTGATGAATATTAAAAATTATAAACCA
* * *** *
1989163 AGAAAAATTCCCTCGAAAATATTTATGGAGTAGAAAACACCATATTTTGAAAATAGAAGAATTCA
191 AGAAAAATTCCCTCAAAAACATTTAAAAAGTAGAAAACACCATATTTAGAAAATAGAAGAATTCA
* *
1989228 AGAAAAAATGAAAAAATTCATAAAATAAAAGGAATTTTTTAAAAATAATTTAA-T-TTGAAATAA
256 AGAAAAAATG-AAAAATT-ATAAAATAAAAGGAATTTTTCAAAAATAA-TTAAGTGGTG-AATAA
* *
1989291 ATGATGATATTT
317 ATAATAATATTT
* * *
1989303 GATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCTTGAAAATATTTACAGAGTAAAAAACTT
1 GATGAATTTTAAAAATTTTAAACCAAGAAAAATCCTCTAGAAAATATTTACAAAGTAAAAAACTT
* * *
1989368 TGTATTTCGAAAATA-AAGAAATTTCAAGAAAAGAATGAAAAAATTCATGAAATAAAAGGTATTT
66 CGTATTTCGAAAATAGAAG-AATTTCAAGAAAA-AATGAAAAAATTCATGAAATAAAATGAATTT
* *
1989432 TTCAAAACTGATTTAATGTGAATTAAATGATGATATTTGATGAATTTTAAAAATTATAAACTAAG
129 TTCAAAACTGATTTAATGTGAATTAAATGAT-ATATTTGATGAATATTAAAAATTATAAACCAAG
* * ** *
1989497 AAAGA-TCCCTCAAAAACATTTAAAAAGTAGAAAACTCTGTATTTCAG-AAATAGGAGAATTTCA
193 AAAAATTCCCTCAAAAACATTTAAAAAGTAGAAAACACCATATTT-AGAAAATAGAAGAA-TTCA
* * * * * * *
1989560 A-AGAAAAATGAAAACTTATGAAATAAAAGGAATTTTTCACAACTGATTAAGTGGTGATTAACTA
256 AGA-AAAAATGAAAAATTATAAAATAAAAGGAATTTTTCAAAAATAATTAAGTGGTGAATAAATA
1989624 ATAATATTT
320 ATAATATTT
* * *
1989633 GAT-AAATTTAAAAATTTTTAAACTAATG-AAAATCCTCTAGAAGAA-AATTACAAAG-AAGAAA
1 GATGAATTTTAAAAA-TTTTAAACCAA-GAAAAATCCTCTAGAA-AATATTTACAAAGTAA-AAA
* ** * * *
1989694 GCTTCGTATTTTAAAAATATGAGGAATTTCAA-AAGAAAATG-AAAAACTCATGGAATAAAATGA
62 ACTTCGTATTTCGAAAATA-GAAGAATTTCAAGAA-AAAATGAAAAAATTCATGAAATAAAATGA
* * * *
1989757 ATTTTTAAAAACTGATTTGATG-GTAACTAAAT-A-ATATTTGATGAATATTAAAAATTTTAAAC
125 ATTTTTCAAAACTGATTTAATGTG-AATTAAATGATATATTTGATGAATATTAAAAATTATAAAC
1989819 CAATGAAAA
189 CAA-GAAAA
1989828 TCTTTCCAAA
Statistics
Matches: 440, Mismatches: 66, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
326 29 0.07
327 4 0.01
328 2 0.00
329 61 0.14
330 99 0.22
331 79 0.18
332 162 0.37
333 4 0.01
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (328 bp):
GATGAATTTTAAAAATTTTAAACCAAGAAAAATCCTCTAGAAAATATTTACAAAGTAAAAAACTT
CGTATTTCGAAAATAGAAGAATTTCAAGAAAAAATGAAAAAATTCATGAAATAAAATGAATTTTT
CAAAACTGATTTAATGTGAATTAAATGATATATTTGATGAATATTAAAAATTATAAACCAAGAAA
AATTCCCTCAAAAACATTTAAAAAGTAGAAAACACCATATTTAGAAAATAGAAGAATTCAAGAAA
AAATGAAAAATTATAAAATAAAAGGAATTTTTCAAAAATAATTAAGTGGTGAATAAATAATAATA
TTT
Found at i:1989772 original size:166 final size:163
Alignment explanation
Indices: 1988971--1989942 Score: 576
Period size: 167 Copynumber: 5.9 Consensus size: 163
1988961 GAAAATGTTA
* * * ** * *
1988971 GATGAATTTTAAAAATTTTAAACCAAGAAAAATCCCCCCGAAAATATTTATAAA-ATAGAAAA-T
1 GATGAAATTTAAAAATTATAAACCAAG-AAAATCCTCTAGAAAACATTTACAAAGA-AGAAAACT
* * * * * * *
1989034 TCGATTTTTCGAAAATAGAAGAATTTCACAGAAAAAAATGAAAAACTTATTAAA-ATAAATGAAT
64 TCG-TATTTCAAAAATAGAGGAATTTCA-A-AAGAAAATGAAAAACTCATGAAATA-AAAGGAAT
* * * * *
1989098 TTTTCAAAATTAATTTAAT-ATGAATTAAATGATAATATTT
125 TTTTCAAAACTGA-TTAATGGTG-ATTAACTAATAATATTT
* * * * *** *
1989138 TATG-AATATTAAAAATCATAAACCAAGAAAAATTCC-CTCGAAAATATTTATGGAGTAGAAAAC
1 GATGAAAT-TTAAAAATTATAAACCAAG-AAAA-TCCTCTAGAAAACATTTACAAAGAAGAAAAC
** * ** * * *
1989201 ACCATATTTTGAAAATAGAAGAA-TTCAAGAA-AAAATGAAAAAATTCATAAAATAAAAGGAATT
63 TTCGTATTTCAAAAATAGAGGAATTTCAA-AAGAAAATG-AAAAACTCATGAAATAAAAGGAATT
* * * * * * * *
1989264 TTTTAAAAATAATTTAAT-TTGAAATAAATGATGATATTT
126 TTTCAAAACTGA-TTAATGGTG-ATTAACTAATAATATTT
* * * *
1989303 GATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCTTGAAAATATTTACAGAGTAA-AAAACT
1 GATGAAATTTAAAAATTATAAACCAAG-AAAATCCTCTAGAAAACATTTACAAAG-AAGAAAACT
* * * * * *
1989367 TTGTATTTCGAAAATAAAGAAATTTCAAGAA-AAGAATGAAAAAATTCATGAAATAAAAGGTATT
64 TCGTATTTCAAAAATAGAGGAATTTCAA-AAGAA-AATG-AAAAACTCATGAAATAAAAGGAATT
* * *
1989431 TTTCAAAACTGATTTAAT-GTGAATTAAATGATGATATTT
126 TTTCAAAACTGA-TTAATGGTG-ATTAACTAATAATATTT
* * * *
1989470 GATGAATTTTAAAAATTATAAACTAAGAAAGATCC-CTCA-AAAACATTTAAAAAGTAGAAAAC-
1 GATGAAATTTAAAAATTATAAACCAAGAAA-ATCCTCT-AGAAAACATTTACAAAGAAGAAAACT
* *
1989532 TCTGTATTTCAGAAATAG-GAGAATTTC-AAAGAAAAATG-AAAACTTATGAAATAAAAGGAATT
64 TC-GTATTTCAAAAATAGAG-GAATTTCAAAAG-AAAATGAAAAACTCATGAAATAAAAGGAATT
*
1989594 TTTCACAACTGATTAAGTGGTGATTAACTAATAATATTT
126 TTTCAAAACTGATTAA-TGGTGATTAACTAATAATATTT
* * * *
1989633 GAT-AAATTTAAAAATTTTTAAACTAATGAAAATCCTCTAGAAGAA-AATTACAAAGAAGAAAGC
1 GATGAAATTTAAAAA-TTATAAACCAA-GAAAATCCTCTAGAA-AACATTTACAAAGAAGAAAAC
* * *
1989696 TTCGTATTTTAAAAATATGAGGAATTTCAAAAGAAAATGAAAAACTCATGGAATAAAATGAATTT
63 TTCGTATTTCAAAAATA-GAGGAATTTCAAAAGAAAATGAAAAACTCATGAAATAAAAGGAATTT
* * *
1989761 TTAAAAACTGATT--TGATG-GTAACTAAATAATATTT
127 TTCAAAACTGATTAATGGTGATTAACT-AATAATATTT
* * * * * ** * *
1989796 GATG-AATATTAAAAATTTTAAACCAATGAAAATCTTTCCAAAAAATATTTACGGAGAAAAAAAT
1 GATGAAAT-TTAAAAATTATAAACCAA-GAAAATC-CTCTAGAAAACATTTACAAAGAAGAAAAC
* * * * **
1989860 TTTGTATTTCGAAAACAGA--AAGTTTTCAAAAGAAAAATGAAAAACTCGA-GAAACAAAAAAAA
63 TTCGTATTTCAAAAATAGAGGAA--TTTCAAAAG-AAAATGAAAAACTC-ATGAAATAAAAGGAA
**
1989922 TTTTGAAAAACTGATTTAATG
124 TTTTTCAAAACTGA-TTAATG
1989943 CAAATTGAAT
Statistics
Matches: 667, Mismatches: 96, Indels: 84
0.79 0.11 0.10
Matches are distributed among these distances:
161 2 0.00
162 19 0.03
163 116 0.17
164 121 0.18
165 148 0.22
166 100 0.15
167 157 0.24
168 4 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (163 bp):
GATGAAATTTAAAAATTATAAACCAAGAAAATCCTCTAGAAAACATTTACAAAGAAGAAAACTTC
GTATTTCAAAAATAGAGGAATTTCAAAAGAAAATGAAAAACTCATGAAATAAAAGGAATTTTTCA
AAACTGATTAATGGTGATTAACTAATAATATTT
Found at i:1990511 original size:16 final size:16
Alignment explanation
Indices: 1990490--1990521 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1990480 TGCCCTTAAT
1990490 GTATCGATACAAGGCC
1 GTATCGATACAAGGCC
1990506 GTATCGATACAAGGCC
1 GTATCGATACAAGGCC
1990522 CTAACGGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (16 bp):
GTATCGATACAAGGCC
Found at i:1990578 original size:20 final size:20
Alignment explanation
Indices: 1990553--1990742 Score: 106
Period size: 20 Copynumber: 9.8 Consensus size: 20
1990543 TTTTCACAAT
1990553 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
1990573 TTGTATCGATACATTCTGGGTTTACCTA
1 TTGTATCGATACA-T-T--G-TT--C-A
*
1990601 GATGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
1990622 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
1990642 TTGTATCGATACATTG-T-A
1 TTGTATCGATACATTGTTCA
* *
1990660 ---T-T-GATACATGGCTCA
1 TTGTATCGATACATTGTTCA
1990675 TTGTATCGATACATTG-T-A
1 TTGTATCGATACATTGTTCA
* *
1990693 ---T-T-GATACATGGCTCA
1 TTGTATCGATACATTGTTCA
1990708 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
1990728 ATGTATCGATACATT
1 TTGTATCGATACATT
1990743 CAGGCATTTT
Statistics
Matches: 135, Mismatches: 10, Indels: 50
0.69 0.05 0.26
Matches are distributed among these distances:
13 16 0.12
14 4 0.03
15 4 0.03
18 4 0.03
19 5 0.04
20 76 0.56
21 3 0.02
22 2 0.01
23 2 0.01
24 1 0.01
25 2 0.01
27 2 0.01
28 2 0.01
29 12 0.09
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:1990656 original size:13 final size:13
Alignment explanation
Indices: 1990640--1990701 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
1990630 ATACATTGCT
1990640 CATTGTATCGATA
1 CATTGTATCGATA
*
1990653 CATTGTATTGATA
1 CATTGTATCGATA
*
1990666 CA-TG----GCT-
1 CATTGTATCGATA
1990673 CATTGTATCGATA
1 CATTGTATCGATA
*
1990686 CATTGTATTGATA
1 CATTGTATCGATA
1990699 CAT
1 CAT
1990702 GGCTCATTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
7 2 0.05
8 4 0.10
12 4 0.10
13 29 0.74
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1990666 original size:33 final size:33
Alignment explanation
Indices: 1990620--1990722 Score: 188
Period size: 33 Copynumber: 3.1 Consensus size: 33
1990610 ATACATTTTG
* *
1990620 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATTGATACATGGCTCATTGTATCGATA
1990653 CATTGTATTGATACATGGCTCATTGTATCGATA
1 CATTGTATTGATACATGGCTCATTGTATCGATA
1990686 CATTGTATTGATACATGGCTCATTGTATCGATA
1 CATTGTATTGATACATGGCTCATTGTATCGATA
1990719 CATT
1 CATT
1990723 TTACAATGTA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (33 bp):
CATTGTATTGATACATGGCTCATTGTATCGATA
Found at i:1990733 original size:53 final size:52
Alignment explanation
Indices: 1990553--1990742 Score: 162
Period size: 53 Copynumber: 3.7 Consensus size: 52
1990543 TTTTCACAAT
** * *
1990553 TTGTATCGATACATTGTTCATTGTATCGATACATT-CTGGGTT-TA-C-CTAGA
1 TTGTATCGATACATT-TTCATTGTATCGATACATTGCT-CATTGTATCGATACA
1990603 -TGTATCGATACATTTTGCATTGTATCGATACATTGCTCATTGTATCGATACA
1 TTGTATCGATACATTTT-CATTGTATCGATACATTGCTCATTGTATCGATACA
* ** * *
1990655 TTGTATTGATACATGGCTCATTGTATCGATACATTG-T-ATTGATACATGGCT-CA
1 TTGTATCGATACAT-TTTCATTGTATCGATACATTGCTCATTG-T--ATCGATACA
*
1990708 TTGTATCGATACATTTTACAATGTATCGATACATT
1 TTGTATCGATACATTTT-CATTGTATCGATACATT
1990743 CAGGCATTTT
Statistics
Matches: 116, Mismatches: 13, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
48 2 0.02
49 33 0.28
50 4 0.03
51 5 0.04
52 6 0.05
53 61 0.53
54 5 0.04
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (52 bp):
TTGTATCGATACATTTTCATTGTATCGATACATTGCTCATTGTATCGATACA
Found at i:1993160 original size:28 final size:25
Alignment explanation
Indices: 1993120--1993194 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 25
1993110 ATTTTTCATA
*
1993120 ATCGGGGGTACTCCAACCTCGTTATGT
1 ATCGGGGATACTCCAACC-CGTTAT-T
1993147 CATCGGGGATACTCCAATCCCGTTATT
1 -ATCGGGGATACTCCAA-CCCGTTATT
*
1993174 TTCGAGGGGATACTCCAACCC
1 ATC--GGGGATACTCCAACCC
1993195 CGATTTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 34 0.81
29 2 0.05
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (25 bp):
ATCGGGGATACTCCAACCCGTTATT
Found at i:1993230 original size:107 final size:106
Alignment explanation
Indices: 1993044--1993251 Score: 278
Period size: 107 Copynumber: 1.9 Consensus size: 106
1993034 TTTTCATCGA
* *
1993044 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATATCAAAAATATT
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATATCAAAAACA-T
* *
1993109 GATTTTTCATAATCGGGGGTACTCCAA-CCTCGTTATGTCATC
65 GATTTTTCACAATCGGGGATACTCCAATCC-CGTTATGTCATC
* * * *
1993151 GGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCTCAAAACACC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTA-TATCAAAA-A-C
1993216 A-G-TTTTTCACAATCGGGGATACTCCAATCCCGTTAT
63 ATGATTTTTCACAATCGGGGATACTCCAATCCCGTTAT
1993252 TTCCGATGGG
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
107 77 0.87
108 10 0.11
109 1 0.01
110 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (106 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATATCAAAAACATG
ATTTTTCACAATCGGGGATACTCCAATCCCGTTATGTCATC
Found at i:1993288 original size:18 final size:18
Alignment explanation
Indices: 1993265--1993301 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1993255 CGATGGGATA
* *
1993265 TTCTAATCCCGATTTTAT
1 TTCTAACCCCGACTTTAT
1993283 TTCTAACCCCGACTTTAT
1 TTCTAACCCCGACTTTAT
1993301 T
1 T
1993302 ACCAATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.05, T:0.46
Consensus pattern (18 bp):
TTCTAACCCCGACTTTAT
Found at i:1993407 original size:79 final size:80
Alignment explanation
Indices: 1993318--1993469 Score: 193
Period size: 80 Copynumber: 1.9 Consensus size: 80
1993308 TTTTCACAAT
* * *
1993318 AGGGGATACTCCAACTCTGA-TTTTATTT-TCAAAATATCGA-TTTTCTATAATCAGGGATACTC
1 AGGGGATACTCCAACCCTGATTTTTATTTCT-AAAACACCGATTTTTC-ATAATCAGGGATACTC
1993380 CAACCCTGTTATTTTCG
64 CAACCCTGTTATTTTCG
* * * *
1993397 AGGGGATACTCTAACCCTGATTTTTATTTCTAGAACACCGATTTTTCATAATCGGGGATACTCTA
1 AGGGGATACTCCAACCCTGATTTTTATTTCTAAAACACCGATTTTTCATAATCAGGGATACTCCA
*
1993462 GCCCTGTT
66 ACCCTGTT
1993470 GTTATCTCCA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
79 18 0.29
80 38 0.61
81 6 0.10
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (80 bp):
AGGGGATACTCCAACCCTGATTTTTATTTCTAAAACACCGATTTTTCATAATCAGGGATACTCCA
ACCCTGTTATTTTCG
Found at i:2000022 original size:16 final size:16
Alignment explanation
Indices: 2000001--2000034 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1999991 TGGGGGAATT
*
2000001 TTAGTTTTAATTTTAA
1 TTAGTTTTAATATTAA
*
2000017 TTAGTTTTGATATTAA
1 TTAGTTTTAATATTAA
2000033 TT
1 TT
2000035 TTAATTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (16 bp):
TTAGTTTTAATATTAA
Found at i:2000092 original size:28 final size:29
Alignment explanation
Indices: 2000043--2000102 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
2000033 TTTTAATTTC
* *
2000043 AAGAAAATTTAAAAAATGAAAAA-AAATAG
1 AAGAAAATGTAAAAAAT-AAAAATAAAAAG
*
2000072 AAGAAAA-GTAAAAACTAAAAATAAAAAG
1 AAGAAAATGTAAAAAATAAAAATAAAAAG
2000100 AAG
1 AAG
2000103 TTGGATGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 15 0.56
29 7 0.26
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.13
Consensus pattern (29 bp):
AAGAAAATGTAAAAAATAAAAATAAAAAG
Found at i:2002669 original size:37 final size:36
Alignment explanation
Indices: 2002619--2002797 Score: 169
Period size: 37 Copynumber: 4.7 Consensus size: 36
2002609 TCAACAGTGT
* **
2002619 CACCGATAAGAATAGTAGTTGTTGTTTTGATTCGTGC
1 CACCGATAAGAATAGT-GTTTTTGTTTTGACCCGTGC
*
2002656 CACCGGTAAGAATAGTGATTTTTGTTTTGACCCGTGC
1 CACCGATAAGAATAGTG-TTTTTGTTTTGACCCGTGC
* **
2002693 CACCGATAAAAATAGTGGTTTTTGTTTCAACCCACCCGTGC
1 CACCGATAAGAATAGT-GTTTTTGTTT----TGACCCGTGC
* *
2002734 CACCGATAAGAATAGTGATTTTTGTTTCGAACCGTGC
1 CACCGATAAGAATAGTG-TTTTTGTTTTGACCCGTGC
* *
2002771 CACCGGATTAGAATAGTGGTCTTTGTT
1 CACC-GATAAGAATAGT-GTTTTTGTT
2002798 CTAACCTATG
Statistics
Matches: 120, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
36 1 0.01
37 66 0.55
38 19 0.16
39 1 0.01
40 1 0.01
41 32 0.27
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (36 bp):
CACCGATAAGAATAGTGTTTTTGTTTTGACCCGTGC
Found at i:2002741 original size:41 final size:42
Alignment explanation
Indices: 2002651--2002766 Score: 145
Period size: 41 Copynumber: 2.9 Consensus size: 42
2002641 TGTTTTGATT
* * *
2002651 CGTGCCACCGGTAAGAATAGTGATTTTTGTTTTG-----ACC
1 CGTGCCACCGATAAAAATAGTGATTTTTGTTTCGAACCCACC
*
2002688 CGTGCCACCGATAAAAATAGTGGTTTTTGTTTC-AACCCACC
1 CGTGCCACCGATAAAAATAGTGATTTTTGTTTCGAACCCACC
*
2002729 CGTGCCACCGATAAGAATAGTGATTTTTGTTTCGAACC
1 CGTGCCACCGATAAAAATAGTGATTTTTGTTTCGAACC
2002767 GTGCCACCGG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
37 29 0.43
41 34 0.51
42 4 0.06
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (42 bp):
CGTGCCACCGATAAAAATAGTGATTTTTGTTTCGAACCCACC
Found at i:2002744 original size:78 final size:79
Alignment explanation
Indices: 2002651--2002797 Score: 233
Period size: 78 Copynumber: 1.9 Consensus size: 79
2002641 TGTTTTGATT
* * * *
2002651 CGTGCCACCGGTAAGAATAGTGATTTTTGTTTTGACCCGTGCCACC-GATAAAAATAGTGGTTTT
1 CGTGCCACCGATAAGAATAGTGATTTTTGTTTCGAACCGTGCCACCGGATAAAAATAGTGGTCTT
2002715 TGTTTCAACCCACC
66 TGTTTCAACCCACC
* *
2002729 CGTGCCACCGATAAGAATAGTGATTTTTGTTTCGAACCGTGCCACCGGATTAGAATAGTGGTCTT
1 CGTGCCACCGATAAGAATAGTGATTTTTGTTTCGAACCGTGCCACCGGATAAAAATAGTGGTCTT
2002794 TGTT
66 TGTT
2002798 CTAACCTATG
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
78 43 0.69
79 19 0.31
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (79 bp):
CGTGCCACCGATAAGAATAGTGATTTTTGTTTCGAACCGTGCCACCGGATAAAAATAGTGGTCTT
TGTTTCAACCCACC
Found at i:2002925 original size:17 final size:17
Alignment explanation
Indices: 2002903--2002936 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2002893 CTGATAAATG
2002903 TGATTTTGTAAA-TAATA
1 TGATTTTG-AAAGTAATA
2002920 TGATTTTGAAAGTAATA
1 TGATTTTGAAAGTAATA
2002937 CGTTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
TGATTTTGAAAGTAATA
Found at i:2006508 original size:21 final size:21
Alignment explanation
Indices: 2006479--2006519 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2006469 GTTTTTAAGG
*
2006479 TAAGGTTTTAGGCTAACTTCA
1 TAAGATTTTAGGCTAACTTCA
*
2006500 TAAGATTTTAGTCTAACTTC
1 TAAGATTTTAGGCTAACTTC
2006520 TCTTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (21 bp):
TAAGATTTTAGGCTAACTTCA
Found at i:2009813 original size:2 final size:2
Alignment explanation
Indices: 2009806--2009839 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2009796 AGTGTATCAC
2009806 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2009840 TAAAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2009919 original size:25 final size:24
Alignment explanation
Indices: 2009891--2009946 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
2009881 TTATTACATG
2009891 TAATATAAATTATATTATATTTATA
1 TAATATAAATTAT-TTATATTTATA
** *
2009916 TAATCATATTTTATTTATTTTTATA
1 TAAT-ATAAATTATTTATATTTATA
*
2009941 TTATAT
1 TAATAT
2009947 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 17 0.65
26 7 0.27
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TAATATAAATTATTTATATTTATA
Found at i:2009955 original size:23 final size:23
Alignment explanation
Indices: 2009903--2009973 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
2009893 ATATAAATTA
* * *
2009903 TATTATATTTATATAATCATATTT
1 TATTTTATTTTTAT-ATTATATTT
2009927 TA-TTTATTTTTATATTATATTT
1 TATTTTATTTTTATATTATATTT
*
2009949 TATTTTAATTTGTTATGTTATATTT
1 TATTTT-ATTT-TTATATTATATTT
2009974 ATCTTAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 10 0.25
23 12 0.30
24 6 0.15
25 12 0.30
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (23 bp):
TATTTTATTTTTATATTATATTT
Found at i:2009975 original size:36 final size:36
Alignment explanation
Indices: 2009900--2009975 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
2009890 GTAATATAAA
* *
2009900 TTATATTATATTTATATAATCATATTTTATTTATTT
1 TTATATTATATTTATATAATAATATTTTATTTATAT
**
2009936 TTATATTATATTT-TATTTTAAT-TTGTTATGTTATAT
1 TTATATTATATTTATATAATAATATT-TTAT-TTATAT
2009972 TTAT
1 TTAT
2009976 CTTAATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
34 2 0.06
35 10 0.29
36 22 0.65
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (36 bp):
TTATATTATATTTATATAATAATATTTTATTTATAT
Found at i:2010318 original size:51 final size:53
Alignment explanation
Indices: 2010192--2010309 Score: 179
Period size: 51 Copynumber: 2.3 Consensus size: 53
2010182 AATAATAATC
* *
2010192 TCAAATTATTATTTAAAAA-ATTATAAAAATTAAAAAATATTTTATATTAAATT
1 TCAAATTACTATTTAAAAATAATA-AAAAATTAAAAAATATTTTATATTAAATT
*
2010245 TTAAATTACTATTTAAAAATAATAAAAAATT-AAAAA-ATTTTATATTAAATT
1 TCAAATTACTATTTAAAAATAATAAAAAATTAAAAAATATTTTATATTAAATT
2010296 TCAAATTACTATTT
1 TCAAATTACTATTT
2010310 TATTATAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
51 28 0.47
52 5 0.08
53 24 0.40
54 3 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (53 bp):
TCAAATTACTATTTAAAAATAATAAAAAATTAAAAAATATTTTATATTAAATT
Found at i:2015800 original size:65 final size:65
Alignment explanation
Indices: 2015717--2015839 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 65
2015707 ATCATTTCAT
** *
2015717 ATTATTATTGAGTCCTTTATG-GTTGC-AAGAACTTTCGTG-TCAAAGGTGTACTTTAAGAATGT
1 ATTATTATTGAGTCCTTTA-GAGTTGCTAAGAACTTTAATGTTAAAAGG-GTACTTTAAGAATGT
2015779 TC
64 TC
* *
2015781 ATTATTTTTAGAGTCCTTTAGAGTTGCTGAGAACTTTAATGTTAAAAGGGTACTTTAAG
1 ATTATTATT-GAGTCCTTTAGAGTTGCTAAGAACTTTAATGTTAAAAGGGTACTTTAAG
2015840 GGTATTTTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
64 9 0.18
65 15 0.30
66 20 0.40
67 6 0.12
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (65 bp):
ATTATTATTGAGTCCTTTAGAGTTGCTAAGAACTTTAATGTTAAAAGGGTACTTTAAGAATGTTC
Found at i:2016916 original size:17 final size:19
Alignment explanation
Indices: 2016848--2016944 Score: 64
Period size: 17 Copynumber: 5.3 Consensus size: 19
2016838 AAGGATTTTA
*
2016848 TATTTTATTTATATTAAAGAT
1 TATTTAATTTATATT-AA-AT
2016869 TATATT-ATTTA-ATTAAA-
1 TAT-TTAATTTATATTAAAT
* *
2016886 TA-TAAATTTTTATTAAAT
1 TATTTAATTTATATTAAAT
*
2016904 TATTT-A-TTATATTTAA-
1 TATTTAATTTATATTAAAT
*
2016920 TATTTAATTTTTATTAAAAT
1 TATTTAATTTATATT-AAAT
2016940 TATTT
1 TATTT
2016945 TTTAATATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
15 1 0.02
16 9 0.15
17 17 0.28
18 10 0.17
19 5 0.08
20 8 0.13
21 8 0.13
22 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (19 bp):
TATTTAATTTATATTAAAT
Found at i:2016940 original size:12 final size:11
Alignment explanation
Indices: 2016888--2016937 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 11
2016878 TAATTAAATA
2016888 TAAATTTTTAT
1 TAAATTTTTAT
2016899 TAAATTATTTAT
1 TAAATT-TTTAT
* *
2016911 TATATTTAATAT
1 TAAATTT-TTAT
*
2016923 TTAATTTTTAT
1 TAAATTTTTAT
2016934 TAAA
1 TAAA
2016938 ATTATTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 13 0.42
12 18 0.58
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TAAATTTTTAT
Found at i:2016951 original size:30 final size:34
Alignment explanation
Indices: 2016890--2016956 Score: 97
Period size: 35 Copynumber: 2.1 Consensus size: 34
2016880 ATTAAATATA
2016890 AATTTTTATTAAATTATTTATTATATTTAATATTT
1 AATTTTTATTAAA-TATTTATTATATTTAATATTT
2016925 AATTTTTATTAAA-A-TTATT-T-TTTAATATTT
1 AATTTTTATTAAATATTTATTATATTTAATATTT
2016955 AA
1 AA
2016957 AAATTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 12 0.38
31 1 0.03
32 5 0.16
33 1 0.03
35 13 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
AATTTTTATTAAATATTTATTATATTTAATATTT
Found at i:2021350 original size:32 final size:32
Alignment explanation
Indices: 2021281--2021351 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
2021271 AACATGCATC
** * *
2021281 CTTTTGAACAGGTCAAAAGTGAAATTTGTTTT
1 CTTTTGAACAACTCAAAAGTGAAACTTGTTCT
*
2021313 CTTTTGAACAACTCAAAAGTGGAACTTGATTCT
1 CTTTTGAACAACTCAAAAGTGAAACTTG-TTCT
2021346 -TTTTGA
1 CTTTTGA
2021352 GTGACTCGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 30 0.91
33 3 0.09
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (32 bp):
CTTTTGAACAACTCAAAAGTGAAACTTGTTCT
Found at i:2023916 original size:79 final size:79
Alignment explanation
Indices: 2023826--2024224 Score: 266
Period size: 79 Copynumber: 5.0 Consensus size: 79
2023816 TGTTGAAATT
*
2023826 AAGTCCATTAGGTTTAGTTTTGTACCTTCTATCGAGATTAAACCTTTTTAAGTTTAGTTTCGTAC
1 AAGTTCATTAGGTTTAGTTTTGTACCTTCTATCGAGATTAAACCTTTTTAAGTTTAGTTTCGTAC
*
2023891 TTTTTATCAAAACC
66 TTTCTATCAAAACC
* ** * * * * * * ** *
2023905 AATTTTGTTAGGTTCACTTTCGTACCTTTTTTTTTGTCAAGA-TCGAGCTTGTTTAAGTTTAGTT
1 AAGTTCATTAGGTTTAGTTTTGTACC-----TTCTATCGAGATTAAACCTT-TTTAAGTTTAGTT
* *
2023969 TCGTA-TCTTCTGTCAAAACT
60 TCGTACT-TTCTATCAAAACC
* * *** * * * * * * *
2023989 GAGTTTATTAAACTTAGTCTTATACCTTCTATC-ATGATTGAACCTTTTTAAATTTAATGTCATA
1 AAGTTCATTAGGTTTAGTTTTGTACCTTCTATCGA-GATTAAACCTTTTTAAGTTTAGTTTCGTA
*
2024053 CTTTCTATCAAAACT
65 CTTTCTATCAAAACC
** * * * *
2024068 AAGTTCATTAGGTTTAGTTAAGTACCTTCTATCGAGACTAAATCTTTTTAAGTTTAGTTTTGTAT
1 AAGTTCATTAGGTTTAGTTTTGTACCTTCTATCGAGATTAAACCTTTTTAAGTTTAGTTTCGTAC
*
2024133 TTTCTGTCAAAACC
66 TTTCTATCAAAACC
* * * * * * * * *
2024147 AAGTTCGTTAGGCTTGGTCTTGTACCTTCTGTCGAGATCT-AATCTCTTTAAATTTAGTTTTGTA
1 AAGTTCATTAGGTTTAGTTTTGTACCTTCTATCGAGAT-TAAACCTTTTTAAGTTTAGTTTCGTA
* *
2024211 CCTTCTACCAAAAC
65 CTTTCTATCAAAAC
2024225 TAAGCTACCA
Statistics
Matches: 237, Mismatches: 71, Indels: 24
0.71 0.21 0.07
Matches are distributed among these distances:
78 1 0.00
79 171 0.72
80 8 0.03
83 6 0.03
84 51 0.22
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (79 bp):
AAGTTCATTAGGTTTAGTTTTGTACCTTCTATCGAGATTAAACCTTTTTAAGTTTAGTTTCGTAC
TTTCTATCAAAACC
Found at i:2024290 original size:87 final size:87
Alignment explanation
Indices: 2024144--2024317 Score: 267
Period size: 87 Copynumber: 2.0 Consensus size: 87
2024134 TTCTGTCAAA
* * * * *
2024144 ACCAAGTTCGTTAGGCTTGGTCTTGTACCTTCTGTCGAGATCTAATCTCTTTAAATTTAGTTTTG
1 ACCAAGTCCGTTAGGCTTGGTCTTGTACCTTCTGTCAAGATCAAACCTCTTTAAATTTAGTTTTA
*
2024209 TACCTTCTACCAAAACTAAGCT
66 TACCTTCTACCAAAACCAAGCT
*
2024231 ACCAAGTCCGTTAGGCTTGGTCTTGTACCTTTTGTCAAGATCAAACCTCTTTAAATTTAGTTTTA
1 ACCAAGTCCGTTAGGCTTGGTCTTGTACCTTCTGTCAAGATCAAACCTCTTTAAATTTAGTTTTA
* *
2024296 TGCCTTCTATCAAAACCAAGCT
66 TACCTTCTACCAAAACCAAGCT
2024318 TGTTAGGTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (87 bp):
ACCAAGTCCGTTAGGCTTGGTCTTGTACCTTCTGTCAAGATCAAACCTCTTTAAATTTAGTTTTA
TACCTTCTACCAAAACCAAGCT
Found at i:2024876 original size:33 final size:33
Alignment explanation
Indices: 2024827--2024889 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
2024817 TAGATGTATC
2024827 GATAGAAGTTGCAATGTATCGATACATTATATT
1 GATAGAAGTTGCAATGTATCGATACATTATATT
* *
2024860 GATATAAGTTGTAATGTATCGATACATTAT
1 GATAGAAGTTGCAATGTATCGATACATTAT
2024890 GAGAAAGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (33 bp):
GATAGAAGTTGCAATGTATCGATACATTATATT
Found at i:2024979 original size:21 final size:20
Alignment explanation
Indices: 2024953--2025010 Score: 91
Period size: 21 Copynumber: 2.9 Consensus size: 20
2024943 ATATACATAG
2024953 GAATGTATCGATACAATGCCA
1 GAATGTATCGATACAAT-CCA
2024974 GAATGTATCGATAC-ATCCA
1 GAATGTATCGATACAATCCA
2024993 GAATTGTATCGATACAAT
1 GAA-TGTATCGATACAAT
2025011 TAGCTCAACG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.17
20 13 0.37
21 16 0.46
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (20 bp):
GAATGTATCGATACAATCCA
Found at i:2025002 original size:20 final size:20
Alignment explanation
Indices: 2024953--2025008 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
2024943 ATATACATAG
2024953 GAATGTATCGATACAATGCCA
1 GAATGTATCGATAC-ATGCCA
2024974 GAATGTATCGATACAT-CCA
1 GAATGTATCGATACATGCCA
2024993 GAATTGTATCGATACA
1 GAA-TGTATCGATACA
2025009 ATTAGCTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.18
20 14 0.41
21 14 0.41
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (20 bp):
GAATGTATCGATACATGCCA
Found at i:2026562 original size:1 final size:1
Alignment explanation
Indices: 2026556--2026609 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
2026546 TAGAGTGTTT
* * * * * *
2026556 AAAAAAAAATAATAAAAAAATAAAAAATAAAAAAAAAAATAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2026610 TTCCAAATGT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (1 bp):
A
Found at i:2026582 original size:18 final size:17
Alignment explanation
Indices: 2026559--2026610 Score: 79
Period size: 17 Copynumber: 3.0 Consensus size: 17
2026549 AGTGTTTAAA
2026559 AAAAAATAATAAAAAAAT
1 AAAAAATAA-AAAAAAAT
2026577 AAAAAATAAAAAAAAA-
1 AAAAAATAAAAAAAAAT
2026593 AATAAAATAAAAAAAAAT
1 AA-AAAATAAAAAAAAAT
2026611 TCCAAATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.06
17 21 0.66
18 9 0.28
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAT
Found at i:2026596 original size:27 final size:28
Alignment explanation
Indices: 2026555--2026610 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 28
2026545 ATAGAGTGTT
2026555 TAAAAAAAAATAATAAAA-AAATAAAAAA
1 TAAAAAAAAATAATAAAATAAA-AAAAAA
2026583 TAAAAAAAAA-AATAAAATAAAAAAAAA
1 TAAAAAAAAATAATAAAATAAAAAAAAA
2026610 T
1 T
2026611 TCCAAATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (28 bp):
TAAAAAAAAATAATAAAATAAAAAAAAA
Found at i:2026608 original size:15 final size:15
Alignment explanation
Indices: 2026555--2026610 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
2026545 ATAGAGTGTT
2026555 TAAAAAAAAAT--AA
1 TAAAAAAAAATAAAA
2026568 TAAAAAAATAA-AAAA
1 TAAAAAAA-AATAAAA
2026583 TAAAAAAAAAAATAAAA
1 T--AAAAAAAAATAAAA
2026600 TAAAAAAAAAT
1 TAAAAAAAAAT
2026611 TCCAAATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.22
14 2 0.05
15 13 0.35
16 2 0.05
17 12 0.32
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (15 bp):
TAAAAAAAAATAAAA
Found at i:2026637 original size:21 final size:21
Alignment explanation
Indices: 2026613--2026711 Score: 191
Period size: 21 Copynumber: 4.8 Consensus size: 21
2026603 AAAAAAATTC
2026613 CAAATGTATCGATACATTCTA
1 CAAATGTATCGATACATTCTA
2026634 CAAATGTATCGATACATTCTA
1 CAAATGTATCGATACATTCTA
2026655 CAAATGTATCGATACATTC-A
1 CAAATGTATCGATACATTCTA
2026675 CAAATGTATCGATACATTCTA
1 CAAATGTATCGATACATTCTA
2026696 CAAATGTATCGATACA
1 CAAATGTATCGATACA
2026712 GGGTCCCAAC
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
20 20 0.26
21 57 0.74
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (21 bp):
CAAATGTATCGATACATTCTA
Found at i:2026690 original size:41 final size:42
Alignment explanation
Indices: 2026613--2026711 Score: 191
Period size: 41 Copynumber: 2.4 Consensus size: 42
2026603 AAAAAAATTC
2026613 CAAATGTATCGATACATTCTACAAATGTATCGATACATTCTA
1 CAAATGTATCGATACATTCTACAAATGTATCGATACATTCTA
2026655 CAAATGTATCGATACATTC-ACAAATGTATCGATACATTCTA
1 CAAATGTATCGATACATTCTACAAATGTATCGATACATTCTA
2026696 CAAATGTATCGATACA
1 CAAATGTATCGATACA
2026712 GGGTCCCAAC
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 38 0.67
42 19 0.33
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (42 bp):
CAAATGTATCGATACATTCTACAAATGTATCGATACATTCTA
Found at i:2026771 original size:19 final size:19
Alignment explanation
Indices: 2026747--2026814 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2026737 AATTCAACAA
2026747 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2026766 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2026781 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2026798 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2026815 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2026786 original size:13 final size:13
Alignment explanation
Indices: 2026768--2026792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2026758 ACATAAGTTT
2026768 TGTATCGATACAA
1 TGTATCGATACAA
2026781 TGTATCGATACA
1 TGTATCGATACA
2026793 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2026790 original size:32 final size:32
Alignment explanation
Indices: 2026749--2026811 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2026739 TTCAACAATT
*
2026749 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2026781 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2026812 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2026872 original size:13 final size:13
Alignment explanation
Indices: 2026854--2026879 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2026844 CATTTTTCTG
2026854 TGTATCGATACAT
1 TGTATCGATACAT
2026867 TGTATCGATACAT
1 TGTATCGATACAT
2026880 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2026876 original size:33 final size:33
Alignment explanation
Indices: 2026834--2026900 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2026824 GCCAAGGAAA
***
2026834 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2026867 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2026900 T
1 T
2026901 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2029364 original size:28 final size:27
Alignment explanation
Indices: 2029297--2029369 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
2029287 CTTCACAATC
* *
2029297 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
2029324 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
2029352 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2029370 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:2029414 original size:51 final size:51
Alignment explanation
Indices: 2029352--2029522 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
2029342 TTATTTCTGA
* * *
2029352 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * * *
2029403 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCCATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
2029456 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
2029508 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2029523 TCGTTATTTC
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 36 0.38
52 18 0.19
53 32 0.33
54 10 0.10
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:2029541 original size:28 final size:28
Alignment explanation
Indices: 2029505--2029586 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2029495 ATTTTTCACA
*
2029505 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
2029533 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
2029561 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
2029587 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:2042000 original size:11 final size:11
Alignment explanation
Indices: 2041984--2042013 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2041974 TTCTCTTCAA
*
2041984 AAAAAAAAAAG
1 AAAAAAAAAAC
2041995 AAAAAAAAAAC
1 AAAAAAAAAAC
2042006 AAAAAAAA
1 AAAAAAAA
2042014 CAAAACAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.93, C:0.03, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:2042002 original size:15 final size:15
Alignment explanation
Indices: 2041982--2042044 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
2041972 CCTTCTCTTC
2041982 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
*
2041997 AAAAAAAACAAA-AA
1 AAAAAAAAAAAAGAA
* *
2042011 AAACAAAACAAAGAA
1 AAAAAAAAAAAAGAA
* * *
2042026 AAAGAGAGAAAAGAA
1 AAAAAAAAAAAAGAA
2042041 AAAA
1 AAAA
2042045 CCTACTTAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
14 13 0.32
15 27 0.68
ACGTcount: A:0.86, C:0.05, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Found at i:2043095 original size:55 final size:55
Alignment explanation
Indices: 2043010--2044024 Score: 1444
Period size: 55 Copynumber: 18.3 Consensus size: 55
2043000 TCCGCTTTTT
*
2043010 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
2043065 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
2043120 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
2043175 AGTCCTCAACGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
2043230 AGTCCCCAAAGAGCAGGACACGTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
2043285 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
2043340 AGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
2043396 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
2043451 AGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
2043506 AGTCCCCGAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* * **
2043561 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
2043616 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
2043677 AGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
2043732 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
2043787 AGTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C
2043842 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
2043897 ATTCCCCAAAGAGCAGGACACTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
2043952 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
2044007 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
2044025 TACAATTTAT
Statistics
Matches: 884, Mismatches: 53, Indels: 46
0.90 0.05 0.05
Matches are distributed among these distances:
54 20 0.02
55 743 0.84
56 70 0.08
57 2 0.00
59 1 0.00
61 48 0.05
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:2043145 original size:27 final size:27
Alignment explanation
Indices: 2043057--2043145 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 27
2043047 AAGTTGGTGG
2043057 CACCTTT-CAGTCCTCAAAGAGCAGGA
1 CACCTTTCCAGTCCTCAAAGAGCAGGA
* * * * **
2043083 CACCTTTCAAAGCCCACACAAGTTGGTGG-
1 CACCTTTC-CAGTCCTCA-AAG-AGCAGGA
*
2043112 CA-TTTTCCAGTCCTCAAAGAGCAGGA
1 CACCTTTCCAGTCCTCAAAGAGCAGGA
2043138 CACCTTTC
1 CACCTTTC
2043146 AAAGCCCACA
Statistics
Matches: 43, Mismatches: 14, Indels: 11
0.63 0.21 0.16
Matches are distributed among these distances:
25 3 0.07
26 12 0.28
27 10 0.23
28 10 0.23
29 5 0.12
30 3 0.07
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (27 bp):
CACCTTTCCAGTCCTCAAAGAGCAGGA
Found at i:2043418 original size:27 final size:27
Alignment explanation
Indices: 2043335--2043418 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 27
2043325 TTGGTGGCAT
2043335 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * * **
2043362 TCTCAAAGCCCACACAAGTTGGTGG-CACC
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
2043391 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
2043418 T
1 T
2043419 CTTAAAGCCC
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
26 3 0.08
27 11 0.28
28 12 0.31
29 10 0.26
30 3 0.08
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:2043698 original size:26 final size:26
Alignment explanation
Indices: 2043669--2043758 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
2043659 AAGTTGGTGG
2043669 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
* * **
2043695 CACCTCTTAAAG-CCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCC-CA-AAG-AGCAGGA
*
2043724 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
2043750 CACCTTTCA
1 CACCTTTCA
2043759 AAGCCCACAC
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (26 bp):
CACCTTTCAGTCCCCAAAGAGCAGGA
Found at i:2044601 original size:1 final size:1
Alignment explanation
Indices: 2044595--2044649 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
2044585 TAGAGTGTTT
* * * * * *
2044595 AAAAAAAAATAATAAAAAAATAAAAAATAAAAAAAAAATAAAATAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2044650 TTCCAAATGT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (1 bp):
A
Found at i:2044621 original size:18 final size:17
Alignment explanation
Indices: 2044598--2044647 Score: 75
Period size: 16 Copynumber: 2.9 Consensus size: 17
2044588 AGTGTTTAAA
2044598 AAAAAATAATAAAAAAAT
1 AAAAAATAA-AAAAAAAT
2044616 AAAAAATAAAAAAAAA-
1 AAAAAATAAAAAAAAAT
*
2044632 ATAAAATAAAAAAAAA
1 AAAAAATAAAAAAAAA
2044648 AATTCCAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 15 0.48
17 7 0.23
18 9 0.29
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAT
Found at i:2044648 original size:18 final size:18
Alignment explanation
Indices: 2044598--2044650 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
2044588 AGTGTTTAAA
*
2044598 AAAAAATAATAAAAAAAT
1 AAAAAATAAAAAAAAAAT
2044616 AAAAAATAAAAAAAAAAT
1 AAAAAATAAAAAAAAAAT
*
2044634 AAAATA-AAAAAAAAAAT
1 AAAAAATAAAAAAAAAAT
2044651 TCCAAATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
17 11 0.33
18 22 0.67
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (18 bp):
AAAAAATAAAAAAAAAAT
Found at i:2044698 original size:20 final size:21
Alignment explanation
Indices: 2044653--2044730 Score: 149
Period size: 21 Copynumber: 3.8 Consensus size: 21
2044643 AAAAAAATTC
2044653 CAAATGTATCGATACATTCTA
1 CAAATGTATCGATACATTCTA
2044674 CAAATGTATCGATACATTC-A
1 CAAATGTATCGATACATTCTA
2044694 CAAATGTATCGATACATTCTA
1 CAAATGTATCGATACATTCTA
2044715 CAAATGTATCGATACA
1 CAAATGTATCGATACA
2044731 GGGTCCCAAC
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
20 20 0.36
21 36 0.64
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (21 bp):
CAAATGTATCGATACATTCTA
Found at i:2044710 original size:41 final size:40
Alignment explanation
Indices: 2044649--2044730 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 40
2044639 AAAAAAAAAA
2044649 ATTCCAAATGTATCGATACATTCTACAAATGTATCGATAC
1 ATTCCAAATGTATCGATACATTCTACAAATGTATCGATAC
2044689 ATTCACAAATGTATCGATACATTCTACAAATGTATCGATAC
1 ATTC-CAAATGTATCGATACATTCTACAAATGTATCGATAC
2044730 A
1 A
2044731 GGGTCCCAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 4 0.10
41 37 0.90
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (40 bp):
ATTCCAAATGTATCGATACATTCTACAAATGTATCGATAC
Found at i:2044790 original size:19 final size:19
Alignment explanation
Indices: 2044766--2044833 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2044756 AATTCAACAA
2044766 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2044785 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2044800 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2044817 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2044834 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2044805 original size:13 final size:13
Alignment explanation
Indices: 2044787--2044811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2044777 ACATAAGTTT
2044787 TGTATCGATACAA
1 TGTATCGATACAA
2044800 TGTATCGATACA
1 TGTATCGATACA
2044812 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2044809 original size:32 final size:32
Alignment explanation
Indices: 2044768--2044830 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2044758 TTCAACAATT
*
2044768 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2044800 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2044831 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2044891 original size:13 final size:13
Alignment explanation
Indices: 2044873--2044898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2044863 CATTTTTCTG
2044873 TGTATCGATACAT
1 TGTATCGATACAT
2044886 TGTATCGATACAT
1 TGTATCGATACAT
2044899 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2044895 original size:33 final size:33
Alignment explanation
Indices: 2044853--2044919 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2044843 GCCAAGGAAA
***
2044853 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2044886 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2044919 T
1 T
2044920 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2047383 original size:28 final size:27
Alignment explanation
Indices: 2047316--2047388 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
2047306 CTTCACAATC
* *
2047316 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
2047343 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
2047371 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2047389 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:2047433 original size:51 final size:51
Alignment explanation
Indices: 2047371--2047541 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
2047361 TTATTTCTGA
* * *
2047371 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * * *
2047422 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCCATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
2047475 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
2047527 GAGGATACTCCAACC
1 GGGGATACTCCAACC
2047542 TCGTTATTTC
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 36 0.38
52 18 0.19
53 32 0.33
54 10 0.10
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:2047560 original size:28 final size:28
Alignment explanation
Indices: 2047524--2047605 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2047514 ATTTTTCACA
*
2047524 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
2047552 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
2047580 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
2047606 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:2050520 original size:30 final size:30
Alignment explanation
Indices: 2050449--2050521 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
2050439 AAGTAAATAA
*
2050449 AAAAAGAAAAAAAGCAAAATCATGAAATTG
1 AAAAAGAAAAAGAGCAAAATCATGAAATTG
2050479 AAAAAGAAAAAGAGCAAAATCATGAAATTG
1 AAAAAGAAAAAGAGCAAAATCATGAAATTG
2050509 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
2050522 AAATAAAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.68, C:0.05, G:0.15, T:0.11
Consensus pattern (30 bp):
AAAAAGAAAAAGAGCAAAATCATGAAATTG
Found at i:2052455 original size:65 final size:65
Alignment explanation
Indices: 2052374--2052504 Score: 237
Period size: 65 Copynumber: 2.0 Consensus size: 65
2052364 GCCTTAATAT
2052374 TGCATGATAGGCTAAATATCTTGTGTTTCATTCTGTCATCAAAATACCCCTCTA-ATTTAGGTAT
1 TGCATGATAGGCTAAATATCTTGTGTTTCATTCTGTCATCAAAATACCCCTC-AGATTTAGGTAT
2052438 A
65 A
*
2052439 TGCATGATAGGCTAAATATCTTGTGTTTCATTTTGTCATCAAAATACCCCTCAGATTTAGGTATA
1 TGCATGATAGGCTAAATATCTTGTGTTTCATTCTGTCATCAAAATACCCCTCAGATTTAGGTATA
2052504 T
1 T
2052505 TCTGTCATGC
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
64 1 0.02
65 63 0.98
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (65 bp):
TGCATGATAGGCTAAATATCTTGTGTTTCATTCTGTCATCAAAATACCCCTCAGATTTAGGTATA
Found at i:2059756 original size:21 final size:20
Alignment explanation
Indices: 2059718--2059760 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2059708 ATACTTTGAG
2059718 TTATTTTTACTTGAAAAACA
1 TTATTTTTACTTGAAAAACA
2059738 TTATTTTTATGCTTG-AAAACA
1 TTATTTTTA--CTTGAAAAACA
2059759 TT
1 TT
2059761 TAATCATATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTATTTTTACTTGAAAAACA
Found at i:2060937 original size:13 final size:13
Alignment explanation
Indices: 2060919--2060943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2060909 TTCTACAATT
2060919 TGTATCGATACAA
1 TGTATCGATACAA
2060932 TGTATCGATACA
1 TGTATCGATACA
2060944 GAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2062018 original size:20 final size:21
Alignment explanation
Indices: 2061979--2062019 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2061969 ACAACCCATG
*
2061979 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTTGAGATATGT
*
2062000 TTCATGCATTTTTA-ATATGT
1 TTCATGCATTTTGAGATATGT
2062020 CCAACATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (21 bp):
TTCATGCATTTTGAGATATGT
Found at i:2064473 original size:20 final size:20
Alignment explanation
Indices: 2064450--2064502 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2064440 ACATTTCTTC
*
2064450 ATGTATCGATACATGGTATA
1 ATGTATCGATACATGGTACA
* *
2064470 ATGTATCGATACATTGTACC
1 ATGTATCGATACATGGTACA
2064490 ATGTATCGATACA
1 ATGTATCGATACA
2064503 AATAGTGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATGGTACA
Found at i:2065203 original size:44 final size:46
Alignment explanation
Indices: 2065118--2065206 Score: 155
Period size: 44 Copynumber: 2.0 Consensus size: 46
2065108 TTCTTCCCAA
*
2065118 AAAAAATTTCTCCCCCTTAAACACGATTATCTCCTCCTTTATAAAT
1 AAAAAATTTCTCCCCCTTAAACACGATTATCTCCCCCTTTATAAAT
2065164 AAAAAATTTCTCCCCCTT-AA-ACGATTATCTCCCCCTTTATAAA
1 AAAAAATTTCTCCCCCTTAAACACGATTATCTCCCCCTTTATAAA
2065207 AAATTTCTCC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 22 0.52
45 2 0.05
46 18 0.43
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (46 bp):
AAAAAATTTCTCCCCCTTAAACACGATTATCTCCCCCTTTATAAAT
Found at i:2065220 original size:20 final size:20
Alignment explanation
Indices: 2065162--2065231 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
2065152 TCCTTTATAA
*
2065162 ATAAAAAATTTCTCCCC-CT
1 ATAAAAAATTTCTCCCCTTT
**
2065181 -TAAACGATTATCTCCCCCTTT
1 ATAAAAAATT-TCT-CCCCTTT
2065202 ATAAAAAATTTCTCCCCTTT
1 ATAAAAAATTTCTCCCCTTT
2065222 ATAAAAAATT
1 ATAAAAAATT
2065232 ATTTTCACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 7 0.17
19 3 0.07
20 21 0.50
21 4 0.10
22 7 0.17
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAAAAAATTTCTCCCCTTT
Found at i:2067090 original size:13 final size:13
Alignment explanation
Indices: 2067072--2067100 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2067062 AAATAGTACC
2067072 CAATGTATCGATA
1 CAATGTATCGATA
2067085 CAATGTATCGATA
1 CAATGTATCGATA
2067098 CAA
1 CAA
2067101 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2067297 original size:29 final size:32
Alignment explanation
Indices: 2067247--2067315 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
2067237 AAACAAACAT
* *
2067247 AATTCAATCATACAACAGAGCA-AA-CATCAA
1 AATTCATTCATACAACAAAGCAGAATCATCAA
2067277 AATTCATTCA-ACAACAAAGCATGAATCATCAA
1 AATTCATTCATACAACAAAGCA-GAATCATCAA
*
2067309 AAATCAT
1 AATTCAT
2067316 AAAATCACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 10 0.30
30 9 0.27
31 2 0.06
32 12 0.36
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.20
Consensus pattern (32 bp):
AATTCATTCATACAACAAAGCAGAATCATCAA
Found at i:2069856 original size:33 final size:33
Alignment explanation
Indices: 2069819--2069885 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2069809 TTCAACGATT
2069819 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2069852 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2069885 T
1 T
2069886 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2069857 original size:13 final size:13
Alignment explanation
Indices: 2069839--2069863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2069829 CATAAAATGT
2069839 TGTATCGATACAA
1 TGTATCGATACAA
2069852 TGTATCGATACA
1 TGTATCGATACA
2069864 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2069944 original size:13 final size:13
Alignment explanation
Indices: 2069926--2069950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2069916 ATTACTCAAA
2069926 TGTATCGATACAT
1 TGTATCGATACAT
2069939 TGTATCGATACA
1 TGTATCGATACA
2069951 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2070052 original size:52 final size:52
Alignment explanation
Indices: 2069959--2070086 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
2069949 CACTGATCTT
*
2069959 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
2070010 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
2070062 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2070087 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:2076984 original size:19 final size:19
Alignment explanation
Indices: 2076940--2076995 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
2076930 CTGCCAGTTT
**
2076940 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
2076960 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2076979 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2076996 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2076998 original size:13 final size:13
Alignment explanation
Indices: 2076980--2077006 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2076970 TACAATGAAC
2076980 ATGTATCGATACA
1 ATGTATCGATACA
2076993 ATGTATCGATACA
1 ATGTATCGATACA
2077006 A
1 A
2077007 AGCAGCATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2077021 original size:33 final size:32
Alignment explanation
Indices: 2076961--2077025 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
2076951 ACAATTGTCC
*
2076961 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
2076993 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
2077026 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:2081721 original size:9 final size:9
Alignment explanation
Indices: 2081707--2081786 Score: 65
Period size: 9 Copynumber: 8.9 Consensus size: 9
2081697 GAGTTCCCTT
2081707 AAAAAAAAC
1 AAAAAAAAC
2081716 AAAAAAAAC
1 AAAAAAAAC
*
2081725 -AAACAAAC
1 AAAAAAAAC
**
2081733 AAGAAAGCAC
1 AA-AAAAAAC
*
2081743 AAAAAAAGC
1 AAAAAAAAC
*
2081752 -AAAAACAC
1 AAAAAAAAC
* *
2081760 AAAAAATAT
1 AAAAAAAAC
2081769 AAAAAAAAC
1 AAAAAAAAC
2081778 AAAACAAAA
1 AAAA-AAAA
2081787 AAATATAAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
8 13 0.24
9 31 0.57
10 10 0.19
ACGTcount: A:0.80, C:0.14, G:0.04, T:0.03
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:2081787 original size:24 final size:24
Alignment explanation
Indices: 2081743--2081814 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 24
2081733 AAGAAAGCAC
2081743 AAAAAAAGCAAAAACACAAAAAATAT
1 AAAAAAAGC-AAAACA-AAAAAATAT
*
2081769 AAAAAAAACAAAACAAAAAAATAT
1 AAAAAAAGCAAAACAAAAAAATAT
*
2081793 AAAAAAAGGCAAAATAAAAAAA
1 AAAAAAA-GCAAAACAAAAAAA
2081815 GGAACAACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 16 0.38
25 18 0.43
26 8 0.19
ACGTcount: A:0.81, C:0.08, G:0.04, T:0.07
Consensus pattern (24 bp):
AAAAAAAGCAAAACAAAAAAATAT
Found at i:2081796 original size:15 final size:14
Alignment explanation
Indices: 2081707--2081789 Score: 50
Period size: 13 Copynumber: 6.2 Consensus size: 14
2081697 GAGTTCCCTT
2081707 AAAA-AAAACAAAA
1 AAAACAAAACAAAA
2081720 AAAAC-AAACAAACA
1 AAAACAAAACAAA-A
* **
2081734 AGAA-AGCACAAAA
1 AAAACAAAACAAAA
* * *
2081747 AAAGCAAAA-ACAC
1 AAAACAAAACAAAA
* *
2081760 AAAA-AATATAAAA
1 AAAACAAAACAAAA
2081773 AAAACAAAACAAAA
1 AAAACAAAACAAAA
2081787 AAA
1 AAA
2081790 TATAAAAAAA
Statistics
Matches: 49, Mismatches: 15, Indels: 11
0.65 0.20 0.15
Matches are distributed among these distances:
12 3 0.06
13 25 0.51
14 21 0.43
ACGTcount: A:0.81, C:0.13, G:0.04, T:0.02
Consensus pattern (14 bp):
AAAACAAAACAAAA
Found at i:2083029 original size:33 final size:32
Alignment explanation
Indices: 2082992--2083331 Score: 193
Period size: 33 Copynumber: 10.7 Consensus size: 32
2082982 TCTCTTCTCC
* *
2082992 AAGTCCACGACTCAGTAGCATCTTTTTTCTTCG
1 AAGTCCACGACTCAGTGGCATC-TTTTTCTTCA
* *
2083025 AAGTCCATGACTCAGTGGCATC-TTTTC-TCC
1 AAGTCCACGACTCAGTGGCATCTTTTTCTTCA
* ** *
2083055 TAGTCCACGACAT-AGTGGCATC-CCTTCCT-A
1 AAGTCCACGAC-TCAGTGGCATCTTTTTCTTCA
* *
2083085 AAGTCCATGACTCAGTGGCATCCTTTTTCTTCC
1 AAGTCCACGACTCAGTGGCAT-CTTTTTCTTCA
* * *
2083118 AAGTCCACAACTTAGTGGCATCTTTTTTCTCCCA
1 AAGTCCACGACTCAGTGGCATC-TTTTTCT-TCA
* *
2083152 AAGTCCACGACTTAGTGGTATCCTTTTTCTTCCCA
1 AAGTCCACGACTCAGTGGCAT-CTTTTTCTT--CA
* * * ** *
2083187 AAGCCCACAACTCTGTGGCA-C-CCTTCCT-A
1 AAGTCCACGACTCAGTGGCATCTTTTTCTTCA
*
2083216 AAGTCCACGACTCAGTGGCAACCTTTTTCTTGC-
1 AAGTCCACGACTCAGTGGC-ATCTTTTTCTT-CA
* ** *
2083249 AAGTCCATGACTTTGTGGCA-C-TTTTCCT-A
1 AAGTCCACGACTCAGTGGCATCTTTTTCTTCA
* ** *
2083278 AAATCCATTACTCAGTGGCAACCTTTTTCTTCCA
1 AAGTCCACGACTCAGTGGC-ATCTTTTTCTT-CA
* *
2083312 AA-TCCATGACCCAGTGGCAT
1 AAGTCCACGACTCAGTGGCAT
2083332 TGTTTTAAGT
Statistics
Matches: 237, Mismatches: 48, Indels: 45
0.72 0.15 0.14
Matches are distributed among these distances:
29 33 0.14
30 48 0.20
31 11 0.05
32 21 0.09
33 76 0.32
34 30 0.13
35 18 0.08
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.32
Consensus pattern (32 bp):
AAGTCCACGACTCAGTGGCATCTTTTTCTTCA
Found at i:2083065 original size:63 final size:61
Alignment explanation
Indices: 2082981--2083147 Score: 185
Period size: 63 Copynumber: 2.7 Consensus size: 61
2082971 AATCTGTCAA
* * *
2082981 ATCTCTTCTCCAAGTCCACGACTCAGTAGCATCTTTTTTCTTCGAAGTCCATGACTCAGTGGC
1 ATCTTTTCTCCAAGTCCACGACT-AGTGGCATCTTTTTTCTT-AAAGTCCATGACTCAGTGGC
* ** *
2083044 ATCTTTTCTCCTAGTCCACGACATAGTGGCATC--CCTTCCTAAAGTCCATGACTCAGTGGC
1 ATCTTTTCTCCAAGTCCACGAC-TAGTGGCATCTTTTTTCTTAAAGTCCATGACTCAGTGGC
*
2083104 ATCCTTTTTCTTCCAAGTCCACAACTTAGTGGCATCTTTTTTCT
1 AT-C-TTTTC-TCCAAGTCCACGAC-TAGTGGCATCTTTTTTCT
2083148 CCCAAAGTCC
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
60 21 0.25
61 5 0.06
62 5 0.06
63 50 0.59
64 1 0.01
65 3 0.04
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.35
Consensus pattern (61 bp):
ATCTTTTCTCCAAGTCCACGACTAGTGGCATCTTTTTTCTTAAAGTCCATGACTCAGTGGC
Found at i:2083223 original size:29 final size:29
Alignment explanation
Indices: 2083180--2083240 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
2083170 TATCCTTTTT
* *
2083180 CTTCCCAAAGCCCACAACTCTGTGGCACC
1 CTTCCCAAAGCCCACAACTCAGTGGCAAC
* * *
2083209 CTTCCTAAAGTCCACGACTCAGTGGCAAC
1 CTTCCCAAAGCCCACAACTCAGTGGCAAC
2083238 CTT
1 CTT
2083241 TTTCTTGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.39, G:0.15, T:0.21
Consensus pattern (29 bp):
CTTCCCAAAGCCCACAACTCAGTGGCAAC
Found at i:2083291 original size:62 final size:62
Alignment explanation
Indices: 2083025--2083317 Score: 259
Period size: 62 Copynumber: 4.6 Consensus size: 62
2083015 TTTTTCTTCG
* * * * * * **
2083025 AAGTCCATGACTCAGTGGC-ATC-TTTTC-TCCTAGTCCACGACATAGTGGCATCCCTTCCTA
1 AAGTCCACGACTCAGTGGCAACCTTTTTCTTCCAAGTCCACAACTTTGTGGCA-CTTTTCCTA
* * *
2083085 AAGTCCATGACTCAGTGGCATCCTTTTTCTTCCAAGTCCACAACTTAGTGGCATCTTTTTTCTCC
1 AAGTCCACGACTCAGTGGCAACCTTTTTCTTCCAAGTCCACAACTTTGTGGCA-C---TTT-TCC
*
2083150 CA
61 TA
* * * * * **
2083152 AAGTCCACGACTTAGTGGTATCCTTTTTCTTCCCAAAGCCCACAACTCTGTGGCACCCTTCCTA
1 AAGTCCACGACTCAGTGGCAACCTTTTTCTT-CC-AAGTCCACAACTTTGTGGCACTTTTCCTA
* **
2083216 AAGTCCACGACTCAGTGGCAACCTTTTTCTTGCAAGTCCATGACTTTGTGGCACTTTTCCTA
1 AAGTCCACGACTCAGTGGCAACCTTTTTCTTCCAAGTCCACAACTTTGTGGCACTTTTCCTA
* ** *
2083278 AAATCCATTACTCAGTGGCAACCTTTTTCTTCCAAATCCA
1 AAGTCCACGACTCAGTGGCAACCTTTTTCTTCCAAGTCCA
2083318 TGACCCAGTG
Statistics
Matches: 192, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
60 19 0.10
61 1 0.01
62 63 0.33
63 23 0.12
64 32 0.17
65 1 0.01
66 1 0.01
67 32 0.17
68 3 0.02
69 17 0.09
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (62 bp):
AAGTCCACGACTCAGTGGCAACCTTTTTCTTCCAAGTCCACAACTTTGTGGCACTTTTCCTA
Found at i:2083414 original size:34 final size:34
Alignment explanation
Indices: 2083375--2083454 Score: 110
Period size: 32 Copynumber: 2.4 Consensus size: 34
2083365 TCCACGATCT
* *
2083375 CGTGGCACCCTTTTTCCTTTTAAGTCTACAGCTC
1 CGTGGCACCCTTTTTCCTATTAAGTCTACAACTC
* *
2083409 TGTGGCA-TC-TTTTCCTATTAAGTCTACAACTC
1 CGTGGCACCCTTTTTCCTATTAAGTCTACAACTC
2083441 CGTGGCACCCTTTT
1 CGTGGCACCCTTTT
2083455 AAGTCCACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
32 27 0.71
33 2 0.05
34 9 0.24
ACGTcount: A:0.16, C:0.30, G:0.15, T:0.39
Consensus pattern (34 bp):
CGTGGCACCCTTTTTCCTATTAAGTCTACAACTC
Found at i:2083464 original size:27 final size:27
Alignment explanation
Indices: 2083390--2083972 Score: 218
Period size: 27 Copynumber: 19.2 Consensus size: 27
2083380 CACCCTTTTT
* *
2083390 CCTTTTAAGTCTACAGCTCTGTGGCATC
1 CCTTTTAAGTCCACAACTCTGTGGCA-C
* * *
2083418 TTTTCCTATTAAGTCTACAACTCCGTGGCAC
1 ----CCTTTTAAGTCCACAACTCTGTGGCAC
2083449 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
** *
2083476 ATTTTTTTTTGAAAGTCCACAACTCTGTGGTAC
1 ----CCTTTT--AAGTCCACAACTCTGTGGCAC
* *
2083509 TCTTTTAAGTCCACAACTCTGTAGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
* * *
2083536 CTTTTTTCTTTTCAAAGTCCATAACTCCGTAGCAC
1 C------CTTTT--AAGTCCACAACTCTGTGGCAC
*
2083571 CCTTTTAAGTCCACAACTCTATGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
* * * *
2083598 CTTTTTTCTTTTCAAAGTCTACAACTCTATGGTAT
1 C------CTTTT--AAGTCCACAACTCTGTGGCAC
* * * *
2083633 TCTTTTAAGTCCACAACTTTATGGTAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
*
2083660 CTTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACC
1 C------CTTTT--AAGTCCACAACTCTGTGGCA-C
* *
2083696 TTTTTTCCTTTTAAAGTTCACAACTCCGTGGCAC
1 ------CCTTTT-AAGTCCACAACTCTGTGGCAC
* *
2083730 CCTTTAAAGTCTACAACTCTGTGGCA-
1 CCTTTTAAGTCCACAACTCTGTGGCAC
*
2083756 CCTTCTTAAGTCCACAACTTTGTGGCACC
1 CCTT-TTAAGTCCACAACTCTGTGGCA-C
*
2083785 TTTTTCCTTTTAAAGTCCACAACTTTGTGGCACC
1 -----CCTTTT-AAGTCCACAACTCTGTGGCA-C
*
2083819 TTTTTCCTTTTAAAGTCCACAACTCCGTGGCAC
1 -----CCTTTT-AAGTCCACAACTCTGTGGCAC
*
2083852 CATTTTAAGTCCACAACT-TCGTGGCAC
1 CCTTTTAAGTCCACAACTCT-GTGGCAC
* *
2083879 CCTTCTAAGCCCACAACT-TAGTGGCATCC
1 CCTTTTAAGTCCACAACTCT-GTGGCA--C
*
2083908 TTTTTCCTTTTAAGTCCACAACTCTATGGCAC
1 -----CCTTTTAAGTCCACAACTCTGTGGCAC
*
2083940 CCTTTTAAGTCCATAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
*
2083967 CTTTTT
1 CCTTTT
2083973 CTTTTCAAAA
Statistics
Matches: 443, Mismatches: 53, Indels: 115
0.73 0.09 0.19
Matches are distributed among these distances:
26 4 0.01
27 186 0.42
28 10 0.02
29 16 0.04
31 5 0.01
32 24 0.05
33 38 0.09
34 78 0.18
35 75 0.17
36 6 0.01
42 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.37
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCTGTGGCAC
Found at i:2083575 original size:122 final size:120
Alignment explanation
Indices: 2083391--2083977 Score: 495
Period size: 122 Copynumber: 4.8 Consensus size: 120
2083381 ACCCTTTTTC
* * * * * *
2083391 CTTTTAAGTCTACAGCTCTGTGGCATC-TTTTCCTATT-AAGTCTACAACTCCGTGGCACCCTTT
1 CTTTTAAGTCCACAACTTTGTGGCACCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCCTTT
*
2083454 TAAGTCCACAACTCTGTGGCACATTTTTTTTTGAAAGTCCACAACTCTGTGGTACT
66 TAAGTCCACAACTCTGTGGCACATTTTTTTTT-AAAGTCCACAACTCTGTGGCACT
* * * * *
2083510 CTTTTAAGTCCACAACTCTGTAGCACCTTTTTTCTTTTCAAAGTCCATAACTCCGTAGCACCCTT
1 CTTTTAAGTCCACAACTTTGTGGCACCTTTTTCCTTTT-AAAGTCCACAACTCCGTGGCACCCTT
* * * * * *
2083575 TTAAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGTCTACAACTCTATGGTATT
65 TTAAGTCCACAACTCTGTGGCA-CATTTTT-TTTT-AAAGTCCACAACTCTGTGGCACT
* * *
2083634 CTTTTAAGTCCACAACTTTATGGTACCTTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTT
1 CTTTTAAGTCCACAACTTTGTGGCACCTTTTTCCTTTT-AAAGTCCACAACTCCGTGGCA-C---
* * ** *
2083699 TTTCCTTTTAAAGTTCACAACTCCGTGGCAC-----CCTTTAAAGTCTACAACTCTGTGGCAC-
61 ---CCTTTT-AAGTCCACAACTCTGTGGCACATTTTTTTTTAAAGTCCACAACTCTGTGGCACT
**
2083757 CTTCTTAAGTCCACAACTTTGTGGCACCTTTTTCCTTTTAAAGTCCACAACTTTGTGGCACCTTT
1 CTT-TTAAGTCCACAACTTTGTGGCACCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCA-C---
* *
2083822 TTCCTTTTAAAGTCCACAACTCCGTGGCACCA-----TTTT-AAGTCCACAACT-TCGTGGCACC
61 --CCTTTT-AAGTCCACAACTCTGTGGCA-CATTTTTTTTTAAAGTCCACAACTCT-GTGGCACT
* * * **
2083880 CTTCTAAGCCCACAACTTAGTGGCATCCTTTTTCCTTTT-AAGTCCACAACTCTATGGCACCCTT
1 CTTTTAAGTCCACAACTTTGTGGCA-CCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCCTT
* *
2083944 TTAAGTCCATAACTCTGTGGCACCTTTTTCTTTT
65 TTAAGTCCACAACTCTGTGGCACATTTTT-TTTT
2083978 CAAAAGCCCA
Statistics
Matches: 398, Mismatches: 45, Indels: 49
0.81 0.09 0.10
Matches are distributed among these distances:
114 1 0.00
115 18 0.05
116 6 0.02
119 23 0.06
120 12 0.03
121 2 0.01
122 129 0.32
123 50 0.13
124 129 0.32
125 4 0.01
131 7 0.02
132 17 0.04
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.37
Consensus pattern (120 bp):
CTTTTAAGTCCACAACTTTGTGGCACCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCCTTT
TAAGTCCACAACTCTGTGGCACATTTTTTTTTAAAGTCCACAACTCTGTGGCACT
Found at i:2083584 original size:62 final size:62
Alignment explanation
Indices: 2083390--2083981 Score: 419
Period size: 62 Copynumber: 9.7 Consensus size: 62
2083380 CACCCTTTTT
* * * * * * *
2083390 CCTTTTAAGTCTACAGCTCTGTGGCATC-TTTTCCTATT--AAGTCTACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGTCCACAACTCCGTGGCAC
* * * * *
2083449 CCTTTTAAGTCCACAACTCTGTGGCA-CATTTTT-TTTTGAAAGTCCACAACTCTGTGGTAC
1 CCTTTTAAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGTCCACAACTCCGTGGCAC
* * * * *
2083509 TCTTTTAAGTCCACAACTCTGTAGCACCTTTTTTCTTTTCAAAGTCCATAACTCCGTAGCAC
1 CCTTTTAAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGTCCACAACTCCGTGGCAC
* ** * *
2083571 CCTTTTAAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGTCTACAACTCTATGGTAT
1 CCTTTTAAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGTCCACAACTCCGTGGCAC
* * *
2083633 TCTTTTAAGTCCACAACTTTATGGTACCTTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACC
1 CCTTTTAAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGTCCACAACTCCGTGGCA-C
* ** * *
2083696 TTTTTTCCTTTTAAAGTTCACAACTCCGTGGCACC------C-TTT-AAAGTCTACAACTCTGTG
1 ------CCTTTT-AAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGTCCACAACTCCGTG
2083753 GCA-
59 GCAC
* * * **
2083756 CCTTCTTAAGTCCACAACTTTGTGGCACCTTTTTCCTTTT-AAAGTCCACAACTTTGTGGCACC
1 CCTT-TTAAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGTCCACAACTCCGTGGCA-C
** * *
2083819 TTTTTCCTTTTAAAGTCCACAACTCCGTGGCACC------ATTTT--AAGTCCACAACTTCGTGG
1 -----CCTTTT-AAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGTCCACAACTCCGTGG
2083876 CAC
60 CAC
* * * **
2083879 CCTTCTAAGCCCACAACT-TAGTGGCATCCTTTTTCCTTTT--AAGTCCACAACTCTATGGCAC
1 CCTTTTAAGTCCACAACTCTA-TGGCA-CCTTTTTTCTTTTCAAAGTCCACAACTCCGTGGCAC
* *
2083940 CCTTTTAAGTCCATAACTCTGTGGCACC-TTTTTCTTTTCAAA
1 CCTTTTAAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAA
2083982 AGCCCACACA
Statistics
Matches: 430, Mismatches: 63, Indels: 78
0.75 0.11 0.14
Matches are distributed among these distances:
54 39 0.09
55 9 0.02
58 4 0.01
59 37 0.09
60 46 0.11
61 91 0.21
62 152 0.35
63 3 0.01
64 1 0.00
67 2 0.00
68 24 0.06
69 5 0.01
70 17 0.04
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (62 bp):
CCTTTTAAGTCCACAACTCTATGGCACCTTTTTTCTTTTCAAAGTCCACAACTCCGTGGCAC
Found at i:2083734 original size:36 final size:35
Alignment explanation
Indices: 2083455--2083857 Score: 221
Period size: 27 Copynumber: 12.8 Consensus size: 35
2083445 GCACCCTTTT
* * *
2083455 AAGTCCACAACTCTGTGGCA-CATTTTT-TTTTGA
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
* *
2083488 AAGTCCACAACTCTGTGGTA-C-----TCTTTT--
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
* *
2083515 AAGTCCACAACTCTGTAGCACCTTTTTTCTTTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
* *
2083550 AAGTCCATAACTCCGTAGCACC------CTTTT--
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
**
2083577 AAGTCCACAACTCTATGGCACCTTTTTTCTTTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
* ** *
2083612 AAGTCTACAACTCTATGG------TATTCTTTT--
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
*** *
2083639 AAGTCCACAACTTTATGGTACCTTTTTTCTTTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
2083674 AAGTCCACAACTCCGTGGCACCTTTTTTCCTTTT-A
1 AAGTCCACAACTCCGTGGCACCTTTTTT-CTTTTCA
*
2083709 AAGTTCACAACTCCGTGGCACC------C-TTT-A
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
* *
2083736 AAGTCTACAACTCTGTGGCACC----TTC--TT--
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
** *
2083763 AAGTCCACAACTTTGTGGCACCTTTTTCCTTTT-A
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
** *
2083797 AAGTCCACAACTTTGTGGCACCTTTTTCCTTTT-A
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
*
2083831 AAGTCCACAACTCCGTGGCACCATTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT
2083858 AAGTCCACAA
Statistics
Matches: 307, Mismatches: 28, Indels: 69
0.76 0.07 0.17
Matches are distributed among these distances:
27 95 0.31
28 5 0.02
29 18 0.06
31 2 0.01
33 41 0.13
34 58 0.19
35 83 0.27
36 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (35 bp):
AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTCA
Found at i:2083806 original size:34 final size:34
Alignment explanation
Indices: 2083763--2083857 Score: 163
Period size: 34 Copynumber: 2.8 Consensus size: 34
2083753 GCACCTTCTT
2083763 AAGTCCACAACTTTGTGGCACCTTTTTCCTTTTA
1 AAGTCCACAACTTTGTGGCACCTTTTTCCTTTTA
2083797 AAGTCCACAACTTTGTGGCACCTTTTTCCTTTTA
1 AAGTCCACAACTTTGTGGCACCTTTTTCCTTTTA
** *
2083831 AAGTCCACAACTCCGTGGCACCATTTT
1 AAGTCCACAACTTTGTGGCACCTTTTT
2083858 AAGTCCACAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (34 bp):
AAGTCCACAACTTTGTGGCACCTTTTTCCTTTTA
Found at i:2083938 original size:34 final size:34
Alignment explanation
Indices: 2083879--2083945 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
2083869 TTCGTGGCAC
*
2083879 CCTTCTAAGCCCACAACTTAGTGGCATCCTTTTT
1 CCTTCTAAGCCCACAACTTAGTGGCACCCTTTTT
* *
2083913 CCTTTTAAGTCCACAACTCTA-TGGCACCCTTTT
1 CCTTCTAAGCCCACAACT-TAGTGGCACCCTTTT
2083946 AAGTCCATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.21, C:0.33, G:0.10, T:0.36
Consensus pattern (34 bp):
CCTTCTAAGCCCACAACTTAGTGGCACCCTTTTT
Found at i:2083950 original size:88 final size:88
Alignment explanation
Indices: 2083801--2083967 Score: 257
Period size: 88 Copynumber: 1.9 Consensus size: 88
2083791 CTTTTAAAGT
* *
2083801 CCACAACTTTGTGGCACCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCATTTTAAGTCCAC
1 CCACAACTTAGTGGCACCTTTTTCCTTTTAAAGTCCACAACTCCATGGCACCATTTTAAGTCCAC
2083866 AACT-TCGTGGCACCCTTCTAAGC
66 AACTCT-GTGGCACCCTTCTAAGC
* *
2083889 CCACAACTTAGTGGCATCCTTTTTCCTTTT-AAGTCCACAACTCTATGGCACCCTTTTAAGTCCA
1 CCACAACTTAGTGGCA-CCTTTTTCCTTTTAAAGTCCACAACTCCATGGCACCATTTTAAGTCCA
*
2083953 TAACTCTGTGGCACC
65 CAACTCTGTGGCACC
2083968 TTTTTCTTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
88 58 0.81
89 14 0.19
ACGTcount: A:0.23, C:0.32, G:0.13, T:0.32
Consensus pattern (88 bp):
CCACAACTTAGTGGCACCTTTTTCCTTTTAAAGTCCACAACTCCATGGCACCATTTTAAGTCCAC
AACTCTGTGGCACCCTTCTAAGC
Found at i:2084017 original size:32 final size:31
Alignment explanation
Indices: 2083973--2084485 Score: 510
Period size: 32 Copynumber: 15.9 Consensus size: 31
2083963 GCACCTTTTT
*
2083973 CTTTTCAAAAGCCCACACAAGTTAGTGGCAAC
1 CTTTTC-AAAGCCCACACAAGTTGGTGGCAAC
2084005 CTTCTTCAAAGCCCACACAAGTTGGTGGCAAC
1 CTT-TTCAAAGCCCACACAAGTTGGTGGCAAC
* * *
2084037 CTTTTCTAAAGTCCACACAAGTCGGTGGTAAC
1 CTTTTC-AAAGCCCACACAAGTTGGTGGCAAC
**
2084069 CTTTTCTAAAGCCCACACAAGTCAGTGGCAACC
1 CTTTTC-AAAGCCCACACAAGTTGGTGGCAA-C
*
2084102 CATTATCAAAGCCCACACAAGTTGGTGGCAACC
1 C-TTTTCAAAGCCCACACAAGTTGGTGGCAA-C
* * * * * *
2084135 CTTCTCAAAGCCTACATAAGTCGATGGCACC
1 CTTTTCAAAGCCCACACAAGTTGGTGGCAAC
* * * ** * ** **
2084166 CCTCT-AAAGTCCACAACTCCG-AGGTACCTTTC
1 CTTTTCAAAGCCCAC-AC-AAGTTGGTGGC-AAC
2084198 TCTTTTCAAAAGCCCACACAAGTTGGTGGCAAC
1 -CTTTTC-AAAGCCCACACAAGTTGGTGGCAAC
2084231 CTTCTTCAAAGCCCACACAAGTTGGTGGCAAC
1 CTT-TTCAAAGCCCACACAAGTTGGTGGCAAC
*
2084263 CCTTTCTAAAGCCCACACAAGTTGGTGGCAAC
1 CTTTTC-AAAGCCCACACAAGTTGGTGGCAAC
*
2084295 CTTTCTCAAAGCCCACACAAGTCGGTGGCAAC
1 CTTT-TCAAAGCCCACACAAGTTGGTGGCAAC
*
2084327 CTTTCTTCAAAGCCCACATAAGTTGGTGGCAAC
1 C-TT-TTCAAAGCCCACACAAGTTGGTGGCAAC
2084360 CTTTTCTAAAGCCCACACAAGTTGGT-GCAAC
1 CTTTTC-AAAGCCCACACAAGTTGGTGGCAAC
* **
2084391 CCTTTCTAAAGCCCACACAAGTCAGTGGCAACCC
1 CTTTTC-AAAGCCCACACAAGTTGGTGGCAA--C
* *
2084425 CTTTTCAAAGCCCACATAAGTCGGTGGCAAC
1 CTTTTCAAAGCCCACACAAGTTGGTGGCAAC
**
2084456 CCCTTCAAAAGCCCACACAAGTTGGTGGCA
1 CTTTTC-AAAGCCCACACAAGTTGGTGGCA
2084486 TCTCCTTCTA
Statistics
Matches: 406, Mismatches: 54, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
30 7 0.02
31 51 0.13
32 233 0.57
33 90 0.22
34 17 0.04
35 8 0.02
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (31 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCAAC
Found at i:2084130 original size:129 final size:128
Alignment explanation
Indices: 2083973--2084485 Score: 568
Period size: 129 Copynumber: 4.0 Consensus size: 128
2083963 GCACCTTTTT
* * *
2083973 CTTTTCAAAAGCCCACACAAGTTAGTGGCAACCTTCTTC-AAAGCCCACACAAGTTGGTGGCAAC
1 CTTTTC-AAAGCCCACACAAGTTGGTGGCAACCCT-TTCTAAAGCCCACACAAGTCGGTGGCAAC
* * **
2084037 CTTTTCTAAAGTCCACACAAGTCGGTGGTAACCTTTTC-T-AAAGCCCACACAAGTCAGTGGCAA
64 C-TTTCTAAAGCCCACACAAGTCGGTGGCAACCTTTTCTTCAAAGCCCACACAAGTTGGTGGCAA
2084100 CC
128 -C
* * * *
2084102 CATTATCAAAGCCCACACAAGTTGGTGGCAACCC-TTCTCAAAGCCTACATAAGTCGATGGC-AC
1 C-TTTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCT-AAAGCCCACACAAGTCGGTGGCAAC
** * * * * *
2084165 CCCTCTAAAG-TC-CACAACTCCGAGG-TACCTTTCTCTTTTCAAAAGCCCACACAAGTTGGTGG
64 CTTTCTAAAGCCCACACAAGTCGGTGGCAACCTTT-TC--TTC-AAAGCCCACACAAGTTGGTGG
2084227 CAAC
125 CAAC
*
2084231 CTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACC
1 CTT-TTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
2084296 TTTCTCAAAGCCCACACAAGTCGGTGGCAACC-TTTCTTCAAAGCCCACATAAGTTGGTGGCAAC
65 TTTCT-AAAGCCCACACAAGTCGGTGGCAACCTTTTCTTCAAAGCCCACACAAGTTGGTGGCAAC
*
2084360 CTTTTCTAAAGCCCACACAAGTTGGT-GCAACCCTTTCTAAAGCCCACACAAGTCAGTGGCAACC
1 CTTTTC-AAAGCCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCACACAAGTCGGTGGCAA--
* *
2084424 CCTTT-TCAAAGCCCACATAAGTCGGTGGCAACC---CCTTCAAAAGCCCACACAAGTTGGTGGC
63 CCTTTCT-AAAGCCCACACAAGTCGGTGGCAACCTTTTCTTC-AAAGCCCACACAAGTTGGTGGC
2084485 A
126 A
2084486 TCTCCTTCTA
Statistics
Matches: 330, Mismatches: 34, Indels: 41
0.81 0.08 0.10
Matches are distributed among these distances:
124 6 0.02
125 12 0.04
126 1 0.00
127 14 0.04
128 65 0.20
129 166 0.50
130 44 0.13
131 4 0.01
132 3 0.01
133 12 0.04
134 3 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (128 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCACACAAGTCGGTGGCAACCT
TTCTAAAGCCCACACAAGTCGGTGGCAACCTTTTCTTCAAAGCCCACACAAGTTGGTGGCAAC
Found at i:2084340 original size:226 final size:226
Alignment explanation
Indices: 2083924--2084485 Score: 687
Period size: 226 Copynumber: 2.5 Consensus size: 226
2083914 CTTTTAAGTC
* * * * * * * *
2083924 CACAACTCTATGGCA-CCCTTTTAAGTCCATAACTCTGTGGCACCTTTTTCTTTTCAAAAGCCCA
1 CACAAGTCGATGGCACCCCTCTAAAGTCCACAACTCAGTGGAACCTTTCTCTTTTCAAAAGCCCA
* * *
2083988 CACAAGTTAGTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCTTTTCTAAAGTCCAC
66 CACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCAC
*
2084053 ACAAGTCGGTGGTAACCTTTTCTAAAGCCCACACAAGTCAGTGGCAACCCATTATCAAAGCCCAC
131 ACAAGTCGGTGGCAACCTTTTCTAAAGCCCACACAAGTCAGTGGCAACCCATTATCAAAGCCCAC
*
2084118 ACAAGTTGGTGGCAACCCTTCTC-AAAGCCTA
196 ACAAGTTGGTGGCAA-CCTTCTCTAAAGCCCA
* * * *
2084149 CATAAGTCGATGGCACCCCTCTAAAGTCCACAACTCCGAGGTACCTTTCTCTTTTCAAAAGCCCA
1 CACAAGTCGATGGCACCCCTCTAAAGTCCACAACTCAGTGGAACCTTTCTCTTTTCAAAAGCCCA
2084214 CACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCAC
66 CACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCAC
* * * *
2084279 ACAAGTTGGTGGCAACC-TTTCTCAAAGCCCACACAAGTCGGTGGCAA-CCTTTCTTCAAAGCCC
131 ACAAGTCGGTGGCAACCTTTTCT-AAAGCCCACACAAGTCAGTGGCAACCCATT-ATCAAAGCCC
* *
2084342 ACATAAGTTGGTGGCAACCTTTTCTAAAGCCCA
194 ACACAAGTTGGTGGCAACCTTCTCTAAAGCCCA
* * * * *
2084375 CACAAGTTGGT-GCAACCCTTTCTAAAGCCCACACAAGTCAGTGGCAACC---C-CTTTTC-AAA
1 CACAAGTCGATGGC-ACCC-CTCTAAAG-TC-CACAACTCAGTGG-AACCTTTCTCTTTTCAAAA
* * *
2084434 GCCCACATAAGTCGGTGGCAACC-CCTTCAAAAGCCCACACAAGTTGGTGGCA
61 GCCCACACAAGTTGGTGGCAACCTTCTTC-AAAGCCCACACAAGTTGGTGGCA
2084486 TCTCCTTCTA
Statistics
Matches: 294, Mismatches: 33, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
224 4 0.01
225 76 0.26
226 192 0.65
227 8 0.03
228 1 0.00
229 10 0.03
230 3 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (226 bp):
CACAAGTCGATGGCACCCCTCTAAAGTCCACAACTCAGTGGAACCTTTCTCTTTTCAAAAGCCCA
CACAAGTTGGTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCAC
ACAAGTCGGTGGCAACCTTTTCTAAAGCCCACACAAGTCAGTGGCAACCCATTATCAAAGCCCAC
ACAAGTTGGTGGCAACCTTCTCTAAAGCCCA
Found at i:2084680 original size:52 final size:50
Alignment explanation
Indices: 2084547--2084743 Score: 220
Period size: 52 Copynumber: 3.9 Consensus size: 50
2084537 TCAAACCATC
* *
2084547 TCTTT-TTAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCT
1 TCTTTCTTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGCATTCT
*
2084595 T-TTTCTTAAGTCTAATGTCATTGGCCTTGAATCAGCACATTGGCATTCT
1 TCTTTCTTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGCATTCT
* *
2084644 TCTTGTCTTCAAGTCTAATGTCACTGACCGTGAATCAGCACATTGGCATTCT
1 TCTT-TCTT-AAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGCATTCT
** * * * * * *
2084696 TCGCATCTTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCA
1 TC-TTTC-TTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGCA
2084744 CCTTTATTAT
Statistics
Matches: 126, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
47 3 0.02
48 39 0.31
49 3 0.02
50 2 0.02
51 4 0.03
52 73 0.58
53 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (50 bp):
TCTTTCTTAAGTCTAATGTCACTGGCCTTGAATCAGCACATTGGCATTCT
Found at i:2084889 original size:112 final size:113
Alignment explanation
Indices: 2084638--2084882 Score: 318
Period size: 112 Copynumber: 2.2 Consensus size: 113
2084628 AGCACATTGG
** * * *
2084638 CATTCTTCTTGTCTTCAAGTCTAATGTCACTGACCGTGAATCAGCACATTGGCATTCTTCGCATC
1 CATTCTTCTCATCTTCAAGTCTAATGTCACTGACCGTGAATCAACACATTGGCATTCTTAGCATA
2084703 TTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT
66 TTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
2084751 TATTCTTCTCATCTTCAAGTCTAATGTCACTG-CCTTGAATCAACACATTGGCA-TCTTTATCAT
1 CATTCTTCTCATCTTCAAGTCTAATGTCACTGACCGTGAATCAACACATTGGCATTC-TTAGCAT
* * * *
2084814 ATTTAAGCCCGATATCGCT-GGCTGTGAATCAGTATATTGGCACTTTTAT
65 ATTTAAGCCCAATATCGCTAGCCT-TGAATCAGCATATTGGCACCTTTAT
*
2084863 CATTCTT-TACATCTTTAAGT
1 CATTCTTCT-CATCTTCAAGT
2084883 ACAATGTTGC
Statistics
Matches: 115, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
111 6 0.05
112 80 0.70
113 29 0.25
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (113 bp):
CATTCTTCTCATCTTCAAGTCTAATGTCACTGACCGTGAATCAACACATTGGCATTCTTAGCATA
TTTAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTAT
Found at i:2091070 original size:21 final size:21
Alignment explanation
Indices: 2091045--2091099 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2091035 CACTTGCAAC
*
2091045 TCATTTCTTTTCTCCTCTAAT
1 TCATTTATTTTCTCCTCTAAT
**
2091066 TCATTTATTTTCTTTTCTAAT
1 TCATTTATTTTCTCCTCTAAT
* *
2091087 TCACTTAATTTCT
1 TCATTTATTTTCT
2091100 TTTCAAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTTATTTTCTCCTCTAAT
Found at i:2091100 original size:21 final size:21
Alignment explanation
Indices: 2091060--2091103 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2091050 TCTTTTCTCC
* *
2091060 TCTAATTCATTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
2091081 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
2091102 TC
1 TC
2091104 AAGAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Done.