Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 104 of 770
Found at i:30032594 original size:35 final size:35
Alignment explanation
Indices: 30032548--30032620 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
30032538 AGTACTAAAT
30032548 GTACAACGATCTGAAACGTCAATTTTGGTGGCCGG
1 GTACAACGATCTGAAACGTCAATTTTGGTGGCCGG
30032583 GTACAACGATCTGAAACGTCAATTTTGGTGGCCGG
1 GTACAACGATCTGAAACGTCAATTTTGGTGGCCGG
30032618 GTA
1 GTA
30032621 TGAAACGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (35 bp):
GTACAACGATCTGAAACGTCAATTTTGGTGGCCGG
Found at i:30034457 original size:7 final size:7
Alignment explanation
Indices: 30034445--30034469 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30034435 GTTGTCTTCT
30034445 TGTTTGA
1 TGTTTGA
30034452 TGTTTGA
1 TGTTTGA
30034459 TGTTTGA
1 TGTTTGA
30034466 TGTT
1 TGTT
30034470 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:30035395 original size:27 final size:28
Alignment explanation
Indices: 30035339--30035408 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
30035329 AAATTTGTAC
30035339 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
30035367 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
30035394 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
30035409 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:30042690 original size:40 final size:39
Alignment explanation
Indices: 30042653--30042833 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
30042643 GCTACTCGTT
*
30042653 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
*
30042693 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
*
30042733 C-AATGCCTTCGGG-CTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
* * * *
30042770 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTTA-GTAAC-TCGCA
30042810 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
30042834 ACATCATTCG
Statistics
Matches: 125, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
37 16 0.13
38 20 0.16
39 40 0.32
40 47 0.38
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:30042769 original size:77 final size:79
Alignment explanation
Indices: 30042655--30042834 Score: 242
Period size: 77 Copynumber: 2.3 Consensus size: 79
30042645 TACTCGTTCA
* *
30042655 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
30042719 TTTAGTAAC-TCGCAC
65 TAT-GTAACTTAGCAC
**
30042734 AATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
30042797 ATGTCACTTAGCAC
66 ATGTAACTTAGCAC
*
30042811 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
30042835 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
76 7 0.08
77 50 0.56
78 21 0.23
79 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATGTAACTTAGCAC
Found at i:30050863 original size:79 final size:80
Alignment explanation
Indices: 30050754--30050939 Score: 193
Period size: 79 Copynumber: 2.3 Consensus size: 80
30050744 TACTCGTTCA
* * * *
30050754 AATGCCTTCGGAACATAGCCC-GGTTATAGTAGCTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGG-GCTTAGCCCGGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
30050817 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
30050834 AATGCCTTCGGGCTTAGCCCGGGAT-TAGTAACTTGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
30050898 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
30050913 AAAGCCTTCGGGACTTAGCCC-GGATAT
1 AATGCCTTCGGG-CTTAGCCCGGGATAT
30050940 CATTTGAATA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 27 0.30
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGCTTAGCCCGGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:30050936 original size:40 final size:40
Alignment explanation
Indices: 30050752--30050939 Score: 213
Period size: 40 Copynumber: 4.7 Consensus size: 40
30050742 GCTACTCGTT
* * * * *
30050752 CAAATGCCTTCGGAACATAGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
30050792 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
*
30050832 CCAATGCCTTCGGG-CTTAGCCCGGGAT-TAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGATATAGTAACTTGCA
* * *
30050871 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
30050912 CAAA-GCCTTCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
30050940 CATTTGAATA
Statistics
Matches: 128, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 84 0.66
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:30054566 original size:23 final size:23
Alignment explanation
Indices: 30054540--30054594 Score: 58
Period size: 26 Copynumber: 2.3 Consensus size: 23
30054530 AGAGACTTAT
30054540 TATTCAGC-TCATGCTTTCTTACA
1 TATTCAGCTTCATG-TTTCTTACA
*
30054563 TATTCATCATTTTCATGTTTCTTACA
1 TATTCAGC---TTCATGTTTCTTACA
30054589 TATTCA
1 TATTCA
30054595 TCGTTTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 7 0.26
26 15 0.56
27 5 0.19
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.49
Consensus pattern (23 bp):
TATTCAGCTTCATGTTTCTTACA
Found at i:30054583 original size:26 final size:26
Alignment explanation
Indices: 30054548--30054619 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
30054538 ATTATTCAGC
30054548 TCATGCTTTCTTACATATTCATCATTT
1 TCATG-TTTCTTACATATTCATCATTT
*
30054575 TCATGTTTCTTACATATTCATCGTTT
1 TCATGTTTCTTACATATTCATCATTT
*
30054601 TCATACTTTCTCTACATAT
1 TCAT-GTTTCT-TACATAT
30054620 CAGAGGCACA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.59
27 10 0.24
28 7 0.17
ACGTcount: A:0.22, C:0.22, G:0.04, T:0.51
Consensus pattern (26 bp):
TCATGTTTCTTACATATTCATCATTT
Found at i:30056474 original size:12 final size:12
Alignment explanation
Indices: 30056457--30056483 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30056447 TCTCAACTTT
30056457 TCATTTAATATC
1 TCATTTAATATC
30056469 TCATTTAATATC
1 TCATTTAATATC
30056481 TCA
1 TCA
30056484 ATTTGAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (12 bp):
TCATTTAATATC
Found at i:30058140 original size:21 final size:21
Alignment explanation
Indices: 30058114--30058167 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
30058104 AAACCTCTAT
30058114 CTGTCAGTTCTTGCAACTGAG
1 CTGTCAGTTCTTGCAACTGAG
30058135 CTGTCAGTTCTTGCAACTGAG
1 CTGTCAGTTCTTGCAACTGAG
* *
30058156 CTTTCAATTCTT
1 CTGTCAGTTCTT
30058168 TTAACTCTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (21 bp):
CTGTCAGTTCTTGCAACTGAG
Found at i:30060533 original size:13 final size:13
Alignment explanation
Indices: 30060503--30060540 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
30060493 GCTGCATAGG
*
30060503 GATAAGGACAC-A
1 GATAAGGACACGT
30060515 GATAAGGACACGT
1 GATAAGGACACGT
30060528 GATAAGGACACGT
1 GATAAGGACACGT
30060541 CCGTGTGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.42, C:0.16, G:0.29, T:0.13
Consensus pattern (13 bp):
GATAAGGACACGT
Found at i:30077022 original size:2 final size:2
Alignment explanation
Indices: 30077015--30077045 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
30077005 ATAGATAAAG
30077015 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30077046 GTGAAATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30086108 original size:15 final size:15
Alignment explanation
Indices: 30086076--30086104 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30086066 ATTTTCAGTG
30086076 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
30086091 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
30086105 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:30086928 original size:15 final size:15
Alignment explanation
Indices: 30086886--30086928 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
30086876 TGTGTTGTTG
*
30086886 GATTAAATTGAATGA
1 GATTAATTTGAATGA
* *
30086901 AATTATGTTTGAATGA
1 GATTA-ATTTGAATGA
30086917 GATTAATTTGAA
1 GATTAATTTGAA
30086929 ATTGTATAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (15 bp):
GATTAATTTGAATGA
Found at i:30089858 original size:27 final size:26
Alignment explanation
Indices: 30089817--30089921 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 26
30089807 AGGAAGCGTC
*
30089817 CTGGTGGCTAC-GCCACAATTATTTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
* *
30089844 CTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
30089871 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
30089899 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
30089922 ATTCTAGCAG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 3 0.04
27 47 0.70
28 17 0.25
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:30089921 original size:54 final size:54
Alignment explanation
Indices: 30089817--30089926 Score: 134
Period size: 54 Copynumber: 2.0 Consensus size: 54
30089807 AGGAAGCGTC
* * * *
30089817 CTGGTGGCTACGCCACAATTATTTGATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* *
30089871 CTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
30089925 CT
1 CT
30089927 AGCAGTCATG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.02
54 30 0.62
55 17 0.35
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:30098367 original size:41 final size:40
Alignment explanation
Indices: 30098273--30098494 Score: 202
Period size: 41 Copynumber: 5.5 Consensus size: 40
30098263 CTCAAGTAAT
* * * *
30098273 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
30098311 CTTCAGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30098351 CTTCCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTT-CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
30098392 CTTCGAGTCTTAGCCCGGATATAG-CAACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
30098432 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAACACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
30098473 CTTCGGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATAT
30098495 CATTCGAATA
Statistics
Matches: 146, Mismatches: 29, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
38 10 0.07
39 16 0.11
40 57 0.39
41 60 0.41
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30098409 original size:81 final size:81
Alignment explanation
Indices: 30098309--30098494 Score: 200
Period size: 81 Copynumber: 2.3 Consensus size: 81
30098299 CTTGCACAAG
* *
30098309 GCCTTC-AGGTCTTAGCCCGGATATGGTC-ACTAGCATAAATGCCTTCCGGGA-CTTAGCCCGGA
1 GCCTTCGA-GTCTTAGCCCGGATATAG-CAACTAGCACAAATGCCTT-C-GGATCTTAGCCCGGA
* * *
30098371 TATAGTC-GCTAGCACAAAT
62 TATAGTCACCTAACACAAAA
* * * *
30098390 GCCTTCGAGTCTTAGCCCGGATATAGCAACTCGTACAAATGCCTTCGGATCTTAGTCCGGTTATA
1 GCCTTCGAGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATA
30098455 GTCACCTAACACAAAA
66 GTCACCTAACACAAAA
* * *
30098471 GCCTTCGGGACTTAGCCCGAATAT
1 GCCTTCGAGTCTTAGCCCGGATAT
30098495 CATTCGAATA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
79 3 0.03
80 18 0.20
81 67 0.75
82 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
GCCTTCGAGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATA
GTCACCTAACACAAAA
Found at i:30111805 original size:27 final size:26
Alignment explanation
Indices: 30111782--30111882 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 26
30111772 TGATGGCTAC
30111782 GCCACAATTATCTGATCTGGTGGCTCT
1 GCCAC-ATTATCTGATCTGGTGGCTCT
*
30111809 GCCACATATATCTGTTCTGGTGGCTCT
1 GCCACAT-TATCTGATCTGGTGGCTCT
*
30111836 GCCACGATTATCTGTATCTGGTGACTCT
1 GCCAC-ATTATCTG-ATCTGGTGGCTCT
* *
30111864 GTCACATTATCTGTTCTGG
1 GCCACATTATCTGATCTGG
30111883 CAGCCATGCT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.11
27 42 0.64
28 17 0.26
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.37
Consensus pattern (26 bp):
GCCACATTATCTGATCTGGTGGCTCT
Found at i:30114721 original size:2 final size:2
Alignment explanation
Indices: 30114714--30114753 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
30114704 GCATTAGATG
30114714 AT AT AT 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 AT AT AT
30114754 TAAGTTCGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30116064 original size:19 final size:19
Alignment explanation
Indices: 30116037--30116168 Score: 200
Period size: 19 Copynumber: 7.1 Consensus size: 19
30116027 TCTTTAAGGT
30116037 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
30116056 TATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
30116075 TA--CAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
30116092 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
30116111 TATGAAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
30116130 TA--CAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
30116147 TATGCAATCTTGAAGATATGA
1 TATGCAATCTT--AGATATGA
30116168 T
1 T
30116169 CTTGTAATCT
Statistics
Matches: 103, Mismatches: 4, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
17 32 0.31
19 62 0.60
21 9 0.09
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (19 bp):
TATGCAATCTTAGATATGA
Found at i:30116064 original size:36 final size:36
Alignment explanation
Indices: 30116024--30116131 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 36
30116014 TATGGAAATA
30116024 TAATCTTTAAGGTTATGCAATCTTAGATATGATATG
1 TAATCTTTAAGGTTATGCAATCTTAGATATGATATG
* *
30116060 TAATC-TT-AGATATGATACAATCTTAGATATGATATG
1 TAATCTTTAAGGT-T-ATGCAATCTTAGATATGATATG
* * * * *
30116096 CAATCTTAGATATGATATGAAATCTTAGATATGATA
1 TAATCTT-TA-AGGTTATGCAATCTTAGATATGATA
30116132 CAATCTTAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
34 3 0.05
35 3 0.05
36 30 0.53
37 1 0.02
38 18 0.32
39 1 0.02
40 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (36 bp):
TAATCTTTAAGGTTATGCAATCTTAGATATGATATG
Found at i:30116098 original size:55 final size:55
Alignment explanation
Indices: 30116037--30116179 Score: 241
Period size: 55 Copynumber: 2.5 Consensus size: 55
30116027 TCTTTAAGGT
30116037 TATGCAATCTTAGATATGATATGTAATCTTAGATATGATACAATCTTAGATATGA
1 TATGCAATCTTAGATATGATATGTAATCTTAGATATGATACAATCTTAGATATGA
*
30116092 TATGCAATCTTAGATATGATATGAAATCTTAGATATGATACAATCTTAGATATGA
1 TATGCAATCTTAGATATGATATGTAATCTTAGATATGATACAATCTTAGATATGA
*
30116147 TATGCAATCTTGAAGATATGATCTTGTAATCTT
1 TATGCAATCTT--AGATATGAT-ATGTAATCTT
30116180 GGAGATTTAA
Statistics
Matches: 82, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
55 65 0.79
57 9 0.11
58 8 0.10
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (55 bp):
TATGCAATCTTAGATATGATATGTAATCTTAGATATGATACAATCTTAGATATGA
Found at i:30116136 original size:36 final size:37
Alignment explanation
Indices: 30116037--30116168 Score: 189
Period size: 36 Copynumber: 3.5 Consensus size: 37
30116027 TCTTTAAGGT
*
30116037 TATGCAATCTTAGATATGATATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGATA-GCAATCTTAGATATGA
30116075 TA--CAATCTTAGATATGATATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGATA-GCAATCTTAGATATGA
*
30116111 TATGAAATCTTAGATATGATA-CAATCTTAGATATGA
1 TATGCAATCTTAGATATGATAGCAATCTTAGATATGA
30116147 TATGCAATCTTGAAGATATGAT
1 TATGCAATCTT--AGATATGAT
30116169 CTTGTAATCT
Statistics
Matches: 87, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
36 60 0.69
38 27 0.31
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (37 bp):
TATGCAATCTTAGATATGATAGCAATCTTAGATATGA
Found at i:30120838 original size:11 final size:11
Alignment explanation
Indices: 30120822--30120851 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
30120812 TCTTAATTCA
30120822 ATCAAGTTTTG
1 ATCAAGTTTTG
30120833 ATCAAGTTTTG
1 ATCAAGTTTTG
30120844 ATCAAGTT
1 ATCAAGTT
30120852 ATTAGGCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (11 bp):
ATCAAGTTTTG
Found at i:30121823 original size:7 final size:6
Alignment explanation
Indices: 30121811--30121851 Score: 50
Period size: 7 Copynumber: 6.8 Consensus size: 6
30121801 TTATTTCAAA
30121811 AAAAAGG AAAAAG -AAAAG AAAAGAG AAAAA- AAAAAG AAAAA
1 AAAAA-G AAAAAG AAAAAG AAAA-AG AAAAAG AAAAAG AAAAA
30121852 AAATGGAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
5 10 0.32
6 10 0.32
7 11 0.35
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:30121831 original size:11 final size:11
Alignment explanation
Indices: 30121808--30121854 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
30121798 CTTTTATTTC
*
30121808 AAAAA-AAAGG
1 AAAAAGAAAAG
30121818 AAAAAGAAAAG
1 AAAAAGAAAAG
*
30121829 AAAAGAGAAAAA
1 AAAA-AGAAAAG
30121841 AAAAAGAAAA-
1 AAAAAGAAAAG
30121851 AAAA
1 AAAA
30121855 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 9 0.27
11 14 0.42
12 10 0.30
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:30121838 original size:18 final size:17
Alignment explanation
Indices: 30121808--30121850 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
30121798 CTTTTATTTC
*
30121808 AAAA-AAAAGGAAAAAG
1 AAAAGAAAAGGAAAAAA
30121824 AAAAGAAAAGAGAAAAAA
1 AAAAGAAAAG-GAAAAAA
30121842 AAAAGAAAA
1 AAAAGAAAA
30121851 AAAATGGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 15 0.62
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGGAAAAAA
Found at i:30123870 original size:27 final size:28
Alignment explanation
Indices: 30123840--30123908 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
30123830 ATAGTAAGTC
*
30123840 CGCACACTTAGTGCT-TA-ATAGTCAACT
1 CGCACACTTAGTGCTATACA-AGTAAACT
*
30123867 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAAGTAAACT
30123895 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30123909 CAATCTCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 15 0.39
28 22 0.58
29 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAAGTAAACT
Found at i:30125597 original size:44 final size:44
Alignment explanation
Indices: 30125416--30125723 Score: 169
Period size: 44 Copynumber: 6.9 Consensus size: 44
30125406 ATTTGGCATC
* *
30125416 CCTGTGTTTATAGGGAAACAGATCGAAGATAACAGATCTGACACT
1 CCTGTGTTTATAGGG-AACAGATCGAAGATAGCAGATCTGACATT
* * * ** *
30125461 CCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG--CATGGCATT
1 CCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAGATC-TGACATT
* * * * * *
30125505 CCTATGTTTATAGGGAACA-AGTTGGAGATAGCAGATTTGGCATC
1 CCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATT
* *
30125549 CCTGTTTTTATAGGGAACAGATTGAAGATAGCAGATCTGACATT
1 CCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
* * * * * *** * *
30125593 CCTGTGCTTACAGCGAAACAAATCAAAGATTTTA-A-CATGGCATC
1 CCTGTGTTTATAG-GGAACAGATCGAAGATAGCAGATC-TGACATT
* * * * *
30125637 CCTATGTTTATAGGGAAC-GAGTTGAAGATAGTAGATTTGGCATT
1 CCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATT
* * * * *
30125681 CTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGAC
1 CCTGTGTTTATAGGGAACAGATCGAAG--ATAGCAGATCTGAC
30125724 TTTCGGATGT
Statistics
Matches: 195, Mismatches: 54, Indels: 27
0.71 0.20 0.10
Matches are distributed among these distances:
42 2 0.01
43 25 0.13
44 114 0.58
45 42 0.22
46 12 0.06
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (44 bp):
CCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATT
Found at i:30125634 original size:88 final size:87
Alignment explanation
Indices: 30125542--30125708 Score: 221
Period size: 88 Copynumber: 1.9 Consensus size: 87
30125532 ATAGCAGATT
* *
30125542 TGGCATCCCTGTTTTTATAGGGAAC-AGATTGAAGATAGCAGATCTGACATTCCTGTGCTTAC-A
1 TGGCATCCCTATGTTTATAGGGAACGAG-TTGAAGATAGCAGATCTGACATTCCTGTGCTTACAA
30125605 GCGAAACAAATCAAAGATTTTAACA
65 G-G-AACAAATCAAAGATTTTAACA
* * * * *
30125630 TGGCATCCCTATGTTTATAGGGAACGAGTTGAAGATAGTAGATTTGGCATTCTTGTGTTTACAAG
1 TGGCATCCCTATGTTTATAGGGAACGAGTTGAAGATAGCAGATCTGACATTCCTGTGCTTACAAG
*
30125695 GAACAAATCGAAGA
66 GAACAAATCAAAGA
30125709 CATAGCAGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
87 12 0.17
88 53 0.77
89 4 0.06
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (87 bp):
TGGCATCCCTATGTTTATAGGGAACGAGTTGAAGATAGCAGATCTGACATTCCTGTGCTTACAAG
GAACAAATCAAAGATTTTAACA
Found at i:30125642 original size:132 final size:133
Alignment explanation
Indices: 30125404--30125708 Score: 434
Period size: 132 Copynumber: 2.3 Consensus size: 133
30125394 TAAAGAAACA
30125404 AGATTTGGCATCCCTGTGTTTATAGGGAAACAGATCGAAGATAACAGATCTGACACTCCTGTGCT
1 AGATTTGGCATCCCTGTGTTTATAGGGAAACAGATCGAAGATAACAGATCTGACACTCCTGTGCT
* * * * * *
30125469 TACAGCGAAGCAGATCGAAGATTTCAGCATGGCATTCCTATGTTTATAGGGAACAAGTTGGAGAT
66 TACAGCGAAACAAATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
30125534 AGC
131 AGC
* * * *
30125537 AGATTTGGCATCCCTGTTTTTATAGGG-AACAGATTGAAGATAGCAGATCTGACATTCCTGTGCT
1 AGATTTGGCATCCCTGTGTTTATAGGGAAACAGATCGAAGATAACAGATCTGACACTCCTGTGCT
* *
30125601 TACAGCGAAACAAATCAAAGATTTTAACATGGCATCCCTATGTTTATAGGGAACGAGTTGAAGAT
66 TACAGCGAAACAAATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
*
30125666 AGT
131 AGC
* * * * *
30125669 AGATTTGGCATTCTTGTGTTTACAAGG-AACAAATCGAAGA
1 AGATTTGGCATCCCTGTGTTTATAGGGAAACAGATCGAAGA
30125709 CATAGCAGAT
Statistics
Matches: 152, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
132 126 0.83
133 26 0.17
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (133 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAAACAGATCGAAGATAACAGATCTGACACTCCTGTGCT
TACAGCGAAACAAATCAAAGATTTCAACATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGAT
AGC
Found at i:30125865 original size:175 final size:175
Alignment explanation
Indices: 30125670--30126252 Score: 972
Period size: 175 Copynumber: 3.3 Consensus size: 175
30125660 GAAGATAGTA
30125670 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
* *
30125735 CTTACACCAAAGCATATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACAT
66 CTTACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACAT
*
30125800 AGCAAGTCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
131 AGCAAGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
* *
30125845 GATTTGGCATTCTTGTGTTTACAAGGAACAAATTGAAGACATAGCAGATTTGCCTTTCGGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
* * *
30125910 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAATGGAGAGTAGGTACAT
66 CTTACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACAT
*
30125975 AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
131 AGCAAGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
* *
30126020 GATTTGGCATTCTTATGTTTACAAGGAACAAATCGAAGACATAGTAGATTTGACTTTCGGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
* *
30126085 CTTACACCAAAGCAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGTAGATACAT
66 CTTACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACAT
*
30126150 AG-TAGATCTAACCTTCAGATGATTT-TACTGAAGCAGATCCAAGAT
131 AGCAAG-TCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGAT
* * * *
30126195 GATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACATAGCAGATTTGGCTTTC
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTC
30126253 ACGTGTTTAC
Statistics
Matches: 380, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
174 1 0.00
175 376 0.99
176 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (175 bp):
GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
CTTACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACAT
AGCAAGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
Found at i:30125908 original size:87 final size:87
Alignment explanation
Indices: 30125813--30126291 Score: 272
Period size: 87 Copynumber: 5.5 Consensus size: 87
30125803 AAGTCTAACC
* * *
30125813 TTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAAT
1 TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTCTGTTTACAAGGAACAAAT
*
30125878 TGAAGACATAGCAGATTTGCCT
66 CGAAGACATAGCAGATTTGCCT
* ** * **
30125900 TTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCA-TC-TCCATTT-CAATGG
1 TTCAGATGTT-T-ACACTGAAGCAGATCCAAGAT----GATTTGGCATTCTTCTGTTTACAA-GG
* * * * **
30125962 -A-GAGT--AGGTACATAGCAGGTCTAACC-
59 AACAAATCGAAG-ACATAGCAGAT-TTGCCT
* *
30125988 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTATGTTTACAAGGAACAAAT
1 TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTCTGTTTACAAGGAACAAAT
* *
30126053 CGAAGACATAGTAGATTTGACT
66 CGAAGACATAGCAGATTTGCCT
* ** * * ** *
30126075 TTCGGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATCTAGCA-TC-TCCATTT-CGACGG
1 TTCAGATG-T-TTACACTGAAGCAGATCCAAGAT----GATTTGGCATTCTTCTGTTTAC-AAGG
* * * * * **
30126137 -A-GAGTAG-ATACATAGTAGATCTAACC-
59 AACAAATCGAAGACATAGCAGAT-TTGCCT
* * * * *
30126163 TTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAA
1 TTCAGATG-TTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTCTGTTTACAAGGAACAAA
*
30126227 TCGAAGACATAGCAGATTTGGCT
65 TCGAAGACATAGCAGATTTGCCT
* * *
30126250 TTCACG-TGTTTACGCTGAAGTAGATCTAAGATGATTTGGCAT
1 TTCA-GATGTTTACACTGAAGCAGATCCAAGATGATTTGGCAT
30126292 CTCTGTATTG
Statistics
Matches: 284, Mismatches: 74, Indels: 68
0.67 0.17 0.16
Matches are distributed among these distances:
82 15 0.05
83 3 0.01
84 12 0.04
85 5 0.02
86 47 0.17
87 73 0.26
88 44 0.15
89 47 0.17
90 6 0.02
91 13 0.05
92 4 0.01
93 15 0.05
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (87 bp):
TTCAGATGTTTACACTGAAGCAGATCCAAGATGATTTGGCATTCTTCTGTTTACAAGGAACAAAT
CGAAGACATAGCAGATTTGCCT
Found at i:30126019 original size:86 final size:85
Alignment explanation
Indices: 30125744--30126194 Score: 264
Period size: 86 Copynumber: 5.2 Consensus size: 85
30125734 TCTTACACCA
* * *
30125744 AAGCATATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCA-AGTC
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTC-AAGGAGAGTAGGTACATAGCAGA-TC
30125808 TAACCTTCAGATGTTTATACTG
64 TAACCTTCAGATGTTTATACTG
* * *** * * *
30125830 AAGTAGATCCAAGAT----GATTTGGCATTCTTGTGTTTACAAGGAACAAATTGAAG-ACATAGC
1 AAGCAGATCCAAGATAACAGATCTGGCA-TC-TCCATTT-CAAGG---AGAGT-AGGTACATAGC
** * * **
30125890 AGAT-TTGCCTTTCGGATGTTCTCACACCA
59 AGATCTAACC-TTCAGATGTT-T-ATACTG
*
30125919 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAATGGAGAGTAGGTACATAGCAGGTCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAA-GGAGAGTAGGTACATAGCAGATCT
30125984 AACCTTCAGATGTTTATACTG
65 AACCTTCAGATGTTTATACTG
* * * * *
30126005 AAGCAGATCCAAGAT----GATTTGGCAT-TCTTATGTTTACAAGGAACAAATCGAAG-ACATAG
1 AAGCAGATCCAAGATAACAGATCTGGCATCTC-CA--TTT-CAAGG-A-GAGT--AGGTACATAG
* * * * * * **
30126064 TAGATTTGACTTTCGGATGTTCTTACACCA
58 CAGATCTAACCTTCAGATG-T-TTATACTG
* * * *
30126094 AAGCAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGGAGAGTAGATACATAGTAGATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTC-AAGGAGAGTAGGTACATAGCAGATCT
30126159 AACCTTCAGATGATTT-TACTG
65 AACCTTCAGATG-TTTATACTG
30126180 AAGCAGATCCAAGAT
1 AAGCAGATCCAAGAT
30126195 GATTTGGCAT
Statistics
Matches: 268, Mismatches: 62, Indels: 70
0.67 0.16 0.17
Matches are distributed among these distances:
81 2 0.01
82 18 0.07
83 2 0.01
84 12 0.04
85 5 0.02
86 53 0.20
87 45 0.17
88 51 0.19
89 42 0.16
90 5 0.02
91 12 0.04
92 2 0.01
93 17 0.06
94 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (85 bp):
AAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCAAGGAGAGTAGGTACATAGCAGATCTA
ACCTTCAGATGTTTATACTG
Found at i:30130553 original size:15 final size:13
Alignment explanation
Indices: 30130525--30130550 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30130515 TTTGGTTTAA
30130525 ATGTATGATTTTT
1 ATGTATGATTTTT
30130538 ATGTATGATTTTT
1 ATGTATGATTTTT
30130551 TTACTTGATA
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:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (13 bp):
ATGTATGATTTTT
Found at i:30132998 original size:48 final size:49
Alignment explanation
Indices: 30132945--30133051 Score: 189
Period size: 48 Copynumber: 2.2 Consensus size: 49
30132935 CTAAAACTCA
30132945 CAAGCATATATCCACCAATTCAACATCATATTCATAAGAAATTTGACAT
1 CAAGCATATATCCACCAATTCAACATCATATTCATAAGAAATTTGACAT
*
30132994 -AAGCATATATCCACCTATTCAACATCATATTCATAAGAAATTTGACAT
1 CAAGCATATATCCACCAATTCAACATCATATTCATAAGAAATTTGACAT
*
30133042 CAATCATATA
1 CAAGCATATA
30133052 GTATTATCTG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
48 47 0.85
49 8 0.15
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (49 bp):
CAAGCATATATCCACCAATTCAACATCATATTCATAAGAAATTTGACAT
Found at i:30136281 original size:32 final size:33
Alignment explanation
Indices: 30136238--30136300 Score: 119
Period size: 32 Copynumber: 1.9 Consensus size: 33
30136228 AAGTCATCTC
30136238 GAATTGGATTTACACACAATTCATCTTTGACTT
1 GAATTGGATTTACACACAATTCATCTTTGACTT
30136271 GAATT-GATTTACACACAATTCATCTTTGAC
1 GAATTGGATTTACACACAATTCATCTTTGAC
30136301 ATACTCATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 25 0.83
33 5 0.17
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (33 bp):
GAATTGGATTTACACACAATTCATCTTTGACTT
Found at i:30136487 original size:42 final size:42
Alignment explanation
Indices: 30136431--30136533 Score: 143
Period size: 42 Copynumber: 2.5 Consensus size: 42
30136421 ATGCCAATAG
* * * *
30136431 CCCAGTTATAGTCTTACACGAAGTCTTAAATTGATGACATAT
1 CCCAGATATGGTCTTACACGAAGTCTCAAATAGATGACATAT
* *
30136473 CCCAGATATGGTCTTACACGAAGTCTCATATAGATGCCATAT
1 CCCAGATATGGTCTTACACGAAGTCTCAAATAGATGACATAT
*
30136515 CCTAGATATGGTCTTACAC
1 CCCAGATATGGTCTTACAC
30136534 ATAGCTTTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (42 bp):
CCCAGATATGGTCTTACACGAAGTCTCAAATAGATGACATAT
Found at i:30140610 original size:40 final size:40
Alignment explanation
Indices: 30140542--30140619 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
30140532 GGTGTTTGGA
* * * *
30140542 TAAAAAACGCCGCTATAGATTGAGCATTAGCGGTGCTTTT
1 TAAAAAACGCCGCTATAGATCGACCATTAACGGCGCTTTT
*
30140582 TAAAAAACGCCGCTATAGGTCGACCATTAACGGCGCTT
1 TAAAAAACGCCGCTATAGATCGACCATTAACGGCGCTT
30140620 ACTGAAAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (40 bp):
TAAAAAACGCCGCTATAGATCGACCATTAACGGCGCTTTT
Found at i:30140628 original size:40 final size:40
Alignment explanation
Indices: 30140542--30140630 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
30140532 GGTGTTTGGA
* * * * **
30140542 TAAAAAACGCCGCTATAGATTGAGCATTAGCGGTGCTTTT
1 TAAAAAACGCCGCTATAGATCGACCATTAACGGCGCTTAC
*
30140582 TAAAAAACGCCGCTATAGGTCGACCATTAACGGCGCTTAC
1 TAAAAAACGCCGCTATAGATCGACCATTAACGGCGCTTAC
*
30140622 TGAAAAACG
1 TAAAAAACG
30140631 TCACAAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (40 bp):
TAAAAAACGCCGCTATAGATCGACCATTAACGGCGCTTAC
Found at i:30140868 original size:115 final size:113
Alignment explanation
Indices: 30140566--30140869 Score: 374
Period size: 114 Copynumber: 2.7 Consensus size: 113
30140556 ATAGATTGAG
* * * * *
30140566 CATTAGCGGTGCTTTTTAAAAAACGCCGCTATAGGTCGACCATTAACGGCGCTTACTGAAAAACG
1 CATTAGCGG-GCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTCTGAAAAACG
* * * ** ** * *
30140631 TCACAAAAAATTAAGCACAATGCTGTCGTTTTATGTTGAGCTTTGGTGG
65 CCGCAAAAAATTAAGCAAAACACCATCGTTTTATGTTGAGCTTTAGTGA
*
30140680 CATTAGCGGGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGGGGCGCTTTCTGAAAAACGC
1 CATTAGCGGGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTCTGAAAAACGC
* *
30140745 AGCAAAAAAATTAAGCAAAACACCATCGTTTTATGTTGATCTTTAGTGA
66 CGC-AAAAAATTAAGCAAAACACCATCGTTTTATGTTGAGCTTTAGTGA
* * * * *
30140794 CATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGATCGAGCATTAGCAGCACTTTTTTTAAAAAC
1 CATTAGCGG-GCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGC-TTTCTGAAAAAC
30140859 GCCGCAAAAAA
64 GCCGCAAAAAA
30140870 CATTTTATCT
Statistics
Matches: 163, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
113 50 0.31
114 55 0.34
115 44 0.27
116 14 0.09
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (113 bp):
CATTAGCGGGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTCTGAAAAACGC
CGCAAAAAATTAAGCAAAACACCATCGTTTTATGTTGAGCTTTAGTGA
Found at i:30141065 original size:2 final size:2
Alignment explanation
Indices: 30141058--30141093 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
30141048 GTCCCTTGTA
30141058 AT 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 AT
30141094 TTAGGGTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30141783 original size:9 final size:8
Alignment explanation
Indices: 30141765--30141845 Score: 53
Period size: 8 Copynumber: 9.9 Consensus size: 8
30141755 TTTGTATGTT
30141765 AATTTAAA
1 AATTTAAA
30141773 AATTATAAA
1 AATT-TAAA
30141782 AATCTTCAAGAAA
1 AAT-TT--A--AA
30141795 AATTT-AA
1 AATTTAAA
30141802 AATTTAAA
1 AATTTAAA
30141810 AA-TTAAA
1 AATTTAAA
30141817 AA-TT-AA
1 AATTTAAA
*
30141823 AATATAAA
1 AATTTAAA
**
30141831 AGCTTAAA
1 AATTTAAA
30141839 AATTTAA
1 AATTTAA
30141846 TATTTAATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
6 4 0.07
7 17 0.29
8 20 0.34
9 8 0.14
10 1 0.02
11 1 0.02
12 2 0.03
13 5 0.09
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (8 bp):
AATTTAAA
Found at i:30141805 original size:7 final size:7
Alignment explanation
Indices: 30141793--30141857 Score: 58
Period size: 7 Copynumber: 9.0 Consensus size: 7
30141783 ATCTTCAAGA
30141793 AAAATTT
1 AAAATTT
30141800 AAAATTT
1 AAAATTT
*
30141807 AAAAATT
1 AAAATTT
*
30141814 AAAAATT
1 AAAATTT
*
30141821 AAAATAT
1 AAAATTT
*
30141828 AAAAGCTTA
1 AAAA--TTT
30141837 AAAATTT
1 AAAATTT
*
30141844 AATATTT
1 AAAATTT
*
30141851 AATATTT
1 AAAATTT
30141858 CAGTTAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
7 44 0.90
9 5 0.10
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:30141854 original size:28 final size:28
Alignment explanation
Indices: 30141793--30141883 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
30141783 ATCTTCAAGA
* * * *
30141793 AAAATTTAAAATTTAAAAATTAAAAATT
1 AAAATATAAAAGTTAAAAATTTAATATT
30141821 AAAATATAAAAGCTTAAAAATTTAATATT
1 AAAATATAAAAG-TTAAAAATTTAATATT
* ***
30141850 -TAATATTTCAGTTAAAAAGTTTAATATT
1 AAAATATAAAAGTTAAAAA-TTTAATATT
30141878 CAAAAT
1 -AAAAT
30141884 TTTAAAAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.14
28 26 0.52
29 14 0.28
30 3 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAATATAAAAGTTAAAAATTTAATATT
Found at i:30141940 original size:20 final size:20
Alignment explanation
Indices: 30141917--30141964 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
30141907 ATCTCAGCAC
30141917 AAAAATTTTGAAAAAAATAGA
1 AAAAATTTTGAAAAAAATA-A
* **
30141938 AAAAA-TATGTTAAAAATAA
1 AAAAATTTTGAAAAAAATAA
30141957 AAAAATTT
1 AAAAATTT
30141965 AAAATTAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 6 0.27
20 11 0.50
21 5 0.23
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAAATTTTGAAAAAAATAA
Found at i:30142233 original size:27 final size:26
Alignment explanation
Indices: 30142203--30142253 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
30142193 TTTGAAGAGA
30142203 AGGAGAACGAGGAAGAAGAAGAAGAAG
1 AGGAGAACGAGGAAGAAGAA-AAGAAG
* *
30142230 AGGAGGAGGAGGAAGAAGAAAAGA
1 AGGAGAACGAGGAAGAAGAAAAGA
30142254 GTGAAGATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.55, C:0.02, G:0.43, T:0.00
Consensus pattern (26 bp):
AGGAGAACGAGGAAGAAGAAAAGAAG
Found at i:30142265 original size:21 final size:21
Alignment explanation
Indices: 30142196--30142265 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
30142186 CCCAAATTTT
*
30142196 GAAG-AGAAGGAGAACGAGGAA
1 GAAGAAGAAGAAGAA-GAGGAA
* *
30142217 GAAGAAGAAGAAGAGGAGGAG
1 GAAGAAGAAGAAGAAGAGGAA
*
30142238 GAGGAAGAAGAA-AAGAGTGAA
1 GAAGAAGAAGAAGAAGAG-GAA
*
30142259 GATGAAG
1 GAAGAAG
30142266 GGATTAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 4 0.10
21 28 0.70
22 8 0.20
ACGTcount: A:0.53, C:0.01, G:0.43, T:0.03
Consensus pattern (21 bp):
GAAGAAGAAGAAGAAGAGGAA
Found at i:30145863 original size:43 final size:42
Alignment explanation
Indices: 30145802--30145957 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 42
30145792 AATAATTTTT
* *
30145802 TAAAGGTCATTTTCTTTAGCGGTGTTTGTGGGAAAAGCGTCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGC-TCGC
* **
30145845 TAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGAATAATGCT-TT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAA-AA-GCTCGC
** * *
30145888 TAAAATTCATGTTCTTTAGCGGCGTTTTTGGGAAAAGCACCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGC-TCGC
* * *
30145931 TGAAGATCATGTTCTATAGCGGCGTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTT
30145958 TTTTCATAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 84 0.90
44 3 0.03
45 2 0.02
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (42 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCTCGC
Found at i:30145944 original size:86 final size:86
Alignment explanation
Indices: 30145799--30145957 Score: 219
Period size: 86 Copynumber: 1.8 Consensus size: 86
30145789 TAAAATAATT
* * * ** * *
30145799 TTTTAAAGGTCATTTTCTTTAGCGGTGTTTGTGGGAAAAGCGTCGCTAAAGGTCATGTTCTTTAG
1 TTTTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGATCATGTTCTATAG
30145864 CAGCGTTTGTGGGAATAATGC
66 CAGCGTTTGTGGGAATAATGC
* * *
30145885 TTTTAAAATTCATGTTCTTTAGCGGCGTTTTTGGGAAAAGCACCGCTGAAGATCATGTTCTATAG
1 TTTTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGATCATGTTCTATAG
*
30145950 CGGCGTTT
66 CAGCGTTT
30145958 TTTTCATAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 62 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (86 bp):
TTTTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGATCATGTTCTATAG
CAGCGTTTGTGGGAATAATGC
Found at i:30147869 original size:36 final size:36
Alignment explanation
Indices: 30147822--30147892 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
30147812 TAAACTCGAT
**
30147822 TCAGTTCAGCAGCCTTTTGGATCTATTCTGACTGAC
1 TCAGTTCAGCAGCCTTTCAGATCTATTCTGACTGAC
30147858 TCAGTTCAGCAGCCTTTCAGATCTATTCTGACTGA
1 TCAGTTCAGCAGCCTTTCAGATCTATTCTGACTGA
30147893 AGTGCTCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (36 bp):
TCAGTTCAGCAGCCTTTCAGATCTATTCTGACTGAC
Found at i:30147910 original size:50 final size:50
Alignment explanation
Indices: 30147856--30147950 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
30147846 ATTCTGACTG
* * *
30147856 ACTCAGTTCAGCAGCCTTTCAGATCTATTCTGACTGAAGTGCTCAATTTT
1 ACTCAGTTCAGCAACATTTCAGATCTATTCTGACTAAAGTGCTCAATTTT
*
30147906 ACTCAGTTTAGCAACATTTCAGATCTATTCTGACTAAAGTGCTCA
1 ACTCAGTTCAGCAACATTTCAGATCTATTCTGACTAAAGTGCTCA
30147951 TCTGTTCTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (50 bp):
ACTCAGTTCAGCAACATTTCAGATCTATTCTGACTAAAGTGCTCAATTTT
Found at i:30155788 original size:20 final size:20
Alignment explanation
Indices: 30155717--30155803 Score: 95
Period size: 20 Copynumber: 4.3 Consensus size: 20
30155707 TTGTACAGGA
*
30155717 TTTGCACTTC-AGTGCCTCTA
1 TTTGCACTTCGA-TGCCTCTG
* * *
30155737 TTTGCACTTTGGTGCTTCTG
1 TTTGCACTTCGATGCCTCTG
30155757 TTTGCACTTCGATGCCTCTG
1 TTTGCACTTCGATGCCTCTG
* *
30155777 TCTGCACTTCGACGCCTCTG
1 TTTGCACTTCGATGCCTCTG
30155797 TTATGCA
1 TT-TGCA
30155804 TCTATGATGC
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 51 0.93
21 4 0.07
ACGTcount: A:0.11, C:0.29, G:0.20, T:0.40
Consensus pattern (20 bp):
TTTGCACTTCGATGCCTCTG
Found at i:30159780 original size:22 final size:22
Alignment explanation
Indices: 30159755--30159804 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
30159745 CACAAAAGGC
30159755 CATTTATTAGAGAAAAAATAAG
1 CATTTATTAGAGAAAAAATAAG
*
30159777 CATTTATTAGAGACAAAATAAG
1 CATTTATTAGAGAAAAAATAAG
30159799 CATTTA
1 CATTTA
30159805 AACATACATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (22 bp):
CATTTATTAGAGAAAAAATAAG
Found at i:30162976 original size:24 final size:25
Alignment explanation
Indices: 30162949--30163006 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
30162939 CTGGAGGCCT
30162949 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCCTCTTTTAATAAACTGGGGCAA
* **
30162973 AGCCTTTTTTGGTAAACTGGGGCAA
1 AGCCTCTTTTAATAAACTGGGGCAA
30162998 AGCC-CTTTT
1 AGCCTCTTTT
30163007 CGCACTTCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (25 bp):
AGCCTCTTTTAATAAACTGGGGCAA
Found at i:30163081 original size:21 final size:22
Alignment explanation
Indices: 30163057--30163114 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
30163047 AATGACTATA
30163057 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
*
30163078 TCATAACATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
30163100 -CAT-GTCATATCATGT
1 TCATAG-CATATCATGT
30163115 ATAACAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:30171061 original size:24 final size:25
Alignment explanation
Indices: 30171028--30171085 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
30171018 CTAGAGGCCT
*
30171028 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCCTTTTTTAATAAACTGGGGCAA
**
30171052 AGCCTTTTTTGGTAAACTGGGGCAA
1 AGCCTTTTTTAATAAACTGGGGCAA
*
30171077 AGCCCTTTT
1 AGCCTTTTT
30171086 CGCACTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (25 bp):
AGCCTTTTTTAATAAACTGGGGCAA
Found at i:30171160 original size:21 final size:22
Alignment explanation
Indices: 30171136--30171193 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
30171126 AATGAGTATA
30171136 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
*
30171157 TCATAACATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
30171179 -CAT-GTCATATCATGT
1 TCATAG-CATATCATGT
30171194 ATAACAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:30173099 original size:18 final size:18
Alignment explanation
Indices: 30173076--30173117 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
30173066 AATTTTAAAA
* *
30173076 AAAAATTACCAAATTCTC
1 AAAAATTACCAAAATCCC
*
30173094 AAAAATTACGAAAATCCC
1 AAAAATTACCAAAATCCC
30173112 AAAAAT
1 AAAAAT
30173118 CAGGGTGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAATTACCAAAATCCC
Found at i:30175397 original size:13 final size:13
Alignment explanation
Indices: 30175379--30175407 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30175369 TAAAATCTCT
30175379 GTTTGATTTGTGA
1 GTTTGATTTGTGA
30175392 GTTTGATTTGTGA
1 GTTTGATTTGTGA
30175405 GTT
1 GTT
30175408 AGGTCATCGA
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:0.14, C:0.00, G:0.31, T:0.55
Consensus pattern (13 bp):
GTTTGATTTGTGA
Found at i:30175732 original size:21 final size:21
Alignment explanation
Indices: 30175708--30175759 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
30175698 GCGGTGATGA
*
30175708 TGAGATTAGTTACTGTA-TAGG
1 TGAGATTAGATACTGTAGT-GG
30175729 TGAGATTAGATACTGTAGTGG
1 TGAGATTAGATACTGTAGTGG
30175750 TGAGATTAGA
1 TGAGATTAGA
30175760 AACAACGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.35
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGTGG
Found at i:30177642 original size:17 final size:17
Alignment explanation
Indices: 30177599--30177646 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
30177589 GAACTTATTA
*
30177599 TAATAAAATAATATTTT
1 TAATAAAATAATATTCT
* * *
30177616 TATTAGAATAGTATTCT
1 TAATAAAATAATATTCT
30177633 TAATAAAATAATAT
1 TAATAAAATAATAT
30177647 CAATATTGTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (17 bp):
TAATAAAATAATATTCT
Found at i:30181882 original size:3 final size:3
Alignment explanation
Indices: 30181874--30182373 Score: 256
Period size: 3 Copynumber: 166.0 Consensus size: 3
30181864 TTAATATAAG
30181874 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *** * *
30181922 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA CCC TTA GTA ATA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
30181969 TTA TTA TT- TT- TTA CTA TTA TTA TTA GTGA TCTA TTG CTA -TA CTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA -TTA
* * * * * * * *
30182014 TTA GTGTA TTG TTA TTTC TTA TTT TTC TTA TTA TTG TTG TTA TTG GTA
1 TTA -T-TA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
30182062 TATA TTA TTA TTA TT- TCA -TA TTA TTA TTA TTA CTA CTA ATA TCA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
30182106 CTA TTA TCA TTTA TTA TTA TTA TTA TTA TT- TTA TTTA TTTA TTTA TTTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA -TTA -TTA
* * * *
30182155 TTT TTT TTA CTA TCTA ATA -TA TTA TTA -TA CCTT- TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA
* * * * * *
30182200 TTA CTA TT- GTA TTA TTA CTA TTA TTA TTA -CA TT- TTC TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
30182245 CTA TTA CTA TT- TTA TTT TTA TTT TTA TTTC TTA TTA TTG TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * * * * *
30182290 TTA TTA TTA ATA CTA ATA TTA ATA TTC TTA TTG TTA CTT- TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * * * *
30182335 TTA TCA TTA GTA TTA TTA TTT TTA CTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30182374 CTATCGTTTT
Statistics
Matches: 379, Mismatches: 90, Indels: 56
0.72 0.17 0.11
Matches are distributed among these distances:
2 26 0.07
3 314 0.83
4 36 0.09
5 3 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:30182249 original size:22 final size:23
Alignment explanation
Indices: 30182191--30182266 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
30182181 ATACCTTTTA
* *
30182191 TTATTATTATTACTATTGTATTAT
1 TTATTACTATTACTATTTTATT-T
* *
30182215 TACTATTATTATTAC-ATTTTCTTT
1 T--TATTACTATTACTATTTTATTT
30182239 TTATTACTATTACTATTTTATTT
1 TTATTACTATTACTATTTTATTT
30182262 TTATT
1 TTATT
30182267 TTTATTTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
22 11 0.24
23 13 0.29
24 3 0.07
25 6 0.13
26 12 0.27
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.64
Consensus pattern (23 bp):
TTATTACTATTACTATTTTATTT
Found at i:30185572 original size:41 final size:41
Alignment explanation
Indices: 30185516--30185594 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
30185506 GTTTGCAATA
* *
30185516 AAACGCCGCAAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
1 AAACGCCGCAAAAAACTGACCAATAGCGGCGCTTTTGGTCC
* *
30185557 AAACGTCGCTAAAAACTGACCAATAGCGGCGCTTTTGG
1 AAACGCCGCAAAAAACTGACCAATAGCGGCGCTTTTGG
30185595 AAAAACGCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (41 bp):
AAACGCCGCAAAAAACTGACCAATAGCGGCGCTTTTGGTCC
Found at i:30185685 original size:41 final size:41
Alignment explanation
Indices: 30185580--30185727 Score: 208
Period size: 41 Copynumber: 3.6 Consensus size: 41
30185570 AACTGACCAA
30185580 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGG-TT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* * ** * *
30185620 TAGCTGCGTTTTTCCAAAAGCGCCGCTATAAATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
* *
30185661 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTTGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
*
30185702 TAGCGGCACTTTTGGAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
30185728 AAAAAAGTAA
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 32 0.35
41 60 0.65
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCGAGGTTT
Found at i:30186911 original size:496 final size:494
Alignment explanation
Indices: 30185978--30187105 Score: 2040
Period size: 496 Copynumber: 2.3 Consensus size: 494
30185968 CCCAAAAGCA
* *
30185978 TAAATTATGAACATAATTATTGATATAACATCATTTTATATTTATATATTGCATACATAAATATT
1 TAAATTATTAACACAATTATTGATATAACATCATTTTATATTTATATATTGCATACATAAATATT
*
30186043 TATATTTATTCAATATAAAAATATATTGATGTATTTATTTTTTAAAACGTGTATGATTAAATCAA
66 TATATTTATTCAATATAAAAATATATTGATGTATTTATTTTTTAAAATGTGTATGATTAAATCAA
*
30186108 AATTAAAGTTTCAATTATACATTTAAACCACAATTAGAATTTCACATCTACAATTATACATTAAA
131 AATTAAAGTTTCAATTATACATTTAAACCACAATTAGAATTTCACATCTACAATTACACATTAAA
30186173 TCGAAATTCATATACAATTCTGAGATGTATCTCTATCAAAATTTAGGTGTGTACATATAATTAAA
196 TCGAAATTCATATACAATTCTGAGATGTATCTCTATCAAAATTTAGGTGTGTACATATAATTAAA
* * *
30186238 TATCTAATTATGGTTTAAGGGTTGGGGTTAAGGGTTTATGGTTTATGTTTTATGGTTTAGAGTTT
261 TATCTAATTATGGTTTAAGGGTTGAGGTTAAGGGTTTATGGTTTATGTTTTATAGTTTAAAGTTT
* * *
30186303 AGGGGATAGGGGTTATGATATAATGTTCATTATTTTGGGGTTTAGGATTTATAATCTAGGATTTA
326 AGCGGATAGAGGTTATGATATAATGTTCATTATTTTGGGGTTTAGAATTTATAATCTAGGATTTA
*
30186368 AGGTTTGGCGTTTGGGGATCAGGGTTTAATTTTTAGCGTTTAGGGATAAATGTATGGGGATCAGG
391 AGGTTTGGCGTTTGGGGATCAGGGTTTAATTTTTAGCGTTTAGGGATAAA--TATGGGGATCAAG
*
30186433 GTACAATTGTATATATGAACTTTAATTTGATCTAGTTCTTG
454 GTAAAATTGTATATATGAACTTTAATTTGATCTAGTTCTTG
30186474 TAAATTATTAACACAATTATTGATATAACATCATTTTATATTTATATATTGCATACATAAATATT
1 TAAATTATTAACACAATTATTGATATAACATCATTTTATATTTATATATTGCATACATAAATATT
30186539 TATATTTATTCAATATAAAAATATATTGATGTATTTATTTTTTAAAATGTGTATGATTAAATCAA
66 TATATTTATTCAATATAAAAATATATTGATGTATTTATTTTTTAAAATGTGTATGATTAAATCAA
*
30186604 AATTAAAGTTTCAATTATACATTTAAACCACAATTAGAATTTCACATCTACAATTACATATTAAA
131 AATTAAAGTTTCAATTATACATTTAAACCACAATTAGAATTTCACATCTACAATTACACATTAAA
* *
30186669 TCGAAATTCATATATAATTTTGAGATGTATCTCTATCAAAATTTAGGTGTGTACATATAATTAAA
196 TCGAAATTCATATACAATTCTGAGATGTATCTCTATCAAAATTTAGGTGTGTACATATAATTAAA
30186734 TATCTAATTATGGTTTAAGGGTTGAGGTTAAGGGTTTATGGTTTATGTTTTATAGTTTAAAGTTT
261 TATCTAATTATGGTTTAAGGGTTGAGGTTAAGGGTTTATGGTTTATGTTTTATAGTTTAAAGTTT
* *
30186799 AGCGGATAGAGGTTATGATATAATGTTCATTATTTTGGGGTTTAGAATTTATGATTTAGGATTTA
326 AGCGGATAGAGGTTATGATATAATGTTCATTATTTTGGGGTTTAGAATTTATAATCTAGGATTTA
* *
30186864 AGGTTTGGTGTTTGGGGATCAGGGTTTAATTTTTAGCTTTTAGGGATAAATATGGGGATCAAGGT
391 AGGTTTGGCGTTTGGGGATCAGGGTTTAATTTTTAGCGTTTAGGGATAAATATGGGGATCAAGGT
30186929 AAAATTGTATATATGAACTTTAATTTGATCTAGTTCTTG
456 AAAATTGTATATATGAACTTTAATTTGATCTAGTTCTTG
*
30186968 TAAATTATTAACACAATTATTGATATAACATCATTTTATATTTATTTATTGCATACATAAATATT
1 TAAATTATTAACACAATTATTGATATAACATCATTTTATATTTATATATTGCATACATAAATATT
*
30187033 TATATTTATTCAATATAAAAATATATTGATGTATTTATTTTTTAAAATGTCTATGATTAAATCAA
66 TATATTTATTCAATATAAAAATATATTGATGTATTTATTTTTTAAAATGTGTATGATTAAATC-A
30187098 AAATTAAA
130 AAATTAAA
30187106 AAATTAAAAA
Statistics
Matches: 610, Mismatches: 21, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
494 178 0.29
495 9 0.01
496 423 0.69
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (494 bp):
TAAATTATTAACACAATTATTGATATAACATCATTTTATATTTATATATTGCATACATAAATATT
TATATTTATTCAATATAAAAATATATTGATGTATTTATTTTTTAAAATGTGTATGATTAAATCAA
AATTAAAGTTTCAATTATACATTTAAACCACAATTAGAATTTCACATCTACAATTACACATTAAA
TCGAAATTCATATACAATTCTGAGATGTATCTCTATCAAAATTTAGGTGTGTACATATAATTAAA
TATCTAATTATGGTTTAAGGGTTGAGGTTAAGGGTTTATGGTTTATGTTTTATAGTTTAAAGTTT
AGCGGATAGAGGTTATGATATAATGTTCATTATTTTGGGGTTTAGAATTTATAATCTAGGATTTA
AGGTTTGGCGTTTGGGGATCAGGGTTTAATTTTTAGCGTTTAGGGATAAATATGGGGATCAAGGT
AAAATTGTATATATGAACTTTAATTTGATCTAGTTCTTG
Found at i:30191687 original size:15 final size:13
Alignment explanation
Indices: 30191667--30191705 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 13
30191657 CCACAAAATG
30191667 TTAGCGGCGCTATTT
1 TTAGCGGCG-T-TTT
30191682 TTAGCGGCGTTTT
1 TTAGCGGCGTTTT
30191695 TT-GCGGCGTTT
1 TTAGCGGCGTTT
30191706 GTAAAAGCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.38
13 5 0.21
14 1 0.04
15 9 0.38
ACGTcount: A:0.08, C:0.18, G:0.31, T:0.44
Consensus pattern (13 bp):
TTAGCGGCGTTTT
Found at i:30200651 original size:64 final size:64
Alignment explanation
Indices: 30200546--30200675 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 64
30200536 GATCATTCAT
30200546 ATCACATCTAGTCAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGC
1 ATCACATCTAGTCAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGC
* * * *
30200610 ATCACATTTATTCAGGAGCATTTGATTCATTTTGATTATAGCATCCTAATCATTTGACATAAGC
1 ATCACATCTAGTCAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGC
30200674 AT
1 AT
30200676 AGATACATGG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (64 bp):
ATCACATCTAGTCAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGC
Found at i:30200780 original size:43 final size:42
Alignment explanation
Indices: 30200732--30201190 Score: 203
Period size: 44 Copynumber: 10.6 Consensus size: 42
30200722 ATTCACAAGC
*
30200732 CTTAACCCCATAAGCAGTAGGGTAACAAGCTGAATTTACAGAT
1 CTTAACCCC-TAAGCAGTAGGGTAACAAGATGAATTTACAGAT
* * * * * ** **
30200775 CTTAACCCTCTAAGCAATAGGGGAAC-AGATCAAAGGTGATGGGC
1 CTTAACCC-CTAAGCAGTAGGGTAACAAGAT-GAA-TTTACAGAT
* * *
30200819 CTTAAACCCCTAAGCAGTAGGATAACAGGCTGAATTTACAGAT
1 CTT-AACCCCTAAGCAGTAGGGTAACAAGATGAATTTACAGAT
* * * ** **
30200862 CTTAACCCCCTAAGCAGTAGGGAAAC-AGATCGAAGGTGATGGGC
1 CTTAA-CCCCTAAGCAGTAGGGTAACAAGAT-GAA-TTTACAGAT
* *
30200906 CTTAAACCCCTAAGCAGTAGGGTAACAGGATGAATTTACAAAT
1 CTT-AACCCCTAAGCAGTAGGGTAACAAGATGAATTTACAGAT
* * * ** **
30200949 CTTAACCCCTTAAGCAGTAGGGAAAC-AGATCGAAGGTGATGGGC
1 CTTAACCCC-TAAGCAGTAGGGTAACAAGAT-GAA-TTTACAGAT
* * * *
30200993 CTTAAACCCCTAAGAAGTAGGGTAACAGGCT-AAATTACAGAT
1 CTT-AACCCCTAAGCAGTAGGGTAACAAGATGAATTTACAGAT
* * * * * **
30201035 TTTATCACCCTAAGCAGTAGGGAAACAA-ATCGAAGATGATGGAT
1 CTTAAC-CCCTAAGCAGTAGGGTAACAAGAT-GAA-TTTACAGAT
* * * ** ** **
30201079 CTTATCACCCTAAGCAGTAGGGAAAC-AGATCAA-AGATGGGC
1 CTTAAC-CCCTAAGCAGTAGGGTAACAAGATGAATTTACAGAT
* * *
30201120 CTTAACCCTCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGAT
1 CTTAACCC-CTAAGCAGTAGGGTAACAAGATGAA-TTTACAGAT
* *
30201164 CTTATCACCCTAAGCAGTAGGGAAACA
1 CTTAAC-CCCTAAGCAGTAGGGTAACA
30201191 GATCAAAGAT
Statistics
Matches: 304, Mismatches: 87, Indels: 49
0.69 0.20 0.11
Matches are distributed among these distances:
40 2 0.01
41 29 0.10
42 43 0.14
43 81 0.27
44 127 0.42
45 22 0.07
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (42 bp):
CTTAACCCCTAAGCAGTAGGGTAACAAGATGAATTTACAGAT
Found at i:30200833 original size:44 final size:44
Alignment explanation
Indices: 30200778--30201147 Score: 226
Period size: 44 Copynumber: 8.5 Consensus size: 44
30200768 TACAGATCTT
* * *
30200778 AACCCTCTAAGCAATAGGGGAACAGATCAAAGGTGATGGGCCTTA
1 AACCC-CTAAGCAGTAGGGTAACAGATCGAAGGTGATGGGCCTTA
* * * * ** **
30200823 AACCCCTAAGCAGTAGGATAACAG-GCTGAA-TTTACAGATCTTA
1 AACCCCTAAGCAGTAGGGTAACAGATC-GAAGGTGATGGGCCTTA
* *
30200866 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCTTA
1 AACCCCTAAGCAGTAGGGTAACAGATCGAAGGTGATGGGCCTTA
* * *****
30200910 AACCCCTAAGCAGTAGGGTAACAGGAT-GAA-TTTACAAATCTT-
1 AACCCCTAAGCAGTAGGGTAACA-GATCGAAGGTGATGGGCCTTA
*
30200952 AACCCCTTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCTTA
1 AACCCC-TAAGCAGTAGGGTAACAGATCGAAGGTGATGGGCCTTA
* * * * * ** ** *
30200997 AACCCCTAAGAAGTAGGGTAACAG-GCTAA-ATTA-CAGATTTT
1 AACCCCTAAGCAGTAGGGTAACAGATCGAAGGTGATGGGCCTTA
* * * * **
30201038 ATCACCCTAAGCAGTAGGGAAACAAATCGAAGATGATGGATCTT-
1 AAC-CCCTAAGCAGTAGGGTAACAGATCGAAGGTGATGGGCCTTA
* * *
30201082 ATCACCCTAAGCAGTAGGGAAACAGATC-AA--AGATGGGCCTT-
1 AAC-CCCTAAGCAGTAGGGTAACAGATCGAAGGTGATGGGCCTTA
30201123 AACCCTCTAAGCAGTAGGGTAACAG
1 AACCC-CTAAGCAGTAGGGTAACAG
30201148 GCTGAAGATT
Statistics
Matches: 245, Mismatches: 67, Indels: 30
0.72 0.20 0.09
Matches are distributed among these distances:
40 2 0.01
41 33 0.13
42 29 0.12
43 64 0.26
44 101 0.41
45 16 0.07
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (44 bp):
AACCCCTAAGCAGTAGGGTAACAGATCGAAGGTGATGGGCCTTA
Found at i:30200876 original size:87 final size:87
Alignment explanation
Indices: 30200730--30201106 Score: 535
Period size: 87 Copynumber: 4.3 Consensus size: 87
30200720 GAATTCACAA
* * *
30200730 GCCTT-AACCCCATAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTTAACCCTCTAAGCAATA
1 GCCTTAAACCCC-TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTA
* *
30200794 GGGGAACAGATCAAAGGTGATGG
65 GGGAAACAGATCGAAGGTGATGG
*
30200817 GCCTTAAACCCCTAAGCAGTAGGATAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
30200882 GGAAACAGATCGAAGGTGATGG
66 GGAAACAGATCGAAGGTGATGG
* * *
30200904 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGATGAATTTACAAATCTTAACCCCTTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
30200969 GGAAACAGATCGAAGGTGATGG
66 GGAAACAGATCGAAGGTGATGG
* * * * *
30200991 GCCTTAAACCCCTAAGAAGTAGGGTAACAGGCT-AAATTACAGATTTTATCACCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
* *
30201055 GGAAACAAATCGAAGATGATGG
66 GGAAACAGATCGAAGGTGATGG
** * *
30201077 ATCTT-ATCACCCTAAGCAGTAGGGAAACAG
1 GCCTTAAAC-CCCTAAGCAGTAGGGTAACAG
30201107 ATCAAAGATG
Statistics
Matches: 263, Mismatches: 25, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
85 2 0.01
86 67 0.25
87 188 0.71
88 6 0.02
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (87 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG
GGAAACAGATCGAAGGTGATGG
Found at i:30201165 original size:85 final size:85
Alignment explanation
Indices: 30201076--30201354 Score: 354
Period size: 85 Copynumber: 3.3 Consensus size: 85
30201066 GAAGATGATG
*
30201076 GATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGATGGGCCTTAACCCTCTAAGCAGTAGG
1 GATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGATGGGCCTTAACCCACTAAGCAGTAGG
30201141 GTAACAGGCTGAAGATTACA
66 GTAACAGGCTGAAGATTACA
30201161 GATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGATGGGCCTTAACCCACTAAGC-G-ATG
1 GATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGATGGGCCTTAACCCACTAAGCAGTA-G
*
30201224 GGTTAACAGGCTGAAGATTATA
65 GG-TAACAGGCTGAAGATTACA
* * ** * *
30201246 GATCTTATCTCCTTAAGCAGTAGTGG-AGTAGATCGAAA-ACGGTTAGCCTTAACCCCCTAAGCA
1 GATCTTATCACCCTAAGCAGTAG-GGAAACAGATC-AAAGATGG---GCCTTAACCCACTAAGCA
30201309 GTAGGGTAACAGGCTG-A-ATTACA
61 GTAGGGTAACAGGCTGAAGATTACA
* **
30201332 GATCTTGTCTGCCTAAGCAGTAG
1 GATCTTATCACCCTAAGCAGTAG
30201355 TGGAGCAGGT
Statistics
Matches: 173, Mismatches: 12, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
83 1 0.01
84 4 0.02
85 106 0.61
86 30 0.17
87 1 0.01
88 26 0.15
89 4 0.02
90 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (85 bp):
GATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGATGGGCCTTAACCCACTAAGCAGTAGG
GTAACAGGCTGAAGATTACA
Found at i:30201268 original size:129 final size:127
Alignment explanation
Indices: 30200949--30201201 Score: 330
Period size: 129 Copynumber: 2.0 Consensus size: 127
30200939 ATTTACAAAT
* * * *
30200949 CTTAAC-CCCTTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCTTAAACCC-CTAAGAAGTA
1 CTTAACACCC-TAAGCAGTAGGGAAACAGATC-AA--AGATAGACCTT-AACCCTCTAAGCAGTA
*
30201012 GGGTAACAGGCTAAATTACAGATTTTATCACCCTAAGCAGTAGGGAAACAAATCGAAGATGATGG
61 GGGTAACAGGCTAAATTACAGATCTTATCACCCTAAGCAGTAGGGAAACAAATCGAAGATGATGG
*
30201077 AT
126 AC
* * *
30201079 CTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGATGGGCCTTAACCCTCTAAGCAGTAGGGTA
1 CTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGATAGACCTTAACCCTCTAAGCAGTAGGGTA
* *
30201144 ACAGGCTGAAGATTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAGATG
66 ACAGGCT-AA-ATTACAGATCTTATCACCCTAAGCAGTAGGGAAACAAATCGAAGATG
30201202 GGCCTTAACC
Statistics
Matches: 113, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
126 5 0.04
127 31 0.27
128 2 0.02
129 46 0.41
130 26 0.23
131 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (127 bp):
CTTAACACCCTAAGCAGTAGGGAAACAGATCAAAGATAGACCTTAACCCTCTAAGCAGTAGGGTA
ACAGGCTAAATTACAGATCTTATCACCCTAAGCAGTAGGGAAACAAATCGAAGATGATGGAC
Found at i:30201525 original size:88 final size:88
Alignment explanation
Indices: 30201374--30201537 Score: 229
Period size: 88 Copynumber: 1.9 Consensus size: 88
30201364 TTGAAATCAT
* *** * * *
30201374 CAATTCGTATCTCCTTGAAGTTTCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
1 CAATTCGTATCTCCTTGAAGTTCCAACAGAGTAGATCAAAACTACAAATATCTTCTCCCTGAAAT
30201439 GGCATTGGAGCTGTTCAAAGCCA
66 GGCATTGGAGCTGTTCAAAGCCA
* * * *
30201462 CAATTCGTATCTCCTTGAAGTTCCAACAGATTAGATCAAAACTACTAATATCTTTTCCTTGAAAT
1 CAATTCGTATCTCCTTGAAGTTCCAACAGAGTAGATCAAAACTACAAATATCTTCTCCCTGAAAT
30201527 GGCATTGGAGC
66 GGCATTGGAGC
30201538 GATTGAAGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 65 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (88 bp):
CAATTCGTATCTCCTTGAAGTTCCAACAGAGTAGATCAAAACTACAAATATCTTCTCCCTGAAAT
GGCATTGGAGCTGTTCAAAGCCA
Found at i:30203020 original size:3 final size:3
Alignment explanation
Indices: 30203012--30203490 Score: 178
Period size: 3 Copynumber: 163.0 Consensus size: 3
30203002 TTAATATAAG
* *
30203012 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *** * * * *
30203060 TTA GTA TCA TTA CCC TTG GTA ATA -TA TTA TTA TTA TT- TT- TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
30203105 TTA TTA TTA GTGA TCTA TTA CTA -TA CTTA TTA GTGTA TTG TTA TTTC
1 TTA TTA TTA -TTA T-TA TTA TTA TTA -TTA TTA -T-TA TTA TTA -TTA
* * * * *
30203152 TTA TTT TTCA -TA TTA TTG TTG TTA TTG GTA TATA TTA TTA TTA TT-
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * * * *
30203197 TCA -TA TTA TTA TTA TTA CTA CTA ATA TCA CTA TTA TCA TT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
30203242 TTA CTA TTA TTT TTA TT- TTA TT- TTA TT- TTA TTT TTT TTA CTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * *
30203288 ATA -TA TTA TTA -TA CCTT- TT- TTA TTA TTA TTA CTA TT- GTA TTA
1 TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
30203330 TTA CTA TTA TTA TTA -CA TT- TTC TT- TT- TTA TTA CTA TTA CTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
30203373 TTA TTT TTA TTT TTA TT- TCCTA TTA TTG TTA TCA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
30203419 CTA ATA TTA ATA TTC TTA TTA TTA CTT- TTA TTA TTA TCA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * *
30203464 TTA TTA TTT TTA CTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
30203491 CTATCGTTTT
Statistics
Matches: 353, Mismatches: 89, Indels: 68
0.69 0.17 0.13
Matches are distributed among these distances:
2 42 0.12
3 289 0.82
4 18 0.05
5 4 0.01
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:30203213 original size:19 final size:19
Alignment explanation
Indices: 30203152--30203213 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
30203142 TTGTTATTTC
*
30203152 TTATT-TTTCATATTATTG
1 TTATTATTTCATATTATTA
*
30203170 TTGTTATTGGT-ATA-TATTA
1 TTATTATT--TCATATTATTA
30203189 TTATTATTTCATATTATTA
1 TTATTATTTCATATTATTA
30203208 TTATTA
1 TTATTA
30203214 CTACTAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.03
18 7 0.19
19 24 0.67
20 3 0.08
21 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.63
Consensus pattern (19 bp):
TTATTATTTCATATTATTA
Found at i:30203262 original size:5 final size:5
Alignment explanation
Indices: 30203252--30203280 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
30203242 TTACTATTAT
30203252 TTTTA TTTTA TTTTA TTTTA TTTT- TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
30203281 CTATCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:30203375 original size:43 final size:43
Alignment explanation
Indices: 30203291--30203375 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
30203281 CTATCTAATA
* *
30203291 TATTATTATACCTTTTTTATTATTATTACTATTGTATTATTAC
1 TATTATTATACATTTTTTATTATTATTACTATTCTATTATTAC
30203334 TATTATTATTACATTTTCTT-TT-TTATTACTATTACTA-TATTA
1 TATTATTA-TACATTTT-TTATTATTATTACTATT-CTATTATTA
30203376 TTTTTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
43 24 0.65
44 11 0.30
45 2 0.05
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.61
Consensus pattern (43 bp):
TATTATTATACATTTTTTATTATTATTACTATTCTATTATTAC
Found at i:30203591 original size:13 final size:13
Alignment explanation
Indices: 30203556--30203598 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
30203546 ATATATATAC
30203556 TTATGTATTTGC-
1 TTATGTATTTGCT
* *
30203568 TTATTTCATTTTCT
1 TTATGT-ATTTGCT
30203582 TTATGTATTTGCT
1 TTATGTATTTGCT
30203595 TTAT
1 TTAT
30203599 ATTTTTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 5 0.20
13 15 0.60
14 5 0.20
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.65
Consensus pattern (13 bp):
TTATGTATTTGCT
Found at i:30213301 original size:271 final size:272
Alignment explanation
Indices: 30212842--30213386 Score: 1002
Period size: 271 Copynumber: 2.0 Consensus size: 272
30212832 AAAAATTCAC
*
30212842 AAATGTTATAAACATTTAACAATGAGCAAAAAATGTCCCTACAACAATCTAGAAACAAAGTATTT
1 AAATGTTATAAACATTCAACAATGAGCAAAAAATGTCCCTACAACAATCTAGAAACAAAGTATTT
* * *
30212907 ATAGGCATGAGACAAACCCCAGCCTAATAGACACATACATTCAACTTAATTGAGCTATTGATGAA
66 ATAGGCATGAGACAAACCCCAGCCGAATAGACACACACATTCAACTTAATTAAGCTATTGATGAA
30212972 CTTAATTAAGCCAATTAAAACTAAGTGACCTTTGATGAACACTAACATATCTAACAGCAATGGTC
131 CTTAATTAAGCCAATTAAAACTAAGTGACCTTTGATGAACACTAACATATCTAACAGCAATGGTC
*
30213037 AGCTTGTTTAATCTTCTAAATCAGCTAATAATAAGCTCTAATGAGCTGAATTAATTAAGTTCAAT
196 AGCTTGTTTAATCTTCCAAATCAGCTAATAATAAGCTCTAATGAGCTGAATTAATTAAGTTCAAT
30213102 GCTTGATATCAT
261 GCTTGATATCAT
*
30213114 AAATGTTATAAACATTCAACAATGAGCAAAAAA-GTCCCTACAACAATCTGGAAACAAAGTATTT
1 AAATGTTATAAACATTCAACAATGAGCAAAAAATGTCCCTACAACAATCTAGAAACAAAGTATTT
*
30213178 ATAGGCATGAGACAAACCCCAGCCGAATAGACACACACATTCAACTTAATTAAGTTATTGATGAA
66 ATAGGCATGAGACAAACCCCAGCCGAATAGACACACACATTCAACTTAATTAAGCTATTGATGAA
*
30213243 CTTAATTAAGCCAATTAAAACTAAGTGACCTTTGATGAACACTAACATATGTAACAGCAATGGTC
131 CTTAATTAAGCCAATTAAAACTAAGTGACCTTTGATGAACACTAACATATCTAACAGCAATGGTC
*
30213308 AGCTTGTTTAATCTTCCAAATCAGCTAATAATGAGCTCTAATGAGCTGAATTAATTAAGTTCAAT
196 AGCTTGTTTAATCTTCCAAATCAGCTAATAATAAGCTCTAATGAGCTGAATTAATTAAGTTCAAT
30213373 GCTTGATATCAT
261 GCTTGATATCAT
30213385 AA
1 AA
30213387 TAGCCCTTTA
Statistics
Matches: 264, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
271 232 0.88
272 32 0.12
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (272 bp):
AAATGTTATAAACATTCAACAATGAGCAAAAAATGTCCCTACAACAATCTAGAAACAAAGTATTT
ATAGGCATGAGACAAACCCCAGCCGAATAGACACACACATTCAACTTAATTAAGCTATTGATGAA
CTTAATTAAGCCAATTAAAACTAAGTGACCTTTGATGAACACTAACATATCTAACAGCAATGGTC
AGCTTGTTTAATCTTCCAAATCAGCTAATAATAAGCTCTAATGAGCTGAATTAATTAAGTTCAAT
GCTTGATATCAT
Found at i:30213849 original size:49 final size:51
Alignment explanation
Indices: 30213756--30213854 Score: 148
Period size: 49 Copynumber: 2.0 Consensus size: 51
30213746 ATGCTGAAAT
*
30213756 TATTTAAGCAACAAAAGAAAAATCCAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGCAACAAAAGAAAAATCCAAAACAACTGAATTAATTAAACTAAG
* * *
30213807 TATTTACGCAACTAAAG-AAAAT-TAAAACAACTGAATTAATTAAACTAA
1 TATTTAAGCAACAAAAGAAAAATCCAAAACAACTGAATTAATTAAACTAA
30213855 ACTTATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 24 0.55
50 5 0.11
51 15 0.34
ACGTcount: A:0.56, C:0.13, G:0.06, T:0.25
Consensus pattern (51 bp):
TATTTAAGCAACAAAAGAAAAATCCAAAACAACTGAATTAATTAAACTAAG
Found at i:30218423 original size:49 final size:50
Alignment explanation
Indices: 30218326--30218423 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 50
30218316 ATGCCGAAAT
* *
30218326 TATTTAAGCAACTAAAGAAAATTCAAAACAACTTAATTAATTAAACTAAG
1 TATTTAAGAAACTAAAGAAAATTCAAAACAACTGAATTAATTAAACTAAG
* *
30218376 TATTTAAGAAACTAAAGAAAATT-AAAACAACTGAGTTAATTATACTAA
1 TATTTAAGAAACTAAAGAAAATTCAAAACAACTGAATTAATTAAACTAA
30218424 ACATATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 22 0.50
50 22 0.50
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (50 bp):
TATTTAAGAAACTAAAGAAAATTCAAAACAACTGAATTAATTAAACTAAG
Found at i:30220695 original size:35 final size:35
Alignment explanation
Indices: 30220663--30220775 Score: 118
Period size: 35 Copynumber: 3.2 Consensus size: 35
30220653 ACCATGGTTA
*
30220663 ATCCATGAAAAAGTTATGACACGTAGGTATGGTATT
1 ATCCAT-AAAAAGCTATGACACGTAGGTATGGTATT
***
30220699 ATCCATACTGAGCTATGACACGTAGGTATGGTATT
1 ATCCATAAAAAGCTATGACACGTAGGTATGGTATT
*** * * *
30220734 ATCCATACCGAGCTATAATACGTAGGTATGGCATT
1 ATCCATAAAAAGCTATGACACGTAGGTATGGTATT
*
30220769 TTCCATA
1 ATCCATA
30220776 CCGAGTTGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 62 0.91
36 6 0.09
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (35 bp):
ATCCATAAAAAGCTATGACACGTAGGTATGGTATT
Found at i:30220822 original size:35 final size:35
Alignment explanation
Indices: 30220677--30220804 Score: 168
Period size: 35 Copynumber: 3.7 Consensus size: 35
30220667 ATGAAAAAGT
* *
30220677 TATGACACGTAGGTATGGTATTATCCATACTGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
*
30220712 TATGACACGTAGGTATGGTATTATCCATACCGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
* * *
30220747 TAT-AATACGTAGGTATGGCATTTTCCATACCGAGT
1 TATGAA-ACGTAGGTATGGTATTATCCATACCGAGC
* *
30220782 TGTGAAACTTAGGTATGGTATTA
1 TATGAAACGTAGGTATGGTATTA
30220805 ACCACACTGA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
34 1 0.01
35 79 0.96
36 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (35 bp):
TATGAAACGTAGGTATGGTATTATCCATACCGAGC
Found at i:30223195 original size:15 final size:15
Alignment explanation
Indices: 30223169--30223206 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
30223159 CTAATCTCTC
30223169 ACAAAG-AAAATAAA
1 ACAAAGAAAAATAAA
30223183 ACAAAGAAAAATAAA
1 ACAAAGAAAAATAAA
30223198 ACAAAGAAA
1 ACAAAGAAA
30223207 GTTTCTCGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.79, C:0.08, G:0.08, T:0.05
Consensus pattern (15 bp):
ACAAAGAAAAATAAA
Found at i:30227548 original size:14 final size:15
Alignment explanation
Indices: 30227519--30227552 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
30227509 GTACATTGAA
30227519 TTTCATGCTTCAGTT
1 TTTCATGCTTCAGTT
*
30227534 TTTCAT-CTTCGGTT
1 TTTCATGCTTCAGTT
30227548 TTTCA
1 TTTCA
30227553 AATGCAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.12, C:0.21, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTCATGCTTCAGTT
Found at i:30230490 original size:3 final size:3
Alignment explanation
Indices: 30230482--30230515 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
30230472 AGACCCATAA
30230482 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
30230516 GATAGGATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:30231115 original size:25 final size:25
Alignment explanation
Indices: 30231079--30231129 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
30231069 TTTTATATTA
* *
30231079 AATTAATATTAATATTAATTAAAAAT
1 AATTAATATTAACAATAA-TAAAAAT
30231105 AATT-ATATTAACAATAATAAAAAT
1 AATTAATATTAACAATAATAAAAAT
30231129 A
1 A
30231130 TTTTCCCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 11 0.48
26 4 0.17
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AATTAATATTAACAATAATAAAAAT
Found at i:30234248 original size:21 final size:22
Alignment explanation
Indices: 30234222--30234269 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
30234212 TGAATGCAAC
*
30234222 GTTTTTGATGAACTGAAGGGCA
1 GTTTTTGATGAACTGAAGGACA
30234244 GTTTTTGATGAACTGAAGGACA
1 GTTTTTGATGAACTGAAGGACA
30234266 GTTT
1 GTTT
30234270 ATGAGCTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.35
Consensus pattern (22 bp):
GTTTTTGATGAACTGAAGGACA
Found at i:30236597 original size:22 final size:21
Alignment explanation
Indices: 30236568--30236610 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
30236558 TTAAATACAA
30236568 AAAAAAAAATAGGTATCAAATTG
1 AAAAAAAAAT-GGTAT-AAATTG
30236591 AAAAAAAAATGGTATAAATT
1 AAAAAAAAATGGTATAAATT
30236611 AGGGTGCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.25
22 5 0.25
23 10 0.50
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAAAAAAATGGTATAAATTG
Found at i:30238598 original size:15 final size:15
Alignment explanation
Indices: 30238555--30238598 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
30238545 AATTTACTTA
*
30238555 AAATTAAATGTTGAAC
1 AAATTAAATATT-AAC
*
30238571 AAA-TAATTATTAAC
1 AAATTAAATATTAAC
30238585 AAATTAAATATTAA
1 AAATTAAATATTAA
30238599 AATTTTAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 6 0.25
15 15 0.62
16 3 0.12
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (15 bp):
AAATTAAATATTAAC
Found at i:30244438 original size:2 final size:2
Alignment explanation
Indices: 30244431--30244462 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30244421 TTCATCCTAT
30244431 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30244463 CTAGCTGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30244981 original size:2 final size:2
Alignment explanation
Indices: 30244974--30245004 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
30244964 ATGATTTGTG
30244974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30245005 GTTAAAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30252674 original size:21 final size:22
Alignment explanation
Indices: 30252633--30252674 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
30252623 TTCTAGATGC
*
30252633 AAGGGACACAGGCCTGTGTGGGT
1 AAGGGACACA-GCCCGTGTGGGT
30252656 AAGGGACAC-GCCCGTGTGG
1 AAGGGACACAGCCCGTGTGG
30252675 CCATTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
23 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.43, T:0.14
Consensus pattern (22 bp):
AAGGGACACAGCCCGTGTGGGT
Found at i:30254900 original size:21 final size:21
Alignment explanation
Indices: 30254853--30254901 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
30254843 ATTTGTTTTA
30254853 TATTATTATAATATATATTCT
1 TATTATTATAATATATATTCT
30254874 TAATTATTAAGTAA-ATATATT-T
1 T-ATTATT-A-TAATATATATTCT
30254896 TATTAT
1 TATTAT
30254902 AAAATCTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 6 0.24
22 8 0.32
23 8 0.32
24 3 0.12
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TATTATTATAATATATATTCT
Found at i:30258678 original size:30 final size:30
Alignment explanation
Indices: 30258623--30258684 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
30258613 CACTAAGCAA
30258623 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
30258652 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
30258683 GT
1 GT
30258685 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:30258921 original size:25 final size:24
Alignment explanation
Indices: 30258842--30258967 Score: 78
Period size: 25 Copynumber: 5.1 Consensus size: 24
30258832 TGTATGCTTA
*
30258842 TACGAGCTATGAATCGGTATGCTCT
1 TACGAGCTA-GAATCGGTAAGCTCT
* * *
30258867 CACGAG-TTGCAAATCGGTTAGCT-T
1 TACGAGCTAG--AATCGGTAAGCTCT
* *
30258891 AAACGAGCTAAGAATCAGTAAGCTCT
1 -TACGAGCT-AGAATCGGTAAGCTCT
* * *
30258917 TACGAGCT-GCAATGGGTAAGCCCA
1 TACGAGCTAG-AATCGGTAAGCTCT
*
30258941 TACGAGCTGAGAATTGGTAAGCTCT
1 TACGAGCT-AGAATCGGTAAGCTCT
30258966 TA
1 TA
30258968 TTACTACAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
23 2 0.03
24 20 0.26
25 50 0.66
26 3 0.04
27 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (24 bp):
TACGAGCTAGAATCGGTAAGCTCT
Found at i:30269611 original size:82 final size:82
Alignment explanation
Indices: 30269474--30269639 Score: 314
Period size: 82 Copynumber: 2.0 Consensus size: 82
30269464 TGTCAGAGCA
*
30269474 TTCGATCACACTATTAAAAGAACATTGGGTATAGTGAATTTGTTATTTTAAGTATGGCATGTATA
1 TTCGATCACACTATTAAAAGAACATTAGGTATAGTGAATTTGTTATTTTAAGTATGGCATGTATA
30269539 GGGGACTTAGTCATTTT
66 GGGGACTTAGTCATTTT
30269556 TTCGATCACACTATTAAAAGAACATTAGGTATAGTGAATTTGTTATTTTAAGTATGGCATGTATA
1 TTCGATCACACTATTAAAAGAACATTAGGTATAGTGAATTTGTTATTTTAAGTATGGCATGTATA
*
30269621 GGGGACTTGGTCATTTT
66 GGGGACTTAGTCATTTT
30269638 TT
1 TT
30269640 GGTATGTGTC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (82 bp):
TTCGATCACACTATTAAAAGAACATTAGGTATAGTGAATTTGTTATTTTAAGTATGGCATGTATA
GGGGACTTAGTCATTTT
Found at i:30283778 original size:17 final size:18
Alignment explanation
Indices: 30283747--30283780 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30283737 TCCTAGCCCC
*
30283747 ATTTTTAATGTTCTTTGT
1 ATTTTTAAAGTTCTTTGT
30283765 ATTTTTAAAG-TCTTTG
1 ATTTTTAAAGTTCTTTG
30283781 AAGCATGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.62
Consensus pattern (18 bp):
ATTTTTAAAGTTCTTTGT
Found at i:30284856 original size:12 final size:12
Alignment explanation
Indices: 30284839--30284867 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
30284829 GGGTATTATA
30284839 ATGAATGATGCG
1 ATGAATGATGCG
30284851 ATGAATGATGCG
1 ATGAATGATGCG
30284863 ATGAA
1 ATGAA
30284868 AGTCGCAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.31, T:0.24
Consensus pattern (12 bp):
ATGAATGATGCG
Found at i:30290274 original size:47 final size:47
Alignment explanation
Indices: 30290245--30290740 Score: 758
Period size: 47 Copynumber: 10.6 Consensus size: 47
30290235 ATACATGAGC
* * *
30290245 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
30290292 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
30290339 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
30290386 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
30290433 TAAGCCCAAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
30290480 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
30290527 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
30290574 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * * *
30290621 TAAGGCCGAAAGGCCAATGTGAAGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * **
30290668 TAAGGCCGAATGGCCAATGCGATAAATGTGAACATGCATACATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
*
30290715 TAAGGCAGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
30290741 CGTGGATGTG
Statistics
Matches: 420, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 420 1.00
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:30290312 original size:24 final size:24
Alignment explanation
Indices: 30290285--30290359 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
30290275 AACATGCATT
30290285 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
* * **
30290309 TGTGATG--AATG-TGAACAT-GCATT
1 TGTG-TGCTAAGGCCG-A-ATGGCAAA
30290332 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
30290356 TGTG
1 TGTG
30290360 ATGAATGTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 13 0.36
24 17 0.47
25 3 0.08
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (24 bp):
TGTGTGCTAAGGCCGAATGGCAAA
Found at i:30290549 original size:22 final size:22
Alignment explanation
Indices: 30290521--30290596 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
30290511 ACATGCATAT
30290521 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
30290543 ATGTGATGAATG-TGAACATGTATA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
30290567 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
30290590 ATGTGAT
1 ATGTGAT
30290597 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:30290807 original size:46 final size:46
Alignment explanation
Indices: 30290754--30290844 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
30290744 GGATGTGTAT
* * *
30290754 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
30290800 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
30290845 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:30295229 original size:39 final size:40
Alignment explanation
Indices: 30295182--30295325 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
30295172 AATGTTCGAG
30295182 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* * *
30295221 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* ** *
30295260 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
** * *
30295300 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAGTCCCGAAGGC
30295326 GTTTGAACGA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:30297235 original size:162 final size:162
Alignment explanation
Indices: 30296968--30297293 Score: 600
Period size: 162 Copynumber: 2.0 Consensus size: 162
30296958 TTAAATAACT
*
30296968 TATTTTTTGATAAAATACGAAAATAACCCAAAATCTATAATAAAAGTTGGTGGAGCCAAAGTGTT
1 TATTTTTTGATAAAATACGAAAATAACCCAAAATCTATAACAAAAGTTGGTGGAGCCAAAGTGTT
30297033 TGACGCCACCAACATGCCACGTCAATAATCTACATTAAAAATTAATTATTTGGTGGAGCCATGTA
66 TGACGCCACCAACATGCCACGTCAATAATCTACATTAAAAATTAATTATTTGGTGGAGCCATGTA
*
30297098 GAAT-AGCACCACTTGTATAAATATTAGGGAAA
131 GAATGA-CACCACTTGTATAAATATTAGGAAAA
*
30297130 TATTTTTTGATAAAATACGAAAATAACCCAAAATCTATAGCAAAAGTTGGTGGAGCCAAAGTGTT
1 TATTTTTTGATAAAATACGAAAATAACCCAAAATCTATAACAAAAGTTGGTGGAGCCAAAGTGTT
*
30297195 TGACGCCACCAACATGCCACGTCAATAATCTACATTAAAAATTAATTATTTGGTGGAGTCATGTA
66 TGACGCCACCAACATGCCACGTCAATAATCTACATTAAAAATTAATTATTTGGTGGAGCCATGTA
30297260 GAATGACACCACTTGTATAAATATTAGGAAAA
131 GAATGACACCACTTGTATAAATATTAGGAAAA
30297292 TA
1 TA
30297294 CAGTGACTTT
Statistics
Matches: 159, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
162 158 0.99
163 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (162 bp):
TATTTTTTGATAAAATACGAAAATAACCCAAAATCTATAACAAAAGTTGGTGGAGCCAAAGTGTT
TGACGCCACCAACATGCCACGTCAATAATCTACATTAAAAATTAATTATTTGGTGGAGCCATGTA
GAATGACACCACTTGTATAAATATTAGGAAAA
Found at i:30297563 original size:24 final size:26
Alignment explanation
Indices: 30297521--30297571 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
30297511 TTTTAAAGTT
*
30297521 TTTATTTGTCCTTATTTATTTATTTTA
1 TTTATTTGT-CTTATTTATTGATTTTA
30297548 TTTATTTGT-TTA-TTATTGATTTTA
1 TTTATTTGTCTTATTTATTGATTTTA
30297572 AAAACTTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 11 0.48
25 3 0.13
27 9 0.39
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.71
Consensus pattern (26 bp):
TTTATTTGTCTTATTTATTGATTTTA
Found at i:30297637 original size:23 final size:22
Alignment explanation
Indices: 30297605--30297673 Score: 97
Period size: 23 Copynumber: 3.2 Consensus size: 22
30297595 ATGTTTTATA
*
30297605 ATATTTTTTTAAAATTTTAAAT
1 ATATATTTTTAAAATTTTAAAT
30297627 ATATATATTTTAAAATTTTAAAT
1 ATATAT-TTTTAAAATTTTAAAT
*
30297650 AT-TATTTTT-TAATTTTAAAT
1 ATATATTTTTAAAATTTTAAAT
30297670 ATAT
1 ATAT
30297674 TTTAATAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
20 12 0.28
21 5 0.12
22 8 0.19
23 18 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATATTTTTAAAATTTTAAAT
Found at i:30297687 original size:19 final size:20
Alignment explanation
Indices: 30297629--30297682 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
30297619 TTTTAAATAT
30297629 ATATATTTTAA-AATTTTAA
1 ATATATTTTAATAATTTTAA
*
30297648 ATATTATTTT-TTAATTTTAA
1 ATA-TATTTTAATAATTTTAA
30297668 ATATATTTTAATAAT
1 ATATATTTTAATAAT
30297683 ATAAAACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATATTTTAATAATTTTAA
Found at i:30297723 original size:80 final size:81
Alignment explanation
Indices: 30297612--30297761 Score: 184
Period size: 80 Copynumber: 1.9 Consensus size: 81
30297602 ATAATATTTT
* *
30297612 TTTAAAATTTTAAATATATATATTTTAAAATTTTAAATATTATTTTT-T-A-ATTTTAAA-TATA
1 TTTAAAATTTTAAAGATATATACTTTAAAA-TTT-AATATTATTTTTATAATATTTTAAAGTATA
30297673 TTTTAATAATATAAAACA
64 TTTTAATAATATAAAACA
* *
30297691 TTTAAATATTTTAAAGATATGAT-CTTTCAAATTTATTATTATTTTTATAATATTTTAAATGTAT
1 TTTAAA-ATTTTAAAGATAT-ATACTTTAAAATTTAATATTATTTTTATAATATTTTAAA-GTAT
30297755 ATTTTAA
63 ATTTTAA
30297762 ATTTTAAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
78 11 0.18
79 10 0.17
80 19 0.32
81 10 0.17
83 10 0.17
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (81 bp):
TTTAAAATTTTAAAGATATATACTTTAAAATTTAATATTATTTTTATAATATTTTAAAGTATATT
TTAATAATATAAAACA
Found at i:30297793 original size:21 final size:20
Alignment explanation
Indices: 30297763--30297808 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
30297753 ATATTTTAAA
*
30297763 TTTT-AAATATGTTTAATTT
1 TTTTAAAATATGTTTAATAT
*
30297782 GTTTTAAAATATTTTTAATAT
1 -TTTTAAAATATGTTTAATAT
30297803 TTTTAA
1 TTTTAA
30297809 TTTGTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (20 bp):
TTTTAAAATATGTTTAATAT
Found at i:30297801 original size:9 final size:9
Alignment explanation
Indices: 30297733--30297843 Score: 57
Period size: 9 Copynumber: 11.6 Consensus size: 9
30297723 TTATTATTAT
30297733 TTTTATAATA
1 TTTT-TAATA
*
30297743 TTTTAAATGTA
1 TTTTTAA--TA
30297754 TATTTTAA-A
1 T-TTTTAATA
*
30297763 TTTTAAATA
1 TTTTTAATA
* *
30297772 TGTTTAATT
1 TTTTTAATA
30297781 TGTTTTAAAATA
1 T-TTTT--AATA
30297793 TTTTTAATA
1 TTTTTAATA
*
30297802 TTTTTAATTTG
1 TTTTTAA--TA
30297813 TTTTATAATA
1 TTTT-TAATA
30297823 TTTTT-A-A
1 TTTTTAATA
*
30297830 TTTTTAAAA
1 TTTTTAATA
30297839 TTTTT
1 TTTTT
30297844 TAAAAATATA
Statistics
Matches: 79, Mismatches: 10, Indels: 25
0.69 0.09 0.22
Matches are distributed among these distances:
7 6 0.08
8 7 0.09
9 30 0.38
10 12 0.15
11 12 0.15
12 12 0.15
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTAATA
Found at i:30297823 original size:21 final size:20
Alignment explanation
Indices: 30297793--30297832 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
30297783 TTTTAAAATA
30297793 TTTTTAATATTTTTAATTTG
1 TTTTTAATATTTTTAATTTG
30297813 TTTTATAATATTTTTAATTT
1 TTTT-TAATATTTTTAATTT
30297833 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTTAATATTTTTAATTTG
Found at i:30297827 original size:30 final size:30
Alignment explanation
Indices: 30297762--30297848 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 30
30297752 TATATTTTAA
* *
30297762 ATTTTAAATATGTTTAATTTGTTTTAAAAT
1 ATTTTTAATATTTTTAATTTGTTTTAAAAT
*
30297792 ATTTTTAATATTTTTAATTTGTTTTATAAT
1 ATTTTTAATATTTTTAATTTGTTTTAAAAT
* *
30297822 ATTTTTAAT-TTTTAAAATT-TTTTAAAA
1 ATTTTTAATATTTTTAATTTGTTTTAAAA
30297849 ATATATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 7 0.14
29 8 0.16
30 36 0.71
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTTAATATTTTTAATTTGTTTTAAAAT
Found at i:30297843 original size:17 final size:18
Alignment explanation
Indices: 30297798--30297846 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
30297788 AAATATTTTT
*
30297798 AATATTTTTAATTTGTTTTAT
1 AATATTTTTAA--T-TTTTAA
30297819 AATATTTTTAATTTTTAA
1 AATATTTTTAATTTTTAA
30297837 AAT-TTTTTAA
1 AATATTTTTAA
30297847 AAATATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 7 0.26
18 8 0.30
19 1 0.04
21 11 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
AATATTTTTAATTTTTAA
Found at i:30297938 original size:18 final size:19
Alignment explanation
Indices: 30297910--30297953 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
30297900 ATATTCTAAA
30297910 TTTATATTTTAAATAT-TTT
1 TTTA-ATTTTAAATATATTT
30297929 TTTAATTTTAAATATAATTT
1 TTTAATTTTAAATAT-ATTT
30297949 TTTAA
1 TTTAA
30297954 AATTACTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.48
19 4 0.17
20 8 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTAATTTTAAATATATTT
Found at i:30298095 original size:7 final size:7
Alignment explanation
Indices: 30298073--30298105 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
30298063 GTACTTTTTT
30298073 ATATTTA
1 ATATTTA
*
30298080 ATA-TAA
1 ATATTTA
30298086 ATATTTA
1 ATATTTA
30298093 ATATTTA
1 ATATTTA
30298100 ATATTT
1 ATATTT
30298106 TATTTTCGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATATTTA
Done.