Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 31 of 378
Found at i:7483506 original size:18 final size:19
Alignment explanation
Indices: 7483464--7483506 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
7483454 TCACAATGAC
*
7483464 TAATTAATTTCATTCTATT
1 TAATTAATTTCATACTATT
*
7483483 T-TTTAATTTCA-ACTATT
1 TAATTAATTTCATACTATT
7483500 TAATTAA
1 TAATTAA
7483507 ATAATAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 6 0.30
18 13 0.65
19 1 0.05
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATTAATTTCATACTATT
Found at i:7485870 original size:2 final size:2
Alignment explanation
Indices: 7485865--7485902 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7485855 AAAAAAAAAA
7485865 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
7485903 GAGGCCTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7487153 original size:21 final size:21
Alignment explanation
Indices: 7487129--7487176 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
7487119 TTCTGTTCTG
**
7487129 CTCCGCCTCCCTTGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
7487150 CTCCGCCTCCCGCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
7487171 CTCCGC
1 CTCCGC
7487177 TCTAAGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.00, C:0.56, G:0.21, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCGCGCTGCTGC
Found at i:7492828 original size:53 final size:49
Alignment explanation
Indices: 7492753--7492857 Score: 120
Period size: 53 Copynumber: 2.1 Consensus size: 49
7492743 GTGAGTTATG
* ** * *
7492753 TAATTTATTTAAGTAATGATCAATTTTAATACTATTTTGATAAAAATTAGTTA
1 TAATATATTTAAACAATGATCAATATT-AT--TATATTGAT-AAAATTAGTTA
*
7492806 TAATATATTTAAACAATGATCAATATTATTATATTGATAAAATTATTTA
1 TAATATATTTAAACAATGATCAATATTATTATATTGATAAAATTAGTTA
7492855 TAA
1 TAA
7492858 GTGGCCCTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
49 13 0.28
50 8 0.17
52 2 0.04
53 23 0.50
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (49 bp):
TAATATATTTAAACAATGATCAATATTATTATATTGATAAAATTAGTTA
Found at i:7493691 original size:420 final size:420
Alignment explanation
Indices: 7492906--7493750 Score: 1575
Period size: 420 Copynumber: 2.0 Consensus size: 420
7492896 AGGTCGATAG
7492906 AATTATTTATAAGCTCCATAGAACTTTTTTTGAAATCTTTTTTTTATACAAATACATTTAAAAAT
1 AATTATTTATAAGCTCCATAGAACTTTTTTTGAAATCTTTTTTTTATACAAATACATTTAAAAAT
7492971 ATTAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATCAAAA
66 ATTAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATCAAAA
*
7493036 AAGAATCGTAGTTTAATTTTTGTAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATA
131 AAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATA
*
7493101 GCGATAGAACTTTTTTCAAGATTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACAC
196 GCGATAGAACTTTTTTCAAGATATTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACAC
* *
7493166 CTAGGGAGGATCCATTATATCTTGTAGCTCGATATAAGACAACCCGTCAGGTTTCCAGCCTATAT
261 CTAAGGAGGATCCATTATATCTTGCAGCTCGATATAAGACAACCCGTCAGGTTTCCAGCCTATAT
** *
7493231 ACTTTGAATCTTTAAAATATTTAAAATAATGTTAGAGAGAAGGTCAGCTATTGTTGTAATTATAA
326 ACTTTGAATCTTTAAAATATAAAAAATAAGGTTAGAGAGAAGGTCAGCTATTGTTGTAATTATAA
7493296 TGGACAAGCAAGCTACATATATGGTAATAA
391 TGGACAAGCAAGCTACATATATGGTAATAA
*
7493326 AATTGTTTATAAGCTCCATAGAACTTTTTTTGAAATCTTTTTTTTATACAAATACATTTAAAAAT
1 AATTATTTATAAGCTCCATAGAACTTTTTTTGAAATCTTTTTTTTATACAAATACATTTAAAAAT
7493391 ATTAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATCAAAA
66 ATTAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATCAAAA
7493456 AAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATA
131 AAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATA
7493521 GCGATAGAACTTTTTTCAAG-TCATTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACA
196 GCGATAGAACTTTTTTCAAGAT-ATTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACA
* *
7493585 CCTAAGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCATCCTATA
260 CCTAAGGAGGATCCATTATATCTTGCAGCTCGATATAAGACAACCCGTCAGGTTTCCAGCCTATA
*
7493650 TACTTTGAATCTTTAAAATATAAAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTATA
325 TACTTTGAATCTTTAAAATATAAAAAATAAGGTTAGAGAGAAGGTCAGCTATTGTTGTAATTATA
7493715 ATGGACAAGCAAGCTACATATATGGTAATAA
390 ATGGACAAGCAAGCTACATATATGGTAATAA
7493746 AATTA
1 AATTA
7493751 ATTCATACTT
Statistics
Matches: 412, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
419 1 0.00
420 411 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (420 bp):
AATTATTTATAAGCTCCATAGAACTTTTTTTGAAATCTTTTTTTTATACAAATACATTTAAAAAT
ATTAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATCAAAA
AAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATA
GCGATAGAACTTTTTTCAAGATATTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACAC
CTAAGGAGGATCCATTATATCTTGCAGCTCGATATAAGACAACCCGTCAGGTTTCCAGCCTATAT
ACTTTGAATCTTTAAAATATAAAAAATAAGGTTAGAGAGAAGGTCAGCTATTGTTGTAATTATAA
TGGACAAGCAAGCTACATATATGGTAATAA
Found at i:7496638 original size:16 final size:17
Alignment explanation
Indices: 7496617--7496649 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7496607 GTAACAACAG
7496617 AATTTT-ATAATAAAAA
1 AATTTTAATAATAAAAA
*
7496633 AATTTTAATTATAAAAA
1 AATTTTAATAATAAAAA
7496650 TTATTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTTTAATAATAAAAA
Found at i:7497300 original size:2 final size:2
Alignment explanation
Indices: 7497293--7497317 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7497283 CAAGTAAGTA
7497293 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 A
7497318 CTTTAATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7497848 original size:24 final size:24
Alignment explanation
Indices: 7497815--7497860 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
7497805 TTGTATTTGT
7497815 AAACAAAGACTTAGAAATTAAAAG
1 AAACAAAGACTTAGAAATTAAAAG
*
7497839 AAACAGAGACTTAGAAATTAAA
1 AAACAAAGACTTAGAAATTAAA
7497861 GTTACCTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.61, C:0.09, G:0.13, T:0.17
Consensus pattern (24 bp):
AAACAAAGACTTAGAAATTAAAAG
Found at i:7498770 original size:7 final size:7
Alignment explanation
Indices: 7498754--7498848 Score: 52
Period size: 7 Copynumber: 13.6 Consensus size: 7
7498744 TTTCCAAAAT
*
7498754 TAAACAC
1 TAAACCC
7498761 TAAACCC
1 TAAACCC
7498768 TAAATCCC
1 TAAA-CCC
7498776 -AAACCC
1 TAAACCC
*
7498782 CAAATCCC
1 TAAA-CCC
7498790 -AAACCC
1 TAAACCC
* *
7498796 CAAACCA
1 TAAACCC
7498803 TAAACCC
1 TAAACCC
*** *
7498810 CGTACCA
1 TAAACCC
*
7498817 TAAACCT
1 TAAACCC
7498824 TAAAACCC
1 T-AAACCC
*
7498832 -AATCCC
1 TAAACCC
7498838 TAAACCC
1 TAAACCC
7498845 TAAA
1 TAAA
7498849 AGCCTAAATC
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
6 11 0.16
7 45 0.67
8 11 0.16
ACGTcount: A:0.45, C:0.40, G:0.01, T:0.14
Consensus pattern (7 bp):
TAAACCC
Found at i:7498779 original size:14 final size:14
Alignment explanation
Indices: 7498762--7498799 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
7498752 ATTAAACACT
*
7498762 AAACCCTAAATCCC
1 AAACCCCAAATCCC
7498776 AAACCCCAAATCCC
1 AAACCCCAAATCCC
7498790 AAACCCCAAA
1 AAACCCCAAA
7498800 CCATAAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.08
Consensus pattern (14 bp):
AAACCCCAAATCCC
Found at i:7499095 original size:21 final size:21
Alignment explanation
Indices: 7499070--7499117 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
7499060 CCCTGTACCA
* *
7499070 TAAACCCTAAACTATAAACCT
1 TAAACCCCAAACTATAAACCC
* *
7499091 TAAACCCCAAACTCTAGACCC
1 TAAACCCCAAACTATAAACCC
7499112 TAAACC
1 TAAACC
7499118 TTAATTAACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (21 bp):
TAAACCCCAAACTATAAACCC
Found at i:7499255 original size:15 final size:14
Alignment explanation
Indices: 7499218--7499263 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
7499208 AACCATTGAC
7499218 CCTTAACCCCTAAA
1 CCTTAACCCCTAAA
*
7499232 CTCCTAACCCCTAAA
1 C-CTTAACCCCTAAA
*
7499247 CCTTAAACCCTTAAA
1 CCTT-AACCCCTAAA
7499262 CC
1 CC
7499264 CTACTATCGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 24 0.89
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTTAACCCCTAAA
Found at i:7499327 original size:14 final size:14
Alignment explanation
Indices: 7499292--7499321 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7499282 AATATCTTAG
*
7499292 ACCCTAACTAATAA
1 ACCCTAAATAATAA
7499306 ACCCTAAATAATAA
1 ACCCTAAATAATAA
7499320 AC
1 AC
7499322 TTTAAAACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (14 bp):
ACCCTAAATAATAA
Found at i:7499502 original size:14 final size:14
Alignment explanation
Indices: 7499485--7499522 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
7499475 CCTCAAACCC
7499485 TAAATCATAAAACA
1 TAAATCATAAAACA
* *
7499499 TAAATCATCAACCA
1 TAAATCATAAAACA
7499513 TAAATCATAA
1 TAAATCATAA
7499523 CCCTTAAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAATCATAAAACA
Found at i:7499530 original size:14 final size:14
Alignment explanation
Indices: 7499480--7499530 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
7499470 ATAAACCTCA
7499480 AACCC-TAAATCAT
1 AACCCATAAATCAT
**
7499493 AAAACATAAATCAT
1 AACCCATAAATCAT
7499507 CAA-CCATAAATCAT
1 -AACCCATAAATCAT
*
7499521 AACCCTTAAA
1 AACCCATAAA
7499531 CCTATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 5 0.16
14 24 0.77
15 2 0.06
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCCATAAATCAT
Found at i:7499892 original size:42 final size:40
Alignment explanation
Indices: 7499826--7499925 Score: 105
Period size: 41 Copynumber: 2.5 Consensus size: 40
7499816 GTTTGCCTTA
*
7499826 ACCTATTAGCGGCG-TTTATAAAAAACGCAGCTAATTA-TGCG
1 ACCTA-TAGCGGCGTTTTTTAAAAAACGCAGCTAA--AGTGCG
* *
7499867 ACCTATAGCGGCGTTTTTTACAAAAATGCCGCTAAAGTGCG
1 ACCTATAGCGGCGTTTTTTA-AAAAACGCAGCTAAAGTGCG
* *
7499908 AGCTATTGCGGCGTTTTT
1 ACCTATAGCGGCGTTTTT
7499926 AGGAAAGCGC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 9 0.18
41 30 0.59
42 12 0.24
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (40 bp):
ACCTATAGCGGCGTTTTTTAAAAAACGCAGCTAAAGTGCG
Found at i:7500045 original size:114 final size:113
Alignment explanation
Indices: 7499872--7500131 Score: 270
Period size: 114 Copynumber: 2.3 Consensus size: 113
7499862 ATGCGACCTA
* * * * *
7499872 TAGCGGCGTTTTTTACAAAAATGCCGCTAAAGTGCGAGCTATTGCGGCGTTTTTAGGAAAGCGCC
1 TAGCGGCGTTTTTT--AAAAACGCCGCTAAAGTGCGAGCTATTACGGCGTTTTGAGGAAAACACC
** * * *
7499937 ACTAATGTCATTGAAGCTCATATAAAACGACGTCGTTTTG-TTTAACATTT
64 ACTAATACCAATGAAGCTCATATAAAACGACGTCGTCTTGCTTAAAC-TTT
* ** * * * * *
7499987 TAGCGGCGTTTTTCTAAAAACGCCACTAAAGTTTGATCTGTTACGGCGTTTTGGGGAAAACATCG
1 TAGCGGCGTTTTT-TAAAAACGCCGCTAAAGTGCGAGCTATTACGGCGTTTTGAGGAAAACACCA
* *
7500052 CTACTACCAATGAAGCTCATGTAAAACGACGTCGTCTTGCTTAAACTTT
65 CTAATACCAATGAAGCTCATATAAAACGACGTCGTCTTGCTTAAACTTT
* *
7500101 TAGCTGCGTTTTTGAAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTTTTAAAAA-CGCCGCTAAAG
7500132 GTCGACCTTT
Statistics
Matches: 119, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
113 5 0.04
114 95 0.80
115 18 0.15
116 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (113 bp):
TAGCGGCGTTTTTTAAAAACGCCGCTAAAGTGCGAGCTATTACGGCGTTTTGAGGAAAACACCAC
TAATACCAATGAAGCTCATATAAAACGACGTCGTCTTGCTTAAACTTT
Found at i:7505112 original size:6 final size:7
Alignment explanation
Indices: 7505081--7505111 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
7505071 TAAAAGGTTA
7505081 TTTATATT
1 TTTA-ATT
7505089 TTTAATT
1 TTTAATT
7505096 TTTAATT
1 TTTAATT
7505103 TTTAATT
1 TTTAATT
7505110 TT
1 TT
7505112 ACTAATATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTAATT
Found at i:7514806 original size:16 final size:16
Alignment explanation
Indices: 7514785--7514834 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
7514775 CGAAAATGAT
7514785 ATAATAAGTATAATAA
1 ATAATAAGTATAATAA
*
7514801 ATAAT-AGTGTAA-AA
1 ATAATAAGTATAATAA
*
7514815 A-AATAA-TACAATAA
1 ATAATAAGTATAATAA
7514829 ATAATA
1 ATAATA
7514835 GGAAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 6 0.21
14 7 0.25
15 10 0.36
16 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (16 bp):
ATAATAAGTATAATAA
Found at i:7516573 original size:18 final size:18
Alignment explanation
Indices: 7516550--7516609 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
7516540 CAATTTCACA
7516550 TTTTATCTTTAAAATATT
1 TTTTATCTTTAAAATATT
** *
7516568 TTTTAT-TAAAAAATCATA
1 TTTTATCTTTAAAAT-ATT
* *
7516586 TTTTACCTTTAATATATAT
1 TTTTATCTTTAAAATAT-T
7516605 TTTTA
1 TTTTA
7516610 AATTTCAAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
17 6 0.19
18 15 0.48
19 10 0.32
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTATCTTTAAAATATT
Found at i:7520363 original size:21 final size:22
Alignment explanation
Indices: 7520337--7520382 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
7520327 ACCTGCTCAA
* *
7520337 ACTCTACCTTTTTTGGAGTA-C
1 ACTCTACCTATTGTGGAGTATC
7520358 ACTCTACCTATTGTGGAGTATC
1 ACTCTACCTATTGTGGAGTATC
7520380 ACT
1 ACT
7520383 TGTCTGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (22 bp):
ACTCTACCTATTGTGGAGTATC
Found at i:7524514 original size:25 final size:25
Alignment explanation
Indices: 7524464--7524515 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
7524454 CCTTCGTCAA
* * *
7524464 TTAGGTATTCATTAAATTGTATTCT
1 TTAGGCATTCATTAAATTATAATCT
*
7524489 TTAGGCATTCATTAACTTATAATCT
1 TTAGGCATTCATTAAATTATAATCT
7524514 TT
1 TT
7524516 TTTGTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.50
Consensus pattern (25 bp):
TTAGGCATTCATTAAATTATAATCT
Found at i:7538718 original size:3 final size:3
Alignment explanation
Indices: 7538694--7538750 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
7538684 AAGAAATTGC
* * * * *
7538694 TAA TGA TAA T-A TAA TAA CAA TAA TAA TAA CAA CAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7538741 TAA TAA TAA T
1 TAA TAA TAA T
7538751 GAATTTAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:7556593 original size:21 final size:21
Alignment explanation
Indices: 7556568--7556611 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
7556558 AAATGCTCAA
* *
7556568 AAAAAATTAAAATTCAACTTTT
1 AAAATATTAAAACTCAA-TTTT
*
7556590 AAAATGTTAAAACTCAATTTT
1 AAAATATTAAAACTCAATTTT
7556611 A
1 A
7556612 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAATATTAAAACTCAATTTT
Found at i:7558697 original size:25 final size:27
Alignment explanation
Indices: 7558669--7558726 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
7558659 GGTTTTAATT
7558669 TAAT-TACAA-AGTTTAAATCATATAA
1 TAATATACAATAGTTTAAATCATATAA
* *
7558694 TAATAATTCAATATTTTAAATCATATAA
1 TAAT-ATACAATAGTTTAAATCATATAA
7558722 TAATA
1 TAATA
7558727 ATTTTTTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.14
27 5 0.18
28 19 0.68
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (27 bp):
TAATATACAATAGTTTAAATCATATAA
Found at i:7576098 original size:3 final size:3
Alignment explanation
Indices: 7576090--7576131 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
7576080 TTGAATATGC
7576090 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
7576132 AGGTTAGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7576743 original size:18 final size:17
Alignment explanation
Indices: 7576711--7576744 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7576701 AAATCCTTAC
7576711 ATAATATCTAAATACAA
1 ATAATATCTAAATACAA
*
7576728 ATAATTTCTCAAATACA
1 ATAATATCT-AAATACA
7576745 TCATAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAATATCTAAATACAA
Found at i:7581192 original size:93 final size:93
Alignment explanation
Indices: 7581080--7581252 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
7581070 CGCCCATAAG
* * *
7581080 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7581145 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
7581173 CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7581238 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
7581253 CAAATATCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:7581248 original size:46 final size:46
Alignment explanation
Indices: 7581073--7581248 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
7581063 TGTAACCCGC
* * *
7581073 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
7581119 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
7581169 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7581212 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
7581249 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7596187 original size:71 final size:71
Alignment explanation
Indices: 7596066--7596199 Score: 178
Period size: 71 Copynumber: 1.9 Consensus size: 71
7596056 GTTTTCCAAG
* ** *
7596066 AAAATCAGCTCATATTGTGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
7596131 GTTTCA
66 GTTTCA
* ** ** *
7596137 AAAATCAACTCGTATTACGAGAAGTGAGTTGAGCCTCGGGGTACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
7596200 CTGCCTTTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (71 bp):
AAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:7596239 original size:160 final size:160
Alignment explanation
Indices: 7595975--7596358 Score: 635
Period size: 160 Copynumber: 2.4 Consensus size: 160
7595965 TTGTTTTTTC
* *
7595975 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* *
7596040 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGTGAGAAGTGAGTTGAGCCTCAA
66 CTGCCTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAA
7596105 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
* * * *
7596135 CAAAAATCAACTCGTATTACGAGAAGTGAGTTGAGCCTCGGGGTACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
7596200 CTGCCTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCCTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAA
7596265 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
* * * *
7596295 CAAAAAATCAACTCATATCGCGAGAAGTGAGTTGAACCT-TGGGCACGCTGAGGTAATTTCAATT
1 C-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
7596359 CCTATTAAAT
Statistics
Matches: 207, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
160 174 0.84
161 33 0.16
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (160 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGCCTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATTTATGTTT
Found at i:7603269 original size:5 final size:5
Alignment explanation
Indices: 7603261--7603286 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7603251 TAACAAAAGA
7603261 AAAAC AAAAC AAAAC AAAAC AAAAC A
1 AAAAC AAAAC AAAAC AAAAC AAAAC A
7603287 TATAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:7605075 original size:21 final size:23
Alignment explanation
Indices: 7605045--7605086 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
7605035 AATTGTACTG
7605045 TAAAAAAACTAG-TA-TGATAGA
1 TAAAAAAACTAGATAGTGATAGA
*
7605066 TAAAATAACTAGATAGTGATA
1 TAAAAAAACTAGATAGTGATA
7605087 CGTAGCATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.26
Consensus pattern (23 bp):
TAAAAAAACTAGATAGTGATAGA
Found at i:7614309 original size:13 final size:13
Alignment explanation
Indices: 7614291--7614315 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7614281 CAACTAACGA
7614291 GAAACACTTATCT
1 GAAACACTTATCT
7614304 GAAACACTTATC
1 GAAACACTTATC
7614316 CCATAGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (13 bp):
GAAACACTTATCT
Found at i:7618973 original size:2 final size:2
Alignment explanation
Indices: 7618966--7618995 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7618956 GCACCACAAC
7618966 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
7618996 CAAATTAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7622588 original size:16 final size:17
Alignment explanation
Indices: 7622563--7622596 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7622553 GATGTATTAC
*
7622563 ATATATAAAAA-TAATA
1 ATATAAAAAAATTAATA
7622579 ATATAAAAAAATTAATA
1 ATATAAAAAAATTAATA
7622596 A
1 A
7622597 AGTGAATCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATAAAAAAATTAATA
Found at i:7623077 original size:37 final size:37
Alignment explanation
Indices: 7623036--7623141 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
7623026 CTAGCTGCTT
7623036 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
1 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
*
7623073 ATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGTC
1 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
*
7623110 ATAATCTTCTTTGCTGAGG-TTTGTTGAGTTCT
1 ATAATCTTCTTTGCTG-GGTTTTGCTGAGTTCT
7623142 GAGTTCATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
37 64 0.98
38 1 0.02
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (37 bp):
ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
Found at i:7623269 original size:42 final size:42
Alignment explanation
Indices: 7623222--7623306 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
7623212 TGCTGAGTTC
* *
7623222 TGCTGAGTTCCAAGTTCATTTCTAGCTATTCATAATCTTCTT
1 TGCTGAGTTCCAAGTTCATTTCTAGCTACTCATAATCTACTT
*
7623264 TGCTGAGTTCTAAGTTCATTTCTAGCTACTCATAATCTACTT
1 TGCTGAGTTCCAAGTTCATTTCTAGCTACTCATAATCTACTT
7623306 T
1 T
7623307 CAACTATGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (42 bp):
TGCTGAGTTCCAAGTTCATTTCTAGCTACTCATAATCTACTT
Found at i:7623287 original size:91 final size:89
Alignment explanation
Indices: 7623071--7623272 Score: 307
Period size: 91 Copynumber: 2.2 Consensus size: 89
7623061 GAGTTCTAAG
* *
7623071 TCATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGTCATAATCTTCTTTGCTGAGGTTTGTTG
1 TCATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGCCATAATCTTCTTTGCTGAGGTTTGCTG
**
7623136 AGTTCTGAGTTCATTTCTAGCTAC
66 AGTTCCAAGTTCATTTCTAGCTAC
* *
7623160 TCATAAAATCTTCTTTACTGAGTTTTGCTGAGTTCTAAGCCATTATCTTCTTTGCTGA-GTTCTG
1 TCAT--AATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGCCATAATCTTCTTTGCTGAGGTT-TG
*
7623224 CTGAGTTCCAAGTTCATTTCTAGCTAT
63 CTGAGTTCCAAGTTCATTTCTAGCTAC
7623251 TCATAATCTTCTTTGCTGAGTT
1 TCATAATCTTCTTTGCTGAGTT
7623273 CTAAGTTCAT
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
89 21 0.21
90 3 0.03
91 78 0.76
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (89 bp):
TCATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGCCATAATCTTCTTTGCTGAGGTTTGCTG
AGTTCCAAGTTCATTTCTAGCTAC
Found at i:7630328 original size:27 final size:27
Alignment explanation
Indices: 7630298--7630392 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 27
7630288 GAGAAGAAAG
*
7630298 TTTAAAATAAATAATATGTAAAATAAT
1 TTTAAAATAAATAATATGTAAAATAAA
* * *
7630325 TTTAAGATAAATAATA--T-AAATGAG
1 TTTAAAATAAATAATATGTAAAATAAA
* * * *
7630349 TTTAAAGTAAAGATTATGTAAAAGAAA
1 TTTAAAATAAATAATATGTAAAATAAA
*
7630376 TTTAAAATAAGTAATAT
1 TTTAAAATAAATAATAT
7630393 CCAAAACATT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
24 17 0.33
25 1 0.02
26 1 0.02
27 32 0.63
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTAAAATAAATAATATGTAAAATAAA
Found at i:7630367 original size:51 final size:51
Alignment explanation
Indices: 7630296--7630392 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
7630286 ATGAGAAGAA
* * * *
7630296 AGTTTAAAATAAATAATATGTAAAATAATTTTAAGATAAATAATATAAATG
1 AGTTTAAAATAAAGAATATGTAAAAGAAATTTAAAATAAATAATATAAATG
* * *
7630347 AGTTTAAAGTAAAGATTATGTAAAAGAAATTTAAAATAAGTAATAT
1 AGTTTAAAATAAAGAATATGTAAAAGAAATTTAAAATAAATAATAT
7630393 CCAAAACATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (51 bp):
AGTTTAAAATAAAGAATATGTAAAAGAAATTTAAAATAAATAATATAAATG
Found at i:7630458 original size:26 final size:26
Alignment explanation
Indices: 7630429--7630479 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7630419 GGTATATAAA
7630429 AAATAGATAATACAT-ATAAAAATTTG
1 AAATAGATAATACATGA-AAAAATTTG
* *
7630455 AAATTGATAATATATGAAAAAATTT
1 AAATAGATAATACATGAAAAAATTT
7630480 AAAGTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (26 bp):
AAATAGATAATACATGAAAAAATTTG
Found at i:7630490 original size:26 final size:24
Alignment explanation
Indices: 7630435--7630608 Score: 79
Period size: 26 Copynumber: 6.9 Consensus size: 24
7630425 TAAAAAATAG
* *
7630435 ATAATACATATAAAAATTTGAAATTG
1 ATAATATATA-AAAAATTT-AAATTA
7630461 ATAATATATGAAAAAATTTAAAGTTA
1 ATAATATAT-AAAAAATTTAAA-TTA
** *
7630487 AT-A-ATA-AAACGATTTAAAATGA
1 ATAATATATAAAAAATTT-AAATTA
* *
7630509 ATAATACATAAAAACAAATTTAAAATAA
1 ATAAT--ATATAAA-AAATTT-AAATTA
*
7630537 ATAATATACAAAACAATTTAAAGTGT-
1 ATAATATATAAAA-AATTTAAA-T-TA
* * *
7630563 ATAGTATATGAAATAATTTAAAATA
1 ATAATATAT-AAAAAATTTAAATTA
*
7630588 AT-ATATCTAAAACAATTTAAA
1 ATAATATATAAAA-AATTTAAA
7630609 ACAGTTTAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 32
0.70 0.10 0.19
Matches are distributed among these distances:
22 11 0.09
23 7 0.06
24 16 0.14
25 10 0.09
26 50 0.43
27 7 0.06
28 15 0.13
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.32
Consensus pattern (24 bp):
ATAATATATAAAAAATTTAAATTA
Found at i:7630534 original size:28 final size:26
Alignment explanation
Indices: 7630492--7630609 Score: 91
Period size: 26 Copynumber: 4.5 Consensus size: 26
7630482 AGTTAATAAT
* *
7630492 AAAACGATTTAAAATGAATAATACATA-
1 AAAACAATTTAAAATAAATAAT--ATAC
7630519 AAAACAAATTTAAAATAAATAATATAC
1 AAAAC-AATTTAAAATAAATAATATAC
* ** * *
7630546 AAAACAATTTAAAGTGTATAGTATAT
1 AAAACAATTTAAAATAAATAATATAC
* *
7630572 GAAATAATTTAAAAT-AAT-ATAT-C
1 AAAACAATTTAAAATAAATAATATAC
7630595 TAAAACAATTTAAAA
1 -AAAACAATTTAAAA
7630610 CAGTTTAATA
Statistics
Matches: 73, Mismatches: 15, Indels: 9
0.75 0.15 0.09
Matches are distributed among these distances:
24 15 0.21
25 2 0.03
26 31 0.42
27 10 0.14
28 15 0.21
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (26 bp):
AAAACAATTTAAAATAAATAATATAC
Found at i:7630549 original size:27 final size:26
Alignment explanation
Indices: 7630485--7630558 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 26
7630475 AATTTAAAGT
* *
7630485 TAATAAT-AAAACGATTTAAAATGAA
1 TAATAATAAAAACAATTTAAAATAAA
7630510 TAATACATAAAAACAAATTTAAAATAAA
1 TAATA-ATAAAAAC-AATTTAAAATAAA
7630538 TAAT-ATACAAAACAATTTAAA
1 TAATAATA-AAAACAATTTAAA
7630559 GTGTATAGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 5 0.12
26 13 0.30
27 10 0.23
28 15 0.35
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.27
Consensus pattern (26 bp):
TAATAATAAAAACAATTTAAAATAAA
Found at i:7630639 original size:52 final size:49
Alignment explanation
Indices: 7630524--7630640 Score: 123
Period size: 51 Copynumber: 2.3 Consensus size: 49
7630514 ACATAAAAAC
** *
7630524 AAATTTAAAATAAATAATATACAAAACAATTTAAAGTGTATAGTATATG
1 AAATTTAAAATAAATAATATACAAAACAATTTAAACAGTATAATATATG
*
7630573 AAATAATTTAAAAT-AAT-ATAT-CTAAAACAATTTAAAACAGTTTAATATATG
1 --A-AATTTAAAATAAATAATATAC-AAAACAATTT-AAACAGTATAATATATG
*
7630624 AAATTTAAGATAAATAA
1 AAATTTAAAATAAATAA
7630641 AGTAGTTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
48 9 0.16
49 5 0.09
50 15 0.27
51 17 0.30
52 10 0.18
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (49 bp):
AAATTTAAAATAAATAATATACAAAACAATTTAAACAGTATAATATATG
Found at i:7636156 original size:3 final size:3
Alignment explanation
Indices: 7636148--7636187 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7636138 ATTTTTTATC
7636148 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7636188 CGAAATGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7638243 original size:2 final size:2
Alignment explanation
Indices: 7638236--7638261 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7638226 TAGCATTTTA
7638236 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
7638262 TAACAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7653247 original size:3 final size:3
Alignment explanation
Indices: 7653239--7653287 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
7653229 GATTTATCTC
7653239 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7653287 T
1 T
7653288 CATCTTCTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7653982 original size:12 final size:12
Alignment explanation
Indices: 7653965--7653989 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7653955 AAAAAAACAA
7653965 AATTTCAGATTT
1 AATTTCAGATTT
7653977 AATTTCAGATTT
1 AATTTCAGATTT
7653989 A
1 A
7653990 TTACATGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (12 bp):
AATTTCAGATTT
Found at i:7657541 original size:67 final size:67
Alignment explanation
Indices: 7657433--7657567 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
7657423 TACGTGACAC
* *
7657433 ACAGCATACGTGACACACATAACATGTTCTTACCAAATATTGTATAAATAAATTAAGATGAAATT
1 ACAGCATACGAGACACACATAACATGTTCTTACCAAATATTGTACAAATAAATTAAGATGAAATT
7657498 GA
66 GA
7657500 ACAGCATACGAGACACACATAACATGTTCTTACCAAATATTGTACAAATAAATTAAGATGAAATT
1 ACAGCATACGAGACACACATAACATGTTCTTACCAAATATTGTACAAATAAATTAAGATGAAATT
7657565 GA
66 GA
7657567 A
1 A
7657568 GATACCATTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.27
Consensus pattern (67 bp):
ACAGCATACGAGACACACATAACATGTTCTTACCAAATATTGTACAAATAAATTAAGATGAAATT
GA
Found at i:7659904 original size:12 final size:12
Alignment explanation
Indices: 7659887--7659911 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7659877 TATAAAGTTG
7659887 TTTATTTTTTCA
1 TTTATTTTTTCA
7659899 TTTATTTTTTCA
1 TTTATTTTTTCA
7659911 T
1 T
7659912 CTTTTTAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTTTTCA
Found at i:7661005 original size:17 final size:17
Alignment explanation
Indices: 7660983--7661018 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
7660973 ATAACATTAA
7660983 AATTATAATT-ATAGATT
1 AATTATAATTGATA-ATT
7661000 AATTATAATTGATAATT
1 AATTATAATTGATAATT
7661017 AA
1 AA
7661019 GTGAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTATAATTGATAATT
Found at i:7661940 original size:24 final size:24
Alignment explanation
Indices: 7661913--7661958 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7661903 AACCTAATTC
7661913 TAATCAAA-GTCAAATATATTATGT
1 TAAT-AAATGTCAAATATATTATGT
*
7661937 TAATAAATGTTAAATATATTAT
1 TAATAAATGTCAAATATATTAT
7661959 ATTCATAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGT
Found at i:7661974 original size:24 final size:24
Alignment explanation
Indices: 7661924--7661976 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
7661914 AATCAAAGTC
* **
7661924 AAATATATTATGTTAATAAATGTT
1 AAATATATTATATTAATAAATCAT
* *
7661948 AAATATATTATATTCATAAGTCAT
1 AAATATATTATATTAATAAATCAT
7661972 AAATA
1 AAATA
7661977 CTAAATCTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (24 bp):
AAATATATTATATTAATAAATCAT
Found at i:7669119 original size:17 final size:18
Alignment explanation
Indices: 7669092--7669134 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
7669082 TGATTTGGAT
*
7669092 TAATGATACATATAGATAA
1 TAAT-ATACATAAAGATAA
7669111 T-ATATACATAAAGATAA
1 TAATATACATAAAGATAA
7669128 TAATATA
1 TAATATA
7669135 TGAAAGTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 14 0.64
18 7 0.32
19 1 0.05
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (18 bp):
TAATATACATAAAGATAA
Found at i:7669255 original size:16 final size:16
Alignment explanation
Indices: 7669234--7669264 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7669224 TATATATACA
7669234 TACATAGAAAAATATT
1 TACATAGAAAAATATT
*
7669250 TACATAGAATAATAT
1 TACATAGAAAAATAT
7669265 GAAATCAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (16 bp):
TACATAGAAAAATATT
Found at i:7670305 original size:22 final size:22
Alignment explanation
Indices: 7670277--7670320 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7670267 AAACTAAAAA
*
7670277 TCACCTTTTAGGATTTGTTTTT
1 TCACCTTTTAGGATTTGCTTTT
*
7670299 TCACCTTTTCGGATTTGCTTTT
1 TCACCTTTTAGGATTTGCTTTT
7670321 GAAATGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.18, G:0.14, T:0.57
Consensus pattern (22 bp):
TCACCTTTTAGGATTTGCTTTT
Found at i:7670697 original size:27 final size:27
Alignment explanation
Indices: 7670638--7670698 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
7670628 TTGAGTCCTG
* *
7670638 TTGGGTCTCGGGTTTGGGCTATTGGAA
1 TTGGGTCTAGGGTTTGGGCTATTGCAA
* *
7670665 TCGGGTCTAGGGTTTGGGTTTATT-CAA
1 TTGGGTCTAGGGTTTGGG-CTATTGCAA
7670692 TTGGGTC
1 TTGGGTC
7670699 ATGTTGGAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.11, C:0.11, G:0.38, T:0.39
Consensus pattern (27 bp):
TTGGGTCTAGGGTTTGGGCTATTGCAA
Found at i:7680774 original size:58 final size:58
Alignment explanation
Indices: 7680684--7680827 Score: 189
Period size: 58 Copynumber: 2.5 Consensus size: 58
7680674 TTTGACGATA
* * ** * *
7680684 AAAAGGATCTAGCCCGGACGGGTGATCCTGATATAAGCCTTCTTGAATAATATGTATG
1 AAAAGGATCTAGCCCGGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATATATG
* *
7680742 AAAAGGATCTAGCCCAGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATATGTG
1 AAAAGGATCTAGCCCGGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATATATG
* * *
7680800 AAATGGATTTAGCCCGGAAGGGTAATCC
1 AAAAGGATCTAGCCCGGAAGGGTGATCC
7680828 AAAGTAAATG
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 74 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (58 bp):
AAAAGGATCTAGCCCGGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATATATG
Found at i:7684433 original size:50 final size:50
Alignment explanation
Indices: 7684352--7684597 Score: 269
Period size: 50 Copynumber: 4.9 Consensus size: 50
7684342 TAAAATGGTT
*
7684352 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTACCAAATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTG
* * * * * *
7684402 TTAGGTCACATGTGTAGTACTAGGTGTAGGCTACTATGCGTACCAAATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTG
* * * * * * *
7684452 CTTCGATCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTATTC-GATGG
1 -TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAAATTG
* * * *
7684503 TTAGGTCACGTGTGTAGTACTGAGTACAGGCTACTACGTATACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTG
* * * *
7684553 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
7684598 GAGAGCTTCG
Statistics
Matches: 160, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 1 0.01
50 120 0.75
51 38 0.24
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTG
Found at i:7684493 original size:101 final size:102
Alignment explanation
Indices: 7684306--7684586 Score: 266
Period size: 101 Copynumber: 2.8 Consensus size: 102
7684296 ATTGTGAGAA
* * ** * * *
7684306 CACATGTGTAGTACTATGTGCAGGCTACTATGCTTTTAAAATGGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAGGTGCAGGCTACTATGCGTACAAAATAGTCTTAGATCACGTGTGTAGTA
*
7684371 CTAAGTGCAGGCTACAACGTGTA-CCAAATTGTTAGGT
66 CTAAGTGCAGGCTACAACGTGTATCC-AATGGTTAGGT
* * *
7684408 CACATGTGTAGTACTAGGTGTAGGCTACTATGCGTACCAAATAG-CTTCGATCACGTGTGTAGTA
1 CACATGTGTAGTACTAGGTGCAGGCTACTATGCGTACAAAATAGTCTTAGATCACGTGTGTAGTA
* * * * *
7684472 TTAAGTGTAGGCTACTACGTGTATTCGATGGTTAGGT
66 CTAAGTGCAGGCTACAACGTGTATCCAATGGTTAGGT
* * * ** * * * * * *
7684509 CACGTGTGTAGTACT-GAGTACAGGCTACTA--CGTATACCAGATTGTTAGGTCGCATGTGTAGT
1 CACATGTGTAGTACTAG-GTGCAGGCTACTATGCGTACAAAATAGTCTTAGATCACGTGTGTAGT
7684571 ACTAAGTGCAGGCTAC
65 ACTAAGTGCAGGCTAC
7684587 TATGCGTACC
Statistics
Matches: 144, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
99 6 0.04
100 29 0.20
101 71 0.49
102 38 0.26
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (102 bp):
CACATGTGTAGTACTAGGTGCAGGCTACTATGCGTACAAAATAGTCTTAGATCACGTGTGTAGTA
CTAAGTGCAGGCTACAACGTGTATCCAATGGTTAGGT
Found at i:7684598 original size:50 final size:50
Alignment explanation
Indices: 7684306--7684599 Score: 259
Period size: 50 Copynumber: 5.8 Consensus size: 50
7684296 ATTGTGAGAA
* * * ** *
7684306 CACATGTGTAGTACTATGTGCAGGCTACTATGCTTTTAAAATGGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGC--GTACCA-GATTGTTAGGT
* * * *
7684358 CACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTACCAAATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGTTAGGT
* * * * * * *
7684408 CACATGTGTAGTACTAGGTGTAGGCTACTATGCGTACCAAATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTG-TTAGGT
* * * * * *
7684459 CACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTATTC-GATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGATTGTTAGGT
* * * **
7684509 CACGTGTGTAGTACTGAGTACAGGCTACTACGTATACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGTTAGGT
* *
7684559 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
7684600 GAGCTTCGGT
Statistics
Matches: 195, Mismatches: 43, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
49 3 0.02
50 125 0.64
51 38 0.19
52 29 0.15
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGTTAGGT
Found at i:7689478 original size:21 final size:23
Alignment explanation
Indices: 7689427--7689478 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
7689417 TGTAATTGGG
*
7689427 TTTGATATTTTTTTAATTTGATA
1 TTTGATATTTTTTTAATTTCATA
7689450 TTT-A-ATTTTTTT-ATTTCA-A
1 TTTGATATTTTTTTAATTTCATA
7689469 TTTGATATTT
1 TTTGATATTT
7689479 AAATTTAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 4 0.15
20 6 0.23
21 12 0.46
22 1 0.04
23 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (23 bp):
TTTGATATTTTTTTAATTTCATA
Found at i:7689483 original size:13 final size:13
Alignment explanation
Indices: 7689441--7689484 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
7689431 ATATTTTTTT
7689441 AATTTGATATTTA
1 AATTTGATATTTA
* ** *
7689454 ATTTTTTTATTTC
1 AATTTGATATTTA
7689467 AATTTGATATTTA
1 AATTTGATATTTA
7689480 AATTT
1 AATTT
7689485 AGCTCTTTTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (13 bp):
AATTTGATATTTA
Found at i:7689873 original size:27 final size:28
Alignment explanation
Indices: 7689820--7689885 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
7689810 TTTAATAAGT
* *
7689820 TTAAG-TATCAAATTGAACATAAAAAAA
1 TTAAGATATCAAATTGAAAAAAAAAAAA
*
7689847 TT-AGCTATCAAATT-AAAAAAAATAAAA
1 TTAAGATATCAAATTGAAAAAAAA-AAAA
7689874 TTAAGATATCAA
1 TTAAGATATCAA
7689886 GTAAAAATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 8 0.24
27 17 0.52
28 8 0.24
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (28 bp):
TTAAGATATCAAATTGAAAAAAAAAAAA
Found at i:7695712 original size:27 final size:27
Alignment explanation
Indices: 7695660--7695713 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
7695650 AGAAGCTACC
* * *
7695660 AAATTTCAGGATTAATGTGGACAAAAT
1 AAATTTCAGGATTAAAGTGAAAAAAAT
7695687 AAATTT-AGGGATTAAAGTGAAAAAAAT
1 AAATTTCA-GGATTAAAGTGAAAAAAAT
7695714 TTACCAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.50, C:0.04, G:0.19, T:0.28
Consensus pattern (27 bp):
AAATTTCAGGATTAAAGTGAAAAAAAT
Found at i:7698954 original size:2 final size:2
Alignment explanation
Indices: 7698947--7698989 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
7698937 ATCCATATCC
7698947 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
7698990 TTTAACTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7699941 original size:3 final size:3
Alignment explanation
Indices: 7699921--7699985 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
7699911 TGCTATTACC
* *
7699921 ATT ACT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7699969 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
7699986 ATTTTAATCT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:7700006 original size:16 final size:16
Alignment explanation
Indices: 7699944--7700011 Score: 52
Period size: 18 Copynumber: 4.0 Consensus size: 16
7699934 CTATTATTAT
7699944 TATTATTATTATTAT-TA
1 TATTA-TATT-TTATCTA
7699961 TTATTATTATTATTAT-TA
1 -TATTA-TATT-TTATCTA
7699979 TTATTATATTTTAATCTA
1 -TATTATATTTT-ATCTA
7699997 TATT-TATTTTATCTA
1 TATTATATTTTATCTA
7700012 GTTCTACTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.10
16 8 0.17
17 10 0.21
18 25 0.52
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTATATTTTATCTA
Found at i:7700156 original size:3 final size:3
Alignment explanation
Indices: 7700150--7700530 Score: 164
Period size: 3 Copynumber: 127.3 Consensus size: 3
7700140 CATCATTTTG
7700150 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
7700198 CTTT TAGC TA- TGT TAC TAT TAT TTT TA- TATT TAT TCT TAC TAT TAT
1 -TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * * * * * *
7700244 CAT TAT TAC CAC CAC TAT TAT TTT TAT TAT CA- TAT TAT TGT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
7700290 T-T TAC CA- TAT TAT TAT T-T CCTAT CCT-T TAT ATAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT --TAT --TAT TAT -TAT TAT TAT TAT
* * * * * * *
7700333 TAT TAA CAT ACAT TAT TAT TAT CAA T-T TAC TAT TAAT T-T CACT T-T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT
* * * * *
7700378 TAT TAT TAT TAC TA- TAT TAT CAT TGT TAT TAT TAT T-T TCCAG TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T--AT TAT
* * * * * *
7700423 TAT TAA TAC TAA TAT TAAT T-T TCT TAT TAT TAC TAT TAT TAG TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
7700468 CA- TAGG TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7700512 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
7700531 GTCTTTTATA
Statistics
Matches: 287, Mismatches: 63, Indels: 56
0.71 0.16 0.14
Matches are distributed among these distances:
2 24 0.08
3 235 0.82
4 23 0.08
5 5 0.02
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:7700596 original size:18 final size:18
Alignment explanation
Indices: 7700562--7700596 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7700552 CCACTATTTT
*
7700562 TATTATCAATATTATTAA
1 TATTATCAATATCATTAA
*
7700580 TATTATCATTATCATTA
1 TATTATCAATATCATTA
7700597 TCATTGCCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTATCAATATCATTAA
Found at i:7702152 original size:28 final size:28
Alignment explanation
Indices: 7702120--7702175 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
7702110 CTTTTATCGA
*
7702120 TTCTACTGTGAATCTGTAATTTAATTGG
1 TTCTACAGTGAATCTGTAATTTAATTGG
7702148 TTCTACAGTGAATCTGTAATTTAATTGG
1 TTCTACAGTGAATCTGTAATTTAATTGG
7702176 AATCTAGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.45
Consensus pattern (28 bp):
TTCTACAGTGAATCTGTAATTTAATTGG
Found at i:7705535 original size:39 final size:39
Alignment explanation
Indices: 7705481--7705559 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
7705471 TGTAGGAGGA
* *
7705481 TATGGGTTTGAGTGTGCTGAAACGCATTATTCTTCTATT
1 TATGGGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
7705520 TATGGGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
1 TATGGGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
7705559 T
1 T
7705560 TTTCTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.43
Consensus pattern (39 bp):
TATGGGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
Found at i:7709080 original size:24 final size:24
Alignment explanation
Indices: 7708905--7709071 Score: 280
Period size: 24 Copynumber: 7.0 Consensus size: 24
7708895 TACTGCTGGA
*
7708905 ATGCCTCCCCACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
*
7708929 ATGCCTCCCCACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
*
7708953 ATGCCTCCCCACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
7708977 ATGCCTCCCAACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
7709001 ATGCCTCCCAACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
* *
7709025 ATGCCACCCAACAACATGGGAAGG
1 ATGCCTCCCAACAACATGGGAGGG
*
7709049 ATGCCACCCAACAACATGGGAGG
1 ATGCCTCCCAACAACATGGGAGG
7709072 AATGACACCG
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 139 1.00
ACGTcount: A:0.29, C:0.31, G:0.28, T:0.11
Consensus pattern (24 bp):
ATGCCTCCCAACAACATGGGAGGG
Found at i:7709212 original size:60 final size:60
Alignment explanation
Indices: 7709139--7709252 Score: 210
Period size: 60 Copynumber: 1.9 Consensus size: 60
7709129 AACTGGCCCC
*
7709139 AACTATGGAAACGCTCCTGGAAATGCGCAGAACTTCCAACCCGGTCCTGGTCCTGGTCCT
1 AACTATGGAAACGCTCCTGGAAATGCACAGAACTTCCAACCCGGTCCTGGTCCTGGTCCT
*
7709199 AACTATGGAAACGCTCCTGGAAATGCACAGAACTTCCAACCTGGTCCTGGTCCT
1 AACTATGGAAACGCTCCTGGAAATGCACAGAACTTCCAACCCGGTCCTGGTCCT
7709253 AACTATGGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (60 bp):
AACTATGGAAACGCTCCTGGAAATGCACAGAACTTCCAACCCGGTCCTGGTCCTGGTCCT
Found at i:7710310 original size:6 final size:6
Alignment explanation
Indices: 7710299--7710327 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
7710289 TGTGCAGTCA
7710299 AAGAAC AAGAAC AAGAAC AAGAAC AAGAA
1 AAGAAC AAGAAC AAGAAC AAGAAC AAGAA
7710328 GAACAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAC
Found at i:7717048 original size:29 final size:29
Alignment explanation
Indices: 7717006--7717064 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
7716996 AAAAAAAGAT
7717006 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
1 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
* *
7717035 AGAGAGATATAAGAGTTTGTTGGGATAGA
1 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
7717064 A
1 A
7717065 AAGGCTGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.24
Consensus pattern (29 bp):
AGAGAGATAAAAGAGTTTGTTGGGAGAGA
Found at i:7720439 original size:30 final size:31
Alignment explanation
Indices: 7720403--7720469 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
7720393 GGTTTCATTT
* *
7720403 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
7720433 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
7720464 CAGTCA
1 CAGTCA
7720470 TTGATTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.50
31 13 0.41
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.21
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:7723845 original size:139 final size:139
Alignment explanation
Indices: 7723638--7723915 Score: 556
Period size: 139 Copynumber: 2.0 Consensus size: 139
7723628 TATGGGCCTG
7723638 GCTCAAACCCGGCCCGGCCCGGCCCATGATCACCTCTACTATTGCTCAGGAAGATAACTTACAGT
1 GCTCAAACCCGGCCCGGCCCGGCCCATGATCACCTCTACTATTGCTCAGGAAGATAACTTACAGT
7723703 GAAATTTTGATTATGTGGTAAACATTGACAAAAATTTGTTAATGAGTTGCTTATTGATTTCTTAT
66 GAAATTTTGATTATGTGGTAAACATTGACAAAAATTTGTTAATGAGTTGCTTATTGATTTCTTAT
7723768 AAGCTTACT
131 AAGCTTACT
7723777 GCTCAAACCCGGCCCGGCCCGGCCCATGATCACCTCTACTATTGCTCAGGAAGATAACTTACAGT
1 GCTCAAACCCGGCCCGGCCCGGCCCATGATCACCTCTACTATTGCTCAGGAAGATAACTTACAGT
7723842 GAAATTTTGATTATGTGGTAAACATTGACAAAAATTTGTTAATGAGTTGCTTATTGATTTCTTAT
66 GAAATTTTGATTATGTGGTAAACATTGACAAAAATTTGTTAATGAGTTGCTTATTGATTTCTTAT
7723907 AAGCTTACT
131 AAGCTTACT
7723916 ATGATCTGTA
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 139 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (139 bp):
GCTCAAACCCGGCCCGGCCCGGCCCATGATCACCTCTACTATTGCTCAGGAAGATAACTTACAGT
GAAATTTTGATTATGTGGTAAACATTGACAAAAATTTGTTAATGAGTTGCTTATTGATTTCTTAT
AAGCTTACT
Found at i:7725047 original size:38 final size:38
Alignment explanation
Indices: 7724996--7725156 Score: 259
Period size: 38 Copynumber: 4.2 Consensus size: 38
7724986 TCGAAATACG
*
7724996 ATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
7725034 ATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
7725072 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
7725110 ATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
7725148 ATATTCGGG
1 ATATCCGGG
7725157 CCTTTGAGCC
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 113 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:7725246 original size:45 final size:45
Alignment explanation
Indices: 7725150--7725277 Score: 131
Period size: 46 Copynumber: 2.9 Consensus size: 45
7725140 CTGGTATTAT
* * * * *
7725150 ATTCGGGCCTTT-GAGCCTAACAGACTATTATGACAGTGAGACATT
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGACGGTGA-ACATG
*
7725195 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGTCGGTGAA-ATG
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGACGGTGAACATG
* *
7725239 ATATCGGGCC--TCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 AT-TCGGGCCTTTCGAGCCTAGCAGGCTATAATGACGGTGAA
7725278 TGAATAAAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 11 0.15
43 16 0.22
44 4 0.05
45 20 0.27
46 22 0.30
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (45 bp):
ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGACGGTGAACATG
Found at i:7727584 original size:59 final size:54
Alignment explanation
Indices: 7727511--7727645 Score: 166
Period size: 54 Copynumber: 2.4 Consensus size: 54
7727501 TAGGGTCTGA
* *
7727511 ATTTAGCCTGGACTGGTAATTCAGATCCAA-GCTC-ATTAGAGTAATTATCATTACAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGA--CAATACTCTA-T-GAGT--TTAT-ATTACAGGGG
*
7727570 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTATATTACAGGGG
7727624 ATTTAGCCTGGACTGGTAATCC
1 ATTTAGCCTGGACTGGTAATCC
7727646 CGTTGTAAGG
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
54 32 0.45
55 4 0.06
57 7 0.10
58 4 0.06
59 24 0.34
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTATATTACAGGGG
Found at i:7728892 original size:14 final size:14
Alignment explanation
Indices: 7728873--7728902 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7728863 TAGTCAAATA
7728873 AGACTTTTTTTTAC
1 AGACTTTTTTTTAC
7728887 AGACTTTTTTTTAC
1 AGACTTTTTTTTAC
7728901 AG
1 AG
7728903 TCTTCTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.53
Consensus pattern (14 bp):
AGACTTTTTTTTAC
Found at i:7729021 original size:21 final size:20
Alignment explanation
Indices: 7728997--7729041 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
7728987 CTACATGGCA
7728997 AGTTAACTGGCCACATCAGCC
1 AGTTAACTGGCCACATCAG-C
* *
7729018 AGTTAACTTGCCACGTCAGC
1 AGTTAACTGGCCACATCAGC
7729038 AGTT
1 AGTT
7729042 CTGTTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:7731916 original size:159 final size:159
Alignment explanation
Indices: 7731546--7732206 Score: 1079
Period size: 159 Copynumber: 4.2 Consensus size: 159
7731536 AGTATCCGTG
* * *
7731546 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATACACCAAGCTGTCACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* *
7731611 GATCTGCTTGACTCTGACCTGGTACATTCG-ATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTG
66 GATCTGTTTGACTCTGACCTGCTACATTCGAAT-GAAATTGCCCAGTATGCTGAGAGTTCGAGTG
7731675 ATGAATC--AGTCTGGTTCTGACGTGTTTC
130 ATGAATCAGAGTCTGGTTCTGACGTGTTTC
*
7731703 ATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* *
7731768 GATCTGTTTGACTCTGACGTGCTACATTCGAATGAAATTGCCCAGTATGGTGAGAGTTCGAGTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
7731833 TGAATCAGAGTCTGGTTCTGACGTGTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
*
7731862 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* * * *
7731927 GATCTG--T---T-TGACCTGCTACATTCGATTGAAATTTCCCAGTATGGTGAGAGTTTGAGTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
7731986 TGAATCAGAGTCTGGTTCTGACGTGTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
* *
7732015 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACAGAATTTGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* ** *
7732080 GATCTGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTTAACTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
7732145 TGAATCAGAGTCTGGTTCTGACGTGTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
7732174 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
7732207 TTCCCAAAAG
Statistics
Matches: 474, Mismatches: 21, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
153 144 0.30
154 1 0.00
155 1 0.00
157 126 0.27
158 3 0.01
159 199 0.42
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (159 bp):
ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
TGAATCAGAGTCTGGTTCTGACGTGTTTC
Found at i:7732118 original size:312 final size:313
Alignment explanation
Indices: 7731546--7732206 Score: 1112
Period size: 312 Copynumber: 2.1 Consensus size: 313
7731536 AGTATCCGTG
* *
7731546 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATACACCAAGCTGTCACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
*
7731611 GATCTGCTTGACTCTGACCTGGTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
66 GATCTGC-T-A-TCTGACCTGCTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
7731676 TGAATCAGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACCA
128 TGAATCAGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACCA
* *
7731741 AGCTGTCACTCGGCACTGAATTCGTTAGATCTGTTTGACTCTGACGTGCTACATTCGAATGAAAT
193 AGCTGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTGCTACATTCGAATGAAAT
* * *
7731806 TGCCCAGTATGGTGAGAGTTCGAGTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
258 TGCCCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
7731862 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
* * * *
7731927 GATCTG-T-T-TGACCTGCTACATTCGATTGAAATTTCCCAGTATGGTGAGAGTTTGAGTGATGA
66 GATCTGCTATCTGACCTGCTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGATGA
*
7731989 ATCAGAGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAA
131 ATC--AGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACCAA
* *
7732054 GCTGTCACTCGGCACAGAATTTGTTAGATCTGTTTGACTCTGACCTGCTACATTCGATTGAAATT
194 GCTGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATT
*
7732119 GCCCAGTATGCTGAGAGTTTAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
259 GCCCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
7732174 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
7732207 TTCCCAAAAG
Statistics
Matches: 327, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
310 52 0.16
311 1 0.00
312 204 0.62
314 1 0.00
316 69 0.21
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (313 bp):
ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
GATCTGCTATCTGACCTGCTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGATGA
ATCAGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACCAAGC
TGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGC
CCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
Found at i:7732323 original size:159 final size:158
Alignment explanation
Indices: 7731546--7732353 Score: 656
Period size: 159 Copynumber: 5.1 Consensus size: 158
7731536 AGTATCCGTG
* * * * * ***
7731546 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATACACCAAGCTGTCACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTATCACTC-GCACAGAATGCAACA
* * * * * * * * *
7731611 GATCTGCTT-GACTCTGACCTGGTACATTCGATCGAAATTGCCCAGTATGCTGAGAGT-TCGAGT
65 GATCAG-TTAGACGCTGACCTGCTAAATTCAATTGAAATGGCCCACTATGCAGAGAGTCT-GAGT
7731674 GATGAATC--AGTCTGGTTCTGACGTGTTTC
128 GATGAATCAGAGTCTGGTTCTGACGTGTTTC
* * * * ***
7731703 ATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTATCACTC-GCACAGAATGCAACA
* * * * * * * **
7731768 GATCTGTTTGACTCTGACGTGCTACATTCGAA-TGAAATTGCCCAGTATGGTGAGAGT-TCGAGT
65 GATCAGTTAGACGCTGACCTGCTAAATTC-AATTGAAATGGCCCACTATGCAGAGAGTCT-GAGT
7731831 GATGAATCAGAGTCTGGTTCTGACGTGTTTC
128 GATGAATCAGAGTCTGGTTCTGACGTGTTTC
* * * * ***
7731862 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTATCACTC-GCACAGAATGCAACA
* * * ** * ** *
7731927 GATCTGTT------TGACCTGCTACATTCGATTGAAATTTCCCAGTATGGTGAGAGTTTGAGTGA
65 GATCAGTTAGACGCTGACCTGCTAAATTCAATTGAAATGGCCCACTATGCAGAGAGTCTGAGTGA
7731986 TGAATCAGAGTCTGGTTCTGACGTGTTTC
130 TGAATCAGAGTCTGGTTCTGACGTGTTTC
* *****
7732015 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACAGAATTTGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTATCACTC-GCACAGAATGCAACA
* * * * * * * * * * *
7732080 GATCTGTTTGACTCTGACCTGCTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTTAACTGA
65 GATCAGTTAGACGCTGACCTGCTAAATTCAATTGAAATGGCCCACTATGCAGAGAGTCTGAGTGA
7732145 TGAATCAGAGTCTGGTTCTGACGTGTTTC
130 TGAATCAGAGTCTGGTTCTGACGTGTTTC
* * * *
7732174 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGTTC-CCAAAAGGTATTA-TC-CACTGAGTGCA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG--CACC--AAGCTATCACTCGCACAGAATGCA
* ** *
7732236 ACAGATCAGTTAGACGCTGACCTGCTAAATTCAATTGACATGGCTGACTATGCAGAGGGTCTGAG
62 ACAGATCAGTTAGACGCTGACCTGCTAAATTCAATTGAAATGGCCCACTATGCAGAGAGTCTGAG
* *** **
7732301 TGATGAATCAGACTCCAATTCTGATATGTTTC
127 TGATGAATCAGAGTCTGGTTCTGACGTGTTTC
* * *
7732333 CTTCGATTGGGGTTGGCTTGT
1 ATTCAATTGAGGTTGGCTTGT
7732354 GTGATTAAAG
Statistics
Matches: 580, Mismatches: 55, Indels: 30
0.87 0.08 0.05
Matches are distributed among these distances:
152 1 0.00
153 143 0.25
154 1 0.00
156 2 0.00
157 122 0.21
158 1 0.00
159 299 0.52
160 2 0.00
161 3 0.01
162 6 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (158 bp):
ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTATCACTCGCACAGAATGCAACAG
ATCAGTTAGACGCTGACCTGCTAAATTCAATTGAAATGGCCCACTATGCAGAGAGTCTGAGTGAT
GAATCAGAGTCTGGTTCTGACGTGTTTC
Found at i:7740910 original size:61 final size:61
Alignment explanation
Indices: 7740845--7740966 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
7740835 AGAGTCACAT
*
7740845 GCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGTAC
1 GCTCGTGTTTTCAACCCATGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGTAC
7740906 GCTCGTGTTTTCAACCCATGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGTAC
1 GCTCGTGTTTTCAACCCATGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGTAC
7740967 ACTTCATATA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.39
Consensus pattern (61 bp):
GCTCGTGTTTTCAACCCATGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGTAC
Found at i:7741664 original size:42 final size:43
Alignment explanation
Indices: 7741563--7741676 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
7741553 CTTCGTTTTC
* * * *
7741563 TCGATGCCATAGTT-CAACTATGGCCCTACACATCTTCACATAA
1 TCGATGCCATA-TTCCAGCTATGGTCTTACACATATTCACATAA
** *
7741606 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATAT-A
1 TCGATGCCATATTCCAGCTATGGTCTTACACATATTCACATAA
7741647 TCGATGCCATATTCCAGCTATGGTCTTACA
1 TCGATGCCATATTCCAGCTATGGTCTTACA
7741677 TGAATCACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 57 0.95
43 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (43 bp):
TCGATGCCATATTCCAGCTATGGTCTTACACATATTCACATAA
Found at i:7741716 original size:46 final size:45
Alignment explanation
Indices: 7741648--7741767 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 45
7741638 ATTCATATAT
* * * *
7741648 CGATGCCATATTCCAGCTATGGTCTTACATGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACA-GAAGCACATATCACAC
* * * *
7741694 TGATGCCATATCCCAGATATGGTCATATTCAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTC-T-TACAGAAGCACATATCACAC
7741741 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
7741768 TACGGAAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.02
46 22 0.35
47 36 0.58
48 3 0.05
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (45 bp):
CGATGCCATATCCCAGATATGGTCTTACAGAAGCACATATCACAC
Found at i:7741831 original size:31 final size:31
Alignment explanation
Indices: 7741796--7742037 Score: 376
Period size: 31 Copynumber: 7.8 Consensus size: 31
7741786 CTTGTCTCTT
*
7741796 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
7741827 GTAGCCGGTGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
7741858 GTAGCCGGAGCTATCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
7741889 GTAGCCGGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
7741920 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
7741951 GTAGCCGAAGCTACCACTTTTCACTGTTCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
7741982 GTAGCATAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
7742013 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
7742038 TGTCATTTGT
Statistics
Matches: 194, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 194 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:7742119 original size:50 final size:51
Alignment explanation
Indices: 7742013--7742141 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
7742003 CACTGATCAG
* * *
7742013 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
7742064 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
7742114 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
7742142 TGCAATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:7745824 original size:13 final size:13
Alignment explanation
Indices: 7745803--7745873 Score: 70
Period size: 13 Copynumber: 5.5 Consensus size: 13
7745793 AAATTTTTTC
7745803 AAAGCACTTCTCA
1 AAAGCACTTCTCA
* *
7745816 AAAGTACTTCTTA
1 AAAGCACTTCTCA
*
7745829 AAAGCACTTCTCC
1 AAAGCACTTCTCA
* * *
7745842 ACAGCACTTTTTA
1 AAAGCACTTCTCA
* *
7745855 AAAGTACTTTTCA
1 AAAGCACTTCTCA
7745868 AAAGCA
1 AAAGCA
7745874 ATGAAGAATT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:7745832 original size:26 final size:26
Alignment explanation
Indices: 7745803--7745873 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
7745793 AAATTTTTTC
*
7745803 AAAGCACTTCTCAAAAGTACTTCTTA
1 AAAGCACTTCTCAAAAGCACTTCTTA
* * *
7745829 AAAGCACTTCTCCACAGCACTTTTTA
1 AAAGCACTTCTCAAAAGCACTTCTTA
* *
7745855 AAAGTACTTTTCAAAAGCA
1 AAAGCACTTCTCAAAAGCA
7745874 ATGAAGAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (26 bp):
AAAGCACTTCTCAAAAGCACTTCTTA
Found at i:7748496 original size:47 final size:47
Alignment explanation
Indices: 7748387--7748497 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
7748377 CCGGGATAAG
*
7748387 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
7748434 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
7748481 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
7748498 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:7755750 original size:47 final size:47
Alignment explanation
Indices: 7755641--7755751 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
7755631 CCGGGATAAG
*
7755641 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
7755688 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
7755735 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
7755752 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:7759134 original size:31 final size:31
Alignment explanation
Indices: 7759096--7759166 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
7759086 TTATTTTTTG
7759096 AAAAAAAAAACTAATTGTAAATGAAAAGTGA
1 AAAAAAAAAACTAATTGTAAATGAAAAGTGA
7759127 AAAAAAAAAACTAATTGTAAATGAAAAGTGA
1 AAAAAAAAAACTAATTGTAAATGAAAAGTGA
7759158 AAAAAAAAA
1 AAAAAAAAA
7759167 TTTATTGATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.69, C:0.03, G:0.11, T:0.17
Consensus pattern (31 bp):
AAAAAAAAAACTAATTGTAAATGAAAAGTGA
Found at i:7768557 original size:24 final size:24
Alignment explanation
Indices: 7768512--7768591 Score: 115
Period size: 24 Copynumber: 3.3 Consensus size: 24
7768502 ACCACTCAAC
*
7768512 CCACCATAAACAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
* * *
7768536 CCGCCATAACCAGCTGATCCTGGT
1 CCACCATAACCAGTTGAACCTGGT
*
7768560 CCACCATAGCCAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
7768584 CCACCATA
1 CCACCATA
7768592 CCCACCATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (24 bp):
CCACCATAACCAGTTGAACCTGGT
Found at i:7775042 original size:3 final size:3
Alignment explanation
Indices: 7775023--7775095 Score: 119
Period size: 3 Copynumber: 24.3 Consensus size: 3
7775013 ATTTATTAAG
* *
7775023 TTA TTG TTA TAA 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
*
7775071 TTA TTA TTA TTA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
7775096 CAAATAAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:7777270 original size:12 final size:12
Alignment explanation
Indices: 7777253--7777277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7777243 AAAGTAAAAT
7777253 TATGAATTGAAA
1 TATGAATTGAAA
7777265 TATGAATTGAAA
1 TATGAATTGAAA
7777277 T
1 T
7777278 TGAGGTATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (12 bp):
TATGAATTGAAA
Found at i:7780211 original size:46 final size:46
Alignment explanation
Indices: 7780151--7780424 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
7780141 TTTGACATGA
* * * * *
7780151 TGCCATAGTGTCTTTCAACAATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
7780197 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
7780243 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
7780289 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
7780335 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
7780381 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
7780425 AGAGCACACT
Statistics
Matches: 212, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 208 0.98
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:7780350 original size:25 final size:24
Alignment explanation
Indices: 7780322--7780401 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 24
7780312 GTCTTACACA
7780322 TTTCATACCAGGCTGCCATGGTATC
1 TTTCA-ACCAGGCTGCCATGGTATC
*
7780347 TTTCAACCATGG-T--C-T--TACAC
1 TTTCAACCA-GGCTGCCATGGTA-TC
7780367 ATTTCATACCAGGCTGCCATGGTATC
1 -TTTCA-ACCAGGCTGCCATGGTATC
7780393 TTTCAACCA
1 TTTCAACCA
7780402 TGGTCTTACA
Statistics
Matches: 43, Mismatches: 2, Indels: 21
0.65 0.03 0.32
Matches are distributed among these distances:
19 2 0.05
20 1 0.02
21 8 0.19
22 6 0.14
24 10 0.23
25 13 0.30
26 1 0.02
27 2 0.05
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.33
Consensus pattern (24 bp):
TTTCAACCAGGCTGCCATGGTATC
Found at i:7782581 original size:11 final size:11
Alignment explanation
Indices: 7782565--7782592 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7782555 ACTAAATAAT
7782565 TAATAATAAAA
1 TAATAATAAAA
7782576 TAATAATAAAA
1 TAATAATAAAA
7782587 TAATAA
1 TAATAA
7782593 AATATCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:7782619 original size:20 final size:21
Alignment explanation
Indices: 7782566--7782641 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
7782556 CTAAATAATT
*
7782566 AATAATAAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
7782585 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
7782606 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
7782627 TAATCATAAAATATC
1 -AATAATAAAATATC
7782642 ATCAACATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.26
20 12 0.26
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:7785095 original size:15 final size:14
Alignment explanation
Indices: 7785038--7785098 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
7785028 TATATGCTTG
7785038 TAATTAAAATATAAT
1 TAATTAAAAT-TAAT
* * *
7785053 TAATCATAATTATT
1 TAATTAAAATTAAT
* *
7785067 TATTTAAACTTTAAT
1 TAATTAAA-ATTAAT
7785082 TAATTAAAAGTTAAT
1 TAATTAAAA-TTAAT
7785097 TA
1 TA
7785099 CAAATAACAA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
14 8 0.24
15 26 0.76
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (14 bp):
TAATTAAAATTAAT
Found at i:7790665 original size:3 final size:3
Alignment explanation
Indices: 7790651--7790790 Score: 165
Period size: 3 Copynumber: 47.0 Consensus size: 3
7790641 AAAATGATAG
* * * *
7790651 TAA TAG TAA TAA TAA TAA T-A TAA TAA TAA TAG TAG TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
7790698 AAA TAA AAA TAA TAA AAA TAA TAC TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
7790746 TAA TAA TAA TAA TAA TAA TAA TAG TAA AAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7790791 GACCGTAATA
Statistics
Matches: 114, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
2 2 0.02
3 112 0.98
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:7790838 original size:20 final size:20
Alignment explanation
Indices: 7790813--7790859 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
7790803 AAGAAAAAGA
* *
7790813 AATAATAACATGTAAATAGT
1 AATAATAACATATAAATAAT
* *
7790833 AATAATAATATATTAATAAT
1 AATAATAACATATAAATAAT
7790853 AATAATA
1 AATAATA
7790860 GTATATGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
AATAATAACATATAAATAAT
Found at i:7790864 original size:20 final size:20
Alignment explanation
Indices: 7790651--7790865 Score: 97
Period size: 18 Copynumber: 10.8 Consensus size: 20
7790641 AAAATGATAG
*
7790651 TAATAGTAATAATA-A-TAA
1 TAATAATAATAATATATTAA
*
7790669 T-ATAATAATAATAGTAGTAA
1 TAATAATAATAATA-TATTAA
* **
7790689 TAGTAATAA-AA-ATAAAAA
1 TAATAATAATAATATATTAA
* * *
7790707 TAATAAAAATAATACTAATAG
1 TAATAATAATAATA-TATTAA
7790728 TAATAATAATAATA-A-TAA
1 TAATAATAATAATATATTAA
7790746 TAATAATAATAATA-A-TAA
1 TAATAATAATAATATATTAA
* * *
7790764 TAATAGTAAAAATAGTAATAA
1 TAATAATAATAATA-TATTAA
* * * **
7790785 TAATAAGACCGTAATAAAAAGAA
1 TAATAATA--ATAAT-ATATTAA
* * * * *
7790808 AAAGAAATAATAACATGTAAA
1 TAA-TAATAATAATATATTAA
*
7790829 TAGTAATAATAATATATTAA
1 TAATAATAATAATATATTAA
*
7790849 TAATAATAATAGTATAT
1 TAATAATAATAATATAT
7790866 GTTAAAAATG
Statistics
Matches: 148, Mismatches: 35, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
17 11 0.07
18 44 0.30
19 5 0.03
20 36 0.24
21 36 0.24
22 3 0.02
23 9 0.06
24 4 0.03
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (20 bp):
TAATAATAATAATATATTAA
Found at i:7790902 original size:6 final size:7
Alignment explanation
Indices: 7790881--7790915 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
7790871 AAATGACAAT
*
7790881 AATAGAA
1 AATAAAA
7790888 AATAAAAA
1 AAT-AAAA
7790896 AATAAAA
1 AATAAAA
7790903 AATAAAA
1 AATAAAA
7790910 AATAAA
1 AATAAA
7790916 TATACTATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (7 bp):
AATAAAA
Found at i:7790993 original size:13 final size:13
Alignment explanation
Indices: 7790972--7791028 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
7790962 TAGTAATAAT
*
7790972 ATAATAATAGAAA
1 ATAACAATAGAAA
7790985 ATAACAATA-AAA
1 ATAACAATAGAAA
*
7790997 ATAACTAATTTGAAA
1 ATAAC-AA-TAGAAA
7791012 ATAA-AATAGCAAA
1 ATAACAATAG-AAA
7791025 ATAA
1 ATAA
7791029 TGAAAAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 10 0.27
13 19 0.51
14 1 0.03
15 7 0.19
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (13 bp):
ATAACAATAGAAA
Found at i:7793348 original size:27 final size:27
Alignment explanation
Indices: 7793316--7793367 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
7793306 GTATGTGTAT
*
7793316 GATTGAAA-AGTGTATTGAATTGGAATG
1 GATTGAAATAGTATATTG-ATTGGAATG
*
7793343 GATTGAAATTGTATATTGATTGGAA
1 GATTGAAATAGTATATTGATTGGAA
7793368 ATTGAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (27 bp):
GATTGAAATAGTATATTGATTGGAATG
Found at i:7796719 original size:16 final size:17
Alignment explanation
Indices: 7796689--7796721 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7796679 ATTTAAATGA
7796689 AACTGCATACATATTAC
1 AACTGCATACATATTAC
*
7796706 AACT-CATACGTATTAC
1 AACTGCATACATATTAC
7796722 CAAAAACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (17 bp):
AACTGCATACATATTAC
Found at i:7798941 original size:2 final size:2
Alignment explanation
Indices: 7798904--7798929 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7798894 TTGGAGTAAC
7798904 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
7798930 TTGTGAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7799009 original size:29 final size:30
Alignment explanation
Indices: 7798971--7799036 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
7798961 TAGAAGTTTT
* *
7798971 ATTAAATTAATTACTCTATTATT-AAATAA
1 ATTAAATTAATTACTATATTATTAAAAAAA
* *
7799000 ATTAATTTAATTATTATATTATTAAAAAAA
1 ATTAAATTAATTACTATATTATTAAAAAAA
7799030 ATTAAAT
1 ATTAAAT
7799037 AAGATTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
ATTAAATTAATTACTATATTATTAAAAAAA
Found at i:7800670 original size:13 final size:14
Alignment explanation
Indices: 7800642--7800679 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7800632 ATAATACAAT
*
7800642 ATATAACTTATCGA
1 ATATAACTTATAGA
7800656 ATATAA-TTATAGA
1 ATATAACTTATAGA
7800669 ATAATAACTTA
1 AT-ATAACTTA
7800680 AAAGACGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 10 0.48
15 3 0.14
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (14 bp):
ATATAACTTATAGA
Found at i:7802259 original size:15 final size:16
Alignment explanation
Indices: 7802239--7802270 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
7802229 TACTAGATAG
7802239 ATATGAAATAA-TATA
1 ATATGAAATAAGTATA
7802254 ATATGAAATAAGTATA
1 ATATGAAATAAGTATA
7802270 A
1 A
7802271 AGTTTAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (16 bp):
ATATGAAATAAGTATA
Found at i:7805314 original size:12 final size:12
Alignment explanation
Indices: 7805297--7805340 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
7805287 TGTCACATAT
*
7805297 TTTTCTTTATTA
1 TTTTCTTTATAA
7805309 TTTTCTTTATAA
1 TTTTCTTTATAA
* *
7805321 ATTT-TTAATAA
1 TTTTCTTTATAA
7805332 TTTTCTTTA
1 TTTTCTTTA
7805341 ACATTACCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTCTTTATAA
Found at i:7805538 original size:21 final size:21
Alignment explanation
Indices: 7805512--7805563 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
7805502 CTACAAAATG
7805512 ATTTTTTTTAGTGAACGCGCC
1 ATTTTTTTTAGTGAACGCGCC
7805533 ATTTTTTTTAGTGAACGCGCC
1 ATTTTTTTTAGTGAACGCGCC
* *
7805554 GTTTTCTTTA
1 ATTTTTTTTA
7805564 CTTAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (21 bp):
ATTTTTTTTAGTGAACGCGCC
Found at i:7807740 original size:21 final size:22
Alignment explanation
Indices: 7807701--7807741 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7807691 TCAATTTTTT
*
7807701 CATTTTTAATTATTGATTTAAG
1 CATTTTAAATTATTGATTTAAG
*
7807723 CATTTTAAATT-TTTATTTA
1 CATTTTAAATTATTGATTTA
7807742 TTTATTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (22 bp):
CATTTTAAATTATTGATTTAAG
Done.