Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 139 of 373
Found at i:45976771 original size:139 final size:140
Alignment explanation
Indices: 45976521--45976798 Score: 427
Period size: 139 Copynumber: 2.0 Consensus size: 140
45976511 TAACATAATT
* *
45976521 TAATAGAAATCTCACTTCATGTATTATGCCAATATCATTTTTGTCATAAATATGGTTTTTAGCCA
1 TAATAGAAACCTCACTTCATGTATTATGCCAATATAATTTTTGTCATAAATATGGTTTTTAGCCA
45976586 TTTTGTAACACCTCAAACCCAGCATAGACATTATGGCCAGATCTGAAGGTGTCACCAT-AAATCA
66 TTTTGTAACACCTCAAACCCAGCATAGACATTATGGCCAGATCTGAAGGTGTCACCATAAAATCA
45976650 ATTGAAAACA
131 ATTGAAAACA
*
45976660 TAATAGAAACCTCTCTTCATGTATTATGCCAATATAATTTCTT-TCATAAATATGGTTTTTAGCC
1 TAATAGAAACCTCACTTCATGTATTATGCCAATATAATTT-TTGTCATAAATATGGTTTTTAGCC
* * * * * * *
45976724 ATTTTGTAACACC-CTATACTCGGCCTAGACGTTATGGTCAGATCTGAAGGTGTTACCATAAAAT
65 ATTTTGTAACACCTC-AAACCCAGCATAGACATTATGGCCAGATCTGAAGGTGTCACCATAAAAT
45976788 CAATTGAAAAC
129 CAATTGAAAAC
45976799 CCAGAATTCG
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
138 1 0.01
139 108 0.86
140 17 0.13
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (140 bp):
TAATAGAAACCTCACTTCATGTATTATGCCAATATAATTTTTGTCATAAATATGGTTTTTAGCCA
TTTTGTAACACCTCAAACCCAGCATAGACATTATGGCCAGATCTGAAGGTGTCACCATAAAATCA
ATTGAAAACA
Found at i:45979105 original size:23 final size:23
Alignment explanation
Indices: 45979075--45979121 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
45979065 AATGTATATT
45979075 ATAGGTAGGTAATATTTTGCCTA
1 ATAGGTAGGTAATATTTTGCCTA
45979098 ATAGGTAGGTAATATTTTGCCTA
1 ATAGGTAGGTAATATTTTGCCTA
45979121 A
1 A
45979122 CTCTACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (23 bp):
ATAGGTAGGTAATATTTTGCCTA
Found at i:45981931 original size:46 final size:45
Alignment explanation
Indices: 45981785--45981952 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 45
45981775 TGTGTGAGCT
* * * *
45981785 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA-AGCC
* * *
45981831 AGTGTAAGACCATGTCTGGGACATGGTATCGGCATCGAGACG-AGTTTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAAG--CC
45981879 -GATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AG-TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCC
*
45981925 AGTGTAAGACATGTTTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
45981953 AGTTGCGAGA
Statistics
Matches: 103, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
46 52 0.50
47 30 0.29
48 21 0.20
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAAGCC
Found at i:45981962 original size:46 final size:44
Alignment explanation
Indices: 45981785--45982001 Score: 141
Period size: 46 Copynumber: 4.7 Consensus size: 44
45981775 TGTGTGAGCT
* * * * * * *
45981785 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGACG-TA-CC
* * * * **
45981831 AGTGTAAGACCATGTCTGGGACATGGTATCGGCATCGAGACGAGTTTC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCTCGAGAC--GTACC
* *
45981879 -GATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AG-TGTAAGACATGTTTGGGACATGCATCAGCCTCGAGACGT-A-CC
* * *
45981925 AGTGTAAGACATGTTTGGGACATGCATCAG-TTGCGAGATGTATC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCT-CGAGACGTACC
*
45981969 AGTGTAAGACCACGTTTGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCAGC
45982002 ACGGTTATGT
Statistics
Matches: 140, Mismatches: 19, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 64 0.46
47 30 0.21
48 18 0.13
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGACGTACC
Found at i:45985447 original size:19 final size:17
Alignment explanation
Indices: 45985406--45985454 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
45985396 CTTTTACAAA
45985406 TATAATTTATTTTTATAT
1 TATAA-TTATTTTTATAT
*
45985424 CATAATTATTTTTAAATAT
1 TATAATTATTTTT--ATAT
*
45985443 TATAATAATTTT
1 TATAATTATTTT
45985455 GTATGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 8 0.31
18 4 0.15
19 14 0.54
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TATAATTATTTTTATAT
Found at i:45988060 original size:49 final size:49
Alignment explanation
Indices: 45988003--45988102 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
45987993 ACTATGAGAA
* *
45988003 ATACCGTGATGACTATTACATAATAATCCAAGAAGCATTCTCATGGTAT
1 ATACCGTGATAACTATTACATAATAATCCAAGAAGCATTATCATGGTAT
45988052 ATACCGTGATAACTATTACATAATAATCCAAGAAGCATTATCATGGTAT
1 ATACCGTGATAACTATTACATAATAATCCAAGAAGCATTATCATGGTAT
45988101 AT
1 AT
45988103 TGTTCTTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (49 bp):
ATACCGTGATAACTATTACATAATAATCCAAGAAGCATTATCATGGTAT
Found at i:45990009 original size:6 final size:6
Alignment explanation
Indices: 45989998--45990033 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
45989988 CAGAATTGTA
45989998 TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT
1 TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT TGCCAT
45990034 GCTGGTGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
TGCCAT
Found at i:45993329 original size:33 final size:32
Alignment explanation
Indices: 45993285--45993346 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
45993275 AAATGAAGAT
45993285 ATAATTAATAATAAATACTTGAAAT-TAGTATAA
1 ATAATTAATAATAAATA-TT-AAATATAGTATAA
*
45993318 ATAATTTATAATAAATATTAAATATAGTA
1 ATAATTAATAATAAATATTAAATATAGTA
45993347 GGTAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 4 0.15
32 7 0.26
33 16 0.59
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (32 bp):
ATAATTAATAATAAATATTAAATATAGTATAA
Found at i:45993988 original size:29 final size:29
Alignment explanation
Indices: 45993947--45994002 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
45993937 TTTTTTAATA
45993947 AAAAAGAGATTATCAAATTATAAATCCTT
1 AAAAAGAGATTATCAAATTATAAATCCTT
45993976 AAAAAGAGATTATCAAATTATAAATCC
1 AAAAAGAGATTATCAAATTATAAATCC
45994003 AAAATAACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (29 bp):
AAAAAGAGATTATCAAATTATAAATCCTT
Found at i:45996848 original size:16 final size:15
Alignment explanation
Indices: 45996826--45996882 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 15
45996816 AATTGGTTGA
45996826 AAAAATTATTTAATT
1 AAAAATTATTTAATT
* *
45996841 GGAAAATTAATTAATT
1 -AAAAATTATTTAATT
*
45996857 AAAAATGATTTAA-T
1 AAAAATTATTTAATT
45996871 AAATAA-TATTTA
1 AAA-AATTATTTA
45996883 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.26
15 12 0.35
16 13 0.38
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.40
Consensus pattern (15 bp):
AAAAATTATTTAATT
Found at i:45999763 original size:25 final size:25
Alignment explanation
Indices: 45999726--45999775 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
45999716 TTGTAAATAA
45999726 GAAAAATATCTTTAGA-AATTTTTT
1 GAAAAATATCTTTAGAGAATTTTTT
*
45999750 GAAATAATTTCTTTAGAGAATTTTTT
1 GAAA-AATATCTTTAGAGAATTTTTT
45999776 CTCTACAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (25 bp):
GAAAAATATCTTTAGAGAATTTTTT
Found at i:46002927 original size:3 final size:3
Alignment explanation
Indices: 46002919--46002946 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
46002909 CAACCCCCTT
46002919 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
46002947 TTTATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:46011057 original size:18 final size:19
Alignment explanation
Indices: 46011036--46011077 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
46011026 AGTTTTCATT
46011036 TATGTTATTTAATTTA-AA
1 TATGTTATTTAATTTACAA
*
46011054 TATG-TATTTATTTTACAA
1 TATGTTATTTAATTTACAA
46011072 -ATGTTA
1 TATGTTA
46011078 GGATTTGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (19 bp):
TATGTTATTTAATTTACAA
Found at i:46013323 original size:30 final size:30
Alignment explanation
Indices: 46013287--46013382 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
46013277 AGTTTTGGAG
46013287 TAAATTTACATAAGGCTTTAAGTACTACAC
1 TAAATTTACATAAGGCTTTAAGTACTACAC
**
46013317 TAAATTT-CAATATA-GCTTTTCACCTA-TACAC
1 TAAATTTAC-ATA-AGGC-TTT-AAGTACTACAC
*
46013348 TAAA-TTACATGAGGCTTTAAGTACTACAC
1 TAAATTTACATAAGGCTTTAAGTACTACAC
*
46013377 TTAATT
1 TAAATT
46013383 CATCCGGGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
28 3 0.06
29 13 0.25
30 19 0.37
31 14 0.27
32 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (30 bp):
TAAATTTACATAAGGCTTTAAGTACTACAC
Found at i:46013650 original size:331 final size:331
Alignment explanation
Indices: 46013048--46013675 Score: 1040
Period size: 331 Copynumber: 1.9 Consensus size: 331
46013038 GTACATATTC
* * * *
46013048 AATTCATCCGGGTAGTACTAAGATGTATTGTGACTAAAAACAGATGTGCCAGTGGCTGGGAATAA
1 AATTCATCCGGGTAGTACTAAGATGTATTGTGACTAAAAACAAATGTACCAATGGCTGAGAATAA
* *
46013113 AATAGGAAATTTTTTACTTTGTAGCTAAATGTTTGGTATGTTAGCAAGTGAAAGCCGAACATCAG
66 AATAGGAAATTTTTGACTTTGTAGCTAAATGTTTGGTATGTTAGCAAGTGAAAGCCAAACATCAG
* *
46013178 GTTCCATTTGGTTTGTTACAGTTATAAATTTATGAGATTGTTAGATTGCACAGTGTACCATTGTC
131 GTTCCATTTGGTTTGTTACAGTTATAAATTTATGAGATTGTTAGATTACACAGTGTACCACTGTC
* * *
46013243 CATTATTTCTGATCGCGATCTGAGGTTTACTTCTAGTTTTGGAGTAAATTTACATAAGGCTTTAA
196 CATTATTTCTAATCGCAATCTGAGGTTTACTTCCAGTTTTGGAGTAAATTTACATAAGGCTTTAA
46013308 GTACTACACTAAATTTCAATATAGCTTTTCACCTATACACTAAATTACATGAGGCTTTAAGTACT
261 GTACTACACTAAATTTCAATATAGCTTTTCACCTATACACTAAATTACATGAGGCTTTAAGTACT
46013373 ACACTT
326 ACACTT
* * *
46013379 AATTCATCCGGGTAGTACTAAGATGTATTGTGACTGAAAACAAATGTACTAATGGCTGAGAATGA
1 AATTCATCCGGGTAGTACTAAGATGTATTGTGACTAAAAACAAATGTACCAATGGCTGAGAATAA
* * * * **
46013444 AATAGGAAATTTTTGACTTTGTAGCTAAGTGTTTGGTATTTTAGCAAGTGAAAGTCAAAGATTGG
66 AATAGGAAATTTTTGACTTTGTAGCTAAATGTTTGGTATGTTAGCAAGTGAAAGCCAAACATCAG
* *
46013509 GTTCCATTTGGTTTGTTACAGTTATACATTTATGAGATTGTTAGATTACACGGTGTACCACTGTC
131 GTTCCATTTGGTTTGTTACAGTTATAAATTTATGAGATTGTTAGATTACACAGTGTACCACTGTC
*
46013574 CATTATTTCTAATCGCAATCTGAGGTTTACTTCCAGTTTTGGAGTAAATTTACATGAGGCTTTAA
196 CATTATTTCTAATCGCAATCTGAGGTTTACTTCCAGTTTTGGAGTAAATTTACATAAGGCTTTAA
*
46013639 GTATTACACTAAATTTCAATATAGCTTTTCACCTATA
261 GTACTACACTAAATTTCAATATAGCTTTTCACCTATA
46013676 GACAGAAGAC
Statistics
Matches: 273, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
331 273 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (331 bp):
AATTCATCCGGGTAGTACTAAGATGTATTGTGACTAAAAACAAATGTACCAATGGCTGAGAATAA
AATAGGAAATTTTTGACTTTGTAGCTAAATGTTTGGTATGTTAGCAAGTGAAAGCCAAACATCAG
GTTCCATTTGGTTTGTTACAGTTATAAATTTATGAGATTGTTAGATTACACAGTGTACCACTGTC
CATTATTTCTAATCGCAATCTGAGGTTTACTTCCAGTTTTGGAGTAAATTTACATAAGGCTTTAA
GTACTACACTAAATTTCAATATAGCTTTTCACCTATACACTAAATTACATGAGGCTTTAAGTACT
ACACTT
Found at i:46017665 original size:40 final size:40
Alignment explanation
Indices: 46017586--46017749 Score: 231
Period size: 40 Copynumber: 4.1 Consensus size: 40
46017576 CGGATGATAA
* * * *
46017586 CCGGCCTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
46017626 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
46017666 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
46017706 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
46017746 CCGG
1 CCGG
46017750 CAAAATCCCG
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 104 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:46018031 original size:22 final size:22
Alignment explanation
Indices: 46017991--46018032 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46017981 GAATGTGCAT
*
46017991 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
46018013 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
46018033 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:46025614 original size:40 final size:40
Alignment explanation
Indices: 46025535--46025711 Score: 232
Period size: 40 Copynumber: 4.5 Consensus size: 40
46025525 CGAATGATAA
* * *
46025535 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * **
46025575 CCGGGCTATGTCCCGAAGGCATTTATGCTAGTTATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
46025615 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
46025655 CCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
46025695 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
46025712 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 105 0.89
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:46025979 original size:22 final size:22
Alignment explanation
Indices: 46025939--46025980 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46025929 GAATGTGCAT
*
46025939 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
46025961 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
46025981 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:46048847 original size:30 final size:30
Alignment explanation
Indices: 46048813--46048872 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
46048803 ATTTAATACG
46048813 AACTTTAGAAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* * *
46048843 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
46048873 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:46051348 original size:682 final size:680
Alignment explanation
Indices: 46050024--46051355 Score: 2310
Period size: 682 Copynumber: 2.0 Consensus size: 680
46050014 TGTGGGATCG
**
46050024 TGTAACAGCCCAATTTTAGCTTAAATCAGAATAGTGGTTTTGGAACCACAAATATGAGATCAAAA
1 TGTAACAGCCCAATTTTAGCTTAAATCAGAATAGTGGTTTCAGAACCACAAATATGAGATCAAAA
* *
46050089 AATTATTTTAATATTATTTTTTGTGTTTACAGCATGTGTATATATATGTGTAAAAATTTCGTGAG
66 AATTATTTTAATATTATTTTTGGTGTTTACAGCATGTGAATATATATGTGTAAAAATTTCGTGAG
* * *
46050154 CTAATTTTATCGTTTAATAGCTCAATTTGAGAAAAAATACTTAATAGCGTAAAATGCAAAAGTTG
131 CTAATTTTATCGTTTAATAGCTCAATTTGAAAAAAAAAACATAATAGCGTAAAATGCAAAAGTTG
*
46050219 CATTCTACTTGTTTAAAGTGCTTAATTGCCATGTCTTATTAAATTAAAGGTCCTTATGTTGTAAT
196 CATTCTACTTGTTTAAAGTGCTTAATTCCCATGTCTTATTAAATTAAAGGTCCTTATGTTGTAAT
*
46050284 TAGACCATTGATAGTGGAATTTGACATAAATGGGCATTACATGGATGATATTAAATGTTTTATAT
261 TAGACCATTGATAGTGGAATTTGACATAAATGGGCATTAAATGGATGATATTAAATGTTTTATAT
46050349 TAAGGTTAAAATGGTAATTAGGTTATTAAGTTAATATTAAATAAAAAAAGTTAAAATAAGCCCAA
326 TAAGGTTAAAATGGTAATTAGGTTATTAAGTTAATATTAAATAAAAAAAGTTAAAATAAGCCCAA
* *
46050414 ATTATCATCATCTTCACCGAAAATAAAAAGAAAAAGAAGCTTAGACTATGTTTTAGGGTTCTACC
391 ATTATCATCATCTTCACCAAAAATAAAAAGAAAAAGAAGCTTAGAATATGTTTTAGGGTTCTACC
* * * *
46050479 CTTTGAAGCTTTGATTGAGGTATGTTTCGAGCTTGGTTTTTGATGATTTTTATGTTTTTGTGATC
456 CTTTGAAGCTTTGATTGAGGTATGTTTCGAGCTCGATTTTTGATGATTTTTATGTTTTTATCATC
46050544 GTTACTTTGAGTACTAGCTAGCCCGTGCCCTAAATGTTGAATTGGTTGATAAATTTGTGAGCTTC
521 GTTACTTTGAGTACTAGCTAGCCCGTGCCCTAAATGTTGAATTGGTTGATAAATTTGTGAGCTTC
* *
46050609 CATTGATGATAGCTTGATTTTTTTGAATGTTGATGATGGAGAATGAATAATTGTTGATAGATTTT
586 CATTGATGATAGCTTGATTTTTTTGAATGTTGATGATGGAGAATGAAGAACTGTTGATAGATTTT
46050674 CAGGGACGAAAATCCCTAAGGGGGAAGAGT
651 CAGGGACGAAAATCCCTAAGGGGGAAGAGT
* * * *
46050704 TGTAATAGCCCAGTTTTAGCTTAAATCAGAATAGTGGTTTCAGAATCACAAATCCT-AGATCAAA
1 TGTAACAGCCCAATTTTAGCTTAAATCAGAATAGTGGTTTCAGAACCACAAAT-ATGAGATCAAA
* *
46050768 AAATTATTTTAATATTATTTTTGGTGTTTGCAGCATGTGAATATATATGTGTGAAAATTTCGTGA
65 AAATTATTTTAATATTATTTTTGGTGTTTACAGCATGTGAATATATATGTGTAAAAATTTCGTGA
*
46050833 GCTAATTTTATCGTTTAATAGCTCAATTTTAGAAAAAAAAAACATAATCGCGTAAAATGCAAAAG
130 GCTAATTTTATCGTTTAATAGCTCAA-TTT-GAAAAAAAAAACATAATAGCGTAAAATGCAAAAG
* *
46050898 TTGCATTCTACTTGTTTAAAGTGCTTAATTCCCTTGTCTTATTAAATTAAAGTTCCTTATGTTGT
193 TTGCATTCTACTTGTTTAAAGTGCTTAATTCCCATGTCTTATTAAATTAAAGGTCCTTATGTTGT
46050963 AATTAGACCATTGATAGTGGAATTTGACATAAATGGGCATTAAATGGATGATATTAAATGTTTTA
258 AATTAGACCATTGATAGTGGAATTTGACATAAATGGGCATTAAATGGATGATATTAAATGTTTTA
46051028 TATTAAGGTTAAAATGGTAATTAGGTTATTAAGTTAATATTAAATAAAAAAAGTTAAAATAAGCC
323 TATTAAGGTTAAAATGGTAATTAGGTTATTAAGTTAATATTAAATAAAAAAAGTTAAAATAAGCC
*
46051093 TAAATTATCATCATCTTCACCAAAAATAAAAAGAAAAAGAAGCTTAGAATATGTTTTAGGGTT-T
388 CAAATTATCATCATCTTCACCAAAAATAAAAAGAAAAAGAAGCTTAGAATATGTTTTAGGGTTCT
*
46051157 GGCCCTTTGAAGCTTTGATTGAGGTATGTTTCGAGCTCGATTTTTGAT-ATTTTTTATGTTTTTA
453 -ACCCTTTGAAGCTTTGATTGAGGTATGTTTCGAGCTCGATTTTTGATGA-TTTTTATGTTTTTA
* * *
46051221 TCATCGTTGCTTTGAGTACTAGCTAGCCCGTGCCCTAATTTTTGAATTGGTTGATAAATTTGTGA
516 TCATCGTTACTTTGAGTACTAGCTAGCCCGTGCCCTAAATGTTGAATTGGTTGATAAATTTGTGA
*
46051286 GTTTCCATTGATGATAGCTTGATTTTTTTGAATGTTGATGATGGAGAATGAAGAACTGTTGATAG
581 GCTTCCATTGATGATAGCTTGATTTTTTTGAATGTTGATGATGGAGAATGAAGAACTGTTGATAG
46051351 ATTTT
646 ATTTT
46051356 AATGTTTTGT
Statistics
Matches: 615, Mismatches: 32, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
680 143 0.23
681 6 0.01
682 466 0.76
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (680 bp):
TGTAACAGCCCAATTTTAGCTTAAATCAGAATAGTGGTTTCAGAACCACAAATATGAGATCAAAA
AATTATTTTAATATTATTTTTGGTGTTTACAGCATGTGAATATATATGTGTAAAAATTTCGTGAG
CTAATTTTATCGTTTAATAGCTCAATTTGAAAAAAAAAACATAATAGCGTAAAATGCAAAAGTTG
CATTCTACTTGTTTAAAGTGCTTAATTCCCATGTCTTATTAAATTAAAGGTCCTTATGTTGTAAT
TAGACCATTGATAGTGGAATTTGACATAAATGGGCATTAAATGGATGATATTAAATGTTTTATAT
TAAGGTTAAAATGGTAATTAGGTTATTAAGTTAATATTAAATAAAAAAAGTTAAAATAAGCCCAA
ATTATCATCATCTTCACCAAAAATAAAAAGAAAAAGAAGCTTAGAATATGTTTTAGGGTTCTACC
CTTTGAAGCTTTGATTGAGGTATGTTTCGAGCTCGATTTTTGATGATTTTTATGTTTTTATCATC
GTTACTTTGAGTACTAGCTAGCCCGTGCCCTAAATGTTGAATTGGTTGATAAATTTGTGAGCTTC
CATTGATGATAGCTTGATTTTTTTGAATGTTGATGATGGAGAATGAAGAACTGTTGATAGATTTT
CAGGGACGAAAATCCCTAAGGGGGAAGAGT
Found at i:46084799 original size:20 final size:20
Alignment explanation
Indices: 46084774--46084818 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
46084764 AGGGAATAAA
* *
46084774 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTATAAAATTTG
*
46084794 ATGAAAAATTATAAAATTTT
1 ATGAAAAATTATAAAATTTG
46084814 ATGAA
1 ATGAA
46084819 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:46090475 original size:40 final size:39
Alignment explanation
Indices: 46090428--46090641 Score: 239
Period size: 40 Copynumber: 5.4 Consensus size: 39
46090418 CTCGCACAAG
* * * *
46090428 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGA-ATTGTAACTAGCACAAAT
* *** *
46090468 GCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGA-ATTGTAACTAGCACAAAT
* *
46090508 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACCAAT
1 GCCTTCGGGACTTAGCCCGGAATT-GTAACTAGCACAAAT
*
46090548 GCCTTCGGGACTTAGCTCGGAATTTGTAACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAA-TTGTAACTAGCACAAAT
* * *
46090588 GCCTTCGGGACTTAGCCCGGAATTAATCACTAGCACACAT
1 GCCTTCGGGACTTAGCCCGGAATT-GTAACTAGCACAAAT
*
46090628 GTCTTCGGGACTTA
1 GCCTTCGGGACTTA
46090642 ACCCCGTTAG
Statistics
Matches: 152, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.03
40 146 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCCGGAATTGTAACTAGCACAAAT
Found at i:46090549 original size:80 final size:80
Alignment explanation
Indices: 46090392--46090641 Score: 267
Period size: 80 Copynumber: 3.1 Consensus size: 80
46090382 ACCCAAGTAT
* * * *
46090392 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATG
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
* *
46090453 GTCACTAGCATAAATGC
64 GTAACTAGCACAAATGC
46090470 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
46090535 AACTCGCACCAATGC
66 AACTAGCACAAATGC
* * *** * *
46090550 CTTCGGGACTTAGCTCGGA-ATTTGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAA
1 CTTCGGGTCTTAGCCCGGATA-TAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
* * *
46090614 TCACTAGCACACATGT
65 TAACTAGCACAAATGC
*
46090630 CTTCGGGACTTA
1 CTTCGGGTCTTA
46090642 ACCCCGTTAG
Statistics
Matches: 147, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
78 11 0.07
79 20 0.14
80 113 0.77
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
AACTAGCACAAATGC
Found at i:46090603 original size:120 final size:119
Alignment explanation
Indices: 46090417--46090641 Score: 303
Period size: 120 Copynumber: 1.9 Consensus size: 119
46090407 GGATATAACC
* * * *
46090417 ACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGTCTTA
1 ACTCGCACAAGGCCTTCGGGACTTAGCCCGGATATGGTAACTAGCACAAATGCCTTCGGGACTTA
*
46090482 GCCCGG-ATATAA-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
66 GCCCGGAAT-TAATC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
46090536 ACTCGCACCAATGCCTTCGGGACTTAGCTCGGA-ATTTGTAACTAGCACAAATGCCTTCGGGACT
1 ACTCGCA-CAAGGCCTTCGGGACTTAGCCCGGATA-TGGTAACTAGCACAAATGCCTTCGGGACT
* *
46090600 TAGCCCGGAATTAATCACTAGCACACATGTCTTCGGGACTTA
64 TAGCCCGGAATTAATCACTAGCACAAATGCCTTCGGGACTTA
46090642 ACCCCGTTAG
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
119 8 0.09
120 81 0.88
121 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
ACTCGCACAAGGCCTTCGGGACTTAGCCCGGATATGGTAACTAGCACAAATGCCTTCGGGACTTA
GCCCGGAATTAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:46093444 original size:18 final size:20
Alignment explanation
Indices: 46093421--46093458 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
46093411 TTTGCTCCAT
46093421 TGAGAT-GG-TGAAACTATG
1 TGAGATAGGATGAAACTATG
46093439 TGAGATAGGCATGAAACTAT
1 TGAGATAGG-ATGAAACTAT
46093459 ATCGAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
21 9 0.53
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAGATAGGATGAAACTATG
Found at i:46098208 original size:34 final size:34
Alignment explanation
Indices: 46098162--46098251 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
46098152 TTGAATAGTT
* **
46098162 TGGGCCTAAGCCCATATCAGTCGCAATATCAATG
1 TGGGCCTTAGCCCATATCAGTAACAATATCAATG
*
46098196 TGGGCCTTAGCCCA-ATACAGTAACAATATCAGTG
1 TGGGCCTTAGCCCATAT-CAGTAACAATATCAATG
* *
46098230 TGGGCCTTAGCCGATTTCAGTA
1 TGGGCCTTAGCCCATATCAGTA
46098252 CGGTATCCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 2 0.04
34 45 0.94
35 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATATCAGTAACAATATCAATG
Found at i:46102779 original size:36 final size:36
Alignment explanation
Indices: 46102739--46102807 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
46102729 GGACGCAACT
* * *
46102739 CATTGTCAATTTCTTCGACTAGTGCTGTGCACAAAA
1 CATTGTCAATTTATCCGACTAGTGCTGGGCACAAAA
*
46102775 CATTGTCGATTTATCCGACTAGTGCTGGGCACA
1 CATTGTCAATTTATCCGACTAGTGCTGGGCACA
46102808 CATTTGATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (36 bp):
CATTGTCAATTTATCCGACTAGTGCTGGGCACAAAA
Found at i:46103187 original size:21 final size:20
Alignment explanation
Indices: 46103157--46103196 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
46103147 TTTTGAAATA
*
46103157 GGGCACACGCCTGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
46103177 GGGCAGCACGCCCGTGTGGA
1 GGGCA-CACGCCCGTGTGGA
46103197 ATTTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.15, C:0.28, G:0.42, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:46104447 original size:48 final size:47
Alignment explanation
Indices: 46104328--46104451 Score: 162
Period size: 47 Copynumber: 2.6 Consensus size: 47
46104318 AATGTGTAAT
*
46104328 GCCGACGCCATGTCCCAGACATGGTCTTACATTAGCTTATCCATCAA
1 GCCGACGCCATGTCCCAGACATGGTCTTACATTAGCTTATCAATCAA
* * * *
46104375 GTCGATGCCATGTCCTAGACATGGTCTTACATTA-C-TATCAAAATCGAG
1 GCCGACGCCATGTCCCAGACATGGTCTTACATTAGCTTATC--AATC-AA
46104423 GCCGACGCCATGTCCCAGACATGGTCTTA
1 GCCGACGCCATGTCCCAGACATGGTCTTA
46104452 AACTAGCCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
45 4 0.06
46 1 0.02
47 34 0.52
48 27 0.41
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACATTAGCTTATCAATCAA
Found at i:46109612 original size:21 final size:20
Alignment explanation
Indices: 46109584--46109623 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
46109574 CGTTGAAACA
46109584 GGGCACACGCCCGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
*
46109604 GGGCAACACGCCTGTGTGGA
1 GGGC-ACACGCCCGTGTGGA
46109624 ACTTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.28, G:0.40, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:46110948 original size:46 final size:44
Alignment explanation
Indices: 46110862--46110981 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 44
46110852 ACATATCTGT
* *
46110862 GCCGATGCTACGTCCCAGACATGGTCTTACACTGACACATCTCGTA-
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGACACATCTC-AAG
* * *
46110908 GCCGATGCATGTCCCAAACATGTCTTCCACTGGCTTACATCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCAAG
*
46110954 GCCGATGCATGTCCCAGACTTGTCTTAC
1 GCCGATGCATGTCCCAGACATGTCTTAC
46110982 GCTATCACAC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 11 0.17
45 12 0.19
46 40 0.63
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCAAG
Found at i:46112199 original size:24 final size:23
Alignment explanation
Indices: 46112166--46112224 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
46112156 ACAGATCCAT
*
46112166 TGAAGAAGGTCGAAAAGGATGTAAA
1 TGAA-AAGGTC-AAAAGGATATAAA
* *
46112191 TGAAAAGGTCAAAATGATATCAA
1 TGAAAAGGTCAAAAGGATATAAA
*
46112214 CGAAAAGGTCA
1 TGAAAAGGTCA
46112225 GTATCTCATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 20 0.67
24 6 0.20
25 4 0.13
ACGTcount: A:0.49, C:0.08, G:0.25, T:0.17
Consensus pattern (23 bp):
TGAAAAGGTCAAAAGGATATAAA
Found at i:46127626 original size:46 final size:47
Alignment explanation
Indices: 46127520--46127641 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
46127510 TGTCTTCGAC
** * *
46127520 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
46127570 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
46127616 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
46127642 CGTCCTGTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:46139607 original size:93 final size:93
Alignment explanation
Indices: 46139500--46139670 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
46139490 GCCCCTAAGT
*
46139500 GAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
46139565 CAAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* * *
46139593 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
*
46139658 CGAGTTCGGATGC
66 CAAGTTCGGATGC
46139671 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46139667 original size:46 final size:46
Alignment explanation
Indices: 46139495--46139667 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
46139485 AACCCGCCCC
* * *
46139495 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACAAGTTCGGACATTCGCATCCA
* *
46139541 TAAGTGAACTCAAACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACAAGTTCGGA---C-A-TTCGCATCCA
* * * *
46139589 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACAAGTTCGGACATTCGCATCCA
*
46139634 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACAAGTTCGGA
46139668 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 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 58 0.56
47 26 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACAAGTTCGGACATTCGCATCCA
Found at i:46146587 original size:22 final size:21
Alignment explanation
Indices: 46146556--46146608 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
46146546 ATAGGTCAAC
*
46146556 GCGTAGACAGGACAACACATA
1 GCGTAAACAGGACAACACATA
* *
46146577 GTCGTAAACAGGATAGCACATA
1 G-CGTAAACAGGACAACACATA
46146599 GCTGTAAACA
1 GC-GTAAACA
46146609 TCGCAGCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.15
Consensus pattern (21 bp):
GCGTAAACAGGACAACACATA
Found at i:46147060 original size:41 final size:41
Alignment explanation
Indices: 46147002--46147115 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
46146992 CCGGTAGATT
* * *
46147002 CACGGTCATCAAGCAACCATGCGATCCTTAATCGGTGGATC
1 CACGGTCGTCAAGCAACCATGCGATCCTCAATCGGTGGACC
* *
46147043 TACGGTCGTCAAGCAACCATGTGATCCTCAATCGGTGGACC
1 CACGGTCGTCAAGCAACCATGCGATCCTCAATCGGTGGACC
* *
46147084 CACGGTTGTCAAGCAACCATACGATCCTCAAT
1 CACGGTCGTCAAGCAACCATGCGATCCTCAAT
46147116 TTCTTCCTCC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (41 bp):
CACGGTCGTCAAGCAACCATGCGATCCTCAATCGGTGGACC
Found at i:46147404 original size:27 final size:26
Alignment explanation
Indices: 46147353--46147740 Score: 187
Period size: 27 Copynumber: 14.4 Consensus size: 26
46147343 TTCACCCTAC
* * *
46147353 AAGGGTGTTTTGGTAAATCTATAAACT
1 AAGGGTATTTTGGTAATTTTATAAA-T
* *
46147380 AAGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTATAAA-T
*
46147407 AATGGTATTTCT-GTAATTTT-TGAAAGT
1 AAGGGTATTT-TGGTAATTTTAT-AAA-T
* *
46147434 CAAGGGTATTTTTGTAATTTTGTAAAT
1 -AAGGGTATTTTGGTAATTTTATAAAT
* *
46147461 CAGGGGTATTCT-GTAATTTT-TCCAAAT
1 -AAGGGTATTTTGGTAATTTTAT--AAAT
* **
46147488 CAATGGTATTTTGGTAATTTTCCAAAT
1 -AAGGGTATTTTGGTAATTTTATAAAT
* * *
46147515 CAGCGGTATTTTTGTAATTTTACAAATT
1 AAG-GGTATTTTGGTAATTTTATAAA-T
* *
46147543 GAGGGTATTTTGGGTAATTTTATAAGT
1 AAGGGTATTTT-GGTAATTTTATAAAT
* *** * *
46147570 CGAGGGTATTTCAATGATTTTACAAAGT
1 -AAGGGTATTTTGGTAATTTTATAAA-T
* * * * *
46147598 CGAGGGTATTTCGGTGATTTCACAAAT
1 -AAGGGTATTTTGGTAATTTTATAAAT
* *
46147625 CAGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTATAAA-T
*
46147652 AGGGGTATTTTGGTAATTTTGAT--AT
1 AAGGGTATTTTGGTAATTTT-ATAAAT
* * * *
46147677 CGAGGGTATTTTGGAAATTTTGTAAACC
1 -AAGGGTATTTTGGTAATTTTATAAA-T
** *
46147705 AAGGGTA-TTCAGTAATTTTGTAAACT
1 AAGGGTATTTTGGTAATTTTATAAA-T
46147731 AAGGGTATTT
1 AAGGGTATTT
46147741 CAGTAATTCT
Statistics
Matches: 291, Mismatches: 49, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.01
26 71 0.24
27 138 0.47
28 78 0.27
29 1 0.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (26 bp):
AAGGGTATTTTGGTAATTTTATAAAT
Found at i:46147497 original size:54 final size:55
Alignment explanation
Indices: 46147380--46147748 Score: 253
Period size: 55 Copynumber: 6.8 Consensus size: 55
46147370 TCTATAAACT
* ** *
46147380 AAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTCTGTAATTTTTGAAAGTC
1 AAGGGTATTTTGGTAATTTTGTAAATCAGCGGTATTTCTGTAATTTTTCAAAGTC
* *
46147435 AAGGGTATTTTTGTAATTTTGTAAATCAGGGGTA-TTCTGTAATTTTTCCAAA-TC
1 AAGGGTATTTTGGTAATTTTGTAAATCAGCGGTATTTCTGTAATTTTT-CAAAGTC
* ** * * *
46147489 AATGGTATTTTGGTAATTTTCCAAATCAGCGGTATTTTTGTAATTTTACAAA-TT
1 AAGGGTATTTTGGTAATTTTGTAAATCAGCGGTATTTCTGTAATTTTTCAAAGTC
* * * ** * *
46147543 GAGGGTATTTTGGGTAATTTTATAAGTCGAG-GGTATTTCAATGATTTTACAAAGTC
1 AAGGGTATTTT-GGTAATTTTGTAAATC-AGCGGTATTTCTGTAATTTTTCAAAGTC
* * * *** * *
46147599 GAGGGTATTTCGGTGATTTCACAAATCAG-GGTATTT-TGGTAATTTTACAAA-TT
1 AAGGGTATTTTGGTAATTTTGTAAATCAGCGGTATTTCT-GTAATTTTTCAAAGTC
* * * *
46147652 AGGGGTATTTTGGTAATTTTG-ATATCGAG-GGTATTT-TGGAAATTTTGT-AAA-CC
1 AAGGGTATTTTGGTAATTTTGTAAATC-AGCGGTATTTCT-GTAATTTT-TCAAAGTC
** * *
46147705 AAGGGTA-TTCAGTAATTTTGTAAACTAAG-GGTATTTCAGTAATT
1 AAGGGTATTTTGGTAATTTTGTAAA-TCAGCGGTATTTCTGTAATT
46147749 CTAGCCTACA
Statistics
Matches: 253, Mismatches: 50, Indels: 24
0.77 0.15 0.07
Matches are distributed among these distances:
52 15 0.06
53 59 0.23
54 79 0.31
55 87 0.34
56 13 0.05
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (55 bp):
AAGGGTATTTTGGTAATTTTGTAAATCAGCGGTATTTCTGTAATTTTTCAAAGTC
Found at i:46147531 original size:109 final size:107
Alignment explanation
Indices: 46147380--46147687 Score: 311
Period size: 109 Copynumber: 2.8 Consensus size: 107
46147370 TCTATAAACT
** * * * ** *
46147380 AAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTCTGTAATTTTTGAAAGTCAAGGGTATTT
1 AAGGGTATTTTGGTAATTTTCCAAATC-AGGGTATTTTTGTAATTTTACAAA-TTAAGGGTATTT
* * *
46147445 TTGTAATTTTGTAAATC-AGGGGTATTCTGTAAT-TTTTCCAAA-TC
64 TGGTAATTTTGTAAATCGA-GGGTATT-T-CAATATTTTACAAAGTC
* *
46147489 AATGGTATTTTGGTAATTTTCCAAATCAGCGGTATTTTTGTAATTTTACAAATTGAGGGTATTTT
1 AAGGGTATTTTGGTAATTTTCCAAATCAG-GGTATTTTTGTAATTTTACAAATTAAGGGTATTTT
* *
46147554 GGGTAATTTTATAAGTCGAGGGTATTTCAATGATTTTACAAAGTC
65 -GGTAATTTTGTAAATCGAGGGTATTTCAAT-ATTTTACAAAGTC
* * * * *
46147599 GAGGGTATTTCGGTGA-TTTCACAAATCAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTT
1 AAGGGTATTTTGGTAATTTTC-CAAATCAGGGTATTTTTGTAATTTTACAAATTAAGGGTATTTT
*
46147663 GGTAATTTTG-ATATCGAGGGTATTT
65 GGTAATTTTGTAAATCGAGGGTATTT
46147688 TGGAAATTTT
Statistics
Matches: 167, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
107 16 0.10
108 22 0.13
109 106 0.63
110 23 0.14
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (107 bp):
AAGGGTATTTTGGTAATTTTCCAAATCAGGGTATTTTTGTAATTTTACAAATTAAGGGTATTTTG
GTAATTTTGTAAATCGAGGGTATTTCAATATTTTACAAAGTC
Found at i:46147574 original size:28 final size:27
Alignment explanation
Indices: 46147381--46147697 Score: 234
Period size: 27 Copynumber: 11.7 Consensus size: 27
46147371 CTATAAACTA
** * *
46147381 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCG
* ** *
46147408 ATGGTATTTCT-GTAATTTTTGAAAGTCA
1 AGGGTATTT-TGGTAATTTTACAAA-TCG
* **
46147436 AGGGTATTTTTGTAATTTTGTAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
46147462 AGGGGTATTCT-GTAATTTTTCCAAATCA
1 A-GGGTATTTTGGTAA-TTTTACAAATCG
* *
46147490 ATGGTATTTTGGTAATTTTCCAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
46147516 AGCGGTATTTTTGTAATTTTACAAATTG
1 AG-GGTATTTTGGTAATTTTACAAATCG
* *
46147544 AGGGTATTTTGGGTAATTTTATAAGTCG
1 AGGGTATTTT-GGTAATTTTACAAATCG
*** *
46147572 AGGGTATTTCAATGATTTTACAAAGTCG
1 AGGGTATTTTGGTAATTTTACAAA-TCG
* * *
46147600 AGGGTATTTCGGTGATTTCACAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCG
*
46147626 AGGGTATTTTGGTAATTTTACAAAT-T
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
46147652 AGGGGTATTTTGGTAATTTT-GATATCG
1 A-GGGTATTTTGGTAATTTTACAAATCG
*
46147679 AGGGTATTTTGGAAATTTT
1 AGGGTATTTTGGTAATTTT
46147698 GTAAACCAAG
Statistics
Matches: 240, Mismatches: 36, Indels: 29
0.79 0.12 0.10
Matches are distributed among these distances:
26 49 0.20
27 116 0.48
28 75 0.31
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:46147721 original size:26 final size:27
Alignment explanation
Indices: 46147692--46147748 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
46147682 GTATTTTGGA
46147692 AATTTTGTAAACCAAGGGTA-TTCAGT
1 AATTTTGTAAACCAAGGGTATTTCAGT
*
46147718 AATTTTGTAAACTAAGGGTATTTCAGT
1 AATTTTGTAAACCAAGGGTATTTCAGT
46147745 AATT
1 AATT
46147749 CTAGCCTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
AATTTTGTAAACCAAGGGTATTTCAGT
Found at i:46152309 original size:32 final size:32
Alignment explanation
Indices: 46152268--46152337 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
46152258 GCTGAGTCAG
*
46152268 AAAA-ATAATTTAATATTATTTTTCCATTTTT
1 AAAATATAATTTAATATTATTTTTCCATGTTT
46152299 AAAATATAATTTAATATTATTTTTCCATGTTT
1 AAAATATAATTTAATATTATTTTTCCATGTTT
46152331 AAAATAT
1 AAAATAT
46152338 GTGAATTGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 4 0.11
32 33 0.89
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (32 bp):
AAAATATAATTTAATATTATTTTTCCATGTTT
Found at i:46154113 original size:28 final size:28
Alignment explanation
Indices: 46154067--46154141 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
46154057 CTAAATGTGG
46154067 CACTTAGTGTACGAAATATTGAGAATGA
1 CACTTAGTGTACGAAATATTGAGAATGA
* *
46154095 CACTTAGTGTGCGAGATATTGAGAATGA
1 CACTTAGTGTACGAAATATTGAGAATGA
46154123 CACTTAGTGT-CTGAAATAT
1 CACTTAGTGTAC-GAAATAT
46154142 CAAATGATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTACGAAATATTGAGAATGA
Found at i:46156593 original size:27 final size:27
Alignment explanation
Indices: 46156560--46156731 Score: 191
Period size: 27 Copynumber: 6.4 Consensus size: 27
46156550 TGGATAAGTT
* * *
46156560 GTAGAATTACCGAAATACCACTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* **
46156587 GTAGAATTATCGAAATACCTTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
46156614 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
46156641 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
46156668 ATAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * * *
46156695 GTAGAATTATCTAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
46156722 GTAAAATTAC
1 GTAGAATTAC
46156732 TATTGTTAAA
Statistics
Matches: 122, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:46156644 original size:54 final size:54
Alignment explanation
Indices: 46156560--46156732 Score: 229
Period size: 54 Copynumber: 3.2 Consensus size: 54
46156550 TGGATAAGTT
* * * *
46156560 GTAGAATTACCGAAATACCACTATAAGGTAGAATTATCGAAATACCTTTGTAGG
1 GTAGAATTACTGAAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAGG
* * * *
46156614 GTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAGG
* * * *
46156668 ATAGAATTACTGAAATACCCCTATAGGGTAGAATTATCTAGATACCCTTGTGGG
1 GTAGAATTACTGAAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAGG
*
46156722 GTAAAATTACT
1 GTAGAATTACT
46156733 ATTGTTAAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (54 bp):
GTAGAATTACTGAAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAGG
Found at i:46156695 original size:81 final size:81
Alignment explanation
Indices: 46156560--46156731 Score: 215
Period size: 81 Copynumber: 2.1 Consensus size: 81
46156550 TGGATAAGTT
** *
46156560 GTAGAATTACCGAAATACCACTATAAGGTAGAATTATCGAAATACCTTTGTAGGGTAGAATTAT-
1 GTAGAATTACCGAAATACCACTATAAGGTAGAATTATCGAAATACCCCTATAGGGTAGAATTATC
46156624 TGAAATACCCCTGTAGG
66 T-AAATACCCCTGTAGG
* *
46156641 GTAGAATTACCGAAATACCCCTGT-AGGATAGAATTA-CTGAAATACCCCTATAGGGTAGAATTA
1 GTAGAATTACCGAAATACCACTATAAGG-TAGAATTATC-GAAATACCCCTATAGGGTAGAATTA
* * *
46156704 TCTAGATACCCTTGTGGG
64 TCTAAATACCCCTGTAGG
*
46156722 GTAAAATTAC
1 GTAGAATTAC
46156732 TATTGTTAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
80 4 0.05
81 74 0.94
82 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCACTATAAGGTAGAATTATCGAAATACCCCTATAGGGTAGAATTATC
TAAATACCCCTGTAGG
Found at i:46157414 original size:27 final size:26
Alignment explanation
Indices: 46157370--46157421 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
46157360 CTCGCTGCAA
*
46157370 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
46157397 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
46157422 GCAGCTCCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:46157500 original size:27 final size:26
Alignment explanation
Indices: 46157462--46157521 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
46157452 ACATATATAT
* *
46157462 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
46157488 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
46157515 ATATCTG
1 ATATCTG
46157522 GCAGCTCGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:46158344 original size:41 final size:41
Alignment explanation
Indices: 46158282--46158404 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
46158272 TAAAAGCCAC
*
46158282 CGGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCAAT
* *
46158323 CGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCAAT
* *
46158364 CGGTAGATCCACAGTCGTCAAGCAACCATGTGATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCAAT
46158405 TTCTTCGTCC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCAAT
Found at i:46158695 original size:27 final size:27
Alignment explanation
Indices: 46158643--46159029 Score: 196
Period size: 27 Copynumber: 14.4 Consensus size: 27
46158633 TTCACCCTAC
* * *
46158643 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
46158670 AAGGGTATTTTGATAATTTTAAAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * ** *
46158697 AATGGTATTTTTGTAATTTTTGAAAGT
1 AAGGGTATTTTGGTAATTTTACAAACT
* **
46158724 AAAGGTATTTCT-GTAATTTTGTAAA-T
1 AAGGGTATTT-TGGTAATTTTACAAACT
* ** *
46158750 CAGGGGTATTTTTATAATTTTCCAAA-T
1 -AAGGGTATTTTGGTAATTTTACAAACT
*** *
46158777 CAAGGGTATTTCAATAATTTTCCAAA-T
1 -AAGGGTATTTTGGTAATTTTACAAACT
* *
46158804 CAGGAGTATTTTGGTAATTTTACAAATT
1 AAGG-GTATTTTGGTAATTTTACAAACT
* * ** *
46158832 GAGGGTAATTCAGTAATTTTAC-AAGT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * ** **
46158858 CGAGGGTATTTCGGTAATTTT-TTAGGT
1 -AAGGGTATTTTGGTAATTTTACAAACT
* *
46158885 CGAGGGTATTTTGGTAATTTCACAAA-T
1 -AAGGGTATTTTGGTAATTTTACAAACT
* *
46158912 CAGGGGTATTTTGGTAATTTTACAAACC
1 -AAGGGTATTTTGGTAATTTTACAAACT
* * * *
46158940 AGGGGTATTTTGGTAATTTTGCTAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* ** *
46158967 GAGGGTATTTTGGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* ** *
46158994 AAGGGTA-TTTAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
46159020 AAGGGTATTT
1 AAGGGTATTT
46159030 CAGTAATTCT
Statistics
Matches: 291, Mismatches: 59, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
26 33 0.11
27 252 0.87
28 6 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:46158785 original size:54 final size:53
Alignment explanation
Indices: 46158645--46159029 Score: 238
Period size: 54 Copynumber: 7.2 Consensus size: 53
46158635 CACCCTACAA
* * * * ** * *
46158645 GGGTGTTTTGGTAAATCTACAAA-CTAAGGGTATTTTGATAATTTTAAAAACCAA
1 GGGTATTTTGGTAATTTTACAAATC-AAGGGTATTTAG-TAATTTTGCAAATCAG
* * ** * * *
46158699 TGGTATTTTTGTAATTTTTGAAAGT-AAAGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAA-TCAAGGGTATTT-AGTAATTTTGCAAATCAG
** * * *
46158753 GGGTATTTTTATAATTTTCCAAATCAAGGGTATTTCAATAATTTTCCAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTT-AGTAATTTTGCAAATCAG
* ** * * *
46158807 GAGTATTTTGGTAATTTTACAAATTGAGGGTAATTCAGTAATTTTACAAGTC-G
1 GGGTATTTTGGTAATTTTACAAATCAAGGGT-ATTTAGTAATTTTGCAAATCAG
* ** ** * * **
46158860 AGGGTATTTCGGTAATTTTTTAGGTCGAGGGTATTTTGGTAATTTCACAAATCAG
1 -GGGTATTTTGGTAATTTTACAAATCAAGGGTA-TTTAGTAATTTTGCAAATCAG
* * * * *
46158915 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCTAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTA-TTTAGTAATTTTGCAAATCAG
** * * * *
46158968 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTAGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTAGTAATTTTGCAAATCAG
46159022 GGGTATTT
1 GGGTATTT
46159030 CAGTAATTCT
Statistics
Matches: 258, Mismatches: 63, Indels: 21
0.75 0.18 0.06
Matches are distributed among these distances:
53 26 0.10
54 226 0.88
55 6 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTAGTAATTTTGCAAATCAG
Found at i:46158813 original size:81 final size:80
Alignment explanation
Indices: 46158644--46159037 Score: 298
Period size: 81 Copynumber: 4.9 Consensus size: 80
46158634 TCACCCTACA
* * * * * *
46158644 AGGGTGTTTTGGTAAATCTACAAA-CTAAGGGTATTTT-GATAATTTTAAAAACCAATGGTATTT
1 AGGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTAG-TAATTTTACAAACCAAGGGTATTT
** *
46158707 TTGTAATTTT-TGAAAGTA
64 CAGTAATTTTCT-AAA-TC
* ** * *
46158725 AAGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTTA-TAATTTTCCAAATCAAGGGTATTT
1 AGGGTATTT-TGGTAATTTTACAAATCAGGGGTA-TTTTAGTAATTTTACAAACCAAGGGTATTT
* *
46158788 CAATAATTTTCCAAATC
64 CAGTAATTTTCTAAATC
* * * ** *
46158805 AGGAGTATTTTGGTAATTTTACAAAT-TGAGGGTAATTCAGTAATTTTACAAGTCGAGGGTATTT
1 AGG-GTATTTTGGTAATTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
* * **
46158869 CGGTAATTTTTTAGGTC
64 CAGTAATTTTCTAAATC
* * * *
46158886 GAGGGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 -AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTC
* * *
46158951 GGTAATTTTGCTAATTG
65 AGTAATTTT-CTAAATC
** * * **
46158968 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTA-TTTAGTAATTTTGTAAACCAAGGGTATTTCA
1 AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTCA
46159032 GTAATT
66 GTAATT
46159038 CTACCCTACA
Statistics
Matches: 245, Mismatches: 56, Indels: 25
0.75 0.17 0.08
Matches are distributed among these distances:
80 39 0.16
81 193 0.79
82 13 0.05
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTCA
GTAATTTTCTAAATC
Found at i:46166254 original size:39 final size:39
Alignment explanation
Indices: 46166172--46166344 Score: 247
Period size: 39 Copynumber: 4.4 Consensus size: 39
46166162 TATGTGCACA
* * *
46166172 GCATTCGTGAGGGTTATTATAACCAGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAA-CGGGCTAAGTCCCGAAG
*
46166212 GCATTCATGCGGGTTATTATAACGGGCTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACGGGCTAAGTCCCGAAG
*
46166251 GCATTCGTGCGAGTTATTATAACGGGCTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACGGGCTAAGTCCCGAAG
* * *
46166290 GCATTCGTGCGAGTTATTATTACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTA-TAACGGGCTAAGTCCCGAAG
*
46166330 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
46166345 GTTACATCCG
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 71 0.58
40 51 0.42
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
GCATTCGTGCGGGTTATTATAACGGGCTAAGTCCCGAAG
Found at i:46166323 original size:79 final size:79
Alignment explanation
Indices: 46166172--46166339 Score: 248
Period size: 79 Copynumber: 2.1 Consensus size: 79
46166162 TATGTGCACA
* * * *
46166172 GCATTCGTGAGGGTTATTATAACCAGGTTAAGTCCCGAAGGCATTCATGCGGGTTATTATAACGG
1 GCATTCGTGCGAGTTATTATAACCAGGCTAAGTCCCGAAGGCATTCATGCGAGTTATTATAACGG
46166237 GCTAAGTCCCGAAG
66 GCTAAGTCCCGAAG
* * *
46166251 GCATTCGTGCGAGTTATTATAA-CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATTACCG
1 GCATTCGTGCGAGTTATTATAACCAGGCTAAGTCCCGAAGGCATTCATGCGAGTTATTA-TAACG
*
46166315 GGTTAAGTCCCGAAG
65 GGCTAAGTCCCGAAG
46166330 GCATTCGTGC
1 GCATTCGTGC
46166340 TGGTTGTTAC
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 32 0.40
79 48 0.60
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
GCATTCGTGCGAGTTATTATAACCAGGCTAAGTCCCGAAGGCATTCATGCGAGTTATTATAACGG
GCTAAGTCCCGAAG
Found at i:46170726 original size:18 final size:20
Alignment explanation
Indices: 46170703--46170740 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
46170693 TTTGCTCCAT
46170703 TGAGAT-GG-TGAAACTATG
1 TGAGATAGGATGAAACTATG
46170721 TGAGATAGGCATGAAACTAT
1 TGAGATAGG-ATGAAACTAT
46170741 ATCGAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
21 9 0.53
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAGATAGGATGAAACTATG
Found at i:46180144 original size:34 final size:34
Alignment explanation
Indices: 46180098--46180187 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
46180088 TTGAATAGTT
* **
46180098 TGGGCCTAAGCCCATATCAGTCGCAATATCAATG
1 TGGGCCTTAGCCCATATCAGTAACAATATCAATG
*
46180132 TGGGCCTTAGCCCA-ATACAGTAACAATATCAGTG
1 TGGGCCTTAGCCCATAT-CAGTAACAATATCAATG
* *
46180166 TGGGCCTTAGCCGATTTCAGTA
1 TGGGCCTTAGCCCATATCAGTA
46180188 CGGTATCCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 2 0.04
34 45 0.94
35 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATATCAGTAACAATATCAATG
Found at i:46180539 original size:26 final size:26
Alignment explanation
Indices: 46180458--46180530 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
46180448 GCTCAAATGT
* *
46180458 TCATATACCACATAGGGGTATTTTCG
1 TCATTTACCTCATAGGGGTATTTTCG
*
46180484 TCATTTACCTTATAGGGGTATTTTCG
1 TCATTTACCTCATAGGGGTATTTTCG
46180510 TCATTTACCTCATAGGGGTAT
1 TCATTTACCTCATAGGGGTAT
46180531 AATAGTCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (26 bp):
TCATTTACCTCATAGGGGTATTTTCG
Found at i:46185149 original size:21 final size:20
Alignment explanation
Indices: 46185119--46185158 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
46185109 TTTTGAAATA
*
46185119 GGGCACACGCCTGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
46185139 GGGCAGCACGCCCGTGTGGA
1 GGGCA-CACGCCCGTGTGGA
46185159 ATTTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.15, C:0.28, G:0.42, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:46186365 original size:47 final size:47
Alignment explanation
Indices: 46186290--46186412 Score: 169
Period size: 47 Copynumber: 2.6 Consensus size: 47
46186280 AATGTGTAAT
*
46186290 GCCGACGCCATGTCCCAGACATGGTCTTACATTAGCTTATC-CATC-AA
1 GCCGACGCCATGTCCCAGACATGGTCTTACATTA-C-TATCAAATCGAA
* * * *
46186337 GTCGATGCCATGTCCTAGACATGGTCTTACATTACTATCAAATCGAG
1 GCCGACGCCATGTCCCAGACATGGTCTTACATTACTATCAAATCGAA
46186384 GCCGACGCCATGTCCCAGACATGGTCTTA
1 GCCGACGCCATGTCCCAGACATGGTCTTA
46186413 AACTAGCTCT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
45 4 0.06
46 4 0.06
47 58 0.88
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (47 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACATTACTATCAAATCGAA
Found at i:46190646 original size:50 final size:45
Alignment explanation
Indices: 46190530--46190740 Score: 153
Period size: 46 Copynumber: 4.5 Consensus size: 45
46190520 ATATCGATTC
* * * *
46190530 CATGCCCCAGACATGGTCTTACACTGACTATCGAAATCTAG-GCCGACG
1 CATGTCCCAGACAT-GTCTTACACTG-CT-TC-ACATCTCGTGCCGATG
* * *
46190578 TCGTGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACT-GCT-TCACATCTC-GTGCCGATG
* * *
46190628 CTACGTCCCAGACATGGTCCTACACTG--ACACATCTCGTAGCCGATG
1 C-ATGTCCCAGACAT-GTCTTACACTGCTTCACATCTCGT-GCCGATG
*
46190674 CATGTCCCAAACATGTCTTACACTGGCTT-ACATCTCAAG-GCCGATG
1 CATGTCCCAGACATGTCTTACACT-GCTTCACATCTC--GTGCCGATG
46190720 CATGTCCCAGACATGTCTTAC
1 CATGTCCCAGACATGTCTTAC
46190741 GCTATCACAC
Statistics
Matches: 133, Mismatches: 19, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
44 9 0.07
45 14 0.11
46 49 0.37
48 5 0.04
49 29 0.22
50 27 0.20
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGCTTCACATCTCGTGCCGATG
Found at i:46190707 original size:46 final size:47
Alignment explanation
Indices: 46190581--46190740 Score: 161
Period size: 46 Copynumber: 3.4 Consensus size: 47
46190571 GCCGACGTCG
* * *
46190581 TGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGT-GCCGATGCTA
1 TGTCCCAGACATGGTCTTACACTGGCT-T-ACATCTC-GTAGCCGATGC-A
* * *
46190631 CGTCCCAGACATGGTCCTACACTGAC--ACATCTCGTAGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGCCGATGCA
* *
46190676 TGTCCCAAACAT-GTCTTACACTGGCTTACATCTC-AAGGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA-GCCGATGCA
46190722 TGTCCCAGACAT-GTCTTAC
1 TGTCCCAGACATGGTCTTAC
46190741 GCTATCACAC
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
44 11 0.12
45 14 0.15
46 48 0.51
50 21 0.22
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGCCGATGCA
Found at i:46200640 original size:46 final size:47
Alignment explanation
Indices: 46200534--46200655 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
46200524 TGTCTTCAAC
** * * *
46200534 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTTAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTGAT
*
46200584 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTGAT
*
46200630 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
46200656 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTGAT
Found at i:46219525 original size:93 final size:92
Alignment explanation
Indices: 46219362--46219531 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 92
46219352 GCCCCTAAGT
*
46219362 GAACTCGGACTCAACTCAACAAGCTCGGCGTTCGCATCCATAAGTGAACTCAAACTCAACTCAAC
1 GAACTCGGACTCAACTCAACAAGCTCGGCATTCGCATCCATAAGTGAACTCAAACTCAACTCAAC
46219427 AAGTTCGGATGCCTAGTTACATCTCAC
66 AAGTTCGGATGCCTAGTTACATCTCAC
* * * *
46219454 GAACTCGGACTCAACTCAGCGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGG-CATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
*
46219519 CGAGTTCGGATGC
65 CAAGTTCGGATGC
46219532 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 25 0.35
93 46 0.65
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACAAGCTCGGCATTCGCATCCATAAGTGAACTCAAACTCAACTCAAC
AAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46219547 original size:46 final size:44
Alignment explanation
Indices: 46219359--46219547 Score: 107
Period size: 46 Copynumber: 4.1 Consensus size: 44
46219349 CCCGCCCCTA
* * * * * * *
46219359 AGTGAACTCGGACTCAACTCAACAAGCTCGGCGTTCGCATCCAT-A
1 AGTGAACTCAGACTCAACTCAACGAGTTCGG-ATGC-CAACCATCT
* *
46219404 AGTGAACTCAAACTCAACTCAACAAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * * *
46219451 CA-CGAACTCGGACTCAACTCAGCGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCAGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
46219497 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
46219543 AGTGA
1 AGTGA
46219548 CATGTCACTT
Statistics
Matches: 109, Mismatches: 22, Indels: 25
0.70 0.14 0.16
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 29 0.27
46 34 0.31
47 27 0.25
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:46226450 original size:22 final size:22
Alignment explanation
Indices: 46226418--46226471 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
46226408 ATAGGTCAAC
*
46226418 GCTGTAGACAGGACAACACATA
1 GCTGTAAACAGGACAACACATA
* *
46226440 G-TCGTAAACAGGATAGCACATA
1 GCT-GTAAACAGGACAACACATA
46226462 GCTGTAAACA
1 GCTGTAAACA
46226472 TCGCAGCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (22 bp):
GCTGTAAACAGGACAACACATA
Found at i:46226923 original size:41 final size:41
Alignment explanation
Indices: 46226865--46226978 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 41
46226855 CCGGTAGATT
* *
46226865 CACGGTCATCAAGCAACCATGCGATCCTTAATCGGTGGATC
1 CACGGTCATCAAGCAACCATGCGATCCTCAATCGGTGGACC
* *
46226906 TACGGTCATCAAGCAACCATGTGATCCTCAATCGGTGGACC
1 CACGGTCATCAAGCAACCATGCGATCCTCAATCGGTGGACC
**
46226947 CACGGTTGTCAAGCAACCATGCGATCCTCAAT
1 CACGGTCATCAAGCAACCATGCGATCCTCAAT
46226979 TTCTTCCTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (41 bp):
CACGGTCATCAAGCAACCATGCGATCCTCAATCGGTGGACC
Found at i:46227267 original size:27 final size:27
Alignment explanation
Indices: 46227215--46227603 Score: 278
Period size: 27 Copynumber: 14.4 Consensus size: 27
46227205 TTTCACCCTA
* * *
46227215 CAAGGGTGTTTTGGTAAATCTATAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
46227241 CTAAGGGTATTTTGGTAATTTTGTAAAC
1 C-AAGGGTATTTTGGTAATTTTATAAAT
*
46227269 CAATGGTATTTCT-GTAATTTT-TGAAAGT
1 CAAGGGTATTT-TGGTAATTTTAT-AAA-T
* *
46227297 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
46227324 CAGGGGTATTCT-GTAATTTT-TCCAAAT
1 CAAGGGTATTTTGGTAATTTTAT--AAAT
* **
46227351 CAATGGTATTTTGGTAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
46227378 C-AGCGGTATTTTTGTAATTTTACAAAT
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* *
46227405 CGAGGGTATTTTGGGTAATTTTATAAGT
1 CAAGGGTATTTT-GGTAATTTTATAAAT
* *** *
46227433 CGAGGGTATTTCAATAATTTTACAAAGT
1 CAAGGGTATTTTGGTAATTTTATAAA-T
* * * * *
46227461 CGAGGGTATTTCGGTGATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
46227488 C-AGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
46227514 TAGGGGTATTTTGGTAATTTTGAT--AT
1 CAAGGGTATTTTGGTAATTTT-ATAAAT
* * *
46227540 CGAGGGTATTTTGGAAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
** *
46227567 CAAGGGTA-TTCAGTAATTTTGTAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
46227592 CTAAGGGTATTT
1 C-AAGGGTATTT
46227604 CAGTAATTCT
Statistics
Matches: 298, Mismatches: 44, Indels: 41
0.78 0.11 0.11
Matches are distributed among these distances:
25 4 0.01
26 72 0.24
27 141 0.47
28 80 0.27
29 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:46227306 original size:55 final size:54
Alignment explanation
Indices: 46227243--46227611 Score: 313
Period size: 55 Copynumber: 6.8 Consensus size: 54
46227233 TCTATAAACT
* * **
46227243 AAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTCTGTAATTTTTGAAAGTC
1 AAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTCTGTAATTTTACAAA-TC
* * *
46227298 AAGGGTATTTTTGTAATTTTGTAAATCAGGGGTA-TTCTGTAATTTTTCCAAATC
1 AAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTCTGTAA-TTTTACAAATC
* ** *
46227352 AATGGTATTTTGGTAATTTTCCAAATC-AGCGGTATTTTTGTAATTTTACAAATC
1 AAGGGTATTTTGGTAATTTTGTAAATCAAG-GGTATTTCTGTAATTTTACAAATC
* * * * **
46227406 GAGGGTATTTTGGGTAATTTTATAAGTCGAGGGTATTTCAATAATTTTACAAAGTC
1 AAGGGTATTTT-GGTAATTTTGTAAATCAAGGGTATTTCTGTAATTTTACAAA-TC
* * * *** *
46227462 GAGGGTATTTCGGTGATTTCACAAATC-AGGGTATTT-TGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTCT-GTAATTTTACAAATC
* * * * * *
46227515 AGGGGTATTTTGGTAATTTTG-ATATCGAGGGTATTT-TGGAAATTTTATAAACC
1 AAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTCT-GTAATTTTACAAATC
** *
46227568 AAGGGTA-TTCAGTAATTTTGTAAA-CTAAGGGTATTTCAGTAATT
1 AAGGGTATTTTGGTAATTTTGTAAATC-AAGGGTATTTCTGTAATT
46227612 CTAGCCTACA
Statistics
Matches: 256, Mismatches: 47, Indels: 24
0.78 0.14 0.07
Matches are distributed among these distances:
52 16 0.06
53 61 0.24
54 77 0.30
55 88 0.34
56 14 0.05
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTCTGTAATTTTACAAATC
Found at i:46227394 original size:109 final size:108
Alignment explanation
Indices: 46227243--46227550 Score: 320
Period size: 109 Copynumber: 2.8 Consensus size: 108
46227233 TCTATAAACT
** * * * **
46227243 AAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTCTGTAATTTTTGAAAGTCAAGGGTATTT
1 AAGGGTATTTTGGTAATTTTCCAAATC-AGGGTATTTTTGTAATTTTACAAA-TCAAGGGTATTT
* ** *
46227308 TTGTAATTTTGTAAATC-AGGGGTA-TTCTGTAATTTTTCCAAA-TC
64 TGGTAATTTTGTAAATCGA-GGGTATTTCAATAA-TTTTACAAAGTC
* *
46227352 AATGGTATTTTGGTAATTTTCCAAATCAGCGGTATTTTTGTAATTTTACAAATCGAGGGTATTTT
1 AAGGGTATTTTGGTAATTTTCCAAATCAG-GGTATTTTTGTAATTTTACAAATCAAGGGTATTTT
* *
46227417 GGGTAATTTTATAAGTCGAGGGTATTTCAATAATTTTACAAAGTC
65 -GGTAATTTTGTAAATCGAGGGTATTTCAATAATTTTACAAAGTC
* * * * * *
46227462 GAGGGTATTTCGGTGA-TTTCACAAATCAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTT
1 AAGGGTATTTTGGTAATTTTC-CAAATCAGGGTATTTTTGTAATTTTACAAATCAAGGGTATTTT
*
46227526 GGTAATTTTG-ATATCGAGGGTATTT
65 GGTAATTTTGTAAATCGAGGGTATTT
46227551 TGGAAATTTT
Statistics
Matches: 167, Mismatches: 26, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
107 13 0.08
108 22 0.13
109 103 0.62
110 29 0.17
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (108 bp):
AAGGGTATTTTGGTAATTTTCCAAATCAGGGTATTTTTGTAATTTTACAAATCAAGGGTATTTTG
GTAATTTTGTAAATCGAGGGTATTTCAATAATTTTACAAAGTC
Found at i:46246812 original size:104 final size:104
Alignment explanation
Indices: 46246632--46246855 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
46246622 TGTATATAAA
** * *
46246632 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
46246697 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
46246736 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
46246800 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
46246840 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
46246856 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:46246920 original size:26 final size:26
Alignment explanation
Indices: 46246885--46246936 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
46246875 AAATGAAAAG
* *
46246885 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
46246911 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
46246937 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:46246923 original size:70 final size:72
Alignment explanation
Indices: 46246774--46246924 Score: 243
Period size: 72 Copynumber: 2.1 Consensus size: 72
46246764 TCATTGGTGG
* *
46246774 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
46246839 GAGGGGT
66 GAGGGGT
***
46246846 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
46246909 GAGGGGT
66 GAGGGGT
46246916 TGCTAAGTG
1 TGCTAAGTG
46246925 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 20 0.27
71 24 0.32
72 30 0.41
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:46254953 original size:116 final size:115
Alignment explanation
Indices: 46254749--46254978 Score: 408
Period size: 116 Copynumber: 2.0 Consensus size: 115
46254739 CCTTTCTTGA
46254749 TCCGAATTAAGCTTCCAAATAGCCGAAACTTAGAACTCTTTATCTTTTCTTTTTGTTCTTCAATT
1 TCCGAATTAAGCTTCCAAATAGCCGAAACTTAGAACTCTTTATCTTTTCTTTTTGTTCTTCAATT
* *
46254814 TTCGGCACAAACAAAGAATAAAATGCCTATTTTCAAGTTTTGTTATATCAG
66 TTCGGCACAAACAAAGAATAAAATGACTATTTTCAAG-TTTCTTATATCAG
*
46254865 TCCGAATTAAGCTTCCAAATAGCCGAACCTTAGAACTCTTTATCTTTTCTTTTTGTTCTTCAATT
1 TCCGAATTAAGCTTCCAAATAGCCGAAACTTAGAACTCTTTATCTTTTCTTTTTGTTCTTCAATT
46254930 TTCGGCACAAACAAA-ACATAAAATGACTATTTTCAAGTTTCTTATATCA
66 TTCGGCACAAACAAAGA-ATAAAATGACTATTTTCAAGTTTCTTATATCA
46254979 TATATTAATT
Statistics
Matches: 110, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
115 12 0.11
116 98 0.89
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (115 bp):
TCCGAATTAAGCTTCCAAATAGCCGAAACTTAGAACTCTTTATCTTTTCTTTTTGTTCTTCAATT
TTCGGCACAAACAAAGAATAAAATGACTATTTTCAAGTTTCTTATATCAG
Found at i:46256181 original size:6 final size:6
Alignment explanation
Indices: 46256167--46256197 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
46256157 AGTATTAACT
*
46256167 TTTTAA TTTTGA TTTTGA TTTTGA TTTTGA T
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA T
46256198 AATTTTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:46256747 original size:19 final size:19
Alignment explanation
Indices: 46256695--46256731 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
46256685 TCAATAGTTG
46256695 AATTA-GAAA-AATATAAA
1 AATTATGAAATAATATAAA
46256712 AATTATGAAATAATATAAA
1 AATTATGAAATAATATAAA
46256731 A
1 A
46256732 CTATATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AATTATGAAATAATATAAA
Found at i:46261451 original size:24 final size:24
Alignment explanation
Indices: 46261424--46261471 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
46261414 GTTCAGGAAC
*
46261424 AAGCTCGTATATTGGCTAGTTTAT
1 AAGCTCGTATATTGACTAGTTTAT
* * *
46261448 AAGCTTGTTTATTGACTCGTTTAT
1 AAGCTCGTATATTGACTAGTTTAT
46261472 TTATTAATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (24 bp):
AAGCTCGTATATTGACTAGTTTAT
Found at i:46264512 original size:25 final size:26
Alignment explanation
Indices: 46264450--46264518 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
46264440 AGTTTAAGCA
*
46264450 AGCCA-ATATCAGGAAGCT-CTAGAG
1 AGCCATATATCAGGAAGCTCCGAGAG
* *
46264474 AGCC-TTTAAACAGGAAGCTCCGA-AG
1 AGCCATAT-ATCAGGAAGCTCCGAGAG
46264499 AGCCATATATCAGGAAGCTC
1 AGCCATATATCAGGAAGCTC
46264519 ATAGGAGCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
24 5 0.14
25 27 0.75
26 4 0.11
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
AGCCATATATCAGGAAGCTCCGAGAG
Found at i:46264526 original size:25 final size:24
Alignment explanation
Indices: 46264450--46264526 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 24
46264440 AGTTTAAGCA
46264450 AGCCA-ATATCAGGAAGCTCTAGAG
1 AGCCATATATCAGGAAGCTCTAG-G
* * * *
46264474 AGCC-TTTAAACAGGAAGCTCCGAAG
1 AGCCATAT-ATCAGGAAGCT-CTAGG
46264499 AGCCATATATCAGGAAGCTCATAGG
1 AGCCATATATCAGGAAGCTC-TAGG
46264524 AGC
1 AGC
46264527 TGCAGTGTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
24 6 0.15
25 30 0.75
26 4 0.10
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (24 bp):
AGCCATATATCAGGAAGCTCTAGG
Found at i:46268307 original size:13 final size:13
Alignment explanation
Indices: 46268289--46268314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46268279 TAATATTAGT
46268289 TTAATAATAATAA
1 TTAATAATAATAA
46268302 TTAATAATAATAA
1 TTAATAATAATAA
46268315 ACAAAACAAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAATAATAATAA
Found at i:46269749 original size:42 final size:42
Alignment explanation
Indices: 46269700--46269853 Score: 227
Period size: 42 Copynumber: 3.6 Consensus size: 42
46269690 TGAGATTACG
***
46269700 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
* *
46269742 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCCCA
* *
46269785 TGTAAGACCATATTTGGGATATGACATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
*
46269827 TATAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
46269854 TGGTATGGTA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 63 0.64
43 36 0.36
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
Found at i:46271604 original size:40 final size:40
Alignment explanation
Indices: 46271530--46271701 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 40
46271520 GATAACTGGA
* * * *
46271530 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGG
* * * * *
46271570 CTATGTCCTGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATATCCGGG
*
46271610 CTAAGACCCGAAGGCATTTGTGCAAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGG
*
46271650 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGG
46271689 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
46271702 ATACTTGGGT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 95 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGG
Found at i:46271663 original size:80 final size:79
Alignment explanation
Indices: 46271530--46271701 Score: 231
Period size: 80 Copynumber: 2.2 Consensus size: 79
46271520 GATAACTGGA
* * * * * *
46271530 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCTGAAGGCATTTATGCTA
1 CTAAGACCCGAAGGCATTCGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
46271595 G-TGATTATATCCGGG
66 GTTG-TTATATCC-GG
* *
46271610 CTAAGACCCGAAGGCATTTGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA
1 CTAAGACCCGAAGGCATTCGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
46271675 GTTGTTATATCCGG
66 GTTGTTATATCCGG
46271689 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
46271702 ATACTTGGGT
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.16
80 66 0.80
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
CTAAGACCCGAAGGCATTCGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
GTTGTTATATCCGG
Found at i:46279600 original size:40 final size:40
Alignment explanation
Indices: 46279505--46279680 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
46279495 CGGATGATAA
* * *
46279505 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
46279545 -CGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
46279584 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
46279624 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
46279664 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
46279681 ATACTTGGTT
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
38 3 0.03
39 41 0.35
40 72 0.61
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:46279670 original size:79 final size:78
Alignment explanation
Indices: 46279505--46279680 Score: 239
Period size: 79 Copynumber: 2.2 Consensus size: 78
46279495 CGGATGATAA
* * *
46279505 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCGGGCTATGTCCCGAAGGCATTTAT
1 CCGG-CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCGGGCTAAGACCCGAAGGCATTTAT
*
46279570 GCTAGTGATTATAT
65 GCGAGTGATTATAT
* *
46279584 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATAT-CGGGCTAAGACCCGAAGGCATTTA
46279649 TGCGAGTTG-TTATAT
64 TGCGAG-TGATTATAT
46279664 CCGGCTAA-ATCCCGAAG
1 CCGGCTAAGA-CCCGAAG
46279681 ATACTTGGTT
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
78 1 0.01
79 48 0.55
80 36 0.41
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCGGGCTAAGACCCGAAGGCATTTATG
CGAGTGATTATAT
Found at i:46279947 original size:22 final size:22
Alignment explanation
Indices: 46279907--46279948 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46279897 GAATGTGCAT
*
46279907 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
46279929 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
46279949 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:46283569 original size:60 final size:60
Alignment explanation
Indices: 46283503--46283621 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
46283493 ATAATTTAAA
*
46283503 AAGTTCTTGAAAGTTATTGGGCTTTAGAAATATTTATAAAAAAGATTTTAAAATTTTATT
1 AAGTTCTTGAAAGTTATTGGGCTTTAGAAATATTTATAAAAAAGATTTTAAAAATTTATT
46283563 AAGTTCTTGAAAGTTATTGGGCTTTAGAAATATTTATAAAAAAGATTTTAAAAATTTAT
1 AAGTTCTTGAAAGTTATTGGGCTTTAGAAATATTTATAAAAAAGATTTTAAAAATTTAT
46283622 CTAATAAAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.42
Consensus pattern (60 bp):
AAGTTCTTGAAAGTTATTGGGCTTTAGAAATATTTATAAAAAAGATTTTAAAAATTTATT
Found at i:46284115 original size:29 final size:28
Alignment explanation
Indices: 46284083--46284179 Score: 108
Period size: 29 Copynumber: 3.4 Consensus size: 28
46284073 ATTGATATTT
46284083 TTTATATAAAAATTATTAAAATGATAAAA
1 TTTATATAAAAATTATTAAAAT-ATAAAA
*
46284112 TTTATA-AAAAA-TATTAAAATTTAAAAA
1 TTTATATAAAAATTATTAAAATAT-AAAA
**
46284139 TTTATATAAAAAATTACAAAAATATAAAA
1 TTTATAT-AAAAATTATTAAAATATAAAA
* *
46284168 ATTATAGAAAAA
1 TTTATATAAAAA
46284180 GAATATTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
26 1 0.02
27 19 0.33
28 10 0.17
29 20 0.34
30 8 0.14
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (28 bp):
TTTATATAAAAATTATTAAAATATAAAA
Found at i:46284126 original size:27 final size:27
Alignment explanation
Indices: 46284087--46284200 Score: 99
Period size: 27 Copynumber: 4.0 Consensus size: 27
46284077 ATATTTTTTA
*
46284087 TATAAAAATTATTAAAATGAT-AAAATT
1 TATAAAAAATATTAAAAT-ATAAAAATT
*
46284114 TATAAAAAATATTAAAATTTAAAAATT
1 TATAAAAAATATTAAAATATAAAAATT
46284141 TATATAAAAA-ATTACAAAAATATAAAAATT
1 TATA-AAAAATATT---AAAATATAAAAATT
*
46284171 ATAGAAAAAGAATATTAAAATA-ACAAAATT
1 -TA-TAAAA-AATATTAAAATATA-AAAATT
46284201 AGAAAATAGT
Statistics
Matches: 73, Mismatches: 4, Indels: 17
0.78 0.04 0.18
Matches are distributed among these distances:
26 1 0.01
27 30 0.41
28 5 0.07
29 1 0.01
30 25 0.34
31 5 0.07
32 3 0.04
33 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (27 bp):
TATAAAAAATATTAAAATATAAAAATT
Found at i:46284178 original size:10 final size:9
Alignment explanation
Indices: 46284087--46284178 Score: 71
Period size: 9 Copynumber: 9.9 Consensus size: 9
46284077 ATATTTTTTA
46284087 TATAAAAAT
1 TATAAAAAT
*
46284096 TATTAAAAT
1 TATAAAAAT
* *
46284105 GATAAAATT
1 TATAAAAAT
*
46284114 TATAAAAAA
1 TATAAAAAT
*
46284123 TATTAAAAT
1 TATAAAAAT
46284132 T-TAAAAATTT
1 TATAAAAA--T
46284142 ATATAAAAAAT
1 -TAT-AAAAAT
*
46284153 TACAAAAA-
1 TATAAAAAT
46284161 TATAAAAAT
1 TATAAAAAT
46284170 TATAGAAAA
1 TATA-AAAA
46284179 AGAATATTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
8 12 0.19
9 37 0.58
10 7 0.11
11 2 0.03
12 1 0.02
13 5 0.08
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:46284191 original size:30 final size:28
Alignment explanation
Indices: 46284084--46284206 Score: 99
Period size: 30 Copynumber: 4.3 Consensus size: 28
46284074 TTGATATTTT
* *
46284084 TTATATAAAAATTATTAAAATGAT-AAAA
1 TTATAAAAAAAATATTAAAAT-ATAAAAA
* *
46284112 TT-TATAAAAAATATTAAAATTTAAAAA
1 TTATAAAAAAAATATTAAAATATAAAAA
* **
46284139 TTTATATAAAAAATTACAAAAATATAAAAA
1 -TTATA-AAAAAAATATTAAAATATAAAAA
46284169 TTATAGAAAAAGAATATTAAAATA-ACAAAA
1 TTATA-AAAAA-AATATTAAAATATA-AAAA
*
46284199 TTAGAAAA
1 TTATAAAA
46284207 TAGTATAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.01
27 21 0.27
28 4 0.05
29 16 0.21
30 35 0.45
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (28 bp):
TTATAAAAAAAATATTAAAATATAAAAA
Found at i:46284609 original size:27 final size:25
Alignment explanation
Indices: 46284572--46284630 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
46284562 AAAATTGTAA
* *
46284572 ATATTTTAAATTTTATATAAATTTT
1 ATATTTTAAATTCTAAATAAATTTT
*
46284597 ATTATTTTAAAATTCTAAATAATTTTT
1 A-TATTTT-AAATTCTAAATAAATTTT
46284624 ATATTTT
1 ATATTTT
46284631 CTATTATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 12 0.41
27 16 0.55
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
ATATTTTAAATTCTAAATAAATTTT
Found at i:46284620 original size:26 final size:26
Alignment explanation
Indices: 46284572--46284630 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
46284562 AAAATTGTAA
* *
46284572 ATATTTTAAATTTTATATAAA-TTTT
1 ATATTTTAAATTCTAAATAAATTTTT
46284597 ATTATTTTAAAATTCTAAAT-AATTTTT
1 A-TATTTT-AAATTCTAAATAAATTTTT
46284624 ATATTTT
1 ATATTTT
46284631 CTATTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 1 0.03
26 14 0.48
27 14 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
ATATTTTAAATTCTAAATAAATTTTT
Found at i:46284652 original size:21 final size:21
Alignment explanation
Indices: 46284615--46284654 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46284605 AAAATTCTAA
*
46284615 ATAATTTTTATATTTTCTATT
1 ATAATTTTTATACTTTCTATT
46284636 ATAA-TTTTATGACTTTCTA
1 ATAATTTTTAT-ACTTTCTA
46284655 ATGATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (21 bp):
ATAATTTTTATACTTTCTATT
Found at i:46293129 original size:9 final size:9
Alignment explanation
Indices: 46293115--46293139 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
46293105 TTAGTGTTCA
46293115 AATTGATAG
1 AATTGATAG
46293124 AATTGATAG
1 AATTGATAG
46293133 AATTGAT
1 AATTGAT
46293140 TAAAAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (9 bp):
AATTGATAG
Found at i:46299799 original size:30 final size:30
Alignment explanation
Indices: 46299763--46300050 Score: 151
Period size: 30 Copynumber: 9.7 Consensus size: 30
46299753 GGTTGTTTCC
*
46299763 ATCCCTTTCCATAGTTCGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
* * * *
46299793 ATCCCTTTTCATAGTTCGATGGTCGCCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCG-AAGCT
* * ** * *
46299823 ATCCCTTTTCATTGTT-GATGGTTGCCATC-
1 ATCCCTTTTCATAGTTCGATAGCCG-AAGCT
* * * * *
46299852 ATCCCTTTTCATAATTAGATAACCAAAACT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
* ** *
46299882 ATCCTTTTTCATTTTTCGATAACCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
* *
46299912 ATCCTTTTTAATAGTTCGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
* * * * *
46299942 ATCCCTTTTCATAATTCAATGGTC-ATCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCGA--AGCT
* * * * * *
46299972 ATCCTTTTTCATTGTT-GATGGTCGTCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCG-AAGCT
* *
46300001 ATCCCTTTTCATATTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCT
46300031 ATCCCTTTTCACTAG-TCGAT
1 ATCCCTTTTCA-TAGTTCGAT
46300051 GATCGTCGAT
Statistics
Matches: 200, Mismatches: 47, Indels: 22
0.74 0.17 0.08
Matches are distributed among these distances:
29 50 0.25
30 146 0.73
31 4 0.02
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATAGCCGAAGCT
Found at i:46299979 original size:29 final size:29
Alignment explanation
Indices: 46299942--46300013 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
46299932 AGCCGAAGCT
46299942 ATCCCTTTTCATAATTCAATGGTCATCACC
1 ATCCCTTTTCATAATT-AATGGTCATCACC
* ** * *
46299972 ATCCTTTTTCATTGTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTAATGGTCATCACC
46300001 ATCCCTTTTCATA
1 ATCCCTTTTCATA
46300014 TTTTGATAGC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 22 0.63
30 13 0.37
ACGTcount: A:0.21, C:0.28, G:0.10, T:0.42
Consensus pattern (29 bp):
ATCCCTTTTCATAATTAATGGTCATCACC
Found at i:46300050 original size:149 final size:149
Alignment explanation
Indices: 46299773--46300050 Score: 403
Period size: 149 Copynumber: 1.9 Consensus size: 149
46299763 ATCCCTTTCC
* * *
46299773 ATAGTTCGATAGCCGAAGCTATCCCTTTTCATAGTTCGATGGTCGCCACCATCCCTTTTCATTGT
1 ATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCACCACCATCCCTTTTCATTGT
* * * * **
46299838 TGATGGTTGCCATCATCCCTTTTCATAATTAGATAACCAAAACTATCCTTTTTCATTTTTCGATA
66 TGATGGTCGCCACCATCCCTTTTCATAATTAGATAACCAAAACTATCCCTTTTCACTAGTCGATA
46299903 ACCGAAGCTATCCTTTTTA
131 ACCGAAGCTATCCTTTTTA
* *
46299922 ATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCATCACCATCCTTTTTCATTGT
1 ATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCACCACCATCCCTTTTCATTGT
* * * * * *
46299987 TGATGGTCGTCACCATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCACTAGTCGAT
66 TGATGGTCGCCACCATCCCTTTTCATAATTAGATAACCAAAACTATCCCTTTTCACTAGTCGAT
46300051 GATCGTCGAT
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
149 112 1.00
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.38
Consensus pattern (149 bp):
ATAGTTCGATAGCCGAAGCTATCCCTTTTCATAATTCAATGGTCACCACCATCCCTTTTCATTGT
TGATGGTCGCCACCATCCCTTTTCATAATTAGATAACCAAAACTATCCCTTTTCACTAGTCGATA
ACCGAAGCTATCCTTTTTA
Found at i:46301414 original size:21 final size:20
Alignment explanation
Indices: 46301383--46301422 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
46301373 CTCATGAAAC
46301383 AGGGCACACGC-CTGTGTGGA
1 AGGGCACACGCTC-GTGTGGA
46301403 AGGGCAACACGCTCGTGTGG
1 AGGGC-ACACGCTCGTGTGG
46301423 TCATTCTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 12 0.67
22 1 0.06
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCTCGTGTGGA
Found at i:46308435 original size:45 final size:44
Alignment explanation
Indices: 46308370--46308498 Score: 185
Period size: 45 Copynumber: 2.9 Consensus size: 44
46308360 TCGTACAGTA
46308370 ATATTCGGGCCTTTCAGCCTAGCAGGCTACAATGCCGGTGAAAT-
1 ATATTCGGGCC-TTCAGCCTAGCAGGCTACAATGCCGGTGAAATG
46308414 ACTATTCGGGCCTTCGAGCCTAGCAGGCTACAATGCCGGTGAAATG
1 A-TATTCGGGCCTTC-AGCCTAGCAGGCTACAATGCCGGTGAAATG
*
46308460 ATA-TCGGG-CTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 ATATTCGGGCCTTC-AGCCTAGCAGGCTACAATGCCGGTGAA
46308499 TGAACTCGGG
Statistics
Matches: 80, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
42 12 0.15
43 17 0.21
44 9 0.11
45 41 0.51
46 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (44 bp):
ATATTCGGGCCTTCAGCCTAGCAGGCTACAATGCCGGTGAAATG
Found at i:46308520 original size:41 final size:41
Alignment explanation
Indices: 46308387--46308538 Score: 146
Period size: 41 Copynumber: 3.6 Consensus size: 41
46308377 GGCCTTTCAG
** *
46308387 CCTAGCAGGCTACAATGCCGGTGAAAT-ACTATTCGGGCCTTCGAG
1 CCTAGCAGGCTA-AATGCCGGTG-AATGA-TA-TCGGG-CTTAAAA
* *
46308432 CCTAGCAGGCTACAATGCCGGTGAAATGATATCGGGCTTCAAG
1 CCTAGCAGGCTA-AATGCCGGTG-AATGATATCGGGCTTAAAA
* *
46308475 CCTAGCAGGCGAAATGCCGGTGAATGA-ACTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAATGATA-TCGGGCTTAAAA
*
46308516 CCTAGTAGGCTAAATGCCGGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
46308539 TTTGATTTAA
Statistics
Matches: 98, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
40 1 0.01
41 35 0.36
42 10 0.10
43 17 0.17
44 5 0.05
45 29 0.30
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (41 bp):
CCTAGCAGGCTAAATGCCGGTGAATGATATCGGGCTTAAAA
Found at i:46309046 original size:16 final size:18
Alignment explanation
Indices: 46309015--46309047 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
46309005 AACTCGTCAC
46309015 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
46309033 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
46309048 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:46313572 original size:49 final size:49
Alignment explanation
Indices: 46313483--46313614 Score: 165
Period size: 49 Copynumber: 2.7 Consensus size: 49
46313473 GGGTTAAGAC
* * * *
46313483 GCCGGTGCCATGTCCCGGACACGGTCTTACACTAGCTTTCATATAGCGAG
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGATTTCATATAGCGAG
* * * *
46313533 GCCGATGCCATGTCCCAGACAAGTCTTACACTGGATTTCATCTATCGAT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGATTTCATATAGCGAG
* *
46313582 GTCGATGCCATGTCCTAGACAGGTCTTACACTG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTG
46313615 ACACACAACA
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 52 0.73
50 19 0.27
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGATTTCATATAGCGAG
Found at i:46313746 original size:46 final size:46
Alignment explanation
Indices: 46313674--46313798 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
46313664 TATATCGCGG
* * * *
46313674 GGCCGATGCATGTCCCAGATAGGTCTTACACTACCTCTCGTCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTACCTCTCATAT-AAT
* * **
46313721 -GCCGATGCATGTCCGAGACATGTCTTACACTAGCTCTCATATTGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTACCTCTCATATAAT
**
46313766 GGCTAATGCATGTCCCAGACATGTCTTACACTA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTA
46313799 GCACACATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
45 1 0.02
46 65 0.98
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTACCTCTCATATAAT
Found at i:46320651 original size:46 final size:44
Alignment explanation
Indices: 46320579--46320803 Score: 150
Period size: 46 Copynumber: 4.8 Consensus size: 44
46320569 GGTTAATTGA
* * *
46320579 GTGCTAGTGTAAGATATGTCTGGGACATGCATCGGCCT-CGAGAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGAT
* *
46320623 GTAAGCCAGTGTATGACATGTCTGGGACATGTATCGGCTACAAGAT
1 GT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGAT
* * * * *
46320669 GTGTCAGTGTAAGACCATGTCTGGGACATGGCTTCAGC-ACGGATAT
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-AAGAT
* ** *
46320715 GTGAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTA-ATGGAT
1 GT----GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACA-AGAT
*
46320766 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
46320804 ATTATACCTT
Statistics
Matches: 147, Mismatches: 21, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
44 12 0.08
45 18 0.12
46 46 0.31
47 33 0.22
50 34 0.23
51 3 0.02
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGAT
Found at i:46320735 original size:50 final size:47
Alignment explanation
Indices: 46320666--46320800 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 47
46320656 TCGGCTACAA
* *
46320666 GATGTGTCAGTGTAAGACCATGTCTGGGACATGGCTTCAGCACGGATATG
1 GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCA--ACGGA-ATG
**
46320716 TGA-GAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTAATG
1 -GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACGGAATG
*
46320763 GATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
46320801 GGCATTATAC
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
46 2 0.03
47 37 0.47
48 3 0.04
50 34 0.44
51 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACGGAATG
Found at i:46340135 original size:42 final size:41
Alignment explanation
Indices: 46340082--46340195 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 41
46340072 CAATATCAAT
* * *
46340082 GCCTCTGTCCCAGACAGGGTCTTACACGAAA-TCAGATACGAT
1 GCCTGTGTCCCAGACATGGTCTTACACGAAACTCA-AT-CGAA
* *
46340124 G-CTGATGTCCCAGACATGGTCTTATACGTAAATCTCAATTGAA
1 GCCTG-TGTCCCAGACATGGTCTTACACG-AAA-CTCAATCGAA
46340167 GCCTGTGTCCCAGACATGGTCTTACACGA
1 GCCTGTGTCCCAGACATGGTCTTACACGA
46340196 TGTCTCAGAC
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
41 2 0.03
42 23 0.38
43 28 0.46
44 5 0.08
45 3 0.05
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (41 bp):
GCCTGTGTCCCAGACATGGTCTTACACGAAACTCAATCGAA
Found at i:46343082 original size:28 final size:28
Alignment explanation
Indices: 46343027--46343082 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
46343017 ACAGGGTTTT
* *
46343027 TCACACGGCTTGACACATGCCCGTGTCCC
1 TCACACGGCATGACACA-GCCCATGTCCC
46343056 TCACACGGCCATGACAC-GCCCATGTCC
1 TCACACGG-CATGACACAGCCCATGTCC
46343083 TAGCCCGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 8 0.33
30 7 0.29
ACGTcount: A:0.20, C:0.43, G:0.20, T:0.18
Consensus pattern (28 bp):
TCACACGGCATGACACAGCCCATGTCCC
Found at i:46345801 original size:46 final size:45
Alignment explanation
Indices: 46345734--46345902 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
46345724 CGCCCCTAAG
* *
46345734 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTT-GCATCCATAAA
* * *
46345780 TGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCG---GAC--GTTGCATCCATAAA
* * *
46345827 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTGCATCCATAAA
46345873 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
46345903 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 1 0.01
46 56 0.54
47 28 0.27
48 1 0.01
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCATCCATAAA
Found at i:46345850 original size:93 final size:93
Alignment explanation
Indices: 46345735--46345905 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
46345725 GCCCCTAAGT
* *
46345735 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
46345800 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* * *
46345828 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
46345893 CGAGTTCGGATGC
66 CGAGTTCGAATGC
46345906 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:46352732 original size:20 final size:20
Alignment explanation
Indices: 46352707--46352758 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
46352697 TTTAAGAGCC
46352707 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
46352727 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
46352747 ACACGCCCGTGT
1 ACACGCCCGTGT
46352759 AGGTAGGCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.12, C:0.33, G:0.37, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:46354065 original size:41 final size:42
Alignment explanation
Indices: 46353896--46354098 Score: 221
Period size: 42 Copynumber: 4.8 Consensus size: 42
46353886 TACCATACCA
* * *
46353896 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAG-TCTCATATCG
* * * *
46353938 ATGCCAACAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
** *
46353981 ATGCCATATCTTAGATATGGTCTTACACGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * *
46354023 ATGCCATATCCCAAATATGGTCTTA-TCGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * * *
46354064 ATGCTATATCCCAGTTATGGTCCTACATGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
46354099 TAGTAACCCT
Statistics
Matches: 135, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
41 36 0.27
42 64 0.47
43 34 0.25
44 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
Found at i:46354083 original size:83 final size:85
Alignment explanation
Indices: 46353896--46354098 Score: 232
Period size: 83 Copynumber: 2.4 Consensus size: 85
46353886 TACCATACCA
* * **
46353896 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCGTATCGATGCCAACAGCCCAGCTATGGT
1 ATGCCATATCCCAGATATGGTCTTACATGTAG-TCTCATATCGATGCCAACAGCCCAAATATGGT
46353960 CTTACACGAAGTCTCATATCG
65 CTTACACGAAGTCTCATATCG
** * * * *
46353981 ATGCCATATCTTAGATATGGTCTTACACGTAGTCTCATATTGATGCC-ATATCCCAAATATGGTC
1 ATGCCATATCCCAGATATGGTCTTACATGTAGTCTCATATCGATGCCAACAGCCCAAATATGGTC
* * *
46354045 TTA-TCGTAGTCTCATATTG
66 TTACACGAAGTCTCATATCG
* * *
46354064 ATGCTATATCCCAGTTATGGTCCTACATGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACATGTAGTCT
46354099 TAGTAACCCT
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
83 42 0.43
84 16 0.16
85 39 0.40
86 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (85 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAGTCTCATATCGATGCCAACAGCCCAAATATGGTC
TTACACGAAGTCTCATATCG
Found at i:46361097 original size:43 final size:43
Alignment explanation
Indices: 46361005--46361171 Score: 155
Period size: 43 Copynumber: 3.9 Consensus size: 43
46360995 ATTAACGAGT
** * * *
46361005 TGTGATTATATGTAAGACCATGTCTGGGAAATTGGCACCATTA
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTA
46361048 TGTGATTACGTGTAAGACCATGTCTGGGACATT-GCAATCGTTA
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGC-ATCGTTA
* * * *
46361091 TTTGATTTCGTGTGAGACCATAGT-TGGG-CTATTGGCATCGATA
1 TGTGATTACGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCGTTA
* *
46361134 TGTGATATAACATGTAAGACCATATCTGGGA-A-TGGCAT
1 TGTGAT-T-ACGTGTAAGACCATGTCTGGGACATTGGCAT
46361172 TGTATGAGCA
Statistics
Matches: 102, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
42 3 0.03
43 77 0.75
44 7 0.07
45 15 0.15
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTA
Found at i:46363236 original size:18 final size:18
Alignment explanation
Indices: 46363213--46363251 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
46363203 AACCCTAGGT
46363213 AAGAGAAAAGAAACTTTC
1 AAGAGAAAAGAAACTTTC
46363231 AAGAGAAAAGAAACTTTC
1 AAGAGAAAAGAAACTTTC
46363249 AAG
1 AAG
46363252 GCCTAATTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.10, G:0.18, T:0.15
Consensus pattern (18 bp):
AAGAGAAAAGAAACTTTC
Found at i:46376817 original size:27 final size:27
Alignment explanation
Indices: 46376779--46376870 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
46376769 TAAGATCCCA
46376779 ATTTGTAAAATTATCGAAATACCCCTG
1 ATTTGTAAAATTATCGAAATACCCCTG
* * *
46376806 ATTTGTGAAATTATCAAAATACCCCTA
1 ATTTGTAAAATTATCGAAATACCCCTG
*
46376833 ATTTGTAAAATTATCGAAATACCCCCG
1 ATTTGTAAAATTATCGAAATACCCCTG
*
46376860 ATTTATAAAAT
1 ATTTGTAAAAT
46376871 GACTATAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (27 bp):
ATTTGTAAAATTATCGAAATACCCCTG
Found at i:46376895 original size:27 final size:27
Alignment explanation
Indices: 46376865--46377062 Score: 184
Period size: 27 Copynumber: 7.3 Consensus size: 27
46376855 CCCCGATTTA
** *
46376865 TAAAATGACTATAATTA-CCCTGTAGCG
1 TAAAATGACCGTAA-TACCCCTGTAGGG
* * *
46376892 TAAAATGGCTGTAATACCCCTATAGGG
1 TAAAATGACCGTAATACCCCTGTAGGG
* *
46376919 TAAAATAACCGTATTACCCCTGTAGGG
1 TAAAATGACCGTAATACCCCTGTAGGG
46376946 TAAAATGACCGTAATACCCCTGTAGGG
1 TAAAATGACCGTAATACCCCTGTAGGG
* *
46376973 TAAAATGACCAG-AATACCCTTATAGGG
1 TAAAATGACC-GTAATACCCCTGTAGGG
** * *
46377000 TAGGATTACCGTAATACCCCTATAGGG
1 TAAAATGACCGTAATACCCCTGTAGGG
* * ** **
46377027 TAAAATAATCGTAATACCATTGTTTGG
1 TAAAATGACCGTAATACCCCTGTAGGG
46377054 TAAAATGAC
1 TAAAATGAC
46377063 GATTATGCCC
Statistics
Matches: 140, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
26 3 0.02
27 136 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCCTGTAGGG
Found at i:46376950 original size:81 final size:81
Alignment explanation
Indices: 46376865--46377032 Score: 205
Period size: 81 Copynumber: 2.1 Consensus size: 81
46376855 CCCCGATTTA
* * *
46376865 TAAAATGACTATAATTA-CCCTGTAGCGTAAAATG-GCTGTAATACCCCTATAGGGTAAAATAAC
1 TAAAATGACCATAA-TACCCCTGTAGCGTAAAATGACCAG-AATACCCCTATAGGGTAAAATAAC
* *
46376928 CGTATTACCCCTGTAGGG
64 CGTAATACCCCTATAGGG
* * * ** *
46376946 TAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCAGAATACCCTTATAGGGTAGGATTACCG
1 TAAAATGACCATAATACCCCTGTAGCGTAAAATGACCAGAATACCCCTATAGGGTAAAATAACCG
46377011 TAATACCCCTATAGGG
66 TAATACCCCTATAGGG
46377027 TAAAAT
1 TAAAAT
46377033 AATCGTAATA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
80 2 0.03
81 70 0.95
82 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (81 bp):
TAAAATGACCATAATACCCCTGTAGCGTAAAATGACCAGAATACCCCTATAGGGTAAAATAACCG
TAATACCCCTATAGGG
Found at i:46377040 original size:81 final size:82
Alignment explanation
Indices: 46376882--46377062 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 82
46376872 ACTATAATTA
* * * * *
46376882 CCCTGTAGCGTAAAATG-GCTGTAATACCCCTATAGGGTAAAATAACCGTATTACCCCTGTAGGG
1 CCCTGTAGGGTAAAATGACCAGTAATACCCCTATAGGGTAAAATAACCGTAATACCCCTATAGGG
*
46376946 TAAAATGACCGTAATAC
66 TAAAATAACCGTAATAC
* ** *
46376963 CCCTGTAGGGTAAAATGACCAG-AATACCCTTATAGGGTAGGATTACCGTAATACCCCTATAGGG
1 CCCTGTAGGGTAAAATGACCAGTAATACCCCTATAGGGTAAAATAACCGTAATACCCCTATAGGG
*
46377027 TAAAATAATCGTAATAC
66 TAAAATAACCGTAATAC
** **
46377044 CATTGTTTGGTAAAATGAC
1 CCCTGTAGGGTAAAATGAC
46377063 GATTATGCCC
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 82 0.98
82 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (82 bp):
CCCTGTAGGGTAAAATGACCAGTAATACCCCTATAGGGTAAAATAACCGTAATACCCCTATAGGG
TAAAATAACCGTAATAC
Done.