Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 64 of 235
Found at i:21903690 original size:45 final size:45
Alignment explanation
Indices: 21903639--21903729 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
21903629 ATTAATGTGA
21903639 TCATTAATTTAGTGTAAATATTTTTTTATTTACTTTCTTATATAG
1 TCATTAATTTAGTGTAAATATTTTTTTATTTACTTTCTTATATAG
21903684 TCATTAATTTAGTGTAAATATTTTTTTATTTACTTTCTTATATAG
1 TCATTAATTTAGTGTAAATATTTTTTTATTTACTTTCTTATATAG
21903729 T
1 T
21903730 TTCAAATTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (45 bp):
TCATTAATTTAGTGTAAATATTTTTTTATTTACTTTCTTATATAG
Found at i:21903912 original size:23 final size:21
Alignment explanation
Indices: 21903882--21903929 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
21903872 TTATCATCAC
*
21903882 AAATATATATATTAAAATTATAA
1 AAATATAT-TATT-AAATAATAA
*
21903905 AAATATATTATTTAATAATAA
1 AAATATATTATTAAATAATAA
21903926 AAAT
1 AAAT
21903930 TGTATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 4 0.17
23 8 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATATATTATTAAATAATAA
Found at i:21921191 original size:46 final size:46
Alignment explanation
Indices: 21921138--21921232 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
21921128 GTATACTGAG
21921138 AAATAGGAGGAGGTGGGGGAGGTGGAGTGTTCGGATTCACACGAAC
1 AAATAGGAGGAGGTGGGGGAGGTGGAGTGTTCGGATTCACACGAAC
21921184 AAATAGGAGGAGGTGGGGGAGGTGGAGTGTTCGGATTCACACGAAC
1 AAATAGGAGGAGGTGGGGGAGGTGGAGTGTTCGGATTCACACGAAC
21921230 AAA
1 AAA
21921233 CTCTGTGTAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.31, C:0.11, G:0.42, T:0.17
Consensus pattern (46 bp):
AAATAGGAGGAGGTGGGGGAGGTGGAGTGTTCGGATTCACACGAAC
Found at i:21922995 original size:47 final size:47
Alignment explanation
Indices: 21922919--21923422 Score: 341
Period size: 47 Copynumber: 10.8 Consensus size: 47
21922909 TGGGTAAGGT
* *
21922919 GTCGATGCCATGTCCCAGACATGGCCTTACACTGGCTCATATCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAA
* ** * *
21922966 GTTGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-GTCTC-AA
* * * * *
21923014 GCCGATG-TATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTC-AA
* **
21923060 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACTC-TCGTCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-GTCTCAA
* * *
21923105 TGTTGATACCATGTCCCAGACATGGTATTACACTGGCTC---TCAT-AA
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTC-TCAA
* **
21923150 GGTGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG---ATGGGT-AA
1 -GT---CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAA
* *
21923195 GGTGTCGATGCCATGTCCCAGACATGGCCTTACACTGGCTCATATCTCAA
1 ---GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAA
* ** * *
21923245 GTTGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-GTCTC-AA
* * * * *
21923293 GCCGATG-TATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTC-AA
* **
21923339 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACTC-TCGTCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-GTCTCAA
* * *
21923384 TGTTGATACCATGTCCCAGACATGGTATTACACTGGCTC
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
21923423 TCATAAGGTG
Statistics
Matches: 363, Mismatches: 65, Indels: 57
0.75 0.13 0.12
Matches are distributed among these distances:
44 5 0.01
45 25 0.07
46 141 0.39
47 148 0.41
48 39 0.11
49 3 0.01
50 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAA
Found at i:21923170 original size:94 final size:94
Alignment explanation
Indices: 21922969--21923464 Score: 443
Period size: 94 Copynumber: 5.3 Consensus size: 94
21922959 ATCTCAAGTT
* * * * **
21922969 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCTC-GTAGCCGAT-GTATGTCCCAGA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAACTCTCGTCTCAAT-GTCGATACCATGTCCCAGA
* * *** *
21923032 CAT-GTCTTACACTGGCT-TACGTCTCGAGGCC
63 CATGGTATTACACTGGCTCT-CATAAGGTGGCC
*
21923063 GATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTCAATGTTGATACCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTCAATGTCGATACCATGTCCCAGACAT
21923128 GGTATTACACTGGCTCTCATAAGGTGGCC
66 GGTATTACACTGGCTCTCATAAGGTGGCC
** *
21923157 GATGCATGTCCCAGACATGTCTTACACTAGA---T-GGGT-AAGGTGTCGATGCCATGTCCCAGA
1 GATGCATGTCCCAGACATGTCTTACACTA-ACTCTCGTCTCAA--TGTCGATACCATGTCCCAGA
** *
21923217 CATGGCCTTACACTGGCTCAT-ATCTCAA-GT---T
63 CATGGTATTACACTGGCTC-TCA--T-AAGGTGGCC
* * * * **
21923248 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCTC-GTAGCCGAT-GTATGTCCCAGA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAACTCTCGTCTCAAT-GTCGATACCATGTCCCAGA
* * *** *
21923311 CAT-GTCTTACACTGGCT-TACGTCTCGAGGCC
63 CATGGTATTACACTGGCTCT-CATAAGGTGGCC
*
21923342 GATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTCAATGTTGATACCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTCAATGTCGATACCATGTCCCAGACAT
21923407 GGTATTACACTGGCTCTCATAAGGTGGCC
66 GGTATTACACTGGCTCTCATAAGGTGGCC
21923436 GATGCATGTCCCAGACATGTCTTACACTA
1 GATGCATGTCCCAGACATGTCTTACACTA
21923465 GCTCACACAC
Statistics
Matches: 327, Mismatches: 46, Indels: 58
0.76 0.11 0.13
Matches are distributed among these distances:
90 2 0.01
91 9 0.03
92 100 0.31
93 81 0.25
94 123 0.38
95 11 0.03
96 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTCAATGTCGATACCATGTCCCAGACAT
GGTATTACACTGGCTCTCATAAGGTGGCC
Found at i:21923179 original size:140 final size:141
Alignment explanation
Indices: 21922921--21923463 Score: 663
Period size: 140 Copynumber: 3.9 Consensus size: 141
21922911 GGTAAGGTGT
** *
21922921 CGATGCCATGTCCCAGACATGGCCTTACACTGGCTCATATCTCAAGTTGATGCCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGCCTTACACTAACTCATATCTCAAGTTGATACCATGTCCCAGAC
* ** *
21922986 ATGGTCTTACACTAACTATCATCTCGTAGCCGATGTATGTCCCAGACATGTCTTACACTGGCTTA
66 ATGGTATTACACTAACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA
21923051 CGTCTCGAGGC
131 CGTCTCGAGGC
* *
21923062 CGATG-CATGTCCCAGACAT-GTCTTACACTAACTC-TCGTCTCAATGTTGATACCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGCCTTACACTAACTCAT-ATCTCAA-GTTGATACCATGTCCCAG
** * * * * *
21923124 ACATGGTATTACACTGGCTCTCATAAGGTGGCCGATGCATGTCCCAGACATGTCTTACACTAG-A
64 ACATGGTATTACACTAACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
** ** *
21923188 TGGGT-AAG-GTGT
129 TACGTCTCGAG-GC
** *
21923200 CGATGCCATGTCCCAGACATGGCCTTACACTGGCTCATATCTCAAGTTGATGCCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGCCTTACACTAACTCATATCTCAAGTTGATACCATGTCCCAGAC
* ** *
21923265 ATGGTCTTACACTAACTATCATCTCGTAGCCGATGTATGTCCCAGACATGTCTTACACTGGCTTA
66 ATGGTATTACACTAACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA
21923330 CGTCTCGAGGC
131 CGTCTCGAGGC
* *
21923341 CGATG-CATGTCCCAGACAT-GTCTTACACTAACTC-TCGTCTCAATGTTGATACCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGCCTTACACTAACTCAT-ATCTCAA-GTTGATACCATGTCCCAG
** * * *
21923403 ACATGGTATTACACTGGCTCTCATAAGGTGGCCGATGCATGTCCCAGACATGTCTTACACT
64 ACATGGTATTACACTAACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACT
21923464 AGCTCACACA
Statistics
Matches: 335, Mismatches: 56, Indels: 23
0.81 0.14 0.06
Matches are distributed among these distances:
137 1 0.00
138 9 0.03
139 123 0.37
140 188 0.56
141 13 0.04
142 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (141 bp):
CGATGCCATGTCCCAGACATGGCCTTACACTAACTCATATCTCAAGTTGATACCATGTCCCAGAC
ATGGTATTACACTAACTATCATAACGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA
CGTCTCGAGGC
Found at i:21923408 original size:279 final size:279
Alignment explanation
Indices: 21922908--21923465 Score: 1116
Period size: 279 Copynumber: 2.0 Consensus size: 279
21922898 AGCCTCAGAC
21922908 ATGGGTAAGGTGTCGATGCCATGTCCCAGACATGGCCTTACACTGGCTCATATCTCAAGTTGATG
1 ATGGGTAAGGTGTCGATGCCATGTCCCAGACATGGCCTTACACTGGCTCATATCTCAAGTTGATG
21922973 CCATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTAGCCGATGTATGTCCCAGACATGTC
66 CCATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTAGCCGATGTATGTCCCAGACATGTC
21923038 TTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTC
131 TTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTC
21923103 AATGTTGATACCATGTCCCAGACATGGTATTACACTGGCTCTCATAAGGTGGCCGATGCATGTCC
196 AATGTTGATACCATGTCCCAGACATGGTATTACACTGGCTCTCATAAGGTGGCCGATGCATGTCC
21923168 CAGACATGTCTTACACTAG
261 CAGACATGTCTTACACTAG
21923187 ATGGGTAAGGTGTCGATGCCATGTCCCAGACATGGCCTTACACTGGCTCATATCTCAAGTTGATG
1 ATGGGTAAGGTGTCGATGCCATGTCCCAGACATGGCCTTACACTGGCTCATATCTCAAGTTGATG
21923252 CCATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTAGCCGATGTATGTCCCAGACATGTC
66 CCATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTAGCCGATGTATGTCCCAGACATGTC
21923317 TTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTC
131 TTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTC
21923382 AATGTTGATACCATGTCCCAGACATGGTATTACACTGGCTCTCATAAGGTGGCCGATGCATGTCC
196 AATGTTGATACCATGTCCCAGACATGGTATTACACTGGCTCTCATAAGGTGGCCGATGCATGTCC
21923447 CAGACATGTCTTACACTAG
261 CAGACATGTCTTACACTAG
21923466 CTCACACACA
Statistics
Matches: 279, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
279 279 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (279 bp):
ATGGGTAAGGTGTCGATGCCATGTCCCAGACATGGCCTTACACTGGCTCATATCTCAAGTTGATG
CCATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTAGCCGATGTATGTCCCAGACATGTC
TTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTC
AATGTTGATACCATGTCCCAGACATGGTATTACACTGGCTCTCATAAGGTGGCCGATGCATGTCC
CAGACATGTCTTACACTAG
Found at i:21923444 original size:47 final size:45
Alignment explanation
Indices: 21922969--21923468 Score: 265
Period size: 46 Copynumber: 10.7 Consensus size: 45
21922959 ATCTCAAGTT
* * ***
21922969 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAAGGT-GCC
* * *
21923017 GATGTATGTCCCAGACATGTCTTACACTGGCTTACGTC-T-CGAG-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-T-C-TCATAAG-GTGCC
* * **
21923063 GATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTCAA--TGTT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGGTGCC
* * *
21923109 GATACCATGTCCCAGACATGGTATTACACTGGCTCTCATAAGGTGGCC
1 GAT-GCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAAGGT-GCC
* *** *
21923157 GATGCATGTCCCAGACATGTCTTACACTAGAT-GGGTAAGGTGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGGTGCC
* * *
21923201 GATGCCATGTCCCAGACATGGCCTTACACTGGCTCAT-ATCTCAA-GT--T
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCA--T-AAGGTGCC
* * ***
21923248 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAAGGT-GCC
* * *
21923296 GATGTATGTCCCAGACATGTCTTACACTGGCTTACGTC-T-CGAG-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-T-C-TCATAAG-GTGCC
* * **
21923342 GATGCATGTCCCAGACATGTCTTACACTAACTCTCGTCTCAA--TGTT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGGTGCC
* * *
21923388 GATACCATGTCCCAGACATGGTATTACACTGGCTCTCATAAGGTGGCC
1 GAT-GCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAAGGT-GCC
21923436 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
21923469 ACACACAAAT
Statistics
Matches: 348, Mismatches: 62, Indels: 86
0.70 0.12 0.17
Matches are distributed among these distances:
43 4 0.01
44 8 0.02
45 29 0.08
46 132 0.38
47 118 0.34
48 48 0.14
49 7 0.02
50 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGGTGCC
Found at i:21926731 original size:30 final size:30
Alignment explanation
Indices: 21926695--21926754 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
21926685 CTATGTCTAT
21926695 GAAAGCAGTGTAAGGTACATCAAAAATTAA
1 GAAAGCAGTGTAAGGTACATCAAAAATTAA
21926725 GAAAGCAGTGTAAGGTACATCAAAAATTAA
1 GAAAGCAGTGTAAGGTACATCAAAAATTAA
21926755 TAACATTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (30 bp):
GAAAGCAGTGTAAGGTACATCAAAAATTAA
Found at i:21936525 original size:77 final size:77
Alignment explanation
Indices: 21936384--21936538 Score: 186
Period size: 77 Copynumber: 2.0 Consensus size: 77
21936374 TGAATATTTC
* * * *
21936384 AAATCCTAAGGTTACGTTTTTAGGCTCCCCACAAGATTGATGGTCGGTAGAGCAATAATCTTGGA
1 AAATCCTAAGATTACGTTATTA-G-TCCCCACAAGATTGATGGTCGGTAGAGCAACAATATTGGA
21936449 TTGATGATGACAAA
64 TTGATGATGACAAA
* ** * *
21936463 AAATCCTAAGATTACGTTATTA-TGCCCAGCAAGATTGATGGTTTGTAGAGTAGCAATATTGGAT
1 AAATCCTAAGATTACGTTATTAGTCCCCA-CAAGATTGATGGTCGGTAGAGCAACAATATTGGAT
*
21936527 TGATGATTACAA
65 TGATGATGACAA
21936539 TAAACATGCG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
76 5 0.08
77 40 0.62
79 20 0.31
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (77 bp):
AAATCCTAAGATTACGTTATTAGTCCCCACAAGATTGATGGTCGGTAGAGCAACAATATTGGATT
GATGATGACAAA
Found at i:21940604 original size:26 final size:26
Alignment explanation
Indices: 21940566--21940623 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
21940556 CAATATAACT
* *
21940566 AAATTTATAATTTTAGAT-TCTTTTTA
1 AAATTTAGAATTTT-GATGTATTTTTA
* *
21940592 AAATTTAGCATTTTTATGTATTTTTA
1 AAATTTAGAATTTTGATGTATTTTTA
21940618 AAATTT
1 AAATTT
21940624 TATATAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (26 bp):
AAATTTAGAATTTTGATGTATTTTTA
Found at i:21949489 original size:17 final size:17
Alignment explanation
Indices: 21949467--21949518 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
21949457 AATTTCCCAA
21949467 AGTAATAATGTAATATT
1 AGTAATAATGTAATATT
*
21949484 AGTAATAATATAATATT
1 AGTAATAATGTAATATT
*
21949501 AGTAATAATGCAATATT
1 AGTAATAATGTAATATT
21949518 A
1 A
21949519 ATAGAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (17 bp):
AGTAATAATGTAATATT
Found at i:21950178 original size:187 final size:188
Alignment explanation
Indices: 21949849--21950242 Score: 627
Period size: 187 Copynumber: 2.1 Consensus size: 188
21949839 ATTTATGCTG
* * * * *
21949849 TTGTACTATTATATTAATTTATGCTTCAATTAACTAACTTTAAAGTTTAAACTGTGGTTTAGCAG
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAATTTAAACTGTAGCTTAACAG
21949914 ACTTTTCTTTTTTTGCTTAATTTATGCTATTATACTATTATATTAATTTAGGCTTCAATTAACTA
66 AC-TTTCTTTTTTTGCTTAATTTATGCTATTATACTATTATATTAATTTAGGCTTCAATTAACTA
* *
21949979 ACTTTAAAATTTAAACTATATTTTAACATACTTTTTTTTGTTTAATTTATGTTGTTGTAC
130 ACTTTAAAATTTAAAATATAGTTTAACATAC-TTTTTTTGTTTAATTTATGTTGTTGTAC
21950039 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAATTTAAACTGTAGCTTAACAG
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAATTTAAACTGTAGCTTAACAG
* *
21950104 AC-TT-TTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAA
66 ACTTTCTTTTTTTGCTTAATTTATGCTATTATACTATTATATTAATTTAGGCTTCAATTAACTAA
* *
21950167 CTTTGAAATTTAAAATGTAGTTTAACATACTTTTTTTGTTTAATTTATGTTGTTGTAC
131 CTTTAAAATTTAAAATATAGTTTAACATACTTTTTTTGTTTAATTTATGTTGTTGTAC
21950225 TCT-TA-TATTA-ATTAATTT
1 T-TGTACTATTATATTAATTT
21950243 TTAATTTAAC
Statistics
Matches: 192, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
184 8 0.04
185 5 0.03
186 31 0.16
187 84 0.44
188 2 0.01
190 62 0.32
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.51
Consensus pattern (188 bp):
TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAATTTAAACTGTAGCTTAACAG
ACTTTCTTTTTTTGCTTAATTTATGCTATTATACTATTATATTAATTTAGGCTTCAATTAACTAA
CTTTAAAATTTAAAATATAGTTTAACATACTTTTTTTGTTTAATTTATGTTGTTGTAC
Found at i:21953034 original size:10 final size:10
Alignment explanation
Indices: 21953016--21953046 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
21953006 GAACAAATAT
21953016 ATTCGATTTG
1 ATTCGATTTG
*
21953026 ATTCAATTTG
1 ATTCGATTTG
21953036 ATTCGATTTG
1 ATTCGATTTG
21953046 A
1 A
21953047 ATTCCATCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (10 bp):
ATTCGATTTG
Found at i:21953975 original size:46 final size:48
Alignment explanation
Indices: 21953875--21954003 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 48
21953865 CAGATTTCAT
* **
21953875 GGCCGATGTATGTCCCAGACATGTCTTACACT-G-GCTTACATCTTGA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCGCTTACATCTCAA
* * *
21953921 GGCTGATGCAAGTCCCAGACATGTCTTACACTAGCGC-TA-GTCTCAA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCGCTTACATCTCAA
*
21953967 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
21954004 TTTCATAATG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 39 0.56
47 16 0.23
48 15 0.21
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (48 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCGCTTACATCTCAA
Found at i:21966869 original size:7 final size:7
Alignment explanation
Indices: 21966857--21966902 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
21966847 AGCATTATTT
21966857 TTTCCAC
1 TTTCCAC
21966864 TTTCCAC
1 TTTCCAC
21966871 TTTCCAC
1 TTTCCAC
*
21966878 TTTCTAC
1 TTTCCAC
21966885 TTTCCAC
1 TTTCCAC
*
21966892 TTTCCAA
1 TTTCCAC
21966899 TTTC
1 TTTC
21966903 ATCATTTTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.15, C:0.37, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTCCAC
Found at i:21968151 original size:10 final size:10
Alignment explanation
Indices: 21968136--21968161 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
21968126 GGTGCCAAAG
21968136 CTATTATGCA
1 CTATTATGCA
21968146 CTATTATGCA
1 CTATTATGCA
21968156 CTATTA
1 CTATTA
21968162 AACAGAGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (10 bp):
CTATTATGCA
Found at i:21968220 original size:25 final size:25
Alignment explanation
Indices: 21968164--21968235 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
21968154 CACTATTAAA
21968164 CAGAGAGCACTAAAGTGCT-AT-A-
1 CAGAGAGCACTAAAGTGCTAATAAT
*
21968186 CAGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACTAAAGTGCTAATAAT
** *
21968211 CAGAGAGCACCGACGTGCTAATAAT
1 CAGAGAGCACTAAAGTGCTAATAAT
21968236 TAGAAAGCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
22 18 0.42
23 2 0.05
24 1 0.02
25 22 0.51
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (25 bp):
CAGAGAGCACTAAAGTGCTAATAAT
Found at i:21969567 original size:15 final size:15
Alignment explanation
Indices: 21969549--21969591 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21969539 CTTTTTCTAT
*
21969549 CTTTATTTTTTTTTA
1 CTTTATTTTTATTTA
*
21969564 CTTTCTTTTTATTTA
1 CTTTATTTTTATTTA
21969579 CTTT-TTGTTTATT
1 CTTTATT-TTTATT
21969592 ATATTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (15 bp):
CTTTATTTTTATTTA
Found at i:21969609 original size:16 final size:16
Alignment explanation
Indices: 21969588--21969626 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
21969578 ACTTTTTGTT
*
21969588 TATTATATTAATATAA
1 TATTATATTAACATAA
21969604 TATTATATTAACATAA
1 TATTATATTAACATAA
21969620 TAATTAT
1 T-ATTAT
21969627 TATTTCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTATATTAACATAA
Found at i:21969752 original size:13 final size:14
Alignment explanation
Indices: 21969736--21969764 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21969726 ATTTGATTGA
21969736 TTTATTTA-TTTAT
1 TTTATTTACTTTAT
21969749 TTTATTTACTTTAT
1 TTTATTTACTTTAT
21969763 TT
1 TT
21969765 AATTAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTACTTTAT
Found at i:21969789 original size:16 final size:16
Alignment explanation
Indices: 21969768--21969805 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
21969758 TTTATTTAAT
21969768 TAATATAAT-ATAACAA
1 TAATATAATAATAA-AA
21969784 TAATATAATAATAAAA
1 TAATATAATAATAAAA
21969800 TAATAT
1 TAATAT
21969806 TTACTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATATAATAATAAAA
Found at i:21969803 original size:11 final size:11
Alignment explanation
Indices: 21969764--21969804 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
21969754 TTACTTTATT
21969764 TAAT-TAAT-A
1 TAATATAATAA
*
21969773 TAATATAACAA
1 TAATATAATAA
21969784 TAATATAATAA
1 TAATATAATAA
*
21969795 TAAAATAATA
1 TAATATAATA
21969805 TTTACTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 4 0.15
10 3 0.11
11 20 0.74
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATATAATAA
Found at i:21973713 original size:18 final size:18
Alignment explanation
Indices: 21973692--21973748 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
21973682 TAACTGATTA
*
21973692 TTACTGAATAATTAACTG
1 TTACTGGATAATTAACTG
* *
21973710 TTACCGGATAATTGACTG
1 TTACTGGATAATTAACTG
21973728 TTACTGGAT-ATTAGACTG
1 TTACTGGATAATTA-ACTG
21973746 TTA
1 TTA
21973749 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
17 3 0.09
18 30 0.91
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (18 bp):
TTACTGGATAATTAACTG
Found at i:21984417 original size:18 final size:18
Alignment explanation
Indices: 21984355--21984418 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
21984345 AATTGATCGA
*
21984355 TACTGAATAACTGGTTAT
1 TACTGAATAACTGATTAT
* * *
21984373 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
** *
21984391 TACCAAATAACTGACTAT
1 TACTGAATAACTGATTAT
21984409 TACTGAATAA
1 TACTGAATAA
21984419 ATAATTGTTC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:21989949 original size:24 final size:24
Alignment explanation
Indices: 21989913--21989958 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
21989903 CTAAACCTAA
* *
21989913 GTTTTAAAGATATTTTAATTTTCT
1 GTTTAAAAAATATTTTAATTTTCT
21989937 GTTTAAAAAATATTTTAATTTT
1 GTTTAAAAAATATTTTAATTTT
21989959 AATAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
GTTTAAAAAATATTTTAATTTTCT
Found at i:21996225 original size:29 final size:25
Alignment explanation
Indices: 21996193--21996249 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 25
21996183 TTTAATATTT
21996193 TTTAACAATTTTTTATATACATTTCTCTA
1 TTTAA-AATTTTTT-TAT--ATTTCTCTA
*
21996222 TTTAATATTTTTTTATATTTCTCTA
1 TTTAAAATTTTTTTATATTTCTCTA
21996247 TTT
1 TTT
21996250 TATTGATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 12 0.44
27 3 0.11
28 7 0.26
29 5 0.19
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTAAAATTTTTTTATATTTCTCTA
Found at i:21997030 original size:5 final size:5
Alignment explanation
Indices: 21997022--21997047 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21997012 AAAGAAAAGA
21997022 GAAGG GAAGG GAAGG GAAGG GAAGG G
1 GAAGG GAAGG GAAGG GAAGG GAAGG G
21997048 GAATGAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (5 bp):
GAAGG
Found at i:22001211 original size:16 final size:16
Alignment explanation
Indices: 22001141--22001211 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
22001131 TTAAAAATAA
*
22001141 TAATATTTTAATAATT
1 TAATATTTTATTAATT
**
22001157 TAATATTAAATTAAATT
1 TAATATTTTATT-AATT
* *
22001174 AAATATTTATCTTAA--
1 TAATATTT-TATTAATT
*
22001189 TAGTATTTTATTAATT
1 TAATATTTTATTAATT
22001205 TAATATT
1 TAATATT
22001212 AAAGTGATTA
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
14 5 0.12
15 6 0.15
16 15 0.38
17 12 0.30
18 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (16 bp):
TAATATTTTATTAATT
Found at i:22001239 original size:39 final size:37
Alignment explanation
Indices: 22001160--22001245 Score: 93
Period size: 39 Copynumber: 2.3 Consensus size: 37
22001150 AATAATTTAA
**
22001160 TATTAAATTAAATTAAATATTTATCTTAATAGTATTT
1 TATTAAATTAAATTAAATATTTATCTTAATAGTAAAT
* *
22001197 TATTAATTTAATATTAAAGTGA-TTATCTTAATATTAAAT
1 TATTAAATTAA-ATTAAA-T-ATTTATCTTAATAGTAAAT
*
22001236 TATTATATTA
1 TATTAAATTA
22001246 TTTAGTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
37 10 0.25
38 6 0.15
39 23 0.57
40 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (37 bp):
TATTAAATTAAATTAAATATTTATCTTAATAGTAAAT
Found at i:22005753 original size:27 final size:26
Alignment explanation
Indices: 22005697--22005807 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
22005687 AGCATGGCTG
* * *
22005697 CCAGAATAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
22005723 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
22005750 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
22005777 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
22005804 CCAG
1 CCAG
22005808 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 14 0.18
27 61 0.79
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:22010392 original size:12 final size:12
Alignment explanation
Indices: 22010375--22010400 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22010365 CATTCCGAAG
22010375 TATATATATACA
1 TATATATATACA
22010387 TATATATATACA
1 TATATATATACA
22010399 TA
1 TA
22010401 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:22010915 original size:27 final size:27
Alignment explanation
Indices: 22010884--22011061 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22010874 TAAATTGTAC
22010884 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
22010911 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22010937 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
22010965 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22010993 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22011020 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22011047 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22011062 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22010998 original size:82 final size:81
Alignment explanation
Indices: 22010885--22011040 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22010875 AAATTGTACA
* *
22010885 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
22010949 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22010966 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
22011031 TGCGAGTTGA
65 TGCGAATTGA
22011041 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22011052 original size:82 final size:81
Alignment explanation
Indices: 22010881--22011061 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
22010871 GATTAAATTG
* *
22010881 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22010946 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22010962 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22011026 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22011044 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22011062 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22015489 original size:27 final size:26
Alignment explanation
Indices: 22015433--22015543 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
22015423 AGCATGGCTG
* * *
22015433 CCAGAATAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
22015459 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
22015486 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
22015513 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
22015540 CCAG
1 CCAG
22015544 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 14 0.18
27 61 0.79
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:22017469 original size:27 final size:26
Alignment explanation
Indices: 22017419--22017502 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 26
22017409 AGCATGGCTG
* *
22017419 CCAGAATAGATAATGTGACAGAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
22017445 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
22017472 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
22017499 CCAG
1 CCAG
22017503 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 12 0.23
27 40 0.77
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:22018948 original size:24 final size:24
Alignment explanation
Indices: 22018913--22019013 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
22018903 CCAACACTGT
* *
22018913 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
22018937 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
22018961 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
22018985 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
22019009 TCTCC
1 TCTCC
22019014 TAACAGACTT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.25, C:0.41, G:0.02, T:0.33
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:22023107 original size:6 final size:6
Alignment explanation
Indices: 22023091--22023170 Score: 115
Period size: 6 Copynumber: 13.3 Consensus size: 6
22023081 ACTAAGCATG
* * * *
22023091 AAAAGA AAAGTA AAAGTA AAAGTA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
22023139 AAAATA AAAATA AAAATA AAAATA AAGATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA
22023171 TGGATTCAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:22025097 original size:17 final size:15
Alignment explanation
Indices: 22025064--22025102 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
22025054 GAAGATGGGG
*
22025064 GAGAAGAGAAGAGAA
1 GAGAAAAGAAGAGAA
22025079 GAGAAAAGAAGAGCAAA
1 GAGAAAAGAAGAG--AA
22025096 GAGAAAA
1 GAGAAAA
22025103 AGGGAGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
17 9 0.43
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (15 bp):
GAGAAAAGAAGAGAA
Found at i:22028108 original size:52 final size:52
Alignment explanation
Indices: 22028047--22028150 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
22028037 TTTCTCAATA
*
22028047 GTTTCAATTTTTGCTTTATCAACCTTGATCCTTTTACTAGAAATTTTGTGGC
1 GTTTCAATTTTTGCTTTATCAACCTCGATCCTTTTACTAGAAATTTTGTGGC
22028099 GTTTCAATTTTTGCTTTATCAACCTCGATCCTTTTACTAGAAATTTTGTGGC
1 GTTTCAATTTTTGCTTTATCAACCTCGATCCTTTTACTAGAAATTTTGTGGC
22028151 CTAGCACAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.47
Consensus pattern (52 bp):
GTTTCAATTTTTGCTTTATCAACCTCGATCCTTTTACTAGAAATTTTGTGGC
Found at i:22031545 original size:22 final size:22
Alignment explanation
Indices: 22031520--22031564 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22031510 GAAAAGTTAG
22031520 TAAATTAAAATAAAAACAAAAA
1 TAAATTAAAATAAAAACAAAAA
** *
22031542 TAAATTGCAATAAAAATAAAAA
1 TAAATTAAAATAAAAACAAAAA
22031564 T
1 T
22031565 GGCTAAAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (22 bp):
TAAATTAAAATAAAAACAAAAA
Found at i:22036060 original size:40 final size:39
Alignment explanation
Indices: 22036029--22036238 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
22036019 GGACTAAGAT
* *
22036029 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
22036069 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
22036109 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
22036149 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
22036189 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
22036228 CCGAAGGCATT
1 CCGAAGGCATT
22036239 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:22036192 original size:120 final size:120
Alignment explanation
Indices: 22035976--22036238 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
22035966 TTGAATGCTG
* *
22035976 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
22036040 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
22036096 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
22036159 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
22036215 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
22036239 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:22036258 original size:79 final size:80
Alignment explanation
Indices: 22035977--22036273 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
22035967 TGAATGCTGT
* ** * * * **
22035977 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
22036040 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
22036057 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
22036121 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
22036137 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
22036201 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
22036216 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
22036274 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:22057963 original size:47 final size:48
Alignment explanation
Indices: 22057901--22058165 Score: 184
Period size: 47 Copynumber: 5.6 Consensus size: 48
22057891 GAGCTAGCGA
* *
22057901 AAGACCATGTCTGGGACATAGCATCGACATTGAGACAAGTGCTAGTGT
1 AAGACCATGTCTGGGACATAGCATCGACATTGAGAGATGTGCTAGTGT
* * *
22057949 AAGA-CATGTCTGGGACAT-GCATC-AGC-CT-CGAGATGTAAGCCAGTGT
1 AAGACCATGTCTGGGACATAGCATCGA-CATTGAGAGATGT--GCTAGTGT
* *
22057995 AAGA-CATGTCTGGGAC-TTGCATCGGC--T-ACGAGATGTG-TCAGTG-
1 AAGACCATGTCTGGGACATAGCATCGACATTGA-GAGATGTGCT-AGTGT
* *
22058038 AAGACCATGTCTGGAACATAGCATCGACA-T-AGATATGTGGGAGCTAGTGT
1 AAGACCATGTCTGGGACATAGCATCGACATTGAGAGATGT----GCTAGTGT
* * * * *
22058088 AAGACCATGTATAGGACATGGCATCGAC-TTGATG-GATGAGCCAGTGT
1 AAGACCATGTCTGGGACATAGCATCGACATTGA-GAGATGTGCTAGTGT
* *
22058135 AAGACCATGTCTGGGACATGGCATCGGCATT
1 AAGACCATGTCTGGGACATAGCATCGACATT
22058166 ATACCTTATG
Statistics
Matches: 175, Mismatches: 22, Indels: 40
0.74 0.09 0.17
Matches are distributed among these distances:
43 4 0.02
44 21 0.12
45 18 0.10
46 44 0.25
47 46 0.26
48 6 0.03
49 5 0.03
50 26 0.15
51 4 0.02
52 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AAGACCATGTCTGGGACATAGCATCGACATTGAGAGATGTGCTAGTGT
Found at i:22057997 original size:46 final size:46
Alignment explanation
Indices: 22057901--22058160 Score: 194
Period size: 46 Copynumber: 5.6 Consensus size: 46
22057891 GAGCTAGCGA
* * * * *
22057901 AAGACCATGTCTGGGACATAGCATCGACATTGAGACAAGT-GCTAGTGT
1 AAGACCATGTCTGGGACATGGCATCG-CCTCGAG--ATGTAGCCAGTGT
22057949 AAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTAAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATC-GCCTCGAGATGT-AGCCAGTGT
* * *
22057995 AAGA-CATGTCTGGGAC-TTGCATCGGCTACGAGATGT-GTCAGTG-
1 AAGACCATGTCTGGGACATGGCATCGCCT-CGAGATGTAGCCAGTGT
* * * * * *
22058038 AAGACCATGTCTGGAACATAGCATCGACATAGATATGTGGGAGCTAGTGT
1 AAGACCATGTCTGGGACATGGCATCG-CCTCGAGATGT---AGCCAGTGT
* * * *
22058088 AAGACCATGTATAGGACATGGCATCGACTTGATGGATG-AGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGCCTCGA--GATGTAGCCAGTGT
22058135 AAGACCATGTCTGGGACATGGCATCG
1 AAGACCATGTCTGGGACATGGCATCG
22058161 GCATTATACC
Statistics
Matches: 172, Mismatches: 25, Indels: 31
0.75 0.11 0.14
Matches are distributed among these distances:
43 4 0.02
44 20 0.12
45 17 0.10
46 47 0.27
47 47 0.27
48 4 0.02
49 8 0.05
50 22 0.13
51 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AAGACCATGTCTGGGACATGGCATCGCCTCGAGATGTAGCCAGTGT
Found at i:22065076 original size:46 final size:46
Alignment explanation
Indices: 22065026--22065198 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
22065016 TGGTTGAGCA
22065026 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
22065072 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
22065117 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
22065165 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
22065199 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22065182 original size:93 final size:93
Alignment explanation
Indices: 22065023--22065193 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
22065013 GGATGGTTGA
* *
22065023 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22065088 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
22065116 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22065181 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
22065194 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:22073660 original size:16 final size:16
Alignment explanation
Indices: 22073639--22073672 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
22073629 GCTAAGGACT
22073639 AAATTAGAAAG-TGATA
1 AAATTA-AAAGATGATA
22073655 AAATTAAAAGATGATA
1 AAATTAAAAGATGATA
22073671 AA
1 AA
22073673 TAATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (16 bp):
AAATTAAAAGATGATA
Found at i:22079297 original size:17 final size:17
Alignment explanation
Indices: 22079275--22079368 Score: 63
Period size: 17 Copynumber: 5.5 Consensus size: 17
22079265 CTACAAGATA
*
22079275 AATATTAAATTAAATGT
1 AATATTAAATTAAATTT
22079292 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAA--A-TTT
**
22079312 AATATTAAA-TAAATAA
1 AATATTAAATTAAATTT
* *
22079328 AATACT--ATT-AAGTT
1 AATATTAAATTAAATTT
22079342 AAGTATTAAATTAAATTT
1 AA-TATTAAATTAAATTT
22079360 AATATTAAA
1 AATATTAAA
22079369 CTATTAAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
14 5 0.08
15 4 0.07
16 6 0.10
17 22 0.37
18 7 0.12
19 5 0.08
20 10 0.17
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.39
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:22087495 original size:46 final size:46
Alignment explanation
Indices: 22087300--22087502 Score: 171
Period size: 46 Copynumber: 4.3 Consensus size: 46
22087290 GTTGTTGGCT
* * *
22087300 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GACGAGAGCC
* * * * *
22087346 AGTGTAGGACCATGTTTGGGACATGGTATCGGC-ATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGACGAGAGCC
* * *
22087394 AGTTTAAGACATGTCGGGGACATGCATCGGCCT-CGAGACGTA-TGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACG-AGAGCC
* * * * *
22087440 AGTGAAAGACATGTCTGGGACATGCATCGACTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGAGAGCC
22087486 AGTGTAAGACCATGTCT
1 AGTGTAAGA-CATGTCT
22087503 AGGATATGGC
Statistics
Matches: 124, Mismatches: 23, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
45 3 0.02
46 64 0.52
47 35 0.28
48 21 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGAGAGCC
Found at i:22097180 original size:41 final size:39
Alignment explanation
Indices: 22097132--22097243 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 39
22097122 TCGACCTTGA
22097132 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-ACTATTACTTCGGATAG
* ** ** * *
22097172 ATTCGATGAGGTACTGGGTACCAAC--TTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
* *
22097210 GCCGATGAGACACTGGGTGTCAACTATTGCTTCG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCG
22097244 AACTATCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
37 18 0.33
38 11 0.20
39 7 0.13
40 2 0.04
41 17 0.31
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
Found at i:22097969 original size:17 final size:17
Alignment explanation
Indices: 22097920--22097970 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
22097910 ATGTGGCATG
*
22097920 TACCTAAGTAATGTACA
1 TACCTAAGTAATGTATA
*
22097937 TACCTAGGTAATGTATA
1 TACCTAAGTAATGTATA
*
22097954 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
22097971 GGGATTAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:22104641 original size:181 final size:181
Alignment explanation
Indices: 22104337--22104700 Score: 728
Period size: 181 Copynumber: 2.0 Consensus size: 181
22104327 TCCCCGTGGA
22104337 GAAAAGTCCTCAGATATGGTAGAAAAGGCAAGCTAAGTCCTCGTTTTATAGGGCCTTATGAGGTT
1 GAAAAGTCCTCAGATATGGTAGAAAAGGCAAGCTAAGTCCTCGTTTTATAGGGCCTTATGAGGTT
22104402 ATTGAGAGAGTAGGACCGGTTGCCTACCGATTAGATTTTCCACCGGAATTAGAAATGATTCGCGA
66 ATTGAGAGAGTAGGACCGGTTGCCTACCGATTAGATTTTCCACCGGAATTAGAAATGATTCGCGA
22104467 TGTGTTTCATGTGTCCATGCTACGTCGATATAGATCAGACCCTTCGCATGT
131 TGTGTTTCATGTGTCCATGCTACGTCGATATAGATCAGACCCTTCGCATGT
22104518 GAAAAGTCCTCAGATATGGTAGAAAAGGCAAGCTAAGTCCTCGTTTTATAGGGCCTTATGAGGTT
1 GAAAAGTCCTCAGATATGGTAGAAAAGGCAAGCTAAGTCCTCGTTTTATAGGGCCTTATGAGGTT
22104583 ATTGAGAGAGTAGGACCGGTTGCCTACCGATTAGATTTTCCACCGGAATTAGAAATGATTCGCGA
66 ATTGAGAGAGTAGGACCGGTTGCCTACCGATTAGATTTTCCACCGGAATTAGAAATGATTCGCGA
22104648 TGTGTTTCATGTGTCCATGCTACGTCGATATAGATCAGACCCTTCGCATGT
131 TGTGTTTCATGTGTCCATGCTACGTCGATATAGATCAGACCCTTCGCATGT
22104699 GA
1 GA
22104701 TTACGCAGTC
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 183 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (181 bp):
GAAAAGTCCTCAGATATGGTAGAAAAGGCAAGCTAAGTCCTCGTTTTATAGGGCCTTATGAGGTT
ATTGAGAGAGTAGGACCGGTTGCCTACCGATTAGATTTTCCACCGGAATTAGAAATGATTCGCGA
TGTGTTTCATGTGTCCATGCTACGTCGATATAGATCAGACCCTTCGCATGT
Found at i:22106346 original size:46 final size:47
Alignment explanation
Indices: 22106202--22106367 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 47
22106192 TTATGAGAGC
* *
22106202 CAGTGTAAGACCATATCTGGGACATGGCATCGG-TATTGAGACGAGAGT
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTA-TGAGACGATAGT
* * * * *
22106250 TAGTTTAAGA-CATGTCGGGGACATGCATCGGCCT-CGAGACG-TATGC
1 CAGTGTAAGACCATGTCTGGGACATGCATCGG-CTATGAGACGATA-GT
* *
22106296 CAGTGAAAGA-CATGTCTGGGACATGCATCGGCTATGAGATGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGACGATAGT
*
22106342 CAGTGTAAGACCATGTCTAGGACATG
1 CAGTGTAAGACCATGTCTGGGACATG
22106368 GCATTGACTT
Statistics
Matches: 96, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.03
46 56 0.58
47 28 0.29
48 9 0.09
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGACGATAGT
Found at i:22108012 original size:26 final size:27
Alignment explanation
Indices: 22107983--22108041 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
22107973 TATCATCCCT
22107983 ATTTTACCCCTAG-AAAAATTTTAACA
1 ATTTTACCCCTAGTAAAAATTTTAACA
* * * *
22108009 ATTTTACCCTTGGTAAAATTTTTAACG
1 ATTTTACCCCTAGTAAAAATTTTAACA
22108036 ATTTTA
1 ATTTTA
22108042 TCTGTAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (27 bp):
ATTTTACCCCTAGTAAAAATTTTAACA
Found at i:22110477 original size:20 final size:19
Alignment explanation
Indices: 22110425--22110478 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
22110415 TCTGTTTAAC
22110425 CCTTATGGGTTTCCGTCCAA
1 CCTTATGGGTTT-CGTCCAA
* * *
22110445 CTCTTACGAGTTTCGTTCAA
1 C-CTTATGGGTTTCGTCCAA
22110465 CCGTTATGGGTTTC
1 CC-TTATGGGTTTC
22110479 AGTTTAGCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 17 0.63
21 9 0.33
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (19 bp):
CCTTATGGGTTTCGTCCAA
Found at i:22112149 original size:30 final size:31
Alignment explanation
Indices: 22112089--22112149 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
22112079 TTTTACGAGC
* **
22112089 CTAGGGGCAAAATCATAATTTTTGTGAAAGT
1 CTAGGGGCAAAATAATAATTTTTGCCAAAGT
*
22112120 CTAGGGGCAAAATAATTA-TTTTGCCAAAGT
1 CTAGGGGCAAAATAATAATTTTTGCCAAAGT
22112150 ATGAATTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (31 bp):
CTAGGGGCAAAATAATAATTTTTGCCAAAGT
Found at i:22112730 original size:50 final size:50
Alignment explanation
Indices: 22112654--22112762 Score: 173
Period size: 50 Copynumber: 2.2 Consensus size: 50
22112644 TGATGCTAGG
* * * * *
22112654 GAGATATGAGAGCTAGTGTAATACCATGTCTGGGACATGGTATCGGTCTC
1 GAGATATGAAAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC
22112704 GAGATATGAAAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC
1 GAGATATGAAAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC
22112754 GAGATATGA
1 GAGATATGA
22112763 GATATTTGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (50 bp):
GAGATATGAAAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC
Found at i:22115552 original size:32 final size:32
Alignment explanation
Indices: 22115515--22115578 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
22115505 AAAAGTACAA
22115515 ATAGATAGGTGGAATCGAGAATCTTACAAAAG
1 ATAGATAGGTGGAATCGAGAATCTTACAAAAG
22115547 ATAGATAGGTGGAATCGAGAATCTTACAAAAG
1 ATAGATAGGTGGAATCGAGAATCTTACAAAAG
22115579 GGGTTCTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.22
Consensus pattern (32 bp):
ATAGATAGGTGGAATCGAGAATCTTACAAAAG
Found at i:22124316 original size:21 final size:21
Alignment explanation
Indices: 22124299--22124341 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22124289 ACCCTTATGG
22124299 GTTTCCGTTCAGCTCTTACGA
1 GTTTCCGTTCAGCTCTTACGA
22124320 GTTTCCGTTCAGCTCTTACGA
1 GTTTCCGTTCAGCTCTTACGA
22124341 G
1 G
22124342 CTCTAATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.21, T:0.37
Consensus pattern (21 bp):
GTTTCCGTTCAGCTCTTACGA
Found at i:22125479 original size:55 final size:55
Alignment explanation
Indices: 22125392--22125511 Score: 170
Period size: 55 Copynumber: 2.2 Consensus size: 55
22125382 AGATGCAAGG
* * * *
22125392 GACACACGGCCAAATCACATGCCCATGAGCCAGGCTGTGTGTCACACACGGTCAA
1 GACACAAGCCCAAACCACATGCCCATGAGCCAGGCCGTGTGTCACACACGGTCAA
* * *
22125447 GACACAAGCCCAAACCATATGCCCATGTGCCAGGCCGTGTGTCTCACACGGTCAA
1 GACACAAGCCCAAACCACATGCCCATGAGCCAGGCCGTGTGTCACACACGGTCAA
22125502 GACAC-AGCCC
1 GACACAAGCCC
22125512 TTATGTCTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
54 5 0.09
55 53 0.91
ACGTcount: A:0.28, C:0.35, G:0.23, T:0.14
Consensus pattern (55 bp):
GACACAAGCCCAAACCACATGCCCATGAGCCAGGCCGTGTGTCACACACGGTCAA
Found at i:22129021 original size:27 final size:27
Alignment explanation
Indices: 22128990--22129167 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22128980 TAAATTGTAC
22128990 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
22129017 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22129043 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
22129071 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22129099 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22129126 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22129153 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22129168 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22129104 original size:82 final size:81
Alignment explanation
Indices: 22128991--22129146 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22128981 AAATTGTACA
* *
22128991 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
22129055 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22129072 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
22129137 TGCGAGTTGA
65 TGCGAATTGA
22129147 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22129158 original size:82 final size:81
Alignment explanation
Indices: 22128987--22129167 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
22128977 GATTAAATTG
* *
22128987 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22129052 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22129068 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22129132 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22129150 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22129168 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22133311 original size:46 final size:46
Alignment explanation
Indices: 22133164--22133335 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
22133154 TTATTTGTGT
* * * *
22133164 GCCAGTGTAAAACATGTCTAGGACATGCATCGGCCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGA-GATGAGA
* * * * *
22133210 GCCAGCGTCAGACCATGTCTAGGACATGGCATCGGCATTGAGATGAGA
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCGAGATGAGA
* *
22133258 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGATG-AGA
*
22133304 GCCAGTGTAAGACATGTCT-GGAATATGCATCA
1 GCCAGTGTAAGACATGTCTAGG-ACATGCATCA
22133336 ACTATGTGAT
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
45 2 0.02
46 51 0.49
47 28 0.27
48 23 0.22
49 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGATGAGA
Found at i:22133347 original size:46 final size:44
Alignment explanation
Indices: 22133261--22133380 Score: 116
Period size: 46 Copynumber: 2.6 Consensus size: 44
22133251 GATGAGAGCT
* *
22133261 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGAACATGCATCAGACTCGAGATGT--GCC
* * * *
22133307 AGTGTAAGACATGTCTGGAATATGCATCA-ACTATGTGATGTGTC
1 AGTGTAAGACATGTCTGGAACATGCATCAGACT-CGAGATGTGCC
* *
22133351 AGTGTAAGACCAAGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGAACAT-GCATC
22133381 GTGATATGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
44 11 0.18
45 13 0.21
46 38 0.61
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGAACATGCATCAGACTCGAGATGTGCC
Found at i:22133776 original size:25 final size:25
Alignment explanation
Indices: 22133742--22133791 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
22133732 GACTTGATCC
22133742 GTAGAAATCCCTAAGTTATATTATT
1 GTAGAAATCCCTAAGTTATATTATT
*
22133767 GTAGAAATCCCTAAGTTGTATTATT
1 GTAGAAATCCCTAAGTTATATTATT
22133792 ATCTCTCTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (25 bp):
GTAGAAATCCCTAAGTTATATTATT
Found at i:22133983 original size:86 final size:86
Alignment explanation
Indices: 22133878--22134049 Score: 335
Period size: 86 Copynumber: 2.0 Consensus size: 86
22133868 CATTAACTCG
22133878 ATCTATGGACTCCCTTATTAGGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATCTCTAGGC
1 ATCTATGGACTCCCTTATTAGGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATCTCTAGGC
22133943 GTGCAATCAACTCCGCTTAAT
66 GTGCAATCAACTCCGCTTAAT
22133964 ATCTATGGACTCCCTTATTAGGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATCTCTAGGC
1 ATCTATGGACTCCCTTATTAGGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATCTCTAGGC
*
22134029 GTGCAATCAACTCTGCTTAAT
66 GTGCAATCAACTCCGCTTAAT
22134050 TACGACAAAT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (86 bp):
ATCTATGGACTCCCTTATTAGGTTTCACCCTAATCCGGCAAAATCTTGTCACCCTATCTCTAGGC
GTGCAATCAACTCCGCTTAAT
Found at i:22136416 original size:103 final size:103
Alignment explanation
Indices: 22136217--22136409 Score: 305
Period size: 103 Copynumber: 1.9 Consensus size: 103
22136207 TGAAACTTCC
* * * * **
22136217 TGAATGATGAATGGGCTCTTTGAATTGGAGTTATAGAGAATAATCGGCCAAGGCCCTGATAAGAG
1 TGAATGAAGAATGGACTCCTTAAATTGGAGTTATAGAGAATAATCGGCCAAGGCAATGATAAGAG
*
22136282 TGGTGGAGGATACTCCGGTGGTGGTAGAGGTTCATTAG
66 TGGAGGAGGATACTCCGGTGGTGGTAGAGGTTCATTAG
* *
22136320 TGAATGAAGAATGGACTCCTTAAATTGGAGTTATGGAGAATAATCGGCCAAGGCAATGATAAGAT
1 TGAATGAAGAATGGACTCCTTAAATTGGAGTTATAGAGAATAATCGGCCAAGGCAATGATAAGAG
22136385 TGGAGGAGGATACTCCGGTGGTGGT
66 TGGAGGAGGATACTCCGGTGGTGGT
22136410 TAAGGTTGGG
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
103 81 1.00
ACGTcount: A:0.30, C:0.11, G:0.33, T:0.26
Consensus pattern (103 bp):
TGAATGAAGAATGGACTCCTTAAATTGGAGTTATAGAGAATAATCGGCCAAGGCAATGATAAGAG
TGGAGGAGGATACTCCGGTGGTGGTAGAGGTTCATTAG
Found at i:22136737 original size:12 final size:11
Alignment explanation
Indices: 22136669--22136737 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 11
22136659 GTATTAAAGG
22136669 AAAATAAAATA
1 AAAATAAAATA
*
22136680 AAAAGTACAATA
1 AAAA-TAAAATA
22136692 AGAAGAT-AAATA
1 A-AA-ATAAAATA
* *
22136704 AAGATAAAATTG
1 AAAATAAAA-TA
22136716 AAAATAAAAATA
1 AAAAT-AAAATA
22136728 ATAAATAAAA
1 A-AAATAAAA
22136738 AGTTTTTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
10 2 0.04
11 8 0.18
12 23 0.51
13 11 0.24
14 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.07, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:22152578 original size:7 final size:7
Alignment explanation
Indices: 22152563--22152617 Score: 76
Period size: 7 Copynumber: 7.9 Consensus size: 7
22152553 TACAAAAAGT
22152563 AATTGAA
1 AATTGAA
*
22152570 AATTAAA
1 AATTGAA
22152577 AATT-AA
1 AATTGAA
22152583 GAATTGAA
1 -AATTGAA
*
22152591 AATTAAA
1 AATTGAA
22152598 AATTGAA
1 AATTGAA
22152605 AATTGAA
1 AATTGAA
22152612 AATTGA
1 AATTGA
22152618 GGATTCAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
6 2 0.05
7 39 0.91
8 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (7 bp):
AATTGAA
Found at i:22152629 original size:21 final size:21
Alignment explanation
Indices: 22152563--22152615 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
22152553 TACAAAAAGT
22152563 AATTGAAAATTAAAAATTAAG
1 AATTGAAAATTAAAAATTAAG
22152584 AATTGAAAATTAAAAATTGAA-
1 AATTGAAAATTAAAAATT-AAG
22152605 AATTGAAAATT
1 AATTGAAAATT
22152616 GAGGATTCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
AATTGAAAATTAAAAATTAAG
Found at i:22155390 original size:45 final size:45
Alignment explanation
Indices: 22155340--22155432 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
22155330 TTTGCCCCGT
22155340 TAAATTATGTTGTTTACTTTTGTTCATTCAAGTTTGGCCTATAAG
1 TAAATTATGTTGTTTACTTTTGTTCATTCAAGTTTGGCCTATAAG
*
22155385 TAAATTATGTTGTTTGCTTTTGTTCATTCAAGTTTGGCCTATAAG
1 TAAATTATGTTGTTTACTTTTGTTCATTCAAGTTTGGCCTATAAG
22155430 TAA
1 TAA
22155433 GCTAAATTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (45 bp):
TAAATTATGTTGTTTACTTTTGTTCATTCAAGTTTGGCCTATAAG
Found at i:22155498 original size:25 final size:25
Alignment explanation
Indices: 22155460--22155514 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
22155450 TGGACCAACT
22155460 ATATC-ATCCTTTGATTCAATTTTA
1 ATATCAATCCTTTGATTCAATTTTA
*
22155484 ATATCAATTCTTTGATTCAATTTTA
1 ATATCAATCCTTTGATTCAATTTTA
22155509 ATATCA
1 ATATCA
22155515 GCCCTTGACT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.49
Consensus pattern (25 bp):
ATATCAATCCTTTGATTCAATTTTA
Found at i:22161280 original size:22 final size:23
Alignment explanation
Indices: 22161241--22161285 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
22161231 CCCTATTTTG
22161241 CTACCATTTTACTATTA-TGTTT
1 CTACCATTTTACTATTATTGTTT
* * *
22161263 CTACTATTTTATTGTTATTGTTT
1 CTACCATTTTACTATTATTGTTT
22161286 AAATATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (23 bp):
CTACCATTTTACTATTATTGTTT
Found at i:22161425 original size:25 final size:24
Alignment explanation
Indices: 22161391--22161441 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
22161381 ACATACTTTT
22161391 TAAAATTTATTTTCA-ATTTATTAG
1 TAAAATTTATTTTCATATTT-TTAG
*
22161415 TAAATATTTATTTTGATATTTTTAG
1 TAAA-ATTTATTTTCATATTTTTAG
22161440 TA
1 TA
22161442 TTTTTGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 16 0.67
26 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (24 bp):
TAAAATTTATTTTCATATTTTTAG
Found at i:22162983 original size:18 final size:18
Alignment explanation
Indices: 22162945--22162999 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
22162935 AAACTTGCTC
* *
22162945 AAAATATATTAAAAATAAT
1 AAAATAAATT-AAAATTAT
22162964 AAAATAAATTAAAATTAT
1 AAAATAAATTAAAATTAT
*
22162982 AATATAAA-T-AAATTAT
1 AAAATAAATTAAAATTAT
22162998 AA
1 AA
22163000 TATTTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.27
17 1 0.03
18 14 0.42
19 9 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATAAATTAAAATTAT
Found at i:22169019 original size:47 final size:45
Alignment explanation
Indices: 22168968--22169135 Score: 132
Period size: 47 Copynumber: 3.6 Consensus size: 45
22168958 TATTTAATAT
*
22168968 TAATTATTTTAAATTGTATAAATTCATATAAGAAAAATTATTATCAA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTAT-AA
* * **
22169015 TAATT-TTATGAAA-TTATATATT-AT-T-ATTAAATTATATGTAATAA
1 TAATTATT-TTAAATTTATAAATTCATATAAGAAAATT-TAT-T-ATAA
* * *
22169059 TAATTATTTTAAATTATACAAATTCATATAAGATAATTTATTAGTTA
1 TAATTATTTTAAATT-TATAAATTCATATAAGAAAATTTATTA-TAA
22169106 TAATTATTTTAAATTTTATTAAA-TCATATA
1 TAATTATTTTAAA-TTTA-TAAATTCATATA
22169136 TTTTAATTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 14 0.15
45 12 0.13
46 10 0.11
47 36 0.38
48 9 0.09
49 5 0.05
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (45 bp):
TAATTATTTTAAATTTATAAATTCATATAAGAAAATTTATTATAA
Found at i:22169041 original size:91 final size:91
Alignment explanation
Indices: 22168894--22169101 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 91
22168884 TTGATTTTAG
* *
22168894 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
22168959 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* * *
22168986 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
22169051 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
22169077 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
22169102 GTTATAATTA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 89 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:22169062 original size:44 final size:43
Alignment explanation
Indices: 22168915--22169076 Score: 116
Period size: 44 Copynumber: 3.6 Consensus size: 43
22168905 AAGAACATTT
* * *
22168915 TATTATTAAGAATT-TTATGAAATTATATATCATTATTAAATTA
1 TATTAATAATAATTATT-TGAAATTATATATAATTATTAAATTA
* * * *
22168958 TATTTAATATTAATTATTTTAAATTGTATA-AATTCATATAAGA-AA
1 TA-TTAATAATAATTATTTGAAATTATATATAATT-AT-TAA-ATTA
* *
22169003 AATTATTATCAATAATT-TTATGAAATTATATATTATTATTAAATTA
1 TATTA--AT-AATAATTATT-TGAAATTATATATAATTATTAAATTA
*
22169049 TATGTAATAATAATTATTTTAAATTATA
1 TAT-TAATAATAATTATTTGAAATTATA
22169077 CAAATTCATA
Statistics
Matches: 91, Mismatches: 15, Indels: 25
0.69 0.11 0.19
Matches are distributed among these distances:
43 5 0.05
44 40 0.44
45 12 0.13
46 11 0.12
47 20 0.22
48 3 0.03
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (43 bp):
TATTAATAATAATTATTTGAAATTATATATAATTATTAAATTA
Found at i:22169076 original size:26 final size:28
Alignment explanation
Indices: 22168914--22168990 Score: 52
Period size: 28 Copynumber: 2.8 Consensus size: 28
22168904 TAAGAACATT
* *
22168914 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
* ** *
22168944 TCATTATTAAATTATATTTAATATTA-A
1 TTATTATTAAATTATATGAAATAATATA
*
22168971 TTATT-TTAAATTGTAT-AAAT
1 TTATTATTAAATTATATGAAAT
22168991 TCATATAAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
25 3 0.08
26 10 0.26
27 5 0.13
28 12 0.32
29 1 0.03
30 7 0.18
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:22169291 original size:24 final size:25
Alignment explanation
Indices: 22169251--22169306 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
22169241 TTATTAAATT
*
22169251 ATATATTTTAATTATAA-TATATTTA
1 ATATA-TTTAATAATAATTATATTTA
*
22169276 ATATATTTAATAATAATTATGTTTA
1 ATATATTTAATAATAATTATATTTA
22169301 A-ATATT
1 ATATATT
22169307 ATTAAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATATATTTAATAATAATTATATTTA
Found at i:22169536 original size:16 final size:16
Alignment explanation
Indices: 22169515--22169552 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
22169505 TTGATTTGAT
*
22169515 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
22169531 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
22169547 AATACA
1 ATTACA
22169553 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:22175094 original size:30 final size:30
Alignment explanation
Indices: 22175060--22175120 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
22175050 TCCTTAACTC
22175060 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
22175090 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
22175120 A
1 A
22175121 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:22179541 original size:30 final size:30
Alignment explanation
Indices: 22179507--22179567 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
22179497 TCCTTAACTC
22179507 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
22179537 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
22179567 A
1 A
22179568 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:22184764 original size:149 final size:150
Alignment explanation
Indices: 22184537--22184835 Score: 582
Period size: 149 Copynumber: 2.0 Consensus size: 150
22184527 GAGGATGGGC
22184537 AAAACATGTCATGAAACATGTTTTGTTAGTGGAAGAATAAAATAAGGAGTATGGGTAATAAAGAA
1 AAAACATGTCATGAAACATGTTTTGTTAGTGGAAGAATAAAATAAGGAGTATGGGTAATAAAGAA
22184602 ATGGAAAACAAAAGAAAAAAAAATGTGTGTGTGGTGTTTGT-CCCCCCATTGCCGTGAGCTAAAG
66 ATGGAAAACAAAAGAAAAAAAAATGTGTGTGTGGTGTTTGTCCCCCCCATTGCCGTGAGCTAAAG
22184666 AGAAGAAAGGAGAAAAGTTT
131 AGAAGAAAGGAGAAAAGTTT
22184686 AAAACATGTCATGAAACATGTTTTGTTAGTGGAAGAATAAAATAAGGAGTATGGGTAATAAAGAA
1 AAAACATGTCATGAAACATGTTTTGTTAGTGGAAGAATAAAATAAGGAGTATGGGTAATAAAGAA
*
22184751 ATGGAAAACAAAAGAAAAAAAAATGTGTGTGTGGTGTTTGTCCCCCCCATTGCCGTGAGCTCAAG
66 ATGGAAAACAAAAGAAAAAAAAATGTGTGTGTGGTGTTTGTCCCCCCCATTGCCGTGAGCTAAAG
22184816 AGAAGAAAGGAGAAAAGTTT
131 AGAAGAAAGGAGAAAAGTTT
22184836 GTGTTCATCC
Statistics
Matches: 148, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
149 106 0.72
150 42 0.28
ACGTcount: A:0.42, C:0.09, G:0.25, T:0.23
Consensus pattern (150 bp):
AAAACATGTCATGAAACATGTTTTGTTAGTGGAAGAATAAAATAAGGAGTATGGGTAATAAAGAA
ATGGAAAACAAAAGAAAAAAAAATGTGTGTGTGGTGTTTGTCCCCCCCATTGCCGTGAGCTAAAG
AGAAGAAAGGAGAAAAGTTT
Found at i:22185966 original size:40 final size:40
Alignment explanation
Indices: 22185883--22186145 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
22185873 TTGAATGCTG
* * * * * *
22185883 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
22185923 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
22185963 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
22186003 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
22186043 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
22186083 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
22186122 ACCGGGCTATGTCTCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
22186146 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:22189156 original size:15 final size:15
Alignment explanation
Indices: 22189136--22189165 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22189126 ATACCTTTGA
22189136 CCCAAGCCCCATTAC
1 CCCAAGCCCCATTAC
*
22189151 CCCAAGTCCCATTAC
1 CCCAAGCCCCATTAC
22189166 AACCCTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.50, G:0.07, T:0.17
Consensus pattern (15 bp):
CCCAAGCCCCATTAC
Found at i:22189831 original size:28 final size:29
Alignment explanation
Indices: 22189800--22189867 Score: 111
Period size: 28 Copynumber: 2.3 Consensus size: 29
22189790 TAATCCACAT
22189800 GCCCGTGTGTGACACACGGGCAGGCC-AC
1 GCCCGTGTGTGACACACGGGCAGGCCAAC
*
22189828 GCCCGTCTGTGACACACGGGCAGGCCATAC
1 GCCCGTGTGTGACACACGGGCAGGCCA-AC
22189858 GCCCGTGTGT
1 GCCCGTGTGT
22189868 AATGACCATG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 25 0.69
30 11 0.31
ACGTcount: A:0.16, C:0.35, G:0.34, T:0.15
Consensus pattern (29 bp):
GCCCGTGTGTGACACACGGGCAGGCCAAC
Found at i:22190301 original size:20 final size:21
Alignment explanation
Indices: 22190278--22190321 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
22190268 GAATTATATG
22190278 TTAAATACT-TGTTCTT-ATTC
1 TTAAATA-TGTGTTCTTAATTC
*
22190298 TTAATTATGTGTTCTTAATTC
1 TTAAATATGTGTTCTTAATTC
22190319 TTA
1 TTA
22190322 CTTATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 13 0.62
21 7 0.33
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.57
Consensus pattern (21 bp):
TTAAATATGTGTTCTTAATTC
Found at i:22190320 original size:21 final size:20
Alignment explanation
Indices: 22190287--22190326 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
22190277 GTTAAATACT
22190287 TGTTCTTATTCTTAATTATG
1 TGTTCTTATTCTTAATTATG
*
22190307 TGTTCTTAATTCTTACTTAT
1 TGTTCTT-ATTCTTAATTAT
22190327 ATATTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.60
Consensus pattern (20 bp):
TGTTCTTATTCTTAATTATG
Found at i:22196907 original size:20 final size:20
Alignment explanation
Indices: 22196884--22196948 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
22196874 AAGTGTATTT
22196884 AGGGGTACTAAAGTACAAAC
1 AGGGGTACTAAAGTACAAAC
* * * **
22196904 AGGGGCACGT-ATGTGCATTC
1 AGGGGTAC-TAAAGTACAAAC
**
22196924 AAAGGTACTAAAGTACAAAC
1 AGGGGTACTAAAGTACAAAC
22196944 AGGGG
1 AGGGG
22196949 AACGTATGTG
Statistics
Matches: 29, Mismatches: 14, Indels: 4
0.62 0.30 0.09
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.17
Consensus pattern (20 bp):
AGGGGTACTAAAGTACAAAC
Found at i:22197003 original size:40 final size:40
Alignment explanation
Indices: 22196866--22197004 Score: 188
Period size: 40 Copynumber: 3.5 Consensus size: 40
22196856 AGTATAAGCA
* *
22196866 GGGCACGTAAGTGTATTTAGGGGTACTAAAGTACAAACAG
1 GGGCACGTATGTGCATTTAGGGGTACTAAAGTACAAACAG
* **
22196906 GGGCACGTATGTGCATTCAAAGGTACTAAAGTACAAACAG
1 GGGCACGTATGTGCATTTAGGGGTACTAAAGTACAAACAG
* * *
22196946 GGGAACGTATGTGCATTTAGGGGTACTGAAGTGCAAACAG
1 GGGCACGTATGTGCATTTAGGGGTACTAAAGTACAAACAG
* *
22196986 GGGCATGTATGTACATTTA
1 GGGCACGTATGTGCATTTA
22197005 TTCAATAGTT
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (40 bp):
GGGCACGTATGTGCATTTAGGGGTACTAAAGTACAAACAG
Found at i:22204991 original size:42 final size:41
Alignment explanation
Indices: 22204848--22204992 Score: 134
Period size: 41 Copynumber: 3.5 Consensus size: 41
22204838 CAGATATATA
* * *
22204848 TATGGCACTTAGTGTGC--GATTCGGAATAGCTTCGACTATA
1 TATGGCACTTAATGTGCGAGATT-AGAATAGCTTCGACTATG
* * * *
22204888 CATGGCACTTAATGTGCGAG-TTAGAGATAGCGTCAAATATG
1 TATGGCACTTAATGTGCGAGATTAGA-ATAGCTTCGACTATG
* * * *
22204929 TAAGGCACTTAATGTACGAGATTATAATAGCTTCGGCTATG
1 TATGGCACTTAATGTGCGAGATTAGAATAGCTTCGACTATG
*
22204970 TATTGGCACTTACTGTGCGAGAT
1 TA-TGGCACTTAATGTGCGAGAT
22204993 ATCAAGTATT
Statistics
Matches: 82, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
40 17 0.21
41 43 0.52
42 22 0.27
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (41 bp):
TATGGCACTTAATGTGCGAGATTAGAATAGCTTCGACTATG
Found at i:22206994 original size:43 final size:43
Alignment explanation
Indices: 22206923--22207006 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
22206913 TACATGAATC
**
22206923 GCATCCATCATGAACTTGAACCAATCAACGAGCTCAGATGCTT
1 GCATCCAGAATGAACTTGAACCAATCAACGAGCTCAGATGCTT
* **
22206966 GCATCCAGAATGAACTTGGACCTCTCAACGAGCTCAGATGC
1 GCATCCAGAATGAACTTGAACCAATCAACGAGCTCAGATGC
22207007 CACATATCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (43 bp):
GCATCCAGAATGAACTTGAACCAATCAACGAGCTCAGATGCTT
Found at i:22207477 original size:30 final size:30
Alignment explanation
Indices: 22207443--22207501 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
22207433 CATAAATCAT
* *
22207443 ACTTTTACAAATTTAC-ATTTTGACCCTTAA
1 ACTTTCACAAATTTACGA-TTTAACCCTTAA
*
22207473 ACTTTCACATATTTACGATTTAACCCTTA
1 ACTTTCACAAATTTACGATTTAACCCTTA
22207502 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (30 bp):
ACTTTCACAAATTTACGATTTAACCCTTAA
Found at i:22221159 original size:50 final size:50
Alignment explanation
Indices: 22221079--22221412 Score: 366
Period size: 50 Copynumber: 6.8 Consensus size: 50
22221069 TGACGCTAGG
*
22221079 GATATATGAGAGCTAGTGTAAGACCGTGTCTGGGACATGGCATC-AGCCTC
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCTC
* * * *
22221129 GATATATGAGAACTAGTGTAAGACTATGTCTGGTACATGGCATCG-GCTC
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
* *
22221178 G--ATATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGACACT-
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-CTC
* * *
22221224 GATATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGACATCGGAAC-C
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACCTC
* * *
22221274 GATAGATGAGAGCCAGTGTAAGAGCATGTCTGGGACATGGCATCGACCTC
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
* * * * *
22221324 AATATACGAGAG-TCAGTGTAAGACCATGTCTCGGACATGGCATCGACTTT
1 GATATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
* * *
22221374 GATGTCT--GAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
22221413 GTCGGCACCC
Statistics
Matches: 237, Mismatches: 35, Indels: 26
0.80 0.12 0.09
Matches are distributed among these distances:
45 29 0.12
46 2 0.01
47 8 0.03
48 35 0.15
49 8 0.03
50 153 0.65
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (50 bp):
GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTC
Found at i:22225267 original size:55 final size:53
Alignment explanation
Indices: 22225183--22225428 Score: 247
Period size: 55 Copynumber: 4.6 Consensus size: 53
22225173 CATTAGGGTT
*
22225183 CAAGGATACCATGAAAGACCATG-CAAAGACATGGCAATTGGAAAGGTTTCTAAGG
1 CAAGGATACCATGTAAGACCATGTC-AAGACATGGC-ATTGGAAA-GTTTCTAAGG
* *
22225238 CAAGGATATCATGTAAGACCATGTCAAGACATGGCATT-GATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGA-AAGTT--TCTAAGG
* * * **
22225293 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGG
1 C-AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGAAAGTTTC-TAAGG
* *
22225346 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAGTGGTAAGTTTC-AA--
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGAAAGTTTCTAAGG
* * *
22225396 -AAGGATACCACGTAAGACCATGACAAGCCATGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGG
22225429 AAATGGTAAG
Statistics
Matches: 164, Mismatches: 18, Indels: 24
0.80 0.09 0.12
Matches are distributed among these distances:
49 30 0.18
52 7 0.04
53 44 0.27
54 9 0.05
55 68 0.41
56 6 0.04
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (53 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGAAAGTTTCTAAGG
Found at i:22225390 original size:108 final size:110
Alignment explanation
Indices: 22225191--22225391 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
22225181 TTCAAGGATA
*
22225191 CCATGAAAGACCATGCAAAGACATGGCAATTGGAAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGAAAGACCATGCAAAGACATGGCAATTGGAAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
22225256 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAGTGATAAGTTACTATAAGGCAAAGGTC
* * * **
22225301 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGAAAGACCATGCAAAGACATGGCAATTGGAAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
22225363 ACCATGTCAAGACATGGCAGTGGTAAGTT
65 ACCATGTCAAGACATGGCAGTGATAAGTT
22225392 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.60
109 6 0.07
110 24 0.29
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGAAAGACCATGCAAAGACATGGCAATTGGAAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAGTGATAAGTTACTATAAGGCAAAGGTC
Found at i:22231127 original size:29 final size:29
Alignment explanation
Indices: 22231094--22231152 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
22231084 TATAACAGAG
* **
22231094 TAAGTTCTGTATATTATGTGTTAATATGC
1 TAAGTTCGGTATATTACATGTTAATATGC
*
22231123 TAAGTTCGGTATGTTACATGTTAATATGC
1 TAAGTTCGGTATATTACATGTTAATATGC
22231152 T
1 T
22231153 TAGAAACATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (29 bp):
TAAGTTCGGTATATTACATGTTAATATGC
Found at i:22231535 original size:21 final size:21
Alignment explanation
Indices: 22231509--22231548 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22231499 ATTTTCTCTG
*
22231509 ATATGATATA-TGTTTCTGAAT
1 ATATGAAATATTG-TTCTGAAT
22231530 ATATGAAATATTGTTCTGA
1 ATATGAAATATTGTTCTGA
22231549 TAATTACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (21 bp):
ATATGAAATATTGTTCTGAAT
Found at i:22260937 original size:16 final size:17
Alignment explanation
Indices: 22260918--22260950 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22260908 TGAATGCAAA
22260918 TAAAAC-TAAAGAAAAT
1 TAAAACATAAAGAAAAT
*
22260934 TAAAACATAATGAAAAT
1 TAAAACATAAAGAAAAT
22260951 GCTTGTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (17 bp):
TAAAACATAAAGAAAAT
Found at i:22265087 original size:17 final size:17
Alignment explanation
Indices: 22265065--22265098 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22265055 GTTTGAACTC
22265065 TTTTATGATCTTACCTA
1 TTTTATGATCTTACCTA
22265082 TTTTATGATCTTACCTA
1 TTTTATGATCTTACCTA
22265099 AGCTAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTTATGATCTTACCTA
Found at i:22267921 original size:20 final size:20
Alignment explanation
Indices: 22267896--22267933 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
22267886 AAATGCTAAC
22267896 AGAGGCACCAAAGTGCAAAT
1 AGAGGCACCAAAGTGCAAAT
22267916 AGAGGCACCAAAGTGCAA
1 AGAGGCACCAAAGTGCAA
22267934 TCCCGTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.26, T:0.08
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAT
Found at i:22270555 original size:26 final size:25
Alignment explanation
Indices: 22270494--22270557 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
22270484 TTTCTGACAA
*
22270494 TTCTTTT-CTCT-TATTCTTTTCTC
1 TTCTTTTCCTCTATATTCTCTTCTC
* * *
22270517 CTCTTTTCATCTATTTTCTCTTCTTC
1 TTCTTTTCCTCTATATTCTCTTC-TC
22270543 TTCTTTTCCTCTATA
1 TTCTTTTCCTCTATA
22270558 GCCGAATCTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 6 0.19
24 3 0.10
25 8 0.26
26 14 0.45
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (25 bp):
TTCTTTTCCTCTATATTCTCTTCTC
Found at i:22271710 original size:27 final size:29
Alignment explanation
Indices: 22271669--22271744 Score: 102
Period size: 27 Copynumber: 2.7 Consensus size: 29
22271659 GAGGAAGCGT
*
22271669 TCTGGTGGCTTTGCCACAAATATC-TG-A
1 TCTGGTGGCTCTGCCACAAATATCGTGTA
22271696 TCTGGTGGCTCTGCCACAAATATCTGTGTA
1 TCTGGTGGCTCTGCCACAAATATC-GTGTA
* *
22271726 TCTGGTGACTCTGTCACAA
1 TCTGGTGGCTCTGCCACAA
22271745 TATTCGTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 23 0.53
29 2 0.05
30 18 0.42
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (29 bp):
TCTGGTGGCTCTGCCACAAATATCGTGTA
Found at i:22277076 original size:24 final size:26
Alignment explanation
Indices: 22277036--22277083 Score: 82
Period size: 24 Copynumber: 1.9 Consensus size: 26
22277026 TGTTGTTTGA
22277036 TAAAATGAAATTTTAAGTTATAAATT
1 TAAAATGAAATTTTAAGTTATAAATT
22277062 TAAAAT-AAA-TTTAAGTTATAAA
1 TAAAATGAAATTTTAAGTTATAAA
22277084 AAATAACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 13 0.59
25 3 0.14
26 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (26 bp):
TAAAATGAAATTTTAAGTTATAAATT
Found at i:22277082 original size:13 final size:13
Alignment explanation
Indices: 22277047--22277083 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
22277037 AAAATGAAAT
22277047 TTTAAGTTATAAA
1 TTTAAGTTATAAA
*
22277060 TTTAA--AATAAA
1 TTTAAGTTATAAA
22277071 TTTAAGTTATAAA
1 TTTAAGTTATAAA
22277084 AAATAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 10 0.50
13 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (13 bp):
TTTAAGTTATAAA
Found at i:22284280 original size:43 final size:44
Alignment explanation
Indices: 22284188--22284280 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 44
22284178 ATGTTGTGGT
*
22284188 GTTTGTAGCTAGAAGCGCTGCAAAAGATCATGTTCTTCAGTGGC
1 GTTTGTAGCTAGAAGCGCTGCAAAAGATCATGTTCTTCAGCGGC
* * *
22284232 ATTTGTAG-TAGAAGCG-TCGCTAAAGCTCATGTTCTAT-AGCGGC
1 GTTTGTAGCTAGAAGCGCT-GCAAAAGATCATGTTCT-TCAGCGGC
22284275 GTTTGT
1 GTTTGT
22284281 GGAAAAACTC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
42 1 0.02
43 33 0.79
44 8 0.19
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (44 bp):
GTTTGTAGCTAGAAGCGCTGCAAAAGATCATGTTCTTCAGCGGC
Found at i:22288234 original size:501 final size:501
Alignment explanation
Indices: 22287292--22288293 Score: 1995
Period size: 501 Copynumber: 2.0 Consensus size: 501
22287282 TTTCAACTTC
22287292 TGGAGTTCCTTCTTTCTTTTTAAACACCCATTTACAACAAACAGCCTTTTTACCTTTAGGAAGTT
1 TGGAGTTCCTTCTTTCTTTTTAAACACCCATTTACAACAAACAGCCTTTTTACCTTTAGGAAGTT
22287357 TCATAAGATCCCATGTTCTATTTTTGTGGAGTGATTCCATCTCCTCTTGCATAGCAAAATCCACT
66 TCATAAGATCCCATGTTCTATTTTTGTGGAGTGATTCCATCTCCTCTTGCATAGCAAAATCCACT
22287422 TTTCTGAGTCTTCACAGCTAATCGCCTTAGAATAATTAGATGGCTCTTGATTCGCATCTATATCT
131 TTTCTGAGTCTTCACAGCTAATCGCCTTAGAATAATTAGATGGCTCTTGATTCGCATCTATATCT
22287487 TCAACCACATTTAAAGCATAAGCAACTAGATCAGCGTCGACATACTTTTTTGGAGGTTTAATTTC
196 TCAACCACATTTAAAGCATAAGCAACTAGATCAGCGTCGACATACTTTTTTGGAGGTTTAATTTC
22287552 TCTTCTAGTTCTATTGTTGGCGATAGAGTATTACGGTGAAGAAGCAACTCTATTCTCAATTTTTG
261 TCTTCTAGTTCTATTGTTGGCGATAGAGTATTACGGTGAAGAAGCAACTCTATTCTCAATTTTTG
22287617 TACTAGCTTGAAGAGTCGACTCTGTATTAATGTGATGCTCCACCTGCTTTTGGTTTTCTTTATTG
326 TACTAGCTTGAAGAGTCGACTCTGTATTAATGTGATGCTCCACCTGCTTTTGGTTTTCTTTATTG
22287682 GAAGAGTCTTTAACAGATAAGTTAGGTAGCATAGCAGTTTCATCAAAAACAGCATCCCTGCTAAT
391 GAAGAGTCTTTAACAGATAAGTTAGGTAGCATAGCAGTTTCATCAAAAACAGCATCCCTGCTAAT
*
22287747 CACAACTTTTCTATTTTCAGGACATCATAACTTATACCCTTTTACA
456 CACAACTTTTCTATTTTCAGGACACCATAACTTATACCCTTTTACA
22287793 TGGAGTTCCTTCTTTCTTTTTAAACACCCATTTACAACAAACAGCCTTTTTACCTTTAGGAAGTT
1 TGGAGTTCCTTCTTTCTTTTTAAACACCCATTTACAACAAACAGCCTTTTTACCTTTAGGAAGTT
22287858 TCATAAGATCCCATGTTCTATTTTTGTGGAGTGATTCCATCTCCTCTTGCATAGCAAAATCCACT
66 TCATAAGATCCCATGTTCTATTTTTGTGGAGTGATTCCATCTCCTCTTGCATAGCAAAATCCACT
22287923 TTTCTGAGTCTTCACAGCTAATCGCCTTAGAATAATTAGATGGCTCTTGATTCGCATCTATATCT
131 TTTCTGAGTCTTCACAGCTAATCGCCTTAGAATAATTAGATGGCTCTTGATTCGCATCTATATCT
22287988 TCAACCACATTTAAAGCATAAGCAACTAGATCAGCGTCGACATACTTTTTTGGAGGTTTAATTTC
196 TCAACCACATTTAAAGCATAAGCAACTAGATCAGCGTCGACATACTTTTTTGGAGGTTTAATTTC
22288053 TCTTCTAGTTCTATTGTTGGCGATAGAGTATTACGGTGAAGAAGCAACTCTATTCTCAATTTTTG
261 TCTTCTAGTTCTATTGTTGGCGATAGAGTATTACGGTGAAGAAGCAACTCTATTCTCAATTTTTG
22288118 TACTAGCTTGAAGAGTCGACTCTGTATTAATGTGATGCTCCACCTGCTTTTGGTTTTCTTTATTG
326 TACTAGCTTGAAGAGTCGACTCTGTATTAATGTGATGCTCCACCTGCTTTTGGTTTTCTTTATTG
22288183 GAAGAGTCTTTAACAGATAAGTTAGGTAGCATAGCAGTTTCATCAAAAACAGCATCCCTGCTAAT
391 GAAGAGTCTTTAACAGATAAGTTAGGTAGCATAGCAGTTTCATCAAAAACAGCATCCCTGCTAAT
22288248 CACAACTTTTCTATTTTCAGGACACCATAACTTATACCCTTTTACA
456 CACAACTTTTCTATTTTCAGGACACCATAACTTATACCCTTTTACA
22288294 CCAGCTTTAT
Statistics
Matches: 500, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
501 500 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (501 bp):
TGGAGTTCCTTCTTTCTTTTTAAACACCCATTTACAACAAACAGCCTTTTTACCTTTAGGAAGTT
TCATAAGATCCCATGTTCTATTTTTGTGGAGTGATTCCATCTCCTCTTGCATAGCAAAATCCACT
TTTCTGAGTCTTCACAGCTAATCGCCTTAGAATAATTAGATGGCTCTTGATTCGCATCTATATCT
TCAACCACATTTAAAGCATAAGCAACTAGATCAGCGTCGACATACTTTTTTGGAGGTTTAATTTC
TCTTCTAGTTCTATTGTTGGCGATAGAGTATTACGGTGAAGAAGCAACTCTATTCTCAATTTTTG
TACTAGCTTGAAGAGTCGACTCTGTATTAATGTGATGCTCCACCTGCTTTTGGTTTTCTTTATTG
GAAGAGTCTTTAACAGATAAGTTAGGTAGCATAGCAGTTTCATCAAAAACAGCATCCCTGCTAAT
CACAACTTTTCTATTTTCAGGACACCATAACTTATACCCTTTTACA
Found at i:22289618 original size:37 final size:36
Alignment explanation
Indices: 22289576--22289652 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 36
22289566 TTTAATCTTG
*
22289576 TTCTGTAGCTTATAGCACTCAGATTTAATATGTCCT
1 TTCTGTAGCTTATAGCACTCAGATTTAATATGCCCT
*
22289612 ATTCTGTAGCTTATAGCATTCAGATTTAATATGCCCT
1 -TTCTGTAGCTTATAGCACTCAGATTTAATATGCCCT
22289649 TTCT
1 TTCT
22289653 TCTTACAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 4 0.11
37 34 0.89
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (36 bp):
TTCTGTAGCTTATAGCACTCAGATTTAATATGCCCT
Found at i:22290582 original size:95 final size:96
Alignment explanation
Indices: 22290422--22290609 Score: 288
Period size: 95 Copynumber: 2.0 Consensus size: 96
22290412 GATACCAATA
* * * *
22290422 TGTGAAGAAATAAAATAAAATAAAATAAAGAATACACAGATTTTATGTGGAAACCCTTTCAGG-A
1 TGTGAAAAAATAAAATAAAATAAAATAAAGAACACACAGATTTTACGTGAAAACCCTTTCAGGAA
22290486 AAAAACCACGAGCAAAAGAGAAGAAAATATG
66 AAAAACCACGAGCAAAAGAGAAGAAAATATG
* *
22290517 TGTGAAAAAATGAAATAAAATAAAATAAAGAACACACAGATTTTACGTGAAAACCCTTTCGGGAA
1 TGTGAAAAAATAAAATAAAATAAAATAAAGAACACACAGATTTTACGTGAAAACCCTTTCAGGAA
* * *
22290582 AAAAACCACGGGCAGAGGAGAAGAAAAT
66 AAAAACCACGAGCAAAAGAGAAGAAAAT
22290610 TCAATATGTC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
95 57 0.69
96 26 0.31
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (96 bp):
TGTGAAAAAATAAAATAAAATAAAATAAAGAACACACAGATTTTACGTGAAAACCCTTTCAGGAA
AAAAACCACGAGCAAAAGAGAAGAAAATATG
Found at i:22292955 original size:41 final size:41
Alignment explanation
Indices: 22292910--22293055 Score: 177
Period size: 41 Copynumber: 3.6 Consensus size: 41
22292900 CAGTGACATT
* * *
22292910 CAGGCTTTATGTCGATGAATTATATCAGGCTTATTGCCTAG
1 CAGGCTTTATGCCGATGTATTATTTCAGGCTTATTGCCTAG
*
22292951 CAGGC-TTATTGCCGATGTATTATTTCAAGCTTATTGCCTAG
1 CAGGCTTTA-TGCCGATGTATTATTTCAGGCTTATTGCCTAG
* * *
22292992 CAGGCTTTATGCCGGTGTATTATTTCAGGCCTATTGCATAG
1 CAGGCTTTATGCCGATGTATTATTTCAGGCTTATTGCCTAG
* * * *
22293033 TAGGCTCTGTGCCGGTGTATTAT
1 CAGGCTTTATGCCGATGTATTAT
22293056 ACTAGGCTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 3 0.03
41 86 0.93
42 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (41 bp):
CAGGCTTTATGCCGATGTATTATTTCAGGCTTATTGCCTAG
Found at i:22294084 original size:22 final size:22
Alignment explanation
Indices: 22294059--22294129 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
22294049 TAAAATGAAG
22294059 TTGTATATTTAGTATATGAGGT
1 TTGTATATTTAGTATATGAGGT
* * * *
22294081 TTGTGTA-TTCG--GATGAAG-
1 TTGTATATTTAGTATATGAGGT
22294099 TTGTATATTTAGTATATGAGGT
1 TTGTATATTTAGTATATGAGGT
*
22294121 TTGTGTATT
1 TTGTATATT
22294130 CGGATTGGTA
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
18 6 0.17
19 8 0.22
21 8 0.22
22 14 0.39
ACGTcount: A:0.24, C:0.01, G:0.25, T:0.49
Consensus pattern (22 bp):
TTGTATATTTAGTATATGAGGT
Found at i:22294097 original size:40 final size:40
Alignment explanation
Indices: 22294053--22294134 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
22294043 TTGTCATAAA
22294053 ATGAAGTTGTATATTTAGTATATGAGGTTTGTGTATTCGG
1 ATGAAGTTGTATATTTAGTATATGAGGTTTGTGTATTCGG
22294093 ATGAAGTTGTATATTTAGTATATGAGGTTTGTGTATTCGG
1 ATGAAGTTGTATATTTAGTATATGAGGTTTGTGTATTCGG
22294133 AT
1 AT
22294135 TGGTAATGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.26, C:0.02, G:0.27, T:0.45
Consensus pattern (40 bp):
ATGAAGTTGTATATTTAGTATATGAGGTTTGTGTATTCGG
Found at i:22296266 original size:24 final size:25
Alignment explanation
Indices: 22296213--22296266 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
22296203 TGGGAAAGAA
22296213 AAAAAAATAAGTTAGGGATTTGGGG
1 AAAAAAATAAGTTAGGGATTTGGGG
*
22296238 AAAAAACTAAGTTAGGGATTTGGGG
1 AAAAAAATAAGTTAGGGATTTGGGG
22296263 AAAA
1 AAAA
22296267 CGATTTGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (25 bp):
AAAAAAATAAGTTAGGGATTTGGGG
Found at i:22298718 original size:62 final size:59
Alignment explanation
Indices: 22298609--22298722 Score: 156
Period size: 62 Copynumber: 1.9 Consensus size: 59
22298599 AATCACTTTA
* * * *
22298609 TTATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATACAAAATC
1 TTATTAAATTAATAAAATATTTATCAAGAGAAACATTAAATTAAATTTAATACAAAATC
*
22298668 TTATTAAATTAATAAAATATTTATCTACAAGAGAAGCATTAAATTAAATTTAATA
1 TTATTAAATTAATAAAATATTTA--T-CAAGAGAAACATTAAATTAAATTTAATA
22298723 TTAAGATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
59 22 0.47
61 1 0.02
62 24 0.51
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (59 bp):
TTATTAAATTAATAAAATATTTATCAAGAGAAACATTAAATTAAATTTAATACAAAATC
Found at i:22298752 original size:20 final size:18
Alignment explanation
Indices: 22298705--22298753 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
22298695 CAAGAGAAGC
22298705 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
22298722 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
22298742 ATTAAATTAATA
1 ATTAAATTAATA
22298754 AATTACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Done.