Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 135 of 310
Found at i:43786840 original size:41 final size:40
Alignment explanation
Indices: 43786793--43787040 Score: 210
Period size: 41 Copynumber: 6.1 Consensus size: 40
43786783 CGGAGTGTAA
* *
43786793 AGGGCACGTATTTGTAATTCAAGGGTACCAAAGTACAAAC
1 AGGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* ***
43786833 AGCGGCACGTATATGAAATTCAAGGGTATTGAAGTACAAAC
1 AG-GGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* *
43786874 AGGGACACGCATGTGAAATTCAAGGGTACCAAAGTACAAAT
1 AGGG-CACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* * *
43786915 AGGGGCACGTATGTGCAATTCAAAGGTACCGAAGTACAAAC
1 A-GGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
** * * * * * * *
43786956 ACATGTACATATGTGCAATTTAGGGGTACCGAAGTACAAAT
1 A-GGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* * ** *
43786997 AGGGGCATGTATGT-ACAATTCAGGGGTACTGAAGTGCAAAC
1 A-GGGCACGTATGTGA-AATTCAAGGGTACCAAAGTACAAAC
43787038 AGG
1 AGG
43787041 TAATCACATA
Statistics
Matches: 168, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
40 6 0.04
41 159 0.95
42 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (40 bp):
AGGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
Found at i:43786949 original size:82 final size:80
Alignment explanation
Indices: 43786808--43787040 Score: 268
Period size: 82 Copynumber: 2.9 Consensus size: 80
43786798 ACGTATTTGT
* * * * *
43786808 AATTCAAGGGTACCAAAGTACAAACAGCGGCACGTATATGAAATTCAAGGGTATTGAAGTACAAA
1 AATTCAAGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAA
43786873 CAGGGACACGCATGTGA
66 CAGGGACA--CATGTGA
* *
43786890 AATTCAAGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTCAAAGGTACCGAAGTACAAA
1 AATTCAAGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTCAAGGGTACTGAAGTAC-AA
* * * *
43786955 CACATGTACATATGTGC
65 -ACAGGGACACATGTGA
* * * * * * *
43786972 AATTTAGGGGTACCGAAGTACAAATAGGGGCATGTATGTACAATTCAGGGGTACTGAAGTGCAAA
1 AATTCAAGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAA
43787037 CAGG
66 CAGG
43787041 TAATCACATA
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
80 4 0.03
81 2 0.02
82 113 0.88
83 2 0.02
84 7 0.05
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.20
Consensus pattern (80 bp):
AATTCAAGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAA
CAGGGACACATGTGA
Found at i:43788868 original size:19 final size:19
Alignment explanation
Indices: 43788844--43788881 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
43788834 AAATGGGATA
43788844 GAGTGAAGATGGATTTTGT
1 GAGTGAAGATGGATTTTGT
*
43788863 GAGTGACGATGGATTTTGT
1 GAGTGAAGATGGATTTTGT
43788882 TTCGAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.37, T:0.37
Consensus pattern (19 bp):
GAGTGAAGATGGATTTTGT
Found at i:43791256 original size:44 final size:42
Alignment explanation
Indices: 43791183--43791322 Score: 131
Period size: 44 Copynumber: 3.3 Consensus size: 42
43791173 ATGTGTTTTT
* ** **
43791183 GTGTAAGACCATGCCTAGGATGTTGGCATCG-ACTTATGATTTAC
1 GTGTAAGACCATGCCTGGGACATCAGCATCGTA-TT-TGATTT-C
43791227 GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
1 GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
* * * *
43791269 GTGTAAGACCCTGTCTGGGACAGT-GGCATCGATATTTGATTAC
1 GTGTAAGACCATGCCTGGGACA-TCAGCATCG-TATTTGATTTC
*
43791312 ATGTAAGACCA
1 GTGTAAGACCA
43791323 CGTCTAGGAT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 27 0.33
43 26 0.32
44 28 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
Found at i:43791305 original size:43 final size:42
Alignment explanation
Indices: 43791169--43791322 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 42
43791159 ACATAGAATC
* * * * **
43791169 CGATATGTGTTTTTGTGTAAGACCATGCCTAGGATGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGCCTGGGA-CATGGCAT
* *
43791212 CGACT-TATGATTTACGTGTAAGACCATGCCTGGGACATCAGCAT
1 CGA-TATTTGATTT-CGTGTAAGACCATGCCTGGGACAT-GGCAT
* *
43791256 CG-TATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGCCTGGGACA-TGGCAT
* *
43791298 CGATATTTGATTACATGTAAGACCA
1 CGATATTTGATTTCGTGTAAGACCA
43791323 CGTCTAGGAT
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 28 0.31
43 37 0.41
44 26 0.29
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
CGATATTTGATTTCGTGTAAGACCATGCCTGGGACATGGCAT
Found at i:43791339 original size:43 final size:43
Alignment explanation
Indices: 43791183--43791340 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
43791173 ATGTGTTTTT
* *
43791183 GTGTAAGACCATGCCTAGGATGTTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCACGCCTAGGATGTTGGCATCGA-TATTTGA-TTAC
* * ** ** *
43791227 GTGTAAGACCATGCCTGGGACATCAGCATCG-TATTTGATTTC
1 GTGTAAGACCACGCCTAGGATGTTGGCATCGATATTTGATTAC
* * *
43791269 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GCCTAGGA-TGTTGGCATCGATATTTGATTAC
* *
43791312 ATGTAAGACCACGTCTAGGATGTTGGCAT
1 GTGTAAGACCACGCCTAGGATGTTGGCAT
43791341 TGTACTGGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 28 0.31
43 36 0.40
44 27 0.30
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGCCTAGGATGTTGGCATCGATATTTGATTAC
Found at i:43793865 original size:15 final size:15
Alignment explanation
Indices: 43793847--43793879 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
43793837 GAAGCCCAGA
43793847 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
43793862 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
43793877 ATA
1 ATA
43793880 CGAGAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43796959 original size:51 final size:49
Alignment explanation
Indices: 43796864--43797041 Score: 216
Period size: 51 Copynumber: 3.6 Consensus size: 49
43796854 CTAGTACGCA
*
43796864 TAGTAGCCTGCACTTACTACTACACA--TGAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAA-CAATTATCCGGTACACG
* * * * *
43796912 TAGTAGCCTGCACTTAGTACTACACGCGTGATAGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-ACAA-TTATCCGGTACACG
* * *
43796963 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAACAATTATCCGGTACACG
**
43797012 TAGTAGTTTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
43797042 GCCTCACAAT
Statistics
Matches: 108, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
48 24 0.22
49 37 0.34
50 7 0.06
51 40 0.37
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGAACAATTATCCGGTACACG
Found at i:43796989 original size:99 final size:100
Alignment explanation
Indices: 43796857--43797041 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 100
43796847 AGGCTATCTA
43796857 GTACGCATAGTAGCCTGCACTTACTACTACACATG-AACCAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGGTACACGTAGTAGCCT
*
43796921 GCACTTAGTACTACACGCGTGATAGAAGTTATCGG
66 GCACTTAGTACTACACACGTGATAGAAGTTATCGG
* * **
43796956 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGTTT
1 GTACGCATAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGGTACACGTAGTAGCCT
43797021 GCACTTAGTACTACACACGTG
66 GCACTTAGTACTACACACGTG
43797042 GCCTCACAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 34 0.43
100 46 0.57
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATAGAAGTTATCGG
Found at i:43804205 original size:41 final size:40
Alignment explanation
Indices: 43804158--43804405 Score: 210
Period size: 41 Copynumber: 6.1 Consensus size: 40
43804148 CGGAGTGTAA
* *
43804158 AGGGCACGTATTTGTAATTCAAGGGTACCAAAGTACAAAC
1 AGGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* ***
43804198 AGCGGCACGTATATGAAATTCAAGGGTATTGAAGTACAAAC
1 AG-GGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* *
43804239 AGGGACACGCATGTGAAATTCAAGGGTACCAAAGTACAAAT
1 AGGG-CACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* * *
43804280 AGGGGCACGTATGTGCAATTCAAAGGTACCGAAGTACAAAC
1 A-GGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
** * * * * * * *
43804321 ACATGTACATATGTGCAATTTAGGGGTACCGAAGTACAAAT
1 A-GGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* * ** *
43804362 AGGGGCATGTATGT-ACAATTCAGGGGTACTGAAGTGCAAAC
1 A-GGGCACGTATGTGA-AATTCAAGGGTACCAAAGTACAAAC
43804403 AGG
1 AGG
43804406 TAATCACATA
Statistics
Matches: 168, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
40 6 0.04
41 159 0.95
42 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (40 bp):
AGGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
Found at i:43804314 original size:82 final size:80
Alignment explanation
Indices: 43804173--43804405 Score: 268
Period size: 82 Copynumber: 2.9 Consensus size: 80
43804163 ACGTATTTGT
* * * * *
43804173 AATTCAAGGGTACCAAAGTACAAACAGCGGCACGTATATGAAATTCAAGGGTATTGAAGTACAAA
1 AATTCAAGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAA
43804238 CAGGGACACGCATGTGA
66 CAGGGACA--CATGTGA
* *
43804255 AATTCAAGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTCAAAGGTACCGAAGTACAAA
1 AATTCAAGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTCAAGGGTACTGAAGTAC-AA
* * * *
43804320 CACATGTACATATGTGC
65 -ACAGGGACACATGTGA
* * * * * * *
43804337 AATTTAGGGGTACCGAAGTACAAATAGGGGCATGTATGTACAATTCAGGGGTACTGAAGTGCAAA
1 AATTCAAGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAA
43804402 CAGG
66 CAGG
43804406 TAATCACATA
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
80 4 0.03
81 2 0.02
82 113 0.88
83 2 0.02
84 7 0.05
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.20
Consensus pattern (80 bp):
AATTCAAGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAA
CAGGGACACATGTGA
Found at i:43806233 original size:19 final size:19
Alignment explanation
Indices: 43806209--43806246 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
43806199 AAATGGGATA
43806209 GAGTGAAGATGGATTTTGT
1 GAGTGAAGATGGATTTTGT
*
43806228 GAGTGACGATGGATTTTGT
1 GAGTGAAGATGGATTTTGT
43806247 TTCGAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.37, T:0.37
Consensus pattern (19 bp):
GAGTGAAGATGGATTTTGT
Found at i:43808621 original size:44 final size:42
Alignment explanation
Indices: 43808548--43808687 Score: 131
Period size: 44 Copynumber: 3.3 Consensus size: 42
43808538 ATGTGTTTTT
* ** **
43808548 GTGTAAGACCATGCCTAGGATGTTGGCATCG-ACTTATGATTTAC
1 GTGTAAGACCATGCCTGGGACATCAGCATCGTA-TT-TGATTT-C
43808592 GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
1 GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
* * * *
43808634 GTGTAAGACCCTGTCTGGGACAGT-GGCATCGATATTTGATTAC
1 GTGTAAGACCATGCCTGGGACA-TCAGCATCG-TATTTGATTTC
*
43808677 ATGTAAGACCA
1 GTGTAAGACCA
43808688 CGTCTAGGAT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 27 0.33
43 26 0.32
44 28 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
Found at i:43808670 original size:43 final size:42
Alignment explanation
Indices: 43808534--43808687 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 42
43808524 ACATAGAATC
* * * * **
43808534 CGATATGTGTTTTTGTGTAAGACCATGCCTAGGATGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGCCTGGGA-CATGGCAT
* *
43808577 CGACT-TATGATTTACGTGTAAGACCATGCCTGGGACATCAGCAT
1 CGA-TATTTGATTT-CGTGTAAGACCATGCCTGGGACAT-GGCAT
* *
43808621 CG-TATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGCCTGGGACA-TGGCAT
* *
43808663 CGATATTTGATTACATGTAAGACCA
1 CGATATTTGATTTCGTGTAAGACCA
43808688 CGTCTAGGAT
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 28 0.31
43 37 0.41
44 26 0.29
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
CGATATTTGATTTCGTGTAAGACCATGCCTGGGACATGGCAT
Found at i:43808704 original size:43 final size:43
Alignment explanation
Indices: 43808548--43808705 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
43808538 ATGTGTTTTT
* *
43808548 GTGTAAGACCATGCCTAGGATGTTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCACGCCTAGGATGTTGGCATCGA-TATTTGA-TTAC
* * ** ** *
43808592 GTGTAAGACCATGCCTGGGACATCAGCATCG-TATTTGATTTC
1 GTGTAAGACCACGCCTAGGATGTTGGCATCGATATTTGATTAC
* * *
43808634 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GCCTAGGA-TGTTGGCATCGATATTTGATTAC
* *
43808677 ATGTAAGACCACGTCTAGGATGTTGGCAT
1 GTGTAAGACCACGCCTAGGATGTTGGCAT
43808706 TGTACTGGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 28 0.31
43 36 0.40
44 27 0.30
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGCCTAGGATGTTGGCATCGATATTTGATTAC
Found at i:43811565 original size:24 final size:24
Alignment explanation
Indices: 43811505--43811570 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
43811495 TATGACCCAT
*
43811505 AGCTCGTGAGAGCATACCGATTAT
1 AGCTCGTGAGAGCATACCGATTAC
* *
43811529 AGATTC-TGAGAGCATACTGATTAC
1 AG-CTCGTGAGAGCATACCGATTAC
*
43811553 AGCTCGTGTGAGCATACC
1 AGCTCGTGAGAGCATACC
43811571 TGTACAGGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 2 0.06
24 30 0.88
25 2 0.06
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AGCTCGTGAGAGCATACCGATTAC
Found at i:43813887 original size:40 final size:40
Alignment explanation
Indices: 43813736--43813880 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
43813726 TGAATGATGT
* * *
43813736 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
* * *
43813775 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
43813816 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-A
*
43813856 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43813881 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.03
40 75 0.85
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:43813899 original size:80 final size:80
Alignment explanation
Indices: 43813735--43813886 Score: 191
Period size: 80 Copynumber: 1.9 Consensus size: 80
43813725 TTGAATGATG
* *
43813735 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
43813800 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
43813815 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
43813878 TTGAACGAG
64 TTGAACGAG
43813887 TAGCTATATC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
79 1 0.02
80 53 0.87
81 7 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:43823088 original size:44 final size:43
Alignment explanation
Indices: 43823021--43823151 Score: 160
Period size: 44 Copynumber: 3.0 Consensus size: 43
43823011 GTTGGTATTA
* *
43823021 ATCT-AAATTTTTGTGTAAGACCGTGTCTAGGACATAGGCATCG
1 ATCTGAAA-TTTTGTGTAAGACCGTGTCTGGGACACAGGCATCG
*
43823064 ATTTGAAATTTTCGTGTAAGACCGTGTCTGGGACACAGGCATCG
1 ATCTGAAATTTT-GTGTAAGACCGTGTCTGGGACACAGGCATCG
* * *
43823108 TATCTG--ATTTTGTATAAGACCTTGTCTGGGACAGAGGCATCG
1 -ATCTGAAATTTTGTGTAAGACCGTGTCTGGGACACAGGCATCG
43823150 AT
1 AT
43823152 ATAGAATTAC
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
41 2 0.03
42 28 0.36
43 12 0.15
44 32 0.41
45 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
ATCTGAAATTTTGTGTAAGACCGTGTCTGGGACACAGGCATCG
Found at i:43825198 original size:24 final size:24
Alignment explanation
Indices: 43825150--43825214 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
43825140 ATTCCAACCC
* **
43825150 ATAGCTTGTGAGAGCATACTGATT
1 ATAGCTCGTGAGAGCATACCAATT
*
43825174 ATAGCTCGTGAGAGCTTACCAATT
1 ATAGCTCGTGAGAGCATACCAATT
* *
43825198 ACAGCTCGTGTGAGCAT
1 ATAGCTCGTGAGAGCAT
43825215 TCATCTATAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (24 bp):
ATAGCTCGTGAGAGCATACCAATT
Found at i:43835480 original size:27 final size:27
Alignment explanation
Indices: 43835436--43835524 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
43835426 CAAAATAGTC
* * * * *
43835436 ATTTTACCCTATAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATGTCGATA
* *
43835463 ATGTTT-CACTACAAGGGTATTTTGATA
1 AT-TTTACACTACAAGGGTATGTCGATA
*
43835490 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATGTCGATA
43835517 ATTTTACA
1 ATTTTACA
43835525 AAACGGGGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
26 3 0.06
27 46 0.88
28 3 0.06
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTCGATA
Found at i:43835534 original size:27 final size:27
Alignment explanation
Indices: 43835476--43835841 Score: 343
Period size: 27 Copynumber: 13.7 Consensus size: 27
43835466 TTTCACTACA
* * *
43835476 AGGGTATTTTGATAATTTTAC-ACTACA
1 AGGGTATTTCGATAATTTTACAAAT-CG
*
43835503 AGGGTATTTCGATAATTTTACAAAACG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
43835530 GGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
43835557 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
43835584 A-GGT-GTTCTGATAATTTTACAAATTG
1 AGGGTATTTC-GATAATTTTACAAATCG
* * * *
43835610 AGGTTGTTTCGGTAATTATACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
43835637 AGGGTATTTC-ACTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
43835663 TGGGTATTTCGATAATTTTACATATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* * **
43835690 AGGGTTTTTCGATAATTTTGCAAATTA
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
43835717 AGGGTGTTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
43835744 AGGGTATTT-TAGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
43835770 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
43835797 GGGGTATTTTGGTAACTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
43835824 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
43835842 CCCTTTAATA
Statistics
Matches: 275, Mismatches: 53, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.01
26 63 0.23
27 205 0.75
28 4 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:43835620 original size:107 final size:107
Alignment explanation
Indices: 43835502--43835841 Score: 389
Period size: 107 Copynumber: 3.2 Consensus size: 107
43835492 TTTACACTAC
* * * * * * *
43835502 AAGGGTATTTCGATAATTTTACAAAACGGGGGTGTTTTGGTAATTTTACAAATCGAGGGTATTTC
1 AAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC-AATCGAGGGTATTTC
43835567 GATAATTTTACAAATCGA-GGTGTTCT-GATAATTTTACAAATT
65 GATAATTTTACAAATCGAGGGT-TTCTCGATAATTTTACAAATT
* * * * * *
43835609 GAGGTTGTTTCGGTAATTATACAAATCGAGGGTATTTCACTAATTTCACAATCGTGGGTATTTCG
1 AAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCG
* * * *
43835674 ATAATTTTACATATCAAGGGTTTTTCGATAATTTTGCAAATT
66 ATAATTTTACAAATCGAGGGTTTCTCGATAATTTTACAAATT
*
43835716 AAGGGTGTTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCG
1 AAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCG
* * * * * *
43835781 GTAATTTTACAAATCGGGGGTATT-TTGGTAACTTTACAAATC
66 ATAATTTTACAAATCGAGGGT-TTCTCGATAATTTTACAAATT
* * *
43835823 GAGGGTATTTCAGTAATTT
1 AAGGGTGTTTCGGTAATTT
43835842 CCCTTTAATA
Statistics
Matches: 194, Mismatches: 36, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
106 33 0.17
107 159 0.82
108 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (107 bp):
AAGGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTCG
ATAATTTTACAAATCGAGGGTTTCTCGATAATTTTACAAATT
Found at i:43835842 original size:80 final size:81
Alignment explanation
Indices: 43835476--43835841 Score: 370
Period size: 80 Copynumber: 4.6 Consensus size: 81
43835466 TTTCACTACA
* * * * * *
43835476 AGGGTATTTTGATAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAAACGGGGGTGTTTT
1 AGGGTATTTCGATAATTTTACAAAT-CGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTC
43835540 GGTAATTTTACAAATCG
65 GGTAATTTTACAAATCG
* * *
43835557 AGGGTATTTCGATAATTTTACAAATCGA-GGT-GTTCTGATAATTTTACAAATTGAGGTTGTTTC
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTC-GATAATTTTACAAATCGAGGGTGTTTC
*
43835620 GGTAATTATACAAATCG
65 GGTAATTTTACAAATCG
* * * * *
43835637 AGGGTATTTC-ACTAATTTCAC-AATCGTGGGTATTTCGATAATTTTACATATCAAGGGTTTTTC
1 AGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTC
* * **
43835700 GATAATTTTGCAAATTA
65 GGTAATTTTACAAATCG
* * * * * *
43835717 AGGGTGTTTCGGTAATTTTACAAATTGAGGGTATTT-TAGTAATTTCAC-AATCGAGGGTATTTC
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCGAGGGTGTTTC
43835780 GGTAATTTTACAAATCG
65 GGTAATTTTACAAATCG
* * * *
43835797 GGGGTATTTTGGTAACTTTACAAATCGAGGGTATTTC-AGTAATTT
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGA-TAATTT
43835842 CCCTTTAATA
Statistics
Matches: 234, Mismatches: 42, Indels: 19
0.79 0.14 0.06
Matches are distributed among these distances:
79 9 0.04
80 178 0.76
81 45 0.19
82 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCG
GTAATTTTACAAATCG
Found at i:43836212 original size:28 final size:28
Alignment explanation
Indices: 43836181--43836249 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
43836171 TTCGCATGTA
*
43836181 CCATCAGACCCAATCACATTCATATGGC
1 CCATCAGACCCAATCACATTCATATCGC
*
43836209 CCATCAGGCCCAATCACATTCATATCGC
1 CCATCAGACCCAATCACATTCATATCGC
*
43836237 CCATCAAACCCAA
1 CCATCAGACCCAA
43836250 GTACTTACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.33, C:0.39, G:0.09, T:0.19
Consensus pattern (28 bp):
CCATCAGACCCAATCACATTCATATCGC
Found at i:43838678 original size:34 final size:33
Alignment explanation
Indices: 43838635--43838702 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 33
43838625 ATAATCCAAC
*
43838635 CGCTACACACTAACTCTTTCCCTCGGTACACAT
1 CGCTACACACCAACTCTTTCCCTCGGTACACAT
43838668 NCGCTACACACCAACTCTTTCCCTCGGTACACAT
1 -CGCTACACACCAACTCTTTCCCTCGGTACACAT
43838702 C
1 C
43838703 ATGTGGGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.24, C:0.41, G:0.09, T:0.25
Consensus pattern (33 bp):
CGCTACACACCAACTCTTTCCCTCGGTACACAT
Found at i:43839137 original size:27 final size:27
Alignment explanation
Indices: 43839087--43839179 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
43839077 AGGGCAAAAT
* * *
43839087 AGTCATTTTACCCTATAAAAGTATGTC
1 AGTCATTTTACACTACAAAGGTATGTC
* * *
43839114 GGTCATTTTACACTACAAGGGTATTTC
1 AGTCATTTTACACTACAAAGGTATGTC
* * *
43839141 AGTAATTTTACACTACAATGGTATTTC
1 AGTCATTTTACACTACAAAGGTATGTC
* *
43839168 AATAATTTTACA
1 AGTCATTTTACA
43839180 AATCAGGGGT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (27 bp):
AGTCATTTTACACTACAAAGGTATGTC
Found at i:43839194 original size:27 final size:27
Alignment explanation
Indices: 43839132--43839603 Score: 303
Period size: 27 Copynumber: 17.6 Consensus size: 27
43839122 TACACTACAA
* *
43839132 GGGTATTTCAGTAATTTTAC-ACTACAA
1 GGGTATTTCAGTAATTTTACAAAT-CAG
* *
43839159 TGGTATTTCAATAATTTTACAAATCAG
1 GGGTATTTCAGTAATTTTACAAATCAG
* * * *
43839186 GGGTGTTTCGGTAATTTTACAAATTAA
1 GGGTATTTCAGTAATTTTACAAATCAG
* ** *
43839213 GGGTGTTTTGGTAATTTCACAAATCGAG
1 GGGTATTTCAGTAATTTTACAAATC-AG
* *
43839241 GTTGT-TTT-GGTAATTTTACAAATC-G
1 G-GGTATTTCAGTAATTTTACAAATCAG
* *
43839266 AGGGT-GTTCCGATAATTTTACAAATC-G
1 -GGGTATTTCAG-TAATTTTACAAATCAG
* * *
43839293 AGGGTGTTTC-GATAATTTTATAAAT-TG
1 -GGGTATTTCAG-TAATTTTACAAATCAG
* * *
43839320 AGGGTATTTCAGTAATTTCACAATTGA-
1 -GGGTATTTCAGTAATTTTACAAATCAG
* *
43839347 GGGTATTTCAATAA-TTTACAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCAG
* **
43839373 GGGTGTTTCAAAAATTTTACAAATC-G
1 GGGTATTTCAGTAATTTTACAAATCAG
* *
43839399 AGGGTGTTTCGGTAATTTTACAAATCGAG
1 -GGGTATTTCAGTAATTTTACAAATC-AG
* * * *
43839428 GGGT-TTTTAGTAATTTCACAATTGA-
1 GGGTATTTCAGTAATTTTACAAATCAG
* * * *
43839453 TGGTATTTTAGTAATTTTAAAAATTAG
1 GGGTATTTCAGTAATTTTACAAATCAG
*
43839480 GGGTATTTCAGTAATTTGACAAATC-G
1 GGGTATTTCAGTAATTTTACAAATCAG
* *
43839506 AGGGTATTTTAGTAATTTTA-AAATCAA
1 -GGGTATTTCAGTAATTTTACAAATCAG
*
43839533 GGGTATTTC-GATAATTTTATAAATC-G
1 GGGTATTTCAG-TAATTTTACAAATCAG
* * *
43839559 AAGGTATTTCGGTAATTTTACAAATCAA
1 -GGGTATTTCAGTAATTTTACAAATCAG
*
43839587 GGTTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
43839604 CTCTTTATTA
Statistics
Matches: 359, Mismatches: 62, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
25 17 0.05
26 67 0.19
27 256 0.71
28 16 0.04
29 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCAG
Found at i:43839227 original size:81 final size:81
Alignment explanation
Indices: 43839129--43839584 Score: 275
Period size: 80 Copynumber: 5.7 Consensus size: 81
43839119 TTTTACACTA
* * *
43839129 CAAGGGTATTTCAGTAATTTTAC-ACTACAATGG-TATTTCAATAATTTTACAAATC-AGGGGTG
1 CAAGGGTGTTTCGGTAATTTTACAAAT-CAA-GGTTATTTCAATAATTTTACAAATCGA-GGGTG
* *
43839191 TTTCGGTAATTTTACAAAT
63 TTCCGATAATTTTACAAAT
* * * * * ***
43839210 TAAGGGTGTTTTGGTAATTTCACAAATCGAGGTTGTTTTGGTAATTTTACAAATCGAGGGTGTTC
1 CAAGGGTGTTTCGGTAATTTTACAAATCAAGGTTATTTCAATAATTTTACAAATCGAGGGTGTTC
43839275 CGATAATTTTACAAAT
66 CGATAATTTTACAAAT
* * * ** * * * * * *
43839291 CGAGGGTGTTTCGATAATTTTATAAATTGAGGGTATTTCAGTAATTTCAC-AATTGAGGGTATTT
1 CAAGGGTGTTTCGGTAATTTTACAAATCAAGGTTATTTCAATAATTTTACAAATCGAGGGTGTTC
*
43839355 CAATAA-TTTACAAAT
66 CGATAATTTTACAAAT
*** * * * ** *
43839370 CAAGGGTGTTTCAAAAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGG-GTTT
1 CAAGGGTGTTTCGGTAATTTTACAAATCAAGGTTATTTCAATAATTTTACAAATCGAGGGTGTTC
** *
43839434 TTAGTAATTTCAC-AAT
66 CGA-TAATTTTACAAAT
** * * ** * * * * * * *
43839450 TGATGGTATTTTAGTAATTTTAAAAATTAGGGGTATTTCAGTAATTTGACAAATCGAGGGTATT-
1 CAAGGGTGTTTCGGTAATTTTACAAATCAAGGTTATTTCAATAATTTTACAAATCGAGGGTGTTC
**
43839514 TTAGTAATTTTA-AAAT
66 CGA-TAATTTTACAAAT
* * * **
43839530 CAAGGGTATTTCGATAATTTTATAAATCGAAGG-TATTTCGGTAATTTTACAAATC
1 CAAGGGTGTTTCGGTAATTTTACAAATC-AAGGTTATTTCAATAATTTTACAAATC
43839585 AAGGTTATTT
Statistics
Matches: 297, Mismatches: 69, Indels: 19
0.77 0.18 0.05
Matches are distributed among these distances:
79 55 0.19
80 132 0.44
81 107 0.36
82 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (81 bp):
CAAGGGTGTTTCGGTAATTTTACAAATCAAGGTTATTTCAATAATTTTACAAATCGAGGGTGTTC
CGATAATTTTACAAAT
Found at i:43839228 original size:54 final size:54
Alignment explanation
Indices: 43839131--43839603 Score: 415
Period size: 54 Copynumber: 8.8 Consensus size: 54
43839121 TTACACTACA
* * * * *
43839131 AGGGTATTTCAGTAATTTTAC-ACTACAATGGTATTTCAATAATTTTACAAATC-
1 AGGGTATTTCGGTAATTTTACAAAT-CAAGGGTGTTTCAGTAATTTTACAAATCG
* * ** *
43839184 AGGGGTGTTTCGGTAATTTTACAAATTAAGGGTGTTTTGGTAATTTCACAAATCG
1 A-GGGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCAGTAATTTTACAAATCG
* * * * *
43839239 AGGTTGTTTTGGTAATTTTACAAATCGAGGGTG-TTCCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCAG-TAATTTTACAAATCG
* * * ** * * *
43839293 AGGGTGTTTCGATAATTTTATAAATTGAGGGTATTTCAGTAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCAGTAATTTTACAAATCG
** **
43839346 AGGGTATTTCAATAA-TTTACAAATCAAGGGTGTTTCAAAAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCAGTAATTTTACAAATCG
* * * * *
43839399 AGGGTGTTTCGGTAATTTTACAAATCGAGGG-GTTTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTG-TTTCAGTAATTTTACAAATCG
* ** * * * * *
43839452 ATGGTATTTTAGTAATTTTAAAAATTAGGGGTATTTCAGTAATTTGACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCAGTAATTTTACAAATCG
** * *
43839506 AGGGTATTTTAGTAATTTTA-AAATCAAGGGTATTTC-GATAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCAG-TAATTTTACAAATCG
* * *
43839559 AAGGTATTTCGGTAATTTTACAAATCAAGGTTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCAGTAATTT
43839604 CTCTTTATTA
Statistics
Matches: 341, Mismatches: 66, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
52 26 0.08
53 122 0.36
54 185 0.54
55 8 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCAAGGGTGTTTCAGTAATTTTACAAATCG
Found at i:43839602 original size:160 final size:161
Alignment explanation
Indices: 43839160--43839604 Score: 485
Period size: 160 Copynumber: 2.8 Consensus size: 161
43839150 ACACTACAAT
* * * * * * *
43839160 GGTATTTCAATAATTTTACAAATC-AGGGGTGTTTCGGTAATTTTACAAATTAAGGGTGTTTTGG
1 GGTATTTCAGTAATTTCACAAATCGA-GGGTATTTCAGTAATTTTACAAATCAAGGGTGTTTCGA
* * * * * * *
43839224 TAATTTCACAAATCG-AGGTTGTTTTGGTAATTTTACAAATCGAGGGTGTTCCGATAATTTTACA
65 TAATTTTACAAATCGAAGG-TGTTTCGGTAATTTTACAAATCAAGGTTTTTCAG-TAATTTCACA
* *
43839288 AATCGAGGGTGTTTCGATAATTTTATAAATTGAG
128 AATCGAGGGTGTTTAGATAATTTTAAAAATTGAG
* * * *
43839322 GGTATTTCAGTAATTTCAC-AATTGAGGGTATTTCAATAA-TTTACAAATCAAGGGTGTTTCAAA
1 GGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAGTAATTTTACAAATCAAGGGTGTTTCGAT
* *
43839385 AATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGGTTTTT-AGTAATTTCAC-A
66 AATTTTACAAATCGAAGGTGTTTCGGTAATTTTACAAATC-A-AGGTTTTTCAGTAATTTCACAA
* * *
43839448 ATTGATGGTATTTTAG-TAATTTTAAAAATT-AGG
129 ATCGAGGGT-GTTTAGATAATTTTAAAAATTGA-G
* * *
43839481 GGTATTTCAGTAATTTGACAAATCGAGGGTATTTTAGTAATTTTA-AAATCAAGGGTATTTCGAT
1 GGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAGTAATTTTACAAATCAAGGGTGTTTCGAT
* *
43839545 AATTTTATAAATCGAAGGTATTTCGGTAATTTTACAAATCAAGGTTATTTCAGTAATTTC
66 AATTTTACAAATCGAAGGTGTTTCGGTAATTTTACAAATCAAGGTT-TTTCAGTAATTTC
43839605 TCTTTATTAT
Statistics
Matches: 237, Mismatches: 36, Indels: 22
0.80 0.12 0.07
Matches are distributed among these distances:
158 5 0.02
159 44 0.19
160 144 0.61
161 21 0.09
162 23 0.10
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (161 bp):
GGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAGTAATTTTACAAATCAAGGGTGTTTCGAT
AATTTTACAAATCGAAGGTGTTTCGGTAATTTTACAAATCAAGGTTTTTCAGTAATTTCACAAAT
CGAGGGTGTTTAGATAATTTTAAAAATTGAG
Found at i:43839952 original size:28 final size:28
Alignment explanation
Indices: 43839919--43840010 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
43839909 CAGCCCCTTT
* ***
43839919 AGGCCCAATCTCGTTTGCATGGCCCATC
1 AGGCCCAATCACGTTCATATGGCCCATC
*
43839947 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACGTTCATATGGCCCATC
43839975 AGGCCCAATCACGTTCATATGGCCCATC
1 AGGCCCAATCACGTTCATATGGCCCATC
*
43840003 AAGCCCAA
1 AGGCCCAA
43840011 CTACTTCCCA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.21
Consensus pattern (28 bp):
AGGCCCAATCACGTTCATATGGCCCATC
Found at i:43846572 original size:135 final size:137
Alignment explanation
Indices: 43846420--43846701 Score: 448
Period size: 136 Copynumber: 2.1 Consensus size: 137
43846410 AAGAACATAG
*
43846420 ATATAATTAATATATGAATTTGATTCATACAAAATATT-GATTGTATATA-TTTTACCGAATTTA
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAG-TTGTATATATTTTTACCAAATTTA
43846483 TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACAT-G-A-AATATTCTTT
65 TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAATAATATTCTTT
43846545 TGGAAAGA
130 TGGAAAGA
*
43846553 ATATAATTAAAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTTATCAAATTT
1 ATATAATT--AATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTTACCAAATTT
* *
43846618 ATTAATATAAACAGTTATATTAATTAATTTTGGTTAAAATATAAAAGACATGGAAATTAATATTC
64 ATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGG-AA-TAATATTC
43846683 TTTTGGAAAGA
127 TTTTGGAAAGA
43846694 ATATAATT
1 ATATAATT
43846702 CCTTTTTCTA
Statistics
Matches: 136, Mismatches: 4, Indels: 10
0.91 0.03 0.07
Matches are distributed among these distances:
133 8 0.06
135 39 0.29
136 61 0.45
137 1 0.01
139 1 0.01
141 26 0.19
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.41
Consensus pattern (137 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTTACCAAATTTAT
TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAATAATATTCTTTT
GGAAAGA
Found at i:43846802 original size:76 final size:75
Alignment explanation
Indices: 43846677--43846827 Score: 230
Period size: 76 Copynumber: 2.0 Consensus size: 75
43846667 ATGGAAATTA
* * * *
43846677 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTTCATTTGCCTTCTCTATTAATAATG
1 ATATTCTTTTGAAAAAAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
43846742 CAATAATCCT
66 CAATAATCCT
* *
43846752 ATATTCTTTTGAAAAAAAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTTTCTGTTAATAAG
1 ATATTCTTTTG-AAAAAAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAG
*
43846817 GGAATAATCCT
65 GCAATAATCCT
43846828 GGTTTTTCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
75 11 0.16
76 57 0.84
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTGAAAAAAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
CAATAATCCT
Found at i:43849870 original size:24 final size:24
Alignment explanation
Indices: 43849843--43849890 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
43849833 TGGTGAATAT
*
43849843 ATATATG-AGGTTATGGTATGGTTA
1 ATATATGTAGGTT-TGATATGGTTA
*
43849867 ATATATGTATGTTTGATATGGTTA
1 ATATATGTAGGTTTGATATGGTTA
43849891 GATTGAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (24 bp):
ATATATGTAGGTTTGATATGGTTA
Found at i:43851089 original size:15 final size:13
Alignment explanation
Indices: 43851051--43851081 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
43851041 AGGGGACACA
43851051 TGACCGTGTCACC
1 TGACCGTGTCACC
43851064 TGACCGTGTCACC
1 TGACCGTGTCACC
43851077 TGACC
1 TGACC
43851082 ATGTGTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.39, G:0.23, T:0.23
Consensus pattern (13 bp):
TGACCGTGTCACC
Found at i:43858977 original size:39 final size:39
Alignment explanation
Indices: 43858917--43858998 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
43858907 AACTTAATGT
*
43858917 CTAGCAGGCCTCGTCCTGGTGATAAATTTAGGTTTATAC
1 CTAGCAGGCCTCGTCCTGGTGATAAATTCAGGTTTATAC
* *
43858956 CTAGCAGGCCTGGTGCC-GGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCGT-CCTGGTGATAAATTCAGGTTTATAC
43858995 CTAG
1 CTAG
43858999 TAGAGTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
39 37 0.95
40 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (39 bp):
CTAGCAGGCCTCGTCCTGGTGATAAATTCAGGTTTATAC
Found at i:43867666 original size:27 final size:27
Alignment explanation
Indices: 43867635--43867785 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
43867625 TAAATTGTAC
43867635 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
43867662 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
43867688 ATGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCGA-TTTGACTATGT
* * *
43867717 AGCACTAAGTGTGCGACTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43867744 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43867771 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43867786 GACTCAATAT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 82 0.79
28 21 0.20
29 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43867722 original size:55 final size:55
Alignment explanation
Indices: 43867635--43867785 Score: 191
Period size: 55 Copynumber: 2.8 Consensus size: 55
43867625 TAAATTGTAC
* *
43867635 AGCACTAAGTGTGCGA-TTTGACTATGTTGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGT
*** *
43867688 ATGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGACTTGATTACGT
1 A-GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGT
* * *
43867744 AGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG
43867786 GACTCAATAT
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 37 0.43
55 47 0.55
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGT
Found at i:43870401 original size:39 final size:39
Alignment explanation
Indices: 43870351--43870437 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
43870341 AACTTAATGT
43870351 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
*
43870390 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
43870429 CTAGCAGGC
1 CTAGCAGGC
43870438 TAATTCCCGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:43870448 original size:39 final size:39
Alignment explanation
Indices: 43870351--43870450 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
43870341 AACTTAATGT
* *
43870351 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTAGTCCCGGTGATAAATTCAGGTTTATAC
* * *
43870390 CTAGCAGGCCTCGTGCCGGTGATAAGTTCAGGTTTATAC
1 CTAGCAGGCCTAGTCCCGGTGATAAATTCAGGTTTATAC
*
43870429 CTAGCAGG-CTAATTCCCGGTGA
1 CTAGCAGGCCT-AGTCCCGGTGA
43870451 GATAATAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
38 2 0.04
39 54 0.96
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (39 bp):
CTAGCAGGCCTAGTCCCGGTGATAAATTCAGGTTTATAC
Found at i:43871695 original size:10 final size:10
Alignment explanation
Indices: 43871680--43871722 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
43871670 CAATTTACCA
43871680 ACCAAATCAT
1 ACCAAATCAT
*
43871690 ACCAAATCTAA
1 ACCAAATC-AT
43871701 ACCAAAATCAT
1 ACC-AAATCAT
*
43871712 ACCAAAGCAT
1 ACCAAATCAT
43871722 A
1 A
43871723 TATTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:43872545 original size:42 final size:44
Alignment explanation
Indices: 43872498--43872592 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
43872488 TCCTAGGCAG
* * *
43872498 GGTCTTACAC-AAAATCA-AA-TACAATGCTAATGTCCTAGTTGT
1 GGTCTTACACGAAAATCATAAGT-CAATGCCAACGTCCTAGATGT
*
43872540 GGTCTTACACGTAAATCATAAGTCAATGCCAACGTCCTAGATGT
1 GGTCTTACACGAAAATCATAAGTCAATGCCAACGTCCTAGATGT
43872584 GGTCTTACA
1 GGTCTTACA
43872593 TGATAACACA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 10 0.22
43 6 0.13
44 29 0.63
45 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (44 bp):
GGTCTTACACGAAAATCATAAGTCAATGCCAACGTCCTAGATGT
Found at i:43887306 original size:22 final size:20
Alignment explanation
Indices: 43887259--43887299 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
43887249 CTTTAGACCA
43887259 TATTTAGACAAATTTTTTTT
1 TATTTAGACAAATTTTTTTT
*
43887279 TATTTAGACAGATTTTTTTT
1 TATTTAGACAAATTTTTTTT
43887299 T
1 T
43887300 GTATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (20 bp):
TATTTAGACAAATTTTTTTT
Found at i:43901317 original size:27 final size:28
Alignment explanation
Indices: 43901279--43901339 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
43901269 TGTACCTAGA
43901279 CCCCTA-ATTGATAAAATGACTAAAATG
1 CCCCTATATTGATAAAATGACTAAAATG
**
43901306 CCCCTATA-TGATAAAATGACTATTATG
1 CCCCTATATTGATAAAATGACTAAAATG
43901333 CCCCTAT
1 CCCCTAT
43901340 GAGATGTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (28 bp):
CCCCTATATTGATAAAATGACTAAAATG
Found at i:43907670 original size:40 final size:40
Alignment explanation
Indices: 43907626--43907849 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
43907616 GCTCCTCGTT
* * *
43907626 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
43907666 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
43907706 CAAATGCCTTC-GGCCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
43907745 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
43907784 CAAATGCCTTC-GGATCTTGGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
43907825 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43907850 CATCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 71 0.44
41 17 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:43907727 original size:79 final size:78
Alignment explanation
Indices: 43907626--43907849 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
43907616 GCTCCTCGTT
* * *
43907626 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGTACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
43907691 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
43907706 CAAATGCCTTCGGCCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGACTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
43907769 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
43907784 CAAATGCCTTCGGATCTTGGTCCGGATATTGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
43907848 GA
63 GA
43907850 CATCATTCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
78 38 0.31
79 53 0.43
80 31 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:43910290 original size:25 final size:25
Alignment explanation
Indices: 43910262--43910313 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
43910252 ATACTGGATC
43910262 GTGATGTAAAGGTTTTAAGGAAAAA
1 GTGATGTAAAGGTTTTAAGGAAAAA
43910287 GTGATGTAAAGGTTTTAAGGAAAAA
1 GTGATGTAAAGGTTTTAAGGAAAAA
43910312 GT
1 GT
43910314 CTATCCCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (25 bp):
GTGATGTAAAGGTTTTAAGGAAAAA
Found at i:43915111 original size:17 final size:17
Alignment explanation
Indices: 43915089--43915130 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
43915079 ATTTTCATAC
43915089 GAGCTTACTAAGCTTTA
1 GAGCTTACTAAGCTTTA
43915106 GAGCTTACTAAGCTTTA
1 GAGCTTACTAAGCTTTA
*
43915123 TAGCTTAC
1 GAGCTTAC
43915131 ATTATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (17 bp):
GAGCTTACTAAGCTTTA
Found at i:43926033 original size:21 final size:21
Alignment explanation
Indices: 43925999--43926054 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
43925989 CCCTTGAAAC
*
43925999 AGGGC-ACACACCCGTATGGA
1 AGGGCAACACGCCCGTATGGA
*
43926019 AGGGCAACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTATGGA
*
43926040 AGGGGAACACGCCCG
1 AGGGCAACACGCCCG
43926055 CGTGGCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.27, C:0.30, G:0.36, T:0.07
Consensus pattern (21 bp):
AGGGCAACACGCCCGTATGGA
Found at i:43926059 original size:21 final size:21
Alignment explanation
Indices: 43926015--43926059 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
43926005 CACACCCGTA
*
43926015 TGGAAGGGCAACACGCCCGTG
1 TGGAAGGGCAACACGCCCGCG
*
43926036 TGGAAGGGGAACACGCCCGCG
1 TGGAAGGGCAACACGCCCGCG
43926057 TGG
1 TGG
43926060 CCACTATGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.27, G:0.42, T:0.09
Consensus pattern (21 bp):
TGGAAGGGCAACACGCCCGCG
Found at i:43926495 original size:23 final size:24
Alignment explanation
Indices: 43926465--43926513 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
43926455 CGACTGACCG
*
43926465 TGTGTCACACACGG-CTAGACACA
1 TGTGTCACACACGGCCTACACACA
*
43926488 TGTGTCACACATGGCCTACACACA
1 TGTGTCACACACGGCCTACACACA
43926512 TG
1 TG
43926514 CCCGTGTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (24 bp):
TGTGTCACACACGGCCTACACACA
Found at i:43927508 original size:47 final size:45
Alignment explanation
Indices: 43927399--43927567 Score: 162
Period size: 46 Copynumber: 3.7 Consensus size: 45
43927389 TACGTAGCCG
* * *
43927399 ATGCATGTCCCAGACAT-TCTTGCACTTGCT-TACATCTCGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTC-ATGCCA
* * *
43927444 AAGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-ATGCCA
* * ** * *
43927490 ATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAACGTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCAT-GCCA
43927538 ATGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
43927568 ATACACATAA
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
45 15 0.15
46 34 0.34
47 29 0.29
48 23 0.23
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATGCCA
Found at i:43928880 original size:85 final size:85
Alignment explanation
Indices: 43928734--43928912 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
43928724 GGCCGGCCAT
43928734 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
43928799 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
43928819 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
43928884 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
43928904 GAGCATGGG
1 GAGCATGGG
43928913 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:43936987 original size:27 final size:27
Alignment explanation
Indices: 43936956--43937133 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43936946 TAAATTGTAC
43936956 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43936983 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43937009 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43937037 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43937065 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43937092 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43937119 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43937134 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:43937070 original size:82 final size:81
Alignment explanation
Indices: 43936957--43937112 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43936947 AAATTGTACA
* *
43936957 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43937021 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43937038 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43937103 TGCGAGTTGA
65 TGCGAATTGA
43937113 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:43937124 original size:82 final size:81
Alignment explanation
Indices: 43936953--43937133 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
43936943 GATTAAATTG
* *
43936953 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43937018 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43937034 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43937098 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43937116 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43937134 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:43945050 original size:27 final size:27
Alignment explanation
Indices: 43945019--43945196 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43945009 TAAATTGTAC
43945019 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43945046 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43945072 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43945100 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43945128 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43945155 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43945182 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43945197 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:43945133 original size:82 final size:81
Alignment explanation
Indices: 43945020--43945175 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
43945010 AAATTGTACA
* *
43945020 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43945084 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
43945101 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43945166 TGCGAGTTGA
65 TGCGAATTGA
43945176 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:43945187 original size:82 final size:81
Alignment explanation
Indices: 43945016--43945196 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
43945006 GATTAAATTG
* *
43945016 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43945081 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43945097 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43945161 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43945179 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43945197 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:43949113 original size:50 final size:48
Alignment explanation
Indices: 43948943--43949210 Score: 182
Period size: 48 Copynumber: 5.6 Consensus size: 48
43948933 GTATAATACG
* * * * * * *
43948943 GATGCCATGTCCCAGACAAGGTCTTACAGTGGCTCATCCATCAAGTA--
1 GATGCCATGTCCCAGACATGGTCTTACACTGACGCCTACAT-ACGTACT
** * * *
43948990 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCAAAAACG-AGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACGCCT-ACATACGTA--CT
** *
43949039 GACACCATGTCCCAGACATGGTCTTAGACT-A-GCTCTCACATATCTGTACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACGC-CT-ACATA-C-GTACT
* **
43949089 GATGCCATGTCCCTGACATGGTCTTACACTGACGCCTTTATACGTACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACGCCTACATACGTACT
* * *
43949137 GATGCCATGTCCCAGACATGGTCTTACACTGACACAT-C-TA-GTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACGCCTACATACGTA-CT
43949183 GATG-CATGTCCC-GACAT-GTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
43949211 GCTTACATCT
Statistics
Matches: 181, Mismatches: 27, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
43 11 0.06
44 5 0.03
45 12 0.07
46 11 0.06
47 31 0.17
48 40 0.22
49 33 0.18
50 31 0.17
51 4 0.02
52 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACGCCTACATACGTACT
Found at i:43949254 original size:46 final size:45
Alignment explanation
Indices: 43949137--43949349 Score: 193
Period size: 46 Copynumber: 4.6 Consensus size: 45
43949127 TATACGTACT
* * *
43949137 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTAGTA-GCC
1 GATG-CATGT-CCAGACAT-GTCTTACACTGGCTCTCATCTCG-AGGCC
*
43949183 GATGCATGTCCCGACATGTCTTACACTGGCT-TACATCTCGAGGCC
1 GATGCATGTCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCC
* * * * *
43949228 AATGCATGTTCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCATG-TCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCC
* *
43949274 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCC-AGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCC
43949322 GATGCATGTCCTAGACATGTCTTACACT
1 GATGCATGTCC-AGACATGTCTTACACT
43949350 AGCACACTAG
Statistics
Matches: 140, Mismatches: 17, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
43 10 0.07
44 9 0.06
45 21 0.15
46 50 0.36
47 25 0.18
48 24 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCC
Found at i:43949307 original size:94 final size:91
Alignment explanation
Indices: 43949180--43949352 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 91
43949170 ACATCTAGTA
* *
43949180 GCCGATGCATGTCCCGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCAATGCATGTTCC-AG
1 GCCGATGCATGTCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCAATGCATG-TCCTAG
43949242 ACATGTCTTACACTAGCTCTCGTCTCAAT
63 ACATGTCTTACACTAGCTCTCGTCTCAAT
* *
43949271 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCTAG
1 GCCGATG-CATGTCC-AGACAT-GTCTTACACTGGCTCTCATAATGAGGCCAATGCATGTCCTAG
43949336 ACATGTCTTACACTAGC
63 ACATGTCTTACACTAGC
43949353 ACACTAGCAC
Statistics
Matches: 72, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
91 7 0.10
92 7 0.10
93 8 0.11
94 48 0.67
95 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (91 bp):
GCCGATGCATGTCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCAATGCATGTCCTAGACA
TGTCTTACACTAGCTCTCGTCTCAAT
Found at i:43952106 original size:28 final size:28
Alignment explanation
Indices: 43952066--43952119 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
43952056 TAGTCCCTGG
43952066 GCTAGCTAAATTAAACTACAACTATCAC
1 GCTAGCTAAATTAAACTACAACTATCAC
*
43952094 GCTAGTTAAATTAAACTACAACTATC
1 GCTAGCTAAATTAAACTACAACTATC
43952120 TCAAAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (28 bp):
GCTAGCTAAATTAAACTACAACTATCAC
Found at i:43959769 original size:24 final size:24
Alignment explanation
Indices: 43959742--43959789 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
43959732 TGGTGAATAT
*
43959742 ATATATG-AGGTTATGGTATGGTTA
1 ATATATGTAGGCT-TGGTATGGTTA
*
43959766 ATATATGTATGCTTGGTATGGTTA
1 ATATATGTAGGCTTGGTATGGTTA
43959790 GATTGAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (24 bp):
ATATATGTAGGCTTGGTATGGTTA
Found at i:43960610 original size:85 final size:86
Alignment explanation
Indices: 43960514--43960674 Score: 209
Period size: 85 Copynumber: 1.9 Consensus size: 86
43960504 GAGTGTTATA
* * *
43960514 ATACTAGCACACACAATGCATCATCGAATAA-ATAAAAGCAATTATATAAGCACACATAGTGCAT
1 ATACTAGCACACACAATGCATCATCGAACAAGA-AAAAGCAATTATATAAGCACACACAGTACAT
*
43960578 CATCAGATAAATCAAAGGAAAT
65 CATCAAATAAATCAAAGGAAAT
* * * * * *
43960600 ATACT-GCACACATAGTGCATCATCGGACAAGACAAAGCAATTATGTTAGCACACACAGTACATC
1 ATACTAGCACACACAATGCATCATCGAACAAGAAAAAGCAATTATATAAGCACACACAGTACATC
43960664 ATCAAATAAAT
66 ATCAAATAAAT
43960675 TGAAGCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
85 58 0.91
86 6 0.09
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.21
Consensus pattern (86 bp):
ATACTAGCACACACAATGCATCATCGAACAAGAAAAAGCAATTATATAAGCACACACAGTACATC
ATCAAATAAATCAAAGGAAAT
Found at i:43960695 original size:43 final size:43
Alignment explanation
Indices: 43960518--43960710 Score: 174
Period size: 43 Copynumber: 4.5 Consensus size: 43
43960508 GTTATAATAC
* * *
43960518 TAGCACACACAATGCATCATCGAATAAATAAAAGCAATTATAT
1 TAGCACACACAGTGCATCATCAAATAAATCAAAGCAATTATAT
* * * * * *
43960561 AAGCACACATAGTGCATCATCAGATAAATCAAAGGAAATATAC
1 TAGCACACACAGTGCATCATCAAATAAATCAAAGCAATTATAT
* ** * *
43960604 T-GCACACATAGTGCATCATCGGACAAGA-CAAAGCAATTATGT
1 TAGCACACACAGTGCATCATCAAATAA-ATCAAAGCAATTATAT
* **
43960646 TAGCACACACAGTACATCATCAAATAAATTGAAGCAATTATAT
1 TAGCACACACAGTGCATCATCAAATAAATCAAAGCAATTATAT
* * * *
43960689 TGGCACATACAATACATCATCA
1 TAGCACACACAGTGCATCATCA
43960711 GATATTTCTA
Statistics
Matches: 120, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
42 35 0.29
43 85 0.71
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.22
Consensus pattern (43 bp):
TAGCACACACAGTGCATCATCAAATAAATCAAAGCAATTATAT
Found at i:43962650 original size:16 final size:16
Alignment explanation
Indices: 43962629--43962675 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
43962619 GGGGTGAATA
43962629 GAATAGGACTGTAATG
1 GAATAGGACTGTAATG
*
43962645 GAATAGTG-TTGTAATG
1 GAATAG-GACTGTAATG
*
43962661 GAATAGAACTGTAAT
1 GAATAGGACTGTAAT
43962676 CAGTAATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 25 0.96
17 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.28, T:0.30
Consensus pattern (16 bp):
GAATAGGACTGTAATG
Found at i:43966360 original size:17 final size:17
Alignment explanation
Indices: 43966338--43966373 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
43966328 GAAATAAAAA
43966338 TAGATGAGTTGAGTGGT
1 TAGATGAGTTGAGTGGT
43966355 TAGATGAGTTGAGTGGT
1 TAGATGAGTTGAGTGGT
43966372 TA
1 TA
43966374 TAGACTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (17 bp):
TAGATGAGTTGAGTGGT
Found at i:43966520 original size:10 final size:11
Alignment explanation
Indices: 43966498--43966540 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
43966488 ATAGATATAA
43966498 AAAATATAAAT
1 AAAATATAAAT
43966509 AAAATA-AAAT
1 AAAATATAAAT
* *
43966519 AAAATATTATT
1 AAAATATAAAT
43966530 AAAATCATAAA
1 AAAAT-ATAAA
43966541 GTACATCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 10 0.38
11 13 0.50
12 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:43969164 original size:19 final size:20
Alignment explanation
Indices: 43969123--43969167 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
43969113 TTGAAAATGA
*
43969123 TTTTTGAAAAATGATTTATT
1 TTTTTGAAAAATGATTAATT
43969143 TTTTTGAAAAA-G-TTAATAT
1 TTTTTGAAAAATGATTAAT-T
43969162 TTTTTG
1 TTTTTG
43969168 GTGTTTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 8 0.35
20 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (20 bp):
TTTTTGAAAAATGATTAATT
Found at i:43974717 original size:31 final size:30
Alignment explanation
Indices: 43974662--43974736 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 30
43974652 GATTATCAGC
* *
43974662 TAATGAAAAAGGATAGCTTTGGCTATTAAAA
1 TAATGAAAAGGGATAGCTTCGGCTA-TAAAA
*
43974693 TAATGAAAAGGGATAGGC-TCGGCTATCAAA
1 TAATGAAAAGGGATA-GCTTCGGCTATAAAA
* *
43974723 TTATGAGAAGGGAT
1 TAATGAAAAGGGAT
43974737 GGTGACGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 16 0.42
31 20 0.53
32 2 0.05
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.25
Consensus pattern (30 bp):
TAATGAAAAGGGATAGCTTCGGCTATAAAA
Found at i:43974751 original size:30 final size:29
Alignment explanation
Indices: 43974725--43974797 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
43974715 CTATCAAATT
* *
43974725 ATGAGAAGGGATGGTGACGACCATCAATA
1 ATGAAAAGGGATGGTGACAACCATCAATA
*
43974754 ATGAAAAGGGATGGTGACAACCATCGAACA
1 ATGAAAAGGGATGGTGACAACCATC-AATA
43974784 ATGAAAAGGGATGG
1 ATGAAAAGGGATGG
43974798 CTTTAGCTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 23 0.57
30 17 0.43
ACGTcount: A:0.41, C:0.12, G:0.32, T:0.15
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACAACCATCAATA
Found at i:43974766 original size:29 final size:30
Alignment explanation
Indices: 43974690--43974797 Score: 114
Period size: 30 Copynumber: 3.6 Consensus size: 30
43974680 TTGGCTATTA
* *
43974690 AAATAATGAAAAGGGATAGGCT--CGGCTATC
1 AAATAATGAAAAGGGAT-GG-TGACGACCATC
* *
43974720 AAATTATGAGAAGGGATGGTGACGACCATC
1 AAATAATGAAAAGGGATGGTGACGACCATC
*
43974750 -AATAATGAAAAGGGATGGTGACAACCATC
1 AAATAATGAAAAGGGATGGTGACGACCATC
* *
43974779 GAACAATGAAAAGGGATGG
1 AAATAATGAAAAGGGATGG
43974798 CTTTAGCTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.01
29 28 0.42
30 38 0.57
ACGTcount: A:0.42, C:0.12, G:0.29, T:0.18
Consensus pattern (30 bp):
AAATAATGAAAAGGGATGGTGACGACCATC
Found at i:43974862 original size:30 final size:30
Alignment explanation
Indices: 43974662--43974867 Score: 107
Period size: 30 Copynumber: 6.9 Consensus size: 30
43974652 GATTATCAGC
* * *
43974662 TAATGAAAAAGGATAGCTTTGGCTATTAAAA
1 TAATGAAAAGGGATAGCTTCGGCTA-TCAAA
43974693 TAATGAAAAGGGATAGGC-TCGGCTATCAAA
1 TAATGAAAAGGGATA-GCTTCGGCTATCAAA
* * * * * *
43974723 TTATGAGAAGGGAT-GGTGACGACCATC-AA
1 TAATGAAAAGGGATAGCT-TCGGCTATCAAA
* * ** * *
43974752 TAATGAAAAGGGAT-GGTGACAACCATCGAA
1 TAATGAAAAGGGATAGCT-TCGGCTATCAAA
* * ** **
43974782 CAATGAAAAGGGATGGCTTTAGCTATTGAA
1 TAATGAAAAGGGATAGCTTCGGCTATCAAA
** * *
43974812 TCGTG-AAATGGATAGTTTCGGCTATCAAA
1 TAATGAAAAGGGATAGCTTCGGCTATCAAA
*
43974841 TTATGAAAAGGGATAGCTTCGGCTATC
1 TAATGAAAAGGGATAGCTTCGGCTATC
43974868 GATCTATGAA
Statistics
Matches: 136, Mismatches: 33, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
28 1 0.01
29 46 0.34
30 65 0.48
31 22 0.16
32 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (30 bp):
TAATGAAAAGGGATAGCTTCGGCTATCAAA
Found at i:43975112 original size:26 final size:26
Alignment explanation
Indices: 43975083--43975135 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
43975073 ACGTATTGAA
43975083 AAGCATAGATTATATACTACGAACTT
1 AAGCATAGATTATATACTACGAACTT
43975109 AAGCATAGATTATATACTACGAACTT
1 AAGCATAGATTATATACTACGAACTT
43975135 A
1 A
43975136 CTAAGCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.30
Consensus pattern (26 bp):
AAGCATAGATTATATACTACGAACTT
Found at i:43977081 original size:47 final size:47
Alignment explanation
Indices: 43977010--43977191 Score: 265
Period size: 47 Copynumber: 3.9 Consensus size: 47
43977000 NNNNNNNNNN
* * * * *
43977010 CATCACATTGGCCATTCGGCCTTATCACATATAGACACCATCACATC
1 CATCACATCGGCCATTAGGCCTTATCACATATACACACCTTCACATT
* * * *
43977057 CATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATT
1 CATCACATCGGCCATTAGGCCTTATCACATATACACACCTTCACATT
* *
43977104 CATCACATCGGCCATTCGGCCTTATCACATATACACACTTTCACATT
1 CATCACATCGGCCATTAGGCCTTATCACATATACACACCTTCACATT
43977151 CATCACATCGGCCATTAGGCCTTATCACATATACACACCTT
1 CATCACATCGGCCATTAGGCCTTATCACATATACACACCTT
43977192 GTACACCAAT
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 121 1.00
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.30
Consensus pattern (47 bp):
CATCACATCGGCCATTAGGCCTTATCACATATACACACCTTCACATT
Found at i:43983564 original size:79 final size:82
Alignment explanation
Indices: 43983453--43983637 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
43983443 GCTACTCGTT
* *
43983453 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
43983516 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
43983533 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
43983596 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
43983613 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43983638 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:43983637 original size:40 final size:40
Alignment explanation
Indices: 43983434--43983637 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
43983424 CGGAATTTAA
** *
43983434 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43983474 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43983514 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43983553 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
43983593 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43983633 CCGGA
1 CCGGA
43983638 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43986948 original size:78 final size:78
Alignment explanation
Indices: 43986858--43987001 Score: 270
Period size: 78 Copynumber: 1.8 Consensus size: 78
43986848 TTGGTTTTGG
43986858 TATCTTTTGGTGATTGCCAAATTACGTCATTTTGGGTACTTATGATCCATGAATGGTATGGCTCA
1 TATCTTTTGGTGATTGCCAAATTACGTCATTTTGGGTACTTATGATCCATGAATGGTATGGCTCA
43986923 ACTATGTTTATGA
66 ACTATGTTTATGA
* *
43986936 TATCTTTTGGTGATTGCCAAATTACGTCATTTTTGGTACTTATGATGCATGAATGGTATGGCTCA
1 TATCTTTTGGTGATTGCCAAATTACGTCATTTTGGGTACTTATGATCCATGAATGGTATGGCTCA
43987001 A
66 A
43987002 TTGGTATGTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (78 bp):
TATCTTTTGGTGATTGCCAAATTACGTCATTTTGGGTACTTATGATCCATGAATGGTATGGCTCA
ACTATGTTTATGA
Found at i:44007775 original size:68 final size:66
Alignment explanation
Indices: 44007703--44007869 Score: 169
Period size: 67 Copynumber: 2.5 Consensus size: 66
44007693 CATCATGTGT
* * * *
44007703 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
44007766 TGTAG
62 TGTAG
** * *
44007771 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
44007836 AG
65 AG
* * *
44007838 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTC
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTC
44007870 ACATAGGTGG
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
64 24 0.28
65 3 0.04
66 13 0.15
67 32 0.38
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:44007808 original size:64 final size:64
Alignment explanation
Indices: 44007727--44007910 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
44007717 AGACATTATG
* * *
44007727 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
44007791 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
44007856 AA
63 AA
* * * *
44007858 AT-TGGCTAGGTCACATAGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
44007911 CGAACTGTAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:44009957 original size:93 final size:93
Alignment explanation
Indices: 44009849--44010018 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
44009839 GCCCCTAATT
* *
44009849 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACCCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACCCAAC
*
44009914 TAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
* * * * *
44009942 AACTCTGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACCCAAC
44010007 GAGTTCGGATGC
66 GAGTTCGGATGC
44010019 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACCCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:44009998 original size:46 final size:46
Alignment explanation
Indices: 44009849--44010015 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 46
44009839 GCCCCTAATT
* * * *
44009849 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTG
* * * * * *
44009895 AACTCGGACTCAACCCAACTAGTTCGGATGCCTAGTTACATTTCA-CA---
1 AACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCA-TCCATAAGTG
* *
44009942 AACTCTGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTG
44009988 AACTCGGACTCAACTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGTTCGGA
44010016 TGCTCAACCA
Statistics
Matches: 92, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
42 3 0.03
43 6 0.07
44 1 0.01
46 50 0.54
47 24 0.26
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTG
Found at i:44010887 original size:86 final size:86
Alignment explanation
Indices: 44010736--44010903 Score: 302
Period size: 86 Copynumber: 2.0 Consensus size: 86
44010726 TATGGGTATT
*
44010736 ACAATCATGCAATCATATCATAATCATCGAAATAATTATAAAATTATTATTTCTATCTCAGATTT
1 ACAATCATGCAATCATATCATAATCATCAAAATAATTATAAAATTATTATTTCTATCTCAGATTT
*
44010801 GTGGTCACGAAACCACTTCAC
66 GTGGTCACAAAACCACTTCAC
44010822 ACAATCATGCAATCATATCATAATCATCAAAATAATTATAAAATTATTATTTCTATCTC-GAATT
1 ACAATCATGCAATCATATCATAATCATCAAAATAATTATAAAATTATTATTTCTATCTCAG-ATT
44010886 TGTGGTCACAAAACCACT
65 TGTGGTCACAAAACCACT
44010904 ATTTCGATTA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
85 1 0.01
86 78 0.99
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (86 bp):
ACAATCATGCAATCATATCATAATCATCAAAATAATTATAAAATTATTATTTCTATCTCAGATTT
GTGGTCACAAAACCACTTCAC
Found at i:44020482 original size:43 final size:43
Alignment explanation
Indices: 44020434--44020665 Score: 446
Period size: 43 Copynumber: 5.4 Consensus size: 43
44020424 TTGGTTTTCA
44020434 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
44020477 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
* *
44020520 ACACTAAGTGTGCGGGTAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
44020563 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
44020606 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
44020649 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
44020666 TTGAAATGCA
Statistics
Matches: 185, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 185 1.00
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:44020682 original size:29 final size:29
Alignment explanation
Indices: 44020647--44020720 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
44020637 GTTGTGAGAT
* *
44020647 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
44020676 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
44020705 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44020721 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:44021159 original size:40 final size:40
Alignment explanation
Indices: 44021033--44021293 Score: 278
Period size: 40 Copynumber: 6.5 Consensus size: 40
44021023 TCGAATGATG
* *
44021033 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
44021073 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* *
44021113 TTCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
44021153 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
**
44021193 TCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
44021233 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
44021273 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
44021294 TAATCATGAT
Statistics
Matches: 183, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 163 0.89
41 19 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:44024935 original size:47 final size:47
Alignment explanation
Indices: 44024828--44025262 Score: 555
Period size: 47 Copynumber: 9.1 Consensus size: 47
44024818 GAAATGATAG
44024828 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
44024877 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
44024924 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
44024971 TAAGGCCTAATGGCCAATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * *
44025020 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
44025067 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * *
44025116 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
44025163 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
44025212 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
44025259 TAAG
1 TAAG
44025263 TCCCGAAGGG
Statistics
Matches: 334, Mismatches: 46, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
47 180 0.54
49 154 0.46
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:44025013 original size:96 final size:96
Alignment explanation
Indices: 44024846--44025262 Score: 703
Period size: 96 Copynumber: 4.3 Consensus size: 96
44024836 AATGGCCGAT
*
44024846 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAG
* * * * *
44024911 TG--TATATATGTGATAGGGCCTAATGGCCGAT
64 TGTATATATATGTGACAGGGCCGAGTGGCCAAC
*
44024942 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGGAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTG
44025007 TATATATATGTGACAGGGCCGAGTGGCCAAC
66 TATATATATGTGACAGGGCCGAGTGGCCAAC
*
44025038 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTG
44025103 TATATATATGTGACAGGGCCGAGTGGCCAAC
66 TATATATATGTGACAGGGCCGAGTGGCCAAC
*
44025134 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTG
44025199 TATATATATGTGACAGGGCCGAGTGGCCAAC
66 TATATATATGTGACAGGGCCGAGTGGCCAAC
* *
44025230 GTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAG
44025263 TCCCGAAGGG
Statistics
Matches: 307, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
94 45 0.15
96 262 0.85
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.28
Consensus pattern (96 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTG
TATATATATGTGACAGGGCCGAGTGGCCAAC
Found at i:44026245 original size:42 final size:42
Alignment explanation
Indices: 44026186--44026270 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
44026176 AAAAATAGTA
44026186 GGATTGGAATTAAATAGTGAATAAATTATTTAAACGAACCTT
1 GGATTGGAATTAAATAGTGAATAAATTATTTAAACGAACCTT
44026228 GGATTGGAATTAAATAGTGAATAAATTATTTAAACGAACCTT
1 GGATTGGAATTAAATAGTGAATAAATTATTTAAACGAACCTT
44026270 G
1 G
44026271 ATGAATCTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (42 bp):
GGATTGGAATTAAATAGTGAATAAATTATTTAAACGAACCTT
Found at i:44030915 original size:46 final size:46
Alignment explanation
Indices: 44030848--44031015 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
44030838 CGCCCCTAAT
* *
44030848 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAG
* * * * *
44030894 TGAACTCGGACTCAACCCAACGAGTTCGGATGCCTAGTTACAT--TTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCATAAG
* * *
44030941 CGAACTCGGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAG
44030987 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
44031016 ATGCTCAACC
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 54 0.55
47 26 0.27
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAG
Found at i:44030956 original size:93 final size:93
Alignment explanation
Indices: 44030849--44031019 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
44030839 GCCCCTAATT
* *
44030849 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACCCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACCCAA
44030914 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
44030942 GAACTCGGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACCCAA
44031007 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44031020 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACCCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:44031471 original size:30 final size:30
Alignment explanation
Indices: 44031437--44031496 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44031427 ATTTAATACG
44031437 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
44031467 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
44031497 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:44035196 original size:30 final size:30
Alignment explanation
Indices: 44035160--44035220 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44035150 ATCCCGAGCC
44035160 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
44035190 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
44035220 T
1 T
44035221 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:44036008 original size:68 final size:66
Alignment explanation
Indices: 44035931--44036102 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
44035921 CATTATGTGT
* * * *
44035931 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
44035994 TGTAG
62 TGTAG
** * *
44035999 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
44036064 AG
65 AG
* * * *
44036066 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
44036103 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:44036036 original size:64 final size:64
Alignment explanation
Indices: 44035955--44036126 Score: 195
Period size: 67 Copynumber: 2.7 Consensus size: 64
44035945 AGACATTATG
* * *
44035955 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
44036019 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
44036084 AA
63 AA
* * *
44036086 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT
44036127 GTATAAGAGA
Statistics
Matches: 88, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
63 9 0.10
64 25 0.28
66 21 0.24
67 33 0.38
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:44042663 original size:33 final size:33
Alignment explanation
Indices: 44042621--44042683 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
44042611 ACTGTCTTTG
*
44042621 TTCTATGTTTACTATCCTAGTGGACTATCTCTT
1 TTCTATGTTTACTATCCCAGTGGACTATCTCTT
* *
44042654 TTCTCTGTTTATTATCCCAGTGGACTATCT
1 TTCTATGTTTACTATCCCAGTGGACTATCT
44042684 TTATTATGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (33 bp):
TTCTATGTTTACTATCCCAGTGGACTATCTCTT
Found at i:44042696 original size:33 final size:33
Alignment explanation
Indices: 44042626--44042697 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
44042616 CTTTGTTCTA
* *
44042626 TGTTTACTATCCTAGTGGACTATCTCTTTTCTC
1 TGTTTACTATCCCAGTGGACTATCTCTTTTATC
* *
44042659 TGTTTATTATCCCAGTGGACTATCT-TTATTATG
1 TGTTTACTATCCCAGTGGACTATCTCTT-TTATC
44042692 TGTTTA
1 TGTTTA
44042698 ATGTCCAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (33 bp):
TGTTTACTATCCCAGTGGACTATCTCTTTTATC
Found at i:44042991 original size:109 final size:109
Alignment explanation
Indices: 44042856--44043086 Score: 284
Period size: 109 Copynumber: 2.1 Consensus size: 109
44042846 TTTATGATTC
* * * * * *
44042856 TATGCCATATACTTTATACCTTGTACCATGTTGTCATGGCGTATGTT-ATCAATGGTCTTACGCT
1 TATGCCATATACCTTATACCTTGTACCATGCTGCCATGACATAT-TTCATCAATGGTCTTACACT
** * *
44042920 ATGTACCTCATACCAGACTATCATAGTGTCTTTCATTTATGCTCT
65 ACATACCTCATACCAGACTACCATAGTGTCTTTCATCTATGCTCT
* *
44042965 TATGCCATATACCTTATACCTTGTACCATGCTGCCATGACATCTTTCATCCATGGTCTTACACTA
1 TATGCCATATACCTTATACCTTGTACCATGCTGCCATGACATATTTCATCAATGGTCTTACACTA
* * * *
44043030 CATACCTCATACTAGGCTACCATAGTGTGTTTCATCTATGGTCT
66 CATACCTCATACCAGACTACCATAGTGTCTTTCATCTATGCTCT
* *
44043074 TACGCAATATACC
1 TATGCCATATACC
44043087 ATTGTCACAA
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
108 2 0.02
109 101 0.98
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.37
Consensus pattern (109 bp):
TATGCCATATACCTTATACCTTGTACCATGCTGCCATGACATATTTCATCAATGGTCTTACACTA
CATACCTCATACCAGACTACCATAGTGTCTTTCATCTATGCTCT
Found at i:44045541 original size:15 final size:16
Alignment explanation
Indices: 44045521--44045550 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44045511 TAACAACTAA
44045521 TATATAAT-TATATTT
1 TATATAATATATATTT
44045536 TATATAATATATATT
1 TATATAATATATATT
44045551 AATTGCTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:44047674 original size:17 final size:17
Alignment explanation
Indices: 44047652--44047687 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
44047642 ATTGTTTTTC
*
44047652 TTTTTCAGAATACATTA
1 TTTTTCAGAAAACATTA
44047669 TTTTTCAGAAAACATTA
1 TTTTTCAGAAAACATTA
44047686 TT
1 TT
44047688 GTTATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTTTCAGAAAACATTA
Found at i:44064131 original size:27 final size:26
Alignment explanation
Indices: 44064100--44064277 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
44064090 TAAATTGTAC
44064100 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
44064127 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
44064153 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
44064181 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
44064209 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
44064236 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
44064263 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44064278 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:44064216 original size:82 final size:81
Alignment explanation
Indices: 44064101--44064256 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
44064091 AAATTGTACA
* *
44064101 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44064165 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
44064182 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44064247 TGCGAGTTGA
65 TGCGAATTGA
44064257 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44064268 original size:82 final size:81
Alignment explanation
Indices: 44064097--44064277 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
44064087 GATTAAATTG
* *
44064097 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44064162 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
44064178 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44064242 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44064260 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44064278 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44064288 original size:27 final size:27
Alignment explanation
Indices: 44064182--44064288 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
44064172 TGACCATGCG
* * * *
44064182 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
44064210 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
44064237 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
44064264 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
44064289 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:44068804 original size:40 final size:40
Alignment explanation
Indices: 44068632--44068797 Score: 253
Period size: 40 Copynumber: 4.2 Consensus size: 40
44068622 AACCCAAGTA
* * * * *
44068632 CCTTCGGGATTTAG-CTGGATATAGCAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
44068671 CCGTCGGGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
44068711 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
44068751 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
44068791 CCTTCGG
1 CCTTCGG
44068798 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.10
40 104 0.90
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:44070194 original size:13 final size:13
Alignment explanation
Indices: 44070176--44070201 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44070166 ATTTTTATTT
44070176 TTAACATAAAATA
1 TTAACATAAAATA
44070189 TTAACATAAAATA
1 TTAACATAAAATA
44070202 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:44073001 original size:29 final size:29
Alignment explanation
Indices: 44072940--44073029 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
44072930 CACATACCTG
*
44072940 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
44072968 TATATGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
44072997 TATATGACCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
44073026 TATA
1 TATA
44073030 GTCATGTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:44073266 original size:16 final size:16
Alignment explanation
Indices: 44073242--44073284 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
44073232 GTAGTTAAAC
*
44073242 TTTTAGCTTTTCGATA
1 TTTTAGCTTTTCGACA
* *
44073258 TTTTGGCTTTTCGGCA
1 TTTTAGCTTTTCGACA
*
44073274 TTTTTGCTTTT
1 TTTTAGCTTTT
44073285 GCCGATCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.14, G:0.16, T:0.60
Consensus pattern (16 bp):
TTTTAGCTTTTCGACA
Found at i:44080080 original size:25 final size:24
Alignment explanation
Indices: 44079994--44080157 Score: 114
Period size: 24 Copynumber: 6.7 Consensus size: 24
44079984 TGGACACACC
* *
44079994 ATGGCTCTCACGAGCTTCCCAATTA
1 ATGGCTCTCATGAGCTTCCCGA-TA
* * *
44080019 ATGGCTCTCTTGAGCTTCCCGTTT
1 ATGGCTCTCATGAGCTTCCCGATA
* *
44080043 ATGGCT-TGTATGAGCTTCCTGATA
1 ATGGCTCT-CATGAGCTTCCCGATA
* **
44080067 ATTGGCTCTCATGAGATTCTTGATTA
1 A-TGGCTCTCATGAGCTTCCCGA-TA
* * *
44080093 ATGGCTCTTAAGAGCTACCCGATA
1 ATGGCTCTCATGAGCTTCCCGATA
* * * *
44080117 TTGGCTCGCATGACCTTCCCGATT
1 ATGGCTCTCATGAGCTTCCCGATA
* *
44080141 ACGGCTCGCATGAGCTT
1 ATGGCTCTCATGAGCTT
44080158 TGTAACAACC
Statistics
Matches: 106, Mismatches: 29, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
23 1 0.01
24 52 0.49
25 49 0.46
26 4 0.04
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.34
Consensus pattern (24 bp):
ATGGCTCTCATGAGCTTCCCGATA
Found at i:44080779 original size:21 final size:21
Alignment explanation
Indices: 44080754--44080793 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44080744 TGAAACTATG
*
44080754 AGTATTAT-GAAGTTTGATGAT
1 AGTA-TATGGAAGATTGATGAT
44080775 AGTATATGGAAGATTGATG
1 AGTATATGGAAGATTGATG
44080794 TTGGGTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.38
Consensus pattern (21 bp):
AGTATATGGAAGATTGATGAT
Found at i:44090241 original size:32 final size:31
Alignment explanation
Indices: 44090198--44090260 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 31
44090188 AAAGAAACAT
44090198 TTGTAAATTTTGAAAACCCATGTTTCCCTAC
1 TTGTAAATTTTGAAAACCCATGTTTCCCTAC
*
44090229 NTTGTAACTTTTGAAAACCCATGTTTCCCTAC
1 -TTGTAAATTTTGAAAACCCATGTTTCCCTAC
44090261 AACTAGTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.38
Consensus pattern (31 bp):
TTGTAAATTTTGAAAACCCATGTTTCCCTAC
Found at i:44093877 original size:40 final size:40
Alignment explanation
Indices: 44093822--44094083 Score: 393
Period size: 40 Copynumber: 6.6 Consensus size: 40
44093812 TATTCGAATG
*
44093822 ATATCCGGGCTAAGTCCCGAATGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
44093862 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
44093902 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCAATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
44093942 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
44093982 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
44094022 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
44094062 ATATTC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
44094084 TACTTGGGTT
Statistics
Matches: 201, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 13 0.06
40 185 0.92
41 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:44122032 original size:14 final size:16
Alignment explanation
Indices: 44121986--44122048 Score: 78
Period size: 16 Copynumber: 4.1 Consensus size: 16
44121976 TATATAAACA
44121986 TAAA-AATTTAATAAT
1 TAAATAATTTAATAAT
*
44122001 CTAAATAATATAATAAT
1 -TAAATAATTTAATAAT
*
44122018 TAACT-ATTTAA-AAT
1 TAAATAATTTAATAAT
44122032 TAAATAATTTAATAAT
1 TAAATAATTTAATAAT
44122048 T
1 T
44122049 TTTTCTTACC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 7 0.17
15 11 0.28
16 12 0.30
17 10 0.25
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAATAATTTAATAAT
Found at i:44122049 original size:8 final size:8
Alignment explanation
Indices: 44121990--44122049 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
44121980 TAAACATAAA
44121990 AATTTAAT
1 AATTTAAT
*
44121998 AATCTAAAT
1 AAT-TTAAT
*
44122007 AATATAAT
1 AATTTAAT
44122015 AA-TTAACT
1 AATTTAA-T
44122023 -ATTTAA-
1 AATTTAAT
*
44122029 AATTAAAT
1 AATTTAAT
44122037 AATTTAAT
1 AATTTAAT
44122045 AATTT
1 AATTT
44122050 TTTCTTACCA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
7 9 0.22
8 25 0.61
9 7 0.17
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (8 bp):
AATTTAAT
Found at i:44122208 original size:21 final size:21
Alignment explanation
Indices: 44122184--44122229 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
44122174 AAAAAAATAT
*
44122184 TTGAGGATTGAGGATTG-GAAA
1 TTGAGGATTGAAGATTGAG-AA
44122205 TTGAGGATTGAAGATTGAGAA
1 TTGAGGATTGAAGATTGAGAA
44122226 TTGA
1 TTGA
44122230 AAATTGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (21 bp):
TTGAGGATTGAAGATTGAGAA
Found at i:44122209 original size:14 final size:14
Alignment explanation
Indices: 44122190--44122235 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
44122180 ATATTTGAGG
44122190 ATTGAGGATTGGAA
1 ATTGAGGATTGGAA
44122204 ATTGAGGATT-GAA
1 ATTGAGGATTGGAA
* *
44122217 GATTGAGAATTGAAA
1 -ATTGAGGATTGGAA
44122232 ATTG
1 ATTG
44122236 GAAATCGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 23 0.82
15 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (14 bp):
ATTGAGGATTGGAA
Found at i:44122234 original size:7 final size:7
Alignment explanation
Indices: 44122197--44122275 Score: 52
Period size: 7 Copynumber: 11.4 Consensus size: 7
44122187 AGGATTGAGG
*
44122197 ATTGGAA
1 ATTGAAA
**
44122204 ATTGAGG
1 ATTGAAA
*
44122211 ATTGAAG
1 ATTGAAA
*
44122218 ATTGAGA
1 ATTGAAA
44122225 ATTGAAA
1 ATTGAAA
*
44122232 ATTGGAA
1 ATTGAAA
* *
44122239 ATCGGAA
1 ATTGAAA
44122246 ATTG-AA
1 ATTGAAA
44122252 ATTGAAA
1 ATTGAAA
* *
44122259 ACTGAAG
1 ATTGAAA
*
44122266 ATTGAGA
1 ATTGAAA
44122273 ATT
1 ATT
44122276 TAGGATGGAG
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
6 6 0.11
7 50 0.89
ACGTcount: A:0.44, C:0.03, G:0.25, T:0.28
Consensus pattern (7 bp):
ATTGAAA
Found at i:44126249 original size:27 final size:27
Alignment explanation
Indices: 44126219--44126396 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
44126209 ATATTGAGCC
* *
44126219 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
44126246 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
44126273 CGCACACTTAGTGCTACATAGTCAAACG
1 CGCACACTTAGTGCTACATAATC-AACT
* ** ** *
44126301 CGCACACGTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
44126328 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
44126355 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
44126382 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44126397 GTACAATTTA
Statistics
Matches: 125, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Done.