Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 73 of 125
Found at i:14567592 original size:4 final size:4
Alignment explanation
Indices: 14567583--14567616 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
14567573 AAAAAATTAG
*
14567583 TATT TATT TATT TATT CCATT TATT TATT TATT T
1 TATT TATT TATT TATT -TATT TATT TATT TATT T
14567617 GTGTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 24 0.89
5 3 0.11
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:14568098 original size:16 final size:17
Alignment explanation
Indices: 14568079--14568113 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14568069 TAAAATAAAA
14568079 ATTAACTAA-AAAAATT
1 ATTAACTAATAAAAATT
*
14568095 ATTAGCTAATAAAAATT
1 ATTAACTAATAAAAATT
14568112 AT
1 AT
14568114 CAATATTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (17 bp):
ATTAACTAATAAAAATT
Found at i:14574098 original size:17 final size:16
Alignment explanation
Indices: 14574076--14574118 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
14574066 ATTTTGCTAC
14574076 TAAAAAATAAAAAATAA
1 TAAAAAATAAAAAA-AA
**
14574093 TAAAAAATGGAAAAAA
1 TAAAAAATAAAAAAAA
14574109 TGAAAAAATA
1 T-AAAAAATA
14574119 GGTGTTTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (16 bp):
TAAAAAATAAAAAAAA
Found at i:14579055 original size:19 final size:18
Alignment explanation
Indices: 14579024--14579061 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
14579014 ATGATATATT
14579024 AATCAAAATAACATAAATA
1 AATCAAAATAACA-AAATA
14579043 AATCATAAA-AACAAAATA
1 AATCA-AAATAACAAAATA
14579061 A
1 A
14579062 TAACTAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 9 0.50
20 3 0.17
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (18 bp):
AATCAAAATAACAAAATA
Found at i:14580423 original size:12 final size:12
Alignment explanation
Indices: 14580388--14580442 Score: 65
Period size: 13 Copynumber: 4.4 Consensus size: 12
14580378 ATTCACCTAA
*
14580388 GGTTTCATATAG
1 GGTTTCATTTAG
14580400 GGTTTCATTTTAG
1 GGTTTCA-TTTAG
14580413 GGTTTCATTTAAG
1 GGTTTCATTT-AG
* *
14580426 GTTTTGATTTAG
1 GGTTTCATTTAG
14580438 GGTTT
1 GGTTT
14580443 AGATTTTACA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
12 16 0.43
13 21 0.57
ACGTcount: A:0.18, C:0.05, G:0.25, T:0.51
Consensus pattern (12 bp):
GGTTTCATTTAG
Found at i:14580428 original size:25 final size:25
Alignment explanation
Indices: 14580388--14580442 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
14580378 ATTCACCTAA
*
14580388 GGTTTCATAT-AGGGTTTCATTTTAG
1 GGTTTCATATAAGGTTTTCA-TTTAG
* *
14580413 GGTTTCATTTAAGGTTTTGATTTAG
1 GGTTTCATATAAGGTTTTCATTTAG
14580438 GGTTT
1 GGTTT
14580443 AGATTTTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.18, C:0.05, G:0.25, T:0.51
Consensus pattern (25 bp):
GGTTTCATATAAGGTTTTCATTTAG
Found at i:14580447 original size:13 final size:12
Alignment explanation
Indices: 14580397--14580448 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
14580387 AGGTTTCATA
*
14580397 TAGGGTTTCATTT
1 TAGGGTTTGA-TT
*
14580410 TAGGGTTTCATT
1 TAGGGTTTGATT
*
14580422 TAAGGTTTTGATT
1 T-AGGGTTTGATT
14580435 TAGGGTTTAGATT
1 TAGGGTTT-GATT
14580448 T
1 T
14580449 TACATAAGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 9 0.26
13 25 0.74
ACGTcount: A:0.19, C:0.04, G:0.25, T:0.52
Consensus pattern (12 bp):
TAGGGTTTGATT
Found at i:14582198 original size:121 final size:121
Alignment explanation
Indices: 14582055--14582307 Score: 346
Period size: 121 Copynumber: 2.1 Consensus size: 121
14582045 TTACACTTTG
* * * ***
14582055 TTTTTTTCTTGTGTATTATTTTTTTCTCTCACTACTCCTATTTGTTTTTATTTTTCTTTGCTT-T
1 TTTTTTTTTTGTGCACTATTTTTTTCTCTCACTACTCCTATTTCCATTTATTTTTCTTTGCTTCT
* * *
14582119 CTTCATTTCTCCTTCCCCTTACTAGCGCATGAAAAGCCTCTTCCCTTTTTTTTGTTC
66 -TTCATTGCTCCTTCCCCTTACCAGCGCATGAAAAGCCTCTTCCCTCTTTTTTGTTC
* *
14582176 TTTTTTTTTTGTGCACTATTTTTTTCTCTCACTGCTCCTCTTTCCATTTATTTTTCTTTGCTTCT
1 TTTTTTTTTTGTGCACTATTTTTTTCTCTCACTACTCCTATTTCCATTTATTTTTCTTTGCTTCT
* * * *
14582241 TTCCTTGCTCCTTCCCTTTACCAGTGCATGAAAAGCCTTTTCCCTCTTTTTTGTTC
66 TTCATTGCTCCTTCCCCTTACCAGCGCATGAAAAGCCTCTTCCCTCTTTTTTGTTC
14582297 TTTTTCTTTTT
1 TTTTT-TTTTT
14582308 TCTATTGCAT
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
121 109 0.95
122 6 0.05
ACGTcount: A:0.10, C:0.25, G:0.08, T:0.57
Consensus pattern (121 bp):
TTTTTTTTTTGTGCACTATTTTTTTCTCTCACTACTCCTATTTCCATTTATTTTTCTTTGCTTCT
TTCATTGCTCCTTCCCCTTACCAGCGCATGAAAAGCCTCTTCCCTCTTTTTTGTTC
Found at i:14582768 original size:3 final size:3
Alignment explanation
Indices: 14582760--14582796 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14582750 ATACTTATAC
14582760 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14582797 AGTCATTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14585707 original size:28 final size:28
Alignment explanation
Indices: 14585667--14585722 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
14585657 ATAGGGAAAG
14585667 GGAAAATGACCATATGAAGACTATTTTT
1 GGAAAATGACCATATGAAGACTATTTTT
14585695 GGAAAATGACCATATGAAGACTATTTTT
1 GGAAAATGACCATATGAAGACTATTTTT
14585723 TCTTTGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (28 bp):
GGAAAATGACCATATGAAGACTATTTTT
Found at i:14592270 original size:21 final size:20
Alignment explanation
Indices: 14592227--14592266 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14592217 TGAAACTGCA
14592227 TAGATTCCATAAAAACTACC
1 TAGATTCCATAAAAACTACC
14592247 TAGATTCCATAAAAACTACC
1 TAGATTCCATAAAAACTACC
14592267 CTAGCCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (20 bp):
TAGATTCCATAAAAACTACC
Found at i:14592276 original size:18 final size:18
Alignment explanation
Indices: 14592232--14592276 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
14592222 CTGCATAGAT
14592232 TCCATAAAAACTACCTAG
1 TCCATAAAAACTACCTAG
14592250 ATTCCATAAAAACTACCCTAG
1 --TCCATAAAAACTA-CCTAG
14592271 -CCATAA
1 TCCATAA
14592277 CTTGCTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
20 13 0.54
21 5 0.21
ACGTcount: A:0.44, C:0.29, G:0.04, T:0.22
Consensus pattern (18 bp):
TCCATAAAAACTACCTAG
Found at i:14626777 original size:15 final size:17
Alignment explanation
Indices: 14626747--14626780 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
14626737 AAAATATAAT
14626747 AGCTATGTCTAAACTAA
1 AGCTATGTCTAAACTAA
14626764 AGCTATG-C-AAACTAA
1 AGCTATGTCTAAACTAA
14626779 AG
1 AG
14626781 GGTGAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (17 bp):
AGCTATGTCTAAACTAA
Found at i:14628205 original size:16 final size:17
Alignment explanation
Indices: 14628176--14628207 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14628166 TTGGAAAGAA
14628176 AGAAAATAAAAGTGCAG
1 AGAAAATAAAAGTGCAG
14628193 AGAAAAT-AAAGTGCA
1 AGAAAATAAAAGTGCA
14628208 AAAATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.12
Consensus pattern (17 bp):
AGAAAATAAAAGTGCAG
Found at i:14633748 original size:22 final size:21
Alignment explanation
Indices: 14633689--14633748 Score: 50
Period size: 22 Copynumber: 2.7 Consensus size: 21
14633679 TTTTCTAGAA
*
14633689 AAAATAAGCTAAATAATGAAGC
1 AAAATAAGCTAGA-AATGAAGC
* *
14633711 AAAATAAAGTTGGAAATGGAAG-
1 AAAAT-AAGCTAGAAAT-GAAGC
14633733 AAAATAAGGCTAGAAA
1 AAAATAA-GCTAGAAA
14633749 GCCGAACAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
21 2 0.07
22 19 0.63
23 9 0.30
ACGTcount: A:0.58, C:0.05, G:0.20, T:0.17
Consensus pattern (21 bp):
AAAATAAGCTAGAAATGAAGC
Found at i:14658884 original size:21 final size:22
Alignment explanation
Indices: 14658859--14658902 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
14658849 AAAGTAATCC
14658859 AAAAATAACATTAACAAG-GAA
1 AAAAATAACATTAACAAGAGAA
*
14658880 AAAAATAAGATTAACAAGAGAA
1 AAAAATAACATTAACAAGAGAA
14658902 A
1 A
14658903 GTCTAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.68, C:0.07, G:0.11, T:0.14
Consensus pattern (22 bp):
AAAAATAACATTAACAAGAGAA
Found at i:14662518 original size:85 final size:85
Alignment explanation
Indices: 14662376--14662542 Score: 316
Period size: 85 Copynumber: 2.0 Consensus size: 85
14662366 AAAAAATAAT
14662376 AAAAAATACACTTACTAGATTCAAATGAATCAAAATTCATCATATGTGAGTTATTTTTTCATCTA
1 AAAAAATACACTTACTAGATTCAAATGAATCAAAATTCATCATATGTGAGTTATTTTTTCATCTA
14662441 TACCTCTATTGGCTTTTATA
66 TACCTCTATTGGCTTTTATA
*
14662461 AAAAAATACACTTACTAGATTCGAATGAATCAAAATTCATCATATGTGAGTTATTTTTTCATCTA
1 AAAAAATACACTTACTAGATTCAAATGAATCAAAATTCATCATATGTGAGTTATTTTTTCATCTA
*
14662526 TACCTCTATTTGCTTTT
66 TACCTCTATTGGCTTTT
14662543 TTTAAAATAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (85 bp):
AAAAAATACACTTACTAGATTCAAATGAATCAAAATTCATCATATGTGAGTTATTTTTTCATCTA
TACCTCTATTGGCTTTTATA
Found at i:14662871 original size:20 final size:20
Alignment explanation
Indices: 14662824--14662872 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
14662814 TAAAAAAAGT
14662824 AAAAAAAAAGAAAAACTTAA
1 AAAAAAAAAGAAAAACTTAA
**
14662844 AACTAAAAAGAAAAA-TTGAA
1 AAAAAAAAAGAAAAACTT-AA
14662864 AAAAAAAAA
1 AAAAAAAAA
14662873 CACAAATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (20 bp):
AAAAAAAAAGAAAAACTTAA
Found at i:14663711 original size:42 final size:42
Alignment explanation
Indices: 14663639--14663721 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
14663629 TAACATAGCT
* * * *
14663639 AATATGGCTAAAATAATAAGCAATTGTCCATTTACAAGTTAC
1 AATACGGCTAAAATAATAAACAACTATCCATTTACAAGTTAC
14663681 AATACGGCTAAAATAATAAACAACTATCCATTTACAAGTTA
1 AATACGGCTAAAATAATAAACAACTATCCATTTACAAGTTA
14663722 TAGTTAGCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.29
Consensus pattern (42 bp):
AATACGGCTAAAATAATAAACAACTATCCATTTACAAGTTAC
Found at i:14666029 original size:87 final size:87
Alignment explanation
Indices: 14665920--14666095 Score: 298
Period size: 87 Copynumber: 2.0 Consensus size: 87
14665910 ATCATCATCA
* **
14665920 TTATTATTATTATTATTATTGATTTGATTGATTGAATTTGTTGTATGGAATTGCTTACTCTGTTG
1 TTATTATTATTATTATTATTGATCTGATTGATTGAATTTGTTGTAAAGAATTGCTTACTCTGTTG
*
14665985 TTTATTTGTTCTTTATTGCTCT
66 TTAATTTGTTCTTTATTGCTCT
*
14666007 TTATTATTATTATTATTATTGATCTGATTGATTGAATTTGTTGTAAAGAATTGCTTGCTCTGTTG
1 TTATTATTATTATTATTATTGATCTGATTGATTGAATTTGTTGTAAAGAATTGCTTACTCTGTTG
*
14666072 TTAATTTGTTCTTTGTTGCTCT
66 TTAATTTGTTCTTTATTGCTCT
14666094 TT
1 TT
14666096 TGAATTGTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.20, C:0.07, G:0.15, T:0.57
Consensus pattern (87 bp):
TTATTATTATTATTATTATTGATCTGATTGATTGAATTTGTTGTAAAGAATTGCTTACTCTGTTG
TTAATTTGTTCTTTATTGCTCT
Found at i:14676438 original size:209 final size:209
Alignment explanation
Indices: 14676098--14676483 Score: 609
Period size: 209 Copynumber: 1.8 Consensus size: 209
14676088 ACACCTTAAT
* *
14676098 TGATAATTTAAAATAAAATTTTTTTTGTTCTCATAGACATTGTCATGACATGAATTATTTAAGGC
1 TGATAATTTAAAATAAAAATTTTTTTGTTCTCATAGACAGTGTCATGACATGAATTATTTAAGGC
* * * * * **
14676163 ATTTGGGTTTAAGAACCGCCATAATTGATGATCATTTAAGGTGTTTGTGTATAGCAATGCCTTAA
66 ATTTGGGTTTAAGAAACACCATAATTGAAGATCATTTAAGGTATTTGTGTACAGCAACACCTTAA
*
14676228 ATGATCTTCAATTATGGCATTTGGTTCTT-AAATGCCTTAAATAATCTTTAGCATCTTTCTTCAT
131 ATGATCATCAATTATGGCATTTGGTTCTTAAAATGCCTTAAATAATCTTTAGCATCTTTCTTCAT
14676292 TGAAATGCTCTAAC
196 TGAAATGCTCTAAC
14676306 TGATAATTTAAAATAAATAATTTTTTTGTTCTCATAGACAGTG-CTATGACATGAATTATTTAAG
1 TGATAATTTAAAATAAA-AATTTTTTTGTTCTCATAGACAGTGTC-ATGACATGAATTATTTAAG
14676370 GCATTTGGGTTTAAGAAACACCATAATTGAAGATCATTTAAGGTAATTT-TGTACA-CAAACACC
64 GCATTTGGGTTTAAGAAACACCATAATTGAAGATCATTTAAGGT-ATTTGTGTACAGC-AACACC
*
14676433 TTAAATGATCATCAATTATGGCATTTGGTTTTTAAAATGCCTTAAATAATC
127 TTAAATGATCATCAATTATGGCATTTGGTTCTTAAAATGCCTTAAATAATC
14676484 CTTGGTGTCA
Statistics
Matches: 162, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
208 19 0.12
209 123 0.76
210 20 0.12
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (209 bp):
TGATAATTTAAAATAAAAATTTTTTTGTTCTCATAGACAGTGTCATGACATGAATTATTTAAGGC
ATTTGGGTTTAAGAAACACCATAATTGAAGATCATTTAAGGTATTTGTGTACAGCAACACCTTAA
ATGATCATCAATTATGGCATTTGGTTCTTAAAATGCCTTAAATAATCTTTAGCATCTTTCTTCAT
TGAAATGCTCTAAC
Found at i:14683806 original size:62 final size:63
Alignment explanation
Indices: 14683713--14683860 Score: 176
Period size: 63 Copynumber: 2.4 Consensus size: 63
14683703 ATGAACCTTT
* * * * *
14683713 TAAAATGATCATTTATGGCGTTTGTTTAC-AAAAACGCCTTAAATGATCCTTTCAATTT-TTTA
1 TAAAATGATCATTTAAGGCATTTGTTCACAAAAAACGCCTTAAATAATCCATT-AATTTATTTA
*
14683775 TAAAATGATCATTTAAGGCATTT-TTACACAAAAAATGCCTTAAATAATCCATTAATTTATTTA
1 TAAAATGATCATTTAAGGCATTTGTT-CACAAAAAACGCCTTAAATAATCCATTAATTTATTTA
* * *
14683838 TGAAAGGATTATTTAAGGCATTT
1 TAAAATGATCATTTAAGGCATTT
14683861 CTGTATGGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
61 2 0.03
62 28 0.38
63 44 0.59
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (63 bp):
TAAAATGATCATTTAAGGCATTTGTTCACAAAAAACGCCTTAAATAATCCATTAATTTATTTA
Found at i:14684346 original size:11 final size:10
Alignment explanation
Indices: 14684330--14684422 Score: 91
Period size: 10 Copynumber: 9.2 Consensus size: 10
14684320 ATAAAAAAGT
14684330 AAAATTCTATA
1 AAAATTCTA-A
14684341 AAAATTCTAA
1 AAAATTCTAA
*
14684351 ATAAATT-TTA
1 A-AAATTCTAA
*
14684361 AAAATTATAA
1 AAAATTCTAA
*
14684371 AAAAATCTAA
1 AAAATTCTAA
*
14684381 AAAATTCCAA
1 AAAATTCTAA
14684391 CAAAATT-TAA
1 -AAAATTCTAA
* *
14684401 GAAATTCTTA
1 AAAATTCTAA
14684411 AAAATTCTAA
1 AAAATTCTAA
14684421 AA
1 AA
14684423 GCTTTTAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
9 10 0.15
10 37 0.55
11 20 0.30
ACGTcount: A:0.59, C:0.09, G:0.01, T:0.31
Consensus pattern (10 bp):
AAAATTCTAA
Found at i:14684397 original size:40 final size:40
Alignment explanation
Indices: 14684330--14684422 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
14684320 ATAAAAAAGT
*
14684330 AAAATTCTATAAAAATTCTAAATAAATTTTAA-AAATTATAA
1 AAAATTCTA-AAAAATTCCAAATAAA-TTTAAGAAATTATAA
* * *
14684371 AAAAATCTAAAAAATTCCAACA-AAATTTAAGAAATTCTTA
1 AAAATTCTAAAAAATTCCAA-ATAAATTTAAGAAATTATAA
14684411 AAAATTCTAAAA
1 AAAATTCTAAAA
14684423 GCTTTTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 5 0.11
40 31 0.69
41 9 0.20
ACGTcount: A:0.59, C:0.09, G:0.01, T:0.31
Consensus pattern (40 bp):
AAAATTCTAAAAAATTCCAAATAAATTTAAGAAATTATAA
Found at i:14684585 original size:27 final size:27
Alignment explanation
Indices: 14684554--14684612 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
14684544 ATAGAATTTT
** *
14684554 ATTTTCTATAAAATCTAATTTTTTTGA
1 ATTTTCTATAAAATAAAATTTTTTAGA
* *
14684581 ATTTTTTATAATATAAAATTTTTTAGA
1 ATTTTCTATAAAATAAAATTTTTTAGA
14684608 ATTTT
1 ATTTT
14684613 AAAGAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (27 bp):
ATTTTCTATAAAATAAAATTTTTTAGA
Found at i:14684721 original size:9 final size:9
Alignment explanation
Indices: 14684702--14684734 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
14684692 TTTATAAGAT
14684702 ATTTAAAAAA
1 ATTT-AAAAA
14684712 ATTTAAAAA
1 ATTTAAAAA
14684721 ATTTAAAAA
1 ATTTAAAAA
14684730 ATTTA
1 ATTTA
14684735 GAATTTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
ATTTAAAAA
Found at i:14684760 original size:9 final size:9
Alignment explanation
Indices: 14684748--14684779 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
14684738 TTTTGGAAAT
*
14684748 TTTTTGATA
1 TTTTAGATA
14684757 TTTTAGATA
1 TTTTAGATA
14684766 TTTTAGATA
1 TTTTAGATA
14684775 TTTTA
1 TTTTA
14684780 AAATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (9 bp):
TTTTAGATA
Found at i:14684796 original size:19 final size:18
Alignment explanation
Indices: 14684774--14684863 Score: 94
Period size: 20 Copynumber: 4.8 Consensus size: 18
14684764 TATTTTAGAT
14684774 ATTTTAAAATTTTTTTAGA
1 ATTTTAAAATTTTTTTA-A
14684793 ATTTCTAAAATTTTTTTAA
1 ATTT-TAAAATTTTTTTAA
* *
14684812 GTTTTGTATAATTTTTTTAA
1 -ATTT-TAAAATTTTTTTAA
14684832 A--TTAAAATTTTTTATAA
1 ATTTTAAAATTTTTT-TAA
14684849 ATTTTAAAATATTTT
1 ATTTTAAAAT-TTTT
14684864 AGAAATTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
16 10 0.17
17 5 0.08
19 12 0.20
20 33 0.55
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTTTAAAATTTTTTTAA
Found at i:14684864 original size:19 final size:18
Alignment explanation
Indices: 14684672--14684872 Score: 79
Period size: 18 Copynumber: 10.8 Consensus size: 18
14684662 TATTTTTAAT
*
14684672 TTTTTATAAATTTCAAAA
1 TTTTTATAAATTTTAAAA
*
14684690 GTTTTATAAGATATTTAAAAA
1 TTTTTATAA-AT-TTT-AAAA
** * *
14684711 AATTTAAAAAATTTAAAA
1 TTTTTATAAATTTTAAAA
** * *
14684729 AATTTA-GAATTTTGGAAA
1 TTTTTATAAATTTT-AAAA
* *
14684747 TTTTT-TGATATTTT-AGA
1 TTTTTAT-AAATTTTAAAA
* *
14684764 TATTTTAGATATTTTAAAA
1 T-TTTTATAAATTTTAAAA
*
14684783 TTTTTTTAGAATTTCTAAAA
1 TTTTTATA-AATTT-TAAAA
* * *
14684803 TTTTTTTAAGTTTTGTATAA
1 TTTTTATAA-ATTT-TAAAA
*
14684823 TTTTTTTAAA--TTAAAA
1 TTTTTATAAATTTTAAAA
14684839 TTTTTTATAAATTTTAAAA
1 -TTTTTATAAATTTTAAAA
*
14684858 TATTTTAGAAATTTT
1 T-TTTTATAAATTTT
14684873 TTCAGAATTT
Statistics
Matches: 141, Mismatches: 26, Indels: 31
0.71 0.13 0.16
Matches are distributed among these distances:
16 4 0.03
17 18 0.13
18 41 0.29
19 36 0.26
20 32 0.23
21 10 0.07
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (18 bp):
TTTTTATAAATTTTAAAA
Found at i:14684930 original size:18 final size:18
Alignment explanation
Indices: 14684902--14684942 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
14684892 ATTTAGAGTT
14684902 GTTTTGAA-TTTGTTGAA
1 GTTTTGAATTTTGTTGAA
*
14684919 GTTTTAGAATTTTTTTGAA
1 GTTTT-GAATTTTGTTGAA
14684938 GTTTT
1 GTTTT
14684943 TAAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 3 0.14
19 13 0.62
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (18 bp):
GTTTTGAATTTTGTTGAA
Found at i:14684938 original size:19 final size:19
Alignment explanation
Indices: 14684902--14684952 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
14684892 ATTTAGAGTT
*
14684902 GTTTT-GAA-TTTGTTGAA
1 GTTTTAGAATTTTTTTGAA
14684919 GTTTTAGAATTTTTTTGAA
1 GTTTTAGAATTTTTTTGAA
*
14684938 GTTTTTAAAATTTTT
1 G-TTTTAGAATTTTT
14684953 AGAAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 5 0.17
18 3 0.10
19 9 0.31
20 12 0.41
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (19 bp):
GTTTTAGAATTTTTTTGAA
Found at i:14684951 original size:28 final size:28
Alignment explanation
Indices: 14684887--14684956 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 28
14684877 GAATTTTAAG
*
14684887 AAAATATTTAGAGTTGTTTTGAATTTGTT
1 AAAAT-TTTAGAATTGTTTTGAATTTGTT
* * *
14684916 GAAGTTTTAGAATTTTTTTGAAGTTT-TT
1 AAAATTTTAGAATTGTTTTGAA-TTTGTT
14684944 AAAATTTTTAGAA
1 AAAA-TTTTAGAA
14684957 AATTTTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 19 0.58
29 14 0.42
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (28 bp):
AAAATTTTAGAATTGTTTTGAATTTGTT
Found at i:14687097 original size:21 final size:22
Alignment explanation
Indices: 14687068--14687109 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
14687058 ACTTTAATTG
*
14687068 CAATAGAAGAAATAAGCTTAAA
1 CAATAGAAGAAAGAAGCTTAAA
*
14687090 CAAT-GAAGTAAGAAGCTTAA
1 CAATAGAAGAAAGAAGCTTAA
14687110 TAAACTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.19
Consensus pattern (22 bp):
CAATAGAAGAAAGAAGCTTAAA
Found at i:14698937 original size:32 final size:34
Alignment explanation
Indices: 14698891--14698957 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
14698881 TGGACTAATA
*
14698891 CATTCAGATGTATGTAGCCTAATGAACA-AAATG
1 CATTCAGATGTATGTAGCCCAATGAACACAAATG
*
14698924 CATT-AGATGTATGTGGCCCAATGAACACAAATG
1 CATTCAGATGTATGTAGCCCAATGAACACAAATG
14698957 C
1 C
14698958 TAGAGGAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (34 bp):
CATTCAGATGTATGTAGCCCAATGAACACAAATG
Found at i:14708946 original size:20 final size:20
Alignment explanation
Indices: 14708908--14708946 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14708898 AAGTAATGGA
*
14708908 AAAACTTAAAATTATGTAAG
1 AAAACTTAAAAATATGTAAG
14708928 AAAACTTAAAGAATA-GTAA
1 AAAACTTAAA-AATATGTAA
14708947 ATTGCATTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (20 bp):
AAAACTTAAAAATATGTAAG
Found at i:14720692 original size:18 final size:18
Alignment explanation
Indices: 14720669--14720708 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14720659 TGTTTGGGGT
* * *
14720669 TTTAGGTTTTGGGGTTAG
1 TTTAGGGTTTAGGATTAG
14720687 TTTAGGGTTTAGGATTAG
1 TTTAGGGTTTAGGATTAG
14720705 TTTA
1 TTTA
14720709 AGGTCTAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (18 bp):
TTTAGGGTTTAGGATTAG
Found at i:14720696 original size:7 final size:7
Alignment explanation
Indices: 14720570--14720699 Score: 50
Period size: 7 Copynumber: 20.1 Consensus size: 7
14720560 CCTAGGTTAA
14720570 GGTTT-G
1 GGTTTAG
*
14720576 GGGTTAG
1 GGTTTAG
*
14720583 GTTTTA-
1 GGTTTAG
*
14720589 GGTTTAA
1 GGTTTAG
*
14720596 GGTTTAA
1 GGTTTAG
*
14720603 GTTTTA-
1 GGTTTAG
14720609 GGTTTAG
1 GGTTTAG
*
14720616 AG-TTA-
1 GGTTTAG
*
14720621 -GTTTAA
1 GGTTTAG
14720627 GGTTTAG
1 GGTTTAG
*
14720634 AGTTT--
1 GGTTTAG
14720639 GGTTTAG
1 GGTTTAG
14720646 GGTTTAG
1 GGTTTAG
*
14720653 TGTTTA-
1 GGTTTAG
* *
14720659 TGTTTGG
1 GGTTTAG
14720666 GGTTTTA-
1 GG-TTTAG
*
14720673 GGTTTTG
1 GGTTTAG
*
14720680 GGGTTA-
1 GGTTTAG
14720686 -GTTTAG
1 GGTTTAG
14720692 GGTTTAG
1 GGTTTAG
14720699 G
1 G
14720700 ATTAGTTTAA
Statistics
Matches: 93, Mismatches: 18, Indels: 25
0.68 0.13 0.18
Matches are distributed among these distances:
4 1 0.01
5 11 0.12
6 25 0.27
7 53 0.57
8 3 0.03
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:14720870 original size:19 final size:19
Alignment explanation
Indices: 14720827--14720871 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
14720817 GTTAGAATTT
* *
14720827 AGGGTTTCATGGGAGGTTT
1 AGGGTTTCATAGGAGGTTG
* *
14720846 AAGGTTTCATAGGTGGTTG
1 AGGGTTTCATAGGAGGTTG
14720865 AGGGTTT
1 AGGGTTT
14720872 GGAATTTAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.18, C:0.04, G:0.40, T:0.38
Consensus pattern (19 bp):
AGGGTTTCATAGGAGGTTG
Found at i:14720965 original size:49 final size:49
Alignment explanation
Indices: 14720911--14721004 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
14720901 TGACAAAAAT
*
14720911 AAATAAC-AAAAGTGCCATT-GTTAAAAATGTAAAAATTGATGCATGTGAC
1 AAATAACGAAAA-TGACATTAG-TAAAAATGTAAAAATTGATGCATGTGAC
* *
14720960 AAATAACGAAAATGACATTAGTAAAAGTGTAAATATTGATGCATG
1 AAATAACGAAAATGACATTAGTAAAAATGTAAAAATTGATGCATG
14721005 AAAAATGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
49 35 0.88
50 5 0.12
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.27
Consensus pattern (49 bp):
AAATAACGAAAATGACATTAGTAAAAATGTAAAAATTGATGCATGTGAC
Found at i:14722717 original size:20 final size:20
Alignment explanation
Indices: 14722692--14722731 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14722682 TAATTTTATA
14722692 CATCCCAATGTGTGATCAAG
1 CATCCCAATGTGTGATCAAG
14722712 CATCCCAATGTGTGATCAAG
1 CATCCCAATGTGTGATCAAG
14722732 ATTTTTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (20 bp):
CATCCCAATGTGTGATCAAG
Found at i:14723003 original size:10 final size:10
Alignment explanation
Indices: 14722990--14723035 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
14722980 TTTTACCACT
*
14722990 TTTGACTAAA
1 TTTGACTAAG
*
14723000 TTTGACTATG
1 TTTGACTAAG
**
14723010 TTTGACTTTG
1 TTTGACTAAG
14723020 TTTGACTAAG
1 TTTGACTAAG
14723030 TTTGAC
1 TTTGAC
14723036 CTCAAAGGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (10 bp):
TTTGACTAAG
Found at i:14727437 original size:31 final size:31
Alignment explanation
Indices: 14727376--14727438 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
14727366 GTTCAATATA
*
14727376 GTTACACATCTTTATTAAAAAGTTGCTACTT
1 GTTACACATCTTTACTAAAAAGTTGCTACTT
14727407 GTTACACATCTTTACTAAAAAGTTGCTACTT
1 GTTACACATCTTTACTAAAAAGTTGCTACTT
14727438 G
1 G
14727439 ATAGCAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (31 bp):
GTTACACATCTTTACTAAAAAGTTGCTACTT
Found at i:14729610 original size:12 final size:13
Alignment explanation
Indices: 14729577--14729611 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
14729567 GGTTGATTGA
14729577 AATGAAAACAATT
1 AATGAAAACAATT
*
14729590 AAAGAAAACAA-T
1 AATGAAAACAATT
14729602 AATGAAAACA
1 AATGAAAACA
14729612 GAATCTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.14
Consensus pattern (13 bp):
AATGAAAACAATT
Found at i:14729684 original size:74 final size:74
Alignment explanation
Indices: 14729562--14729699 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 74
14729552 ATGAATCAAA
* * *
14729562 AGGATGGTTGATTGAAATGAAAACAATTAAAGAAAACAATAATGAAAACAGAATCTTGTATTGGG
1 AGGATGGTTGATTAAAATGAAAACAATTAAAGAAAACAAGAATAAAAACAGAATCTTGTATTGGG
14729627 CAAAAATCT
66 CAAAAATCT
*
14729636 AGGATGGTTGATTAAAATGAAAA-AATTAAAGAAAACAAAGAATAAAAACTGAATCTTGTATTGG
1 AGGATGGTTGATTAAAATGAAAACAATTAAAGAAAAC-AAGAATAAAAACAGAATCTTGTATTGG
14729700 CCAAGAAGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 13 0.22
74 46 0.78
ACGTcount: A:0.50, C:0.07, G:0.19, T:0.25
Consensus pattern (74 bp):
AGGATGGTTGATTAAAATGAAAACAATTAAAGAAAACAAGAATAAAAACAGAATCTTGTATTGGG
CAAAAATCT
Found at i:14729914 original size:21 final size:22
Alignment explanation
Indices: 14729873--14729915 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
14729863 AATTGTTTTG
14729873 AAGAAAAGATTGTCAAAAATAA
1 AAGAAAAGATTGTCAAAAATAA
14729895 AAGAAAA-ATTGT-AAACAATAA
1 AAGAAAAGATTGTCAAA-AATAA
14729916 GTATAAGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 3 0.15
21 10 0.50
22 7 0.35
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.19
Consensus pattern (22 bp):
AAGAAAAGATTGTCAAAAATAA
Found at i:14731814 original size:144 final size:141
Alignment explanation
Indices: 14731580--14731842 Score: 316
Period size: 144 Copynumber: 1.8 Consensus size: 141
14731570 ATATGTGTGT
* * *
14731580 AATTACTAAAATATCCCTTAAGAGTAAATTCATAATTTGACCTTTTCGAGGTCAATTTTTCACGT
1 AATTACTAAAATATCCCTTAAGAGTAAATTCATAATTTGACCTTCTCAAGATCAATTTTTCAC-T
* * * *
14731645 AATATTTTAGATCATGATTTTATAATAGTTGATGATTTCTGGTGCATTCAAAATCATAGCGGCAC
65 AAAATTTTAGATCATAATTTCATAATAGTTCATGATTT-TGGTGC-TTCAAAATCATAGCGGCAC
14731710 CTCGTGAAGTATGA
128 CTCGTGAAGTATGA
* * *
14731724 AATTACTAAAATATCTCTT-AGTGGTAATTTCATAATTTGACCTTCTCAAGATCCAATTTTT-A-
1 AATTACTAAAATATCCCTTAAG-AGTAAATTCATAATTTGACCTTCTCAAGAT-CAATTTTTCAC
* * * *
14731786 TAAAAATTTTCAGTTCTTAATTTCATAATATTTCATGATTTTGGTGCTTTAAAATCA
64 T-AAAATTTT-AGATCATAATTTCATAATAGTTCATGATTTTGGTGCTTCAAAATCA
14731843 CAAAAACAAG
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
142 10 0.10
143 15 0.15
144 68 0.67
145 8 0.08
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (141 bp):
AATTACTAAAATATCCCTTAAGAGTAAATTCATAATTTGACCTTCTCAAGATCAATTTTTCACTA
AAATTTTAGATCATAATTTCATAATAGTTCATGATTTTGGTGCTTCAAAATCATAGCGGCACCTC
GTGAAGTATGA
Found at i:14733285 original size:24 final size:25
Alignment explanation
Indices: 14733237--14733292 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
14733227 AAATTGAAAG
**
14733237 CCCCAAATTCCCATGAAACTTTAAA
1 CCCCAAATTCCCATGAAACCCTAAA
14733262 CCCCAAATT-CCATGAAACCCTAAA
1 CCCCAAATTCCCATGAAACCCTAAA
*
14733286 ACCCAAA
1 CCCCAAA
14733293 CCCTTAACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.43, C:0.36, G:0.04, T:0.18
Consensus pattern (25 bp):
CCCCAAATTCCCATGAAACCCTAAA
Found at i:14733287 original size:25 final size:25
Alignment explanation
Indices: 14733237--14733289 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
14733227 AAATTGAAAG
* *
14733237 CCCCAAATTCCCATGAAACTTTAAA
1 CCCCAAATTCCCATGAAACCTAAAA
14733262 CCCCAAATT-CCATGAAACCCTAAAA
1 CCCCAAATTCCCATGAAA-CCTAAAA
14733287 CCC
1 CCC
14733290 AAACCCTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.40, C:0.38, G:0.04, T:0.19
Consensus pattern (25 bp):
CCCCAAATTCCCATGAAACCTAAAA
Found at i:14733358 original size:7 final size:7
Alignment explanation
Indices: 14733348--14733427 Score: 60
Period size: 7 Copynumber: 11.6 Consensus size: 7
14733338 AATCTTAAAT
14733348 TAAACCC
1 TAAACCC
*
14733355 TAAAACC
1 TAAACCC
14733362 TAAATCCC
1 TAAA-CCC
14733370 -AAACCC
1 TAAACCC
14733376 TAAA-CC
1 TAAACCC
14733382 TAAA-CC
1 TAAACCC
* *
14733388 TTAACCAT
1 TAAACC-C
*
14733396 TAAACCG
1 TAAACCC
14733403 TAAATCCC
1 TAAA-CCC
14733411 -AAACCC
1 TAAACCC
*
14733417 TAAACCA
1 TAAACCC
14733424 TAAA
1 TAAA
14733428 TCTAGACCCC
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
6 17 0.29
7 33 0.56
8 9 0.15
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:14733442 original size:41 final size:40
Alignment explanation
Indices: 14733357--14733457 Score: 113
Period size: 41 Copynumber: 2.6 Consensus size: 40
14733347 TTAAACCCTA
**
14733357 AAACCTAAATCCCAAACCCTAAACCTAAACCTTAACCATT
1 AAACCTAAATCCCAAACCCTAAACCTAAACCTTAACCACC
*
14733397 AAACCGTAAATCCCAAACCCTAAACCATAAATC-TAGACC-CC
1 AAACC-TAAATCCCAAACCCTAAACC-TAAACCTTA-ACCACC
14733438 AAACC--AA-CCCAAACCCTAAA
1 AAACCTAAATCCCAAACCCTAAA
14733458 GTCAATCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
37 13 0.24
38 2 0.04
40 5 0.09
41 27 0.49
42 8 0.15
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.15
Consensus pattern (40 bp):
AAACCTAAATCCCAAACCCTAAACCTAAACCTTAACCACC
Found at i:14736289 original size:20 final size:20
Alignment explanation
Indices: 14736252--14736288 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14736242 GGCAAAGAAA
*
14736252 ATTTTTTAGAATATTTTTAG
1 ATTTTTTAAAATATTTTTAG
14736272 ATTTTTTAAAAT-TTTTT
1 ATTTTTTAAAATATTTTT
14736289 TTAAATGCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
ATTTTTTAAAATATTTTTAG
Found at i:14736847 original size:15 final size:16
Alignment explanation
Indices: 14736805--14736838 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14736795 TCCTTATTCT
*
14736805 AAACA-AAAAAAACAA
1 AAACATAAAGAAACAA
14736820 AAACATAAAGAAACAA
1 AAACATAAAGAAACAA
14736836 AAA
1 AAA
14736839 TAATAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.82, C:0.12, G:0.03, T:0.03
Consensus pattern (16 bp):
AAACATAAAGAAACAA
Found at i:14739298 original size:19 final size:21
Alignment explanation
Indices: 14739264--14739374 Score: 58
Period size: 19 Copynumber: 5.5 Consensus size: 21
14739254 AATCCAATCA
14739264 AAAAAATGAAA-A-AAAGGAA-
1 AAAAAA-GAAAGAGAAAGGAAG
*
14739283 AAAAAA-AAAGAGAAAGTAAG
1 AAAAAAGAAAGAGAAAGGAAG
* *
14739303 AAAAAAGAAAGA-AATGAAAG
1 AAAAAAGAAAGAGAAAGGAAG
** *
14739323 -AATGAGAAA-A-AAATGAAAG
1 AAAAAAGAAAGAGAAA-GGAAG
* *
14739342 AAAGAAGAAAGAGAAAAGAAG
1 AAAAAAGAAAGAGAAAGGAAG
14739363 AAGCAAAAGAAA
1 AA--AAAAGAAA
14739375 AAAAATGAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
17 3 0.04
18 4 0.06
19 24 0.34
20 19 0.27
21 11 0.15
22 3 0.04
23 7 0.10
ACGTcount: A:0.74, C:0.01, G:0.21, T:0.05
Consensus pattern (21 bp):
AAAAAAGAAAGAGAAAGGAAG
Found at i:14739315 original size:4 final size:4
Alignment explanation
Indices: 14739293--14739353 Score: 54
Period size: 4 Copynumber: 14.8 Consensus size: 4
14739283 AAAAAAAAAG
* *
14739293 AGAA AGTA AGAA A-AA AGAA AGAA ATGAA AGAA TGAGAA AAAA ATGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA A-GAA AGAA --AGAA AGAA A-GAA
14739340 AGAA AG-A AGAA AGA
1 AGAA AGAA AGAA AGA
14739354 GAAAAGAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
3 6 0.13
4 30 0.64
5 7 0.15
6 4 0.09
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (4 bp):
AGAA
Found at i:14739349 original size:26 final size:27
Alignment explanation
Indices: 14739303--14739364 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
14739293 AGAAAGTAAG
*
14739303 AAAAAAGAAAGAAATGAAAGAATGAGA
1 AAAAAAGAAAGAAATGAAAGAAAGAGA
14739330 AAAAAATGAAAGAAA-G-AAGAAAGAGA
1 AAAAAA-GAAAGAAATGAAAGAAAGAGA
*
14739356 AAAGAAGAA
1 AAAAAAGAA
14739365 GCAAAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 3 0.09
26 14 0.44
27 7 0.22
28 8 0.25
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (27 bp):
AAAAAAGAAAGAAATGAAAGAAAGAGA
Found at i:14739363 original size:17 final size:18
Alignment explanation
Indices: 14739338--14739375 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
14739328 GAAAAAAATG
14739338 AAAGAAAGAAG-AAAGAGA
1 AAAGAAAGAAGCAAA-AGA
14739356 AAAG-AAGAAGCAAAAGA
1 AAAGAAAGAAGCAAAAGA
14739373 AAA
1 AAA
14739376 AAAATGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAGCAAAAGA
Found at i:14741239 original size:23 final size:24
Alignment explanation
Indices: 14741213--14741262 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
14741203 TTTCAAATCT
* *
14741213 AAAAAG-ATAAAATCTTTTGAAAC
1 AAAAAGTAAAAAACCTTTTGAAAC
*
14741236 -AAAAGTAAAAAACCTTTTGAAAG
1 AAAAAGTAAAAAACCTTTTGAAAC
14741259 AAAA
1 AAAA
14741263 GTGAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 5 0.23
23 14 0.64
24 3 0.14
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.22
Consensus pattern (24 bp):
AAAAAGTAAAAAACCTTTTGAAAC
Found at i:14741263 original size:23 final size:23
Alignment explanation
Indices: 14741221--14741269 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
14741211 CTAAAAAGAT
*
14741221 AAAATCTTTTGAAACAAAAGTAA
1 AAAACCTTTTGAAACAAAAGTAA
* *
14741244 AAAACCTTTTGAAAGAAAAGTGA
1 AAAACCTTTTGAAACAAAAGTAA
14741267 AAA
1 AAA
14741270 TTTCAAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.22
Consensus pattern (23 bp):
AAAACCTTTTGAAACAAAAGTAA
Found at i:14741961 original size:134 final size:134
Alignment explanation
Indices: 14741721--14741992 Score: 429
Period size: 134 Copynumber: 2.0 Consensus size: 134
14741711 TTGAGATCAA
* * * * * * *
14741721 TTTAACCTAGATACCTTAGAGTCAACTTTAGTGAAATCTAGTCAAACTTGATCAACAAAGTCAAA
1 TTTAACCCAAATACCCTACAGTCAACTCTAGTCAAATCTAGTCAAACCTGATCAACAAAGTCAAA
* * *
14741786 GTTAGTCAAATAAAGTCAAATTTCATCCAACTTGGTAAAAACGGATAAAATCC-TGGTCAACATT
66 ATTAGTCAAATAAAGTCAAAATTCATCCAACTTGGTAAAAACGAATAAAA-CCTTGGTCAACATT
14741850 CAAAT
130 CAAAT
*
14741855 TTTAACCCAAATACCCTACAGTCAACTCTAGTCAAATCTGGTCAAACCTGATCAACAAAGTCAAA
1 TTTAACCCAAATACCCTACAGTCAACTCTAGTCAAATCTAGTCAAACCTGATCAACAAAGTCAAA
14741920 ATTAGTCAAATAAAGTCAAAATTCATCCAACTTGGTAAAAACGAATAAAACCTTGGTCAACATTC
66 ATTAGTCAAATAAAGTCAAAATTCATCCAACTTGGTAAAAACGAATAAAACCTTGGTCAACATTC
14741985 AAAT
131 AAAT
14741989 TTTA
1 TTTA
14741993 TAATCAAATT
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
133 2 0.02
134 124 0.98
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (134 bp):
TTTAACCCAAATACCCTACAGTCAACTCTAGTCAAATCTAGTCAAACCTGATCAACAAAGTCAAA
ATTAGTCAAATAAAGTCAAAATTCATCCAACTTGGTAAAAACGAATAAAACCTTGGTCAACATTC
AAAT
Found at i:14742339 original size:32 final size:32
Alignment explanation
Indices: 14742298--14742358 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
14742288 AATGTCCCAA
14742298 ATCATGGTTTGATATTATTTGATGATTTTCAG
1 ATCATGGTTTGATATTATTTGATGATTTTCAG
14742330 ATCATGGTTTGATATTATTTGATGATTTT
1 ATCATGGTTTGATATTATTTGATGATTTT
14742359 TAGAATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.52
Consensus pattern (32 bp):
ATCATGGTTTGATATTATTTGATGATTTTCAG
Found at i:14742748 original size:16 final size:16
Alignment explanation
Indices: 14742727--14742757 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14742717 GAAAATTTTA
*
14742727 TACTAAGAGCAAAATG
1 TACTAAAAGCAAAATG
14742743 TACTAAAAGCAAAAT
1 TACTAAAAGCAAAAT
14742758 TTTATACTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (16 bp):
TACTAAAAGCAAAATG
Found at i:14742775 original size:19 final size:19
Alignment explanation
Indices: 14742718--14742775 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
14742708 TTAAAGATCG
14742718 AAAATTTTATACTAAGAGC
1 AAAATTTTATACTAAGAGC
* *
14742737 AAAA---TGTACTAAAAGC
1 AAAATTTTATACTAAGAGC
*
14742753 AAAATTTTATACTAAGAGT
1 AAAATTTTATACTAAGAGC
14742772 AAAA
1 AAAA
14742776 ATCCAACATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 14 0.45
19 17 0.55
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (19 bp):
AAAATTTTATACTAAGAGC
Found at i:14744081 original size:7 final size:7
Alignment explanation
Indices: 14744065--14744254 Score: 56
Period size: 7 Copynumber: 27.4 Consensus size: 7
14744055 AATTCCCATG
*
14744065 AAACCTT
1 AAACCCT
14744072 AAACCCT
1 AAACCCT
*
14744079 AAATTCCAT
1 AAA--CCCT
14744088 GAAACCCT
1 -AAACCCT
14744096 AAAACCCT
1 -AAACCCT
*
14744104 AAACTCT
1 AAACCCT
14744111 AAA-CC-
1 AAACCCT
*
14744116 AAA-CAT
1 AAACCCT
*
14744122 AAAACCT
1 AAACCCT
*
14744129 AAACCTT
1 AAACCCT
* *
14744136 AAGCCCC
1 AAACCCT
14744143 AAACTCC-
1 AAAC-CCT
*
14744150 AAACCGT
1 AAACCCT
14744157 AAACCCT
1 AAACCCT
* * *
14744164 AAGCTCA
1 AAACCCT
14744171 AAACCCT
1 AAACCCT
* *
14744178 AAA-TCG
1 AAACCCT
*
14744184 AAACCTT
1 AAACCCT
*
14744191 AAA--TT
1 AAACCCT
*
14744196 AAACCTT
1 AAACCCT
*
14744203 AAAACCT
1 AAACCCT
*
14744210 AAACACT
1 AAACCCT
*
14744217 AAACAC-
1 AAACCCT
*
14744223 ACAACCTT
1 A-AACCCT
14744231 AAATCCC-
1 AAA-CCCT
*
14744238 AAACCAT
1 AAACCCT
14744245 AAACCCT
1 AAACCCT
14744252 AAA
1 AAA
14744255 TCAAACCCTA
Statistics
Matches: 133, Mismatches: 36, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
5 9 0.07
6 12 0.09
7 91 0.68
8 15 0.11
9 3 0.02
10 3 0.02
ACGTcount: A:0.48, C:0.32, G:0.03, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:14744092 original size:24 final size:26
Alignment explanation
Indices: 14744047--14744106 Score: 97
Period size: 25 Copynumber: 2.4 Consensus size: 26
14744037 CCAAAATTAG
*
14744047 AAACCCTAAATTCCCATGAAA-CCTT
1 AAACCCTAAATTCCCATGAAACCCTA
14744072 AAACCCTAAATT-CCATGAAACCCTA
1 AAACCCTAAATTCCCATGAAACCCTA
14744097 AAACCCTAAA
1 AAACCCTAAA
14744107 CTCTAAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 8 0.24
25 25 0.76
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.20
Consensus pattern (26 bp):
AAACCCTAAATTCCCATGAAACCCTA
Found at i:14744285 original size:14 final size:14
Alignment explanation
Indices: 14744244--14744289 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
14744234 TCCCAAACCA
14744244 TAAACCCTAAATC-
1 TAAACCCTAAATCT
14744257 -AAACCCTAACA-CT
1 TAAACCCTAA-ATCT
*
14744270 TACACCCTAAATCT
1 TAAACCCTAAATCT
14744284 TAAACC
1 TAAACC
14744290 TTACACCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
12 10 0.37
13 2 0.07
14 15 0.56
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAATCT
Found at i:14749822 original size:44 final size:43
Alignment explanation
Indices: 14749771--14749856 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
14749761 GAGATTTGCA
14749771 AAAATCTTCA-AGATTTCCATTAAAGATTCAAAGATTCACATTTG
1 AAAATCTT-AGAGATTTCCA-TAAAGATTCAAAGATTCACATTTG
* * *
14749815 AAAATCTTAGAGATTTGCATCAAGATTCAAAGATTCTCATTT
1 AAAATCTTAGAGATTTCCATAAAGATTCAAAGATTCACATTT
14749857 AAAGAGTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 22 0.58
44 16 0.42
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (43 bp):
AAAATCTTAGAGATTTCCATAAAGATTCAAAGATTCACATTTG
Found at i:14750173 original size:22 final size:22
Alignment explanation
Indices: 14750113--14750378 Score: 96
Period size: 22 Copynumber: 12.1 Consensus size: 22
14750103 TTTTTCTAAG
14750113 ATTATGCCCGAAGGTCTTAAAA
1 ATTATGCCCGAAGGTCTTAAAA
* * * *
14750135 ATTATGTCTGAAAGTCTTACAA
1 ATTATGCCCGAAGGTCTTAAAA
* * * *
14750157 CTTATGCCCGAGGGTCTTGAGA
1 ATTATGCCCGAAGGTCTTAAAA
* * *
14750179 ATTGTGCCCAAAGG-CTTTACAA
1 ATTATGCCCGAAGGTC-TTAAAA
** *
14750201 ATTATG-CTTAGAGGTCTTACAA
1 ATTATGCCCGA-AGGTCTTAAAA
** * *
14750223 ATTATG-CTTAGAGGTTTTGAAA
1 ATTATGCCCGA-AGGTCTTAAAA
** * * *
14750245 ATTATGCTTGGA-GACTTTACAA
1 ATTATGCCCGAAGGTC-TTAAAA
* *
14750267 ATTGTGCCCGAAGGCCTTAAAA
1 ATTATGCCCGAAGGTCTTAAAA
** **
14750289 ATTATG-CTTAGAGGTCTTGCAA
1 ATTATGCCCGA-AGGTCTTAAAA
* * *
14750311 ATTATG-TCTAGAGGTCTTGAAA
1 ATTATGCCCGA-AGGTCTTAAAA
* *
14750333 ATTATGCCCAGAA-GCCTTACAA
1 ATTATGCCC-GAAGGTCTTAAAA
* *
14750355 ATTATGCTCGAAGGTCTTACAA
1 ATTATGCCCGAAGGTCTTAAAA
14750377 AT
1 AT
14750379 CATTTCTTAT
Statistics
Matches: 180, Mismatches: 54, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
21 9 0.05
22 164 0.91
23 6 0.03
24 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (22 bp):
ATTATGCCCGAAGGTCTTAAAA
Found at i:14750217 original size:44 final size:44
Alignment explanation
Indices: 14750169--14750313 Score: 136
Period size: 44 Copynumber: 3.3 Consensus size: 44
14750159 TATGCCCGAG
*
14750169 GGTCTTGA-GAATTGTGCCCAAAGGCTTTACAAATTATGCTTAGA
1 GGTCTTGACAAATTGTGCCCAAAGGCTTTA-AAATTATGCTTAGA
* ** * * *
14750213 GGTCTT-ACAAATTATGCTTAGAGGTTTTGAAAATTATGCTTGGA
1 GGTCTTGACAAATTGTGCCCAAAGGCTTT-AAAATTATGCTTAGA
* * * *
14750257 -GACTTTACAAATTGTGCCCGAAGGCCTTAAAAATTATGCTTAGA
1 GGTCTTGACAAATTGTGCCCAAAGG-CTTTAAAATTATGCTTAGA
14750301 GGTCTTG-CAAATT
1 GGTCTTGACAAATT
14750314 ATGTCTAGAG
Statistics
Matches: 78, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
43 5 0.06
44 66 0.85
45 7 0.09
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (44 bp):
GGTCTTGACAAATTGTGCCCAAAGGCTTTAAAATTATGCTTAGA
Found at i:14750263 original size:66 final size:66
Alignment explanation
Indices: 14750193--14750362 Score: 177
Period size: 66 Copynumber: 2.6 Consensus size: 66
14750183 TGCCCAAAGG
* * * *
14750193 CTTTACAAATTATGCTTAG-AGGTCTTACAAATTATGCTTAGAGGTTTTGAAAATTATGCTTGGA
1 CTTTACAAATTATGC-CAGAAGGCCTTAAAAATTATGCTTAGAGGTCTTGAAAATTATGCTTGGA
14750257 GA
65 GA
* * * *
14750259 CTTTACAAATTGTGCCCGAAGGCCTTAAAAATTATGCTTAGAGGTCTTGCAAATTATG-TCTAGA
1 CTTTACAAATTATGCCAGAAGGCCTTAAAAATTATGCTTAGAGGTCTTGAAAATTATGCT-TGGA
*
14750323 GGT
65 -GA
* *
14750326 CTTGA-AAATTATGCCCAGAA-GCCTTACAAATTATGCT
1 CTTTACAAATTATG-CCAGAAGGCCTTAAAAATTATGCT
14750363 CGAAGGTCTT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
65 2 0.02
66 75 0.86
67 10 0.11
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (66 bp):
CTTTACAAATTATGCCAGAAGGCCTTAAAAATTATGCTTAGAGGTCTTGAAAATTATGCTTGGAG
A
Found at i:14750270 original size:88 final size:88
Alignment explanation
Indices: 14750178--14750339 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 88
14750168 GGGTCTTGAG
* * *
14750178 AATTGTGCCCAAAGGCTTTACAAATTATGCTTAGAGGTCTTACAAATTATG-CTTAGAGGTTTTG
1 AATTGTGCCCAAAGGCCTTAAAAATTATGCTTAGAGGTCTTACAAATTATGTC-TAGAGGTCTTG
14750242 AAAATTATGCTTGGAGACTTTACA
65 AAAATTATGCTTGGAGACTTTACA
* *
14750266 AATTGTGCCCGAAGGCCTTAAAAATTATGCTTAGAGGTCTTGCAAATTATGTCTAGAGGTCTTGA
1 AATTGTGCCCAAAGGCCTTAAAAATTATGCTTAGAGGTCTTACAAATTATGTCTAGAGGTCTTGA
14750331 AAATTATGC
66 AAATTATGC
14750340 CCAGAAGCCT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
88 67 0.99
89 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (88 bp):
AATTGTGCCCAAAGGCCTTAAAAATTATGCTTAGAGGTCTTACAAATTATGTCTAGAGGTCTTGA
AAATTATGCTTGGAGACTTTACA
Found at i:14750334 original size:44 final size:43
Alignment explanation
Indices: 14750199--14750372 Score: 170
Period size: 44 Copynumber: 4.0 Consensus size: 43
14750189 AAGGCTTTAC
*
14750199 AAATTATGCTTAGAGGTCTTACAAATTATGCTTAGAGGTTTTGA
1 AAATTATGCTTAGAGGTCTTACAAATTATGC-TAGAGGTCTTGA
* * * ** * *
14750243 AAATTATGCTTGGA-GACTTTACAAATTGTGCCCGAAGGCCTTAA
1 AAATTATGCTTAGAGGTC-TTACAAATTATGCTAG-AGGTCTTGA
*
14750287 AAATTATGCTTAGAGGTCTTGCAAATTATGTCTAGAGGTCTTGA
1 AAATTATGCTTAGAGGTCTTACAAATTATG-CTAGAGGTCTTGA
** * * *
14750331 AAATTATGCCCAGAAGCCTTACAAATTATGCTCGAAGGTCTT
1 AAATTATGCTTAGAGGTCTTACAAATTATGCTAG-AGGTCTT
14750373 ACAAATCATT
Statistics
Matches: 103, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
43 6 0.06
44 93 0.90
45 4 0.04
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (43 bp):
AAATTATGCTTAGAGGTCTTACAAATTATGCTAGAGGTCTTGA
Found at i:14750353 original size:88 final size:88
Alignment explanation
Indices: 14750178--14750378 Score: 262
Period size: 88 Copynumber: 2.3 Consensus size: 88
14750168 GGGTCTTGAG
* * *
14750178 AATTGTGCCCAAAGGCTTTACAAATTATGCTTAGAGGTCTTACAAATTATGCTTAGAGGTTTTGA
1 AATTGTGCCCGAAGGCCTTACAAATTATGCTTAGAGGTCTTACAAATTATGCTTAGAGGTCTTGA
** * *
14750243 AAATTATGCTTGGAGACTTTACA
66 AAATTATGCCAGAAGACCTTACA
* *
14750266 AATTGTGCCCGAAGGCCTTAAAAATTATGCTTAGAGGTCTTGCAAATTATG-TCTAGAGGTCTTG
1 AATTGTGCCCGAAGGCCTTACAAATTATGCTTAGAGGTCTTACAAATTATGCT-TAGAGGTCTTG
14750330 AAAATTATGCCCAGAAG-CCTTACA
65 AAAATTATG-CCAGAAGACCTTACA
* * *
14750354 AATTATGCTCGAAGGTCTTACAAAT
1 AATTGTGCCCGAAGGCCTTACAAAT
14750379 CATTTCTTAT
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
87 1 0.01
88 93 0.95
89 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (88 bp):
AATTGTGCCCGAAGGCCTTACAAATTATGCTTAGAGGTCTTACAAATTATGCTTAGAGGTCTTGA
AAATTATGCCAGAAGACCTTACA
Found at i:14751846 original size:20 final size:20
Alignment explanation
Indices: 14751823--14751868 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
14751813 TTAAAACATG
* *
14751823 CATTTTCATCTTTTTTTTTT
1 CATTTTCATATCTTTTTTTT
**
14751843 CATTTTTGTATCTTTTTTTT
1 CATTTTCATATCTTTTTTTT
14751863 CATTTT
1 CATTTT
14751869 TCCACATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (20 bp):
CATTTTCATATCTTTTTTTT
Found at i:14753062 original size:13 final size:13
Alignment explanation
Indices: 14753044--14753079 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
14753034 TATTGATAAG
14753044 TTTTTCAATTTTC
1 TTTTTCAATTTTC
14753057 TTTTTCAATTTTC
1 TTTTTCAATTTTC
14753070 TTTTTCAATT
1 TTTTTCAATT
14753080 GCCTGCATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTCAATTTTC
Found at i:14757170 original size:23 final size:23
Alignment explanation
Indices: 14757126--14757170 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
14757116 ATTGAAATAT
*
14757126 AAATTAAATATTAAAAATTTATC
1 AAATTAAATATTAAAAACTTATC
*
14757149 AAATTAAATATTAATAACTTAT
1 AAATTAAATATTAAAAACTTAT
14757171 TTAAATGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTAAATATTAAAAACTTATC
Found at i:14759721 original size:6 final size:6
Alignment explanation
Indices: 14759710--14759735 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14759700 GTTACTTTTT
14759710 TCTTTG TCTTTG TCTTTG TCTTTG TC
1 TCTTTG TCTTTG TCTTTG TCTTTG TC
14759736 ATCCTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.15, T:0.65
Consensus pattern (6 bp):
TCTTTG
Found at i:14765873 original size:14 final size:14
Alignment explanation
Indices: 14765854--14765881 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14765844 CAAATACATA
14765854 CAGATTACAATCAG
1 CAGATTACAATCAG
14765868 CAGATTACAATCAG
1 CAGATTACAATCAG
14765882 TTACACTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
CAGATTACAATCAG
Found at i:14766226 original size:21 final size:18
Alignment explanation
Indices: 14766209--14766245 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
14766199 ACCGATGAGG
14766209 AAACTGGAAAATATGATGA
1 AAAC-GGAAAATATGATGA
*
14766228 CAACGGAAAATATGATGA
1 AAACGGAAAATATGATGA
14766246 TGATATGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.51, C:0.08, G:0.22, T:0.19
Consensus pattern (18 bp):
AAACGGAAAATATGATGA
Found at i:14768582 original size:15 final size:16
Alignment explanation
Indices: 14768562--14768591 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14768552 GGTTTGAATT
14768562 ATCT-AACTGTGATAA
1 ATCTAAACTGTGATAA
14768577 ATCTAAACTGTGATA
1 ATCTAAACTGTGATA
14768592 GGAGCTGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (16 bp):
ATCTAAACTGTGATAA
Found at i:14773379 original size:16 final size:16
Alignment explanation
Indices: 14773360--14773397 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
14773350 TAAGTAACTA
14773360 TGATTTTGTTGACAAG
1 TGATTTTGTTGACAAG
*
14773376 TGATTTTGTTGACAGG
1 TGATTTTGTTGACAAG
14773392 TGATTT
1 TGATTT
14773398 CATTTTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.26, T:0.47
Consensus pattern (16 bp):
TGATTTTGTTGACAAG
Found at i:14775316 original size:28 final size:28
Alignment explanation
Indices: 14775261--14775324 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
14775251 TGGTTTGGGT
*
14775261 TTGGTTAGGGGAGTTAGGTTCAATTTGGAC
1 TTGGTT-GGGGAGTTAGGTTCAACTTGG-C
** *
14775291 TTGGTTGGGG-GTTAGGTTCGGCTTGGG
1 TTGGTTGGGGAGTTAGGTTCAACTTGGC
14775318 TTGGTTG
1 TTGGTTG
14775325 TGGTTCAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 7 0.23
28 13 0.43
29 4 0.13
30 6 0.20
ACGTcount: A:0.11, C:0.06, G:0.44, T:0.39
Consensus pattern (28 bp):
TTGGTTGGGGAGTTAGGTTCAACTTGGC
Found at i:14775457 original size:26 final size:26
Alignment explanation
Indices: 14775427--14775486 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
14775417 GGCTTGGGTT
*
14775427 GGTTTAGGATTTAGTGTATGGTTT-A
1 GGTTTAGGATTTAGTGTAAGGTTTAA
* * *
14775452 GAGTTTAAGATTTGGTTTAAGGTTTAA
1 G-GTTTAGGATTTAGTGTAAGGTTTAA
14775479 GGTTTAGG
1 GGTTTAGG
14775487 GTTTTGGTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.04
26 25 0.89
27 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (26 bp):
GGTTTAGGATTTAGTGTAAGGTTTAA
Found at i:14775505 original size:19 final size:19
Alignment explanation
Indices: 14775481--14775530 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
14775471 AGGTTTAAGG
14775481 TTTAGGGTTTTGGTTGGGA
1 TTTAGGGTTTTGGTTGGGA
* *
14775500 TTTAGGGTTTGTGTTTGGGG
1 TTTAGGGTTT-TGGTTGGGA
14775520 TTTA-GGTTTTG
1 TTTAGGGTTTTG
14775531 TTATTGCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 2 0.07
19 15 0.54
20 11 0.39
ACGTcount: A:0.08, C:0.00, G:0.40, T:0.52
Consensus pattern (19 bp):
TTTAGGGTTTTGGTTGGGA
Found at i:14775523 original size:20 final size:20
Alignment explanation
Indices: 14775479--14775531 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
14775469 TAAGGTTTAA
14775479 GGTTTAGGGTTT-TGGTTGG
1 GGTTTAGGGTTTGTGGTTGG
* *
14775498 GATTTAGGGTTTGTGTTTGG
1 GGTTTAGGGTTTGTGGTTGG
*
14775518 GGTTTAGGTTTTGT
1 GGTTTAGGGTTTGT
14775532 TATTGCATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.08, C:0.00, G:0.42, T:0.51
Consensus pattern (20 bp):
GGTTTAGGGTTTGTGGTTGG
Found at i:14777079 original size:144 final size:144
Alignment explanation
Indices: 14776879--14777218 Score: 350
Period size: 143 Copynumber: 2.4 Consensus size: 144
14776869 AATTAACCTA
* * *
14776879 AAAAAGCTCAAATTATAAAAATA-TTCTTAAA-AAGTTTTTTGGTAATTTCACA-CTTTCAA-AC
1 AAAAAG-TCAAATTATAAAAATACCTC-TAAAGGA-TATTTTGGTAATTTCACATCTTTCAAGA-
* ** * * * ** * *
14776940 GTATGATTGAGGTTTTTAATGCATTGAATGTCATGAAATAATATCAAAACATGATCTAAACCTTT
62 -TACGATCAAGATTTTTAATGCACTAAAAATCATGAAATAATATAAAAACATGATATAAACCTTT
*
14777005 TTGCAAAAAATCAACCTCG
126 TTGCAAAAAACCAACCTCG
* * * *
14777024 AAAATA-TCAAATTATGAAAATACC-CTAAAGGGTATTTTGGTAATTTTACATCTTTCGAGATAC
1 AAAA-AGTCAAATTATAAAAATACCTCTAAAGGATATTTTGGTAATTTCACATCTTTCAAGATAC
* * *
14777087 GATCAAGATTTTTAATGCACTAAAAATCATGAAATAATATAAAAATATGATATAGAGCTTTTTGC
65 GATCAAGATTTTTAATGCACTAAAAATCATGAAATAATATAAAAACATGATATAAACCTTTTTGC
* * *
14777152 AAACAACCAACTTTG
130 AAAAAACCAACCTCG
* *
14777167 AAAAAGTTAAATTATAAAAATACCTCTAAAGGATATTTTAGTAATTTCACAT
1 AAAAAGTCAAATTATAAAAATACCTCTAAAGGATATTTTGGTAATTTCACAT
14777219 TTTTAATGTG
Statistics
Matches: 159, Mismatches: 29, Indels: 15
0.78 0.14 0.07
Matches are distributed among these distances:
142 1 0.01
143 106 0.67
144 46 0.29
145 5 0.03
146 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.34
Consensus pattern (144 bp):
AAAAAGTCAAATTATAAAAATACCTCTAAAGGATATTTTGGTAATTTCACATCTTTCAAGATACG
ATCAAGATTTTTAATGCACTAAAAATCATGAAATAATATAAAAACATGATATAAACCTTTTTGCA
AAAAACCAACCTCG
Found at i:14777488 original size:20 final size:21
Alignment explanation
Indices: 14777472--14777519 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
14777462 CTAGATCTAA
14777472 TTTGACTAAT-TTTGATCAAG
1 TTTGACTAATATTTGATCAAG
*
14777492 TTTGACT-TTATTTGATCAAG
1 TTTGACTAATATTTGATCAAG
14777512 TTTGACTA
1 TTTGACTA
14777520 TGGGGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (21 bp):
TTTGACTAATATTTGATCAAG
Found at i:14777915 original size:50 final size:48
Alignment explanation
Indices: 14777785--14777938 Score: 152
Period size: 50 Copynumber: 3.1 Consensus size: 48
14777775 ATAAATTAAA
* * *
14777785 AAAAATCTCATCTTTAGAAAGCTTCTCTAAATAGAGG-CTATGAAACTTT
1 AAAAATCTCATCTTTA-AAAGCTCCTCTAAATAGAGGTTTA-GCAACTTT
** * *
14777834 -AAAATCTTTTCTCTAAAAAAGCTCCTTTAAATAGAGGTTTAGCAACTTT
1 AAAAATCTCATCT-T-TAAAAGCTCCTCTAAATAGAGGTTTAGCAACTTT
*
14777883 AAAAATCTCATATTTGAAAATGCTCCTCTAAATAGAGGTTT-GACAACTTT
1 AAAAATCTCATCTTT-AAAA-GCTCCTCTAAATAGAGGTTTAG-CAACTTT
14777933 AAAAAT
1 AAAAAT
14777939 TTTATCTCCT
Statistics
Matches: 86, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
48 10 0.12
49 32 0.37
50 44 0.51
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.34
Consensus pattern (48 bp):
AAAAATCTCATCTTTAAAAGCTCCTCTAAATAGAGGTTTAGCAACTTT
Found at i:14777970 original size:39 final size:38
Alignment explanation
Indices: 14777905--14777979 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
14777895 TTTGAAAATG
***
14777905 CTCCTCTAAATAGAGGTTTGACAACTTTAAAAATTTTAT
1 CTCCTCTAAATAGAGACATGACAACTTT-AAAATTTTAT
*
14777944 CTCCTCTAAATAGAGACATGATAACTTTAAAATTTT
1 CTCCTCTAAATAGAGACATGACAACTTTAAAATTTT
14777980 CATTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 8 0.25
39 24 0.75
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (38 bp):
CTCCTCTAAATAGAGACATGACAACTTTAAAATTTTAT
Found at i:14782307 original size:3 final size:3
Alignment explanation
Indices: 14782301--14782341 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
14782291 TAATAATAAT
* *
14782301 AAC AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAG AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
14782342 AAATAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.27, G:0.02, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:14782310 original size:9 final size:9
Alignment explanation
Indices: 14782298--14782347 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
14782288 TAATAATAAT
14782298 AATAACAAC
1 AATAACAAC
14782307 AATAACAAC
1 AATAACAAC
*
14782316 AACAACAAC
1 AATAACAAC
*
14782325 AACAACAAC
1 AATAACAAC
* *
14782334 AAGAACAAA
1 AATAACAAC
14782343 AATAA
1 AATAA
14782348 TAATAAAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.70, C:0.22, G:0.02, T:0.06
Consensus pattern (9 bp):
AATAACAAC
Found at i:14793980 original size:34 final size:34
Alignment explanation
Indices: 14793940--14794007 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
14793930 ACATTTCATT
*
14793940 TAACTTCTCTTATTCAACCAAGTCATTTAGATTC
1 TAACTTCTCTTATTCAACCAAGTCATCTAGATTC
*
14793974 TAACTTCTCTTATTCAACTAAGTCATCTAGATTC
1 TAACTTCTCTTATTCAACCAAGTCATCTAGATTC
14794008 GATACCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (34 bp):
TAACTTCTCTTATTCAACCAAGTCATCTAGATTC
Found at i:14798256 original size:9 final size:9
Alignment explanation
Indices: 14798242--14798277 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
14798232 AATCCTGTCC
14798242 TATTATTTT
1 TATTATTTT
14798251 TATTATTTT
1 TATTATTTT
* *
14798260 TTTTATATT
1 TATTATTTT
14798269 TATTATTTT
1 TATTATTTT
14798278 AACAAAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TATTATTTT
Found at i:14800637 original size:136 final size:138
Alignment explanation
Indices: 14800445--14800773 Score: 350
Period size: 136 Copynumber: 2.4 Consensus size: 138
14800435 TCAAATCCAC
* * * ** * *
14800445 CAAAAATCATGAAATATTATAGAATTGAGATCTGAAAAGTTTTGTGAAAATTTGAGCTTGGGAAA
1 CAAAAATCATGAAATATTATAAAATTGAGATATGGAAAGTTTCATGAAAATCTGAGC-T-CGAAA
* * * *
14800510 -GCCAAATTACGAAAATA-CCTTAAATGGGTACTTTGGTGATTTCAT-ACCT-CATGGGTACTAC
64 GGCCAAATTACGAAAATACCCTT-AAGGGGTACTTTGATAATTTC-TCACCTCCA-AGGTACTA-
14800571 TT-TGA-TGC-AT-
125 TTGTGATTGCAATG
*
14800581 CAAAAATCATGAAATATTATAAAATTGAGATATGGAATGTTTCATGAAAATCTGAGCTCGAAAGG
1 CAAAAATCATGAAATATTATAAAATTGAGATATGGAAAGTTTCATGAAAATCTGAGCTCGAAAGG
* *
14800646 CTAAATTACGAAAATACCCTTAAGGGGTATTTTGATAATTTCTCACCTCCCAAGGTACTATTGTG
66 CCAAATTACGAAAATACCCTTAAGGGGTACTTTGATAATTTCTCACCT-CCAAGGTACTATTGTG
*
14800711 ATTTCAAATG
130 ATTGC-AATG
* *
14800721 CACTAATAATCATGAAATATTATGAAATTGAGATTTGGAAAGTTTCATGAAAA
1 CA--AA-AATCATGAAATATTATAAAATTGAGATATGGAAAGTTTCATGAAAA
14800774 AAATCGACCT
Statistics
Matches: 162, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
134 5 0.03
135 40 0.25
136 64 0.40
137 4 0.02
139 2 0.01
140 2 0.01
142 2 0.01
143 43 0.27
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (138 bp):
CAAAAATCATGAAATATTATAAAATTGAGATATGGAAAGTTTCATGAAAATCTGAGCTCGAAAGG
CCAAATTACGAAAATACCCTTAAGGGGTACTTTGATAATTTCTCACCTCCAAGGTACTATTGTGA
TTGCAATG
Found at i:14800754 original size:143 final size:136
Alignment explanation
Indices: 14800299--14800773 Score: 383
Period size: 144 Copynumber: 3.4 Consensus size: 136
14800289 ATTTTAAAGC
* *** *
14800299 ATCA-AAAATCATGATATATTATAGAATTGAGGCCT-AAACAGTTTCATGAAAATCTGAGCTCGG
1 ATCACAAAATCATGAAATATTATA-AATTGAGATATGGAA-AGTTTCATGAAAATCTGAGCTC-G
* * * * * ** * ** *
14800362 GAAGACTAAATTATGAAAAAACTCACAAGGGGTATTTTGATAATTTCATATCTCTTGAGGTTCTA
63 AAAGGCTAAATTACGAAAATACCCTTAAGGGGTATTTTGATAATTTCATACCTC-CAAGGTACTA
*
14800427 CTATGACTTCAA
127 -TTTGA-TTCAA
* * ** *
14800439 ATCCACCAAAAATCATGAAATATTATAGAATTGAGATCTGAAAAGTTTTGTGAAAATTTGAGCTT
1 AT-CA-C-AAAATCATGAAATATTATA-AATTGAGATATGGAAAGTTTCATGAAAATCTGAGC-T
* * * * * * *
14800504 GGGAAA-GCCAAATTACGAAAATA-CCTTAAATGGGTACTTTGGTGATTTCATACCT-CATGGGT
61 -CGAAAGGCTAAATTACGAAAATACCCTT-AAGGGGTATTTTGATAATTTCATACCTCCA-AGGT
*
14800566 ACTACTTTGATGC--
123 ACTA-TTTGATTCAA
*
14800579 ATCA-AAAATCATGAAATATTATAAAATTGAGATATGGAATGTTTCATGAAAATCTGAGCTCGAA
1 ATCACAAAATCATGAAATATTAT-AAATTGAGATATGGAAAGTTTCATGAAAATCTGAGCTCGAA
14800643 AGGCTAAATTACGAAAATACCCTTAAGGGGTATTTTGATAATTTC-TCACCTCCCAAGGTACTAT
65 AGGCTAAATTACGAAAATACCCTTAAGGGGTATTTTGATAATTTCAT-ACCT-CCAAGGTACTAT
14800707 TGTGATTTCAA
128 T-TGA-TTCAA
*
14800718 ATGCACTAATAATCATGAAATATTATGAAATTGAGATTTGGAAAGTTTCATGAAAA
1 AT-CAC-AA-AATCATGAAATATTAT-AAATTGAGATATGGAAAGTTTCATGAAAA
14800774 AAATCGACCT
Statistics
Matches: 269, Mismatches: 43, Indels: 43
0.76 0.12 0.12
Matches are distributed among these distances:
134 5 0.02
135 40 0.15
136 61 0.23
137 5 0.02
139 4 0.01
140 6 0.02
141 2 0.01
142 4 0.01
143 55 0.20
144 80 0.30
145 7 0.03
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (136 bp):
ATCACAAAATCATGAAATATTATAAATTGAGATATGGAAAGTTTCATGAAAATCTGAGCTCGAAA
GGCTAAATTACGAAAATACCCTTAAGGGGTATTTTGATAATTTCATACCTCCAAGGTACTATTTG
ATTCAA
Found at i:14806262 original size:21 final size:22
Alignment explanation
Indices: 14806226--14806268 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
14806216 ATTGCATTAA
* *
14806226 TTTTCAATGTACTTTC-ATATT
1 TTTTCAATGAAATTTCAATATT
14806247 TTTTCAATGAAATTTCAATATT
1 TTTTCAATGAAATTTCAATATT
14806269 CTTATGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (22 bp):
TTTTCAATGAAATTTCAATATT
Found at i:14806888 original size:175 final size:175
Alignment explanation
Indices: 14806597--14806951 Score: 683
Period size: 175 Copynumber: 2.0 Consensus size: 175
14806587 ACTTAACACT
*
14806597 TTTAGATTCATATGTTTACTTGTTATTTCTCTTTTAATTACATTTAATTTCATGTTTTTACATGT
1 TTTAGATTCATATGTTTACTTGTTATTTCTCCTTTAATTACATTTAATTTCATGTTTTTACATGT
14806662 TGTTTAGATAATTTTCTTGTTAACCACTCTATTTTTACTATTCTTGCATCAAATTTTTCATCTAC
66 TGTTTAGATAATTTTCTTGTTAACCACTCTATTTTTACTATTCTTGCATCAAATTTTTCATCTAC
* *
14806727 TTTGTTGAGCATGATTTTTTATTGTTTCTTATTTTGTTATGTTGA
131 TTTGTTAAGCATGATTTTTTATTGTTTCTTACTTTGTTATGTTGA
14806772 TTTAGATTCATATGTTTACTTGTTATTTCTCCTTTAATTACATTTAATTTCATGTTTTTACATGT
1 TTTAGATTCATATGTTTACTTGTTATTTCTCCTTTAATTACATTTAATTTCATGTTTTTACATGT
14806837 TGTTTAGATAATTTTCTTGTTAACCACTCTATTTTTACTATTCTTGCATCAAATTTTTCATCTAC
66 TGTTTAGATAATTTTCTTGTTAACCACTCTATTTTTACTATTCTTGCATCAAATTTTTCATCTAC
14806902 TTTGTTAAGCATGATTTTTTATTGTTTCTTACTTTGTTATGTTGA
131 TTTGTTAAGCATGATTTTTTATTGTTTCTTACTTTGTTATGTTGA
14806947 TTTAG
1 TTTAG
14806952 GTAATAAACT
Statistics
Matches: 177, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
175 177 1.00
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (175 bp):
TTTAGATTCATATGTTTACTTGTTATTTCTCCTTTAATTACATTTAATTTCATGTTTTTACATGT
TGTTTAGATAATTTTCTTGTTAACCACTCTATTTTTACTATTCTTGCATCAAATTTTTCATCTAC
TTTGTTAAGCATGATTTTTTATTGTTTCTTACTTTGTTATGTTGA
Found at i:14810966 original size:43 final size:43
Alignment explanation
Indices: 14810860--14810945 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
14810850 TTATGGAAAG
14810860 TAAAACCCTAAATGGAAAAATTACTAAAAATAACAATTTCTTA
1 TAAAACCCTAAATGGAAAAATTACTAAAAATAACAATTTCTTA
14810903 TAAAACCCTAAATGGAAAAATTACTAAAAATAACAATTTCTTA
1 TAAAACCCTAAATGGAAAAATTACTAAAAATAACAATTTCTTA
14810946 AAATGGTAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (43 bp):
TAAAACCCTAAATGGAAAAATTACTAAAAATAACAATTTCTTA
Found at i:14810995 original size:20 final size:22
Alignment explanation
Indices: 14810960--14811000 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
14810950 GGTAAGCTAT
*
14810960 TAAAAATAGAAAACTACGAAAC
1 TAAAAATAGAAAACTAAGAAAC
14810982 TAAAAAT-G-AAACTAAGAAA
1 TAAAAATAGAAAACTAAGAAA
14811001 AATTTAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.15
Consensus pattern (22 bp):
TAAAAATAGAAAACTAAGAAAC
Found at i:14815224 original size:99 final size:99
Alignment explanation
Indices: 14815044--14815241 Score: 306
Period size: 99 Copynumber: 2.0 Consensus size: 99
14815034 CTTTAAGTAT
* *
14815044 ACAAATATGCTTAAACATACAAACCTAGTCAATCTAGCATAAACCAAAACCAATATAAACCAATT
1 ACAAATATGCTTAAACATACAAACCTAATCAATCTAGCATAAACCAAAAACAATATAAACCAATT
* *
14815109 AAGTATAAACTGAATTGAAACAACAAGTGATTAA
66 AAGCATAAACTAAATTGAAACAACAAGTGATTAA
* * * *
14815143 ACAAATATGCTTCAACATGCAAACCTAATCAATTTAGCATAAATCAAAAACAATATAAACCAATT
1 ACAAATATGCTTAAACATACAAACCTAATCAATCTAGCATAAACCAAAAACAATATAAACCAATT
* *
14815208 AAGCATAGACTAAATTGAAACAATAAGTGATTAA
66 AAGCATAAACTAAATTGAAACAACAAGTGATTAA
14815242 CCTTTAACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.52, C:0.17, G:0.08, T:0.23
Consensus pattern (99 bp):
ACAAATATGCTTAAACATACAAACCTAATCAATCTAGCATAAACCAAAAACAATATAAACCAATT
AAGCATAAACTAAATTGAAACAACAAGTGATTAA
Found at i:14817464 original size:123 final size:126
Alignment explanation
Indices: 14817144--14817464 Score: 450
Period size: 126 Copynumber: 2.6 Consensus size: 126
14817134 ATAGCAACAT
* * * * *
14817144 AGTAATTGATTCTCATGAAATAAATATAAGTATTAATTACTACATTATACACCAAACTAACATAG
1 AGTAATTGATTTTCATGAAATAAATATAAGTATCAATTACTACGTTATATACCAAAATAACATAG
* * *
14817209 TATTTGATTGTTTTAAAAGCCTAAACAATGATCAAATACTATGTTATAAAAATATCATTAC
66 TATTTGATTATTTTAAAAGCCTAAACAATGATCAAATACGACGTTATAAAAATATCATTAC
* * * * * *
14817270 AGTATTTGATTTTCATGAAATAAATATAAGTATCAATTATTGCGTTATATACCAGAGTAACATAA
1 AGTAATTGATTTTCATGAAATAAATATAAGTATCAATTACTACGTTATATACCAAAATAACATAG
*
14817335 TATTTGATTATTTTAAAAGCCTAAACAATGATCAAATACGACGTTAT-AAAA-AT-ATTAT
66 TATTTGATTATTTTAAAAGCCTAAACAATGATCAAATACGACGTTATAAAAATATCATTAC
* * * *
14817393 GGTAATTGATTTTCATGAAATAAATACAAGTATCAATTACTATGTTATATACCAAAATAACGTAG
1 AGTAATTGATTTTCATGAAATAAATATAAGTATCAATTACTACGTTATATACCAAAATAACATAG
14817458 TATTTGA
66 TATTTGA
14817465 AAAATCACAA
Statistics
Matches: 171, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
123 66 0.39
124 2 0.01
125 4 0.02
126 99 0.58
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (126 bp):
AGTAATTGATTTTCATGAAATAAATATAAGTATCAATTACTACGTTATATACCAAAATAACATAG
TATTTGATTATTTTAAAAGCCTAAACAATGATCAAATACGACGTTATAAAAATATCATTAC
Found at i:14826406 original size:10 final size:10
Alignment explanation
Indices: 14826391--14826437 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
14826381 TTGTTTTTGC
14826391 TTTTCTTTTA
1 TTTTCTTTTA
14826401 TTTTCTTTTA
1 TTTTCTTTTA
14826411 CTTTTC-TTT-
1 -TTTTCTTTTA
14826420 TTTTCTTTTA
1 TTTTCTTTTA
14826430 TTTTCTTT
1 TTTTCTTT
14826438 GCAAGCTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.15
9 3 0.09
10 21 0.62
11 5 0.15
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:14832645 original size:78 final size:81
Alignment explanation
Indices: 14832482--14832649 Score: 202
Period size: 79 Copynumber: 2.1 Consensus size: 81
14832472 ATTATCATGT
* *
14832482 AGTAATTGAGTGCTTTATAACAAATAATTGAAATTTTAAAACAACTAAAATAAAATACTACATTA
1 AGTAATTGAGTACGTTATAACAAATAATTGAAATTTTAAAACAACTAAAATAAAATACTACATTA
*
14832547 ATGTTCTTTATAACGC
66 ATGTTCTTTATAACAC
* * * * * *
14832563 AGTAATTGAGTACGTTA-AA-AAATAGTTGTATTTTTAAAACAACTATAATCAAATA-TTCATTA
1 AGTAATTGAGTACGTTATAACAAATAATTGAAATTTTAAAACAACTAAAATAAAATACTACATTA
14832625 AT-TT-TTACTATAACAC
66 ATGTTCTT--TATAACAC
14832641 AGTAATTGA
1 AGTAATTGA
14832650 ATGCATAAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
76 2 0.03
77 2 0.03
78 24 0.32
79 31 0.41
80 2 0.03
81 15 0.20
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (81 bp):
AGTAATTGAGTACGTTATAACAAATAATTGAAATTTTAAAACAACTAAAATAAAATACTACATTA
ATGTTCTTTATAACAC
Found at i:14846052 original size:17 final size:17
Alignment explanation
Indices: 14846027--14846060 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14846017 AATCAGTCAC
* *
14846027 CTAAGCTAATAACTAAA
1 CTAAACTAAAAACTAAA
14846044 CTAAACTAAAAACTAAA
1 CTAAACTAAAAACTAAA
14846061 AAAAAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.18, G:0.03, T:0.21
Consensus pattern (17 bp):
CTAAACTAAAAACTAAA
Found at i:14847535 original size:20 final size:21
Alignment explanation
Indices: 14847506--14847554 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
14847496 TTGTTAGGGG
*
14847506 TTAAGATTTAGGTT-TAAGGT
1 TTAAGGTTTAGGTTCTAAGGT
*
14847526 TTAAGGTTTAGGTTCTAGGGT
1 TTAAGGTTTAGGTTCTAAGGT
*
14847547 TTAGGGTT
1 TTAAGGTT
14847555 AGTATTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (21 bp):
TTAAGGTTTAGGTTCTAAGGT
Found at i:14847582 original size:103 final size:103
Alignment explanation
Indices: 14847452--14847658 Score: 387
Period size: 103 Copynumber: 2.0 Consensus size: 103
14847442 AAAAGAATTA
14847452 AGTATTCATTTTGGGATTTGGGCTTGGCTTAGGATTTAAGGTTATTGTTAGGGGTTAAGATTTAG
1 AGTATTCATTTTGGGATTTGGGCTTGGCTTAGGATTTAAGGTTATTGTTAGGGGTTAAGATTTAG
14847517 GTTTAAGGTTTAAGGTTTAGGTTCTAGGGTTTAGGGTT
66 GTTTAAGGTTTAAGGTTTAGGTTCTAGGGTTTAGGGTT
* * *
14847555 AGTATTCATTTTGGGATTTGGGCTTGGCTTAGGGTTTAGGGTTGTTGTTAGGGGTTAAGATTTAG
1 AGTATTCATTTTGGGATTTGGGCTTGGCTTAGGATTTAAGGTTATTGTTAGGGGTTAAGATTTAG
14847620 GTTTAAGGTTTAAGGTTTAGGTTCTAGGGTTTAGGGTT
66 GTTTAAGGTTTAAGGTTTAGGTTCTAGGGTTTAGGGTT
14847658 A
1 A
14847659 AGGTTTAGGT
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.19, C:0.04, G:0.33, T:0.43
Consensus pattern (103 bp):
AGTATTCATTTTGGGATTTGGGCTTGGCTTAGGATTTAAGGTTATTGTTAGGGGTTAAGATTTAG
GTTTAAGGTTTAAGGTTTAGGTTCTAGGGTTTAGGGTT
Found at i:14847641 original size:6 final size:6
Alignment explanation
Indices: 14847615--14847787 Score: 91
Period size: 7 Copynumber: 26.7 Consensus size: 6
14847605 GGGGTTAAGA
*
14847615 TTTAGG TTTAAGG TTTAAGG TTTAGG TTCTAGGG TTTAGGG TTAAGG TTTAGG
1 TTTAGG TTT-AGG TTT-AGG TTTAGG TT-TA-GG TTTA-GG TTTAGG TTTAGG
* * * * *
14847668 TTTTTGA TTTA-G TATTAGG GTTAGGG TTTTAAG -TTAGG TTTAGG TTTTGGG
1 -TTTAGG TTTAGG T-TTAGG TTTA-GG -TTTAGG TTTAGG TTTAGG -TTTAGG
* * *
14847719 TTTAGGG TTTGGG TTAAGG -TTAGGG TTTAGGG TTTAGA TTTAAGG TTTAGGG
1 TTTA-GG TTTAGG TTTAGG TTTA-GG TTTA-GG TTTAGG TTT-AGG TTTA-GG
*
14847771 TTTGGAG TTTAGG TTTA
1 TTTAG-G TTTAGG TTTA
14847788 AGTTCTAGGG
Statistics
Matches: 131, Mismatches: 20, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
5 7 0.05
6 51 0.39
7 66 0.50
8 7 0.05
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (6 bp):
TTTAGG
Found at i:14847641 original size:13 final size:13
Alignment explanation
Indices: 14847618--14847789 Score: 99
Period size: 13 Copynumber: 13.2 Consensus size: 13
14847608 GTTAAGATTT
14847618 AGGTTTAAGGTTTA
1 AGGTTT-AGGTTTA
14847632 AGGTTTAGGTTCTA
1 AGGTTTAGGTT-TA
* *
14847646 GGGTTTAGGGTTA
1 AGGTTTAGGTTTA
*
14847659 AGGTTTAGGTTTT
1 AGGTTTAGGTTTA
* *
14847672 TGATTTA-GTATT-
1 AGGTTTAGGT-TTA
*
14847684 AGGGTTAGGGTTTTA
1 AGGTTTA-GG-TTTA
14847699 A-G-TTAGGTTT-
1 AGGTTTAGGTTTA
*
14847709 AGGTTTTGGGTTTA
1 AGG-TTTAGGTTTA
* *
14847723 GGGTTT-GGGTTA
1 AGGTTTAGGTTTA
14847735 AGG-TTAGGGTTTA
1 AGGTTTA-GGTTTA
* *
14847748 GGGTTTAGATTTA
1 AGGTTTAGGTTTA
14847761 AGGTTTAGGGTTT-
1 AGGTTTA-GGTTTA
*
14847774 GGAGTTTAGGTTTA
1 AG-GTTTAGGTTTA
14847788 AG
1 AG
14847790 TTCTAGGGCT
Statistics
Matches: 121, Mismatches: 21, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
10 1 0.01
11 6 0.05
12 15 0.12
13 61 0.50
14 36 0.30
15 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.45
Consensus pattern (13 bp):
AGGTTTAGGTTTA
Found at i:14850897 original size:20 final size:20
Alignment explanation
Indices: 14850872--14850917 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
14850862 AAGAACTCTA
14850872 TTATTTCATATTCTTCT-TTT
1 TTATTTCA-ATTCTTCTGTTT
* *
14850892 TTATTTCAATTTTTTTGTTT
1 TTATTTCAATTCTTCTGTTT
14850912 TTATTT
1 TTATTT
14850918 GTTGCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (20 bp):
TTATTTCAATTCTTCTGTTT
Found at i:14856868 original size:32 final size:31
Alignment explanation
Indices: 14856793--14856876 Score: 87
Period size: 32 Copynumber: 2.7 Consensus size: 31
14856783 TACATAATAC
* * * *
14856793 TTTAACATGATATAGAGTTTTTATTTAATTT
1 TTTAAAATGATATATAATTTTTACTTAATTT
***
14856824 TTTAAGCCGATATAATAATTTTTACTTAATTT
1 TTTAAAATGATAT-ATAATTTTTACTTAATTT
*
14856856 TTTAAAATGATATGTAATTTT
1 TTTAAAATGATATATAATTTT
14856877 AACAAAATTA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
31 17 0.40
32 25 0.60
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTAAAATGATATATAATTTTTACTTAATTT
Found at i:14856874 original size:31 final size:32
Alignment explanation
Indices: 14856759--14856876 Score: 100
Period size: 31 Copynumber: 3.8 Consensus size: 32
14856749 TAATAAATCT
* * *
14856759 ATTTTTT-AGATGATAT-GGAAATTTTACATA
1 ATTTTTTAAGATGATATAGTAATTTTTACTTA
** * * *
14856789 ATACTTTAACATGATATAG-AGTTTTTATTTA
1 ATTTTTTAAGATGATATAGTAATTTTTACTTA
** *
14856820 ATTTTTTAAGCCGATATAATAATTTTTACTTA
1 ATTTTTTAAGATGATATAGTAATTTTTACTTA
*
14856852 ATTTTTTAAAATGATAT-GTAATTTT
1 ATTTTTTAAGATGATATAGTAATTTT
14856877 AACAAAATTA
Statistics
Matches: 66, Mismatches: 19, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
30 5 0.08
31 36 0.55
32 25 0.38
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (32 bp):
ATTTTTTAAGATGATATAGTAATTTTTACTTA
Found at i:14860897 original size:32 final size:33
Alignment explanation
Indices: 14860861--14860923 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
14860851 AAATATGCAC
14860861 TTTAAAAGTTTA-TTTTTTTTATTTCCTTGGGG
1 TTTAAAAGTTTATTTTTTTTTATTTCCTTGGGG
*
14860893 TTTAATAGTTTATTTTTTTTTTATTTCCTTG
1 TTTAAAAGTTTA-TTTTTTTTTATTTCCTTG
14860924 TTCTAAGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 11 0.39
34 17 0.61
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.65
Consensus pattern (33 bp):
TTTAAAAGTTTATTTTTTTTTATTTCCTTGGGG
Found at i:14861985 original size:21 final size:20
Alignment explanation
Indices: 14861963--14862009 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
14861953 CAAGAAAATA
14861963 AAAGAAAATT-AAAGGCTTAT
1 AAAGAAAATTGAAA-GCTTAT
*
14861983 AAA-ATAATTGAAAGCTTAT
1 AAAGAAAATTGAAAGCTTAT
14862002 AAAGAAAA
1 AAAGAAAA
14862010 GAAAGAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.23
Consensus pattern (20 bp):
AAAGAAAATTGAAAGCTTAT
Found at i:14862980 original size:21 final size:22
Alignment explanation
Indices: 14862914--14862985 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 22
14862904 AATTGAATAA
*
14862914 GGATCGATCACCCT-ATGGAGG
1 GGATCGATCACCCTCATGGAAG
* * *
14862935 GGATTGATCACCC-CCTTGATA-
1 GGATCGATCACCCTCATGGA-AG
14862956 GGATCGATC-CCCTCATGGAAG
1 GGATCGATCACCCTCATGGAAG
*
14862977 GGATTGATC
1 GGATCGATC
14862986 GGGTTATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
20 4 0.10
21 35 0.90
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (22 bp):
GGATCGATCACCCTCATGGAAG
Found at i:14868536 original size:24 final size:24
Alignment explanation
Indices: 14868508--14868571 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
14868498 GCTTTAACCA
* * *
14868508 AAAATAAAAATTAACATTAACATT
1 AAAATAAAAATTAAAATCAAAATT
* *
14868532 AAAATCAAAATCAAAATCAAAATT
1 AAAATAAAAATTAAAATCAAAATT
* *
14868556 ACAATAACAATTAAAA
1 AAAATAAAAATTAAAA
14868572 CTTATGGGCT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (24 bp):
AAAATAAAAATTAAAATCAAAATT
Found at i:14868946 original size:38 final size:37
Alignment explanation
Indices: 14868848--14868950 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 37
14868838 AATGTTCACC
* * *
14868848 CATAATTGAGGCTTAAAACTTTAAAT-AAATGCTTCT
1 CATAATTAAGGCTTGAAACTTTAAATCAAATACTTCT
* * * *
14868884 CACAAATAAGACTTGAAACATTAAATCAAATACTATCT
1 CATAATTAAGGCTTGAAACTTTAAATCAAATACT-TCT
*
14868922 CATAATTAAGGCTTGGAACTTTAAA-CAAA
1 CATAATTAAGGCTTGAAACTTTAAATCAAA
14868951 AAAATCTAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
36 20 0.38
37 10 0.19
38 23 0.43
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.30
Consensus pattern (37 bp):
CATAATTAAGGCTTGAAACTTTAAATCAAATACTTCT
Found at i:14869768 original size:84 final size:81
Alignment explanation
Indices: 14869535--14869773 Score: 207
Period size: 84 Copynumber: 3.0 Consensus size: 81
14869525 ATCTCGAAAC
* * * * * * *
14869535 TAAAACAGATTCAGCTCATAAGACCTATAAATCTTGCTTGAAGAACTTAGAGATTATG-CTTGGA
1 TAAAACAAATTCAACTCAAAAGACTTATAAATCTTGCCTGAAAAACTTAGAGATTATGTC-CGGA
*
14869599 GGTCTTATAAA-TC--T
65 GGTCTTACAAATTCAAT
* * * ** * * * * * * *
14869613 TAAAACAAATTCAACTCGAAAGATTTATGAATCTTATCAGGAAGATTTAGAGATTATATGCAGAG
1 TAAAACAAATTCAACTCAAAAGACTTATAAATCTTGCCTGAAAAACTTAGAGATTATGTCCGGAG
*
14869678 GGCTTACAAATCTCAATAT
66 GTCTTACAAAT-TC-A-AT
* *
14869697 TAAAACAAATTCAACTCAAAAGACTTACAAATCTTGCCTGAAAAACTTAGAGATTATGTCCGGAA
1 TAAAACAAATTCAACTCAAAAGACTTATAAATCTTGCCTGAAAAACTTAGAGATTATGTCCGGAG
14869762 GTCTTACAAATT
66 GTCTTACAAATT
14869774 TCAAAACTAT
Statistics
Matches: 118, Mismatches: 36, Indels: 9
0.72 0.22 0.06
Matches are distributed among these distances:
78 53 0.45
80 2 0.02
83 1 0.01
84 62 0.53
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (81 bp):
TAAAACAAATTCAACTCAAAAGACTTATAAATCTTGCCTGAAAAACTTAGAGATTATGTCCGGAG
GTCTTACAAATTCAAT
Found at i:14869848 original size:164 final size:162
Alignment explanation
Indices: 14869525--14869919 Score: 481
Period size: 164 Copynumber: 2.4 Consensus size: 162
14869515 GATTTTATAT
* * * *
14869525 ATCTCGAAACTAAAACAGATTCAGCTCATAAGACCTATAAATCTTGCTTGAAGAACTTAGAGATT
1 ATCTCGAAACTAAAACAGATTCAGCTCAAAAGACTTACAAATCTTGCCTGAAGAACTTAGAGATT
* * * *
14869590 ATGCTTGGAGGTCTTATAAATCTTAAAACAAATTCAACTCGAAAGATTTATGAATCTTATCAGGA
66 ATGCTCGGAAGTCTTACAAATCTTAAAACAAATTCAACTCGAAAGATTTATGAATCTTATCAGAA
* * * *
14869655 AGATTTAGAGATTATATGCAGAGGGCTTACAA
131 AGACTTAAAGACTATATCCAGAGGGCTTACAA
* * * *
14869687 ATCTC-AATATTAAAACAAATTCAACTCAAAAGACTTACAAATCTTGCCTGAAAAACTTAGAGAT
1 ATCTCGAA-ACTAAAACAGATTCAGCTCAAAAGACTTACAAATCTTGCCTGAAGAACTTAGAGAT
* * *
14869751 TATG-TCCGGAAGTCTTACAAAT-TTCAAAACTATAATTTAGCTTGAAAGATTTATGAATCTTAT
65 TATGCT-CGGAAGTCTTACAAATCTT-AAAAC-A-AATTCAACTCGAAAGATTTATGAATCTTAT
** *
14869814 CTTAAAGACTTAAAGACTATATCCGGAGGGCTTACAA
126 CAGAAAGACTTAAAGACTATATCCAGAGGGCTTACAA
* * * * *
14869851 ATCTCGAAACTAAAATAGATTCAGTTCGAAAGACTTACAAATCTTGCCTGAAGGACTTAGAGACT
1 ATCTCGAAACTAAAACAGATTCAGCTCAAAAGACTTACAAATCTTGCCTGAAGAACTTAGAGATT
14869916 ATGC
66 ATGC
14869920 ACAAAGGTTT
Statistics
Matches: 195, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
161 5 0.03
162 75 0.38
163 1 0.01
164 112 0.57
165 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (162 bp):
ATCTCGAAACTAAAACAGATTCAGCTCAAAAGACTTACAAATCTTGCCTGAAGAACTTAGAGATT
ATGCTCGGAAGTCTTACAAATCTTAAAACAAATTCAACTCGAAAGATTTATGAATCTTATCAGAA
AGACTTAAAGACTATATCCAGAGGGCTTACAA
Found at i:14869915 original size:84 final size:84
Alignment explanation
Indices: 14869654--14869972 Score: 270
Period size: 84 Copynumber: 3.8 Consensus size: 84
14869644 TCTTATCAGG
* * * * * * * * *
14869654 AAGATTTAGAGATTATATGCAGAGGGCTTACAAATCTCAATATTAAAACAAATTCAACTCAAAAG
1 AAGACTTAGAGACTATATCCAGAGGGCTTACAAATCTCAAAACTAAAATAGATTCAGCTCGAAAG
14869719 ACTTACAAATCTTGCCTGA
66 ACTTACAAATCTTGCCTGA
* * * * * * * * *
14869738 AAAACTTAGAGATTATGTCCGGAAGTCTTACAAATTTCAAAACT---ATA-ATTTAGCTTGAAAG
1 AAGACTTAGAGACTATATCCAGAGGGCTTACAAATCTCAAAACTAAAATAGATTCAGCTCGAAAG
* ** ** *
14869799 ATTTATGAATCTTATCTTA
66 ACTTACAAATCTTGCCTGA
* * * *
14869818 AAGACTTAAAGACTATATCCGGAGGGCTTACAAATCTCGAAACTAAAATAGATTCAGTTCGAAAG
1 AAGACTTAGAGACTATATCCAGAGGGCTTACAAATCTCAAAACTAAAATAGATTCAGCTCGAAAG
14869883 ACTTACAAATCTTGCCTGA
66 ACTTACAAATCTTGCCTGA
* * * ** * *
14869902 AGGACTTAGAGACTAT-GCACAAAGGTTTTATATATCTCAAAACTAAAATAGATTCAGCTCGAAA
1 AAGACTTAGAGACTATATC-CAGAGGGCTTACAAATCTCAAAACTAAAATAGATTCAGCTCGAAA
*
14869966 AACTTAC
65 GACTTAC
14869973 GAATTGATTG
Statistics
Matches: 180, Mismatches: 50, Indels: 10
0.75 0.21 0.04
Matches are distributed among these distances:
80 59 0.33
81 2 0.01
83 4 0.02
84 115 0.64
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (84 bp):
AAGACTTAGAGACTATATCCAGAGGGCTTACAAATCTCAAAACTAAAATAGATTCAGCTCGAAAG
ACTTACAAATCTTGCCTGA
Found at i:14869946 original size:164 final size:162
Alignment explanation
Indices: 14869350--14869944 Score: 454
Period size: 164 Copynumber: 3.6 Consensus size: 162
14869340 TTTTTAAGCT
* * * * * ***
14869350 CTTATAAATCTCAACATTAAAACAGATTCAGTTCGAAAGGCTTACTAATCTTG-CTCGAAGGGTT
1 CTTACAAATCTCAACACTAAAACAGATTCAGCTCGAAAGACTTACAAATCTTGCCT-GAAGAACT
* * * *
14869414 TAAAGACTATGCTCAAAGGTTTTATAAATCTTGACATGAAA-ATAGATTTAGTTTAGAAA-ACTT
65 TAGAGACTATGCTCAAAGGTCTTATAAATC-T--CA--AAACATA-ATTTAGCTT-GAAAGATTT
* * * * ** **
14869477 ACGAATCTTGTCCAAAGGACTTAAAAACTATGTTTGGAGAT
123 ATGAATCTTATCCAAA-GACTTAAAGACTATATCCGGAGGG
* * * * * *
14869518 TTTATATATCTCGAA-ACTAAAACAGATTCAGCTC-ATAAGACCTATAAATCTTGCTTGAAGAAC
1 CTTACAAATCTC-AACACTAAAACAGATTCAGCTCGA-AAGACTTACAAATCTTGCCTGAAGAAC
* *** * * * *
14869581 TTAGAGATTATGCTTGGAGGTCTTATAAATCTTAAAACA-AATTCAACTCGAAAGATTTATGAAT
64 TTAGAGACTATGCTCAAAGGTCTTATAAATCTCAAAACATAATTTAGCTTGAAAGATTTATGAAT
* * * * *
14869645 CTTAT-CAGGAAGATTTAGAGATTATATGCAGAGGG
129 CTTATCCA--AAGACTTAAAGACTATATCCGGAGGG
* * * * * *
14869680 CTTACAAATCTCAATATTAAAACAAATTCAACTCAAAAGACTTACAAATCTTGCCTGAAAAACTT
1 CTTACAAATCTCAACACTAAAACAGATTCAGCTCGAAAGACTTACAAATCTTGCCTGAAGAACTT
* * * *
14869745 AGAGATTATG-TCCGGAA-GTCTTACAAATTTCAAAACTATAATTTAGCTTGAAAGATTTATGAA
66 AGAGACTATGCT-C-AAAGGTCTTATAAATCTCAAAAC-ATAATTTAGCTTGAAAGATTTATGAA
*
14869808 TCTTATCTTAAAGACTTAAAGACTATATCCGGAGGG
128 TCTTATC-CAAAGACTTAAAGACTATATCCGGAGGG
* * *
14869844 CTTACAAATCTCGAA-ACTAAAATAGATTCAGTTCGAAAGACTTACAAATCTTGCCTGAAGGACT
1 CTTACAAATCTC-AACACTAAAACAGATTCAGCTCGAAAGACTTACAAATCTTGCCTGAAGAACT
* * *
14869908 TAGAGACTATGCACAAAGGTTTTATATATCTCAAAAC
65 TAGAGACTATGCTCAAAGGTCTTATAAATCTCAAAAC
14869945 TAAAATAGAT
Statistics
Matches: 334, Mismatches: 75, Indels: 40
0.74 0.17 0.09
Matches are distributed among these distances:
161 9 0.03
162 107 0.32
163 12 0.04
164 128 0.38
165 3 0.01
166 1 0.00
167 2 0.01
168 69 0.21
169 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (162 bp):
CTTACAAATCTCAACACTAAAACAGATTCAGCTCGAAAGACTTACAAATCTTGCCTGAAGAACTT
AGAGACTATGCTCAAAGGTCTTATAAATCTCAAAACATAATTTAGCTTGAAAGATTTATGAATCT
TATCCAAAGACTTAAAGACTATATCCGGAGGG
Found at i:14874132 original size:16 final size:16
Alignment explanation
Indices: 14874111--14874142 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14874101 GTTTTCACCC
*
14874111 TAGAGCTTTATTTAAT
1 TAGAGCTTCATTTAAT
14874127 TAGAGCTTCATTTAAT
1 TAGAGCTTCATTTAAT
14874143 CTTCTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (16 bp):
TAGAGCTTCATTTAAT
Done.