Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007844.1 Hibiscus syriacus cultivar Beakdansim tig00110198_pilon, 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: 2094103
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:1734551 original size:72 final size:73
Alignment explanation
Indices: 1734422--1734563 Score: 218
Period size: 72 Copynumber: 2.0 Consensus size: 73
1734412 TTTTAAGTTT
* * *
1734422 AATAATTAAAAAATATTTTTAAATATATTTTTTTATTTCAAATATACGAAAATATGGTAATTTAG
1 AATAATTAAAAAATATTTTTAAACATATTTTTTTATTTCAAATAAACAAAAATATGGTAATTTAG
1734487 TGGGCTCA
66 TGGGCTCA
1734495 AATAATTAAAAAATATTTTTAAACATA-TTTTTTATTT-AAA-AAACTTAAAAATATGGTAATTT
1 AATAATTAAAAAATATTTTTAAACATATTTTTTTATTTCAAATAAAC--AAAAATATGGTAATTT
1734557 AGTGGGC
64 AGTGGGC
1734564 CCCATTTTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
70 3 0.05
71 3 0.05
72 32 0.50
73 26 0.41
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (73 bp):
AATAATTAAAAAATATTTTTAAACATATTTTTTTATTTCAAATAAACAAAAATATGGTAATTTAG
TGGGCTCA
Found at i:1737179 original size:15 final size:15
Alignment explanation
Indices: 1737159--1737188 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1737149 AATATAAACC
1737159 TTAAATACATGAAAT
1 TTAAATACATGAAAT
*
1737174 TTAAATATATGAAAT
1 TTAAATACATGAAAT
1737189 CTTACTGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (15 bp):
TTAAATACATGAAAT
Found at i:1738475 original size:2 final size:2
Alignment explanation
Indices: 1738426--1738456 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1738416 GGAAATTTTA
1738426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1738457 AAAGTGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1749820 original size:21 final size:21
Alignment explanation
Indices: 1749796--1749836 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1749786 TGCAGCAGCT
*
1749796 TTTGC-TTGCTCAGCTTCTTCC
1 TTTGCTTTGCACAGC-TCTTCC
1749817 TTTGCTTTGCACAGCTCTTC
1 TTTGCTTTGCACAGCTCTTC
1749837 ACGTGCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.07, C:0.32, G:0.15, T:0.46
Consensus pattern (21 bp):
TTTGCTTTGCACAGCTCTTCC
Found at i:1759051 original size:2 final size:2
Alignment explanation
Indices: 1759044--1759084 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1759034 TATTTACATA
1759044 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1759085 AACTATTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1770531 original size:2 final size:2
Alignment explanation
Indices: 1770524--1770571 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1770514 ATGTAACATT
1770524 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1770566 TA TA TA
1 TA TA TA
1770572 AATTTTGCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1777471 original size:27 final size:27
Alignment explanation
Indices: 1777433--1777487 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
1777423 CGGGTTGATG
*
1777433 TTGGCCTTTCGAGGACATTGTTCCAAA
1 TTGGCCTTTCGAGGACATAGTTCCAAA
1777460 TTGGCCTTTCGAGGACATAGTTCCAAA
1 TTGGCCTTTCGAGGACATAGTTCCAAA
1777487 T
1 T
1777488 CCAAAACACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
TTGGCCTTTCGAGGACATAGTTCCAAA
Found at i:1784098 original size:2 final size:2
Alignment explanation
Indices: 1784091--1784132 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
1784081 GATATAACAT
* * *
1784091 TA TA TA TA TA TA TA TA TA TA TA TA -A CA TA TA CA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1784132 T
1 T
1784133 CACACATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1784590 original size:30 final size:30
Alignment explanation
Indices: 1784530--1784625 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
1784520 CCCGAAGGAC
* *
1784530 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1784559 CTATCCAGAGGTCATAAAGATCCTTGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
1784589 CTATCTAGAGGTCATAAAGATCCTCAGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1784619 CTGTCCA
1 CTATCCA
1784626 TAAGGACCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
29 19 0.33
30 39 0.67
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1785583 original size:64 final size:64
Alignment explanation
Indices: 1785496--1785672 Score: 214
Period size: 64 Copynumber: 2.8 Consensus size: 64
1785486 TAATGAAGGT
* * * * ** *
1785496 ATGCAACGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATGTTAGTTTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AAATGCATTCGATGTTACCTTATTAATGGG
* * *
1785560 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAAATGCATTCGATGTTACCTTATTAATGGG
* *
1785624 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAAATGCATTCGATGT
1785673 ATTTATTTTA
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
63 1 0.01
64 95 0.97
65 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAAATGCATTCGATGTTACCTTATTAATGGG
Found at i:1785693 original size:64 final size:64
Alignment explanation
Indices: 1785496--1785704 Score: 199
Period size: 64 Copynumber: 3.3 Consensus size: 64
1785486 TAATGAAGGT
* * * ** * * *** ** *
1785496 ATGCAACGATGCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTAGTTTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAAAGAG
* * * * *
1785560 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAAAGAG
*
1785624 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTATTTATT-TTAAA-AG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT-TTCATTATTAAAGAG
1785687 AGTGCATCGATGCACTAC
1 A-TGCATCGATGCACTAC
1785705 CAATGCATAG
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
63 3 0.02
64 115 0.93
65 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAAAGAG
Found at i:1789303 original size:2 final size:2
Alignment explanation
Indices: 1789298--1789333 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1789288 TATATAACAT
1789298 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1789334 ACATATACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1789803 original size:30 final size:30
Alignment explanation
Indices: 1789744--1789839 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
1789734 CCTGGAGGAC
* *
1789744 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1789773 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* * *
1789803 CTGTCCAGAGGTCATAAAGATCATTGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1789833 CTGTCCA
1 CTATCCA
1789840 TAAGGACCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
29 19 0.31
30 42 0.69
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1790269 original size:15 final size:15
Alignment explanation
Indices: 1790251--1790295 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
1790241 TGATCATATA
*
1790251 ATCATATAACTTATT
1 ATCACATAACTTATT
* *
1790266 ATCACATATCTTATA
1 ATCACATAACTTATT
*
1790281 ATCACATACCTTATT
1 ATCACATAACTTATT
1790296 TCAATTCTCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (15 bp):
ATCACATAACTTATT
Found at i:1790795 original size:64 final size:64
Alignment explanation
Indices: 1790708--1790849 Score: 171
Period size: 64 Copynumber: 2.2 Consensus size: 64
1790698 TAATGAAGGT
* * ** *
1790708 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATGTTAGTTTATTACTGGG
1 ATGCATCGATGCACTACTGATGCATCGATGCACT-AAATGCATTCGATGTTACCTTATTAATGGG
* * * *
1790772 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTGATGCATCGATGCACTAAATGCATTCGATGTTACCTTATTAATGGG
1790836 ATGCATCGATGCAC
1 ATGCATCGATGCAC
1790850 GAATTGCATT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
63 1 0.02
64 64 0.97
65 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTGATGCATCGATGCACTAAATGCATTCGATGTTACCTTATTAATGGG
Found at i:1790886 original size:45 final size:45
Alignment explanation
Indices: 1790791--1790894 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
1790781 TGCATGCCTT
* * * *
1790791 ATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAAAGAG
*
1790836 ATGCATCGATGCACGAATTGCATTCGATGTATTTATT-TTAAA-AG
1 ATGCATCGATGCACGAATTGCATTCGATGT-TTCATTATTAAAGAG
1790880 AGTGCATCGATGCAC
1 A-TGCATCGATGCAC
1790895 TACCAATGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 2 0.04
45 46 0.88
46 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (45 bp):
ATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAAAGAG
Found at i:1804924 original size:2 final size:2
Alignment explanation
Indices: 1804912--1804946 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1804902 ATCCTAAATA
1804912 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1804947 TTAATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1808203 original size:23 final size:23
Alignment explanation
Indices: 1808173--1808235 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1808163 ACTTTACAAC
1808173 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1808196 TACCTATTACATTATATAAGTGC
1 TACCTATTACATTATATAAACGA
*
1808219 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1808236 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1808673 original size:23 final size:23
Alignment explanation
Indices: 1808643--1808701 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
1808633 ATACTTTACA
1808643 ATACCTATTACATTATATAAACG
1 ATACCTATTACATTATATAAACG
*
1808666 ATACCTATTACATTATATAAGCG
1 ATACCTATTACATTATATAAACG
*
1808689 CTACCTATTACAT
1 ATACCTATTACAT
1808702 CTATTTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (23 bp):
ATACCTATTACATTATATAAACG
Found at i:1809150 original size:23 final size:23
Alignment explanation
Indices: 1809120--1809182 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1809110 CACTTACAAC
1809120 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1809143 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1809166 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1809183 TTTACCTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1809480 original size:473 final size:478
Alignment explanation
Indices: 1807779--1810827 Score: 5436
Period size: 472 Copynumber: 6.5 Consensus size: 478
1807769 TTATAATATG
* *
1807779 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATG-T
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* * *
1807843 TCAA-TTTTTTTAATAGTG-TTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
1807906 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* *
1807971 TAACCAAAGATAATAAT-AA-ATGTAATATATTTTTATT-ATTTTAATTTAATAATAATATATCG
196 TAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATCG
1808033 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
261 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
1808098 AGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTAT-AAAAGGATAGA
326 AGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
*
1808162 CACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGTGCTACCTATT
391 CACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
1808227 ACATCATATTTTTACCTATTATA
456 ACATCATATTTTTACCTATTATA
* *
1808250 TTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGACGCTTTTTTTAAAGTTAAGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1808314 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAA-TTCATTT--A
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
1808376 C-AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1808440 TAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATCG
196 TAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATCG
*
1808505 TAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
261 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
* *
1808570 AGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACA-TTTTATAAAAAGGATAGA
326 AGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
*
1808634 TACTTTACAA-TACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
391 CACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
1808698 ACATC-TATTTTTACCTATTATA
456 ACATCATATTTTTACCTATTATA
1808720 TTGAAAGTGTCCATACTTTTTATAAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATG
1 TTGAAAGTGTCCATACTTTTTAT-AAAAAGGATCGACAC-TTTTTTTAAAGTTATGTAATTTATG
*
1808785 TTTTAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
64 TTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
1808850 CAC-AAAAATTA-TTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAAT
129 CACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAAT
1808913 ATTAACCAAAGATAATAAT-AATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATAT
194 ATTAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAAT-A-ATAT
1808977 ATCGTAACGTAAAAAAT-AATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
257 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
1809041 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
322 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
1809106 TAGACAC-TTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
387 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1809170 TATTACATCATA-TTTTACCTATTATA
452 TATTACATCATATTTTTACCTATTATA
*
1809196 TTGAAAGTGTCCATACTTTTTAT-AAAATGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
*
1809260 TTAA-TTTTTTTAATAGTGTTTTATG-TTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
1809323 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1809388 TAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATCG
196 TAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATCG
1809453 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT-AAACTCACTCAAA
261 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
1809517 AGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
326 AGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
1809582 CACTTTACAACTACCTATTAC---ATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
391 CACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
1809644 ACATCATATTTTTACCTATTATA
456 ACATCATATTTTTACCTATTATA
1809667 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC-TTTTTTTAAAGTTATGTAATTTATGT
1809732 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
1809797 ACAAAAAATTATTTGATTGTTTTG--ATTTTAT-AAA-AATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
1809858 TTAACCAAAGATAATAATAAATATGT-ATATATGTTTATTGTTTTTAATTTAATAATAATATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAAT-A-ATATA
1809922 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
258 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
1809987 AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGAT
323 AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
1810052 AGACACTTTACAACTACCTATTACATTATATAAGCGATACCTATTACATTATATAAGCGCTACCT
388 AGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
1810117 ATTACATCATATTTTTACCTATTATA
453 ATTACATCATATTTTTACCTATTATA
1810143 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC-TTTTTTTAAAGTTATGTAATTTATGT
1810208 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
1810273 ACAAAAAATTATTTGATTG-TTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
* *
1810337 TTAACCAAAGATAATAATAAATATGTAATATATATTTATTGTTTTTAATATAATAAT-ATATATC
195 TTAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATC
1810401 GTAACGTAAAAAATAAATCATTAGACG-C-ATAA-T--TAAATTAATATCTTAAAACTCACTCAA
260 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
1810461 AAGATAACCTTAAATTAATGTTTTCCACAAT-AAAAAAGTATGGACACTTTTATAAAAAGGATAG
325 AAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
*
1810525 ATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTAT
390 ACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTAT
*
1810590 TATATCATA-TTTTACCTATTATA
455 TACATCATATTTTTACCTATTATA
* *
1810613 TTGAAAGTGTCCATAC-TTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
* * *
1810677 TCAA-TTTTTTTAATAGTATTTCATGTTTTCCATCTACAATATTAA-TTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
1810740 CAAAAAATTATTTGATT-ATTTGATA-TTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1810803 TAACCAAAGATAATAATAAATATGT
196 TAACCAAAGATAATAATAAATATGT
1810828 TTTCCACAGT
Statistics
Matches: 2503, Mismatches: 35, Indels: 86
0.95 0.01 0.03
Matches are distributed among these distances:
465 62 0.02
466 42 0.02
467 38 0.02
468 31 0.01
469 99 0.04
470 188 0.08
471 342 0.14
472 451 0.18
473 404 0.16
474 118 0.05
475 242 0.10
476 359 0.14
477 43 0.02
478 3 0.00
479 53 0.02
480 28 0.01
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (478 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATCG
TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
AGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
CACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
ACATCATATTTTTACCTATTATA
Found at i:1809639 original size:23 final size:22
Alignment explanation
Indices: 1809592--1809652 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
1809582 CACTTTACAA
1809592 CTACCTATTACA-TATA-AACG
1 CTACCTATTACATTATATAACG
*
1809612 ATACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAA-CG
*
1809635 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
1809653 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.31
21 4 0.11
22 2 0.06
23 18 0.51
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (22 bp):
CTACCTATTACATTATATAACG
Found at i:1809676 original size:947 final size:956
Alignment explanation
Indices: 1807779--1810827 Score: 5445
Period size: 946 Copynumber: 3.2 Consensus size: 956
1807769 TTATAATATG
* *
1807779 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATA-ATTTTTTTAAAGTTATGTAATTTATG-
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
* *
1807842 TTCAATTTTTTTAATAGTG-TTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
1807906 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* *
1807971 TAACCAAAGATAATAAT-AA-ATGTAATATATTTTTATT-ATTTTAATTTAATAAT-A-ATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATAT
1808031 CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
261 CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
1808096 AAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTAT-AAAAGGATA
326 AAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATA
*
1808160 GACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGTGCTACCTA
391 GACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTA
*
1808225 TTACATCATATTTTTACCTATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGACGCTT
456 TTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTT
*
1808289 TTTTTAAAGTTAAGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAA
521 TTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAA
1808354 TATTAATTTAATAA-TTCATTT--AC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATAAT
586 TATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAAT
1808415 ATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATGTTTATTG
651 ATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATGTTTATTG
*
1808480 TTTTTAATTTAATAATAATATATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
716 TTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
* *
1808545 ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTA
781 ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTA
1808610 TGGACA-TTTTATAAAAAGGATAGATACTTTACAA-TACCTATTACATTATATAAACGATACCTA
846 TGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTAC--TATATAAACGATACCTA
1808673 TTACATTATATAAGCGCTACCTATTACATC-TATTTTTACCTATTATA
909 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
1808720 TTGAAAGTGTCCATACTTTTTATAAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATG
1 TTGAAAGTGTCCATACTTTTTAT-AAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATG
* *
1808785 TTTTAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
65 TTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
1808850 CAC-AAAAATTA-TTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAAT
129 CACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAAT
1808913 ATTAACCAAAGATAATAAT-AATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATAT
194 ATTAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATAT
1808977 ATCGTAACGTAAAAAAT-AATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
259 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
1809041 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
324 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
1809106 TAGACAC-TTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
389 TAGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
*
1809170 TATTACATCATA-TTTTACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAATGATCGACAC
454 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC
*
1809233 TTTTTTTAAAGTTATGTAATTTATGTTTTAA-TTTTTTTAATAGTGTTTTATG-TTTCCACCTAC
519 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTAC
1809296 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
584 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
1809361 ATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATGTTTAT
649 ATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATGTTTAT
1809426 TGTTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
714 TGTTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1809491 AAATTAATATCTT-AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAG
779 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAG
*
1809555 TATGGACACTTTTATAAAAAGGATAGACACTTTACAACTACCTATTAC-ATATAAACGATACCTA
844 TATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACTATATAAACGATACCTA
1809619 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
909 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
1809667 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
*
1809732 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
66 TTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
1809797 ACAAAAAATTATTTGATTGTTTTG--ATTTTAT-AAA-AATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
1809858 TTAACCAAAGATAATAATAAATATGT-ATATATGTTTATTGTTTTTAATTTAATAATAATATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATA
1809922 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
260 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
1809987 AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGAT
325 AAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
1810052 AGACACTTTACAACTACCTATTACATTATATAAGCGATACCTATTACATTATATAAGCGCTACCT
390 AGACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCT
1810117 ATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACT
455 ATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACAC-
1810182 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTAC
519 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTAC
1810247 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTG-TTTGATATTTTATAAAATA
584 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
*
1810311 ATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATTTAT
649 ATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATGTTTAT
*
1810376 TGTTTTTAATATAATAAT-ATATATCGTAACGTAAAAAATAAATCATTAGACG-C-ATAA-T--T
714 TGTTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1810435 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAAT-AAAAAAG
779 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAG
1810499 TATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATACC
844 TATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTAC--TATATAAACGATACC
*
1810564 TATTACATTATATAAGCGCTACCTATTATATCATA-TTTTACCTATTATA
907 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
* *
1810613 TTGAAAGTGTCCATAC-TTTTATAAAAAGAATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
* *
1810676 TTCAATTTTTTTAATAGTATTTCATGTTTTCCATCTACAATATTAA-TTAATAATTTCATTTACA
66 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
1810740 CAAAAAATTATTTGATT-ATTTGATA-TTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1810803 TAACCAAAGATAATAATAAATATGT
196 TAACCAAAGATAATAATAAATATGT
1810828 TTTCCACAGT
Statistics
Matches: 2040, Mismatches: 32, Indels: 69
0.95 0.01 0.03
Matches are distributed among these distances:
941 27 0.01
942 53 0.03
943 67 0.03
944 354 0.17
945 258 0.13
946 389 0.19
947 375 0.18
948 266 0.13
949 74 0.04
950 121 0.06
951 56 0.03
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (956 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATGTTTATTGTTTTTAATTTAATAATAATATATAT
CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
AAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGATA
GACACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTA
TTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTT
TTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAA
TATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAAT
ATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATGTTTATTG
TTTTTAATTTAATAATAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAA
ATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTA
TGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACTATATAAACGATACCTATT
ACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:1810096 original size:23 final size:23
Alignment explanation
Indices: 1810066--1810128 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
1810056 ACTTTACAAC
1810066 TACCTATTACATTATATAAGCGA
1 TACCTATTACATTATATAAGCGA
*
1810089 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAGCGA
*
1810112 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1810129 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAGCGA
Found at i:1810599 original size:23 final size:23
Alignment explanation
Indices: 1810536--1810591 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
1810526 TACTTTACAA
1810536 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
1810559 ATACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
1810582 CTACCTATTA
1 CTACCTATTA
1810592 TATCATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:1811313 original size:230 final size:228
Alignment explanation
Indices: 1810627--1811331 Score: 1205
Period size: 223 Copynumber: 3.1 Consensus size: 228
1810617 AAGTGTCCAT
1810627 ACTTTTATAAAAA-GA-ATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAA
1 ACTTTTATAAAAATGATAT--ATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAA
* *
1810690 TAGTATTTCATGTTTTCCATCTACAATATTAA-TTAATAATTTCATTTACACAAAAAATTATTTG
64 TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTG
*
1810754 ATTATTTGATA-TTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATA
129 ATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATA
1810818 ATAAATATGTTTTCCACAGTGAAATAAGTATGGAC
194 ATAAATATGTTTTCCACAGTGAAATAAGTATGGAC
*
1810853 -C-TTT-TAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-ATTTTTAATA
1 ACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
1810914 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
66 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
1810979 TTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATA-TAACCAAAGATAATAAT
131 TTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
**
1811043 AAATATGTTTTCCACAGTGAAATAAGTATAAAC
196 AAATATGTTTTCCACAGTGAAATAAGTATGGAC
1811076 ACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAA
1 ACTTTTATAAAAATGATATATAC-TTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAA
*
1811141 TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAATTATTTG
64 TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTG
1811206 ATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAT
129 ATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAAT
*
1811271 AATAAATATATTTT-CACAGTGAAATAAGTATGGAC
193 AATAAATATGTTTTCCACAGTGAAATAAGTATGGAC
* *
1811306 ACTTTTATAAAAAGGATAGATACTTT
1 ACTTTTATAAAAATGATATATACTTT
1811332 ACAATATAAC
Statistics
Matches: 454, Mismatches: 13, Indels: 21
0.93 0.03 0.04
Matches are distributed among these distances:
222 37 0.08
223 131 0.29
224 43 0.09
225 6 0.01
226 16 0.04
227 31 0.07
229 77 0.17
230 86 0.19
231 27 0.06
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.44
Consensus pattern (228 bp):
ACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
TTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
AAATATGTTTTCCACAGTGAAATAAGTATGGAC
Found at i:1816993 original size:22 final size:22
Alignment explanation
Indices: 1816968--1817009 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1816958 AAAGATCATT
*
1816968 AAATTTTTTAAAAATTATAACA
1 AAATATTTTAAAAATTATAACA
*
1816990 AAATATTTTATAAATTATAA
1 AAATATTTTAAAAATTATAA
1817010 AATATTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATATTTTAAAAATTATAACA
Found at i:1817152 original size:7 final size:7
Alignment explanation
Indices: 1817142--1817166 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1817132 AACCTTAAAA
1817142 CCTAGAC
1 CCTAGAC
1817149 CCTAGAC
1 CCTAGAC
1817156 CCTAGAC
1 CCTAGAC
1817163 CCTA
1 CCTA
1817167 ACATCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.44, G:0.12, T:0.16
Consensus pattern (7 bp):
CCTAGAC
Found at i:1817522 original size:21 final size:21
Alignment explanation
Indices: 1817492--1817531 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1817482 ATGAACATTA
* *
1817492 AAACCTTAAACCCTAAAACAT
1 AAACCATAAACCATAAAACAT
1817513 AAACCATAAACCATAAAAC
1 AAACCATAAACCATAAAAC
1817532 TTTAAATCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.28, G:0.00, T:0.15
Consensus pattern (21 bp):
AAACCATAAACCATAAAACAT
Found at i:1817530 original size:36 final size:36
Alignment explanation
Indices: 1817490--1817560 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
1817480 ATATGAACAT
1817490 TAAAACCTTAAACCCTAAAACATAAACCATAAACCA
1 TAAAACCTTAAACCCTAAAACATAAACCATAAACCA
* * ** *
1817526 TAAAACTTTAAATCCTAAATTATAAACCCTAAACC
1 TAAAACCTTAAACCCTAAAACATAAACCATAAACC
1817561 TCAAACTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (36 bp):
TAAAACCTTAAACCCTAAAACATAAACCATAAACCA
Found at i:1819069 original size:21 final size:21
Alignment explanation
Indices: 1819030--1819069 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1819020 AAACATTAAA
* *
1819030 AAATTAATATATTAGGTAACG
1 AAATTAACATATTAAGTAACG
*
1819051 AAATTAACATTTTAAGTAA
1 AAATTAACATATTAAGTAA
1819070 TATTCTACCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (21 bp):
AAATTAACATATTAAGTAACG
Found at i:1819416 original size:7 final size:7
Alignment explanation
Indices: 1819389--1819433 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
1819379 CTAAATAGTC
1819389 ATTTTT-
1 ATTTTTA
1819395 ATTTTTA
1 ATTTTTA
*
1819402 ATACTTTA
1 AT-TTTTA
1819410 ATTTTTA
1 ATTTTTA
1819417 ATTTTTA
1 ATTTTTA
1819424 ATTTTTA
1 ATTTTTA
1819431 ATT
1 ATT
1819434 AAAAATTCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
6 6 0.17
7 23 0.66
8 6 0.17
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTTTTA
Found at i:1825339 original size:128 final size:128
Alignment explanation
Indices: 1824966--1825702 Score: 1267
Period size: 128 Copynumber: 5.7 Consensus size: 128
1824956 ACTATTCACA
* * *
1824966 TGAAGGCGCGTTCCTGGGGACGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1825031 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* * * *
1825094 TGAAGGCGCATTCCCGGGGGGGGGGGCCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCC
1 TGAAGGCGCGTTCCC--GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
1825159 TATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
64 TATTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
1825224 TGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* * * *
1825289 TTATGTCACTCATGTCCCTCGGGGACACTATTTATATCAGTGCATATTATTTCTAAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
1825352 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTTTCAGAGAATATGTTATCATTACCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1825417 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
1825480 TGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
1825545 TTATGTAACTCATGTCCCTCGGGGACACCATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
1825608 TGAATGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1825673 TTATGTCACTCATGTCCCTCGGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
1825703 GATGGATTGT
Statistics
Matches: 575, Mismatches: 32, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
128 453 0.79
130 122 0.21
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:1826141 original size:34 final size:33
Alignment explanation
Indices: 1826094--1826177 Score: 105
Period size: 34 Copynumber: 2.5 Consensus size: 33
1826084 TTAAGTTGAA
* *
1826094 ATTTAATGTTAAATTTCGAATACTATAATTTAT
1 ATTTAATTTTAAATTTCGAATAATATAATTTAT
* *
1826127 ATTTAAATTTTAAATTTCGAATAATATTATTTTT
1 ATTT-AATTTTAAATTTCGAATAATATAATTTAT
*
1826161 ATTTTTATTTTAAATTT
1 A-TTTAATTTTAAATTT
1826178 AAATTTAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
33 4 0.09
34 37 0.84
35 3 0.07
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (33 bp):
ATTTAATTTTAAATTTCGAATAATATAATTTAT
Found at i:1826185 original size:46 final size:47
Alignment explanation
Indices: 1826122--1826211 Score: 146
Period size: 46 Copynumber: 1.9 Consensus size: 47
1826112 AATACTATAA
* * *
1826122 TTTATATTTAAATTTTAAATTTCGAATAATATTATTTTTATTTTTAT
1 TTTAAATTTAAATTTTAAATTTCGAATAATATAATTTGTATTTTTAT
1826169 TTTAAATTTAAA-TTTAAATTTCGAATAATATAATTTGTATTTT
1 TTTAAATTTAAATTTTAAATTTCGAATAATATAATTTGTATTTT
1826212 AAAAACATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 29 0.73
47 11 0.28
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (47 bp):
TTTAAATTTAAATTTTAAATTTCGAATAATATAATTTGTATTTTTAT
Found at i:1826763 original size:21 final size:20
Alignment explanation
Indices: 1826736--1826805 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
1826726 GGTATAAAAC
*
1826736 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
1826756 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
1826777 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
1826798 CCCTGCGG
1 -CCTGCGG
1826806 AGATGTCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:1826838 original size:21 final size:21
Alignment explanation
Indices: 1826812--1826856 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1826802 GCGGAGATGT
* * *
1826812 CATATGAACTGGTGGGCTTGG
1 CATATGAAATGGAGGGCTGGG
1826833 CATATGAAATGGAGGGCTGGG
1 CATATGAAATGGAGGGCTGGG
1826854 CAT
1 CAT
1826857 GTTCCCTTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.38, T:0.24
Consensus pattern (21 bp):
CATATGAAATGGAGGGCTGGG
Found at i:1828861 original size:26 final size:26
Alignment explanation
Indices: 1828825--1828882 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
1828815 AGTTAGAGAA
1828825 AATGGATGGGGGTATTTATGACATTT
1 AATGGATGGGGGTATTTATGACATTT
1828851 AATGGATGGGGGTATTTATGACATTT
1 AATGGATGGGGGTATTTATGACATTT
1828877 AATGGA
1 AATGGA
1828883 AGGCGCGTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.29, C:0.03, G:0.31, T:0.36
Consensus pattern (26 bp):
AATGGATGGGGGTATTTATGACATTT
Found at i:1831427 original size:28 final size:29
Alignment explanation
Indices: 1831393--1831475 Score: 89
Period size: 27 Copynumber: 2.9 Consensus size: 29
1831383 TATAGGGTAA
**
1831393 ATTTAATATTTAAATTATTTTTATTTTAT
1 ATTTAATATTTAAATTATTTTTAAATTAT
*
1831422 -TTTAATA-TTAAATTTTTTTTAAATTAT
1 ATTTAATATTTAAATTATTTTTAAATTAT
* * * *
1831449 AATTAATATTTAATTTATATTTCAATT
1 ATTTAATATTTAAATTATTTTTAAATT
1831476 TGGTACTCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 17 0.39
28 13 0.30
29 14 0.32
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (29 bp):
ATTTAATATTTAAATTATTTTTAAATTAT
Found at i:1831443 original size:17 final size:18
Alignment explanation
Indices: 1831415--1831452 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1831405 AATTATTTTT
1831415 ATTTTATTTTAATATTA-A
1 ATTTTATTTTAA-ATTATA
1831433 ATTTT-TTTTAAATTATA
1 ATTTTATTTTAAATTATA
1831450 ATT
1 ATT
1831453 AATATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 10 0.53
18 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTATTTTAAATTATA
Found at i:1833471 original size:21 final size:21
Alignment explanation
Indices: 1833442--1833481 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1833432 TTCAAGTTTT
* *
1833442 TAAGTGATCGATTATTTTTCC
1 TAAGAGATCAATTATTTTTCC
*
1833463 TAAGAGATCAATTTTTTTT
1 TAAGAGATCAATTATTTTT
1833482 TTGGAAAATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (21 bp):
TAAGAGATCAATTATTTTTCC
Found at i:1835297 original size:17 final size:18
Alignment explanation
Indices: 1835262--1835297 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1835252 CTGATTCATC
1835262 TTTGTATATTTATTTGTT
1 TTTGTATATTTATTTGTT
1835280 TTTGTATATTTA-TTGTT
1 TTTGTATATTTATTTGTT
1835297 T
1 T
1835298 ACTCAACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.72
Consensus pattern (18 bp):
TTTGTATATTTATTTGTT
Found at i:1845448 original size:29 final size:29
Alignment explanation
Indices: 1845413--1845494 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1845403 AAACTAAATT
*
1845413 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1845442 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1845471 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1845495 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1850216 original size:29 final size:29
Alignment explanation
Indices: 1850181--1850262 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1850171 AAACTAAATT
*
1850181 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1850210 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1850239 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1850263 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1851854 original size:29 final size:27
Alignment explanation
Indices: 1851807--1851860 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
1851797 TTTAAATAAT
*
1851807 TTTTTTTATATATTTTCATGATTTTGG
1 TTTTTTTATATATTTTCATCATTTTGG
*
1851834 TTTTTTTATAATTTTTATCATCATTTT
1 TTTTTTTAT-ATATTT-TCATCATTTT
1851861 CAATTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 5 0.22
29 9 0.39
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (27 bp):
TTTTTTTATATATTTTCATCATTTTGG
Found at i:1858892 original size:60 final size:60
Alignment explanation
Indices: 1858822--1858963 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 60
1858812 GCATCGTATG
* * *
1858822 TCCCCAAACTATGATCCTCATTTTAAATTAGAT-CTT-AAACTTTTGAATATTCTAATTTCA
1 TCCCCAAACTATGATCCTCATTTTAAATCAG-TCCTTCAAA-TTTTGAACATTCCAATTTCA
* ** * *
1858882 TCTCCAAACTATGATTTTTATTTTAAATCAGTCCTTCAAATTTTTAACATTCCAATTTCA
1 TCCCCAAACTATGATCCTCATTTTAAATCAGTCCTTCAAATTTTGAACATTCCAATTTCA
1858942 TCCCCAAACTATGATCCTCATT
1 TCCCCAAACTATGATCCTCATT
1858964 CTGAATTGGT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 1 0.01
60 64 0.94
61 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.42
Consensus pattern (60 bp):
TCCCCAAACTATGATCCTCATTTTAAATCAGTCCTTCAAATTTTGAACATTCCAATTTCA
Found at i:1858998 original size:60 final size:60
Alignment explanation
Indices: 1858822--1859009 Score: 177
Period size: 60 Copynumber: 3.1 Consensus size: 60
1858812 GCATCGTATG
* * *
1858822 TCCCCAAACTATGATCCTCATTTTAAATTAGAT-CTTAAACTTTTGAAT-ATTCTAATTTCA
1 TCCCCAAACTATGATCCTCATTTTAAATT-GGTCCTCAAACTTTTGAATCTTTC-AATTTCA
* ** * ** * *
1858882 TCTCCAAACTATGATTTTTATTTTAAATCAGTCCTTCAAA-TTTTTAA-CATTCCAATTTCA
1 TCCCCAAACTATGATCCTCATTTTAAATTGGTCC-TCAAACTTTTGAATC-TTTCAATTTCA
* * * *
1858942 TCCCCAAACTATGATCCTCATTCTGAATTGGTCCCCAAACTTTTGAATCTTTCAATTTTA
1 TCCCCAAACTATGATCCTCATTTTAAATTGGTCCTCAAACTTTTGAATCTTTCAATTTCA
1859002 TCCCCAAA
1 TCCCCAAA
1859010 GCCATCCAAA
Statistics
Matches: 99, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
59 5 0.05
60 87 0.88
61 7 0.07
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.40
Consensus pattern (60 bp):
TCCCCAAACTATGATCCTCATTTTAAATTGGTCCTCAAACTTTTGAATCTTTCAATTTCA
Found at i:1859318 original size:59 final size:58
Alignment explanation
Indices: 1859133--1859325 Score: 160
Period size: 64 Copynumber: 3.2 Consensus size: 58
1859123 GTATATATGT
* * * * *
1859133 ATAGTTTGGGATGAAATTGAAATGTTTAAAAAGTTTGAGGACTAATTTAAAATAAAGATC
1 ATAGTTTGAGATGAAATTGAAA-ATTTAAAAAGTTTGTGGGCTAATTTAGAATAAAG-TC
* *
1859193 ATAGTTTGAGAATGAAAAT-AAAATGTTCAAAAGTTTGTTTGAGGACTAATTTAGAATGATAA-T
1 ATAGTTTGAG-ATGAAATTGAAAAT-TTAAAAAGTTTG--TG-GG-CTAATTTAGAAT-A-AAGT
1859256 C
58 C
*
1859257 ATAGTTTAGAGATGAAATTGAAACTTT-AAAAGTTTAG-GGGCTAATTTAGAATAAGAGTC
1 ATAGTTT-GAGATGAAATTGAAAATTTAAAAAGTTT-GTGGGCTAATTTAGAATAA-AGTC
*
1859316 ATACTTTGAG
1 ATAGTTTGAG
1859326 GATGTGTGAT
Statistics
Matches: 110, Mismatches: 10, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
57 1 0.01
58 5 0.05
59 21 0.19
60 25 0.23
61 8 0.07
62 1 0.01
63 9 0.08
64 30 0.27
65 8 0.07
66 2 0.02
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (58 bp):
ATAGTTTGAGATGAAATTGAAAATTTAAAAAGTTTGTGGGCTAATTTAGAATAAAGTC
Found at i:1862738 original size:11 final size:10
Alignment explanation
Indices: 1862721--1862758 Score: 58
Period size: 11 Copynumber: 3.6 Consensus size: 10
1862711 GGGCTTCGGG
1862721 TTGTTGGGCC
1 TTGTTGGGCC
1862731 TCTGTTGGGCC
1 T-TGTTGGGCC
1862742 TTGGTTGGGCC
1 TT-GTTGGGCC
1862753 TTGTTG
1 TTGTTG
1862759 TATTGGGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.23
11 20 0.77
ACGTcount: A:0.00, C:0.18, G:0.39, T:0.42
Consensus pattern (10 bp):
TTGTTGGGCC
Found at i:1862806 original size:3 final size:3
Alignment explanation
Indices: 1862792--1862845 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
1862782 ATGTAAAATG
* * **
1862792 TAA TAT TAA TAA TAAA TAA TAA TAA TAA TAA TAA AAA TAA CGA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1862838 TAA TAA TA
1 TAA TAA TA
1862846 TACAAAAAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1863422 original size:128 final size:128
Alignment explanation
Indices: 1863028--1863415 Score: 731
Period size: 128 Copynumber: 3.0 Consensus size: 128
1863018 ATGAAGAGTT
* *
1863028 TGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTC
1 TGGTTATCTA-GGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTC
1863093 ATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
65 ATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
*
1863157 TGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGTATGACACGGCTCA
1 TGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCA
1863222 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
66 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
*
1863285 TAGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCA
1 TGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCA
1863350 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
66 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
1863413 TGG
1 TGG
1863416 CCATCTAAAA
Statistics
Matches: 253, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
128 243 0.96
129 10 0.04
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (128 bp):
TGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCA
TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGC
Found at i:1863424 original size:46 final size:45
Alignment explanation
Indices: 1863007--1863423 Score: 280
Period size: 40 Copynumber: 9.7 Consensus size: 45
1862997 GGACGCCACT
** *
1863007 GCTCATACGTGATGAAGAGTT-TGGTTATCTATGGT--TGACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAGGTGATGACACG
* * *
1863049 GCTCCTACGTGATGAAGAGATCTGG---TC---GGGGAATGACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAGGTG-ATGACACG
*
1863089 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCT-AAGGTGATGACACG
* * * * **
1863135 GTTCCTACGTGATGAGGACG-GCTGGTTATCT-AGG-G-TGACACG
1 GCTCATACGTGATGAAGA-GTTCTGGCCATCTAAGGTGATGACACG
* **
1863177 GCTCATACGTGATGAAGAGATCTGG---TC-GGGGT-ATGACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAGGTGATGACACG
*
1863217 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCT-AAGGTGATGACACG
* * * * * **
1863263 GTTCCTACGTGATGAGGACG-GCTAGTTATCT-AGG-G-TGACACG
1 GCTCATACGTGATGAAGA-GTTCTGGCCATCTAAGGTGATGACACG
* *
1863305 GCTCATACGTGATGAAGAGATCTGG---TC---GGGGAATGACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAGGTG-ATGACACG
*
1863345 GCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACG
1 GCTCATACGTGATGAAGAGTTCTGGCCATCT-AAGGTGATGACACG
* * * *
1863391 GTTCCTACGTGATGAGGACG-GCTGGCCATCTAA
1 GCTCATACGTGATGAAGA-GTTCTGGCCATCTAA
1863424 AAGTTATGGT
Statistics
Matches: 297, Mismatches: 43, Indels: 67
0.73 0.11 0.16
Matches are distributed among these distances:
37 4 0.01
38 1 0.00
39 6 0.02
40 94 0.32
41 2 0.01
42 68 0.23
43 11 0.04
44 6 0.02
45 5 0.02
46 91 0.31
47 9 0.03
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (45 bp):
GCTCATACGTGATGAAGAGTTCTGGCCATCTAAGGTGATGACACG
Found at i:1863581 original size:36 final size:36
Alignment explanation
Indices: 1863541--1863615 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
1863531 GTTTCAAAGG
*
1863541 AAATGACTCAAAGATT-GTTTAAAGGAAAACTG-TCTC
1 AAATGACACAAA-ATTCGTTTAAAGGAAAA-TGATCTC
* *
1863577 AAATGAGACAAAATTCGTTTAAAGGGAAATGATCTC
1 AAATGACACAAAATTCGTTTAAAGGAAAATGATCTC
1863613 AAA
1 AAA
1863616 GATGTTTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 5 0.15
36 29 0.85
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (36 bp):
AAATGACACAAAATTCGTTTAAAGGAAAATGATCTC
Found at i:1863614 original size:63 final size:63
Alignment explanation
Indices: 1863503--1863622 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
1863493 TTTCAAAAGC
*
1863503 AACTGTCTCTTAAAAGAGACAAAATTTTGTTTCAAAGGAAATGACTCAAAGATTGTTTAAAGGAA
1 AACTGTCTC-TAAAAGAGACAAAATTTCGTTTCAAAGGAAATGACTCAAAGA-TGTTTAAAGGAA
*
1863568 AACTGTCTC-AAATGAGACAAAA-TTCGTTT-AAAGGGAAATGATCTCAAAGATGTTT
1 AACTGTCTCTAAAAGAGACAAAATTTCGTTTCAAA-GGAAATGA-CTCAAAGATGTTT
1863623 GTTTTGTTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
61 3 0.06
62 19 0.37
63 20 0.39
65 9 0.18
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (63 bp):
AACTGTCTCTAAAAGAGACAAAATTTCGTTTCAAAGGAAATGACTCAAAGATGTTTAAAGGAA
Found at i:1863721 original size:28 final size:27
Alignment explanation
Indices: 1863690--1863871 Score: 150
Period size: 28 Copynumber: 6.4 Consensus size: 27
1863680 CAAAACTTTG
* *
1863690 TTTCAAAATAAATAGACTCAAAGATATT
1 TTTCAAAAGAAACA-ACTCAAAGATATT
*
1863718 TTTCAAAAGAAACAACTCAAAGATTTT
1 TTTCAAAAGAAACAACTCAAAGATATT
* * *
1863745 TATTCAAAAGGAACAAACTCCAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGATATT
* *
1863774 TATTCAAAAGGAGCAAACTCAAAGAT-TT
1 T-TTCAAAAGAAAC-AACTCAAAGATATT
* * *
1863802 TTTCAAGAGGAACAAACTCAAAGATTTTTT
1 TTTCAAAAGAAAC-AACTCAAAGA--TATT
* * *
1863832 TTTCAAGAGAAACAAACCCAAAGATTTT
1 TTTCAAAAGAAAC-AACTCAAAGATATT
1863860 TTTCAAAAGAAA
1 TTTCAAAAGAAA
1863872 TTGTCTTTAA
Statistics
Matches: 137, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
27 34 0.25
28 41 0.30
29 38 0.28
30 24 0.18
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (27 bp):
TTTCAAAAGAAACAACTCAAAGATATT
Found at i:1863773 original size:29 final size:28
Alignment explanation
Indices: 1863705--1863868 Score: 206
Period size: 29 Copynumber: 5.8 Consensus size: 28
1863695 AAATAAATAG
* *
1863705 ACTCAAAGATATTTTTCAAAAGAAAC-A
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
1863732 ACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAAGGAACAA
* *
1863761 ACTCCAAGATTTTTATTCAAAAGGAGCAA
1 ACTCAAAGATTTTT-TTCAAAAGGAACAA
*
1863790 ACTCAAAGA-TTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
* *
1863817 ACTCAAAGATTTTTTTTTCAAGAGAAACAA
1 ACTCAAAGA--TTTTTTTCAAAAGGAACAA
*
1863847 ACCCAAAGATTTTTTTCAAAAG
1 ACTCAAAGATTTTTTTCAAAAG
1863869 AAATTGTCTT
Statistics
Matches: 122, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
27 34 0.28
28 27 0.22
29 36 0.30
30 25 0.20
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (28 bp):
ACTCAAAGATTTTTTTCAAAAGGAACAA
Found at i:1863796 original size:85 final size:85
Alignment explanation
Indices: 1863705--1863868 Score: 235
Period size: 85 Copynumber: 1.9 Consensus size: 85
1863695 AAATAAATAG
*
1863705 ACTCAAAGATATTTTTCAAAAGAAAC-AACTCAAAGA-TTTTTATTCAAAAGGAACAAACTCC-A
1 ACTCAAAGAT-TTTTTCAAAAGAAACAAACTCAAAGATTTTTTATTCAAAAGAAACAAAC-CCAA
1863767 AGATTTTTATTCAAAAGGAGCAA
64 AGATTTTT-TTCAAAAGGAGCAA
* * * *
1863790 ACTCAAAGATTTTTTCAAGAGGAACAAACTCAAAGATTTTTTTTTCAAGAGAAACAAACCCAAAG
1 ACTCAAAGATTTTTTCAAAAGAAACAAACTCAAAGATTTTTTATTCAAAAGAAACAAACCCAAAG
1863855 ATTTTTTTCAAAAG
66 ATTTTTTTCAAAAG
1863869 AAATTGTCTT
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
84 13 0.18
85 30 0.42
86 28 0.39
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (85 bp):
ACTCAAAGATTTTTTCAAAAGAAACAAACTCAAAGATTTTTTATTCAAAAGAAACAAACCCAAAG
ATTTTTTTCAAAAGGAGCAA
Found at i:1863837 original size:57 final size:56
Alignment explanation
Indices: 1863705--1863868 Score: 206
Period size: 57 Copynumber: 2.9 Consensus size: 56
1863695 AAATAAATAG
*
1863705 ACTCAAAGA-TATTTTTCAAAAGAAAC-AACTCAAAGATTTTTATTCAAAAGGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGAAACAAACTCAAAGA-TTTT-TTCAAAAGGAACAA
* * * * *
1863761 ACTCCAAGATTTTTATTCAAAAGGAGCAAACTCAAAGATTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTTCAAAAGAAACAAACTCAAAGATTTTTTCAAAAGGAACAA
* *
1863817 ACTCAAAGATTTTTTTTTCAAGAGAAACAAACCCAAAGATTTTTTTCAAAAG
1 ACTCAAAGA-TTTTTTTTCAAAAGAAACAAACTCAAAGA-TTTTTTCAAAAG
1863869 AAATTGTCTT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
56 29 0.32
57 41 0.45
58 21 0.23
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (56 bp):
ACTCAAAGATTTTTTTTCAAAAGAAACAAACTCAAAGATTTTTTCAAAAGGAACAA
Found at i:1864194 original size:36 final size:35
Alignment explanation
Indices: 1864110--1864212 Score: 113
Period size: 36 Copynumber: 3.0 Consensus size: 35
1864100 GAGAAAATGA
* *
1864110 TGTCTCAAGCGAGACGAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGA-AT
* **
1864144 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAGT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAA-T
*
1864180 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAA
1864213 ACGATTTCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
34 19 0.33
35 10 0.18
36 28 0.49
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAT
Found at i:1864367 original size:105 final size:100
Alignment explanation
Indices: 1864181--1864412 Score: 259
Period size: 105 Copynumber: 2.3 Consensus size: 100
1864171 TAGAGAAGTT
* * **
1864181 GTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAACGATTTCAAGTGAGATCAACTTTGTTTAATGT
1 GTCTCAAGCGAGACAAAATTTG-TTTTGAGAAACAAAATCAAGTGAGATCAACTTTGTTTAATGT
* *
1864246 GAAACAAATCCGAAATTTGGATCTCAAAGGGAAAAG
65 GAAACAAATCCAAAATTTGGATCTCAAAGGAAAAAG
* *
1864282 GTCTCAAGCGAGACAAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTT-
1 GTCTCAAGCGAGACAAAATTTGTTTTG--AGAAACAA-AATC-AA-GTGAGATCAACTTTGTTTA
* * * * *
1864346 TTAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
61 AT-GTGAAACAAATCCAAAATTTGGATCTCAAAGGAAAAAG
* *
1864387 GTCTCAAGCGAAACACAATTTGTTTT
1 GTCTCAAGCGAGACAAAATTTGTTTT
1864413 AAAATTCTCA
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
100 5 0.05
101 21 0.19
102 7 0.06
103 2 0.02
104 3 0.03
105 72 0.65
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (100 bp):
GTCTCAAGCGAGACAAAATTTGTTTTGAGAAACAAAATCAAGTGAGATCAACTTTGTTTAATGTG
AAACAAATCCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:1864886 original size:4 final size:4
Alignment explanation
Indices: 1864877--1864912 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
1864867 TGTATCATGG
1864877 ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1864913 ATACTTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 28 0.93
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:1872743 original size:11 final size:10
Alignment explanation
Indices: 1872726--1872763 Score: 58
Period size: 11 Copynumber: 3.6 Consensus size: 10
1872716 GGGCTTCGGG
1872726 TTGTTGGGCC
1 TTGTTGGGCC
1872736 TCTGTTGGGCC
1 T-TGTTGGGCC
1872747 TTGGTTGGGCC
1 TT-GTTGGGCC
1872758 TTGTTG
1 TTGTTG
1872764 TATTGGGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.23
11 20 0.77
ACGTcount: A:0.00, C:0.18, G:0.39, T:0.42
Consensus pattern (10 bp):
TTGTTGGGCC
Found at i:1872811 original size:3 final size:3
Alignment explanation
Indices: 1872797--1872853 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
1872787 ATGTAAAATG
* * **
1872797 TAA TAT TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA AAA TAA CGA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1872843 TAA TAA TAA TA
1 TAA TAA TAA TA
1872854 TACAAAAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1873602 original size:59 final size:58
Alignment explanation
Indices: 1873480--1873602 Score: 131
Period size: 59 Copynumber: 2.1 Consensus size: 58
1873470 ATCAGGTGAT
* * * *
1873480 CATTTTGCAACTTTTAATAGTCAGTGAGTCAACAAAGCAACGCCCTATAATTGAAGGGT
1 CATTTTGCAACTTTTAATAGTCAGAGACTCAACAAAGCAACACCCTATAATTG-AGGGC
* * * * *
1873539 CATTTTGTAACTTTTAATAGTCGAGAGACTCAATAAAGCATCACCTTATAGTTG-GGGAC
1 CATTTTGCAACTTTTAATAGTC-AGAGACTCAACAAAGCAACACCCTATAATTGAGGG-C
1873598 CATTT
1 CATTT
1873603 GTATGCTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
58 3 0.06
59 26 0.49
60 24 0.45
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (58 bp):
CATTTTGCAACTTTTAATAGTCAGAGACTCAACAAAGCAACACCCTATAATTGAGGGC
Found at i:1878394 original size:29 final size:30
Alignment explanation
Indices: 1878362--1878433 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
1878352 GCCCTGCTCC
* * *
1878362 TTTAATATTTACATTTAGGGCT-CCATTAT
1 TTTAATATTTACAATTAGGACTCCCACTAT
*
1878391 TTTAATATTTACAATTAGGACTCCCACTCT
1 TTTAATATTTACAATTAGGACTCCCACTAT
*
1878421 TTTAATCTTTACA
1 TTTAATATTTACA
1878434 GCTATGGCCC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTAATATTTACAATTAGGACTCCCACTAT
Found at i:1882483 original size:17 final size:17
Alignment explanation
Indices: 1882463--1882512 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
1882453 ATAGTTTGTG
1882463 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
*
1882480 AACA-T--T-GATACTCA
1 AACATTCATAGAAAC-CA
1882494 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
1882511 AA
1 AA
1882513 ACATGAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 4 0.15
14 7 0.27
15 1 0.04
16 1 0.04
17 9 0.35
18 4 0.15
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.20
Consensus pattern (17 bp):
AACATTCATAGAAACCA
Found at i:1882840 original size:20 final size:20
Alignment explanation
Indices: 1882813--1882856 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1882803 TTTTTAATAT
1882813 ATATATATATATGGATGGATGG
1 ATATAT-TA-ATGGATGGATGG
*
1882835 ATATATTAATGGGTGGATGG
1 ATATATTAATGGATGGATGG
1882855 AT
1 AT
1882857 GCCGCGGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.30, T:0.36
Consensus pattern (20 bp):
ATATATTAATGGATGGATGG
Found at i:1887614 original size:15 final size:14
Alignment explanation
Indices: 1887594--1887628 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
1887584 ACAAAATTTG
1887594 AATTTAAATTTATAA
1 AATTTAAATTT-TAA
1887609 AATTTAAATTTTAA
1 AATTTAAATTTTAA
1887623 ATATTT
1 A-ATTT
1887629 TAAAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATTTAAATTTTAA
Found at i:1893068 original size:4 final size:4
Alignment explanation
Indices: 1893061--1893107 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
1893051 TTACTTATTA
* * * *
1893061 ATGC ATGC ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATGT ATGC ATG
1 ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATG
1893108 TATAAAACTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (4 bp):
ATGC
Found at i:1893074 original size:8 final size:8
Alignment explanation
Indices: 1893061--1893110 Score: 91
Period size: 8 Copynumber: 6.2 Consensus size: 8
1893051 TTACTTATTA
*
1893061 ATGCATGC
1 ATGCATGT
1893069 ATGCATGT
1 ATGCATGT
1893077 ATGCATGT
1 ATGCATGT
1893085 ATGCATGT
1 ATGCATGT
1893093 ATGCATGT
1 ATGCATGT
1893101 ATGCATGT
1 ATGCATGT
1893109 AT
1 AT
1893111 AAAACTTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 41 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (8 bp):
ATGCATGT
Found at i:1895704 original size:13 final size:13
Alignment explanation
Indices: 1895686--1895711 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1895676 GAGTGAAGAA
1895686 CAGAACATTTAGC
1 CAGAACATTTAGC
1895699 CAGAACATTTAGC
1 CAGAACATTTAGC
1895712 GATATCTAAC
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:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
CAGAACATTTAGC
Found at i:1906791 original size:123 final size:123
Alignment explanation
Indices: 1906442--1906803 Score: 309
Period size: 123 Copynumber: 2.9 Consensus size: 123
1906432 ATCCTATGAG
* * ** * * *
1906442 GGAACCTCAATACTGTTCTCTTAACAAAGTATCCTACGAGTATATGGAAAATTCTGAGAA-CAAG
1 GGAACCTCAATATTGTTCTCTTAACGAAGCCTCCTACGAATATAGGGAAAATTTTGA-AACCAAG
* * * * * * * * * * * * * *
1906506 CTTGACGTGGGGGTTTCTGGTTGTGAAACCT-TACTGGCAGACAATTCACAAACAGTAAA
65 TTTGATGCGGGGGTTTCTAGTTGGGAGA-CTGTACAGGTACACAGTCCAGAAATAATAAA
* ** * **
1906565 GGAACCTCAATATTGTTCTCTTAATGAAGTGTCCTATGAATATAGGGAAAATTTTGAGGCCAAGT
1 GGAACCTCAATATTGTTCTCTTAACGAAGCCTCCTACGAATATAGGGAAAATTTTGAAACCAAGT
* * *** *
1906630 TTGATGTGGGGGTTTCTAGTTGGGATACTGTTGTGGTACAGAGTCCAGAAATAATAAA
66 TTGATGCGGGGGTTTCTAGTTGGGAGACTGTACAGGTACACAGTCCAGAAATAATAAA
* * * *
1906688 GGAACCTCAGT-TCTGTTCTTTTAACGAAGCCTCCTACGAATTTATGGAAAATTTTGAAACCAAG
1 GGAACCTCAATAT-TGTTCTCTTAACGAAGCCTCCTACGAATATAGGGAAAATTTTGAAACCAAG
* *
1906752 TTTGATGCGGGTGTTTCTACG-TGGGAGATTGTACAGGTACACAGTCCAGAAA
65 TTTGATGCGGGGGTTTCTA-GTTGGGAGACTGTACAGGTACACAGTCCAGAAA
1906804 CATTAAGTAA
Statistics
Matches: 192, Mismatches: 43, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
122 3 0.02
123 188 0.98
124 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (123 bp):
GGAACCTCAATATTGTTCTCTTAACGAAGCCTCCTACGAATATAGGGAAAATTTTGAAACCAAGT
TTGATGCGGGGGTTTCTAGTTGGGAGACTGTACAGGTACACAGTCCAGAAATAATAAA
Found at i:1922342 original size:21 final size:21
Alignment explanation
Indices: 1922318--1922370 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
1922308 GAATTAATTT
*
1922318 AATTTGAATCAT-AACTTTATA
1 AATTTGAATCATAAAATTT-TA
** *
1922339 AATTAAAATTATAAAATTTTA
1 AATTTGAATCATAAAATTTTA
1922360 AATTTGAATCA
1 AATTTGAATCA
1922371 AATAATAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (21 bp):
AATTTGAATCATAAAATTTTA
Found at i:1934482 original size:54 final size:54
Alignment explanation
Indices: 1934390--1934530 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 54
1934380 TGGGCGTATC
* * *
1934390 TGCCATTATCCCA-CCTTCGTCAATGGGCAA-TCCTGGTGCAAGATCTGCATCTTG
1 TGCCATTATCCCACCCTT-GTCAGT-GGAAACTCCGGGTGCAAGATCTGCATCTTG
* * *
1934444 TGCCATTATCCCACCCTTGTCAGTGGAAACTCCGGGTGCGAGATCTTCATGTTG
1 TGCCATTATCCCACCCTTGTCAGTGGAAACTCCGGGTGCAAGATCTGCATCTTG
* * *
1934498 TGCCATTGTCCCACCCTTGTCGGTGGACACTCC
1 TGCCATTATCCCACCCTTGTCAGTGGAAACTCC
1934531 TGCTTCGAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
53 4 0.05
54 68 0.89
55 4 0.05
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (54 bp):
TGCCATTATCCCACCCTTGTCAGTGGAAACTCCGGGTGCAAGATCTGCATCTTG
Found at i:1934592 original size:48 final size:48
Alignment explanation
Indices: 1934540--1934655 Score: 160
Period size: 48 Copynumber: 2.4 Consensus size: 48
1934530 CTGCTTCGAG
* * *
1934540 ATCTTGTGGAATCAGTCCACCTACGTTAATCGGCAGTTCTGGTGCGAT
1 ATCTTGTGGAATCAGCCCACCTACATCAATCGGCAGTTCTGGTGCGAT
* * * *
1934588 ATCTTGTGGAATCAGCCCACCTCCATCGATGGGCATTTCTGGTGCGAT
1 ATCTTGTGGAATCAGCCCACCTACATCAATCGGCAGTTCTGGTGCGAT
*
1934636 ATCTTGTGGAATCAACCCAC
1 ATCTTGTGGAATCAGCCCAC
1934656 TATCGTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (48 bp):
ATCTTGTGGAATCAGCCCACCTACATCAATCGGCAGTTCTGGTGCGAT
Found at i:1942605 original size:18 final size:19
Alignment explanation
Indices: 1942582--1942618 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1942572 TATTTATACC
1942582 TATTAT-TTTTTAAATTTT
1 TATTATATTTTTAAATTTT
1942600 TATTATATTTTTAAATTTT
1 TATTATATTTTTAAATTTT
1942619 GTATAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTATATTTTTAAATTTT
Found at i:1947975 original size:80 final size:80
Alignment explanation
Indices: 1947842--1947997 Score: 312
Period size: 80 Copynumber: 1.9 Consensus size: 80
1947832 CGATGAGGTA
1947842 CTTCTAGCTGCACGCATATTGATGCAGTCGTCGCTACCTTGGCAATGCTATTTAACAAGATATCA
1 CTTCTAGCTGCACGCATATTGATGCAGTCGTCGCTACCTTGGCAATGCTATTTAACAAGATATCA
1947907 GATTTTATGACACCT
66 GATTTTATGACACCT
1947922 CTTCTAGCTGCACGCATATTGATGCAGTCGTCGCTACCTTGGCAATGCTATTTAACAAGATATCA
1 CTTCTAGCTGCACGCATATTGATGCAGTCGTCGCTACCTTGGCAATGCTATTTAACAAGATATCA
1947987 GATTTTATGAC
66 GATTTTATGAC
1947998 TGTGTCGGTG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (80 bp):
CTTCTAGCTGCACGCATATTGATGCAGTCGTCGCTACCTTGGCAATGCTATTTAACAAGATATCA
GATTTTATGACACCT
Found at i:1950106 original size:11 final size:11
Alignment explanation
Indices: 1950090--1950124 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
1950080 TGACTTTGTT
1950090 TATCATTTTAC
1 TATCATTTTAC
*
1950101 TATCATTTCAC
1 TATCATTTTAC
1950112 TATCATTTTAC
1 TATCATTTTAC
1950123 TA
1 TA
1950125 AAAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (11 bp):
TATCATTTTAC
Found at i:1950950 original size:21 final size:21
Alignment explanation
Indices: 1950921--1950960 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1950911 TTTTTATTAT
* *
1950921 TTTATTAAAAGAATTGGTATG
1 TTTAGTAAAACAATTGGTATG
*
1950942 TTTAGTAAAACACTTGGTA
1 TTTAGTAAAACAATTGGTA
1950961 CATTTAGACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (21 bp):
TTTAGTAAAACAATTGGTATG
Found at i:1954090 original size:80 final size:80
Alignment explanation
Indices: 1953956--1954115 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
1953946 AAAGTGCCAA
1953956 GCGAGAAGGAAAAGCTCCAAAGTTAGAACCCAGTTCAAGCCGGAGAAGCTCCTTGGCAAAGCCTT
1 GCGAGAAGGAAAAGCTCCAAAGTTAGAACCCAGTTCAAGCCGGAGAAGCTCCTTGGCAAAGCCTT
1954021 TCTTGAAACGCTACTT
66 TCTTG-AACGCTACTT
1954037 GCGAGAAGGAAAA-CTCCAAAGTTAGAACCCAGTTCAAGCCGGAGAAGCTCCTTGGCAAAGCCTT
1 GCGAGAAGGAAAAGCTCCAAAGTTAGAACCCAGTTCAAGCCGGAGAAGCTCCTTGGCAAAGCCTT
1954101 TCTTGAACGCTACTT
66 TCTTGAACGCTACTT
1954116 CTCAATTGAA
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
79 10 0.13
80 56 0.71
81 13 0.16
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (80 bp):
GCGAGAAGGAAAAGCTCCAAAGTTAGAACCCAGTTCAAGCCGGAGAAGCTCCTTGGCAAAGCCTT
TCTTGAACGCTACTT
Found at i:1957374 original size:25 final size:25
Alignment explanation
Indices: 1957342--1957420 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
1957332 ATAAATAATG
1957342 AATAATCTTTTATAATATAATTTAA
1 AATAATCTTTTATAATATAATTTAA
* ***
1957367 AAGAATCTCAGAT-ATATAA--T-A
1 AATAATCTTTTATAATATAATTTAA
*
1957388 AATAATCTTTTACAATATAATTTAA
1 AATAATCTTTTATAATATAATTTAA
1957413 AATAATCT
1 AATAATCT
1957421 CATTATCTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
21 9 0.22
22 7 0.17
24 7 0.17
25 18 0.44
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
AATAATCTTTTATAATATAATTTAA
Found at i:1959972 original size:18 final size:17
Alignment explanation
Indices: 1959936--1959976 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1959926 ATGAATGATA
* *
1959936 TAATTAGAATGATACTT
1 TAATTTGAAGGATACTT
1959953 TAATTTGAAGGATCACTT
1 TAATTTGAAGGAT-ACTT
1959971 TAATTT
1 TAATTT
1959977 TTTTATCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (17 bp):
TAATTTGAAGGATACTT
Found at i:1960507 original size:45 final size:45
Alignment explanation
Indices: 1960443--1960535 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
1960433 TTTATTTATT
1960443 TAGACTTTGGAGAAATTATTATTTATTTGTTTAGACTTTGGATTC
1 TAGACTTTGGAGAAATTATTATTTATTTGTTTAGACTTTGGATTC
1960488 TAGACTTTGGAGAAATTATTATTTATTTGTTTAGACTTTGGATTC
1 TAGACTTTGGAGAAATTATTATTTATTTGTTTAGACTTTGGATTC
1960533 TAG
1 TAG
1960536 TTGGGATTGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (45 bp):
TAGACTTTGGAGAAATTATTATTTATTTGTTTAGACTTTGGATTC
Found at i:1967263 original size:15 final size:15
Alignment explanation
Indices: 1967239--1967281 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
1967229 ATATTATTAA
*
1967239 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
1967254 ATTAAATTATAAAAT
1 ATTAAATTATAAAAT
1967269 ATTAAATATATAA
1 ATTAAAT-TATAA
1967282 TTAAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:1967523 original size:15 final size:14
Alignment explanation
Indices: 1967500--1967539 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
1967490 AAATAATTAA
1967500 AATAATATATTTTAT
1 AATAATATA-TTTAT
*
1967515 AATATTATATTTAT
1 AATAATATATTTAT
*
1967529 AATAATTTATT
1 AATAATATATT
1967540 GAATTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATAATATATTTAT
Found at i:1969264 original size:15 final size:15
Alignment explanation
Indices: 1969240--1969273 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1969230 CCATAGGACC
1969240 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
* *
1969255 ACTACGTCCCGATGG
1 ACTACATCCCGAAGG
1969270 ACTA
1 ACTA
1969274 TTATACCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:1969888 original size:45 final size:45
Alignment explanation
Indices: 1969837--1969924 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
1969827 GTGCATAAAA
**
1969837 TGCATTCGAT-GTTTTATTATTAATGGAATGCATCGATGCACTAAT
1 TGCATTCGATCGTTTTATT-TTAAAAGAATGCATCGATGCACTAAT
* * *
1969882 TGCATTCGATCTTTTTATTTTAAAAGAGTGTATCGATGCACTA
1 TGCATTCGATCGTTTTATTTTAAAAGAATGCATCGATGCACTA
1969925 CCTGTGCATC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 30 0.81
46 7 0.19
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (45 bp):
TGCATTCGATCGTTTTATTTTAAAAGAATGCATCGATGCACTAAT
Found at i:1976146 original size:15 final size:15
Alignment explanation
Indices: 1976126--1976159 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1976116 CCGTAGGACC
*
1976126 ACTACATCCCGAAGG
1 ACTACATCCCGAAAG
1976141 ACTACATCCCGAAAG
1 ACTACATCCCGAAAG
1976156 ACTA
1 ACTA
1976160 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.32, G:0.15, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAAG
Found at i:1976841 original size:64 final size:64
Alignment explanation
Indices: 1976686--1976842 Score: 158
Period size: 64 Copynumber: 2.5 Consensus size: 64
1976676 TAATGAAGGT
* * * **
1976686 ATGCATCGATGCACTACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTTATTATTAATGGA
1 ATGCATCGATGCACTACCTATGCATCGATGCATAAAATGCATTCGATGTTTTATTATTAAAAGA
* * * * * *
1976750 ATACATCGATGCA-TGCCTTATGTATCGATGCACT-AATTGCATTCTATCTTTTTATT-TTAAAA
1 ATGCATCGATGCACTACC-TATGCATCGATGCA-TAAAATGCATTCGAT-GTTTTATTATTAAAA
1976812 GA
63 GA
*
1976814 GTGCATCGATGCACTACCTATGCATCGAT
1 ATGCATCGATGCACTACCTATGCATCGAT
1976843 ACACCTTCAA
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
63 2 0.03
64 61 0.82
65 11 0.15
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTATGCATCGATGCATAAAATGCATTCGATGTTTTATTATTAAAAGA
Found at i:1981037 original size:24 final size:24
Alignment explanation
Indices: 1980992--1981038 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1980982 CTCCTTGAAA
*
1980992 CTGTTGTTGATGTTCATTTCGCCG
1 CTGTTGTTGATGTTCATCTCGCCG
*
1981016 CTGTTGTTGTTGCTTC-TCTCGCC
1 CTGTTGTTGATG-TTCATCTCGCC
1981039 TTGTACCAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.04, C:0.26, G:0.23, T:0.47
Consensus pattern (24 bp):
CTGTTGTTGATGTTCATCTCGCCG
Found at i:1982973 original size:13 final size:13
Alignment explanation
Indices: 1982934--1982975 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1982924 AATTTAAGGT
*
1982934 TAAAAAAATGTAA
1 TAAAAAAATTTAA
1982947 TAAAAAAATATTAA
1 TAAAAAAAT-TTAA
1982961 -AAATAAAATTTAA
1 TAAA-AAAATTTAA
1982974 TA
1 TA
1982976 TTTTCAGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
TAAAAAAATTTAA
Found at i:1985367 original size:12 final size:12
Alignment explanation
Indices: 1985346--1985377 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1985336 AGTTGAACTA
1985346 ATTATAAATTAC
1 ATTATAAATTAC
*
1985358 ATTATGAATTAC
1 ATTATAAATTAC
1985370 ATTATAAA
1 ATTATAAA
1985378 ACAACTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (12 bp):
ATTATAAATTAC
Found at i:2001554 original size:2 final size:2
Alignment explanation
Indices: 2001535--2001573 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
2001525 ATCTACGATA
* *
2001535 AT AT AT AGT AA AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2001574 TGTAGAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2009426 original size:17 final size:17
Alignment explanation
Indices: 2009404--2009438 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2009394 AAGAAAGGTC
2009404 GTTAATCATAGGAAGGA
1 GTTAATCATAGGAAGGA
2009421 GTTAATCATAGGAAGGA
1 GTTAATCATAGGAAGGA
2009438 G
1 G
2009439 GAAAAGAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.31, T:0.23
Consensus pattern (17 bp):
GTTAATCATAGGAAGGA
Found at i:2010046 original size:24 final size:25
Alignment explanation
Indices: 2010019--2010073 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
2010009 TTCTAATTCA
* *
2010019 TATTTCGGTC-GTCGGGTGAAACTT
1 TATTTCGGTCGGTCGGATGAAACAT
*
2010043 TATTTTGGTCGGGTCGGATGAAACAT
1 TATTTCGGTC-GGTCGGATGAAACAT
2010069 TATTT
1 TATTT
2010074 TGTGGTCGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 9 0.35
26 17 0.65
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.40
Consensus pattern (25 bp):
TATTTCGGTCGGTCGGATGAAACAT
Found at i:2010065 original size:26 final size:28
Alignment explanation
Indices: 2010029--2010085 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 28
2010019 TATTTCGGTC
* *
2010029 GTCGGGTGAAACTTTA-TTT-TGGTCGG
1 GTCGGATGAAACATTATTTTGTGGTCGG
2010055 GTCGGATGAAACATTATTTTGTGGTCGG
1 GTCGGATGAAACATTATTTTGTGGTCGG
2010083 GTC
1 GTC
2010086 ATTTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 14 0.52
27 3 0.11
28 10 0.37
ACGTcount: A:0.18, C:0.12, G:0.33, T:0.37
Consensus pattern (28 bp):
GTCGGATGAAACATTATTTTGTGGTCGG
Found at i:2019474 original size:31 final size:31
Alignment explanation
Indices: 2019439--2019502 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
2019429 TAAAAATAAA
**
2019439 TGTCTAACGTTTTCTCTTTTACACTTTTAGG
1 TGTCTAACGTTTTCTCCGTTACACTTTTAGG
* *
2019470 TGTCTCATGTTTTCTCCGTTACACTTTTAGG
1 TGTCTAACGTTTTCTCCGTTACACTTTTAGG
2019501 TG
1 TG
2019503 CCTACACAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.14, C:0.20, G:0.16, T:0.50
Consensus pattern (31 bp):
TGTCTAACGTTTTCTCCGTTACACTTTTAGG
Found at i:2019743 original size:21 final size:21
Alignment explanation
Indices: 2019698--2019744 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
2019688 TAGAATGATA
2019698 AATTTAGGATTAGAGTTATAG
1 AATTTAGGATTAGAGTTATAG
2019719 -ATTTAGGTATTAG-GTT-TAGG
1 AATTTAGG-ATTAGAGTTATA-G
2019739 AATTTA
1 AATTTA
2019745 AGTTTGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.09
20 11 0.48
21 10 0.43
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (21 bp):
AATTTAGGATTAGAGTTATAG
Found at i:2021748 original size:21 final size:21
Alignment explanation
Indices: 2021723--2021773 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
2021713 TATCGGAAAC
2021723 ATTATTATTT-ATACCGATTTT
1 ATTATTATTTCA-ACCGATTTT
* *
2021744 GTTATTTTTTCAACCGATTTT
1 ATTATTATTTCAACCGATTTT
2021765 ATTATTATT
1 ATTATTATT
2021774 GGACATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.59
Consensus pattern (21 bp):
ATTATTATTTCAACCGATTTT
Found at i:2024008 original size:27 final size:26
Alignment explanation
Indices: 2023977--2024030 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
2023967 CTCTGTTTAT
*
2023977 ATTATGTTATTGAGCAAATGATTGAAA
1 ATTATGTTATCGAGCAAAT-ATTGAAA
* *
2024004 ATTATGTTGTCGAGCAAATATTTAAA
1 ATTATGTTATCGAGCAAATATTGAAA
2024030 A
1 A
2024031 GTAACAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.37
Consensus pattern (26 bp):
ATTATGTTATCGAGCAAATATTGAAA
Found at i:2025074 original size:30 final size:30
Alignment explanation
Indices: 2025038--2025125 Score: 149
Period size: 30 Copynumber: 2.9 Consensus size: 30
2025028 CAAGAACCGA
2025038 CAACTCAAGGAGGAGACACGGAAACAACGG
1 CAACTCAAGGAGGAGACACGGAAACAACGG
2025068 CAACTCAAGGAGGAGACACGGAAACAACGG
1 CAACTCAAGGAGGAGACACGGAAACAACGG
** *
2025098 CAACTCAAGGAGGCTACACGGGAACAAC
1 CAACTCAAGGAGGAGACACGGAAACAAC
2025126 AACGACGACG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.42, C:0.25, G:0.28, T:0.05
Consensus pattern (30 bp):
CAACTCAAGGAGGAGACACGGAAACAACGG
Found at i:2026317 original size:3 final size:3
Alignment explanation
Indices: 2026309--2026400 Score: 184
Period size: 3 Copynumber: 30.7 Consensus size: 3
2026299 CACCAGTTGC
2026309 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2026357 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2026401 GAGTAAATGA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2038225 original size:64 final size:63
Alignment explanation
Indices: 2038139--2038293 Score: 170
Period size: 64 Copynumber: 2.4 Consensus size: 63
2038129 TGCACTAAGA
* * * * *
2038139 GTGCAGCGATGCATCAAGTGCATTCGATGTT-TTAAAATAGGCC-GAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTCTT-AAATAAGCCTCAGTGCATCGATGCAT-GAT
* * * *
2038202 GGTGTATCGATGCATCAAATGCATTCGATGTTCTTATATAATCCTCAGTGCATCGGTGCATGAT
1 -GTGCATCGATGCATCAAATGCATTCGATGTTCTTAAATAAGCCTCAGTGCATCGATGCATGAT
**
2038266 GTGCATCGATGCATGGAATGCATTCGAT
1 GTGCATCGATGCATCAAATGCATTCGAT
2038294 ATTCAATTTA
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
63 25 0.32
64 36 0.47
65 16 0.21
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTCTTAAATAAGCCTCAGTGCATCGATGCATGAT
Found at i:2041887 original size:29 final size:31
Alignment explanation
Indices: 2041847--2041927 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 31
2041837 ATAATTAATT
*
2041847 TATTAA-ATTAAATTAAAATTAGGA-TTAAG
1 TATTAAGATTAAATTAAAATTAAGATTTAAG
* * *
2041876 T-TTAAGATTAAACTAATA-TAATATTTAAG
1 TATTAAGATTAAATTAAAATTAAGATTTAAG
2041905 TATTAATGATTAAATGTAAAATT
1 TATTAA-GATTAAAT-TAAAATT
2041928 TTATCTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
28 7 0.17
29 17 0.43
30 4 0.10
31 7 0.17
32 4 0.10
33 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (31 bp):
TATTAAGATTAAATTAAAATTAAGATTTAAG
Found at i:2044431 original size:2 final size:2
Alignment explanation
Indices: 2044424--2044457 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2044414 AATTTAAAGT
2044424 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2044458 AATTCTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2048965 original size:31 final size:31
Alignment explanation
Indices: 2048917--2048989 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
2048907 TAAAATAAAA
*
2048917 AAAAATAAATTTAAAAGTAAAGTGATTAAATT
1 AAAAAT-AATTTAAAAGTAAAGTAATTAAATT
* * **
2048949 AGAAATAATTTGAAAGTTGAGTAATTAAATT
1 AAAAATAATTTAAAAGTAAAGTAATTAAATT
*
2048980 AAAAAAAATT
1 AAAAATAATT
2048990 AAACTTCAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 29 0.85
32 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (31 bp):
AAAAATAATTTAAAAGTAAAGTAATTAAATT
Found at i:2051407 original size:4 final size:4
Alignment explanation
Indices: 2051398--2051435 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
2051388 AAGCAAAATT
2051398 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
2051436 CAGAGATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:2062302 original size:16 final size:16
Alignment explanation
Indices: 2062269--2062302 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2062259 TTTTTTAAAT
**
2062269 ATGTTCCCCTTCCTTA
1 ATGTTCCCCTTCAATA
2062285 ATGTTCCCCTTCAATA
1 ATGTTCCCCTTCAATA
2062301 AT
1 AT
2062303 TAAAGGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.32, G:0.06, T:0.41
Consensus pattern (16 bp):
ATGTTCCCCTTCAATA
Found at i:2066200 original size:21 final size:21
Alignment explanation
Indices: 2066168--2066217 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
2066158 TCCTTTTCAT
* **
2066168 TGAA-GGAACGATCATTTTGG
1 TGAAGGGATCGATCATTGAGG
*
2066188 TGAAGGGATCGATCCTTGAGG
1 TGAAGGGATCGATCATTGAGG
2066209 TGAAGGGAT
1 TGAAGGGAT
2066218 TAATCAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.28, C:0.10, G:0.36, T:0.26
Consensus pattern (21 bp):
TGAAGGGATCGATCATTGAGG
Found at i:2070843 original size:60 final size:60
Alignment explanation
Indices: 2070743--2070878 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 60
2070733 TTTTTAGGGT
* * * *
2070743 AAAG-TACACAAATG-TCCCCCGATTATAGAGCATTATTTTGTTGAGTCTCAT-TATTATTA
1 AAAGTTACA-AAATGATCCCCCGACTATAGAGCATTACTTTGTTGAGTCTC-TCGACTATTA
* * *
2070802 AAAGTTACAAAATGATCTCCCGACTATAGAGCGTTGCTTTGTTGAGTCTCTCGACTATTA
1 AAAGTTACAAAATGATCCCCCGACTATAGAGCATTACTTTGTTGAGTCTCTCGACTATTA
*
2070862 AAAGTTAAAAAATGATC
1 AAAGTTACAAAATGATC
2070879 ACTCGATTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 10 0.15
60 56 0.85
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (60 bp):
AAAGTTACAAAATGATCCCCCGACTATAGAGCATTACTTTGTTGAGTCTCTCGACTATTA
Found at i:2072830 original size:2 final size:2
Alignment explanation
Indices: 2072823--2072862 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2072813 AAATAACATG
2072823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2072863 TTTGCTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2076338 original size:2 final size:2
Alignment explanation
Indices: 2076331--2076380 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
2076321 ATCGGGCCGG
* * * *
2076331 TA TA TA TA TT TA AA T- TA AA TA TA TA AA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2076371 TA TA TA TA TA
1 TA TA TA TA TA
2076381 AATTAAATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2076391 original size:43 final size:42
Alignment explanation
Indices: 2076331--2076415 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 42
2076321 ATCGGGCCGG
*
2076331 TATATATATTTAAATTAAA-TATATAAATATTATATATATATA
1 TATATATAATTAAATTAAATTA-ATAAATATTATATATATATA
*
2076373 TATATATAAATTAAATTAAATTAATTAATATTATATATATATA
1 TATATAT-AATTAAATTAAATTAATAAATATTATATATATATA
2076416 ATAATTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
42 7 0.18
43 30 0.77
44 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (42 bp):
TATATATAATTAAATTAAATTAATAAATATTATATATATATA
Found at i:2076527 original size:36 final size:36
Alignment explanation
Indices: 2076480--2076553 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
2076470 GATTACTAAA
2076480 CCCGTCCCCGTCCCCGTTTAACATAAAC-AGTTTTTC
1 CCCGTCCCCGTCCCCGTTTAACATAAACGA-TTTTTC
*
2076516 CCCGTCCCCGTCCCCGTTTAGCATAAACGATTTTTC
1 CCCGTCCCCGTCCCCGTTTAACATAAACGATTTTTC
2076552 CC
1 CC
2076554 ATTCCGTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.18, C:0.41, G:0.12, T:0.30
Consensus pattern (36 bp):
CCCGTCCCCGTCCCCGTTTAACATAAACGATTTTTC
Found at i:2088293 original size:6 final size:6
Alignment explanation
Indices: 2088282--2088333 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
2088272 TGGATATTGC
**
2088282 ATTCGT ATTCGT ATTCGT ATTTAT ATTCGT ATTCGT ATTCGT ATTCGT
1 ATTCGT ATTCGT ATTCGT ATTCGT ATTCGT ATTCGT ATTCGT ATTCGT
2088330 ATTC
1 ATTC
2088334 ATGAGGGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.19, C:0.15, G:0.13, T:0.52
Consensus pattern (6 bp):
ATTCGT
Found at i:2088662 original size:20 final size:20
Alignment explanation
Indices: 2088618--2088918 Score: 205
Period size: 20 Copynumber: 14.9 Consensus size: 20
2088608 AATGACCAAC
2088618 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
*
2088637 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* **
2088657 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
2088677 AAAATCGCAACG-G--TCAAAAG
1 AAAATCGCAACGCGATTC---AG
2088697 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* * *
2088719 AGAATCGCAATGCGATCCA-
1 AAAATCGCAACGCGATTCAG
*
2088738 AAGAATCGCAATGCGATTCCA-
1 AA-AATCGCAACGCGATT-CAG
* * **
2088759 AGAATCGCAATGCGAGCCA-
1 AAAATCGCAACGCGATTCAG
*
2088778 AAGAATCGCAATGCGATCTTC-G
1 AA-AATCGCAACGCGA--TTCAG
2088800 AAGAATCGCAACGCGATTCA-
1 AA-AATCGCAACGCGATTCAG
*
2088820 AAGAATCGCAACGCGATTGAG
1 AA-AATCGCAACGCGATTCAG
*
2088841 AAAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
2088861 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
2088881 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
*
2088901 AAAATCGCAATGCGATTC
1 AAAATCGCAACGCGATTC
2088919 CAAGAATCGC
Statistics
Matches: 235, Mismatches: 25, Indels: 43
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.01
19 23 0.10
20 169 0.72
21 9 0.04
22 29 0.12
23 1 0.00
25 1 0.00
26 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:2088765 original size:82 final size:81
Alignment explanation
Indices: 2088618--2088947 Score: 301
Period size: 82 Copynumber: 4.1 Consensus size: 81
2088608 AATGACCAAC
* * **
2088618 AAAATCGCAACGCGAT-AT-CAA-AATCGCAACGCGATTTAGAA-AATCGCAA--CG-TTGAAAA
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCA-AAGAATCGCAATGCGATT-CCAA
2088676 GAAAATCGCAACGGTCAAAAG
64 G--AATCGCAACGG-CAAAAG
* *
2088697 AAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATCCAAAGAATCGCAATGCGATTCCAAGA
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAAAGAATCGCAATGCGATTCCAAGA
*
2088762 ATCGCAATGCGAGCCAAAG
66 ATCGCAA--CG-GCAAAAG
* * * * *
2088781 --AATCGCAATGCGATCTTCGAAGAATCGCAACGCGATTCAAAGAATCGCAACGCGATT-GAGAA
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAAAGAATCGCAATGCGATTCCA-AG
**
2088843 AATCGCAAC-GCGATTGAG
65 AATCGCAACGGC-A-AAAG
*
2088861 AAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTGAGAA-AATCGCAATGCGATTCCAAG
1 AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCA-AAGAATCGCAATGCGATTCCAAG
2088923 AATCGCAAAACGGCAAAAG
65 AATCGC--AACGGCAAAAG
2088942 AAAATC
1 AAAATC
2088948 TCAAAAGCAG
Statistics
Matches: 206, Mismatches: 25, Indels: 38
0.77 0.09 0.14
Matches are distributed among these distances:
78 2 0.01
79 16 0.08
80 47 0.23
81 17 0.08
82 107 0.52
83 2 0.01
84 12 0.06
85 3 0.01
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (81 bp):
AAAATCGCAACGCGATCTTCCAAGAATCGCAACGCGATTCAAAGAATCGCAATGCGATTCCAAGA
ATCGCAACGGCAAAAG
Found at i:2088769 original size:40 final size:40
Alignment explanation
Indices: 2088620--2088930 Score: 264
Period size: 40 Copynumber: 7.7 Consensus size: 40
2088610 TGACCAACAA
*
2088620 AATCGCAACGCGATAT-CAA-AATCGCAACGCGATTTAGAA-
1 AATCGCAACGCGAT-TCCAAGAATCGCAACGCGATTCA-AAG
* ****
2088659 AATCGCAACGTTGAAAAGAA-AATCGCAACG-G--TCAAAAG
1 AATCGCAACG-CGATTCCAAGAATCGCAACGCGATTC-AAAG
* *
2088697 AAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATCCAAAG
1 --AATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTCAAAG
* * **
2088741 AATCGCAATGCGATTCCAAGAATCGCAATGCGAGCCAAAG
1 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAAAG
* *
2088781 AATCGCAATGCGATCTTCGAAGAATCGCAACGCGATTCAAAG
1 AATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTCAAAG
* * *
2088823 AATCGCAACGCGATT-GAGAAAATCGCAACGCGATTGAGAA-
1 AATCGCAACGCGATTCCA-AGAATCGCAACGCGATTCA-AAG
*
2088863 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAA-
1 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTCA-AAG
*
2088903 AATCGCAATGCGATTCCAAGAATCGCAA
1 AATCGCAACGCGATTCCAAGAATCGCAA
2088931 AACGGCAAAA
Statistics
Matches: 231, Mismatches: 24, Indels: 33
0.80 0.08 0.11
Matches are distributed among these distances:
37 3 0.01
38 1 0.00
39 15 0.06
40 145 0.63
41 5 0.02
42 56 0.24
43 1 0.00
44 4 0.02
45 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (40 bp):
AATCGCAACGCGATTCCAAGAATCGCAACGCGATTCAAAG
Found at i:2088793 original size:60 final size:60
Alignment explanation
Indices: 2088620--2088930 Score: 273
Period size: 60 Copynumber: 5.1 Consensus size: 60
2088610 TGACCAACAA
* * **
2088620 AATCGCAACGCGATAT-CAA-AATCGCAACGCGATTTAGAAAATCGCAA--CGTTGAAAAG
1 AATCGCAACGCGAT-TCCAAGAATCGCAACGCGATTGAGAAAATCGCAATGCGATCCAAAG
* ***
2088677 AAAATCGCAACG-G--TCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATCCAA
1 --AATCGCAACGCGATTC-CAAG--AATCGCAACGCGAT-TGAGAA-AATCGCAATGCGATCCAA
2088739 AG
59 AG
* * *** *
2088741 AATCGCAATGCGATTCCAAGAATCGCAATGCGAGCCA-AAGAATCGCAATGCGATCTTCGAAG
1 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAA-AATCGCAATGCGATC--CAAAG
* * **
2088803 AATCGCAACGCGATTCAAAGAATCGCAACGCGATTGAGAAAATCGCAACGCGATTGAGAA-
1 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAAAATCGCAATGCGATCCA-AAG
2088863 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAAAATCGCAATGCGATTCC-AAG
1 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAAAATCGCAATGCGA-TCCAAAG
2088923 AATCGCAA
1 AATCGCAA
2088931 AACGGCAAAA
Statistics
Matches: 206, Mismatches: 28, Indels: 35
0.77 0.10 0.13
Matches are distributed among these distances:
55 1 0.00
57 2 0.01
58 1 0.00
59 12 0.06
60 91 0.44
61 7 0.03
62 77 0.37
63 3 0.01
64 10 0.05
65 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (60 bp):
AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAAAATCGCAATGCGATCCAAAG
Found at i:2088926 original size:20 final size:20
Alignment explanation
Indices: 2088699--2088930 Score: 222
Period size: 20 Copynumber: 11.4 Consensus size: 20
2088689 GTCAAAAGAA
2088699 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGA--TTCCAAG
*
2088721 AATCGCAATGCGA-TCCAAAG
1 AATCGCAACGCGATTCC-AAG
*
2088741 AATCGCAATGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* *
2088761 AATCGCAATGCGA-GCCAAAG
1 AATCGCAACGCGATTCC-AAG
* *
2088781 AATCGCAATGCGATCTTCGAAG
1 AATCGCAACGCGA--TTCCAAG
*
2088803 AATCGCAACGCGATTCAAAG
1 AATCGCAACGCGATTCCAAG
* *
2088823 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
* *
2088843 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
2088863 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* *
2088883 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
*
2088903 AATCGCAATGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
2088923 AATCGCAA
1 AATCGCAA
2088931 AACGGCAAAA
Statistics
Matches: 185, Mismatches: 15, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.04
20 145 0.78
21 5 0.03
22 27 0.15
23 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.16
Consensus pattern (20 bp):
AATCGCAACGCGATTCCAAG
Done.