Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 136 of 259
Found at i:44282268 original size:40 final size:40
Alignment explanation
Indices: 44282152--44282287 Score: 102
Period size: 40 Copynumber: 3.5 Consensus size: 40
44282142 ATACTAATTT
* ** *
44282152 CGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTA-AATC
1 CGGGTTAAGTCCCGAAGGCATTTGAACGAAG-GACTATAA-C
** **
44282191 CGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAAC
1 CGGGTTAAGTCCCGAAGGCATTTGAACGAAGGACTATAAC
* *
44282231 CGGGTTATGTCCCGAAGGCATTTGAACG-AGGAGCTATATC
1 CGGGTTAAGTCCCGAAGGCATTTGAACGAAGGA-CTATAAC
* *
44282271 C-GGTTAAATTCCGAAGG
1 CGGGTTAAGTCCCGAAGG
44282288 TACGTGATTT
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
39 23 0.28
40 56 0.68
41 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGTTAAGTCCCGAAGGCATTTGAACGAAGGACTATAAC
Found at i:44282276 original size:79 final size:79
Alignment explanation
Indices: 44282123--44282287 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
44282113 GGACTAAGAT
** ** *
44282123 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
44282188 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
44282202 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGTTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
44282264 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
44282281 CCGAAGG
1 CCGAAGG
44282288 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.04
79 44 0.61
80 25 0.35
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:44286950 original size:23 final size:24
Alignment explanation
Indices: 44286924--44286974 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44286914 TTTCTAGAAG
* *
44286924 ATTTAGTATTTA-TAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
44286947 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
44286971 ATTT
1 ATTT
44286975 GACAATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:44286985 original size:24 final size:24
Alignment explanation
Indices: 44286940--44286986 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
44286930 TATTTATAGT
* *
44286940 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCAATGATTAGC
44286964 ATAATATATTT-GACAATGATTAG
1 ATAATATATTTAG-CAATGATTAG
44286987 AATTAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (24 bp):
ATAATATATTTAGCAATGATTAGC
Found at i:44291312 original size:44 final size:45
Alignment explanation
Indices: 44291203--44291568 Score: 226
Period size: 47 Copynumber: 7.8 Consensus size: 45
44291193 GGGATATATT
* * *
44291203 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATATACGCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATC-TCT--GTA
* * * *
44291252 TGCTGATGCATTTCCCAGACATGTCTTACACTAGCACAACTCT-TA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTGTA
* * * *
44291297 GCCGATGCGTGTCCCAGACACGTCTTACATTGGC-TATCTCTGTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTGT--A
*
44291343 GGCCGATGCATGTCCCAAACATGTCTTACACTGGCACTCATCTCTGT-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCA--CATCTCTGTA
* * * *
44291390 GCAGATGCCATGTCCCAGACATGGTCTTACATTGGC-TAT-TATAGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCTCT-GTA
* ** * *
44291436 TGGCTGATGCATGTCCCAGACATGTCTTACACAAGC-CCTCGTCTGGA
1 --GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATC-TCTGTA
* * *
44291483 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATC-T-CTGTA
* ** *
44291532 GCTGAAACATGTCCCAGACATATCTTACACTGGCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACA
44291569 CAAATCACCC
Statistics
Matches: 249, Mismatches: 46, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
43 5 0.02
44 31 0.12
45 5 0.02
46 37 0.15
47 87 0.35
48 53 0.21
49 17 0.07
50 14 0.06
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCTGTA
Found at i:44291448 original size:94 final size:95
Alignment explanation
Indices: 44291202--44291567 Score: 385
Period size: 94 Copynumber: 3.9 Consensus size: 95
44291192 TGGGATATAT
* * *
44291202 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCAT-GCTGATGCATTTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-TATA-GTATGGCTGATGCATGTC
*
44291266 CCAGACATGTCTTACACTAGCA--CAACTCT-
64 CCAGACATGTCTTACACTAGCACTCATCTCTG
* * * * *
44291295 TAGCCGATG-CGTGTCCCAGACA-CGTCTTACATTGGCTATCTCT-GTCGA-GGCCGATGCATGT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGT--ATGGCTGATGCATGT
* *
44291356 CCCAAACATGTCTTACACTGGCACTCATCTCTG
63 CCCAGACATGTCTTACACTAGCACTCATCTCTG
* *
44291389 TGCAGATGCCATGTCCCAGACATGGTCTTACATTGGCTAT-TATAGTATGGCTGATGCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGTATGGCTGATGCATGTCCC
* * * *
44291453 AGACATGTCTTACACAAGCCCTCGTCT-GG
66 AGACATGTCTTACACTAGCACTCATCTCTG
* * * **
44291482 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAATGTGGCTGAAACATGTCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGTATGGCTGATGCATGTCC
* *
44291546 CAGACATATCTTACACTGGCAC
65 CAGACATGTCTTACACTAGCAC
44291568 ACAAATCACC
Statistics
Matches: 227, Mismatches: 33, Indels: 25
0.80 0.12 0.09
Matches are distributed among these distances:
89 1 0.00
91 34 0.15
92 15 0.07
93 27 0.12
94 132 0.58
95 18 0.08
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (95 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGTATGGCTGATGCATGTCCC
AGACATGTCTTACACTAGCACTCATCTCTG
Found at i:44292082 original size:19 final size:20
Alignment explanation
Indices: 44292048--44292085 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44292038 TCAAATTATC
44292048 ACTATTTCACATACTTATTA
1 ACTATTTCACATACTTATTA
*
44292068 ACTATTTTACA-ACTTATT
1 ACTATTTCACATACTTATT
44292086 CAAAATAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.47
Consensus pattern (20 bp):
ACTATTTCACATACTTATTA
Found at i:44292862 original size:13 final size:13
Alignment explanation
Indices: 44292844--44292871 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44292834 TGAGATAAGA
44292844 AAAGTCAAAGCCC
1 AAAGTCAAAGCCC
44292857 AAAGTCAAAGCCC
1 AAAGTCAAAGCCC
44292870 AA
1 AA
44292872 CTTAGTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.29, G:0.14, T:0.07
Consensus pattern (13 bp):
AAAGTCAAAGCCC
Found at i:44293977 original size:24 final size:24
Alignment explanation
Indices: 44293956--44294012 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
44293946 AAGATTTAGT
*
44293956 ATTTATTAGTATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
*
44293980 ATTTATTAGCATAATATATTTGAC
1 ATTTATTAGCATAATATATTTAAC
*
44294004 ATTAATTAG
1 ATTTATTAG
44294013 AATTAGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Found at i:44297080 original size:24 final size:25
Alignment explanation
Indices: 44297031--44297085 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
44297021 ATATTTTAAA
* *
44297031 TAAAAATTAGAAATTATAAATTTTT
1 TAAAAATAAGAAATTATAAATATTT
44297056 TAAAAATAAGAAATTAT-AATATTT
1 TAAAAATAAGAAATTATAAATATTT
44297080 TAAAAA
1 TAAAAA
44297086 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
TAAAAATAAGAAATTATAAATATTT
Found at i:44297097 original size:23 final size:25
Alignment explanation
Indices: 44297032--44297098 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
44297022 TATTTTAAAT
* * *
44297032 AAAAATTAGAAATTATAA-ATTTTTT
1 AAAAATAAGAAATAATAATA-TTTTA
*
44297057 AAAAATAAGAAATTATAATATTTTA
1 AAAAATAAGAAATAATAATATTTTA
44297082 AAAAATAA-AAA-AATAAT
1 AAAAATAAGAAATAATAAT
44297099 GAAAAAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 5 0.13
24 3 0.08
25 29 0.76
26 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (25 bp):
AAAAATAAGAAATAATAATATTTTA
Found at i:44297828 original size:24 final size:23
Alignment explanation
Indices: 44297800--44297876 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
44297790 AAGTAAAAAT
44297800 TAATTAATTTAAATGATATTTAAA
1 TAATTAATTT-AATGATATTTAAA
* *
44297824 TAATTGAATATAATGATATATGAAA
1 TAATT-AATTTAATGATAT-TTAAA
* *
44297849 T-ATAAATTTTAAT-ACTTTTTAAA
1 TAATTAA-TTTAATGA-TATTTAAA
44297872 TAATT
1 TAATT
44297877 TCTTGAAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
23 8 0.20
24 24 0.59
25 9 0.22
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (23 bp):
TAATTAATTTAATGATATTTAAA
Found at i:44300022 original size:17 final size:17
Alignment explanation
Indices: 44300002--44300034 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44299992 CCCAATAAAA
*
44300002 ACAATAAACCAAAATAC
1 ACAAAAAACCAAAATAC
44300019 ACAAAAAACCAAAATA
1 ACAAAAAACCAAAATA
44300035 ATTAAATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.21, G:0.00, T:0.09
Consensus pattern (17 bp):
ACAAAAAACCAAAATAC
Found at i:44301070 original size:29 final size:29
Alignment explanation
Indices: 44301016--44301071 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
44301006 TATAATTTCA
*
44301016 TTTTATTTTTATTTAATTTGGCCCTAACC
1 TTTTATTTTTATTTAATTTAGCCCTAACC
* * *
44301045 TTTTATTTTTGTTTCATTTAGTCCTAA
1 TTTTATTTTTATTTAATTTAGCCCTAA
44301072 TGGCCATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.59
Consensus pattern (29 bp):
TTTTATTTTTATTTAATTTAGCCCTAACC
Found at i:44301247 original size:28 final size:29
Alignment explanation
Indices: 44301206--44301276 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
44301196 TAGAGTTTTA
* *
44301206 TTTTTATTTA-ATTTTA-TCCTTTTAAAT
1 TTTTTATATATATTTTATTCATTTTAAAT
*
44301233 TTTTTATATATA-TTTATTTATTTTAAAT
1 TTTTTATATATATTTTATTCATTTTAAAT
*
44301261 ATTTTATATATTATTT
1 TTTTTATATA-TATTT
44301277 ATTTTTACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 13 0.36
28 19 0.53
29 2 0.06
30 2 0.06
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTTATATATATTTTATTCATTTTAAAT
Found at i:44301257 original size:9 final size:9
Alignment explanation
Indices: 44301234--44301272 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
44301224 CTTTTAAATT
44301234 TTTTATATA
1 TTTTATATA
*
44301243 TATTTATTTA
1 T-TTTATATA
*
44301253 TTTTAAATA
1 TTTTATATA
44301262 TTTTATATA
1 TTTTATATA
44301271 TT
1 TT
44301273 ATTTATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTATATA
Found at i:44301363 original size:10 final size:10
Alignment explanation
Indices: 44301341--44301476 Score: 93
Period size: 10 Copynumber: 12.8 Consensus size: 10
44301331 TTTATGATTA
44301341 TTTATTATA-
1 TTTATTATAT
44301350 -TTATTATAT
1 TTTATTATAT
44301359 TTTATTATAT
1 TTTATTATAT
44301369 TTTATTTATATAT
1 TTTA--T-TATAT
44301382 TTTATTATAT
1 TTTATTATAT
*
44301392 ATTA-TATCAT
1 TTTATTAT-AT
44301402 TTTATTATAT
1 TTTATTATAT
44301412 ATATTATTCATTAT
1 -T-TTATT-A-TAT
* *
44301426 ATTATTTTTAT
1 TTTA-TTATAT
44301437 TTTATTATAT
1 TTTATTATAT
44301447 ATTATATTAT-T
1 -TT-TATTATAT
44301458 ATTTATTAT-T
1 -TTTATTATAT
44301468 TATTATTAT
1 T-TTATTAT
44301477 GTATAATTTT
Statistics
Matches: 106, Mismatches: 6, Indels: 29
0.75 0.04 0.21
Matches are distributed among these distances:
8 8 0.08
9 4 0.04
10 47 0.44
11 17 0.16
12 15 0.14
13 12 0.11
14 3 0.03
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTATTATAT
Found at i:44301374 original size:78 final size:76
Alignment explanation
Indices: 44301236--44301460 Score: 208
Period size: 78 Copynumber: 2.9 Consensus size: 76
44301226 TTTAAATTTT
* * *
44301236 TTATATATATTTATTTATTT-TAAATATTT-TATATATTATTTATTTTTACTATAACATTATTTA
1 TTATATATATTT-TTTATTTAT-ATTATTTAT-TATATTATTTA-TTTTATTAT-ATATTATTTA
44301299 TATA-TGTAAAAAATA
61 TATATTGTAAAAAATA
*
44301314 TTATATATATATTTTTATTTATGATTATTTATTATATTATTATATTTTATTATATTTTATTTATA
1 TTATATATAT-TTTTTATTTAT-ATTATTTATTATATTATT-TATTTTATTATATATTATTTATA
* ** *
44301379 TATTTTATTATATA
63 TATTGTAAAAAATA
* * *
44301393 TTATATCAT-TTTATTATATATATTATTCATTATATTATTTTTATTTTATTATATATTATATTAT
1 TTATAT-ATATTTTTTATTTATATTATTTATTATATTA--TTTATTTTATTATATATTAT-TTAT
44301457 -TATT
62 ATATT
44301461 TATTATTTAT
Statistics
Matches: 125, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
77 15 0.12
78 59 0.47
79 46 0.37
80 5 0.04
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (76 bp):
TTATATATATTTTTTATTTATATTATTTATTATATTATTTATTTTATTATATATTATTTATATAT
TGTAAAAAATA
Found at i:44301395 original size:48 final size:49
Alignment explanation
Indices: 44301312--44301487 Score: 159
Period size: 48 Copynumber: 3.5 Consensus size: 49
44301302 ATGTAAAAAA
*
44301312 TATTATA-TATATATTT-T-TATTTATGATTATTTATTATATTATTATATTT
1 TATTATATTAT-TATTTATATATTT-T-ATTATATATTATATTATTATATTT
* * *
44301361 TATTATATT-TTATTTATATATTTTATTATATATTATATCATTTTATTA
1 TATTATATTATTATTTATATATTTTATTATATATTATATTATTATATTT
*
44301409 TATATATTATTCATTATATTATTTTTATTTTATTATATATTATATTATTAT-TTAT
1 TAT-TA-TATT-ATTAT-TTA--TATATTTTATTATATATTATATTATTATATT-T
*
44301464 TATT-TATTATTATGTATA-ATTTTA
1 TATTATATTATTATTTATATATTTTA
44301488 AAAATTTGTA
Statistics
Matches: 106, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
47 6 0.06
48 29 0.27
49 12 0.11
50 12 0.11
51 5 0.05
52 8 0.08
53 3 0.03
54 3 0.03
55 28 0.26
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (49 bp):
TATTATATTATTATTTATATATTTTATTATATATTATATTATTATATTT
Found at i:44301396 original size:55 final size:55
Alignment explanation
Indices: 44301311--44301476 Score: 202
Period size: 55 Copynumber: 3.0 Consensus size: 55
44301301 TATGTAAAAA
*
44301311 ATATTATATATATATTTTTATT-TATGATTAT-TTATTATATTATTATATT-TTATT
1 ATATTATTTATATA-TTTTATTATAT-ATTATATTATTATATTATTATATTATTATT
* *
44301365 ATATTTTATTTATATATTTTATTATATATTATATCATTTTATTATATATATTATTCATT
1 ATA--TTATTTATATATTTTATTATATATTATATTATTATATTAT-TATATTATT-ATT
44301424 ATATTATTT-T-TATTTTATTATATATTATATTATTAT-TTATTAT-TTATTATT
1 ATATTATTTATATATTTTATTATATATTATATTATTATATTATTATATTATTATT
44301475 AT
1 AT
44301477 GTATAATTTT
Statistics
Matches: 100, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
51 5 0.05
52 5 0.05
53 3 0.03
54 7 0.07
55 36 0.36
56 24 0.24
57 12 0.12
58 2 0.02
59 6 0.06
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (55 bp):
ATATTATTTATATATTTTATTATATATTATATTATTATATTATTATATTATTATT
Found at i:44315716 original size:39 final size:40
Alignment explanation
Indices: 44315671--44315842 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
44315661 GCTCCTCGTT
* * *
44315671 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
44315711 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
44315750 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
44315790 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
44315830 CAAATGCCTTCGG
1 CAAATGCCTTCGG
44315843 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:44315771 original size:40 final size:39
Alignment explanation
Indices: 44315673--44315895 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
44315663 TCCTCGTTCA
* * * *
44315673 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
44315712 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
44315751 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
44315791 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
44315831 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
44315872 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44315896 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:44315855 original size:80 final size:79
Alignment explanation
Indices: 44315671--44315895 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
44315661 GCTCCTCGTT
* * * * *
44315671 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
44315735 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
44315750 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
44315815 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
44315830 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
44315894 GA
63 GA
44315896 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:44315904 original size:41 final size:41
Alignment explanation
Indices: 44315827--44315904 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44315817 TTTGTATCTC
* * *
44315827 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44315868 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44315905 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44317705 original size:46 final size:46
Alignment explanation
Indices: 44317642--44317787 Score: 186
Period size: 46 Copynumber: 3.1 Consensus size: 46
44317632 GCCACAATAT
* * * *
44317642 ATATATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACC
1 ATATAT-C-CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
44317690 ATATATCCATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACC
1 ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
* *
44317736 -TCATATCTATCTCATACACATTTCGCATTAGCCATTCGGCCTTACC
1 AT-ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
44317782 ACATAT
1 ATATAT
44317788 ATACATGTTC
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
45 1 0.01
46 79 0.91
47 1 0.01
48 6 0.07
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.35
Consensus pattern (46 bp):
ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
Found at i:44317869 original size:94 final size:94
Alignment explanation
Indices: 44317761--44318114 Score: 474
Period size: 94 Copynumber: 3.7 Consensus size: 94
44317751 ACACATTTCG
* * *
44317761 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
44317826 ATCTCATATATGCATGTTCACATTCATCA
66 ATCACACATACGCATGTTCACATTCATCA
* * *
44317855 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
44317920 ATCACACAGACGCATGTTCACATTCATCA
66 ATCACACATACGCATGTTCACATTCATCA
* * *
44317949 CATTGGCCATTCGGCCTTATCACACATACGCACGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
44318014 ATCACACATACGCGTGTTCACATTCATCA
66 ATCACACATACGCATGTTCACATTCATCA
* * * * * ** *
44318043 CATTGGCCATTCAGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTTTCCATTTGG
1 CATTGGCCATTCGGCC-T-T-AC-CACACATACACATGTTCACATTCATCACATTGGCCATTCGG
44318108 CCTTATC
62 CCTTATC
44318115 TCATATATAC
Statistics
Matches: 232, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
94 189 0.81
95 1 0.00
96 1 0.00
97 1 0.00
98 40 0.17
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.32
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTACCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCA
Found at i:44317918 original size:141 final size:141
Alignment explanation
Indices: 44317761--44318143 Score: 559
Period size: 141 Copynumber: 2.7 Consensus size: 141
44317751 ACACATTTCG
*
44317761 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
44317826 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCGTGTT
66 ATCTCATATATGCACGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCGTGTT
44317891 CACATTCATCA
131 CACATTCATCA
* * * **
44317902 CATTGGCCATTCGGCCTTATCACACAGACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
44317967 ATCACACATACGCACGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCGTGTT
66 ATCTCATATATGCACGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCGTGTT
44318032 CACATTCATCA
131 CACATTCATCA
* * * ** *
44318043 CATTGGCCATTCAGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTTTCCATTTGG
1 CATTGGCCATTCGGCC-T-T-AC-CACATATATACATGTTCACATTCATCACATTGGCCATTCGG
* * *
44318108 CCTTATCTCATATATACACATTCATATTCATCACAT
62 CCTTATCTCATATATGCACGTTCACATTCATCACAT
44318144 AAAATCCTAA
Statistics
Matches: 211, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
141 146 0.69
142 1 0.00
143 1 0.00
144 1 0.00
145 62 0.29
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (141 bp):
CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCTCATATATGCACGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCGTGTT
CACATTCATCA
Found at i:44317925 original size:22 final size:22
Alignment explanation
Indices: 44317898--44318019 Score: 68
Period size: 22 Copynumber: 5.3 Consensus size: 22
44317888 GTTCACATTC
44317898 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
44317920 ATCACACAGACGCATGTTC-ACATT
1 ATCACATTGGC-CA--TTCGGCCTT
44317944 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
** * * *
44317967 ATCACACATACGCACGTTC-ACATT
1 AT--CACATTGGC-CATTCGGCCTT
44317991 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
44318014 ATCACA
1 ATCACA
44318020 CATACGCGTG
Statistics
Matches: 70, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 23 0.33
23 15 0.21
24 15 0.21
25 17 0.24
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:44318143 original size:47 final size:47
Alignment explanation
Indices: 44317761--44318070 Score: 494
Period size: 47 Copynumber: 6.6 Consensus size: 47
44317751 ACACATTTCG
* * * **
44317761 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
44317808 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
44317855 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
44317902 CATTGGCCATTCGGCCTTATCACACAGACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
44317949 CATTGGCCATTCGGCCTTATCACACATACGCACGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
44317996 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
44318043 CATTGGCCATTCAGCCTTATCACGCATA
1 CATTGGCCATTCGGCCTTATCACACATA
44318071 TATATACAGG
Statistics
Matches: 247, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 247 1.00
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:44321473 original size:40 final size:40
Alignment explanation
Indices: 44321402--44321838 Score: 698
Period size: 40 Copynumber: 10.9 Consensus size: 40
44321392 TCATGATTCC
* *
44321402 AGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCG-GGACTTAGCCCGGATACATCACT
* *
44321441 AGCACGAATGCTTTTCGGGACATAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
44321481 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
*
44321521 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
44321561 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* *
44321601 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCGCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* * * *
44321641 AGCGCGAATGCTCTTCGGAACTTAGACCGGATACATCGCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* *
44321681 AGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCGCT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
44321721 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* *
44321761 AACACGAATGCTCTTCGGAACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
* *
44321801 AGCACGAATGCTCTTCGGGACTTAGCCCAGATATATCA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCA
44321839 TACTAAACTT
Statistics
Matches: 372, Mismatches: 24, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.03
40 359 0.97
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
Found at i:44323106 original size:37 final size:37
Alignment explanation
Indices: 44322985--44323095 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
44322975 AGCTCAGATG
* * * *
44322985 AAATCTCCACACGAAGTTATCCGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
*
44323022 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
44323059 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
44323096 TAGTCACCAC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
Found at i:44323115 original size:37 final size:37
Alignment explanation
Indices: 44322985--44323123 Score: 136
Period size: 37 Copynumber: 3.8 Consensus size: 37
44322975 AGCTCAGATG
* * * *
44322985 AAATCTCCACACGA-AGTTATCCGGTCTTACCCGAACA
1 AAATCACCACAC-ATAGTCATCAGGTCTTACCCGGACA
* * *
44323022 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCACCACACATAGTCATCAGGTCTTACCCGGACA
* *
44323059 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCACCACACATAGTCATCAGGTCTTACCCGGACA
* * * * *
44323096 TAGTCACCACATATGGTCATCTGGTCTT
1 AAATCACCACACATAGTCATCAGGTCTT
44323124 TAATCCCAGG
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCACCACACATAGTCATCAGGTCTTACCCGGACA
Found at i:44323115 original size:74 final size:74
Alignment explanation
Indices: 44322985--44323123 Score: 179
Period size: 74 Copynumber: 1.9 Consensus size: 74
44322975 AGCTCAGATG
* * * *
44322985 AAATCTCCACACGAAGTTATCCGGTCTTACCCGAACAAAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
44323050 ACCCGGACA
66 ACCCGGACA
* * * * * * *
44323059 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACATAGTCACCACATATGGTCATCTGGTCTT
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
44323124 TAATCCCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 54 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (74 bp):
AAATCTCCACACGAAGTCATCAGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
ACCCGGACA
Found at i:44323332 original size:46 final size:46
Alignment explanation
Indices: 44323269--44323414 Score: 159
Period size: 46 Copynumber: 3.1 Consensus size: 46
44323259 GCCACAATAT
* * * *
44323269 ATATATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACC
1 ATATAT-C-CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
* * *
44323317 ATATATCCATCTCATACACGTTTCGCATTTGCCATTCGACTTTACC
1 ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
* * *
44323363 -TCATATCTATCTCATACACATTTCGTATTAGCCATTCGGCCTTACC
1 AT-ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
44323409 ACATAT
1 ATATAT
44323415 ATACATGTTC
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.01
46 74 0.90
47 1 0.01
48 6 0.07
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.36
Consensus pattern (46 bp):
ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
Found at i:44323449 original size:47 final size:47
Alignment explanation
Indices: 44323393--44323723 Score: 419
Period size: 47 Copynumber: 7.0 Consensus size: 47
44323383 TTTCGTATTA
* *
44323393 GCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
44323440 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * *
44323487 GCCATTCAGCCTTATCACACAGACGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * *
44323534 GCCATTCGGCCTTATCACACATACGCACGTTCACATTCATCAGATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * * *
44323581 GCCATTCGGCCTTATCACACATACGCGTGTTCACATTGATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
44323628 GCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCACATTT
1 GCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCACATTG
* * * **
44323679 GCCATTTGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
44323724 AAAATCCTAA
Statistics
Matches: 253, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
47 214 0.85
49 2 0.01
51 37 0.15
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:44326086 original size:45 final size:45
Alignment explanation
Indices: 44325966--44326433 Score: 233
Period size: 45 Copynumber: 10.5 Consensus size: 45
44325956 ATTTGGCGTT
* * *
44325966 TCTGTATTAGACGAGGAGTAGATCGAAGATAGCAGATCTGACAT-
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * *
44326010 TCATGTA-T---C--GAAGCAGATCGAAGAT-GACAGATTTGGCGTC
1 TC-TGTATTAGACGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
* *
44326050 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGAAAT-
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * * * * * *
44326094 TCGTGTGTTTACATC--GAAGTAGATCGAAGAT-GATAGATTTGGCGTC
1 TC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
* * * *
44326140 TCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * * * ** * *
44326185 TGTGTGTTTGTATC--GAAGCAGATAAAAAAT-GACAGATTTGCCATC
1 TCTGTATTAG-A-CGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
* *
44326230 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATT
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * * ** * * * *
44326275 TGTGTGTTTACATC--AAAGCAGACCGAAAAT-GACAGATTCGGCATC
1 TCTGT-ATTAGA-CGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
*
44326320 TCTGTATTAGACGGGGAGCAGGTCGAAGATAGCAGATTTGACAT-
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * * * *
44326364 TCGTGTGTTTACATC--GAAGCAGATCGAAGATAGCAAATTT-AGCGTC
1 TC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAGCAGATTTGA-CATC
*
44326410 TCTGTATTTGACGGGGAGCAGATC
1 TCTGTATTAGACGGGGAGCAGATC
44326434 AAGGATATTA
Statistics
Matches: 308, Mismatches: 79, Indels: 73
0.67 0.17 0.16
Matches are distributed among these distances:
38 1 0.00
39 27 0.09
40 3 0.01
41 1 0.00
43 5 0.02
44 23 0.07
45 223 0.72
46 21 0.07
47 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (45 bp):
TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
Found at i:44326142 original size:90 final size:90
Alignment explanation
Indices: 44325954--44326433 Score: 650
Period size: 90 Copynumber: 5.4 Consensus size: 90
44325944 TGTCACAAGT
* * * *
44325954 AGATTTGGCGTTTCTGTATTAGACGAGGAGTAGATCGAAGATAGCAGATCTGACATTC--ATG--
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
44326015 T--ATCGAAGCAGATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
*
44326038 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGAAATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
* *
44326103 TACATCGAAGTAGATCGAAGATGAT
66 TACATCGAAGCAGATCGAAGATGAC
* * *
44326128 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTTGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
** ** *
44326193 TGTATCGAAGCAGATAAAAAATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* * *
44326218 AGATTTGCCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
* * *
44326283 TACATCAAAGCAGACCGAAAATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* * * *
44326308 AGATTCGGCATCTCTGTATTAGACGGGGAGCAGGTCGAAGATAGCAGATTTGACATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
44326373 TACATCGAAGCAGATCGAAGAT-AGC
66 TACATCGAAGCAGATCGAAGATGA-C
* * *
44326398 AAATTTAGCGTCTCTGTATTTGACGGGGAGCAGATC
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC
44326434 AAGGATATTA
Statistics
Matches: 347, Mismatches: 42, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
84 54 0.16
86 2 0.01
88 1 0.00
89 1 0.00
90 289 0.83
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (90 bp):
AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
TACATCGAAGCAGATCGAAGATGAC
Found at i:44327808 original size:29 final size:29
Alignment explanation
Indices: 44327776--44327832 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
44327766 TTTTAATCCT
*
44327776 TTTTAAATTTTTTATATATGATTTATTTA
1 TTTTAAATATTTTATATATGATTTATTTA
*
44327805 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATGATTTATTT
44327833 TTACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTAAATATTTTATATATGATTTATTTA
Found at i:44327894 original size:24 final size:23
Alignment explanation
Indices: 44327866--44328003 Score: 93
Period size: 23 Copynumber: 6.3 Consensus size: 23
44327856 TGTAAAAAAT
*
44327866 TATTATATATTATTTTTATTTATG
1 TATTATATATTA-TATTATTTATG
* *
44327890 TATTATTTATTATATTATTTATA
1 TATTATATATTATATTATTTATG
* *
44327913 TTTTAT-TATATATATTATTCAT-
1 TATTATATAT-TATATTATTTATG
44327935 TA-TAT-TATT-T-TTATTTCAT-
1 TATTATATATTATATTATTT-ATG
44327954 TATATATTATATTATATTATATTA--
1 TAT-TA-TATATTATATTAT-TTATG
44327978 TATTATA-ATT-TATTATTTAT-
1 TATTATATATTATATTATTTATG
44327998 TATTAT
1 TATTAT
44328004 GTATAATTTT
Statistics
Matches: 97, Mismatches: 7, Indels: 24
0.76 0.05 0.19
Matches are distributed among these distances:
18 5 0.05
19 8 0.08
20 13 0.13
21 11 0.11
22 7 0.07
23 31 0.32
24 15 0.15
25 5 0.05
26 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (23 bp):
TATTATATATTATATTATTTATG
Found at i:44327907 original size:5 final size:5
Alignment explanation
Indices: 44327871--44328003 Score: 95
Period size: 5 Copynumber: 26.6 Consensus size: 5
44327861 AAAATTATTA
* *
44327871 TATAT TAT-T TTTAT T-TAT GTATTAT T-TAT TATAT TAT-T TATAT TTTAT
1 TATAT TATAT TATAT TATAT -TA-TAT TATAT TATAT TATAT TATAT TATAT
*
44327919 TATA- TATAT TATTCAT TATAT TAT-T TTTAT T-TCATT ATATAT TATAT
1 TATAT TATAT TA-T-AT TATAT TATAT TATAT TAT-A-T -TATAT TATAT
44327966 TATAT TATAT TATAT TATAAT T-TAT TAT-T TATTAT TAT
1 TATAT TATAT TATAT TAT-AT TATAT TATAT TA-TAT TAT
44328004 GTATAATTTT
Statistics
Matches: 106, Mismatches: 4, Indels: 36
0.73 0.03 0.25
Matches are distributed among these distances:
4 28 0.26
5 57 0.54
6 11 0.10
7 9 0.08
8 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (5 bp):
TATAT
Found at i:44327929 original size:35 final size:35
Alignment explanation
Indices: 44327865--44328003 Score: 153
Period size: 35 Copynumber: 4.0 Consensus size: 35
44327855 ATGTAAAAAA
*
44327865 TTATTATA-TA-TTAT-TTTTATT-TATGTATTAT
1 TTATTATATTATTTATATTTTATTATATATATTAT
44327896 TTATTATATTATTTATATTTTATTATATATATTAT
1 TTATTATATTATTTATATTTTATTATATATATTAT
* * *
44327931 TCATTATATTATTTTTATTTCATTATATAT-TATAT
1 TTATTATATTATTTATATTTTATTATATATAT-TAT
* *
44327966 TATATTATATTATATTATAATTTATTATTTATTATTAT
1 T-TATTATATTAT-TTATATTTTATTATATA-TATTAT
44328004 GTATAATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
31 8 0.09
32 2 0.02
33 4 0.04
34 8 0.09
35 40 0.44
36 10 0.11
37 13 0.14
38 4 0.04
39 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (35 bp):
TTATTATATTATTTATATTTTATTATATATATTAT
Found at i:44328001 original size:7 final size:7
Alignment explanation
Indices: 44327865--44328001 Score: 99
Period size: 7 Copynumber: 19.1 Consensus size: 7
44327855 ATGTAAAAAA
44327865 TTATTAT
1 TTATTAT
*
44327872 ATATTAT
1 TTATTAT
44327879 TT-TTAT
1 TTATTAT
44327885 TTATGTA-
1 TTAT-TAT
44327892 TTATTTAT
1 TTA-TTAT
44327900 TATATTAT
1 T-TATTAT
44327908 TTA-TATT
1 TTATTA-T
44327915 TTATTAT
1 TTATTAT
*
44327922 ATA-TA-
1 TTATTAT
44327927 TTATTCAT
1 TTATT-AT
44327935 TATATTAT
1 T-TATTAT
44327943 TT-TTAT
1 TTATTAT
44327949 TTCATTAT
1 TT-ATTAT
*
44327957 ATATTAT
1 TTATTAT
44327964 ATTA-TAT
1 -TTATTAT
44327971 TATATTAT
1 T-TATTAT
*
44327979 ATTATAAT
1 -TTATTAT
44327987 TTATTAT
1 TTATTAT
44327994 TTATTAT
1 TTATTAT
44328001 T
1 T
44328002 ATGTATAATT
Statistics
Matches: 105, Mismatches: 8, Indels: 34
0.71 0.05 0.23
Matches are distributed among these distances:
5 2 0.02
6 18 0.17
7 48 0.46
8 30 0.29
9 7 0.07
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (7 bp):
TTATTAT
Found at i:44328338 original size:16 final size:17
Alignment explanation
Indices: 44328313--44328355 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
44328303 GTTCATAATT
* *
44328313 TATTGATTTAT-TTTCG
1 TATTGTTTTATATTTAG
*
44328329 TATTTTTTTATATTTAG
1 TATTGTTTTATATTTAG
44328346 TATTGTTTTA
1 TATTGTTTTA
44328356 GTATGTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.67
Consensus pattern (17 bp):
TATTGTTTTATATTTAG
Found at i:44328402 original size:18 final size:19
Alignment explanation
Indices: 44328378--44328426 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
44328368 TATCTCATAA
44328378 ATTATTTGTAT-TTTTTAT
1 ATTATTTGTATGTTTTTAT
* *
44328396 GTTATTTAT-TGTTTTTAT
1 ATTATTTGTATGTTTTTAT
44328414 ATATATTTGTATG
1 AT-TATTTGTATG
44328427 GAAATTGATC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 15 0.62
19 6 0.25
20 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.67
Consensus pattern (19 bp):
ATTATTTGTATGTTTTTAT
Found at i:44344090 original size:40 final size:40
Alignment explanation
Indices: 44344039--44344315 Score: 464
Period size: 40 Copynumber: 6.9 Consensus size: 40
44344029 ATAACCGCAA
* * * *
44344039 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
44344079 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
44344119 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
44344159 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
44344199 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
44344239 ACACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
44344279 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
44344316 ATGCTCATGC
Statistics
Matches: 221, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:44348697 original size:14 final size:15
Alignment explanation
Indices: 44348671--44348702 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
44348661 GTTGGTGTGA
44348671 AAAATAGAATAAAAT
1 AAAATAGAATAAAAT
44348686 AAAATA-AATAAAAT
1 AAAATAGAATAAAAT
44348700 AAA
1 AAA
44348703 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAGAATAAAAT
Found at i:44353112 original size:14 final size:15
Alignment explanation
Indices: 44353086--44353117 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
44353076 CAATTTGTGA
44353086 AAAATAGAATAAAAT
1 AAAATAGAATAAAAT
44353101 AAAATA-AATAAAAT
1 AAAATAGAATAAAAT
44353115 AAA
1 AAA
44353118 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAGAATAAAAT
Found at i:44358310 original size:21 final size:24
Alignment explanation
Indices: 44358268--44358312 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 24
44358258 TTCATAACAT
*
44358268 ATATTAAATTATTTTTCTATTCAA
1 ATATTAAATTATTTATCTATTCAA
44358292 ATATT-AATT-TTTATC-ATTCAA
1 ATATTAAATTATTTATCTATTCAA
44358313 TTGCTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
23 4 0.20
24 5 0.25
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTAAATTATTTATCTATTCAA
Found at i:44361971 original size:18 final size:18
Alignment explanation
Indices: 44361929--44361971 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
44361919 GCCCATTCCG
*
44361929 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
44361947 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
44361965 AAGTATG
1 AAGTATG
44361972 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:44362577 original size:27 final size:28
Alignment explanation
Indices: 44362439--44362564 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
44362429 TAAATTGTAC
*
44362439 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
44362467 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
44362495 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
44362523 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
44362550 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44362565 GACTTAATAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.25
28 71 0.75
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:44370124 original size:18 final size:18
Alignment explanation
Indices: 44370082--44370124 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
44370072 GCCCATTCCG
*
44370082 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
44370100 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
44370118 AAGTATG
1 AAGTATG
44370125 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:44370730 original size:27 final size:28
Alignment explanation
Indices: 44370592--44370717 Score: 200
Period size: 28 Copynumber: 4.5 Consensus size: 28
44370582 TAAATTGTAC
* *
44370592 AGCACTAAGTGTGTGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
44370620 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
44370648 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
44370676 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
44370703 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44370718 GACTTAATAT
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.26
28 70 0.74
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:44373821 original size:43 final size:43
Alignment explanation
Indices: 44373774--44373856 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
44373764 GTAAATCTAG
* * *
44373774 CAACCCATGTTTATCTTTTCCT-TTTTTAAAATTATTTTTTCAA
1 CAACCCAAGATTATCTTCTCCTCTTTTT-AAATTATTTTTTCAA
* *
44373817 CAACCTAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACCCAAGATTATCTTCTCCTCTTTTTAAATTATTTTTT
44373857 TTCTAGGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 29 0.85
44 5 0.15
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.53
Consensus pattern (43 bp):
CAACCCAAGATTATCTTCTCCTCTTTTTAAATTATTTTTTCAA
Found at i:44385981 original size:30 final size:30
Alignment explanation
Indices: 44385900--44385982 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
44385890 TCCTTCACTA
*
44385900 ATATCTCATTCAGGAGCTTGGAAAGACCCG
1 ATATCTCATTCAGGAGCTTGGGAAGACCCG
**
44385930 ATATCTCATTCAGGAGCTTGGGAAGACTTG
1 ATATCTCATTCAGGAGCTTGGGAAGACCCG
*
44385960 ATATCTCATTCAGGATCTTGGGA
1 ATATCTCATTCAGGAGCTTGGGA
44385983 TTGAGAAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (30 bp):
ATATCTCATTCAGGAGCTTGGGAAGACCCG
Found at i:44385998 original size:36 final size:36
Alignment explanation
Indices: 44385951--44386054 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 36
44385941 AGGAGCTTGG
* *
44385951 GAAGACTTGATATCTCATTCAGGATCTTGGGATTGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
*
44385987 GAAGACTTGATATCTCGTTAAAGATCTTGGGATTGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
* * * * * *
44386023 AAAAACCTGATATCTCGTTTAAGAGCTTGGGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGA
44386055 AGATATGATA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (36 bp):
GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
Found at i:44390607 original size:13 final size:13
Alignment explanation
Indices: 44390589--44390615 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44390579 GTATGCTGTC
44390589 TCATCAATGGACT
1 TCATCAATGGACT
44390602 TCATCAATGGACT
1 TCATCAATGGACT
44390615 T
1 T
44390616 AATGTATGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TCATCAATGGACT
Found at i:44394737 original size:23 final size:22
Alignment explanation
Indices: 44394711--44394753 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
44394701 TTTTTTCACA
44394711 TATTATTCATTTTAAAATTGTCT
1 TATTATTCATTTT-AAATTGTCT
* *
44394734 TATTGTTTATTTTAAATTGT
1 TATTATTCATTTTAAATTGT
44394754 TTGATGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTATTCATTTTAAATTGTCT
Found at i:44398440 original size:19 final size:20
Alignment explanation
Indices: 44398396--44398440 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
44398386 ACGCCTCTTT
*
44398396 TGCATT-CATTTCATTCATT
1 TGCATTACATTTCATTCATA
44398415 TGCATTACATTTCA-TCATA
1 TGCATTACATTTCATTCATA
*
44398434 TGTATTA
1 TGCATTA
44398441 AGTTTCGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.49
Consensus pattern (20 bp):
TGCATTACATTTCATTCATA
Found at i:44406695 original size:43 final size:43
Alignment explanation
Indices: 44406596--44406886 Score: 180
Period size: 43 Copynumber: 6.6 Consensus size: 43
44406586 AAGCCACAGA
* * * * * *
44406596 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAG-CAAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
* * * * *
44406637 CCTTATCTCCTTGAAGTAGCAGTGGAGTAGGTTGAAGTTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
** * *
44406680 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTA---AAG
* * * *
44406725 TCTTATTTCACTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAAACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAG---T---T-AA-AG
* * * * *
44406776 ATCTTATCTCTCT-AGAGTTGCAGTGGAGCAGATCATAG-CAAA-
1 -TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGGTTAAAGTTAAAG
* *
44406818 CCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTAAAGTTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
*
44406861 TCTTATCTCCCTGAAGTTGTAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
44406887 ACAGACTAAA
Statistics
Matches: 191, Mismatches: 40, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
41 56 0.29
42 7 0.04
43 57 0.30
44 2 0.01
45 32 0.17
46 2 0.01
49 1 0.01
50 1 0.01
51 2 0.01
52 31 0.16
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
Found at i:44406710 original size:84 final size:83
Alignment explanation
Indices: 44406596--44406891 Score: 306
Period size: 84 Copynumber: 3.4 Consensus size: 83
44406586 AAGCCACAGA
* *
44406596 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCTTGAAGTAGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCC-TGAAGTAGCAGTG
* *
44406661 GAGTAGGTTGAAGTTAAAG
65 GAGCAGGTTAAAGTTAAAG
* * * * *
44406680 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T---CATAGCAAACCTTATCTC-CTGAAGTAGC
* *
44406745 AGTGGAACAGATTAAAGCTATAAATAAACAG
61 AGTGGAGCAGGTTAAAG---T---T-AA-AG
*
44406776 ATCTTATCTCTCT-AGAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAGCAG
1 -TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATCATAGCAAACCTTATCT-CCTGAAGTAGCAG
44406840 TGGAGCAGGTTAAAGTTAAAG
63 TGGAGCAGGTTAAAGTTAAAG
* *
44406861 TCTTATCTCCCTGAAGTTGTAGTGGAACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
44406892 CTAAAGACAA
Statistics
Matches: 173, Mismatches: 22, Indels: 34
0.76 0.10 0.15
Matches are distributed among these distances:
84 55 0.32
85 4 0.02
86 2 0.01
87 1 0.01
88 35 0.20
89 1 0.01
90 1 0.01
91 1 0.01
93 37 0.21
94 2 0.01
95 2 0.01
96 4 0.02
97 28 0.16
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (83 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCCTGAAGTAGCAGTGG
AGCAGGTTAAAGTTAAAG
Found at i:44406853 original size:93 final size:95
Alignment explanation
Indices: 44406680--44406854 Score: 221
Period size: 93 Copynumber: 1.8 Consensus size: 95
44406670 GAAGTTAAAG
* * * * *
44406680 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT--ACATAGCAAACCTTATCTCACTGAAGTAGC
44406745 AGTGGAACAGATTAAAGCTATAAATAAACAGA
64 AGTGGAACAGATTAAAGCTATAAATAAACAGA
* *
44406777 TCTTATCTCTCT-AGAGTTGCAGTGGAGCAGA-T-CATAGCAAACCTTATCTCCCTGAAGTAGCA
1 TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGACTACATAGCAAACCTTATCTCACTGAAGTAGCA
* *
44406839 GTGGAGCAGGTTAAAG
65 GTGGAACAGATTAAAG
44406855 TTAAAGTCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
93 38 0.56
96 2 0.03
97 28 0.41
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (95 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTACATAGCAAACCTTATCTCACTGAAGTAGCAG
TGGAACAGATTAAAGCTATAAATAAACAGA
Found at i:44406931 original size:181 final size:181
Alignment explanation
Indices: 44406591--44406936 Score: 523
Period size: 181 Copynumber: 1.9 Consensus size: 181
44406581 AATTGAAGCC
*
44406591 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCTTGAAGTAG
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAG
* * * * * *
44406656 CAGTGGAGTAGGTTGAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
66 CAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACAA
* * * * **
44406721 CGAATCTTATTTCACTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAA
131 CAAATCTCATCTCACTAAAGTAACAGTGGAACAGATTAAAGCTATAAATAA
*
44406772 ACAGATCTTATCTCTCT-AGAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTA
1 ACAGATCTTATCTCTCTGA-AGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTA
*
44406836 GCAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGACA
65 GCAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACA
* *
44406901 ACAAATCTCATCTCCCTAAAGTAACAGTGGAGCAGA
130 ACAAATCTCATCTCACTAAAGTAACAGTGGAACAGA
44406937 GTGAAAACAC
Statistics
Matches: 147, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
180 1 0.01
181 146 0.99
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (181 bp):
ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAG
CAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACAA
CAAATCTCATCTCACTAAAGTAACAGTGGAACAGATTAAAGCTATAAATAA
Found at i:44406974 original size:44 final size:44
Alignment explanation
Indices: 44406861--44407001 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
44406851 AAAGTTAAAG
*
44406861 TCTTATCTCCCTGAAGTTGTAGTGGAACAGACT-AAAGACAACAAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAA-AC-ACAAA
* * *** * * *
44406906 TCTCATCTCCCTAAAGTAACAGTGGAGCAGAGTGAAAACACCAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAACACAAA
* * * * *
44406950 TCTTATCTCTCTGAAGTTGTAGTGGAGCAAATTGAAACCACTAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAACACAAA
44406994 TCTTATCT
1 TCTTATCT
44407002 AAAGTTGCAG
Statistics
Matches: 75, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
44 44 0.59
45 28 0.37
46 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAACACAAA
Found at i:44409082 original size:23 final size:22
Alignment explanation
Indices: 44409056--44409098 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
44409046 TTTTTTCACA
44409056 TATTATTCATTTTAAAATTGTCT
1 TATTATTCATTTT-AAATTGTCT
* *
44409079 TATTGTTTATTTTAAATTGT
1 TATTATTCATTTTAAATTGT
44409099 TTGATGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTATTCATTTTAAATTGTCT
Found at i:44415289 original size:21 final size:20
Alignment explanation
Indices: 44415260--44415317 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 20
44415250 TGAGATAGCC
44415260 CACATGGCCGTGTGAGTGGG
1 CACATGGCCGTGTGAGTGGG
* *
44415280 TCACAGGGCCGTGTGAATGGG
1 -CACATGGCCGTGTGAGTGGG
44415301 CGACATGGCCGTGTGAG
1 C-ACATGGCCGTGTGAG
44415318 CAAACCGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.17, C:0.21, G:0.43, T:0.19
Consensus pattern (20 bp):
CACATGGCCGTGTGAGTGGG
Found at i:44420302 original size:18 final size:19
Alignment explanation
Indices: 44420268--44420304 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
44420258 GAGGATACAA
44420268 GCGTGTCCGAGCCACACGG
1 GCGTGTCCGAGCCACACGG
*
44420287 GCGTGTGCGA-CCACACGG
1 GCGTGTCCGAGCCACACGG
44420305 CTTACCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.16, C:0.35, G:0.38, T:0.11
Consensus pattern (19 bp):
GCGTGTCCGAGCCACACGG
Found at i:44422605 original size:46 final size:46
Alignment explanation
Indices: 44422547--44422669 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
44422537 TATGTATGCT
* * *
44422547 AGTGTAAGACATGTCTAGGACATGCATCGGCCA-CAATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CATCAATACGAGAGCC
* ** *
44422593 AGTGTAAAACATGTCTGGGACATGCATCAGCATTGATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCAATACGAGAGCC
44422639 AGTGTAAGACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
44422670 CTCGCGATGT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 2 0.03
46 66 0.97
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATCAATACGAGAGCC
Found at i:44438108 original size:43 final size:43
Alignment explanation
Indices: 44438060--44438209 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 43
44438050 GTTACCAAGA
*
44438060 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
44438103 TGTGATTACATGTAACACCATCTCTGGGACATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * * * *
44438147 T-CGATTTCATGTAAGACCTTGTCTAGGATAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
44438188 ATGTGATAACATGTAAAACCAT
1 -TGTGATTACATGTAAGACCAT
44438210 ATGTGGGATA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 81 0.92
44 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:44438217 original size:86 final size:85
Alignment explanation
Indices: 44438063--44438225 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 85
44438053 ACCAAGATGT
* * * * * *
44438063 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACATGTAACACCATCTCT
1 GATTACATGTAAGACCATGTCTAGGACAGTGGCATCGTATTGTGATAACATGTAAAACCATATCT
44438128 GGGACATTGGCATCGTTATTC
66 GGGACA-TGGCATCGTTATTC
* * * *
44438149 GATTTCATGTAAGACCTTGTCTAGGATAGTGGCATCG-ATATGTGATAACATGTAAAACCATATG
1 GATTACATGTAAGACCATGTCTAGGACAGTGGCATCGTAT-TGTGATAACATGTAAAACCATATC
*
44438213 TGGGATATGGCAT
65 TGGGACATGGCAT
44438226 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 8 0.12
86 57 0.88
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTCTAGGACAGTGGCATCGTATTGTGATAACATGTAAAACCATATCT
GGGACATGGCATCGTTATTC
Found at i:44457572 original size:93 final size:93
Alignment explanation
Indices: 44457444--44457614 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
44457434 GCCCATAAGT
* * * *
44457444 GAACTCGGACTCAACTCAATGAGCTCGAGCGTTCGCATCCATAAGTGAGCTCGGAGTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
44457509 CGATTTCGTATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
44457537 GAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44457601 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
44457615 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:44457594 original size:46 final size:46
Alignment explanation
Indices: 44457436--44457611 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
44457426 TGTAACCCGC
* * *
44457436 CCATAAGTGAACTCGGACTCAACTCAATGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
* * * * *
44457482 CCATAAGTGAGCTCGGAGTCAACTCAACGATTTCGTATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC-A-TTCGCAT
* * *
44457532 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
44457575 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44457612 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.57
47 24 0.24
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44458063 original size:30 final size:30
Alignment explanation
Indices: 44458029--44458088 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44458019 ATTTAATACG
44458029 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
44458059 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
44458089 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:44460408 original size:19 final size:19
Alignment explanation
Indices: 44460384--44460421 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44460374 TGGGCCTCGA
44460384 TGGGCCGAAATGGG-TCGTG
1 TGGGCC-AAATGGGCTCGTG
*
44460403 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
44460422 GGCCCACACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.13, C:0.21, G:0.45, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:44460706 original size:27 final size:27
Alignment explanation
Indices: 44460674--44460828 Score: 120
Period size: 27 Copynumber: 5.8 Consensus size: 27
44460664 CCCTAGGTTA
44460674 TAAAATTACCAAAATACCCCTGATTTG
1 TAAAATTACCAAAATACCCCTGATTTG
* ***
44460701 TGAAATTATTGAAATA-CCCTCGATTTG
1 TAAAATTACCAAAATACCCCT-GATTTG
* * * *
44460728 TGAAATTACTAAAATA-CCTTGAATTG
1 TAAAATTACCAAAATACCCCTGATTTG
** *
44460754 TAAAATTACTGAAATACCCC-CAGTTTG
1 TAAAATTACCAAAATACCCCTGA-TTTG
* *
44460781 TAAAATTATCAAAATACCCCTG-TAGTG
1 TAAAATTACCAAAATACCCCTGAT-TTG
* *
44460808 TAAAATTATCGAAATACCCCT
1 TAAAATTACCAAAATACCCCT
44460829 ATAGGGTAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
26 25 0.24
27 79 0.76
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTGATTTG
Found at i:44460827 original size:54 final size:52
Alignment explanation
Indices: 44460646--44460827 Score: 172
Period size: 54 Copynumber: 3.4 Consensus size: 52
44460636 TCCCCGAGTG
* * * * *
44460646 GTAAAATTATTGAAGTACCCCTAGGTTATAAAATTACCAAAATACCCCTGATTT
1 GTAAAATTATCGAAATACCCCCAGTTTGTAAAATTA-CAAAATACCCCTGA-TT
* * * * *
44460700 GTGAAATTATTGAAATACCCTC-GATTTGTGAAATTACTAAAATA-CCTTGAATT
1 GTAAAATTATCGAAATACCCCCAG-TTTGTAAAATTAC-AAAATACCCCTG-ATT
*
44460753 GTAAAATTA-CTGAAATACCCCCAGTTTGTAAAATTATCAAAATACCCCTGTAGT
1 GTAAAATTATC-GAAATACCCCCAGTTTGTAAAATTA-CAAAATACCCCTG-ATT
44460807 GTAAAATTATCGAAATACCCC
1 GTAAAATTATCGAAATACCCC
44460828 TATAGGGTAA
Statistics
Matches: 105, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
53 43 0.41
54 61 0.58
55 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (52 bp):
GTAAAATTATCGAAATACCCCCAGTTTGTAAAATTACAAAATACCCCTGATT
Found at i:44460837 original size:27 final size:27
Alignment explanation
Indices: 44460780--44460840 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
44460770 CCCCCAGTTT
* *
44460780 GTAAAATTATCAAAATACCCCTGTAGT
1 GTAAAATTATCAAAATACCCCTATAGG
*
44460807 GTAAAATTATCGAAATACCCCTATAGG
1 GTAAAATTATCAAAATACCCCTATAGG
44460834 GTAAAAT
1 GTAAAAT
44460841 GACTATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (27 bp):
GTAAAATTATCAAAATACCCCTATAGG
Found at i:44463202 original size:28 final size:28
Alignment explanation
Indices: 44463170--44463251 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
44463160 ACTATGAGTG
*
44463170 TGATTAGGCTTGACGAGCCATATGAAAA
1 TGATTAGGCCTGACGAGCCATATGAAAA
* * * *
44463198 TGATTGGGCCTGATGGGCCATATGAAAG
1 TGATTAGGCCTGACGAGCCATATGAAAA
* * * *
44463226 TGATTGGGCCCGATGGGCCATATGAA
1 TGATTAGGCCTGACGAGCCATATGAA
44463252 TGAGATTGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (28 bp):
TGATTAGGCCTGACGAGCCATATGAAAA
Found at i:44463258 original size:28 final size:27
Alignment explanation
Indices: 44463186--44463263 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 27
44463176 GGCTTGACGA
* *
44463186 GCCATATGAAAATGATTGGGCCTGATGG
1 GCCATATGAAGA-GATTGGGCCCGATGG
*
44463214 GCCATATGAAAGTGATTGGGCCCGATGG
1 GCCATATG-AAGAGATTGGGCCCGATGG
44463242 GCCATATGAATGAGATTGGGCC
1 GCCATATGAA-GAGATTGGGCC
44463264 TAAAGGGGCC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
27 2 0.05
28 40 0.91
29 2 0.05
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (27 bp):
GCCATATGAAGAGATTGGGCCCGATGG
Found at i:44466003 original size:39 final size:39
Alignment explanation
Indices: 44465885--44466146 Score: 284
Period size: 39 Copynumber: 6.6 Consensus size: 39
44465875 GCTCCTCGTT
* * * *
44465885 CAAATGCCTTCGGGACATAG-CCTGATTATAGTAAT-TCGTA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
44465925 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
* *
44465965 CAAATGCCTTCAGGCTTAGCTCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
44466004 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
44466043 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
44466082 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
44466123 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
44466147 CATCATTCAA
Statistics
Matches: 196, Mismatches: 19, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
39 127 0.65
40 54 0.28
41 15 0.08
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:44466130 original size:117 final size:119
Alignment explanation
Indices: 44465885--44466146 Score: 301
Period size: 118 Copynumber: 2.2 Consensus size: 119
44465875 GCTCCTCGTT
* * * **
44465885 CAAATGCCTTCGGGACATAG-CCTGATTATAGTAAT-TCGTACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCACACAAATGCCTTCGGGACTTAACCC
* *
44465948 GGATTTAGTAACTCGCACAAATGCCTTCAGGCTTAGCTCGGAATTAGTATCTCGCA
64 GGAATTAGTAACTCGCACAAATGCCTTCAGGCTTAGCTCGGAATTAGTATCTAGCA
*
44466004 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCACACAAATGCCTTCGGGACTTAACCCGG
*
44466067 AATTAGTATCTCGCACAAATGCCTTC-GGATCTTAG-TCCGGATATT-GTCA-CTTAGCA
66 AATTAGTAACTCGCACAAATGCCTTCAGG--CTTAGCT-CGGA-ATTAGT-ATC-TAGCA
44466123 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44466147 CATCATTCAA
Statistics
Matches: 125, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
116 2 0.02
117 45 0.36
118 50 0.40
119 28 0.22
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCACACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTTCAGGCTTAGCTCGGAATTAGTATCTAGCA
Found at i:44469853 original size:17 final size:17
Alignment explanation
Indices: 44469831--44469865 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
44469821 AAGTGTATAC
44469831 ATGAAGTATATGTGGAT
1 ATGAAGTATATGTGGAT
*
44469848 ATGAAGTATATTTGGAT
1 ATGAAGTATATGTGGAT
44469865 A
1 A
44469866 ATTGTGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (17 bp):
ATGAAGTATATGTGGAT
Found at i:44476455 original size:49 final size:50
Alignment explanation
Indices: 44476377--44476609 Score: 272
Period size: 49 Copynumber: 4.7 Consensus size: 50
44476367 ATCTATTGTG
*
44476377 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
44476427 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * * * **
44476477 CGATCACGTATGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
44476527 AGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
44476577 -GATCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
44476610 TGCGTACCAG
Statistics
Matches: 150, Mismatches: 31, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
49 71 0.47
50 44 0.29
51 35 0.23
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:44476574 original size:101 final size:98
Alignment explanation
Indices: 44476380--44476609 Score: 298
Period size: 100 Copynumber: 2.3 Consensus size: 98
44476370 TATTGTGAGG
* * * *
44476380 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGCAGTACT
*
44476445 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* * * ** *
44476480 TCACGTATGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGCAGTAC
1 TCACATATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACATGTGCAGTAC
* *
44476545 TAAGTGCAGGCTACTACGTGTACCGGATAATTGA
65 TAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* *
44476579 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATATGTAGTACTAAGTGCAGGCTACTA
44476610 TGCGTACCAG
Statistics
Matches: 111, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
99 28 0.25
100 42 0.38
101 41 0.37
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACATATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGCAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:44476639 original size:101 final size:101
Alignment explanation
Indices: 44476380--44476639 Score: 296
Period size: 101 Copynumber: 2.6 Consensus size: 101
44476370 TATTGTGAGG
* * *
44476380 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATA-ATTGGTCGCA-TGTGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGATTGGTC-AAGTGTGCAGTA
*
44476443 CTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
65 CTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGA
* * * * * *
44476480 TCACGTATGTAGTACTAAATGTAGGCTACTACGTGTATCAGAT-GGTTAGGTCACGTGTGCAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGATT-GGTCAAGTGTGCAGTA
* *
44476544 CTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GA
65 CTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGA
* * * * *
44476579 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTGGCTACAAGTGTG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGATTGG-T-CAAGTGTG
44476640 AAAATATGTG
Statistics
Matches: 132, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
99 39 0.30
100 46 0.35
101 47 0.36
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGATTGGTCAAGTGTGCAGTAC
TAAGTGCAGGCTACTACGCGTACCCGATAACTTCGA
Found at i:44478957 original size:25 final size:24
Alignment explanation
Indices: 44478929--44478975 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
44478919 TTATTGTATG
* *
44478929 ATATGTTTGTTTGTGTTTTGGATAT
1 ATATATTTGTATGTG-TTTGGATAT
44478954 ATATATTTGTATGTGTTTGGAT
1 ATATATTTGTATGTGTTTGGAT
44478976 TATGGATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.57
Consensus pattern (24 bp):
ATATATTTGTATGTGTTTGGATAT
Found at i:44480295 original size:28 final size:28
Alignment explanation
Indices: 44480253--44480318 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
44480243 ACAGTGCATG
* *
44480253 CAGTAACAGTCTGGGCCTGAGCCCTATA
1 CAGTAACAGTCTGGGCCTAAGCCCAATA
* *
44480281 CAGTAACAGTGTGGGCTTAAGCCCAATA
1 CAGTAACAGTCTGGGCCTAAGCCCAATA
*
44480309 CAGTATCAGT
1 CAGTAACAGT
44480319 ACAGTGCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCAATA
Found at i:44481413 original size:37 final size:37
Alignment explanation
Indices: 44481363--44481434 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
44481353 TCTTCAGTTC
44481363 ACAAGCAAAGCACCAATCACCCTTGGCCACAACCTTT
1 ACAAGCAAAGCACCAATCACCCTTGGCCACAACCTTT
44481400 ACAAGCAAAGCACCAATCACCCTTGGCCACAACCT
1 ACAAGCAAAGCACCAATCACCCTTGGCCACAACCT
44481435 ACACAAGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.36, C:0.39, G:0.11, T:0.14
Consensus pattern (37 bp):
ACAAGCAAAGCACCAATCACCCTTGGCCACAACCTTT
Found at i:44486300 original size:30 final size:31
Alignment explanation
Indices: 44486254--44486311 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
44486244 TTCCCGAGCC
44486254 TAGGGGCAAAAGTGTAATTATGC-AAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCTAAAAGTT
* * *
44486284 TAGGGGTAAAATTGTAATTTTGCTAAAA
1 TAGGGGCAAAAGTGTAATTATGCTAAAA
44486312 TTTGAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (31 bp):
TAGGGGCAAAAGTGTAATTATGCTAAAAGTT
Found at i:44486785 original size:46 final size:46
Alignment explanation
Indices: 44486735--44486860 Score: 200
Period size: 46 Copynumber: 2.7 Consensus size: 46
44486725 TGGTTGAGCA
*
44486735 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
44486781 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
44486827 -CTCGAGCTCATTGAGTTGAGTCCAAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44486861 GGGGTGGGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 1 0.01
46 74 0.99
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:44492715 original size:30 final size:30
Alignment explanation
Indices: 44492681--44492737 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
44492671 TTCTCGAGCC
44492681 TAGGGGCAAAAGTGTAATTATGC-AAAAGTT
1 TAGGGG-AAAAGTGTAATTATGCTAAAAGTT
* *
44492711 TAGGGGAAAATTGTAATTTTGCTAAAA
1 TAGGGGAAAAGTGTAATTATGCTAAAA
44492738 TTTGAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAGTGTAATTATGCTAAAAGTT
Found at i:44493209 original size:46 final size:46
Alignment explanation
Indices: 44493159--44493331 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
44493149 TGGTTGAGCA
44493159 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44493205 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
44493250 CATCCGAACTCGTTGAGTTGATTCCGACTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
**
44493298 -CCTGGGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44493332 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.53
47 27 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44493315 original size:93 final size:93
Alignment explanation
Indices: 44493156--44493326 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
44493146 GGATGGTTGA
*
44493156 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
44493221 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* **
44493249 GCATCCGAACTCGTTGAGTTGATTCCGACTTCACTTATGGATGCGAATG-CCTGGGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGTCC-GAACTCGTTGAG
44493313 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
44493327 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44494724 original size:41 final size:43
Alignment explanation
Indices: 44494642--44494763 Score: 167
Period size: 41 Copynumber: 2.9 Consensus size: 43
44494632 GGGGCGTTAC
* * *
44494642 AGGTCTTACATGCAATCACATATCGATGTCACTGTCCCAGACA
1 AGGTCTTACACGCAATCACATATCGATGCCAATGTCCCAGACA
*
44494685 AGGTCTTACACG-AATCAAATAT-GATGCCAATGTCCCAGACA
1 AGGTCTTACACGCAATCACATATCGATGCCAATGTCCCAGACA
* * *
44494726 TGGTCTTACACGTAATCACATATCGATGCCAACGTCCC
1 AGGTCTTACACGCAATCACATATCGATGCCAATGTCCC
44494764 TGACGTGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 28 0.40
42 18 0.26
43 24 0.34
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
AGGTCTTACACGCAATCACATATCGATGCCAATGTCCCAGACA
Found at i:44494773 original size:43 final size:42
Alignment explanation
Indices: 44494643--44494776 Score: 164
Period size: 43 Copynumber: 3.2 Consensus size: 42
44494633 GGGCGTTACA
* * *
44494643 GGTCTTACATGCAATCACATATCGATGTC-ACTGTCCCAGACAA
1 GGTCTTACACG-AATCACATATCGATGCCAAC-GTCCCAGACAT
* *
44494686 GGTCTTACACGAATCAAATAT-GATGCCAATGTCCCAGACAT
1 GGTCTTACACGAATCACATATCGATGCCAACGTCCCAGACAT
* *
44494727 GGTCTTACACGTAATCACATATCGATGCCAACGTCCCTGACGT
1 GGTCTTACACG-AATCACATATCGATGCCAACGTCCCAGACAT
44494770 GGTCTTA
1 GGTCTTA
44494777 GATGAGAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
41 26 0.33
42 19 0.24
43 34 0.43
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAATCACATATCGATGCCAACGTCCCAGACAT
Found at i:44507801 original size:23 final size:23
Alignment explanation
Indices: 44507775--44507821 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
44507765 AAACAATTAG
*
44507775 TAAGAATTTTTATGAGTCTATAT
1 TAAGAATTTTTACGAGTCTATAT
44507798 TAAGAATTTTTACGAGTCTATAT
1 TAAGAATTTTTACGAGTCTATAT
44507821 T
1 T
44507822 CAGGGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (23 bp):
TAAGAATTTTTACGAGTCTATAT
Found at i:44526466 original size:44 final size:44
Alignment explanation
Indices: 44526398--44526486 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
44526388 ATATATGTGT
* *
44526398 AGCCAAGCTACCACGTAACGCACCCATGAGTGAACTCGGACTCA
1 AGCCAAGCTACCACGTAACCCACCCATAAGTGAACTCGGACTCA
*
44526442 AGCCAAGCTACCATGTAACCCACCCATAAGTGAACTCGGACTCA
1 AGCCAAGCTACCACGTAACCCACCCATAAGTGAACTCGGACTCA
44526486 A
1 A
44526487 CTCAACGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.34, G:0.18, T:0.15
Consensus pattern (44 bp):
AGCCAAGCTACCACGTAACCCACCCATAAGTGAACTCGGACTCA
Found at i:44541312 original size:27 final size:27
Alignment explanation
Indices: 44541281--44541458 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
44541271 TAAATTGTAC
*
44541281 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * * *
44541308 TGCACTAAGTGCGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
44541334 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
44541362 GGCACTAAGTGTGCGAGGTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
44541390 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
44541417 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
44541444 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44541459 GACTCAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:44541346 original size:54 final size:55
Alignment explanation
Indices: 44541281--44541458 Score: 209
Period size: 54 Copynumber: 3.3 Consensus size: 55
44541271 TAAATTGTAC
* * **
44541281 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGCGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
44541336 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-GTTGAATATGAT
* * *
44541390 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
44541444 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44541459 GACTCAATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
54 61 0.59
55 43 0.41
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:44541395 original size:82 final size:81
Alignment explanation
Indices: 44541282--44541437 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
44541272 AAATTGTACA
* * *
44541282 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGCGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGTA-GCACTAAGTG
44541346 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
44541363 GCACTAAGTGTGCGAGGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-GTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGTAGCACTAAGTG
*
44541428 TGCGAGTTGA
65 TGCGAATTGA
44541438 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44541449 original size:82 final size:81
Alignment explanation
Indices: 44541278--44541458 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
44541268 GATTAAATTG
* * *
44541278 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGCGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGATGCACTAA
44541343 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
44541359 TGCGGCACTAAGTGTGCGAGGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-GTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGAT-GCACT
* **
44541423 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44541441 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44541459 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGCGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44552658 original size:127 final size:127
Alignment explanation
Indices: 44552431--44552684 Score: 445
Period size: 127 Copynumber: 2.0 Consensus size: 127
44552421 GGGTTTTGGC
*
44552431 CAACACATGGGCCTTCTATAAGCCCATTTACCTACTCAAAAGATAAATTCCACATCCAAATACAA
1 CAACACATGGGCCTTCTATAACCCCATTTACCTACTCAAAAGATAAATTCCACATCCAAATACAA
44552496 AATTTTAAAATCTTTACAAAATATTGAAAACCGCGAATAAATCCGAAAATCAGGATGTTACA
66 AATTTTAAAATCTTTACAAAATATTGAAAACCGCGAATAAATCCGAAAATCAGGATGTTACA
* * * *
44552558 CAACACATGGGCCTTCTATAACCCCATTTACCTACTCAAAATATTAGTTCCACATCCAAATACTA
1 CAACACATGGGCCTTCTATAACCCCATTTACCTACTCAAAAGATAAATTCCACATCCAAATACAA
* *
44552623 AATTTTAAAGTCTTTACAAAATATTGAAAATCGCGAATAAATCCGAAAATCAGGATGTTACA
66 AATTTTAAAATCTTTACAAAATATTGAAAACCGCGAATAAATCCGAAAATCAGGATGTTACA
44552685 TTATTAATTC
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
127 120 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (127 bp):
CAACACATGGGCCTTCTATAACCCCATTTACCTACTCAAAAGATAAATTCCACATCCAAATACAA
AATTTTAAAATCTTTACAAAATATTGAAAACCGCGAATAAATCCGAAAATCAGGATGTTACA
Found at i:44564589 original size:68 final size:67
Alignment explanation
Indices: 44564517--44564691 Score: 171
Period size: 68 Copynumber: 2.6 Consensus size: 67
44564507 CATCATGTGT
** * * * *
44564517 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGTTCACATGTGTGAT-ACGGGATGTATC-CCA
1 ACAAGAGAGCTACGAGATA-TAAAT-GTAGCTAGGTCACATGTGTGATCAAGGGAAGGA-CACCA
44564580 TGTAG
63 TGTAG
* * *
44564585 ACAAGAGAGCTACGGGAGAGATAAATGTAGCTAGGTCGCATGTGTGATCCAAGTGAAGGACACCA
1 ACAAGAGAGCTAC--GAGATATAAATGTAGCTAGGTCACATGTGTGAT-CAAGGGAAGGACACCA
44564650 TGTAG
63 TGTAG
*
44564655 ACAAGAGAGCTACGAG--ATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATG
44564692 GGTGGTACTA
Statistics
Matches: 91, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
65 13 0.14
66 6 0.07
68 36 0.40
69 4 0.04
70 32 0.35
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATGTGTGATCAAGGGAAGGACACCATGT
AG
Found at i:44581888 original size:17 final size:17
Alignment explanation
Indices: 44581849--44581890 Score: 77
Period size: 16 Copynumber: 2.5 Consensus size: 17
44581839 TGGGCTGTGT
44581849 GGGCCCCACGAGCATGC
1 GGGCCCCACGAGCATGC
44581866 -GGCCCCACGAGCATGC
1 GGGCCCCACGAGCATGC
44581882 GGGCCCCAC
1 GGGCCCCAC
44581891 ACTGGTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.17, C:0.45, G:0.33, T:0.05
Consensus pattern (17 bp):
GGGCCCCACGAGCATGC
Found at i:44586902 original size:39 final size:40
Alignment explanation
Indices: 44586807--44587029 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
44586797 TTGAATGCTG
*
44586807 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
44586845 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
44586886 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
44586925 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
44586964 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
44587003 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44587030 AATGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:44586993 original size:79 final size:81
Alignment explanation
Indices: 44586807--44587029 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
44586797 TTGAATGCTG
* * *
44586807 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
44586869 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
44586886 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
44586947 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
44586964 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
44587028 TG
66 TG
44587030 AATGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:44587051 original size:79 final size:79
Alignment explanation
Indices: 44586807--44587062 Score: 208
Period size: 79 Copynumber: 3.3 Consensus size: 79
44586797 TTGAATGCTG
* * * *
44586807 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
44586868 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
44586886 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
44586950 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
44586964 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
* *
44587027 TTGAATGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
44587044 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
44587063 TACGTGATTT
Statistics
Matches: 152, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 35 0.23
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:44594950 original size:40 final size:39
Alignment explanation
Indices: 44594819--44594988 Score: 238
Period size: 39 Copynumber: 4.3 Consensus size: 39
44594809 GGACTAAGAT
*
44594819 CCGAAGGCA-TTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGC
*
44594857 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGC
* *
44594896 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-C
*
44594936 CCGAAGGCATTTGTGCGA-ATTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGGCTAAG-C
44594976 CCGAAGGCATTTG
1 CCGAAGGCATTTG
44594989 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
38 9 0.07
39 64 0.52
40 47 0.39
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGC
Found at i:44594968 original size:79 final size:79
Alignment explanation
Indices: 44594770--44594988 Score: 240
Period size: 78 Copynumber: 2.8 Consensus size: 79
44594760 TGAATGCTGT
* * *
44594770 CGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCGGACTAAGAT-CCGAAGGCA-T
1 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAATACCGGGCTAAG-TCCCGAAGGCATT
*
44594829 TGTGCGAGATACTAATTC
62 TGTGCGAGATACTAAATC
*
44594847 CGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTG
1 CGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGTCCCGAAGGCATTTGTG
*
44594911 CGAGTTACTAAATC
66 CGAGATACTAAATC
* *
44594925 CGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTT
1 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAGTCCCGAAGGCATTT
44594988 G
63 G
44594989 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
76 9 0.07
77 20 0.16
78 47 0.38
79 33 0.27
80 14 0.11
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGATACTAAATC
Found at i:44595002 original size:40 final size:39
Alignment explanation
Indices: 44594770--44594988 Score: 197
Period size: 39 Copynumber: 5.6 Consensus size: 39
44594760 TGAATGCTGT
* * *
44594770 CGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAAT-AT
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAAC
* *
44594808 CGGACTAAGAT-CCGAAGGCA-TTGTGCGAGATACTA-ATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-AC
*
44594847 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-AC
44594886 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA-C
* *
44594925 CGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAAC
*
44594965 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
44594989 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 12, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
38 30 0.19
39 79 0.50
40 46 0.29
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAAC
Found at i:44595010 original size:79 final size:79
Alignment explanation
Indices: 44594819--44595021 Score: 206
Period size: 79 Copynumber: 2.6 Consensus size: 79
44594809 GGACTAAGAT
* *
44594819 CCGAAGGCATTGTG--CGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATT-TGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATAC
*
44594880 TAATTCCGGGCTAAGC
64 TAATACCGGGCTAAGC
** *
44594896 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
44594960 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
44594976 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
44595022 TACGTGATTT
Statistics
Matches: 108, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
76 2 0.02
77 12 0.11
78 22 0.20
79 47 0.44
80 25 0.23
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:44599136 original size:27 final size:28
Alignment explanation
Indices: 44599098--44599157 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
44599088 CAGTTAACAT
* *
44599098 GGGTA-TTCCACCTAGACAATAAACACG
1 GGGTAGTTCCACCAAGACAAGAAACACG
*
44599125 GGGTAGTT-CACCAAGATAAGAAACACG
1 GGGTAGTTCCACCAAGACAAGAAACACG
44599152 GGGTAG
1 GGGTAG
44599158 CTTGCTGGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (28 bp):
GGGTAGTTCCACCAAGACAAGAAACACG
Found at i:44612939 original size:27 final size:26
Alignment explanation
Indices: 44612886--44612990 Score: 104
Period size: 26 Copynumber: 4.0 Consensus size: 26
44612876 ATTAAGACCT
**
44612886 CAGTTTGGAAAATTATCAAAATACCCC
1 CAGTTTGG-AAATTATTGAAATACCCC
*
44612913 TAGTTTGGAAATTATTGAAATACCCC
1 CAGTTTGGAAATTATTGAAATACCCC
* *
44612939 CAATTTGAAAAATTATTGAAATACCCC
1 CAGTTTG-GAAATTATTGAAATACCCC
* **
44612966 C-GTTTTGTAAATTACCGAAATACCC
1 CAG-TTTGGAAATTATTGAAATACCC
44612991 TGGTAGTGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
26 36 0.55
27 30 0.45
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (26 bp):
CAGTTTGGAAATTATTGAAATACCCC
Found at i:44612978 original size:53 final size:53
Alignment explanation
Indices: 44612889--44612990 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 53
44612879 AAGACCTCAG
* **
44612889 TTTGGAAAATTATCAAAATACCCCTAGTTTGGAAATTATTGAAATACCCCCAA
1 TTTGAAAAATTATCAAAATACCCCTAGTTTGGAAATTACCGAAATACCCCCAA
** * *
44612942 TTTGAAAAATTATTGAAATACCCC-CGTTTTGTAAATTACCGAAATACCC
1 TTTGAAAAATTATCAAAATACCCCTAG-TTTGGAAATTACCGAAATACCC
44612991 TGGTAGTGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 1 0.02
53 40 0.98
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (53 bp):
TTTGAAAAATTATCAAAATACCCCTAGTTTGGAAATTACCGAAATACCCCCAA
Found at i:44613319 original size:22 final size:22
Alignment explanation
Indices: 44613293--44613338 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
44613283 TGTTGCAATA
44613293 TTTACGGCATTT-AGCCATTCTG
1 TTTACGGC-TTTGAGCCATTCTG
*
44613315 TTTACGGCTTTGAGTCATTCTG
1 TTTACGGCTTTGAGCCATTCTG
44613337 TT
1 TT
44613339 AACTTAGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (22 bp):
TTTACGGCTTTGAGCCATTCTG
Found at i:44613430 original size:21 final size:21
Alignment explanation
Indices: 44613404--44613443 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
44613394 TATCTCCACA
44613404 TGGTGTGTTGGTTGGTACGAG
1 TGGTGTGTTGGTTGGTACGAG
44613425 TGGTGTGTTGGTTGGTACG
1 TGGTGTGTTGGTTGGTACG
44613444 GGTTGGGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.05, G:0.47, T:0.40
Consensus pattern (21 bp):
TGGTGTGTTGGTTGGTACGAG
Found at i:44624537 original size:14 final size:14
Alignment explanation
Indices: 44624518--44624550 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
44624508 AAAATTTTCA
*
44624518 TTTTTTT-ATTAGT
1 TTTTTTTCATTAAT
44624531 TTTTTTTCATTAAT
1 TTTTTTTCATTAAT
44624545 TTTTTT
1 TTTTTT
44624551 GTGTGTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTTTTCATTAAT
Found at i:44631133 original size:5 final size:6
Alignment explanation
Indices: 44631089--44631131 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
44631079 TATAAGGTCC
44631089 AAATTA AAATTA AAATTA AAATTGA AAATT- AAATT- AAATTA AA
1 AAATTA AAATTA AAATTA AAATT-A AAATTA AAATTA AAATTA AA
44631132 TTGTTTAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.29
6 19 0.54
7 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:44636609 original size:47 final size:47
Alignment explanation
Indices: 44636556--44636774 Score: 368
Period size: 47 Copynumber: 4.7 Consensus size: 47
44636546 ACAAGATATG
44636556 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44636603 TATATGTGATAAGG-CTGAGTGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCT-AATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44636650 TATATGTGACGAGGCCTAATGGCCAGTGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44636697 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
44636744 TATATGTGACAAGGCCTAATGGCCAATGTGA
1 TATATGTGACAAGGCCTAATGGCCAATGTGA
44636775 CAGCCCTAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 2 0.01
47 154 0.97
48 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:44638666 original size:40 final size:39
Alignment explanation
Indices: 44638584--44638766 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 39
44638574 GAATGATGTT
* * *
44638584 CGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATC
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAATC
* *
44638624 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAATC
* *
44638664 CGGGCTAAGCCCGAAGGCATTGGTGCGA-ATTACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGA-TACTAAATC
* * *
44638703 CGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGATACTA-AATC
*
44638743 CGGGCTATGTCCTGAAGGCATTTG
1 CGGGCTAAGTCC-GAAGGCATTTG
44638767 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
38 1 0.01
39 35 0.30
40 69 0.58
41 12 0.10
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAATC
Found at i:44638788 original size:79 final size:79
Alignment explanation
Indices: 44638638--44638789 Score: 175
Period size: 79 Copynumber: 1.9 Consensus size: 79
44638628 CTAAGATCCG
* ** *
44638638 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAATTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAAGTACTAAATC
44638703 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * * * *
44638717 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTGAACG-AGTAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAAGTA-CTAA
44638780 ATCC-GGTTAA
63 ATCCGGGTTAA
44638790 ATTCCGAAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.62
80 21 0.34
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAAGTACTAAATC
CGGGTTAAGTCCCA
Done.