Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 190 of 226
Found at i:57392037 original size:129 final size:131
Alignment explanation
Indices: 57391763--57392038 Score: 413
Period size: 129 Copynumber: 2.2 Consensus size: 131
57391753 ATAAGGTGCG
*
57391763 GTGGAGTGG--ATAAAAATATCCAAATCTTATCTCTCTAAGGTTGCGGAGAGCGGATCGCATCTA
1 GTGGAGTGGATATAAAAATATCCAAATCTTATCTCTCTAAGGTTGCAGAGAGCGGATCGCATCTA
* * * *
57391826 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAAAAACCAATCTTATCTCTCTGAAGTTGC
66 GTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAAAAACCAATCCTATCTCTCTGAAGTTAC
57391891 A
131 A
* *
57391892 GTGGAGGGGAT-T-AAAATATCCAAATCTTATCTCTCTGAGGTTGCAGAGAGCGGATCGCATCTA
1 GTGGAGTGGATATAAAAATATCCAAATCTTATCTCTCTAAGGTTGCAGAGAGCGGATCGCATCTA
* *
57391955 GTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAG-AAGAA-TAATCCTATCTC-CTTGAAGTTA
66 GTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAAAAACCAATCCTATCTCTC-TGAAGTTA
57392017 CA
130 CA
57392019 GTGGAGTGGATATAAAAATA
1 GTGGAGTGGATATAAAAATA
57392039 GATATTATCT
Statistics
Matches: 132, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
126 1 0.01
127 29 0.22
128 5 0.04
129 96 0.73
130 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (131 bp):
GTGGAGTGGATATAAAAATATCCAAATCTTATCTCTCTAAGGTTGCAGAGAGCGGATCGCATCTA
GTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAAAAACCAATCCTATCTCTCTGAAGTTAC
A
Found at i:57393661 original size:30 final size:30
Alignment explanation
Indices: 57393627--57393691 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
57393617 CATTTTTATA
57393627 ATATACATACATATTTTTTATAATTTACAT
1 ATATACATACATATTTTTTATAATTTACAT
*
57393657 ATATACATACATATTTTTTATAATTTATAT
1 ATATACATACATATTTTTTATAATTTACAT
57393687 ATATA
1 ATATA
57393692 TAATTTGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.51
Consensus pattern (30 bp):
ATATACATACATATTTTTTATAATTTACAT
Found at i:57398313 original size:25 final size:26
Alignment explanation
Indices: 57398285--57398335 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
57398275 GTTGTAAATC
57398285 AGAAAAATATCTCTAGA-AATTTTCT
1 AGAAAAATATCTCTAGAGAATTTTCT
* * *
57398310 AGAATAATCTCTTTAGAGAATTTTCT
1 AGAAAAATATCTCTAGAGAATTTTCT
57398336 TTCTACACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (26 bp):
AGAAAAATATCTCTAGAGAATTTTCT
Found at i:57400612 original size:55 final size:55
Alignment explanation
Indices: 57400550--57400660 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
57400540 ATGAATGGAA
57400550 TGACGAACTAAGAGAAATAAATCGCATGTATTCTATATACAATGAATGCATTTTC
1 TGACGAACTAAGAGAAATAAATCGCATGTATTCTATATACAATGAATGCATTTTC
57400605 TGACGAACTAAGAGAAATAAATCGCATGTATTCTATATACAATGAATGCATTTTC
1 TGACGAACTAAGAGAAATAAATCGCATGTATTCTATATACAATGAATGCATTTTC
57400660 T
1 T
57400661 CGCTAAGTAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (55 bp):
TGACGAACTAAGAGAAATAAATCGCATGTATTCTATATACAATGAATGCATTTTC
Found at i:57419306 original size:9 final size:9
Alignment explanation
Indices: 57419294--57419385 Score: 67
Period size: 9 Copynumber: 9.4 Consensus size: 9
57419284 TTCCTATATA
57419294 TTTTATAATTT
1 TTTTATAA--T
*
57419305 TTTTACAAT
1 TTTTATAAT
57419314 TTTTATAAT
1 TTTTATAAT
57419323 TTTTAATAAAT
1 TTTT-AT-AAT
*
57419334 TTTTAATATT
1 TTTT-ATAAT
*
57419344 TTTTATTAAAA
1 TTTTA-T-AAT
* *
57419355 TTTAATCAT
1 TTTTATAAT
*
57419364 TTTTATAAC
1 TTTTATAAT
57419373 TTTTATAAT
1 TTTTATAAT
57419382 TTTT
1 TTTT
57419386 TTGCCACATG
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
9 33 0.51
10 10 0.15
11 22 0.34
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:57419319 original size:20 final size:19
Alignment explanation
Indices: 57419294--57419387 Score: 82
Period size: 20 Copynumber: 4.8 Consensus size: 19
57419284 TTCCTATATA
57419294 TTTTATAATTTTTTTACAAT
1 TTTTATAATTTTTTTA-AAT
*
57419314 TTTTATAATTTTTAATAAAT
1 TTTTATAATTTTT-TTAAAT
* *
57419334 TTTTAATATTTTTTATTAAAA
1 TTTT-ATAATTTTT-TTAAAT
* * * *
57419355 TTTAATCATTTTTAT-AAC
1 TTTTATAATTTTTTTAAAT
57419373 TTTTATAATTTTTTT
1 TTTTATAATTTTTTT
57419388 GCCACATGTT
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
18 14 0.23
19 1 0.02
20 27 0.45
21 18 0.30
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTTAAAT
Found at i:57420421 original size:20 final size:19
Alignment explanation
Indices: 57420396--57420433 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
57420386 TATGGGTTGA
*
57420396 TATTTCATACATTAATTTTT
1 TATTTCATA-AATAATTTTT
57420416 TATTTCATAAATAATTTT
1 TATTTCATAAATAATTTT
57420434 AAGAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTCATAAATAATTTTT
Found at i:57420540 original size:22 final size:22
Alignment explanation
Indices: 57420515--57420559 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
57420505 TTCATCGACA
*
57420515 ATATATTAAAT-ATTATTTTAAT
1 ATATATAAAATAATTA-TTTAAT
57420537 ATATATAAAATAATTATTTAAT
1 ATATATAAAATAATTATTTAAT
57420559 A
1 A
57420560 CAATTGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATATAAAATAATTATTTAAT
Found at i:57421425 original size:21 final size:22
Alignment explanation
Indices: 57421385--57421426 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
57421375 TGTCAATGTG
57421385 GGATAAAAATTAACTTTTTAAA
1 GGATAAAAATTAACTTTTTAAA
*
57421407 GGATTAAAATTAA-TTTTTAA
1 GGATAAAAATTAACTTTTTAA
57421427 TGCAAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
GGATAAAAATTAACTTTTTAAA
Found at i:57421827 original size:93 final size:94
Alignment explanation
Indices: 57421726--57421912 Score: 261
Period size: 96 Copynumber: 2.0 Consensus size: 94
57421716 TTTAAGGGAC
** * *
57421726 TAAAATTAACTTTTAATGAAAATTTTG-AAGTGAGTTATGGTAGTATTCCCTA-GTCAATGTGAT
1 TAAAATTAACTTTTAATGAAAATAGTGAAAATGAGTTATGGTAGTATTCCC-AGGTCAATGTGAG
57421789 ATTAAAACTAACTTTTTAATGAAAATAGAT
65 ATTAAAACTAACTTTTTAATGAAAATAGAT
* * * *
57421819 TAAAATTAATTTTTAATGAAAATAGTGAATAAATGAGTTATGGTAGTATTCTCAGGTTAATGTGG
1 TAAAATTAACTTTTAATGAAAATAGTG-A-AAATGAGTTATGGTAGTATTCCCAGGTCAATGTGA
57421884 GATTAAAACTAACTTTTTAATGAAAATAG
64 GATTAAAACTAACTTTTTAATGAAAATAG
57421913 TGAATAACTG
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
93 24 0.29
95 1 0.01
96 57 0.70
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (94 bp):
TAAAATTAACTTTTAATGAAAATAGTGAAAATGAGTTATGGTAGTATTCCCAGGTCAATGTGAGA
TTAAAACTAACTTTTTAATGAAAATAGAT
Found at i:57421838 original size:27 final size:28
Alignment explanation
Indices: 57421789--57421843 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
57421779 TCAATGTGAT
57421789 ATTAAAACTAACTTTTTAATGAAAATAG
1 ATTAAAACTAACTTTTTAATGAAAATAG
*
57421817 ATTAAAATTAA-TTTTTAATGAAAATAG
1 ATTAAAACTAACTTTTTAATGAAAATAG
57421844 TGAATAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (28 bp):
ATTAAAACTAACTTTTTAATGAAAATAG
Found at i:57421950 original size:69 final size:68
Alignment explanation
Indices: 57421816--57421950 Score: 191
Period size: 69 Copynumber: 2.0 Consensus size: 68
57421806 AATGAAAATA
* * * * *
57421816 GATTAAAATTAATTTTTAATGAAAATAGTGAATAAATGAGTTATGGTAGTATTCTCAGGTTAATG
1 GATTAAAACTAATTTTTAATGAAAATAGTGAATAAATGAGCTATGATAGTATTCTCAGATCAATG
57421881 TGG
66 TGG
*
57421884 GATTAAAACTAACTTTTTAATGAAAATAGTGAATAACTGAGCTATGATAGTATTCTCTA-ATCAA
1 GATTAAAACTAA-TTTTTAATGAAAATAGTGAATAAATGAGCTATGATAGTATTCTC-AGATCAA
57421948 TGT
64 TGT
57421951 TTGATCAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
68 11 0.19
69 47 0.80
70 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (68 bp):
GATTAAAACTAATTTTTAATGAAAATAGTGAATAAATGAGCTATGATAGTATTCTCAGATCAATG
TGG
Found at i:57423394 original size:27 final size:28
Alignment explanation
Indices: 57423360--57423424 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
57423350 ATAAAAAATA
57423360 ACCAAAATATTAT-AACTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
* *
57423387 ACCAAAATTTTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAACTTTTTTTATTT
57423415 ACCAAAATAT
1 ACCAAAATAT
57423425 ACCAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 12 0.35
28 22 0.65
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (28 bp):
ACCAAAATATTATAAACTTTTTTTATTT
Found at i:57424125 original size:19 final size:19
Alignment explanation
Indices: 57424101--57424159 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
57424091 TCTAATTAAG
*
57424101 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
57424120 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
57424138 TAATAACTCTATTTTCATT
1 TAATAACTCTATTTTCATT
57424157 TAA
1 TAA
57424160 AATATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:57424391 original size:19 final size:19
Alignment explanation
Indices: 57424369--57424434 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
57424359 TTTAATTTTT
57424369 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
57424388 TTAAATGAGAAT--ATTTCA
1 TTAAATTAAAATAGAGTT-A
*
57424406 TTACATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
57424425 TTAAATTAAA
1 TTAAATTAAA
57424435 CTATTTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 20 0.56
20 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:57424915 original size:28 final size:29
Alignment explanation
Indices: 57424856--57424920 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 29
57424846 GTTTTTTGGT
* *
57424856 ATATTTTGGTAAATAAAATAAAATTTATA
1 ATATTTTGATAAATAAAATAAAAGTTATA
57424885 ATATTTTGATAAATAAAA-AAAAGTTATA
1 ATATTTTGATAAATAAAATAAAAGTTATA
57424913 ATATTTTG
1 ATATTTTG
57424921 GTTATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 17 0.50
29 17 0.50
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (29 bp):
ATATTTTGATAAATAAAATAAAAGTTATA
Found at i:57425123 original size:59 final size:59
Alignment explanation
Indices: 57425055--57425167 Score: 226
Period size: 59 Copynumber: 1.9 Consensus size: 59
57425045 AGCAATAAGG
57425055 ATCACAATACCATACTAGATATTAAAATAAATAAGATAACTCGAAATAAAAAAAAAAGA
1 ATCACAATACCATACTAGATATTAAAATAAATAAGATAACTCGAAATAAAAAAAAAAGA
57425114 ATCACAATACCATACTAGATATTAAAATAAATAAGATAACTCGAAATAAAAAAA
1 ATCACAATACCATACTAGATATTAAAATAAATAAGATAACTCGAAATAAAAAAA
57425168 TAAAAGATGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.21
Consensus pattern (59 bp):
ATCACAATACCATACTAGATATTAAAATAAATAAGATAACTCGAAATAAAAAAAAAAGA
Found at i:57425353 original size:15 final size:16
Alignment explanation
Indices: 57425327--57425370 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
57425317 TTTTAAATAT
* *
57425327 GTAAAAAAATAAAGAA
1 GTAAATAAATAAACAA
57425343 GT-AATAAATAAACAA
1 GTAAATAAATAAACAA
57425358 GTAAATAAATAAA
1 GTAAATAAATAAA
57425371 AAGGTTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.18
Consensus pattern (16 bp):
GTAAATAAATAAACAA
Found at i:57425901 original size:13 final size:13
Alignment explanation
Indices: 57425883--57425907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57425873 TAGAACTTGA
57425883 GGTATTTGGGTCT
1 GGTATTTGGGTCT
57425896 GGTATTTGGGTC
1 GGTATTTGGGTC
57425908 ACACACCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.40, T:0.44
Consensus pattern (13 bp):
GGTATTTGGGTCT
Found at i:57426920 original size:15 final size:13
Alignment explanation
Indices: 57426890--57426928 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
57426880 ATGATTATTT
57426890 TTTTTTGTTTTTA
1 TTTTTTGTTTTTA
57426903 TTTTTTGTTTATTCA
1 TTTTTTGTTT-TT-A
*
57426918 TTTCTTGTTTT
1 TTTTTTGTTTT
57426929 GGGTCGGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 10 0.43
14 3 0.13
15 10 0.43
ACGTcount: A:0.08, C:0.05, G:0.08, T:0.79
Consensus pattern (13 bp):
TTTTTTGTTTTTA
Found at i:57427174 original size:44 final size:44
Alignment explanation
Indices: 57427110--57427509 Score: 392
Period size: 44 Copynumber: 9.1 Consensus size: 44
57427100 GGTATAGGAA
* * * * *
57427110 TTGTAGTTTTAATCTACTCCACTACAACTTTAGGGAGATAAGAC
1 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * * *
57427154 TTGTAGCGTCAATCTGCTCCACTGCAACTTTATGGAGATAAGAC
1 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * * ** *
57427198 TTGTAGCTTTAATCAATTCCATTGCAACTTCAGAAAGGTAAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* *
57427242 TTGTAGCTTCAATATACTCCACTACAACTTCAGGGAGATAAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
57427286 TTGTAGCTTCAATCTGCTCTACTGCAACTTTAGCGAGATAAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* * *
57427330 TCGCTATCTTCAATCCACTCCACTGCAACTTCAGGGAGATAAGAT
1 TTG-TAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* *
57427375 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
1 TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * * **
57427419 TTGCAACTTTAATTTGA-TCCACTGCAACTTTAGGGATATGTGAT
1 TTGTAGCTTCAATCT-ACTCCACTGCAACTTCAGGGAGATAAGAT
* * *
57427463 TTGTAGCTTC-ATCTTGCTCCATTGCATA-TTCAAGGAGATAAGAT
1 TTGTAGCTTCAATC-TACTCCACTGCA-ACTTCAGGGAGATAAGAT
57427507 TTG
1 TTG
57427510 CTATATTCAA
Statistics
Matches: 285, Mismatches: 66, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
43 2 0.01
44 245 0.86
45 38 0.13
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
TTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
Found at i:57427403 original size:177 final size:175
Alignment explanation
Indices: 57427110--57427523 Score: 440
Period size: 177 Copynumber: 2.3 Consensus size: 175
57427100 GGTATAGGAA
* * * * * * **
57427110 TTGTAGTTTTAATCTACTCCACTACAACTTTAGGGAGATAAGACTTG-TAGCGTCAATCTGCTCC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTTA-GGAGATAAGA-TTGCTATCTTCAATCCACTCC
* * * * * *
57427174 ACTGCAACTTTATGGAGATAAGACTTGTAGCTTTAATCAATTCCATTGCAACTTCAGAAAGGTAA
64 ACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCAACTCCACTGCAACTTCAGAAAGATAA
* *
57427239 GATTTGTAGCTTCAATAT-ACTCCACTACAACTTCAGGGAGATAAGAT
129 GATTTGCAACTTCAATATGA-TCCACTACAACTTCAGGGAGATAAGAT
*
57427286 TTGTAGCTTCAATCTGCTCTACTGCAACTTTAGCGAGATAAGATTCGCTATCTTCAATCCACTCC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTTAG-GAGATAAGATT-GCTATCTTCAATCCACTCC
* ** *
57427351 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAA
64 ACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCAACTCCACTGCAACTTCAGAAAGATAA
* * * * * **
57427416 GATTTGCAACTTTAATTTGATCCACTGCAACTTTAGGGATATGTGAT
129 GATTTGCAACTTCAATATGATCCACTACAACTTCAGGGAGATAAGAT
* * *
57427463 TTGTAGCTTC-ATCTTGCTCCATTGCATA-TTCAAGGAGATAAGATTTGCTATATTCAATCCA
1 TTGTAGCTTCAATC-TGCTCCACTGCA-ACTT-TAGGAGATAAGA-TTGCTATCTTCAATCCA
57427524 ACCCACTATA
Statistics
Matches: 198, Mismatches: 32, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
175 3 0.02
176 40 0.20
177 149 0.75
178 6 0.03
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (175 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGAGATAAGATTGCTATCTTCAATCCACTCCAC
TGCAACTTCAGGGAGATAAGACTTGTAGCTTCAATCAACTCCACTGCAACTTCAGAAAGATAAGA
TTTGCAACTTCAATATGATCCACTACAACTTCAGGGAGATAAGAT
Found at i:57432379 original size:14 final size:14
Alignment explanation
Indices: 57432360--57432395 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
57432350 CAGTCGTCCT
57432360 CTTCTTCTTTCTTA
1 CTTCTTCTTTCTTA
57432374 CTTCTTCTTTCTTA
1 CTTCTTCTTTCTTA
*
57432388 CTGCTTCT
1 CTTCTTCT
57432396 CCAGCTCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.06, C:0.31, G:0.03, T:0.61
Consensus pattern (14 bp):
CTTCTTCTTTCTTA
Found at i:57437099 original size:15 final size:16
Alignment explanation
Indices: 57437073--57437116 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
57437063 TTTTAAATAT
* *
57437073 GTAAAAAAATAAAGAA
1 GTAAATAAATAAACAA
57437089 GT-AATAAATAAACAA
1 GTAAATAAATAAACAA
57437104 GTAAATAAATAAA
1 GTAAATAAATAAA
57437117 AAGGTTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.18
Consensus pattern (16 bp):
GTAAATAAATAAACAA
Found at i:57441341 original size:39 final size:39
Alignment explanation
Indices: 57441291--57441426 Score: 123
Period size: 39 Copynumber: 3.5 Consensus size: 39
57441281 TTATGCCTTC
* **
57441291 AGCCTAGCAGGCCTCGTGCCAGTGACTTATCGGGCTTTG
1 AGCCTAGCAGGCTTCGTGCCAGTGACTTATCAAGCTTTG
* ** * *
57441330 AGCCTAACAGGCTTCACGCTAGCGACTTATCAAGCTTTG
1 AGCCTAGCAGGCTTCGTGCCAGTGACTTATCAAGCTTTG
* * * *
57441369 AGCCTAGCAGGCTTTGTGCCAGTG-TTTATCAGGC-TTA
1 AGCCTAGCAGGCTTCGTGCCAGTGACTTATCAAGCTTTG
* *
57441406 AGGCCTGGCAAGCTTCGTGCC
1 A-GCCTAGCAGGCTTCGTGCC
57441427 GATGTAACGA
Statistics
Matches: 76, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
37 3 0.04
38 24 0.32
39 49 0.64
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.26
Consensus pattern (39 bp):
AGCCTAGCAGGCTTCGTGCCAGTGACTTATCAAGCTTTG
Found at i:57445202 original size:33 final size:33
Alignment explanation
Indices: 57445144--57445273 Score: 113
Period size: 33 Copynumber: 4.0 Consensus size: 33
57445134 CCATGGCATC
* * *
57445144 CACAGAACAGAGATAGTCTGTTGGGACAATAAA
1 CACAGAATAGAGATAGTCTGCTGGGACAGTAAA
* * * *
57445177 CACATAATATAGATAATCTGCTGGGATAGTAAA
1 CACAGAATAGAGATAGTCTGCTGGGACAGTAAA
* * *
57445210 CATAGAATAGAGTTAGTCTGCTGAGACAGTAAA
1 CACAGAATAGAGATAGTCTGCTGGGACAGTAAA
* * *
57445243 CATA-AA-AGAGAAAGT-TCGTTGGGACAGTAAA
1 CACAGAATAGAGATAGTCT-GCTGGGACAGTAAA
57445274 TATGGGGTAA
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
30 1 0.01
31 19 0.24
32 2 0.03
33 56 0.72
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.22
Consensus pattern (33 bp):
CACAGAATAGAGATAGTCTGCTGGGACAGTAAA
Found at i:57447479 original size:3 final size:3
Alignment explanation
Indices: 57447471--57447496 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
57447461 CTCAAGTATC
57447471 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
57447497 TTGCTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:57450967 original size:51 final size:51
Alignment explanation
Indices: 57450890--57451000 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 51
57450880 AATATTGCGA
* *
57450890 GCTAAATTTGTTAAATCATGACCAAATTAAAAAAATGCGTAAATTTT-ATGG
1 GCTAAATTTATTAAATCAAGACCAAATTAAAAAAATGCGTAAATTTTGA-GG
* * * * * *
57450941 GCTAAATTTATTAATTCAAGATCAAATTGACAGAATGTGTAAATTTTGAGG
1 GCTAAATTTATTAAATCAAGACCAAATTAAAAAAATGCGTAAATTTTGAGG
*
57450992 GGTAAATTT
1 GCTAAATTT
57451001 TTTTATTATA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 49 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (51 bp):
GCTAAATTTATTAAATCAAGACCAAATTAAAAAAATGCGTAAATTTTGAGG
Found at i:57462922 original size:19 final size:20
Alignment explanation
Indices: 57462877--57462915 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57462867 ATATTAAAAA
* *
57462877 ATATTTTTTTTATCATTTTG
1 ATATTTTTTTCATAATTTTG
57462897 ATATTTTTTTCATAATTTT
1 ATATTTTTTTCATAATTTT
57462916 TAATTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (20 bp):
ATATTTTTTTCATAATTTTG
Found at i:57463750 original size:27 final size:28
Alignment explanation
Indices: 57463703--57463771 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
57463693 AATATTTATA
57463703 ATATATTATTTTAATATTTAATAA-TTTT
1 ATATATTATTTTAATATTTAA-AATTTTT
*
57463731 ATATATT-TTTT-ATTTATTAAAATTTTT
1 ATATATTATTTTAATAT-TTAAAATTTTT
*
57463758 ATATAGTCATTTTA
1 ATATA-TTATTTTA
57463772 GCATTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
26 5 0.15
27 17 0.50
28 8 0.24
29 4 0.12
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (28 bp):
ATATATTATTTTAATATTTAAAATTTTT
Found at i:57464317 original size:66 final size:66
Alignment explanation
Indices: 57464211--57464375 Score: 215
Period size: 66 Copynumber: 2.5 Consensus size: 66
57464201 AGCAAATTAC
* * * * *
57464211 ACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAATAAAAG-TATGAAGAACTCCAG
*
57464275 CT
65 CA
*
57464277 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAATGAAAGTATGAAGAACTCCAGC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAATAAAAGTATGAAGAACTCCAGC
57464342 A
66 A
* * * *
57464343 ATAGCTTAAAGCAGATGCGGCAGCGAGGGAAGC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGC
57464376 AAAGACTGCA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 83 0.95
67 4 0.05
ACGTcount: A:0.41, C:0.18, G:0.27, T:0.15
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTAAGGTTCAATAAAAGTATGAAGAACTCCAGC
A
Found at i:57464405 original size:17 final size:19
Alignment explanation
Indices: 57464362--57464405 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
57464352 AGCAGATGCG
57464362 GCAGCGAGGGAAGCAAAGAC
1 GCAGCGAGGGAAGC-AAGAC
57464382 TGCAGCGAGGGAAGC-AGA-
1 -GCAGCGAGGGAAGCAAGAC
57464400 GCAGCG
1 GCAGCG
57464406 TAAAAAGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.26
19 3 0.13
21 14 0.61
ACGTcount: A:0.34, C:0.20, G:0.43, T:0.02
Consensus pattern (19 bp):
GCAGCGAGGGAAGCAAGAC
Found at i:57464804 original size:43 final size:41
Alignment explanation
Indices: 57464734--57465028 Score: 146
Period size: 43 Copynumber: 7.0 Consensus size: 41
57464724 GTTTTAAAAA
* * **
57464734 AAAACGCCACTAAAGGTCATGGGCTTTAGCGGCGATTT-TCCC
1 AAAACGCCGCTAAAGATCATGCTCTTTAGCGGCG-TTTAT-CC
**
57464776 ACAAACGCCGCTAAAGATCATGCTCTTTA--GGCGTTTATGG
1 A-AAACGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTATCC
* **
57464816 AAAATGCGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTGTGAT
1 AAAA--CGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTAT-CC
* * * * * *
57464860 AAAAGCGCCACTAAAGATCATGATATTTAGCGGTGTTTGTGCG
1 AAAA-CGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTAT-CC
* * * * * **
57464903 AAAAGCGCCGCTAAAAATCATGGTATTTAGCAGCGTTTGTGTG
1 AAAA-CGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTAT-CC
* * * * * **
57464946 AAAAGCGTCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGG
1 AAAA-CGCCGCTAAAGATCATGCTCTTTAGCGGCGTTT-AT-CC
* * * * *
57464990 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTAT
1 AAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTAT
57465029 TTCTAAAAAT
Statistics
Matches: 210, Mismatches: 35, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.01
40 4 0.02
41 29 0.14
42 2 0.01
43 162 0.77
44 10 0.05
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (41 bp):
AAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTATCC
Found at i:57464939 original size:86 final size:85
Alignment explanation
Indices: 57464781--57465003 Score: 263
Period size: 86 Copynumber: 2.6 Consensus size: 85
57464771 TTCCCACAAA
* * * *
57464781 CGCCGCTAAAGATCATGCTCTTTA--GGCGTTTATGGAAAATGCGCCGCTAAAGATCATGCTCTT
1 CGCCGCTAAAGATCATGATCTTTAGCGGCGTTTGTGGAAAA-GCGCCGCTAAAAATCATGCTATT
*
57464844 TAGCGGCGTTTGTGAT-AAAAG
65 TAGCAGCGTTTGTG-TGAAAAG
* * * *
57464865 CGCCACTAAAGATCATGATATTTAGCGGTGTTTGTGCGAAAAGCGCCGCTAAAAATCATGGTATT
1 CGCCGCTAAAGATCATGATCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAAATCATGCTATT
57464930 TAGCAGCGTTTGTGTGAAAAG
65 TAGCAGCGTTTGTGTGAAAAG
* * * * *
57464951 CGTCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGTTGGGAAAGCGCCGCTAAA
1 CGCCGCTAAAGATCATGATCTTTAGCGGCGTTTG-TGGAAAAGCGCCGCTAAA
57465004 GGTCTTGGTC
Statistics
Matches: 117, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
84 21 0.18
85 1 0.01
86 88 0.75
87 7 0.06
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (85 bp):
CGCCGCTAAAGATCATGATCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAAATCATGCTATTT
AGCAGCGTTTGTGTGAAAAG
Found at i:57465018 original size:129 final size:127
Alignment explanation
Indices: 57464733--57465026 Score: 319
Period size: 129 Copynumber: 2.3 Consensus size: 127
57464723 CGTTTTAAAA
* * *
57464733 AAAAACGCCACTAAAGGTCATGGGCTTTAGCGGCGATTTTCCCACAAACGCCGCTAAAGATCATG
1 AAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCGATTTTCCCACAAACGCCGCTAAAAATCATG
* *
57464798 CTCTTTAGGCGTTTATGGAAAATGCGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTGTGAT
66 CTATTTAGGCGTTTATGGAAAATGCGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTGTGAG
* * * * * *
57464860 AAAAGCGCCACTAAAGATCATGATATTTAGCGGTG-TTTGTGCGA-AAAGCGCCGCTAAAAATCA
1 AAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCGATTT-TCCCACAAA-CGCCGCTAAAAATCA
* * * * * *
57464923 TGGTATTTAGCAGCGTTTGTGTGAAAA-GCGTCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGTT
64 TGCTATTTAG--GCGTTTATG-GAAAATGCGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTG-T
57464987 G-G
125 GAG
* * *
57464989 GAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGC-ATTT
1 AAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCGATTT
57465027 ATTTCTAAAA
Statistics
Matches: 136, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
126 6 0.04
127 54 0.40
129 69 0.51
130 7 0.05
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (127 bp):
AAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCGATTTTCCCACAAACGCCGCTAAAAATCATG
CTATTTAGGCGTTTATGGAAAATGCGCCGCTAAAGATCATGCTCTTTAGCGGCGTTTGTGAG
Found at i:57465138 original size:22 final size:22
Alignment explanation
Indices: 57465103--57465145 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
57465093 TTGCGGCGCT
* *
57465103 AAAAAGCGCAGCTAAAGGCCTA
1 AAAAAACGCAGCTAAAAGCCTA
*
57465125 AAAAAACGCCGCTAAAAGCCT
1 AAAAAACGCAGCTAAAAGCCT
57465146 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAACGCAGCTAAAAGCCTA
Found at i:57465426 original size:9 final size:9
Alignment explanation
Indices: 57465412--57465460 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
57465402 GTTAAACGAA
57465412 TCGAGTTAT
1 TCGAGTTAT
57465421 TCGAGTTAAT
1 TCGAGTT-AT
57465431 T-GAGTTAT
1 TCGAGTTAT
*
57465439 TCGAGTTAA
1 TCGAGTTAT
57465448 TCGAGTTAT
1 TCGAGTTAT
57465457 TCGA
1 TCGA
57465461 ATCAACTCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 3 0.08
9 30 0.83
10 3 0.08
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:57465437 original size:18 final size:18
Alignment explanation
Indices: 57465410--57465460 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
57465400 GAGTTAAACG
57465410 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
*
57465428 AATTGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
57465446 AATCGAGTTATTCGA
1 AATCGAGTTATTCGA
57465461 ATCAACTCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:57466578 original size:5 final size:5
Alignment explanation
Indices: 57466568--57466593 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
57466558 CTCGAAAATT
57466568 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
57466594 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:57468049 original size:15 final size:15
Alignment explanation
Indices: 57468015--57468064 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
57468005 ATTTACATAA
57468015 ATTAATA-AAA-TTT
1 ATTAATATAAATTTT
57468028 ATATAATATAAATTTT
1 AT-TAATATAAATTTT
* * *
57468044 ATTAATTTTAATATT
1 ATTAATATAAATTTT
57468059 ATTAAT
1 ATTAAT
57468065 TAAGTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 2 0.06
14 5 0.16
15 19 0.61
16 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTAATATAAATTTT
Found at i:57468221 original size:21 final size:21
Alignment explanation
Indices: 57468191--57468234 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
57468181 TTTATCATTT
57468191 ATTTTCATAT-TGAATAAATAA
1 ATTTTCATATAT-AATAAATAA
* *
57468212 ATTTTTATATATAATATATAA
1 ATTTTCATATATAATAAATAA
57468233 AT
1 AT
57468235 GTAAAATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTTCATATATAATAAATAA
Found at i:57469278 original size:40 final size:40
Alignment explanation
Indices: 57469229--57469308 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
57469219 TGAACTCATA
*
57469229 TGTATCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
1 TGTACCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
57469269 TGTACCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
1 TGTACCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
57469309 GCTTGTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (40 bp):
TGTACCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
Found at i:57473844 original size:26 final size:26
Alignment explanation
Indices: 57473815--57473870 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
57473805 TCCTCTCTCC
*
57473815 AGCCATATAATAG-GAAGCTCATAAAA
1 AGCCAT-TAATAGAGAAGCTCACAAAA
* *
57473841 AGCCATTAATCGAGAAGCTCACAAAG
1 AGCCATTAATAGAGAAGCTCACAAAA
57473867 AGCC
1 AGCC
57473871 TATCAGAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (26 bp):
AGCCATTAATAGAGAAGCTCACAAAA
Found at i:57476841 original size:20 final size:18
Alignment explanation
Indices: 57476810--57476848 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
57476800 ATAACAAGAA
*
57476810 AATAAAAAAATAAACAAT
1 AATAAAAAAATAAAAAAT
57476828 AATAAAATACAATAAAAAAT
1 AATAAAA-A-AATAAAAAAT
57476848 A
1 A
57476849 TTCTTACCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (18 bp):
AATAAAAAAATAAAAAAT
Found at i:57477050 original size:12 final size:12
Alignment explanation
Indices: 57477006--57477058 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
57476996 AGAGAAATAA
*
57477006 AATTTGAGTGAG
1 AATTTGAGAGAG
* *
57477018 AATTTAAGAGTG
1 AATTTGAGAGAG
57477030 AA-TT-A-AGAG
1 AATTTGAGAGAG
57477039 AATTTGAGAGAG
1 AATTTGAGAGAG
57477051 -ATTTGAGA
1 AATTTGAGA
57477059 ATGTGAAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
9 5 0.15
10 3 0.09
11 11 0.32
12 15 0.44
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (12 bp):
AATTTGAGAGAG
Found at i:57487535 original size:279 final size:275
Alignment explanation
Indices: 57487013--57487570 Score: 715
Period size: 279 Copynumber: 2.0 Consensus size: 275
57487003 ATATTTATAA
* * *
57487013 ACTGAAATAATAAAAAATGTGTCCATAACAAAAAAATTTTAAATTACAAACTCCACTAAATCGAA
1 ACTGAAATAATAAAAAATGTGTCCATAACAAAAAAATTTAAAACTACAAACTCCACTAAATCAAA
* *
57487078 TTAATATAATGAAACAATGTTACACCCATGAGTAGCGTCCCCATAAAAACCTTGGGTGGTAGTCC
66 TTAATATAAGGAAACAATGTTACACCCATGAGCAGCGTCCCCATAAAAACCTTGGGTGGTAGTCC
* * * * *
57487143 TTTAGTAAGCGAATCCGCAATTATGGAGTTTGTTTCAATATATTTTATAGACACTTGATCACTTT
131 TTTAGTAAGCGAATCCGCAATTATGGAATTTGTCTCAATATACTTTATAGACACCTGACCACTTT
* * * * * *
57487208 AAACTCTTACTTTAACACTTAGAAATTTAAAGTCCATGTGCATTGACTTTGATGTCCTCTTGTTG
196 AAACTCCTACTTTAACAATTAGAAATTTAAAGTCCATGTGCATTGACTTTCATGTCCTCATATTA
*
57487273 TTATTGGAATAAAGG
261 TTATTGGAATAAAAG
* *
57487288 ACTGAAATAACT-AAAAATGTGTCTATAACAAAAACTATTTAAAACTAC-AACTCCTACTAAAAT
1 ACTGAAATAA-TAAAAAATGTGTCCATAACAAAAA-AATTTAAAACTACAAACTCC-ACT-AAAT
* ** ** * * *
57487351 CAAATTAGTATCCGGAAATGATGTTACATCCATATGAGCAGTGTTCCCATAAAAACCTTGGGTGG
62 CAAATTAATATAAGGAAACAATGTTACA-CC-CATGAGCAGCGTCCCCATAAAAACCTTGGGTGG
* * *
57487416 TAGTCCTTTAGTAAGTGAATTCGCAATTATGGAATTTGTCTCAGTATACTTTATAGACACCTGAC
125 TAGTCCTTTAGTAAGCGAATCCGCAATTATGGAATTTGTCTCAATATACTTTATAGACACCTGAC
* * * * * * *
57487481 CGCTTTGAACTCCTATTTTAACAATTAGGAATTTAGAGTCTATGTGCCTTGACTTTCATGTCCTC
190 CACTTTAAACTCCTACTTTAACAATTAGAAATTTAAAGTCCATGTGCATTGACTTTCATGTCCTC
57487546 ATATTATTATTGGAATAAAAG
255 ATATTATTATTGGAATAAAAG
57487567 ACTG
1 ACTG
57487571 TCATTTATTG
Statistics
Matches: 240, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
275 37 0.15
276 14 0.06
277 25 0.10
278 2 0.01
279 162 0.68
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (275 bp):
ACTGAAATAATAAAAAATGTGTCCATAACAAAAAAATTTAAAACTACAAACTCCACTAAATCAAA
TTAATATAAGGAAACAATGTTACACCCATGAGCAGCGTCCCCATAAAAACCTTGGGTGGTAGTCC
TTTAGTAAGCGAATCCGCAATTATGGAATTTGTCTCAATATACTTTATAGACACCTGACCACTTT
AAACTCCTACTTTAACAATTAGAAATTTAAAGTCCATGTGCATTGACTTTCATGTCCTCATATTA
TTATTGGAATAAAAG
Found at i:57490911 original size:62 final size:62
Alignment explanation
Indices: 57490830--57490960 Score: 217
Period size: 62 Copynumber: 2.1 Consensus size: 62
57490820 TTATACTTTC
*
57490830 TTTTGTTTTTATATATTAAGGCTTTCAGTTAAAATAATAATAAAATTATTTTCGTTAAAGAG
1 TTTTGTTTTTAGATATTAAGGCTTTCAGTTAAAATAATAATAAAATTATTTTCGTTAAAGAG
* * *
57490892 TTTTGTTTTTAGATATTAAGGCTTTTAGTTAAAATAATAATAAAATTGTTTTTGTTAAAGAG
1 TTTTGTTTTTAGATATTAAGGCTTTCAGTTAAAATAATAATAAAATTATTTTCGTTAAAGAG
57490954 TATTTGT
1 T-TTTGT
57490961 CAACTATTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 59 0.92
63 5 0.08
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (62 bp):
TTTTGTTTTTAGATATTAAGGCTTTCAGTTAAAATAATAATAAAATTATTTTCGTTAAAGAG
Found at i:57497154 original size:15 final size:15
Alignment explanation
Indices: 57497126--57497167 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
57497116 TATTATTTTT
*
57497126 AATTTAATAT-TTAA
1 AATTTTATATATTAA
* *
57497140 TATTTTATTTATTAA
1 AATTTTATATATTAA
57497155 AATTTTATATATT
1 AATTTTATATATT
57497168 CTCATCTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTTTATATATTAA
Found at i:57498830 original size:20 final size:20
Alignment explanation
Indices: 57498796--57498837 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
57498786 AACTATTTAA
** *
57498796 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
57498816 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
57498836 AT
1 AT
57498838 GTATTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:57505461 original size:52 final size:52
Alignment explanation
Indices: 57505401--57505504 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
57505391 CTAGCCAAAG
57505401 TAAGGGTGTCGCAAGATACCTGACAATCATGTAAAGCATGTAAGACAGATTC
1 TAAGGGTGTCGCAAGATACCTGACAATCATGTAAAGCATGTAAGACAGATTC
57505453 TAAGGGTGTCGCAAGATACCTGACAATCATGTAAAGCATGTAAGACAGATTC
1 TAAGGGTGTCGCAAGATACCTGACAATCATGTAAAGCATGTAAGACAGATTC
57505505 AGTAGGCACC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (52 bp):
TAAGGGTGTCGCAAGATACCTGACAATCATGTAAAGCATGTAAGACAGATTC
Found at i:57512971 original size:3 final size:3
Alignment explanation
Indices: 57512963--57512992 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
57512953 TTCAACAAGA
57512963 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
57512993 GGGAAGGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:57514198 original size:17 final size:17
Alignment explanation
Indices: 57514173--57514206 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57514163 TATGTGTTAT
*
57514173 TCAGGACCTTCATTTGA
1 TCAGAACCTTCATTTGA
57514190 TCAGAACCTTCATTTGA
1 TCAGAACCTTCATTTGA
57514207 GGGAGCTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (17 bp):
TCAGAACCTTCATTTGA
Found at i:57517099 original size:156 final size:156
Alignment explanation
Indices: 57516809--57517115 Score: 506
Period size: 156 Copynumber: 2.0 Consensus size: 156
57516799 TATGGCTTCT
*
57516809 ATCACTTGTGAGCTCAAATGGCTGAAGGCCTTACTATTGAGCTTAGATGTTCATCATTCTAAAGC
1 ATCACTTGTAAGCTCAAATGGCTGAAGGCCTTACTATTGAGCTTAGATGTTCATCATTCTAAAGC
57516874 AATTCCTTTATTTTGTGATAGTCAATCTGCGCTGCATATTGCACACAATCCCGTATTTCACGAGC
66 AATTCCTTTATTTTGTGATAGTCAATCTGCGCTGCATATTGCACACAATCCCGTATTTCACGAGC
57516939 ATACTAAACATATTGAAGTGGCATCC
131 ATACTAAACATATTGAAGTGGCATCC
* * * * *
57516965 ATCACTTGTAAGCTCAAGTGGCTGAAGGCCTTGCTGTTGAGCTTAGGTGTTCATCATTTTAAAGC
1 ATCACTTGTAAGCTCAAATGGCTGAAGGCCTTACTATTGAGCTTAGATGTTCATCATTCTAAAGC
* * * * * *
57517030 AATTCCTTTATTTTGTGATAGTCAATTTGCGTTGCATATTGCACAGAATCCCTTATTTCATGAGT
66 AATTCCTTTATTTTGTGATAGTCAATCTGCGCTGCATATTGCACACAATCCCGTATTTCACGAGC
57517095 ATACTAAACATATTGAAGTGG
131 ATACTAAACATATTGAAGTGG
57517116 ATTGTCACTT
Statistics
Matches: 139, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
156 139 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (156 bp):
ATCACTTGTAAGCTCAAATGGCTGAAGGCCTTACTATTGAGCTTAGATGTTCATCATTCTAAAGC
AATTCCTTTATTTTGTGATAGTCAATCTGCGCTGCATATTGCACACAATCCCGTATTTCACGAGC
ATACTAAACATATTGAAGTGGCATCC
Found at i:57517481 original size:17 final size:17
Alignment explanation
Indices: 57517459--57517493 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
57517449 TTGGCAATTA
*
57517459 ATAAAATTTTTAAATAT
1 ATAAAATTATTAAATAT
*
57517476 ATAAAATTATTGAATAT
1 ATAAAATTATTAAATAT
57517493 A
1 A
57517494 ATTGAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
ATAAAATTATTAAATAT
Found at i:57524829 original size:45 final size:45
Alignment explanation
Indices: 57524778--57524863 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
57524768 AGCTTCACAT
* * * *
57524778 AAGGGATCGCATAGCAATTTTACAATAGGGTTCGCATAACAGTTA
1 AAGGGATCACATAGCAATTCTACAACAGCGTTCGCATAACAGTTA
* * *
57524823 AAGGGATCACATAGTAGTTCTACAACAGCGTTTGCATAACA
1 AAGGGATCACATAGCAATTCTACAACAGCGTTCGCATAACA
57524864 TTTACTAAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (45 bp):
AAGGGATCACATAGCAATTCTACAACAGCGTTCGCATAACAGTTA
Found at i:57524877 original size:22 final size:22
Alignment explanation
Indices: 57524852--57524916 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
57524842 CTACAACAGC
*
57524852 GTTTGCATAACATTTACTAAGG
1 GTTTGCATAACATTCACTAAGG
* *
57524874 GTTTGCATAAGATACACTAAGG
1 GTTTGCATAACATTCACTAAGG
*
57524896 GTTCGCATAACATTCACTAAG
1 GTTTGCATAACATTCACTAAG
57524917 AGTTCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (22 bp):
GTTTGCATAACATTCACTAAGG
Found at i:57524921 original size:22 final size:22
Alignment explanation
Indices: 57524856--57524926 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
57524846 AACAGCGTTT
* *
57524856 GCATAACATTTACTAAGGGTTT
1 GCATAACATTCACTAAGGGTTC
* *
57524878 GCATAAGATACACTAAGGGTTC
1 GCATAACATTCACTAAGGGTTC
*
57524900 GCATAACATTCACTAAGAGTTC
1 GCATAACATTCACTAAGGGTTC
*
57524922 ACATA
1 GCATA
57524927 CTAAATCACA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (22 bp):
GCATAACATTCACTAAGGGTTC
Found at i:57524945 original size:24 final size:24
Alignment explanation
Indices: 57524909--57525011 Score: 120
Period size: 24 Copynumber: 4.4 Consensus size: 24
57524899 CGCATAACAT
*
57524909 TCAC-TAAGAGTTCACATACTAAA
1 TCACATAAGGGTTCACATACTAAA
*
57524932 TCACATAAAGGTTCACATACTAAA
1 TCACATAAGGGTTCACATACTAAA
* ** *
57524956 TCATATGGGGGTTCGCATACTAAA
1 TCACATAAGGGTTCACATACTAAA
* *
57524980 TCATATAAGGGTTC-CATACTCAA
1 TCACATAAGGGTTCACATACTAAA
57525003 TCACATAAG
1 TCACATAAG
57525012 TTTTTGCATG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
23 20 0.29
24 48 0.71
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (24 bp):
TCACATAAGGGTTCACATACTAAA
Found at i:57529868 original size:21 final size:21
Alignment explanation
Indices: 57529842--57529882 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57529832 AGACGAGCAA
* *
57529842 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
57529863 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
57529883 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:57534037 original size:27 final size:26
Alignment explanation
Indices: 57533965--57534043 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 26
57533955 CCATAAATTA
* *
57533965 GAAAATATGTTTGATAAATAAAAATAG
1 GAAAATAT-TTTCAAAAATAAAAATAG
** *
57533992 GAATTTATTTTCAATAATAAAAATAG
1 GAAAATATTTTCAAAAATAAAAATAG
*
57534018 TGAAAATATTCTT-AAAAATACAAATA
1 -GAAAATATT-TTCAAAAATAAAAATA
57534044 AAAAAATTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 15 0.37
27 24 0.59
28 2 0.05
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (26 bp):
GAAAATATTTTCAAAAATAAAAATAG
Found at i:57537394 original size:9 final size:9
Alignment explanation
Indices: 57537380--57537410 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
57537370 GTTAAACGAA
57537380 TCGAGTTAT
1 TCGAGTTAT
*
57537389 TCGAGTTAA
1 TCGAGTTAT
57537398 TCGAGTTAT
1 TCGAGTTAT
57537407 TCGA
1 TCGA
57537411 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:57537480 original size:9 final size:9
Alignment explanation
Indices: 57537463--57537499 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
57537453 TGAGTTTTCG
57537463 AATTCGAAT
1 AATTCGAAT
*
57537472 AACTCGAAT
1 AATTCGAAT
57537481 AATTCGAAT
1 AATTCGAAT
57537490 AATTCGAAT
1 AATTCGAAT
57537499 A
1 A
57537500 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:57537749 original size:31 final size:31
Alignment explanation
Indices: 57537713--57537772 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
57537703 AAACCTTTTA
*
57537713 TTTCCCTCCAAAATTTTTACTCCC-TCCCACT
1 TTTCCCT-CAAAACTTTTACTCCCATCCCACT
* *
57537744 TTTCCCTTAAAACTTTTATTCCCATCCCA
1 TTTCCCTCAAAACTTTTACTCCCATCCCA
57537773 TCTCACCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTCCCTCAAAACTTTTACTCCCATCCCACT
Found at i:57543797 original size:45 final size:45
Alignment explanation
Indices: 57543748--57543834 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
57543738 TAAATTATGC
57543748 TTTTAGTTATTAAATTTTAACTTCTTACAAAATAATTATTAAAAT
1 TTTTAGTTATTAAATTTTAACTTCTTACAAAATAATTATTAAAAT
* *
57543793 TTTTAGTTATTAAATTTTAATTTGTTACAAAATAATTATTAA
1 TTTTAGTTATTAAATTTTAACTTCTTACAAAATAATTATTAA
57543835 CATTGTTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (45 bp):
TTTTAGTTATTAAATTTTAACTTCTTACAAAATAATTATTAAAAT
Found at i:57545363 original size:105 final size:105
Alignment explanation
Indices: 57545181--57545390 Score: 384
Period size: 105 Copynumber: 2.0 Consensus size: 105
57545171 TCACTATTTA
* *
57545181 ATAGTAGTATTTGTGACACGTGATATTTCTGATAAGTCTTGAATGTCGGACAGTGATTTAATGAC
1 ATAGTAGTATTTGTGACACATGATATTTCTGATAAGTCTTGAATGTAGGACAGTGATTTAATGAC
57545246 CATTTTGTAATAAATTAAAGTTTAATGATTAAAAAGTAAT
66 CATTTTGTAATAAATTAAAGTTTAATGATTAAAAAGTAAT
**
57545286 ATAGTAGTATTTGTGACACATGATATTTCTGATAAGTCTTGAATGTAGGGTAGTGATTTAATGAC
1 ATAGTAGTATTTGTGACACATGATATTTCTGATAAGTCTTGAATGTAGGACAGTGATTTAATGAC
57545351 CATTTTGTAATAAATTAAAGTTTAATGATTAAAAAGTAAT
66 CATTTTGTAATAAATTAAAGTTTAATGATTAAAAAGTAAT
57545391 TTAAACTATA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 101 1.00
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.39
Consensus pattern (105 bp):
ATAGTAGTATTTGTGACACATGATATTTCTGATAAGTCTTGAATGTAGGACAGTGATTTAATGAC
CATTTTGTAATAAATTAAAGTTTAATGATTAAAAAGTAAT
Found at i:57550363 original size:23 final size:23
Alignment explanation
Indices: 57550337--57550382 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
57550327 GCAAAAGAAG
57550337 AAACTGACAAAAAAAATAGAGTT
1 AAACTGACAAAAAAAATAGAGTT
*
57550360 AAACTGACAGAAAAAATAGAGTT
1 AAACTGACAAAAAAAATAGAGTT
57550383 TCTCTTAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.17
Consensus pattern (23 bp):
AAACTGACAAAAAAAATAGAGTT
Found at i:57569579 original size:39 final size:39
Alignment explanation
Indices: 57569529--57569624 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 39
57569519 CATATTCACT
* *
57569529 TTTAAGCATATATCACATTACA-T-ATATAATCACATAACA
1 TTTAAGAATATATCACA--ACACTCATATAATCACACAACA
57569568 TTTAAGAATATATCACAACACTCATATAATCACACAACA
1 TTTAAGAATATATCACAACACTCATATAATCACACAACA
* * * *
57569607 CTCAAGCATATATTACAA
1 TTTAAGAATATATCACAA
57569625 TACTTGTAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
37 3 0.06
38 1 0.02
39 45 0.92
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (39 bp):
TTTAAGAATATATCACAACACTCATATAATCACACAACA
Found at i:57584568 original size:13 final size:12
Alignment explanation
Indices: 57584544--57584584 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
57584534 GTCCGTTAGA
57584544 AGTTAG-TTGTT
1 AGTTAGTTTGTT
57584555 AGTTAGTTTTGTT
1 AGTTAG-TTTGTT
57584568 AAGTTAGTTTGTT
1 -AGTTAGTTTGTT
57584581 AGTT
1 AGTT
57584585 TTGTAACCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.22
12 4 0.15
13 11 0.41
14 6 0.22
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (12 bp):
AGTTAGTTTGTT
Found at i:57584584 original size:22 final size:21
Alignment explanation
Indices: 57584548--57584588 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
57584538 GTTAGAAGTT
57584548 AGTTGTTAGTTAGTTTTGTTA
1 AGTTGTTAGTTAGTTTTGTTA
*
57584569 AGTTAGTTTGTTAGTTTTGT
1 AGTT-GTTAGTTAGTTTTGT
57584589 AACCGTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.17, C:0.00, G:0.24, T:0.59
Consensus pattern (21 bp):
AGTTGTTAGTTAGTTTTGTTA
Found at i:57585988 original size:14 final size:14
Alignment explanation
Indices: 57585969--57585995 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57585959 ATTTAGATTT
57585969 AGATCAATTTCAAA
1 AGATCAATTTCAAA
57585983 AGATCAATTTCAA
1 AGATCAATTTCAA
57585996 CAGAGGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (14 bp):
AGATCAATTTCAAA
Found at i:57586195 original size:4 final size:4
Alignment explanation
Indices: 57586186--57586227 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
57586176 ACAAAACATG
*
57586186 GATA GATA GATA GATA GATA AATA GATA GATA GATA GATA GA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GA
57586228 CTCCAAATCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
GATA
Found at i:57587672 original size:31 final size:29
Alignment explanation
Indices: 57587635--57587704 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 29
57587625 TTAGTAAAGG
*
57587635 TAAAATTATATTTTATCCTCCTTAAAA-TTA
1 TAAAATTATATTTAATCCT--TTAAAAGTTA
57587665 TAAAAATT-TAATTTAATCCTTTAAAAGTTA
1 T-AAAATTAT-ATTTAATCCTTTAAAAGTTA
57587695 TAAAATTATA
1 TAAAATTATA
57587705 GATTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
29 13 0.37
30 7 0.20
31 15 0.43
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.44
Consensus pattern (29 bp):
TAAAATTATATTTAATCCTTTAAAAGTTA
Found at i:57602143 original size:40 final size:40
Alignment explanation
Indices: 57602099--57602182 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
57602089 GTATCTAGGG
57602099 TTTGCCGCCCTTCACAATTAAAACTAGGCCTATTTGGGTC
1 TTTGCCGCCCTTCACAATTAAAACTAGGCCTATTTGGGTC
57602139 TTTGCCGCCCTTCACAATTAAAACTAGGCCTATTTGGGTC
1 TTTGCCGCCCTTCACAATTAAAACTAGGCCTATTTGGGTC
57602179 TTTG
1 TTTG
57602183 TGTTTTGGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (40 bp):
TTTGCCGCCCTTCACAATTAAAACTAGGCCTATTTGGGTC
Found at i:57603750 original size:31 final size:31
Alignment explanation
Indices: 57603715--57603789 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
57603705 CAACCATGCA
*
57603715 AATTTTTAATTTGGCCACTAAAT-TTTTAGAT
1 AATTTCTAATTTGGCCACT-AATGTTTTAGAT
* * *
57603746 AATTTCTATTTTGGTCACTTATGTTTTAGAT
1 AATTTCTAATTTGGCCACTAATGTTTTAGAT
*
57603777 CATTTCT-ATTTGG
1 AATTTCTAATTTGG
57603790 GTCACTCTCC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 7 0.19
31 30 0.81
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52
Consensus pattern (31 bp):
AATTTCTAATTTGGCCACTAATGTTTTAGAT
Found at i:57605221 original size:31 final size:31
Alignment explanation
Indices: 57605181--57605242 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
57605171 AAAGAGTGAT
* *
57605181 CAAAATAGAAATGATCTAAAATGTGAGTGGC
1 CAAAATAGAAATAATCTAAAACGTGAGTGGC
* *
57605212 CAAAGTAGAAATAATCTAAAACGTTAGTGGC
1 CAAAATAGAAATAATCTAAAACGTGAGTGGC
57605243 TAAATTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (31 bp):
CAAAATAGAAATAATCTAAAACGTGAGTGGC
Found at i:57606092 original size:15 final size:15
Alignment explanation
Indices: 57606044--57606086 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
57606034 TTTAAAATTA
57606044 TTTATATTATTTATAT
1 TTTATA-TATTTATAT
57606060 TTTA-ATATTTAATAAT
1 TTTATATATTT-AT-AT
57606076 TTTATATATTT
1 TTTATATATTT
57606087 TCATTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.21
15 3 0.12
16 10 0.42
17 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTATATATTTATAT
Found at i:57606105 original size:25 final size:25
Alignment explanation
Indices: 57606042--57606106 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
57606032 TTTTTAAAAT
*
57606042 TATTT-ATATTATT-TATATTTTAA
1 TATTTAATAATATTATATATTTTAA
* *
57606065 TATTTAATAATTTTATATATTTTCA
1 TATTTAATAATATTATATATTTTAA
*
57606090 TTTATTAA-AATATTATA
1 TAT-TTAATAATATTATA
57606107 CTTAAACAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.15
24 6 0.18
25 19 0.56
26 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTAATAATATTATATATTTTAA
Found at i:57607162 original size:39 final size:40
Alignment explanation
Indices: 57607096--57607204 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 40
57607086 GTTTGGACAT
**
57607096 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTCTTAGA
1 AAAACGCCGCTAAAAATAAAGCATTAGCGGCGCTCTTAGA
* **
57607136 AAAACGCCGCT-AAAATAAAGCATTAGCGGCGCTTTTTTA
1 AAAACGCCGCTAAAAATAAAGCATTAGCGGCGCTCTTAGA
* * *
57607175 AAAACGCTGTTAAAAATATAGCATTAGCGG
1 AAAACGCCGCTAAAAATAAAGCATTAGCGG
57607205 TGTTTTCCAG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 32 0.53
40 28 0.47
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATAAAGCATTAGCGGCGCTCTTAGA
Found at i:57607342 original size:40 final size:40
Alignment explanation
Indices: 57607298--57607373 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
57607288 TGCTCGGGGC
* * *
57607298 TTTAGTGGCGTTTTTAAAAAAGCGTCACTAATGCTCTTTT
1 TTTAGCGGCGTTTTCAAAAAAGCGCCACTAATGCTCTTTT
* * *
57607338 TTTAGCGGTGTTTTCCAATAAGCGCCACTAATGCTC
1 TTTAGCGGCGTTTTCAAAAAAGCGCCACTAATGCTC
57607374 AGTGGCTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (40 bp):
TTTAGCGGCGTTTTCAAAAAAGCGCCACTAATGCTCTTTT
Found at i:57607789 original size:14 final size:14
Alignment explanation
Indices: 57607758--57607806 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
57607748 TATCACTATA
* *
57607758 GTTTAGGGTTTTTA
1 GTTTAGGGTTTATG
*
57607772 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
57607786 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
57607800 GTTTAGG
1 GTTTAGG
57607807 TGTTACCATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:57607856 original size:7 final size:7
Alignment explanation
Indices: 57607816--57607947 Score: 58
Period size: 7 Copynumber: 18.6 Consensus size: 7
57607806 GTGTTACCAT
*
57607816 TTTAAGG
1 TTTATGG
57607823 TTTATGG
1 TTTATGG
*
57607830 ATTATGG
1 TTTATGG
57607837 ATTTATGAG
1 -TTTATG-G
57607846 -TTATGG
1 TTTATGG
*
57607852 TTTATGA
1 TTTATGG
57607859 TTTATGG
1 TTTATGG
*
57607866 TTTAAAGG
1 TTT-ATGG
* *
57607874 -CTGTGG
1 TTTATGG
*
57607880 TTTAAGG
1 TTTATGG
57607887 TTTA-GAG
1 TTTATG-G
*
57607894 GTTAT-G
1 TTTATGG
*
57607900 TGTTAAGG
1 T-TTATGG
*
57607908 ATCTATGG
1 -TTTATGG
57607916 TTTTATGG
1 -TTTATGG
57607924 TTTA-GG
1 TTTATGG
*
57607930 TTTATAG
1 TTTATGG
*
57607937 TTTAGGG
1 TTTATGG
57607944 TTTA
1 TTTA
57607948 GATTAACTAG
Statistics
Matches: 92, Mismatches: 22, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
6 11 0.12
7 60 0.65
8 19 0.21
9 2 0.02
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:57607857 original size:14 final size:14
Alignment explanation
Indices: 57607821--57607869 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
57607811 ACCATTTTAA
57607821 GGTTTATG-GATTAT
1 GGTTTATGAG-TTAT
57607835 GGATTTATGAGTTAT
1 GG-TTTATGAGTTAT
*
57607850 GGTTTATGATTTAT
1 GGTTTATGAGTTAT
57607864 GGTTTA
1 GGTTTA
57607870 AAGGCTGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 19 0.59
15 12 0.38
16 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
GGTTTATGAGTTAT
Found at i:57608020 original size:14 final size:14
Alignment explanation
Indices: 57608003--57608122 Score: 52
Period size: 14 Copynumber: 8.5 Consensus size: 14
57607993 TTATAGTTTT
57608003 GGGTTTATGATTTA
1 GGGTTTATGATTTA
*
57608017 GGGTATAT-AGTTTA
1 GGGTTTATGA-TTTA
* *
57608031 GGGTTTAAGGTTTA
1 GGGTTTATGATTTA
57608045 GGAG-TTACT-ATATTA
1 GG-GTTTA-TGAT-TTA
*
57608060 AGG-TTATGGA-TTA
1 GGGTTTAT-GATTTA
* * *
57608073 TGGATTATGGGTTTA
1 GGGTTTAT-GATTTA
*
57608088 GGGATTATGATTTA
1 GGGTTTATGATTTA
* *
57608102 TGGTTTATGGTTTA
1 GGGTTTATGATTTA
*
57608116 AGGTTTA
1 GGGTTTA
57608123 GGGGTTAAGG
Statistics
Matches: 82, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
13 7 0.09
14 59 0.72
15 16 0.20
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (14 bp):
GGGTTTATGATTTA
Found at i:57608092 original size:22 final size:21
Alignment explanation
Indices: 57608067--57608108 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
57608057 TTAAGGTTAT
57608067 GGATTATGGA-TTATGGGTTTAG
1 GGATTAT-GATTTAT-GGTTTAG
57608089 GGATTATGATTTATGGTTTA
1 GGATTATGATTTATGGTTTA
57608109 TGGTTTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (21 bp):
GGATTATGATTTATGGTTTAG
Found at i:57608112 original size:7 final size:7
Alignment explanation
Indices: 57608063--57608122 Score: 57
Period size: 7 Copynumber: 8.4 Consensus size: 7
57608053 TATATTAAGG
*
57608063 TTATGGA
1 TTATGGT
*
57608070 TTATGGA
1 TTATGGT
57608077 TTATGGGT
1 TTAT-GGT
* *
57608085 TTAGGGA
1 TTATGGT
*
57608092 TTATGAT
1 TTATGGT
57608099 TTATGGT
1 TTATGGT
57608106 TTATGGT
1 TTATGGT
*
57608113 TTAAGGT
1 TTATGGT
57608120 TTA
1 TTA
57608123 GGGGTTAAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 39 0.89
8 5 0.11
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:57608141 original size:6 final size:6
Alignment explanation
Indices: 57608130--57608181 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
57608120 TTAGGGGTTA
57608130 AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT
1 AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT AGGGCT
57608178 AGGG
1 AGGG
57608182 GTTTAGGGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.17, C:0.15, G:0.52, T:0.15
Consensus pattern (6 bp):
AGGGCT
Found at i:57610227 original size:17 final size:17
Alignment explanation
Indices: 57610202--57610240 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
57610192 TAATTGCTCT
*
57610202 TATATATATTTTTTATA
1 TATACATATTTTTTATA
57610219 TATACATATTTTTTATA
1 TATACATATTTTTTATA
57610236 TATAC
1 TATAC
57610241 TTACGTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TATACATATTTTTTATA
Found at i:57610944 original size:17 final size:18
Alignment explanation
Indices: 57610922--57610963 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
57610912 CGTGAATATC
57610922 ATATTTTAAAA-AAGGAA
1 ATATTTTAAAATAAGGAA
* *
57610939 ATATTTCAAAATAAGGCA
1 ATATTTTAAAATAAGGAA
57610957 ATATTTT
1 ATATTTT
57610964 GCGTTTGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (18 bp):
ATATTTTAAAATAAGGAA
Found at i:57611145 original size:109 final size:108
Alignment explanation
Indices: 57610937--57611231 Score: 495
Period size: 109 Copynumber: 2.7 Consensus size: 108
57610927 TTAAAAAAGG
*
57610937 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
1 AAAT-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
57611002 GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTT-AA
65 GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTCAA
* *
57611045 AAACTTTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTACTG
1 AAA-TTTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
* *
57611110 GGTTTCGATTTCTCATTCGACCAAAT-GATTTAATATCCTTTTCAA
64 GGTTTCGATTTCTCATTCGACCAAATAG-CTAAATATCCTTTTCAA
57611155 AAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGG
1 AAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGG
57611220 TTTCGATTTCTC
66 TTTCGATTTCTC
57611232 GGCAATGTTT
Statistics
Matches: 176, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
108 75 0.43
109 96 0.55
110 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (108 bp):
AAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGG
TTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTCAA
Found at i:57614996 original size:10 final size:10
Alignment explanation
Indices: 57614983--57615037 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
57614973 CAAAAATAGG
57614983 AGAAAAAGAA
1 AGAAAAAGAA
57614993 AGAAGAAA-AA
1 AGAA-AAAGAA
57615003 AGAAAAAGAA
1 AGAAAAAGAA
57615013 AG---AAGAA
1 AGAAAAAGAA
*
57615020 AAAAAAAGAA
1 AGAAAAAGAA
57615030 AGAGAAAA
1 AGA-AAAA
57615038 AGGAGAGGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
7 6 0.16
9 3 0.08
10 21 0.57
11 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:57615001 original size:13 final size:12
Alignment explanation
Indices: 57614983--57615039 Score: 64
Period size: 12 Copynumber: 4.7 Consensus size: 12
57614973 CAAAAATAGG
57614983 AGAAAAAGAAAGA
1 AGAAAAAGAAA-A
57614996 AGAAAAAAGAAAA
1 AG-AAAAAGAAAA
57615009 AGAAAGAAG-AAA
1 AGAAA-AAGAAAA
*
57615021 A-AAAAAGAAAG
1 AGAAAAAGAAAA
57615032 AGAAAAAG
1 AGAAAAAG
57615040 GAGAGGTCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
10 3 0.08
11 6 0.15
12 13 0.33
13 8 0.21
14 9 0.23
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAAA
Found at i:57615008 original size:20 final size:20
Alignment explanation
Indices: 57614983--57615038 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
57614973 CAAAAATAGG
57614983 AGAAAAAGAAAGAAGAAAAA
1 AGAAAAAGAAAGAAGAAAAA
57615003 AGAAAAAGAAAGAAG--AAA
1 AGAAAAAGAAAGAAGAAAAA
57615021 A-AAAAAGAAAG-AGAAAAA
1 AGAAAAAGAAAGAAGAAAAA
57615039 GGAGAGGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.06
17 10 0.29
18 7 0.21
20 15 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AGAAAAAGAAAGAAGAAAAA
Found at i:57617553 original size:85 final size:85
Alignment explanation
Indices: 57617297--57618329 Score: 693
Period size: 85 Copynumber: 12.0 Consensus size: 85
57617287 GTTGCAATGA
* * **** *
57617297 AGCGGATTAAAATAAATGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCACACCAGGTCTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
* *
57617362 TTTCCCTGAGATTATAGTGG
66 TCTCCCTGAGATTACAGTGG
* * ** ** * ** * * *
57617382 AACAGACCGAAGAATTTCA-GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGTT-AG
1 AGCGGA-TTAA-AA-TAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCG--TTTCAG
*
57617444 TAATCCTATCTCCCTGAGATTACAGTGG
60 --ATCTTATCTCCCTGAGATTACAGTGG
*
57617472 AGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
*
57617537 TCTCCCCGAGATTACAGTGG
66 TCTCCCTGAGATTACAGTGG
* * * * *
57617557 AGTGGATTAAAATAAAGGATCATATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
*
57617622 TCTCCCTGAGATTACAGCGG
66 TCTCCCTGAGATTACAGTGG
* * * * * * * * * *** **
57617642 AGCAGATTGAAGT-TAGTAATCCTATCTCCCTG-AGATTACAGTGGAGTGGATTAAAATAAAGGA
1 AGCGGATTAAAATAAAG-GATCTTATCTCTCTGAAG-TTACAGTAGAGTAGA-T-CGTTTCA-GA
* * *
57617705 TCTTATCTCTCTGA-AGTTAGAGTAG
61 TCTTATCTCCCTGAGA-TTACAGTGG
** *** * * * ** * * *
57617730 AGAAGA-TCGTAT-CAGG-TTTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGTT-AGTAA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCG--TTTCAG--A
*
57617790 TCCTATCTCCCTGAGATTACAGTGG
61 TCTTATCTCCCTGAGATTACAGTGG
57617815 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
57617880 TCTCCCTGAGATTACAGTGG
66 TCTCCCTGAGATTACAGTGG
* * * *
57617900 AGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
57617965 TCTCCCTGAGATTACAGTGG
66 TCTCCCTGAGATTACAGTGG
* *
57617985 AGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGTGTT-AGATCTT
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGT-TTCAGATCTT
*
57618049 ATCTCCCTGAGATTACAGCGG
65 ATCTCCCTGAGATTACAGTGG
* * * * * * * * * * *** **
57618070 AGCAGATTGAAGT-TAGTAATCCTATCTCCCTG-AGATTATAGTGGAGTATATTAAAATAAAGGA
1 AGCGGATTAAAATAAAG-GATCTTATCTCTCTGAAG-TTACAGTAGAGTAGA-T-CGTTTCA-GA
* *
57618133 TCTTATCTCTCTGA-AGTTACAGTAG
61 TCTTATCTCCCTGAGA-TTACAGTGG
** * * * ** * ***
57618158 AGAAGA-TCATAT-CAGG-TCTTATCTC-CTTG-AGATTACAGCGGAGTAGATTGAAACTAGTAA
1 AGCGGATTAAAATAAAGGATCTTATCTCTC-TGAAG-TTACAGTAGAGTAGATCGTTTC-AG--A
* * *
57618218 TCCTATCGCCCTAAGATTACAGTGG
61 TCTTATCTCCCTGAGATTACAGTGG
* * ** * *
57618243 AGCGGATTAAAACAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTA
1 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
*
57618308 CCTCCCTGAGATTACAGTGG
66 TCTCCCTGAGATTACAGTGG
57618328 AG
1 AG
57618330 TACATTGAAG
Statistics
Matches: 739, Mismatches: 164, Indels: 90
0.74 0.17 0.09
Matches are distributed among these distances:
83 4 0.01
84 12 0.02
85 476 0.64
86 20 0.03
87 55 0.07
88 139 0.19
89 8 0.01
90 25 0.03
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (85 bp):
AGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCTTA
TCTCCCTGAGATTACAGTGG
Found at i:57617553 original size:129 final size:128
Alignment explanation
Indices: 57617396--57618338 Score: 598
Period size: 129 Copynumber: 7.3 Consensus size: 128
57617386 GACCGAAGAA
* * * *
57617396 TTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGA
1 TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAATAAG-AATCCTATCTCCCTGA
*
57617461 GATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
65 GATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
* * * * * *
57617525 TTTCAGATCTTATCTCCCCGAGATTACAGTGGAGTGGATTAAAATAAAGGATCATATCTCTCTGA
1 TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAAT-AAGAATCCTATCTCCCTGA
* * *** * * ** * *
57617590 -AGTTACAGTAGAGAAGA-TCGTAT-CAGG-TCTTATCTCCCTG-AGATTACAGCGGAGCAGATT
65 GA-TTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATC
57617650 G
128 G
* * * * * * *
57617651 AAGTT-AGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCT
1 --TTTCAG--ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAAT-AAGAATCCTATCTCC
* * * *** * * * ** *
57617715 CTGA-AGTTAGAGTAGAGAAGA-TCGTAT-CAGG-TTTTATCTCCCTG-AGATTACAGCGGAGCA
61 CTGAGA-TTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTA
*
57617775 GATTG
124 GATCG
* * ** * * * *
57617780 AAGTT-AGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCT
1 --TTTCAG--ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAAT-AAGAATCCTATCTCC
* *** ** * * *
57617844 CTGA-AGTTACAGTAGAGTAGA-T-CGTTTCA-GATCTTATCTCCCTG-AGATTACAGTGGAGTG
61 CTGAGA-TTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTA
**
57617904 GATTAAA
124 GA-T-CG
* ** * * * * * * * *
57617911 ATAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCG-TATCAG-GTCTTATCTCCCTG
1 TTTCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAAATAAGAATCCTATCTCCCTG
** * *
57617973 AGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCG
64 AGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
* * * *
57618038 TGTT-AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTG
1 T-TTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAATAAG-AATCCTATCTCCCTG
* * * *
57618102 AGATTATAGTGGAGTATATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCA
64 AGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
* * * * * *
57618167 TATCAGGTCTTATCTCCTTGAGATTACAGCGGAGTAGATTGAAACT-AGTAATCCTATCGCCCTA
1 TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAA-TAAG-AATCCTATCTCCCTG
** * *
57618231 AGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCG
64 AGATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
** * * * *
57618296 CATCAGGTTTTACCTCCCTGAGATTACAGTGGAGTACATTGAA
1 TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAA
57618339 GCCAATAATT
Statistics
Matches: 680, Mismatches: 108, Indels: 52
0.81 0.13 0.06
Matches are distributed among these distances:
125 2 0.00
126 80 0.12
127 14 0.02
128 16 0.02
129 560 0.82
130 7 0.01
131 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (128 bp):
TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAAATAAGAATCCTATCTCCCTGAG
ATTACAGTGGAGTAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
Found at i:57617812 original size:214 final size:215
Alignment explanation
Indices: 57617398--57618240 Score: 1096
Period size: 214 Copynumber: 3.9 Consensus size: 215
57617388 CCGAAGAATT
57617398 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
* *
57617463 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTTT
66 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTAT
* * * ** * * * * *
57617528 CAGATCTTATCTCCCCGAGATTACAGTGGAGTGGATTAAAATAAAG-GATCATATCTCTCTGA-A
131 CAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAT-TAGTAATCCTATCTCCCTGAGA
57617591 GTTACAGTAGAGAAGATCGTA
195 GTTACAGTAGAGAAGATCGTA
*
57617612 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
*
57617677 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAGAGTAGAGAAGATCGTAT
66 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTAT
* *
57617742 CAGGTTTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA-
131 CAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAATTAGTAATCCTATCTCCCTGAGAG
* ** ***
57617806 TTACAGTGGAGCGGATTAAAA
196 TTACAGTAGAGAAGA-TCGTA
* * ** * * * *
57617827 TAAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG--TTTCAG--ATCTTATCTCCCT
1 T-CA-GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGTT-AGTAATCCTATCTCCCT
57617887 GAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC
62 GAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC
* * * ** * *
57617952 GTATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAAGATCTTATCTCTCT
127 GTATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAATTAGTA-ATCCTATCTCCCT
* * *
57618016 -AAAGTTACAGTAGAGTAGATCGTG
191 GAGAGTTACAGTAGAGAAGATCGTA
*
57618040 TTAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
* ** *
57618105 TTATAGTGGAGTATATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCATAT
66 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTAT
* * * * *
57618170 CAGGTCTTATCTCCTTGAGATTACAGCGGAGTAGATTGAAACTAGTAATCCTATCGCCCTAAGA-
131 CAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAATTAGTAATCCTATCTCCCTGAGAG
57618234 TTACAGT
196 TTACAGT
57618241 GGAGCGGATT
Statistics
Matches: 541, Mismatches: 72, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
211 29 0.05
212 4 0.01
213 13 0.02
214 449 0.83
215 14 0.03
216 4 0.01
217 28 0.05
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (215 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTAT
CAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAATTAGTAATCCTATCTCCCTGAGAG
TTACAGTAGAGAAGATCGTA
Found at i:57618247 original size:428 final size:428
Alignment explanation
Indices: 57617450--57618330 Score: 1483
Period size: 428 Copynumber: 2.1 Consensus size: 428
57617440 TTAGTAATCC
57617450 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * * *
57617515 GAGTAGATCGTTTCAGATCTTATCTCCCCGAGATTACAGTGGAGTGGATTAAAATAAAGGATCAT
66 GAGAAGATCGTATCAGATCTTATCTCCCCGAGATTACAGTGGAGCGGATTAAAATAAAAGATCAT
* *
57617580 ATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCTTATCTCCCTGAGATTACAGCGGAGC
131 ATCTCTCTAAAGTTACAGTAGAGAAGATCGTATCAGATCTTATCTCCCTGAGATTACAGCGGAGC
*
57617645 AGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTA
196 AGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTA
* * *
57617710 TCTCTCTGAAGTTAGAGTAGAGAAGATCGTATCAGGTTTTATCTCCCTGAGATTACAGCGGAGCA
261 TCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCA
** * * *
57617775 GATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTAT
326 GATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTAT
**
57617840 CTCTCTGAAGTTACAGTAGAGTAGATCGTTTCAGATCT
391 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATCT
57617878 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * *
57617943 GAGAAGATCGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTT
66 GAGAAGATCGTATCAGATCTTATCTCCCCGAGATTACAGTGGAGCGGATTAAAATAAAAGATCAT
* * *
57618008 ATCTCTCTAAAGTTACAGTAGAGTAGATCGTGTTAGATCTTATCTCCCTGAGATTACAGCGGAGC
131 ATCTCTCTAAAGTTACAGTAGAGAAGATCGTATCAGATCTTATCTCCCTGAGATTACAGCGGAGC
* *
57618073 AGATTGAAGTTAGTAATCCTATCTCCCTGAGATTATAGTGGAGTATATTAAAATAAAGGATCTTA
196 AGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTA
* *
57618138 TCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCTTGAGATTACAGCGGAGTA
261 TCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCA
57618203 GATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTAT
326 GATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTAT
* * *
57618268 CTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGGTTT
391 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATCT
*
57618306 TACCTCCCTGAGATTACAGTGGAGT
1 TATCTCCCTGAGATTACAGTGGAGT
57618331 ACATTGAAGC
Statistics
Matches: 422, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
428 422 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (428 bp):
TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGAAGATCGTATCAGATCTTATCTCCCCGAGATTACAGTGGAGCGGATTAAAATAAAAGATCAT
ATCTCTCTAAAGTTACAGTAGAGAAGATCGTATCAGATCTTATCTCCCTGAGATTACAGCGGAGC
AGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGGATCTTA
TCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAGATTACAGCGGAGCA
GATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTAT
CTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATCT
Found at i:57618493 original size:44 final size:42
Alignment explanation
Indices: 57618445--57618646 Score: 140
Period size: 44 Copynumber: 4.7 Consensus size: 42
57618435 CCAGTAATCC
*
57618445 TATCTCCCTGATATTACAGTGGAGTAGATTAAAATAAAGGATCT
1 TATCTCCCTGA-ATTACAGTGGAGCAGATTAAAAT-AAGGATCT
* * * *** *
57618489 TATCTCTCTGAAGTTACAGTAGAGAAGA-TCGTATCAGG-TCT
1 TATCTCCCTGAA-TTACAGTGGAGCAGATTAAAATAAGGATCT
** * *
57618530 TATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT-AGTAATCC
1 TATCTCCCTGA-ATTACAGTGGAGCAGATT-AAAATAAG-GATCT
* * *
57618574 TATCTCCCTGAGATTACAGTGTAGCGGATTAAAACAAAGGATCT
1 TATCTCCCTGA-ATTACAGTGGAGCAGATTAAAA-TAAGGATCT
* * *
57618618 TATCTCTCTGAAGTTACAGTAGAGTAGAT
1 TATCTCCCTGAA-TTACAGTGGAGCAGAT
57618647 CGCATCAGGT
Statistics
Matches: 121, Mismatches: 28, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
41 26 0.21
42 7 0.06
43 8 0.07
44 78 0.64
45 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (42 bp):
TATCTCCCTGAATTACAGTGGAGCAGATTAAAATAAGGATCT
Found at i:57618561 original size:353 final size:353
Alignment explanation
Indices: 57618059--57618805 Score: 1296
Period size: 353 Copynumber: 2.1 Consensus size: 353
57618049 ATCTCCCTGA
* * * ** * *
57618059 GATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTATAGTGGAGTATATTAA
1 GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAA
*
57618124 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCTTGAG
66 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAG
*
57618189 ATTACAGCGGAGTAGATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAA
131 ATTACAGCGGAGCAGATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAA
*
57618254 ACAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGAGA
196 ACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGAGA
*
57618319 TTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCATGGTTGGTAGTGGAATAGATTGAAGA
261 TTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCATGGTTGGCAGTGGAATAGATTGAAGA
57618384 TCGAAGATGGCAGATTTTACCTCTTTGT
326 TCGAAGATGGCAGATTTTACCTCTTTGT
*
57618412 GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCCTGATATTACAGTGGAGTAGATTAA
1 GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAA
*
57618477 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCTTATCTCCCTGAG
66 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAG
* * * * *
57618542 ATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGTAGCGGATTAAA
131 ATTACAGCGGAGCAGATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAA
* *
57618607 ACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGTGG
196 ACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGAGA
*
57618672 TTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGA
261 TTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCATGGTTGGCAGTGGAATAGATTGAAGA
57618737 TCGAAGATGGCAGATTTTACCTCTTTGT
326 TCGAAGATGGCAGATTTTACCTCTTTGT
*
57618765 GATTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCC
1 GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCC
57618806 CGACGTTGCG
Statistics
Matches: 372, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
353 372 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (353 bp):
GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAA
AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCATATCAGGTCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAACTAGTAATCCTATCGCCCTAAGATTACAGTGGAGCGGATTAAA
ACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGAGA
TTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCATGGTTGGCAGTGGAATAGATTGAAGA
TCGAAGATGGCAGATTTTACCTCTTTGT
Found at i:57618647 original size:129 final size:129
Alignment explanation
Indices: 57618412--57618712 Score: 449
Period size: 129 Copynumber: 2.3 Consensus size: 129
57618402 ACCTCTTTGT
* * *
57618412 GATTACAGTGGAGTATATTGAAGCCAGTAATCCTATCTCCCTGATATTACAGTGGAGTAGATTAA
1 GATTACAGTGGAGTACATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAA
* * *
57618477 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGGTCTTATCTCCCTGA
66 AACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAGGTCTTACCTCCCTGA
* * * * *
57618541 GATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGTAGCGGATTAA
1 GATTACAGTGGAGTACATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAA
* * *
57618606 AACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTTTTACCTCCCTGT
66 AACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAGGTCTTACCTCCCTGA
* * *
57618670 GGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTG
1 GATTACAGTGGAGTACATTGAAGCCAGTAATCCTATCTCCCTG
57618713 GTTGGCAGTG
Statistics
Matches: 153, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 153 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (129 bp):
GATTACAGTGGAGTACATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAA
AACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAGGTCTTACCTCCCTGA
Found at i:57620519 original size:17 final size:17
Alignment explanation
Indices: 57620494--57620532 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
57620484 TAATTGCTCT
*
57620494 TATATATATTTTATATA
1 TATACATATTTTATATA
*
57620511 TATACATATTTTTTATA
1 TATACATATTTTATATA
57620528 TATAC
1 TATAC
57620533 TTACGTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
TATACATATTTTATATA
Found at i:57621242 original size:18 final size:18
Alignment explanation
Indices: 57621219--57621261 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
57621209 CGTGAATATC
57621219 ATATTTTAAAAAAAGGAA
1 ATATTTTAAAAAAAGGAA
* * *
57621237 ATATTTCAAAATAAGGCA
1 ATATTTTAAAAAAAGGAA
57621255 ATATTTT
1 ATATTTT
57621262 GCGTTTGGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (18 bp):
ATATTTTAAAAAAAGGAA
Found at i:57621518 original size:108 final size:109
Alignment explanation
Indices: 57621240--57621636 Score: 658
Period size: 109 Copynumber: 3.7 Consensus size: 109
57621230 AAAGGAAATA
*
57621240 TTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
*
57621304 CGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACT
66 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
* * *
57621348 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTATTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
* *
57621413 CGATTTCTCGTTCGACCAAAT-GATTTAATATCCTTTTCAAAAA-T
66 CGATTTCTCGTTCGACCAAATAG-CTAAATATCCTTTT-AAAAACT
57621457 TTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
57621521 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
66 CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
* * *
57621565 TTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTT
1 TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
57621630 CGATTTC
66 CGATTTC
57621637 ACGGTTAACC
Statistics
Matches: 268, Mismatches: 15, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
107 5 0.02
108 100 0.37
109 158 0.59
110 5 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
TTTCAAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTT
CGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACT
Found at i:57621615 original size:217 final size:218
Alignment explanation
Indices: 57621235--57621636 Score: 743
Period size: 217 Copynumber: 1.8 Consensus size: 218
57621225 TAAAAAAAGG
57621235 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
1 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
57621300 GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
66 GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
* * *
57621365 TGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTATTGGGTTTCGATTTCTCGTTCGACC
131 TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACC
57621430 AAATGATTTAATATCCTTTTCAA
196 AAATGATTTAATATCCTTTTCAA
*
57621453 AAAT-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
1 AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
*
57621517 GTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
66 GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
*
57621582 TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTGCTGGGTTTCGATTTC
131 TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTC
57621637 ACGGTTAACC
Statistics
Matches: 178, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
217 174 0.98
218 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (218 bp):
AAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTCCCCTAAGGTACTGG
GTTTCGATTTCTCATTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAAAAATAAGGCAA
TGTTTTGCGTTTGGAAATTCGAGAAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACC
AAATGATTTAATATCCTTTTCAA
Found at i:57624726 original size:43 final size:43
Alignment explanation
Indices: 57624666--57624756 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
57624656 CTTTGAGTTC
* * * *
57624666 ATTA-CAAGATTTCCTTGATTAAGTAGATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
57624708 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
57624751 ATTACC
1 ATTACC
57624757 TTGCATATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:57625076 original size:42 final size:43
Alignment explanation
Indices: 57625025--57625191 Score: 196
Period size: 43 Copynumber: 3.9 Consensus size: 43
57625015 GATATGTTTT
* * * * *
57625025 TAGCAGCGTTTGTGTAAAAAGCGCCTCTAAAGGTTA-GTTCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAAGTCATGATCTA
*
57625067 TAGCGGCGTTTGTACG-AAAAAGCGCCGCTAAAAGTGATGATCTA
1 TAGCGGCGTTTGT--GTAAAAAGCGCCGCTAAAAGTCATGATCTA
**
57625111 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
57625154 TAACGGCGTTTCTGT-AAAAGCGCCGCTAAAGGTCATGA
1 TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAAGTCATGA
57625192 CTTTTAGTGG
Statistics
Matches: 110, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
42 35 0.32
43 56 0.51
44 19 0.17
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:57625453 original size:18 final size:18
Alignment explanation
Indices: 57625407--57625453 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
57625397 GCTTCCTTAA
*
57625407 TATTTGATTTA-TTATTT
1 TATTTTATTTATTTATTT
*
57625424 TATTTTAGTTATTTATTT
1 TATTTTATTTATTTATTT
57625442 TAATTTT-TTTAT
1 T-ATTTTATTTAT
57625454 CTGACTTGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 11 0.44
19 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TATTTTATTTATTTATTT
Found at i:57625913 original size:17 final size:17
Alignment explanation
Indices: 57625864--57625917 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
57625854 GGGTAGTAGA
* * *
57625864 AGAACAAGAGAAAAAGA
1 AGAAGAAGAGAAAATGG
*
57625881 AAAAGAAGAGAAAAAATGG
1 AGAAGAAGAG--AAAATGG
57625900 AGAAGAAGAGAAAATGG
1 AGAAGAAGAGAAAATGG
57625917 A
1 A
57625918 AGGAGCTTCG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 16 0.53
19 14 0.47
ACGTcount: A:0.67, C:0.02, G:0.28, T:0.04
Consensus pattern (17 bp):
AGAAGAAGAGAAAATGG
Found at i:57626920 original size:14 final size:14
Alignment explanation
Indices: 57626905--57626950 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
57626895 TCTTTTCTTC
*
57626905 TTCTTCTTCTCCTC
1 TTCTTCTTCTCCTA
*
57626919 TTCTTGTT-T--TA
1 TTCTTCTTCTCCTA
57626930 TTCTTCTTCTCCTA
1 TTCTTCTTCTCCTA
57626944 TTCTTCT
1 TTCTTCT
57626951 ATTTACCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
11 8 0.31
12 1 0.04
13 1 0.04
14 16 0.62
ACGTcount: A:0.04, C:0.30, G:0.02, T:0.63
Consensus pattern (14 bp):
TTCTTCTTCTCCTA
Found at i:57626948 original size:28 final size:28
Alignment explanation
Indices: 57626897--57626950 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
57626887 CTCCATTTTC
* * *
57626897 TTTTCTTCTTCTTCTTCTCCTCTTCTTG
1 TTTTATTCTTCTTCTCCTACTCTTCTTG
*
57626925 TTTTATTCTTCTTCTCCTATTCTTCT
1 TTTTATTCTTCTTCTCCTACTCTTCT
57626951 ATTTACCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.04, C:0.30, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTATTCTTCTTCTCCTACTCTTCTTG
Found at i:57640566 original size:73 final size:70
Alignment explanation
Indices: 57640345--57640589 Score: 208
Period size: 73 Copynumber: 3.4 Consensus size: 70
57640335 TTTTAGATAC
* * * * *
57640345 AGCGCCGTAAAAAACCTAGCGTAACGACGCCGTTTCAAGAGC-ATTTGGTGATTTAGCGGCGTTT
1 AGCGCCGCAAAAAAACTAGCGCAACGACGCCGTTTCCAGAGCTA-TTAG-GATTTAGCGGCGTTT
* *
57640409 TTAAGTA
64 CTAAGAA
** * * * * *
57640416 AGCGCCGCTAAAAATCCTAAGCCCAACGACACCGTTT-CTGAGATTTTGAGGATTTAGCGGCGTT
1 AGCGCCGC-AAAAAAACT-AGCGCAACGACGCCGTTTCCAGAGCTATT-AGGATTTAGCGGCGTT
*
57640480 TGTATA-AA
63 TCTA-AGAA
* *
57640488 AGCGCCGCAAAAAAACTAAGCGCAACGACGCCGTTTCCCGAGCTATTCACGGAATTAGCGGCGTT
1 AGCGCCGCAAAAAAACT-AGCGCAACGACGCCGTTTCCAGAGCTATT-A-GGATTTAGCGGCGTT
**
57640553 TCTGGGAA
63 TCTAAGAA
57640561 AGCGCCGCAAAAAAATCTAGCGCAACGAC
1 AGCGCCGCAAAAAAA-CTAGCGCAACGAC
57640590 ATCGTCTCGC
Statistics
Matches: 141, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
71 31 0.22
72 47 0.33
73 61 0.43
74 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (70 bp):
AGCGCCGCAAAAAAACTAGCGCAACGACGCCGTTTCCAGAGCTATTAGGATTTAGCGGCGTTTCT
AAGAA
Found at i:57641062 original size:23 final size:24
Alignment explanation
Indices: 57641028--57641117 Score: 88
Period size: 23 Copynumber: 4.0 Consensus size: 24
57641018 GTGTTATGCT
57641028 TTTAGG-G-TTAGGGGATTTA-AGAG
1 TTTAGGAGTTTAGGGG-TTTAGAG-G
57641051 -TTAGGA-TTTAGGGGTTTAGAGG
1 TTTAGGAGTTTAGGGGTTTAGAGG
*
57641073 TTTAGGAGTTTAGGGG-TTAGGGG
1 TTTAGGAGTTTAGGGGTTTAGAGG
57641096 TTTAGG-GATTT-GGGGTTTAGAG
1 TTTAGGAG-TTTAGGGGTTTAGAG
57641118 TTTGAACGGT
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
22 15 0.26
23 35 0.60
24 8 0.14
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (24 bp):
TTTAGGAGTTTAGGGGTTTAGAGG
Found at i:57641074 original size:8 final size:7
Alignment explanation
Indices: 57641051--57641120 Score: 59
Period size: 8 Copynumber: 9.3 Consensus size: 7
57641041 GATTTAAGAG
*
57641051 TTAGGAT
1 TTAGGGT
57641058 TTAGGGGT
1 TTA-GGGT
57641066 TTAGAGGT
1 TTAG-GGT
57641074 TTAGGAGT
1 TTAGG-GT
*
57641082 TTAGGGG
1 TTAGGGT
57641089 TTAGGGGT
1 TTA-GGGT
57641097 TTAGGGAT
1 TTAGGG-T
*
57641105 TTGGGGT
1 TTAGGGT
*
57641112 TTAGAGT
1 TTAGGGT
57641119 TT
1 TT
57641121 GAACGGTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
7 20 0.38
8 32 0.62
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.40
Consensus pattern (7 bp):
TTAGGGT
Found at i:57641098 original size:15 final size:15
Alignment explanation
Indices: 57641058--57641115 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
57641048 GAGTTAGGAT
*
57641058 TTAGGGGTTTAGAGGT
1 TTAGGGGTTTAG-GGA
* *
57641074 TTAGGAGTTTAGGGG
1 TTAGGGGTTTAGGGA
57641089 TTAGGGGTTTAGGGA
1 TTAGGGGTTTAGGGA
*
57641104 TTTGGGGTTTAG
1 TTAGGGGTTTAG
57641116 AGTTTGAACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 26 0.70
16 11 0.30
ACGTcount: A:0.17, C:0.00, G:0.45, T:0.38
Consensus pattern (15 bp):
TTAGGGGTTTAGGGA
Found at i:57642633 original size:83 final size:83
Alignment explanation
Indices: 57642517--57642683 Score: 266
Period size: 83 Copynumber: 2.0 Consensus size: 83
57642507 TAAATATAAA
**
57642517 TAATTTAGTGGCGGTTTTTTAGAAAAAGCCGCAAATAATATTTGAATGATTGAATAAAACGGAGC
1 TAATTTAGTGGCGGTTTTTTAGAAAAAGCCGCAAATAATATTTGAAAAATTGAATAAAACGGAGC
57642582 CGTTTCGTGAAATGAAAT
66 CGTTTCGTGAAATGAAAT
* *
57642600 TAATTTAGTGGC-GTTTTTGTA-AAAAACGTCGCAAATAATATTTGAAAAATTGAATAAAACGTA
1 TAATTTAGTGGCGGTTTTT-TAGAAAAA-GCCGCAAATAATATTTGAAAAATTGAATAAAACGGA
57642663 GCCGTTTCGTGAAATGAAAT
64 GCCGTTTCGTGAAATGAAAT
57642683 T
1 T
57642684 TAATAGATTT
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
82 11 0.14
83 67 0.86
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (83 bp):
TAATTTAGTGGCGGTTTTTTAGAAAAAGCCGCAAATAATATTTGAAAAATTGAATAAAACGGAGC
CGTTTCGTGAAATGAAAT
Found at i:57644186 original size:33 final size:31
Alignment explanation
Indices: 57644122--57644194 Score: 94
Period size: 33 Copynumber: 2.3 Consensus size: 31
57644112 GGTTTTTGCA
* *
57644122 GCTAAGATGGTACCTTCTACTGGTTTTTGCT
1 GCTAAGATGGTACCTTCTACTGATTTCTGCT
*
57644153 GCTAAGATGGTACCGCTTCTATTGATTTCTGCT
1 GCTAAGATGGTA-C-CTTCTACTGATTTCTGCT
57644186 GCTAA-ATGG
1 GCTAAGATGG
57644195 GAAATAGCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 12 0.32
32 5 0.14
33 20 0.54
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GCTAAGATGGTACCTTCTACTGATTTCTGCT
Found at i:57644838 original size:11 final size:12
Alignment explanation
Indices: 57644808--57644840 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
57644798 TCATGTTATC
*
57644808 ATAAAAGATAAA
1 ATAAAATATAAA
57644820 ATAAAATATAAA
1 ATAAAATATAAA
57644832 A-AAAATATA
1 ATAAAATATA
57644841 TGGAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:57645134 original size:25 final size:25
Alignment explanation
Indices: 57645090--57645400 Score: 460
Period size: 25 Copynumber: 12.2 Consensus size: 25
57645080 TATTTTAACA
*
57645090 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
57645116 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
57645141 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
* * *
57645167 ATTATACACTTAACTAACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
57645192 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
57645217 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
57645243 ATAATACATTTAACTTACAAACTTAC
1 ATAATACATTTAACTTAC-AACTTAC
*
57645269 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
* *
57645295 ATTATACACTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
57645320 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
57645345 ATTATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
57645370 ATAATAAATTTAACTTACATAACTTAC
1 ATAATACATTTAACTTAC--AACTTAC
57645397 ATAA
1 ATAA
57645401 CTTACATAAT
Statistics
Matches: 259, Mismatches: 20, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
25 155 0.60
26 85 0.33
27 19 0.07
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (25 bp):
ATAATACATTTAACTTACAACTTAC
Found at i:57645206 original size:18 final size:18
Alignment explanation
Indices: 57645185--57645425 Score: 74
Period size: 18 Copynumber: 13.4 Consensus size: 18
57645175 CTTAACTAAC
57645185 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
57645203 AACTTACA-ACTTACA--T
1 AACTTACATA-ATACATTT
*
57645219 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
57645236 AACTTACATAATACATTT
1 AACTTACATAATACATTT
57645254 AACTTACA-AACTTACA--T
1 AACTTACATAA--TACATTT
*
57645271 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
*
57645288 AACTTACATTATACACTTAACTT
1 AACTTACATAATACA--T---TT
57645311 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
*
57645331 AACTTACA-ACTTACA-TT
1 AACTTACATA-ATACATTT
* *
57645348 -A--TACAT-TTA-ACTTAC
1 AACTTACATAATACA-TT-T
*
57645363 AACTTACATAATAAATTT
1 AACTTACATAATACATTT
57645381 AACTTACATAACTTACA--T
1 AACTTACATAA--TACATTT
*
57645399 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
57645418 AACTTACA
1 AACTTACA
57645426 ACTTACATTA
Statistics
Matches: 169, Mismatches: 14, Indels: 79
0.65 0.05 0.30
Matches are distributed among these distances:
12 1 0.01
13 5 0.03
14 13 0.08
15 5 0.03
16 11 0.07
17 13 0.08
18 60 0.36
19 36 0.21
20 8 0.05
21 1 0.01
23 1 0.01
24 1 0.01
25 14 0.08
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:57645315 original size:128 final size:128
Alignment explanation
Indices: 57645090--57645411 Score: 567
Period size: 128 Copynumber: 2.5 Consensus size: 128
57645080 TATTTTAACA
57645090 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTAC-AACTTACATAATACATAATA
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAAACTTACATAATACATAATA
57645154 ACTTACAACTTACATTATACACTTAACTAACAACTTACATAATACATTTAACTTACAACTTAC
66 ACTTACAACTTACATTATACACTTAACTAACAACTTACATAATACATTTAACTTACAACTTAC
57645217 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAAACTTACATAATACATAATA
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAAACTTACATAATACATAATA
*
57645282 ACTTACAACTTACATTATACACTTAACTTACAACTTACATAATACATTTAACTTACAACTTAC
66 ACTTACAACTTACATTATACACTTAACTAACAACTTACATAATACATTTAACTTACAACTTAC
* * *
57645345 ATTATACAT-TTAACTTACAACTTACATAATAAATTTAACTTACATAACTTACATAACTTACATA
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACA-AACTTACATAA--TACATA
57645409 ATA
63 ATA
57645412 CATAATAACT
Statistics
Matches: 187, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
127 77 0.41
128 101 0.54
130 9 0.05
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (128 bp):
ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAAACTTACATAATACATAATA
ACTTACAACTTACATTATACACTTAACTAACAACTTACATAATACATTTAACTTACAACTTAC
Found at i:57645394 original size:9 final size:9
Alignment explanation
Indices: 57645380--57645452 Score: 62
Period size: 9 Copynumber: 8.2 Consensus size: 9
57645370 ATAATAAATT
57645380 TAACTTACA
1 TAACTTACA
57645389 TAACTTACA
1 TAACTTACA
57645398 TAACTTACA
1 TAACTTACA
*
57645407 TAATACATA-A
1 T-A-ACTTACA
57645417 TAACTTAC-
1 TAACTTACA
57645425 -AACTTACA
1 TAACTTACA
* *
57645433 TTACATACA
1 TAACTTACA
* *
57645442 TTACTTTCA
1 TAACTTACA
57645451 TA
1 TA
57645453 GATTTAGATT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
7 7 0.13
8 4 0.08
9 34 0.65
10 3 0.06
11 4 0.08
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (9 bp):
TAACTTACA
Done.