Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 113 of 295
Found at i:38480880 original size:27 final size:27
Alignment explanation
Indices: 38480721--38480888 Score: 180
Period size: 27 Copynumber: 6.2 Consensus size: 27
38480711 TAAGTTGTAG
* * *
38480721 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAA
38480748 AATTACTGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAA
* *
38480775 AATTA-TCGAAATACCCCTGTAGGATAG
1 AATTACT-GAAATACCCCTGTAGGGTAA
* **
38480802 AATTA-TCGAAATACCCTTGTAGCATAGA
1 AATTACT-GAAATACCCCTGTAGGGTA-A
*
38480830 AA-TACCGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAA
* * *
38480856 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAA
38480883 AATTAC
1 AATTAC
38480889 CATTTTGCCC
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.03
27 115 0.95
28 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAA
Found at i:38488214 original size:27 final size:27
Alignment explanation
Indices: 38488180--38488353 Score: 199
Period size: 27 Copynumber: 6.4 Consensus size: 27
38488170 TGGATAAGTT
*
38488180 GTAGAATTACTAAAATACCCCTGTAAG
1 GTAGAATTACCAAAATACCCCTGTAAG
*
38488207 GTAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAAG
* *
38488234 GTAGAATTACCGAAATACCCCTAT-AG
1 GTAGAATTACCAAAATACCCCTGTAAG
* *
38488260 GATAGAATTACCAAAATACCCTTGTAGG
1 G-TAGAATTACCAAAATACCCCTGTAAG
* *
38488288 GTAGAAATACCGAAATACCCCTGT-AG
1 GTAGAATTACCAAAATACCCCTGTAAG
* * * *
38488314 GATAGAATTACCGAGATACCCTTGTAGG
1 G-TAGAATTACCAAAATACCCCTGTAAG
*
38488342 GTAAAATTACCA
1 GTAGAATTACCA
38488354 TTTTTCCCCT
Statistics
Matches: 124, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.03
27 116 0.94
28 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTGTAAG
Found at i:38488266 original size:54 final size:54
Alignment explanation
Indices: 38488180--38488352 Score: 258
Period size: 54 Copynumber: 3.2 Consensus size: 54
38488170 TGGATAAGTT
** *
38488180 GTAGAATTACTAAAATACCCCTGTAAGG-TAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGT-AGGATAGAATTACCAAAATACCCTTGTAGG
*
38488234 GTAGAATTACCGAAATACCCCTATAGGATAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTGTAGG
* * *
38488288 GTAGAAATACCGAAATACCCCTGTAGGATAGAATTACCGAGATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTGTAGG
*
38488342 GTAAAATTACC
1 GTAGAATTACC
38488353 ATTTTTCCCC
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 3 0.03
54 105 0.97
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTGTAGG
Found at i:38488320 original size:81 final size:81
Alignment explanation
Indices: 38488181--38488353 Score: 247
Period size: 81 Copynumber: 2.1 Consensus size: 81
38488171 GGATAAGTTG
* * *
38488181 TAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTGTAGGATAGAATTACCG
38488246 AAATACCCCTATAGGA
66 AAATACCCCTATAGGA
* * *
38488262 TAGAATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAATTACCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTGTAGGATAGAATTACCG
* * * *
38488327 AGATACCCTTGTAGGG
66 AAATACCCCTATAGGA
*
38488343 TAAAATTACCA
1 TAGAATTACCA
38488354 TTTTTCCCCT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (81 bp):
TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCAAAATACCCCTGTAGGATAGAATTACCG
AAATACCCCTATAGGA
Found at i:38491110 original size:408 final size:408
Alignment explanation
Indices: 38490355--38491173 Score: 1593
Period size: 408 Copynumber: 2.0 Consensus size: 408
38490345 TTAACACAAA
38490355 TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
1 TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
38490420 ATTCATAATCTTTAATCAAATCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTAATTTATC
66 ATTCATAATCTTTAATCAAATCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTAATTTATC
38490485 AAGTATTTTAAACTTTTATGATAAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
131 AAGTATTTTAAACTTTTATGATAAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
38490550 GATTTTCAACGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
196 GATTTTCAACGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
*
38490615 GCTTTAGCTGTCTAGAGGTATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
261 GCTTTAGCTGTCTAGAGGCATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
*
38490680 TTCAAGGATGCATCACTATAAATCAGAACCTCTTTACCCGGTTCTAGTTGTACTAAGACAGGAGC
326 TTCAAGGATGCATCACTATAAATCACAACCTCTTTACCCGGTTCTAGTTGTACTAAGACAGGAGC
38490745 TTCAGTCAATAATGCCTT
391 TTCAGTCAATAATGCCTT
38490763 TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
1 TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
* *
38490828 ATTCATAATCTTTAATCAACTCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTGATTTATC
66 ATTCATAATCTTTAATCAAATCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTAATTTATC
*
38490893 AAGTATTTTAAACTTTTATGATCAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
131 AAGTATTTTAAACTTTTATGATAAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
38490958 GATTTTCAACGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
196 GATTTTCAACGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
38491023 GCTTTAGCTGTCTAGAGGCATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
261 GCTTTAGCTGTCTAGAGGCATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
38491088 TTCAAGGATGCATCACTATAAATCACAACCTCTTTACCCGGTTCTAGTTGTACTAAGACAGGAGC
326 TTCAAGGATGCATCACTATAAATCACAACCTCTTTACCCGGTTCTAGTTGTACTAAGACAGGAGC
38491153 TTCAGTCAATAATGCCTT
391 TTCAGTCAATAATGCCTT
38491171 TAA
1 TAA
38491174 CTTGTCAAAA
Statistics
Matches: 406, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
408 406 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (408 bp):
TAAAGATTTTCTACTCAAAGCATCAGCAACTACATTTGCCTTACCCGGTTGATAATCGATCACTA
ATTCATAATCTTTAATCAAATCTAGCCATCGTCTTTGCCTCAAGTTCAAATATTTCTAATTTATC
AAGTATTTTAAACTTTTATGATAAATAAATATTTAGCATTTCTCACCATACAAGTGATGTCTCCA
GATTTTCAACGCAAATACAATGGCAGCTAGTTCTAAATCATGTATCGGCTAATTTTTCTAATGTG
GCTTTAGCTGTCTAGAGGCATAAGCAATTACCTTTCCTTCCTGCATAAGTACACAACCTAGTCCA
TTCAAGGATGCATCACTATAAATCACAACCTCTTTACCCGGTTCTAGTTGTACTAAGACAGGAGC
TTCAGTCAATAATGCCTT
Found at i:38491979 original size:10 final size:10
Alignment explanation
Indices: 38491966--38491990 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38491956 ATTGCAGTCA
38491966 ACCAATCCAT
1 ACCAATCCAT
38491976 ACCAATCCAT
1 ACCAATCCAT
38491986 ACCAA
1 ACCAA
38491991 GAATCACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (10 bp):
ACCAATCCAT
Found at i:38496090 original size:43 final size:43
Alignment explanation
Indices: 38496042--38496129 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
38496032 TGTAATGAGT
38496042 AAGATGTTAAACATGAAAAAAATGATAACTTGTTTGATAAATG
1 AAGATGTTAAACATGAAAAAAATGATAACTTGTTTGATAAATG
*
38496085 AAGATGTTAAACATGAAAAAGATGATAACTTGTTTGATAAATG
1 AAGATGTTAAACATGAAAAAAATGATAACTTGTTTGATAAATG
38496128 AA
1 AA
38496130 ATTTATGTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.49, C:0.05, G:0.17, T:0.30
Consensus pattern (43 bp):
AAGATGTTAAACATGAAAAAAATGATAACTTGTTTGATAAATG
Found at i:38499185 original size:40 final size:40
Alignment explanation
Indices: 38499141--38499368 Score: 402
Period size: 40 Copynumber: 5.7 Consensus size: 40
38499131 GCAAACACAT
* * *
38499141 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
38499181 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
38499221 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
38499261 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
38499301 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
38499341 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
38499369 TCCAATGCTC
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:38514103 original size:40 final size:40
Alignment explanation
Indices: 38514040--38514162 Score: 192
Period size: 40 Copynumber: 3.1 Consensus size: 40
38514030 CAATTGAGGA
*
38514040 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
38514080 TTATTTCTGGGTTAAGTCCCGAAGGCATTCGTGTTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
38514120 TTATTTCCGTGTTAAGTCTCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
38514160 TTA
1 TTA
38514163 CATCCGGGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.39
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:38514289 original size:43 final size:43
Alignment explanation
Indices: 38514241--38514335 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
38514231 GCTGGTATTA
* * * * *
38514241 TATTCGGGCCTTCGTTCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATACCAGTGATATG
*
38514284 TATTCGAGCCTTCGTGCCTAGCAGGCTTCATACCAGTGATATG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATACCAGTGATATG
38514327 TATTCGGGC
1 TATTCGGGC
38514336 TTTCAATATC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATACCAGTGATATG
Found at i:38517004 original size:54 final size:54
Alignment explanation
Indices: 38516941--38517049 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
38516931 CTTTTAGGTC
*
38516941 CAAAAAGCAAGAAGGAATAGAATGAGGGAGATAGGAGAAGCATTCAACTCAATG
1 CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
38516995 CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
1 CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
38517049 C
1 C
38517050 CAAGGTAATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.49, C:0.12, G:0.27, T:0.13
Consensus pattern (54 bp):
CAAAAAGCAAGAAGGAATAGAATGAGGAAGATAGGAGAAGCATTCAACTCAATG
Found at i:38524595 original size:46 final size:46
Alignment explanation
Indices: 38524541--38524716 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
38524531 TGGTTGAGCA
38524541 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
38524587 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT-G
* * *
38524631 CCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAA-C
1 ---TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
38524679 ACCTGAGCTCATTGAGTTGAGTCCGAGTTCATTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38524717 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 7 0.07
44 1 0.01
45 4 0.04
46 58 0.55
47 28 0.27
48 2 0.02
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:38524698 original size:93 final size:93
Alignment explanation
Indices: 38524539--38524708 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
38524529 GATGGTTGAG
* ** *
38524539 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATCACCAAACTCATTGAGTT
38524604 GAGTCCGAGTTCGTGAGATGTAACTAGC
66 GAGTCCGAGTTCGTGAGATGTAACTAGC
* * *
38524632 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAA-CACCTGAGCTCATTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATCACC-AAACTCATTGAGT
38524696 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
38524709 ATTTATGGGC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATCACCAAACTCATTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGC
Found at i:38530050 original size:46 final size:46
Alignment explanation
Indices: 38529996--38530171 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
38529986 TGGTTGAGCA
*
38529996 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * * *
38530042 TCCAAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* *
38530089 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
*
38530135 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38530172 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 7 0.06
45 5 0.05
46 60 0.56
47 27 0.25
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:38530152 original size:93 final size:93
Alignment explanation
Indices: 38529993--38530163 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
38529983 GGATGGTTGA
* *
38529993 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCCAAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTAAACGTCCAAACTCATTGAGT
38530058 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
38530086 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTAAACGTCC-AAACTCATTGAG
38530150 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
38530164 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTAAACGTCCAAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38534255 original size:50 final size:48
Alignment explanation
Indices: 38534138--38534271 Score: 144
Period size: 48 Copynumber: 2.8 Consensus size: 48
38534128 CACATAATAA
* * * *
38534138 GATGCCAACGCCATATCCCAGATATGATCTTACATGGGATCACCACAC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACCACAC
* * **
38534186 GAAGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTTA-TATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC--ACCA-CAC
* *
38534236 GATGCCAATGCCATGTCCCAAACATGGACTTACATG
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATG
38534272 ATAACACATA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
48 36 0.50
49 1 0.01
50 35 0.49
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACCACAC
Found at i:38543760 original size:28 final size:28
Alignment explanation
Indices: 38543697--38543822 Score: 166
Period size: 28 Copynumber: 4.5 Consensus size: 28
38543687 ATATTAAGTC
* *
38543697 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
38543724 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
38543752 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
38543780 CGCACACTTAGTGCTGTACA-ATTTAAACC
1 CGCACACTTAGTGC--TACATAATCAAACT
38543809 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38543823 CAATCTCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 21 0.24
28 45 0.51
29 20 0.22
30 3 0.03
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:38551824 original size:28 final size:28
Alignment explanation
Indices: 38551761--38551942 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
38551751 ATATTAAGTC
*
38551761 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
38551788 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
38551816 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
38551844 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
38551872 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38551900 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
38551929 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38551943 CAATCTCATG
Statistics
Matches: 146, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 21 0.14
28 106 0.73
29 19 0.13
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38554012 original size:46 final size:46
Alignment explanation
Indices: 38553950--38554209 Score: 405
Period size: 46 Copynumber: 5.7 Consensus size: 46
38553940 TTATCCTTGA
* * * *
38553950 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* * *
38553996 CGTGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
38554042 CATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
* *
38554088 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
38554134 CATGTTGCCATGGTATCTTTCAA-CATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
*
38554179 CATGTTACCATGGTATCTTTCAACCATGGTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTC
38554210 CTACACATTT
Statistics
Matches: 195, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 41 0.21
46 154 0.79
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
Found at i:38556385 original size:19 final size:20
Alignment explanation
Indices: 38556351--38556388 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
38556341 AATAATAAAA
*
38556351 TATCTCATTAAAATAATATT
1 TATCTAATTAAAATAATATT
38556371 TATCTAATT-AAATAATAT
1 TATCTAATTAAAATAATAT
38556389 AAAATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
TATCTAATTAAAATAATATT
Found at i:38558222 original size:49 final size:49
Alignment explanation
Indices: 38558149--38558335 Score: 207
Period size: 49 Copynumber: 3.8 Consensus size: 49
38558139 TAGCCCAAGC
* *
38558149 TATCTAGTACGCATTGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * *
38558198 AATCTAGTACACGTAGTAGCCTGCACTTAATACTACACACGTGATCACAGT
1 TATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* ** *
38558249 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
38558298 TAT-TCGGTACACGT-GTAGCCTGCACTTAGTACTACACA
1 TATCT-AGTACACATAGTAGCCTGCACTTAGTACTACACA
38558336 CGTGACCTCA
Statistics
Matches: 113, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 24 0.21
49 49 0.43
50 2 0.02
51 38 0.34
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:38558269 original size:100 final size:99
Alignment explanation
Indices: 38558155--38558340 Score: 311
Period size: 100 Copynumber: 1.9 Consensus size: 99
38558145 AAGCTATCTA
*
38558155 GTACGCATTGTAGCCTGCACTTAGTACTACACATGCGACCAATAA-TCTAGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATTC-AGTACACGT-GTAGCC
38558219 TGCACTTAATACTACACACGTGATCACAGTTTTCGG
64 TGCACTTAATACTACACACGTGATCACAGTTTTCGG
* *
38558255 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTGTAGCCTG
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATTCAGTACACGTGTAGCCTG
*
38558320 CACTTAGTACTACACACGTGA
66 CACTTAATACTACACACGTGA
38558341 CCTCACAATA
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
99 28 0.35
100 51 0.63
101 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATTCAGTACACGTGTAGCCTG
CACTTAATACTACACACGTGATCACAGTTTTCGG
Found at i:38561250 original size:20 final size:20
Alignment explanation
Indices: 38561212--38561251 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
38561202 TCTAAACAGA
**
38561212 GTACAAAAGTACACCCAGGG
1 GTACAAAAGTACAAACAGGG
*
38561232 GTACCAAAGTACAAACAGGG
1 GTACAAAAGTACAAACAGGG
38561252 CATGTTTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (20 bp):
GTACAAAAGTACAAACAGGG
Found at i:38561305 original size:41 final size:40
Alignment explanation
Indices: 38561227--38561391 Score: 215
Period size: 41 Copynumber: 4.0 Consensus size: 40
38561217 AAAGTACACC
* * *
38561227 CAGGGGTACCAAAGTACAAACAGGGCATGTTTTTGCAATAT
1 CAGGGGTACCAAAGTACAAACAGGGCACGTATGTGCAAT-T
* *
38561268 -AGAGGTACCGAAGTACAAACAAGGGCACGTATGTGCAATT
1 CAGGGGTACCAAAGTACAAAC-AGGGCACGTATGTGCAATT
*
38561308 CAGGGGTACCAAAGTACAAACAGGAGCACATATGTGCAATT
1 CAGGGGTACCAAAGTACAAACAGG-GCACGTATGTGCAATT
* *
38561349 CAGGGGTACCAAAGTACAAACAAGGGCACGCATGTGTAATT
1 CAGGGGTACCAAAGTACAAAC-AGGGCACGTATGTGCAATT
38561390 CA
1 CA
38561392 TCATTATTCT
Statistics
Matches: 109, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
40 22 0.20
41 84 0.77
42 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (40 bp):
CAGGGGTACCAAAGTACAAACAGGGCACGTATGTGCAATT
Found at i:38561331 original size:20 final size:20
Alignment explanation
Indices: 38561308--38561370 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
38561298 ATGTGCAATT
38561308 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
* * * * *
38561328 CAGGAGCA-CATATGTGCAATT
1 CAGGGGTACCA-AAGTACAA-A
38561349 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
38561369 CA
1 CA
38561371 AGGGCACGCA
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
19 2 0.07
20 14 0.47
21 12 0.40
22 2 0.07
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (20 bp):
CAGGGGTACCAAAGTACAAA
Found at i:38564485 original size:25 final size:22
Alignment explanation
Indices: 38564440--38564484 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
38564430 TCCAAAGGTC
38564440 CTACAACAAGGACAGAGATCAT
1 CTACAACAAGGACAGAGATCAT
*
38564462 CTACAACAAGGAGAGAGATCAT
1 CTACAACAAGGACAGAGATCAT
38564484 C
1 C
38564485 AAGCTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.13
Consensus pattern (22 bp):
CTACAACAAGGACAGAGATCAT
Found at i:38567009 original size:40 final size:40
Alignment explanation
Indices: 38566932--38567186 Score: 385
Period size: 40 Copynumber: 6.5 Consensus size: 40
38566922 AAACCAAGTA
* * * *
38566932 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
38566971 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38567011 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
38567051 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38567091 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
38567130 CCTTCGGG-CTTAGCCCGAAT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38567168 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
38567187 TTATCATCCG
Statistics
Matches: 200, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
38 32 0.16
39 53 0.26
40 115 0.57
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38569195 original size:21 final size:21
Alignment explanation
Indices: 38569166--38569206 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38569156 TATAGGCAAC
**
38569166 CAAAACATGTTATTTAAAATA
1 CAAAACATGCCATTTAAAATA
*
38569187 CAAATCATGCCATTTAAAAT
1 CAAAACATGCCATTTAAAAT
38569207 CCATCCATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.32
Consensus pattern (21 bp):
CAAAACATGCCATTTAAAATA
Found at i:38570097 original size:43 final size:43
Alignment explanation
Indices: 38570017--38570124 Score: 173
Period size: 43 Copynumber: 2.5 Consensus size: 43
38570007 TAGCCCAACT
* *
38570017 ATGGTCTTACACAAAATCA-ATAATGATGCCAACGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATACCAACGTCCCAGAC
* *
38570059 ATGGTCCTACACATAATCACATAATGATACCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATACCAACGTCCCAGAC
38570102 ATGGTCTTACACATAATCACATA
1 ATGGTCTTACACATAATCACATA
38570125 TCGTTAATCC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
42 17 0.28
43 43 0.72
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATACCAACGTCCCAGAC
Found at i:38577952 original size:18 final size:18
Alignment explanation
Indices: 38577929--38577968 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
38577919 GGAAAGGACC
38577929 TTATACTGTCTATCGAGT
1 TTATACTGTCTATCGAGT
38577947 TTATACTGTCTATCGAGT
1 TTATACTGTCTATCGAGT
38577965 TTAT
1 TTAT
38577969 CCTTATGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (18 bp):
TTATACTGTCTATCGAGT
Found at i:38582389 original size:17 final size:18
Alignment explanation
Indices: 38582367--38582400 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
38582357 CTTCATTACC
38582367 TCATTCATCA-TCTCTCG
1 TCATTCATCATTCTCTCG
38582384 TCATTCATCATTCTCTC
1 TCATTCATCATTCTCTC
38582401 TTCTCTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.35, G:0.03, T:0.44
Consensus pattern (18 bp):
TCATTCATCATTCTCTCG
Found at i:38585712 original size:22 final size:19
Alignment explanation
Indices: 38585687--38585739 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
38585677 TTCGTATAAC
38585687 TAAATTGTATATGTTATATG
1 TAAATTGTATATG-TATATG
* *
38585707 CTTAAATTGAATGATGTGTATG
1 --TAAATTGTAT-ATGTATATG
38585729 TAAATTGTATA
1 TAAATTGTATA
38585740 AATGCCATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.04
20 9 0.33
22 14 0.52
23 3 0.11
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (19 bp):
TAAATTGTATATGTATATG
Found at i:38586190 original size:57 final size:57
Alignment explanation
Indices: 38586122--38586262 Score: 248
Period size: 57 Copynumber: 2.5 Consensus size: 57
38586112 TGTTACAATT
38586122 AGGATTTAGCCTAGACTGGTAATCCTAATTAAGCTCTTGTGAGCATATGT-TGGAGAC
1 AGGATTTAGCCTAGACTGGTAATCCTAATTAAGCTCTTGTGAGCATAT-TCTGGAGAC
**
38586179 AGGATTTAGCCTAGACCAGTAATCCTAATTAAGCTCTTGTGAGCATATTCTGGAGAC
1 AGGATTTAGCCTAGACTGGTAATCCTAATTAAGCTCTTGTGAGCATATTCTGGAGAC
38586236 AGGATTTAGCCTAGACTGGTAATCCTA
1 AGGATTTAGCCTAGACTGGTAATCCTA
38586263 TTATACGATA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
56 1 0.01
57 78 0.99
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (57 bp):
AGGATTTAGCCTAGACTGGTAATCCTAATTAAGCTCTTGTGAGCATATTCTGGAGAC
Found at i:38595373 original size:27 final size:26
Alignment explanation
Indices: 38595321--38595373 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
38595311 CTTAACCCTT
* * *
38595321 GGGGTATATTAGTAATTTTGCTCCTA
1 GGGGTAAATTAGTAATTTTCCACCTA
*
38595347 GGGGTAAATTTGTAAATTTTCCACCTA
1 GGGGTAAATTAGT-AATTTTCCACCTA
38595374 TAAAGGTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (26 bp):
GGGGTAAATTAGTAATTTTCCACCTA
Found at i:38595678 original size:20 final size:21
Alignment explanation
Indices: 38595653--38595691 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
38595643 TGGGCCCGTA
*
38595653 AGCCTATTG-GGCCCAATTTT
1 AGCCTATCGAGGCCCAATTTT
38595673 AGCCTATCGAGGCCCAATT
1 AGCCTATCGAGGCCCAATT
38595692 ACCGAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (21 bp):
AGCCTATCGAGGCCCAATTTT
Found at i:38599466 original size:27 final size:26
Alignment explanation
Indices: 38599410--38599466 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
38599400 CAACCTTAAC
* * *
38599410 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
38599436 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
38599463 CCTA
1 CCTA
38599467 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:38613939 original size:7 final size:7
Alignment explanation
Indices: 38613927--38613952 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38613917 ATAATTATAT
38613927 TAAAATA
1 TAAAATA
38613934 TAAAATA
1 TAAAATA
38613941 TAAAATA
1 TAAAATA
38613948 TAAAA
1 TAAAA
38613953 ATATCAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAATA
Found at i:38614142 original size:27 final size:26
Alignment explanation
Indices: 38614112--38614174 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
38614102 TTCATGTGTT
*
38614112 TATTTTTTA-AATTTATTAAATAATATA
1 TATTTTTAATAATTT-TTAAA-AATATA
38614139 TA-TTTTAATAATTTTTAAAAATATA
1 TATTTTTAATAATTTTTAAAAATATA
38614164 TATTTTCTAAT
1 TATTTT-TAAT
38614175 TAAATGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.25
26 13 0.41
27 11 0.34
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TATTTTTAATAATTTTTAAAAATATA
Found at i:38618359 original size:33 final size:33
Alignment explanation
Indices: 38618317--38618383 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
38618307 TTTTTTCTTA
38618317 CCAAGCATGCTAATGGAAATATATATATGTTCT
1 CCAAGCATGCTAATGGAAATATATATATGTTCT
38618350 CCAAGCATGCTAATGGAAATATATATATGTTCT
1 CCAAGCATGCTAATGGAAATATATATATGTTCT
38618383 C
1 C
38618384 TATCCTCCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (33 bp):
CCAAGCATGCTAATGGAAATATATATATGTTCT
Found at i:38622900 original size:15 final size:15
Alignment explanation
Indices: 38622860--38622902 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
38622850 TGATTCACTG
*
38622860 TAATAGAATAAAGCTA
1 TAAT-GAATAGAGCTA
*
38622876 TAATTGAATAGAGCTC
1 TAA-TGAATAGAGCTA
38622892 TAATGAATAGA
1 TAATGAATAGA
38622903 TTTGTAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.33
16 15 0.62
17 1 0.04
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (15 bp):
TAATGAATAGAGCTA
Found at i:38626080 original size:23 final size:23
Alignment explanation
Indices: 38626045--38626100 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
38626035 ACATCCATTA
38626045 AAAATCTAAACTCA-TAAAATTT
1 AAAATCTAAACTCATTAAAATTT
*
38626067 AAAATCTAACACTCATTAATATTT
1 AAAATCTAA-ACTCATTAAAATTT
*
38626091 AAAATTTAAA
1 AAAATCTAAA
38626101 TTGATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 9 0.30
23 6 0.20
24 15 0.50
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAATCTAAACTCATTAAAATTT
Found at i:38627849 original size:14 final size:14
Alignment explanation
Indices: 38627830--38627875 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
38627820 TTTTTTATTT
38627830 TAATTATTATCATA
1 TAATTATTATCATA
*
38627844 TAATTATT-TTA-A
1 TAATTATTATCATA
* *
38627856 TTATTAATATCATA
1 TAATTATTATCATA
38627870 TAATTA
1 TAATTA
38627876 CAATTATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
12 7 0.28
13 4 0.16
14 14 0.56
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTATTATCATA
Found at i:38627853 original size:23 final size:25
Alignment explanation
Indices: 38627824--38627875 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
38627814 ATATTATTTT
38627824 TTATTTTAATTA-T-TATCATATAA
1 TTATTTTAATTATTATATCATATAA
38627847 TTATTTTAATTATTAATATCATATAA
1 TTATTTTAATTATT-ATATCATATAA
38627873 TTA
1 TTA
38627876 CAATTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 12 0.46
24 1 0.04
26 13 0.50
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATTTTAATTATTATATCATATAA
Found at i:38630358 original size:25 final size:25
Alignment explanation
Indices: 38630311--38630368 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
38630301 TTAGCTCTTT
*
38630311 TGAGCTTACCGATACTCAGCTCGTA
1 TGAGCTTACCGATACTCAGCTCGGA
* * * *
38630336 TGAGCTTAGCGTTATTCATCTCGGA
1 TGAGCTTACCGATACTCAGCTCGGA
*
38630361 GGAGCTTA
1 TGAGCTTA
38630369 TTGTTTACAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (25 bp):
TGAGCTTACCGATACTCAGCTCGGA
Found at i:38630389 original size:24 final size:25
Alignment explanation
Indices: 38630327--38630389 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
38630317 TACCGATACT
*
38630327 CAGCTCGTATGAGCTTAGCGTTATT
1 CAGCTCGTATGAGCTTAGCGTTATA
* * * **
38630352 CATCTCGGAGGAGCTTATTGTT-TA
1 CAGCTCGTATGAGCTTAGCGTTATA
38630376 CAGCTCGTATGAGC
1 CAGCTCGTATGAGC
38630390 ATACATGTAC
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTAGCGTTATA
Found at i:38651497 original size:13 final size:13
Alignment explanation
Indices: 38651479--38651503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38651469 GTAATTGATT
38651479 TTGATGATTTTTC
1 TTGATGATTTTTC
38651492 TTGATGATTTTT
1 TTGATGATTTTT
38651504 GTATTTTTGG
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:38654229 original size:9 final size:9
Alignment explanation
Indices: 38654211--38654240 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
38654201 ATACTCCAAG
38654211 TCCCCCACC
1 TCCCCCACC
*
38654220 TCCCCTACC
1 TCCCCCACC
38654229 TCCCCCACC
1 TCCCCCACC
38654238 TCC
1 TCC
38654241 TCAAATTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.10, C:0.73, G:0.00, T:0.17
Consensus pattern (9 bp):
TCCCCCACC
Found at i:38659636 original size:46 final size:47
Alignment explanation
Indices: 38659543--38659649 Score: 121
Period size: 46 Copynumber: 2.3 Consensus size: 47
38659533 ATTAGAGCCG
*
38659543 GTGTAAGACCATGTTTGAGACATGGCATCAGCATTGACACGAGAGCTA
1 GTGTAAGA-CATGTTTGAGACATGGCATCAGCATCGACACGAGAGCTA
* * *
38659591 GTGTAAGACGTGTTTGGGACAT-GCATCAGCATCGTA-AGGTA-AGCTA
1 GTGTAAGACATGTTTGAGACATGGCATCAGCATCG-ACACG-AGAGCTA
*
38659637 GTATAAGACATGT
1 GTGTAAGACATGT
38659650 CAGGGACATA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
46 29 0.57
47 14 0.27
48 8 0.16
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (47 bp):
GTGTAAGACATGTTTGAGACATGGCATCAGCATCGACACGAGAGCTA
Found at i:38660027 original size:42 final size:42
Alignment explanation
Indices: 38659968--38660051 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
38659958 TACCTATTTG
38659968 GAATGTTTGAGATATGAGCTCAATGAATACTATGTAAATTGT
1 GAATGTTTGAGATATGAGCTCAATGAATACTATGTAAATTGT
38660010 GAATGTTTGAGATATGAGCTCAATGAATACTATGTAAATTGT
1 GAATGTTTGAGATATGAGCTCAATGAATACTATGTAAATTGT
38660052 ATTGGATAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (42 bp):
GAATGTTTGAGATATGAGCTCAATGAATACTATGTAAATTGT
Found at i:38661024 original size:20 final size:21
Alignment explanation
Indices: 38660986--38661024 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38660976 TCTTAATGAT
38660986 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
38661007 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
38661025 GTTTCAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.31, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:38661561 original size:38 final size:38
Alignment explanation
Indices: 38661519--38661599 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
38661509 AAGAACACAC
*
38661519 AAAGTAAGCTTTAAAAGCTTAGTAAGCCATATACAAAT
1 AAAGTAAGCTTTAAAAGATTAGTAAGCCATATACAAAT
38661557 AAAGTAAGCTTTAAAAGATTAGTAAGCCATATACAAAT
1 AAAGTAAGCTTTAAAAGATTAGTAAGCCATATACAAAT
38661595 AAAGT
1 AAAGT
38661600 CATCATATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (38 bp):
AAAGTAAGCTTTAAAAGATTAGTAAGCCATATACAAAT
Found at i:38661564 original size:20 final size:20
Alignment explanation
Indices: 38661539--38661599 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
38661529 TTAAAAGCTT
38661539 AGTAAGCCATATACAAATAA
1 AGTAAGCCATATACAAATAA
* * *
38661559 AGTAAG-C-TTTA-AAAGATT
1 AGTAAGCCATATACAAATA-A
38661577 AGTAAGCCATATACAAATAA
1 AGTAAGCCATATACAAATAA
38661597 AGT
1 AGT
38661600 CATCATATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
17 4 0.13
18 9 0.29
19 2 0.06
20 12 0.39
21 4 0.13
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (20 bp):
AGTAAGCCATATACAAATAA
Found at i:38661582 original size:18 final size:18
Alignment explanation
Indices: 38661521--38661583 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
38661511 GAACACACAA
*
38661521 AGTAAGCTTTAAAAGCTT
1 AGTAAGCTTTAAAAGATT
* * *
38661539 AGTAAGCCATATACAA-ATAA
1 AGTAAG-C-TTTAAAAGAT-T
38661559 AGTAAGCTTTAAAAGATT
1 AGTAAGCTTTAAAAGATT
38661577 AGTAAGC
1 AGTAAGC
38661584 CATATACAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
18 18 0.53
19 5 0.15
20 11 0.32
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
AGTAAGCTTTAAAAGATT
Found at i:38661946 original size:43 final size:42
Alignment explanation
Indices: 38661854--38661995 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 42
38661844 TATAGCTCAT
* **
38661854 ACAATGCCATATCCCAGATATGGTCTTACATGTTATCACATA
1 ACAATGCCATGTCCCAGATATGGTCTTACATGAAATCACATA
* * * *
38661896 TCGATGCCACTGTCCCAGATAGGGTCTTACATGAAATCGA-TTA
1 ACAATGCCA-TGTCCCAGATATGGTCTTACATGAAATC-ACATA
* * *
38661939 ACAATGCCAATGTCCGAGATATGGTCTTACACGTAATCACA-A
1 ACAATGCC-ATGTCCCAGATATGGTCTTACATGAAATCACATA
38661981 TACAATGCCAATGTC
1 -ACAATGCC-ATGTC
38661996 AAAGGAATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
42 9 0.11
43 70 0.86
44 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
ACAATGCCATGTCCCAGATATGGTCTTACATGAAATCACATA
Found at i:38669111 original size:43 final size:43
Alignment explanation
Indices: 38668947--38669113 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
38668937 AACTCTTACA
* * ** *
38668947 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAAT-G
** * * *
38668989 ATGCTGATAG-CCCAG-CTATGGTCTTACACAAAATCAAATAACG
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACACATAATCACATAATG
** * ***
38669032 ATGCCAATGTCTTAGACACGGTCTTACATGCAATCACATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAATG
38669075 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
38669114 CTCGTTAATC
Statistics
Matches: 94, Mismatches: 25, Indels: 11
0.72 0.19 0.08
Matches are distributed among these distances:
42 5 0.05
43 87 0.93
44 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAATG
Found at i:38671533 original size:46 final size:46
Alignment explanation
Indices: 38671361--38671533 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
38671351 AACCTGCCCC
* * * * *
38671361 TAAGTGAACTAGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
38671407 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
38671455 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
38671500 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38671534 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 1 0.01
46 58 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:38671990 original size:30 final size:30
Alignment explanation
Indices: 38671956--38672015 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
38671946 ATTTAATACG
38671956 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
38671986 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
38672016 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:38679147 original size:43 final size:43
Alignment explanation
Indices: 38678999--38679149 Score: 164
Period size: 43 Copynumber: 3.5 Consensus size: 43
38678989 TATCCCAGAT
** * *
38678999 ATGGTCTTACATGTTATCACATATA-GATGCCGATAG-CCC-AAC
1 ATGGTCTTACACATAATCACATA-ACGATGCCAAT-GTCCCAAAC
* * *
38679041 TATGGTCTTACACAAAATCAAATAACGATGCCAATGTCTCAAAC
1 -ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
* * *
38679085 ATGGTCTTACACGTAATCACATAATGATGCTAATGTCCCAAAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
38679128 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
38679150 CTCGTTAATC
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 2 0.02
43 86 0.95
44 3 0.03
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
Found at i:38683307 original size:40 final size:40
Alignment explanation
Indices: 38683214--38683465 Score: 307
Period size: 40 Copynumber: 6.4 Consensus size: 40
38683204 AAGCCAAGTA
* * *
38683214 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
38683252 CCTTCGAGACATAGCCCGGATATAGTAACTCGTACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
38683292 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
38683332 CCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
38683372 CCTTCGGGACTTAGCCCGGAT-TAATAACTCTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
38683411 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
38683451 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
38683466 TCGGTTATCA
Statistics
Matches: 188, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
38 11 0.06
39 53 0.28
40 124 0.66
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38683449 original size:79 final size:79
Alignment explanation
Indices: 38683214--38683465 Score: 280
Period size: 79 Copynumber: 3.2 Consensus size: 79
38683204 AAGCCAAGTA
* * * * * *
38683214 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATGCCTTCGAGACATAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATA-ATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATA
* * *
38683276 GTAACTCGTACCAATG
64 GTAACTAGCACAAATG
* * * *
38683292 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATAG
38683357 TAACTCA-CACAAATG
65 TAACT-AGCACAAATG
*
38683372 CCTTCGGGACTTAGCCCGGAT-TAATAACTCTCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-TAG
* *
38683436 TCACTAGCGCAAATG
65 TAACTAGCACAAATG
38683451 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
38683466 TCGGTTATCA
Statistics
Matches: 149, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
78 14 0.09
79 78 0.52
80 57 0.38
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATAGT
AACTAGCACAAATG
Found at i:38683449 original size:119 final size:120
Alignment explanation
Indices: 38683248--38683465 Score: 327
Period size: 119 Copynumber: 1.8 Consensus size: 120
38683238 CTACTCGCTC
* *
38683248 AATGCCTTCGAGACATAGCCCGGATATAGTAACTCGTACCAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGAGACATAGCCCGGATATAATAACTCGTACAAATGCCTTCGGGACTTAGCCCGGAT
*
38683313 ATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCACACA
66 ATAGTAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCACACA
* *
38683368 AATGCCTTCGGGACTTAGCCCGGAT-TAATAACTC-TCACAAATGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGAGACATAGCCCGGATATAATAACTCGT-ACAAATGCCTTCGGGACTTAGCCCGGA
*
38683431 -ACTAGTCA-CTAGCGCAAATGCCTTCGGGACTTAGC
65 TA-TAGT-AGCTAGCACAAATGCCTTCGGGACTTAGC
38683466 TCGGTTATCA
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
118 2 0.02
119 63 0.71
120 24 0.27
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (120 bp):
AATGCCTTCGAGACATAGCCCGGATATAATAACTCGTACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCACACA
Found at i:38691271 original size:40 final size:40
Alignment explanation
Indices: 38691178--38691433 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
38691168 AAGCCAAGTA
* * *
38691178 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
38691216 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
38691256 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
38691296 CCTTCGGGACTTAG-CCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
38691335 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * **
38691375 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGTGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
38691415 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
38691434 TTATCATCCG
Statistics
Matches: 197, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
38 12 0.06
39 53 0.27
40 132 0.67
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38691314 original size:79 final size:79
Alignment explanation
Indices: 38691178--38691433 Score: 331
Period size: 79 Copynumber: 3.2 Consensus size: 79
38691168 AAGCCAAGTA
* * * *
38691178 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
38691241 TAACTCGCACCAATG
65 TAACTCGCACAAATG
* *
38691256 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAG-CCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
38691320 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* *
38691335 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTA
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
* * **
38691399 GTCACTAGTGCAAATG
64 GTAACTCGCACAAATG
38691415 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
38691434 TTATCATCCG
Statistics
Matches: 157, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
78 14 0.09
79 88 0.56
80 55 0.35
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:38691388 original size:119 final size:118
Alignment explanation
Indices: 38691178--38691430 Score: 341
Period size: 119 Copynumber: 2.1 Consensus size: 118
38691168 AAGCCAAGTA
* * * * *
38691178 CCTTCGGGATTTAACCGGATATAGCTACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAGTA
1 CCTTCGGGACTTAGCCGGATATAGATACTCGCACAATGCCTTCGGGACATAGCCCGGATATAATA
* *
38691243 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATA-TAGT-AGCTCGCACAAATG
66 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTAGTCA-CTAGCACAAATG
* * *
38691296 CCTTCGGGACTTAGCCGGATGTA-ATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCGGATATAGAT-ACTCGCAC-AATGCCTTCGGGACATAGCCCGGATATAA
**
38691360 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGTGCAAATG
64 TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCACAAATG
38691415 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
38691431 CGGTTATCAT
Statistics
Matches: 119, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
117 1 0.01
118 28 0.24
119 89 0.75
120 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (118 bp):
CCTTCGGGACTTAGCCGGATATAGATACTCGCACAATGCCTTCGGGACATAGCCCGGATATAATA
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCACAAATG
Found at i:38695038 original size:42 final size:42
Alignment explanation
Indices: 38694932--38695087 Score: 129
Period size: 42 Copynumber: 3.7 Consensus size: 42
38694922 GGTATCGTAC
* * * *
38694932 CAATGCCATATCCCAGATATGTTCTTACATGTGATAT-T-GTAT
1 CAATGCCAAATCCCAGATATGGTCTTACATG-AAT-TCTCATAT
* * *
38694974 CGATGCCAATAGCCCAGCTATGGTCTTACATGAAGTT-TCATAT
1 CAATGCCAA-ATCCCAGATATGGTCTTACATGAA-TTCTCATAT
* ** * *
38695017 CAATGTCGTATCCCAGATATGGTCTTACATGTATTCTCATGT
1 CAATGCCAAATCCCAGATATGGTCTTACATGAATTCTCATAT
**
38695059 TGATGCCAAATCCCAGATATGGTCTTACA
1 CAATGCCAAATCCCAGATATGGTCTTACA
38695088 CGTAGTCTCA
Statistics
Matches: 90, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.02
42 60 0.67
43 28 0.31
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (42 bp):
CAATGCCAAATCCCAGATATGGTCTTACATGAATTCTCATAT
Found at i:38695257 original size:39 final size:39
Alignment explanation
Indices: 38695198--38695279 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
38695188 AGGGTCGATC
* *
38695198 ACAATTCATACAATAATAAAGCATTTAAAGCATAATTAA
1 ACAACTCATAAAATAATAAAGCATTTAAAGCATAATTAA
38695237 ACAACTCATAAAATAATAAAGCATTTAAAGCATAATTAA
1 ACAACTCATAAAATAATAAAGCATTTAAAGCATAATTAA
38695276 ACAA
1 ACAA
38695280 TGCATTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (39 bp):
ACAACTCATAAAATAATAAAGCATTTAAAGCATAATTAA
Found at i:38695271 original size:19 final size:19
Alignment explanation
Indices: 38695210--38695272 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
38695200 AATTCATACA
38695210 ATAATAAAGCATTTAAAGC
1 ATAATAAAGCATTTAAAGC
*
38695229 ATAATTAAA-CAACTCATAAA--
1 ATAA-TAAAGC-A-T-TTAAAGC
38695249 ATAATAAAGCATTTAAAGC
1 ATAATAAAGCATTTAAAGC
38695268 ATAAT
1 ATAAT
38695273 TAAACAATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
17 4 0.11
18 1 0.03
19 15 0.43
20 10 0.29
21 1 0.03
22 4 0.11
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.27
Consensus pattern (19 bp):
ATAATAAAGCATTTAAAGC
Found at i:38704448 original size:33 final size:33
Alignment explanation
Indices: 38704406--38704473 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
38704396 GGGTAACATG
* *
38704406 CGATGGCGGTTATTAGGTTCCATAGAGCAACAC
1 CGATGGCGGTCAGTAGGTTCCATAGAGCAACAC
* * *
38704439 CGATGGCGGTCAGTAGGTTCTATAGGGCGACAC
1 CGATGGCGGTCAGTAGGTTCCATAGAGCAACAC
38704472 CG
1 CG
38704474 CAACGGTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (33 bp):
CGATGGCGGTCAGTAGGTTCCATAGAGCAACAC
Found at i:38704588 original size:27 final size:27
Alignment explanation
Indices: 38704556--38704668 Score: 95
Period size: 27 Copynumber: 4.2 Consensus size: 27
38704546 AAACATATAG
*
38704556 AGTCTACTAG-GACACTAAACATGGGGT
1 AGTCTA-TAGAGACACTAAACACGGGGT
* *
38704583 AGTCTATCGAGACATTAAACACGGGGT
1 AGTCTATAGAGACACTAAACACGGGGT
** * * * *
38704610 AGTCCGTCGAGACACTAAGCAAGAGGT
1 AGTCTATAGAGACACTAAACACGGGGT
* *
38704637 AGTCCATCA-AGACACTAAACACGAGGT
1 AGTCTAT-AGAGACACTAAACACGGGGT
38704664 AGTCT
1 AGTCT
38704669 GCTGGGACAA
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
26 2 0.03
27 68 0.97
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
AGTCTATAGAGACACTAAACACGGGGT
Found at i:38704700 original size:26 final size:28
Alignment explanation
Indices: 38704647--38704746 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 28
38704637 AGTCCATCAA
38704647 GACACTAAACACGAGGTAG-TCTGCTGG
1 GACACTAAACACGAGGTAGTTCTGCTGG
* *
38704674 GACAATAAACAC-AGGTAGTTC-GTTGG
1 GACACTAAACACGAGGTAGTTCTGCTGG
* ***
38704700 GACACTAAATACGAGGTAGTT-TGCCAA
1 GACACTAAACACGAGGTAGTTCTGCTGG
* *
38704727 GACACTAGATACGAGGTAGT
1 GACACTAAACACGAGGTAGT
38704747 CCACTAGGAC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
26 20 0.33
27 41 0.67
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (28 bp):
GACACTAAACACGAGGTAGTTCTGCTGG
Found at i:38704757 original size:27 final size:27
Alignment explanation
Indices: 38704632--38704765 Score: 72
Period size: 27 Copynumber: 5.0 Consensus size: 27
38704622 CACTAAGCAA
* * *
38704632 GAGGTAGTCCATCAAGACACTAAACAC
1 GAGGTAGTCCACCAGGACACTAAATAC
** ** * *
38704659 GAGGTAGTCTGCTGGGACAATAAACAC
1 GAGGTAGTCCACCAGGACACTAAATAC
* ****
38704686 -AGGTAGTTCGTTGGGACACTAAATAC
1 GAGGTAGTCCACCAGGACACTAAATAC
*** * *
38704712 GAGGTAGTTTGCCAAGACACTAGATAC
1 GAGGTAGTCCACCAGGACACTAAATAC
* *
38704739 GAGGTAGTCCACTAGGACAATAAATAC
1 GAGGTAGTCCACCAGGACACTAAATAC
38704766 AGAAAGGTCC
Statistics
Matches: 81, Mismatches: 25, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
26 21 0.26
27 60 0.74
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (27 bp):
GAGGTAGTCCACCAGGACACTAAATAC
Found at i:38707362 original size:24 final size:24
Alignment explanation
Indices: 38707312--38707370 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
38707302 GCCCGAGAGT
* *
38707312 TTTGAATGTTTCAAGCCCCAAAGC
1 TTTGAATGTTTCAAGCACCAAACC
*
38707336 TTTGAATG-TTCTAAGCACTAAACC
1 TTTGAATGTTTC-AAGCACCAAACC
38707360 TTTG--TGTTTCA
1 TTTGAATGTTTCA
38707371 CTAGTTCTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 3 0.10
23 6 0.20
24 21 0.70
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (24 bp):
TTTGAATGTTTCAAGCACCAAACC
Found at i:38710921 original size:22 final size:22
Alignment explanation
Indices: 38710893--38710935 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
38710883 AGTAAGTAAG
38710893 TTGTTCCATTTTGAATGAATTT
1 TTGTTCCATTTTGAATGAATTT
38710915 TTGTTCCATTTTGAATGAATT
1 TTGTTCCATTTTGAATGAATT
38710936 GAGTAGACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.53
Consensus pattern (22 bp):
TTGTTCCATTTTGAATGAATTT
Found at i:38710938 original size:80 final size:77
Alignment explanation
Indices: 38710845--38710990 Score: 238
Period size: 80 Copynumber: 1.9 Consensus size: 77
38710835 AAATTGGATC
*
38710845 TTGAATGAATTGAGTAGACAAAGTCAGATTTTATCAATAGTAAGTAAGTTGTTCCATTTTGAATG
1 TTGAATGAATTGAGTAGACAAAGCCAGATTTTATCAATAGTAAGTAA---GTTCCATTTTGAATG
38710910 AATTTTTGTTCCATT
63 AATTTTTGTTCCATT
* *
38710925 TTGAATGAATTGAGTAGACAAAGCCAGATTTTATCAATTGTAATTAAGTTCCATTTTGAATGAAT
1 TTGAATGAATTGAGTAGACAAAGCCAGATTTTATCAATAGTAAGTAAGTTCCATTTTGAATGAAT
38710990 T
66 T
38710991 GAGTAGACAA
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
77 19 0.30
80 44 0.70
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (77 bp):
TTGAATGAATTGAGTAGACAAAGCCAGATTTTATCAATAGTAAGTAAGTTCCATTTTGAATGAAT
TTTTGTTCCATT
Found at i:38711011 original size:30 final size:30
Alignment explanation
Indices: 38710922--38711011 Score: 75
Period size: 30 Copynumber: 3.2 Consensus size: 30
38710912 TTTTTGTTCC
*
38710922 ATTTTGAATGAATTGAGTAGACAAAGCCAG
1 ATTTTGAATGAATTGAGTAGACAAAGTCAG
* ** *
38710952 ATTTT--ATCAATT--GTA-ATTAAGTTC-C
1 ATTTTGAATGAATTGAGTAGACAAAG-TCAG
*
38710977 ATTTTGAATGAATTGAGTAGACAAAGTGAG
1 ATTTTGAATGAATTGAGTAGACAAAGTCAG
38711007 ATTTT
1 ATTTT
38711012 ATCAGAACAT
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
25 9 0.21
26 4 0.09
27 6 0.14
28 6 0.14
29 4 0.09
30 14 0.33
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.37
Consensus pattern (30 bp):
ATTTTGAATGAATTGAGTAGACAAAGTCAG
Found at i:38714689 original size:40 final size:40
Alignment explanation
Indices: 38714632--38714807 Score: 241
Period size: 40 Copynumber: 4.4 Consensus size: 40
38714622 GATGATAACT
*
38714632 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
* * *
38714672 GGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
* *
38714712 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
*
38714752 GGGCTAAATCCCGAAGGCATTTG-AGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTA-CTATATCC
*
38714792 -GGCTAATTCCCGAAGG
1 GGGCTAAGTCCCGAAGG
38714808 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 17 0.14
40 106 0.86
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
Found at i:38716852 original size:67 final size:67
Alignment explanation
Indices: 38716744--38716871 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 67
38716734 ACTTGAACAA
** *
38716744 TAAGCCTACCACCAACAAGTTGGGAGGTCACCTACAAGCTCACCATTCTGGGATGACTACTAAAT
1 TAAGCCTACCACCAACAAGGAGGGAGGTCACCTACAAGCTCACCATTCTAGGATGACTACTAAAT
38716809 AG
66 AG
* * **
38716811 TAAGCCTGCCACCAGCAAGGAGGGAGGTCACCTGTAAGCTCACCATTCTAGGATGACTACT
1 TAAGCCTACCACCAACAAGGAGGGAGGTCACCTACAAGCTCACCATTCTAGGATGACTACT
38716872 TGGGAAATAG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (67 bp):
TAAGCCTACCACCAACAAGGAGGGAGGTCACCTACAAGCTCACCATTCTAGGATGACTACTAAAT
AG
Found at i:38718149 original size:276 final size:276
Alignment explanation
Indices: 38717636--38718180 Score: 835
Period size: 276 Copynumber: 2.0 Consensus size: 276
38717626 AAAGAAATGG
*
38717636 ACAAATATCTTCATCCTCTTCAATTTTCTTTTCTAAAACAAAAAAAAAACCCTAGTTACCTTTCC
1 ACAAATATCTTCATCCTCTTCAATCTTCTTTTCTAAAACAAAAAAAAAACCCTAGTTACCTTTCC
*
38717701 CACTGTTGATACCATTGCTCACCAGCATCTTCTCCGACCAAGAAGCATTCAATGACGTCCATGAT
66 CACTATTGATACCATTGCTCACCAGCATCTTCTCCGACCAAGAAGCATTCAATGACGTCCATGAT
* *
38717766 TCCATCTCCGAAATTTGATCTTTTCCTTTTGAGTTACAAAAAAAATGAGTGAAAGAAAAACCCAG
131 TCCATCTCCGAAATTTGATCTTTTCCTTTTGAGTTAAAAAAAAAATGAGTGAAAGAAAAACCCAA
* * *** *
38717831 AAAATCAAAGAATTTTTTGGGTTTTTATCCCCTTCTTCTACCCTAGCTCTTTGATTTCCCCTTGC
196 AAAATAAAAAAAAAATTTGGGTTTCTATCCCCTTCTTCTACCCTAGCTCTTTGATTTCCCCTTGC
38717896 AAAGGCCATGAAATAA
261 AAAGGCCATGAAATAA
* ** * *
38717912 ACAAATATCTTCATCCTCTTCAATCTTCTTTT-T-TAA-AGTAAAAAATCCCTAGTTGCCTTTTC
1 ACAAATATCTTCATCCTCTTCAATCTTCTTTTCTAAAACAAAAAAAAAACCCTAGTTACC-TTTC
* * * * * * *
38717974 CCACTATTGATGCTATTGCTTATCGGCATCTTCTCCGACCAAGAAGCGTTCAATGATGTCCATGA
65 CCACTATTGATACCATTGCTCACCAGCATCTTCTCCGACCAAGAAGCATTCAATGACGTCCATGA
*
38718039 TTCCATCTCTGAAATTTGATCTTTTCCTTTTGAGTTATAAAGAAAAAATGAGTGAAAGAAAAACC
130 TTCCATCTCCGAAATTTGATCTTTTCCTTTTGAGTTA-AAA-AAAAAATGAGTGAAAGAAAAACC
38718104 CAAAAAATAAAAAAAAAATTTGGGTTTCTATCCCCTTCTTCTACCCTAGCTCTTTGATTTCCCCT
193 CAAAAAATAAAAAAAAAATTTGGGTTTCTATCCCCTTCTTCTACCCTAGCTCTTTGATTTCCCCT
38718169 TGCAAAGGCCAT
258 TGCAAAGGCCAT
38718181 TCTCACCTCT
Statistics
Matches: 243, Mismatches: 23, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
273 17 0.07
274 99 0.41
275 3 0.01
276 124 0.51
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (276 bp):
ACAAATATCTTCATCCTCTTCAATCTTCTTTTCTAAAACAAAAAAAAAACCCTAGTTACCTTTCC
CACTATTGATACCATTGCTCACCAGCATCTTCTCCGACCAAGAAGCATTCAATGACGTCCATGAT
TCCATCTCCGAAATTTGATCTTTTCCTTTTGAGTTAAAAAAAAAATGAGTGAAAGAAAAACCCAA
AAAATAAAAAAAAAATTTGGGTTTCTATCCCCTTCTTCTACCCTAGCTCTTTGATTTCCCCTTGC
AAAGGCCATGAAATAA
Found at i:38724240 original size:40 final size:40
Alignment explanation
Indices: 38724184--38724325 Score: 169
Period size: 40 Copynumber: 3.5 Consensus size: 40
38724174 GCACAAGGCA
* * * * *
38724184 TTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
*
38724224 TTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
* * * *
38724264 TTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGGC
1 TTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAATGCC
38724305 TTCGGGACTTAGCCCGGATAT
1 TTCGGGACTTAGCCCGGATAT
38724326 CATTCGAGTA
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 54 0.63
41 26 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
Found at i:38731928 original size:25 final size:25
Alignment explanation
Indices: 38731899--38731946 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38731889 TTATAATATG
* * *
38731899 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38731924 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38731947 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38732008 original size:20 final size:20
Alignment explanation
Indices: 38731983--38732045 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
38731973 ATTTTGATAA
*
38731983 ACATGATATTTATGATATGC
1 ACATGATATGTATGATATGC
*
38732003 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
38732023 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38732043 ACA
1 ACA
38732046 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38732238 original size:25 final size:24
Alignment explanation
Indices: 38732099--38732242 Score: 186
Period size: 24 Copynumber: 6.0 Consensus size: 24
38732089 GAGGAAGTGC
38732099 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
38732123 AAAAGGGCTTATGCCTCAGTTTTT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
38732147 ACACGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38732171 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38732194 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
38732219 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
38732243 ATGATAAAGT
Statistics
Matches: 105, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
23 27 0.26
24 48 0.46
25 21 0.20
26 9 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:38732471 original size:31 final size:31
Alignment explanation
Indices: 38732436--38732499 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
38732426 CGTTTACAGT
*
38732436 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
**
38732467 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCCAGTAATATGAAAAATGA
38732498 AA
1 AA
38732500 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAAAATGA
Found at i:38762236 original size:22 final size:19
Alignment explanation
Indices: 38762209--38762258 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 19
38762199 TAAACATGAT
38762209 TATGATATGCAACATGACATG
1 TATGATATGC-A-ATGACATG
*
38762230 TCATGATATGCAATGATATG
1 T-ATGATATGCAATGACATG
38762250 TATGATATG
1 TATGATATG
38762259 ACACGAGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 2 0.07
22 9 0.33
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (19 bp):
TATGATATGCAATGACATG
Found at i:38762371 original size:23 final size:24
Alignment explanation
Indices: 38762315--38762438 Score: 146
Period size: 23 Copynumber: 5.2 Consensus size: 24
38762305 AGGAAGTGCA
*
38762315 AAAGGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTT
*
38762339 AAAGGGCTTATGCCTCAGTT-TTT
1 AAAGGGCTTATGCCCCAGTTATTT
* *
38762362 ACAGGGCTTATG-CCCAGTTACTT
1 AAAGGGCTTATGCCCCAGTTATTT
*
38762385 AAAGGGCTATATGCCCCAGTTATTAAA
1 AAAGGGCT-TATGCCCCAGTTATT--T
*
38762412 AAAGGGCTT-TGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTT
38762435 AAAG
1 AAAG
38762439 AGGCAGGCCT
Statistics
Matches: 87, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
22 6 0.07
23 27 0.31
24 23 0.26
25 22 0.25
26 1 0.01
27 8 0.09
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTT
Found at i:38762437 original size:25 final size:24
Alignment explanation
Indices: 38762314--38762438 Score: 159
Period size: 24 Copynumber: 5.2 Consensus size: 24
38762304 GAGGAAGTGC
38762314 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38762338 AAAAGGGCTTATGCCTCAGTT-TT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
38762361 TACAGGGCTTATG-CCCAGTTACTT
1 AAAAGGGCTTATGCCCCAGTTA-TT
38762385 -AAAGGGCTATATGCCCCAGTTATT
1 AAAAGGGCT-TATGCCCCAGTTATT
38762409 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
38762434 AAAAG
1 AAAAG
38762439 AGGCAGGCCT
Statistics
Matches: 89, Mismatches: 5, Indels: 15
0.82 0.05 0.14
Matches are distributed among these distances:
22 6 0.07
23 25 0.28
24 28 0.31
25 21 0.24
26 1 0.01
27 8 0.09
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:38766882 original size:40 final size:40
Alignment explanation
Indices: 38766838--38766959 Score: 208
Period size: 40 Copynumber: 3.0 Consensus size: 40
38766828 GCTACTTGCT
38766838 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
38766878 CAAATGCCTTCGGGACTTAGCTCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
38766918 CAAATGCCTTCGGGACTTAGCCCGGATATATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
38766958 CA
1 CA
38766960 CTGAATTGAA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:38770855 original size:28 final size:28
Alignment explanation
Indices: 38770754--38770858 Score: 106
Period size: 28 Copynumber: 3.8 Consensus size: 28
38770744 TAACTGTGAT
* * *
38770754 TTGGGCCTAGTA-GCCATATGAATGAAGT
1 TTGGGCCTAATAGGCCATATAAATG-AGA
* *
38770782 TTGGGCCTAATAGGCCACATAAATGTGA
1 TTGGGCCTAATAGGCCATATAAATGAGA
* *
38770810 ATGGGCCTAAT-GAGCCATATAAAAGAGA
1 TTGGGCCTAATAG-GCCATATAAATGAGA
*
38770838 TTGGGCCTAGTAGGCCATATA
1 TTGGGCCTAATAGGCCATATA
38770859 TATATAGGTA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
27 1 0.02
28 51 0.81
29 11 0.17
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATAGGCCATATAAATGAGA
Found at i:38789819 original size:43 final size:43
Alignment explanation
Indices: 38789758--38789843 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
38789748 AGGGATTAGG
38789758 GTTGATCCTCGAAAAATTGAGGCTATTCTGGATTGGAAGCTGC
1 GTTGATCCTCGAAAAATTGAGGCTATTCTGGATTGGAAGCTGC
38789801 GTTGATCCTCGAAAAATTGAGGCTATTCTGGATTGGAAGCTGC
1 GTTGATCCTCGAAAAATTGAGGCTATTCTGGATTGGAAGCTGC
38789844 CTAAGACGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
GTTGATCCTCGAAAAATTGAGGCTATTCTGGATTGGAAGCTGC
Found at i:38803422 original size:29 final size:29
Alignment explanation
Indices: 38803383--38803461 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
38803373 CTTAATAATC
*
38803383 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
**
38803413 AACTTGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38803442 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38803462 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38806268 original size:54 final size:53
Alignment explanation
Indices: 38806127--38806380 Score: 211
Period size: 54 Copynumber: 4.8 Consensus size: 53
38806117 ATTAGGGTTT
* * * *
38806127 AAGGATACCGTGTAAGACCATGCCAAGGCATGGAAATTGGTAAGATT-TCTAAGGC
1 AAGGAT-CCATGTAAGACCATGCCAAGACATGG-CATTGGTAAG-TTCTATAAGGC
* * *
38806182 AAGGAAAT-CATGTAGGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGG--ATCCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* *
38806237 AAAGG-TCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATCCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * *
38806289 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-T-CAA---
1 AAGGAT-CCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * *
38806338 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGAT-CCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
38806381 GTACCCGTGT
Statistics
Matches: 169, Mismatches: 21, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
49 39 0.23
51 4 0.02
52 10 0.06
53 38 0.22
54 40 0.24
55 32 0.19
56 4 0.02
57 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATCCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:38806332 original size:107 final size:108
Alignment explanation
Indices: 38806137--38806333 Score: 290
Period size: 107 Copynumber: 1.8 Consensus size: 108
38806127 AAGGATACCG
* * *
38806137 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGATTTCTAAGGCAAGGAAATCATGTAGGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGT-AGAGTTCTAAGGCAAGGAAACCATGTAAGACCA
*
38806202 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCA
65 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCA
* **
38806246 TGTAAGACCATGCCAAGGCATGG-CATTGGT-GAGTTCATAAGGCAAGGCTACCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAGAGTTC-TAAGGCAAGGAAACCATGTAAGACCA
*
38806309 TGTCAAGACATGGCAATGGTAAGTT
65 TGTCAAGACATGGCAATGATAAGTT
38806334 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
106 5 0.06
107 45 0.57
108 6 0.08
109 23 0.29
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.23
Consensus pattern (108 bp):
TGTAAGACCATGCCAAGGCATGGAAATTGGTAGAGTTCTAAGGCAAGGAAACCATGTAAGACCAT
GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCA
Found at i:38810489 original size:27 final size:27
Alignment explanation
Indices: 38810459--38810532 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
38810449 ATGTCCTGAA
* *
38810459 CCCTTATGAGACAAAATGACTATTTTG
1 CCCTTATGAGATAAAATGACGATTTTG
*
38810486 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGAGATAAAATGACGATTTTG
38810513 CCCTTATGAGATAAAATGAC
1 CCCTTATGAGATAAAATGAC
38810533 CGAAATACCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (27 bp):
CCCTTATGAGATAAAATGACGATTTTG
Found at i:38810554 original size:27 final size:27
Alignment explanation
Indices: 38810524--38810643 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
38810514 CCTTATGAGA
* * *
38810524 TAAAATGACCGAAATACCCCCATAGGG
1 TAAAATGACTGAAATACCCCTATAAGG
*
38810551 TAAAATGACTTAAATACCCCTATAAGG
1 TAAAATGACTGAAATACCCCTATAAGG
* * * *
38810578 TAAAATGACTGTAATACCTCTGTAGGG
1 TAAAATGACTGAAATACCCCTATAAGG
* * *
38810605 CAAAATGACTGTAATACCCCTGTAAGG
1 TAAAATGACTGAAATACCCCTATAAGG
38810632 TAAAATGACTGA
1 TAAAATGACTGA
38810644 TTTCCCTACA
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.23
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCCTATAAGG
Found at i:38812948 original size:6 final size:6
Alignment explanation
Indices: 38812918--38813165 Score: 161
Period size: 6 Copynumber: 40.3 Consensus size: 6
38812908 AAGAAACATT
* * * *
38812918 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGA ATCAGGTG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * * *
38812968 AT-AGA ATCAAA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATTAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* * *
38813016 ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAAA ATTAGGTA A-CAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
38813066 ATCAGA ATCAGT ATCAG- GTACAGA ATCAGA ATCAGA ACCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA AT-CAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
38813114 ATTAGGTA A-CAGA ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
38813164 AT
1 AT
38813166 GTCAATGCAA
Statistics
Matches: 188, Mismatches: 32, Indels: 44
0.71 0.12 0.17
Matches are distributed among these distances:
5 14 0.07
6 149 0.79
7 15 0.08
8 10 0.05
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:38812982 original size:31 final size:31
Alignment explanation
Indices: 38812939--38813165 Score: 174
Period size: 31 Copynumber: 7.5 Consensus size: 31
38812929 AATCAAAATG
* *
38812939 AGAATTAGAATCAGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGAATCAGAATCAGGTAAT
* *
38812970 AGAATCAAAATCAGAATCAGAATTAGG---T
1 AGAATCAGAATCAGAATCAGAATCAGGTAAT
* * *
38812998 --AA-CAGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAT
* *
38813026 AGAATCAGAATCAGAACCAGAATCA--AAATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-T
* *
38813056 AGGTAA-CAGAATCAGAATCAGTATCAGGT-AC
1 A-G-AATCAGAATCAGAATCAGAATCAGGTAAT
*
38813087 AGAATCAGAATCAGAACCAGAATCA-G-AATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-T
* * *
38813117 AGGTAA-CAGAATTAGAATCAGTATCAGGTAAC
1 A-G-AATCAGAATCAGAATCAGAATCAGGTAAT
38813149 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
38813166 GTCAATGCAA
Statistics
Matches: 152, Mismatches: 25, Indels: 38
0.71 0.12 0.18
Matches are distributed among these distances:
25 18 0.12
26 2 0.01
28 1 0.01
29 6 0.04
30 25 0.16
31 91 0.60
32 7 0.05
33 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAT
Found at i:38813006 original size:25 final size:25
Alignment explanation
Indices: 38812945--38813165 Score: 161
Period size: 25 Copynumber: 8.7 Consensus size: 25
38812935 AATGAGAATT
38812945 AGAATCAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAGAATCAGAATCA-G-G-T--AA-C
* *
38812976 AAAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
38813001 AGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
38813026 AGAATCAGAATCAGAACCA-G-AATC
1 AGAATCAGAATCAGAATCAGGTAA-C
* *
38813050 AAAATTAGGTAA-CAGAATCA-G-AATC
1 AGAATCA-G-AATCAGAATCAGGTAA-C
* *
38813075 AGTATCAG-GTACAGAATCA-G-AATC
1 AGAATCAGAAT-CAGAATCAGGTAA-C
* *
38813099 AGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
38813124 AGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
38813149 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
38813166 GTCAATGCAA
Statistics
Matches: 156, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.01
24 34 0.22
25 94 0.60
26 6 0.04
28 1 0.01
29 1 0.01
30 1 0.01
31 17 0.11
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:38813011 original size:37 final size:37
Alignment explanation
Indices: 38812947--38813161 Score: 102
Period size: 37 Copynumber: 6.0 Consensus size: 37
38812937 TGAGAATTAG
38812947 AATCAGAATCAGAATCAGGT----G-AT-AGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAGAATCAA
* * *
38812978 AATCAGAATCAGAATTAGGTAACAGAATCAGAATTAG
1 AATCAGAATCAGAATCAGGTAACAGAATCAGAATCAA
* *
38813015 TATCAGGTAA-CAGAATCA-G-AATCAGAACCAGAATCAA
1 AATCA-G-AATCAGAATCAGGTAA-CAGAATCAGAATCAA
* * * *
38813052 AATTAGGTAA-CAGAATCA-G-AATCAGTATCAG-GTACAG
1 AATCA-G-AATCAGAATCAGGTAA-CAGAATCAGAAT-CAA
* * *
38813089 AATCAGAATCAGAACCA-G-AATCAGAATTAGGTAA-CAG
1 AATCAGAATCAGAATCAGGTAA-CAGAATCA-G-AATCAA
* *
38813126 AATTAGAATCAGTATCAGGTAACAGAATCAGAATCA
1 AATCAGAATCAGAATCAGGTAACAGAATCAGAATCA
38813162 GAATGTCAAT
Statistics
Matches: 144, Mismatches: 23, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
31 19 0.13
35 3 0.02
36 25 0.17
37 77 0.53
38 16 0.11
39 4 0.03
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAGAATCAA
Found at i:38813434 original size:27 final size:26
Alignment explanation
Indices: 38813382--38813434 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
38813372 GCGAGGCTGC
*
38813382 CAGATATTGTGACGAAGTCACAAGAA
1 CAGATATTGTGACGAAGCCACAAGAA
* * *
38813408 CAGATATATGTGGCGAGGCCACCAGAA
1 CAGATAT-TGTGACGAAGCCACAAGAA
38813435 TGCAGCGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACAAGAA
Found at i:38813736 original size:27 final size:27
Alignment explanation
Indices: 38813679--38813865 Score: 214
Period size: 27 Copynumber: 6.9 Consensus size: 27
38813669 GGGTAAAATG
* * * * * *
38813679 GTAATTTTACCCCACAAGGTTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
38813706 GTAATTCTACCTTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
38813733 GTAATTCTACCCTACAGGGGTATTT-A
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
38813759 GGTATTTCTACCCTACAAGGATATTTCG
1 -GTAATTCTACCCTACAGGGGTATTTCA
* *
38813787 GTAAGTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
38813814 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
38813841 GTATTTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
38813866 TGATAATTTT
Statistics
Matches: 133, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 132 0.99
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:38813803 original size:81 final size:81
Alignment explanation
Indices: 38813682--38813865 Score: 255
Period size: 81 Copynumber: 2.3 Consensus size: 81
38813672 TAAAATGGTA
* * * * *
38813682 ATTT-TACCCCACAAGGTTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGATATTTCGGTAAGTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
38813746 ACAGGGGTATTT-AGGT
66 ACAGGGGTATTTCA-GT
* *
38813762 ATTTCTACCCTACAAGGATATTTCGGTAAGTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGATATTTCGGTAAGTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
*
38813827 ATAGGGGTATTTCAGT
66 ACAGGGGTATTTCAGT
* *
38813843 ATTTCTACCCTACAGGGGTATTT
1 ATTTCTACCCTACAAGGATATTT
38813866 TGATAATTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
80 4 0.04
81 87 0.95
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGATATTTCGGTAAGTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCAGT
Found at i:38813886 original size:81 final size:81
Alignment explanation
Indices: 38813682--38813900 Score: 228
Period size: 81 Copynumber: 2.7 Consensus size: 81
38813672 TAAAATGGTA
* * * * * ** * *
38813682 ATTT-TACCCCACAAGGTTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGATATTTCGATAAGTCTACCAAACAGGGGTATTTTAGTAATTCTACCCT
38813746 ACAGGGGTATTTAGGT
66 ACAGGGGTATTTAGGT
* **
38813762 ATTTCTACCCTACAAGGATATTTCGGTAAGTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGATATTTCGATAAGTCTACCAAACAGGGGTATTTTAGTAATTCTACCCT
*
38813827 ATAGGGGTATTTCA-GT
66 ACAGGGGTATTT-AGGT
* * * * * *
38813843 ATTTCTACCCTACAGGGGTATTTTGATAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 ATTTCTACCCTACAAGGATATTTCGATAAGTCTACCAAA-CAGGGGTATTTTAGTAATT
38813901 TTGTAAACCA
Statistics
Matches: 119, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 6 0.05
81 112 0.94
82 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGATATTTCGATAAGTCTACCAAACAGGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTAGGT
Found at i:38817999 original size:42 final size:42
Alignment explanation
Indices: 38817921--38818010 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 42
38817911 ATTGATTAGA
38817921 GATTACGTGTAAGACCATGTCTGGGACATCGACATC-GTATTT
1 GATTACGTGTAAGACCATGTCTGGGACATCGACATCGGTA-TT
* * *
38817963 GATTTCGTGTAAGACCCTGTCTGGGACAGT-GGCATCGGTATT
1 GATTACGTGTAAGACCATGTCTGGGACA-TCGACATCGGTATT
38818005 GATTAC
1 GATTAC
38818011 AAATATGACC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 38 0.90
43 4 0.10
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (42 bp):
GATTACGTGTAAGACCATGTCTGGGACATCGACATCGGTATT
Found at i:38820820 original size:40 final size:40
Alignment explanation
Indices: 38820746--38820887 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
38820736 AACCCAAGTA
* *
38820746 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
38820785 CCTTCGGGTCTTAGCCCGGATCTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
38820825 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
38820865 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
38820888 CATCCGAATA
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 12 0.13
40 82 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:38836565 original size:21 final size:21
Alignment explanation
Indices: 38836524--38836567 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
38836514 TGGTTTGATC
*
38836524 TCTTTGGAATCTTTTTCTTCT
1 TCTTTGGAATCTTTCTCTTCT
*
38836545 TCTTTGGGATC-TTCTCTTTCT
1 TCTTTGGAATCTTTCTC-TTCT
38836566 TC
1 TC
38836568 AACTCGTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.07, C:0.23, G:0.11, T:0.59
Consensus pattern (21 bp):
TCTTTGGAATCTTTCTCTTCT
Found at i:38845633 original size:50 final size:50
Alignment explanation
Indices: 38845552--38845927 Score: 302
Period size: 50 Copynumber: 7.5 Consensus size: 50
38845542 GTGAGTCACG
38845552 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCA
* * * * * **
38845602 TGTGTAGTACTAAGTGCAGGCTACCATGTGTACCT--ATTAACTTCGATAACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTAGATTGA--TAGGTCGCA
* * * * * * *
38845653 TTTGTAGTACTAAGTGCAGGCTGCT--GTGTA-TCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGATAGGTCGCA
*
38845701 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCA
* * * * * * * *
38845751 TGTGTAGTACCAAGTGCAGGCTACTACGCGTACAAG-TTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGA--TAGGTCGCA
** * * * * *
38845802 TGTGTAGTAGAAAGTGCAGGCTACTACGTGTA-TCAAATGGTTAAGTCAG-G
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGATAGGTC-GCA
* * *
38845852 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTA-TCGGATTGATAGGTCGGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGATAGGTCGCA
*
38845902 TGTATAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
38845928 TGCGTACCAG
Statistics
Matches: 254, Mismatches: 57, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
47 1 0.00
48 26 0.10
49 13 0.05
50 148 0.58
51 65 0.26
52 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCA
Found at i:38845817 original size:101 final size:101
Alignment explanation
Indices: 38845696--38845877 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 101
38845686 GATGGTTAAG
* * * *
38845696 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTA-CTAGATTGATAGGTC-GCATGTGTAGT
1 TCACGTGTGTAGTACAAAGTGCAAGCTACTACGTGTATC-AAATGGATAAGTCAG-ATGTGTAGT
38845759 ACCAAGTGCAGGCTACTACGCGTACAAGTTAACTTCGA
64 ACCAAGTGCAGGCTACTACGCGTACAAGTTAACTTCGA
* * * *
38845797 TCACGTGTGTAGTAGAAAGTGCAGGCTACTACGTGTATCAAATGGTTAAGTCAGGTGTGTAGTAC
1 TCACGTGTGTAGTACAAAGTGCAAGCTACTACGTGTATCAAATGGATAAGTCAGATGTGTAGTAC
*
38845862 TAAGTGCAGGCTACTA
66 CAAGTGCAGGCTACTA
38845878 AGTGTATCGG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
101 68 0.97
102 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (101 bp):
TCACGTGTGTAGTACAAAGTGCAAGCTACTACGTGTATCAAATGGATAAGTCAGATGTGTAGTAC
CAAGTGCAGGCTACTACGCGTACAAGTTAACTTCGA
Found at i:38845817 original size:149 final size:149
Alignment explanation
Indices: 38845545--38845934 Score: 568
Period size: 149 Copynumber: 2.6 Consensus size: 149
38845535 AACCGTTGTG
38845545 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGT
* * * * *
38845610 ACTAAGTGCAGGCTACCATGTGTACCTATTAACTTCGATAACATTTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTA-CAATTAACTTCGATAACATGTGTAGTACAAAGTGCAGGCT
* *
38845675 GCT-GTGTATCAGATGGTTA
130 ACTAGTGTATCAAATGGTTA
*
38845694 AGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGT
* * * * *
38845759 ACCAAGTGCAGGCTACTACGCGTACAAGTTAACTTCGATCACGTGTGTAGTAGAAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACAA-TTAACTTCGATAACATGTGTAGTACAAAGTGCAGGCT
38845824 ACTACGTGTATCAAATGGTTA
130 ACTA-GTGTATCAAATGGTTA
* * * * *
38845845 AGTCAGGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTA-TCGGATTGATAGGTCGGATGTATAG
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGATAGGTCGCATGTGTAG
38845909 TACTAAGTGCAGGCTACTATGCGTAC
65 TACTAAGTGCAGGCTACTATGCGTAC
38845935 CAGAGTGCTT
Statistics
Matches: 216, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
148 2 0.01
149 118 0.55
150 1 0.00
151 95 0.44
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (149 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACAATTAACTTCGATAACATGTGTAGTACAAAGTGCAGGCTA
CTAGTGTATCAAATGGTTA
Found at i:38847953 original size:56 final size:54
Alignment explanation
Indices: 38847866--38848009 Score: 180
Period size: 56 Copynumber: 2.6 Consensus size: 54
38847856 TGGGTGTTAC
* *
38847866 AGTTGGCATCGATATGTGGTTTCGATATATGTGTGCAAGTAAGACCATGTTTAAT
1 AGTTGGCATCGATATGT-GATTCGATATATGTGTGCAAGTAAGACCACGTTTAAT
* * *
38847921 ATGTTGGCATCGATATGTGACTTCGATATATGTGTGCGAGTAAGACTACGTTTATT
1 A-GTTGGCATCGATATGTGA-TTCGATATATGTGTGCAAGTAAGACCACGTTTAAT
* * *
38847977 AGTTGACATCGATATGGGATTCTGATTTATGTG
1 AGTTGGCATCGATATGTGATTC-GATATATGTG
38848010 ATTACATGTA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
54 3 0.04
55 27 0.35
56 48 0.62
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.38
Consensus pattern (54 bp):
AGTTGGCATCGATATGTGATTCGATATATGTGTGCAAGTAAGACCACGTTTAAT
Found at i:38848319 original size:44 final size:44
Alignment explanation
Indices: 38848264--38848350 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
38848254 ATTATTATGT
38848264 TATTATCTATATGTGCATTCGA-CCAATTTGAAATTGTGGCATAA
1 TATTATCTATATGTGCATT-GAGCCAATTTGAAATTGTGGCATAA
* * *
38848308 TATTATCTATATGTGCATTTAGCTAATTTGAATTTGTGGCATA
1 TATTATCTATATGTGCATTGAGCCAATTTGAAATTGTGGCATA
38848351 CTTATATGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (44 bp):
TATTATCTATATGTGCATTGAGCCAATTTGAAATTGTGGCATAA
Found at i:38852732 original size:27 final size:27
Alignment explanation
Indices: 38852702--38852857 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
38852692 TGCTATTCAC
* *
38852702 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
38852729 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
38852756 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
38852784 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
38852811 TCCTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
38852838 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
38852858 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:38852773 original size:55 final size:55
Alignment explanation
Indices: 38852707--38852858 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
38852697 TTCACTCAAC
* * *
38852707 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTACAT
* ** * * *
38852762 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
* *
38852816 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
38852859 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
Found at i:38860838 original size:27 final size:27
Alignment explanation
Indices: 38860808--38860963 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
38860798 TGCTATTCAC
* *
38860808 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
38860835 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
38860862 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
38860890 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
38860917 TCCTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
38860944 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
38860964 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:38860879 original size:55 final size:55
Alignment explanation
Indices: 38860813--38860964 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
38860803 TTCACTCAAC
* * *
38860813 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTACAT
* ** * * *
38860868 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCCTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
* *
38860922 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
38860965 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTACAT
Found at i:38867224 original size:42 final size:41
Alignment explanation
Indices: 38867144--38867293 Score: 162
Period size: 41 Copynumber: 3.6 Consensus size: 41
38867134 GAGCTTGGTC
38867144 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
38867185 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
38867227 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
*
38867268 TCGAAGGGCTTTTGAGCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
38867294 GAGTCGGACT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 9 0.10
41 37 0.41
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:38867276 original size:41 final size:40
Alignment explanation
Indices: 38867124--38867293 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
38867114 GCTAATCGGG
*
38867124 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
38867165 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
38867208 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
38867248 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
38867289 G-CTAA
1 GTCTAA
38867294 GAGTCGGACT
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 50 0.47
42 23 0.21
43 9 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:38878103 original size:43 final size:43
Alignment explanation
Indices: 38878056--38878178 Score: 176
Period size: 43 Copynumber: 2.9 Consensus size: 43
38878046 GAATAATATC
*
38878056 ATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATAAT
1 ATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAAT
* * *
38878099 ATCGGGCTTCGGGCCTAGCAGGCTATAATGTCGATGAAATGAT
1 ATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAAT
** *
38878142 ATCGGGCTTCAAGCCTAGCAGGC-AAAATGCCGGTGAA
1 ATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
38878179 TGAGTTCAGA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 11 0.15
43 60 0.85
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (43 bp):
ATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAAT
Found at i:38878254 original size:40 final size:40
Alignment explanation
Indices: 38878155--38878259 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 40
38878145 GGGCTTCAAG
* * *
38878155 CCTAGCAGGCAAAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* * *** * **
38878196 TCTAGCAAGCTTCGTGCCGGTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
38878236 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
38878260 TTGATAAAAG
Statistics
Matches: 48, Mismatches: 16, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
40 32 0.67
41 16 0.33
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:38880135 original size:38 final size:41
Alignment explanation
Indices: 38880077--38880456 Score: 244
Period size: 38 Copynumber: 8.9 Consensus size: 41
38880067 TTCAAATTAA
* * *
38880077 AATGTATAACCGTGGCATATCCACTTAGTACCACG-TTA-C
1 AATGTTTAACCGTGGTATATCCACTTAGCACCACGTTTATC
*
38880116 -ATGTTTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATC
1 AATGTTTAACCGTGGTATATCCACTTAGCACCACGTT--T--ATC
* * *
38880160 AATATATGTAACCGTGGCATATCCATTTAGCACCACG-TTA-C
1 AATGT-T-TAACCGTGGTATATCCACTTAGCACCACGTTTATC
*
38880201 -ATGTTTAACCATGGTATATCCACTTAGCACCACGTTAATGAATC
1 AATGTTTAACCGTGGTATATCCACTTAGCACCACGTT--T--ATC
* * *
38880245 AATATATGTAACCGTGGCATATCCAGTTAGCACCACGTTACATTTATC
1 AATGT-T-TAACCGTGGTATATCCACTTAGCACCACG-----TTTATC
* *
38880293 AATATGTGTAATCGTGGTATATCCACTTAGCACCACG-TTA-C
1 -A-ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTTATC
* * * *
38880334 -ACGTATAATCGTGGCATATCCACTTAGCACCACGTTACATTTATC
1 AATGTTTAACCGTGGTATATCCACTTAGCACCACG-----TTTATC
* *
38880379 AATATGTGTAATCGTGGTATATCCACTTAGCACCACG-TTA-C
1 -A-ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTTATC
* * *
38880420 -ACGTATAACCGTGGTATATCCACTTAGCACCATGTTT
1 AATGTTTAACCGTGGTATATCCACTTAGCACCACGTTT
38880457 TTTCATTCCG
Statistics
Matches: 274, Mismatches: 31, Indels: 72
0.73 0.08 0.19
Matches are distributed among these distances:
38 117 0.43
39 5 0.02
40 3 0.01
41 5 0.02
42 7 0.03
43 2 0.01
44 6 0.02
45 7 0.03
46 3 0.01
47 52 0.19
48 60 0.22
49 1 0.00
50 4 0.01
52 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (41 bp):
AATGTTTAACCGTGGTATATCCACTTAGCACCACGTTTATC
Found at i:38880175 original size:85 final size:85
Alignment explanation
Indices: 38880083--38880287 Score: 365
Period size: 85 Copynumber: 2.4 Consensus size: 85
38880073 TTAAAATGTA
* * *
38880083 TAACCGTGGCATATCCACTTAGTACCACGTTACATGTTTAATCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
38880148 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
*
38880168 TAACCGTGGCATATCCATTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
38880233 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
*
38880253 TAACCGTGGCATATCCAGTTAGCACCACGTTACAT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACAT
38880288 TTATCAATAT
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 115 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Done.