Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 55 of 352
Found at i:17675591 original size:79 final size:81
Alignment explanation
Indices: 17675455--17675718 Score: 229
Period size: 80 Copynumber: 3.3 Consensus size: 81
17675445 TCGAATGATG
* *
17675455 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17675519 TGTCCGAGTTACTA-A
66 TGTCCGAGTTACTATA
* * * **
17675534 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
17675596 TTTGTGCGAGTTACTATA
64 TTTGTCCGAGTTACTATA
* ** *** * *
17675614 ACCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAG-GCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG-GCA
** * * * *
17675677 TTCATGCTAGTGA-TGTA
64 TTTGTCCGAGTTACTATA
17675694 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
17675719 CATGCTAGTG
Statistics
Matches: 155, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.38
80 70 0.45
81 25 0.16
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTCCGAGTTACTATA
Found at i:17675719 original size:40 final size:40
Alignment explanation
Indices: 17675535--17675849 Score: 330
Period size: 40 Copynumber: 7.9 Consensus size: 40
17675525 AGTTACTAAT
** * * *
17675535 TCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TATA
* ** * *
17675574 TCCGGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
17675614 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
17675654 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
17675694 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
17675734 TCCGGGCTAAGTTCCGAAAAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * * *
17675774 TCCGTGCTAAACCCCAAAGAGCATTCGTACTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
17675814 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
17675850 CGTGTATTCG
Statistics
Matches: 239, Mismatches: 35, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
39 10 0.04
40 217 0.91
41 12 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:17677202 original size:56 final size:56
Alignment explanation
Indices: 17677116--17677235 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
17677106 ACAAGGGATG
17677116 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
17677172 ATGGGCAAAATATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
17677228 ATGGGCAA
1 ATGGGCAA
17677236 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:17678798 original size:23 final size:23
Alignment explanation
Indices: 17678772--17678840 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 23
17678762 CTAATGGCCA
17678772 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* *** ***
17678795 ATGTGAT-AAGGCCTAA-TGGCC
1 ATGTGATGAATGTGAAAGTGTAT
17678816 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
17678839 AT
1 AT
17678841 ATGTGATAAG
Statistics
Matches: 30, Mismatches: 14, Indels: 4
0.62 0.29 0.08
Matches are distributed among these distances:
21 9 0.30
22 10 0.33
23 11 0.37
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:17678885 original size:47 final size:47
Alignment explanation
Indices: 17678689--17679365 Score: 984
Period size: 47 Copynumber: 14.5 Consensus size: 47
17678679 TTTGAATAAA
*
17678689 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
17678736 TGAAAGTGTATATATATTGATAAGGCCTAATGGCCAATGTGATGAATG
1 TGAAAGTGTATATAT-GTGATAAGGCCGAATGGCCAATGTGATGAATG
*
17678784 TGAAAGTG--TATATGTGATAAGGCCTAATGGCC-ATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
*
17678828 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
17678875 TGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
*
17678924 TGAAAGTG--TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
17678969 TGAAA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
17679015 TGAACA-TGTGTATGT-TGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
17679061 TGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
*
17679108 TGAACA-TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
17679155 TGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
17679202 TGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
17679249 TGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
*
17679296 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
17679343 TGGAAGTGTATAAATGTGATAAG
1 TGAAAGTGTATATATGTGATAAG
17679366 TCCCGAAGGG
Statistics
Matches: 592, Mismatches: 27, Indels: 22
0.92 0.04 0.03
Matches are distributed among these distances:
44 22 0.04
45 59 0.10
46 114 0.19
47 312 0.53
48 39 0.07
49 46 0.08
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
Found at i:17685553 original size:15 final size:16
Alignment explanation
Indices: 17685521--17685556 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
17685511 CATGCATTTG
17685521 CATTTGCATTTGCATT
1 CATTTGCATTTGCATT
*
17685537 CATTTTCATTT-CATT
1 CATTTGCATTTGCATT
17685552 CATTT
1 CATTT
17685557 AAGGCATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (16 bp):
CATTTGCATTTGCATT
Found at i:17689294 original size:61 final size:60
Alignment explanation
Indices: 17689223--17689349 Score: 236
Period size: 61 Copynumber: 2.1 Consensus size: 60
17689213 TTCTTTCATT
*
17689223 CTTTCCACAAGTAATTGTTTTATTCTTTCCATTTGAGTAATTATTTTAGTCTTTTTTTTTA
1 CTTTCTACAAGTAATTGTTTTATTCTTTCCATTTGAGTAATTATTTTAGTC-TTTTTTTTA
17689284 CTTTCTACAAGTAATTGTTTTATTCTTTCCATTTGAGTAATTATTTTAGTCTTTTTTTTA
1 CTTTCTACAAGTAATTGTTTTATTCTTTCCATTTGAGTAATTATTTTAGTCTTTTTTTTA
17689344 CTTTCT
1 CTTTCT
17689350 TCAATCATTC
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
60 15 0.23
61 50 0.77
ACGTcount: A:0.20, C:0.13, G:0.08, T:0.58
Consensus pattern (60 bp):
CTTTCTACAAGTAATTGTTTTATTCTTTCCATTTGAGTAATTATTTTAGTCTTTTTTTTA
Found at i:17694273 original size:44 final size:45
Alignment explanation
Indices: 17694225--17694331 Score: 114
Period size: 44 Copynumber: 2.4 Consensus size: 45
17694215 TATCTCTTTA
** * *
17694225 AGGTAGCAAGAGAGCAGGTTGAAGATT-ATAG-TCTTATTTTCCTG
1 AGGTAGCAAGAGAGCAGACTGAAGATTGA-AGATCTTATCTCCCTG
17694269 AGGTAGCAAG-GAAGCAGACTGAAGATTGAAGATCTTATCTCCCTG
1 AGGTAGCAAGAG-AGCAGACTGAAGATTGAAGATCTTATCTCCCTG
*
17694314 AGATAGC-AGTAGAGCAGA
1 AGGTAGCAAG-AGAGCAGA
17694332 TCAAAACAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
43 1 0.02
44 27 0.51
45 24 0.45
46 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (45 bp):
AGGTAGCAAGAGAGCAGACTGAAGATTGAAGATCTTATCTCCCTG
Found at i:17694556 original size:133 final size:132
Alignment explanation
Indices: 17694157--17694557 Score: 365
Period size: 133 Copynumber: 3.0 Consensus size: 132
17694147 GAGCAAATCA
*
17694157 AAGATGGTGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAA-CCTTATCTC
1 AAGATGG-GAATCTTATCTTCCCGAGGTAGCAGTGGAGCAGATTTTAGCCA-CAAGCCTTATCTC
* * * * * * *
17694221 TTTAAGGTAGCAAGAGAGCAGGTTGAAGATTATAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAG
64 TCTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGTCTTATCTTCTTTAGGTAGCAAGGAAGCAG
17694286 ACTG
129 ACTG
* * * * * ** *
17694290 AAGATTGAAGATCTTATC-TCCCTGAGATAGCAGTAGAGCAGA--TCA-AAACAAGTCTTATCTC
1 AAGATGGGA-ATCTTATCTTCCC-GAGGTAGCAGTGGAGCAGATTTTAGCCACAAGCCTTATCTC
* * * * * * * * *
17694351 CCTGAAGTTGC-AGTGGAGTAGACTAAAAATTGTAGATCTTATCTCCTTAAATA-GTAGC--GG-
64 TCTGAGGTAGCAAG-AGAGCAGATTGAAGATTGTAG-TCTTATCTTCTT---TAGGTAGCAAGGA
17694411 AGCAGA-TCG
124 AGCAGACT-G
* * *
17694420 AAGATGGCGAATCTTATCTTCCCGAGGTAGTAGTGGAGCAGATTTTAGCCACTAGCCTCATCTCT
1 AAGATGG-GAATCTTATCTTCCCGAGGTAGCAGTGGAGCAGATTTTAGCCACAAGCCTTATCTCT
*
17694485 CTGAGGAAGCAAGAGAGCAGATTGAAGATTGTAGTCTTATCTTCTTTAGGTAGCAAGGAAGCAGA
65 CTGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGTCTTATCTTCTTTAGGTAGCAAGGAAGCAGA
17694550 CTG
130 CTG
17694553 AAGAT
1 AAGAT
17694558 CGAAGATATT
Statistics
Matches: 202, Mismatches: 46, Indels: 40
0.70 0.16 0.14
Matches are distributed among these distances:
129 8 0.04
130 71 0.35
131 18 0.09
132 20 0.10
133 81 0.40
134 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (132 bp):
AAGATGGGAATCTTATCTTCCCGAGGTAGCAGTGGAGCAGATTTTAGCCACAAGCCTTATCTCTC
TGAGGTAGCAAGAGAGCAGATTGAAGATTGTAGTCTTATCTTCTTTAGGTAGCAAGGAAGCAGAC
TG
Found at i:17694827 original size:45 final size:46
Alignment explanation
Indices: 17694713--17694829 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 46
17694703 GCAAGGAAGC
* *
17694713 AGACTGAAGATTGAAGATCTTATCTCCCT-GAGATAGCAGTAGAGT
1 AGACTCAAGATTGAAGATCTTATCTCCCTAAAGATAGCAGTAGAGT
* *
17694758 AGA-TCAA-A--GCAAG-TCTTATCTCCCTAAAG-TTGCAGTGGAGT
1 AGACTCAAGATTG-AAGATCTTATCTCCCTAAAGATAGCAGTAGAGT
*
17694799 AGACTCAAGATTGTAGATCTTATCTCCCTAA
1 AGACTCAAGATTGAAGATCTTATCTCCCTAA
17694830 GCAGTAGTGG
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
41 26 0.43
42 9 0.15
43 2 0.03
44 5 0.08
45 18 0.30
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (46 bp):
AGACTCAAGATTGAAGATCTTATCTCCCTAAAGATAGCAGTAGAGT
Found at i:17694863 original size:44 final size:45
Alignment explanation
Indices: 17694771--17694867 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
17694761 TCAAAGCAAG
** * * *
17694771 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTCAAGATTGTAGA
1 TCTTATCTCCCTAAAGCAGCAGTGGAGCAGACTCAAGATGGTAAA
*
17694816 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCAAAGATGGTAAA
1 TCTTATCTCCCTAAAGCAGCAGTGGAGCAGACTC-AAGATGGTAAA
17694860 TCTTATCT
1 TCTTATCT
17694868 TCCTGAGGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 2 0.04
44 31 0.69
45 12 0.27
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (45 bp):
TCTTATCTCCCTAAAGCAGCAGTGGAGCAGACTCAAGATGGTAAA
Found at i:17694983 original size:429 final size:429
Alignment explanation
Indices: 17694184--17695004 Score: 1311
Period size: 429 Copynumber: 1.9 Consensus size: 429
17694174 CTTCCCGAGG
* * * * *
17694184 TAGCAGGGGAGCAGATTTTAGCCACCAACCTTATCTCTTTAAGGTAGCAAGAGAGCAGGTTGAAG
1 TAGCAGGGAAGCAGATTTTAGCCACCAACATCATCTCTCTAAGGTAACAAGAGAGCAGGTTGAAG
*
17694249 ATTATAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTG
66 ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTG
*
17694314 AGATAGCAGTAGAGCAGATCAAAACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAA
131 AGATAGCAGTAGAGCAGATCAAAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTAAAA
* * * *
17694379 ATTGTAGATCTTATCTCCTTAAATAGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCG
196 ATTGTAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCAAAGATGGCAAATCTTATCTTCCCG
* * * *
17694444 AGGTAGTAGTGGAGCAGATTTTAGCCACTAGCCTCATCTCTCTGAGGAAGCAAGAGAGCAGATTG
261 AGGTAGTAGGGGAGCAGATTTAAGCCACCAGCCTCATCTCTCTAAGGAAGCAAGAGAGCAGATTG
* * **
17694509 AAGATTGTAGTCTTATCTTCTTTAGGTAGCAAGGAAGCAGACTGAAGATCGAAGATATTATCTCC
326 AAGATTGTAGTCTTATCTTCTTGAGGTAGAAAAAAAGCAGACTGAAGATCGAAGATATTATCTCC
17694574 CTAAGCAGTAGCGGAGCAGATCGAAGATGGTAAATTTTA
391 CTAAGCAGTAGCGGAGCAGATCGAAGATGGTAAATTTTA
* * *
17694613 TAGCAGGGAAGTAGATTTTAGCCACCAATATCATCTCTCTGAGGTAAC-AGAAGAGCAGGTTGAA
1 TAGCAGGGAAGCAGATTTTAGCCACCAACATCATCTCTCTAAGGTAACAAG-AGAGCAGGTTGAA
17694677 GATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCT
65 GATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCT
* * *
17694742 GAGATAGCAGTAGAGTAGATCAAAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTCAA
130 GAGATAGCAGTAGAGCAGATCAAAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTAAA
* * * * *
17694807 GATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAAATCTTATCTTCCT
195 AATTGTAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCAAAGATGGCAAATCTTATCTTCCC
* *
17694872 GAGGTAGTAGGGGAGTAGATTTAAGCCACCAGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGATT
260 GAGGTAGTAGGGGAGCAGATTTAAGCCACCAGCCTCATCTCTCTAAGGAAGCAAGAGAGCAGATT
* * *
17694937 GAAGATTGTAGTCTTATCTTCTTGAGGTAGAAAAAAAGCAGACTGAAGATTGAAGATCTTATTTC
325 GAAGATTGTAGTCTTATCTTCTTGAGGTAGAAAAAAAGCAGACTGAAGATCGAAGATATTATCTC
17695002 CCT
390 CCT
17695005 GAGATTACAG
Statistics
Matches: 356, Mismatches: 35, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
428 2 0.01
429 354 0.99
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (429 bp):
TAGCAGGGAAGCAGATTTTAGCCACCAACATCATCTCTCTAAGGTAACAAGAGAGCAGGTTGAAG
ATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTG
AGATAGCAGTAGAGCAGATCAAAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTAAAA
ATTGTAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCAAAGATGGCAAATCTTATCTTCCCG
AGGTAGTAGGGGAGCAGATTTAAGCCACCAGCCTCATCTCTCTAAGGAAGCAAGAGAGCAGATTG
AAGATTGTAGTCTTATCTTCTTGAGGTAGAAAAAAAGCAGACTGAAGATCGAAGATATTATCTCC
CTAAGCAGTAGCGGAGCAGATCGAAGATGGTAAATTTTA
Found at i:17694986 original size:133 final size:133
Alignment explanation
Indices: 17694612--17695009 Score: 353
Period size: 133 Copynumber: 3.0 Consensus size: 133
17694602 GGTAAATTTT
* * * * * * *
17694612 ATAGCAGGGAAGTAGATTTTAGCCACCAATATCATCTCTCTGAGGTAACAGAAGAGCAGGTTGAA
1 ATAGCAGGGGAGTAGATTTAAGCCACCAGTCTCATCTCTCTAAGGTAGCAGAAGAGCAGATTGAA
* * * *
17694677 GATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCT
66 GATTGTAGTCTTATCTTCCTGAGGTAGAAAAGAAGCAGACTGAAGATTGAAGATCTTATCTTCCT
17694742 GAG
131 GAG
** ** * * * * ** * * *
17694745 ATAGCAGTAGAGTAGATCAAAG-CA--AGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTCAA
1 ATAGCAGGGGAGTAGATTTAAGCCACCAGTCTCATCTCTCTAAGGTAGCAGAAGAGCAGATTGAA
* * * * ** * * *
17694807 GATTGTAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCAAAGATGGTAA-ATCTTATCTT
66 GATTGTAG-TCTTATCTTCCTGAGGTAGAAAAGAAGCAGACT-GAAGATTG-AAGATCTTATCTT
17694869 CCTGAG
128 CCTGAG
* * *
17694875 GTAGTAGGGGAGTAGATTTAAGCCACCAGCCTCATCTCTCTAAGGTAGCA-AGAGAGCAGATTGA
1 ATAGCAGGGGAGTAGATTTAAGCCACCAGTCTCATCTCTCTAAGGTAGCAGA-AGAGCAGATTGA
* *
17694939 AGATTGTAGTCTTATCTTCTTGAGGTAGAAAAAAAGCAGACTGAAGATTGAAGATCTTAT-TTCC
65 AGATTGTAGTCTTATCTTCCTGAGGTAGAAAAGAAGCAGACTGAAGATTGAAGATCTTATCTT-C
17695003 CTGAG
129 CTGAG
17695008 AT
1 AT
17695010 TACAGTGGAG
Statistics
Matches: 195, Mismatches: 59, Indels: 22
0.71 0.21 0.08
Matches are distributed among these distances:
129 1 0.01
130 80 0.41
131 15 0.08
132 16 0.08
133 82 0.42
134 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (133 bp):
ATAGCAGGGGAGTAGATTTAAGCCACCAGTCTCATCTCTCTAAGGTAGCAGAAGAGCAGATTGAA
GATTGTAGTCTTATCTTCCTGAGGTAGAAAAGAAGCAGACTGAAGATTGAAGATCTTATCTTCCT
GAG
Found at i:17696548 original size:22 final size:21
Alignment explanation
Indices: 17696512--17696552 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
17696502 TATCTCTATT
17696512 AGTTTAATTTTATTTCAATTA
1 AGTTTAATTTTATTTCAATTA
*
17696533 AGTTTTATTTTCATTTCAAT
1 AGTTTAATTTT-ATTTCAAT
17696553 ATGTGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (21 bp):
AGTTTAATTTTATTTCAATTA
Found at i:17696563 original size:21 final size:21
Alignment explanation
Indices: 17696516--17696564 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
17696506 TCTATTAGTT
*
17696516 TAATTTTATTTCAATTAAGTT
1 TAATTTTATTTCAATTAAGTG
* *
17696537 TTATTTTCATTTCAA-TATGTG
1 TAATTTT-ATTTCAATTAAGTG
17696558 TAATTTT
1 TAATTTT
17696565 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (21 bp):
TAATTTTATTTCAATTAAGTG
Found at i:17696734 original size:28 final size:27
Alignment explanation
Indices: 17696680--17696739 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
17696670 AATTCTAAAA
* *
17696680 TTATTGTTTTAAAATTCTCTTTTATAT
1 TTATTGTTTTAAAATTCTCTATAATAT
* *
17696707 TCTATTGTTTTAAAATTTTGTATAATAT
1 T-TATTGTTTTAAAATTCTCTATAATAT
17696735 TTATT
1 TTATT
17696740 TTAAATTACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (27 bp):
TTATTGTTTTAAAATTCTCTATAATAT
Found at i:17701382 original size:21 final size:21
Alignment explanation
Indices: 17701353--17701392 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17701343 ATATTTTACG
*
17701353 TATATTATGTATACATTTTAA
1 TATAGTATGTATACATTTTAA
* *
17701374 TATAGTATGTGTATATTTT
1 TATAGTATGTATACATTTT
17701393 GTTTTGTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (21 bp):
TATAGTATGTATACATTTTAA
Found at i:17703117 original size:31 final size:31
Alignment explanation
Indices: 17703081--17703170 Score: 84
Period size: 29 Copynumber: 3.0 Consensus size: 31
17703071 ATTATACATG
17703081 TGAAACTCTAATTGTAGTTCAAATATATATT
1 TGAAACTCTAATTGTAGTTCAAATATATATT
* * * *
17703112 TGAAACTTTAA-T-T--TTCATATAATCACACT
1 TGAAACTCTAATTGTAGTTCAAAT-AT-ATATT
17703141 TGAAACTCTAATTGTAGTT--AATATATATT
1 TGAAACTCTAATTGTAGTTCAAATATATATT
17703170 T
1 T
17703171 TAAAAATAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
27 6 0.13
28 2 0.04
29 18 0.40
30 4 0.09
31 13 0.29
33 2 0.04
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (31 bp):
TGAAACTCTAATTGTAGTTCAAATATATATT
Found at i:17705058 original size:3 final size:3
Alignment explanation
Indices: 17705050--17705081 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
17705040 TATTCAGAAA
17705050 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
17705082 TTATTATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:17706690 original size:6 final size:6
Alignment explanation
Indices: 17706679--17706711 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
17706669 TAAAAAAAGG
17706679 AAATTT AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAA
17706712 CAATAACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
AAATTT
Found at i:17710337 original size:12 final size:12
Alignment explanation
Indices: 17710320--17710344 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17710310 GTGTTATTGG
17710320 TTTGAATAAAAT
1 TTTGAATAAAAT
17710332 TTTGAATAAAAT
1 TTTGAATAAAAT
17710344 T
1 T
17710345 ATAAGAGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTGAATAAAAT
Found at i:17711675 original size:34 final size:35
Alignment explanation
Indices: 17711631--17711714 Score: 109
Period size: 34 Copynumber: 2.4 Consensus size: 35
17711621 ATTAGAGAAC
17711631 AAATATAAATATAAATAAAA-AAATATTTATATATA
1 AAATATAAATA-AAATAAAATAAATATTTATATATA
* *
17711666 AAATA-AAATAAAATAAAATATATATTTATATTTA
1 AAATATAAATAAAATAAAATAAATATTTATATATA
*
17711700 AAATATCAGATAAAA
1 AAATAT-AAATAAAA
17711715 AATCAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
33 8 0.19
34 23 0.53
35 5 0.12
36 7 0.16
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (35 bp):
AAATATAAATAAAATAAAATAAATATTTATATATA
Found at i:17711689 original size:28 final size:28
Alignment explanation
Indices: 17711633--17711690 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
17711623 TAGAGAACAA
*
17711633 ATATAAATATAAATAAAAAAATATTTAT
1 ATATAAATATAAATAAAAAAATATATAT
17711661 ATATAAA-ATAAAATAAAATAAA-ATATAT
1 ATATAAATAT-AAATAAAA-AAATATATAT
17711689 AT
1 AT
17711691 TTATATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 2 0.07
28 22 0.81
29 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
ATATAAATATAAATAAAAAAATATATAT
Found at i:17731549 original size:109 final size:108
Alignment explanation
Indices: 17731310--17731576 Score: 275
Period size: 109 Copynumber: 2.5 Consensus size: 108
17731300 TAGATCGTAA
* * * * ** *
17731310 CGATGGCTGAGATCCTGCATATGTCGCGGATTCTCTACAGCTTGTGTGAGAGCACCGTGAAATGG
1 CGATGACTAAGATCCTACATATGTTGTAGATTCTCTACAGCTTGTGTGAGAGCACCATGAAATGG
* * * * * *
17731375 TGATTACTTAGCAGGTACTATGTATTGGTGATACAGACCGTAG
66 TGAATACTTAGCAGGTACCATGTACTAGTGATACAAACCATAG
* * * * * *
17731418 TGATGGCTAAGATCCTGCATATGTTGT-GAATTCTCTACATCTTGTGTGAGCAGCATCATGAGAT
1 CGATGACTAAGATCCTACATATGTTGTAG-ATTCTCTACAGCTTGTGTGAG-AGCACCATGAAAT
* * * *
17731482 GGTGAATATTTAGTAGGTACCATGTACTAGTGTTACAAACTATAG
64 GGTGAATACTTAGCAGGTACCATGTACTAGTGATACAAACCATAG
* * *
17731527 CGATGACTAAGATCTTACATATGTTGTAGATTCTCTGCAGCTCGTGTGAG
1 CGATGACTAAGATCCTACATATGTTGTAGATTCTCTACAGCTTGTGTGAG
17731577 TAGTATCGTG
Statistics
Matches: 131, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
107 1 0.01
108 43 0.33
109 86 0.66
110 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (108 bp):
CGATGACTAAGATCCTACATATGTTGTAGATTCTCTACAGCTTGTGTGAGAGCACCATGAAATGG
TGAATACTTAGCAGGTACCATGTACTAGTGATACAAACCATAG
Found at i:17733964 original size:45 final size:45
Alignment explanation
Indices: 17733902--17734030 Score: 181
Period size: 45 Copynumber: 2.9 Consensus size: 45
17733892 TTTAAACTGT
17733902 AAAA-GCATAAGACCATAGTTGAAAGATACTATGGCACTAAA-TAA
1 AAAAGGCATAAGACCATAGTTGAAAGATACTATGGCACTAAACT-A
* * *
17733946 AAAAGGCATAAGAACATAGTTGAAAGATAATATGGCACTAAACTG
1 AAAAGGCATAAGACCATAGTTGAAAGATACTATGGCACTAAACTA
* * *
17733991 TAAAGGTATAAGACCATAGTTGAAAGATACTATCGCACTA
1 AAAAGGCATAAGACCATAGTTGAAAGATACTATGGCACTA
17734031 CCTCGGTAAG
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
44 4 0.05
45 70 0.93
46 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (45 bp):
AAAAGGCATAAGACCATAGTTGAAAGATACTATGGCACTAAACTA
Found at i:17754726 original size:21 final size:22
Alignment explanation
Indices: 17754702--17754751 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
17754692 ATCAAAAGAT
* * *
17754702 CGTGTGAGGAGGGGCACTC-GC
1 CGTGTGAAGAGAGGCACACGGC
*
17754723 CGTGTAAAGAGAGGCACACGGC
1 CGTGTGAAGAGAGGCACACGGC
17754745 CGTGTGA
1 CGTGTGA
17754752 CTAAAGCACA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.22, C:0.22, G:0.42, T:0.14
Consensus pattern (22 bp):
CGTGTGAAGAGAGGCACACGGC
Found at i:17757821 original size:92 final size:90
Alignment explanation
Indices: 17757642--17757823 Score: 249
Period size: 92 Copynumber: 2.0 Consensus size: 90
17757632 TAGACTGCGA
** * *
17757642 TACACGCCAAATAGATAATAGTACGTAGTGTAGTTGACGTACGTACAGTACAGTGCAATGCGGTA
1 TACACGCCAAATAGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGGTA
* *
17757707 ATCAGCTGTACAATCATGTTGCAGT
66 AACAGCTATACAATCATGTTGCAGT
*
17757732 TACACTGCCAAATCAGATAATAGTACGTAGCATAGTTAACGTACGTACGGTACAATGCAATGCGG
1 TACAC-GCCAAAT-AGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGG
* *
17757797 TAAACCGCTATACCAATTAT-TTGCAGT
64 TAAACAGCTATA-CAATCATGTTGCAGT
17757824 CAAATTGCTA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
90 5 0.06
91 7 0.09
92 62 0.77
93 6 0.08
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (90 bp):
TACACGCCAAATAGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGGTA
AACAGCTATACAATCATGTTGCAGT
Found at i:17757839 original size:92 final size:92
Alignment explanation
Indices: 17757647--17757843 Score: 245
Period size: 92 Copynumber: 2.2 Consensus size: 92
17757637 TGCGATACAC
** * * *
17757647 GCCAAAT-AGATAATAGTACGTAGTGTAGTTGACGTACGTACAGTACAGTGCAATGCGGTAATCA
1 GCCAAATCAGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGGTAAACA
* * *
17757711 GCTGTACAATCATGTTGCAGTTACACT
66 GCTATACAATCATGTTGCAGTCAAACT
* *
17757738 GCCAAATCAGATAATAGTACGTAGCATAGTTAACGTACGTACGGTACAATGCAATGCGGTAAACC
1 GCCAAATCAGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGGTAAACA
* *
17757803 GCTATACCAATTAT-TTGCAGTCAAATT
66 GCTATA-CAATCATGTTGCAGTCAAACT
* *
17757830 GCTAGATCAGATAA
1 GCCAAATCAGATAA
17757844 AGGTACATGG
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
91 7 0.08
92 77 0.86
93 6 0.07
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (92 bp):
GCCAAATCAGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGGTAAACA
GCTATACAATCATGTTGCAGTCAAACT
Found at i:17757864 original size:92 final size:92
Alignment explanation
Indices: 17757647--17757877 Score: 209
Period size: 92 Copynumber: 2.5 Consensus size: 92
17757637 TGCGATACAC
* * * * * *
17757647 GCCAAAT-AGATAATAGTACGTAG-TGTAGTTGACGTACGTACAGTACAGTGCAATGCGGTAATC
1 GCCAAATCAGATAATAGTACATAGCAG-AGCTAACGTACGTACAGTACAATGCAATGCGGTAAAC
* * *
17757710 AGCTGTACAATCATGTTGCAGTTACACT
65 AGCTATACAATCATGTTGCAGTCAAACT
* * * * *
17757738 GCCAAATCAGATAATAGTACGTAGCATAGTTAACGTACGTACGGTACAATGCAATGCGGTAAACC
1 GCCAAATCAGATAATAGTACATAGCAGAGCTAACGTACGTACAGTACAATGCAATGCGGTAAACA
* *
17757803 GCTATACCAATTAT-TTGCAGTCAAATT
66 GCTATA-CAATCATGTTGCAGTCAAACT
* * * * * *
17757830 GCTAGATCAGATAA-AGGTACATGGTAGAGCTAACGTATGTGCAGTACA
1 GCCAAATCAGATAATA-GTACATAGCAGAGCTAACGTACGTACAGTACA
17757878 GTCTTCCTTC
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
91 8 0.07
92 100 0.88
93 6 0.05
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (92 bp):
GCCAAATCAGATAATAGTACATAGCAGAGCTAACGTACGTACAGTACAATGCAATGCGGTAAACA
GCTATACAATCATGTTGCAGTCAAACT
Found at i:17758264 original size:22 final size:22
Alignment explanation
Indices: 17758229--17758278 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
17758219 GGCAAATAGT
*
17758229 CGTGTG-ACAGAGGCACAC-GC
1 CGTGTGAAGAGAGGCACACTGC
*
17758249 CTGTGTGAAGAGAGGCATACTGC
1 C-GTGTGAAGAGAGGCACACTGC
17758272 CGTGTGA
1 CGTGTGA
17758279 TTGAGGGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 5 0.20
22 16 0.64
23 3 0.12
ACGTcount: A:0.24, C:0.22, G:0.36, T:0.18
Consensus pattern (22 bp):
CGTGTGAAGAGAGGCACACTGC
Found at i:17768164 original size:9 final size:9
Alignment explanation
Indices: 17768150--17768185 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
17768140 CTCTGAGTCC
17768150 ATTTATTTT
1 ATTTATTTT
17768159 ATTTATTTT
1 ATTTATTTT
17768168 AATTT-TTTT
1 -ATTTATTTT
17768177 ATTTATTTT
1 ATTTATTTT
17768186 TTTCTTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.16
9 17 0.68
10 4 0.16
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
ATTTATTTT
Found at i:17768178 original size:18 final size:19
Alignment explanation
Indices: 17768150--17768185 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
17768140 CTCTGAGTCC
17768150 ATTTATTTTATTTATTTTA
1 ATTTATTTTATTTATTTTA
17768169 ATTT-TTTTATTTATTTT
1 ATTTATTTTATTTATTTT
17768186 TTTCTTAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
ATTTATTTTATTTATTTTA
Found at i:17774669 original size:48 final size:47
Alignment explanation
Indices: 17774598--17774921 Score: 284
Period size: 48 Copynumber: 6.9 Consensus size: 47
17774588 AGGGTGAATT
* * **
17774598 GCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATGTTGAG
1 GCCGATGCCATGTCC-CAACATGGTCTTACACTGGCTCACATATCAAG
* * * *
17774646 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAT
1 GCCGATGCCATGTCCCA-ACATGGTCTTACACTGGCTCACATATCAAG
* * ***
17774694 GCCGAGGCCATGT-CCAACATGGTCTTACACTGGCTCTCATATGGTG
1 GCCGATGCCATGTCCCAACATGGTCTTACACTGGCTCACATATCAAG
* * * *
17774740 GCCAACGCCATGTCCCAGACATGGTCTTACATTGGCTCACA-ATCAAC
1 GCCGATGCCATGTCCCA-ACATGGTCTTACACTGGCTCACATATCAAG
* * *
17774787 GCCGATGCTATGT-CCAACATGGTCTTACATTGGCT-ATCATAATCAAC
1 GCCGATGCCATGTCCCAACATGGTCTTACACTGGCTCA-CAT-ATCAAG
* * **
17774834 GCCGATACCATGT-CCAACATGGTCTTACACTGGCAT-ACGAAAT-GTG
1 GCCGATGCCATGTCCCAACATGGTCTTACACTGGC-TCAC-ATATCAAG
* * *
17774880 GCCGATGCCATGTCCCTGACATGGTCTTACTCTAGCTCACAT
1 GCCGATGCCATGTCCC-AACATGGTCTTACACTGGCTCACAT
17774922 GTCACCCCAA
Statistics
Matches: 228, Mismatches: 37, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.00
45 21 0.09
46 50 0.22
47 63 0.28
48 93 0.41
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAACATGGTCTTACACTGGCTCACATATCAAG
Found at i:17774760 original size:94 final size:93
Alignment explanation
Indices: 17774597--17774827 Score: 300
Period size: 94 Copynumber: 2.5 Consensus size: 93
17774587 GAGGGTGAAT
* * * * *
17774597 TGCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCC--AACATGGTCTTACACTGGCTCTCATATGGAGGCCAACGCCATGTCCC
* *
17774662 AGACATGGTCTTACACTAGCTCTCATCTCAA
64 AGACATGGTCTTACACTAGCTCACA-ATCAA
* *
17774693 TGCCGAGGCCATGTCCAACATGGTCTTACACTGGCTCTCATATGGTGGCCAACGCCATGTCCCAG
1 TGCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATGGAGGCCAACGCCATGTCCCAG
* *
17774758 ACATGGTCTTACATTGGCTCACAATCAA
66 ACATGGTCTTACACTAGCTCACAATCAA
* * * *
17774786 CGCCGATGCTATGTCCAACATGGTCTTACATTGGCTATCATA
1 TGCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATA
17774828 ATCAACGCCG
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
93 41 0.34
94 63 0.53
96 15 0.13
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
TGCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATGGAGGCCAACGCCATGTCCCAG
ACATGGTCTTACACTAGCTCACAATCAA
Found at i:17774866 original size:140 final size:142
Alignment explanation
Indices: 17774604--17774921 Score: 376
Period size: 140 Copynumber: 2.3 Consensus size: 142
17774594 AATTGCCGAT
* * * ** *
17774604 GCCATGTCCTAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATGTCCCAGACATG
* * * *
17774669 GTCTTACACTAGCTCTCATCTCAATGCCGAGGCCATGTCCAACATGGTCTTACACTGGC-T-CTC
66 GTCTTACACTAGCTATCATATCAACGCCGAGACCATGTCCAACATGGTCTTACACTGGCATAC-C
*
17774732 ATATGGTGGCCAAC
130 AAAT-GTGGCCAAC
* *
17774746 GCCATGTCCCAGACATGGTCTTACATTGGCTCACA-ATCAACGCCGATGCTATGT-CCA-ACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATGTCCCAGACATG
* * * *
17774808 GTCTTACATTGGCTATCATAATCAACGCCGATACCATGTCCAACATGGTCTTACACTGGCATACG
66 GTCTTACACTAGCTATCAT-ATCAACGCCGAGACCATGTCCAACATGGTCTTACACTGGCATACC
* *
17774873 AAATGTGGCCGAT
130 AAATGTGGCCAAC
* * *
17774886 GCCATGTCCCTGACATGGTCTTACTCTAGCTCACAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
17774922 GTCACCCCAA
Statistics
Matches: 149, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
139 21 0.14
140 77 0.52
141 18 0.12
142 33 0.22
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (142 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCCGATGCCATGTCCCAGACATG
GTCTTACACTAGCTATCATATCAACGCCGAGACCATGTCCAACATGGTCTTACACTGGCATACCA
AATGTGGCCAAC
Found at i:17776879 original size:14 final size:13
Alignment explanation
Indices: 17776856--17776912 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
17776846 TAAGTCAGAT
17776856 AAAAAAAATTAAA
1 AAAAAAAATTAAA
17776869 AAAAAACAATTAAA
1 AAAAAA-AATTAAA
** * *
17776883 ATCAATAACTAAA
1 AAAAAAAATTAAA
17776896 ATAAAAAAATATAAA
1 A-AAAAAAAT-TAAA
17776911 AA
1 AA
17776913 TAAAGAAGGA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
13 13 0.39
14 15 0.45
15 5 0.15
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAAAAAATTAAA
Found at i:17782853 original size:14 final size:14
Alignment explanation
Indices: 17782834--17782860 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17782824 TATTAAAGCA
17782834 ATAATTAAGAACAC
1 ATAATTAAGAACAC
17782848 ATAATTAAGAACA
1 ATAATTAAGAACA
17782861 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:17783187 original size:13 final size:13
Alignment explanation
Indices: 17783169--17783194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17783159 ATGCCTAAAA
17783169 GCCTTCAAGAGTG
1 GCCTTCAAGAGTG
17783182 GCCTTCAAGAGTG
1 GCCTTCAAGAGTG
17783195 TCCTCTAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
GCCTTCAAGAGTG
Found at i:17798278 original size:20 final size:21
Alignment explanation
Indices: 17798234--17798279 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
17798224 CTCTTTATTT
17798234 AACCCAATTTTTAACACTATAA
1 AACCCAATTTTTAACAC-ATAA
17798256 AACCCAATTTTATAAC-C-TAA
1 AACCCAATTTT-TAACACATAA
17798276 AACC
1 AACC
17798280 ATATCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
22 12 0.52
23 4 0.17
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (21 bp):
AACCCAATTTTTAACACATAA
Found at i:17799030 original size:17 final size:17
Alignment explanation
Indices: 17799008--17799042 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
17798998 AATAATATAA
17799008 TAGGCACAATTAAATAT
1 TAGGCACAATTAAATAT
*
17799025 TAGGCACAATTGAATAT
1 TAGGCACAATTAAATAT
17799042 T
1 T
17799043 TAAAATCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (17 bp):
TAGGCACAATTAAATAT
Found at i:17799257 original size:19 final size:19
Alignment explanation
Indices: 17799233--17799272 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
17799223 TCATGTGTCT
17799233 CAAT-CCATATTTCAATTCA
1 CAATCCCAT-TTTCAATTCA
*
17799252 CAATCCCATTTTCATTTCA
1 CAATCCCATTTTCAATTCA
17799271 CA
1 CA
17799273 TATAATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.38
Consensus pattern (19 bp):
CAATCCCATTTTCAATTCA
Found at i:17799465 original size:37 final size:41
Alignment explanation
Indices: 17799407--17799516 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 41
17799397 AGTTAATTCG
* *
17799407 AAGTAATAATTTGACACCCAGTGTCTCATCG-GCTAACCCG
1 AAGTAATAATTTGACACCCAGTGTCTCATCGAACTAACCCA
* * * *
17799447 AAGT-A-AA-TTGGCACCCAGTGCCTCATCGAATTAATCCA
1 AAGTAATAATTTGACACCCAGTGTCTCATCGAACTAACCCA
17799485 AAGTAATAATTTGACACCCAGTGTCTCATCGA
1 AAGTAATAATTTGACACCCAGTGTCTCATCGA
17799517 CTCAAAGTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
37 19 0.33
38 11 0.19
39 2 0.03
40 6 0.10
41 20 0.34
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (41 bp):
AAGTAATAATTTGACACCCAGTGTCTCATCGAACTAACCCA
Found at i:17800433 original size:5 final size:5
Alignment explanation
Indices: 17800423--17800460 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
17800413 ATTTAGTTAT
17800423 TATAA TATAA TATAA TATAA TATAA TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
17800461 CTTAACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:17800501 original size:43 final size:43
Alignment explanation
Indices: 17800438--17800520 Score: 114
Period size: 42 Copynumber: 1.9 Consensus size: 43
17800428 TATAATATAA
* *
17800438 TATAATATAATATAATATATATACTTAACTTTTAAGTTTTATTAT
1 TATAATAT-ATATAATATATAT-CTTAACTTTAAAATTTTATTAT
*
17800483 TATAATAT-TATAATATATATTTTAACTTTAAAATTTTA
1 TATAATATATATAATATATATCTTAACTTTAAAATTTTA
17800521 AATAAATACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 15 0.43
43 12 0.34
45 8 0.23
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (43 bp):
TATAATATATATAATATATATCTTAACTTTAAAATTTTATTAT
Found at i:17800607 original size:22 final size:23
Alignment explanation
Indices: 17800582--17800630 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
17800572 ATTTGGTCCT
*
17800582 TTTAACTTTC-CT-TAATATATAA
1 TTTAACTTTCACTCT-ATATACAA
17800604 TTTAACTTTCACTCTATATACAA
1 TTTAACTTTCACTCTATATACAA
17800627 TTTA
1 TTTA
17800631 GTCCTTTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
23 13 0.54
24 1 0.04
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTAACTTTCACTCTATATACAA
Found at i:17815991 original size:29 final size:29
Alignment explanation
Indices: 17815904--17816022 Score: 152
Period size: 29 Copynumber: 4.2 Consensus size: 29
17815894 GTAAGCATGA
17815904 ATAT-AATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
17815932 ACATAAATGTGATTTGGGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
17815961 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * * * *
17815990 ATGTGAATAT-AATTGGGTCTAGTGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
17816018 ATATA
1 ATATA
17816023 CAGGTATGTG
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 21 0.27
29 57 0.73
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:17821754 original size:34 final size:34
Alignment explanation
Indices: 17821716--17821780 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
17821706 GTACTAAAAA
17821716 GGGCTAAGGCCTAGACTATCACTGTTACTGAGAC
1 GGGCTAAGGCCTAGACTATCACTGTTACTGAGAC
* *
17821750 GGGCTAAGGCCTAGACTGTTACTGTTACTGA
1 GGGCTAAGGCCTAGACTATCACTGTTACTGA
17821781 AAAAGGAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (34 bp):
GGGCTAAGGCCTAGACTATCACTGTTACTGAGAC
Found at i:17829346 original size:49 final size:49
Alignment explanation
Indices: 17829290--17829521 Score: 239
Period size: 49 Copynumber: 4.7 Consensus size: 49
17829280 TAGACAAGGC
* *
17829290 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
17829339 TATCTGGTATACATAGTAGCCTGCACTTAATACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
17829389 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * * *
17829440 TATCGGGTACGCATAGTAGCCTACAATTAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
** * * *
17829489 TATCTAATACACTTAGTACCCTGTACTTAGTAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTAC
17829522 CCTGCACTTA
Statistics
Matches: 147, Mismatches: 33, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 66 0.45
50 46 0.31
51 35 0.24
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:17829518 original size:14 final size:14
Alignment explanation
Indices: 17829498--17829535 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
17829488 TTATCTAATA
17829498 CACTTAGTACCCTG
1 CACTTAGTACCCTG
*
17829512 TACTTAGTACCCTG
1 CACTTAGTACCCTG
17829526 CACTTAGTAC
1 CACTTAGTAC
17829536 TACACACATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.32
Consensus pattern (14 bp):
CACTTAGTACCCTG
Found at i:17832113 original size:5 final size:5
Alignment explanation
Indices: 17832103--17832162 Score: 111
Period size: 5 Copynumber: 12.0 Consensus size: 5
17832093 TTTATTTAGT
17832103 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
*
17832153 TAGTA TAATA
1 TAATA TAATA
17832163 CTTAACTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:17836464 original size:32 final size:31
Alignment explanation
Indices: 17836428--17836490 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 31
17836418 ACATTTGTAA
17836428 TAAGTAAATAATTAATGTATTTACTTATTATT
1 TAAGTAAATAATTAATGTATTTA-TTATTATT
17836460 TAAGTAAATAATTAATGTATTTATTATTATT
1 TAAGTAAATAATTAATGTATTTATTATTATT
17836491 AAATTGATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.26
32 23 0.74
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (31 bp):
TAAGTAAATAATTAATGTATTTATTATTATT
Found at i:17838984 original size:46 final size:46
Alignment explanation
Indices: 17838933--17839103 Score: 229
Period size: 46 Copynumber: 3.7 Consensus size: 46
17838923 GTGTGCTCCC
* * *
17838933 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCTTGGAAATC-
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA-CA
* *
17838979 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
17839025 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
17839071 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGA
17839104 CACTGTGGCC
Statistics
Matches: 113, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.02
46 111 0.98
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:17841245 original size:38 final size:38
Alignment explanation
Indices: 17841203--17841275 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
17841193 AAATGGATTG
17841203 GAAATGAAATATATGCTGATAAATAAAGAATTTTATTA
1 GAAATGAAATATATGCTGATAAATAAAGAATTTTATTA
17841241 GAAATGAAATATATGCTGATAAATAAAGAATTTTA
1 GAAATGAAATATATGCTGATAAATAAAGAATTTTA
17841276 CATTTTAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.33
Consensus pattern (38 bp):
GAAATGAAATATATGCTGATAAATAAAGAATTTTATTA
Found at i:17841264 original size:19 final size:19
Alignment explanation
Indices: 17841204--17841264 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
17841194 AATGGATTGG
17841204 AAATGAAATATATGCTGAT
1 AAATGAAATATATGCTGAT
* * ** * *
17841223 AAAT-AAAGAATTTTATTAG
1 AAATGAAA-TATATGCTGAT
17841242 AAATGAAATATATGCTGAT
1 AAATGAAATATATGCTGAT
17841261 AAAT
1 AAAT
17841265 AAAGAATTTT
Statistics
Matches: 28, Mismatches: 12, Indels: 4
0.64 0.27 0.09
Matches are distributed among these distances:
18 3 0.11
19 22 0.79
20 3 0.11
ACGTcount: A:0.51, C:0.03, G:0.13, T:0.33
Consensus pattern (19 bp):
AAATGAAATATATGCTGAT
Found at i:17841711 original size:33 final size:33
Alignment explanation
Indices: 17841674--17841769 Score: 174
Period size: 33 Copynumber: 2.9 Consensus size: 33
17841664 TGGTTTGCTA
17841674 GTTGGATTAGCTCTTATGAGCATTGGTGTGATG
1 GTTGGATTAGCTCTTATGAGCATTGGTGTGATG
*
17841707 GTTGGATTAGCTCTTATGAGCATCGGTGTGATG
1 GTTGGATTAGCTCTTATGAGCATTGGTGTGATG
*
17841740 GTTGAATTAGCTCTTATGAGCATTGGTGTG
1 GTTGGATTAGCTCTTATGAGCATTGGTGTG
17841770 GTGGAGGGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.19, C:0.10, G:0.32, T:0.39
Consensus pattern (33 bp):
GTTGGATTAGCTCTTATGAGCATTGGTGTGATG
Found at i:17843941 original size:37 final size:38
Alignment explanation
Indices: 17843856--17843942 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 38
17843846 TTTTAAATAT
*
17843856 AATAATAATAATAATAATTTTAAAATGCAGAAAGTAAA
1 AATAATAATAATAATAATATTAAAATGCAGAAAGTAAA
* * * *
17843894 TATGAT-ATAATAGTAATATTAAAATG-ACGTAA-TAAA
1 AATAATAATAATAATAATATTAAAATGCA-GAAAGTAAA
17843930 AATAATAATAATA
1 AATAATAATAATA
17843943 TATAGAAATG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
36 9 0.22
37 27 0.68
38 4 0.10
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (38 bp):
AATAATAATAATAATAATATTAAAATGCAGAAAGTAAA
Found at i:17844654 original size:18 final size:18
Alignment explanation
Indices: 17844628--17844662 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17844618 TAGGGTTTCC
17844628 TTTTCTTTTTTTCTTTTT
1 TTTTCTTTTTTTCTTTTT
* *
17844646 TTTTGTTTTTTTGTTTT
1 TTTTCTTTTTTTCTTTT
17844663 GGGTATTGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (18 bp):
TTTTCTTTTTTTCTTTTT
Found at i:17844914 original size:44 final size:44
Alignment explanation
Indices: 17844850--17845093 Score: 196
Period size: 44 Copynumber: 5.6 Consensus size: 44
17844840 TGAGTTCTTG
* * *
17844850 ATCTGCT-TCTTCGATCTGTTCCCCATAAACACAGGGATGTCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGTCAA
* * * *
17844893 ATCTGCTGTCTTCAA-CTTGTTCCTTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGTCAA
* **
17844937 ATCTGCTATCTTCAA-CTTGTTCCCTATAAGCATAGGGA--TCCC
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGTCAA
** * * * *
17844979 ATGCTGAAATCTTCGATCTGCTTCACC-GTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCAATCTG-TTC-CCTATAAGCACAGGGATGTCAA
* * *
17845025 TTCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGTCAA
* *
17845069 ATCTGCTGTTTTCAA-CTTGTTCCCT
1 ATCTGCTATCTTCAATC-TGTTCCCT
17845094 GACAATACGG
Statistics
Matches: 161, Mismatches: 30, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
42 3 0.02
43 23 0.14
44 115 0.71
45 17 0.11
46 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGTCAA
Found at i:17845599 original size:205 final size:205
Alignment explanation
Indices: 17845233--17845748 Score: 795
Period size: 205 Copynumber: 2.5 Consensus size: 205
17845223 AGGAACATCC
* * * * * *
17845233 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGC
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * *
17845298 ATCTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGA
66 ATC-TGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTACTCTCCATTCAAGTGAA
* * *
17845363 GATGCCAGACTTTGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
130 GATGCCAAACTTCGATTCGTTCCCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
17845428 CGTAATCACGT
195 CGTAATCACGT
17845439 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * *
17845504 ATCTACTTCAGTGA-AATCATCTGAAGGTGAGATCTGCTATGTGTCTACTCTCCA-TCAACGTGA
66 ATCTGCTTCAGT-ATAAACATCTGAAGGTGAGATCTGCTATGTATCTACTCTCCATTCAA-GTGA
*
17845567 AGATGCCAAACTTCGATTTGTTCCCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
129 AGATGCCAAACTTCGATTCGTTCCCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
17845632 TCGTAATCACGT
194 TCGTAATCACGT
17845644 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* ** *
17845709 ATCTGCTTCAGTAT-AACATCTGTAGGCCAGATCTGTTATG
66 ATCTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATG
17845749 CTGCGGCCTA
Statistics
Matches: 284, Mismatches: 23, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
204 25 0.09
205 196 0.69
206 63 0.22
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTACTCTCCATTCAAGTGAAG
ATGCCAAACTTCGATTCGTTCCCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
GTAATCACGT
Found at i:17852572 original size:48 final size:48
Alignment explanation
Indices: 17852501--17852595 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
17852491 GTCCGAGTCA
17852501 ACTTCAATTCCTTTTTCACTGACTACGAAGCCTAACAACTTTCCGGAG
1 ACTTCAATTCCTTTTTCACTGACTACGAAGCCTAACAACTTTCCGGAG
17852549 ACTTCAATTCCTTTTTCACTGACTACGAAGCCTAACAACTTTCCGGA
1 ACTTCAATTCCTTTTTCACTGACTACGAAGCCTAACAACTTTCCGGA
17852596 TCTGGCTCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (48 bp):
ACTTCAATTCCTTTTTCACTGACTACGAAGCCTAACAACTTTCCGGAG
Found at i:17854532 original size:22 final size:22
Alignment explanation
Indices: 17854502--17854568 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
17854492 TAAATACAAA
17854502 AATAA-AGAAAAATATAATAAC
1 AATAATAGAAAAATATAATAAC
* * * *
17854523 AGTAATAGAAAAATACAACAAT
1 AATAATAGAAAAATATAATAAC
17854545 AATAATAGTAAAAGATATAATAAC
1 AATAATAG-AAAA-ATATAATAAC
17854569 CTAATACTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 4 0.11
22 20 0.57
23 4 0.11
24 7 0.20
ACGTcount: A:0.66, C:0.06, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAATAGAAAAATATAATAAC
Found at i:17854657 original size:3 final size:3
Alignment explanation
Indices: 17854649--17854780 Score: 101
Period size: 3 Copynumber: 43.7 Consensus size: 3
17854639 AAAGTAGTGC
* * *
17854649 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-C TAT TAA GTTA TAA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA T-AA
* * * * *
17854695 -AA TAA TGA TAA TGA TGA T-A TAT TAGA TAA TAA TAG TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* *
17854738 TAA GTAA CAA TAA TAAA TTA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA -TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA
17854781 TAGAAATATA
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
2 7 0.07
3 85 0.82
4 12 0.12
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:17858320 original size:27 final size:28
Alignment explanation
Indices: 17858282--17858335 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
17858272 GAAAAAAAAA
17858282 AGATTCAAGAAGAGATTTTT-TTTTTTG
1 AGATTCAAGAAGAGATTTTTGTTTTTTG
*
17858309 AGATTCAAGAAGGGATTTTTGTTTTTT
1 AGATTCAAGAAGAGATTTTTGTTTTTT
17858336 TTTAGATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (28 bp):
AGATTCAAGAAGAGATTTTTGTTTTTTG
Found at i:17858971 original size:16 final size:15
Alignment explanation
Indices: 17858940--17858982 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
17858930 CCCTCATTCC
*
17858940 ATTATTATTATTACT
1 ATTATTATTTTTACT
17858955 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
17858971 ATCATTATTTTT
1 ATTATTATTTTT
17858983 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:17859107 original size:16 final size:16
Alignment explanation
Indices: 17859086--17859117 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17859076 CTATTCTTAC
17859086 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
17859102 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
17859118 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:17861413 original size:27 final size:27
Alignment explanation
Indices: 17861381--17861432 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
17861371 AAAGAAAAAG
17861381 AAAAATCCCCTCTTGAATCTCAAAACA
1 AAAAATCCCCTCTTGAATCTCAAAACA
* *
17861408 AAAAATCTCTTCTTGAATCTCAAAA
1 AAAAATCCCCTCTTGAATCTCAAAA
17861433 AAATCTCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.27
Consensus pattern (27 bp):
AAAAATCCCCTCTTGAATCTCAAAACA
Found at i:17865740 original size:32 final size:32
Alignment explanation
Indices: 17865674--17865744 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
17865664 ATAGCATTGT
* * *
17865674 TCAAATTGAATGTAATTAAAATTAAATCGAGA
1 TCAAATTAAATGTAATTAAAACTAAATCAAGA
*
17865706 TCAAATTAAAT-TAATTAAAACTAAATTAAGGA
1 TCAAATTAAATGTAATTAAAACTAAATCAA-GA
17865738 TCAAATT
1 TCAAATT
17865745 CCATAAGAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 15 0.44
32 19 0.56
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.32
Consensus pattern (32 bp):
TCAAATTAAATGTAATTAAAACTAAATCAAGA
Found at i:17872689 original size:42 final size:42
Alignment explanation
Indices: 17872610--17872691 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
17872600 TGTGCAAGGG
*
17872610 ACACACGGCCTAACTACACGCCCATGTAACTGGCCGTGTGTC
1 ACACACGGCCTAACTACACGCCCATGTAACTGCCCGTGTGTC
* * **
17872652 ACACACGGTCTAGAC-ACACGCCCGTGTGTCTGCCCGTGTG
1 ACACACGGCCTA-ACTACACGCCCATGTAACTGCCCGTGTG
17872692 GACAAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.21, C:0.35, G:0.24, T:0.20
Consensus pattern (42 bp):
ACACACGGCCTAACTACACGCCCATGTAACTGCCCGTGTGTC
Found at i:17873156 original size:3 final size:3
Alignment explanation
Indices: 17873148--17873172 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17873138 TTACTAGATC
17873148 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
17873173 AATAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:17874419 original size:40 final size:41
Alignment explanation
Indices: 17874303--17874419 Score: 157
Period size: 40 Copynumber: 2.9 Consensus size: 41
17874293 CCTTCTCGAG
17874303 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTA-AAAGA
1 AATTAAAA-TGAATAGGATTTATTCCTGATTCACTATAAAGA
* * *
17874344 AATTAAAGTGAATAGGATTTATTCTTGATTCACTATAAATA
1 AATTAAAATGAATAGGATTTATTCCTGATTCACTATAAAGA
* * *
17874385 TA-TAAAATGGATAGGATTTGTTCCTGATTCACTAT
1 AATTAAAATGAATAGGATTTATTCCTGATTCACTAT
17874420 GGTAACTTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 55 0.82
41 12 0.18
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (41 bp):
AATTAAAATGAATAGGATTTATTCCTGATTCACTATAAAGA
Found at i:17890929 original size:47 final size:47
Alignment explanation
Indices: 17890840--17891588 Score: 1250
Period size: 47 Copynumber: 15.8 Consensus size: 47
17890830 TTTAGGATTT
17890840 GATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCC
17890889 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
17890936 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
* * *
17890985 GATGTGATGAATGTGAAAGTTTATATATGTGATAAGGCATAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
17891032 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
*
17891079 GATGTGATAAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
*
17891128 GATGTGATGAATTTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
17891175 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
17891222 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
*
17891271 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCG
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCC
* *
17891320 GATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
17891367 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
17891414 GATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
17891459 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
17891506 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * *
17891553 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
17891589 TCCCAAGGGC
Statistics
Matches: 666, Mismatches: 26, Indels: 18
0.94 0.04 0.03
Matches are distributed among these distances:
45 45 0.07
47 418 0.63
49 203 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
Found at i:17890950 original size:96 final size:94
Alignment explanation
Indices: 17890840--17891588 Score: 1250
Period size: 96 Copynumber: 7.9 Consensus size: 94
17890830 TTTAGGATTT
17890840 GATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
17890905 AAGTGTATATATGTGATAAGGCCTAATGGCC
64 AAGTGTATATATGTGATAAGGCCTAATGGCC
17890936 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * *
17891001 AAGTTTATATATGTGATAAGGCATAATAGCC
64 AAGTGTATATATGTGATAAGGCCTAATGGCC
*
17891032 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
17891097 GTGTATATATATGTGATAAGGCCTAATGGCC
66 GTG--TATATATGTGATAAGGCCTAATGGCC
*
17891128 GATGTGATGAATTTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
17891193 GTGTATATATGTGATAAGGCCTAATGGCC
66 GTGTATATATGTGATAAGGCCTAATGGCC
17891222 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
17891287 AAGTGTATATATATGTGATAAGGCCTAATGGCG
64 AAGTG--TATATATGTGATAAGGCCTAATGGCC
* *
17891320 GATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
17891385 GTGTATATATGTGATAAGGCCTAATGGCC
66 GTGTATATATGTGATAAGGCCTAATGGCC
17891414 GATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
17891477 GTGTATATATGTGATAAGGCCTAATGGCC
66 GTGTATATATGTGATAAGGCCTAATGGCC
* * * * * * *
17891506 GATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
17891571 GTGTATAAATGTGATAAG
66 GTGTATATATGTGATAAG
17891589 TCCCAAGGGC
Statistics
Matches: 619, Mismatches: 24, Indels: 22
0.93 0.04 0.03
Matches are distributed among these distances:
92 91 0.15
94 191 0.31
96 292 0.47
98 45 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGTGATAAGGCCTAATGGCC
Found at i:17891041 original size:143 final size:143
Alignment explanation
Indices: 17890840--17891588 Score: 1276
Period size: 143 Copynumber: 5.3 Consensus size: 143
17890830 TTTAGGATTT
17890840 GATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
17890905 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
64 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
17890970 TAAGGCCTAATGGCC
129 TAAGGCCTAATGGCC
* * *
17890985 GATGTGATGAATGTGAAAGTTTATATATGTGATAAGGCATAATAGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
17891050 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATATGTGATA
66 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
17891115 AGGCCTAATGGCC
131 AGGCCTAATGGCC
*
17891128 GATGTGATGAATTTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
17891193 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
66 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
17891258 AGGCCTAATGGCC
131 AGGCCTAATGGCC
* *
17891271 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCGGATGTGATAAATGTGA
1 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
17891336 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
64 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
17891399 TAAGGCCTAATGGCC
129 TAAGGCCTAATGGCC
17891414 GATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
17891477 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACA
66 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
* * *
17891540 GGGCCGAGTGGCC
131 AGGCCTAATGGCC
* * * *
17891553 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
17891589 TCCCAAGGGC
Statistics
Matches: 576, Mismatches: 24, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
139 128 0.22
141 13 0.02
143 326 0.57
145 109 0.19
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
AGGCCTAATGGCC
Found at i:17891762 original size:37 final size:37
Alignment explanation
Indices: 17891706--17891784 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
17891696 CCGAGCTCTA
* * **
17891706 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTACGTCCGGGT
*
17891743 AAGACCCGATAACTTCGTGTGGAGATTACGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTACGTCCGGGT
17891780 AAGAC
1 AAGAC
17891785 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTACGTCCGGGT
Found at i:17893319 original size:40 final size:40
Alignment explanation
Indices: 17892996--17893307 Score: 489
Period size: 40 Copynumber: 7.8 Consensus size: 40
17892986 GAGAATTGAG
*
17892996 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
17893036 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* *
17893076 AGTAATGTATCTGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
17893116 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
17893156 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
17893196 AGTAATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * ** *
17893236 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * * * * *
17893276 GGTGTTATATCCGGGCTAGGTCCCAAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCA
17893308 ATCATGCTGG
Statistics
Matches: 253, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 253 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
Found at i:17897185 original size:47 final size:47
Alignment explanation
Indices: 17897095--17897989 Score: 1524
Period size: 47 Copynumber: 18.8 Consensus size: 47
17897085 ATTTAGGATT
17897095 CGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGC
17897144 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
17897191 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
17897238 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
17897287 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
17897334 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
17897383 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
17897432 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
17897479 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
17897526 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
17897575 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
17897622 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
17897671 CGATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGC
* *
17897720 CGATGTGATGAATGTGGAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
17897767 CGATGTGATGAATGTGAAAATGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
17897814 CGATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
17897859 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * * *
17897906 CGATGTGATTAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
17897953 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
17897990 TCCCGAAGGG
Statistics
Matches: 812, Mismatches: 22, Indels: 26
0.94 0.03 0.03
Matches are distributed among these distances:
45 45 0.06
47 468 0.58
49 298 0.37
51 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:17897205 original size:96 final size:94
Alignment explanation
Indices: 17897095--17897989 Score: 1524
Period size: 96 Copynumber: 9.4 Consensus size: 94
17897085 ATTTAGGATT
17897095 CGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
17897160 AAAGTGTATATATGTGATAAGGCCTAATGGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
17897191 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17897256 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
17897287 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17897352 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
17897383 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
17897448 AAAGTGTATATATGTGATAAGGCCTAATAGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
17897479 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17897544 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
17897575 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17897640 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
*
17897671 CGATGTGATGAATGTGAAAGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
17897736 GAAGTGTATATATGTGATAAGGCCTAATAGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
*
17897767 CGATGTGATGAATGTGAAAATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
17897832 AGTGTATATA--TGATAAGGCCTAATGGC
66 AGTGTATATATGTGATAAGGCCTAATGGC
*
17897859 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATTAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * *
17897924 AGTGTATATATGTGACAGGGCCGAGTGGC
66 AGTGTATATATGTGATAAGGCCTAATGGC
* * * *
17897953 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
17897990 TCCCGAAGGG
Statistics
Matches: 770, Mismatches: 19, Indels: 22
0.95 0.02 0.03
Matches are distributed among these distances:
92 89 0.12
94 196 0.25
96 391 0.51
98 94 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGC
Found at i:17898164 original size:37 final size:37
Alignment explanation
Indices: 17898108--17898186 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
17898098 CCGAGCTCTA
* * * *
17898108 AAGACTCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
17898145 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
17898182 AAGAC
1 AAGAC
17898187 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17901986 original size:28 final size:28
Alignment explanation
Indices: 17901923--17902076 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
17901913 ATATTAAGTC
* *
17901923 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
17901950 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
17901978 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
17902006 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
17902034 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
17902062 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17902077 GTACAATTTA
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 22 0.18
28 102 0.82
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:17906889 original size:47 final size:47
Alignment explanation
Indices: 17906838--17906960 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 47
17906828 ATAAGTACTG
* * * *
17906838 ATACCATGGCCCGTAGCGAAATCAAGGTAACTTATCCCGGAGTACCT
1 ATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAATACCT
* * * *
17906885 ATACCATGGCCCGCAGCCAAATCAAGGTAACTCCTCTCTAAATACCT
1 ATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAATACCT
*
17906932 ATACCATAGCCCGTAGCCAAATCAAGGTA
1 ATACCATGGCCCGTAGCCAAATCAAGGTA
17906961 TTGTTCACAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (47 bp):
ATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAATACCT
Found at i:17908359 original size:4 final size:4
Alignment explanation
Indices: 17908350--17908390 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
17908340 AAGTTTTGAG
17908350 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT T
17908391 TTAATTTGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:17913783 original size:23 final size:23
Alignment explanation
Indices: 17913739--17913783 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
17913729 AATTTAACCA
* ** *
17913739 TTTTATTTTATTTTTTTCTATTT
1 TTTTATTTAATTTTGATATATTT
17913762 TTTTATTTAATTTTGATATATT
1 TTTTATTTAATTTTGATATATT
17913784 GGCTCATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTATTTAATTTTGATATATTT
Found at i:17917782 original size:40 final size:40
Alignment explanation
Indices: 17917738--17917909 Score: 251
Period size: 40 Copynumber: 4.3 Consensus size: 40
17917728 GCTCCTCGTT
*
17917738 CAAATGCCTTCGGGA-TATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACT-TAACCCGGATT-TAGTAACTCGCA
17917778 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
17917818 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
17917858 CAAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17917897 CAAATGCCTTCGG
1 CAAATGCCTTCGG
17917910 ATCTTAGTCC
Statistics
Matches: 123, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 33 0.27
40 87 0.71
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17917946 original size:79 final size:80
Alignment explanation
Indices: 17917738--17917959 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
17917728 GCTCCTCGTT
* * * *
17917738 CAAATGCCTTCGGGA-TATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACT-TAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
*
17917802 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* * * *
17917818 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCTGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
17917882 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
** * ** *
17917897 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCATTTAGCACCAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGT-AACTAGCACAAATGCCTTCGGGACTTAGCCC
17917960 AGACATCATT
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
78 3 0.03
79 54 0.45
80 62 0.52
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:17917946 original size:119 final size:120
Alignment explanation
Indices: 17917732--17917955 Score: 276
Period size: 119 Copynumber: 1.9 Consensus size: 120
17917722 GATATAGCTC
* *
17917732 CTCGTTCAAATGCCTTCGGGATATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
1 CTCGTACAAATGCCTTCGGGATATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
* *
17917797 ACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAA
66 ACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAA
* * *
17917852 CTCGTACAAATGCCTTCGGGCT-TAGCCTGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCT
1 CTCGTACAAATGCCTTCGGGATATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CT
** * ** *
17917914 TAGTCCGGATATGGTCATTTAGCACCAA-GCCTTCGGGACTTA
64 TAACCCGGATATAGT-AACTAGCACAAATGCCTTCGGGACTTA
17917956 GCCCAGACAT
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
118 4 0.05
119 56 0.64
120 28 0.32
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (120 bp):
CTCGTACAAATGCCTTCGGGATATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTA
ACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAA
Found at i:17921530 original size:25 final size:27
Alignment explanation
Indices: 17921493--17921545 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
17921483 TCAAACATGC
17921493 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
17921519 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
17921545 A
1 A
17921546 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:17923055 original size:32 final size:32
Alignment explanation
Indices: 17923013--17923077 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
17923003 AATGCTTACC
*
17923013 ATGCTCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
17923045 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
17923077 A
1 A
17923078 AATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:17927276 original size:6 final size:6
Alignment explanation
Indices: 17927255--17927319 Score: 57
Period size: 6 Copynumber: 11.2 Consensus size: 6
17927245 ATCAAATTGT
* *
17927255 AAAAT- AAAAT- AAAATA AAAATA AAAATA AAAATA TTAAAT- AAAA-C
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA AAAATA
*
17927300 AAAATA AGAAATA ATAATA A
1 AAAATA A-AAATA AAAATA A
17927320 TATAAATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
5 17 0.33
6 24 0.47
7 10 0.20
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:17927296 original size:30 final size:30
Alignment explanation
Indices: 17927261--17927318 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
17927251 TTGTAAAATA
17927261 AAATAAAATAAAAATAA-AAATAAAAATATT
1 AAATAAAA-AAAAATAAGAAATAAAAATATT
* *
17927291 AAATAAAACAAAATAAGAAATAATAATA
1 AAATAAAAAAAAATAAGAAATAAAAATA
17927319 ATATAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (30 bp):
AAATAAAAAAAAATAAGAAATAAAAATATT
Found at i:17927320 original size:6 final size:5
Alignment explanation
Indices: 17927254--17927325 Score: 54
Period size: 5 Copynumber: 12.8 Consensus size: 5
17927244 AATCAAATTG
*
17927254 TAAAA TAAAA TAAAA TAAAAA TAAAAA TAAAAA TATTAAA TAAAA CAAAA
1 TAAAA TAAAA TAAAA T-AAAA T-AAAA T-AAAA TA--AAA TAAAA TAAAA
*
17927304 TAAGAAA TAATAA TAATA TAAA
1 T-A-AAA TAA-AA TAAAA TAAA
17927326 TTTTGAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
5 24 0.42
6 24 0.42
7 9 0.16
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:17927381 original size:14 final size:14
Alignment explanation
Indices: 17927357--17927391 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
17927347 ATACATAAGT
17927357 AAATAAATAATGAAA
1 AAAT-AATAATGAAA
*
17927372 TAATAATAATGAAA
1 AAATAATAATGAAA
17927386 AAATAA
1 AAATAA
17927392 ACAGACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (14 bp):
AAATAATAATGAAA
Found at i:17927482 original size:3 final size:3
Alignment explanation
Indices: 17927474--17927614 Score: 70
Period size: 3 Copynumber: 47.0 Consensus size: 3
17927464 AAACAAATGA
* *
17927474 AAT AAT AAT AAT AAT -AT AAAG AAT AAT AAT AAT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * * * * * *
17927519 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT AGT AAT AAT AAT ATT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
17927567 ATT AAT AAT ATT AAT AAT ATT AAT AAT ATT AATT AAT -TT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
17927612 AAT
1 AAT
17927615 GTAGCTAAAA
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
2 3 0.03
3 111 0.94
4 4 0.03
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:17928720 original size:16 final size:16
Alignment explanation
Indices: 17928701--17928732 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17928691 TTAGGTTGAA
17928701 TTGGGTTTAGTTTTTT
1 TTGGGTTTAGTTTTTT
*
17928717 TTGGGTTTGGTTTTTT
1 TTGGGTTTAGTTTTTT
17928733 GGTCTTATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (16 bp):
TTGGGTTTAGTTTTTT
Found at i:17932828 original size:40 final size:40
Alignment explanation
Indices: 17932766--17932858 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
17932756 GGAGGAAGAG
* *
17932766 AGGTATCAATACATGGTCAAAGGTATTGATACTTTT-TTTA
1 AGGTATCGATACATAGTCAAAGGTATTGAT-CTTTTCTTTA
* *
17932806 TGGTATCGATACATAG-CGAAAGGTATTGATTTTTTCTTTA
1 AGGTATCGATACATAGTC-AAAGGTATTGATCTTTTCTTTA
17932846 AGGATATCGATAC
1 AGG-TATCGATAC
17932859 TTTTGGTCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 5 0.11
40 31 0.69
41 9 0.20
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (40 bp):
AGGTATCGATACATAGTCAAAGGTATTGATCTTTTCTTTA
Found at i:17938478 original size:22 final size:22
Alignment explanation
Indices: 17938453--17938496 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17938443 TAGTCATATA
17938453 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
17938475 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
17938497 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:17938556 original size:16 final size:15
Alignment explanation
Indices: 17938516--17938556 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
17938506 TTTCAATTTT
17938516 ATTTT-AATAATAAA
1 ATTTTAAATAATAAA
17938530 A-TTTAAA-AATAATA
1 ATTTTAAATAATAA-A
17938544 ATTTTAAATAATA
1 ATTTTAAATAATA
17938557 TTATTCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.35
14 5 0.22
15 6 0.26
16 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAATAATAAA
Found at i:17941456 original size:25 final size:23
Alignment explanation
Indices: 17941404--17941458 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
17941394 TATAAATAGT
17941404 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
17941427 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
17941452 AATAGTG
1 AATAGTG
17941459 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:17941539 original size:22 final size:22
Alignment explanation
Indices: 17941514--17941588 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
17941504 TATGAAATAG
*
17941514 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
17941536 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
**
17941561 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
17941583 AGATAA
1 ATATAA
17941589 CATGTAGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
22 23 0.55
25 19 0.45
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:17941558 original size:25 final size:24
Alignment explanation
Indices: 17941520--17941582 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
17941510 ATAGATATAA
** *
17941520 AAAAAATATGTACATAATATAGTGT
1 AAAAAATACATACATAATATAAT-T
17941545 AAAAAATACATACATAATATAATT
1 AAAAAATACATACATAATATAATT
17941569 AAAATATATACATA
1 AAAA-A-ATACATA
17941583 AGATAACATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (24 bp):
AAAAAATACATACATAATATAATT
Found at i:17941655 original size:23 final size:25
Alignment explanation
Indices: 17941602--17941668 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 25
17941592 GTAGAAAAAA
*
17941602 AAATATATATA-A-ATAATAGTATT
1 AAATATATATACATAAAATAGTATT
*
17941625 AAAGATATATACATAAAATAGTA-T
1 AAATATATATACATAAAATAGTATT
* *
17941649 -AATATATATACGTAATATAG
1 AAATATATATACATAAAATAG
17941669 AATTTAGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 27 0.73
24 2 0.05
25 8 0.22
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.34
Consensus pattern (25 bp):
AAATATATATACATAAAATAGTATT
Found at i:17941729 original size:15 final size:15
Alignment explanation
Indices: 17941709--17941740 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17941699 ATATATATAT
*
17941709 AATATAATATTAAAA
1 AATATAATAATAAAA
17941724 AATATAATAATAAAA
1 AATATAATAATAAAA
17941739 AA
1 AA
17941741 AGAGGGAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATAATAATAAAA
Found at i:17942245 original size:30 final size:30
Alignment explanation
Indices: 17942209--17942336 Score: 229
Period size: 30 Copynumber: 4.3 Consensus size: 30
17942199 AGGTACAAGT
*
17942209 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
17942239 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
17942269 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
17942299 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
17942329 GGTGGTGG
1 GGTGGTGG
17942337 CAAAGGCTAA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 96 1.00
ACGTcount: A:0.18, C:0.06, G:0.51, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:17943107 original size:13 final size:13
Alignment explanation
Indices: 17943086--17943115 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17943076 ATTTGAGTTG
*
17943086 ATTTTTAAAACAA
1 ATTTGTAAAACAA
17943099 ATTTGTAAAACAA
1 ATTTGTAAAACAA
17943112 ATTT
1 ATTT
17943116 TGAAAATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (13 bp):
ATTTGTAAAACAA
Found at i:17943352 original size:89 final size:89
Alignment explanation
Indices: 17943018--17943558 Score: 455
Period size: 91 Copynumber: 6.0 Consensus size: 89
17943008 ACTAAACATT
* * * * *
17943018 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAT-A-GCTCAACTCACTTCTCGCAATTTG
1 AAAAAAAGAAATTGAAAATACCTCAG--CGTGTGCC-TGAGGCTCAACTCACCTCTCGCAATATG
*
17943081 AGTTGA--TTTTT-AAAACA-AATTTG
63 AGTTGATTTTTTTGAAAACAGAAATTG
* ** * ** * * *
17943104 TAAAACAA-ATTTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCACTCGTAATATGA
1 -AAAAAAAGAAATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
17943168 GTT-A-ATTTTTGCAAAGCATAAATTG
64 GTTGATTTTTTTG-AAAACAGAAATTG
* * *
17943193 AAAAAAAAATCAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAAAAGA--AATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATG
*
17943258 AGTTGATTTTTTTGACAAACATAAATTG
63 AGTTGATTTTTTTGA-AAACAGAAATTG
* * * *
17943286 AAAAAAAGAAATTGAAAATATCTCAGCGTGT-CCTGAGGCTGAGCTCATCTCTCGCAATATGAGT
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
17943350 TGATTTTTTGGAAAAACA-AAATTTG
66 TGATTTTTTTG-AAAACAGAAA-TTG
* ** * * *
17943375 AAAAACAA-AATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGTAATATGA
1 AAAAA-AAGAAATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGA
17943439 GTTGATTTTTTTTGAAACACAGAAATTG
64 GTTGA-TTTTTTTGAAA-ACAGAAATTG
* * * * * * *
17943467 AAGAACAGAAATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
17943529 TGATTTTTTTTGAAAGACAGAAATTG
66 TGA-TTTTTTTGAAA-ACAGAAATTG
17943555 AAAA
1 AAAA
17943559 TACCTCAACG
Statistics
Matches: 372, Mismatches: 60, Indels: 43
0.78 0.13 0.09
Matches are distributed among these distances:
84 3 0.01
85 4 0.01
86 43 0.12
87 5 0.01
88 67 0.18
89 80 0.22
90 6 0.02
91 101 0.27
92 35 0.09
93 28 0.08
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (89 bp):
AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAACAGAAATTG
Found at i:17943392 original size:13 final size:14
Alignment explanation
Indices: 17943360--17943392 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
17943350 TGATTTTTTG
17943360 GAAAAACAAAATTT
1 GAAAAACAAAATTT
17943374 GAAAAACAAAATTT
1 GAAAAACAAAATTT
17943388 GAAAA
1 GAAAA
17943393 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.67, C:0.06, G:0.09, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:17943418 original size:180 final size:177
Alignment explanation
Indices: 17943018--17944438 Score: 630
Period size: 148 Copynumber: 8.5 Consensus size: 177
17943008 ACTAAACATT
* ** * * *
17943018 AAAAACAGAAA-TTGAAAATAGCTCAGCACGTGAGCCATA-GCTCAACTCACTTCTCGCAATTTG
1 AAAAACA-AAATTTGAAAATACCTCAGCGTGTGAGTCA-AGGCTCAACTCACCTCTCGCAATATG
* * ** * * * *
17943081 AGTTGA--TTTTT-AAAACAAATTTGTAAAACAA-ATTTTGAAAATACCTCGGTATGTGACCCGA
64 AGTTGATTTTTTTGAAAACAAAATTG-AAAAAAAGAAATTGAAAATACCTCAG--CGTGTCCTGA
* * * * *
17943142 GGCTCAACTCACCACTCGTAATATGAGTT-AATTTTTGCAAAGCATAAATTG
126 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTG
* *
17943193 AAAAA-AAAATCAATTGAAAATACCTCGGCGTGTGA-TCTGAGGCTCAACTCACCTCTCGCAATA
1 AAAAACAAAAT---TTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCTCTCGCAATA
*
17943256 TGAGTTGATTTTTTTGACAAACATAAATTGAAAAAAAGAAATTGAAAATATCTCAGCGTGTCCTG
62 TGAGTTGATTTTTTTGA-AAACA-AAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTG
* * *
17943321 AGGCTGAGCTCATCTCTCGCAATATGAGTTGATTTTTTGGAAAAACA-AAATTTG
125 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-GAAAAACATAAA-TTG
* *
17943375 AAAAACAAAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGTAATATGAG
1 AAAAACAAAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAG
* * * * *
17943440 TTGATTTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGC--GTCTTGAGG
66 TTGA-TTTTTTTGAAA-ACA-AAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGG
* *
17943503 TTCAACTCACCTCTCGCAATATGAGCTGA-TTTTT--------T---TTG
128 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTG
* * * ** *
17943541 AAAGACAGAAA-TTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACA-AAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGA
* * * *
17943603 GTTGA--TTTTTG---AC--------AAACAA-AAATTGAAATTACCTCAGC--GTCTTGAGGTT
65 GTTGATTTTTTTGAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCT
* *
17943652 CAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG
130 CAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACATAAATTG
* * *
17943701 AAAATAC----TTT----A-ACGT--GTC-T-T--G---AGGTTCAACTCACATCTCGCAATATG
1 AAAA-ACAAAATTTGAAAATACCTCAG-CGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATG
* * * * *
17943748 AGCTGA-TTTTTT----------TT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGC
64 AGTTGATTTTTTTGAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
17943801 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG----AC--------
129 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTG
* * ** * *
17943837 --AAACAAAAATTGAAATTACCTCAGCGTGT-CCT-GAGGCTCAACTCACCTATCGCAATATGAG
1 AAAAACAAAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAG
* * *
17943898 TTGA--TTTTT----------TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTC
66 TTGATTTTTTTGAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTC
* *
17943951 AACTCACCTCTTGCAATATGAGTTGA-GTTTTG----AC--------
131 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTG
* * ** * *
17943985 --AAACAAAAATTGAAATTACCTCAGCGTGT-CCT-GAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAAAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAG
* * *
17944046 TTGATTTTTTT-AGAAACATAAATTTAAAAAATGAAAATTGAAAATACCTCAGCGTATCCTGAGG
66 TTGATTTTTTTGA-AAACA-AAATTGAAAAAAAG-AAATTGAAAATACCTCAGCGTGTCCTGAGG
* ** *
17944110 CTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
128 CTCAACTCACCTCTCGCAATATGAGTTGATTT-----------TTTGAAAAACATAAATTG
*** * *
17944171 AAAAACAGAAA-TTGAAAATACCTCAGCGTG-CCCT-GAGGCTCAACTCATCTCTCGCAATATGA
1 AAAAACA-AAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGA
* * * *
17944233 GTTGATTTTTGAAAAATAGAAATTAAGAGTAGAAATTGAAAAACAA-AAATTAAAAATACCTCGG
65 GTTGATTTTT------TTG--A--AA-A-CA-AAATTGAAAAA-AAGAAATTGAAAATACCTCAG
* * * *
17944297 CGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTG
116 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTG
* * * *
17944358 AAAAAACGGAAA-TTGAAAATACCTCAGCGTGTGA-CCTGAGGCCCAACTCACCTCTCGCAATAT
1 -AAAAAC-AAAATTTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCTCTCGCAATAT
17944421 GAGTTGATTTTTTTGAAA
63 GAGTTGATTTTTTTGAAA
17944439 GATAAAAATA
Statistics
Matches: 1005, Mismatches: 120, Indels: 237
0.74 0.09 0.17
Matches are distributed among these distances:
133 2 0.00
134 2 0.00
137 2 0.00
142 3 0.00
143 1 0.00
144 4 0.00
145 1 0.00
146 28 0.03
147 67 0.07
148 189 0.19
149 6 0.01
150 42 0.04
151 1 0.00
152 3 0.00
153 1 0.00
157 4 0.00
160 6 0.01
161 16 0.02
162 55 0.05
163 1 0.00
164 30 0.03
166 28 0.03
167 3 0.00
173 3 0.00
174 5 0.00
175 5 0.00
176 2 0.00
177 46 0.05
178 6 0.01
179 37 0.04
180 87 0.09
181 62 0.06
182 34 0.03
183 5 0.00
184 2 0.00
187 15 0.01
188 90 0.09
189 3 0.00
190 36 0.04
194 1 0.00
197 1 0.00
198 4 0.00
199 54 0.05
200 11 0.01
201 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (177 bp):
AAAAACAAAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTG
Found at i:17943685 original size:73 final size:74
Alignment explanation
Indices: 17943470--17944074 Score: 728
Period size: 73 Copynumber: 8.2 Consensus size: 74
17943460 GAAATTGAAG
* * * *
17943470 AACAGAAATGGAAAACACCTCA-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
1 AACAGAAATTGAAAATACCTCACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
17943534 TTTTTTGA-A
65 TTTTTTGACA
* *
17943543 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTC-ACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
17943608 --TTTTTGACA
64 TTTTTTTGACA
* * * *
17943617 AACAAAAATTGAAATTACCTCA-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGATT
1 AACAGAAATTGAAAATACCTCACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
17943681 TTTTTGAAA
66 TTTTTGACA
* * * * * *
17943690 AACAGAAATTGAAAATACTTTAACGTGTCTTGAGGTTCAACTCACATCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATAC-CTCACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
17943755 TTTTTTTA-A
65 TTTTTTGACA
*
17943764 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTC-ACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
17943829 --TTTTTGACA
64 TTTTTTTGACA
* * * * *
17943838 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCA-CGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
17943903 TTTTTTGAAA
65 TTTTTTGACA
* *
17943913 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTC-ACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
17943977 -GTTTTGACA
65 TTTTTTGACA
* * * * *
17943986 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCA-CGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
17944051 TTTTTT-AGA
65 TTTTTTGACA
* *
17944060 AACATAAATTTAAAA
1 AACAGAAATTGAAAA
17944075 AATGAAAATT
Statistics
Matches: 464, Mismatches: 50, Indels: 35
0.85 0.09 0.06
Matches are distributed among these distances:
71 36 0.08
72 3 0.01
73 177 0.38
74 41 0.09
75 170 0.37
76 37 0.08
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (74 bp):
AACAGAAATTGAAAATACCTCACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTGACA
Found at i:17943865 original size:148 final size:146
Alignment explanation
Indices: 17943464--17944074 Score: 775
Period size: 148 Copynumber: 4.1 Consensus size: 146
17943454 AACACAGAAA
* * * *
17943464 TTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 TTGAA-AACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
17943529 TGATTTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
65 TGA--TTTTTTGACAA-ACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
*
17943593 TGCAATATGAGTTGA--TTT
127 CGCAATATGAGTTGATTTTT
* * * *
17943611 TTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGT
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * * * *
17943676 TGATTTTTTTGAAAAACAGAAATTGAAAATACTTTAACGTGTCTTGAGGTTCAACTCACATCTCG
65 TGA-TTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
*
17943741 CAATATGAGCTGATTTTT
129 CAATATGAGTTGATTTTT
* *
17943759 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
17943824 GTTGA-TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATC
63 GTTGATTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
17943888 GCAATATGAGTTGATTTTT
128 GCAATATGAGTTGATTTTT
* *
17943907 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
17943972 GTTGA-GTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTC
63 GTTGATTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
17944036 GCAATATGAGTTGATTTTT
128 GCAATATGAGTTGATTTTT
* *
17944055 TT-AGAAACATAAATTTAAAA
1 TTGA-AAACAGAAATTGAAAA
17944075 AATGAAAATT
Statistics
Matches: 419, Mismatches: 36, Indels: 18
0.89 0.08 0.04
Matches are distributed among these distances:
146 67 0.16
147 78 0.19
148 233 0.56
149 4 0.01
150 37 0.09
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (146 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTT
Found at i:17943997 original size:221 final size:220
Alignment explanation
Indices: 17943464--17944054 Score: 920
Period size: 221 Copynumber: 2.7 Consensus size: 220
17943454 AACACAGAAA
* * * *
17943464 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
17943527 GCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
66 GCTGA--TTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* * *
17943592 TTGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACT
129 TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACT
17943657 CACCTATCGCAATATGAGTTGATTTTT
194 CACCTATCGCAATATGAGTTGATTTTT
* * *
17943684 TTGAAAAACAGAAATTGAAAATACTTTAACGTGTCTTGAGGTTCAACTCACATCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
17943749 GCTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 GCTGA-TTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
17943814 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
130 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCCTGAGGCTCAAC
17943879 TCACCTATCGCAATATGAGTTGATTTTT
193 TCACCTATCGCAATATGAGTTGATTTTT
* *
17943907 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * * * *
17943972 GTTGA-GTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCT
66 GCTGATTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
17944035 CGCAATATGAGTTGATTTTT
130 CGCAATATGAGTTGATTTTT
17944055 TTAGAAACAT
Statistics
Matches: 342, Mismatches: 24, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
220 22 0.06
221 175 0.51
222 40 0.12
223 105 0.31
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (220 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GCTGATTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCA
CCTATCGCAATATGAGTTGATTTTT
Found at i:17944309 original size:100 final size:101
Alignment explanation
Indices: 17944079--17944432 Score: 391
Period size: 100 Copynumber: 3.6 Consensus size: 101
17944069 TTAAAAAATG
**
17944079 AAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 AAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* *
17944142 GAAAAGCAGAATTTGTAAGGCAAAAATTGAAAAACA
66 GAAAAACAGAATATGTAAGGCAAAAATTGAAAAACA
* *
17944178 GAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTT
1 AAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
17944243 GAAAAATAGAA-AT-TAAGAGTAGAAATTGAAAAACA
66 GAAAAACAGAATATGTAAG-GCAAAAATTGAAAAACA
* * * *
17944278 AAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTT
1 AAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
17944343 GAAAAGCATAA-AT-T---G-----A---AAAAACG
66 GAAAAACAGAATATGTAAGGCAAAAATTGAAAAACA
* * *
17944366 GAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
17944431 TT
64 TT
17944433 TTGAAAGATA
Statistics
Matches: 224, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
88 23 0.10
90 41 0.18
91 1 0.00
96 1 0.00
99 60 0.27
100 86 0.38
101 12 0.05
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (101 bp):
AAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
GAAAAACAGAATATGTAAGGCAAAAATTGAAAAACA
Found at i:17944444 original size:90 final size:87
Alignment explanation
Indices: 17944265--17944432 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 87
17944255 TTAAGAGTAG
* * *
17944265 AAATTGAAAAACAAAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATA
1 AAATTGAAAAACAAAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTCTCGCAATA
17944330 TGAGTTGATTTTTGAAAAGCAT
66 TGAGTTGATTTTTGAAAAGCAT
** * * *
17944352 AAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCA
1 AAATTG-AAAAACAAAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCACCTCTCGCA
17944417 ATATGAGTTGATTTTT
63 ATATGAGTTGATTTTT
17944433 TTGAAAGATA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
87 6 0.09
88 21 0.30
89 1 0.01
90 42 0.60
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (87 bp):
AAATTGAAAAACAAAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAGCAT
Found at i:17946354 original size:37 final size:37
Alignment explanation
Indices: 17946289--17946434 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
17946279 TACGTATGAT
* *
17946289 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
17946324 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17946361 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
17946398 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
17946435 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:17946477 original size:52 final size:52
Alignment explanation
Indices: 17946398--17946712 Score: 411
Period size: 52 Copynumber: 6.2 Consensus size: 52
17946388 TAAGTGTAGC
* * **
17946398 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
17946451 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
17946503 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
*
17946555 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
17946601 CAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
17946647 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
17946699 CACTTTATCACTTG
1 CACTTT-TCACTTG
17946713 ATCAGAAGTA
Statistics
Matches: 235, Mismatches: 17, Indels: 20
0.86 0.06 0.07
Matches are distributed among these distances:
46 84 0.36
47 2 0.01
48 2 0.01
52 132 0.56
53 15 0.06
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:17946596 original size:39 final size:41
Alignment explanation
Indices: 17946516--17946651 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 41
17946506 TTTCCACTTG
* * *
17946516 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTG
1 TCACTTGATCAGATAAGTATAGCCGAAG-----ACTTATCACTTTA
17946562 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTA
1 TCACTTGATCAGATAAGTATAGCCGAAG-----ACTTATCACTTTA
*
17946608 TCACTTGATCAGATAAGTATAGCCGAAG-C-TATTAC-TTA
1 TCACTTGATCAGATAAGTATAGCCGAAGACTTATCACTTTA
17946646 TCACTT
1 TCACTT
17946652 TCCACTTGTC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
38 9 0.10
39 5 0.06
40 1 0.01
46 71 0.83
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (41 bp):
TCACTTGATCAGATAAGTATAGCCGAAGACTTATCACTTTA
Found at i:17946707 original size:98 final size:97
Alignment explanation
Indices: 17946397--17946718 Score: 438
Period size: 98 Copynumber: 3.3 Consensus size: 97
17946387 ATAAGTGTAG
* * *
17946397 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC-TTTCACT
17946462 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
65 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
17946495 TCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC--
1 CCACTTATCACTTT--A----TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTT
*
17946558 T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTA
60 TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
* * * *
17946593 TCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT-CACT
**
17946658 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
65 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
17946691 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTATCACTTGATCAGA
17946719 AGTACTCAAA
Statistics
Matches: 200, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
92 39 0.19
94 1 0.00
96 1 0.00
98 118 0.59
101 1 0.00
104 40 0.20
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (97 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:17959521 original size:25 final size:23
Alignment explanation
Indices: 17959469--17959523 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
17959459 TATAAATAGT
17959469 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
17959492 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
17959517 AATAGTG
1 AATAGTG
17959524 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:17959643 original size:22 final size:24
Alignment explanation
Indices: 17959585--17959652 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
17959575 ATAGATATAA
* *
17959585 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
17959609 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
17959633 -AAAATATATACATAAGATAA
1 AAAAATATATACATAATATAA
17959653 CATGTAGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 18 0.47
24 1 0.03
25 19 0.50
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:17959697 original size:25 final size:25
Alignment explanation
Indices: 17959669--17959798 Score: 98
Period size: 23 Copynumber: 5.6 Consensus size: 25
17959659 GAAAAAATAT
*
17959669 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
17959694 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
17959717 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
17959741 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
17959763 A-ATATATATAATATAATATTAAA-
1 ATATATACATAATATAGTATTAAAG
*
17959786 AAATATA-ATAATA
1 ATATATACATAATA
17959799 AAAAAAGAGG
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
21 1 0.01
22 15 0.18
23 39 0.46
24 13 0.15
25 17 0.20
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:17959697 original size:29 final size:28
Alignment explanation
Indices: 17959597--17959706 Score: 97
Period size: 29 Copynumber: 4.0 Consensus size: 28
17959587 AAATATGTAC
* *
17959597 ATAATATAGT-GTAAAA-A-ATACATAC
1 ATAATATAGTATTAAAATATATACATAA
17959622 ATAATATA--ATTAAAATATATACATAA
1 ATAATATAGTATTAAAATATATACATAA
* ** *
17959648 GATAACAT-GTAGAAAAAATATATATATAA
1 -ATAATATAGTA-TTAAAATATATACATAA
17959677 ATAATATAGTATTAAAGATATATACATAA
1 ATAATATAGTATTAAA-ATATATACATAA
17959706 A
1 A
17959707 ATAGTATAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
24 5 0.08
25 9 0.14
26 7 0.11
27 6 0.09
28 10 0.15
29 29 0.44
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (28 bp):
ATAATATAGTATTAAAATATATACATAA
Found at i:17959709 original size:27 final size:27
Alignment explanation
Indices: 17959597--17959730 Score: 81
Period size: 29 Copynumber: 5.1 Consensus size: 27
17959587 AAATATGTAC
*
17959597 ATAATATAGT-GTAAAA-A-ATACATA
1 ATAATATAGTATTAAAATATATACATA
17959621 CATAATATA--ATTAAAATATATACATAA
1 -ATAATATAGTATTAAAATATATACAT-A
* ** *
17959648 GATAACAT-GTAGAAAAAATATATATATAA
1 -ATAATATAGTA-TTAAAATATATACAT-A
17959677 ATAATATAGTATTAAAGATATATACAT-
1 ATAATATAGTATTAAA-ATATATACATA
* *
17959704 A-AA-ATAGTA-TAATATATATACGTA
1 ATAATATAGTATTAAAATATATACATA
17959728 ATA
1 ATA
17959731 TAGAATTTAG
Statistics
Matches: 86, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
23 9 0.10
24 9 0.10
25 16 0.19
26 8 0.09
27 8 0.09
28 10 0.12
29 26 0.30
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (27 bp):
ATAATATAGTATTAAAATATATACATA
Done.