Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 91 of 210
Found at i:26691290 original size:217 final size:217
Alignment explanation
Indices: 26690943--26691339 Score: 607
Period size: 217 Copynumber: 1.8 Consensus size: 217
26690933 AATTTCAGGG
* * * * *
26690943 GGATGAGACTTTCTTACTCAATCTGCTCCACTGCAACTTCAGGAAGATAGGATTATACGCGATCT
1 GGATAAGACTTACTTACTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGACGCGATCT
* *
26691008 ACTCTCTGCAATTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTTCACTAAAACTTCAGGGAG
66 ACTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTTCACTAAAACTTCAGGGAG
* *
26691073 ATAGGATTATTGGCCTTAATTTGCTCCTCTGCAACTTCAGGGAGATAAGATTTAAAATCTTCAGT
131 ATAGGATTATTGGCCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTAAAATCTTCAGT
26691138 CTACCTCGCTGCAACTTCAAGA
196 CTACCTCGCTGCAACTTCAAGA
* * * *
26691160 GGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCT
1 GGATAAGACTTACTTACTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGACGCGATCT
* * ** *
26691225 GCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCAC-TCTATTGCAACTTTAGGGA
66 ACTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTTC-ACTAAAACTTCAGGGA
*
26691289 GATAGGATTATTGGCCTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGA
130 GATAGGATTATTGGCCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
26691340 CTAGATGTGA
Statistics
Matches: 160, Mismatches: 19, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
216 2 0.01
217 158 0.99
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (217 bp):
GGATAAGACTTACTTACTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGACGCGATCT
ACTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTTCACTAAAACTTCAGGGAG
ATAGGATTATTGGCCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTAAAATCTTCAGT
CTACCTCGCTGCAACTTCAAGA
Found at i:26691325 original size:128 final size:128
Alignment explanation
Indices: 26691176--26691467 Score: 478
Period size: 128 Copynumber: 2.3 Consensus size: 128
26691166 GACTTACTTA
*
26691176 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACT-TC
1 CTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTCT-
* * * *
26691240 AGAGAGATAAGATCTAAGGTTTTAATCCACTCTATTGCAACTTTAGGGAGATAGGATTATTGGC
65 AGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAATATTGGC
* *
26691304 CTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTCTA
1 CTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTCTA
*
26691369 GAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAATATTGGC
66 GAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAATATTGGC
* *
26691432 CTTACTCTGCTCCTCTGCAACTTCAGGGAGATAAGA
1 CTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
26691468 TTTTCCATCT
Statistics
Matches: 152, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
128 151 0.99
129 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (128 bp):
CTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTCTA
GAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGAATATTGGC
Found at i:26691391 original size:345 final size:345
Alignment explanation
Indices: 26690962--26691647 Score: 1077
Period size: 345 Copynumber: 2.0 Consensus size: 345
26690952 TTTCTTACTC
* * * *
26690962 AATCTGCTCCACTGCAACTTCAGGAAGATAGGATTATACGCGATCTACTCTCTGCAATTTCAGAG
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGACGCGATCTACTCTCTGCAATCTCAGAG
* *
26691027 AGATAAGATCTAAGGTTTTAATCCGCTTCACTAAAACTTCAGGGAGATAGGATTATTGGCCTTAA
66 AGATAAGATCTAAGGTTTTAATCCGCTCCACTAAAACTTCAGGGAGATAGGAATATTGGCCTTAA
* * * *
26691092 TTTGCTCCTCTGCAACTTCAGGGAGATAAGATTTAAAATCTTCAGTCTACCTCGCTGCAACTTCA
131 TCTGCTCCTCTGCAACTTCAGGGAGATAAGATTTAAAATCTTCAATCTACCTCACTGAAACTTCA
*
26691157 AGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGA
196 AGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGA
* * *
26691222 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCTATTGCAACTTTAGG
261 TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGG
26691287 GAGATAGGATTATTGGCCTT
326 GAGATAGGATTATTGGCCTT
* * * * *
26691307 AATCTGCTTCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAA-CTCTAGA
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGACGCGATCTACTCTCTGCAATCTC-AGA
**
26691371 GAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAATATTGGCCTTA
65 GAGATAAGATCTAAGGTTTTAATCCGCTCCACTAAAACTTCAGGGAGATAGGAATATTGGCCTTA
* *** *
26691436 CTCTGCTCCTCTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAATCTGCCTCACTGAAACTTC
130 ATCTGCTCCTCTGCAACTTCAGGGAGATAAGATTTAAAATCTTCAATCTACCTCACTGAAACTTC
* * * *
26691501 AGGAGGATAAGACTTGCTTATTTAGTCTGCTCCACTGTAACTTCAGAGAGATAAGACTAGATGCG
195 AAGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCG
*
26691566 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAG
260 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAG
26691631 GGAGATAGGATTATTGG
325 GGAGATAGGATTATTGG
26691648 TCATCGATCT
Statistics
Matches: 309, Mismatches: 31, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
344 2 0.01
345 307 0.99
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (345 bp):
AATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGACGCGATCTACTCTCTGCAATCTCAGAG
AGATAAGATCTAAGGTTTTAATCCGCTCCACTAAAACTTCAGGGAGATAGGAATATTGGCCTTAA
TCTGCTCCTCTGCAACTTCAGGGAGATAAGATTTAAAATCTTCAATCTACCTCACTGAAACTTCA
AGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGA
TCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCCACTGCAACTTCAGG
GAGATAGGATTATTGGCCTT
Found at i:26691408 original size:44 final size:44
Alignment explanation
Indices: 26691013--26691637 Score: 247
Period size: 44 Copynumber: 14.4 Consensus size: 44
26691003 GATCTACTCT
* *
26691013 CTGCAATTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTTCA
1 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
** * * * ** ** *
26691057 CTAAAACTTCAGGGAGATAGGAT-TATTGGCCTTAATTTGCTCCT
1 CTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAATCCGCTCCA
* * ** * * *
26691101 CTGCAACTTCAGGGAGATAAGATTTAAAATCTTCAGTCTAC-CT-CG
1 CTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAATC--CGCTCCA
* * * *
26691146 CTGCAACTTCA-AGAGGATAAGA-CTTA-CTTACTTAGTCTGCTCCA
1 CTGCAACTTCAGAGA-GATAAGATCTAAGGTT--TTAATCCGCTCCA
* * *** * *
26691190 CTGCAACTTCAGGGAGATAAGA-CT-A-GATGCGATCTGCT-CT
1 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
* *
26691230 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCACTCTA
1 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
* * * * * ** * *
26691274 TTGCAACTTTAGGGAGATAGGAT-TATTGGCCTTAATCTGCTTCA
1 CTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAATCCGCTCCA
* * * * * *
26691318 CTGCAACTTCAGGGAGATAAGA-CT-A-GATGTGATCTGCT-CT
1 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
26691358 CTGCAAC-TCTAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
1 CTGCAACTTC-AGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
* * * * ** * * *
26691402 CTGCAACTTCAGGGAGATAGGA-ATATTGGCCTTACTCTGCTCCT
1 CTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAATCCGCTCCA
* * **** * *
26691446 CTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAATCTGC-CTCA
1 CTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCCGCTC-CA
* * * * *
26691491 CTGAAACTTCAG-GAGGATAAGA-CT-TGCTTATTTAGTCTGCTCCA
1 CTGCAACTTCAGAGA-GATAAGATCTAAG-GT-TTTAATCCGCTCCA
* * *** * *
26691535 CTGTAACTTCAGAGAGATAAGA-CT-A-GATGCGATCTGCT-CT
1 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
26691575 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
1 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
*
26691619 CTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGAGAGATA
26691638 GGATTATTGG
Statistics
Matches: 426, Mismatches: 120, Indels: 70
0.69 0.19 0.11
Matches are distributed among these distances:
39 2 0.00
40 63 0.15
41 28 0.07
42 4 0.01
43 35 0.08
44 234 0.55
45 58 0.14
46 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCA
Found at i:26704553 original size:26 final size:26
Alignment explanation
Indices: 26704517--26704568 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
26704507 GCGTCCCTTA
26704517 ACCCCATTTCCCCCCAGATCACACGC
1 ACCCCATTTCCCCCCAGATCACACGC
*
26704543 ACCCCATTTCCCCCTAGATCACACGC
1 ACCCCATTTCCCCCCAGATCACACGC
26704569 CCTTGCTCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.52, G:0.08, T:0.17
Consensus pattern (26 bp):
ACCCCATTTCCCCCCAGATCACACGC
Found at i:26705377 original size:36 final size:36
Alignment explanation
Indices: 26705307--26705377 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
26705297 ATGATTAAAC
* **
26705307 AATTCAATAATATAAATAGTATAAAATGTGAAATTT
1 AATTCAATAATATAAATAGTAGAAAATGAAAAATTT
*
26705343 AATTTAATAATATAAATAGTAGATAAAT-AAAAATT
1 AATTCAATAATATAAATAGTAGA-AAATGAAAAATT
26705378 ATTACTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 26 0.87
37 4 0.13
ACGTcount: A:0.56, C:0.01, G:0.07, T:0.35
Consensus pattern (36 bp):
AATTCAATAATATAAATAGTAGAAAATGAAAAATTT
Found at i:26707529 original size:41 final size:41
Alignment explanation
Indices: 26707472--26707618 Score: 276
Period size: 41 Copynumber: 3.6 Consensus size: 41
26707462 CCCTTCGAGG
*
26707472 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTGATGCTCAGAT
26707513 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTGATGCTCAGAT
26707554 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTGATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTGATGCTCAGAT
*
26707595 CTTTAGCGGCGTTTTTAAAAAAGC
1 CTTTAGCGGCGTTTTTGAAAAAGC
26707619 CGCGCAAAAA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTGATGCTCAGAT
Found at i:26707977 original size:20 final size:21
Alignment explanation
Indices: 26707941--26707980 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
26707931 ATCATTATAG
*
26707941 TTTAGGGTTTAATATATATGA
1 TTTAGGGTATAATATATATGA
26707962 TTTAGGGTAT-ATATATATG
1 TTTAGGGTATAATATATATG
26707981 GTCAATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (21 bp):
TTTAGGGTATAATATATATGA
Found at i:26708060 original size:14 final size:15
Alignment explanation
Indices: 26708032--26708064 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
26708022 AAGGTTTATA
26708032 GATTATGGAATTAGG
1 GATTATGGAATTAGG
26708047 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
26708061 GATT
1 GATT
26708065 TTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:26708098 original size:21 final size:21
Alignment explanation
Indices: 26708081--26708139 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
26708071 TAAGGGTTGT
26708081 GATTTAAGGTTTATGGGTTAG
1 GATTTAAGGTTTATGGGTTAG
** *
26708102 GGGTTAGAGGTTTA-GAGTTAGG
1 GATTTA-AGGTTTATGGGTTA-G
26708124 GATTTAAGGTTTATGG
1 GATTTAAGGTTTATGG
26708140 ATTCAGTGTC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (21 bp):
GATTTAAGGTTTATGGGTTAG
Found at i:26708376 original size:96 final size:93
Alignment explanation
Indices: 26708159--26708409 Score: 341
Period size: 89 Copynumber: 2.7 Consensus size: 93
26708149 CAGGTTAGGG
* * *
26708159 TTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGAGGT
1 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGAGGT
* *
26708224 TAGGGATTTAGGGTCGGGTTAGGGTTTA
66 TAGGGATTCAGGCTCGGGTTAGGGTTTA
** *
26708252 --T--GATTTAGATTAATTAGTACTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGGT
1 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGAGGT
*
26708313 TAGGGATTCAGGCTTGGGTTAGGGTTTATGA
66 TAGGGATTCAGGCTCGGGTTAGGG-TT-T-A
*
26708344 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAA-GATTTAGGGGTTAGTGG
1 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATG-TTTAGGGGTTAGAGG
26708408 TT
65 TT
26708410 TGGAGTTTGG
Statistics
Matches: 138, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
89 75 0.54
90 2 0.01
91 2 0.01
92 1 0.01
94 1 0.01
95 1 0.01
96 56 0.41
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.45
Consensus pattern (93 bp):
TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGAGGT
TAGGGATTCAGGCTCGGGTTAGGGTTTA
Found at i:26708613 original size:21 final size:21
Alignment explanation
Indices: 26708588--26708657 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
26708578 TTGATATGCA
26708588 TTATGGGTT-GTGATTTAAGGT
1 TTATGGGTTAG-GATTTAAGGT
**
26708609 TTATGGGTTAGGGGTTAGAGGT
1 TTATGGGTTAGGATTTA-AGGT
*
26708631 TTA-GAGTTAGGGATTTAAGGT
1 TTATGGGTTA-GGATTTAAGGT
26708652 TTATGG
1 TTATGG
26708658 ATTCGGTGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
21 25 0.64
22 14 0.36
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.41
Consensus pattern (21 bp):
TTATGGGTTAGGATTTAAGGT
Found at i:26708827 original size:518 final size:518
Alignment explanation
Indices: 26708074--26709109 Score: 2045
Period size: 518 Copynumber: 2.0 Consensus size: 518
26708064 TTTGATTTAA
26708074 GGGTTGTGATTTAAGGTTTATGGGTTAGGGGTTAGAGGTTTAGAGTTAGGGATTTAAGGTTTATG
1 GGGTTGTGATTTAAGGTTTATGGGTTAGGGGTTAGAGGTTTAGAGTTAGGGATTTAAGGTTTATG
26708139 GATTCAGTGTCAGGTTAGGGTTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAAT
66 GATTCAGTGTCAGGTTAGGGTTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAAT
*
26708204 AATGTTTAGGGGTTAGAGGTTAGGGATTTAGGGTCGGGTTAGGGTTTATGATTTAGATTAATTAG
131 AATGTTTAGGGGTTAGAGGTTAGGGATTTAGGGTCGAGTTAGGGTTTATGATTTAGATTAATTAG
*
26708269 TACTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGGGGTTAGGGATTCAGGCTTGGGTTA
196 TACTTTTTAATTTATATATTAAATAATGTGTAGGGGTTAGGGGTTAGGGATTCAGGCTTGGGTTA
26708334 GGGTTTATGATTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGATTTAGG
261 GGGTTTATGATTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGATTTAGG
26708399 GGTTAGTGGTTTGGAGTTTGGGGTTTGGGATTTGGGGTTAAGATTTAGGGGTTTAGAGATTCGGG
326 GGTTAGTGGTTTGGAGTTTGGGGTTTGGGATTTGGGGTTAAGATTTAGGGGTTTAGAGATTCGGG
26708464 GTCGGGTTAGGGTTTAAGATTTAGATTAATTAATATTTTTAATTTATATATTAAATAAATTCTTA
391 GTCGGGTTAGGGTTTAAGATTTAGATTAATTAATATTTTTAATTTATATATTAAATAAATTCTTA
26708529 TATAATTGTAAAAGAGTAATAATAAAATTTAAATATTATTAGTTTAAAATTGATATGCATTAT
456 TATAATTGTAAAAGAGTAATAATAAAATTTAAATATTATTAGTTTAAAATTGATATGCATTAT
26708592 GGGTTGTGATTTAAGGTTTATGGGTTAGGGGTTAGAGGTTTAGAGTTAGGGATTTAAGGTTTATG
1 GGGTTGTGATTTAAGGTTTATGGGTTAGGGGTTAGAGGTTTAGAGTTAGGGATTTAAGGTTTATG
*
26708657 GATTCGGTGTCAGGTTAGGGTTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAAT
66 GATTCAGTGTCAGGTTAGGGTTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAAT
26708722 AATGTTTAGGGGTTAGAGGTTAGGGATTTAGGGTCGAGTTAGGGTTTATGATTTAGATTAATTAG
131 AATGTTTAGGGGTTAGAGGTTAGGGATTTAGGGTCGAGTTAGGGTTTATGATTTAGATTAATTAG
26708787 TACTTTTTAATTTATATATTAAATAATGTGTAGGGGTTAGGGGTTAGGGATTCAGGCTTGGGTTA
196 TACTTTTTAATTTATATATTAAATAATGTGTAGGGGTTAGGGGTTAGGGATTCAGGCTTGGGTTA
26708852 GGGTTTATGATTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGATTTAGG
261 GGGTTTATGATTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGATTTAGG
26708917 GGTTAGTGGTTTGGAGTTTGGGGTTTGGGATTTGGGGTTAAGATTTAGGGGTTTAGAGATTCGGG
326 GGTTAGTGGTTTGGAGTTTGGGGTTTGGGATTTGGGGTTAAGATTTAGGGGTTTAGAGATTCGGG
26708982 GTCGGGTTAGGGTTTAAGATTTAGATTAATTAATATTTTTAATTTATATATTAAATAAATTCTTA
391 GTCGGGTTAGGGTTTAAGATTTAGATTAATTAATATTTTTAATTTATATATTAAATAAATTCTTA
26709047 TATAATTGTAAAAGAGTAATAATAAAATTTAAATATTATTAGTTTAAAATTGATATGCATTAT
456 TATAATTGTAAAAGAGTAATAATAAAATTTAAATATTATTAGTTTAAAATTGATATGCATTAT
26709110 ACAATAATTG
Statistics
Matches: 515, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
518 515 1.00
ACGTcount: A:0.29, C:0.02, G:0.26, T:0.43
Consensus pattern (518 bp):
GGGTTGTGATTTAAGGTTTATGGGTTAGGGGTTAGAGGTTTAGAGTTAGGGATTTAAGGTTTATG
GATTCAGTGTCAGGTTAGGGTTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAAT
AATGTTTAGGGGTTAGAGGTTAGGGATTTAGGGTCGAGTTAGGGTTTATGATTTAGATTAATTAG
TACTTTTTAATTTATATATTAAATAATGTGTAGGGGTTAGGGGTTAGGGATTCAGGCTTGGGTTA
GGGTTTATGATTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGATTTAGG
GGTTAGTGGTTTGGAGTTTGGGGTTTGGGATTTGGGGTTAAGATTTAGGGGTTTAGAGATTCGGG
GTCGGGTTAGGGTTTAAGATTTAGATTAATTAATATTTTTAATTTATATATTAAATAAATTCTTA
TATAATTGTAAAAGAGTAATAATAAAATTTAAATATTATTAGTTTAAAATTGATATGCATTAT
Found at i:26708894 original size:96 final size:93
Alignment explanation
Indices: 26708677--26708927 Score: 323
Period size: 89 Copynumber: 2.7 Consensus size: 93
26708667 CAGGTTAGGG
* * *
26708677 TTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGAGGT
1 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGAGGT
* *
26708742 TAGGGATTTAGGGTCGAGTTAGGGTTTA
66 TAGGGATTCAGGCTCGAGTTAGGGTTTA
** * *
26708770 --T--GATTTAGATTAATTAGTACTTTTTAATTTATATATTAAATAATGTGTAGGGGTTAGGGGT
1 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGAGGT
* *
26708831 TAGGGATTCAGGCTTGGGTTAGGGTTTATGA
66 TAGGGATTCAGGCTCGAGTTAGGG-TT-T-A
*
26708862 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAA-GATTTAGGGGTTAGTGG
1 TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATG-TTTAGGGGTTAGAGG
26708926 TT
65 TT
26708928 TGGAGTTTGG
Statistics
Matches: 135, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
89 73 0.54
90 2 0.01
91 2 0.01
92 1 0.01
94 1 0.01
95 1 0.01
96 55 0.41
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.45
Consensus pattern (93 bp):
TTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGAGGT
TAGGGATTCAGGCTCGAGTTAGGGTTTA
Found at i:26709994 original size:146 final size:147
Alignment explanation
Indices: 26709836--26710165 Score: 447
Period size: 144 Copynumber: 2.3 Consensus size: 147
26709826 AATAATTTTT
*
26709836 TAGCAGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAGC-TCCATTTT
1 TAGCGGCGTTTTTAT-AAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAGCGTCC-TTTT
* * * *
26709900 -ATATAGCAAAATAGTGTCATTTTATTCTAAATAAAATAATTTTTTGCGGCG-TTTTTATGAAAA
64 AACATAGCAAAACAGTGTCATTTTATTCTAAATAAAATAATTTTTTGCGGCGCTTTTGA-CAAAA
*
26709963 ACGCCGCAAAAGTTAAGCAA
128 ACGCCGCAAAAGATAAGCAA
*
26709983 T-GTGGCGTTTTTATAAAAACGCCACAAAAAA-AA-TTTACTTTAAAAAAATAGCGTCCTTTTAA
1 TAGCGGCGTTTTTATAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAGCGTCCTTTTAA
* * * *
26710045 CATAGCAAAACAGTGTCGTTTTATTTTAAATGAAATAATTTTTTGCGGCGCTTTTGACAAAAATG
66 CATAGCAAAACAGTGTCATTTTATTCTAAATAAAATAATTTTTTGCGGCGCTTTTGACAAAAACG
* *
26710110 TCGCAAAAGATCAGCAA
131 CCGCAAAAGATAAGCAA
* *
26710127 TAGCGACATTTTTATTAAAAACGCCACAAAAAATAATTT
1 TAGCGGCGTTTTTA-TAAAAACGCCACAAAAAATAATTT
26710166 CAGCGCCATT
Statistics
Matches: 160, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
143 23 0.14
144 72 0.45
145 31 0.19
146 29 0.18
147 3 0.02
148 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.32
Consensus pattern (147 bp):
TAGCGGCGTTTTTATAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAGCGTCCTTTTAA
CATAGCAAAACAGTGTCATTTTATTCTAAATAAAATAATTTTTTGCGGCGCTTTTGACAAAAACG
CCGCAAAAGATAAGCAA
Found at i:26713797 original size:18 final size:20
Alignment explanation
Indices: 26713753--26713795 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
26713743 TATTTATCCT
26713753 TAAAAATATAATATTTATTA
1 TAAAAATATAATATTTATTA
*
26713773 TAGAAATA-AATA-TTATT-
1 TAAAAATATAATATTTATTA
26713790 TAAAAA
1 TAAAAA
26713796 ATTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 5 0.24
19 4 0.19
20 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAAATATAATATTTATTA
Found at i:26713867 original size:43 final size:43
Alignment explanation
Indices: 26713820--26713949 Score: 215
Period size: 43 Copynumber: 3.0 Consensus size: 43
26713810 GATATGTTTT
*
26713820 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
*
26713863 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
26713906 TAGCAGCGTTTGTGGGAAAAGCGCCACTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
26713949 T
1 T
26713950 TCAAATGTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:26714772 original size:23 final size:23
Alignment explanation
Indices: 26714742--26714788 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
26714732 AAATAAGTTC
26714742 ATTTAATGGGATACTCATTTAAA
1 ATTTAATGGGATACTCATTTAAA
26714765 ATTTAATGGGATACTCATTTAAA
1 ATTTAATGGGATACTCATTTAAA
26714788 A
1 A
26714789 CATTCAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (23 bp):
ATTTAATGGGATACTCATTTAAA
Found at i:26717857 original size:147 final size:147
Alignment explanation
Indices: 26717590--26717871 Score: 442
Period size: 147 Copynumber: 1.9 Consensus size: 147
26717580 TGAAGGTATT
** *
26717590 GATCCAGAAAGCTGGTTCCTTGACAAATCAAGAGATGCAAGATTTGGAACTCCAGATCTATGAAA
1 GATCCAGAAAGCTGGTTCAATGACAAACCAAGAGATGCAAGATTTGGAACTCCAGATCTATGAAA
* * * * *
26717655 TGGAGGGATTGAACCATTGAACTTGTTACGACTTAGTTCCAATCTCACAAGGTTACTGAGATTTG
66 TGGAGGGATTAAACCATTGAAATTGTTACGACTTAGATCCAATCTCACAAGGTTACCGAGATATG
26717720 CAATTGATGCTGGAATG
131 CAATTGATGCTGGAATG
* *
26717737 GATCCAGAAAGCTGGTTGAATGACAAACCAAGAGATGCAAGATTTGGAACTCGAGATCTATGAAA
1 GATCCAGAAAGCTGGTTCAATGACAAACCAAGAGATGCAAGATTTGGAACTCCAGATCTATGAAA
26717802 TGGAGGGATTAAACCATTGAAATTGTTATC-ACTTAGATCCAAT-TCCACAAGGTTACCGAGATA
66 TGGAGGGATTAAACCATTGAAATTGTTA-CGACTTAGATCCAATCT-CACAAGGTTACCGAGATA
26717865 TGCAATT
129 TGCAATT
26717872 TGTTGGAGCT
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
146 1 0.01
147 121 0.98
148 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (147 bp):
GATCCAGAAAGCTGGTTCAATGACAAACCAAGAGATGCAAGATTTGGAACTCCAGATCTATGAAA
TGGAGGGATTAAACCATTGAAATTGTTACGACTTAGATCCAATCTCACAAGGTTACCGAGATATG
CAATTGATGCTGGAATG
Found at i:26718163 original size:73 final size:73
Alignment explanation
Indices: 26718076--26718261 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
26718066 ACAACTTGAC
26718076 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
26718141 CACTAACA
66 CACTAACA
*
26718149 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCAACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
26718214 CACTAACA
66 CACTAACA
*
26718222 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
26718262 AATAATAATA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 110 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:26718270 original size:3 final size:3
Alignment explanation
Indices: 26718262--26718299 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
26718252 ATTACATCCA
26718262 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26718300 AAAATAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26722609 original size:73 final size:73
Alignment explanation
Indices: 26722523--26722708 Score: 345
Period size: 73 Copynumber: 2.5 Consensus size: 73
26722513 ACAACTTGAC
*
26722523 AACTTAGTTGGAATACAACTAAGTTTCATTATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
26722588 CACTAACA
66 CACTAACA
*
26722596 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCAACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
26722661 CACTAACA
66 CACTAACA
*
26722669 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
26722709 AATAATAATA
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 109 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:26722717 original size:3 final size:3
Alignment explanation
Indices: 26722709--26722740 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
26722699 ATTACATCCA
26722709 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26722741 ATAAAACATA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:26724696 original size:130 final size:130
Alignment explanation
Indices: 26724463--26724722 Score: 448
Period size: 130 Copynumber: 2.0 Consensus size: 130
26724453 TAGCCTTAGA
* ** * *
26724463 GTGTTCTAAATTTTGCAACATGATGTACCAGTAATGTTTTCAATATAATTTCTTTTATAATTGTG
1 GTGTTCGAAATTTTGCAACACAATGTACCAGTAATGTTTTCAATATAATTTCATTTATAACTGTG
* *
26724528 TCTTTGTAGAGGTTCGGATGGACTGCACGGAGACCATATATGCATTTTATTTTATATATGTGGCT
66 GCTTTGCAGAGGTTCGGATGGACTGCACGGAGACCATATATGCATTTTATTTTATATATGTGGCT
26724593 GTGTTCGAAATTTTGCAACACAATGTACCAGTAATGTTTTCAATATAATTTCATTTATAACTGTG
1 GTGTTCGAAATTTTGCAACACAATGTACCAGTAATGTTTTCAATATAATTTCATTTATAACTGTG
*
26724658 GCTTTGCGGAGGTTCGGATGGACTGCACGGAGACCATATATGCATTTTATTTTATATATGTGGCT
66 GCTTTGCAGAGGTTCGGATGGACTGCACGGAGACCATATATGCATTTTATTTTATATATGTGGCT
26724723 TTGCGGAGGT
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 122 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (130 bp):
GTGTTCGAAATTTTGCAACACAATGTACCAGTAATGTTTTCAATATAATTTCATTTATAACTGTG
GCTTTGCAGAGGTTCGGATGGACTGCACGGAGACCATATATGCATTTTATTTTATATATGTGGCT
Found at i:26726135 original size:62 final size:62
Alignment explanation
Indices: 26726006--26726124 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
26725996 ACGGCATGGG
* * * * * *
26726006 CACACACTCGTGTCCCTAACCTGTGTGACCCTAATCCCAAATAGTGAGTTACATGGCCTAGA
1 CACACGCTCGTGTCCCTAACCCGTGTGACCCTAATCCAAAACAGTGAGTTACACGACCTAGA
*
26726068 CACACGCTCGTGTCCCTAGCCCGTGTG-CCTCTAATTCCAAAACAGTGAGTTACACGA
1 CACACGCTCGTGTCCCTAACCCGTGTGACC-CTAA-TCCAAAACAGTGAGTTACACGA
26726125 TCTACCACAC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
61 2 0.04
62 28 0.58
63 18 0.38
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (62 bp):
CACACGCTCGTGTCCCTAACCCGTGTGACCCTAATCCAAAACAGTGAGTTACACGACCTAGA
Found at i:26734074 original size:21 final size:21
Alignment explanation
Indices: 26734044--26734090 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
26734034 ACAATATTGG
*
26734044 ATTAATTATTATAGCAGTAAA
1 ATTAAGTATTATAGCAGTAAA
* *
26734065 ATTAAGTATTGTAGCAGTAAG
1 ATTAAGTATTATAGCAGTAAA
26734086 ATTAA
1 ATTAA
26734091 AATCAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.36
Consensus pattern (21 bp):
ATTAAGTATTATAGCAGTAAA
Found at i:26736861 original size:4 final size:4
Alignment explanation
Indices: 26736852--26736880 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
26736842 AAGTTTTAAG
26736852 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
26736881 TAATTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:26743300 original size:12 final size:12
Alignment explanation
Indices: 26743285--26743352 Score: 57
Period size: 12 Copynumber: 5.6 Consensus size: 12
26743275 TCCATGAAAT
26743285 TATACATAAAAA
1 TATACATAAAAA
* *
26743297 TATATATAAATA
1 TATACATAAAAA
26743309 TATA-AGTGAAAAA
1 TATACA-T-AAAAA
* *
26743322 TATTCATAATAA
1 TATACATAAAAA
*
26743334 TATAAATAAAAA
1 TATACATAAAAA
*
26743346 TACACAT
1 TATACAT
26743353 GACAGTATAC
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
11 1 0.02
12 33 0.77
13 8 0.19
14 1 0.02
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (12 bp):
TATACATAAAAA
Found at i:26743330 original size:25 final size:24
Alignment explanation
Indices: 26743285--26743347 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
26743275 TCCATGAAAT
*
26743285 TATACATAAAAATATATATAA-ATA
1 TATAAATAAAAATATATATAATA-A
*
26743309 TATAAGTGAAAAATAT-TCATAATAA
1 TATAAAT-AAAAATATAT-ATAATAA
26743334 TATAAATAAAAATA
1 TATAAATAAAAATA
26743348 CACATGACAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 13 0.39
25 19 0.58
26 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (24 bp):
TATAAATAAAAATATATATAATAA
Found at i:26745199 original size:93 final size:93
Alignment explanation
Indices: 26745051--26745265 Score: 297
Period size: 93 Copynumber: 2.3 Consensus size: 93
26745041 CTGGAGAAGG
* * *
26745051 AGAATGCGAGGCTGAGATTGGAGTTAGAGCGTGAAACGGAACAGAATTTGAAATTGATTCAAGCT
1 AGAACGCGAGGCTGAGATTGGAGTTAGAGCGTCAAACGGAACAGAACTTGAAATTGATTCAAG-T
* *
26745116 -ATCAACGAAGAAGATCAATTATTGCACC
65 GATCAACGAAAAAGAACAATTATTGCACC
* * * * *
26745144 GGAACGCGAGGCTCAGATTGGAGTTTGAGCGTCAAAGGGAACAGAACTTGGAATTGATTCAAGTG
1 AGAACGCGAGGCTGAGATTGGAGTTAGAGCGTCAAACGGAACAGAACTTGAAATTGATTCAAGTG
*
26745209 ATCAACGAAAAAGAACAATTGTTGCACC
66 ATCAACGAAAAAGAACAATTATTGCACC
* *
26745237 AGAATGAGAGGCTGAGATTGGAGTTAGAG
1 AGAACGCGAGGCTGAGATTGGAGTTAGAG
26745266 AATGAGAAGC
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
92 1 0.01
93 104 0.99
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.21
Consensus pattern (93 bp):
AGAACGCGAGGCTGAGATTGGAGTTAGAGCGTCAAACGGAACAGAACTTGAAATTGATTCAAGTG
ATCAACGAAAAAGAACAATTATTGCACC
Found at i:26745267 original size:27 final size:27
Alignment explanation
Indices: 26745237--26745343 Score: 162
Period size: 27 Copynumber: 4.0 Consensus size: 27
26745227 TTGTTGCACC
*
26745237 AGAATGAGAGGCTGAGATTGGAGTTAG
1 AGAATGAGAAGCTGAGATTGGAGTTAG
*
26745264 AGAATGAGAAGCTGAGATGGGAGTTAG
1 AGAATGAGAAGCTGAGATTGGAGTTAG
*
26745291 AGAATGA-AGAGCTGAGACTGGAGTTAG
1 AGAATGAGA-AGCTGAGATTGGAGTTAG
*
26745318 AGAATGAGAAGCTGAGATTAGAGTTA
1 AGAATGAGAAGCTGAGATTGGAGTTA
26745344 AAGATGTTCA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.01
27 70 0.97
28 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.21
Consensus pattern (27 bp):
AGAATGAGAAGCTGAGATTGGAGTTAG
Found at i:26747550 original size:21 final size:21
Alignment explanation
Indices: 26747498--26747553 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
26747488 TACAGAGTAG
26747498 ACACGACCGTGTGTGAATCTC
1 ACACGACCGTGTGTGAATCTC
* **
26747519 AGACGGTCGTGTG-GAAATCTC
1 ACACGACCGTGTGTG-AATCTC
*
26747540 ACACGCCCGTGTGT
1 ACACGACCGTGTGT
26747554 CCAAAGCATG
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.23
Consensus pattern (21 bp):
ACACGACCGTGTGTGAATCTC
Found at i:26749465 original size:12 final size:13
Alignment explanation
Indices: 26749444--26749476 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
26749434 AAAAGAAAAG
26749444 GAAAAGAATTAAAT
1 GAAAA-AATTAAAT
26749458 -AAAAAATTAAAT
1 GAAAAAATTAAAT
26749470 GAAAAAA
1 GAAAAAA
26749477 ATTGATTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (13 bp):
GAAAAAATTAAAT
Found at i:26751687 original size:27 final size:27
Alignment explanation
Indices: 26751654--26751720 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
26751644 TTAAGCATAC
26751654 AGTCATTTTATAACAT-AGGGGCATAAT
1 AGTCATTTTATAACATGA-GGGCATAAT
** *
26751681 AGTCATTTTACCACGTGAGGGCATAAT
1 AGTCATTTTATAACATGAGGGCATAAT
26751708 AGTCATTTTATAA
1 AGTCATTTTATAA
26751721 TAGTTTGGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (27 bp):
AGTCATTTTATAACATGAGGGCATAAT
Found at i:26753370 original size:19 final size:21
Alignment explanation
Indices: 26753300--26753375 Score: 129
Period size: 21 Copynumber: 3.7 Consensus size: 21
26753290 ATCTTCGAGA
26753300 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
26753321 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
26753342 ATATGCAATCTTAGATAT-A-
1 ATATGCAATCTTAGATATGAT
*
26753361 ATATGTAATCTTAGA
1 ATATGCAATCTTAGA
26753376 AGATATGATT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
19 14 0.26
20 1 0.02
21 39 0.72
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:26753408 original size:22 final size:23
Alignment explanation
Indices: 26753354--26753408 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
26753344 ATGCAATCTT
*
26753354 AGATATAA-TATGTAATCTTAGA
1 AGATATAATTTTGTAATCTTAGA
*
26753376 AGATATGATTTTGTAATCTTAG-
1 AGATATAATTTTGTAATCTTAGA
*
26753398 AGATTTAATTT
1 AGATATAATTT
26753409 GTAGATACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.44
Consensus pattern (23 bp):
AGATATAATTTTGTAATCTTAGA
Found at i:26753841 original size:6 final size:6
Alignment explanation
Indices: 26753832--26753884 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
26753822 TTATTAATAT
* *
26753832 TATTAA TATTAA TATTAA TATTAA TATTAT TATTAT TATT-A TATTATA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTA-A
26753880 TATTA
1 TATTA
26753885 TTATACCTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
5 4 0.09
6 33 0.77
7 6 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (6 bp):
TATTAA
Found at i:26753885 original size:12 final size:12
Alignment explanation
Indices: 26753818--26753885 Score: 61
Period size: 12 Copynumber: 5.5 Consensus size: 12
26753808 GTTTTTAGTC
*
26753818 TATTTTATTAATA
1 TATTATATT-ATA
26753831 TTATTAATATTA-A
1 -TATT-ATATTATA
26753844 TATTAATATTA-A
1 TATT-ATATTATA
26753856 TATTATTATTAT-
1 TATTA-TATTATA
26753868 TATTATATTATA
1 TATTATATTATA
26753880 TATTAT
1 TATTAT
26753886 TATACCTACA
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
11 7 0.14
12 32 0.65
13 1 0.02
14 5 0.10
15 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATATTATA
Found at i:26753885 original size:18 final size:17
Alignment explanation
Indices: 26753818--26753888 Score: 83
Period size: 18 Copynumber: 4.2 Consensus size: 17
26753808 GTTTTTAGTC
*
26753818 TATTTTATTAATATTAT
1 TATTATATTAATATTAT
*
26753835 TA--ATATTAATATTAA
1 TATTATATTAATATTAT
*
26753850 TATTAATATTATTATTAT
1 TATT-ATATTAATATTAT
26753868 TATTATATTATATATTAT
1 TATTATATTA-ATATTAT
26753886 TAT
1 TAT
26753889 ACCTACATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
15 13 0.29
17 8 0.18
18 24 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATATTAATATTAT
Found at i:26753888 original size:15 final size:14
Alignment explanation
Indices: 26753818--26753889 Score: 74
Period size: 15 Copynumber: 4.9 Consensus size: 14
26753808 GTTTTTAGTC
26753818 TATT-TTATTAATAT
1 TATTATTATT-ATAT
*
26753832 TATTAATATTAATAT
1 TATTATTATT-ATAT
* *
26753847 TAATATTAATATTAT
1 TATTATTATTA-TAT
26753862 TATTATTATTATAT
1 TATTATTATTATAT
26753876 TATATATTATTATA
1 TAT-TATTATTATA
26753890 CCTACATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
14 11 0.22
15 38 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTATTATTATAT
Found at i:26765979 original size:41 final size:41
Alignment explanation
Indices: 26765922--26766069 Score: 181
Period size: 41 Copynumber: 3.6 Consensus size: 41
26765912 GTAAGTTCAA
*
26765922 GCTTTATGCTTAGCAGGCTTTATGCCGGTGAATTATATCAG
1 GCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCAG
26765963 GCTTTATGCCTAGCAGGC-TTAGTGCCGGTGAATTATATCAG
1 GCTTTATGCCTAGCAGGCTTTA-TGCCGGTGAATTATATCAG
* * * * * * * *
26766004 ACCTTATGTCTAGCAGGTTTTGTGCCGGTGAAATGTATCGG
1 GCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCAG
* *
26766045 GCTTTGTCCCTAGCAGGCTTTATGC
1 GCTTTATGCCTAGCAGGCTTTATGC
26766070 ACTACACCAA
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
40 3 0.03
41 84 0.94
42 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (41 bp):
GCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCAG
Found at i:26766286 original size:41 final size:41
Alignment explanation
Indices: 26766241--26766840 Score: 756
Period size: 41 Copynumber: 14.7 Consensus size: 41
26766231 TACTTTCGGG
* *
26766241 GGCTTTAGCGGCGTTTTTGAGAAAGCGTCGATAATGCTCAA
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* *
26766282 GGCTTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGATC-A
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* *
26766322 GGCCTTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGCTCAG
1 GG-CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* ** *
26766364 GGCTTTAACGGTTTTTTTGAGAAAGCGCCGTTAATGCTCAA
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* ** *
26766405 GGCTTTAGCGGCATTTTTGAGAAAGCATCGCTAATGCTCAT
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* * * **
26766446 GGCTTTAGCGGCATTTTTTATAAAGCGCCGCTAATGCTCCG
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* *
26766487 GGCTTTAGC-GCGTTTTTGAGGAAGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* *
26766527 GGCTTTAGCGGCGTTTTTGAGAAAGCGTCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* *
26766568 GGCTTTAGCGGCGTTTTTGAGAAAACGCCGCTAATGCTAAA
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* * * *
26766609 GGGTTTAGCGGCGTTTTTGAGAAAGCACCGGTAATGCTCAT
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
** * * *
26766650 GGCTTTAGCGGTATTTTTTATAAAGCGTCGCTAATGCT-AA
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* * *
26766690 TGGCTTTAGCGGCGATTTTGAGGAAGCGCCGCTAATGCTCAG
1 -GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* * ** *
26766732 GGCTTTAGCGGAGTTTTTGAGGAAGCGCATCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
* **
26766773 GGCTTTAGCGGTGTTTTTGAGGGAGCGCCGCTAATGCTCAA
1 GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
26766814 GGCTTTAGCGGCGTTTTTGAGAAAGCG
1 GGCTTTAGCGGCGTTTTTGAGAAAGCG
26766841 TCGCGAATTC
Statistics
Matches: 483, Mismatches: 71, Indels: 10
0.86 0.13 0.02
Matches are distributed among these distances:
40 39 0.08
41 441 0.91
42 3 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAA
Found at i:26767176 original size:7 final size:7
Alignment explanation
Indices: 26767134--26767187 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
26767124 GTGTTACCAT
*
26767134 TTTAAGG
1 TTTATGG
*
26767141 TTTATGA
1 TTTATGG
*
26767148 ATTATGGG
1 TTTAT-GG
*
26767156 TTTAGGG
1 TTTATGG
*
26767163 GTTATGG
1 TTTATGG
26767170 TTTATGG
1 TTTATGG
26767177 TTTATGG
1 TTTATGG
26767184 TTTA
1 TTTA
26767188 AAGGCTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 33 0.89
8 4 0.11
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:26767239 original size:14 final size:14
Alignment explanation
Indices: 26767076--26767241 Score: 74
Period size: 14 Copynumber: 11.9 Consensus size: 14
26767066 TATCACTATA
*
26767076 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
*
26767090 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* * *
26767104 GATTAGAGTTTAAG
1 GTTTAGGGTTTATG
*
26767118 GTTTAGGTGTTACCAT-
1 GTTTAGG-GTT--TATG
*
26767134 -TTTAAGGTTTATG
1 GTTTAGGGTTTATG
** *
26767147 AATTATGGGTTTAGG
1 GTTTA-GGGTTTATG
* *
26767162 GGTTATGGTTTATG
1 GTTTAGGGTTTATG
* *
26767176 GTTTATGGTTTAAAG
1 GTTTAGGGTTT-ATG
* * *
26767191 G-CTGGGGTTTAAG
1 GTTTAGGGTTTATG
26767204 GTTTA--G-TTATG
1 GTTTAGGGTTTATG
*
26767215 TGTTAAGGGTTTATG
1 -GTTTAGGGTTTATG
26767230 GTTTAGGGTTTA
1 GTTTAGGGTTTA
26767242 GATTAACTAG
Statistics
Matches: 111, Mismatches: 29, Indels: 24
0.68 0.18 0.15
Matches are distributed among these distances:
11 4 0.04
12 7 0.06
13 4 0.04
14 69 0.62
15 26 0.23
17 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:26767515 original size:14 final size:15
Alignment explanation
Indices: 26767489--26767526 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
26767479 AATAATTATA
26767489 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
26767504 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
26767518 TATGG-TTTA
1 TATGGATTTA
26767527 AGGGTTGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:26767547 original size:21 final size:20
Alignment explanation
Indices: 26767513--26767553 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
26767503 TTATGGATTA
*
26767513 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
26767533 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
26767554 AGGAGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:26767998 original size:14 final size:13
Alignment explanation
Indices: 26767973--26768014 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
26767963 AGATAGTACT
26767973 AATTAGTTTTTTA
1 AATTAGTTTTTTA
26767986 AATTAGCTTTTTTA
1 AATTAG-TTTTTTA
* *
26768000 ATTTA-TATTTTA
1 AATTAGTTTTTTA
26768012 AAT
1 AAT
26768015 ATGTTCTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 8 0.32
13 6 0.24
14 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (13 bp):
AATTAGTTTTTTA
Found at i:26768094 original size:14 final size:14
Alignment explanation
Indices: 26768075--26768119 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
26768065 TTAATTATGA
26768075 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
26768089 TTATAGTTTATGGT
1 TTATAGTTTAGGGT
* * *
26768103 ATATGGTGTAGGGT
1 TTATAGTTTAGGGT
26768117 TTA
1 TTA
26768120 ATGTTTAAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:26768156 original size:7 final size:7
Alignment explanation
Indices: 26768138--26768191 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
26768128 GAGTTACTAT
*
26768138 TTTAAGG
1 TTTATGG
26768145 TTTATGG
1 TTTATGG
*
26768152 ATTATGGG
1 TTTAT-GG
*
26768160 TTTAGGG
1 TTTATGG
*
26768167 ATTATGG
1 TTTATGG
26768174 TTTATGG
1 TTTATGG
*
26768181 TTTATTG
1 TTTATGG
26768188 TTTA
1 TTTA
26768192 AGAGTTGGGA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 33 0.87
8 5 0.13
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (7 bp):
TTTATGG
Found at i:26768163 original size:22 final size:21
Alignment explanation
Indices: 26768138--26768184 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
26768128 GAGTTACTAT
*
26768138 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
26768160 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
26768181 TTTA
1 TTTA
26768185 TTGTTTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:26768177 original size:14 final size:14
Alignment explanation
Indices: 26768143--26768191 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
26768133 ACTATTTTAA
26768143 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
26768157 GGGTTTAGGGATTAT
1 -GGTTTATGGATTAT
*
26768172 GGTTTATGGTTTAT
1 GGTTTATGGATTAT
*
26768186 TGTTTA
1 GGTTTA
26768192 AGAGTTGGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:26768856 original size:43 final size:43
Alignment explanation
Indices: 26768808--26768926 Score: 134
Period size: 41 Copynumber: 2.8 Consensus size: 43
26768798 GTAAAAGGTA
* ** *
26768808 AGCAATAGCGGCGTTTTTGTTGAAAACGCCGCAAAAAAAGTTG
1 AGCAATAGTGGCGTTTTTGTTCCAAACGCCGCAAAAAAAGTCG
* * *
26768851 AGCAATAGTGGCGTTTTTATTCCAAGCGCCGC--TAAAAGTCG
1 AGCAATAGTGGCGTTTTTGTTCCAAACGCCGCAAAAAAAGTCG
* * *
26768892 AGCAATAGTGGCATTTTTGTTTCAAACGCCACAAA
1 AGCAATAGTGGCGTTTTTGTTCCAAACGCCGCAAA
26768927 TATTTATTTG
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
41 34 0.56
43 27 0.44
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (43 bp):
AGCAATAGTGGCGTTTTTGTTCCAAACGCCGCAAAAAAAGTCG
Found at i:26769140 original size:8 final size:8
Alignment explanation
Indices: 26769127--26769157 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
26769117 TTATTTTTGA
*
26769127 ACGATTCC
1 ACGATTTC
26769135 ACGATTTC
1 ACGATTTC
26769143 ACGATTTC
1 ACGATTTC
26769151 ACGATTT
1 ACGATTT
26769158 TTTATTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (8 bp):
ACGATTTC
Found at i:26772580 original size:43 final size:42
Alignment explanation
Indices: 26772527--26772758 Score: 160
Period size: 43 Copynumber: 5.1 Consensus size: 42
26772517 TTTTTAGTGT
*
26772527 CGTTTTTGGGAGAAGCGTCGCTAAAGGTCCTGATCTTTAGCGG
1 CGTTTTTGGGA-AAGCGCCGCTAAAGGTCCTGATCTTTAGCGG
* *
26772570 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTTTAGCGG
1 CGTTTTTGGG-AAAGCGCCGCTAAAGGTCCTGATCTTTAGCGG
** *
26772613 CGCTTTTTTCGAAAACGCCGCTAAAGGTCCTGAT-TTATAGTCCTAGCCTATAG
1 CG-TTTTTGGGAAAGCGCCGCTAAAGGTCCTGATCTT-TAG--C--G------G
** * * *
26772666 CGGCGTTTGTGGAAAAGCACCGCTAAAGGTCCTGACCTATAGCGG
1 C-GTTTTTG-GGAA-AGCGCCGCTAAAGGTCCTGATCTTTAGCGG
* * * *
26772711 CGTTTGTGGGGAAAGCACCGCTAAAGGTCATGATCTATAGCGG
1 CGTTT-TTGGGAAAGCGCCGCTAAAGGTCCTGATCTTTAGCGG
26772754 CGTTT
1 CGTTT
26772759 ATTTTTAAAA
Statistics
Matches: 150, Mismatches: 21, Indels: 36
0.72 0.10 0.17
Matches are distributed among these distances:
42 2 0.01
43 97 0.65
44 12 0.08
45 5 0.03
47 1 0.01
51 1 0.01
53 6 0.04
54 4 0.03
55 21 0.14
56 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (42 bp):
CGTTTTTGGGAAAGCGCCGCTAAAGGTCCTGATCTTTAGCGG
Found at i:26772711 original size:42 final size:43
Alignment explanation
Indices: 26772659--26772758 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
26772649 ATAGTCCTAG
*
26772659 CCTATAGCGGCGTTTGT-GGAAAAGCACCGCTAAAGGTCCTGA
1 CCTATAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCATGA
*
26772701 CCTATAGCGGCGTTTGTGGGGAAAGCACCGCTAAAGGTCATGA
1 CCTATAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCATGA
*
26772744 TCTATAGCGGCGTTT
1 CCTATAGCGGCGTTT
26772759 ATTTTTAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 17 0.31
43 37 0.69
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (43 bp):
CCTATAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCATGA
Found at i:26772732 original size:98 final size:99
Alignment explanation
Indices: 26772564--26772750 Score: 252
Period size: 98 Copynumber: 1.9 Consensus size: 99
26772554 TCCTGATCTT
* * * * **
26772564 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTTTAGCGGCGCTTTTTTCGAAAAC
1 TAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCCTGACCTATAGCGGCGCTTTTGGCGAAAAC
* * *
26772629 GCCGCTAAAGGTCCTGATTTATAGTCCTAGCCTA
66 ACCGCTAAAGGTCATGATCTATAGTCCTAGCCTA
* *
26772663 TAGCGGCGTTTGT-GGAAAAGCACCGCTAAAGGTCCTGACCTATAGCGGCG-TTTGTGGGGAAAG
1 TAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCCTGACCTATAGCGGCGCTTT-TGGCGAAAA
26772726 CACCGCTAAAGGTCATGATCTATAG
65 CACCGCTAAAGGTCATGATCTATAG
26772751 CGGCGTTTAT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
97 3 0.04
98 60 0.79
99 13 0.17
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (99 bp):
TAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCCTGACCTATAGCGGCGCTTTTGGCGAAAAC
ACCGCTAAAGGTCATGATCTATAGTCCTAGCCTA
Found at i:26773819 original size:71 final size:71
Alignment explanation
Indices: 26773700--26774049 Score: 464
Period size: 71 Copynumber: 5.0 Consensus size: 71
26773690 TGATGTATTG
* * * * * * *
26773700 TGTATATGCTGCCCATTTG-T-TATATATATACTGTTCAATTTTGGTGTAAAAATACTGCTCAAT
1 TGTATATGCTGCCTATTTGTTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
26773763 TTGGTA
66 TTGGTA
* *
26773769 TGTATATGCTGCCTAGTTGTTGTATATCTATGCTGTTAAATTTTGGTGT-AAAGTGCTGTTAAAT
1 TGTATATGCTGCCTATTTGTTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
26773833 TTGGTA
66 TTGGTA
* * *
26773839 TATATATGCTGCCTATTTG--CTATATATATGTTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
1 TGTATATGCTGCCTATTTGTTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
26773902 TTGGTA
66 TTGGTA
* * *
26773908 TATATATGCTGCCTATTTGCTGTATATATATGCTGTTAAGTTTTGGTGTAAAAGTGCTGTTAAAT
1 TGTATATGCTGCCTATTTGTTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
26773973 TTGGTA
66 TTGGTA
* * *
26773979 TGTATATGCTGCCCATTTGTTGTATATA-A-GCTGTCCAAATTTTGGTGTATAAA-TGCTGTTTA
1 TGTATATGCTGCCTATTTGTTGTATATATATGCTGT-TAAATTTTGGTGTA-AAAGTGCTGTTAA
26774041 ATTTGGTA
64 ATTTGGTA
26774049 T
1 T
26774050 ATAATTGCTG
Statistics
Matches: 251, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
68 25 0.10
69 62 0.25
70 65 0.26
71 99 0.39
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (71 bp):
TGTATATGCTGCCTATTTGTTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
TTGGTA
Found at i:26773851 original size:139 final size:140
Alignment explanation
Indices: 26773702--26774052 Score: 499
Period size: 139 Copynumber: 2.5 Consensus size: 140
26773692 ATGTATTGTG
* * *
26773702 TATATGCTGCCCATTTGTTATATATATACTGTTCAATTTTGGTGTAAAAATACTGCTCAATTTGG
1 TATATGCTGCCCATTTGTTATATATATACTGTTCAATTTTGGTGTAAAAATGCTGTTAAATTTGG
* * *
26773767 TATGTATATGCTGCCTAGTTGTTGTATATCTATGCTGTTAAATTTTGGTGT-AAAGTGCTGTTAA
66 TATATATATGCTGCCTAGTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAA
26773831 ATTTGGTATA
131 ATTTGGTATA
* * ** * *
26773841 TATATGCTGCCTATTTGCTATATATATGTTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGG
1 TATATGCTGCCCATTTGTTATATATATACTGTTCAATTTTGGTGTAAAAATGCTGTTAAATTTGG
* *
26773906 TATATATATGCTGCCTATTTGCTGTATATATATGCTGTTAAGTTTTGGTGTAAAAGTGCTGTTAA
66 TATATATATGCTGCCTAGTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAA
*
26773971 ATTTGGTATG
131 ATTTGGTATA
* * * *
26773981 TATATGCTGCCCATTTGTTGTATATA-AGCTGTCCAAATTTTGGTGTATAAATGCTGTTTAATTT
1 TATATGCTGCCCATTTGTTATATATATA-CTGTTC-AATTTTGGTGTAAAAATGCTGTTAAATTT
26774045 GGTATATA
64 GGTATATA
26774053 ATTGCTGTTC
Statistics
Matches: 184, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
139 102 0.55
140 48 0.26
141 34 0.18
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (140 bp):
TATATGCTGCCCATTTGTTATATATATACTGTTCAATTTTGGTGTAAAAATGCTGTTAAATTTGG
TATATATATGCTGCCTAGTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAA
ATTTGGTATA
Found at i:26773881 original size:24 final size:23
Alignment explanation
Indices: 26773714--26774067 Score: 163
Period size: 24 Copynumber: 15.1 Consensus size: 23
26773704 TATGCTGCCC
* *
26773714 ATTTGTTATATATATACTGTTCAA
1 ATTTGGTATATATATGCTGTT-AA
* * * * * * *
26773738 TTTTGGTGTAAAAATACTGCTCA
1 ATTTGGTATATATATGCTGTTAA
* *
26773761 ATTTGGTATGTATATGCTGCCT-A
1 ATTTGGTATATATATGCTG-TTAA
* * *
26773784 GTTGTTGTATATCTATGCTGTTAA
1 ATT-TGGTATATATATGCTGTTAA
*
26773808 ATTTTGGTGTA-A-AGTGCTGTTAA
1 A-TTTGGTATATATA-TGCTGTTAA
*
26773831 ATTTGGTATATATATGCTGCCT--
1 ATTTGGTATATATATGCTG-TTAA
* *
26773853 ATTTGCTATATATATGTTGTTAA
1 ATTTGGTATATATATGCTGTTAA
* *
26773876 ATTTTGGTGTA-AAAGTGCTGTTAA
1 A-TTTGGTATATATA-TGCTGTTAA
*
26773900 ATTTGGTATATATATGCTGCCT--
1 ATTTGGTATATATATGCTG-TTAA
26773922 ATTTGCTGTATATATATGCTGTTAA
1 ATTTG--GTATATATATGCTGTTAA
* * *
26773947 GTTTTGGTGTA-AAAGTGCTGTTAA
1 -ATTTGGTATATATA-TGCTGTTAA
* ***
26773971 ATTTGGTATGTATATGCTG-CCC
1 ATTTGGTATATATATGCTGTTAA
* * * *
26773993 ATTTGTTGTATATAAGCTGTCCAA
1 ATTTGGTATATATATGCTGT-TAA
* * *
26774017 ATTTTGGTGTATAAATGCTGTTTA
1 A-TTTGGTATATATATGCTGTTAA
26774041 ATTTGGTATATA-ATTGCTGTTCAA
1 ATTTGGTATATATA-TGCTGTT-AA
26774065 ATT
1 ATT
26774068 GATGTATATG
Statistics
Matches: 246, Mismatches: 58, Indels: 52
0.69 0.16 0.15
Matches are distributed among these distances:
21 1 0.00
22 47 0.19
23 82 0.33
24 94 0.38
25 18 0.07
26 4 0.02
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.45
Consensus pattern (23 bp):
ATTTGGTATATATATGCTGTTAA
Found at i:26774075 original size:23 final size:23
Alignment explanation
Indices: 26774024--26774075 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
26774014 CAAATTTTGG
* * *
26774024 TGTATAAATGCTGTTTAATTTGG
1 TGTATAAATGCTGTTCAAATTGA
* *
26774047 TATATAATTGCTGTTCAAATTGA
1 TGTATAAATGCTGTTCAAATTGA
26774070 TGTATA
1 TGTATA
26774076 TGAGCTGTCC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (23 bp):
TGTATAAATGCTGTTCAAATTGA
Found at i:26776456 original size:3 final size:3
Alignment explanation
Indices: 26776413--26776494 Score: 92
Period size: 3 Copynumber: 27.3 Consensus size: 3
26776403 AGGCAAATTG
* * * * * * *
26776413 ATA AAA ATA AAA ATA AAA ATA CTA ATA CTA ATA CTA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
26776461 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
26776495 ATTAATATTA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:26778254 original size:44 final size:44
Alignment explanation
Indices: 26778205--26778343 Score: 101
Period size: 44 Copynumber: 3.1 Consensus size: 44
26778195 TTATCTTTAG
26778205 TCTGCTCTGCTTCAAACTCAGGGAGGCAAGGCTAGTGTCTTCGA
1 TCTGCTCTGCTTCAAACTCAGGGAGGCAAGGCTAGTGTCTTCGA
* * * * * *
26778249 TCTGCT-TCGCTGTC--AGTACAAGAAGGCAAGATCT-GCTATCTT-TA
1 TCTGCTCT-GCT-TCAAACT-CAGGGAGGCAAG-GCTAG-TGTCTTCGA
* *
26778293 GTCTGCTCTACTGCAAAC-CTAGGGAGGCAAGGCTAGTGTCTTCGA
1 -TCTGCTCTGCTTCAAACTC-AGGGAGGCAAGGCTAGTGTCTTCGA
26778338 TCTGCT
1 TCTGCT
26778344 TCGCTGTCAG
Statistics
Matches: 69, Mismatches: 14, Indels: 24
0.64 0.13 0.22
Matches are distributed among these distances:
43 3 0.04
44 36 0.52
45 28 0.41
46 2 0.03
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (44 bp):
TCTGCTCTGCTTCAAACTCAGGGAGGCAAGGCTAGTGTCTTCGA
Found at i:26778321 original size:45 final size:45
Alignment explanation
Indices: 26778272--26778412 Score: 132
Period size: 45 Copynumber: 3.2 Consensus size: 45
26778262 CAGTACAAGA
*
26778272 AGGCAAGATCTGCTATCTTTAGTCTGCTCTACTGCAAACCTAGGG
1 AGGCAAGATCTGCTATCTTTAGTCTGCTCTGCTGCAAACCTAGGG
* * * * **
26778317 AGGCAAG-GCTAG-TGTC-TTCGATCTGCT-TCGCTGTCAGTA-C-AGAA
1 AGGCAAGATCT-GCTATCTTTAG-TCTGCTCT-GCTG-CA-AACCTAGGG
26778361 AGGCAAGATCTGCTATCTTTAGTCTGCTCTGCTGCAAACCTAGGG
1 AGGCAAGATCTGCTATCTTTAGTCTGCTCTGCTGCAAACCTAGGG
26778406 AGGCAAG
1 AGGCAAG
26778413 GTTGGTGCCT
Statistics
Matches: 72, Mismatches: 13, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
43 5 0.07
44 27 0.38
45 35 0.49
46 5 0.07
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (45 bp):
AGGCAAGATCTGCTATCTTTAGTCTGCTCTGCTGCAAACCTAGGG
Found at i:26779272 original size:89 final size:89
Alignment explanation
Indices: 26778057--26779270 Score: 1296
Period size: 89 Copynumber: 13.6 Consensus size: 89
26778047 AGGTTACTCC
* * * * * * *
26778057 GCTGGTGT-TGTCGATCTGCTTCGCTGCCAGTACAGAAAGACAAGATCTGCTGTTTTTAGTTTAC
1 GCTGGTGTCT-TCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGC
* * *
26778121 TCTGCTG-CA-AACTCAGGGAGGCAAG
65 TCCGCTGTCAGTA--CAGGAAGGCAAG
* * * ** * *
26778146 GCTAGTATCTTTGATC-GCTTCGCTACCAATACAGGGAA-ACAATGATACAT--TATCTTTAGTC
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACA-GGAAGGCAA-GAT-C-TGCTATCTTTAGTC
* * *
26778207 TGCTCTGCT-TCA-AACTCAGGGAGGCAAG
62 TGCTCCGCTGTCAGTA--CAGGAAGGCAAG
* *
26778235 GCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
** * *
26778300 CTACTG-CA-AACCTAGGGAGGCAAG
66 CCGCTGTCAGTA-C-AGGAAGGCAAG
* *
26778324 GCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTGCTATCTTTAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
* * *
26778389 CTGCTG-CA-AACCTAGGGAGGCAAG
66 CCGCTGTCAGTA-C-AGGAAGGCAAG
* * * *
26778413 GTTGGTGCCTTCGATCTACTTCGCTGTCAGTATAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
* ***
26778478 CCGCTGTTAACCCA-GAGAGGCAAG
66 CCGCTGTCAGTACAGGA-AGGCAAG
* * * * * *
26778502 GCTGGTGTCTTCGATCTGCTTTGCTGTTAGTACAGGAAGGCAATATCTACTATCTTCAGTCTACT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
* *
26778567 CCGCTG-CA-AACCCAATG-AGGCAAG
66 CCGCTGTCAGTA--C-AGGAAGGCAAG
* *
26778591 GCTGGTGTCTTCGATCTGCTTTGCTGTCAGTACTGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
* *
26778656 CCGCTGTCAGTATAAGAAGGCAAG
66 CCGCTGTCAGTACAGGAAGGCAAG
* * * * * * * *
26778680 ATCTGGTGTCTTCAATCTACTTTGCTGTCAGTATAGGAAGGCAAGATATGTTATCTTCAGTCTGC
1 -GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGC
*
26778745 TTCGCTGTCAGTACAGGAAGGCAAG
65 TCCGCTGTCAGTACAGGAAGGCAAG
* * *
26778770 GCTGGTGTCTTCGATATGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
* *** *
26778835 CCACTGTCAACCCAGGGAGGCAAG
66 CCGCTGTCAGTACAGGAAGGCAAG
* *
26778859 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACTGGAAGGCAAGATCTGCTATCTTTAATCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
* *
26778924 CCGCTG-CA-AACCCAGGGAGGCAAG
66 CCGCTGTCAGTA--CAGGAAGGCAAG
* * * *
26778948 GCTGGTGTCTTTGATCTGCTTCGCTATCAGTATAGGAAGGCAATATCTGCTATCTTTAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
*
26779013 CCGCTATCAGTACAGGAAGGCAAG
66 CCGCTGTCAGTACAGGAAGGCAAG
* * * *
26779037 GCTGGTGTTTTCGATCTACTTCGCTGTCAGTACAGGAAGGGAAGATCTGTTATCTTTAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
*
26779102 CTGCTGTCAGTACAGGAAGGCAAG
66 CCGCTGTCAGTACAGGAAGGCAAG
* * * * *
26779126 GCTGGTGTCTTCGATATGCTTCGCTATCAGTATAGGAAGGCAAGATCTGCTCTCTTCAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
*
26779191 TCGCTGTCAGTACAGGAAGGCAAG
66 CCGCTGTCAGTACAGGAAGGCAAG
* * *
26779215 GCTGGTGTCTTCGATTTGCTTCGCTATCAGTACAGGAAGGCAAGATCTGTTATCTT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTT
26779271 CAACCTACTC
Statistics
Matches: 975, Mismatches: 123, Indels: 54
0.85 0.11 0.05
Matches are distributed among these distances:
87 1 0.00
88 27 0.03
89 839 0.86
90 104 0.11
91 4 0.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (89 bp):
GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
CCGCTGTCAGTACAGGAAGGCAAG
Found at i:26782458 original size:51 final size:50
Alignment explanation
Indices: 26782296--26782489 Score: 178
Period size: 51 Copynumber: 3.8 Consensus size: 50
26782286 AAGTTGCTAG
* *
26782296 GTCACATGTGTATTACTATGTGCAGGCTACTACGTGTACCG--GAATGATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGATGAA-AATA
* * * * * ** *
26782345 GGTCGCATGTGTACTACTATGTGCAGGCTGCTATGCGTACCGAAT-AACTTC
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG-ATGAAAATA
* * *
26782396 GATCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCAGATGAAAATA
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGATGAAAATA
* * *
26782448 GTCACATGTGTAGTGCTATGTGCAGGCTACTATGTGAACCGA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA
26782490 GTATCATTTA
Statistics
Matches: 113, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
50 40 0.35
51 65 0.58
52 8 0.07
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGATGAAAATA
Found at i:26789566 original size:3 final size:3
Alignment explanation
Indices: 26789551--26789657 Score: 151
Period size: 3 Copynumber: 35.7 Consensus size: 3
26789541 AGGTAAATTG
* * * * * *
26789551 ATA ATA ATT ATA ATA ATA CTA ATA ATA AAA ATA ATA GTA GTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
26789599 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26789647 ATA ATA ATA AT
1 ATA ATA ATA AT
26789658 GATGATGATG
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:26789662 original size:3 final size:3
Alignment explanation
Indices: 26789656--26789687 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
26789646 AATAATAATA
26789656 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
26789688 AGTAATAATA
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:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:26790760 original size:15 final size:15
Alignment explanation
Indices: 26790740--26790774 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
26790730 GGCCGTATGA
*
26790740 TAGTTGGGCTAGTTG
1 TAGTTGGGCTAGGTG
*
26790755 TAGTTGGTCTAGGTG
1 TAGTTGGGCTAGGTG
26790770 TAGTT
1 TAGTT
26790775 TGGGTTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.06, G:0.37, T:0.43
Consensus pattern (15 bp):
TAGTTGGGCTAGGTG
Found at i:26793920 original size:50 final size:50
Alignment explanation
Indices: 26793764--26793992 Score: 251
Period size: 50 Copynumber: 4.7 Consensus size: 50
26793754 TAGGACGCCA
* * * * * *
26793764 ATGCCATATCCCAGATATGGTCTTACA-TGGGA--TCACATATCGGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTTCTC-TGTCCGTGCTG
*
26793812 ATGCCATGTCCCAGACATGGTCTTACACTGGCAC-TCATC--T-CGAGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTTC-TCTGTCCGTGCTG
* * *
26793859 ATGCCATGTCCCAAACATGGTCTTACACTGTCCCTTCTCTGTCCGTGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTTCTCTGTCCGTGCTG
* *
26793909 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCT-TGGTCTGTG-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTTCTCT-GTCCGTGCT-G
26793959 ATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCAC
26793993 ACTTACTGCC
Statistics
Matches: 157, Mismatches: 15, Indels: 16
0.84 0.08 0.09
Matches are distributed among these distances:
47 38 0.24
48 28 0.18
49 7 0.04
50 83 0.53
51 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACTTCTCTGTCCGTGCTG
Found at i:26793928 original size:97 final size:100
Alignment explanation
Indices: 26793806--26793988 Score: 293
Period size: 97 Copynumber: 1.9 Consensus size: 100
26793796 TCACATATCG
26793806 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACT-CAT-CTC-GAG-CTGATGCCATG
1 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCATGCTCTGAGTC-GATGCCATG
26793867 TCCCAAACATGGTCTTACACTGTCCCTTCTCTGTCC
65 TCCCAAACATGGTCTTACACTGTCCCTTCTCTGTCC
* * *
26793903 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTTGGTCTGTGTCGATGCCATGT
1 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCATGCTCTGAGTCGATGCCATGT
*
26793968 CCCAGACATGGTCTTACACTG
66 CCCAAACATGGTCTTACACTG
26793989 GCACACTTAC
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
97 41 0.53
98 2 0.03
99 2 0.03
100 32 0.41
101 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (100 bp):
GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCATGCTCTGAGTCGATGCCATGT
CCCAAACATGGTCTTACACTGTCCCTTCTCTGTCC
Found at i:26794067 original size:44 final size:44
Alignment explanation
Indices: 26794013--26794107 Score: 136
Period size: 44 Copynumber: 2.2 Consensus size: 44
26794003 ATGGTCCAAC
* *
26794013 CATGGTCTTTTCCGTCAATTCTTTCTTAATTGCCATGTTATAAA
1 CATGGACTTTTCCGTCAATTCTTACTTAATTGCCATGTTATAAA
** *
26794057 CATGGACTTTTCTTTCAATTCTTACTTAATTTCCATGTTATAAA
1 CATGGACTTTTCCGTCAATTCTTACTTAATTGCCATGTTATAAA
*
26794101 GATGGAC
1 CATGGAC
26794108 CTTGAGATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (44 bp):
CATGGACTTTTCCGTCAATTCTTACTTAATTGCCATGTTATAAA
Found at i:26805712 original size:19 final size:19
Alignment explanation
Indices: 26805690--26805727 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
26805680 TCAATCATCC
26805690 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
26805709 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
26805728 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:26807206 original size:33 final size:33
Alignment explanation
Indices: 26807169--26807234 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
26807159 GGCAATCAAA
*
26807169 GAGTATAGAAGAAAACAAATCGAAAAATATATT
1 GAGTATAGAAGAAAACAAATCGAAAAAGATATT
* * *
26807202 GAGTATTGAAGTAAACAACTCGAAAAAGATATT
1 GAGTATAGAAGAAAACAAATCGAAAAAGATATT
26807235 AACATAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.53, C:0.08, G:0.17, T:0.23
Consensus pattern (33 bp):
GAGTATAGAAGAAAACAAATCGAAAAAGATATT
Found at i:26811161 original size:99 final size:100
Alignment explanation
Indices: 26810985--26811181 Score: 324
Period size: 99 Copynumber: 2.0 Consensus size: 100
26810975 CAAAATTTTA
* *
26810985 GAAAAATTGCTCTTGCCGCCTTAGGGTTCCCAAACCCTAGATATTTAATCCAATTTTCCCAATAG
1 GAAAAATTGCTCTTGCCGCCCTAGGATTCCCAAACCCTAGATATTTAATCCAATTTTCCCAATAG
26811050 AAATAGGATTTTGCTTCCTCTCCAAAACCAAATTC
66 AAATAGGATTTTGCTTCCTCTCCAAAACCAAATTC
* * * *
26811085 GAAAAATTGCTCTTGCTGCCCTAGTATTCTCAAACCCTAGAT-TTTAATCCAATTTTTCCAATAG
1 GAAAAATTGCTCTTGCCGCCCTAGGATTCCCAAACCCTAGATATTTAATCCAATTTTCCCAATAG
*
26811149 AAATAGGATTTTGTTTCCTCTCCAAAACCAAAT
66 AAATAGGATTTTGCTTCCTCTCCAAAACCAAAT
26811182 AAAATTTCTT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 53 0.59
100 37 0.41
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (100 bp):
GAAAAATTGCTCTTGCCGCCCTAGGATTCCCAAACCCTAGATATTTAATCCAATTTTCCCAATAG
AAATAGGATTTTGCTTCCTCTCCAAAACCAAATTC
Found at i:26814753 original size:39 final size:39
Alignment explanation
Indices: 26814705--26814791 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
26814695 TATTCACTTT
* * * *
26814705 CAAGAATATATCATATTACAT-ATATAGTCACTTAACATA
1 CAAGCATATATCATAGTAC-TCATATAATCACATAACATA
*
26814744 CAAGCATATATCATAGTACTCATATAATCACATAACATT
1 CAAGCATATATCATAGTACTCATATAATCACATAACATA
*
26814783 TAAGCATAT
1 CAAGCATAT
26814792 GTCACAATAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.02
39 40 0.98
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (39 bp):
CAAGCATATATCATAGTACTCATATAATCACATAACATA
Found at i:26814861 original size:15 final size:16
Alignment explanation
Indices: 26814837--26814874 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
26814827 GCATAATAGT
*
26814837 CACATGTCACA-TAAA
1 CACATATCACATTAAA
*
26814852 CACATATCACATTACA
1 CACATATCACATTAAA
26814868 CACATAT
1 CACATAT
26814875 TCATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.24
Consensus pattern (16 bp):
CACATATCACATTAAA
Found at i:26817068 original size:21 final size:21
Alignment explanation
Indices: 26817027--26817068 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26817017 ATTTCAAAAC
*
26817027 ATTTTATGATTTTTATTTAAT
1 ATTTTATGATTTTTATATAAT
26817048 ATTTTATGATTTTCTA-ATAAT
1 ATTTTATGATTTT-TATATAAT
26817069 CGTGTTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (21 bp):
ATTTTATGATTTTTATATAAT
Found at i:26818303 original size:20 final size:20
Alignment explanation
Indices: 26818280--26818336 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
26818270 CAGCTTCTCA
* *
26818280 AGCTCATTTCAGCTCCAATC
1 AGCTCATTTAAGCTCAAATC
* * *
26818300 AGCTCACTTGAGCTTAAATC
1 AGCTCATTTAAGCTCAAATC
*
26818320 AGCTCGTTTAAGCTCAA
1 AGCTCATTTAAGCTCAA
26818337 TTGAAATTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (20 bp):
AGCTCATTTAAGCTCAAATC
Found at i:26821964 original size:50 final size:50
Alignment explanation
Indices: 26821889--26822086 Score: 209
Period size: 50 Copynumber: 3.8 Consensus size: 50
26821879 TTTCTTGTAC
* * * * **
26821889 TGCCAATGTCATATACCAGATATGGTCTTACATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * *
26821939 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATATAGG
* *
26821989 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
* *
26822045 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
26822087 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
49 1 0.01
50 80 0.65
51 1 0.01
53 1 0.01
56 40 0.33
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:26823478 original size:24 final size:24
Alignment explanation
Indices: 26823432--26823479 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
26823422 AATCGACAGG
* *
26823432 AAAATAAAAATTAAATGTCACAAT
1 AAAATAAAAATTAAATATAACAAT
**
26823456 AAAATAAAAATTATTTATAACAAT
1 AAAATAAAAATTAAATATAACAAT
26823480 GCCAATCCGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATAAAAATTAAATATAACAAT
Found at i:26823522 original size:23 final size:23
Alignment explanation
Indices: 26823496--26823540 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
26823486 CCGATCTCCA
26823496 AATAATCATCACAACCAAAACAG
1 AATAATCATCACAACCAAAACAG
26823519 AATAATCATCACAACCAAAACA
1 AATAATCATCACAACCAAAACA
26823541 CACACATCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.27, G:0.02, T:0.13
Consensus pattern (23 bp):
AATAATCATCACAACCAAAACAG
Found at i:26825233 original size:16 final size:16
Alignment explanation
Indices: 26825212--26825252 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
26825202 AACCCCATTA
26825212 AAATAAA-AATAAAAAT
1 AAATAAATAA-AAAAAT
*
26825228 AAATAAATAAACAAAT
1 AAATAAATAAAAAAAT
26825244 AAATAAATA
1 AAATAAATA
26825253 CTAAAACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAATAAAAAAAT
Found at i:26827922 original size:5 final size:5
Alignment explanation
Indices: 26827912--26827995 Score: 52
Period size: 5 Copynumber: 16.6 Consensus size: 5
26827902 AAGTTACCCC
* * *
26827912 TTTTA TTTTA TTTTA TTTTA -TTTA TTAT- TTTTG TTATA TGATTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T--TTTA -TTTTA
26827963 TTTTCCTA TTTTA -TTTA -TTTA TTTTA -TTTA TTT
1 -TTT--TA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
26827996 ATTATTCTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
4 19 0.29
5 29 0.45
6 8 0.12
7 6 0.09
8 3 0.05
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:26827937 original size:9 final size:9
Alignment explanation
Indices: 26827913--26827995 Score: 55
Period size: 9 Copynumber: 8.8 Consensus size: 9
26827903 AGTTACCCCT
26827913 TTTATTTTA
1 TTTATTTTA
26827922 TTTTATTTTA
1 -TTTATTTTA
26827932 TTTATTATT-
1 TTTATT-TTA
*
26827941 TTTGTTATATGA
1 TTTATT-T-T-A
26827953 TTTATTTTTA
1 TTTA-TTTTA
**
26827963 TTT-TCCTA
1 TTTATTTTA
26827971 TTT-TATTTA
1 TTTAT-TTTA
26827980 TTTATTTTA
1 TTTATTTTA
26827989 TTTATTT
1 TTTATTT
26827996 ATTATTCTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
8 7 0.12
9 29 0.48
10 17 0.28
11 1 0.02
12 4 0.07
13 2 0.03
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:26828132 original size:10 final size:10
Alignment explanation
Indices: 26828117--26828169 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
26828107 GAGTTTATTA
26828117 TTTTTTTC-T
1 TTTTTTTCTT
26828126 TTTTTTTCTT
1 TTTTTTTCTT
26828136 TTTTTTTCGTT
1 TTTTTTTC-TT
*
26828147 TTATTTTT-TA
1 TT-TTTTTCTT
*
26828157 TTATTTTCTT
1 TTTTTTTCTT
26828167 TTT
1 TTT
26828170 AATTTTGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 12 0.33
10 15 0.42
11 4 0.11
12 5 0.14
ACGTcount: A:0.06, C:0.08, G:0.02, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:26828314 original size:80 final size:80
Alignment explanation
Indices: 26828219--26828434 Score: 423
Period size: 80 Copynumber: 2.7 Consensus size: 80
26828209 CTTGTTTTAA
26828219 TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAACCACTTAATCTTCACTA
1 TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAACCACTTAATCTTCACTA
26828284 TTTGTGTTTATTTTC
66 TTTGTGTTTATTTTC
26828299 TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAACCACTTAATCTTCACTA
1 TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAACCACTTAATCTTCACTA
26828364 TTTGTGTTTATTTTC
66 TTTGTGTTTATTTTC
*
26828379 TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCAAGTTATAACCACTTAA
1 TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAACCACTTAA
26828435 AAATGTAGGC
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 135 1.00
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.53
Consensus pattern (80 bp):
TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAACCACTTAATCTTCACTA
TTTGTGTTTATTTTC
Found at i:26829243 original size:12 final size:13
Alignment explanation
Indices: 26829222--26829254 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
26829212 AAAAAACTCA
26829222 AAATATATATATAT
1 AAATATATATAT-T
26829236 AAATATATATATT
1 AAATATATATATT
26829249 AAATAT
1 AAATAT
26829255 GCATATGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAATATATATATT
Found at i:26835438 original size:21 final size:21
Alignment explanation
Indices: 26835398--26835453 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
26835388 ACGGGCTGCT
* * *
26835398 CACACGAGCGTGTGTGGCCTC
1 CACACGGGCGTGTATAGCCTC
*
26835419 CACACGGGTGTGTATAGCCTC
1 CACACGGGCGTGTATAGCCTC
* *
26835440 TACATGGGCGTGTA
1 CACACGGGCGTGTA
26835454 GACCCCCACA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.27, G:0.32, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTATAGCCTC
Found at i:26838729 original size:36 final size:35
Alignment explanation
Indices: 26838653--26838732 Score: 151
Period size: 35 Copynumber: 2.3 Consensus size: 35
26838643 AAGAAAGAAA
26838653 TTGTTTTTTCTATTCAATTGCTTAAGCAAACCAGG
1 TTGTTTTTTCTATTCAATTGCTTAAGCAAACCAGG
26838688 TTGTTTTTTCTATTCAATTGCTTAAGCAAACCAGG
1 TTGTTTTTTCTATTCAATTGCTTAAGCAAACCAGG
26838723 TCTGTTTTTT
1 T-TGTTTTTT
26838733 TCAAGTGCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 36 0.82
36 8 0.18
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (35 bp):
TTGTTTTTTCTATTCAATTGCTTAAGCAAACCAGG
Found at i:26844686 original size:126 final size:126
Alignment explanation
Indices: 26844488--26844841 Score: 627
Period size: 126 Copynumber: 2.8 Consensus size: 126
26844478 TAATTTCGAG
* * * *
26844488 TTGATGTTTCTGATCAAATAGTATAAAATTGCTTCTAGCAGGATGCTATTTGGGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
26844553 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTTT
* * *
26844614 TTGACGTTTCTGAGCAAAAAGTATAAAATCGCTTCTAGCAGGATGCTATATGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
26844679 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTTT
*
26844740 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGTAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
26844805 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
26844842 CATGTTTGGG
Statistics
Matches: 216, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 216 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTTT
Found at i:26848060 original size:117 final size:116
Alignment explanation
Indices: 26847855--26848095 Score: 421
Period size: 117 Copynumber: 2.1 Consensus size: 116
26847845 TGATAAATTG
26847855 TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
26847920 TAGTACTAGTCAAAACATTTTTCCAAATCTAAAATTATGTGAATGTAAAAT
66 TAGTACTAGTCAAAACATTTTTCCAAATCTAAAATTACGTGAATGTAAAAT
*
26847971 TATTAACTCTAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAAATTATTAATTG
1 TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATAT-AAAATTATTAATTG
* *
26848036 TTAGTAGC-CGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
65 TTAGTA-CTAGTCAAAACATTTTTCCAAATCTAAAATTACGTGAATGTAAAAT
26848088 TATTAACT
1 TATTAACT
26848096 TTGCTTAGGT
Statistics
Matches: 119, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
116 49 0.41
117 69 0.58
118 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.39
Consensus pattern (116 bp):
TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACTAGTCAAAACATTTTTCCAAATCTAAAATTACGTGAATGTAAAAT
Found at i:26848169 original size:22 final size:21
Alignment explanation
Indices: 26848120--26848161 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
26848110 TAATTAAATT
26848120 AGGTTAGGGTTTTAAAGTTAA
1 AGGTTAGGGTTTTAAAGTTAA
*
26848141 AGGTTAGGGTTTTTAAGTTAA
1 AGGTTAGGGTTTTAAAGTTAA
26848162 GGGGTTAGNN
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (21 bp):
AGGTTAGGGTTTTAAAGTTAA
Found at i:26848886 original size:18 final size:18
Alignment explanation
Indices: 26848863--26848897 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26848853 CGGAAAAGGA
*
26848863 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
26848881 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
26848898 AAGCACACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:26849774 original size:20 final size:20
Alignment explanation
Indices: 26849737--26849774 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26849727 TTTATTTTTA
*
26849737 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
26849757 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
26849775 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:26850719 original size:11 final size:11
Alignment explanation
Indices: 26850703--26850744 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
26850693 AAAAATGGAG
26850703 TTAAGAGAAAC
1 TTAAGAGAAAC
*
26850714 TTAAGAGGAAC
1 TTAAGAGAAAC
*
26850725 TTAAGAAAAAC
1 TTAAGAGAAAC
26850736 TTAAGAGAA
1 TTAAGAGAA
26850745 TTTTTGAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.55, C:0.07, G:0.19, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:26851206 original size:26 final size:26
Alignment explanation
Indices: 26851170--26851222 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
26851160 TTGGATAAAA
26851170 AGGGGTCGCTAAGTGCAGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
* *
26851196 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
26851222 A
1 A
26851223 ATTATTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.25, G:0.34, T:0.23
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCCG
Found at i:26851246 original size:42 final size:42
Alignment explanation
Indices: 26851199--26851425 Score: 205
Period size: 43 Copynumber: 5.4 Consensus size: 42
26851189 TTCCCCGAGG
* *
26851199 GGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
*
26851241 GGTTGCTAAGTGTTGATTCCACCGTA-TATTTGATTGTAAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTGT-AAAGGT
* * * * * * *
26851284 GGTTGCTATGTGCTGATTCCCTGTATCACTGAATATAAATGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
26851326 GGTTGCTAAGTGCTGATTCCACCGTATCT-TTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGATTGT-AAAGGT
* * * * **
26851369 AGTTGCTATGTGTTGATTCCCCGTATCACTAAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTA-TTGATTGTAAAGGT
26851410 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
26851426 ATCCATCGAG
Statistics
Matches: 147, Mismatches: 27, Indels: 23
0.75 0.14 0.12
Matches are distributed among these distances:
40 4 0.03
41 17 0.12
42 56 0.38
43 61 0.41
44 9 0.06
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
Found at i:26851343 original size:85 final size:84
Alignment explanation
Indices: 26851196--26851430 Score: 317
Period size: 85 Copynumber: 2.8 Consensus size: 84
26851186 AGATTCCCCG
* * * * * *
26851196 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGTTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
26851261 ACCGTATATTTGATTGTAAA
65 ACCGTATATTTGATTGTAAA
* *
26851281 AGGGGTTGCTATGTGCTGATTCCCTGTATCACTGAATATAAATGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
* *
26851346 ACCGTATCTTTGATTGTGAA
65 ACCGTATATTTGATTGTAAA
* * * * *
26851366 AGGAGTTGCTATGTGTTGATTCCCCGTATCACTAAATTTAAGGTGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
26851431 TCGAGTAACG
Statistics
Matches: 132, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 25 0.19
85 107 0.81
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.36
Consensus pattern (84 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CCGTATATTTGATTGTAAA
Found at i:26854280 original size:2 final size:2
Alignment explanation
Indices: 26854273--26854310 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
26854263 ATGCAAAGTC
26854273 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26854311 GTATTTATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26856555 original size:29 final size:30
Alignment explanation
Indices: 26856523--26856588 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
26856513 AATAAACACC
*
26856523 AAAAATTTATTTTAAAAATA-ATAAAATAA
1 AAAAATGTATTTTAAAAATATATAAAATAA
* *
26856552 AAAAAAGTATTTTAAAAATATTTTAAAATAA
1 AAAAATGTATTTTAAAAATA-TATAAAATAA
26856583 AAAAAT
1 AAAAAT
26856589 AAAAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 18 0.58
31 13 0.42
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAAATGTATTTTAAAAATATATAAAATAA
Found at i:26863295 original size:2 final size:2
Alignment explanation
Indices: 26863288--26863327 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
26863278 TATTTTCTTT
26863288 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26863328 ATTTTTCGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26864979 original size:6 final size:6
Alignment explanation
Indices: 26864968--26865003 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
26864958 ACAGATGTGA
26864968 TTTTAG TTTTAG TTTTAG TTTTTAG TTTTTAG TTTT
1 TTTTAG TTTTAG TTTTAG -TTTTAG -TTTTAG TTTT
26865004 TAGTAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 16 0.55
7 13 0.45
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (6 bp):
TTTTAG
Found at i:26864992 original size:7 final size:7
Alignment explanation
Indices: 26864968--26865007 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
26864958 ACAGATGTGA
26864968 TTTTAG-
1 TTTTAGT
26864974 TTTTAG-
1 TTTTAGT
26864980 TTTTAGT
1 TTTTAGT
26864987 TTTTAGT
1 TTTTAGT
26864994 TTTTAGT
1 TTTTAGT
26865001 TTTTAGT
1 TTTTAGT
26865008 AATGTTATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 12 0.36
7 21 0.64
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (7 bp):
TTTTAGT
Found at i:26866381 original size:2 final size:2
Alignment explanation
Indices: 26866369--26866413 Score: 72
Period size: 2 Copynumber: 22.0 Consensus size: 2
26866359 ACCCCTAATA
*
26866369 AT AT GAT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26866412 AT
1 AT
26866414 TAATGTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26868419 original size:21 final size:22
Alignment explanation
Indices: 26868384--26868428 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
26868374 AAATTAAATT
*
26868384 TAATATTTTTCATAA-AGATAAA
1 TAATATTTATCATAAGA-ATAAA
26868406 TAATA-TTATCATAAGAATAAA
1 TAATATTTATCATAAGAATAAA
26868427 TA
1 TA
26868429 TTAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (22 bp):
TAATATTTATCATAAGAATAAA
Found at i:26868863 original size:25 final size:27
Alignment explanation
Indices: 26868835--26868893 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
26868825 ATATGTATAA
26868835 ATTATATAAATAA-GTAATA-AATTTT
1 ATTATATAAATAATGTAATATAATTTT
* * *
26868860 ATTAT-GAAATAATTTAATATATTTTT
1 ATTATATAAATAATGTAATATAATTTT
26868886 ATTATATA
1 ATTATATA
26868894 TAAAGAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 6 0.22
25 10 0.37
26 10 0.37
27 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (27 bp):
ATTATATAAATAATGTAATATAATTTT
Found at i:26871977 original size:16 final size:16
Alignment explanation
Indices: 26871956--26871998 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
26871946 CCAATATCCA
*
26871956 ATTATCATATTTGCAC
1 ATTATCATATTTACAC
*
26871972 ATTATCACATTTACAC
1 ATTATCATATTTACAC
26871988 ATATAT-ATATT
1 AT-TATCATATT
26871999 CCTTTCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTATCATATTTACAC
Found at i:26876055 original size:176 final size:176
Alignment explanation
Indices: 26875812--26876201 Score: 658
Period size: 176 Copynumber: 2.2 Consensus size: 176
26875802 CCTTATCACG
26875812 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
1 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
* *
26875877 GGCGAAGCCATTCATACA-AA-ATATATTTCTGGTTTTGTACATTTAACTATTTACATATTGTTT
66 GGCGAAGCCATTCATACAGAATATATATTTCTGGTTTTGAACATTTAACTATCTACATATTG-TT
*
26875940 CTCAAAACTAATAAATTCATAGAAAATAATGTAAAAGACTCTTCAACA
130 CTCAAAACTAATAAATTCATAAAAAATAATGTAAAAGACTC-TCAACA
26875988 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
1 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
*
26876053 GGCGAAGCCATTCATGCAGAATATATATTTCTGGTTTTGAACATTTAACTATCTACATATTGTTC
66 GGCGAAGCCATTCATACAGAATATATATTTCTGGTTTTGAACATTTAACTATCTACATATTGTTC
** * **
26876118 TCAAAACTAATAAATTCATAAAAAATAATGTTGACGACTCTCCTCA
131 TCAAAACTAATAAATTCATAAAAAATAATGTAAAAGACTCTCAACA
*
26876164 TGGTTTCGTGATGTAGTTGGTTATCACGTCAGTCTAAC
1 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAAC
26876202 CGGTTCGAGT
Statistics
Matches: 202, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
176 123 0.61
177 41 0.20
178 38 0.19
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (176 bp):
TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
GGCGAAGCCATTCATACAGAATATATATTTCTGGTTTTGAACATTTAACTATCTACATATTGTTC
TCAAAACTAATAAATTCATAAAAAATAATGTAAAAGACTCTCAACA
Found at i:26877852 original size:19 final size:21
Alignment explanation
Indices: 26877828--26877877 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
26877818 TACTTAAAAA
26877828 AATTTTATTTAT-A-TATTTT
1 AATTTTATTTATGAGTATTTT
26877847 AATTTTA-TTATGAGTATTTT
1 AATTTTATTTATGAGTATTTT
*
26877867 -ATTATATTTAT
1 AATTTTATTTAT
26877878 TTTATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.15
19 13 0.48
20 10 0.37
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (21 bp):
AATTTTATTTATGAGTATTTT
Found at i:26878507 original size:11 final size:11
Alignment explanation
Indices: 26878491--26878598 Score: 71
Period size: 11 Copynumber: 9.6 Consensus size: 11
26878481 TTTTTATTTT
26878491 TAATTTTAAAA
1 TAATTTTAAAA
26878502 TAATTTTAAAA
1 TAATTTTAAAA
*
26878513 TACTTTTAAAA
1 TAATTTTAAAA
*
26878524 TACTTTTTAAAA
1 TA-ATTTTAAAA
*
26878536 T--TTTTAAATTT
1 TAATTTTAAA--A
*
26878547 TTATTTTAAAA
1 TAATTTTAAAA
* **
26878558 TACTTTTAATTTT
1 TAATTTTAA--AA
26878571 TAA-TTTAAAA
1 TAATTTTAAAA
26878581 T-ATTTTAAAA
1 TAATTTTAAAA
26878591 TATATTTT
1 TA-ATTTT
26878599 TTAATTTTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
9 8 0.11
10 9 0.12
11 31 0.41
12 19 0.25
13 9 0.12
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.55
Consensus pattern (11 bp):
TAATTTTAAAA
Found at i:26878519 original size:22 final size:21
Alignment explanation
Indices: 26878493--26878598 Score: 81
Period size: 22 Copynumber: 4.8 Consensus size: 21
26878483 TTTATTTTTA
26878493 ATTTTAAAATAATTTTAAAAT
1 ATTTTAAAATAATTTTAAAAT
*
26878514 ACTTTTAAAATACTTTTTAAAAT
1 A-TTTTAAAATA-ATTTTAAAAT
* *
26878537 -TTTTAAATTTTTATTTTAAAAT
1 ATTTTAAA--ATAATTTTAAAAT
**
26878559 ACTTTTAATTTTTAA-TTTAAAAT
1 A-TTTTAA--AATAATTTTAAAAT
26878582 ATTTTAAAATATATTTT
1 ATTTTAAAATA-ATTTT
26878599 TTAATTTTGT
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
20 2 0.03
21 9 0.13
22 28 0.42
23 19 0.28
24 9 0.13
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTAAAATAATTTTAAAAT
Found at i:26878568 original size:23 final size:23
Alignment explanation
Indices: 26878504--26878589 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
26878494 TTTTAAAATA
* **
26878504 ATTTTAAAATACTTTTAAAATACT
1 ATTTTAAAATA-TTTTAAATTTTT
26878528 -TTTTAAAAT-TTTTAAATTTTT
1 ATTTTAAAATATTTTAAATTTTT
26878549 ATTTTAAAATACTTTT-AATTTTT
1 ATTTTAAAATA-TTTTAAATTTTT
*
26878572 AATTTAAAATATTTTAAA
1 ATTTTAAAATATTTTAAA
26878590 ATATATTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
21 9 0.17
22 13 0.24
23 28 0.52
24 4 0.07
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTAAAATATTTTAAATTTTT
Found at i:26882764 original size:31 final size:31
Alignment explanation
Indices: 26882729--26882790 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
26882719 AAGTAGTAAA
*
26882729 CACATGTAATAAATAATAGAATACTAAAGAT
1 CACATGTAATAAATAACAGAATACTAAAGAT
26882760 CACATGTAATAAATAACAGAATACTAAAGAT
1 CACATGTAATAAATAACAGAATACTAAAGAT
26882791 TTGAGCCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.55, C:0.11, G:0.10, T:0.24
Consensus pattern (31 bp):
CACATGTAATAAATAACAGAATACTAAAGAT
Found at i:26883023 original size:8 final size:8
Alignment explanation
Indices: 26883010--26883034 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26883000 AATGAAATGG
26883010 TTGAATAA
1 TTGAATAA
26883018 TTGAATAA
1 TTGAATAA
26883026 TTGAATAA
1 TTGAATAA
26883034 T
1 T
26883035 GAGATTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (8 bp):
TTGAATAA
Found at i:26887625 original size:14 final size:14
Alignment explanation
Indices: 26887606--26887634 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26887596 TACAATATAT
26887606 ATAAGAATTATACG
1 ATAAGAATTATACG
26887620 ATAAGAATTATACG
1 ATAAGAATTATACG
26887634 A
1 A
26887635 ATCCATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:26889260 original size:17 final size:16
Alignment explanation
Indices: 26889228--26889258 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26889218 ACTTTAGAGA
26889228 CAAAAATGTAATTTTG
1 CAAAAATGTAATTTTG
*
26889244 CAAAAATGTGATTTT
1 CAAAAATGTAATTTT
26889259 TGGACTAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (16 bp):
CAAAAATGTAATTTTG
Found at i:26889536 original size:51 final size:49
Alignment explanation
Indices: 26889420--26889754 Score: 283
Period size: 51 Copynumber: 6.7 Consensus size: 49
26889410 AGTTGCTAGG
* * *
26889420 TCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACTGGATAG--G-
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACTGAATAGATGA
* * ** *
26889466 TCACATGTATAGTACTATGTGCAGGCTACTATGCATACTGAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACTGAATAG-AT-GA
* *
26889517 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGAA-A-ATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTA-C---TGAATAGATGA
* *
26889568 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAAT-GATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACT-GAATAGAT-GA
* * * * * *
26889618 TCGCATGTGCAATACTATGTGCAGGCTACTATGCGTACT-AGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACTGA-ATAG-AT-GA
* *
26889669 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAA-A-ATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTA-C---TGAATAGATGA
*
26889720 TCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTG
26889755 AACCGAGTAT
Statistics
Matches: 235, Mismatches: 33, Indels: 37
0.77 0.11 0.12
Matches are distributed among these distances:
46 38 0.16
47 1 0.00
48 4 0.02
49 4 0.02
50 38 0.16
51 137 0.58
52 4 0.02
54 2 0.01
55 6 0.03
56 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACTGAATAGATGA
Found at i:26889676 original size:101 final size:102
Alignment explanation
Indices: 26889568--26889752 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 102
26889558 ATGAAAATGG
* *
26889568 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CTGGAATG-ATA-GGTCGCATGTGCAA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GG-ATGAAAATGGTCACATGTGCAA
26889630 TACTATGTGCAGGCTACTATGCGTACTAGATAGCTTCGA
64 TACTATGTGCAGGCTACTATGCGTACTAGATAGCTTCGA
* *
26889669 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTCACATGTGCAATA
26889734 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
26889753 TGAACCGAGT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
100 3 0.04
101 41 0.53
102 33 0.43
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTCACATGTGCAATA
CTATGTGCAGGCTACTATGCGTACTAGATAGCTTCGA
Found at i:26889690 original size:152 final size:148
Alignment explanation
Indices: 26889418--26889750 Score: 542
Period size: 152 Copynumber: 2.2 Consensus size: 148
26889408 GAAGTTGCTA
* * *
26889418 GGTCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACTGGATAGGTCACATGTATAGTACTA
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGGTCACATGTACAATACTA
26889483 TGTGCAGGCTACTATGCATACTGAATAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
66 TGTGCAGGCTACTATGCATACTGAATAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
26889548 CGTGTATCAGATGAAAAT
131 CGTGTATCAGATGAAAAT
* *
26889566 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAATGATAGGTCGCATGTGCAAT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACT-G---GATAGGTCACATGTACAAT
*
26889631 ACTATGTGCAGGCTACTATGCGTACT-AGATAGCTTCGATCACGTGTGTAGTACTATGTGCAGGC
62 ACTATGTGCAGGCTACTATGCATACTGA-ATAGCTTCGATCACGTGTGTAGTACTATGTGCAGGC
*
26889695 TACTACGTGTATCGGATGAAAAT
126 TACTACGTGTATCAGATGAAAAT
*
26889718 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTA
26889751 TGTGAACCGA
Statistics
Matches: 172, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
148 40 0.23
149 1 0.01
151 1 0.01
152 130 0.76
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (148 bp):
GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGGTCACATGTACAATACTA
TGTGCAGGCTACTATGCATACTGAATAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
CGTGTATCAGATGAAAAT
Found at i:26889754 original size:26 final size:26
Alignment explanation
Indices: 26889674--26889754 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
26889664 TTCGATCACG
26889674 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * ***
26889700 CGTGTA-T-CGGATGAAAATGG-TCAC-A
1 TGTGTAGTAC-TATGTGCA-GGCT-ACTA
26889725 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
26889751 TGTG
1 TGTG
26889755 AACCGAGTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Done.