Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_060419
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 474330
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:38389 original size:9 final size:9
Alignment explanation
Indices: 38375--38409 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
38365 TCCTATTCTT
38375 TACTGTAGC
1 TACTGTAGC
38384 TACTGTAGC
1 TACTGTAGC
38393 TACTGTAGC
1 TACTGTAGC
*
38402 TATTGTAG
1 TACTGTAG
38410 TTTTTGTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (9 bp):
TACTGTAGC
Left flanking sequence: Indices 37875 -- 38374
GCTCGCCTCGTTGCCAATTCATCAGCGGCCTGGGATTGATTATTTTGATAGATTCAGCCCGCCTA
TCACTATTCGTCTTTGAGTATTACTCTATACCATGGCTGGACTCTTCGTCAATTGGATGTCAACA
ACGCTTTTCTACAGGGTCACTTAACCGAAAAGAGGTATTCATGTCTCAACCTCCCGGTCGATACT
CATTTTTCTTCTCTTCTCATGTGTGCAGGTTTCGAAAAGCAATCTATGGTCTTAAACTTCGCTTC
TGAGTCTATCTTAGCTACTTCAGTCTTCGAAACTGAGTCGTTTTACGACGTTATTCAGCTCTACT
AAACTGAGTCTATCGCCTCAGTCTTCGAACCTTTTTCTCTTATCTTACGAGTTTTGCTACTTGAA
ACAATATTCTATTCTATTTTATTTCAATCCAATTCGCAAGACTGATGAAATTGGGATTGAAGTCT
CGGAAAGAGCTTAGGGATAGAATAAGAAATTAGCTTCCTATTCTT
Right flanking sequence: Indices 38410 -- 38909
TTTTTGTAGTTTTTGTAGTTCCCTGTTTCTTTCTCTTTCTCCTAATTCTGAGTAAAGGAGGTAGC
TAAGGACATAGAATATGAACTAGCTTACCCTTGTAGTTCCCTATCTCTTGCTTTCAATGCTGCTA
ATGCTGCTATTGATCACTAACGACTTTTCTCAACAACCTATCTTTGCTGTTGGATTAGCATTGTT
TTCTTTCTTTTTAGGATAGAGTCAAGGTTCCTTTCTTGTTTCTAATGAATGTAGCTATGCAGTTA
GTAGCTAATGAAGGAAAGGAATGGCCGGGTTTCAATCCTATTTATTTAACAAGATTGTAAGGAAA
TTCCCTATGGTATCTATCCTTAACTACTGTTATAGAGCTCTTTTCGAGAGGAAAGGGCTAGTCGT
TTCAAAGAAAAAAAACACTTCCATACTTGTATCCAACAAATAGGAATTACCTTTTCTACAATATT
GAATTCTAGGTTAAGCAGCATCTAATTGCATGGATTTCACCTATC
Found at i:38416 original size:9 final size:9
Alignment explanation
Indices: 38404--38429 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
38394 ACTGTAGCTA
38404 TTGTAGTTT
1 TTGTAGTTT
38413 TTGTAGTTT
1 TTGTAGTTT
38422 TTGTAGTT
1 TTGTAGTT
38430 CCCTGTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
TTGTAGTTT
Left flanking sequence: Indices 37904 -- 38403
CTGGGATTGATTATTTTGATAGATTCAGCCCGCCTATCACTATTCGTCTTTGAGTATTACTCTAT
ACCATGGCTGGACTCTTCGTCAATTGGATGTCAACAACGCTTTTCTACAGGGTCACTTAACCGAA
AAGAGGTATTCATGTCTCAACCTCCCGGTCGATACTCATTTTTCTTCTCTTCTCATGTGTGCAGG
TTTCGAAAAGCAATCTATGGTCTTAAACTTCGCTTCTGAGTCTATCTTAGCTACTTCAGTCTTCG
AAACTGAGTCGTTTTACGACGTTATTCAGCTCTACTAAACTGAGTCTATCGCCTCAGTCTTCGAA
CCTTTTTCTCTTATCTTACGAGTTTTGCTACTTGAAACAATATTCTATTCTATTTTATTTCAATC
CAATTCGCAAGACTGATGAAATTGGGATTGAAGTCTCGGAAAGAGCTTAGGGATAGAATAAGAAA
TTAGCTTCCTATTCTTTACTGTAGCTACTGTAGCTACTGTAGCTA
Right flanking sequence: Indices 38430 -- 38929
CCCTGTTTCTTTCTCTTTCTCCTAATTCTGAGTAAAGGAGGTAGCTAAGGACATAGAATATGAAC
TAGCTTACCCTTGTAGTTCCCTATCTCTTGCTTTCAATGCTGCTAATGCTGCTATTGATCACTAA
CGACTTTTCTCAACAACCTATCTTTGCTGTTGGATTAGCATTGTTTTCTTTCTTTTTAGGATAGA
GTCAAGGTTCCTTTCTTGTTTCTAATGAATGTAGCTATGCAGTTAGTAGCTAATGAAGGAAAGGA
ATGGCCGGGTTTCAATCCTATTTATTTAACAAGATTGTAAGGAAATTCCCTATGGTATCTATCCT
TAACTACTGTTATAGAGCTCTTTTCGAGAGGAAAGGGCTAGTCGTTTCAAAGAAAAAAAACACTT
CCATACTTGTATCCAACAAATAGGAATTACCTTTTCTACAATATTGAATTCTAGGTTAAGCAGCA
TCTAATTGCATGGATTTCACCTATCTTATGCATCTAGGTAAGCAG
Found at i:47065 original size:32 final size:32
Alignment explanation
Indices: 47029--47101 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
47019 TACTCTAACG
**
47029 AGTAAGCAAATAGGAATTACCTTACTTGTTCA
1 AGTAAGCAAATAGGAATTACCTTACTCATTCA
** * *
47061 AGTAAGTGAATTGGCATTACCTTACTCATTCA
1 AGTAAGCAAATAGGAATTACCTTACTCATTCA
47093 AGTAAGCAA
1 AGTAAGCAA
47102 GTAGTCGAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
AGTAAGCAAATAGGAATTACCTTACTCATTCA
Left flanking sequence: Indices 46529 -- 47028
GCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACCATGCCTGTCTGTTGG
AGCGAATTGGATGATCGGGCCGACTCTCGTCGCCTCTTCCCCTCACTCTCCTTTCCCTAATATGA
ACCTTGAGTCATCAAAGCCTTTCTGACTTGGCCTGGCCCGGTCGCCCTACGCGACTGGCGCTTCA
AAAGGTAGTTTCTACTTGCTTACTTGTTAGAGTAAGGTTCAAAGACAAGTCTAGTATAGACTAGG
TTCGAAGAGAGACTTATAGTATAGTATATGCTAAGGTCGGAGGCGGACACTTTTTGTTATCTAAA
GGCGAAGACTGATCAGTGGGCGAACACTCGGCCCAGCGGGCGAACATGCCGGGCTCCGGCTCCGC
GCACCTGCTGACACCTTTCGAAGCACTTTATAGTGTGCGCTTTAGTTTTAGAATGTGTCGTTCAT
CCATACTTGTTCCAAGTAAGTGAATTGCATTACCATACTCTAACG
Right flanking sequence: Indices 47102 -- 47601
GTAGTCGAGTTCCTTCGCCTTACGAGTCTACAAGCCTTTCTCATTTCAGTGCTCGAGCTTGAGCT
GATGTCAGCTCAAGGGGCTGGATGAAGTGTCTGGTTTGATAGAACCAGGTTCGAAAGACTGAGGC
GATAGACTCAGAGGCGGACGCGCTGAGCCGATAGGCGAAGAGGCGAAGAGCTGAATAACGTTGAT
AGACGAAGGGGCCTTTAGTCGAGTAGAGGTTTCAGCAAGCAGAACCTACCATAGTCGCGAGTCTG
TTTATAGTCGCGACTGTTGTCATAGTCAACAAGGGCGTTTAGGCTTCCAGGAAAAAACTTCGAAT
TGGGAGGGCGATCCTCCCGGTGAACTGACCGTACCCCAAACCGACACAGGTGAACAAGTAGAGTA
TACTAGGGCGCTTGAGAGAACCATGTCGAAGGAACTCGGCAAAATGACCCCGTAACTTCGGGAGA
AGGGGTGCTCTCCTATCTTTTGATTAGGAAAGCGGCACATACCAG
Found at i:47386 original size:18 final size:18
Alignment explanation
Indices: 47346--47388 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
47336 CAGAACCTAC
47346 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
47365 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
47382 CATAGTC
1 CATAGTC
47389 AACAAGGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 46846 -- 47345
TATCTAAAGGCGAAGACTGATCAGTGGGCGAACACTCGGCCCAGCGGGCGAACATGCCGGGCTCC
GGCTCCGCGCACCTGCTGACACCTTTCGAAGCACTTTATAGTGTGCGCTTTAGTTTTAGAATGTG
TCGTTCATCCATACTTGTTCCAAGTAAGTGAATTGCATTACCATACTCTAACGAGTAAGCAAATA
GGAATTACCTTACTTGTTCAAGTAAGTGAATTGGCATTACCTTACTCATTCAAGTAAGCAAGTAG
TCGAGTTCCTTCGCCTTACGAGTCTACAAGCCTTTCTCATTTCAGTGCTCGAGCTTGAGCTGATG
TCAGCTCAAGGGGCTGGATGAAGTGTCTGGTTTGATAGAACCAGGTTCGAAAGACTGAGGCGATA
GACTCAGAGGCGGACGCGCTGAGCCGATAGGCGAAGAGGCGAAGAGCTGAATAACGTTGATAGAC
GAAGGGGCCTTTAGTCGAGTAGAGGTTTCAGCAAGCAGAACCTAC
Right flanking sequence: Indices 47389 -- 47888
AACAAGGGCGTTTAGGCTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTG
ACCGTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTC
GAAGGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAG
GAAAGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAA
CACGATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAAAAGTGTTATAAGCTT
TGAATGGAAGCCCCAGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGT
CGCATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGT
GAAATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACG
Found at i:48770 original size:32 final size:32
Alignment explanation
Indices: 48733--48927 Score: 381
Period size: 32 Copynumber: 6.1 Consensus size: 32
48723 ACGCTCCGCT
48733 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
48765 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
48797 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
48829 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
48861 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
48893 CCATACTTGTTCCAAGTAAGTGAATTGGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATT-GCATTA
48926 CC
1 CC
48928 TGCAATTGCG
Statistics
Matches: 162, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
32 154 0.95
33 8 0.05
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (32 bp):
CCATACTTGTTCCAAGTAAGTGAATTGCATTA
Left flanking sequence: Indices 48233 -- 48732
GGCTCTCGCTCAACGGATCAAAGGTACGCCGGGGATAACAGGCTGATGACTCCCAAGAGCTCTTA
TCGACGGAGTCGTTTGGCACCTCGATGTCGACTCATCACATCCTGGGGTTGAAGAAGGTCCCAAG
GGTTCGGTTGTTCGCCGATTCAAGTGGTACGTGAGTTGGGTTTAGAACGTCGTGAGACAGTTCGG
TTCCTATCTACCGTTGGTGTTAAAGGGAGAACTGCGAGGAGCCAACCCTAGTACGAGAGGACTGG
GTTGGGCCAACCTATGGTGTACCGGTTGTTATGCCAATAGCAGCGCCGGGCAGCTAAGTTGGTAT
GGAAGAACTGCTGCGCCGCGGGAAATCCTTCTCTATACAAGTTCTCGGACGAGGTTTTTGAACAG
AACTTCGATAGGCGAGAGGTGTAAGCACCGCGAGGTGTGAAGCGATCTCGTACTAAACGAAACTA
CTTTCACTTTCCATAACCAAAATGAAAGAAAGTCAACGCTCCGCT
Right flanking sequence: Indices 48928 -- 49427
TGCAATTGCGGTCAGTCTCGCTACCTCTTGAGTTGCCGCCCCCTACTTGCTCATTCGCAATTACT
ACCACCTCTACCCCGGCCAAGCAACCAAAGCCGGGGACCTAGGTGAGAATAGGGAAAGAAAGAGA
AGAAGCGGGGTAGAGTAATTGGAAAACTCATTAGGCTCATGCCCTGAAGATTGCAGGTTCGAATC
CTGCCCCCGCCTAAGAAGTGTTTTTTCATTTTAGGTATAGATGGTACTGGACAAGCTCTTAGGGA
AGAATCTCTTTCGCCCTTATTTATTTCCGGACTTTTTTCTATGAAAAGACAAATCAAAAATTTCA
CTTCGAATTTCGGACCTCAACATCCTGCTGCTCATGGTGTTTCACGATTAGTATTGGAAATGAAC
GGAGAAGTGGTGGAACGTGCAGAACCACATATTGGATTACTCCAGTGCGGCACGAAGCCGCTGAC
GCCGAGTCGGCTCCTATGCCGCTAGCTATGCTATGCCCTGCTTGG
Found at i:105114 original size:15 final size:15
Alignment explanation
Indices: 105094--105176 Score: 58
Period size: 15 Copynumber: 5.4 Consensus size: 15
105084 GCAGGGTCGA
105094 AGAGACAAGTCTAGT
1 AGAGACAAGTCTAGT
* ** * *
105109 AGAGACGCAGGGTCGA
1 AGAGAC-AAGTCTAGT
105125 AGAGACAAGTCTAGT
1 AGAGACAAGTCTAGT
* ** * *
105140 AGAGACGCAGGGTCGA
1 AGAGAC-AAGTCTAGT
105156 AGAGACAAGTCTAGT
1 AGAGACAAGTCTAGT
105171 AGAGAC
1 AGAGAC
105177 GCAGGGTCGA
Statistics
Matches: 46, Mismatches: 20, Indels: 4
0.66 0.29 0.06
Matches are distributed among these distances:
15 26 0.57
16 20 0.43
ACGTcount: A:0.37, C:0.16, G:0.34, T:0.13
Consensus pattern (15 bp):
AGAGACAAGTCTAGT
Left flanking sequence: Indices 104594 -- 105093
AACACTCAGAAAAAACCTAGAAAAAAAGTCACTAAGACAAGAGCTAAGTAAGCAAGCAAGAAGGA
GAGGCCAGAAAAGGCAAGGTTCAAGGACTGAAGTAGAGGCGATAGACTCAGAGGCGTGGAGCTGA
ATAACGTTGTGAGACTCAGATTCTCAGACTGGGTAATAGCGATAGACACAGAGGCGTAGACGTCG
ATAGACTCAGATTCAAGGACTTCAGTTAAGGTCGGTAGACACAGTTAGGAGAGCTTCATAATGCC
GATAGGAGCAGGTTCGAAGACCGAGCCTAGTATAGGCGACGGGGCGTTTGACTGGGTCTAACGAC
ACAGTGTCTTTAGAGCTTCATAACGCCGATAGGCGAAGAGGCGCAGAGCTGAATAACGTCGCCTT
ACGACTCAGTTTCAAAGACTGGGGCAACGCCGTTAGGTACAGGGGAGAAAGAAAAGTAGAGTATC
TGCGCAGGCTCCTTGGAGACAAGTCTAGTATAGACGCAGGGTCGA
Right flanking sequence: Indices 105177 -- 105676
GCAGGGTCGAAGAGACAAGTCTAGTATAGACGCAGGGTCGAAGAGACAAGTCTAGTATAGACGCC
GGAGCGAAGCGACAATTAAAGCGGGTCGAAGACCCAAGTCTCGTAGAGACGCCGGGGAGAAGAGC
TGACGGAGGATTGTGTCCACGATCTGGTAATCTAAGCTTTGCTTCTTCTGGTCGGCTCGTATTAG
CCTGTGCTTTATTACAGCTATCGCTATCTCGTTCTTTTAGTCTTTTTAACGGTACTTGAATCTTA
AGTCGCGGTCATGTCTTGCCCTCCTCTAGTATAGTGACCGCTTTCATGTTTTCCCCGAACCGAAT
TTCATCACTTCCAGGCTCAAGTGCCTCTTCATCCATCTTAATTCCAAAGGCGAGTCTCTCCTGAC
TGTAACTGCTATGGTTTACAGTCAATAGTTCTTAATCAACTCTTTCTCTTTCTCGCCGAGCTTTC
AAAAGTTTGAAGAGAAAATAGGGGGTAAGGCAATGCAATTGTATA
Found at i:105256 original size:31 final size:31
Alignment explanation
Indices: 105064--105240 Score: 327
Period size: 31 Copynumber: 5.7 Consensus size: 31
105054 AGGCTCCTTG
*
105064 GAGACAAGTCTAGTATAGACGCAGGGTCGAA
1 GAGACAAGTCTAGTAGAGACGCAGGGTCGAA
105095 GAGACAAGTCTAGTAGAGACGCAGGGTCGAA
1 GAGACAAGTCTAGTAGAGACGCAGGGTCGAA
105126 GAGACAAGTCTAGTAGAGACGCAGGGTCGAA
1 GAGACAAGTCTAGTAGAGACGCAGGGTCGAA
105157 GAGACAAGTCTAGTAGAGACGCAGGGTCGAA
1 GAGACAAGTCTAGTAGAGACGCAGGGTCGAA
*
105188 GAGACAAGTCTAGTATAGACGCAGGGTCGAA
1 GAGACAAGTCTAGTAGAGACGCAGGGTCGAA
*
105219 GAGACAAGTCTAGTATAGACGC
1 GAGACAAGTCTAGTAGAGACGC
105241 CGGAGCGAAG
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 144 1.00
ACGTcount: A:0.36, C:0.16, G:0.33, T:0.15
Consensus pattern (31 bp):
GAGACAAGTCTAGTAGAGACGCAGGGTCGAA
Left flanking sequence: Indices 104564 -- 105063
TTCATTGGCAAATGAGAAAGATACCGTTTTAACACTCAGAAAAAACCTAGAAAAAAAGTCACTAA
GACAAGAGCTAAGTAAGCAAGCAAGAAGGAGAGGCCAGAAAAGGCAAGGTTCAAGGACTGAAGTA
GAGGCGATAGACTCAGAGGCGTGGAGCTGAATAACGTTGTGAGACTCAGATTCTCAGACTGGGTA
ATAGCGATAGACACAGAGGCGTAGACGTCGATAGACTCAGATTCAAGGACTTCAGTTAAGGTCGG
TAGACACAGTTAGGAGAGCTTCATAATGCCGATAGGAGCAGGTTCGAAGACCGAGCCTAGTATAG
GCGACGGGGCGTTTGACTGGGTCTAACGACACAGTGTCTTTAGAGCTTCATAACGCCGATAGGCG
AAGAGGCGCAGAGCTGAATAACGTCGCCTTACGACTCAGTTTCAAAGACTGGGGCAACGCCGTTA
GGTACAGGGGAGAAAGAAAAGTAGAGTATCTGCGCAGGCTCCTTG
Right flanking sequence: Indices 105241 -- 105740
CGGAGCGAAGCGACAATTAAAGCGGGTCGAAGACCCAAGTCTCGTAGAGACGCCGGGGAGAAGAG
CTGACGGAGGATTGTGTCCACGATCTGGTAATCTAAGCTTTGCTTCTTCTGGTCGGCTCGTATTA
GCCTGTGCTTTATTACAGCTATCGCTATCTCGTTCTTTTAGTCTTTTTAACGGTACTTGAATCTT
AAGTCGCGGTCATGTCTTGCCCTCCTCTAGTATAGTGACCGCTTTCATGTTTTCCCCGAACCGAA
TTTCATCACTTCCAGGCTCAAGTGCCTCTTCATCCATCTTAATTCCAAAGGCGAGTCTCTCCTGA
CTGTAACTGCTATGGTTTACAGTCAATAGTTCTTAATCAACTCTTTCTCTTTCTCGCCGAGCTTT
CAAAAGTTTGAAGAGAAAATAGGGGGTAAGGCAATGCAATTGTATAAATTTGACTCGGACTTTCT
TTCTTCTCCTGCGGAGCTCTGAGAAAGTCACCGGTGGCAGGTTAG
Found at i:140697 original size:72 final size:73
Alignment explanation
Indices: 140603--140738 Score: 177
Period size: 73 Copynumber: 1.9 Consensus size: 73
140593 ATAAATAACA
**
140603 GCCGGGTAATATGTTAGGACACAGA-AAAGAAGAGCTGCTTCATAAGTCAGATAGACTCAGTTAG
1 GCCGGGTAATATGCCAGGACACAGAGAAAGAAGAGCTGCTTCATAAGTCAGATAGACTCAGTTAG
140667 AACTGCCT
66 AACTGCCT
*** ** *
140675 GCCGGGTAATATCGCCA-GACACAGAGGCCGGCGGGCTGCTTCATAAGTCAGATAGACTCAGTTA
1 GCCGGGTAATAT-GCCAGGACACAGAGAAAGAAGAGCTGCTTCATAAGTCAGATAGACTCAGTTA
140739 TAAGTGGAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
72 20 0.37
73 34 0.63
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (73 bp):
GCCGGGTAATATGCCAGGACACAGAGAAAGAAGAGCTGCTTCATAAGTCAGATAGACTCAGTTAG
AACTGCCT
Left flanking sequence: Indices 140103 -- 140602
ACTATAGGAGGCTGTATTGGCGAGATCCAACGGTAAACAGCTGCCTAAAAGAAAAACCGCCTGGA
AGTCCGAGGACCTTTAGTACTGTACCCTACCCCCGAACCAGCAGCCTTCGCGCCAAGCAAGACCG
CCCTTGTCCCTTTCCTTTCTCCATTCTGCCTTCTTCTTTGCTTTGTTCCAAAACAGTAACAGGCA
AAGCGTCAGTGGTTCGTATGCCTACTTTACCTACTTGACGAAAGGGAACGAACTTTGTTTCGTTT
CCGGGTTTATGGATTGGATTCAGTCAGCGTCACTCCTTCCTTTTTCTTATGTCGTGACGCTTACC
AGCGAACGCTTTCAAAGGCGACCCTCTCGAGTTTCCGGCAGTTTCCGTCATTGAAGTAGCCTTTC
GTCGCCTTACCAAAGGTAATTCCTATTTTCATACTTGAATAAGTAAGGTTTGCAAACCAAGTATA
GTATAGACTAAGATCGAAGACTGAGTTGATAGACGATAAATAACA
Right flanking sequence: Indices 140739 -- 141238
TAAGTGGAGTAAGGGCGATAGACACAGTTTAGTAGAGCTGAATAACGTTGTGAGACTCAGATTCT
CAGACCTGGTTCGAAGAGCGACGTATAGTATATGCGGCGGGAAAGAAGTCACTATCAAAGAACTC
ACACGACTGAAGTACCAAAGGTGCGCTCCGCCCGATGACTAAGAAATAGGTTTGCGCTTGAATTG
AAGTGATGAGGTCGCAAAGAGGAAAGTAGGGCTCCTATTGACTAAAGGTTGCTTCTTCGGTTTCC
TTTAGAATGAAAGTAGCTTACGCTACCTTACTACTTACTTTGTTTTATTCAAAGGTATAAACCCC
CTCAACTAGTCGTATGGGGCGGGGTGCTTGTGGTAACTTGGATATGAAGAATTCCTTAAGAAAGG
TTTTCAGAGCTTAATATATACTATGTGGCGGCAAAGTCCGGTATTTGACGAAGATCTTTCTTTCG
AAAGAGGGGAACACGCTTTTTCGACCGCGGTGGCGGGCCTTCTCC
Found at i:169380 original size:38 final size:38
Alignment explanation
Indices: 169329--169427 Score: 171
Period size: 38 Copynumber: 2.6 Consensus size: 38
169319 TATCTTAACA
*
169329 TTTCGGAAGTTTTATCCTATAAGAATTGGCTTTTCCTT
1 TTTCGTAAGTTTTATCCTATAAGAATTGGCTTTTCCTT
169367 TTTCGTAAGTTTTATCCTATAAGAATTGGCTTTTCCTT
1 TTTCGTAAGTTTTATCCTATAAGAATTGGCTTTTCCTT
* *
169405 TTTCGTGAGTTTTAGCCTATAAG
1 TTTCGTAAGTTTTATCCTATAAG
169428 TAAGAATTGG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.21, C:0.15, G:0.16, T:0.47
Consensus pattern (38 bp):
TTTCGTAAGTTTTATCCTATAAGAATTGGCTTTTCCTT
Left flanking sequence: Indices 168829 -- 169328
TGATTAAGATTAGTAGGGGTCTCCATTCTTTAGCTAACTCGTCGCTTTAACCGTGAGGATCTGCC
CTTTCTTCTTTACTACGGACTAATTGAGTCTCCCTAACTCGTCGCCTTAACTGCTATTCCCTTCC
CTTTCCTTTTAGGGACGGACTTTCTCTTTAGGTTCTTCCCAGCCTCTTATTAAAGAATAGGGAGC
TAGCTTCTTGTTATTCTAATGACTCTATCGGATACCGGGCCCTACGGGTAATATGAAGTTCTGCC
GCCACTTCGTCTATTGGCTCGACTCTACCGAGCCCCCTTCTGCAGCTAGAGGACTTAGTTAGCTA
AAGTAAAGTGCAGCTACTCTTTCCGATTTAAAGAAGAAACAAGTGACCCGGACTTCGGTGCTGAT
CCTCGTAGTCTTACCTGTAATTAAAGAAGAAAGAAACGAGCTTCTTGTTCTTGGCTTCAATGATT
GCTTGTAGCCACAATTCCAACAGCAAGTAAGGTGATATCTTAACA
Right flanking sequence: Indices 169428 -- 169927
TAAGAATTGGCTTTTCCGTTTTATCTTATTAGGGGACAGGGACTTACTCTACTTGGGGGACAAGG
ACTTACTCTACCTCTTAAATCCAACTAAGCCGTAAATCCGACTAACCGACGAACTAAAGCAGCTT
ATTGGCTTCATCTCTTGTCTTGCCCGTAGCTTCAATTCGGGTAGCCGGTAAGGAAGGTGATAGCT
TAACTAAAACCTTTTTCGGAAGTTTTTTCTCCTACAGAACAATCGATAGATGTAAGATACCCGTA
CCTTTACTCGGCATTATTCCGTACTAAAAGAATAAGAAAGAAGATGGAGTCCGTTAGGTTAGGGA
AAGAAGCTAGTTTCCTATTGACTGGGTAGAAAAGGATTAAGTCCTTAGAAAGGCTAAAAGTCCTA
AAGATAAAGTCCTTTTATACAATTATGAACTTTACGTAACTTTCTCAATTCCAACCCAATTTATC
CTTCTCTACCTGGTGATTCAGTAATCCCCGTATTTTCTTGTACTG
Found at i:177787 original size:6 final size:6
Alignment explanation
Indices: 177776--177809 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
177766 GGAGATCCAG
177776 TTTTCT TTTTCT TTTT-T TTTATCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTT-TCT TTTTCT TTTT
177810 TTTCTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 4 0.15
6 18 0.69
7 4 0.15
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Left flanking sequence: Indices 177276 -- 177775
TGCTATTAACGTAGGCTTATCGGTCAGTCGCGTCGGGTCTGCCGCTCAGTTGAAAGCTATGAAAC
AAGTATGCGGTAGTCCAAAACTAGAATTGGCACAATATCGAGAAGTGGCCGCTTTTGCTCAATTT
GGCTCAGACCTTGATGCTGCGACTCAGGCATTACTCAATAGGGGTGCAAGGCTGACAGAAGTACT
GAAACAACCACAATATGCACCACTTCCAATTGAAAAACAAATTCTAGTCATTTACGCAGCTGTCA
ATGGATTCTGTGATCGAATGCCACTAGATAAAATATCTCAATATGAAAAAACCATTCCAAATAGT
GTAAAACCAGAATTATTACAATCCTTAAAGGGGGGGTTAACCCACGAAAAAAAAATGGAACTGGA
TGCATTCTTAAAAGAATGCGCAATTACGGAATAAGGGATGTTATGCCTCTCTTTACGGAGACCGG
GCCCCCCTCCCCTTAAAAAAAGGGGAGAAAGCTGAGGAGATCCAG
Right flanking sequence: Indices 177810 -- 178309
TTTCTTTAATTAATTAAACTAGGGTGAAGGAAGTGAAAAAACTCTTTCACTCTAGCGGGAAGAAA
ACAGGTGGGTGAGAATGAGCGGAGCAAGAGCAAAGCAAGTTCCAGTGGCGGGCTGTCTTCATGGT
CCCTTACTCGCCGCTCTGTCATTGTCTGATTTTTGGTTGTTTGATCACACTCGAAATTATGTATT
TACTTATCGTCTTTTTGCCCTTGCTTGGTAGTTCCGTAGCAGGTTTTTTCGGACGTTTTCTAGGA
TCAGAAGGAACCGCTATAGTGACTACTACGTGCGTTTCATTCTCTTCGATCTTCTCTTTGATTGC
TTTTTATGAAGTCGCACCGGGAGCTAGTGCTTGCTATCTAAGAATTGCTCCATGGATTTCATCGG
AAATGTTTGATGCTTCTTGGGGCTTCTTTGGCGACCGCGAAGTCACCGGATGAATTGCCGGGCAG
ATAGATCAGATCCGGACGCGGCTGTTGCTCCACGGCGATACGGAC
Found at i:178656 original size:28 final size:29
Alignment explanation
Indices: 178623--178681 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
178613 AGCTAAGTCG
* *
178623 TCTAGCTGTACTTACTT-GCTTAGCTACC
1 TCTAGCAGCACTTACTTGGCTTAGCTACC
*
178651 TCTAGCAGCACTTACTTGGTTTAGCTACC
1 TCTAGCAGCACTTACTTGGCTTAGCTACC
178680 TC
1 TC
178682 CTACACCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (29 bp):
TCTAGCAGCACTTACTTGGCTTAGCTACC
Left flanking sequence: Indices 178123 -- 178622
CTCTTTGATTGCTTTTTATGAAGTCGCACCGGGAGCTAGTGCTTGCTATCTAAGAATTGCTCCAT
GGATTTCATCGGAAATGTTTGATGCTTCTTGGGGCTTCTTTGGCGACCGCGAAGTCACCGGATGA
ATTGCCGGGCAGATAGATCAGATCCGGACGCGGCTGTTGCTCCACGGCGATACGGACTCGACCCG
CTCCTACCCACCACGGAGCACCATAGCATGTCGGGAATAAGGGAGGGCATACTGGACGTAACCAC
TCCCTTGGCTAACTCTATTTAGACTTTGAAATGCGGCTAGAGGGAAGAAATGAAGCCACCGAACT
CGTTTTGGATTGACTGCTTAGTCTGGTTTCTGAGTTAGACAGAGAGATGTTGTTAAGAAGCAGAA
CCGGTCTTCCTACTAACAAGTTTTCTCTTCTTCTCAGCTCCCGGCGCGGGGTCGGTAGACACAAG
CCGAAGGCGCAGGGCAGCGCATAGCGCAACAAACCAGCTAAGTCG
Right flanking sequence: Indices 178682 -- 179181
CTACACCGAGTAACTAAGTCCTATAACTGCAGAAGGAGTAGCTGCACAGGCTTTAGCAACGGGTT
ATGAAACAGAACAAAGCTTAGCCGCATCCATCTAACAACTACTTTACTGCTTATGCTTCTAGCTT
CACTGTCTTTAGCAGCAGGGGAGAATCCACGAGTCTAGTAGATACGCAGGTTATGAAACAGATAT
GGCTTATGCTTATCCGGCCGGCAGCTGCACTATCTTTTTTATTAATCCTCAGAAACAGCTACGCT
CGCGCCTACCGTTTCACTCCGTGTAACTATGCTCGGATACGTTCGGAAGCCTAGAACAAGCTGGC
TTCCTTCACTCCCAGTCTGGTTACTACGTGAGCATGCGTGGAGCAGGTTATATCTATTTAGCTTC
ACTGTCTTTCTTTAACAGATATGGCTTATTTAACAGCTGGTCTTACTAGCTTTACTGCTTAGTCT
TATGCTTATGGCTTAGTCTAATAGCTTATGCTTCTAACTACACTA
Found at i:179152 original size:19 final size:20
Alignment explanation
Indices: 179128--179166 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
179118 TAGCTTTACT
*
179128 GCTTAGTCTTAT-GCTTATG
1 GCTTAGTCTAATAGCTTATG
179147 GCTTAGTCTAATAGCTTATG
1 GCTTAGTCTAATAGCTTATG
179167 CTTCTAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (20 bp):
GCTTAGTCTAATAGCTTATG
Left flanking sequence: Indices 178628 -- 179127
CTGTACTTACTTGCTTAGCTACCTCTAGCAGCACTTACTTGGTTTAGCTACCTCCTACACCGAGT
AACTAAGTCCTATAACTGCAGAAGGAGTAGCTGCACAGGCTTTAGCAACGGGTTATGAAACAGAA
CAAAGCTTAGCCGCATCCATCTAACAACTACTTTACTGCTTATGCTTCTAGCTTCACTGTCTTTA
GCAGCAGGGGAGAATCCACGAGTCTAGTAGATACGCAGGTTATGAAACAGATATGGCTTATGCTT
ATCCGGCCGGCAGCTGCACTATCTTTTTTATTAATCCTCAGAAACAGCTACGCTCGCGCCTACCG
TTTCACTCCGTGTAACTATGCTCGGATACGTTCGGAAGCCTAGAACAAGCTGGCTTCCTTCACTC
CCAGTCTGGTTACTACGTGAGCATGCGTGGAGCAGGTTATATCTATTTAGCTTCACTGTCTTTCT
TTAACAGATATGGCTTATTTAACAGCTGGTCTTACTAGCTTTACT
Right flanking sequence: Indices 179167 -- 179666
CTTCTAACTACACTATCTCCGGACAGGCTAAGCTCCTTCCGGCCGGACAGTATGGTTTTATTAAA
CTAGCGTGGGTTAACGAAGTGTACTCTTAAGCTACGTATCTGGTTTCTTAGATAGAATCTGTCTT
AGTTACATCGCTTTCTTCTTTATCTAATTGAGTTCTTTCTTCTGTAAGAGTAGTCTCTATATTAA
TACCCAAATATTCACTCTTTTCTCTCTCTCTTTCCTTCTGAGACAACTTCTCATTAAGAATTTTA
TTCGTTGTCTGCAGTTTCATTAACTTTTTCATTAGTGATTTGGCTACCGCTTTTCCAATGTTGTG
ATCTACCCAACACATATCATTTACTTCAATGGGTAAAGTCTCTCCATCAGGTTGAGTAATCCTCT
TACTGTTCAGTTTAATCCCCAAACTGTAATCATATTCTTTAACACCGACAGTCAGTTTGTCCCAA
TCAACCTTGAATTTGTTTTTGATTATTACTTGCATCCTACGAGAA
Found at i:192387 original size:39 final size:39
Alignment explanation
Indices: 192333--192411 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
192323 CGATTTTCTA
*
192333 TTCACTCATGATCTGGCCTGGTCGACCCGATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
* *
192372 TTCACTCATGATCTGGTCTGGTTGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
192411 T
1 T
192412 GAAGGATGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (39 bp):
TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
Left flanking sequence: Indices 191833 -- 192332
CCACACCTGTGTAGAGTAGATCGTTCAACACCTGCGGCACAAAGAAATTTTTGACCTATTGGTCC
TAGTATCATAGGCGACCGAACGGCCGCCCCCTATAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGGATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAGCATAAATGTAGTGACTGGAGCC
ATCCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCGAACC
ATCTGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCAGCTGGAACAGCTATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 192412 -- 192911
GAAGGATGGGACCTTTTCTCGAAAAACTATAGATTCAAGAATTACTAAGAGCAGGGCAGGGCGGC
GGGTCACCCGTTCTTATATAATAAGTCTCTAATCAACGGGACGATCGATGGGTTCGATTTTTCTA
ACTTCGAAAGAAAGACAGTTCTTTCGAACTCCCTCTCTTTCTGTATCTGGGTTAGTATGTTTTCG
AGCATCCTGCGATGCTCGAAAACAGCTGCTCTGAGAGCATCCTGCTGTTCATGGAGCTGACGCAG
CAAGTCAGAAACTTCATCCTCAGCGAGAGGCCGCTGTTCCGGCTCCACTGCGGGTAAGCCGGCCT
CTTGGGCTGGAGGATTCGAACCGCCGCCCACTGAATCCGCGCTGGGAGAAAGGTCAAGAGACTTT
CTCCAGCTTCCGCTACCACTGCCACCCGAATCCGTGGGAATCATTGCAGTAGAAACCGGAATATT
CGGGTTTCCACATAAATCGGAAAACCCTACTAAGCTGACCACAAA
Found at i:202207 original size:13 final size:13
Alignment explanation
Indices: 202189--202213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
202179 CTAATACTAA
202189 TCTAATAGAAAAT
1 TCTAATAGAAAAT
202202 TCTAATAGAAAA
1 TCTAATAGAAAA
202214 GAACTGTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
TCTAATAGAAAAT
Left flanking sequence: Indices 201689 -- 202188
CCCTTTCCAAAGGAACTTCAGTTCCATCTCTTTTCCATTCAAGAGTTCTTATGTGTTTCCACGCC
TCCTTGAAACCCCGAAAAATGGACAAATTCCTTTTCTTAGGAACACATACCGCATTCGTCACTCC
AAAAAGGATAATGGTAACCCCGCCATTAATCAAATAACTTCATTTATGAATTTCATAGTAATAGA
AATACATGTCCTACCGAGACAGAATTTGTAACTTGCTATCCTCTTGCCTAGCAGGAAAAGATTTC
CCTCCGTGGAAAGGATGATTTATTCCATTCGGATCGACATGAGAGTCCAACTACATTGCATTGCC
GGAATCTGTGTTGTATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATCGTACAACCCTCTTC
CCGACGAGCCCCCCTTCTCCTCGGTCCACAGAGACAAAAAGTAGGGCCGGTGCCAATAGTTCATC
ACGGAAGAAGGGACTCACTGAGCCTGGATCACTAACTAATACTAA
Right flanking sequence: Indices 202214 -- 202713
GAACTGTCTTTTCTGTATACTTTCCCCGGTTCTCTTGCTACCGCGGGCTTTACGCAATCGATCGG
ATCATATAGATATCCCTTCAACACAACATAGGTCATCGAAAGGATCTCGGAGACCCACCAAAGCA
CGAAAGCCAGGATCTTTCAGAAAATGGATTCCTATTCGAAGAGTGCACAACCGCATGGATAAGCT
CACACTAACCCGTCAATTTGGGATGATCCAATTCGGGATTTTCCTTGGGATCGGAAAGGAATTGG
AATGTAATAATATCGATTCATGCAGAAGAAAAGGGGTTCTCTATTGAGTCAAACGCTGTACTTAT
GGGATAGGGATTGAGTAAGGACAGGGTGATCGTCAGAAGGCAGCGCTCCCAACCGCAAGGCAGGA
GGGCGAGAGCTCATTAACCACCCTTGGATCCGTTCATAACATATTATGGATAGACTTTAAGAATT
AATAAGTAAAGTAAATAGTCTCTGTCTTCTCTCTTTTATTGAACT
Found at i:211833 original size:32 final size:32
Alignment explanation
Indices: 211786--211851 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
211776 CATCCATTTT
* *
211786 CATTGTTCAATTCTTTGACAACACGAAAAAAC
1 CATTGGTCAACTCTTTGACAACACGAAAAAAC
*
211818 CATTGGTCAACTCTTTGACAACATGAAAAAAC
1 CATTGGTCAACTCTTTGACAACACGAAAAAAC
211850 CA
1 CA
211852 AAAGCCCCGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.26
Consensus pattern (32 bp):
CATTGGTCAACTCTTTGACAACACGAAAAAAC
Left flanking sequence: Indices 211286 -- 211785
GTTGGGCTGTTCGCCCATTAAAGCGGTACGTGAGCTGGGTTCAGAACGTCGTGAGACAGTTCGGT
CCATATCCGGTGTGGGCGTTAGAGCATTGAGAGGACCTTTCCCTAGTACGAGAGGACCGGGAAGG
ACGCACCTCTGGTGTACCAGTTATCGTGCCCACGGTAAACGCTGGGTAGCCAAGTGCGGAGCGGA
TAACTGCTGAAAGCATCTAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCCTATTCCGACTTCC
CCAGAGCCGCCGATAGCACAGCCGAGGCAGCGACGGGTTCTCTGCCCCTGCGGGGATGGAGCGAC
AGAAGTTTTGAGAATTCAAGAGAAGGTCACGGCGAGACGAGCCGTTTATCATTACGATAGGTGTC
AAGTGGAAGTGCAGTGATGTATGCAGCTGAGGCATCCTAACAGACCGATAGACTTGAACCTTGTT
CCTACATGGCCCGATCAATTCGATCGGGCACTCGCCATCCATTTT
Right flanking sequence: Indices 211852 -- 212351
AAAGCCCCGCCCTCCCTCTCTATCTATATCTATCCAAGAGATGGAAGGGCGGAGGCCTTTGGTGT
CCCCCCCAGTTAAGAATTGGGGCCCCACAATCACTAACTAATATGCCTTTCTCTCATGCCTTTCT
TAGTTCGTGGTTCGATATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAATCCATCCCGAACTT
GGTGGTTAAACTCTACTGCGGTGACGATACTGTAGGGGAGGTCCTGCGGAAAAATAGCTCGACGC
CAGGATGATAAAAAGCTTAACACCTCTCATTTTTTTTCTTTTTCATATTGAAAAAGTAATAAGAA
TGAAAAGGTCGTCTTATTCAAAAACCCAATTATGACATCCCTTCTCTCCCACTTCACATCTCGGA
ATGCACCGTTCTTATTCTTAGAGAAACGCGCTTTCACATCTTCTTAACCCGAAATGGCTGGGGAG
AGGAAAGGTTCCTTTTTTTTTGAGGATACTCCCGGGAACAGATCC
Found at i:222541 original size:32 final size:32
Alignment explanation
Indices: 222505--222577 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
222495 TACTCTAACG
**
222505 AGTAAGCAAATAGGAATTACCTTACTTGTTCA
1 AGTAAGCAAATAGGAATTACCTTACTCATTCA
** * *
222537 AGTAAGTGAATTGGCATTACCTTACTCATTCA
1 AGTAAGCAAATAGGAATTACCTTACTCATTCA
222569 AGTAAGCAA
1 AGTAAGCAA
222578 GTAGTCGAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
AGTAAGCAAATAGGAATTACCTTACTCATTCA
Left flanking sequence: Indices 222005 -- 222504
GCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACCATGCCTGTCTGTTGG
AGCGAATTGGATGATCGGGCCGACTCTCGTCGCCTCTTCCCCTCACTCTCCTTTCCCTAATATGA
ACCTTGAGTCATCAAAGCCTTTCTGACTTGGCCTGGCCCGGTCGCCCTACGCGACTGGCGCTTCA
AAAGGTAGTTTCTACTTGCTTACTTGTTAGAGTAAGGTTCAAAGACAAGTCTAGTATAGACTAGG
TTCGAAGAGAGACTTATAGTATAGTATATGCTAAGGTCGGAGGCGGACACTTTTTGTTATCTAAA
GGCGAAGACTGATCAGTGGGCGAACACTCGGCCCAGCGGGCGAACATGCCGGGCTCCGGCTCCGC
GCACCTGCTGACACCTTTCGAAGCACTTTATAGTGTGCGCTTTAGTTTTAGAATGTGTCGTTCAT
CCATACTTGTTCCAAGTAAGTGAATTGCATTACCATACTCTAACG
Right flanking sequence: Indices 222578 -- 223077
GTAGTCGAGTTCCTTCGCCTTACGAGTCTACAAGCCTTTCTCATTTCAGTGCTCGAGCTTGAGCT
GATGTCAGCTCAAGGGGCTGGATGAAGTGTCTGGTTTGATAGAACCAGGTTCGAAAGACTGAGGC
GATAGACTCAGAGGCGGACGCGCTGAGCCGATAGGCGAAGAGGCGAAGAGCTGAATAACGTTGAT
AGACGAAGGGGCCTTTAGTCGAGTAGAGGTTTCAGCAAGCAGAACCTACCATAGTCGCGAGTCTG
TTTATAGTCGCGACTGTTGTCATAGTCAACAAGGGCGTTTAGGCTTCCAGGAAAAAACTTCGAAT
TGGGAGGGCGATCCTCCCGGTGAACTGACCGTACCCCAAACCGACACAGGTGAACAAGTAGAGTA
TACTAGGGCGCTTGAGAGAACCATGTCGAAGGAACTCGGCAAAATGACCCCGTAACTTCGGGAGA
AGGGGTGCTCTCCTATCTTTTGATTAGGAAAGCGGCACATACCAG
Found at i:222862 original size:18 final size:18
Alignment explanation
Indices: 222822--222864 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
222812 CAGAACCTAC
222822 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
222841 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
222858 CATAGTC
1 CATAGTC
222865 AACAAGGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 222322 -- 222821
TATCTAAAGGCGAAGACTGATCAGTGGGCGAACACTCGGCCCAGCGGGCGAACATGCCGGGCTCC
GGCTCCGCGCACCTGCTGACACCTTTCGAAGCACTTTATAGTGTGCGCTTTAGTTTTAGAATGTG
TCGTTCATCCATACTTGTTCCAAGTAAGTGAATTGCATTACCATACTCTAACGAGTAAGCAAATA
GGAATTACCTTACTTGTTCAAGTAAGTGAATTGGCATTACCTTACTCATTCAAGTAAGCAAGTAG
TCGAGTTCCTTCGCCTTACGAGTCTACAAGCCTTTCTCATTTCAGTGCTCGAGCTTGAGCTGATG
TCAGCTCAAGGGGCTGGATGAAGTGTCTGGTTTGATAGAACCAGGTTCGAAAGACTGAGGCGATA
GACTCAGAGGCGGACGCGCTGAGCCGATAGGCGAAGAGGCGAAGAGCTGAATAACGTTGATAGAC
GAAGGGGCCTTTAGTCGAGTAGAGGTTTCAGCAAGCAGAACCTAC
Right flanking sequence: Indices 222865 -- 223364
AACAAGGGCGTTTAGGCTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTG
ACCGTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTC
GAAGGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAG
GAAAGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAA
CACGATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAAAAGTGTTATAAGCTT
TGAATGGAAGCCCCAGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGT
CGCATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGT
GAAATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACG
Found at i:224246 original size:32 final size:32
Alignment explanation
Indices: 224209--224403 Score: 381
Period size: 32 Copynumber: 6.1 Consensus size: 32
224199 ACGCTCCGCT
224209 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
224241 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
224273 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
224305 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
224337 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATTGCATTA
224369 CCATACTTGTTCCAAGTAAGTGAATTGGCATTA
1 CCATACTTGTTCCAAGTAAGTGAATT-GCATTA
224402 CC
1 CC
224404 TGCAATTGCG
Statistics
Matches: 162, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
32 154 0.95
33 8 0.05
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (32 bp):
CCATACTTGTTCCAAGTAAGTGAATTGCATTA
Left flanking sequence: Indices 223709 -- 224208
GGCTCTCGCTCAACGGATCAAAGGTACGCCGGGGATAACAGGCTGATGACTCCCAAGAGCTCTTA
TCGACGGAGTCGTTTGGCACCTCGATGTCGACTCATCACATCCTGGGGTTGAAGAAGGTCCCAAG
GGTTCGGTTGTTCGCCGATTCAAGTGGTACGTGAGTTGGGTTTAGAACGTCGTGAGACAGTTCGG
TTCCTATCTACCGTTGGTGTTAAAGGGAGAACTGCGAGGAGCCAACCCTAGTACGAGAGGACTGG
GTTGGGCCAACCTATGGTGTACCGGTTGTTATGCCAATAGCAGCGCCGGGCAGCTAAGTTGGTAT
GGAAGAACTGCTGCGCCGCGGGAAATCCTTCTCTATACAAGTTCTCGGACGAGGTTTTTGAACAG
AACTTCGATAGGCGAGAGGTGTAAGCACCGCGAGGTGTGAAGCGATCTCGTACTAAACGAAACTA
CTTTCACTTTCCATAACCAAAATGAAAGAAAGTCAACGCTCCGCT
Right flanking sequence: Indices 224404 -- 224903
TGCAATTGCGGTCAGTCTCGCTACCTCTTGAGTTGCCGCCCCCTACTTGCTCATTCGCAATTACT
ACCACCTCTACCCCGGCCAAGCAACCAAAGCCGGGGACCTAGGTGAGAATAGGGAAAGAAAGAGA
AGAAGCGGGGTAGAGTAATTGGAAAACTCATTAGGCTCATGCCCTGAAGATTGCAGGTTCGAATC
CTGCCCCCGCCTAAGAAGTGTTTTTTCATTTTAGGTATAGATGGTACTGGACAAGCTCTTAGGGA
AGAATCTCTTTCGCCCTTATTTATTTCCGGACTTTTTTCTATGAAAAGACAAATCAAAAATTTCA
CTTCGAATTTCGGACCTCAACATCCTGCTGCTCATGGTGTTTCACGATTAGTATTGGAAATGAAC
GGAGAAGTGGTGGAACGTGCAGAACCACATATTGGATTACTCCAGTGCGGCACGAAGCCGCTGAC
GCCGAGTCGGCTCCTATGCCGCTAGCTATGCTATGCCCTGCTTGG
Found at i:265448 original size:28 final size:28
Alignment explanation
Indices: 265398--265452 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
265388 CTTAATCTTG
*
265398 CCTGCGTCTATCAACGCTACTCTTCGCT
1 CCTGCGTCTATCAACGCCACTCTTCGCT
*
265426 CCTGTGTCTATCAAC-CCAGCTCTTCGC
1 CCTGCGTCTATCAACGCCA-CTCTTCGC
265453 CCCAGCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.15, C:0.40, G:0.15, T:0.31
Consensus pattern (28 bp):
CCTGCGTCTATCAACGCCACTCTTCGCT
Left flanking sequence: Indices 264898 -- 265397
TTGTATATTAAACAGTTTATTCGTTACTAACGCCTGCGGAACAGATCTATATCAACTATATATTG
ATGGAATGAGTTCAGAATAAAAAGAAGAAAAGGGTATATGATATAAACTACTGGATAGATTGCGT
CTTATTATAAAGTCTGTTATCATACAAGTGCATATCCTTCCTCAAGCTAAGCTTGGTGGATGTAA
TGCTTCTTGCTCGCTTGATAGCAGGGATTCGATACCTAGCCCATCTAGAGATGAATGTGCTGCTG
ACTCTATTACTGTGGATTCAGATGCTCCCAGTCTAGAAAACTTCCTAGCGTTCGTTCCCTTACTT
CAGGTTTTGCTGTCTTGCCCGCTACGACTGGCTTGCTTGAATGGAATGAGACTGAAAAGGCCAAG
GAAAGACTATTCATATAAAAGAATAGGAAAGCAAATTCTTAGCATGAAGAAAGATTGGATTCTTA
GTCTAATCTATCAAACTTAAGGAATCTATCAACTCCTTAATCTTG
Right flanking sequence: Indices 265453 -- 265952
CCCAGCATAATGAGTAGTATGTAGCTGCTTGACCCCAGCCTTAACCTCCTTCAACTTAGACCATA
CTTGAAACATCTTACAACCACCCACTGGTTTATTCCAACAGCTAGTCAAGATGTCCTGGAACTGA
GCATGATCAGCAATCACATTAAGAAAGAGAAAGGGTCTACCACCACCCAATGACGCATCAAAGCA
CTCAAATAAAAGAGGGCTATGATCTGAGATGCCAGGGGGGGAGAAAAAGGTACTCCACATTAGGA
TATTTCTGCATCCAGCATTGATTCACAATGCCTCTATCAATCCTACTGGCAATTCTGCTAGTTCC
AGACCCCTTATTGGACCAAGAGAAAAATGGACCTTTACTCTTGATCTCTGTCAAACCAACATCCA
CCAAAAAATCACTGAAATCCCTAGTCTCAAAGTGAGCCACAGGCTCTCCATTAATCCTATCCTCA
CAAGAGAGAATAGCATGAAAATCCCCAGCAATAAGCCAAGGAATT
Found at i:266712 original size:18 final size:18
Alignment explanation
Indices: 266681--266715 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
266671 AGGAACCCAT
266681 TTCTTGGAGACTTTCTTC
1 TTCTTGGAGACTTTCTTC
266699 TTCTCTGGAG-CTTTCTT
1 TTCT-TGGAGACTTTCTT
266716 TGCACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.09, C:0.23, G:0.17, T:0.51
Consensus pattern (18 bp):
TTCTTGGAGACTTTCTTC
Left flanking sequence: Indices 266181 -- 266680
CAAGCAGACCCAAACTTCCTTTGAATACCAAGAACTTTATGTTCTTTAACTTGAGTCTCTAATAT
ACCTATAATATTCACATTATGGCTTTTCAGCAGCTTCTTAACTACTGAAACCTTGTGAGGGTCAT
TGAACCCTCTAATATTCCAAGTTACCAGAATCATTGAGAAGGGTTGGGATGATCCTGCTCCTTTC
CATCCCCATCATCTTCAGGAATCTGAGGCTCCTCCTCAATCAACACCATGTAGGAGTTAGAACTG
CCAATCGCAGGCCTAACCAATCTCCTTCCCTTACTCTTTATTTTCCTAGCAACCACCCGCCATTC
ACCATCCTCACTGGAGTTGTGCTGAGTCTGTGGGATGGGGGTAGTAACAGGAACCACAGCAAGAG
GTTGCCCTGCAGTCACAATCTCAGGCCCCCCACCTGCATTAGAAGCAGCAGTAGGAACAGCTTCA
GTTACCACTGGTTCAGCATCAGCCTCCTTAGATTTAGGAACCCAT
Right flanking sequence: Indices 266716 -- 267215
TGCACAATCATGCCCCACTTTATTACAAGTAGAGCAAAAAGGAGGGCGCCACTCATAAATCACAT
TTTGCTCCATGACTTCCCCATCAGGACCTTCCACAGAGATGCTAGTAGGCAAAGGCTTGGTCACA
TCAATTTCTACCAAGAGCCTAGCAAAAGAAACCCTGACTAGAAGTGCACTCATCAGCACACACAG
GCACTCCTAGTAAGCTTCCCAACCTACTTAAAGAGTCAGGGCTCCAACAGTTAAGAGGCAGATTA
GGAAACTTCACCCACAATGGCACAGTTCTTAAAACCTCATCATGAAAATGAAAGCTAGAAGACCA
AGGTTTAACAATAGAAGGCTTCCCAAAGAACATATGAGGCCCTGAATACAACACAGAATGCATAT
CTGCAGCAGATTGAAACTTAACAACAAAGTACCCATCATCATGTAAAAAAGCTGAAGGTTTAGAA
ACCTGATTCCATTGTTGGCTAATGAATCTGTAAACAGCAGCTAAA
Found at i:272885 original size:24 final size:24
Alignment explanation
Indices: 272837--272890 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
272827 TAGAAAATGC
272837 TTATTATTCCTACAAAAAGTCTAAG
1 TTATTATTCC-ACAAAAAGTCTAAG
272862 TTATTATTCC-CAAAGAAGTCTAAG
1 TTATTATTCCACAAA-AAGTCTAAG
272886 TTATT
1 TTATT
272891 CAAGTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 4 0.14
24 14 0.50
25 10 0.36
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (24 bp):
TTATTATTCCACAAAAAGTCTAAG
Left flanking sequence: Indices 272337 -- 272836
TATGGTAAATTAGTATATCAAGATATCAATCTGAGATCTTATTTTGGTTCGATACGTCCGCCTAC
GAGACTTACCTTTGGCTTTCGCCTCGGTAGGTGTATTATTATACATTTTCAAAAAAGAACATTCA
TTAATTTCTTTCTTCCTTGTCGACCACAACGTCGGAAACGACGCAAAAAATCCAGATCCATAAAG
ATGAAGGGCCGGTGGTGGGGATTTGGGAAAGTCGGGCCGATCGAGTGTCTTTATTCAAGCGAGGG
TAAAAAAGAAGAACGAAACGAGGTGAGAGGCCGAAGGGCCGGGAAAAGAGTCGAGTCGATCAGGC
TCGACGACCAGAAAAAGCAAACCGAAATCAGGGTTTGGCCAAAAAAGAAGCAACGCTATGGATAC
CATGACCGATCACCATCGATAAAGAAGAATCTTTCTAAATCACTTCGGGTCAGCGGGGCCTCCAA
GCATCCGAAATACGCCGCCGAGGTTGTAAATAACATAGAAAATGC
Right flanking sequence: Indices 272891 -- 273390
CAAGTTATTATTATTATTCCCAAAGAAGTCCCGCTACGGCGGCCCGACAGGTCATCTACCTAAAG
GGGCCTTCCCTGCAGTGCGCCCTTCCTTTAATTATTTGGTCATGCAATACTTATTGAATACAAAG
AACAAAATTCATTTCGATCCCGTCCTAGTTCTCAATCATTTCGTGGCACCGGGCGTGGTTGAACC
ATCCACGATGAAAAGAGCTAATGCGCAGGGAAGAAGCTTAGATAAGAGAATACGTTCTCGCATCG
CTTTTTTTGTGGAAAGCTCGACCAGCGAGAAAAAGTGTTTGGCCGAAGCCAAAAAGAGGTTGACC
CACTTCATTCACCAAGCGAATGATCTTCGCTTCGCGGGAAGAATAAAAACTACCATCTCGCTCTT
TCCTTTCTTCGGTGCTACCTTTTTATTTCCAAGGGATGGAGATAGAGTTTATAAGAACATCTTTT
TTCAAGTTGCCCGGATACAACTCCTAGGTAAATTACGGAGAAAAT
Found at i:295306 original size:16 final size:16
Alignment explanation
Indices: 295285--295317 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
295275 GGTCAACTGG
295285 AATGTGTATTATCCAT
1 AATGTGTATTATCCAT
295301 AATGTGTATTATCCAT
1 AATGTGTATTATCCAT
295317 A
1 A
295318 TAGGGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (16 bp):
AATGTGTATTATCCAT
Left flanking sequence: Indices 294785 -- 295284
TTCGAGTCCTCTTCAAGGCATAATATTGGAATTGGAATAAGTTCGGCAGCGGATCACGAAATCTT
GGTGATCTTCTCTATCTAATGAAAGGGGAGTCCACTTTGAAATCGTCCGCCCGCCCTGCGCCCAC
CCCCCCGAGTATATGCTTCAACAGGAATCGCACAAGGGGAGATTGATACAATAGAAACCTCTGGT
ACTGGTCAAATGCCTGCCCGTAACGTAACTCCGCAGATAAATTACATAGTCCGTTTTAGGGATTG
GCGACTTACCCATTCAGTGACTTTGGCACTGTACGTTCCCAAAATGGGCACTATCGGGTCGGATG
AATTCAATAATAGACACCTGTTGGCATTCCAGCCTTCCCTCTACTTTCAGGGCCTATCCGAAAGA
GAATCCAGTACTTCTTGGTCGTGAATATCTGAATAAATAGGACGAACCAACGGCCCCGTGGATAT
CGTTGCTTCGGAACAAAACAATGAAAATTAGGCTCGGTCAACTGG
Right flanking sequence: Indices 295318 -- 295817
TAGGGTATTTTTTTTCTATTTTATTTAGTTATTCAGTCAAACCAATGATTCGTTATTGGAGCAGA
TAGCAACAACTATTTCATCAGACATGCGTATTTTTGCTTTTCCAATGGATTTACATCTTTCATTA
ATGGAAATTTTTGGATGTAGTAAGTAATAGGCTCTGGTTGTTCGCTGTTCAAGAATTCTTGTTTA
GGCAGTTCATACCATCCATACATAGTGTTTTGATCTAAGATTTCAATTCTTCCATGTTTCAGCAG
TAGCATATTGTTCCATGGAGCTAAGGTCCGAAATATGGAAAAACAAGTGTTTCCACAACTCTACC
ACCCAGTCAATTCGGTTCCACGTAATCCCCCTTTCATGGCCACATATCTTTCCGGCTAAGGAATG
GGAAATCTTTCTCCTCTTGCATGAATCCAATTTTCATTTCATCCGGGAAAAGCCATCTTTTTCTC
AACAATGTCTTTGTCATTTGATCCAATCGTGTTCCGTTAGATAGG
Found at i:295325 original size:16 final size:16
Alignment explanation
Indices: 295285--295326 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
295275 GGTCAACTGG
*
295285 AATGTGTATTATCCAT
1 AATGGGTATTATCCAT
*
295301 AATGTGTATTATCCAT
1 AATGGGTATTATCCAT
295317 -ATAGGGTATT
1 AAT-GGGTATT
295327 TTTTTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 2 0.08
16 22 0.92
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (16 bp):
AATGGGTATTATCCAT
Left flanking sequence: Indices 294785 -- 295284
TTCGAGTCCTCTTCAAGGCATAATATTGGAATTGGAATAAGTTCGGCAGCGGATCACGAAATCTT
GGTGATCTTCTCTATCTAATGAAAGGGGAGTCCACTTTGAAATCGTCCGCCCGCCCTGCGCCCAC
CCCCCCGAGTATATGCTTCAACAGGAATCGCACAAGGGGAGATTGATACAATAGAAACCTCTGGT
ACTGGTCAAATGCCTGCCCGTAACGTAACTCCGCAGATAAATTACATAGTCCGTTTTAGGGATTG
GCGACTTACCCATTCAGTGACTTTGGCACTGTACGTTCCCAAAATGGGCACTATCGGGTCGGATG
AATTCAATAATAGACACCTGTTGGCATTCCAGCCTTCCCTCTACTTTCAGGGCCTATCCGAAAGA
GAATCCAGTACTTCTTGGTCGTGAATATCTGAATAAATAGGACGAACCAACGGCCCCGTGGATAT
CGTTGCTTCGGAACAAAACAATGAAAATTAGGCTCGGTCAACTGG
Right flanking sequence: Indices 295327 -- 295826
TTTTTTCTATTTTATTTAGTTATTCAGTCAAACCAATGATTCGTTATTGGAGCAGATAGCAACAA
CTATTTCATCAGACATGCGTATTTTTGCTTTTCCAATGGATTTACATCTTTCATTAATGGAAATT
TTTGGATGTAGTAAGTAATAGGCTCTGGTTGTTCGCTGTTCAAGAATTCTTGTTTAGGCAGTTCA
TACCATCCATACATAGTGTTTTGATCTAAGATTTCAATTCTTCCATGTTTCAGCAGTAGCATATT
GTTCCATGGAGCTAAGGTCCGAAATATGGAAAAACAAGTGTTTCCACAACTCTACCACCCAGTCA
ATTCGGTTCCACGTAATCCCCCTTTCATGGCCACATATCTTTCCGGCTAAGGAATGGGAAATCTT
TCTCCTCTTGCATGAATCCAATTTTCATTTCATCCGGGAAAAGCCATCTTTTTCTCAACAATGTC
TTTGTCATTTGATCCAATCGTGTTCCGTTAGATAGGAACAGATTT
Found at i:297507 original size:18 final size:18
Alignment explanation
Indices: 297486--297524 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
297476 GTCACAATCG
297486 ATATCGTCACTAGCATCA
1 ATATCGTCACTAGCATCA
297504 ATATCGTCACTAGCATCA
1 ATATCGTCACTAGCATCA
297522 ATA
1 ATA
297525 AGAGAACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (18 bp):
ATATCGTCACTAGCATCA
Left flanking sequence: Indices 296986 -- 297485
CCGATAGGGCCTCATTGATAAGTGCTACAAGATCTCGTACATTGGAACCCATGGTTATGGTTATG
GACCCGAATCCATTAGTATGGAACATTTTCTTTTCCAAGTGAAATCCCCTAGTATATGAAAGAGT
GAAAAAGTGCTTTCGTTGTTGTGGAATACGAAGCCTTCGTATCTTAATGCATGTATTGAATTGAT
TCGGAGCTATTAGAGCGGGATCCACTTTTTGAGGAATATGAGTCGAAGCAATAACAAGAATATTT
CTAGTAGACCATCTTTCACAATCCCTGGAGAGATAGTTCACTAATAGACCGAGGGATAAGTAATT
CGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTTTTG
CTACTTCGAATTGAAGGGTGATAGAAAATTGGTCGATTTCCGGCATCATATCTATAGTTAGCGCA
TTCATCCTAGTTAGCAGCTCCAGCTCCGTATCAAGGTCACAATCG
Right flanking sequence: Indices 297525 -- 298024
AGAGAACCTTGAGACTTGTTATCCAGGAAGTTGTTCAGAAATACCGTAATAAAAGGAACATAGGA
GTTTGTCGCTAGGTATTTGACCAAATAGGATCGTCCAGTTCCTATAGAACCTATTACTAAAATAC
CTCTAGAGGGGGGTAGGGATAAGCGGAGCGAAAAAGGTTTTCCATGAGATGGGAAATGAAAACTA
TTAGCCCCACACGGGGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGAATACTCGTCTTTC
TGCTAAACAAGATGTATTGAACTCATAATTCATTAGATACTTTTTATGAATGTCAACTAAGTATC
GTAAGTAAATTGCTCCCGGTTGTTCAATCATTTGATAACCAGAGTCATTCTTTGATAAATGATCA
CTATGAGTCAGACTCAATAGAATTTGATCAATCCTTTTTTCGGTCGTTAAAGTGGAGAACTGAAC
CAAGAATTCTCTTTCTTCATCATCAATCGAATCACTGCTCGCGAC
Found at i:298189 original size:9 final size:9
Alignment explanation
Indices: 298175--298200 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
298165 TACTTCTGAA
298175 ATCGATGAT
1 ATCGATGAT
298184 ATCGATGAT
1 ATCGATGAT
298193 ATCGATGA
1 ATCGATGA
298201 GATTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (9 bp):
ATCGATGAT
Left flanking sequence: Indices 297675 -- 298174
AAGCGGAGCGAAAAAGGTTTTCCATGAGATGGGAAATGAAAACTATTAGCCCCACACGGGGTTTG
TGAATAAGTGATTGTCTGATAATGAGCAAGGAATACTCGTCTTTCTGCTAAACAAGATGTATTGA
ACTCATAATTCATTAGATACTTTTTATGAATGTCAACTAAGTATCGTAAGTAAATTGCTCCCGGT
TGTTCAATCATTTGATAACCAGAGTCATTCTTTGATAAATGATCACTATGAGTCAGACTCAATAG
AATTTGATCAATCCTTTTTTCGGTCGTTAAAGTGGAGAACTGAACCAAGAATTCTCTTTCTTCAT
CATCAATCGAATCACTGCTCGCGACCCAGGATTCTATTTTCTCATCAATCCAATCACCGTTCACC
CTTTTTCTTTTTCTTATCAATGAATAGATCTCTTTACTTGTATGACTTAGATGTATCGTATTTCT
CGAAAAAGTGATTCGATTGATGGGATTTGGTATGATACTTCTGAA
Right flanking sequence: Indices 298201 -- 298700
GATTAATATTCAAATCTTCTTTCTTAGAATTGAACCCATAAACGGAACCACCACCCACTAGCATG
TTGTCGCCAGAAGCAGAACCCCATATTTCTTCTAGGAAATCTCCTAATTGTTCCCCTAATTGTTT
CAAAGCAACCAAAAAGAGATTCTTTAAGGAATTCGGTTCCGATGTAGGATACCTATCCAGAAGTT
TTCGAAACTCAATCATGTATGCTGGAATCATCCAACATTTGACCTTTTCGAACTCTGTCTGTAAC
TCACTAGAGGCTCGGAAAAAAAAGAGAAGATGTGTACGAACGAGATATCCAGCAACAAGAAGAAG
GAAAAGGATTGAATAGAAGAACTCCCGAACATTTGGCGATCCCAGATGTGTCCATATCAATGGTG
ACTCATTATTTCGATGAATCTTTTCTTCGGACAGAAGAAGATTATGTAAACACTTACTCGAAATC
TCACTTATCAGATTCCATTGTGTCTTCCACAATTTTTTCTGAAGA
Found at i:307579 original size:17 final size:17
Alignment explanation
Indices: 307557--307590 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
307547 GTAAAGGCAT
307557 ATGTAGTTGC-TTATGTA
1 ATGTAG-TGCTTTATGTA
307574 ATGTAGTGCTTTATGTA
1 ATGTAGTGCTTTATGTA
307591 GTAGTAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.47
Consensus pattern (17 bp):
ATGTAGTGCTTTATGTA
Left flanking sequence: Indices 307057 -- 307556
TCTATAAATGGAGGCTCGATAAGTGTCTTCACTTCATCAAATTCAAATCAAAGAAATTGAGTACT
AGCACGTATGGCTATGGATGCTGCTGCAAACAGGCTTTATGCAATTGCTGCCGAAATGGGGTGGG
GCAACTGCAAAATGCAATTCAAGAGCACCGTAGAGTGCTAAACTTCCTTTTGAGAAGTGTTAGAA
CAACAATAGATCCTGCAAGGAAAGAAGCGCGCATTCGCGCTACCAGAGAGCGCATAGAAGAGGGT
TTGGAGAGGAGGCAGCAAGCGCTGCGGGCGGAGCAGGAAGACCTAATTGTGCGTGCTGTCACCCG
CGGTCGCCGGGGAGACTAGAATAGAAGAGCCCATCGACTTTTCTATTAGAATAAATTTCTAAAAG
TAGTGACTTTATTTTCTGTCTACTTGTGTTGGCCTATCCTTTTACTTCTTTATGTTTTTTAAATA
ATTAATGTAGTTAGCATAATGCTTTTAAAGCGCTAGTAAAGGCAT
Right flanking sequence: Indices 307591 -- 308090
GTAGTAATGAATAAATCTTTTGGATAAATGTTTTTTCTCTACAGGCCTCTTTGAATCCTTTCAAT
CCATATTTCTTTTTGGAATGCTCAAAATTATACTTGAGCATCTAAATCTGGGCCACTACCAGCAA
AAACATCTCTGAACAAGGTTCGAGACCCATGCCAAATGTGTCCGAAAAAGAAGAGTAGTGCAAAG
GAAGCATGTCCAAAAGTAAACCAACCCCTCGGACTACTACGAAAAACACCATCTGATTTCAAAGT
AGCACGGTCTAATTCGAAAATTTCACCCAATTGAGCACGTCTAGCATATTTTTTCACAGCAGCAG
GATCGCTATAACTGACTCCGTTGAGTTCGTCGCCTATAACTCCACTTGACGAAGAGAAGGTATTC
ATTAATAATCATCGAAGGCATACTGATACCGAGAGTCAAGGTAAAAAGTCTCCGGGTTAGAGTCA
CCCAGAAAGCAAACCGGGAAGGCATAGAGTGTCCGGGTGTTGTGA
Found at i:321440 original size:15 final size:15
Alignment explanation
Indices: 321420--321449 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
321410 CTTGGAACTC
*
321420 TTCCTATCCGAGTAG
1 TTCCTATCCCAGTAG
321435 TTCCTATCCCAGTAG
1 TTCCTATCCCAGTAG
321450 GTAGTAGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (15 bp):
TTCCTATCCCAGTAG
Left flanking sequence: Indices 320920 -- 321419
GAAGGCGTAGATACAGATACAGATAGGGCTCTTTCTCGAGTTTCTTCCCTTGATTTAGTGAAGGA
GATGGCTAGGAGAAGGCTCTGTCTCTAGTGAATTCCCGTAGTGCGTGTCTGCCCAGATGTGAGTG
ACCTACCTCAGTCGAGAGAGAGATCCCGCTATTGATTATGAATTCCAAGGAATTATTATCGATTA
GCGCTTGTGCTAAGGAGTGAAACCGAGGGAAATCACACTTTATGCCAAAAACGATTCGAGTTTTG
ATCCCACCCAAATTCAATTGAGGCCAAAAATACGCTGTTTCCTAGTTCGATCTCTTTTTTCTGTC
AGTCACCGGTCGGAATCCGTTTTTTAGGCGAAAAAATACGCGGTTTCATAGCTCGATTTTACTAC
GGGACTTTCTGGATGTTTAAGTATCCCACTAATCTATTCCTACAGTAAACAACAAGCTGTCTGCT
AGCCCAGAGTGGAGGAGAGAGATCCAATTAGCTTACTTGGAACTC
Right flanking sequence: Indices 321450 -- 321949
GTAGTAGGAAGCCAAGCAAGGATAAGAGAGAGATCCTATGGTTAGGCCAGTTAGTTAATGCTGGA
AGGTTATAGAAGACGAAAACGATGGATGTCCTAAGTGACAATGCCATCGGAAAATAGACTCTTTA
TTCGGACTAGCACACGAGGGCGTTAAGCTTACTAACACTAATAAGAAGAAGAACCCTTATTATTA
GATAGAGAAAGGGGATAGAGAATATCAATGCTATATGATTGACCATGAACTTTCTTACCTCACTT
GCGGTTCTCTAAGGTCTTCCAAAAGGCTGATTGAAGGTTAGGTTAGATAAAGAAAGATAAGAATA
GAATGGATGAGGTAGTTCTTTCTTCCTACTGGTAGGGTTAGATCAAGATAGACTGCGTTAGAAGC
CATTAGAAGTAGCCCTCTCTTGCTATTAGCTCCTGTAGCTAAGCGAACCCAAGCTAATCTCTTTC
CTGTAGGAGTCAGCATTCCCTGTGCTGGTAGTGGCATAAGGACTA
Found at i:336454 original size:18 final size:18
Alignment explanation
Indices: 336431--336465 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
336421 CGTTGAACTT
336431 AGTCTATCAACGCTACTG
1 AGTCTATCAACGCTACTG
336449 AGTCTATCAACGCTACT
1 AGTCTATCAACGCTACT
336466 TCAGTCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (18 bp):
AGTCTATCAACGCTACTG
Left flanking sequence: Indices 335931 -- 336430
CAATCAACCACACTGATGACATTCCACCCCCCAGAAACCCTAGGTAGACAGACTTGATTCCAAGC
TACTGGGGCTTTCTTAGAAGGGTTAGCCTGCCCAGTCCACAAAAACACTCTACAACTGGCTTGTT
TAAGAATCTTTTTTGGCAGGAGAAAGATTTGAGTCCAATAAGTCTGCATACCAAAAAGGACACTC
TTCACCAACTGTAACCTGCCAGCATAAGAGAGATATCTTGTAGTCCAACACCTAATTCTACACAA
AATCTTTTCAAGCAGAGGTTTACAATCAACAATTGAAAGCTTTTTAGAAGTGAGAGGCACTCCCA
AGTATCTGAAAGGTAATGTCCCCTCAGGGATGGGCAGAACATGTTGGATACAAGCCTGAGTAGTA
CCATTAACACCTCCAAAATAGACTGAACTTTTGTCAAGTCTTCGCCCCCGCCGTCTCTACTATAC
GTCGATCTTTGAACTGGCGTCTATACTAGACTTGTCGTTGAACTT
Right flanking sequence: Indices 336466 -- 336965
TCAGTCTTTGAACCTAGCATAGCCTATATTACTTCTTTCTTTCCCGACGCATATACTATACTTGG
GACTTCGAACCTGCTCCTATCTTAGTTATTCAGCTCTGCTAAATTCTAACTGAGTCTATCTGACT
TATGAAGCAGCCCTAATGCCCTTGTGTCTGGCTGGTTTTTATCCTACGTTCTTCTATCAACTCTA
CAGCAGTCTTCAAATCTGAGTCTTACGCCGCTATTCAGCTCTGCGCCACTGAGTCTATCAACCGC
TACTTCAGTCCTTGAAACTGAGTCGTAAGACGACGTTATTCAGCTCTACTAAACTGAGTCTATCG
CCTCAGTCCTTGAACCTTAGCTGCTCATCATAAAGGGCGCGGCTCTATATGAGGTTCGTACTGCA
GAGCAAGCGAAGAAAACGTAAGGGCGCGCGTTAGCACTCCTGCAAGAAAACGAAAACTAAGTTTC
CTCCGCCGCATAGTCGTTGCTCTTCAAACCTTGCCTTAAAGCCTT
Found at i:353629 original size:28 final size:28
Alignment explanation
Indices: 353597--353654 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
353587 AACATTCGAT
* *
353597 CCATAAGCTTCGCATAAGCGATTCCATA
1 CCATAAGCTTCGCATAAGCGACTACATA
353625 CCATAAGCTTCGCATAAGCGACTACATA
1 CCATAAGCTTCGCATAAGCGACTACATA
353653 CC
1 CC
353655 TCGTCAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.22
Consensus pattern (28 bp):
CCATAAGCTTCGCATAAGCGACTACATA
Left flanking sequence: Indices 353097 -- 353596
TTTCATTACCTTCTCCTCGGTCCGCAGTGTTCCGTTAGATAGGAACAGATTTGAGAAATACTTCG
AACTCTCGGATAAAGTATTAGAACGGAAAGATCCATTCGATTGGTTCTAAGCCATCTCTGGATCG
AAGACCTGAGTCGAAAGACGCTGGAGATTAATCAACAATTCAAAGTGTTGATAAAACATCCTTTA
TATATAGATGTAGGAGAATCCATTTGGGGAGTAAGAATCCCCTTTGACATCTCTTCATCTGCAAA
GAATTCTCGAAGTCCTCAGCATAGAGTATACTAAGATCTTCGATCCAGAGTCTTAAGGTCTCACA
TTCGATTAGGACAAGCAGTGGCCACTATATAAGAACAGAGACACAAGCTCTAGTCATTAGACAAT
CACTTGACTTTAACTGATAGCATTGAATGGGGAGCATGAAAGCAGAGAGGGAACACTTTCTTCGC
GGCGGGTTCAGAATGCTGGATGATAAAAATGAGTAAACATTCGAT
Right flanking sequence: Indices 353655 -- 354154
TCGTCAAAGTGGATAGGAAAGAGAGTGACTCTTGGTAAGAAAAGAGGCAAAGCTCCTTCATGCAG
GCAAGAGCGAGTAAAGCAAGCCATATTCTTTCCTTAGTCTTACGACTAAGATCTGCGAACCATAC
TTGGAGCAGGACTGACATTCTTATGAATGAGTCCAACTGAAGCTTCCCATATAAGCAACTCTAAT
AAAGAAGTCATTATTCAATTAATCAATTACCTCTACTTCTCAACTGACCTTCTTTAAGAGGGGGA
GCGCTCTCTAAGCGTTAGTAATGCGAGGCTTTACTGAAAAGAAAGCTCAATCCCAACTCTCGAAT
CTGGTAAAATAAAAGGCACTTATACTCCATGATATGGCACTGATTGCAGATGGGCATTCAATTGG
ATCTTTCTCTTTCCTGACTCTTAGGTTAGAATATCAGAGTCGTAAGACTCTGGAGTCAGATCCTT
GAACCTTAGTCTAGCAACTAAGCTCTTCGAACCTTAATCGGAAGA
Found at i:395192 original size:9 final size:9
Alignment explanation
Indices: 395178--395202 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
395168 TTCCTTCTAC
395178 TGAAGTTAT
1 TGAAGTTAT
395187 TGAAGTTAT
1 TGAAGTTAT
395196 TGAAGTT
1 TGAAGTT
395203 TCTGCAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (9 bp):
TGAAGTTAT
Left flanking sequence: Indices 394678 -- 395177
CCGTTCTATTCCTGAAGGGAATAGAGTCAGAGGGTTCCCCTGTTGTTGTTAATATAGCTAATGCA
GTTCTTGAAGTTTATGTAGCTTTTGAAGCTATTGGAGCTAATTCGGCTATTGAAGCCAATGCAGT
TTCTGCAGTTCCTGCAGTTCTTGAAGTTTTTGAAGAAGTTCCTGAGGTTCTTGCAGCTGTTTGAA
CTGATGAAGCTCTTGAAGCTTTTGGGGCTATTGGAGATGTTGGAACCGTTGAAGCTGTTAGAGCT
GTTGAAGTTTTTGAAGTTTCTGTAACCATTGAAGCTAGTTCAGCTATTGGGGCAGCTGTTGGAGC
AGTTGTTGAAACTATTGGAACTGTTGTTGAAGCGGTAGCTATCCCTTGTCCCTATTAGGGAGGAC
TGCCTCTTTCCCTTAGGGCCTTTCTCTTTATTTAGGACTTGGCCTTCTTGCCTTCCCTACGAACC
TATCGTTCTATCTCCCGAAGGTTATGGAGACAGGGTTCCTTCTAC
Right flanking sequence: Indices 395203 -- 395702
TCTGCAGTTTTTGATTTGAAGTTCTTGCAGTTCTTGGAGCGGTTGGAACTGTTGTTGAAACTGCT
GGAGCCGTTGTTGGAGCTGATGGAGCCGTTGAAGTTGGAGTTATTCCTTAACCTTAGGGACTGGC
TGCCTTAACCTCCTTACTTTCTTAGGACTTTTGCCGCTCTATCTCCCGACAAGGAATGGAGTAGG
GCTCGACGAAGAGGCAAGCCAATAGACGCAGGGGTCTCACAGTTTTTCTTTTTCGGAATAAGGAC
TATATGAGTATGATTCAAGCTGCCAATGTTACCCCCATTATGAAATATATTCAGAGCCAAAGAGA
GAACATCACCTCCCACTATGTCCCAAAAATGTTGATAAAAAAGAGCGGGCATACCGGGCCCGGGG
CCTTAGTTGGGTGCATTTGAAAGAGGGCTTCCCGAACCTCCTCACCATTAAGCGGAGCTGTCAAC
GAGGCTGCTATATCCACCGAAATGATCGTCTCAACCACCTCTAGC
Found at i:395277 original size:21 final size:21
Alignment explanation
Indices: 395253--395298 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
395243 GGTTGGAACT
*
395253 GTTGTTGAAACTGCTGGAGCC
1 GTTGTTGAAACTGATGGAGCC
* *
395274 GTTGTTGGAGCTGATGGAGCC
1 GTTGTTGAAACTGATGGAGCC
395295 GTTG
1 GTTG
395299 AAGTTGGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.39, T:0.30
Consensus pattern (21 bp):
GTTGTTGAAACTGATGGAGCC
Left flanking sequence: Indices 394753 -- 395252
TTTATGTAGCTTTTGAAGCTATTGGAGCTAATTCGGCTATTGAAGCCAATGCAGTTTCTGCAGTT
CCTGCAGTTCTTGAAGTTTTTGAAGAAGTTCCTGAGGTTCTTGCAGCTGTTTGAACTGATGAAGC
TCTTGAAGCTTTTGGGGCTATTGGAGATGTTGGAACCGTTGAAGCTGTTAGAGCTGTTGAAGTTT
TTGAAGTTTCTGTAACCATTGAAGCTAGTTCAGCTATTGGGGCAGCTGTTGGAGCAGTTGTTGAA
ACTATTGGAACTGTTGTTGAAGCGGTAGCTATCCCTTGTCCCTATTAGGGAGGACTGCCTCTTTC
CCTTAGGGCCTTTCTCTTTATTTAGGACTTGGCCTTCTTGCCTTCCCTACGAACCTATCGTTCTA
TCTCCCGAAGGTTATGGAGACAGGGTTCCTTCTACTGAAGTTATTGAAGTTATTGAAGTTTCTGC
AGTTTTTGATTTGAAGTTCTTGCAGTTCTTGGAGCGGTTGGAACT
Right flanking sequence: Indices 395299 -- 395798
AAGTTGGAGTTATTCCTTAACCTTAGGGACTGGCTGCCTTAACCTCCTTACTTTCTTAGGACTTT
TGCCGCTCTATCTCCCGACAAGGAATGGAGTAGGGCTCGACGAAGAGGCAAGCCAATAGACGCAG
GGGTCTCACAGTTTTTCTTTTTCGGAATAAGGACTATATGAGTATGATTCAAGCTGCCAATGTTA
CCCCCATTATGAAATATATTCAGAGCCAAAGAGAGAACATCACCTCCCACTATGTCCCAAAAATG
TTGATAAAAAAGAGCGGGCATACCGGGCCCGGGGCCTTAGTTGGGTGCATTTGAAAGAGGGCTTC
CCGAACCTCCTCACCATTAAGCGGAGCTGTCAACGAGGCTGCTATATCCACCGAAATGATCGTCT
CAACCACCTCTAGCACTGGCTGTGTTTCTACATTCAACCTGAAGCAAAAAGATTGCTAAAATAAT
TTACAAAGACACCTGCAATATTCTCCTCTTCTTCATAAAGCCAGC
Found at i:398000 original size:38 final size:38
Alignment explanation
Indices: 397944--398034 Score: 155
Period size: 38 Copynumber: 2.4 Consensus size: 38
397934 CTTATTTCAA
*
397944 CTATAGTATAGGGCGTTCTTATTGAACACAAAAATCTAT
1 CTATAG-ATAGGGTGTTCTTATTGAACACAAAAATCTAT
397983 CTATAGATAGGGTGTTCTTATTGAACACAAAAATCTAT
1 CTATAGATAGGGTGTTCTTATTGAACACAAAAATCTAT
*
398021 CTATAGGTAGGGTG
1 CTATAGATAGGGTG
398035 GATTTGAGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 44 0.88
39 6 0.12
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (38 bp):
CTATAGATAGGGTGTTCTTATTGAACACAAAAATCTAT
Left flanking sequence: Indices 397444 -- 397943
AAGCCCAAAATGGCATAACCAAATAATTGCTTTGCCAATGACGGATTTCGCGCCACGGACTGGAT
CAAAGAACTGAAAACATTTCCAATACCGATAGCAGCTCCCGCTGAAGCAATTGTAGCAGCTCCGG
CACCCATTGATTTTGCACCTTCTAACATAATTAAGTCGATCATTCACCCTTAGCCTTCTCCTTCT
CCGCAGCTGTTTCAGTCTCATTTCCTTCATCCCGAGGCGGATATGGCACAGGCCGAATTCGAGTG
CCTGGCCATCCATATTCAATGAAATACAAGAAACCCAACGTGTGACCTTTGGTTTCATTGAACCC
AAGTGTCTCTTTCACTATCCGTTGGTTCGTCCGAAGGCCATAAGCCCAGACTATGAGAAACAAAA
AACAAATAAGTAGAAAAATCAATTGCTCTCCTTTGAAAGCTCTTTCAATAAACTCTAAAAAGTCT
ATCATAGGGAGGGTACGGTAAGCAGGCAAGGTACTCTTATTTCAA
Right flanking sequence: Indices 398035 -- 398534
GATTTGAGTTTTAGCAAGGGAACAAAATAAATAACTATATATAAATAGAATATACGTCGTTATTT
TCTATTCGTCATTCTTTGTCGATTCTTCCCCTCTTCTTATAACTAACAATTTTTTGTTTTAGAAC
AAACTGGGCGTACTACTTCTCTTCTCCACCTTCTGTGGACCTTGATTCTCTTAACGGATTTATGA
GAGAAGAAAGCCAAGTCCAAGTCCTCTCTTCCTGTAGTTCCTGTAAGCCAAGGAAGAATGATCAG
TCCTATTTACTTACCTGCAAACCCTATGAAGGAAGGAGGTTCCTCTAGCTGTTTTCTTTGTCTAA
GTCCTGTTAGTCTGATATGGGTAGTGACTACGTCCTGTAATAACTCTCGATAATAAGTTCTATCT
ATAGTCCTCCTTAGGATTAGGACTAAACCTCTTGAAAAACTTCTTCCCGGATTCCTAAAGTAAGT
AAGAAAAACCCTCTCCACTCCTTAAGCTTCGCATAAGCGACTACG
Found at i:443947 original size:28 final size:28
Alignment explanation
Indices: 443903--443996 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 28
443893 CTTTACTTCC
443903 CTTCG-CCTCTTAGTCTATCAACGTCGCT
1 CTTCGACC-CTTAGTCTATCAACGTCGCT
* * * *
443931 CTTCGTCCCTTACTCTAACAA-GATCGAT
1 CTTCGACCCTTAGTCTATCAACG-TCGCT
*
443959 CTTCGAACC-TAGTCTATCAAC-TCAGCT
1 CTTCGACCCTTAGTCTATCAACGTC-GCT
443986 CTTCGACCCTT
1 CTTCGACCCTT
443997 GGCTTCTGAT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
26 2 0.04
27 20 0.38
28 28 0.54
29 2 0.04
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (28 bp):
CTTCGACCCTTAGTCTATCAACGTCGCT
Left flanking sequence: Indices 443403 -- 443902
TTCAATGTAGCCTTAACTACTACTACATTACGCAAGCTCCACCAATACCTATCGCGAAAGCGTAC
TCAGCGTCCATCTGGAGTCAAAGTTCCTGGTGAATACGGAATGGCGAGTGGTTTGGTTCCGTTTC
AATTTCCTAGACTTACAAAAGAGAATTGTGAGAATTGGGCAATTAGAGCCTTGCTAGGATCACAA
GATGCTTGGGAGATAGTTGAGAAAGGTTATGTAAAGCCAGAAGATGAAACTTCTTTACCCACTCA
GAGGGGGGGGATACCTTGCAAAAGGCTAGGAAGAAGGGCTTTAGTTAGGCAGCGAATCTTCATTG
AAGTGATGTTAGCTAGGTCCTTTCCTCAAGCCAGTCTTGAAGCAGGAAGTGTTGTACCTTGAAGG
TATGTCCTGGTATTTTGACTTGACCTCATATCATATACTTATTACTGTTCTCTAGAAGGTCAGCC
AGCCGGCTTGGTTGTTGAGGAGAGATTTTCTTTGACTTTACTTCC
Right flanking sequence: Indices 443997 -- 444496
GGCTTCTGATGGGGGATTTCAATTCTGTGCTCTCTAGTGATGATAGACTTGGGAGTGCAGTTACC
ACTGCTGAGACATAGGACTTCCAAGAATGTATCATGCTCTCAGACTTGATCCAACTGAAATGCAT
AGGACATTCTTACTCCTGGAATAGTAAAGGGTTGGGTGATGGTAGGGTTCACAGCAGAATTGATT
GGAGTTGGGGTAATAGCAGTTGGATGGGGCTATATGGCTCTGCCACTGTTGATTATCTTAATCAT
TCTATTTCTGATCATACTCCTCTCCTGTTTCAAGTTGGAGGGTCTAAGAAGTATGGTGGTAAGCC
TTTTCAATTCTTCAATCATTTGGCCGATCACCCCTCCTTTGAAAGCTTGGTTAAGGAAGCTTGGG
AGGGGAGTTCTAGCTCTTCTCCTATGCAGAAACTCTGGACTAAGCTACAACATGCTAAGCAGCTG
TTGAAGGACTTGCATCATAAGGATTTTTCTGCTGCTCAACAGAGA
Found at i:454991 original size:32 final size:32
Alignment explanation
Indices: 454944--455138 Score: 381
Period size: 32 Copynumber: 6.1 Consensus size: 32
454934 CGCAATTGCA
454944 GGTAATGCCAATTCACTTACTTGGAACAAGTAT
1 GGTAATG-CAATTCACTTACTTGGAACAAGTAT
454977 GGTAATGCAATTCACTTACTTGGAACAAGTAT
1 GGTAATGCAATTCACTTACTTGGAACAAGTAT
455009 GGTAATGCAATTCACTTACTTGGAACAAGTAT
1 GGTAATGCAATTCACTTACTTGGAACAAGTAT
455041 GGTAATGCAATTCACTTACTTGGAACAAGTAT
1 GGTAATGCAATTCACTTACTTGGAACAAGTAT
455073 GGTAATGCAATTCACTTACTTGGAACAAGTAT
1 GGTAATGCAATTCACTTACTTGGAACAAGTAT
455105 GGTAATGCAATTCACTTACTTGGAACAAGTAT
1 GGTAATGCAATTCACTTACTTGGAACAAGTAT
455137 GG
1 GG
455139 AGCGGAGCGT
Statistics
Matches: 162, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
32 155 0.96
33 7 0.04
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (32 bp):
GGTAATGCAATTCACTTACTTGGAACAAGTAT
Left flanking sequence: Indices 454444 -- 454943
GTTGTGTTAAGAACGAGCTATGGTAGGACAGACTCACTTTTTGACGAAATAACGAGGCAGATTCG
ATCCAGCCAAAAGTGTCCCTTCGGCTACCTTGTTCCATCAATGACCCTCGGTCAACTCACTCTCT
ACCGTCTAGTGACTCAATGAAGGAATTCATGGATGACCCATTTAGTGAAATTTTTGATTTGTCTT
TTCATAGAAAAAAGTCCGGAAATAAATAAGGGCGAAAGAGATTCTTCCCTAAGAGCTTGTCCAGT
ACCATCTATACCTAAAATGAAAAAACACTTCTTAGGCGGGGGCAGGATTCGAACCTGCAATCTTC
AGGGCATGAGCCTAATGAGTTTTCCAATTACTCTACCCCGCTTCTTCTCTTTCTTTCCCTATTCT
CACCTAGGTCCCCGGCTTTGGTTGCTTGGCCGGGGTAGAGGTGGTAGTAATTGCGAATGAGCAAG
TAGGGGGCGGCAACTCAAGAGGTAGCGAGACTGACCGCAATTGCA
Right flanking sequence: Indices 455139 -- 455638
AGCGGAGCGTTGACTTTCTTTCATTTTGGTTATGGAAAGTGAAAGTAGTTTCGTTTAGTACGAGA
TCGCTTCACACCTCGCGGTGCTTACACCTCTCGCCTATCGAAGTTCTGTTCAAAAACCTCGTCCG
AGAACTTGTATAGAGAAGGATTTCCCGCGGCGCAGCAGTTCTTCCATACCAACTTAGCTGCCCGG
CGCTGCTATTGGCATAACAACCGGTACACCATAGGTTGGCCCAACCCAGTCCTCTCGTACTAGGG
TTGGCTCCTCGCAGTTCTCCCTTTAACACCAACGGTAGATAGGAACCGAACTGTCTCACGACGTT
CTAAACCCAACTCACGTACCACTTGAATCGGCGAACAACCGAACCCTTGGGACCTTCTTCAACCC
CAGGATGTGATGAGTCGACATCGAGGTGCCAAACGACTCCGTCGATAAGAGCTCTTGGGAGTCAT
CAGCCTGTTATCCCCGGCGTACCTTTGATCCGTTGAGCGAGAGCC
Found at i:456506 original size:18 final size:18
Alignment explanation
Indices: 456483--456525 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
456473 CGCCCTTGTT
456483 GACTATGACAACAG-TCGC
1 GACTATGA-AACAGATCGC
456501 GACTAT-AAACAGACTCGC
1 GACTATGAAACAGA-TCGC
456519 GACTATG
1 GACTATG
456526 GTAGGTTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.19
Consensus pattern (18 bp):
GACTATGAAACAGATCGC
Left flanking sequence: Indices 455983 -- 456482
CGTCTAGCCGTTGGTACTCCGCATCTTCACGGAGAATTCAATTTCACCGGGTCCATGTCGGAGAC
AGCGGGGCAGTCGTTACACCATTCGTGCAGGTCGCTACTTATGCGACAAGGAATTTCGCTACCTT
AGGACAGTTAGAGTTACTGCCGCCGTTTACTGGGGCTTCCATTCAAAGCTTATAACACTTTTCCT
TCCGACCTTCCAGCACCGGGCAGGTGTCAGACTCTATACATCGTGTTACCACTTAGCAGAGTCCT
GTGTTTTTAATAAACAGTCGCTACCCCCTGGTATGTGCCGCTTTCCTAATCAAAAGATAGGAGAG
CACCCCTTCTCCCGAAGTTACGGGGTCATTTTGCCGAGTTCCTTCGACATGGTTCTCTCAAGCGC
CCTAGTATACTCTACTTGTTCACCTGTGTCGGTTTGGGGTACGGTCAGTTCACCGGGAGGATCGC
CCTCCCAATTCGAAGTTTTTTCCTGGAAGCCTAAACGCCCTTGTT
Right flanking sequence: Indices 456526 -- 457025
GTAGGTTCTGCTTGCTGAAACCTCTACTCGACTAAAGGCCCCTTCGTCTATCAACGTTATTCAGC
TCTTCGCCTCTTCGCCTATCGGCTCAGCGCGTCCGCCTCTGAGTCTATCGCCTCAGTCTTTCGAA
CCTGGTTCTATCAAACCAGACACTTCATCCAGCCCCTTGAGCTGACATCAGCTCAAGCTCGAGCA
CTGAAATGAGAAAGGCTTGTAGACTCGTAAGGCGAAGGAACTCGACTACTTGCTTACTTGAATGA
GTAAGGTAATGCCAATTCACTTACTTGAACAAGTAAGGTAATTCCTATTTGCTTACTCGTTAGAG
TATGGTAATGCAATTCACTTACTTGGAACAAGTATGGATGAACGACACATTCTAAAACTAAAGCG
CACACTATAAAGTGCTTCGAAAGGTGTCAGCAGGTGCGCGGAGCCGGAGCCCGGCATGTTCGCCC
GCTGGGCCGAGTGTTCGCCCACTGATCAGTCTTCGCCTTTAGATA
Found at i:456813 original size:32 final size:32
Alignment explanation
Indices: 456773--456875 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
456763 CGACTACTTG
456773 CTTACTTGAATGAGTAAGGTAATGCCAATTCA
1 CTTACTTGAATGAGTAAGGTAATGCCAATTCA
** * * **
456805 CTTACTTGAACAAGTAAGGTAATTCCTATTTG
1 CTTACTTGAATGAGTAAGGTAATGCCAATTCA
* * *
456837 CTTACTCG-TTAGAGTATGGTAATG-CAATTCA
1 CTTACTTGAAT-GAGTAAGGTAATGCCAATTCA
456868 CTTACTTG
1 CTTACTTG
456876 GAACAAGTAT
Statistics
Matches: 54, Mismatches: 16, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
31 11 0.20
32 43 0.80
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (32 bp):
CTTACTTGAATGAGTAAGGTAATGCCAATTCA
Left flanking sequence: Indices 456273 -- 456772
GTATGTGCCGCTTTCCTAATCAAAAGATAGGAGAGCACCCCTTCTCCCGAAGTTACGGGGTCATT
TTGCCGAGTTCCTTCGACATGGTTCTCTCAAGCGCCCTAGTATACTCTACTTGTTCACCTGTGTC
GGTTTGGGGTACGGTCAGTTCACCGGGAGGATCGCCCTCCCAATTCGAAGTTTTTTCCTGGAAGC
CTAAACGCCCTTGTTGACTATGACAACAGTCGCGACTATAAACAGACTCGCGACTATGGTAGGTT
CTGCTTGCTGAAACCTCTACTCGACTAAAGGCCCCTTCGTCTATCAACGTTATTCAGCTCTTCGC
CTCTTCGCCTATCGGCTCAGCGCGTCCGCCTCTGAGTCTATCGCCTCAGTCTTTCGAACCTGGTT
CTATCAAACCAGACACTTCATCCAGCCCCTTGAGCTGACATCAGCTCAAGCTCGAGCACTGAAAT
GAGAAAGGCTTGTAGACTCGTAAGGCGAAGGAACTCGACTACTTG
Right flanking sequence: Indices 456876 -- 457375
GAACAAGTATGGATGAACGACACATTCTAAAACTAAAGCGCACACTATAAAGTGCTTCGAAAGGT
GTCAGCAGGTGCGCGGAGCCGGAGCCCGGCATGTTCGCCCGCTGGGCCGAGTGTTCGCCCACTGA
TCAGTCTTCGCCTTTAGATAACAAAAAGTGTCCGCCTCCGACCTTAGCATATACTATACTATAAG
TCTCTCTTCGAACCTAGTCTATACTAGACTTGTCTTTGAACCTTACTCTAACAAGTAAGCAAGTA
GAAACTACCTTTTGAAGCGCCAGTCGCGTAGGGCGACCGGGCCAGGCCAAGTCAGAAAGGCTTTG
ATGACTCAAGGTTCATATTAGGGAAAGGAGAGTGAGGGGAAGAGGCGACGAGAGTCGGCCCGATC
ATCCAATTCGCTCCAACAGACAGGCATGGTTCTGTAGTCAAAGCAACTTCGTCACTTTCGTGTAC
CCATCGGACGGCAGCCCTTTCGGGGGTTCCTTAGGGACCGATTCA
Found at i:467537 original size:32 final size:32
Alignment explanation
Indices: 467496--467561 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
467486 GCGGGGCTTT
* *
467496 TGGTTTTTTCATGTTGTCAAAGAGTTGACCAA
1 TGGTTTTTTCATGTTGTCAAAGAATTGAACAA
*
467528 TGGTTTTTTCGTGTTGTCAAAGAATTGAACAA
1 TGGTTTTTTCATGTTGTCAAAGAATTGAACAA
467560 TG
1 TG
467562 AAAATGGATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.41
Consensus pattern (32 bp):
TGGTTTTTTCATGTTGTCAAAGAATTGAACAA
Left flanking sequence: Indices 466996 -- 467495
GGATCTGTTCCCGGGAGTATCCTCAAAAAAAAAGGAACCTTTCCTCTCCCCAGCCATTTCGGGTT
AAGAAGATGTGAAAGCGCGTTTCTCTAAGAATAAGAACGGTGCATTCCGAGATGTGAAGTGGGAG
AGAAGGGATGTCATAATTGGGTTTTTGAATAAGACGACCTTTTCATTTTTTTTCTTTTTCATATT
GAAAAAGTAATAAGAATGAGAGGTGTTAAGCTTTTTATCATCCTGGCGTCGAGCTATTTTTCCGC
AGGACCTCCCCTACAGTATCGTCACCGCAGTAGAGTTTAACCACCAAGTTCGGGATGGATTGGTG
TGGTTCCTCTACGCCTAGGACACCAGAATATCGAACCACGAACTAAGAAAGGCATGAGAGAAAGG
CATATTAGTTAGTGATTGTGGGGCCCCAATTCTTAACTGGGGGGGACACCAAAGGCCTCCGCCCT
TCCATCTCTTGGATAGATATAGATAGAGAGGGAGGGCGGGGCTTT
Right flanking sequence: Indices 467562 -- 468061
AAAATGGATGGCGAGTGCCCGATCGAATTGATCGGGCCATGTAGGAACAAGGTTCAAGTCTATCG
GTCTGTTAGGATGCCTCAGCTGCATACATCACTGCACTTCCACTTGACACCTATCGTAATGATAA
ACGGCTCGTCTCGCCGTGACCTTCTCTTGAATTCTCAAAACTTCTGTCGCTCCATCCCCGCAGGG
GCAGAGAACCCGTCGCTGCCTCGGCTGTGCTATCGGCGGCTCTGGGGAAGTCGGAATAGGAGAGC
ACTCATCTTGGGGTGGGCTTACTACTTAGATGCTTTCAGCAGTTATCCGCTCCGCACTTGGCTAC
CCAGCGTTTACCGTGGGCACGATAACTGGTACACCAGAGGTGCGTCCTTCCCGGTCCTCTCGTAC
TAGGGAAAGGTCCTCTCAATGCTCTAACGCCCACACCGGATATGGACCGAACTGTCTCACGACGT
TCTGAACCCAGCTCACGTACCGCTTTAATGGGCGAACAGCCCAAC
Done.