Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
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: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 27 of 39
Found at i:5273871 original size:36 final size:35
Alignment explanation
Indices: 5273822--5273922 Score: 157
Period size: 36 Copynumber: 2.8 Consensus size: 35
5273812 AATGCGCGTC
5273822 CCCGGGGATGCGTCTTCCCCACGTGGCAGCCACAT
1 CCCGGGGATGCGTCTTCCCCACGTGGCAGCCACAT
*
5273857 CCTCGGGGATGCGTCTTCCCCACGTGGCAGCCACGT
1 CC-CGGGGATGCGTCTTCCCCACGTGGCAGCCACAT
* *
5273893 CCCTGGGGATGCGCCTTCCCCATGTGGCAG
1 CCC-GGGGATGCGTCTTCCCCACGTGGCAG
5273923 TCGATTCATC
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
35 3 0.05
36 58 0.95
ACGTcount: A:0.12, C:0.39, G:0.31, T:0.19
Consensus pattern (35 bp):
CCCGGGGATGCGTCTTCCCCACGTGGCAGCCACAT
Found at i:5273996 original size:60 final size:61
Alignment explanation
Indices: 5273892--5274031 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 61
5273882 GGCAGCCACG
* * * * * * * * *
5273892 TCCCTGGGGATGCGCCTTCCCCATGTGGCAGTCGATTCATCATAATCCCATG-AAAGCGCA
1 TCCCCGGGGATGCGTCTTTCACACGTGGCAGTCGACTCAACATAAACCCAGGTAAAGCGCA
*
5273952 TCCTCGGGGATGCGTCTTTCACACGTGGCA-TCCGACTCAACATAAACCCAGGTAAAGCGCA
1 TCCCCGGGGATGCGTCTTTCACACGTGGCAGT-CGACTCAACATAAACCCAGGTAAAGCGCA
*
5274013 TCCCCGGGGACGCGTCTTT
1 TCCCCGGGGATGCGTCTTT
5274032 GTGCCACCTC
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 1 0.02
60 40 0.61
61 25 0.38
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.22
Consensus pattern (61 bp):
TCCCCGGGGATGCGTCTTTCACACGTGGCAGTCGACTCAACATAAACCCAGGTAAAGCGCA
Found at i:5275163 original size:97 final size:97
Alignment explanation
Indices: 5274991--5275184 Score: 327
Period size: 97 Copynumber: 2.0 Consensus size: 97
5274981 ACGGGTCACC
5274991 CTTAGTTTTAAAAGGCACTATACACATCGAGACACAAAGGGTTTCTGGAACCTAAACGTAAAGCG
1 CTTAGTTTTAAAAGGCACTATACACATCGAGACACAAAGGGTTTCTGGAACCTAAACGTAAAGCG
* * *
5275056 AAGGCACACATCTTTTCTAGGTAATACATACT
66 AAGACACACATCTTTCCTAGGCAATACATACT
*
5275088 CTTAGTTTTAAAAGGCACTATACACATTGAGACACAAAGGGTTTCTGGAACCTAGAA-GTAAAGC
1 CTTAGTTTTAAAAGGCACTATACACATCGAGACACAAAGGGTTTCTGGAACCTA-AACGTAAAGC
*
5275152 GAAGACGCACATCTTTCCTAGGCAATACATACT
65 GAAGACACACATCTTTCCTAGGCAATACATACT
5275185 TTTTATGCTA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 89 0.98
98 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (97 bp):
CTTAGTTTTAAAAGGCACTATACACATCGAGACACAAAGGGTTTCTGGAACCTAAACGTAAAGCG
AAGACACACATCTTTCCTAGGCAATACATACT
Found at i:5288699 original size:15 final size:15
Alignment explanation
Indices: 5288673--5288726 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
5288663 AATTAACTTT
5288673 ATTTAA-TTACTTAA
1 ATTTAATTTACTTAA
5288687 ATTTAATTTACTTGATA
1 ATTTAATTTACTT-A-A
** *
5288704 ATTTAAAATATTTAA
1 ATTTAATTTACTTAA
5288719 ATTTAATT
1 ATTTAATT
5288727 AACAATAGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 6 0.19
15 13 0.41
16 2 0.06
17 11 0.34
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTAATTTACTTAA
Found at i:5293255 original size:549 final size:549
Alignment explanation
Indices: 5292323--5295074 Score: 4182
Period size: 549 Copynumber: 5.0 Consensus size: 549
5292313 ACAGCTGGGA
* * * * * * *
5292323 GAGGTAAATATAGGGCTGCAATCCCAAATTTCAGAACTCGAGATGATGTCAAAACAGAGAGAAGA
1 GAGGAAAATACAGGACTGCAATCCCAAATTTCAGAACTAGAGATGATATCAAAGCAGAGACAAGA
* * * * * * * *
5292388 AGAACTTTTGACTCTCTCAACTAAATTCGAGGACAATGAGAAAGAATCATTCTCTAGAGTGGAAA
66 AGAACTTTCGACTCTCACAAGTAATTTTGAGGACAAAGAGAAAGAATCATTGTCTAGAGTGGAGA
* * * *** * * *
5292453 ATTTGACAATT-CAGATCAACAATCTGGTAGCAGACATGGAGTCACAACGCACACAGAAATCTCA
131 ATTTGAC-ATTGCAGATTAACAATCTGCTAGTAGACATGGAGTCATTGCGGACCCAGAAAGCTCA
* * * ** *
5292517 GTTGGAAGAACATATTGCAGTGAAAA-GTGATGAAGCATCAACTGAAATCAAGAGCTTGATGGAT
195 GTTGGAAGAACATATTGTAGT-AAAAGGTGATGAAGCGTCAACTCAGGTGAAGAGCTTGATGGAT
* * * ** * * * *
5292581 CAAATAAATACCTTGCAGCTTGAGCTGGAGTCCCTGCATAGCCAGAAAGCAGAGCTGGAAGATCA
259 CAGATAAATACATTGCTGCAGGAGTTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCA
* *
5292646 GCTTGAGAGTA-AAGCTCAAGCTATTTCAGATCATGTGATTGAGATAGAAAAGGCAAAAGAAGAG
324 GCTTGAGAGTAGAA-CTCAAGCTGTTTCAGATCATGTGATTGAAATAGAAAAGGCAAAAGAAGAG
* * ** * * *
5292710 ATAGTAAGCAAGACTGAGGATCAGCAAAGAGTTCTGGAGGAGAACGAGAGTTTGCTGGCACAAAT
388 ATAGTAAGCAAGACTGAGGATCAACAAAGAGTTTTGCTGGAGAAAGAGAGCTTGCTGGCACATAT
* * * *
5292775 -GAAAGAACTAGAA-CTTGAGGTCAATTCTCT-ACGGAATCAGAAAGGTGAATTGGAAGAGGGCT
453 CG-AGGAACTAGAATC-TGAGGTCAATTCTCTGA-AGAATCAGAAAGGTGAACTGGAAGAGGACT
* * * * *
5292837 TAAGAACTAAAATGGAAGAGAACGATC-AGCTGAGG
515 TGAGAACGAAAATTGAGGAGAACGA-CAAGTTGAGG
* * * * * *
5292872 GAGAAAAATACAGTACTGCAGTCCCAAATTTCAGAACTCGAGATGATATCAAA-AATGAGACATG
1 GAGGAAAATACAGGACTGCAATCCCAAATTTCAGAACTAGAGATGATATCAAAGCA-GAGACAAG
* * * **
5292936 AAGAACTTTCGGCTCTCACAA-TGAAGTTTGAGGATAACA-AGAAAGAATCATCATCTAGAGTGG
65 AAGAACTTTCGACTCTCACAAGT-AATTTTGAGGACAA-AGAGAAAGAATCATTGTCTAGAGTGG
* * * * * * *
5292999 AGAATTTGACATTGCAGATCAACAATATGGTTGCAGACATGGAGTCATTACGCACCCAGAAAGCT
128 AGAATTTGACATTGCAGATTAACAATCTGCTAGTAGACATGGAGTCATTGCGGACCCAGAAAGCT
* * * *
5293064 CAGTTGGAAGAACATATTGTAGTGAAAGGCGATGAAGCATCAACTCAGGTTAAGAGCTTGATGGA
193 CAGTTGGAAGAACATATTGTAGTAAAAGGTGATGAAGCGTCAACTCAGGTGAAGAGCTTGATGGA
* * * * * * * *
5293129 TCAGATAAATACTTTGCAGCAGGAGCTGGAGTCCTTGAATGGCCAGAAAGCAGAACTGGAAGTGC
258 TCAGATAAATACATTGCTGCAGGAGTTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTC
* * * * * * * * *
5293194 AGCTGGAGAGAAAAATTCAAGCTATATCAGATTATGTGATCGAGATAGAAAAGGCAAAAGAAGAG
323 AGCTTGAGAGTAGAACTCAAGCTGTTTCAGATCATGTGATTGAAATAGAAAAGGCAAAAGAAGAG
* * * * * *
5293259 ATAGTAAGCAAGACCGAGGATCAACAAAGAGTTTTGCAT-GAGAAAGAGGGTTTGCTGACAAAAA
388 ATAGTAAGCAAGACTGAGGATCAACAAAGAGTTTTGC-TGGAGAAAGAGAGCTTGCTGGCACATA
** * * * * * * *
5293323 TAAATGAACTAGAATTTGAGTTAAATTCTCTGAAAAATCAGAAAGGTGAGCTGGAAGAGGACTTA
452 TCGAGGAACTAGAATCTGAGGTCAATTCTCTGAAGAATCAGAAAGGTGAACTGGAAGAGGACTTG
5293388 AGAACGAAAATTGAGGAGAACGACAAGTTGAGG
517 AGAACGAAAATTGAGGAGAACGACAAGTTGAGG
* *
5293421 GAGGGAAATACTGGACTGCAATCCCAAATTTCAGAACTAGAGATGATATCAAAGCAGAGACAAGA
1 GAGGAAAATACAGGACTGCAATCCCAAATTTCAGAACTAGAGATGATATCAAAGCAGAGACAAGA
5293486 AGAACTTTCGACTCTCACAAGTAATTTTGAGGACAAAGAGAAAGAATCATTGTCTAGAGTGGAGA
66 AGAACTTTCGACTCTCACAAGTAATTTTGAGGACAAAGAGAAAGAATCATTGTCTAGAGTGGAGA
5293551 ATTTGACATTGCAGATTAACAATCTGCTAGTAGACATGGAGTCATTGCGGACCCAGAAAGCTCAG
131 ATTTGACATTGCAGATTAACAATCTGCTAGTAGACATGGAGTCATTGCGGACCCAGAAAGCTCAG
5293616 TTGGAAGAACATATTGTAGTAAAAGGTGATGAAGCGTCGAA-TCAGGTGAAGAGCTTGATGGATC
196 TTGGAAGAACATATTGTAGTAAAAGGTGATGAAGCGTC-AACTCAGGTGAAGAGCTTGATGGATC
5293680 AGATAAATACATTGCTGCAGGAGTTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCAG
260 AGATAAATACATTGCTGCAGGAGTTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCAG
5293745 CTTGAGAGTAGAACTCAAGCTGTTTCAGATCATGTGATTGAAATAGAAAAGGCAAAAGAAGAGAT
325 CTTGAGAGTAGAACTCAAGCTGTTTCAGATCATGTGATTGAAATAGAAAAGGCAAAAGAAGAGAT
*
5293810 AGTAAGCAAGACTGAGGATCAACAAAGAGTTTTGCTGGAGAAAGAGAGCTTGCAGGCACATATCG
390 AGTAAGCAAGACTGAGGATCAACAAAGAGTTTTGCTGGAGAAAGAGAGCTTGCTGGCACATATCG
*
5293875 AGGAACTAGAATCTGAGGTCAGTTCTCTGAAGAATCAGAAAGGTGAACTGGAAGAGGACTTGAGA
455 AGGAACTAGAATCTGAGGTCAATTCTCTGAAGAATCAGAAAGGTGAACTGGAAGAGGACTTGAGA
5293940 ACGAAAATTGAGGAGAACGACAAGTTGAGG
520 ACGAAAATTGAGGAGAACGACAAGTTGAGG
5293970 GAGGAAAATACAGGACTGCAATCCCAAATTTCAGAACTAGAGATGATATCAAAGCAGAGACAAGA
1 GAGGAAAATACAGGACTGCAATCCCAAATTTCAGAACTAGAGATGATATCAAAGCAGAGACAAGA
5294035 AGAACTTTCGACTCTCACAAGTAATTTTGAGGACAAAGAGAAAGAATCATTGTCTAGAGTGGAGA
66 AGAACTTTCGACTCTCACAAGTAATTTTGAGGACAAAGAGAAAGAATCATTGTCTAGAGTGGAGA
5294100 ATTTGACATTGCAGATTAACAATCTGCTAGTAGACATGGAGTCATTGCGGACCCAGAAAGCTCAG
131 ATTTGACATTGCAGATTAACAATCTGCTAGTAGACATGGAGTCATTGCGGACCCAGAAAGCTCAG
5294165 TTGGAAGAACATATTGTAGTAAAAGGTGATGAAGCGTCGAA-TCAGGTGAAGAGCTTGATGGATC
196 TTGGAAGAACATATTGTAGTAAAAGGTGATGAAGCGTC-AACTCAGGTGAAGAGCTTGATGGATC
5294229 AGATAAATACATTGCTGCAGGAGTTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCAG
260 AGATAAATACATTGCTGCAGGAGTTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCAG
5294294 CTTGAGAGTAGAACTCAAGCTGTTTCAGATCATGTGATTGAAATAGAAAAGGCAAAAGAAGAGAT
325 CTTGAGAGTAGAACTCAAGCTGTTTCAGATCATGTGATTGAAATAGAAAAGGCAAAAGAAGAGAT
*
5294359 AGTAAGCAAGACTGAGGATCAACAAAGAGTTTTGCTGGAGAAAGAGAGCTTGCAGGCACATATCG
390 AGTAAGCAAGACTGAGGATCAACAAAGAGTTTTGCTGGAGAAAGAGAGCTTGCTGGCACATATCG
*
5294424 AGGAACTAGAATCTGAGGTCAGTTCTCTGAAGAATCAGAAAGGTGAACTGGAAGAGGACTTGAGA
455 AGGAACTAGAATCTGAGGTCAATTCTCTGAAGAATCAGAAAGGTGAACTGGAAGAGGACTTGAGA
5294489 ACGAAAATTGAGGAGAACGACAAGTTGAGG
520 ACGAAAATTGAGGAGAACGACAAGTTGAGG
5294519 GAGGAAAATACAGGACTGCAATCCCAAATTTCAGAACTAGAGATGATATCAAAGCAGAGACAAGA
1 GAGGAAAATACAGGACTGCAATCCCAAATTTCAGAACTAGAGATGATATCAAAGCAGAGACAAGA
5294584 AGAACTTTCGACTCTCACAAGTAATTTTGAGGACAAAGAGAAAGAATCATTGTCTAGAGTGGAGA
66 AGAACTTTCGACTCTCACAAGTAATTTTGAGGACAAAGAGAAAGAATCATTGTCTAGAGTGGAGA
5294649 ATTTGACATTGCAGATTAACAATCTGCTAGTAGACATGGAGTCATTGCGGACCCAGAAAGCTCAG
131 ATTTGACATTGCAGATTAACAATCTGCTAGTAGACATGGAGTCATTGCGGACCCAGAAAGCTCAG
*
5294714 TTGGAAGAACATATTGTAGTAAAAGGTGATGAAGCGTCGACTCAGGTGAAGAGCTTGATGGATCA
196 TTGGAAGAACATATTGTAGTAAAAGGTGATGAAGCGTCAACTCAGGTGAAGAGCTTGATGGATCA
5294779 GATAAATACATTGCTGCAGGAGTTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCAGC
261 GATAAATACATTGCTGCAGGAGTTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCAGC
5294844 TTGAGAGTAGAACTCAAGCTGTTTCAGATCATGTGATTGAAATAGAAAAGGCAAAAGAAGAGATA
326 TTGAGAGTAGAACTCAAGCTGTTTCAGATCATGTGATTGAAATAGAAAAGGCAAAAGAAGAGATA
5294909 GTAAGCAAGACTGAGGATCAACAAAGAGTTTTGCTGGAGAAAGAGAGCTTGCTGGCACATATCGA
391 GTAAGCAAGACTGAGGATCAACAAAGAGTTTTGCTGGAGAAAGAGAGCTTGCTGGCACATATCGA
5294974 GGAACTAGAATCTGAGGTCAATTCTCTGAAGAATCAGAAAGGTGAACTGGAAGAGGACTTGAGAA
456 GGAACTAGAATCTGAGGTCAATTCTCTGAAGAATCAGAAAGGTGAACTGGAAGAGGACTTGAGAA
* * *
5295039 CGAAAATCGAAGAGAACAATC-AGTTGAGG
521 CGAAAATTGAGGAGAACGA-CAAGTTGAGG
*
5295068 CAGGAAA
1 GAGGAAA
5295075 GGGTGGGTTT
Statistics
Matches: 2046, Mismatches: 139, Indels: 36
0.92 0.06 0.02
Matches are distributed among these distances:
548 12 0.01
549 2026 0.99
550 8 0.00
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (549 bp):
GAGGAAAATACAGGACTGCAATCCCAAATTTCAGAACTAGAGATGATATCAAAGCAGAGACAAGA
AGAACTTTCGACTCTCACAAGTAATTTTGAGGACAAAGAGAAAGAATCATTGTCTAGAGTGGAGA
ATTTGACATTGCAGATTAACAATCTGCTAGTAGACATGGAGTCATTGCGGACCCAGAAAGCTCAG
TTGGAAGAACATATTGTAGTAAAAGGTGATGAAGCGTCAACTCAGGTGAAGAGCTTGATGGATCA
GATAAATACATTGCTGCAGGAGTTGGAGTCCCTGCATAGCCAGAAAGCAGAACTTGAAGTTCAGC
TTGAGAGTAGAACTCAAGCTGTTTCAGATCATGTGATTGAAATAGAAAAGGCAAAAGAAGAGATA
GTAAGCAAGACTGAGGATCAACAAAGAGTTTTGCTGGAGAAAGAGAGCTTGCTGGCACATATCGA
GGAACTAGAATCTGAGGTCAATTCTCTGAAGAATCAGAAAGGTGAACTGGAAGAGGACTTGAGAA
CGAAAATTGAGGAGAACGACAAGTTGAGG
Found at i:5293409 original size:16 final size:17
Alignment explanation
Indices: 5293388--5293420 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5293378 AGAGGACTTA
5293388 AGAACGA-AAATTGAGG
1 AGAACGACAAATTGAGG
*
5293404 AGAACGACAAGTTGAGG
1 AGAACGACAAATTGAGG
5293421 GAGGGAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.09, G:0.33, T:0.12
Consensus pattern (17 bp):
AGAACGACAAATTGAGG
Found at i:5293957 original size:16 final size:17
Alignment explanation
Indices: 5293936--5293969 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5293926 AAGAGGACTT
5293936 GAGAACGA-AAATTGAG
1 GAGAACGACAAATTGAG
*
5293952 GAGAACGACAAGTTGAG
1 GAGAACGACAAATTGAG
5293969 G
1 G
5293970 GAGGAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.44, C:0.09, G:0.35, T:0.12
Consensus pattern (17 bp):
GAGAACGACAAATTGAG
Found at i:5294506 original size:16 final size:17
Alignment explanation
Indices: 5294485--5294518 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5294475 AAGAGGACTT
5294485 GAGAACGA-AAATTGAG
1 GAGAACGACAAATTGAG
*
5294501 GAGAACGACAAGTTGAG
1 GAGAACGACAAATTGAG
5294518 G
1 G
5294519 GAGGAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.44, C:0.09, G:0.35, T:0.12
Consensus pattern (17 bp):
GAGAACGACAAATTGAG
Found at i:5298789 original size:23 final size:23
Alignment explanation
Indices: 5298742--5298790 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
5298732 AATAACATAT
**
5298742 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
5298765 TAGGTAGCGAC-TATATAATAAAA
1 TAGGTAGCG-CTTATATAATAAAA
5298788 TAG
1 TAG
5298791 ACATTTAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:5299370 original size:201 final size:197
Alignment explanation
Indices: 5298862--5299588 Score: 877
Period size: 200 Copynumber: 3.6 Consensus size: 197
5298852 TAGGTAGCGC
* * * * * * *
5298862 TTATATTGACCTATTTTATAAGT-AAACCGATATATTTATA-CATGTAACATTGCAAATTTACAT
1 TTATGTTGACCTATTTTCTCA-TAAAACCGGTATATTTATATC-GGTTACATTGTAAATTTACAT
* *
5298925 ATTACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACAATTT--TAAATGTATCGACAC
64 ATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACAC
*
5298988 TTTATGCGTGCACCTCGTTGGGCATTCATTATGGA-AACAAGTATCGACACAAACTTAAAGAGTG
128 TTTATGCGTGCACCTCGTTTGGCATTCATTATGGACAA-AAGTATCGACACAAA-TTAAA-AGTG
**
5299052 TTAATACA
190 TCGATACA
* * * * *
5299060 TTAT-TTAGAACTATTTTTTTCATAAAACCGGTATATTTCTATCGGGTACATTGTAAATTTACCT
1 TTATGTT-GACCTA-TTTTCTCATAAAACCGGTATATTTATATCGGTTACATTGTAAATTTACAT
* *
5299124 ATCACATTGTAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACT
64 ATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACT
5299189 TTATGCGTGCACC-CGTTTGGCATTCATTATGGACAAAATGTATCGACACAAATTTAATAAGTGT
129 TTATGCGTGCACCTCGTTTGGCATTCATTATGGACAAAA-GTATCGACACAAA-TTAA-AAGTGT
*
5299253 CGATACT
191 CGATACA
* *
5299260 TTATGATGACCTATTTTCTCATAAAATCGGTATATTTATATATCGGTTACATTGTAAATTTACAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATA-TT-TATATCGGTTACATTGTAAATTTACAT
5299325 ATTACATTATAATTATCGGTTTCGAT-TTTATTGGGATCGATACTTTTAAT-AATCGTATCGACA
64 ATTACATTATAATTATCGGTTTCGATGTTT-TTGGGATCGATACTTTTAATAAAT-GTATCGACA
* *
5299388 CTTTATGCGTGCACCTCGTTTGGGCATTCATTCTGGACAATAGGTATCGACACAAATTACACAAG
127 CTTTATGCGTGCACCTCGTTT-GGCATTCATTATGGACAA-AAGTATCGACACAAATTA-A-AAG
5299453 TGTCGATACA
188 TGTCGATACA
* * * * * * *
5299463 TTATGTTGACATGTTTTCTAAT-AAACCGGTATATTTATACCAGTTACATTGTTAATTTACCTAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATATCGGTTACATTGTAAATTTACATAT
*
5299527 TACATTATAATTATTC-GTTTCGATGTTTTTTGGG-TCGATACTTTTAGA-AAAAGTATCGACAC
66 TACATTATAATTA-TCGGTTTCGATG-TTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
5299589 ATATTTAGGT
Statistics
Matches: 464, Mismatches: 42, Indels: 44
0.84 0.08 0.08
Matches are distributed among these distances:
197 2 0.00
198 13 0.03
199 117 0.25
200 143 0.31
201 106 0.23
202 21 0.05
203 61 0.13
204 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (197 bp):
TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATATCGGTTACATTGTAAATTTACATAT
TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
ATGCGTGCACCTCGTTTGGCATTCATTATGGACAAAAGTATCGACACAAATTAAAAGTGTCGATA
CA
Found at i:5303892 original size:201 final size:199
Alignment explanation
Indices: 5303547--5304716 Score: 1420
Period size: 201 Copynumber: 5.8 Consensus size: 199
5303537 CGTTATTTAC
* * * * *
5303547 AAGTATCGACACAAATCTAAAATATGTCGATACATTATATTA-ACCTATTTTCTCATAAAATCGG
1 AAGTATCGACACAAATCCAAAA-GTGTCGATACATTAT-GTAGACCTATTTTCACATAAAACCGG
* *
5303611 TACT-TTTATACCGGTTACATTGTAAATTTACCTATTACAGTATAATTATCGGTTTCAATGTTTT
64 TA-TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
5303675 TGGGATCGATACTTTTTAAAAAATGTATCGACACTTTATGCGTGCAACCCTTTT-GGCATTCATT
128 TGGGATCGATACTTTTT-AAAAATGTATCGACACTTTATGCGTGC-ACCCTTTTGGGCATTCATT
*
5303739 TTGGACAAA
191 CTGGACAAA
** ** *
5303748 AAGTATCGACACAAATAAAAAACGTGTCGATACATTATGTTCACCTATTTTAACATAAAACCGGT
1 AAGTATCGACACAAATCCAAAA-GTGTCGATACATTATGTAGACCTATTTTCACATAAAACCGGT
* *
5303813 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCAATGTTTTTG
65 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * *
5303878 GGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTTCACCCTTTTGGGCATTCATTCTGG
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGG
5303943 ACAAA
195 ACAAA
* * * * * *
5303948 ACGTATCGACACATCATTCAAAAGTGTCGACACATTATGTAGACCTATTATGACATAAAACCGGT
1 AAGTATCGACACA-AATCCAAAAGTGTCGATACATTATGTAGACCTATTTTCACATAAAACCGGT
* * ** * * * *
5304013 ATATTTATACCGATTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTTAG
65 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * * * * *
5304078 GGATCAATACTGTTTAAACATGTATCGACACTTTATGGGTGCACCCTTTTTGG-ATTTTCCTTGT
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCA--TTCATTCT
* *
5304142 GAACCAA
193 GGACAAA
* * * * * * *
5304149 AAGTATCGACACAAATTCCACAAGTGTTGATACATTATGTATATCTATTTTCTCAAAAAAACGGT
1 AAGTATCGACACAAA-TCCAAAAGTGTCGATACATTATGTAGACCTATTTTCACATAAAACCGGT
* *
5304214 TTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTGGATGTTTTTG
65 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * *
5304279 GGATCGATACATTTTATAAATATATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCTGG
130 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGG
5304344 ACAAA
195 ACAAA
* * * * * *
5304349 AAATATCGACACAACATTCAAAAGTGTCGACACATTATATAGACCTATTCTCACATAAAACCGAT
1 AAGTATCGACACAA-ATCCAAAAGTGTCGATACATTATGTAGACCTATTTTCACATAAAACCGGT
* ** * * *
5304414 ATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTTG
65 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * *
5304479 AGATCGATACTTTTTTAAAAA-GTATTGACACTTTATGGGTGCACCCTTTTTGGGCATTTATTCT
130 GGATCGATAC-TTTTTAAAAATGTATCGACACTTTATGCGTGCACCC-TTTTGGGCATTCATTCT
*
5304543 AGACAAA
193 GGACAAA
* *
5304550 CAA-TATCGACACAAATTCCATAAA-TGTCGATACATTATGTAGACCTATTCTCTCATAAAACCG
1 -AAGTATCGACACAAA-TCCA-AAAGTGTCGATACATTATGTAGACCTATTTTCACATAAAACCG
* * * *
5304613 GTTTAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATTTAT-GGATTTCGATGTTT
63 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGG-TTTCGATGTTT
* *
5304677 CTGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
127 TTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATG
5304717 GGAAACTTTA
Statistics
Matches: 824, Mismatches: 129, Indels: 32
0.84 0.13 0.03
Matches are distributed among these distances:
199 9 0.01
200 355 0.43
201 454 0.55
202 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (199 bp):
AAGTATCGACACAAATCCAAAAGTGTCGATACATTATGTAGACCTATTTTCACATAAAACCGGTA
TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGG
GATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGGA
CAAA
Found at i:5304296 original size:401 final size:400
Alignment explanation
Indices: 5303550--5304716 Score: 1554
Period size: 401 Copynumber: 2.9 Consensus size: 400
5303540 TATTTACAAG
* * * * *
5303550 TATCGACACAA-A-TCTAAAATATGTCGATACATTATATTA-ACCTATTTTCTCATAAAATCGGT
1 TATCGACACAACATTC-AAAA-GTGTCGACACATTATA-TAGACCTATTATCACATAAAACCGGT
* ** * * * *
5303612 ACT-TTTATACCGGTTACATTGTAAATTTACCTATTACAGTATAATTATCGGTTTCAATGTTTTT
63 A-TATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
*
5303676 GGGATCGATACTTTTTAAAAAATGTATCGACACTTTATGCGTGCAACCC-TTTTGGCA-TTCATT
127 GGGATCGATACTTTTT--AAAATGTATCGACACTTTATGGGTGC-ACCCTTTTTGGCATTTCATT
* * * ** **
5303739 TTGGACAAAAAGTATCGACACAAA-TAAAAAACGTGTCGATACATTATGT-TCACCTATTTTAAC
189 CTGAACCAAAAGTATCGACACAAATTCCAAAA-GTGTCGATACATTATGTAT-ACCTATTTTCTC
* *
5303802 ATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTT
252 ATAAAACCGGTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTT
* *
5303867 CAATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTTCACCCTTTTGGGC
317 CGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGC
**
5303932 ATTCATTCTGGACAAAACG
382 ATTCATTCTGGACAAAAAA
* * *
5303951 TATCGACACATCATTCAAAAGTGTCGACACATTATGTAGACCTATTATGACATAAAACCGGTATA
1 TATCGACACAACATTCAAAAGTGTCGACACATTATATAGACCTATTATCACATAAAACCGGTATA
* * *
5304016 TTTATACCGATTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTTAGGGA
66 TTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
* * * *
5304081 TCAATACTGTTTAAACATGTATCGACACTTTATGGGTGCACCCTTTTTGG-ATTTTCCTTGTGAA
131 TCGATACTTTTTAAA-ATGTATCGACACTTTATGGGTGCACCCTTTTTGGCA-TTTCATTCTGAA
* * * * *
5304145 CCAAAAGTATCGACACAAATTCCACAAGTGTTGATACATTATGTATATCTATTTTCTCAAAAAAA
194 CCAAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTATACCTATTTTCTCATAAAAC
*
5304210 CGGTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTGGATGTT
259 CGGTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* *
5304275 TTTGGGATCGATACATTTTATAAATATATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATT
324 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATT
5304340 CTGGACAAAAAA
389 CTGGACAAAAAA
* *
5304352 TATCGACACAACATTCAAAAGTGTCGACACATTATATAGACCTATTCTCACATAAAACCGATATA
1 TATCGACACAACATTCAAAAGTGTCGACACATTATATAGACCTATTATCACATAAAACCGGTATA
* *
5304417 TTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTTGATGTTTTTGAGA
66 TTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
* *
5304482 TCGATACTTTTTTAAAAAGTATTGACACTTTATGGGTGCACCCTTTTTGGGCATTT-ATTCT-AG
131 TCGATAC-TTTTTAAAATGTATCGACACTTTATGGGTGCACCCTTTTT-GGCATTTCATTCTGA-
* * *
5304545 A-CAAACAATATCGACACAAATTCCATAAA-TGTCGATACATTATGTAGACCTATTCTCTCATAA
193 ACCAAA-AGTATCGACACAAATTCCA-AAAGTGTCGATACATTATGTATACCTATTTTCTCATAA
* * *
5304608 AACCGGTTTAGTTATACTGGTTACATTGTAAATTTACCTATTACATTATATTTAT-GGATTTCGA
256 AACCGGTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGG-TTTCGA
*
5304672 TGTTTCTGGGATCGATACTTTTTA-AAACTGTATCGACACTTTATG
320 TGTTTTTGGGATCGATACTTTTTATAAA-TGTATCGACACTTTATG
5304717 GGAAACTTTA
Statistics
Matches: 674, Mismatches: 74, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
399 8 0.01
400 41 0.06
401 598 0.89
402 24 0.04
403 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (400 bp):
TATCGACACAACATTCAAAAGTGTCGACACATTATATAGACCTATTATCACATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
TCGATACTTTTTAAAATGTATCGACACTTTATGGGTGCACCCTTTTTGGCATTTCATTCTGAACC
AAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACCG
GTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
TGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCCTTTTGGGCATTCATTCT
GGACAAAAAA
Found at i:5306232 original size:3 final size:3
Alignment explanation
Indices: 5306217--5306263 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
5306207 ACTTGTTTGG
* * * *
5306217 ATC ATC ATA ATC ATC ATC ATC ATT ATC ATC ATC ATC TTC ATC TTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
5306264 TGACCTCTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (3 bp):
ATC
Found at i:5308085 original size:200 final size:199
Alignment explanation
Indices: 5307742--5308902 Score: 1359
Period size: 200 Copynumber: 5.8 Consensus size: 199
5307732 ATTTAAAATG
* * * *
5307742 GTATCGACACAAATTTA-ACAATTGTCAATACTTTATG-ATGACCTATTTTCTCATAAAACCGGT
1 GTATCGACACAAA-TTACACAAGTGTCGATACATTATGTA-GACCTATTCTCTCATAAAACCGGT
* * ** ** * *
5307805 ATATTTATACCGGTTACATTGGAAATTTAGATATTACATTATAATTATCAGTTTCGATGTTTTTG
64 ATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCAATG-TTTCG
* * *
5307870 GGATCGACACTTTTTAAAAATCTATCGACACTTTATGGGTGCAACCCTTTT-GGCATTCCTTCTG
128 GGATCGACACTTTTTATAAATATATCGACACTTTATGCGTGC-ACCCTTTTGGGCATTCCTTCTG
5307934 GACAAAAA
192 GACAAAAA
5307942 GTATCGACACAAATTACACAAGTGTCGATACATGT-TGTAGACCTATTCTCTCATAAAACCGGTA
1 GTATCGACACAAATTACACAAGTGTCGATACAT-TATGTAGACCTATTCTCTCATAAAACCGGTA
* ** * *
5308006 TAGTTATACCGGTTACATTTTAAATTTACCTATTACATTATATTTATGGGTTTCAATGTTTCGGG
65 TATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTCGGG
* * * * *
5308071 TATCAATACTTTTTATAAATATATCGACACTTTATGCGTTCATCCTTTTGGGCATTCATTCTGGA
130 -ATCGACACTTTTTATAAATATATCGACACTTTATGCGTGCACCCTTTTGGGCATTCCTTCTGGA
5308136 CAAAAA
194 CAAAAA
* * * * * **
5308142 GTATCGACGCAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATTGGTAT
1 GTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTAT
* * *
5308207 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTT-AGATGTTTTTGG
66 ATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCA-ATG-TTTCGG
* * * * *
5308271 GATCTACACTTTTTATAAATGTATCGACACTTAATG-GTGTACCCTTTTTGGGCATTCCTTCTTG
129 GATCGACACTTTTTATAAATATATCGACACTTTATGCGTGCACCC-TTTTGGGCATTCCTTCTGG
*
5308335 ACCAAAA
193 ACAAAAA
* * * *
5308342 GTATCGACACAAATTACACAAGTATTGATACA-TATTGTAGACCTATTATCTCATAAAACCAGTA
1 GTATCGACACAAATTACACAAGTGTCGATACATTA-TGTAGACCTATTCTCTCATAAAACCGGTA
* ** *
5308406 TATGTATATTGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTCTGG
65 TATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTC-GG
*
5308471 GATCGATACTTGTTTATAAATATATCGACACTTGT-TGCGTGCACCCTTTTTGGGCATTCCTTCT
129 GATCGACACTT-TTTATAAATATATCGACACTT-TATGCGTGCACCC-TTTTGGGCATTCCTTCT
* *
5308535 AGACAAACA
191 GGACAAAAA
* * * * * *
5308544 GTATCGACACAAATTCCATAAGTATCGATACATTATGTAGACCTATTCTTTCATAAAATCGGTTT
1 GTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTAT
* * * * *
5308609 AGTTATACCGGTTACATTGTAAATTTACCTATTACATTATATTTATGGGTTTCGATGTTTCTGGG
66 ATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTC-GGG
** * * * ** * *
5308674 ATCGACACTTTCAATAAATGTATCGACACTTTATGCATTCTTCATTTTGGGCATTCATTCTGGAC
130 ATCGACACTTTTTATAAATATATCGACACTTTATGCGTGCACCCTTTTGGGCATTCCTTCTGGAC
5308739 AAAAA
195 AAAAA
* * *
5308744 GTATCGACACATAATGA-AAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTA
1 GTATCGACACA-AATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTA
* * * * *
5308808 TATTTATACCGGTTATATTACAAAAGTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGG
65 TATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCAATG-TTTCGG
* * *
5308873 GATCGACACTTTTCATAACTGTATCGACAC
129 GATCGACACTTTTTATAAATATATCGACAC
5308903 ATATGCTTAC
Statistics
Matches: 823, Mismatches: 119, Indels: 38
0.84 0.12 0.04
Matches are distributed among these distances:
199 28 0.03
200 581 0.71
201 61 0.07
202 151 0.18
203 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (199 bp):
GTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTAT
ATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTCGGGA
TCGACACTTTTTATAAATATATCGACACTTTATGCGTGCACCCTTTTGGGCATTCCTTCTGGACA
AAAA
Found at i:5308699 original size:402 final size:397
Alignment explanation
Indices: 5307781--5308902 Score: 1443
Period size: 402 Copynumber: 2.8 Consensus size: 397
5307771 ACTTTATGAT
* * **
5307781 GACCTATT-TTCTCATAAAACCGGTATATTTATACCGGTTACATTGGAAATTTAGATATTACATT
1 GACCTATTCTT-TCATAAAATCGGTATATTTATACCGGTTACATTGCAAATTTACCTATTACATT
** *
5307845 ATAATTATCAGTTTCGATGTTTTTGGGATCGACACTTTTTAA-AAATCTATCGACACTTTATGGG
65 ATAATTATGGGTTTCGATGTTTTTGGGATCGACAC-TTTTAATAAATGTATCGACACTTTAT-GG
*
5307909 TGCAACCCTTTT-GGCATTCCTTCTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATAC
128 TG-TACCCTTTTGGGCATTCCTTCTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATAC
* *
5307973 ATGTTGTAGACCTATTCTCTCATAAAACCGGTATA-GTTATACCGGTTACATTTTAAATTTACCT
192 AT-TTGTAGACCTATTCTCTCATAAAACCGGTATATG-TATACCGGTTACA-TTAAAAATTACCT
* *
5308037 ATTACATTATATTTATGGGTTTCAATGTTTC-GGGTATCAATACTTTTTATAAATATATCGACAC
254 ATTACATTATAATTATGGGTTTCAATGTTTCTGGG-ATCGATACTTTTTATAAATATATCGACAC
* * * * *
5308101 TTTATGCGTTCATCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACGCAAAATAAAAAAGTG
318 TTTATGCGTGCACCCTTTTGGGCATTCATTCTAGACAAAAAGTATCGACACAAAATAAAAAAGTA
5308166 TCGATACATTATGTA
383 TCGATACATTATGTA
** * * * *
5308181 GACCTATTCTCACATAAAATTGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTA
1 GACCTATTCTTTCATAAAATCGGTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTA
* * * *
5308246 TAATTATGGGTTTAGATGTTTTTGGGATCTACACTTTTTATAAATGTATCGACACTTAATGGTGT
66 TAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGGTGT
* * * *
5308311 ACCCTTTTTGGGCATTCCTTCTTGACCAAAAGTATCGACACAAATTACACAAGTATTGATACATA
131 ACCC-TTTTGGGCATTCCTTCTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACAT-
* * **
5308376 TTGTAGACCTATTATCTCATAAAACCAGTATATGTATATTGGTTACATTGAAAAATTACCTATTA
194 TTGTAGACCTATTCTCTCATAAAACCGGTATATGTATACCGGTTACATT-AAAAATTACCTATTA
5308441 CATTATAATTATGGGTTTCAATGTTTCTGGGATCGATACTTGTTTATAAATATATCGACACTTGT
258 CATTATAATTATGGGTTTCAATGTTTCTGGGATCGATACTT-TTTATAAATATATCGACACTT-T
* * * ** *
5308506 -TGCGTGCACCCTTTTTGGGCATTCCTTCTAGACAAACAGTATCGACACAAATTCCATAAGTATC
321 ATGCGTGCACCC-TTTTGGGCATTCATTCTAGACAAAAAGTATCGACACAAAATAAAAAAGTATC
5308570 GATACATTATGTA
385 GATACATTATGTA
* * *
5308583 GACCTATTCTTTCATAAAATCGGTTTAGTTATACCGGTTACATTGTAAATTTACCTATTACATTA
1 GACCTATTCTTTCATAAAATCGGTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTA
* * * *
5308648 TATTTATGGGTTTCGATGTTTCTGGGATCGACACTTTCAATAAATGTATCGACACTTTATGCAT-
66 TAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATG-GTG
* * * *
5308712 T-CTTCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACATAATGA-AAAAGTGTCGATAC
130 TAC--CCTTTTGGGCATTCCTTCTGGACAAAAAGTATCGACACA-AATTACACAAGTGTCGATAC
* * * *
5308775 ATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAAGTACCTA
192 ATT-TGTAGACCTATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTA-AAAATTACCTA
* * * * * *
5308840 TTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTCATAACTGTATCGACAC
255 TTACATTATAATTATGGGTTTCAATGTTTCTGGGATCGATACTTTTTATAAATATATCGACAC
5308903 ATATGCTTAC
Statistics
Matches: 625, Mismatches: 81, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
398 4 0.01
399 15 0.02
400 239 0.38
401 54 0.09
402 307 0.49
403 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (397 bp):
GACCTATTCTTTCATAAAATCGGTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTA
TAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTATCGACACTTTATGGTGT
ACCCTTTTGGGCATTCCTTCTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATTT
GTAGACCTATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTAAAAATTACCTATTACAT
TATAATTATGGGTTTCAATGTTTCTGGGATCGATACTTTTTATAAATATATCGACACTTTATGCG
TGCACCCTTTTGGGCATTCATTCTAGACAAAAAGTATCGACACAAAATAAAAAAGTATCGATACA
TTATGTA
Found at i:5308884 original size:602 final size:600
Alignment explanation
Indices: 5307781--5308902 Score: 1757
Period size: 602 Copynumber: 1.9 Consensus size: 600
5307771 ACTTTATGAT
* * * * * *
5307781 GACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGGAAATTTAGATATTACATTA
1 GACCTATTATCTCATAAAACCAGTATATGTATACCGGTTACATTGAAAAATTACATATTACATTA
* * * *
5307846 TAATTATCAGTTTCGATGTTTTTGGGATCGACACTTTTTAAAAATCTATCGACACTTTATGGGTG
66 TAATTATCAGTTTCAATGTTTCTGGGATCGACACTTTTTAAAAATATATCGACACTTTATGCGTG
* *
5307911 CAACCCTTTTGGCATTCCTTCTGGACAAAAAGTATCGACACAAATTACACAAGTGTCGATACATG
131 CAACCCTTTTGGCATTCCTTCTAGACAAAAAGTATCGACACAAATTACACAAGTATCGATACATG
*
5307976 TTGTAGACCTATTCTCTCATAAAACCGGTATAGTTATACCGGTTACATTTTAAATTTACCTATTA
196 TTGTAGACCTATTCTCTCATAAAACCGGTATAGTTATACCGGTTACATTGTAAATTTACCTATTA
* **
5308041 CATTATATTTATGGGTTTCAATGTTTCGGGTATCAATACTTTTTATAAATATATCGACACTTTAT
261 CATTATATTTATGGGTTTCAATGTTTCGGGTATCAACACTTTCAATAAATATATCGACACTTTAT
* * *
5308106 GCGTTCATCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACGCAAAATAAAAAAGTGTCGAT
326 GCATTCATCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGAT
** *
5308171 ACATTATGTAGACCTATTCTCACATAAAATTGGTATATTTATACCGGTTATATTACAAAATTACC
391 ACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAAGTACC
* *
5308236 TATTACATTATAATTATGGGTTTAGATGTTTTTGGGATCTACACTTTTTATAAATGTATCGACAC
456 TATTACATTATAATTATGGGTTTAGATGTTTTTGGGATCGACACTTTTCATAAATGTATCGACAC
5308301 TTAATGGTGTACCCTTTTTGGGCATTCCTTCTTGACCAAAAGTATCGACACAAATTACACAAGTA
521 TTAATGGTGTACCCTTTTTGGGCATTCCTTCTTGACCAAAAGTATCGACACAAATTACACAAGTA
5308366 TTGATACATATTGTA
586 TTGATACATATTGTA
** *
5308381 GACCTATTATCTCATAAAACCAGTATATGTATATTGGTTACATTGAAAAATTACCTATTACATTA
1 GACCTATTATCTCATAAAACCAGTATATGTATACCGGTTACATTGAAAAATTACATATTACATTA
** * *
5308446 TAATTATGGGTTTCAATGTTTCTGGGATCGATACTTGTTTATAAATATATCGACACTTGT-TGCG
66 TAATTATCAGTTTCAATGTTTCTGGGATCGACACTT-TTTAAAAATATATCGACACTT-TATGCG
* * *
5308510 TGC-ACCCTTTTTGGGCATTCCTTCTAGACAAACAGTATCGACACAAATTCCATAAGTATCGATA
129 TGCAACCC-TTTT-GGCATTCCTTCTAGACAAAAAGTATCGACACAAATTACACAAGTATCGATA
* * *
5308574 CAT-TATGTAGACCTATTCTTTCATAAAATCGGTTTAGTTATACCGGTTACATTGTAAATTTACC
192 CATGT-TGTAGACCTATTCTCTCATAAAACCGGTATAGTTATACCGGTTACATTGTAAATTTACC
* * *
5308638 TATTACATTATATTTATGGGTTTCGATGTTTCTGGG-ATCGACACTTTCAATAAATGTATCGACA
256 TATTACATTATATTTATGGGTTTCAATGTTTC-GGGTATCAACACTTTCAATAAATATATCGACA
* * *
5308702 CTTTATGCATTCTTCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACATAATGAAAAAGT
320 CTTTATGCATTCATCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGT
5308767 GTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAA
385 GTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAA
* *
5308832 AGTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTCATAACTGTAT
450 AGTACCTATTACATTATAATTATGGGTTTAGATGTTTTTGGGATCGACACTTTTCATAAATGTAT
5308897 CGACAC
515 CGACAC
5308903 ATATGCTTAC
Statistics
Matches: 471, Mismatches: 45, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
600 91 0.19
601 30 0.06
602 347 0.74
603 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (600 bp):
GACCTATTATCTCATAAAACCAGTATATGTATACCGGTTACATTGAAAAATTACATATTACATTA
TAATTATCAGTTTCAATGTTTCTGGGATCGACACTTTTTAAAAATATATCGACACTTTATGCGTG
CAACCCTTTTGGCATTCCTTCTAGACAAAAAGTATCGACACAAATTACACAAGTATCGATACATG
TTGTAGACCTATTCTCTCATAAAACCGGTATAGTTATACCGGTTACATTGTAAATTTACCTATTA
CATTATATTTATGGGTTTCAATGTTTCGGGTATCAACACTTTCAATAAATATATCGACACTTTAT
GCATTCATCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGAT
ACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCGGTTATATTACAAAAGTACC
TATTACATTATAATTATGGGTTTAGATGTTTTTGGGATCGACACTTTTCATAAATGTATCGACAC
TTAATGGTGTACCCTTTTTGGGCATTCCTTCTTGACCAAAAGTATCGACACAAATTACACAAGTA
TTGATACATATTGTA
Found at i:5309277 original size:19 final size:19
Alignment explanation
Indices: 5309253--5309301 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
5309243 TTACATCCAC
5309253 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
5309272 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
5309291 ATACAAAATTA
1 ATACAAAATTA
5309302 ACTCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:5311005 original size:18 final size:18
Alignment explanation
Indices: 5310982--5311031 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
5310972 ATATAACACA
5310982 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
* * *
5311000 TATGTCTCAAAAGACCAC
1 TATGTCCCGAAGGACCAC
* *
5311018 CATGTCCAGAAGGA
1 TATGTCCCGAAGGA
5311032 TCGTGTAGAC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:5311823 original size:20 final size:22
Alignment explanation
Indices: 5311798--5311855 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
5311788 TTCCCCTTGA
5311798 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
5311818 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
5311841 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
5311856 CTACCCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:5311926 original size:45 final size:45
Alignment explanation
Indices: 5311862--5311965 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
5311852 TGCACTACCC
* * *
5311862 ATGCATCGATACACAAATTACCTTCAATGTTTTCAT-TTTAAAGGG
1 ATGCATCGATGCACAAATTACATTCAATG-TTTCATCTTTAAAGAG
* * *
5311907 ATGCATCGATGCACTAATTACATTCGATGTTTCTTCTTTAAAGAG
1 ATGCATCGATGCACAAATTACATTCAATGTTTCATCTTTAAAGAG
5311952 -TGCATCGATGCACA
1 ATGCATCGATGCACA
5311966 TTCAATGTGC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 18 0.35
45 33 0.65
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (45 bp):
ATGCATCGATGCACAAATTACATTCAATGTTTCATCTTTAAAGAG
Found at i:5315074 original size:18 final size:18
Alignment explanation
Indices: 5315023--5315074 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
5315013 ATATAACATA
5315023 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
** * *
5315041 TATGTGTCAAAAGACCAC
1 TATGTCCCGAAGGACCAC
5315059 TATGTCCCGAAGGACC
1 TATGTCCCGAAGGACC
5315075 GCGTAGACCC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:5315890 original size:24 final size:20
Alignment explanation
Indices: 5315836--5315893 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
5315826 TTCCCCTTGA
5315836 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
*
5315856 AATGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
5315879 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
5315894 CTACCCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 3 0.09
24 12 0.38
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:5315959 original size:64 final size:63
Alignment explanation
Indices: 5315881--5316021 Score: 187
Period size: 64 Copynumber: 2.2 Consensus size: 63
5315871 TCTTTAACAT
* *
5315881 GTGCATCGATGCACTACC-CATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGG
1 GTGCATCGATGCACT-CCTCATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * *
5315944 GATGCATCGATGCACTCCTTATGCATCGATGCACCAATTACATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
5316008 GTGCATCGATGCAC
1 GTGCATCGATGCAC
5316022 ATTCAATGTG
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
63 21 0.30
64 48 0.70
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:5317554 original size:21 final size:18
Alignment explanation
Indices: 5317500--5317556 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
5317490 TTCTCTTCAT
* * *
5317500 TTCCTCCATATTTTCTTT
1 TTCCTCCCTCTTTTCTTC
5317518 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
5317536 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
5317554 TTC
1 TTC
5317557 ATATTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.04, C:0.39, G:0.00, T:0.58
Consensus pattern (18 bp):
TTCCTCCCTCTTTTCTTC
Found at i:5317831 original size:21 final size:21
Alignment explanation
Indices: 5317806--5317845 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5317796 CCCCTTATGC
5317806 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
*
5317827 CTCTCAAGTTTCTCTTCGA
1 CTCTCAAGTGTCTCTTCGA
5317846 ATCTTGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.33, G:0.12, T:0.40
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:5318279 original size:24 final size:22
Alignment explanation
Indices: 5318236--5318291 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 22
5318226 AACCTATATT
5318236 TATAATAAAAATTATAATTTTA
1 TATAATAAAAATTATAATTTTA
*
5318258 TATAATAAATATATTATCATTTTA
1 TATAATAAA-A-ATTATAATTTTA
5318282 TATAA-AAAAA
1 TATAATAAAAA
5318292 CAAAAATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 1 0.03
22 10 0.32
23 4 0.13
24 16 0.52
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TATAATAAAAATTATAATTTTA
Found at i:5320566 original size:182 final size:182
Alignment explanation
Indices: 5320258--5321112 Score: 1166
Period size: 182 Copynumber: 4.7 Consensus size: 182
5320248 TACGCGTACT
* * *
5320258 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCAGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGATACC-
* * *
5320323 GTTTTTGTCATATTTTTACATGTTATATCGTTGTGGACCGATACATTGTTT-TAAAGTATCGACA
65 GATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATT-TTTATAAAGTATCGACA
* * * *
5320387 CTTTATAGACGCTAAAACGGATTCTCTTTTAAATTCACAAAATATCAATACTTA
129 CTTTATAGACGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * * * * *
5320441 TATTAAAGTATCGATACTTTAAATATATGTGGTCGCTCTATACCGGTTTTGTAC-TTTAGATACC
1 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGT-CTTTTCGATACC
* * *
5320505 GATTTTGTCATATTTTTACCTGTTATATCGTTATAGATCGATATATTTTTATAAAGTATCGACAC
65 GATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACAC
* *
5320570 TTTATAGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
130 TTTATAGACGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * * * *
5320623 TATTAAAGTATCGACACTTTCAATATAT-TCG-ATCGCTCTATAACTGTTTTGTCCTTTAGATAC
1 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGCT-T-TACCGGTTTTGTCTTTTCGATAC
* *
5320686 CGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAATATCGACA
64 CGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACA
* * *
5320751 CTTTATAAAAGCTAAAATTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
129 CTTTATAGACGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* *
5320805 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGATACCG
* * * *
5320870 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCAATACATATTTATAAAGAATCGACACT
66 ATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACT
* * * *
5320935 TTATAGGCGCTAAAATTGATTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TTATAGACGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
*
5320987 TATTAAAGTATCGACACTTTTAATATATCTGGTAGCGCTTTACCGG--TTGTCTTTTCG-TGACC
1 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGAT-ACC
* * * * *
5321049 GGTTTTATCATATTTTTTCCTGTTATATCGTTGTGGATCGACACATTTTTATAAATTATCGACA
65 GATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACA
5321113 TAAACCGACA
Statistics
Matches: 595, Mismatches: 69, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
180 74 0.12
181 6 0.01
182 454 0.76
183 55 0.09
184 6 0.01
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCGATACCG
ATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGACGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:5324109 original size:34 final size:34
Alignment explanation
Indices: 5324071--5324140 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
5324061 ATGTTGGGAT
5324071 TCGATGAAACTCAATTGAACAACCAAATAATTTG
1 TCGATGAAACTCAATTGAACAACCAAATAATTTG
5324105 TCGATGAAACTCAATTGAACAACCAAATAATTTG
1 TCGATGAAACTCAATTGAACAACCAAATAATTTG
5324139 TC
1 TC
5324141 AAGAGGGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (34 bp):
TCGATGAAACTCAATTGAACAACCAAATAATTTG
Found at i:5326029 original size:24 final size:24
Alignment explanation
Indices: 5326002--5326047 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5325992 GATTTATTTT
5326002 TTTGAACTTAATAACTTTTGTTAA
1 TTTGAACTTAATAACTTTTGTTAA
* * *
5326026 TTTGATCTTTATAATTTTTGTT
1 TTTGAACTTAATAACTTTTGTT
5326048 CACACTATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTGAACTTAATAACTTTTGTTAA
Found at i:5326849 original size:65 final size:65
Alignment explanation
Indices: 5326731--5326887 Score: 181
Period size: 65 Copynumber: 2.4 Consensus size: 65
5326721 ATAAGACTTA
* ** * * * *
5326731 GTGCATCGGTACACTAGTTACATTCGATGTTTCAAAAGAGGCAGGAGTGCATCGATGCATGG-TC
1 GTGCATCGGTACACAAAATGCATTCGAGGTTTCAAAAGAGGCAAGAGTACATCGATGCATGGCT-
5326795 T
65 T
* * * **
5326796 GTGCATCGGTATATAAAATGCATTCGAGGTTTCAAAATATTCAAGAGTACATCGATGCATGGCTT
1 GTGCATCGGTACACAAAATGCATTCGAGGTTTCAAAAGAGGCAAGAGTACATCGATGCATGGCTT
*
5326861 GTGCATCGGTACACAAAATGCGTTCGA
1 GTGCATCGGTACACAAAATGCATTCGA
5326888 AATGGGTGTG
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
65 75 0.99
66 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATGCATTCGAGGTTTCAAAAGAGGCAAGAGTACATCGATGCATGGCTT
Found at i:5327619 original size:10 final size:10
Alignment explanation
Indices: 5327600--5327630 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5327590 CAAAAAACAA
5327600 AATAATCCAT
1 AATAATCCAT
*
5327610 AATCATCCAT
1 AATAATCCAT
5327620 AATAATCCAT
1 AATAATCCAT
5327630 A
1 A
5327631 GGTTCTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAATCCAT
Found at i:5340275 original size:162 final size:161
Alignment explanation
Indices: 5340008--5340770 Score: 1003
Period size: 162 Copynumber: 4.7 Consensus size: 161
5339998 GATAATGGTA
* * * * * *
5340008 GAGATCAAACTGATGGATC-AGAGAGGGGTGTTGTTAATGATGCTAGTAAGAGCGATTTGAACCA
1 GAGATCAAATTGATGGATCAAAAG-GGGGTGCTGATAATGATGCAAGTAAGAGTGATTTGAACCA
* * * * *
5340072 GCATTCGGGTTCAAATGGAGGCAAGAACTTGGTGAAGGATGGGAAAGAATCGAGTGGTGAAGAAA
65 GCAATCGGGTTCAAA-GAAGGCAAGAATTTGGTAAAGGATGGGAAAGAATCGAGTGGTGAAGCAA
* * * * **
5340137 AAGGAAATATGAACAATGGGAAGGATAACGGAG
129 AAGGAAATACGAATAGTGGGAAAGACCACGGAG
* * *
5340170 GAGATCAAATTGATGGATCAAAAGAGGGTGCTGGTAATGATGCTAGTAAGAGTGATTTGAACCAG
1 GAGATCAAATTGATGGATCAAAAGGGGGTGCTGATAATGATGCAAGTAAGAGTGATTTGAACCAG
* *
5340235 CAATCGGGTTCTAAAGAAGGCAAGAATTTGGTAAAGGATGGGAAAGAA-CTGACTGATGAAGCAA
66 CAATCGGGTTC-AAAGAAGGCAAGAATTTGGTAAAGGATGGGAAAGAATC-GAGTGGTGAAGCAA
* *
5340299 ACGGAAATACGAATAGTGGGAAAGATCACGGAG
129 AAGGAAATACGAATAGTGGGAAAGACCACGGAG
* *
5340332 GAGATCAAATTGATGGATCAAAAGGGGGTTCTTATAATGATGCAAGTAAGAGTGATTT-ACACCA
1 GAGATCAAATTGATGGATCAAAAGGGGGTGCTGATAATGATGCAAGTAAGAGTGATTTGA-ACCA
* *
5340396 GCAATCGGGCTCAAATGAAGGCAAGAATTTGGTAAAGGATAGGAAAGAATCGAGTGGTGAAGCAA
65 GCAATCGGGTTCAAA-GAAGGCAAGAATTTGGTAAAGGATGGGAAAGAATCGAGTGGTGAAGCAA
*
5340461 AAGGAAATACGAATAGTGGGAAAGACCATGGAG
129 AAGGAAATACGAATAGTGGGAAAGACCACGGAG
* *
5340494 GAGATCAAATTGATGGATCAAAAGGGGGTTCTGATAATGATGCAAGTAAGAGTGATTTGCACCAG
1 GAGATCAAATTGATGGATCAAAAGGGGGTGCTGATAATGATGCAAGTAAGAGTGATTTGAACCAG
* * *
5340559 CAATCGGGCTCGAATGAAGGCAAGAATTTGGTAAAGGATGGGAAAGAATCGAGAGGTGAAGCAAA
66 CAATCGGGTTC-AAAGAAGGCAAGAATTTGGTAAAGGATGGGAAAGAATCGAGTGGTGAAGCAAA
* * * * *
5340624 AGGAAATACAAATTGTGGGAAAGACCATGAAA
130 AGGAAATACGAATAGTGGGAAAGACCACGGAG
*
5340656 GAGATCAAATTGATGGATCAAAAGGGGGTGCTGATAATGATGCAAGTAAGAGCGATTTGAACCAG
1 GAGATCAAATTGATGGATCAAAAGGGGGTGCTGATAATGATGCAAGTAAGAGTGATTTGAACCAG
* * * * **
5340721 CAATCAGGCTTGAATGAAGGCAAGACTTCAGTGAAA-GATGGGAAAGAATC
66 CAATC-GGGTTCAAAGAAGGCAAGAATTTGGT-AAAGGATGGGAAAGAATC
5340771 AACAAATCGT
Statistics
Matches: 542, Mismatches: 49, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
161 5 0.01
162 522 0.96
163 15 0.03
ACGTcount: A:0.39, C:0.10, G:0.31, T:0.20
Consensus pattern (161 bp):
GAGATCAAATTGATGGATCAAAAGGGGGTGCTGATAATGATGCAAGTAAGAGTGATTTGAACCAG
CAATCGGGTTCAAAGAAGGCAAGAATTTGGTAAAGGATGGGAAAGAATCGAGTGGTGAAGCAAAA
GGAAATACGAATAGTGGGAAAGACCACGGAG
Found at i:5342244 original size:28 final size:28
Alignment explanation
Indices: 5342204--5342259 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
5342194 GGACTAACCT
*
5342204 CGTCTTCATTTACTTAAGCAACCGAAAC
1 CGTCTTCATTTACGTAAGCAACCGAAAC
*
5342232 CGTCTTCTTTTACGTAAGCAACCGAAAC
1 CGTCTTCATTTACGTAAGCAACCGAAAC
5342260 AAGAGTACGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (28 bp):
CGTCTTCATTTACGTAAGCAACCGAAAC
Found at i:5342714 original size:26 final size:27
Alignment explanation
Indices: 5342659--5342715 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
5342649 TTTTTCGGAT
* **
5342659 AAAAAACCGGTTTTTTATCCGGTTTGA
1 AAAAAACCGGTTTTTAATCCGGTTAAA
5342686 AAAAAACCGGTTTTTAATCCGG-TAAA
1 AAAAAACCGGTTTTTAATCCGGTTAAA
5342712 AAAA
1 AAAA
5342716 TCTGTCGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (27 bp):
AAAAAACCGGTTTTTAATCCGGTTAAA
Found at i:5344772 original size:18 final size:17
Alignment explanation
Indices: 5344740--5344773 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5344730 ATTTAAATAT
5344740 ATGATTTATTGTTATTA
1 ATGATTTATTGTTATTA
*
5344757 ATGATTGTATTTTTATT
1 ATGATT-TATTGTTATT
5344774 TTTAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (17 bp):
ATGATTTATTGTTATTA
Found at i:5346113 original size:14 final size:14
Alignment explanation
Indices: 5346096--5346141 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
5346086 TTTATGTGCT
*
5346096 TGTTTGTTCGGTTA
1 TGTTCGTTCGGTTA
5346110 TGTTCG-T---TTA
1 TGTTCGTTCGGTTA
5346120 TGTTCGTTCGGTTA
1 TGTTCGTTCGGTTA
5346134 TGTTCGTT
1 TGTTCGTT
5346142 TATGTTCGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
10 9 0.33
11 1 0.04
13 1 0.04
14 16 0.59
ACGTcount: A:0.07, C:0.11, G:0.26, T:0.57
Consensus pattern (14 bp):
TGTTCGTTCGGTTA
Found at i:5346123 original size:24 final size:24
Alignment explanation
Indices: 5346096--5346161 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
5346086 TTTATGTGCT
*
5346096 TGTTTGTTCGGTTATGTTCGTTTA
1 TGTTCGTTCGGTTATGTTCGTTTA
5346120 TGTTCGTTCGGTTATGTTCGTTTA
1 TGTTCGTTCGGTTATGTTCGTTTA
**
5346144 TGTTCGTTCATTTATGTT
1 TGTTCGTTCGGTTATGTT
5346162 TAACCCAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.09, C:0.11, G:0.23, T:0.58
Consensus pattern (24 bp):
TGTTCGTTCGGTTATGTTCGTTTA
Found at i:5346150 original size:10 final size:10
Alignment explanation
Indices: 5346100--5346151 Score: 59
Period size: 10 Copynumber: 4.8 Consensus size: 10
5346090 TGTGCTTGTT
*
5346100 TGTTCGGTTA
1 TGTTCGTTTA
5346110 TGTTCGTTTA
1 TGTTCGTTTA
5346120 TGTTCGTTCGGTTA
1 TGTTCG-T---TTA
5346134 TGTTCGTTTA
1 TGTTCGTTTA
5346144 TGTTCGTT
1 TGTTCGTT
5346152 CATTTATGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 26 0.70
11 1 0.03
13 1 0.03
14 9 0.24
ACGTcount: A:0.08, C:0.12, G:0.25, T:0.56
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:5346152 original size:14 final size:14
Alignment explanation
Indices: 5346111--5346161 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
5346101 GTTCGGTTAT
5346111 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
5346125 GTTCGGTTA---T-
1 GTTCGTTTATGTTC
5346135 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
5346149 GTTCATTTATGTT
1 GTTCGTTTATGTT
5346162 TAACCCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
10 8 0.27
11 1 0.03
13 1 0.03
14 20 0.67
ACGTcount: A:0.10, C:0.12, G:0.22, T:0.57
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:5347091 original size:22 final size:22
Alignment explanation
Indices: 5347063--5347107 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
5347053 GGGTCTCCAA
5347063 TGTTCGTGTTCGTTTATATTCG
1 TGTTCGTGTTCGTTTATATTCG
*
5347085 TGTTCGTGTTCGTTTATGTTCG
1 TGTTCGTGTTCGTTTATATTCG
5347107 T
1 T
5347108 TTATTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.07, C:0.13, G:0.24, T:0.56
Consensus pattern (22 bp):
TGTTCGTGTTCGTTTATATTCG
Found at i:5347104 original size:10 final size:10
Alignment explanation
Indices: 5347069--5347111 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
5347059 CCAATGTTCG
5347069 TGTTCGTTTA
1 TGTTCGTTTA
* *
5347079 TATTCGTGTTCG
1 TGTTCGT-TT-A
5347091 TGTTCGTTTA
1 TGTTCGTTTA
5347101 TGTTCGTTTA
1 TGTTCGTTTA
5347111 T
1 T
5347112 TTATTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 17 0.63
11 4 0.15
12 6 0.22
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:5348922 original size:24 final size:24
Alignment explanation
Indices: 5348895--5348994 Score: 76
Period size: 24 Copynumber: 4.2 Consensus size: 24
5348885 GATATCAAAA
*
5348895 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * * *
5348919 ATCATAACAGAATCCAGGTTAGGA-
1 ATCAAAACAGAATTCAGATCA-GAT
* *
5348943 ATCAGAACAGATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* ** * *
5348967 GTTTAAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
5348991 ATCA
1 ATCA
5348995 GATAAAATAT
Statistics
Matches: 54, Mismatches: 20, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
23 2 0.04
24 50 0.93
25 2 0.04
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:5351494 original size:7 final size:7
Alignment explanation
Indices: 5351482--5351521 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
5351472 TGGTCAACTC
5351482 CGGTCAA
1 CGGTCAA
5351489 CGGTCAA
1 CGGTCAA
5351496 CGGGTCAA
1 C-GGTCAA
5351504 CGGTCAA
1 CGGTCAA
5351511 CGGGTCAA
1 C-GGTCAA
5351519 CGG
1 CGG
5351522 GTCGGGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:5351503 original size:15 final size:15
Alignment explanation
Indices: 5351483--5351521 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
5351473 GGTCAACTCC
5351483 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
5351498 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
5351513 GGTCAACGG
1 GGTCAACGG
5351522 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.13
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:5351537 original size:8 final size:8
Alignment explanation
Indices: 5351483--5351524 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
5351473 GGTCAACTCC
5351483 GGTCAAC-
1 GGTCAACG
5351490 GGTCAACG
1 GGTCAACG
5351498 GGTCAAC-
1 GGTCAACG
5351505 GGTCAACG
1 GGTCAACG
5351513 GGTCAACG
1 GGTCAACG
5351521 GGTC
1 GGTC
5351525 GGGTCAATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.24, C:0.26, G:0.36, T:0.14
Consensus pattern (8 bp):
GGTCAACG
Found at i:5351542 original size:18 final size:18
Alignment explanation
Indices: 5351505--5351595 Score: 93
Period size: 18 Copynumber: 5.2 Consensus size: 18
5351495 ACGGGTCAAC
5351505 GGTCAACGGGTCAACGGGTCG
1 GGTCAACGGGT---CGGGTCG
*
5351526 GGTCAATGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
5351544 GGTAAACGGGT----T-G
1 GGTCAACGGGTCGGGTCG
*
5351557 GGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
5351575 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
5351593 GGT
1 GGT
5351596 TGTGACCGGT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
13 12 0.20
14 1 0.02
17 1 0.02
18 37 0.61
21 10 0.16
ACGTcount: A:0.15, C:0.18, G:0.48, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:5351552 original size:31 final size:31
Alignment explanation
Indices: 5351511--5351591 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
5351501 CAACGGTCAA
*
5351511 CGGGTCAACGGGTCGGGTCAATGGGTCGGGT
1 CGGGTCAACGGGTCGGGTCAACGGGTCGGGT
* * *
5351542 CGGGTAAACGGGTTGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTCAACGGGTCGGGT
5351573 CGGGTCAACGGGTCGGGTC
1 CGGGTCAACGGGTCGGGTC
5351592 GGGTTGTGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.15, C:0.19, G:0.48, T:0.19
Consensus pattern (31 bp):
CGGGTCAACGGGTCGGGTCAACGGGTCGGGT
Found at i:5351553 original size:13 final size:13
Alignment explanation
Indices: 5351537--5351572 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
5351527 GTCAATGGGT
5351537 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
*
5351550 CGGGTTGGGTAAA
1 CGGGTCGGGTAAA
5351563 CGGGTCGGGT
1 CGGGTCGGGT
5351573 CGGGTCAACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.14, G:0.50, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:5351591 original size:13 final size:13
Alignment explanation
Indices: 5351511--5351542 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5351501 CAACGGTCAA
5351511 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
5351524 CGGGTCAATGGGT
1 CGGGTCAACGGGT
5351537 CGGGTC
1 CGGGTC
5351543 GGGTAAACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.22, G:0.47, T:0.19
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:5353754 original size:24 final size:24
Alignment explanation
Indices: 5353727--5353826 Score: 76
Period size: 24 Copynumber: 4.2 Consensus size: 24
5353717 GATATCAAAA
*
5353727 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * * *
5353751 ATCATAACAGAATCCAGGTTAGGA-
1 ATCAAAACAGAATTCAGATCA-GAT
* *
5353775 ATCAGAACAGATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* ** * *
5353799 GTTTAAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
5353823 ATCA
1 ATCA
5353827 GATAAAATAT
Statistics
Matches: 54, Mismatches: 20, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
23 2 0.04
24 50 0.93
25 2 0.04
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:5356327 original size:7 final size:7
Alignment explanation
Indices: 5356315--5356354 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
5356305 TGGTCAACTC
5356315 CGGTCAA
1 CGGTCAA
5356322 CGGTCAA
1 CGGTCAA
5356329 CGGGTCAA
1 C-GGTCAA
5356337 CGGTCAA
1 CGGTCAA
5356344 CGGGTCAA
1 C-GGTCAA
5356352 CGG
1 CGG
5356355 GTCGGTCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:5356336 original size:15 final size:15
Alignment explanation
Indices: 5356316--5356354 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
5356306 GGTCAACTCC
5356316 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
5356331 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
5356346 GGTCAACGG
1 GGTCAACGG
5356355 GTCGGTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.13
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:5356369 original size:8 final size:8
Alignment explanation
Indices: 5356316--5356357 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
5356306 GGTCAACTCC
5356316 GGTCAAC-
1 GGTCAACG
5356323 GGTCAACG
1 GGTCAACG
5356331 GGTCAAC-
1 GGTCAACG
5356338 GGTCAACG
1 GGTCAACG
5356346 GGTCAACG
1 GGTCAACG
5356354 GGTC
1 GGTC
5356358 GGTCAATGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.24, C:0.26, G:0.36, T:0.14
Consensus pattern (8 bp):
GGTCAACG
Found at i:5356385 original size:13 final size:13
Alignment explanation
Indices: 5356369--5356404 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
5356359 GTCAATGGGT
5356369 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
*
5356382 CGGGTTGGGTAAA
1 CGGGTCGGGTAAA
5356395 CGGGTCGGGT
1 CGGGTCGGGT
5356405 CGGGTCAACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.17, C:0.14, G:0.50, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:5356391 original size:18 final size:18
Alignment explanation
Indices: 5356352--5356427 Score: 83
Period size: 18 Copynumber: 4.6 Consensus size: 18
5356342 AACGGGTCAA
* *
5356352 CGGGTC-GGTCAATGGGT
1 CGGGTCGGGTAAACGGGT
5356369 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
5356387 ----T-GGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
5356400 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTAAACGGGT
5356418 CGGGTCGGGT
1 CGGGTCGGGT
5356428 TGTGACCGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
13 12 0.24
14 1 0.02
17 7 0.14
18 30 0.60
ACGTcount: A:0.13, C:0.17, G:0.50, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:5359831 original size:21 final size:21
Alignment explanation
Indices: 5359792--5359832 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5359782 GATAAAAGAT
* * *
5359792 TACCTAAGACATTATTATTTC
1 TACCTAAAACATGAATATTTC
5359813 TACCTAAAACATGAATATTT
1 TACCTAAAACATGAATATTT
5359833 TTTAATAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (21 bp):
TACCTAAAACATGAATATTTC
Found at i:5360857 original size:29 final size:30
Alignment explanation
Indices: 5360803--5360870 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
5360793 TATCGTTGAT
5360803 ATTTAA-TTTTTTCTTCTCATATTTTTTAA
1 ATTTAAGTTTTTTCTTCTCATATTTTTTAA
5360832 ATTTAAGTTTTTTCTTCTCATATTTTTTAA
1 ATTTAAGTTTTTTCTTCTCATATTTTTTAA
5360862 ATTTAAGTT
1 ATTTAAGTT
5360871 ATGTTATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 6 0.16
30 32 0.84
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.63
Consensus pattern (30 bp):
ATTTAAGTTTTTTCTTCTCATATTTTTTAA
Found at i:5372662 original size:21 final size:22
Alignment explanation
Indices: 5372638--5372681 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
5372628 AGATAAAATT
* *
5372638 TAAATTTAACAATG-TTGAACA
1 TAAATTTAAAAACGATTGAACA
5372659 TAAATTTAAAAACGATTGAACA
1 TAAATTTAAAAACGATTGAACA
5372681 T
1 T
5372682 GAGTTTAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (22 bp):
TAAATTTAAAAACGATTGAACA
Found at i:5373391 original size:21 final size:21
Alignment explanation
Indices: 5373365--5373471 Score: 65
Period size: 21 Copynumber: 5.5 Consensus size: 21
5373355 GGACCTATCA
5373365 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
*
5373386 TCCCGAAGGA---CA--TGTCA
1 TCCCGAAGGATGTCATCTGT-G
*
5373403 TCCC-AGAGGATGTAATCTGTG
1 TCCCGA-AGGATGTCATCTGTG
*
5373424 TCCCGAAGGA---C--CTGTCA
1 TCCCGAAGGATGTCATCTGT-G
*
5373441 TCCCGAAGGATGTAATCTGTG
1 TCCCGAAGGATGTCATCTGTG
*
5373462 TCCCGTAGGA
1 TCCCGAAGGA
5373472 CCTATCATAT
Statistics
Matches: 64, Mismatches: 8, Indels: 28
0.64 0.08 0.28
Matches are distributed among these distances:
16 8 0.12
17 18 0.28
18 2 0.03
20 1 0.02
21 27 0.42
22 8 0.12
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.24
Consensus pattern (21 bp):
TCCCGAAGGATGTCATCTGTG
Found at i:5373404 original size:38 final size:38
Alignment explanation
Indices: 5373346--5373479 Score: 207
Period size: 38 Copynumber: 3.5 Consensus size: 38
5373336 CTCGTATAAA
* *
5373346 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATCTG
*
5373384 TGTCCCGAAGGACATGTCATCCC-AGAGGATGTAATCTG
1 TGTCCCGAAGGACCTGTCATCCCGA-AGGATGTAATCTG
5373422 TGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATCTG
* *
5373460 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACCTGTCAT
5373480 ATGTCTTATA
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
37 1 0.01
38 86 0.98
39 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.25
Consensus pattern (38 bp):
TGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATCTG
Found at i:5373685 original size:46 final size:46
Alignment explanation
Indices: 5373628--5373732 Score: 194
Period size: 46 Copynumber: 2.3 Consensus size: 46
5373618 ATGTGTAACA
5373628 ATGT-ATTTCATATCATATCACATGTATCACGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
5373673 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
5373719 ATATCATTTCATAT
1 ATGTCATTTCATAT
5373733 AGCCACATAG
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
45 4 0.07
46 54 0.93
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (46 bp):
ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
Found at i:5373724 original size:22 final size:22
Alignment explanation
Indices: 5373652--5373724 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
5373642 ATATCACATG
5373652 TATCACGTATTACATATTCATA
1 TATCACGTATTACATATTCATA
* ** * *
5373674 TGTCATTTCA-TATCATATCACATG
1 TATCACGT-ATTA-CATAT-TCATA
5373698 TATCACGTATTACATATTCATA
1 TATCACGTATTACATATTCATA
5373720 TATCA
1 TATCA
5373725 TTTCATATAG
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
22 15 0.41
23 12 0.32
24 10 0.27
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.41
Consensus pattern (22 bp):
TATCACGTATTACATATTCATA
Found at i:5374179 original size:15 final size:15
Alignment explanation
Indices: 5374159--5374188 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5374149 ATACCCCCAG
5374159 GGGGAATCTGTTCCC
1 GGGGAATCTGTTCCC
5374174 GGGGAATCTGTTCCC
1 GGGGAATCTGTTCCC
5374189 CCTGCACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGAATCTGTTCCC
Found at i:5377510 original size:2 final size:2
Alignment explanation
Indices: 5377503--5377537 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5377493 ATCAAATTAT
5377503 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5377538 TTCAATGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5377736 original size:19 final size:19
Alignment explanation
Indices: 5377714--5377751 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5377704 AGTCATTATC
5377714 TCACATACACATACTTAAA
1 TCACATACACATACTTAAA
5377733 TCACATACACATACTTAAA
1 TCACATACACATACTTAAA
5377752 CTCATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (19 bp):
TCACATACACATACTTAAA
Found at i:5379576 original size:21 final size:21
Alignment explanation
Indices: 5379550--5379656 Score: 63
Period size: 21 Copynumber: 5.5 Consensus size: 21
5379540 TGACCTATCA
*
5379550 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTAATCTGTG
* *
5379571 TCCCGAA-G--G--ACCTGTCA
1 TCCCGAAGGATGTAATCTGT-G
*
5379588 TCCCGAAGGATGTAATATGTG
1 TCCCGAAGGATGTAATCTGTG
* *
5379609 TCCCG-A--ATG--ACCTGTCA
1 TCCCGAAGGATGTAATCTGT-G
5379626 TCCCGAAGGATGTAATCTGTG
1 TCCCGAAGGATGTAATCTGTG
*
5379647 TCCCGTAGGA
1 TCCCGAAGGA
5379657 CCTATCATAT
Statistics
Matches: 63, Mismatches: 11, Indels: 24
0.64 0.11 0.24
Matches are distributed among these distances:
16 9 0.14
17 12 0.19
18 6 0.10
20 6 0.10
21 21 0.33
22 9 0.14
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.25
Consensus pattern (21 bp):
TCCCGAAGGATGTAATCTGTG
Found at i:5379583 original size:38 final size:38
Alignment explanation
Indices: 5379531--5379664 Score: 205
Period size: 38 Copynumber: 3.5 Consensus size: 38
5379521 CTCGTATAAA
* *
5379531 TGTCCCGAATGACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
* *
5379569 TGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATATG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
* *
5379607 TGTCCCGAATGACCTGTCATCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
*
5379645 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
5379665 ATGTCTTATA
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 87 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
Found at i:5379869 original size:46 final size:46
Alignment explanation
Indices: 5379816--5379917 Score: 186
Period size: 46 Copynumber: 2.2 Consensus size: 46
5379806 TGTAACAATG
*
5379816 TATTTCATATCATATCACATGTATCACGTATTACATATTCATATGT
1 TATTTCATATCATATCACATGTATCACGTATTACATATTCATATAT
5379862 TATTTCATATCATATCACATGTATCACGTATTACATATTCATATAT
1 TATTTCATATCATATCACATGTATCACGTATTACATATTCATATAT
*
5379908 CATTTCATAT
1 TATTTCATAT
5379918 AGCCACATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (46 bp):
TATTTCATATCATATCACATGTATCACGTATTACATATTCATATAT
Found at i:5379898 original size:23 final size:23
Alignment explanation
Indices: 5379826--5379899 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
5379816 TATTTCATAT
5379826 CATATCACATGTATCACGTATTA
1 CATATCACATGTATCACGTATTA
* ** *
5379849 CATATTCATATGTTATTTCATA-T-
1 CATA-TCACATG-TATCACGTATTA
5379872 CATATCACATGTATCACGTATTA
1 CATATCACATGTATCACGTATTA
5379895 CATAT
1 CATAT
5379900 TCATATATCA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
21 6 0.15
22 7 0.18
23 13 0.33
24 7 0.18
25 6 0.15
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.41
Consensus pattern (23 bp):
CATATCACATGTATCACGTATTA
Found at i:5379909 original size:22 final size:22
Alignment explanation
Indices: 5379837--5379909 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
5379827 ATATCACATG
5379837 TATCACGTATTACATATTCATA
1 TATCACGTATTACATATTCATA
* * ** * *
5379859 TGTTATTTCA-TATCATATCACATG
1 TATCACGT-ATTA-CATAT-TCATA
5379883 TATCACGTATTACATATTCATA
1 TATCACGTATTACATATTCATA
5379905 TATCA
1 TATCA
5379910 TTTCATATAG
Statistics
Matches: 35, Mismatches: 12, Indels: 8
0.64 0.22 0.15
Matches are distributed among these distances:
22 14 0.40
23 12 0.34
24 9 0.26
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.42
Consensus pattern (22 bp):
TATCACGTATTACATATTCATA
Found at i:5380382 original size:34 final size:35
Alignment explanation
Indices: 5380324--5380394 Score: 117
Period size: 34 Copynumber: 2.0 Consensus size: 35
5380314 TTTCATTTAG
5380324 GGGGAATCGATACCCCCCCCAGGGGGAATCTGTTCCC
1 GGGGAATCGATA--CCCCCCAGGGGGAATCTGTTCCC
5380361 GGGGAATCGATA-CCCCCAGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGGGGGAATCTGTTCCC
5380395 TCTGCACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 22 0.65
37 12 0.35
ACGTcount: A:0.20, C:0.32, G:0.31, T:0.17
Consensus pattern (35 bp):
GGGGAATCGATACCCCCCAGGGGGAATCTGTTCCC
Found at i:5383709 original size:2 final size:2
Alignment explanation
Indices: 5383702--5383766 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
5383692 ATCAAATTAT
5383702 TA 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 TA
5383744 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
5383767 TCAATGATAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5383963 original size:19 final size:19
Alignment explanation
Indices: 5383941--5383978 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5383931 AGTCATTATC
5383941 TCACATACACATACTTAAA
1 TCACATACACATACTTAAA
5383960 TCACATACACATACTTAAA
1 TCACATACACATACTTAAA
5383979 CTCATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (19 bp):
TCACATACACATACTTAAA
Found at i:5385805 original size:21 final size:21
Alignment explanation
Indices: 5385779--5385885 Score: 63
Period size: 21 Copynumber: 5.5 Consensus size: 21
5385769 TGACCTATCA
*
5385779 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTAATCTGTG
* *
5385800 TCCCGAA-G--G--ACCTGTCA
1 TCCCGAAGGATGTAATCTGT-G
*
5385817 TCCCGAAGGATGTAATATGTG
1 TCCCGAAGGATGTAATCTGTG
* *
5385838 TCCCG-A--ATG--ACCTGTCA
1 TCCCGAAGGATGTAATCTGT-G
5385855 TCCCGAAGGATGTAATCTGTG
1 TCCCGAAGGATGTAATCTGTG
*
5385876 TCCCGTAGGA
1 TCCCGAAGGA
5385886 CCTATCATAT
Statistics
Matches: 63, Mismatches: 11, Indels: 24
0.64 0.11 0.24
Matches are distributed among these distances:
16 9 0.14
17 12 0.19
18 6 0.10
20 6 0.10
21 21 0.33
22 9 0.14
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.25
Consensus pattern (21 bp):
TCCCGAAGGATGTAATCTGTG
Found at i:5385812 original size:38 final size:38
Alignment explanation
Indices: 5385760--5385893 Score: 205
Period size: 38 Copynumber: 3.5 Consensus size: 38
5385750 CTCGTATAAA
* *
5385760 TGTCCCGAATGACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
* *
5385798 TGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATATG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
* *
5385836 TGTCCCGAATGACCTGTCATCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
*
5385874 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
5385894 ATGTCTTATA
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 87 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
Found at i:5386098 original size:46 final size:46
Alignment explanation
Indices: 5386045--5386146 Score: 186
Period size: 46 Copynumber: 2.2 Consensus size: 46
5386035 TGTAACAATG
*
5386045 TATTTCATATCATATCACATGTATCACGTATTACATATTCATATGT
1 TATTTCATATCATATCACATGTATCACGTATTACATATTCATATAT
5386091 TATTTCATATCATATCACATGTATCACGTATTACATATTCATATAT
1 TATTTCATATCATATCACATGTATCACGTATTACATATTCATATAT
*
5386137 CATTTCATAT
1 TATTTCATAT
5386147 AGCCACATAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (46 bp):
TATTTCATATCATATCACATGTATCACGTATTACATATTCATATAT
Found at i:5386127 original size:23 final size:23
Alignment explanation
Indices: 5386055--5386128 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
5386045 TATTTCATAT
5386055 CATATCACATGTATCACGTATTA
1 CATATCACATGTATCACGTATTA
* ** *
5386078 CATATTCATATGTTATTTCATA-T-
1 CATA-TCACATG-TATCACGTATTA
5386101 CATATCACATGTATCACGTATTA
1 CATATCACATGTATCACGTATTA
5386124 CATAT
1 CATAT
5386129 TCATATATCA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
21 6 0.15
22 7 0.18
23 13 0.33
24 7 0.18
25 6 0.15
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.41
Consensus pattern (23 bp):
CATATCACATGTATCACGTATTA
Found at i:5386138 original size:22 final size:22
Alignment explanation
Indices: 5386066--5386138 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
5386056 ATATCACATG
5386066 TATCACGTATTACATATTCATA
1 TATCACGTATTACATATTCATA
* * ** * *
5386088 TGTTATTTCA-TATCATATCACATG
1 TATCACGT-ATTA-CATAT-TCATA
5386112 TATCACGTATTACATATTCATA
1 TATCACGTATTACATATTCATA
5386134 TATCA
1 TATCA
5386139 TTTCATATAG
Statistics
Matches: 35, Mismatches: 12, Indels: 8
0.64 0.22 0.15
Matches are distributed among these distances:
22 14 0.40
23 12 0.34
24 9 0.26
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.42
Consensus pattern (22 bp):
TATCACGTATTACATATTCATA
Found at i:5386610 original size:34 final size:35
Alignment explanation
Indices: 5386553--5386622 Score: 124
Period size: 34 Copynumber: 2.0 Consensus size: 35
5386543 TTTCATTTAG
5386553 GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
1 GGGGAATCGATA-CCCCCCAGGGGGAATCTGTTCCC
5386589 GGGGAATCGATA-CCCCCAGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGGGGGAATCTGTTCCC
5386623 TCTGCATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 22 0.65
36 12 0.35
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.17
Consensus pattern (35 bp):
GGGGAATCGATACCCCCCAGGGGGAATCTGTTCCC
Found at i:5388624 original size:20 final size:21
Alignment explanation
Indices: 5388582--5388625 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
5388572 CTTATTCTTT
*
5388582 TAAATTTTGAAAACAATTTTC
1 TAAAATTTGAAAACAATTTTC
5388603 TAAAATTTGAAAACAA-TTTC
1 TAAAATTTGAAAACAATTTTC
5388623 TAA
1 TAA
5388626 GAAAACACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.39
Consensus pattern (21 bp):
TAAAATTTGAAAACAATTTTC
Found at i:5390033 original size:2 final size:2
Alignment explanation
Indices: 5390026--5390053 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5390016 TAAGGCAATA
5390026 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
5390054 TAAAATTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5402903 original size:31 final size:31
Alignment explanation
Indices: 5402865--5402932 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
5402855 ATCCGAGTGG
*
5402865 TCTTCTAACTATCAGGGGCAATGTGCGCTTC
1 TCTTCTAACTATCAGGGGCAATGCGCGCTTC
5402896 TCTTCTAACTATCAGGGGCAATGCGCGCTTC
1 TCTTCTAACTATCAGGGGCAATGCGCGCTTC
*
5402927 TTTTCT
1 TCTTCT
5402933 TGCAGGATCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (31 bp):
TCTTCTAACTATCAGGGGCAATGCGCGCTTC
Found at i:5407819 original size:18 final size:19
Alignment explanation
Indices: 5407784--5407820 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
5407774 CACGGAATGT
5407784 AAGATTATCAGTGGGAATAA
1 AAGATTATCAG-GGGAATAA
5407804 AAGATTATCA-GGGAATA
1 AAGATTATCAGGGGAATA
5407821 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.24
Consensus pattern (19 bp):
AAGATTATCAGGGGAATAA
Found at i:5408754 original size:2 final size:2
Alignment explanation
Indices: 5408749--5408784 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
5408739 TATACGATAC
5408749 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
5408785 TTCTTCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5409459 original size:21 final size:21
Alignment explanation
Indices: 5409341--5409459 Score: 73
Period size: 21 Copynumber: 5.8 Consensus size: 21
5409331 AAATGACCAA
**
5409341 CAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGATTTTC
* ** *
5409361 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGATTTTC
5409381 CAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGATT-TTC
* * ** *
5409402 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGATTTTC
* **
5409423 CAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGATTTTC
*
5409444 CAGAATCGCAACGCGA
1 CAAAATCGCAACGCGA
5409460 ACACATAAAT
Statistics
Matches: 72, Mismatches: 23, Indels: 7
0.71 0.23 0.07
Matches are distributed among these distances:
19 1 0.01
20 25 0.35
21 44 0.61
22 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (21 bp):
CAAAATCGCAACGCGATTTTC
Found at i:5409472 original size:20 final size:20
Alignment explanation
Indices: 5409447--5409619 Score: 233
Period size: 20 Copynumber: 8.6 Consensus size: 20
5409437 GATTTTCCAG
* *
5409447 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
5409467 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
5409487 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
5409507 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5409527 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
5409547 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
5409567 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
5409588 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
5409608 AATCGCAACGCG
1 AATCGCAACGCG
5409620 ATTTTTAAAG
Statistics
Matches: 135, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
20 116 0.86
21 19 0.14
ACGTcount: A:0.34, C:0.29, G:0.19, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:5410038 original size:33 final size:33
Alignment explanation
Indices: 5409999--5410069 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
5409989 TTCACTTAGA
5409999 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
5410032 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
5410065 TTTCA
1 TTTCA
5410070 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:5410175 original size:21 final size:21
Alignment explanation
Indices: 5410149--5410225 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
5410139 TGCAGAAGAG
5410149 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
**
5410170 TCGCAAC-ATGA-AAATGACTA
1 TCGCAACGA-GAGAAATGAAAA
*
5410190 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAGAGAAATGAAAA
5410212 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
5410226 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
20 10 0.21
21 27 0.57
22 10 0.21
ACGTcount: A:0.49, C:0.17, G:0.21, T:0.13
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:5410229 original size:14 final size:14
Alignment explanation
Indices: 5410210--5410266 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
5410200 GAAAAATGAA
5410210 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
5410224 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
5410243 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5410257 AATCGCAACG
1 AATCGCAACG
5410267 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:5410241 original size:33 final size:33
Alignment explanation
Indices: 5410203--5410282 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
5410193 GCAACGAGAA
5410203 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
5410236 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
5410269 AAACCAAAATCGCA
1 AAATGAAAATCGCA
5410283 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:5410300 original size:19 final size:19
Alignment explanation
Indices: 5410278--5410405 Score: 78
Period size: 19 Copynumber: 7.1 Consensus size: 19
5410268 GAAACCAAAA
*
5410278 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
5410297 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
5410311 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
5410330 TCGTGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
5410344 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
5410364 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
5410384 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
5410404 TC
1 TC
5410406 AACCAAAAGA
Statistics
Matches: 85, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
14 19 0.22
16 6 0.07
17 6 0.07
19 21 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:5410319 original size:14 final size:14
Alignment explanation
Indices: 5410300--5410356 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
5410290 TTTCATTTCG
5410300 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5410314 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
5410331 CGTGTTGCGATTCTCT
1 C--GTTGCGATTCTCT
5410347 CGTTGCGATT
1 CGTTGCGATT
5410357 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 17 0.47
16 6 0.17
17 6 0.17
19 7 0.19
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:5410325 original size:33 final size:33
Alignment explanation
Indices: 5410283--5410405 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
5410273 CAAAATCGCA
5410283 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
5410316 TTGCGATTTTCATTTCGTGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
5410349 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
5410390 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
5410406 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
33 44 0.56
34 2 0.03
35 5 0.06
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 21 0.27
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:5410367 original size:21 final size:21
Alignment explanation
Indices: 5410341--5410405 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
5410331 CGTGTTGCGA
5410341 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
5410362 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
5410382 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
5410403 TTC
1 TTC
5410406 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:5412281 original size:33 final size:33
Alignment explanation
Indices: 5412223--5412346 Score: 167
Period size: 33 Copynumber: 3.7 Consensus size: 33
5412213 TAGTTTACTT
* * * *
5412223 TCGCAACACGAAACTTAAAATCGCAATGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
5412257 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
* *
5412290 TCGCAACGCAAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
5412323 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
5412347 TTGCGATTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 68 0.85
34 12 0.15
ACGTcount: A:0.47, C:0.27, G:0.17, T:0.10
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:5412293 original size:14 final size:14
Alignment explanation
Indices: 5412272--5412330 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
5412262 ACGCGAAATG
5412272 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
5412286 AGAATCGCAACGCAAAACC
1 AAAATCGCAACG----A-C
5412305 AAAATCGCAACGAC
1 AAAATCGCAACGAC
5412319 AAAATCGCAACG
1 AAAATCGCAACG
5412331 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 24 0.63
15 1 0.03
18 1 0.03
19 12 0.32
ACGTcount: A:0.49, C:0.29, G:0.15, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:5412310 original size:19 final size:18
Alignment explanation
Indices: 5412255--5412346 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
5412245 GCAATGAGAG
**
5412255 AATCGCAACGCGAAATGAA
1 AATCGCAACGC-AAACCAA
*
5412274 AATCGCAACG---A-CAG
1 AATCGCAACGCAAACCAA
5412288 AATCGCAACGCAAAACCAA
1 AATCGCAACGC-AAACCAA
5412307 AATCGCAACG---A-CAA
1 AATCGCAACGCAAACCAA
5412321 AATCGCAACGCGAAACCAA
1 AATCGCAACGC-AAACCAA
5412340 AATCGCA
1 AATCGCA
5412347 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.40
15 2 0.03
18 2 0.03
19 32 0.53
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCAAACCAA
Found at i:5412364 original size:19 final size:19
Alignment explanation
Indices: 5412342--5412514 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
5412332 GAAACCAAAA
*
5412342 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
5412361 TCGCGTTGTGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
5412375 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
5412394 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
5412410 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
5412427 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
5412446 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
5412465 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
5412484 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
5412504 TCGTGTTGCGA
1 TCGCGTTGCGA
5412515 AAGTAAACTA
Statistics
Matches: 124, Mismatches: 19, Indels: 21
0.76 0.12 0.13
Matches are distributed among these distances:
14 16 0.13
16 8 0.06
17 8 0.06
19 80 0.65
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:5412472 original size:38 final size:38
Alignment explanation
Indices: 5412342--5412514 Score: 159
Period size: 33 Copynumber: 4.8 Consensus size: 38
5412332 GAAACCAAAA
* *
5412342 TCGCATTGCGATTTTCATTTCGCGTTGTGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
5412377 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
5412410 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
5412446 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
5412484 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
5412515 AAGTAAACTA
Statistics
Matches: 114, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 51 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.39
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:5414455 original size:14 final size:14
Alignment explanation
Indices: 5414436--5414471 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
5414426 ATTGTTTAAT
5414436 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
5414450 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
5414464 TGATTTGT
1 TGATTTGT
5414472 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:5414595 original size:20 final size:19
Alignment explanation
Indices: 5414578--5414676 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
5414568 AAAAATGACT
5414578 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
5414598 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
5414617 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
5414631 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
5414650 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
5414670 ATCGCAA
1 ATCGCAA
5414677 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 29 0.41
20 26 0.37
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:5414708 original size:53 final size:53
Alignment explanation
Indices: 5414578--5414695 Score: 220
Period size: 53 Copynumber: 2.2 Consensus size: 53
5414568 AAAAATGACT
5414578 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
5414631 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
5414684 ATCGCAATGCGA
1 ATCGCAATGCGA
5414696 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 19 0.30
53 45 0.70
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:5414713 original size:19 final size:19
Alignment explanation
Indices: 5414685--5414966 Score: 316
Period size: 19 Copynumber: 15.7 Consensus size: 19
5414675 AACGAGAGAA
*
5414685 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5414704 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
5414723 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
5414740 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5414757 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
5414776 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
5414793 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
5414810 TCGCATTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
*
5414829 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
5414846 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
5414863 TCGCATTGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
5414882 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5414901 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5414920 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
5414938 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
5414954 TGGCATTGCGATT
1 TCGCATTGCGATT
5414967 CTCTCGTTGC
Statistics
Matches: 226, Mismatches: 13, Indels: 48
0.79 0.05 0.17
Matches are distributed among these distances:
14 29 0.13
16 17 0.08
17 19 0.08
18 10 0.04
19 106 0.47
20 45 0.20
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:5414966 original size:53 final size:53
Alignment explanation
Indices: 5414691--5414938 Score: 408
Period size: 53 Copynumber: 4.6 Consensus size: 53
5414681 AGAATCGCAA
5414691 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
5414744 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
5414797 TGCGATTTTCATTTCGCATTGCAATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
* *
5414850 TGCGATTTTCATTTCGCATTGCGATTTTAATTT-CGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA--TTC-TCTCG--T
5414907 TGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCAT
5414939 GTTGGGATTT
Statistics
Matches: 184, Mismatches: 5, Indels: 7
0.94 0.03 0.04
Matches are distributed among these distances:
52 10 0.05
53 136 0.74
54 3 0.02
55 4 0.02
57 15 0.08
58 16 0.09
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.46
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:5414995 original size:53 final size:51
Alignment explanation
Indices: 5414868--5414999 Score: 122
Period size: 53 Copynumber: 2.5 Consensus size: 51
5414858 TCATTTCGCA
* ** *
5414868 TTGCGATTTTAATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCAT
1 TTGCGATTGTAATTTCGTGTTGCGATTTTCATTTCGCATTGCGATTTTCAG
* * * * * *
5414919 TTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTGGCATTGCGATTCTCTC-G
1 TTGCG-ATTG-TAATTTCGTGTTGCGATTTTCATTTCGCATTGCGATT-T-TCAG
5414973 TTGCGATTGTAATTTCCGTGTTGCGAT
1 TTGCGATTGTAATTT-CGTGTTGCGAT
5415000 AGTCAAATGC
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
51 4 0.07
52 7 0.11
53 43 0.70
54 5 0.08
55 2 0.03
ACGTcount: A:0.15, C:0.18, G:0.20, T:0.46
Consensus pattern (51 bp):
TTGCGATTGTAATTTCGTGTTGCGATTTTCATTTCGCATTGCGATTTTCAG
Found at i:5417495 original size:24 final size:24
Alignment explanation
Indices: 5417461--5417507 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5417451 CTGAAACATC
5417461 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
5417485 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
5417508 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:5418227 original size:20 final size:20
Alignment explanation
Indices: 5418199--5418427 Score: 235
Period size: 20 Copynumber: 11.4 Consensus size: 20
5418189 AAATTTCAGT
* * *
5418199 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
5418219 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
5418239 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
5418259 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
5418279 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
5418299 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
5418319 ATTGCAATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
5418339 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
5418359 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
5418379 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
5418399 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
5418419 GTTGCGATT
1 GTTGCGATT
5418428 CTGGAAAATC
Statistics
Matches: 181, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 180 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:5419448 original size:29 final size:28
Alignment explanation
Indices: 5419412--5419468 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
5419402 TAGTCCTTAA
*
5419412 CTTTATGTTTTACTCAATTTGGTATTTT
1 CTTTATGTTTTACTCAATTTGATATTTT
5419440 CTTTAATGTTTTACTCAATTTGATATTTT
1 CTTT-ATGTTTTACTCAATTTGATATTTT
5419469 AACTGCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.21, C:0.11, G:0.09, T:0.60
Consensus pattern (28 bp):
CTTTATGTTTTACTCAATTTGATATTTT
Found at i:5420598 original size:11 final size:11
Alignment explanation
Indices: 5420582--5420616 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
5420572 GGAAAACAAG
5420582 TACAAAGACCT
1 TACAAAGACCT
*
5420593 TACAAAGTCCT
1 TACAAAGACCT
5420604 TACAAAGACCT
1 TACAAAGACCT
5420615 TA
1 TA
5420617 TCACTTTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.23
Consensus pattern (11 bp):
TACAAAGACCT
Found at i:5425563 original size:27 final size:28
Alignment explanation
Indices: 5425533--5425594 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
5425523 GAAATAACTG
5425533 AAATACCCTTGAACTATAAAATGA-CCA
1 AAATACCCTTGAACTATAAAATGACCCA
* *
5425560 AAATACCCTTGAAGTGTAAAATGACCCA
1 AAATACCCTTGAACTATAAAATGACCCA
*
5425588 AAGTACC
1 AAATACC
5425595 TCCAAGCCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.45, C:0.23, G:0.11, T:0.21
Consensus pattern (28 bp):
AAATACCCTTGAACTATAAAATGACCCA
Found at i:5427190 original size:13 final size:13
Alignment explanation
Indices: 5427172--5427245 Score: 85
Period size: 13 Copynumber: 5.7 Consensus size: 13
5427162 TGCATCATAA
*
5427172 ATTTATGACGCGT
1 ATTTATGACGCGC
* *
5427185 ATTTATGACACAC
1 ATTTATGACGCGC
*
5427198 ATTTATGATGCGC
1 ATTTATGACGCGC
* *
5427211 ATTTATGATGCGT
1 ATTTATGACGCGC
*
5427224 ATTTATGACGCGA
1 ATTTATGACGCGC
5427237 ATTTATGAC
1 ATTTATGAC
5427246 ACTCATTGCG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:5427367 original size:85 final size:84
Alignment explanation
Indices: 5427224--5427387 Score: 249
Period size: 85 Copynumber: 1.9 Consensus size: 84
5427214 TATGATGCGT
* *
5427224 ATTTATGACGCGAATTTATGACACTCATTGCGCGTCATTGAAGTCCCCGTCATAAATGAAGACGA
1 ATTTATGACACGAATTTATGACACTCATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGACGA
5427289 CACACATTTGTGTGTGATAA
66 CACACA-TTGTGTGTGATAA
* * * *
5427309 ATTTATGACACGCATTTATGAC-TTACATTGCGTGTCATTGAAGCCCCCGTCATAAATGAAGATG
1 ATTTATGACACGAATTTATGACACT-CATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGACG
5427373 ACACACATTGTGTGT
65 ACACACATTGTGTGT
5427388 CAAAGAGTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
84 9 0.12
85 63 0.88
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (84 bp):
ATTTATGACACGAATTTATGACACTCATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGACGA
CACACATTGTGTGTGATAA
Found at i:5433898 original size:5 final size:5
Alignment explanation
Indices: 5433888--5433913 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5433878 TTGAGTACTG
5433888 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
5433914 TTATTTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:5434719 original size:27 final size:27
Alignment explanation
Indices: 5434681--5434740 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
5434671 AAATATTGAT
*
5434681 GTGACAAATTTCACGTGATTGTCTTAG
1 GTGACAAATTTCACGTGATTATCTTAG
* *
5434708 GTGACACATTTCACGTTATTATCTTAG
1 GTGACAAATTTCACGTGATTATCTTAG
5434735 GTGACA
1 GTGACA
5434741 TGACATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
GTGACAAATTTCACGTGATTATCTTAG
Found at i:5434751 original size:32 final size:32
Alignment explanation
Indices: 5434682--5434785 Score: 101
Period size: 32 Copynumber: 3.4 Consensus size: 32
5434672 AATATTGATG
* *
5434682 TGACAAATTTCACGTGATTGTCTTAGGTGAC-
1 TGACATATTTCACGTGATTATCTTAGGTGACA
*
5434713 --AC--ATTTCACGTTATTATCTTAGGTGACA
1 TGACATATTTCACGTGATTATCTTAGGTGACA
* * *
5434741 TGACATATTTCACGTGATCATCTTCGATGACA
1 TGACATATTTCACGTGATTATCTTAGGTGACA
* *
5434773 TGATATATGTCAC
1 TGACATATTTCAC
5434786 ACATTCACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
27 23 0.38
29 2 0.03
30 2 0.03
32 33 0.55
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (32 bp):
TGACATATTTCACGTGATTATCTTAGGTGACA
Found at i:5436802 original size:26 final size:26
Alignment explanation
Indices: 5436771--5436824 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
5436761 CCCTTAGTTT
*
5436771 AACAAATAAACTTTATACTTAAGTAC
1 AACAAATAAACTTTATAATTAAGTAC
*
5436797 AACAAATAAATTTTATAATTAAGTAC
1 AACAAATAAACTTTATAATTAAGTAC
5436823 AA
1 AA
5436825 AACAAAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.31
Consensus pattern (26 bp):
AACAAATAAACTTTATAATTAAGTAC
Found at i:5438713 original size:25 final size:23
Alignment explanation
Indices: 5438685--5438732 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
5438675 TCTTAGACGG
*
5438685 TGGCCGTGGAGATCTTTGGGTTTTC
1 TGGCCGTGGAG-GCTTT-GGTTTTC
*
5438710 TGGCGGTGGAGGCTTTGGTTTTC
1 TGGCCGTGGAGGCTTTGGTTTTC
5438733 GGGGTTGCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 4 0.19
25 10 0.48
ACGTcount: A:0.06, C:0.15, G:0.40, T:0.40
Consensus pattern (23 bp):
TGGCCGTGGAGGCTTTGGTTTTC
Found at i:5441154 original size:16 final size:16
Alignment explanation
Indices: 5441128--5441165 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
5441118 TCTACTAAAG
5441128 CATGATTGGGTAGATAT
1 CATG-TTGGGTAGATAT
5441145 CATGTTGGGTAGATAT
1 CATGTTGGGTAGATAT
5441161 CATGT
1 CATGT
5441166 GAATAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.08, G:0.29, T:0.37
Consensus pattern (16 bp):
CATGTTGGGTAGATAT
Found at i:5450911 original size:13 final size:13
Alignment explanation
Indices: 5450893--5450931 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
5450883 TATTTTGCTT
5450893 GAAGAAAAAA-GAA
1 GAAGAAAAAATG-A
5450906 GAAGAAAAAATGA
1 GAAGAAAAAATGA
5450919 GAAGAAAAAATGA
1 GAAGAAAAAATGA
5450932 AAAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 24 0.96
14 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (13 bp):
GAAGAAAAAATGA
Found at i:5450937 original size:9 final size:8
Alignment explanation
Indices: 5450923--5450988 Score: 62
Period size: 9 Copynumber: 7.8 Consensus size: 8
5450913 AAATGAGAAG
5450923 AAAAAATGA
1 AAAAAAT-A
5450932 AAAAAATAA
1 AAAAAAT-A
5450941 AAAAAATA
1 AAAAAATA
5450949 AAAAAATA
1 AAAAAATA
5450957 ATAAAAA-A
1 A-AAAAATA
* *
5450965 AAATGAATG
1 AAA-AAATA
5450974 AAAAAATGA
1 AAAAAAT-A
5450983 AAAAAA
1 AAAAAA
5450989 AAATGAAGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
7 2 0.04
8 17 0.35
9 29 0.60
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Done.