Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008353.1 Hibiscus syriacus cultivar Beakdansim tig00111088_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: 2583621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 9 of 13
Found at i:1663794 original size:64 final size:64
Alignment explanation
Indices: 1663686--1663910 Score: 244
Period size: 64 Copynumber: 3.5 Consensus size: 64
1663676 TAATGAAGGT
* * * * *
1663686 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCATTATTAATGG
1663749 G
64 G
* *
1663750 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
* * * **
1663814 ATGCATCAATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT-TTCATTATTAATGGG
**
1663877 AGTGCATCGATGCACTACCAATGCATCGATGCAC
1 A-TGCATCGATGCACTACTTATGCATCGATGCAC
1663911 CTTCAAACAA
Statistics
Matches: 138, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
63 4 0.03
64 128 0.93
65 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:1666467 original size:84 final size:82
Alignment explanation
Indices: 1666314--1667650 Score: 1287
Period size: 84 Copynumber: 16.2 Consensus size: 82
1666304 TTTAAGACAA
*
1666314 CATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCC-ACAAAGACCTTCGAGTTCGACTACG
1666379 CTCAGCTCCAAGGCACAT
65 CTCAGCTCCAAGGCACAT
* * * * * *
1666397 CATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACTAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCC-AC-AAAGACCTTCGAGTTCGACTAC
*
1666462 GCTCAGCTCCAAGGCATAT
64 GCTCAGCTCCAAGGCACAT
* *
1666481 CATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAACAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCC--ACAAAGACCTTCGAGTTCGACTAC
* *
1666546 GTTCAGCTCCAAGGCACGT
64 GCTCAGCTCCAAGGCACAT
* ** * * * * * * * *
1666565 CATTCGCATAATAGCTTAAGTCGAGAAGGGCTATCTG-C-CAAAGACCCTCAAGTTCAATTACAC
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGC
* ** *
1666628 TAAGCTTTGAGGGCACAT
66 TCAGC-TCCAAGGCACAT
** * * * *
1666646 CATTTAAAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTATG
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCCA-CAAAGACCTTCGAGTTCGACTACG
1666711 CTCAGCTCCAAGGCACAT
65 CTCAGCTCCAAGGCACAT
* * * * * * * *
1666729 CATTAGCGGCATAACAT-AAGTCGAGAAGGGCTATCT-TC-CAAAGACCCTCGAGTTTGATTACA
1 CATTTGCAGCATAAC-TCAAGTCGAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACG
* * *
1666791 CTCAGCTTCGAGGGTACAT
65 CTCAGC-TCCAAGGCACAT
* * * * * * *
1666810 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCAACCACG
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCCAC-AAAGACCTTCGAGTTCGACTACG
*
1666875 CTCAGCTCCAAGGCATAT
65 CTCAGCTCCAAGGCACAT
* *
1666893 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTG-CCA-CAAAGACCTTCGAGTTCGACTAC
* *
1666958 GTTCAACTCCAAGGCACAT
64 GCTCAGCTCCAAGGCACAT
* * * * * *
1666977 CATTTACAGCATAACTTAAGTCGAGAAGGGCTATCT-CC-CAAAGACCTTCAAGTTCGATTACAC
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGC
* * *
1667040 TCAACTTCGAGGGCACAT
66 TCAGC-TCCAAGGCACAT
* ** * * * *
1667058 TATTTGCAATATAACTCAAGGT-TAGAAGGGTTATTTGCCAACTAAAAACCTTCGAGTTCAACTA
1 CATTTGCAGCATAACTCAA-GTCGAGAAGGGTTATCTGCC-AC-AAAGACCTTCGAGTTCGACTA
*
1667122 CGCTCAGCTCCAAGGCATAT
63 CGCTCAGCTCCAAGGCACAT
*
1667142 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAACAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCC--ACAAAGACCTTCGAGTTCGACTAC
* *
1667207 GTTCAGCTCCAAGGCACGT
64 GCTCAGCTCCAAGGCACAT
* * * * * * * * *
1667226 CATTCGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG-C-CAAAGACCCTCAAGTTCGATTACAC
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGC
* * *
1667289 TCAACTTCAAGGGCATAT
66 TCAGCTCCAA-GGCACAT
* * * * * * *
1667307 CATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCAACCACG
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCCAC-AAAGACCTTCGAGTTCGACTACG
*
1667372 CTCAGCTCCAAGGCATAT
65 CTCAGCTCCAAGGCACAT
* * *
1667390 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTTCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATC-TGCCA-CAAAGACCTTCGAGTTCGACTAC
* * *
1667455 GTTAAACTCCAAGGCACAT
64 GCTCAGCTCCAAGGCACAT
** * * * * * *
1667474 CATTTATAGCATAGCTTAAGTCGAGAAGGGCTATCT-CC-CAAAGACCTTCAAGTTCGATTACAC
1 CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGC
* *
1667537 TCAACTTCAAGGGCACAT
66 TCAGCTCCAA-GGCACAT
* * *
1667555 CATTTGTAACATAACTCAAGGT-TAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTCAA-GTCGAGAAGGGTTATCTGCC-ACAAAGACCTTCGAGTTCGACTAC
** *
1667619 GCTCAGCTCTTAGGCACCT
64 GCTCAGCTCCAAGGCACAT
*
1667638 CATTTACAGCATA
1 CATTTGCAGCATA
1667651 GCCCAAGGCA
Statistics
Matches: 1015, Mismatches: 206, Indels: 66
0.79 0.16 0.05
Matches are distributed among these distances:
80 132 0.13
81 173 0.17
82 16 0.02
83 172 0.17
84 491 0.48
85 31 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (82 bp):
CATTTGCAGCATAACTCAAGTCGAGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACAT
Found at i:1666858 original size:248 final size:248
Alignment explanation
Indices: 1666314--1667678 Score: 1670
Period size: 248 Copynumber: 5.5 Consensus size: 248
1666304 TTTAAGACAA
* * *
1666314 CATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCAACTACG
* * * * * * *
1666379 CTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACTAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAAG
* * * *
1666444 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAGAAG
131 ACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTAGCAGCATAACTTAAGTCGAGAAG
* * * ** * * *
1666509 GGTTATCTGCCAAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAA-GGCACGT
196 GGCTATCT-CC---CAAAGACCTTCAAGTTCGATTACACTCAACTTCAAGGGCACAT
* * * * * * * * *
1666565 CATTCGCATA-ATAGCTTAAGTCGAGAAGGGCTATCTG-C--CAAAGACCCTCAAGTTCAATTAC
1 CATTTGCA-ACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCAACTAC
* * ** * ** *
1666626 ACTAAGCTTTGAGGGCACATCATTTAAAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAA
65 GCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAA
* * * *
1666690 AGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTAGCGGCATAACATAAGTCGAGA
129 AGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTAGCAGCATAACTTAAGTCGAGA
* * * * * * *
1666755 AGGGCTATCTTCCAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGTACAT
194 AGGGCTATCTCCCAAAGACCTTCAAGTTCGATTACACTCAACTTCAAGGGCACAT
* * *
1666810 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTC-ACTAAAGACCTTCGAGTTCAACCAC
1 CATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCAACTAC
* * *
1666874 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACCAAA
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAA
*
1666939 GACCTTCGAGTTCGACTACGTTCAACTCCAAGGCACATCATTTA-CAGCATAACTTAAGTCGAGA
130 GACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCA-TTAGCAGCATAACTTAAGTCGAGA
*
1667003 AGGGCTATCTCCCAAAGACCTTCAAGTTCGATTACACTCAACTTCGAGGGCACAT
194 AGGGCTATCTCCCAAAGACCTTCAAGTTCGATTACACTCAACTTCAAGGGCACAT
* * * * *
1667058 TATTTGCAATATAACTCAAGGTTAGAAGGGTTATTTGCCAACTAAAAACCTTCGAGTTCAACTAC
1 CATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCAACTAC
* * * * *
1667123 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAACAAA
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAA
* * * *
1667188 GACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACGTCATTCGCAGAATAGCTTAAGTCGAGAA
130 GACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTAGCAGCATAACTTAAGTCGAGAA
* * *
1667253 GGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAACTTCAAGGGCATAT
195 GGGCTATCTCCCAAAGACCTTCAAGTTCGATTACACTCAACTTCAAGGGCACAT
* * * *
1667307 CATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACTAAAGACCTTCGAGTTCAACCAC
1 CATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCAACTAC
* * * *
1667371 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTTCAACCAAA
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAA
* * * *
1667436 GACCTTCGAGTTCGACTACGTTAAACTCCAAGGCACATCATTTA-TAGCATAGCTTAAGTCGAGA
130 GACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCA-TTAGCAGCATAACTTAAGTCGAGA
1667500 AGGGCTATCTCCCAAAGACCTTCAAGTTCGATTACACTCAACTTCAAGGGCACAT
194 AGGGCTATCTCCCAAAGACCTTCAAGTTCGATTACACTCAACTTCAAGGGCACAT
* * *
1667555 CATTTGTAACATAACTCAAGGTTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
1 CATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCAACTACG
** * * * * * * *
1667620 CTCAGCTCTTAGGCACCTCATTTACAGCATAGCCCAAGGCAATAAGAGTTATCTGTCAA
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA
1667679 TAAAATTGTC
Statistics
Matches: 967, Mismatches: 134, Indels: 29
0.86 0.12 0.03
Matches are distributed among these distances:
244 29 0.03
245 33 0.03
246 1 0.00
247 44 0.05
248 557 0.58
249 272 0.28
250 1 0.00
251 30 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (248 bp):
CATTTGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCAACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAAG
ACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTAGCAGCATAACTTAAGTCGAGAAG
GGCTATCTCCCAAAGACCTTCAAGTTCGATTACACTCAACTTCAAGGGCACAT
Found at i:1667650 original size:661 final size:661
Alignment explanation
Indices: 1666314--1667650 Score: 1889
Period size: 661 Copynumber: 2.0 Consensus size: 661
1666304 TTTAAGACAA
* * * * *
1666314 CATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACG
1 CATTTACAGCATAACTCAAGTCGAGAAGGGCTATCTGCC-ACAAAGACCTTCAAGTTCGACTACA
* * *
1666379 CTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACTAAAG
65 CTCAACTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGCTATTTGCCAACTAAAA
*
1666444 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAGAAG
130 ACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAGAAG
*
1666509 GGTTATCTGCCAAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACGTCATTCGCAT
195 GGTTATCTGCCAAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACGTCATTCGCAG
**
1666574 AATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCAATTACACTAAGCTTTGAG
260 AATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCAATTACACTAAGCTTCAAG
1666639 GGCACATCATTTAAAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTC
325 GGCACATCATTTAAAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTC
* * * *
1666704 GACTATGCTCAGCTCCAAGGCACATCATTAGCGGCATAACATAAGTCGAGAAGGGCTATCTTCCA
390 AACCACGCTCAGCTCCAAGGCACATCATTAGCAGCATAACATAAGTCGAGAAGGGCTATCTTCCA
* * * * * * * *
1666769 AAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGTACATCATTTACAACATAACTCAAGGCTA
455 AAGACCCTCGAGTTCGACTACACTAAACTTCCAAGGCACATCATTTACAACATAACTCAAGGCGA
* * * * * *
1666834 GAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCAACCACGCTCAGCTCCAAGGCATATCATTTG
520 GAAGGGCTATC-GTCACCAAAGACCTTCAAGTTCAACCACACTCAACTCCAAGGCACATCATTTG
* * * *
1666899 CAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGACTACGTTCAA
584 CAACATAACTCAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAA
1666964 CTCCAAGGCACAT
649 CTCCAAGGCACAT
* *
1666977 CATTTACAGCATAACTTAAGTCGAGAAGGGCTATCT-CC-CAAAGACCTTCAAGTTCGATTACAC
1 CATTTACAGCATAACTCAAGTCGAGAAGGGCTATCTGCCACAAAGACCTTCAAGTTCGACTACAC
* * * * ** *
1667040 TCAACTTCGAGGGCACATTATTTGCAATATAACTCAAGGTTAGAAGGGTTATTTGCCAACTAAAA
66 TCAAC-TCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGCTATTTGCCAACTAAAA
*
1667105 ACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAG
130 ACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAGAAG
1667170 GGTTATCTGCCAAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACGTCATTCGCAG
195 GGTTATCTGCCAAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACGTCATTCGCAG
*
1667235 AATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCGATTACACTCAA-CTTCAA
260 AATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCAATTACACT-AAGCTTCAA
* * * *
1667299 GGGCATATCATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTCACTAAAGACCTTCGAGTT
324 GGGCACATCATTTAAAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTT
* * * *
1667364 CAACCACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTTC
389 CAACCACGCTCAGCTCCAAGGCACATCATTAGCAGCATAACATAAGTCGAGAAGGGCTATC-TT-
* ** * * * *
1667429 AACCAAAGACCTTCGAGTTCGACTACGTTAAAC-TCCAAGGCACATCATTTATAGCATAGCTTAA
452 --CCAAAGACCCTCGAGTTCGACTACACTAAACTTCCAAGGCACATCATTTACAACATAACTCAA
* * ** *
1667493 GTCGAGAAGGGCTATC-TC-CCAAAGACCTTCAAGTTCGATTACACTCAACTTCAAGGGCACATC
515 GGCGAGAAGGGCTATCGTCACCAAAGACCTTCAAGTTCAACCACACTCAACTCCAA-GGCACATC
* *
1667556 ATTTGTAACATAACTCAAGGT-TAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTAC
579 ATTTGCAACATAACTCAA-GTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* ** *
1667619 GCTCAGCTCTTAGGCACCT
643 GCTCAACTCCAAGGCACAT
1667638 CATTTACAGCATA
1 CATTTACAGCATA
1667651 GCCCAAGGCA
Statistics
Matches: 595, Mismatches: 71, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
660 26 0.04
661 427 0.72
662 47 0.08
663 34 0.06
664 37 0.06
665 24 0.04
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (661 bp):
CATTTACAGCATAACTCAAGTCGAGAAGGGCTATCTGCCACAAAGACCTTCAAGTTCGACTACAC
TCAACTCCAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGCTATTTGCCAACTAAAAA
CCTTCGAGTTCAACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAAGAAGG
GTTATCTGCCAAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACGTCATTCGCAGA
ATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCAATTACACTAAGCTTCAAGG
GCACATCATTTAAAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCA
ACCACGCTCAGCTCCAAGGCACATCATTAGCAGCATAACATAAGTCGAGAAGGGCTATCTTCCAA
AGACCCTCGAGTTCGACTACACTAAACTTCCAAGGCACATCATTTACAACATAACTCAAGGCGAG
AAGGGCTATCGTCACCAAAGACCTTCAAGTTCAACCACACTCAACTCCAAGGCACATCATTTGCA
ACATAACTCAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAACT
CCAAGGCACAT
Found at i:1668610 original size:3 final size:3
Alignment explanation
Indices: 1668602--1668627 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1668592 CGAGGTTTTA
1668602 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1668628 ACAAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1673003 original size:28 final size:27
Alignment explanation
Indices: 1672919--1673022 Score: 82
Period size: 28 Copynumber: 3.6 Consensus size: 27
1672909 CTTTTTCATT
* *
1672919 TAAGTATTTAAAATATTTTTCGATTAAAA
1 TAAGTACTTAAAATATTTTT-G-TCAAAA
* * *
1672948 TAAGTACCTAAAGTTTTTTTTTTGTCAAAA
1 TAAGTACTTAAA---ATATTTTTGTCAAAA
*
1672978 TAAGTATTTAAAATATTTTATGTCAAAA
1 TAAGTACTTAAAATATTTT-TGTCAAAA
* *
1673006 TAGGTACTTAAACTATT
1 TAAGTACTTAAAATATT
1673023 CAAACTTTCT
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
27 5 0.08
28 22 0.37
29 10 0.17
30 15 0.25
31 1 0.02
32 6 0.10
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (27 bp):
TAAGTACTTAAAATATTTTTGTCAAAA
Found at i:1673139 original size:28 final size:29
Alignment explanation
Indices: 1673105--1673208 Score: 120
Period size: 28 Copynumber: 3.6 Consensus size: 29
1673095 AAAAAATTGA
*
1673105 ATACTTTAGGTAGTTATTTTGACTAAAA-
1 ATACTTTAGGTACTTATTTTGACTAAAAG
* * * *
1673133 ATACTTTAGATACCTATTTTGTCCAAAAAG
1 ATACTTTAGGTACTTATTTTG-ACTAAAAG
* *
1673163 ATAACTTTAGGTATTTATTTTGACTAAAAT
1 AT-ACTTTAGGTACTTATTTTGACTAAAAG
1673193 ATACTTTAGGTACTTA
1 ATACTTTAGGTACTTA
1673209 ACTGAAAAAG
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
28 18 0.30
29 18 0.30
30 9 0.15
31 16 0.26
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.42
Consensus pattern (29 bp):
ATACTTTAGGTACTTATTTTGACTAAAAG
Found at i:1673182 original size:31 final size:28
Alignment explanation
Indices: 1673104--1673208 Score: 111
Period size: 31 Copynumber: 3.6 Consensus size: 28
1673094 AAAAAAATTG
* *
1673104 AATACTTTAGGTAGTTATTTTGACTAAA
1 AATACTTTAGGTACTTATTTTGACAAAA
* * *
1673132 AATACTTTAGATACCTATTTTGTCCAAAA
1 AATACTTTAGGTACTTATTTTG-ACAAAA
*
1673161 AGATAACTTTAGGTATTTATTTTGACTAAAA
1 A-AT-ACTTTAGGTACTTATTTTGAC-AAAA
*
1673192 TATACTTTAGGTACTTA
1 AATACTTTAGGTACTTA
1673209 ACTGAAAAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
28 19 0.31
29 18 0.29
30 5 0.08
31 20 0.32
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.42
Consensus pattern (28 bp):
AATACTTTAGGTACTTATTTTGACAAAA
Found at i:1674035 original size:29 final size:30
Alignment explanation
Indices: 1673988--1674045 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
1673978 CATGTTTTGG
1673988 GTTGATTTTTTATCGGTAGGATATGTATGC
1 GTTGATTTTTTATCGGTAGGATATGTATGC
1674018 GTTG-TTTTTTATCGGTAGGATATGTATG
1 GTTGATTTTTTATCGGTAGGATATGTATG
1674046 TGTATGTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.19, C:0.05, G:0.28, T:0.48
Consensus pattern (30 bp):
GTTGATTTTTTATCGGTAGGATATGTATGC
Found at i:1682563 original size:8 final size:8
Alignment explanation
Indices: 1682552--1682576 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1682542 CAAGACTGCA
1682552 GGAAAAGG
1 GGAAAAGG
1682560 GGAAAAGG
1 GGAAAAGG
1682568 GGAAAAGG
1 GGAAAAGG
1682576 G
1 G
1682577 TTGCCACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (8 bp):
GGAAAAGG
Found at i:1684806 original size:19 final size:19
Alignment explanation
Indices: 1684771--1684809 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1684761 AACTGCTCTC
*
1684771 AATTAACATACTCTTAACA
1 AATTAACATACTATTAACA
1684790 AATTAACA-ACTTATTAACA
1 AATTAACATAC-TATTAACA
1684809 A
1 A
1684810 TCAATTAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTAACATACTATTAACA
Found at i:1687643 original size:153 final size:152
Alignment explanation
Indices: 1687356--1687649 Score: 446
Period size: 153 Copynumber: 1.9 Consensus size: 152
1687346 ATCATTGGAT
* * *
1687356 CCCATAACCCAATAATCACCCCCAGCGACACCTGGGGGATTCGAACCTGCAACCTGCTGTGATAC
1 CCCACAACCCAACAATCACCCCCAGCGACACCTGGGGGATTCGAACCTGCAACCTGCTCTGATAC
* * * * * * *
1687421 CAATTATAGGATCGAGTAATTTATTTTTGAACAACTTTCTAGTGGGTCACCTATCCCTGGATTTT
66 CAATTATAGGATCGAGTAATTCATTTCTGAAAAACTTCCCAGTGGGTCACCCATCCCTGGATTTC
1687486 CCTGGTCCAAAGATCACCGGAC
131 CCTGGTCCAAAGATCACCGGAC
*
1687508 CCCACAACCCAACAATCACCCCCCAAG-GACACCTGGGGGATTCGAACCTGTAACCTGCTCTGAT
1 CCCACAACCCAACAATCA-CCCCC-AGCGACACCTGGGGGATTCGAACCTGCAACCTGCTCTGAT
* *
1687572 ACCAATTGTAGGATCGAGTCATTCATTTCTGAAAAACTTCCCAGTGGGTCACCCATCCCTGGATT
64 ACCAATTATAGGATCGAGTAATTCATTTCTGAAAAACTTCCCAGTGGGTCACCCATCCCTGGATT
1687637 TCCCTGGTCCAAA
129 TCCCTGGTCCAAA
1687650 CACGCTTAAC
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
152 16 0.13
153 109 0.86
154 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (152 bp):
CCCACAACCCAACAATCACCCCCAGCGACACCTGGGGGATTCGAACCTGCAACCTGCTCTGATAC
CAATTATAGGATCGAGTAATTCATTTCTGAAAAACTTCCCAGTGGGTCACCCATCCCTGGATTTC
CCTGGTCCAAAGATCACCGGAC
Found at i:1698847 original size:28 final size:29
Alignment explanation
Indices: 1698814--1698883 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
1698804 ATTTTTTTAT
*
1698814 TTATTAATTTA-AAAAAAATATAAAATAA
1 TTATTAATTTATAAAAAAATACAAAATAA
* *
1698842 TTATTAATTTATAAACAATTACAAAATAA
1 TTATTAATTTATAAAAAAATACAAAATAA
1698871 TTATTAAATTTAT
1 TTATT-AATTTAT
1698884 CATACTACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 11 0.30
29 19 0.51
30 7 0.19
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
TTATTAATTTATAAAAAAATACAAAATAA
Found at i:1698902 original size:31 final size:31
Alignment explanation
Indices: 1698832--1698918 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 31
1698822 TTAAAAAAAA
*
1698832 TATAAAATAATTATT-AATTTAT-AAACAAT
1 TATAAAATAATTATTAAATTTATCAAACAAC
* * *
1698861 TACAAAATAATTATTAAATTTATCATACTAC
1 TATAAAATAATTATTAAATTTATCAAACAAC
1698892 TATAAAATAATTATTAAATTTATCAAA
1 TATAAAATAATTATTAAATTTATCAAA
1698919 TTTGTATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
29 14 0.28
30 7 0.14
31 29 0.58
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (31 bp):
TATAAAATAATTATTAAATTTATCAAACAAC
Found at i:1699579 original size:33 final size:33
Alignment explanation
Indices: 1699537--1699637 Score: 202
Period size: 33 Copynumber: 3.1 Consensus size: 33
1699527 CACTTTCTGG
1699537 TCCAATGTATTCGTTTGACGAATACTACTTGAC
1 TCCAATGTATTCGTTTGACGAATACTACTTGAC
1699570 TCCAATGTATTCGTTTGACGAATACTACTTGAC
1 TCCAATGTATTCGTTTGACGAATACTACTTGAC
1699603 TCCAATGTATTCGTTTGACGAATACTACTTGAC
1 TCCAATGTATTCGTTTGACGAATACTACTTGAC
1699636 TC
1 TC
1699638 AAAATCAGTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (33 bp):
TCCAATGTATTCGTTTGACGAATACTACTTGAC
Found at i:1700589 original size:27 final size:27
Alignment explanation
Indices: 1700530--1700593 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
1700520 ATTAAATTTT
1700530 TATTATTTAAGTACTTAATTATTATTA
1 TATTATTTAAGTACTTAATTATTATTA
* * * *
1700557 TTTTATTTTAGTATTTATTTATTATT-
1 TATTATTTAAGTACTTAATTATTATTA
1700583 TGATTATTTAA
1 T-ATTATTTAA
1700594 TTGTAAACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (27 bp):
TATTATTTAAGTACTTAATTATTATTA
Found at i:1705862 original size:13 final size:13
Alignment explanation
Indices: 1705844--1705872 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1705834 CATCCTTAAA
1705844 AATAAATTATTTT
1 AATAAATTATTTT
1705857 AATAAATTATTTT
1 AATAAATTATTTT
1705870 AAT
1 AAT
1705873 TACTTAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATAAATTATTTT
Found at i:1706277 original size:14 final size:14
Alignment explanation
Indices: 1706258--1706285 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1706248 TAAAATACGG
1706258 TATGAACAGTACCT
1 TATGAACAGTACCT
1706272 TATGAACAGTACCT
1 TATGAACAGTACCT
1706286 GTTGCAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
TATGAACAGTACCT
Found at i:1706999 original size:23 final size:23
Alignment explanation
Indices: 1706931--1707018 Score: 108
Period size: 23 Copynumber: 3.8 Consensus size: 23
1706921 AGCTCATATA
1706931 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
1706954 AATTTGTC-CCGAAG-GACCGCGTAG
1 AA-TTG-CACCGAAGTG-CCACGTAG
*
1706978 AAATGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
1707001 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
1707019 TATAAGATTG
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
22 1 0.02
23 34 0.62
24 19 0.35
25 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:1711882 original size:23 final size:23
Alignment explanation
Indices: 1711856--1711899 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1711846 TTTTGTTCGT
* *
1711856 TTGAAGGGGTATCGGTTCCCCCC
1 TTGAAGGGGTACCGATTCCCCCC
*
1711879 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1711900 TAGCTCAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (23 bp):
TTGAAGGGGTACCGATTCCCCCC
Found at i:1713571 original size:23 final size:23
Alignment explanation
Indices: 1713545--1713632 Score: 108
Period size: 23 Copynumber: 3.8 Consensus size: 23
1713535 AGCTTATATA
1713545 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
1713568 AATTTGTC-CCGAAG-GACCGCGTAG
1 AA-TTG-CACCGAAGTG-CCACGTAG
*
1713592 AAATGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
1713615 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
1713633 TATAAGATTG
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
22 1 0.02
23 34 0.62
24 19 0.35
25 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.18
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:1716151 original size:21 final size:20
Alignment explanation
Indices: 1716126--1716184 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
1716116 TTTCAACAAT
*
1716126 TTAATATTAACTTTCTTAAAAA
1 TTAAT-TTAA-TTACTTAAAAA
1716148 -TAATTT-ATTACTTAAAAA
1 TTAATTTAATTACTTAAAAA
1716166 TTAATTTTAATTACTTAAA
1 TTAA-TTTAATTACTTAAA
1716185 GTAAATATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 10 0.30
19 4 0.12
20 5 0.15
21 14 0.42
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATTTAATTACTTAAAAA
Found at i:1716352 original size:16 final size:17
Alignment explanation
Indices: 1716326--1716368 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
1716316 AAAAGTATTG
1716326 AAAATATATTTT-TTTA-
1 AAAA-ATATTTTATTTAT
1716342 ATAAAATATTTTATTTAT
1 A-AAAATATTTTATTTAT
1716360 AAAAATATT
1 AAAAATATT
1716369 ATTAACGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.33
17 15 0.62
18 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAAAATATTTTATTTAT
Found at i:1719367 original size:10 final size:10
Alignment explanation
Indices: 1719352--1719389 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
1719342 GAGGACTAAC
1719352 TTTATTTTAA
1 TTTATTTTAA
1719362 TTTATTTTAA
1 TTTATTTTAA
* *
1719372 TTTAATAT-A
1 TTTATTTTAA
1719381 TTTATTTTA
1 TTTATTTTA
1719390 CACCAATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:1719935 original size:31 final size:31
Alignment explanation
Indices: 1719888--1719975 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 31
1719878 TCATTGATTT
* *
1719888 TTTAATTTTA-TCAATCAGATCACTTAACTA
1 TTTAATTATATTCAATCAGACCACTTAACTA
1719918 TTTAATTATATTCAATCAGACCACTTAACTA
1 TTTAATTATATTCAATCAGACCACTTAACTA
* * *
1719949 TTTAATTATGTTCAATAAAACCACTTA
1 TTTAATTATATTCAATCAGACCACTTA
1719976 CCATTAACAA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
30 9 0.17
31 43 0.83
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.41
Consensus pattern (31 bp):
TTTAATTATATTCAATCAGACCACTTAACTA
Found at i:1725870 original size:2 final size:2
Alignment explanation
Indices: 1725863--1725904 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
1725853 AATGACAGTC
* * *
1725863 CT CT CT CT CT CT CT CT CT CT CT CT GT CA GT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1725905 TTCAGATCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.02, C:0.45, G:0.05, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1725909 original size:18 final size:18
Alignment explanation
Indices: 1725874--1725909 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1725864 TCTCTCTCTC
1725874 TCTCTCTCTCTCTGTCAG
1 TCTCTCTCTCTCTGTCAG
*
1725892 TCTCTCTCTCTCTTTCAG
1 TCTCTCTCTCTCTGTCAG
1725910 ATCATCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.39, G:0.08, T:0.47
Consensus pattern (18 bp):
TCTCTCTCTCTCTGTCAG
Found at i:1726700 original size:19 final size:20
Alignment explanation
Indices: 1726662--1726700 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1726652 GCTTTCCATT
1726662 TCTCTCTCTATCTTCCATTTC
1 TCTCTCTCTATCTT-CATTTC
1726683 TCTCTCTCTATCTT-ATTT
1 TCTCTCTCTATCTTCATTT
1726701 ACCCTTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.56
Consensus pattern (20 bp):
TCTCTCTCTATCTTCATTTC
Found at i:1730174 original size:72 final size:73
Alignment explanation
Indices: 1730049--1730251 Score: 268
Period size: 79 Copynumber: 2.7 Consensus size: 73
1730039 TTGTACAATT
1730049 TTTCTTACAATTCAATTATAAAATAGGGCCCCCATTTATTTAATAAGCACTATGGCAGACATGAA
1 TTTCTTACAATTCAATTATAAAATAGGGCCCCCATTTATTTAATAAGCACTATGGCAGACATGAA
1730114 CGGTACAA
66 CGGTACAA
*
1730122 TTTCTTACAATTCAATTATAAAATA-GGCCCCCATTTATTTAATAAGTACTATGGCAGACATGAA
1 TTTCTTACAATTCAATTATAAAATAGGGCCCCCATTTATTTAATAAGCACTATGGCAGACATGAA
*
1730186 CGTTATTGTACCATT
66 CG-----GTA-CA-A
* * *
1730201 TTTCTTACCATTTAATTATAAAAT-GTGG-CCCCATTTCTTTAATAAGCACTA
1 TTTCTTACAATTCAATTATAAAATAG-GGCCCCCATTTATTTAATAAGCACTA
1730252 AAAGTCGTTT
Statistics
Matches: 115, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
72 40 0.35
73 25 0.22
77 3 0.03
78 2 0.02
79 43 0.37
80 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Consensus pattern (73 bp):
TTTCTTACAATTCAATTATAAAATAGGGCCCCCATTTATTTAATAAGCACTATGGCAGACATGAA
CGGTACAA
Found at i:1760772 original size:18 final size:18
Alignment explanation
Indices: 1760751--1760790 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1760741 TTATAATCAT
1760751 CAAAAAATATTTCTAATC
1 CAAAAAATATTTCTAATC
* *
1760769 CAAAGAGTATTTCTAATC
1 CAAAAAATATTTCTAATC
1760787 CAAA
1 CAAA
1760791 CAACACATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.30
Consensus pattern (18 bp):
CAAAAAATATTTCTAATC
Found at i:1768536 original size:42 final size:42
Alignment explanation
Indices: 1768489--1768663 Score: 178
Period size: 42 Copynumber: 4.2 Consensus size: 42
1768479 TTTCACCATA
*
1768489 TAAAAGGGTTGAAAGGTTAAAAACACCGGTGAATAGCCCAAG
1 TAAAAGGGTTGAAAGGTTAAAAACACCAGTGAATAGCCCAAG
* *
1768531 TAAAAGGGTTGAATGGTTAAAAACACCAGTGAATAGCACAAG
1 TAAAAGGGTTGAAAGGTTAAAAACACCAGTGAATAGCCCAAG
* ** *
1768573 TAAAAGTGAGGAAAGGTTAAAAACACCAGT-AGATACCCCAAG
1 TAAAAGGGTTGAAAGGTTAAAAACACCAGTGA-ATAGCCCAAG
* * * * *
1768615 TAGAA-GGTATGTAATGTTGAAAACGCCAGT-AGATA-CCTCAAG
1 TAAAAGGGT-TGAAAGGTTAAAAACACCAGTGA-ATAGCC-CAAG
1768657 TAAAAGG
1 TAAAAGG
1768664 TCTTTGGAGT
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
41 4 0.04
42 106 0.95
43 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (42 bp):
TAAAAGGGTTGAAAGGTTAAAAACACCAGTGAATAGCCCAAG
Found at i:1768638 original size:84 final size:84
Alignment explanation
Indices: 1768499--1768662 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
1768489 TAAAAGGGTT
* *
1768499 GAAAGGTTAAAAACACCGGTGAATAGCCCAAGTAAAAGGGTTGAATGGTTAAAAACACCAGT-GA
1 GAAAGGTTAAAAACACCAGTGAATACCCCAAGTAAAAGGGTTGAATGGTTAAAAACACCAGTAG-
*
1768563 ATAGCACAAGTAAAAGTGAG
65 ATACCACAAGTAAAAGTGAG
* * *
1768583 GAAAGGTTAAAAACACCAGT-AGATACCCCAAGTAGAA-GGTATGTAAT-GTTGAAAACGCCAGT
1 GAAAGGTTAAAAACACCAGTGA-ATACCCCAAGTAAAAGGGT-TG-AATGGTTAAAAACACCAGT
*
1768645 AGATACCTCAAGTAAAAG
63 AGATACCACAAGTAAAAG
1768663 GTCTTTGGAG
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
83 4 0.06
84 61 0.88
85 4 0.06
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.18
Consensus pattern (84 bp):
GAAAGGTTAAAAACACCAGTGAATACCCCAAGTAAAAGGGTTGAATGGTTAAAAACACCAGTAGA
TACCACAAGTAAAAGTGAG
Found at i:1779225 original size:28 final size:26
Alignment explanation
Indices: 1779193--1779265 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 26
1779183 TAATAATTAA
1779193 ATTTATAAAACAGTCACAAAATAATAT
1 ATTTATAAAACAGTCACAAAAT-ATAT
** *
1779220 ACTTTAT-TTA-AGTGCATTAAAATATAT
1 A-TTTATAAAACAGT-CA-CAAAATATAT
1779247 ATTTATAAAACAGTCACAA
1 ATTTATAAAACAGTCACAA
1779266 GATTTAACTG
Statistics
Matches: 35, Mismatches: 6, Indels: 11
0.67 0.12 0.21
Matches are distributed among these distances:
26 10 0.29
27 12 0.34
28 13 0.37
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.34
Consensus pattern (26 bp):
ATTTATAAAACAGTCACAAAATATAT
Found at i:1780147 original size:20 final size:21
Alignment explanation
Indices: 1780114--1780248 Score: 170
Period size: 21 Copynumber: 6.5 Consensus size: 21
1780104 GTTTCCAGAT
* *
1780114 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
1780135 TCGCAAT-CGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
1780155 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
1780175 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
1780196 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
1780217 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
1780238 TCGCAATGCGA
1 TCGCAATGCGA
1780249 TTTACATATT
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
20 35 0.35
21 64 0.65
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:1780159 original size:41 final size:41
Alignment explanation
Indices: 1780114--1780248 Score: 161
Period size: 41 Copynumber: 3.3 Consensus size: 41
1780104 GTTTCCAGAT
*
1780114 TCGCAACGCGAACTTCGACTATCGCAAT-CGAACTTGGACTA
1 TCGCAATGCGAACTT-GACTATCGCAATGCGAACTTGGACTA
* * *
1780155 TCGCAATGCGAA-TATGTA-AATCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGAACT-TG-ACTATCGCAATGCGA-ACTTGGACTA
1780196 TCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTT-GACTATCGCAATGCGAACTTGGACTA
1780238 TCGCAATGCGA
1 TCGCAATGCGA
1780249 TTTACATATT
Statistics
Matches: 79, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
40 10 0.13
41 37 0.47
42 32 0.41
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (41 bp):
TCGCAATGCGAACTTGACTATCGCAATGCGAACTTGGACTA
Found at i:1780262 original size:83 final size:82
Alignment explanation
Indices: 1780114--1780289 Score: 250
Period size: 83 Copynumber: 2.1 Consensus size: 82
1780104 GTTTCCAGAT
*
1780114 TCGCAACGCGAACTTCGACTATCGCAATCGAACTTGGACTATCGCAATGCGAATATGTAAATCGC
1 TCGCAATGCGAACTTCGACTATCGCAATCGAACTTGGACTATCGCAATGCGAATATGTAAATCGC
*
1780179 AATGCGATAGTCGACTA
66 AATGCGATAGTCGACAA
*
1780196 TCGCAATGCGAACTTGGACTATCGCAATGCGAACTTGGACTATCGCAATGCG-AT-T-TACATAT
1 TCGCAATGCGAACTTCGACTATCGCAAT-CGAACTTGGACTATCGCAATGCGAATATGTA-A-A-
*
1780258 TCGCATTGCGATAGTCGACAA
62 TCGCAATGCGATAGTCGACAA
*
1780279 TCGCATTGCGA
1 TCGCAATGCGA
1780290 TTTATTTCAA
Statistics
Matches: 85, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
80 2 0.02
81 2 0.02
82 29 0.34
83 52 0.61
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (82 bp):
TCGCAATGCGAACTTCGACTATCGCAATCGAACTTGGACTATCGCAATGCGAATATGTAAATCGC
AATGCGATAGTCGACAA
Found at i:1780268 original size:62 final size:62
Alignment explanation
Indices: 1780128--1780249 Score: 194
Period size: 62 Copynumber: 2.0 Consensus size: 62
1780118 AACGCGAACT
*
1780128 TCGACTATCGCAAT-CGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAG
1 TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGGAAATCGCAATGCGATAG
*
1780189 TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAACT-TGGACTATCGCAATGCGAT
1 TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAA-TATGGA-AATCGCAATGCGAT
1780250 TTACATATTC
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
61 14 0.25
62 28 0.50
63 14 0.25
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (62 bp):
TCGACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGGAAATCGCAATGCGATAG
Found at i:1780950 original size:6 final size:6
Alignment explanation
Indices: 1780873--1780947 Score: 141
Period size: 6 Copynumber: 12.5 Consensus size: 6
1780863 TCTCGTCTCG
1780873 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
*
1780921 GGTCGT GGTCGT GGTCGT GGTAGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1780948 AGTACGTGTC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.01, C:0.15, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:1781085 original size:21 final size:21
Alignment explanation
Indices: 1781033--1781176 Score: 111
Period size: 21 Copynumber: 6.9 Consensus size: 21
1781023 CGTTGCGATT
*
1781033 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAATGCGAAC
* *
1781052 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAATGCGAAC
* *
1781075 TTCGACTATCGCAA--CGATC
1 TTGGACTATCGCAATGCGAAC
* *
1781094 TTAGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAATGCGAAC
1781117 TTGGACTATCGCAATGCGAA-
1 TTGGACTATCGCAATGCGAAC
* * *
1781137 TATGTA-AATCGCAACGCGAAC
1 T-TGGACTATCGCAATGCGAAC
1781158 TTGGACTATCGCAATGCGA
1 TTGGACTATCGCAATGCGA
1781177 TAGTCGAAGT
Statistics
Matches: 98, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
19 15 0.15
20 16 0.16
21 49 0.50
23 18 0.18
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (21 bp):
TTGGACTATCGCAATGCGAAC
Found at i:1781176 original size:41 final size:41
Alignment explanation
Indices: 1781033--1781171 Score: 176
Period size: 42 Copynumber: 3.3 Consensus size: 41
1781023 CGTTGCGATT
*
1781033 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTAG-ATAAATCGCAACGCGAAC
* *
1781075 TTCGACTATCGCAACG-ATCTTAGAATAAATCGCAATGCGAAC
1 TTGGACTATCGCAACGAAT-TTAG-ATAAATCGCAACGCGAAC
*
1781117 TTGGACTATCGCAATGCGAATAT-G-TAAATCGCAACGCGAAC
1 TTGGACTATCGCAA--CGAATTTAGATAAATCGCAACGCGAAC
1781158 TTGGACTATCGCAA
1 TTGGACTATCGCAA
1781172 TGCGATAGTC
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
41 32 0.37
42 49 0.56
43 1 0.01
44 3 0.03
45 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (41 bp):
TTGGACTATCGCAACGAATTTAGATAAATCGCAACGCGAAC
Found at i:1781197 original size:83 final size:81
Alignment explanation
Indices: 1781023--1781198 Score: 178
Period size: 83 Copynumber: 2.1 Consensus size: 81
1781013 GCAATACCGT
** *
1781023 CGTTGCGATTTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCA
1 CGTTGCGAACTTGGACTATCGCAACGAATATGG-ATAAATCGCAACGCGAACTTCGACTATCGCA
**
1781088 ACGATCTTAGAATAAATCG
65 ACGATAGTAGAAT--ATCG
** *
1781107 CAATGCGAACTTGGACTATCGCAATGCGAATAT-G-TAAATCGCAACGCGAACTTGGACTATCGC
1 CGTTGCGAACTTGGACTATCGCAA--CGAATATGGATAAATCGCAACGCGAACTTCGACTATCGC
*
1781170 AATGCGATAGTCGAAGT-TCG
64 AA--CGATAGTAGAA-TATCG
1781190 CGTTGCGAA
1 CGTTGCGAA
1781199 TCTGGAAACT
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
83 40 0.53
84 20 0.26
85 9 0.12
86 7 0.09
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (81 bp):
CGTTGCGAACTTGGACTATCGCAACGAATATGGATAAATCGCAACGCGAACTTCGACTATCGCAA
CGATAGTAGAATATCG
Found at i:1781539 original size:3 final size:3
Alignment explanation
Indices: 1781533--1781560 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1781523 TATTTTACAC
1781533 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1781561 ATCACTACGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1785594 original size:20 final size:20
Alignment explanation
Indices: 1785569--1785609 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1785559 AAAGTTGAAC
1785569 CACGACTGTTGCGGCTAACT
1 CACGACTGTTGCGGCTAACT
1785589 CACGACTGTTGCGGCTAACT
1 CACGACTGTTGCGGCTAACT
1785609 C
1 C
1785610 GTGAATGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (20 bp):
CACGACTGTTGCGGCTAACT
Found at i:1791931 original size:18 final size:18
Alignment explanation
Indices: 1791908--1791946 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1791898 GCTCTACATA
1791908 TAATATTATATAATA-AAG
1 TAATA-TATATAATATAAG
1791926 TAATATATATAATATAAG
1 TAATATATATAATATAAG
1791944 TAA
1 TAA
1791947 AATAAATACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
TAATATATATAATATAAG
Found at i:1793098 original size:30 final size:30
Alignment explanation
Indices: 1793055--1793135 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 30
1793045 GAACAAGGGG
1793055 TGATGGG-GTTGGTGTTGAAAAAAATGGGA
1 TGATGGGTGTTGGTGTTGAAAAAAATGGGA
*
1793084 TGATGGGTGTTGGTGTTG-AAAAAATGGGG
1 TGATGGGTGTTGGTGTTGAAAAAAATGGGA
* *
1793113 TGGTAGGTGTTGGTGTTGAAAAA
1 TGATGGGTGTTGGTGTTGAAAAA
1793136 TGGTGTTTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
29 33 0.70
30 14 0.30
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.31
Consensus pattern (30 bp):
TGATGGGTGTTGGTGTTGAAAAAAATGGGA
Found at i:1793391 original size:50 final size:50
Alignment explanation
Indices: 1793316--1793417 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
1793306 GTCGATCCAA
1793316 CTCCTCCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTT
1 CTCCTCCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTT
* *
1793366 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTT
1 CTCCTCCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTT
1793416 CT
1 CT
1793418 GCGATGGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (50 bp):
CTCCTCCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTT
Found at i:1793549 original size:133 final size:133
Alignment explanation
Indices: 1793366--1794313 Score: 1675
Period size: 133 Copynumber: 7.1 Consensus size: 133
1793356 CCAACTCCTT
* *
1793366 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
1793431 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATAGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
1793496 TAC
131 TAC
*
1793499 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* * * * *
1793564 GCGAAGATAAAAATGTCGATCCACCTCATTTTGTGATGGAATGGAACGAGATGTTGATGCTGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
1793629 TAC
131 TAC
*
1793632 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
1793697 GCGAA-ATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGTCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
1793761 TAC
131 TAC
* *
1793764 CTCATTCTGTGATAGAATCAAGCAAAAAGTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
1793829 GTGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
1793894 TAC
131 TAC
1793897 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* * * *
1793962 GCGAAGATAAAAATGTCGATCCACCTCTTTTTGTGATGGAATCGAACGAGATGTTGATGCTGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
1794027 TAC
131 TAC
*
1794030 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
1794095 GCGAA-ATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
1794159 TAC
131 TAC
*
1794162 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCGTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* * *
1794227 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATATCGATGCTGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
1794292 TAC
131 TAC
1794295 CTCCTTCTGTGATAGAATC
1 CTCCTTCTGTGATAGAATC
1794314 GAACGAGATG
Statistics
Matches: 776, Mismatches: 37, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
132 248 0.32
133 528 0.68
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (133 bp):
CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
TAC
Found at i:1794347 original size:265 final size:266
Alignment explanation
Indices: 1793366--1794313 Score: 1677
Period size: 265 Copynumber: 3.6 Consensus size: 266
1793356 CCAACTCCTT
* *
1793366 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* * *
1793431 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATAGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTGATC
*
1793496 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATT
131 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATT
* * * *
1793561 TGAGCGAAGATAAAAATGTCGATCCACCTCATTTTGTGATGGAATGGAACGAGATGTTGATGCTG
196 TGAGCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCG
*
1793626 ATCTAC
261 GTCTAC
*
1793632 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
1793697 GCGAA-ATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATG-TCGGT
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCT-GAT
* *
1793760 CTACCTCATTCTGTGATAGAATCAAGCAAAAAGTTGACGTTGATCCAACTCCTTCTGCGATGGAT
130 CTACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGAT
*
1793825 TTGAGTGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCC
195 TTGAGCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCC
1793890 GGTCTAC
260 GGTCTAC
1793897 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* *
1793962 GCGAAGATAAAAATGTCGATCCACCTCTTTTTGTGATGGAATCGAACGAGATGTTGATGCTGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTGATC
*
1794027 TACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATT
131 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATT
1794092 TGAGCGAA-ATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCG
196 TGAGCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCG
1794156 GTCTAC
261 GTCTAC
*
1794162 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCGTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
1794227 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATATCGATGCTGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTGATC
1794292 TACCTCCTTCTGTGATAGAATC
131 TACCTCCTTCTGTGATAGAATC
1794314 GAACGAGATG
Statistics
Matches: 655, Mismatches: 24, Indels: 7
0.95 0.03 0.01
Matches are distributed among these distances:
265 462 0.71
266 192 0.29
267 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (266 bp):
CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCTGATC
TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATT
TGAGCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCG
GTCTAC
Found at i:1794347 original size:398 final size:398
Alignment explanation
Indices: 1793366--1794313 Score: 1770
Period size: 398 Copynumber: 2.4 Consensus size: 398
1793356 CCAACTCCTT
* *
1793366 CTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
1793431 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATAGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
1793496 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATT
131 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATT
*
1793561 TGAGCGAAGATAAAAATGTCGATCCACCTCATTTTGTGATGGAATGGAACGAGATGTTGATGCTG
196 TGAGCGAAGATAAAAATGTCGATCCACCTCATTTTGTGATGGAATCGAACGAGATGTTGATGCTG
1793626 ATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGG
261 ATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGG
*
1793691 ATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGT
326 ATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGC
1793756 CGGTCTAC
391 CGGTCTAC
* *
1793764 CTCATTCTGTGATAGAATCAAGCAAAAAGTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
1793829 GTGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
*
1793894 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATT
131 TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATT
*
1793959 TGAGCGAAGATAAAAATGTCGATCCACCTCTTTTTGTGATGGAATCGAACGAGATGTTGATGCTG
196 TGAGCGAAGATAAAAATGTCGATCCACCTCATTTTGTGATGGAATCGAACGAGATGTTGATGCTG
1794024 ATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGG
261 ATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGG
1794089 ATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGC
326 ATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGC
1794154 CGGTCTAC
391 CGGTCTAC
*
1794162 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCGTCTGCGATGGATTTGA
1 CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* * *
1794227 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATATCGATGCTGATC
66 GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
1794292 TACCTCCTTCTGTGATAGAATC
131 TACCTCCTTCTGTGATAGAATC
1794314 GAACGAGATG
Statistics
Matches: 533, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
398 533 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (398 bp):
CTCCTTCTGTGATAGAATCAAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
GCGAAGATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGCCGGTC
TACCTCCTTCTGTGATAGAATCAAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATT
TGAGCGAAGATAAAAATGTCGATCCACCTCATTTTGTGATGGAATCGAACGAGATGTTGATGCTG
ATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGG
ATTTGAGCGAAATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTCGATGC
CGGTCTAC
Found at i:1795185 original size:7 final size:7
Alignment explanation
Indices: 1795175--1795221 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
1795165 GAACCTCTCA
1795175 TTTTCTT
1 TTTTCTT
1795182 TTTTC--
1 TTTTCTT
*
1795187 TCTTCTT
1 TTTTCTT
1795194 TTTTC-T
1 TTTTCTT
1795200 TTTTCTT
1 TTTTCTT
1795207 TTTTC-T
1 TTTTCTT
1795213 TTTTCTT
1 TTTTCTT
1795220 TT
1 TT
1795222 CAGGTGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
5 4 0.12
6 12 0.35
7 18 0.53
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTCTT
Found at i:1795194 original size:12 final size:12
Alignment explanation
Indices: 1795177--1795212 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
1795167 ACCTCTCATT
1795177 TTCTTTTTTCTC
1 TTCTTTTTTCTC
*
1795189 TTCTTTTTTCTTT
1 TTCTTTTTTC-TC
1795202 TTCTTTTTTCT
1 TTCTTTTTTCT
1795213 TTTTCTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTCTTTTTTCTC
Found at i:1795199 original size:19 final size:20
Alignment explanation
Indices: 1795170--1795221 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
1795160 ACCTCGAACC
*
1795170 TCTCATTTTCTTTTTTCTCT
1 TCTCTTTTTCTTTTTTCTCT
*
1795190 TCT-TTTTTC-TTTTTCTTT
1 TCTCTTTTTCTTTTTTCTCT
*
1795208 TTTCTTTTTCTTTT
1 TCTCTTTTTCTTTT
1795222 CAGGTGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 11 0.41
20 6 0.22
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (20 bp):
TCTCTTTTTCTTTTTTCTCT
Found at i:1795205 original size:13 final size:13
Alignment explanation
Indices: 1795175--1795221 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
1795165 GAACCTCTCA
1795175 TTTTCTTTTTTC-
1 TTTTCTTTTTTCT
*
1795187 TCTTCTTTTTTCT
1 TTTTCTTTTTTCT
1795200 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
1795213 TTTTCTTTT
1 TTTTCTTTT
1795222 CAGGTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:1808022 original size:30 final size:30
Alignment explanation
Indices: 1807979--1808059 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 30
1807969 AAACAAGGGG
1807979 TGATGGG-GTTGGTGTTGAAAAAAATGGGA
1 TGATGGGTGTTGGTGTTGAAAAAAATGGGA
*
1808008 TGATGGGTGTTGGTGTTG-AAAAAATGGGG
1 TGATGGGTGTTGGTGTTGAAAAAAATGGGA
* *
1808037 TGGTAGGTGTTGGTGTTGAAAAA
1 TGATGGGTGTTGGTGTTGAAAAA
1808060 TGGTGTTTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
29 33 0.70
30 14 0.30
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.31
Consensus pattern (30 bp):
TGATGGGTGTTGGTGTTGAAAAAAATGGGA
Found at i:1808254 original size:39 final size:39
Alignment explanation
Indices: 1808211--1808285 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
1808201 ATGAAGACTA
*
1808211 CACGACTGTATGACGTCTTCAGGCAAA-TGAAGAAGATTT
1 CACGACTGCATGACGTCTTCAGGCAAATTGAA-AAGATTT
1808250 CACGACTGCATGACGTCTTCAGGCAAATTGAAAAGA
1 CACGACTGCATGACGTCTTCAGGCAAATTGAAAAGA
1808286 CCCCAGGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 30 0.88
40 4 0.12
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (39 bp):
CACGACTGCATGACGTCTTCAGGCAAATTGAAAAGATTT
Found at i:1808971 original size:22 final size:22
Alignment explanation
Indices: 1808943--1808984 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1808933 TTTGTTTACT
1808943 GCTGAATGCTGAACCGTTCAGC
1 GCTGAATGCTGAACCGTTCAGC
1808965 GCTGAATGCTGAACCGTTCA
1 GCTGAATGCTGAACCGTTCA
1808985 ACATTCAGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (22 bp):
GCTGAATGCTGAACCGTTCAGC
Found at i:1815098 original size:23 final size:24
Alignment explanation
Indices: 1815057--1815106 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
1815047 GAAGTGCCAT
*
1815057 GTAGAATTTGTCCCAAAGGACCAC
1 GTAGAATTTATCCCAAAGGACCAC
* *
1815081 GTAGAA-TTATCCCGAAGGACCGC
1 GTAGAATTTATCCCAAAGGACCAC
1815104 GTA
1 GTA
1815107 AAACCCTCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (24 bp):
GTAGAATTTATCCCAAAGGACCAC
Found at i:1815231 original size:15 final size:16
Alignment explanation
Indices: 1815211--1815252 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
1815201 AAGTGTGTTT
1815211 TATTCACGTAGAGTA-
1 TATTCACGTAGAGTAC
* *
1815226 TATTCACATAGGGTAC
1 TATTCACGTAGAGTAC
1815242 T-TTCACGTAGA
1 TATTCACGTAGA
1815253 ACATTTTCGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (16 bp):
TATTCACGTAGAGTAC
Found at i:1817644 original size:14 final size:14
Alignment explanation
Indices: 1817627--1817653 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1817617 AAATCAAGTT
1817627 TTGAAATTAGAAAA
1 TTGAAATTAGAAAA
1817641 TTGAAATTAGAAA
1 TTGAAATTAGAAA
1817654 TTACTCCCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (14 bp):
TTGAAATTAGAAAA
Found at i:1819944 original size:21 final size:21
Alignment explanation
Indices: 1819918--1819957 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1819908 CAGAACCCCA
*
1819918 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1819939 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1819958 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1827436 original size:90 final size:88
Alignment explanation
Indices: 1827284--1827453 Score: 277
Period size: 90 Copynumber: 1.9 Consensus size: 88
1827274 ACACACCATT
*
1827284 TTATAGCCAAGTTGCCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
*
1827349 ATTAATTAGAATTTAATAATCCTC
66 ATTAATT-GAAATTAATAATCCTC
* * *
1827373 TTATATCCAAGTTACCCTAATCATATTGGGGATTTTATTATTTTAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
1827438 AATTAATTGAAATTAA
65 AATTAATTGAAATTAA
1827454 ATATTCGGGA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
89 35 0.47
90 40 0.53
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.45
Consensus pattern (88 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAATAATCCTC
Found at i:1833603 original size:31 final size:31
Alignment explanation
Indices: 1833565--1833629 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
1833555 AGATAGCTCC
1833565 AACTATTTCACTATCGTAAATAGTTCTCTAG
1 AACTATTTCACTATCGTAAATAGTTCTCTAG
1833596 AACTATTTCACTATCGTAAATAGTTCTCTAG
1 AACTATTTCACTATCGTAAATAGTTCTCTAG
1833627 AAC
1 AAC
1833630 CTTCAAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (31 bp):
AACTATTTCACTATCGTAAATAGTTCTCTAG
Found at i:1835919 original size:2 final size:2
Alignment explanation
Indices: 1835912--1835962 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
1835902 TCTAACCATA
1835912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1835954 AT AT A- AT AT
1 AT AT AT AT AT
1835963 TTTCACATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1845504 original size:19 final size:19
Alignment explanation
Indices: 1845480--1845523 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1845470 CAAAAATTTT
*
1845480 AAATAAATTTTAAATTA-TA
1 AAATAAAATTT-AATTACTA
*
1845499 AAATAAAATTTATTTACTA
1 AAATAAAATTTAATTACTA
1845518 AAATAA
1 AAATAA
1845524 TTTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATAAAATTTAATTACTA
Found at i:1846291 original size:38 final size:38
Alignment explanation
Indices: 1846249--1846341 Score: 159
Period size: 38 Copynumber: 2.4 Consensus size: 38
1846239 AGATTTGATG
*
1846249 ATAATTGATATAATTTTCACAAAATGATGATTAAATGA
1 ATAATTGATATAATTTTCACAAAACGATGATTAAATGA
1846287 ATAATTGATATAATTTTCACAAAACGATGATTAAATGA
1 ATAATTGATATAATTTTCACAAAACGATGATTAAATGA
* *
1846325 ATAATTTATACAATTTT
1 ATAATTGATATAATTTT
1846342 TTTATTTATA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (38 bp):
ATAATTGATATAATTTTCACAAAACGATGATTAAATGA
Found at i:1853963 original size:23 final size:23
Alignment explanation
Indices: 1853933--1853978 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1853923 AATGCAGTTA
1853933 TGCGAGAAGATGATTACTTAAAC
1 TGCGAGAAGATGATTACTTAAAC
1853956 TGCGAGAAGATGATTACTTAAAC
1 TGCGAGAAGATGATTACTTAAAC
1853979 CAACTCGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (23 bp):
TGCGAGAAGATGATTACTTAAAC
Found at i:1857565 original size:12 final size:12
Alignment explanation
Indices: 1857550--1857580 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
1857540 CCTGGGCTTG
1857550 AGAAGAAAATGA
1 AGAAGAAAATGA
1857562 AGAAGAAAATGA
1 AGAAGAAAATGA
1857574 AGAAGAA
1 AGAAGAA
1857581 GCCATTGCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (12 bp):
AGAAGAAAATGA
Found at i:1861022 original size:75 final size:75
Alignment explanation
Indices: 1860930--1861073 Score: 191
Period size: 75 Copynumber: 1.9 Consensus size: 75
1860920 CCAAACAATT
* * * * *
1860930 AATCAATCAACACGAAATAGATATAGCA-CTAGGTACAGACACATCTCGATAAAATAGCTAACGT
1 AATCAATCAACAAGAAATAGATATAGCATC-AAGTACAGACACACCTCGACAAAATAACTAACGT
1860994 CGGTTGTAGTC
65 CGGTTGTAGTC
* * * *
1861005 AATCAATTAACAAGAAATAGATATAGCATCAAGTAGAGACACGCCTCGACAAAATAACTAATGTC
1 AATCAATCAACAAGAAATAGATATAGCATCAAGTACAGACACACCTCGACAAAATAACTAACGTC
1861070 GGTT
66 GGTT
1861074 ATAATGCCTA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 58 0.98
76 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (75 bp):
AATCAATCAACAAGAAATAGATATAGCATCAAGTACAGACACACCTCGACAAAATAACTAACGTC
GGTTGTAGTC
Found at i:1871303 original size:15 final size:15
Alignment explanation
Indices: 1871283--1871311 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1871273 ACTTCTCTCA
1871283 AATACTCTTATATTT
1 AATACTCTTATATTT
1871298 AATACTCTTATATT
1 AATACTCTTATATT
1871312 CTCTTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (15 bp):
AATACTCTTATATTT
Found at i:1871317 original size:10 final size:10
Alignment explanation
Indices: 1871302--1871332 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1871292 ATATTTAATA
1871302 CTCTTATATT
1 CTCTTATATT
1871312 CTCTTATATT
1 CTCTTATATT
*
1871322 CTCTTACATT
1 CTCTTATATT
1871332 C
1 C
1871333 ACGCCCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.00, T:0.55
Consensus pattern (10 bp):
CTCTTATATT
Found at i:1871741 original size:34 final size:34
Alignment explanation
Indices: 1871703--1871778 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
1871693 GCACTTGGGG
1871703 CTTCCGGTGGATGGAGGTGTGACATCAGGAATAA
1 CTTCCGGTGGATGGAGGTGTGACATCAGGAATAA
* * *
1871737 CTTCCGGTGGATGGGGGTGTGATATCAGGGATAA
1 CTTCCGGTGGATGGAGGTGTGACATCAGGAATAA
1871771 CTTCCGGT
1 CTTCCGGT
1871779 TCTTGGACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.21, C:0.16, G:0.37, T:0.26
Consensus pattern (34 bp):
CTTCCGGTGGATGGAGGTGTGACATCAGGAATAA
Found at i:1877260 original size:14 final size:14
Alignment explanation
Indices: 1877238--1877274 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1877228 TGTCAGCATA
*
1877238 AGGCGCGCCACAGG
1 AGGCACGCCACAGG
1877252 AGGCACGCCACAGG
1 AGGCACGCCACAGG
1877266 AGGCACGCC
1 AGGCACGCC
1877275 TTACCCAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.38, G:0.38, T:0.00
Consensus pattern (14 bp):
AGGCACGCCACAGG
Found at i:1877988 original size:3 final size:3
Alignment explanation
Indices: 1877980--1878010 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1877970 CGTTATTCAA
*
1877980 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1878011 TTATTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1881491 original size:60 final size:60
Alignment explanation
Indices: 1881385--1881535 Score: 148
Period size: 60 Copynumber: 2.5 Consensus size: 60
1881375 TATATGAATA
* * * * *
1881385 ATTT-AGGAT-AAAATTGAAATATTCAAAAAGTTTGGGGACCAATTTAGGATGAAGA-TCATAG
1 ATTTAAGGATGAAAA-TGAAATGTTC-AAAAGTCTGAGGACCAATTTAGAAT-AAGAGCCAT-G
** *
1881446 A-TTGGGGATGAAAATGAAATGTTCAAAAGTCTGAGGACTAATTTAGAATAAGAGCCATG
1 ATTTAAGGATGAAAATGAAATGTTCAAAAGTCTGAGGACCAATTTAGAATAAGAGCCATG
* *
1881505 ATTTAAGGATGAAATTGAAATGTTTAAAAGT
1 ATTTAAGGATGAAAATGAAATGTTCAAAAGT
1881536 TTAGGGATTA
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
59 6 0.08
60 51 0.68
61 14 0.19
62 4 0.05
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (60 bp):
ATTTAAGGATGAAAATGAAATGTTCAAAAGTCTGAGGACCAATTTAGAATAAGAGCCATG
Found at i:1882833 original size:38 final size:38
Alignment explanation
Indices: 1882762--1882835 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
1882752 ATAAAAAAAA
*
1882762 AACCCAACCCGACCCGAATATCACACTTAAAAAAACCC
1 AACCCAACCCGACCCGAATATCAAACTTAAAAAAACCC
* * * * *
1882800 AACCCAATCCGGCCCTAATATCAAATTTTAAAAAAC
1 AACCCAACCCGACCCGAATATCAAACTTAAAAAAAC
1882836 TGACCCGAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.45, C:0.34, G:0.05, T:0.16
Consensus pattern (38 bp):
AACCCAACCCGACCCGAATATCAAACTTAAAAAAACCC
Found at i:1886469 original size:7 final size:7
Alignment explanation
Indices: 1886457--1886543 Score: 57
Period size: 7 Copynumber: 12.4 Consensus size: 7
1886447 TAGAATATAT
1886457 CCTAAAC
1 CCTAAAC
1886464 CCTAAAC
1 CCTAAAC
1886471 CCTAAAC
1 CCTAAAC
* *
1886478 CATAAAT
1 CCTAAAC
* * *
1886485 CTTCAAT
1 CCTAAAC
*
1886492 CCTAAGC
1 CCTAAAC
1886499 CCTAAAC
1 CCTAAAC
* *
1886506 CATAAAT
1 CCTAAAC
* * *
1886513 CTTCAAT
1 CCTAAAC
*
1886520 CCTAAGC
1 CCTAAAC
1886527 CCTAAAC
1 CCTAAAC
*
1886534 CATAAAC
1 CCTAAAC
1886541 CCT
1 CCT
1886544 TAATATGATT
Statistics
Matches: 60, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 60 1.00
ACGTcount: A:0.40, C:0.36, G:0.02, T:0.22
Consensus pattern (7 bp):
CCTAAAC
Found at i:1886494 original size:35 final size:34
Alignment explanation
Indices: 1886455--1886541 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 34
1886445 GTTAGAATAT
1886455 ATCCTAAACCCTAAACCCTAAACCATAAATCTTCA
1 ATCCT-AACCCTAAACCCTAAACCATAAATCTTCA
*
1886490 A---T---CCTAAGCCCTAAACCATAAATCTTCA
1 ATCCTAACCCTAAACCCTAAACCATAAATCTTCA
*
1886518 ATCCTAAGCCCTAAACCATAAACC
1 ATCCTAA-CCCTAAACCCTAAACC
1886542 CTTAATATGA
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
28 26 0.62
31 1 0.02
32 1 0.02
35 14 0.33
ACGTcount: A:0.41, C:0.34, G:0.02, T:0.22
Consensus pattern (34 bp):
ATCCTAACCCTAAACCCTAAACCATAAATCTTCA
Found at i:1886496 original size:28 final size:28
Alignment explanation
Indices: 1886464--1886539 Score: 143
Period size: 28 Copynumber: 2.7 Consensus size: 28
1886454 TATCCTAAAC
*
1886464 CCTAAACCCTAAACCATAAATCTTCAAT
1 CCTAAGCCCTAAACCATAAATCTTCAAT
1886492 CCTAAGCCCTAAACCATAAATCTTCAAT
1 CCTAAGCCCTAAACCATAAATCTTCAAT
1886520 CCTAAGCCCTAAACCATAAA
1 CCTAAGCCCTAAACCATAAA
1886540 CCCTTAATAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.42, C:0.33, G:0.03, T:0.22
Consensus pattern (28 bp):
CCTAAGCCCTAAACCATAAATCTTCAAT
Found at i:1891215 original size:16 final size:16
Alignment explanation
Indices: 1891194--1891225 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1891184 TTTCGTGTTA
1891194 ATGAAATCATACCTTC
1 ATGAAATCATACCTTC
1891210 ATGAAATCATACCTTC
1 ATGAAATCATACCTTC
1891226 CACCAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (16 bp):
ATGAAATCATACCTTC
Found at i:1891607 original size:20 final size:21
Alignment explanation
Indices: 1891584--1891626 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1891574 AAAACTTTTT
1891584 AAAAT-TATAAAAAAACCCCA
1 AAAATCTATAAAAAAACCCCA
* *
1891604 AAAATCTTTTAAAAAACCCCA
1 AAAATCTATAAAAAAACCCCA
1891625 AA
1 AA
1891627 TTTCAATGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAATCTATAAAAAAACCCCA
Found at i:1892156 original size:31 final size:31
Alignment explanation
Indices: 1892115--1892186 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
1892105 AAAAAAAACT
* *
1892115 CTTTATACACCTGAAATTAACTTTAAATATA
1 CTTTAGACACCTAAAATTAACTTTAAATATA
*
1892146 CTTTAGACACCTAAAATTAATTTTAAATATA
1 CTTTAGACACCTAAAATTAACTTTAAATATA
1892177 CTTTAGACAC
1 CTTTAGACAC
1892187 TTATTTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (31 bp):
CTTTAGACACCTAAAATTAACTTTAAATATA
Found at i:1894106 original size:21 final size:21
Alignment explanation
Indices: 1894081--1894126 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
1894071 ACCATACGCA
1894081 AAACCCTCATTTCCAGAACTC
1 AAACCCTCATTTCCAGAACTC
1894102 AAACCCTCATTTCCAGAACTC
1 AAACCCTCATTTCCAGAACTC
1894123 AAAC
1 AAAC
1894127 AAACTCACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.37, G:0.04, T:0.22
Consensus pattern (21 bp):
AAACCCTCATTTCCAGAACTC
Found at i:1903845 original size:20 final size:20
Alignment explanation
Indices: 1903817--1903857 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1903807 TATTTATCTT
* *
1903817 ATTTGTAATAAAAATATTAG
1 ATTTATAATAAAAATAATAG
1903837 ATTTATAATAAAAATAATAG
1 ATTTATAATAAAAATAATAG
1903857 A
1 A
1903858 AAACGACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
ATTTATAATAAAAATAATAG
Found at i:1904373 original size:32 final size:31
Alignment explanation
Indices: 1904331--1904462 Score: 97
Period size: 32 Copynumber: 4.1 Consensus size: 31
1904321 ACCTAAACCG
1904331 AAAATCAACCGATTCAATATTGACCCGACCC
1 AAAATCAACCGATTCAATATTGACCCGACCC
** * *
1904362 AAAATCTAACCGATAT-GGTATTAACTCGACCC
1 AAAATC-AACCGAT-TCAATATTGACCCGACCC
* * * *
1904394 AATAATCAACCGA-TCTGATATTGATCTGAACCA
1 AA-AATCAACCGATTC-AATATTGACCCG-ACCC
* * *
1904427 AAAATCAACTGATTCCAATAATCACCCGACCC
1 AAAATCAACCGATT-CAATATTGACCCGACCC
1904459 AAAA
1 AAAA
1904463 ATTGACCCCC
Statistics
Matches: 76, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
30 1 0.01
31 6 0.08
32 50 0.66
33 18 0.24
34 1 0.01
ACGTcount: A:0.41, C:0.27, G:0.10, T:0.22
Consensus pattern (31 bp):
AAAATCAACCGATTCAATATTGACCCGACCC
Found at i:1905073 original size:42 final size:42
Alignment explanation
Indices: 1905026--1905162 Score: 204
Period size: 42 Copynumber: 3.3 Consensus size: 42
1905016 TTCACTTCAA
*
1905026 TAGTGATAAAAACACTTATCGTCACAAATCACCAACTAAGAC
1 TAGTGACAAAAACACTTATCGTCACAAATCACCAACTAAGAC
* * * *
1905068 TAGTGATAAAAACAATTATCGTCACAAATCACCAACTATGAT
1 TAGTGACAAAAACACTTATCGTCACAAATCACCAACTAAGAC
*
1905110 TAGTGACAAAAAC-CATTATTGTCACAAATCACCAACTAAGAC
1 TAGTGACAAAAACAC-TTATCGTCACAAATCACCAACTAAGAC
1905152 TAGTGACAAAA
1 TAGTGACAAAA
1905163 TGTTTTCATC
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (42 bp):
TAGTGACAAAAACACTTATCGTCACAAATCACCAACTAAGAC
Found at i:1911091 original size:12 final size:12
Alignment explanation
Indices: 1911074--1911105 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
1911064 GAGACATCAT
1911074 ATATAAATGAAA
1 ATATAAATGAAA
1911086 ATATAAATGAAA
1 ATATAAATGAAA
1911098 ATATAAAT
1 ATATAAAT
1911106 TTACATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (12 bp):
ATATAAATGAAA
Found at i:1913598 original size:20 final size:19
Alignment explanation
Indices: 1913570--1913612 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
1913560 TAATAAATCA
*
1913570 TTAGTAGTATCGGTACTACC
1 TTAGCAGTATCGGTACTA-C
1913590 TTAGCAGTATCGGTACTAC
1 TTAGCAGTATCGGTACTAC
1913609 TTAG
1 TTAG
1913613 TTTAAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (19 bp):
TTAGCAGTATCGGTACTAC
Found at i:1915016 original size:40 final size:42
Alignment explanation
Indices: 1914968--1915104 Score: 136
Period size: 43 Copynumber: 3.3 Consensus size: 42
1914958 TGACAACATA
* *
1914968 TAGCGGCGTTTGTT-G-AAACGCCGCAATAGGTGTTGTTATT
1 TAGCGGCGTTTGTTAGAAAACGCCGCAATAAGTGTTGATATT
* * *
1915008 TAGTGGCGTTTTTTAGAAAAACGCCGCAATAAGTGTTGATGTT
1 TAGCGGCGTTTGTTAG-AAAACGCCGCAATAAGTGTTGATATT
* * * * *
1915051 TAGCGGCGTTTTTCCTA-AAAACGCCACAGTAGGTGTTGAGATT
1 TAGCGGCGTTTGT--TAGAAAACGCCGCAATAAGTGTTGATATT
1915094 TAGCGGCGTTT
1 TAGCGGCGTTT
1915105 TACTTAAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
40 12 0.15
41 1 0.01
43 66 0.81
45 2 0.02
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (42 bp):
TAGCGGCGTTTGTTAGAAAACGCCGCAATAAGTGTTGATATT
Found at i:1915044 original size:43 final size:43
Alignment explanation
Indices: 1914983--1915148 Score: 161
Period size: 43 Copynumber: 3.9 Consensus size: 43
1914973 GCGTTTGTTG
* * *
1914983 AAACGCCGCAATAGGTGTTGTTATTTAGTGGCGTTTTTTAGAA
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCAGAA
* * **
1915026 AAACGCCGCAATAAGTGTTGATGTTTAGCGGCGTTTTTCCTAA
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCAGAA
* * * * **
1915069 AAACGCCACAGTAGGTGTTGAGATTTAGCGGCGTTTTACTTAA
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCAGAA
** * * * *
1915112 AAATACCGCAGTAGGTTTTGATATTTTGCGGTGTTTT
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTT
1915149 CCCACAAACG
Statistics
Matches: 102, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCAGAA
Found at i:1915114 original size:86 final size:84
Alignment explanation
Indices: 1914983--1915185 Score: 201
Period size: 86 Copynumber: 2.4 Consensus size: 84
1914973 GCGTTTGTTG
* ** * *
1914983 AAACGCCGCAATAGGTGTTGTTATTTAGTGGCGTTTTTTAGAAAAACGCCGCAATAAGTGTTGAT
1 AAACGCCGCAGTAGGTGTTGAGATTTAGCGGCGTTTTTTA-AAAAACACCGCAATAAGTGTTGAT
* *
1915048 GTTTAGCGGCGTTTTTCCTAA
65 ATTTAGCGGCG-TTTTCCCAA
* * * * *
1915069 AAACGCCACAGTAGGTGTTGAGATTTAGCGGCGTTTTACTT-AAAAATACCGCAGTAGGTTTTGA
1 AAACGCCGCAGTAGGTGTTGAGATTTAGCGGCGTTTT--TTAAAAAACACCGCAATAAGTGTTGA
* * *
1915133 TATTTTGCGGTGTTTTCCCAC
64 TATTTAGCGGCGTTTTCCCAA
* * *
1915154 AAACGTCGCAGTAGGTTTTTAGATTTAGCGGC
1 AAACGCCGCAGTAGGTGTTGAGATTTAGCGGC
1915186 ACTTGTATCG
Statistics
Matches: 96, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
85 35 0.36
86 59 0.61
88 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (84 bp):
AAACGCCGCAGTAGGTGTTGAGATTTAGCGGCGTTTTTTAAAAAACACCGCAATAAGTGTTGATA
TTTAGCGGCGTTTTCCCAA
Found at i:1915287 original size:44 final size:44
Alignment explanation
Indices: 1915224--1915316 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
1915214 TTGAGAATTA
* * *
1915224 GCGGCGTTTTTAGTATACAAACACCACTAAATGTATGGTATATT
1 GCGGCATTTCTAGTATACAAACACCACTAAATGTATAGTATATT
* * *
1915268 GCGGCATTTCTAGTATACAAACGCCGCTAAATTTATAGTATATT
1 GCGGCATTTCTAGTATACAAACACCACTAAATGTATAGTATATT
1915312 GCGGC
1 GCGGC
1915317 GTTTTTTTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (44 bp):
GCGGCATTTCTAGTATACAAACACCACTAAATGTATAGTATATT
Found at i:1915340 original size:41 final size:43
Alignment explanation
Indices: 1915237--1915340 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 43
1915227 GCGTTTTTAG
* * *
1915237 TATACAAACACCACTAAATGTATGGTATATTGCGGCATTTCTA
1 TATACAAACGCCGCTAAATGTATAGTATATTGCGGCATTTCTA
* *
1915280 GTATACAAACGCCGCTAAATTTATAGTATATTGCGGCGTTT-T-
1 -TATACAAACGCCGCTAAATGTATAGTATATTGCGGCATTTCTA
* *
1915322 TTTACAAACGTCGCTAAAT
1 TATACAAACGCCGCTAAAT
1915341 AACACAGAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 17 0.32
43 1 0.02
44 35 0.66
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (43 bp):
TATACAAACGCCGCTAAATGTATAGTATATTGCGGCATTTCTA
Found at i:1915477 original size:28 final size:27
Alignment explanation
Indices: 1915425--1915477 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
1915415 AACAAACAAA
* *
1915425 ATAACAATAACATCAAACTCTATATCC
1 ATAACAACAACATCAAACTCAATATCC
1915452 ATAACAAACAACATCAAA-TCCAATAT
1 ATAAC-AACAACATCAAACT-CAATAT
1915478 AATAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (27 bp):
ATAACAACAACATCAAACTCAATATCC
Found at i:1915680 original size:21 final size:21
Alignment explanation
Indices: 1915656--1915747 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
1915646 CTGCTGATAT
* *
1915656 GCTGCTTCTCTCTATGCTACC
1 GCTGCTTCTCTCTCTGCTTCC
* * *
1915677 GCTGCTTATTTCTTTGCTTCC
1 GCTGCTTCTCTCTCTGCTTCC
* **
1915698 GCTGCTACTCTGGCTGCTTCC
1 GCTGCTTCTCTCTCTGCTTCC
1915719 GCTGCTTCTCTCTCTGCTTCC
1 GCTGCTTCTCTCTCTGCTTCC
1915740 -CTTGCTTC
1 GC-TGCTTC
1915748 ATTTTCCGCT
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 1 0.02
21 56 0.98
ACGTcount: A:0.04, C:0.37, G:0.16, T:0.42
Consensus pattern (21 bp):
GCTGCTTCTCTCTCTGCTTCC
Found at i:1921473 original size:2 final size:2
Alignment explanation
Indices: 1921466--1921515 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1921456 AAATTTTTGA
1921466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1921508 AT AT AT AT
1 AT AT AT AT
1921516 CTTAACTAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1922628 original size:6 final size:6
Alignment explanation
Indices: 1922609--1922673 Score: 121
Period size: 6 Copynumber: 10.8 Consensus size: 6
1922599 TATTTGTCAA
*
1922609 ACACAT ACATAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
1922657 ACACAT ACACAT ACACA
1 ACACAT ACACAT ACACA
1922674 CACATAATAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (6 bp):
ACACAT
Found at i:1927997 original size:11 final size:11
Alignment explanation
Indices: 1927981--1928019 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
1927971 TTCAATTGAA
1927981 TTATTTTTATT
1 TTATTTTTATT
1927992 TTATTTTTATT
1 TTATTTTTATT
*
1928003 TTA-TCTTATT
1 TTATTTTTATT
1928013 ATTATTT
1 -TTATTT
1928020 ATAAATCGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 6 0.25
11 17 0.71
12 1 0.04
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:1928004 original size:16 final size:16
Alignment explanation
Indices: 1927980--1928019 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1927970 TTTCAATTGA
*
1927980 ATTATTTTTATTTTATT
1 ATTA-TTTTATCTTATT
*
1927997 TTTATTTTATCTTATT
1 ATTATTTTATCTTATT
1928013 ATTATTT
1 ATTATTT
1928020 ATAAATCGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTATTTTATCTTATT
Found at i:1928063 original size:20 final size:20
Alignment explanation
Indices: 1928028--1928065 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1928018 TTATAAATCG
**
1928028 TCGAATTTATTCAATTTAAA
1 TCGAATTTATAAAATTTAAA
1928048 TCGAATTTATAAAATTTA
1 TCGAATTTATAAAATTTA
1928066 TGTATGGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (20 bp):
TCGAATTTATAAAATTTAAA
Found at i:1928214 original size:26 final size:25
Alignment explanation
Indices: 1928174--1928258 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 25
1928164 ATTACTAATG
1928174 TTATTAA-TAATGATTTAATAATTA
1 TTATTAATTAATGATTTAATAATTA
* *
1928198 TTATTAATCTAATGATTTGATATTTAA
1 TTATTAAT-TAATGATTTAATAATT-A
* *
1928225 TAATTTATTAATGATTACTAATAATTA
1 TTATTAATTAATGATT--TAATAATTA
1928252 TTTATTA
1 -TTATTA
1928259 TAAATATTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
24 7 0.15
26 22 0.47
27 8 0.17
28 10 0.21
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (25 bp):
TTATTAATTAATGATTTAATAATTA
Found at i:1928563 original size:20 final size:19
Alignment explanation
Indices: 1928532--1928575 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
1928522 CTCAATTTAA
1928532 ACTAAGTAGTACCGATACT
1 ACTAAGTAGTACCGATACT
*
1928551 GCTAAGATAGTACCGATACT
1 ACTAAG-TAGTACCGATACT
1928571 ACTAA
1 ACTAA
1928576 TGATTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (19 bp):
ACTAAGTAGTACCGATACT
Found at i:1929813 original size:31 final size:31
Alignment explanation
Indices: 1929778--1929837 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
1929768 AAAAATTCTA
1929778 CAATTCTAAATTGTTGAAGTTTGGTGGCAAC
1 CAATTCTAAATTGTTGAAGTTTGGTGGCAAC
*
1929809 CAATTCTAGATTGTTGAAGTTTGGTGGCA
1 CAATTCTAAATTGTTGAAGTTTGGTGGCA
1929838 GCATGTTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.37
Consensus pattern (31 bp):
CAATTCTAAATTGTTGAAGTTTGGTGGCAAC
Found at i:1941098 original size:20 final size:20
Alignment explanation
Indices: 1941073--1941125 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1941063 CACAAAGTTT
*
1941073 TAAAAATAATATAATAATGA
1 TAAAAATAATATAATAATAA
* *
1941093 TAAAAA-AACAAAAATAATAA
1 TAAAAATAA-TATAATAATAA
1941113 TAAAAATAATATA
1 TAAAAATAATATA
1941126 TATATATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
TAAAAATAATATAATAATAA
Found at i:1941161 original size:2 final size:2
Alignment explanation
Indices: 1941121--1941145 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1941111 AATAAAAATA
1941121 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1941146 AAGTTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1941418 original size:18 final size:17
Alignment explanation
Indices: 1941395--1941437 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1941385 ATGTATACGT
1941395 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
1941413 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
1941430 ATAA-AATA
1 ATAATAATA
1941438 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:1942878 original size:106 final size:106
Alignment explanation
Indices: 1942693--1943553 Score: 1066
Period size: 106 Copynumber: 8.0 Consensus size: 106
1942683 AGTATTGTTC
* * *
1942693 CGAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTTTTTGTTGAC
1 CGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGAC
* ** * *
1942757 AGCCAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* ** *
1942799 CGAGTTCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACA
** * * *
1942864 ACCAATCGTCCCTTCATTGTGAATTTGAACTTGTGTCGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
1942905 TGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGAAATTGGGAAATTGTTTGCTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACA
1942970 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * *
1943011 TGAGTCCAATATCATTCGCTGTTAAGTTGAAATTGGCTCTGAAACT-GAAAAGTGGTTTGTTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAA-TTGTTTGTTGAC
*
1943075 AACCAGCCGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCT
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
1943117 TGAGTCCAATATTCTTCGCTGTTAAGTTAAAATTGGCTCTGAAACTGGGAAATTATTTTGTTAAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATT-GTTTGTTGAC
* *
1943182 AACCAGTCGTCCATTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
1943224 TGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAACT-GAAAAGTGTTTTGT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTGGGAAATTG-TTTGT
* * *
1943288 TGACAACCAGTCATCCCTTCGTTGTGAAGTTGAACTTGTGTTATCT
61 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
1943334 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGTAA-TGTTTGTTGAAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACA
*
1943398 ACCAGCAGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * ** *
1943439 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACT-AAAAAGTGGTTTGT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTGGGAAA-TTGTTTGT
* *
1943503 CGACAACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
61 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
1943549 CGAGT
1 CGAGT
1943554 GGCGCGATAT
Statistics
Matches: 656, Mismatches: 83, Indels: 28
0.86 0.11 0.04
Matches are distributed among these distances:
105 87 0.13
106 326 0.50
107 88 0.13
108 2 0.00
109 6 0.01
110 140 0.21
111 7 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:1944311 original size:36 final size:36
Alignment explanation
Indices: 1944256--1944379 Score: 149
Period size: 36 Copynumber: 3.4 Consensus size: 36
1944246 GAAGATTTTG
* *
1944256 TGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
* *
1944292 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TT
* * * *
1944329 AGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
* *
1944365 TGTTTTAAGAAAAAC
1 TGTTTCAAGAGAAAC
1944380 AATCTTGAGT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
36 42 0.58
37 30 0.42
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
Found at i:1944351 original size:37 final size:36
Alignment explanation
Indices: 1944271--1944364 Score: 125
Period size: 37 Copynumber: 2.6 Consensus size: 36
1944261 CAAGAGTAAT
* * **
1944271 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
1 TGTCTCAAGGGAGACAAAATTAGTTCCAAAAGAAAC
*
1944307 TGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAC
1 TGTCTCAAGGGAGACAAAA-TTAGTTCCAAAAGAAAC
*
1944344 TGTCTCAAGGGAGACGAAATT
1 TGTCTCAAGGGAGACAAAATT
1944365 TGTTTTAAGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 20 0.40
37 30 0.60
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (36 bp):
TGTCTCAAGGGAGACAAAATTAGTTCCAAAAGAAAC
Found at i:1950355 original size:17 final size:17
Alignment explanation
Indices: 1950276--1950356 Score: 51
Period size: 17 Copynumber: 4.8 Consensus size: 17
1950266 ATAAACAAGG
*
1950276 TAAAGAAAACAAATAAGA
1 TAAAGAAAA-AAATAAAA
*
1950294 TAAAG---AGAATAAAA
1 TAAAGAAAAAAATAAAA
**
1950308 TAAAAGGGAAAAATAAAA
1 T-AAAGAAAAAAATAAAA
* * *
1950326 TAAATAAATAAATAAGA
1 TAAAGAAAAAAATAAAA
*
1950343 TAAGGAAAAAAATA
1 TAAAGAAAAAAATA
1950357 GTAAAGTAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
14 7 0.15
15 5 0.10
17 22 0.46
18 14 0.29
ACGTcount: A:0.72, C:0.01, G:0.12, T:0.15
Consensus pattern (17 bp):
TAAAGAAAAAAATAAAA
Found at i:1950857 original size:2 final size:2
Alignment explanation
Indices: 1950850--1950874 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1950840 TATTAAAGAA
1950850 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
1950875 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1950999 original size:2 final size:2
Alignment explanation
Indices: 1950959--1950983 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1950949 AATAAAAATA
1950959 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1950984 AAGTTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1951266 original size:18 final size:17
Alignment explanation
Indices: 1951243--1951285 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1951233 ATGTATACGT
1951243 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
1951261 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
1951278 ATAA-AATA
1 ATAATAATA
1951286 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:1951904 original size:16 final size:18
Alignment explanation
Indices: 1951873--1951906 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1951863 TATATTTATC
1951873 AAATTAATATTATTCCTT
1 AAATTAATATTATTCCTT
1951891 AAATTAA-A-TATTCCTT
1 AAATTAATATTATTCCTT
1951907 TATTAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTAATATTATTCCTT
Found at i:1957014 original size:18 final size:18
Alignment explanation
Indices: 1956993--1957033 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1956983 GAGAAAATAT
1956993 ATTTTGGGATCTCTATAA
1 ATTTTGGGATCTCTATAA
* *
1957011 ATTTTGGGGTCTTTATAA
1 ATTTTGGGATCTCTATAA
*
1957029 CTTTT
1 ATTTT
1957034 AGGGTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.10, G:0.17, T:0.51
Consensus pattern (18 bp):
ATTTTGGGATCTCTATAA
Found at i:1958610 original size:16 final size:19
Alignment explanation
Indices: 1958589--1958634 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
1958579 TTGGAAGAGT
1958589 GTTTTGAGATAT-T-T-AA
1 GTTTTGAGATATGTATCAA
* *
1958605 GTTTTGATATCTGTATCAA
1 GTTTTGAGATATGTATCAA
1958624 GTTTTGAGATA
1 GTTTTGAGATA
1958635 CATGTGATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 10 0.43
17 1 0.04
18 1 0.04
19 11 0.48
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (19 bp):
GTTTTGAGATATGTATCAA
Found at i:1965563 original size:32 final size:32
Alignment explanation
Indices: 1965526--1965603 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
1965516 CGTTGGAGTC
1965526 AAAGTATAGAAACTTTAGGGAAAGTT-TCTTGA
1 AAAGTATAGAAACTTTAGGGAAA-TTGTCTTGA
* *
1965558 AAAGTATCA-AAACTTTTGGGAAATTGTCTTGG
1 AAAGTAT-AGAAACTTTAGGGAAATTGTCTTGA
* *
1965590 AAAGTTTCGAAACT
1 AAAGTATAGAAACT
1965604 CTTCTAGAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 2 0.05
32 36 0.92
33 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (32 bp):
AAAGTATAGAAACTTTAGGGAAATTGTCTTGA
Found at i:1965616 original size:20 final size:20
Alignment explanation
Indices: 1965591--1965663 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
1965581 TTGTCTTGGA
1965591 AAGTTTCGAAACTCTTCTAG
1 AAGTTTCGAAACTCTTCTAG
*
1965611 AAGTTTTGAAACTCTTCTAG
1 AAGTTTCGAAACTCTTCTAG
1965631 AAGTTTCGAAACTCTTCTAG
1 AAGTTTCGAAACTCTTCTAG
1965651 AAGTTTCGAAACT
1 AAGTTTCGAAACT
1965664 TCTGGTTGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (20 bp):
AAGTTTCGAAACTCTTCTAG
Found at i:1966963 original size:19 final size:19
Alignment explanation
Indices: 1966941--1966977 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1966931 CAAAGTTTCA
* *
1966941 TTTTTTTTTCTAAATCAAC
1 TTTTGTTTTCAAAATCAAC
1966960 TTTTGTTTTCAAAATCAA
1 TTTTGTTTTCAAAATCAA
1966978 ATCCTTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.14, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTGTTTTCAAAATCAAC
Found at i:1970510 original size:43 final size:43
Alignment explanation
Indices: 1970392--1970512 Score: 116
Period size: 45 Copynumber: 2.8 Consensus size: 43
1970382 ACCCAATAAC
* * * ** *
1970392 GGCGTTTAGATGAAAAATGCCACTTTATATCAGGACTTTTAGT
1 GGCGTTTGGGTGAAAAATGCCACTATATATCATAACTATTAGT
* **
1970435 GGCGTTTGGGTAAAAAAAACAACACTATATATCATAACTATTAGT
1 GGCGTTTGGGTGAAAAATGC--CACTATATATCATAACTATTAGT
* * *
1970480 GGTGTTTGTGTGAAAAATGCCACCATATATCAT
1 GGCGTTTGGGTGAAAAATGCCACTATATATCAT
1970513 GCCTTTTAGC
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
43 27 0.44
45 34 0.56
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (43 bp):
GGCGTTTGGGTGAAAAATGCCACTATATATCATAACTATTAGT
Found at i:1971162 original size:26 final size:26
Alignment explanation
Indices: 1971133--1971183 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1971123 ATTGTATTGT
* *
1971133 AATGTAATGTAGGAGTTAATGTTTCC
1 AATGTAAGGTAGGAGTTAATATTTCC
* *
1971159 AATGTAAGGTATGCGTTAATATTTC
1 AATGTAAGGTAGGAGTTAATATTTC
1971184 TAATATTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (26 bp):
AATGTAAGGTAGGAGTTAATATTTCC
Done.