Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold46
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: 2524624
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 119418 characters in sequence are not A, C, G, or T
File 11 of 15
Found at i:1728052 original size:32 final size:32
Alignment explanation
Indices: 1728011--1728073 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1728001 TAGCTAATTA
*
1728011 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1728043 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1728074 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1730335 original size:61 final size:63
Alignment explanation
Indices: 1730243--1730363 Score: 192
Period size: 61 Copynumber: 2.0 Consensus size: 63
1730233 TTCCAAAGTT
*
1730243 TGCTTATAAAATAAAAAAAAAAAAGAGGTTTGAGAGTCAATTACATATGGAAAGAATGAGCAC
1 TGCTTATAAAATAAAAAAAAAAAAGAGGTTTGAAAGTCAATTACATATGGAAAGAATGAGCAC
* **
1730306 TGCTTATAAACT-AAAAAAAAATTG-GGTTTGAAAGTCAATTACATATGGAAAGAATGAG
1 TGCTTATAAAATAAAAAAAAAAAAGAGGTTTGAAAGTCAATTACATATGGAAAGAATGAG
1730364 TACCCCTACA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 33 0.61
62 10 0.19
63 11 0.20
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.25
Consensus pattern (63 bp):
TGCTTATAAAATAAAAAAAAAAAAGAGGTTTGAAAGTCAATTACATATGGAAAGAATGAGCAC
Found at i:1731221 original size:77 final size:77
Alignment explanation
Indices: 1731081--1731275 Score: 189
Period size: 77 Copynumber: 2.5 Consensus size: 77
1731071 TAACACAAAA
* * * *
1731081 AAAAATTACTAAAATGACTTCAAAAGCTC-AGTTTTGACATGAAAGTGCTAAAATGATCATAAAG
1 AAAAA-TACTAAAATAACTT-AAAAGCTCGA-TTTTGACATGAAAGTACTAAAATAAACATAAAG
*
1731145 ACT-AGGGTTTAAC-T
63 ACTCA-GATTTAACTT
* * * *
1731159 CAAAATACTAAAATAATCTTAAAAGCTCGATTTTGACATGAAAGTACTATAATAAACCTAAAGGC
1 AAAAATACTAAAATAA-CTTAAAAGCTCGATTTTGACATGAAAGTACTAAAATAAACATAAAGAC
*
1731224 TCAGATTTGACTT
65 TCAGATTTAACTT
* * * *
1731237 AAAAATATTAAAATAACCCTAAAAGCTTGGTTTTGACAT
1 AAAAATACTAAAATAA-CTTAAAAGCTCGATTTTGACAT
1731276 AAATGTGCTA
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
77 54 0.56
78 43 0.44
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (77 bp):
AAAAATACTAAAATAACTTAAAAGCTCGATTTTGACATGAAAGTACTAAAATAAACATAAAGACT
CAGATTTAACTT
Found at i:1731252 original size:39 final size:39
Alignment explanation
Indices: 1731160--1731278 Score: 123
Period size: 39 Copynumber: 3.1 Consensus size: 39
1731150 GGTTTAACTC
* * *
1731160 AAAATACTAAAATAATCTTAAAAGCTCGATTTTGACATG
1 AAAATACTAAAATAAACCTAAAAGCTCGATTTTGACATA
* * * *
1731199 AAAGTACTATAATAAACCTAAAGGCTCAGA-TTTGACTTA
1 AAAATACTAAAATAAACCTAAAAGCTC-GATTTTGACATA
* * * *
1731238 AAAATATTAAAATAACCCTAAAAGCTTGGTTTTGACATA
1 AAAATACTAAAATAAACCTAAAAGCTCGATTTTGACATA
1731277 AA
1 AA
1731279 TGTGCTAATG
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
38 1 0.02
39 60 0.95
40 2 0.03
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.29
Consensus pattern (39 bp):
AAAATACTAAAATAAACCTAAAAGCTCGATTTTGACATA
Found at i:1731413 original size:78 final size:77
Alignment explanation
Indices: 1731323--1731493 Score: 193
Period size: 78 Copynumber: 2.2 Consensus size: 77
1731313 GAAATTAATG
* *
1731323 AAATGACCTTAAAGGCCCGGTTTTGACTTGAAGGTGA-TAAAACAACCCTAATAGTTTGATTTTG
1 AAATGACCTTAAAGGCCCGGTTTTGACTTGAA-ATGACTAAAACAACCCTAA-AGCTTGATTTTG
1731387 ACATGAAAATGCTA
64 ACATGAAAATGCTA
* ** * ** * * *
1731401 AAATGACCTTAAAGACTTGGTTTTGACTTGAAATTACTAAAATGACCCTGAGGCTTGGTTTTGAC
1 AAATGACCTTAAAGGCCCGGTTTTGACTTGAAATGACTAAAACAACCCTAAAGCTTGATTTTGAC
*
1731466 ATGAAATTGCTA
66 ATGAAAATGCTA
1731478 AAATGATCC-TAAAGGC
1 AAATGA-CCTTAAAGGC
1731494 TCTCAATCCA
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
77 36 0.46
78 42 0.54
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (77 bp):
AAATGACCTTAAAGGCCCGGTTTTGACTTGAAATGACTAAAACAACCCTAAAGCTTGATTTTGAC
ATGAAAATGCTA
Found at i:1731471 original size:38 final size:39
Alignment explanation
Indices: 1731382--1731491 Score: 150
Period size: 38 Copynumber: 2.8 Consensus size: 39
1731372 AATAGTTTGA
* *
1731382 TTTTGACATGAAAATGCTAAAATGACCTTAAAGACTTGG
1 TTTTGACATGAAATTGCTAAAATGACCCTAAAGACTTGG
* * * *
1731421 TTTTGACTTGAAATTACTAAAATGACCCT-GAGGCTTGG
1 TTTTGACATGAAATTGCTAAAATGACCCTAAAGACTTGG
*
1731459 TTTTGACATGAAATTGCTAAAATGATCCTAAAG
1 TTTTGACATGAAATTGCTAAAATGACCCTAAAG
1731492 GCTCTCAATC
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 33 0.55
39 27 0.45
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (39 bp):
TTTTGACATGAAATTGCTAAAATGACCCTAAAGACTTGG
Found at i:1732337 original size:16 final size:16
Alignment explanation
Indices: 1732314--1732388 Score: 80
Period size: 16 Copynumber: 4.7 Consensus size: 16
1732304 TCGAAAAATC
1732314 CAAACCCGAAATAGCT
1 CAAACCCGAAATAGCT
*
1732330 CGAACCCGAAATAGCT
1 CAAACCCGAAATAGCT
* * * *
1732346 CGAGCCTGAAAT-GGT
1 CAAACCCGAAATAGCT
*
1732361 CTAAACTCGAAATAGCT
1 C-AAACCCGAAATAGCT
1732378 CAAACCCGAAA
1 CAAACCCGAAA
1732389 GAAATCGAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
15 3 0.06
16 41 0.87
17 3 0.06
ACGTcount: A:0.40, C:0.28, G:0.17, T:0.15
Consensus pattern (16 bp):
CAAACCCGAAATAGCT
Found at i:1732402 original size:48 final size:48
Alignment explanation
Indices: 1732313--1732468 Score: 136
Period size: 48 Copynumber: 3.2 Consensus size: 48
1732303 CTCGAAAAAT
* * * ** * *
1732313 CCAAACCCGAAATAGCTCGAACCCGAAATAGCTCGAGCCTGAAATGG-T
1 CCAAACTCGAAATAGCTCAAACCCGAAAGAAATCGAACCTGAAA-GGAC
*
1732361 CTAAACTCGAAATAGCTCAAACCCGAAAGAAATCGAACCTGAAAGGAC
1 CCAAACTCGAAATAGCTCAAACCCGAAAGAAATCGAACCTGAAAGGAC
* * * * * *
1732409 CCAAACTCGAAAAAACTCAAACCC-AAGAGAACTTGAACTTGAAACTGAC
1 CCAAACTCGAAATAGCTCAAACCCGAA-AGAAATCGAACCTGAAA-GGAC
*
1732458 CCGAACTCGAA
1 CCAAACTCGAA
1732469 CCCGAATTTA
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
47 4 0.04
48 72 0.81
49 13 0.15
ACGTcount: A:0.42, C:0.28, G:0.17, T:0.13
Consensus pattern (48 bp):
CCAAACTCGAAATAGCTCAAACCCGAAAGAAATCGAACCTGAAAGGAC
Found at i:1732641 original size:22 final size:22
Alignment explanation
Indices: 1732626--1732668 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1732616 AAATAGTAAT
1732626 TTATCAAAAAGTAAATTATATC
1 TTATCAAAAAGTAAATTATATC
1732648 TTATCAAAAAGTAAATTATAT
1 TTATCAAAAAGTAAATTATAT
1732669 AATGAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (22 bp):
TTATCAAAAAGTAAATTATATC
Found at i:1733663 original size:61 final size:61
Alignment explanation
Indices: 1733549--1733663 Score: 132
Period size: 59 Copynumber: 1.9 Consensus size: 61
1733539 ATTCGTATGA
* *
1733549 TTAATTTGTAATATATAATATTGTAATAATAAATAATTAAAATTTAATTTTATATAACAAG
1 TTAATTTGTAATATATAATATTGTAATAATAAATAATTAAAATTAAATCTTATATAACAAG
1733610 TTAATTT-T-ATATATAGAT-TT-TAATAAATAAATATATTAGAAA-TAACATCTTATA
1 TTAATTTGTAATATATA-ATATTGTAAT-AATAAATA-ATTA-AAATTAA-ATCTTATA
1733664 ACAAAAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
58 4 0.09
59 17 0.36
60 9 0.19
61 17 0.36
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (61 bp):
TTAATTTGTAATATATAATATTGTAATAATAAATAATTAAAATTAAATCTTATATAACAAG
Found at i:1733814 original size:16 final size:16
Alignment explanation
Indices: 1733793--1733870 Score: 50
Period size: 16 Copynumber: 4.9 Consensus size: 16
1733783 GAAACTGACT
1733793 TGAACTCGAAAAAGCC
1 TGAACTCGAAAAAGCC
* *
1733809 TGAACTTGAAAAGGCC
1 TGAACTCGAAAAAGCC
** * *
1733825 CAAACCCG-AAAAGACT
1 TGAACTCGAAAAAG-CC
* * *
1733841 TGAACTTGAAAAGGCT
1 TGAACTCGAAAAAGCC
*
1733857 TGAACCCGAAAAAG
1 TGAACTCGAAAAAG
1733871 ACTAAACTTG
Statistics
Matches: 44, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
15 4 0.09
16 36 0.82
17 4 0.09
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.14
Consensus pattern (16 bp):
TGAACTCGAAAAAGCC
Found at i:1733835 original size:32 final size:32
Alignment explanation
Indices: 1733799--1733882 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
1733789 GACTTGAACT
1733799 CGAAAAAGCCTGAACTTGAAAAGGCCCAAACC
1 CGAAAAAGCCTGAACTTGAAAAGGCCCAAACC
* ***
1733831 CG-AAAAGACTTGAACTTGAAAAGGCTTGAACC
1 CGAAAAAG-CCTGAACTTGAAAAGGCCCAAACC
* *
1733863 CGAAAAAGACTAAACTTGAA
1 CGAAAAAGCCTGAACTTGAA
1733883 TAAGCTCGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 5 0.12
32 33 0.77
33 5 0.12
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.14
Consensus pattern (32 bp):
CGAAAAAGCCTGAACTTGAAAAGGCCCAAACC
Found at i:1736077 original size:3 final size:3
Alignment explanation
Indices: 1736069--1736105 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1736059 AATTTAAATC
1736069 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1736106 CTCAAGAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1736289 original size:11 final size:11
Alignment explanation
Indices: 1736273--1736325 Score: 67
Period size: 11 Copynumber: 5.1 Consensus size: 11
1736263 ATTTTAAAAT
1736273 TTATATTTATA
1 TTATATTTATA
1736284 TTATA-TTATA
1 TTATATTTATA
*
1736294 TTTTATTTAT-
1 TTATATTTATA
1736304 TT-TATTTATA
1 TTATATTTATA
*
1736314 TAATATTTATA
1 TTATATTTATA
1736325 T
1 T
1736326 AATGATGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 7 0.19
10 12 0.32
11 18 0.49
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTATATTTATA
Found at i:1736297 original size:30 final size:31
Alignment explanation
Indices: 1736263--1736325 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
1736253 TACTATATAA
*
1736263 ATTTTA-AAATTTATATTTATATTATA-TTAT
1 ATTTTATAAATTT-TATTTATATAATATTTAT
**
1736293 ATTTTATTTATTTTATTTATATAATATTTAT
1 ATTTTATAAATTTTATTTATATAATATTTAT
1736324 AT
1 AT
1736326 AATGATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTATAAATTTTATTTATATAATATTTAT
Found at i:1736934 original size:13 final size:13
Alignment explanation
Indices: 1736916--1736942 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1736906 TTCTTTTTTT
1736916 TTTAATATTTATA
1 TTTAATATTTATA
1736929 TTTAATATTTATA
1 TTTAATATTTATA
1736942 T
1 T
1736943 ATGACTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTAATATTTATA
Found at i:1744542 original size:20 final size:19
Alignment explanation
Indices: 1744517--1744587 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1744507 TTTTAATTAG
1744517 ATGTATCGATATATTGAAGA
1 ATGTATCGATATATTGAA-A
* * *
1744537 ATGTATCGATACATTCATAT
1 ATGTATCGATATATTGA-AA
*
1744557 ATGCATCGATATATTGAAAA
1 ATGTATCGATATATTG-AAA
*
1744577 AAGTATCGATA
1 ATGTATCGATA
1744588 CATCTGGGTA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 38 0.95
21 2 0.05
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (19 bp):
ATGTATCGATATATTGAAA
Found at i:1748932 original size:2 final size:2
Alignment explanation
Indices: 1748925--1748951 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1748915 ATGTATACAT
1748925 AC 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 AC A
1748952 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1749823 original size:17 final size:17
Alignment explanation
Indices: 1749801--1749845 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1749791 ATAATTTTTA
**
1749801 ATTTAAATTATATTATT
1 ATTTAAATTATAAAATT
*
1749818 ATTTAAATAATAAAATT
1 ATTTAAATTATAAAATT
1749835 ATTTTAAATTA
1 A-TTTAAATTA
1749846 AATTTAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAATTATAAAATT
Found at i:1750326 original size:21 final size:21
Alignment explanation
Indices: 1750300--1750345 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1750290 TTATATTTTA
* *
1750300 TTAAATATTACTTTAAATATT
1 TTAAATATTAATTTAAATAAT
*
1750321 TTAAATATTAATTTAATTAAT
1 TTAAATATTAATTTAAATAAT
1750342 TTAA
1 TTAA
1750346 TTTTTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAATATTAATTTAAATAAT
Found at i:1750559 original size:34 final size:34
Alignment explanation
Indices: 1750515--1750666 Score: 205
Period size: 34 Copynumber: 4.5 Consensus size: 34
1750505 AGCACCAGTT
* * *
1750515 ATTGTTGACTAAATAGATGATTTGATGGTTTACC
1 ATTGTTGACTAAATGGATGATTTGGTGGTTTGCC
* *
1750549 ATTATTGACTAAATGGATGATTTGGTAGTTTGCC
1 ATTGTTGACTAAATGGATGATTTGGTGGTTTGCC
* * *
1750583 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCT
1 ATTGTTGACTAAATGGATGATTTGGTGGTTTGCC
* * *
1750617 ATTGTTGATTAAATGGGTGATTTGGTGATTTGCC
1 ATTGTTGACTAAATGGATGATTTGGTGGTTTGCC
1750651 ATTGTTGACTAAATGG
1 ATTGTTGACTAAATGG
1750667 CTAAAAGATA
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 105 1.00
ACGTcount: A:0.24, C:0.07, G:0.26, T:0.43
Consensus pattern (34 bp):
ATTGTTGACTAAATGGATGATTTGGTGGTTTGCC
Found at i:1754867 original size:17 final size:18
Alignment explanation
Indices: 1754841--1754875 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1754831 TTGATATCAT
1754841 ATTATATTATT-TTTAAA
1 ATTATATTATTATTTAAA
*
1754858 ATTATTTTATTATTTAAA
1 ATTATATTATTATTTAAA
1754876 TAATAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTATATTATTATTTAAA
Found at i:1755623 original size:22 final size:22
Alignment explanation
Indices: 1755595--1755637 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1755585 CATGTGTCAT
1755595 AATTTTAAAAAATATATAAAAA
1 AATTTTAAAAAATATATAAAAA
*
1755617 AATTTTAAAAAATTTATAAAA
1 AATTTTAAAAAATATATAAAA
1755638 TTGAGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AATTTTAAAAAATATATAAAAA
Found at i:1755626 original size:10 final size:10
Alignment explanation
Indices: 1755595--1755637 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
1755585 CATGTGTCAT
1755595 AATTTTAAAA
1 AATTTTAAAA
*
1755605 AATATATAAAAA
1 AAT-T-TTAAAA
1755617 AATTTTAAAA
1 AATTTTAAAA
1755627 AATTTATAAAA
1 AATTT-TAAAA
1755638 TTGAGAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 13 0.46
11 7 0.25
12 8 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:1755844 original size:4 final size:4
Alignment explanation
Indices: 1755835--1755859 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1755825 AAAATCAATG
1755835 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
1755860 GAACTCTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:1756016 original size:18 final size:16
Alignment explanation
Indices: 1755982--1756028 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1755972 TATGATATGA
*
1755982 TTATATAATTTAAAAT
1 TTATATAATTAAAAAT
1755998 TTATATAATATAAATAAT
1 TTATATAAT-TAAA-AAT
*
1756016 TAATAT-ATTAAAA
1 TTATATAATTAAAA
1756029 TTGATGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 13 0.48
17 5 0.19
18 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATATAATTAAAAAT
Found at i:1759450 original size:42 final size:42
Alignment explanation
Indices: 1759341--1759450 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
1759331 AAGAGAAAGA
* * *
1759341 AGAGAGAGGAGGGATCATAGGAGGAAAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
1759383 AGAGATAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
1759425 AGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGAGAGGAGGGATGATAGGAGGAG
1759451 GAGAGAAGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.42, C:0.04, G:0.45, T:0.09
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:1769585 original size:20 final size:20
Alignment explanation
Indices: 1769560--1769636 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
1769550 ATTTACCTGC
*
1769560 ATGTATCGATACATTAAAGA
1 ATGTATCGATACATTAGAGA
* *
1769580 ATGTATCGATACAATAGATA
1 ATGTATCGATACATTAGAGA
*
1769600 ATGTATCGATACAATTATGAGT
1 ATGTATCGATAC-ATTA-GAGA
1769622 ATGTATCGATACATT
1 ATGTATCGATACATT
1769637 TACTTATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
20 29 0.59
21 6 0.12
22 14 0.29
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTAGAGA
Found at i:1769747 original size:21 final size:21
Alignment explanation
Indices: 1769682--1769755 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
1769672 AGGGTAGTTT
***
1769682 TGTATCGATACATTTTGGATA
1 TGTATCGATACATTTACTATA
* *
1769703 TGTATCGATATATTCACT-TA
1 TGTATCGATACATTTACTATA
1769723 TGTATCGATACATTTACTATA
1 TGTATCGATACATTTACTATA
*
1769744 TGTATCAATACA
1 TGTATCGATACA
1769756 AATTGTAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 18 0.41
21 26 0.59
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTTACTATA
Found at i:1773726 original size:112 final size:108
Alignment explanation
Indices: 1773528--1773946 Score: 413
Period size: 112 Copynumber: 3.8 Consensus size: 108
1773518 TTGAAAGAAC
* * ** * * *
1773528 ATCAAATTTGTCT-ATTTTCATAGAGATTCATGTTTTATATGA-CTAGATTGATTCGTACTTAGG
1 ATCAAATTTGTCTAATTTTCA-AGAAATTCATATTTTATATGACCT-GATCCATTCATGCCTAGG
* * *
1773591 AAAATGCGGCCTGTATCCAATCAATTTTGAAAAGCTTGAGCCAATATA
64 AAAATGGGGCATGTATCCTATCAATTTTGAAAA-CTTGAGCCAA-A-A
* * *
1773639 ATCAAATCTGTCTAATTTTCAACGAAATTCATGTTTCATATGACCTGATCCATTTC-TGCCTAGG
1 ATCAAATTTGTCTAATTTTCAA-GAAATTCATATTTTATATGACCTGATCCA-TTCATGCCTAGG
* * *
1773703 AAAATGGGGCATATATCTTATCAATTTTGAAAAC--GA-AC-AAA
64 AAAATGGGGCATGTATCCTATCAATTTTGAAAACTTGAGCCAAAA
* * * * * * *
1773744 ATCAAATTTGTCTAATTTTCAAAATAATTCATATTTTATATGACTTAATCCCTTTATTCTTAGGA
1 ATCAAATTTGTCTAATTTTCAAGA-AATTCATATTTTATATGACCTGATCCATTCATGCCTAGGA
* * *
1773809 AAATAGGGCATGTATCCTATCACTTTTGAAAATTTTGAGCCAACAA
65 AAATGGGGCATGTATCCTATCAATTTTGAAAA-CTTGAGCCAA-AA
* *
1773855 CATCAAATTTGTCTGATTTTCAAAGAAATTCATATTTTATATGACCTCATCCATTCATGCCTA-G
1 -ATCAAATTTGTCTAATTTTC-AAGAAATTCATATTTTATATGACCTGATCCATTCATGCCTAGG
1773919 AAAAGTGGGGCATGTATCCTATCAATTT
64 AAAA-TGGGGCATGTATCCTATCAATTT
1773947 CAATTTTTTT
Statistics
Matches: 254, Mismatches: 39, Indels: 29
0.79 0.12 0.09
Matches are distributed among these distances:
104 3 0.01
105 79 0.31
106 1 0.00
107 1 0.00
108 3 0.01
109 3 0.01
110 1 0.00
111 21 0.08
112 134 0.53
113 8 0.03
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (108 bp):
ATCAAATTTGTCTAATTTTCAAGAAATTCATATTTTATATGACCTGATCCATTCATGCCTAGGAA
AATGGGGCATGTATCCTATCAATTTTGAAAACTTGAGCCAAAA
Found at i:1777376 original size:84 final size:83
Alignment explanation
Indices: 1777257--1777590 Score: 336
Period size: 84 Copynumber: 4.0 Consensus size: 83
1777247 ATTTTCAATC
* * * * * *
1777257 TTTGGG-AAACTCCATCCCCACACCTCCAAGGGGATACTCTAACCTCGATCTTCAAAAAACTTAA
1 TTTGGGAAAACTCTATCCCCACTCCTTCGAGAGGATACTCTAACCTCGATCTTCAAAAAACTCAA
*
1777321 ACTTTTCCTTTGAATAATT
66 ACTTTT-CTTCGAATAATT
* * * * * *
1777340 TTTTGGAAAAATCTATCCCCACTCTTTTGAGAGGATACTGTAACCCCGATCTTCAAAAAACTCAA
1 TTTGGGAAAACTCTATCCCCACTCCTTCGAGAGGATACTCTAACCTCGATCTTCAAAAAACTCAA
1777405 ACTTTTCTTCG-ATAATT
66 ACTTTTCTTCGAATAATT
* ** * * * *
1777422 TTTGGGGAAACT-TCATCCTAACTCCTTCGAGGGGATACTCTAATCTCAATCTTCAAAAAACTTA
1 TTTGGGAAAACTCT-ATCCCCACTCCTTCGAGAGGATACTCTAACCTCGATCTTCAAAAAACTCA
* *
1777486 AACTTTTTCATCAAATAATT
65 AAC-TTTTCTTCGAATAATT
* * * *
1777506 TCTGGGAAAACTGC-ATTCCCACTCCTCCAAGAGGATACTCTAACC-CTGATCTTCAAAAAACTC
1 TTTGGGAAAACT-CTATCCCCACTCCTTCGAGAGGATACTCTAACCTC-GATCTTCAAAAAACTC
* *
1777569 AAACTTTTTTTCGTATAATT
64 AAACTTTTCTTCGAATAATT
1777589 TT
1 TT
1777591 ATCTTTGGGG
Statistics
Matches: 200, Mismatches: 44, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
81 1 0.00
82 58 0.29
83 30 0.15
84 111 0.56
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.33
Consensus pattern (83 bp):
TTTGGGAAAACTCTATCCCCACTCCTTCGAGAGGATACTCTAACCTCGATCTTCAAAAAACTCAA
ACTTTTCTTCGAATAATT
Found at i:1777541 original size:166 final size:167
Alignment explanation
Indices: 1777285--1777590 Score: 436
Period size: 166 Copynumber: 1.8 Consensus size: 167
1777275 CACACCTCCA
* * ** * *
1777285 AGGGGATACTCTAACCTCGATCTTCAAAAAACTTAAACTTTTCCTTTGAATAATTTTTTGGAAAA
1 AGGGGATACTCTAACCTCAATCTTCAAAAAACTTAAACTTTTCCATCAAATAATTTCTGGGAAAA
* *** *
1777350 ATCTATCCCCACTCTTTTGAGAGGATACTGTAACCCCGATCTTCAAAAAACTCAAACTTTTCTTC
66 ATCTATCCCCACTCCTCCAAGAGGATACTCTAACCCCGATCTTCAAAAAACTCAAACTTTTCTTC
1777415 G-ATAATTTTTGGGGAAACTTCATCCTAACTCCTTCG
131 GTATAATTTTTGGGGAAACTTCATCCTAACTCCTTCG
* *
1777451 AGGGGATACTCTAATCTCAATCTTCAAAAAACTTAAACTTTTTCATCAAATAATTTCTGGGAAAA
1 AGGGGATACTCTAACCTCAATCTTCAAAAAACTTAAACTTTTCCATCAAATAATTTCTGGGAAAA
* * * *
1777516 CTGC-ATTCCCACTCCTCCAAGAGGATACTCTAACCCTGATCTTCAAAAAACTCAAACTTTTTTT
66 AT-CTATCCCCACTCCTCCAAGAGGATACTCTAACCCCGATCTTCAAAAAACTCAAACTTTTCTT
1777580 CGTATAATTTT
130 CGTATAATTTT
1777591 ATCTTTGGGG
Statistics
Matches: 121, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
166 112 0.93
167 9 0.07
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (167 bp):
AGGGGATACTCTAACCTCAATCTTCAAAAAACTTAAACTTTTCCATCAAATAATTTCTGGGAAAA
ATCTATCCCCACTCCTCCAAGAGGATACTCTAACCCCGATCTTCAAAAAACTCAAACTTTTCTTC
GTATAATTTTTGGGGAAACTTCATCCTAACTCCTTCG
Found at i:1777648 original size:88 final size:85
Alignment explanation
Indices: 1777255--1777665 Score: 296
Period size: 84 Copynumber: 4.9 Consensus size: 85
1777245 AAATTTTCAA
** * * *
1777255 TCTTT-GGGAAACTCCATCCCCACACCTCCAAGGGGATACTCTAACCTC-GATCTTCAAAAAACT
1 TCTTTGGGGAAACTCCATCCTAACTCTTCCAAGAGGATACTCTAACCTCAGATCTTCAAAAAACT
*
1777318 TAAACTTTTCCTTT-GAATAATT
66 CAAACTTTT--TTTCG-ATAATT
* * * ** *** * *
1777340 T-TTT-GGAAAAATCTATCCCCACTCTTTTGAGAGGATACTGTAACC-CCGATCTTCAAAAAACT
1 TCTTTGGGGAAACTCCATCCTAACTCTTCCAAGAGGATACTCTAACCTCAGATCTTCAAAAAACT
*
1777402 CAAACTTTTCTTCGATAA-T
66 CAAACTTTTTTTCGATAATT
* * * *
1777421 T-TTTGGGGAAACTTCATCCTAACTCCTT-CGAGGGGATACTCTAATCTCA-ATCTTCAAAAAAC
1 TCTTTGGGGAAACTCCATCCTAACT-CTTCCAAGAGGATACTCTAACCTCAGATCTTCAAAAAAC
* * *
1777483 TTAAACTTTTTCATCAAATAATT
65 TCAAACTTTTT-TTC-GATAATT
* * * * *
1777506 TC--TGGGAAAACTGCATTCC-CACTCCTCCAAGAGGATACTCTAACC-CTGATCTTCAAAAAAC
1 TCTTTGGGGAAACTCCA-TCCTAACTCTTCCAAGAGGATACTCTAACCTCAGATCTTCAAAAAAC
1777567 TCAAACTTTTTTTCGTATAATTTT
65 TCAAACTTTTTTTCG-ATAA--TT
* *
1777591 ATCTTTGGGGAAACTCCATCCTTACTCTTCCAAAAGGATACTCTAACCTC-G-TCCTTCATAAAA
1 -TCTTTGGGGAAACTCCATCCTAACTCTTCCAAGAGGATACTCTAACCTCAGAT-CTTCA-AAAA
* *
1777654 AATAAAACTTTT
63 ACTCAAACTTTT
1777666 GCTTTGTTCT
Statistics
Matches: 259, Mismatches: 45, Indels: 40
0.75 0.13 0.12
Matches are distributed among these distances:
81 5 0.02
82 55 0.21
83 17 0.07
84 113 0.44
85 8 0.03
86 2 0.01
87 4 0.02
88 40 0.15
89 15 0.06
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (85 bp):
TCTTTGGGGAAACTCCATCCTAACTCTTCCAAGAGGATACTCTAACCTCAGATCTTCAAAAAACT
CAAACTTTTTTTCGATAATT
Found at i:1779767 original size:156 final size:154
Alignment explanation
Indices: 1779474--1780626 Score: 1299
Period size: 155 Copynumber: 7.4 Consensus size: 154
1779464 GCATTATCCC
* * * * *
1779474 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCAAAGGTATCTCTTAGGGGTATTTTTGTAA-TT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTT
* * *
1779538 TTTAGAA-CCAAGTCCTAGGTTTTCACTGGGTCCGCTTTTATGCCGTAGGTAGATATTTAGGATA
66 TTTAGAATCC-AGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATA
*
1779602 GGTTCATCTCATCTACTATACTTTTT
130 GGTTCATCTCATCTATTAT-CTTTTT
* *
1779628 AAGTCCTTTAGGGGGTATTAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCATAATT
1 AAGTCCTTTA-GGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATT
* * * * *
1779693 TTTTAGAATCCAGTCCTAAGTTATCACCGAGTCCGCTTTTATGCCGAAGGCAGATATTTATGATA
65 TTTTAGAATCCAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATA
1779758 GGTTCATCTCATCTATTATCATTTTT
130 GGTTCATCTCATCTATTATC-TTTTT
* * * * * * * * * *
1779784 AAGTCATTAAGGGGTATCGGGTAGTTTTACGTCAAAGGTATCGCCTAAGGGTATTTTTGTAATAT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTT
* ** * * *
1779849 TTTAGAATCGAGTCCTAGGTTGTTGCCGAGTCCGCTTTTATGCTGAAGGCAGATATTTAGGATAG
66 TTTAGAATCCAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATAG
* *
1779914 CTTCATCTTATCTATTATCCTTTTT
131 GTTCATCTCATCTATTAT-CTTTTT
* * * * * * *
1779939 AAGTCTTTTAGGGGTATCATGTACATTTACGTCAAAAGTATCCCTTTGGGGGCATTTTCGTAATT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCC-CTAGGGGCATTTTCGTAATT
* **** * *
1780004 TTTTAGAATCGAGTCCTAGGTTGTTGTTGGGTCCGCTTTTATGCCGAAGGAAAATATTTAGGATA
65 TTTTAGAATCCAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATA
* *
1780069 GGTTCATCTCATTTATTATATTTTTT
130 GGTTCATCTCATCTATTAT-CTTTTT
* * * **
1780095 AAGTCCTCTAAGGGTATCAGGTACTTTTACGTCGAATGTAT-CCCTAAAGGCATTTTCGTAATTT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTT
* * * ** * * *
1780159 TTTAGAA-CCGAGTCTTAAGTTGTTACCGAATCTGCTTTTATGTCGAAGGTAGATATTTAGTATA
66 TTTAGAATCC-AGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATA
1780223 GGTTCATCTCATCTATTATCCTTTTT
130 GGTTCATCTCATCTATTAT-CTTTTT
* * * *
1780249 AAGTCCTTTAGGGGTATCGGGTACTTTTACGTCGAAGGTATCTCCTAGAGGCATTTTCGTAATAT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTT
** * *
1780314 TTTAGAATAGAGTCCTAGATTGTCACCGGGTCTGCTTTTATGCCGAAGGTAGATATTTAGGATAG
66 TTTAGAATCCAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATAG
1780379 GTTCATCTCATCTATTATCATTTTT
131 GTTCATCTCATCTATTATC-TTTTT
* * * * *
1780404 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAAGCATCCCCTATAGAGCATTTTTGTAATT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTA-GGGGCATTTTCGTAATT
* * * * * * * * * *
1780469 TTTCATAA-CCGAGTCTTAGGTTATCACTGGGTTCGTTTTTATGCTGAAGATAGATATTAAGGAT
65 TTTTAGAATCC-AGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGAT
* *
1780533 AGGTTCATCCCACCTATTATCTTTTTT
129 AGGTTCATCTCATCTATTATC-TTTTT
* * * * * * *
1780560 AAGTTCTTTAGGGGTATCAAGTATTTTTACGTCGAAGGTATCACTTAGGAGCATTTTTGTAATTT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTT
1780625 TT
66 TT
1780627 CTTGAACTTA
Statistics
Matches: 848, Mismatches: 139, Indels: 23
0.84 0.14 0.02
Matches are distributed among these distances:
153 1 0.00
154 137 0.16
155 367 0.43
156 341 0.40
157 2 0.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (154 bp):
AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTCGTAATTT
TTTAGAATCCAGTCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTAGATATTTAGGATAG
GTTCATCTCATCTATTATCTTTTT
Found at i:1780353 original size:465 final size:463
Alignment explanation
Indices: 1779474--1780626 Score: 1506
Period size: 465 Copynumber: 2.5 Consensus size: 463
1779464 GCATTATCCC
* * * *
1779474 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCAAAGGTATCTCTTAGGGGTATTTTTGTAA-TT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCAAAAGTATCCCTTTGGGGCATTTTTGTAATTT
* * *
1779538 TTTAGAACCAAGTCCTAGGTTTTCACTGGGTCCGCTTTTATGCCGTAGGTAGATATTTAGGATAG
66 TTTAGAACCGAGTCCTAGGTTTT-ACTGGGTCCGCTTTTATGCCGAAGGAAGATATTTAGGATAG
* * *
1779603 GTTCATCTCATCTACTATACTTTTTAAGTCCTTTAGGGGGTATTAGGTACTTTTACGTCGAAGGT
130 GTTCATCTCATCTATTATATTTTTTAAGTCCTTTA-GGGGTATCAGGTACTTTTACGTCGAAGGT
* * *
1779668 ATCCCCTAGGGGCATTTTCATAATTTTTTAGAATCCAGTCCTAAGTTATCACCGAGTCCGCTTTT
194 AT-CCCTAAGGGCATTTTCGTAATTTTTTAGAATCCAGTCCTAAGTTATCACCGAATCCGCTTTT
1779733 ATGCCGAAGGCAGATATTTATGATAGGTTCATCTCATCTATTATCATTTTTAAGTCATTAAGGGG
258 ATGCCGAAGGCAGATATTTATGATAGGTTCATCTCATCTATTATCATTTTTAAGTCATTAAGGGG
* * * *
1779798 TATCGGGTAGTTTTACGTCAAAGGTATCGCCTAAGGGTATTTTTGTAATATTTTAGAATCGAGTC
323 TATCGGGTACTTTTACGTCAAAGGTATCGCCTAAGGGCATTTTCGTAATATTTTAGAATAGAGTC
* ** * *
1779863 CTAGGTTGTTGCCGAGTCCGCTTTTATGCTGAAGGCAGATATTTAGGATAGCTTCATCTTATCTA
388 CTAGATTGTCACCGAGTCCGCTTTTATGCCGAAGGCAGATATTTAGGATAGCTTCATCTCATCTA
*
1779928 TTATCCTTTTT
453 TTATCATTTTT
* * * *
1779939 AAGTCTTTTAGGGGTATCATGTACATTTACGTCAAAAGTATCCCTTTGGGGGCATTTTCGTAATT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCAAAAGTATCCCTTT-GGGGCATTTTTGTAATT
* ** *
1780004 TTTTAGAATCGAGTCCTAGGTTGTTGTTGGGTCCGCTTTTATGCCGAAGGAAAATATTTAGGATA
65 TTTTAGAACCGAGTCCTAGGTT-TTACTGGGTCCGCTTTTATGCCGAAGGAAGATATTTAGGATA
* * * *
1780069 GGTTCATCTCATTTATTATATTTTTTAAGTCCTCTAAGGGTATCAGGTACTTTTACGTCGAATGT
129 GGTTCATCTCATCTATTATATTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGT
* * * * *
1780134 ATCCCTAAAGGCATTTTCGTAATTTTTTAGAA-CCGAGTCTTAAGTTGTTACCGAATCTGCTTTT
194 ATCCCTAAGGGCATTTTCGTAATTTTTTAGAATCC-AGTCCTAAGTTATCACCGAATCCGCTTTT
* * * * *
1780198 ATGTCGAAGGTAGATATTTA-GTATAGGTTCATCTCATCTATTATCCTTTTTAAGTCCTTTAGGG
258 ATGCCGAAGGCAGATATTTATG-ATAGGTTCATCTCATCTATTATCATTTTTAAGTCATTAAGGG
* *
1780262 GTATCGGGTACTTTTACGTCGAAGGTATCTCCT-AGAGGCATTTTCGTAATATTTTAGAATAGAG
322 GTATCGGGTACTTTTACGTCAAAGGTATCGCCTAAG-GGCATTTTCGTAATATTTTAGAATAGAG
* * * *
1780326 TCCTAGATTGTCACCGGGTCTGCTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCTCATC
386 TCCTAGATTGTCACCGAGTCCGCTTTTATGCCGAAGGCAGATATTTAGGATAGCTTCATCTCATC
1780391 TATTATCATTTTT
451 TATTATCATTTTT
* * * * *
1780404 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAAGCATCCCCTATAGAGCATTTTTGTAATT
1 AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCAAAAGTAT-CCCTTTGGGGCATTTTTGTAATT
* * * * * * * *
1780469 TTTCATAACCGAGTCTTAGGTTATCACTGGGTTCGTTTTTATGCTGAA-GATAGATATTAAGGAT
65 TTTTAGAACCGAGTCCTAGGTT-TTACTGGGTCCGCTTTTATGCCGAAGGA-AGATATTTAGGAT
* * * * * *
1780533 AGGTTCATCCCACCTATTATCTTTTTTAAGTTCTTTAGGGGTATCAAGTATTTTTACGTCGAAGG
128 AGGTTCATCTCATCTATTATATTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGG
* * *
1780598 TATCACTTAGGAGCATTTTTGTAATTTTT
193 TATCCCTAAGG-GCATTTTCGTAATTTTT
1780627 CTTGAACTTA
Statistics
Matches: 592, Mismatches: 87, Indels: 17
0.85 0.12 0.02
Matches are distributed among these distances:
464 7 0.01
465 433 0.73
466 62 0.10
467 88 0.15
468 2 0.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (463 bp):
AAGTCCTTTAGGGGTATCAGGTACTTTTACGTCAAAAGTATCCCTTTGGGGCATTTTTGTAATTT
TTTAGAACCGAGTCCTAGGTTTTACTGGGTCCGCTTTTATGCCGAAGGAAGATATTTAGGATAGG
TTCATCTCATCTATTATATTTTTTAAGTCCTTTAGGGGTATCAGGTACTTTTACGTCGAAGGTAT
CCCTAAGGGCATTTTCGTAATTTTTTAGAATCCAGTCCTAAGTTATCACCGAATCCGCTTTTATG
CCGAAGGCAGATATTTATGATAGGTTCATCTCATCTATTATCATTTTTAAGTCATTAAGGGGTAT
CGGGTACTTTTACGTCAAAGGTATCGCCTAAGGGCATTTTCGTAATATTTTAGAATAGAGTCCTA
GATTGTCACCGAGTCCGCTTTTATGCCGAAGGCAGATATTTAGGATAGCTTCATCTCATCTATTA
TCATTTTT
Found at i:1786788 original size:13 final size:13
Alignment explanation
Indices: 1786770--1786794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1786760 CATAAAATGT
1786770 TGTATCGATACAA
1 TGTATCGATACAA
1786783 TGTATCGATACA
1 TGTATCGATACA
1786795 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1786792 original size:33 final size:33
Alignment explanation
Indices: 1786750--1786819 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1786740 TTCAACGATT
1786750 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1786783 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1786816 TGTA
1 TGTA
1786820 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1786877 original size:13 final size:13
Alignment explanation
Indices: 1786859--1786883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1786849 ATTACTCACA
1786859 TGTATCGATACAT
1 TGTATCGATACAT
1786872 TGTATCGATACA
1 TGTATCGATACA
1786884 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1790558 original size:2 final size:2
Alignment explanation
Indices: 1790551--1790576 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1790541 AAAATCAAGA
1790551 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
1790577 TAGCATTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1791200 original size:165 final size:165
Alignment explanation
Indices: 1790954--1791452 Score: 528
Period size: 165 Copynumber: 3.0 Consensus size: 165
1790944 TTTAAAATTC
* * * * * * * *
1790954 TTTCTATTTTCAAATTACGAGGTTTTCTTCTCCAT-AATTTATTTTGGGAGGATTTTTCTTAGTT
1 TTTCTATTTCCAAAATACAAAGTTTTCTACTCCGTAAATGT-TTTTGAGAGGATTTTTCTTAGTT
* * * *
1791018 TTTAATTTTCAAAATTCATCAAATATTATTATTTAATTCATGTTAAATCATTTTTTAAAAATTCA
65 TTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT-ATTTTTCAAAAATTAA
*
1791083 TTCATTTTCATAAATTTTTTAA-TTTTTCATTGAAACT
129 TTCATTTTCATAAATTTTTGAATTTTTTCATTGAAA-T
* * * * *
1791120 CTTT-T-TTTTCGAAATACGAAA-TTTTTTACTCCGTAAATGTTTTTGA-AGGGATTTTTCTCAA
1 -TTTCTATTTCCAAAATAC-AAAGTTTTCTACTCCGTAAATGTTTTTGAGA-GGATTTTTCTTAG
* * * ** *
1791181 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTAACTCACATCAAATAAGTTTCAAAAATTT
63 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATATTTTTCAAAAATTA
* * *
1791246 ATTCATCTTT-ATGAGTTTTTGAATTTTTTCTTTGAAAT
128 ATTCAT-TTTCATAAATTTTTGAATTTTTTCATTGAAAT
* * *
1791284 TTTCCTATTTCCAAAATACAAAGTTTTCTACTCCGTAAATTTTTTTGGGAGGATTTTTCTTGGTT
1 TTT-CTATTTCCAAAATACAAAGTTTTCTACTCCGTAAATGTTTTTGAGAGGATTTTTCTTAGTT
* *
1791349 TTTAATTTTTAAAATTCATCAAATATTATTATTTTATTCATATTAAAATATTTTTGAAAAATTAA
65 TTTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATT-AAATATTTTTCAAAAATTAA
* * * *
1791414 TTTATTTTCAT-GAGTTTTGAATTTTTTTCTTTGAAAT
129 TTCATTTTCATAAATTTTTGAA-TTTTTTCATTGAAAT
1791451 TT
1 TT
1791453 CCACGTTTCC
Statistics
Matches: 275, Mismatches: 44, Indels: 26
0.80 0.13 0.08
Matches are distributed among these distances:
163 3 0.01
164 29 0.11
165 100 0.36
166 100 0.36
167 43 0.16
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.52
Consensus pattern (165 bp):
TTTCTATTTCCAAAATACAAAGTTTTCTACTCCGTAAATGTTTTTGAGAGGATTTTTCTTAGTTT
TTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATATTTTTCAAAAATTAATT
CATTTTCATAAATTTTTGAATTTTTTCATTGAAAT
Found at i:1791356 original size:166 final size:166
Alignment explanation
Indices: 1790869--1791452 Score: 586
Period size: 166 Copynumber: 3.5 Consensus size: 166
1790859 TCAAAATTTT
* *
1790869 TCAAATATTATTATTTAACTC-CTATCAAATCAATTTTGAAAAATTCTTTTTATTCTT--TGAGT
1 TCAAATATTATTATTTAACTCAC-ATCAAATCAATTTTGAAAAATT-TATTCATT-TTCATGAGT
* * * * * * *
1790931 TTATTG-ATTTTCT-TTTAAAATTCTTTCTATTTTCAAATTACGAGGTTTTCTTCTCCAT-AATT
63 TT-TTGAATTTTTTCTTTGAAA-T-TTTCTATTTTCAAAATACAAAGTTTTCTACTCCGTAAATT
*
1790993 TATTTTGGGAGGATTTTTCTTAGTTTTTAATTTTCAAAATTCA
125 T-TTTTGGGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCA
* ** * * * * * *
1791036 TCAAATATTATTATTTAATTCATGTTAAATCATTTTTTAAAAATTCATTCATTTTCATAAATTTT
1 TCAAATATTATTATTTAACTCACATCAAATCAATTTTGAAAAATTTATTCATTTTCATGAGTTTT
* * * * *
1791101 TTAA-TTTTTCATTGAAACTCTTT-T-TTTTCGAAATACGAAA-TTTTTTACTCCGTAAATGTTT
66 TGAATTTTTTCTTTGAAA-T-TTTCTATTTTCAAAATAC-AAAGTTTTCTACTCCGTAAATTTTT
* * *
1791162 TT-GAAGGGATTTTTCTCAATTTTTAATTTTTAAAATTCA
128 TTGGGA-GGATTTTTCTTAGTTTTTAATTTTTAAAATTCA
* *
1791201 TCAAATATTATTATTTAACTCACATCAAAT-AAGTTTCAAAAATTTATTCATCTTT-ATGAGTTT
1 TCAAATATTATTATTTAACTCACATCAAATCAATTTTGAAAAATTTATTCAT-TTTCATGAGTTT
*
1791264 TTGAATTTTTTCTTTGAAATTTTCCTATTTCCAAAATACAAAGTTTTCTACTCCGTAAATTTTTT
65 TTGAATTTTTTCTTTGAAATTTT-CTATTTTCAAAATACAAAGTTTTCTACTCCGTAAATTTTTT
*
1791329 TGGGAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCA
129 TGGGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCA
* * * * * * *
1791367 TCAAATATTATTATTTTATTCATATTAAAAT-ATTTTTGAAAAATTAATTTATTTTCATGAG-TT
1 TCAAATATTATTATTTAACTCACA-TCAAATCAATTTTGAAAAATTTATTCATTTTCATGAGTTT
1791430 TTGAATTTTTTTCTTTGAAATTT
65 TTGAA-TTTTTTCTTTGAAATTT
1791453 CCACGTTTCC
Statistics
Matches: 342, Mismatches: 57, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
163 3 0.01
164 30 0.09
165 101 0.30
166 109 0.32
167 99 0.29
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (166 bp):
TCAAATATTATTATTTAACTCACATCAAATCAATTTTGAAAAATTTATTCATTTTCATGAGTTTT
TGAATTTTTTCTTTGAAATTTTCTATTTTCAAAATACAAAGTTTTCTACTCCGTAAATTTTTTTG
GGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCA
Found at i:1791509 original size:166 final size:166
Alignment explanation
Indices: 1790995--1791552 Score: 428
Period size: 166 Copynumber: 3.4 Consensus size: 166
1790985 CCATAATTTA
* * * * *
1790995 TTTT-GGGAGGATTTTTCTTAGTTTTTAATTTTCAAAATTCATCAAATATTATTATTTAATTCAT
1 TTTTCGGGAGGATTTTTCTCAATTTTTAATTTTTAAAATTCATCAAATATTATTATTTAACTCAC
* * ** * * * * * *
1791059 GTTAAATCATTTTTTAAAAATTCATTCAT-TTTCATAAATTTTTTAA-TTTTTCATTGAAACTCT
66 ATAAAAT-AAGTTTCAAAAATTAATTCATCTTT-ATGAGTTTTTGAATTTTTTCTTTGAAA-T-T
* * ** ** *
1791122 TT--T-TTTTCGAAATACGAAA-TTTTTTACTCCGTAAATG
127 TTCCTATTTCCAAAATAC-AAAGTTTTCCACTCCACAAAGG
* *
1791159 TTTT-TGAAGGGATTTTTCTCAATTTTTAATTTTTAAAATTCATCAAATATTATTATTTAACTCA
1 TTTTCGGGA-GGATTTTTCTCAATTTTTAATTTTTAAAATTCATCAAATATTATTATTTAACTCA
* *
1791223 CATCAAATAAGTTTCAAAAATTTATTCATCTTTATGAGTTTTTGAATTTTTTCTTTGAAATTTTC
65 CATAAAATAAGTTTCAAAAATTAATTCATCTTTATGAGTTTTTGAATTTTTTCTTTGAAATTTTC
* ** **
1791288 CTATTTCCAAAATACAAAGTTTTCTACTCCGTAAATT
130 CTATTTCCAAAATACAAAGTTTTCCACTCCACAAAGG
* *** * * *
1791325 TTTTTGGGAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTTATTCAT
1 TTTTCGGGAGGATTTTTCTCAATTTTTAATTTTTAAAATTCATCAAATATTATTATTTAACTCAC
** * *
1791390 ATTAAAATATTTTTGAAAAATTAATTTAT-TTTCATGAG-TTTTGAATTTTTTTCTTTGAAA-TT
66 A-TAAAATAAGTTTCAAAAATTAATTCATCTTT-ATGAGTTTTTGAA-TTTTTTCTTTGAAATTT
* * *
1791452 TCC-ACGTTTCCAAAGA-ATC-GAGTTTTCCATTTCACAAAGG
128 TCCTA--TTTCCAAA-ATA-CAAAGTTTTCCACTCCACAAAGG
** * * *
1791492 TTTTCGAGG-GG-TTTTTCTCAATTTAAAATTTTTAAAATTCATCTAATATTGTTATTGAACT
1 TTTTCG-GGAGGATTTTTCTCAATTTTTAATTTTTAAAATTCATCAAATATTATTATTTAACT
1791553 TCCATTAATT
Statistics
Matches: 324, Mismatches: 54, Indels: 30
0.79 0.13 0.07
Matches are distributed among these distances:
163 3 0.01
164 34 0.10
165 76 0.23
166 136 0.42
167 71 0.22
168 4 0.01
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.50
Consensus pattern (166 bp):
TTTTCGGGAGGATTTTTCTCAATTTTTAATTTTTAAAATTCATCAAATATTATTATTTAACTCAC
ATAAAATAAGTTTCAAAAATTAATTCATCTTTATGAGTTTTTGAATTTTTTCTTTGAAATTTTCC
TATTTCCAAAATACAAAGTTTTCCACTCCACAAAGG
Found at i:1793307 original size:163 final size:158
Alignment explanation
Indices: 1792936--1793372 Score: 430
Period size: 163 Copynumber: 2.7 Consensus size: 158
1792926 ATTTCAATAT
* *
1792936 TAATCATTTTTAAATCTTTTATATTTCTATGGGGATACGTAAGGGTATAAAAGATTTCAAAAACT
1 TAAT-ATTTTT-AATCTTTTATATTCCTATGGGG-TACGTAGGGGTAT-AAAGATTTCAAAAACT
* * * * *
1793001 TTTCATATTTTTTC-AGGTTTCCATTAAGGTACGAAAAGGTATTTTTTGAAAACAAATAAATAAA
62 TTTCATATCTTTTCGAGCTTT-CATTAAGGTACGAAATGATA-TTTTCGAAAACAAATAAATAAA
* * * ** *
1793065 ATTAAACTAATACTTTCATAACTGAGAGGAACTT
125 AGTAAACTAACACTTTCATAACTAAGACAAACTC
* * * *
1793099 TAATATTTTTTATCTTTTATGTTCCTATGGGAATTCGTAGGGGTATAAGAGATTTCAAAAACTTT
1 TAATATTTTTAATCTTTTATATTCCTATGGG-GTACGTAGGGGTATAA-AGATTTCAAAAACTTT
* * * * *
1793164 TCCTATCTTGTCGAGCTTTCTTTAAGATACGAAATGATATTTTCGAAATA-AAATAAATTAAAGT
64 TCATATCTTTTCGAGCTTTCATTAAGGTACGAAATGATATTTTCGAAA-ACAAATAAATAAAAGT
* **
1793228 AAATTAACACTTTTGTAA-TAAAGACAAACTC
128 AAACTAACACTTTCATAACT-AAGACAAACTC
* *
1793259 TAATCACCTTTTTAATCTTTTATATTCCTATAGGGGTCCGTAGGGGTATAAAAAGTTTCAAAAAC
1 TAAT-A--TTTTTAATCTTTTATATTCCTAT-GGGGTACGTAGGGGTATAAAGA-TTTCAAAAAC
* * * * *
1793324 TTTTCGTATCTTTTTGGGTTTTCATTAAGGTACGAAATAATATTTTCGA
61 TTTTCATATCTTTTCGAGCTTTCATTAAGGTACGAAATGATATTTTCGA
1793373 GAAAGAGATT
Statistics
Matches: 226, Mismatches: 38, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
159 1 0.00
160 47 0.21
161 72 0.32
162 13 0.06
163 90 0.40
164 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (158 bp):
TAATATTTTTAATCTTTTATATTCCTATGGGGTACGTAGGGGTATAAAGATTTCAAAAACTTTTC
ATATCTTTTCGAGCTTTCATTAAGGTACGAAATGATATTTTCGAAAACAAATAAATAAAAGTAAA
CTAACACTTTCATAACTAAGACAAACTC
Found at i:1800591 original size:137 final size:134
Alignment explanation
Indices: 1800249--1800610 Score: 374
Period size: 132 Copynumber: 2.7 Consensus size: 134
1800239 AAGTAGGACG
* * * * *
1800249 CTTACCCA-CTTAAAGCCCACATAAGTTTGTGGCACCATCTATCTACCTTAGTCCTCAAGGACCA
1 CTTACCCATCTTAAAGCCCACACAAGCTTATGGCACCTTCTATCTACCTTAGTCCTCAAGGAACA
* * ** * * *
1800313 GGATCCTTACCTACTTCAAAGCCCATACAAGCTGTTGGCACTTATCATTTCAGTCCATGAAAAGC
66 -GAACCTTACCTAC-TCAAAGCCCATACAAGCTGTTGGCACCTATCACCTCAATCCAAGAAAAAC
* **
1800378 TGGATG
129 TCGACA
* * * *
1800384 CTT----ATCTTAAAGCCCATACAAGCTCATGGCAACTTCTATCTACCTTAGTCATCAAGGAACA
1 CTTACCCATCTTAAAGCCCACACAAGCTTATGGCACCTTCTATCTACCTTAGTCCTCAAGGAACA
* * *
1800445 GGACGCTTACCTATCTCGAAGCCCATAGAAGCTGTTGGCACCTATCCACCTCAATCCAAGAAAAA
66 GAAC-CTTACCTA-CTCAAAGCCCATACAAGCTGTTGGCACCTAT-CACCTCAATCCAAGAAAAA
1800510 CTCGACA
128 CTCGACA
** * * * *
1800517 CTTACCCATCTTAAAGTTCACACAAGCTTATGGCACCTTCTATTTACTTTAGTCCTCAAAGAGCA
1 CTTACCCATCTTAAAGCCCACACAAGCTTATGGCACCTTCTATCTACCTTAGTCCTCAAGGAACA
1800582 GAACACTTACCTACCTCAAAGCCCATACA
66 GAAC-CTTACCTA-CTCAAAGCCCATACA
1800611 GGCTTGTAGC
Statistics
Matches: 182, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
131 3 0.02
132 82 0.45
133 22 0.12
135 3 0.02
137 72 0.40
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (134 bp):
CTTACCCATCTTAAAGCCCACACAAGCTTATGGCACCTTCTATCTACCTTAGTCCTCAAGGAACA
GAACCTTACCTACTCAAAGCCCATACAAGCTGTTGGCACCTATCACCTCAATCCAAGAAAAACTC
GACA
Found at i:1800909 original size:70 final size:70
Alignment explanation
Indices: 1800110--1801191 Score: 330
Period size: 70 Copynumber: 15.8 Consensus size: 70
1800100 GATGACTTTT
* * * * ** *
1800110 CTTACCCA-CTTAAAGCCCACATAAGCTTGTGGCACCATCTATTTAATTTAGTCCTC-AAATAG-
1 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCACGAAA-AGC
** *
1800172 TAAAACG
65 T-GGATG
* * * * * *
1800179 CTTACCTACCTTAAAACCCATACAAGCTTGTGGCACTTTCTATCTATCTTAGTCCTCAAAAAG-T
1 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCACGAAAAGCT
*
1800243 AGGACG
66 -GGATG
* * * * * * *
1800249 CTTACCCA-CTTAAAGCCCACATAAGTTTGTGGCACCATCTATCTACCTTAGTCCTC-AAGGACC
1 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCACGAA-AAGC
* *
1800312 AGGATC
65 TGGATG
* * *
1800318 CTTACCTA-CTTCAAAGCCCATACAAGC-TGTTGGCA-C-T-TATC-A-TTTCAGTCCATGAAAA
1 CTTACCTACCTT-AAAGCCCACACAAGCTTG-TGGCACCTTCTATCTACCTT-AGTCCACGAAAA
1800376 GCTGGATG
63 GCTGGATG
* ** *
1800384 CTTA--T--CTTAAAGCCCATACAAGCTCATGGCAACTTCTATCTACCTTAGT-CATC-AAGGAA
1 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCA-CGAA--AA
* *
1800443 -CAGGACG
63 GCTGGATG
* ** * * * * * * *
1800450 CTTACCTATCTCGAAGCCCATAGAAGC-TGTTGGCA-C--CTATCCACCTCAATCCAAGAAAAAC
1 CTTACCTACCTTAAAGCCCACACAAGCTTG-TGGCACCTTCTATCTACCTTAGTCCACGAAAAGC
* **
1800511 TCGACA
65 TGGATG
* * ** * * * *
1800517 CTTACCCATCTTAAAGTTCACACAAGCTTATGGCACCTTCTATTTACTTTAGTCCTC-AAAGAGC
1 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCACGAAA-AGC
* * **
1800581 AGAACA
65 TGGATG
* * * * * * * *
1800587 CTTACCTACCTCAAAGCCCATACAGGCTTGTAGCATCTTTTATCTACCTTAGTCCTTAAGGAATA
1 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCC---ACGAAAA
1800652 --T-GATG
63 GCTGGATG
* * *** * * * *
1800657 CTTACCTATCTCAAAGAATACACAAGCTGGTGGCA-C--CTACCCACTTTAGTCCACGAAAAGCT
1 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCACGAAAAGCT
1800719 GGATG
66 GGATG
* * ** * * * * * * * *
1800724 CTTA--TTCACATGCAGCTCACATAAGTTTGTGGCA-C--CTATCCACCTCAATCCGCAAAAAGC
1 CTTACCTAC-CTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCACGAAAAGC
* *
1800784 TGAACG
65 TGGATG
* * * * *
1800790 -TCTACCTA-CTTCAAAGGCCACATAAGCTTATGGCA-CTACCTATCCACCTTAGTCCACGAAAA
1 CT-TACCTACCTT-AAAGCCCACACAAGCTTGTGGCACCT-TCTATCTACCTTAGTCCACGAAAA
1800852 GCTGGATG
63 GCTGGATG
* * * * ** * *
1800860 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGTACCTTTTATCTACCTTAGTCCTCTAGGACCA
1 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCACGAAAAGCT
*
1800925 GGACAG
66 GGA-TG
* * * * * * * *
1800931 -TTACTTACCTAAAAGCCCATACGACCTTGCGGCACCTTCTATCTACCTTATTCCTC-AAGAAGC
1 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCACGAA-AAGC
**
1800994 AAGATG
65 TGGATG
** * * * *** * *
1801000 CTCGCCTA-CTTCAAAGCCCACATAAGTTTGTGACACCTTCTATCTACCTTAGT-CTTTAAGGAT
1 CTTACCTACCTT-AAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCACGAA-AAG
**
1801063 CAAGATG
64 CTGGATG
* * ** * ** * * * * *
1801070 CTTACCTACATCAAAGCTGACACAAG-TTGT--TACCACCTATCCATCTCAGTCAATGAAAAGCT
1 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCACGAAAAGCT
*
1801132 AGATG
66 GGATG
* * * * *
1801137 CTTACCTATCTTAAAGCCCACATAAGCTTGTGGCAACATATATCTACCTTAGTCC
1 CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCC
1801192 TCAAGGAGTA
Statistics
Matches: 739, Mismatches: 216, Indels: 115
0.69 0.20 0.11
Matches are distributed among these distances:
62 20 0.03
63 4 0.01
64 7 0.01
65 12 0.02
66 76 0.10
67 129 0.17
68 18 0.02
69 80 0.11
70 379 0.51
71 11 0.01
73 1 0.00
74 2 0.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (70 bp):
CTTACCTACCTTAAAGCCCACACAAGCTTGTGGCACCTTCTATCTACCTTAGTCCACGAAAAGCT
GGATG
Found at i:1803604 original size:82 final size:82
Alignment explanation
Indices: 1803518--1804189 Score: 429
Period size: 83 Copynumber: 8.0 Consensus size: 82
1803508 AATTTTCAAT
* * * * * *
1803518 TTTTTGGGAAACTTTATCCCCACTCCTCTAAAAAGATACTTTAACCTCGATCTTTAAAAAAACTT
1 TTTTTGGGAAACTCTATCCCCATTCCTCTGAGAAGATACTCTAACCTCGATCTTTAAAAAAACTC
1803583 AAACTTTTTTTGAATAA
66 AAACTTTTTTTGAATAA
* ** *** * * *
1803600 TTTTTATGGAATTTCTATCTTTACTCCT-TCGAGAGGATACTCTAACCTCGATCTTT-AAAAAGC
1 TTTTT-GGGAAACTCTATCCCCATTCCTCT-GAGAAGATACTCTAACCTCGATCTTTAAAAAAAC
* *
1803663 TCAAACTTTTTTCGTATAA
64 TCAAACTTTTTTTGAATAA
* * * ** * *
1803682 TTTTTGGGGAAACTCCATCCCCACTCCTCCGAGGGGATACTTTAACCTCGATCTTTAAAAATACT
1 TTTTT-GGGAAACTCTATCCCCATTCCTCTGAGAAGATACTCTAACCTCGATCTTTAAAAAAACT
**
1803747 CAAACATTTTCTTCAAATAA
65 CAAAC-TTTT-TTTGAATAA
** * * * * * *
1803767 TTTTTGCAAAAACTCTGTCCCTATTCTTCCGATGAA-ATACTTTAACC-CTGATCTTCAAAAAAA
1 TTTTTG-GGAAACTCTATCCCCATTCCTCTGA-GAAGATACTCTAACCTC-GATCTTTAAAAAAA
1803830 CTCAAACTTCTTTTTCGAATAA
63 CTCAAACTT-TTTTT-GAATAA
** ** * * * * *
1803852 TTTTTTGAAAAACT-TCATCCTTATTCCTCCGAAAAGATAATATAACCAT-GATCTTCAAAAAAA
1 -TTTTTGGGAAACTCT-ATCCCCATTCCTCTGAGAAGATACTCTAACC-TCGATCTTTAAAAAAA
*
1803915 CTCAAACTTTTCCTTTGTATAA
63 CTCAAACTTTT--TTTGAATAA
* * * * * * *
1803937 TTTCTGTGAAACTCCATCCACATTCCT-TCGAGGAGACT-CTCTAACCAT-GAT-ATTCAAAAAA
1 TTTTTGGGAAACTCTATCCCCATTCCTCT-GAGAAGA-TACTCTAACC-TCGATCTTTAAAAAAA
*
1803998 CTCAAACTTTTCTTCGAATAA
63 CTCAAACTTTT-TTTGAATAA
* * ** *
1804019 TTTTTGGGAAAACTCTATCTCCATTCCTCTAAGGGGATACTCTAACC-C-AGTC-TTCAAAAAAC
1 TTTTTGGG-AAACTCTATCCCCATTCCTCTGAGAAGATACTCTAACCTCGA-TCTTTAAAAAAAC
*
1804081 TTAAACCTTTTTTTCGAATAA
64 TCAAA-CTTTTTTT-GAATAA
* * *
1804102 TTTTTAAGGAAACTCTATCCCCATTCTTCTGAGAAGATACTATAACC-CTGATCTTT-AAAAAAC
1 TTTTT-GGGAAACTCTATCCCCATTCCTCTGAGAAGATACTCTAACCTC-GATCTTTAAAAAAAC
* *
1804165 TGAAACTTTTTCTTCGTATAA
64 TCAAACTTTTT-TT-GAATAA
1804186 TTTT
1 TTTT
1804190 ATCTTTAGGG
Statistics
Matches: 472, Mismatches: 84, Indels: 66
0.76 0.14 0.11
Matches are distributed among these distances:
81 1 0.00
82 104 0.22
83 150 0.32
84 79 0.17
85 128 0.27
86 10 0.02
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (82 bp):
TTTTTGGGAAACTCTATCCCCATTCCTCTGAGAAGATACTCTAACCTCGATCTTTAAAAAAACTC
AAACTTTTTTTGAATAA
Found at i:1807371 original size:62 final size:62
Alignment explanation
Indices: 1807137--1807381 Score: 208
Period size: 62 Copynumber: 3.8 Consensus size: 62
1807127 CAAATGCCAC
* ** * * *
1807137 TCAACCCCATTTTGACTTAGG-TTTCGCCTTAGTCACTTTTAGTTGACTTTATTGGTTTCACCTT
1 TCAACACCATTTTGACTTAGGTTTTATCC-TAGTCACTTTTA-ATGACTTTA-T--ATTCACCCT
1807201 AG
61 AG
* * * * *
1807203 ACAAC-CCTATATGGACTTAGGTTTTATCCTAGTCACTTTTAGCTGACTTTATCAATTCACCCTG
1 TCAACACC-ATTTTGACTTAGGTTTTATCCTAGTCACTTTTA-ATGACTTTAT--ATTCACCCTA
1807267 G
62 G
* * *
1807268 TCAACACCATTTTGACTTGGGTTTTATCTTAGTCACTTTTAATGGACTTTAT-TTCGCCCTAG
1 TCAACACCATTTTGACTTAGGTTTTATCCTAGTCACTTTTAAT-GACTTTATATTCACCCTAG
* * * *
1807330 TTAACCCCATTTTGACTTAGGTTTTATCCTAGTTACCTTTAATTGACTTTAT
1 TCAACACCATTTTGACTTAGGTTTTATCCTAGTCACTTTTAA-TGACTTTAT
1807382 CGATTTTGCC
Statistics
Matches: 149, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
62 52 0.35
63 1 0.01
64 1 0.01
65 52 0.35
66 38 0.26
67 5 0.03
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (62 bp):
TCAACACCATTTTGACTTAGGTTTTATCCTAGTCACTTTTAATGACTTTATATTCACCCTAG
Found at i:1807575 original size:67 final size:68
Alignment explanation
Indices: 1807432--1807576 Score: 193
Period size: 67 Copynumber: 2.1 Consensus size: 68
1807422 CTGGTCTCTT
* * * *
1807432 TTAGTTGACTTTATCAGTTTCACCCTGGTCAATACCCTTTTTCGACTTAGGTTTCGCCCTAGTCT
1 TTAGTTGACTTTATCAGTTTCACCCTGGTCAACACCCTTTTTCGACTTAAGTTTCACCCTAGTCA
**
1807497 CTT
66 CCC
* ** *
1807500 TTAGTTGACTTTATTAGTTTTGCCCTGGTCAACA-CCTTTTTCGACTTAAGTTTCATCCTAGTCA
1 TTAGTTGACTTTATCAGTTTCACCCTGGTCAACACCCTTTTTCGACTTAAGTTTCACCCTAGTCA
1807564 CCC
66 CCC
1807567 TTAGTTGACT
1 TTAGTTGACT
1807577 ATACTGGTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
67 37 0.55
68 30 0.45
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (68 bp):
TTAGTTGACTTTATCAGTTTCACCCTGGTCAACACCCTTTTTCGACTTAAGTTTCACCCTAGTCA
CCC
Found at i:1809806 original size:15 final size:15
Alignment explanation
Indices: 1809786--1809834 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
1809776 TTTTTATTTT
1809786 TTAAAATATTTTTAA
1 TTAAAATATTTTTAA
*
1809801 TTAAAAT-TTTAATAA
1 TTAAAATATTT-TTAA
1809816 TTAAATATATTTTT-A
1 TTAAA-ATATTTTTAA
1809831 TTAA
1 TTAA
1809835 TTTTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 3 0.10
15 20 0.69
16 3 0.10
17 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAAATATTTTTAA
Found at i:1809847 original size:30 final size:30
Alignment explanation
Indices: 1809774--1809847 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
1809764 CCTATTTAAT
**
1809774 ATTTTTTATTTTTTAAAATATTTTTAATTA
1 ATTTTTTATTAATTAAAATATTTTTAATTA
** *
1809804 AAATTTTAATAATTAAATATATTTTT-ATTA
1 ATTTTTTATTAATTAAA-ATATTTTTAATTA
1809834 ATTTTTTATTAATT
1 ATTTTTTATTAATT
1809848 TTCTTTTAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
30 27 0.77
31 8 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTTTTTATTAATTAAAATATTTTTAATTA
Found at i:1809856 original size:11 final size:11
Alignment explanation
Indices: 1809825--1809849 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1809815 ATTAAATATA
1809825 TTTTTATTAAT
1 TTTTTATTAAT
1809836 TTTTTATTAAT
1 TTTTTATTAAT
1809847 TTT
1 TTT
1809850 CTTTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTATTAAT
Found at i:1809962 original size:21 final size:21
Alignment explanation
Indices: 1809914--1809959 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
1809904 AACTAGTAAA
1809914 ATAAAAT-TATAACTATTATT
1 ATAAAATATATAACTATTATT
*
1809934 ATAAAATATATAATTA-TATT
1 ATAAAATATATAACTATTATT
1809954 ATAAAA
1 ATAAAA
1809960 ATAAATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAAATATATAACTATTATT
Found at i:1810564 original size:11 final size:11
Alignment explanation
Indices: 1810550--1810732 Score: 56
Period size: 11 Copynumber: 17.3 Consensus size: 11
1810540 TCTTAGTAAC
1810550 TTTTAATATAA
1 TTTTAATATAA
1810561 TTTTAATA-ACCA
1 TTTTAATATA--A
*
1810573 -TTT-ATACAA
1 TTTTAATATAA
*
1810582 TTTT--TGTAA
1 TTTTAATATAA
*
1810591 TATTTAACATAA
1 T-TTTAATATAA
*
1810603 CTTTAAT-TACA
1 TTTTAATATA-A
*
1810614 -TTTGATATAA
1 TTTTAATATAA
*
1810624 TTTTAATA-AC
1 TTTTAATATAA
* *
1810634 TTTTTAGATAA
1 TTTTAATATAA
1810645 TTTT--TA-AA
1 TTTTAATATAA
1810653 TTTTTAATATAA
1 -TTTTAATATAA
*
1810665 TTTT-GTAATAA
1 TTTTAAT-ATAA
1810676 TTTTAAT-T-A
1 TTTTAATATAA
*
1810685 TATTTGATAATAA
1 T-TTTAAT-ATAA
1810698 TTTTAATA-ACA
1 TTTTAATATA-A
* *
1810709 -TATGATATAA
1 TTTTAATATAA
*
1810719 TTTTAATATCA
1 TTTTAATATAA
1810730 TTT
1 TTT
1810733 GATATATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 48
0.64 0.11 0.24
Matches are distributed among these distances:
8 2 0.02
9 12 0.10
10 39 0.31
11 58 0.46
12 13 0.10
13 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (11 bp):
TTTTAATATAA
Found at i:1810570 original size:21 final size:21
Alignment explanation
Indices: 1810546--1810705 Score: 98
Period size: 21 Copynumber: 7.6 Consensus size: 21
1810536 AACTTCTTAG
1810546 TAACTTTTAATATAATTTTAA
1 TAACTTTTAATATAATTTTAA
* * **
1810567 TAACCATTT-ATACAATTTTTG
1 TAA-CTTTTAATATAATTTTAA
* *
1810588 TAA-TATTTAACATAACTTTAA
1 TAACT-TTTAATATAATTTTAA
* * *
1810609 TTACATTTGATATAATTTTAA
1 TAACTTTTAATATAATTTTAA
* * *
1810630 TAACTTTTTAGATAATTTTTA
1 TAACTTTTAATATAATTTTAA
*
1810651 -AATTTTTAATATAATTTTGTAA
1 TAACTTTTAATATAA-TTT-TAA
1810673 TAA-TTTTAAT-TATATTTGATAA
1 TAACTTTTAATATA-ATTT--TAA
1810695 TAA-TTTTAATA
1 TAACTTTTAATA
1810706 ACATATGATA
Statistics
Matches: 104, Mismatches: 25, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
20 14 0.13
21 61 0.59
22 27 0.26
23 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (21 bp):
TAACTTTTAATATAATTTTAA
Found at i:1810682 original size:22 final size:21
Alignment explanation
Indices: 1810550--1810705 Score: 85
Period size: 22 Copynumber: 7.4 Consensus size: 21
1810540 TCTTAGTAAC
1810550 TTTTAATATAA-TTTTAATAA
1 TTTTAATATAATTTTTAATAA
* * *
1810570 CCATTT-ATACAATTTTT-GTAA
1 --TTTTAATATAATTTTTAATAA
* *
1810591 TATTTAACATAA-CTTTAATTACA
1 T-TTTAATATAATTTTTAA-TA-A
*
1810614 -TTTGATATAA-TTTTAATAA
1 TTTTAATATAATTTTTAATAA
* * *
1810633 CTTTTTAGATAATTTTTAA-AT
1 -TTTTAATATAATTTTTAATAA
1810654 TTTTAATATAATTTTGTAATAA
1 TTTTAATATAATTTT-TAATAA
*
1810676 TTTTAAT-TATATTTGATAATAA
1 TTTTAATATA-ATTT-TTAATAA
1810698 TTTTAATA
1 TTTTAATA
1810706 ACATATGATA
Statistics
Matches: 102, Mismatches: 18, Indels: 27
0.69 0.12 0.18
Matches are distributed among these distances:
19 1 0.01
20 21 0.21
21 39 0.38
22 40 0.39
23 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTTAATATAATTTTTAATAA
Found at i:1810714 original size:22 final size:22
Alignment explanation
Indices: 1810666--1810736 Score: 92
Period size: 21 Copynumber: 3.3 Consensus size: 22
1810656 TTAATATAAT
* *
1810666 TTTG-TAATAATTTTAATTATA
1 TTTGATAATAATTTTAATAACA
1810687 TTTGATAATAATTTTAATAACA
1 TTTGATAATAATTTTAATAACA
* *
1810709 TATGAT-ATAATTTTAATATCA
1 TTTGATAATAATTTTAATAACA
1810730 TTTGATA
1 TTTGATA
1810737 TATTTATACA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
21 23 0.53
22 20 0.47
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (22 bp):
TTTGATAATAATTTTAATAACA
Found at i:1811300 original size:20 final size:19
Alignment explanation
Indices: 1811275--1811330 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
1811265 TTATTTTTAA
1811275 TATATTTATTTATTAAAATC
1 TATATTTATTTA-TAAAATC
1811295 TATATTTATTTATAAAAT-
1 TATATTTATTTATAAAATC
*
1811313 TA-ATTTGTTATATAAAAT
1 TATATTTATT-TATAAAAT
1811331 TAATTTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.18
18 10 0.29
19 6 0.18
20 12 0.35
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
TATATTTATTTATAAAATC
Found at i:1811328 original size:18 final size:18
Alignment explanation
Indices: 1811278--1811336 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
1811268 TTTTTAATAT
1811278 ATTTATT-TATTAAAATCTA
1 ATTTATTATA-TAAAAT-TA
1811297 TATTTATT-TATAAAATTA
1 -ATTTATTATATAAAATTA
*
1811315 ATTTGTTATATAAAATTA
1 ATTTATTATATAAAATTA
1811333 ATTT
1 ATTT
1811337 TTAAATAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 6 0.16
18 16 0.43
19 6 0.16
20 9 0.24
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTTATTATATAAAATTA
Found at i:1812551 original size:12 final size:12
Alignment explanation
Indices: 1812534--1812561 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1812524 ATTAAATTAA
1812534 ATTTATATTTAT
1 ATTTATATTTAT
1812546 ATTTATATTTAT
1 ATTTATATTTAT
1812558 ATTT
1 ATTT
1812562 TTAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTATATTTAT
Found at i:1812608 original size:43 final size:43
Alignment explanation
Indices: 1812490--1812608 Score: 117
Period size: 43 Copynumber: 2.9 Consensus size: 43
1812480 AGTTCAAACT
* * *
1812490 ATTTTAAATTTAAA-TT-TTTAATT-TTTTT-AATTAAATTAA
1 ATTTTAAATTTAAATTTATTTTATTATTTTTAAATTTAATAAA
* * **
1812529 A--TTAAATTTATATTTATATTTA-TATTTATATTTTTAATAAA
1 ATTTTAAATTTAAATTTAT-TTTATTATTTTTAAATTTAATAAA
1812570 ATTTTAAATTTAAATTTATTTTATTATTTTTAAATTTAA
1 ATTTTAAATTTAAATTTATTTTATTATTTTTAAATTTAA
1812609 GCCAAGTTCA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
37 10 0.16
38 2 0.03
39 3 0.05
40 7 0.11
41 8 0.13
42 4 0.07
43 27 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (43 bp):
ATTTTAAATTTAAATTTATTTTATTATTTTTAAATTTAATAAA
Found at i:1812978 original size:32 final size:33
Alignment explanation
Indices: 1812942--1813015 Score: 100
Period size: 32 Copynumber: 2.3 Consensus size: 33
1812932 TAATATTTAA
1812942 AATATTTTATAAAATTTAATAAATTAATA-ATT
1 AATATTTTATAAAATTTAATAAATTAATATATT
* * *
1812974 AATATTATATAAAATTTAATATATTTATATATT
1 AATATTTTATAAAATTTAATAAATTAATATATT
1813007 --TATTTTATA
1 AATATTTTATA
1813016 TATTATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 8 0.22
32 26 0.70
33 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
AATATTTTATAAAATTTAATAAATTAATATATT
Found at i:1812994 original size:17 final size:17
Alignment explanation
Indices: 1812942--1812995 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
1812932 TAATATTTAA
*
1812942 AATATTTTATAAAATTT
1 AATATTATATAAAATTT
*
1812959 AATA-AAT-TAATAA-TT
1 AATATTATATAA-AATTT
1812974 AATATTATATAAAATTT
1 AATATTATATAAAATTT
1812991 AATAT
1 AATAT
1812996 ATTTATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 9 0.30
16 7 0.23
17 14 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATTATATAAAATTT
Found at i:1813010 original size:12 final size:11
Alignment explanation
Indices: 1812995--1813047 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
1812985 AAATTTAATA
1812995 TATTTATATATT
1 TATTT-TATATT
1813007 TATTTTATATAT
1 TATTTTATAT-T
1813019 TATTTTA-ATT
1 TATTTTATATT
*
1813029 ATATTTATATAAT
1 -TATTT-TATATT
1813042 TATTTT
1 TATTTT
1813048 TAATATTACC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
10 1 0.03
11 13 0.36
12 20 0.56
13 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTTTATATT
Found at i:1813032 original size:35 final size:34
Alignment explanation
Indices: 1812988--1813055 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 34
1812978 TTATATAAAA
*
1812988 TTTAATATATTTATATATTTA-TTTTATATATTAT
1 TTTAATATATTTATATAATTATTTTTA-ATATTAT
1813022 TTTAATTATATTTATATAATTATTTTTAATATTA
1 TTTAA-TATATTTATATAATTATTTTTAATATTA
1813056 CCAAATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
34 5 0.16
35 21 0.68
36 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (34 bp):
TTTAATATATTTATATAATTATTTTTAATATTAT
Found at i:1815065 original size:22 final size:22
Alignment explanation
Indices: 1814986--1815065 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 22
1814976 TTTATAATGA
* *
1814986 ATTTATATTTGA-TATAATAATA
1 ATTTATATTTTATTA-AATAATT
*
1815008 ATTTATA-ATTATTAAATAAATTT
1 ATTTATATTTTATTAAAT-AA-TT
*
1815031 AATAATATTATTTTATTAAATAATT
1 -AT-TTA-TATTTTATTAAATAATT
1815056 ATTTATATTT
1 ATTTATATTT
1815066 ATTTTAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
21 5 0.11
22 16 0.36
23 3 0.07
24 4 0.09
25 4 0.09
26 4 0.09
27 9 0.20
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (22 bp):
ATTTATATTTTATTAAATAATT
Found at i:1816000 original size:17 final size:15
Alignment explanation
Indices: 1815980--1816031 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 15
1815970 TTAGGTAAAA
1815980 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
1815997 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
1816011 AA-AAAGAAA-AAA-
1 AAGAAAGAAAGAAAG
1816023 AA-AAAGAAA
1 AAGAAAGAAA
1816032 AAAATATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.26
13 3 0.09
14 9 0.26
15 1 0.03
16 9 0.26
17 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:1816028 original size:12 final size:12
Alignment explanation
Indices: 1816000--1816035 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 12
1815990 GAAGATGAAG
1816000 AAGAAAGAAAGAAA
1 AAGAAA-AAA-AAA
1816014 AAGAAAAAAAAA
1 AAGAAAAAAAAA
1816026 AAGAAAAAAA
1 AAGAAAAAAA
1816036 TATGAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 13 0.59
13 3 0.14
14 6 0.27
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:1816356 original size:2 final size:2
Alignment explanation
Indices: 1816343--1816453 Score: 159
Period size: 2 Copynumber: 55.5 Consensus size: 2
1816333 TTATTTTATT
* * *
1816343 TA TA TG TA TA TA TA TA TA TA TG TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1816385 TA TA TA TA TA TG TA TA TA TA TA TG TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1816427 TA TA TA TA TG TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1816454 TTTGAAAATC
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 95 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1822808 original size:13 final size:13
Alignment explanation
Indices: 1822790--1822814 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1822780 ACCTAATCCT
1822790 AAAAAAAAAACCA
1 AAAAAAAAAACCA
1822803 AAAAAAAAAACC
1 AAAAAAAAAACC
1822815 TTTTCACCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACCA
Found at i:1823937 original size:27 final size:27
Alignment explanation
Indices: 1823864--1824720 Score: 1311
Period size: 27 Copynumber: 31.3 Consensus size: 27
1823854 GTGGCATTTT
*
1823864 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1823892 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1823920 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1823947 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1823974 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1824001 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
1824028 CTTTTAAGTCCACAACTCTGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1824055 TTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1824082 CTTTTAAAGTCTACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1824110 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1824137 CTTTTTAAGTCCACAACTCCATGGCACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
* * **
1824165 CTTTTAAGTCCAGAACTCTGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1824192 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
1824219 CTTTTAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1824246 CTTTTAAGTCCAAAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1824273 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
1824300 CTTTTAAGTCCACAACTGCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1824327 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1824354 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
1824382 CTTTTTAGTCTACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1824409 CTTTTAAAGTCCACAACTCCATGGCCCC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1824437 CTTTTTAAGTCCACAACTCCGTGGCACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
1824465 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1824493 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1824520 CTTTTAAAGTCCACAACTCCATGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1824548 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1824575 CTTTTAAGTCCACAACTCCGTGGCA-C
1 CTTTTAAGTCCACAACTCCGTGGCACC
1824601 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1824628 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1824656 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1824683 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
1824711 CTTTTTAAGT
1 C-TTTTAAGT
1824721 TGTCGTAACG
Statistics
Matches: 761, Mismatches: 57, Indels: 22
0.91 0.07 0.03
Matches are distributed among these distances:
26 26 0.03
27 474 0.62
28 253 0.33
29 8 0.01
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1823977 original size:54 final size:54
Alignment explanation
Indices: 1823864--1824720 Score: 1311
Period size: 55 Copynumber: 15.7 Consensus size: 54
1823854 GTGGCATTTT
*
1823864 CTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
1823920 CTTTTTAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1823974 CTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *** * *
1824028 CTTTTAAGTCCACAACTCTGTGGCATTTTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1824082 CTTTTAAAGTCTACAACTCCGTGGCACCCTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * **
1824137 CTTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCAGAACTCTGTGGCATT
1 C-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* **
1824192 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1824246 CTTTTAAGTCCAAAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* ** *
1824300 CTTTTAAGTCCACAACTGCGTGGCATTCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1824354 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCTACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1824409 CTTTTAAAGTCCACAACTCCATGGCCCCCTTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCACC
*
1824465 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1824520 CTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1824575 CTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1824628 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
1824683 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCC-TTTTAAGT
1824721 TGTCGTAACG
Statistics
Matches: 738, Mismatches: 55, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
53 53 0.07
54 298 0.40
55 299 0.41
56 88 0.12
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1827887 original size:52 final size:52
Alignment explanation
Indices: 1827798--1827925 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
1827788 CGAAATATGA
*
1827798 AAATTTGCCTGCATGTATCGATACATGTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATGTAATAATGTATCGATACATCTGGGC
*
1827850 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TGTAATAATGTATCGATACATCTGGGC
1827902 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1827926 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 21 0.29
52 48 0.66
53 4 0.05
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATGTAATAATGTATCGATACATCTGGGC
Found at i:1827952 original size:13 final size:13
Alignment explanation
Indices: 1827934--1827958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1827924 CAAAGATCAG
1827934 TGTATCGATACAA
1 TGTATCGATACAA
1827947 TGTATCGATACA
1 TGTATCGATACA
1827959 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1828043 original size:32 final size:33
Alignment explanation
Indices: 1827999--1828064 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1827989 AGTAGCTTAA
1827999 ATTGTATCGATACAA-AAAATATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
* ***
1828031 ATTGTATTGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
1828064 A
1 A
1828065 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAACAAAATATGTATCGATAC
Found at i:1829051 original size:21 final size:21
Alignment explanation
Indices: 1829027--1829094 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
1829017 ATTGGACTTA
1829027 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
1829048 AAGGCCAGCTACAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
1829070 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
1829091 AAGG
1 AAGG
1829095 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:1829073 original size:22 final size:22
Alignment explanation
Indices: 1829048--1829115 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
1829038 GTGCTGATTC
1829048 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
1829070 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
1829091 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
1829113 AAG
1 AAG
1829116 ATGAAGGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:1829142 original size:49 final size:49
Alignment explanation
Indices: 1828939--1829679 Score: 881
Period size: 49 Copynumber: 15.7 Consensus size: 49
1828929 AAAAGGATGT
1828939 CAATGTGCTGATTCAAGGCCAGCTACATT-GACCTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGA-CTTAAAGAT-G--AAGGTGC
* * *
1828991 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1829034 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1829077 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1829126 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1829175 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1829224 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1829267 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1829316 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1829359 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1829408 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1829451 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1829500 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1829552 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1829595 CAATGTGCTGAGTCACGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1829644 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1829680 GAAGGGTTGC
Statistics
Matches: 602, Mismatches: 53, Indels: 71
0.83 0.07 0.10
Matches are distributed among these distances:
43 231 0.38
45 3 0.00
47 5 0.01
48 2 0.00
49 292 0.49
52 67 0.11
53 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1829161 original size:92 final size:92
Alignment explanation
Indices: 1828983--1829679 Score: 851
Period size: 92 Copynumber: 7.5 Consensus size: 92
1828973 TAAAGATGGA
* * *
1828983 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
1829042 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
1829069 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
*
1829134 TGAGTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
* * *
1829161 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
* * *
1829226 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
1829259 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
* *
1829324 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
* *
1829351 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
* *
1829416 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
* *
1829443 AAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
*
1829508 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCTACATTGGAC-T-----T
* * *
1829541 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATG
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
* *
1829600 TGCTGAGTCACGGCCAGCTACATTGGACTT
63 TGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
1829630 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1829680 GAAGGGTTGC
Statistics
Matches: 555, Mismatches: 29, Indels: 47
0.88 0.05 0.07
Matches are distributed among these distances:
86 40 0.07
87 3 0.01
88 1 0.00
89 2 0.00
90 1 0.00
91 1 0.00
92 339 0.61
93 1 0.00
94 2 0.00
95 39 0.07
96 1 0.00
97 1 0.00
98 85 0.15
101 39 0.07
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
TGATTCAAGGCCAGCTACATTGGACTT
Found at i:1829723 original size:33 final size:35
Alignment explanation
Indices: 1829679--1829748 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
1829669 TATTGGGCTT
1829679 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1829713 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1829747 AG
1 AG
1829749 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:1829785 original size:34 final size:35
Alignment explanation
Indices: 1829733--1830572 Score: 653
Period size: 34 Copynumber: 25.4 Consensus size: 35
1829723 CACCGACTTG
* *
1829733 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA-AAAGGGAAAAAGATGCCACGGAGT
* *
1829769 TATGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGA-TGCCACGGAGT
* * *
1829804 TGTGGGCTTTAAAA-AGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
1829838 TGTGGGCTTT-AAA--G----AG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
*
1829865 CGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGA-TGCCACGGAGT
*
1829902 TGTGGGCTTTAAACA--GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGGAAAAAGATGCCACGGAGT
*
1829936 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGA-TGCCACGGAGT
*
1829973 TGTGGGCTTTAAAA--GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
*
1830006 TGTGGGCTTTGAAAAGGGAAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGG-AAAAAGA-TGCCACGGAGT
*
1830044 TGTGGGCTTTAAAA--GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* * *
1830077 TGTGGGCTTTAAAA-AGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
1830111 TGTGGGCTTT-AAA--G----AG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* * *
1830138 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGA-TGCCACGGAGT
* *
1830175 TGTGGGCTTTAAACA--GAAAAAGGTGTCACGGAGT
1 TGTGGGCTTTAAA-AGGGAAAAAGATGCCACGGAGT
*
1830209 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGA-TGCCACGGAGT
*
1830246 TGTGGGCTTTAAAA--GAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* *
1830279 TGTGGGCTTTAAAA-AGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
*
1830313 TGTGGGC-TT-AAACGG-----G-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* * * * * *
1830340 TGTCGAC-TTAAAGATGAAAAAAG-TGCCACAGAAT
1 TGTGGGCTTTAAA-AGGGAAAAAGATGCCACGGAGT
1830374 TGTGGGCTTTAAAA-GG-----G-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* * * * *
1830402 TGTGGAC-TTAAAGATGAAAAAAG-TGCCATGGAAT
1 TGTGGGCTTTAAA-AGGGAAAAAGATGCCACGGAGT
1830436 TGTGGGCTTTAAAA-GG-----G-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* * * *
1830464 TGTGGAC-TTAAAGATGAAAAAAG-TGCCACGGAAT
1 TGTGGGCTTTAAA-AGGGAAAAAGATGCCACGGAGT
1830498 TGTGGGCTTTAAAA-GG-----G-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
* * *
1830526 TGTGGAC-TTAAAA-GGAACAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
1830559 TGTGGGCTTTAAAA
1 TGTGGGCTTTAAAA
1830573 AAAAATGCCA
Statistics
Matches: 673, Mismatches: 60, Indels: 144
0.77 0.07 0.16
Matches are distributed among these distances:
27 76 0.11
28 58 0.09
29 10 0.01
31 2 0.00
32 6 0.01
33 97 0.14
34 209 0.31
35 65 0.10
36 40 0.06
37 90 0.13
38 20 0.03
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGT
Found at i:1829810 original size:71 final size:69
Alignment explanation
Indices: 1829733--1830600 Score: 812
Period size: 71 Copynumber: 13.2 Consensus size: 69
1829723 CACCGACTTG
* * * *
1829733 TGTGGGCTTT-AGGAAGGGAGAAAGA-TGCCACGGAGTTATGGACTTAAAAGGGAAAAAGAGTGC
1 TGTGGGCTTTGA-AAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA--GAAAAAG-GTGC
1829796 CACGGAGT
62 CACGGAGT
* * *
1829804 TGTGGGCTTT-AAAA-AGAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAG----A-GTGCCACG
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGGTGCCACG
1829861 GAGT
66 GAGT
*
1829865 CGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCA
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAA-AGAAAAAGGTGCCA
1829930 CGGAGT
64 CGGAGT
*
1829936 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGGTGCCAC
1830001 GGAGT
65 GGAGT
*
1830006 TGTGGGCTTTGAAAAGGGAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCA
1 TGTGGGCTTTGAAAAGGG-AAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGGTGCCA
1830071 CGGAGT
64 CGGAGT
* * *
1830077 TGTGGGCTTT-AAAA-AGAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAG----A-GTGCCACG
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGGTGCCACG
1830134 GAGT
66 GAGT
* * * *
1830138 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGTCA
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAA-AGAAAAAGGTGCCA
1830203 CGGAGT
64 CGGAGT
*
1830209 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCAC
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGGTGCCAC
1830274 GGAGT
65 GGAGT
* *
1830279 TGTGGGCTTT-AAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTAAACG-----GGTGCCACG
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGGTGCCACG
1830336 GAGT
66 GAGT
* * * * *
1830340 TGTCGAC-TT--AAAGATGAAAAA-AGTGCCACAGAATTGTGGGCTTTAAAAG-----GGTGCCA
1 TGTGGGCTTTGAAAAG-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGGTGCCA
1830396 CGGAGT
64 CGGAGT
* * * *
1830402 TGTGGAC-TT--AAAGATGAAAAA-AGTGCCATGGAATTGTGGGCTTTAAAAG-----GGTGCCA
1 TGTGGGCTTTGAAAAG-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGGTGCCA
1830458 CGGAGT
64 CGGAGT
* * *
1830464 TGTGGAC-TT--AAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTTAAAAG-----GGTGCCA
1 TGTGGGCTTTGAAAAG-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGGTGCCA
1830520 CGGAGT
64 CGGAGT
* *
1830526 TGTGGAC-TT-AAAA-GGAACAAG-GTGCCACGGAGTTGTGGGCTTTAAAA-AAAAA--TGCCAC
1 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGGTGCCAC
*
1830584 TGAGT
65 GGAGT
* *
1830589 CGTGGACTTTGA
1 TGTGGGCTTTGA
1830601 GACAAAATGC
Statistics
Matches: 719, Mismatches: 43, Indels: 76
0.86 0.05 0.09
Matches are distributed among these distances:
59 3 0.00
60 2 0.00
61 113 0.16
62 157 0.22
63 33 0.05
64 39 0.05
65 9 0.01
66 16 0.02
67 37 0.05
68 12 0.02
69 31 0.04
70 75 0.10
71 192 0.27
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (69 bp):
TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGGTGCCACG
GAGT
Found at i:1830187 original size:273 final size:268
Alignment explanation
Indices: 1829733--1830598 Score: 1106
Period size: 273 Copynumber: 3.3 Consensus size: 268
1829723 CACCGACTTG
* * * * *
1829733 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTATGGACTTAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTTA--AAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAA--GAAAAAG-GTGCCA
*
1829798 CGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGA
61 CGGAGTTGTGGACTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGA
*
1829863 GTCGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGC
126 GTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGC
1829928 CACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAA
191 CACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAA
1829993 GGTGCCACGGAGT
256 GGTGCCACGGAGT
*
1830006 TGTGGGCTTTGAAAAGGGAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCA
1 TGTGGGCTTT-AAAA-GG-AAAAAG-GTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGGTGCCA
*
1830071 CGGAGTTGTGGGCTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGA
61 CGGAGTTGTGGACTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGA
* *
1830136 GTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGT
126 GTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGC
1830201 CACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAA
191 CACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAA
1830266 GGTGCCACGGAGT
256 GGTGCCACGGAGT
* *
1830279 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAACG-----GGTGCCACGGAG
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGGTGCCACGGAG
* * * * * * * *
1830339 TTGTCGAC-TTAAAGATGAAAAAAGTGCCACAGAATTGTGGGCTTTAAAAGGGTGCCACGGAGTT
66 TTGTGGACTTTAAA-AAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAGAGTGCCACGGAGTC
* * *
1830403 GTGGAC-TT--AAAGATGAAAAA-AGTGCCATGGAATTGTGGGCTTTAAA-AG-----GGTGCCA
129 GTGGGCTTTGAAAAGA-GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCA
* * * *
1830458 CGGAGTTGTGGAC-TT--AAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTTAAAAG-----G
193 CGGAGTTGTGGGCTTTGAAAAG-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAG
1830514 GTGCCACGGAGT
257 GTGCCACGGAGT
* * *
1830526 TGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AAAAA--TGCCACTGA
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGGTGCCACGGA
*
1830587 GTCGTGGACTTT
65 GTTGTGGACTTT
1830599 GAGACAAAAT
Statistics
Matches: 540, Mismatches: 37, Indels: 55
0.85 0.06 0.09
Matches are distributed among these distances:
246 31 0.06
247 24 0.04
249 15 0.03
250 2 0.00
252 30 0.06
253 6 0.01
254 2 0.00
255 18 0.03
260 2 0.00
261 28 0.05
262 11 0.02
263 46 0.09
264 21 0.04
268 6 0.01
269 18 0.03
270 6 0.01
271 1 0.00
272 6 0.01
273 233 0.43
274 13 0.02
275 15 0.03
276 6 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (268 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGAAAAAGGTGCCACGGAG
TTGTGGACTTTAAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTCGT
GGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGG
AGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGC
CACGGAGT
Found at i:1830392 original size:62 final size:62
Alignment explanation
Indices: 1830191--1830572 Score: 484
Period size: 62 Copynumber: 6.1 Consensus size: 62
1830181 CTTTAAACAG
* * * * * *
1830191 AAAAAGGTGTCACGGAGTTGTGGGCTTTGAAA-AGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAGA-TGAAAAA-AGTGCCACGGAATTGTGGGCTT
1830255 T
62 T
* * * *
1830256 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-AAGAAAAAGGTGCCACGGAGTTGTGGGC
1 AAAAG-----GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGC
1830320 -TT
60 TTT
* * *
1830322 AAACGGGTGCCACGGAGTTGTCGACTTAAAGATGAAAAAAGTGCCACAGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
*
1830384 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCATGGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1830446 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
* * * *
1830508 AAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAACAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1830569 AAAA
1 AAAA
1830573 AAAAATGCCA
Statistics
Matches: 289, Mismatches: 21, Indels: 18
0.88 0.06 0.05
Matches are distributed among these distances:
60 5 0.02
61 73 0.25
62 151 0.52
65 4 0.01
66 6 0.02
67 18 0.06
68 6 0.02
69 4 0.01
70 22 0.08
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (62 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
Found at i:1831656 original size:16 final size:16
Alignment explanation
Indices: 1831635--1831670 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1831625 CTCACCGAGA
*
1831635 TTTTCTGTTTTGTTTT
1 TTTTCTGTTTTCTTTT
*
1831651 TTTTCTTTTTTCTTTT
1 TTTTCTGTTTTCTTTT
1831667 TTTT
1 TTTT
1831671 TGTGTTTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (16 bp):
TTTTCTGTTTTCTTTT
Found at i:1838936 original size:52 final size:52
Alignment explanation
Indices: 1838847--1838974 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
1838837 CGAAATATGA
*
1838847 AAATTTGCCTGCATGTATCGATACATGTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATGTAATAATGTATCGATACATCTGGGC
*
1838899 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TGTAATAATGTATCGATACATCTGGGC
1838951 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1838975 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 21 0.29
52 48 0.66
53 4 0.05
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATGTAATAATGTATCGATACATCTGGGC
Found at i:1839001 original size:13 final size:13
Alignment explanation
Indices: 1838983--1839007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1838973 CAAAGATCAG
1838983 TGTATCGATACAA
1 TGTATCGATACAA
1838996 TGTATCGATACA
1 TGTATCGATACA
1839008 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1839087 original size:13 final size:13
Alignment explanation
Indices: 1839069--1839093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1839059 ACAAAAAATA
1839069 TGTATCGATACAT
1 TGTATCGATACAT
1839082 TGTATCGATACA
1 TGTATCGATACA
1839094 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1839089 original size:32 final size:33
Alignment explanation
Indices: 1839048--1839113 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
1839038 AGTAGCTTAA
1839048 ATTGTATCGATACAA-AAAATATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
***
1839080 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
1839113 A
1 A
1839114 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAACAAAATATGTATCGATAC
Found at i:1839504 original size:55 final size:55
Alignment explanation
Indices: 1839407--1839720 Score: 501
Period size: 55 Copynumber: 5.7 Consensus size: 55
1839397 AGTGTCTACA
*
1839407 TAAGTCCACAATTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCTTT
1 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTT
*
1839463 TAAGTCCACAATTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
1 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
* * *
1839517 TAAGTCCACAACTCCATGGCACCCCTTTTAAGTTCACAACTCCGTGGCACCCTTT
1 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
1839572 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACATA-TCCGTGGCACCCTTT
1 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACA-ACTCCGTGGCACCCTTT
1839627 TAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCATCCCTTT
1 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTT
* *
1839682 TAAGTTCACAACTTCGTGGCA-CCCTTTTTAAGTCCACAA
1 TAAGTCCACAACTCCGTGGCATCCC-TTTTAAGTCCACAA
1839721 GGCGGTGGCA
Statistics
Matches: 245, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
53 1 0.00
54 50 0.20
55 158 0.64
56 36 0.15
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (55 bp):
TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
Found at i:1839545 original size:82 final size:83
Alignment explanation
Indices: 1839407--1839720 Score: 526
Period size: 82 Copynumber: 3.8 Consensus size: 83
1839397 AGTGTCTACA
* *
1839407 TAAGTCCACAATTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCAC
1 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCCTTTTAAGTCCAC
*
1839472 AATTCCGTGGCACCCTTT
66 AACTCCGTGGCACCCTTT
* *
1839490 TAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCATGGCACCCCTTTTAAGTTCAC
1 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCCTTTTAAGTCCAC
1839554 AACTCCGTGGCACCCTTT
66 AACTCCGTGGCACCCTTT
1839572 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACATA-TCCGTGGCA-CCCTTTTAAGTCCA
1 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACA-ACTCCGTGGCACCCCTTTTAAGTCCA
1839635 CAACTCCGTGGCACCCTTT
65 CAACTCCGTGGCACCCTTT
* * *
1839654 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTTCACAACTTCGTGGCACCCTTTTTAAGTCCAC
1 TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCCTTTTAAGTCCAC
1839719 AA
66 AA
1839721 GGCGGTGGCA
Statistics
Matches: 217, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
81 1 0.00
82 155 0.71
83 60 0.28
84 1 0.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (83 bp):
TAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCCTTTTAAGTCCAC
AACTCCGTGGCACCCTTT
Found at i:1839730 original size:28 final size:27
Alignment explanation
Indices: 1839407--1839720 Score: 504
Period size: 28 Copynumber: 11.4 Consensus size: 27
1839397 AGTGTCTACA
*
1839407 TAAGTCCACAATTCCGTGGCATCCCTTT
1 TAAGTCCACAACTCCGTGGCA-CCCTTT
1839435 TAAGTCCACAACTCCGTGGCATCCCTTT
1 TAAGTCCACAACTCCGTGGCA-CCCTTT
*
1839463 TAAGTCCACAATTCCGTGGCACCCTTT
1 TAAGTCCACAACTCCGTGGCACCCTTT
1839490 TAAGTCCACAACTCCGTGGCACCCTTT
1 TAAGTCCACAACTCCGTGGCACCCTTT
*
1839517 TAAGTCCACAACTCCATGGCACCCCTTT
1 TAAGTCCACAACTCCGTGGCA-CCCTTT
*
1839545 TAAGTTCACAACTCCGTGGCACCCTTT
1 TAAGTCCACAACTCCGTGGCACCCTTT
1839572 TAAGTCCACAACTCCGTGGCATCCCTTT
1 TAAGTCCACAACTCCGTGGCA-CCCTTT
1839600 TAAGTCCACATA-TCCGTGGCACCCTTT
1 TAAGTCCACA-ACTCCGTGGCACCCTTT
1839627 TAAGTCCACAACTCCGTGGCACCCTTT
1 TAAGTCCACAACTCCGTGGCACCCTTT
1839654 TAAGTCCACAACTCCGTGGCATCCCTTT
1 TAAGTCCACAACTCCGTGGCA-CCCTTT
* *
1839682 TAAGTTCACAACTTCGTGGCACCCTTTT
1 TAAGTCCACAACTCCGTGGCACCC-TTT
1839710 TAAGTCCACAA
1 TAAGTCCACAA
1839721 GGCGGTGGCA
Statistics
Matches: 270, Mismatches: 10, Indels: 12
0.92 0.03 0.04
Matches are distributed among these distances:
26 1 0.00
27 133 0.49
28 135 0.50
29 1 0.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
TAAGTCCACAACTCCGTGGCACCCTTT
Found at i:1839804 original size:28 final size:28
Alignment explanation
Indices: 1839740--1839953 Score: 302
Period size: 28 Copynumber: 7.5 Consensus size: 28
1839730 ATTCCCTTCT
*
1839740 AAAGCCCACAAGTTAGTGGCACCTTTTTC
1 AAAGCCCACAAGTTAGTGGCATC-TTTTC
1839769 AAAGCCCACAAGTTAGTGGCATCTTTTC
1 AAAGCCCACAAGTTAGTGGCATCTTTTC
*
1839797 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTTAGTGGCATCTTTTC
* *
1839825 AAAGTCCACACAAGTTGGTGGCATCCTTTC
1 AAAG-CC-CACAAGTTAGTGGCATCTTTTC
* *
1839855 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTTAGTGGCATCTTTTC
** *
1839883 AAAGCCCACAAGTCGGTGGCAATCCATTTC
1 AAAGCCCACAAGTTAGTGGC-AT-CTTTTC
1839913 AAAGCCCACAAGTTAGTGGCATCTTTTC
1 AAAGCCCACAAGTTAGTGGCATCTTTTC
1839941 AAAGCCCACAAGT
1 AAAGCCCACAAGT
1839954 CGGTGGCAAC
Statistics
Matches: 169, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
28 93 0.55
29 30 0.18
30 46 0.27
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (28 bp):
AAAGCCCACAAGTTAGTGGCATCTTTTC
Found at i:1839988 original size:32 final size:32
Alignment explanation
Indices: 1839793--1840581 Score: 1137
Period size: 32 Copynumber: 25.2 Consensus size: 32
1839783 AGTGGCATCT
* * *
1839793 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
1839821 TTTCAAAGTCCACACAAGTTGGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
1839851 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1839879 TTTCAAAG-CC-CACAAGTCGGTGGCAATCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
** * *
1839909 TTTCAAAG-CC-CACAAGTTAGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1839937 TTTCAAAG-CC-CACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1839967 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1839999 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1840031 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1840063 TTTCAAAGCCCACACAAGTCGATGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1840095 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1840127 TTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1840159 TTTCAAAGCCCACACAAGTCGGTGGTAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1840191 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1840223 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1840255 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1840287 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
1840319 TTTCAAAGCCCACACAAGTCGATGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1840351 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1840383 TTTCAAAGCCCTCACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1840415 TTTCAAAGCCCACACAAGTCAGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * *
1840447 TTCCAAAGCCCACATAAGTTGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
** *
1840479 TTTCAAAGCCCACACAAGTCGGTGGTGACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
1840511 TTTCAAAGCCCACACAAGTCGGTAGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* ** * *
1840543 TTTAAAAGCCCATGCAAGTCAGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1840575 TTTCAAA
1 TTTCAAA
1840582 TCACCATTTT
Statistics
Matches: 698, Mismatches: 54, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
28 70 0.10
29 10 0.01
30 51 0.07
31 3 0.00
32 564 0.81
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
Found at i:1842007 original size:56 final size:56
Alignment explanation
Indices: 1841944--1842058 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
1841934 CCCTAACTAC
1841944 TTTGCCAAGTTCATTTTTTAGTTAAAAATTACCAAAACAGTTATTTAACTTGTTGA
1 TTTGCCAAGTTCATTTTTTAGTTAAAAATTACCAAAACAGTTATTTAACTTGTTGA
*
1842000 TTTGCCAAGTTCATTTTTTGGTTAAAAATTACCAAAACAGTTATTTAACTTGTTGA
1 TTTGCCAAGTTCATTTTTTAGTTAAAAATTACCAAAACAGTTATTTAACTTGTTGA
1842056 TTT
1 TTT
1842059 TCTGGGTAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (56 bp):
TTTGCCAAGTTCATTTTTTAGTTAAAAATTACCAAAACAGTTATTTAACTTGTTGA
Found at i:1842319 original size:2 final size:2
Alignment explanation
Indices: 1842306--1842366 Score: 95
Period size: 2 Copynumber: 30.5 Consensus size: 2
1842296 TTATTTTATT
* * *
1842306 TA TA TG TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1842348 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
1842367 TTTGAAAATC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1842329 original size:18 final size:18
Alignment explanation
Indices: 1842306--1842364 Score: 118
Period size: 18 Copynumber: 3.3 Consensus size: 18
1842296 TTATTTTATT
1842306 TATATGTATATATATATA
1 TATATGTATATATATATA
1842324 TATATGTATATATATATA
1 TATATGTATATATATATA
1842342 TATATGTATATATATATA
1 TATATGTATATATATATA
1842360 TATAT
1 TATAT
1842365 ATTTTGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TATATGTATATATATATA
Found at i:1844791 original size:24 final size:21
Alignment explanation
Indices: 1844746--1844831 Score: 84
Period size: 21 Copynumber: 3.9 Consensus size: 21
1844736 GAAGAATTAT
1844746 TAAAAAATGAGTATTTTTAAG
1 TAAAAAATGAGTATTTTTAAG
1844767 TAAAAAATGAGTAATTTTTTCAAG
1 TAAAAAATGAGT-A-TTTTT-AAG
1844791 TAAAAAAATGGCAGT-TTTTTAAG
1 T-AAAAAAT-G-AGTATTTTTAAG
* * *
1844814 TGAAAAGTGTGTATTTTT
1 TAAAAAATGAGTATTTTT
1844832 TTTAAAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
20 2 0.04
21 18 0.33
22 6 0.11
23 9 0.16
24 9 0.16
25 7 0.13
26 1 0.02
27 3 0.05
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (21 bp):
TAAAAAATGAGTATTTTTAAG
Found at i:1846636 original size:13 final size:13
Alignment explanation
Indices: 1846618--1846642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1846608 CATTATGCTT
1846618 TGTATCGATACAA
1 TGTATCGATACAA
1846631 TGTATCGATACA
1 TGTATCGATACA
1846643 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1846673 original size:20 final size:20
Alignment explanation
Indices: 1846627--1846683 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
1846617 TTGTATCGAT
*
1846627 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGC
* *
1846646 TC-ATTGTATCAATACATGC
1 ACAATTGTATCGATACATGC
1846665 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
1846684 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGC
Found at i:1846755 original size:33 final size:33
Alignment explanation
Indices: 1846713--1846775 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
1846703 TACCACTGTT
1846713 TGTATCGATACAT-GACACATTGTATCGATATAA
1 TGTATCGATACATGGACA-ATTGTATCGATATAA
*
1846746 TGTATCGATACATGGAGAATTGTATCGATA
1 TGTATCGATACATGGACAATTGTATCGATA
1846776 CATTGCTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 25 0.89
34 3 0.11
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATGGACAATTGTATCGATATAA
Found at i:1848466 original size:20 final size:19
Alignment explanation
Indices: 1848396--1848469 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 19
1848386 CACACCTAGA
* **
1848396 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-AAT
* *
1848416 TGTATCGATACATGTTCAT
1 TGTATCGATACATGATAAT
*
1848435 TATATCGATACATGCATAAT
1 TGTATCGATACATG-ATAAT
*
1848455 TGTATCGGTACATGA
1 TGTATCGATACATGA
1848470 AACTGGCAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 16 0.36
20 29 0.64
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATGATAAT
Found at i:1852717 original size:52 final size:52
Alignment explanation
Indices: 1852517--1852697 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
1852507 CGAAATATGA
*
1852517 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
1852569 AAATTTGCCTGCATGTATCGACACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1852621 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1852673 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1852698 AAGATCAGTG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:1852727 original size:13 final size:13
Alignment explanation
Indices: 1852706--1852763 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
1852696 CAAAGATCAG
*
1852706 TGTACCGATACAA
1 TGTATCGATACAA
1852719 TGTATCGATACAA
1 TGTATCGATACAA
*
1852732 ---A--GAT-CAG
1 TGTATCGATACAA
1852739 TGTATCGATACAA
1 TGTATCGATACAA
1852752 TGTATCGATACA
1 TGTATCGATACA
1852764 TTTGAGTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
7 2 0.06
8 3 0.08
10 2 0.06
12 3 0.08
13 26 0.72
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1852727 original size:33 final size:33
Alignment explanation
Indices: 1852685--1852763 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
1852675 ATTTGCCTGC
1852685 ATGTATCGATACAAAGATCAGTGTACCGATACA
1 ATGTATCGATACAAAGATCAGTGTACCGATACA
*
1852718 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAGTGTACCGATACA
1852751 ATGTATCGATACA
1 ATGTATCGATACA
1852764 TTTGAGTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAGTGTACCGATACA
Found at i:1852744 original size:20 final size:20
Alignment explanation
Indices: 1852686--1852751 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1852676 TTTGCCTGCA
1852686 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
*
1852706 TGTACCGATAC----A--A-
1 TGTATCGATACAAAGATCAG
1852719 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
1852739 TGTATCGATACAA
1 TGTATCGATACAA
1852752 TGTATCGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 10 0.27
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 23 0.62
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGATCAG
Found at i:1852844 original size:32 final size:33
Alignment explanation
Indices: 1852801--1852869 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
1852791 GGCAGTAGCT
*
1852801 TACATTGTATCGATACAACAC-TTATGTATCGA
1 TACATTATATCGATACAACACTTTATGTATCGA
1852833 TACATTATATCGATACAACACTTTATGTATCGA
1 TACATTATATCGATACAACACTTTATGTATCGA
1852866 TACA
1 TACA
1852870 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (33 bp):
TACATTATATCGATACAACACTTTATGTATCGA
Found at i:1857761 original size:33 final size:33
Alignment explanation
Indices: 1857724--1857788 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1857714 TTCAACGATT
1857724 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1857757 TGTATCGATACATATTTTTTTGTATCGATACA
1 TGTATCGATACATAAAATGTTGTATCGATACA
1857789 TTTTAAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1857762 original size:13 final size:13
Alignment explanation
Indices: 1857744--1857768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1857734 CATAAAATGT
1857744 TGTATCGATACAA
1 TGTATCGATACAA
1857757 TGTATCGATACA
1 TGTATCGATACA
1857769 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1857849 original size:13 final size:13
Alignment explanation
Indices: 1857831--1857858 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1857821 ATTACTCAAA
1857831 TGTATCGATACAT
1 TGTATCGATACAT
1857844 TGTATCGATACAT
1 TGTATCGATACAT
1857857 TG
1 TG
1857859 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1862090 original size:13 final size:13
Alignment explanation
Indices: 1862072--1862098 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1862062 ACAATATTCT
1862072 TTGTATTGATACA
1 TTGTATTGATACA
1862085 TTGTATTGATACA
1 TTGTATTGATACA
1862098 T
1 T
1862099 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTGTATTGATACA
Found at i:1862252 original size:114 final size:114
Alignment explanation
Indices: 1862043--1862277 Score: 398
Period size: 114 Copynumber: 2.1 Consensus size: 114
1862033 TATACCTAGA
* * * *
1862043 AAAACCCAGATGTATCGATACAATATTCTTTGTATTGATACATTGTATTGATACATGGGTTACTA
1 AAAA-CCAAATGTATCGATACAATATTCTTTGTATCGATACATTGCATCGATACATGGGTTACTA
* *
1862108 TTTGAATAGTCGAACCTTCTTCCTTCATTCCATGTCAATACACAACCCCC
65 TTTGAATAGTCGAACCTTCTTCCTTCATTCCATATCAATACACAACCCAC
1862158 AAAACCAAATGTATCGATACAATATTCTTTGTATCGATACATTGCATCGATACATGGGTTACTAT
1 AAAACCAAATGTATCGATACAATATTCTTTGTATCGATACATTGCATCGATACATGGGTTACTAT
*
1862223 TTGAATAGTCGAACCTTCTTCCTTCATTCCATATCGATACACAACCCAC
66 TTGAATAGTCGAACCTTCTTCCTTCATTCCATATCAATACACAACCCAC
1862272 AAAACC
1 AAAACC
1862278 CAAAATCCTC
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
114 109 0.96
115 4 0.04
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.33
Consensus pattern (114 bp):
AAAACCAAATGTATCGATACAATATTCTTTGTATCGATACATTGCATCGATACATGGGTTACTAT
TTGAATAGTCGAACCTTCTTCCTTCATTCCATATCAATACACAACCCAC
Found at i:1862377 original size:20 final size:20
Alignment explanation
Indices: 1862339--1862378 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
1862329 TTTCAAATTT
1862339 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
1862360 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
1862379 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:1863731 original size:30 final size:28
Alignment explanation
Indices: 1863695--1863750 Score: 94
Period size: 30 Copynumber: 1.9 Consensus size: 28
1863685 AATAAATTTT
1863695 TTATCAAGGGGGAGAAAATCTTTTAAACAA
1 TTATCAAGGGGGAG-AAAT-TTTTAAACAA
1863725 TTATCAAGGGGGAGAAATTTTTAAAC
1 TTATCAAGGGGGAGAAATTTTTAAAC
1863751 GAGAGCCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 8 0.31
29 4 0.15
30 14 0.54
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (28 bp):
TTATCAAGGGGGAGAAATTTTTAAACAA
Found at i:1864360 original size:19 final size:20
Alignment explanation
Indices: 1864336--1864391 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
1864326 TGTAATGATA
*
1864336 CATTGTATCGATACATG-TT
1 CATTGTATCGATACATGCAT
*
1864355 CATTGTATTGATACATGCAT
1 CATTGTATCGATACATGCAT
*
1864375 AATTGTATCGATACATG
1 CATTGTATCGATACATG
1864392 AAACTGACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (20 bp):
CATTGTATCGATACATGCAT
Found at i:1864381 original size:20 final size:19
Alignment explanation
Indices: 1864330--1864392 Score: 81
Period size: 20 Copynumber: 3.2 Consensus size: 19
1864320 ATGCTTTGTA
1864330 ATGATACATTGTATCGATAC
1 ATGATA-ATTGTATCGATAC
* * *
1864350 ATGTTCATTGTATTGATAC
1 ATGATAATTGTATCGATAC
1864369 ATGCATAATTGTATCGATAC
1 ATG-ATAATTGTATCGATAC
1864389 ATGA
1 ATGA
1864393 AACTGACAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (19 bp):
ATGATAATTGTATCGATAC
Found at i:1864484 original size:33 final size:32
Alignment explanation
Indices: 1864423--1864484 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
1864413 CCACTGTTTA
1864423 TATCGATACATGGCAATTATATCGATACAATG
1 TATCGATACATGGCAATTATATCGATACAATG
*
1864455 TATCGATACATGATG-AATTGTATCGATACA
1 TATCGATACATG--GCAATTATATCGATACA
1864485 TTGCTTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 12 0.44
33 14 0.52
34 1 0.04
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (32 bp):
TATCGATACATGGCAATTATATCGATACAATG
Found at i:1867232 original size:24 final size:23
Alignment explanation
Indices: 1867205--1867256 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
1867195 TATTTTTTTT
1867205 TAAAATTTTAATTATAAAAATATA
1 TAAAATTTTAATTA-AAAAATATA
* *
1867229 TAAATTTTTAATTAAATAATATA
1 TAAAATTTTAATTAAAAAATATA
1867252 -AAAAT
1 TAAAAT
1867257 AAATTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.16
23 8 0.32
24 13 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TAAAATTTTAATTAAAAAATATA
Found at i:1868145 original size:53 final size:53
Alignment explanation
Indices: 1868083--1868288 Score: 385
Period size: 53 Copynumber: 3.9 Consensus size: 53
1868073 GATCACATGG
*
1868083 TTTCAATGATGTAGCTTTAGGAAAACATAAAGAATTGTACAAGGATAACACGA
1 TTTCAATGATGTTGCTTTAGGAAAACATAAAGAATTGTACAAGGATAACACGA
*
1868136 TTTCAATGATGTTGCTTTAGGAAAACATAAAGAATTGTACAAGGACAACACGA
1 TTTCAATGATGTTGCTTTAGGAAAACATAAAGAATTGTACAAGGATAACACGA
*
1868189 TTTCAATGATGTTGCTTTAGGAAAACATAAAGATTTGTACAAGGATAACACGA
1 TTTCAATGATGTTGCTTTAGGAAAACATAAAGAATTGTACAAGGATAACACGA
1868242 TTTCAATGATGTTGCTTTAGGAAAACATAAAGAATTGTACAAGGATA
1 TTTCAATGATGTTGCTTTAGGAAAACATAAAGAATTGTACAAGGATA
1868289 TTCTCTTTCT
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 148 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (53 bp):
TTTCAATGATGTTGCTTTAGGAAAACATAAAGAATTGTACAAGGATAACACGA
Found at i:1870903 original size:18 final size:18
Alignment explanation
Indices: 1870873--1870911 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1870863 TAAATAGATC
*
1870873 TAATTTAATTTAAGATAA
1 TAATTTAATTTAAAATAA
1870891 TAATTATAA-TTAAAATAA
1 TAATT-TAATTTAAAATAA
1870909 TAA
1 TAA
1870912 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
TAATTTAATTTAAAATAA
Found at i:1874365 original size:19 final size:18
Alignment explanation
Indices: 1874341--1874385 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1874331 AAAAATAATT
*
1874341 TTAATTTTGATATTTAAAA
1 TTAATTTTGATAATT-AAA
**
1874360 TTAATTTTTTTAATTAAA
1 TTAATTTTGATAATTAAA
1874378 TTAATTTT
1 TTAATTTT
1874386 TAAAAATTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTAATTTTGATAATTAAA
Done.