Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold330
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: 1763736
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 14
Found at i:488442 original size:20 final size:18
Alignment explanation
Indices: 488417--488455 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
488407 ATGTTTGTAC
*
488417 TTGCATTATTTCATGCATAT
1 TTGCATT-TTACATG-ATAT
488437 TTGCATTTTACATGATAT
1 TTGCATTTTACATGATAT
488455 T
1 T
488456 GGGATCTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (18 bp):
TTGCATTTTACATGATAT
Found at i:489384 original size:1 final size:1
Alignment explanation
Indices: 489378--489474 Score: 59
Period size: 1 Copynumber: 97.0 Consensus size: 1
489368 TTGGTTGTTG
* * * * * * * * * *
489378 AAAAAAAAAAGAAAAAAGAAAAAAAGAGAAAAAAAGAAAGAAGAAAGAAAAAAAAAGAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * *
489443 TGAAAATAAAAAAAAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
489475 TTTTGGAAAC
Statistics
Matches: 67, Mismatches: 29, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (1 bp):
A
Found at i:489394 original size:7 final size:7
Alignment explanation
Indices: 489378--489473 Score: 83
Period size: 7 Copynumber: 13.6 Consensus size: 7
489368 TTGGTTGTTG
489378 AAAA-AA
1 AAAAGAA
489384 AAAAGAA
1 AAAAGAA
489391 AAAAGAAAA
1 AAAAG--AA
489400 AAAGAGAAA
1 AAA-AG-AA
489409 AAAAGAA
1 AAAAGAA
*
489416 AGAAGAA
1 AAAAGAA
489423 AGAAA-AA
1 A-AAAGAA
489430 AAAAGAA
1 AAAAGAA
*
489437 AAAAGAT
1 AAAAGAA
* *
489444 GAAA-AT
1 AAAAGAA
489450 AAAA-AA
1 AAAAGAA
489456 AAAAGAA
1 AAAAGAA
489463 AAAAGAA
1 AAAAGAA
489470 AAAA
1 AAAA
489474 ATTTTGGAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
6 17 0.22
7 43 0.56
8 4 0.05
9 11 0.14
10 2 0.03
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (7 bp):
AAAAGAA
Found at i:489401 original size:17 final size:17
Alignment explanation
Indices: 489379--489474 Score: 106
Period size: 17 Copynumber: 5.4 Consensus size: 17
489369 TGGTTGTTGA
489379 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAG
*
489396 AAAAAAAGAGAAAAAAAG
1 AAAAAAAAAG-AAAAAAG
*
489414 AAAGAAGAAAGAAAAAA-
1 AAA-AAAAAAGAAAAAAG
489431 AAAGAAAAAAGATGAAAATA-
1 AAA-AAAAAAGA--AAAA-AG
489451 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAG
489468 AAAAAAA
1 AAAAAAA
489475 TTTTGGAAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
16 1 0.01
17 31 0.45
18 16 0.23
19 17 0.25
20 4 0.06
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:489429 original size:36 final size:34
Alignment explanation
Indices: 489378--489474 Score: 124
Period size: 38 Copynumber: 2.7 Consensus size: 34
489368 TTGGTTGTTG
489378 AAAAAAAAAAGAAAAAAGAAAAAAAGA-GAAAAA
1 AAAAAAAAAAGAAAAAAGAAAAAAAGATGAAAAA
* *
489411 AAGAAAGAAGAAAGAAAAAAAAAGAAAAAAGATGAAAAT
1 AA-AAA-AA-AAAG-AAAAAAGA-AAAAAAGATGAAAAA
489450 AAAAAAAAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAGAAAAAAGAAAAAAA
489475 TTTTGGAAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
33 2 0.04
34 9 0.16
35 9 0.16
36 8 0.15
37 9 0.16
38 11 0.20
39 7 0.13
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (34 bp):
AAAAAAAAAAGAAAAAAGAAAAAAAGATGAAAAA
Found at i:489453 original size:21 final size:19
Alignment explanation
Indices: 489377--489471 Score: 83
Period size: 18 Copynumber: 5.0 Consensus size: 19
489367 TTTGGTTGTT
489377 GAAAAAA-A-AAAGAAAAAA
1 GAAAAAAGAGAAA-AAAAAA
*
489395 GAAAAAA-AGAGAAAAAAA
1 GAAAAAAGAGAAAAAAAAA
*
489413 GAAAGAAGAAAGAAAAAAAAA
1 GAAA-AA-AGAGAAAAAAAAA
*
489434 GAAAAAAGATGAAAATAAAA
1 GAAAAAAGA-GAAAAAAAAA
489454 -AAAAAAGA-AAAAAGAAAA
1 GAAAAAAGAGAAAAA-AAAA
489472 AAATTTTGGA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.06
18 22 0.33
19 14 0.21
20 12 0.18
21 14 0.21
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (19 bp):
GAAAAAAGAGAAAAAAAAA
Found at i:489748 original size:90 final size:89
Alignment explanation
Indices: 489587--489960 Score: 408
Period size: 90 Copynumber: 4.2 Consensus size: 89
489577 TCATATCTCT
* * * * *
489587 TGATTTTCTTGGGGCAAGGT-CTAGCCCACACCTTCCTAATCATATCTCCTTCATCCAACTACTA
1 TGATTTCCTTGGGGCAAGGTGC-AGCCCACACATTCCTAATCATATCCCCTTCATTCAACCACTA
489651 GATGGTATTGATGCATCACAAAGCC
65 GATGGTATTGATGCATCACAAAGCC
*
489676 TGATTTCCTTTGGGGCAAGGTGCAGTCCACACATTCCTAATCATATCCCCTTCATTCAACCACTA
1 TGATTTCC-TTGGGGCAAGGTGCAGCCCACACATTCCTAATCATATCCCCTTCATTCAACCACTA
*
489741 GATGGTATTGATGCATCCCAAAGCC
65 GATGGTATTGATGCATCACAAAGCC
* ** * *
489766 TGATTTCCTTTGGGGCAAGGTGCAACCCTTACATTCCTAATGATATCCCTTTCATTCAACCACTA
1 TGATTTCC-TTGGGGCAAGGTGCAGCCCACACATTCCTAATCATATCCCCTTCATTCAACCACTA
* * * *** *
489831 AATGGTATTGTTACATCGTGAAGCT
65 GATGGTATTGATGCATCACAAAGCC
* * * * * * * * * *** * *
489856 TGATTTTCTAGAGGCAAGGTGCAGCCCCCATATTCCCAATCATTTTCCTTTCACAAAATCATTAG
1 TGATTTCCTTGGGGCAAGGTGCAGCCCACACATTCCTAATCATATCCCCTTCATTCAACCACTAG
489921 ATGGTATTGATGCATCACAAAGCC
66 ATGGTATTGATGCATCACAAAGCC
*
489945 TGATATCCTTGGGGCA
1 TGATTTCCTTGGGGCA
489961 GGGATATCCT
Statistics
Matches: 236, Mismatches: 47, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
89 78 0.33
90 157 0.67
91 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (89 bp):
TGATTTCCTTGGGGCAAGGTGCAGCCCACACATTCCTAATCATATCCCCTTCATTCAACCACTAG
ATGGTATTGATGCATCACAAAGCC
Found at i:490283 original size:36 final size:35
Alignment explanation
Indices: 490204--490285 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 35
490194 TTTTCCACCA
* * * * *
490204 TTGTTTGATTGTATCTTGTCAAACTCTTTTCATCT
1 TTGTTTGACTGTACCTGGTCAAACTCTTCTCATCC
*
490239 TTCATTTGACTGTACCTGGTCAAACTCTTCTCATCCC
1 TT-GTTTGACTGTACCTGGTCAAACTCTTCTCAT-CC
490276 TTGTTTGACT
1 TTGTTTGACT
490286 ATATTGGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
35 2 0.05
36 33 0.87
37 3 0.08
ACGTcount: A:0.17, C:0.23, G:0.12, T:0.48
Consensus pattern (35 bp):
TTGTTTGACTGTACCTGGTCAAACTCTTCTCATCC
Found at i:490522 original size:88 final size:87
Alignment explanation
Indices: 490330--490496 Score: 212
Period size: 88 Copynumber: 1.9 Consensus size: 87
490320 CTCTTGTCCG
* * * *
490330 ACGTATGGTTACCACCCTA-TCAGATTCTTTTCATTCTGATTTGATGTATGGTTATCACCCTGGT
1 ACGTATGGTTACCACCCTAGTCAGATTCTTTCCATTCTGATTTGATGTAAGGTTACCACCCTAGT
* *
490394 CAAGTTTGCATCCTCTTTATCTA
66 CAAATCT-CATCCTCTTTATCTA
* * *
490417 ACATATGGTTACCACCCTAGTCATATTCTTTCCATTTTGATTTGATGTAAGGTTACCACCCTAGT
1 ACGTATGGTTACCACCCTAGTCAGATTCTTTCCATTCTGATTTGATGTAAGGTTACCACCCTAGT
* *
490482 TAAATCT-ATCTTCTT
66 CAAATCTCATCCTCTT
490497 CCTGTTTGAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
86 7 0.10
87 18 0.26
88 43 0.63
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (87 bp):
ACGTATGGTTACCACCCTAGTCAGATTCTTTCCATTCTGATTTGATGTAAGGTTACCACCCTAGT
CAAATCTCATCCTCTTTATCTA
Found at i:490547 original size:44 final size:44
Alignment explanation
Indices: 490457--490554 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
490447 TCCATTTTGA
* * *
490457 TTTGATGTAAGGTTACCACCCTAGTTAAATCTATCTTCTTCCTG
1 TTTGATGTAAGGTTACCACCCTAGTCAAATCGATCTTCGTCCTG
* *
490501 TTTGATGTATGGTTACCACCCTGGTCAAA-CGAT-TTGCGTCCTTG
1 TTTGATGTAAGGTTACCACCCTAGTCAAATCGATCTT-CGTCC-TG
490545 TTTGATGTAA
1 TTTGATGTAA
490555 CGGATCATCC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 2 0.04
43 7 0.15
44 37 0.80
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.40
Consensus pattern (44 bp):
TTTGATGTAAGGTTACCACCCTAGTCAAATCGATCTTCGTCCTG
Found at i:490672 original size:42 final size:42
Alignment explanation
Indices: 490619--492369 Score: 840
Period size: 42 Copynumber: 41.3 Consensus size: 42
490609 TCAGTCTACT
* * * *
490619 TGTCGACTTTGACCCTAGAGACTACCTCATCTTAAGTCTGCC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * * *
490661 TGTCAGCTTTGACCTTGGAGACTTCTTCACCCTTAAGTCTGCT
1 TGTCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCC
* * * * * *
490704 TGTCGGCTTTGACCCTCGAGACTTTCTTACCTTCAGTCTACC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* ** * *
490746 TGTCGGTTTTGACCTTAGAGACTGT-CTCTTCTCAAGTCTGCT
1 TGTCGGCTTTGACCTTAGAGACT-TCCTCACCTTAAGTCTGCC
* * * * *
490788 TGTCAGCTTTGACCTTGGAGACTTCTTCACCCTT-AGCTCTACT
1 TGTCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAG-TCTGCC
** * ** * * * * *
490831 TGTTAGTTTTGACCCCAAAGAATTTCTTACCTTAAGTCTGTC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
** * * * * * ** *
490873 TGTAAGCTTTGACCCTAGAGACTGCTTCATCTCAAGTCCACT
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * ** * *
490915 TGTCGGCTTTAACCTTGGAGACTTTTTCACCCTTAAGTCTACT
1 TGTCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCC
* * * * *
490958 TATCAGCTTTGACCTTGGAGACTTTCTTACCTTTAA-TCTAG-C
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACC-TTAAGTCT-GCC
* * * * * *
491000 TGTCAGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTACC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * *
491042 TGTCGGCTTTGACCCTAGAGACTTTCTTCACCTTTAAATCTGCC
1 TGTCGGCTTTGACCTTAGAGAC-TTCCTCACC-TTAAGTCTGCC
* * * * * * * *
491086 TATCAGCTTTGACCCTAAAGACTTTCTTACCTTTAGTCTGTC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * * * * *
491128 TGTCGGCTTTTACCTTGGAGACTGCCTCATCTCAAGTCTGTC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * * *
491170 TGTCGGCTTTGACCTTGGAGACTTCTTTACCCTTAAGTTTGCC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCC
* * * ** * **
491213 TGTCAGCTTTGACCTTGGGGACTTTTTTACCTTAAGTCTGTT
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * ** * * *
491255 TGTCGGCTTTGACTCTT-GAGACTGCTTCTTCTCAAGTTTACC
1 TGTCGGCTTTGAC-CTTAGAGACTTCCTCACCTTAAGTCTGCC
* *
491297 TGTCGGCTTTAACCTTAGAGACTTCTTCACCCTT-A--C-GCC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCC
* * * * * * * *
491336 TGTGGGCTATGACCATAGAGACTTTCTTACCTTCAGCCTACC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
** * * * * *
491378 TGTTAGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCT
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * * * ** *
491420 TGTCGGTTTTGACC-TGGAAATGTTTTTCACCTTTAAGTCTGCT
1 TGTCGGCTTTGACCTTAGAGA-CTTCCTCACC-TTAAGTCTGCC
* * * * * * *
491463 TGTCAGTTTTGACCCTAGAAACTTTCTTACTTTAAGTCTG-C
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * * * * * *
491504 TGGTTGACTTTGACCCTAGAGACTACCTCATCTCAAGTCTACC
1 T-GTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * * *
491547 TATCGGCTTTGACC-TAGGAAACTT-TTCACCCTTAAGTCTACC
1 TGTCGGCTTTGACCTTA-GAGACTTCCTCA-CCTTAAGTCTGCC
* * * * * *
491589 TGCCGGCTTTGACCTTGGAGACTTTCTTACCTTCAGTCTACC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
*** * * * * * * *
491631 TGTTAACTTTAACCATAGAGACTGCCACATCTCAAGTCTGCT
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * * *
491673 TGTCGACTTTGACTTTAGAGACTTTCTTCACCTTTAAGTCTACC
1 TGTCGGCTTTGACCTTAGAGAC-TTCCTCACC-TTAAGTCTGCC
* * * * ** * * *
491717 TGTTGACTTTAACCTTGGAGACTTATTTACCTTCAGTTTGCC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * * * * *
491759 TGTCGACTTTGACCTTGGAGACTGCC-AATCTCAAGTCTGCC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * ** * *
491800 TGTCGGCTTTGACCCTAGAAACTTTTTCACCCTAAAGTCTGCT
1 TGTCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCC
* * * ** * * *
491843 TGTTGACTTTGACCTTTGAGACTTTTTCACCTTCAGTTTACC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * * *
491885 TGTCGGCTTTGACCTTGGAGA-TTACCTCATCTCAAGTCTGTC
1 TGTCGGCTTTGACCTTAGAGACTT-CCTCACCTTAAGTCTGCC
* * *
491927 TGTCAGCTTTGACCTTA-AGGACTTTCTTACCTTAAGTCTGCC
1 TGTCGGCTTTGACCTTAGA-GACTTCCTCACCTTAAGTCTGCC
* * * * * * *
491969 TGTTGGCTTTGACCTTGGAGACTACCTCATCTCAAGCCAGCC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * * *
492011 TATCGGCTTTGACCTT-GAAGACTTCTTTTATCCTTAAGTCTACC
1 TGTCGGCTTTGACCTTAG-AGACTTC-CTCA-CCTTAAGTCTGCC
* * *
492055 TGTCGGCTTTGACCCTAGAGACTTCCTTTATCCTTAAGTCTGCT
1 TGTCGGCTTTGACCTTAGAGACTTCC-TCA-CCTTAAGTCTGCC
* * * * * *
492099 TGTCAGCTTTAACCCT-GAAGACTGCCTTATCTTAAGTCTGCC
1 TGTCGGCTTTGACCTTAG-AGACTTCCTCACCTTAAGTCTGCC
* * * * *
492141 TATCAGCTTTGACCTTGGAGACTTCTTCACCCTTAAGTCTGCT
1 TGTCGGCTTTGACCTTAGAGACTTCCTCA-CCTTAAGTCTGCC
* * * * * * * *
492184 TGTCAGCTTTGACCCTAGGGATTTCTTTCACCGTTTAGTCTACT
1 TGTCGGCTTTGACCTTAGAGACTTC-CTCACC-TTAAGTCTGCC
* * * * *
492228 TGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTACC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
* * * * * *
492270 TATCGGCTTTGACCCTAGAGACTTCTTATATCGCTT-AGTCTACT
1 TGTCGGCTTTGACCTTAGAGACTTCCT-CA-C-CTTAAGTCTGCC
* * * ** * *
492314 TGTTGGCTTTGACCTTGGAGACTACCTCGTCTCAATTCTGCC
1 TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
*
492356 TGTCGGCTTAGACC
1 TGTCGGCTTTGACC
492370 CATAGACCTC
Statistics
Matches: 1275, Mismatches: 382, Indels: 104
0.72 0.22 0.06
Matches are distributed among these distances:
38 4 0.00
39 25 0.02
41 54 0.04
42 725 0.57
43 281 0.22
44 183 0.14
45 3 0.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.37
Consensus pattern (42 bp):
TGTCGGCTTTGACCTTAGAGACTTCCTCACCTTAAGTCTGCC
Found at i:490757 original size:85 final size:84
Alignment explanation
Indices: 490611--492336 Score: 596
Period size: 85 Copynumber: 20.4 Consensus size: 84
490601 TTTAACTTTC
* * ** * * *
490611 AGTCTACTTGTC-GACTTTGACCCTAGAGACTACCTCATCTTAAGTCTGCCTGTCAGCTTTGACC
1 AGTCTGCTTGTCAG-CTTTGACCCTGGAGACTTTCTTACCTTAAGTCTACCTGTCAGCTTTGACC
490675 TTGGAGACTTCTTCACCCTTA
65 TTGGAGACTTCTTCA-CCTTA
* * * * *
490696 AGTCTGCTTGTCGGCTTTGACCCTCGAGACTTTCTTACCTTCAGTCTACCTGTCGGTTTTGACCT
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTTACCTTAAGTCTACCTGTCAGCTTTGACCT
* ** *
490761 TAGAGACTGTC-TCTTCTCA
66 TGGAGACT-TCTTCACCTTA
* * * *
490780 AGTCTGCTTGTCAGCTTTGACCTTGGAGAC-TTCTTCACCCTT-AGCTCTACTTGTTAGTTTTGA
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTT-A-CCTTAAG-TCTACCTGTCAGCTTTGA
**** *
490843 CCCCAAAGAATTTCTT-ACCTTA
63 CCTTGGAG-ACTTCTTCACCTTA
* * * * * * * * *
490865 AGTCTG-TCTGTAAGCTTTGACCCTAGAGAC-TGCTTCATCTCAAGTCCACTTGTCGGCTTTAAC
1 AGTCTGCT-TGTCAGCTTTGACCCTGGAGACTTTCTT-ACCTTAAGTCTACCTGTCAGCTTTGAC
*
490928 CTTGGAGACTTTTTCACCCTTA
64 CTTGGAGACTTCTTCA-CCTTA
* * * *
490950 AGTCTACTTATCAGCTTTGACCTTGGAGACTTTCTTACCTTTAA-TCTAGCTGTCAGCTTTGACC
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTTACC-TTAAGTCTACCTGTCAGCTTTGACC
* * * *
491014 TTGGAGACTGCCTCATCTCA
65 TTGGAGACTTCTTCACCTTA
* * * * * * *
491034 AGTCTACCTGTCGGCTTTGACCCTAGAGACTTTCTTCACCTTTAAATCTGCCTATCAGCTTTGAC
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTT-ACC-TTAAGTCTACCTGTCAGCTTTGAC
* ** *
491099 CCTAAAGACTTTCTT-ACCTTT
64 CTTGGAGAC-TTCTTCACCTTA
* * * ** * * * ** *
491120 AGTCTG-TCTGTCGGCTTTTACCTTGGAGACTGCCTCATCTCAAGTCTGTCTGTCGGCTTTGACC
1 AGTCTGCT-TGTCAGCTTTGACCCTGGAGACTTTCTTACCTTAAGTCTACCTGTCAGCTTTGACC
*
491184 TTGGAGACTTCTTTACCCTTA
65 TTGGAGACTTCTTCA-CCTTA
* * * * * *** *
491205 AGTTTGCCTGTCAGCTTTGACCTTGGGGACTTTTTTACCTTAAGTCTGTTTGTCGGCTTTGACTC
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTTACCTTAAGTCTACCTGTCAGCTTTGAC-C
* ** *
491270 TT-GAGACTGCTTCTTCTCA
65 TTGGAGACTTCTTCACCTTA
* * * * * * * * ** *
491289 AGTTTACCTGTCGGCTTTAACCTTAGAGAC-TTCTTCACCCTT-A--C-GCCTGTGGGCTATGAC
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTT-A-CCTTAAGTCTACCTGTCAGCTTTGAC
* * *
491349 CATAGAGACTTTCTT-ACCTTC
64 CTTGGAGAC-TTCTTCACCTTA
* * * * * ** * * * * * * *
491370 AGCCTACCTGTTAGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCTTGTCGGTTTTGACC-
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTTACCTTAAGTCTACCTGTCAGCTTTGACCT
* * *
491434 TGGAAATGTTTTTCACCTTTA
66 TGGAGA-CTTCTTCACC-TTA
* * * * * *
491455 AGTCTGCTTGTCAGTTTTGACCCTAGAAACTTTCTTACTTTAAGTCT-GCTGGT-TGACTTTGAC
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTTACCTTAAGTCTACCT-GTCAG-CTTTGAC
* * * * * *
491518 CCTAGAGACTACCTCATCTCA
64 CTTGGAGACTTCTTCACCTTA
* * * * * * * *
491539 AGTCTACCTATCGGCTTTGA-CCTAGGAAACTTT-TCACCCTTAAGTCTACCTGCCGGCTTTGAC
1 AGTCTGCTTGTCAGCTTTGACCCT-GGAGACTTTCTTA-CCTTAAGTCTACCTGTCAGCTTTGAC
*
491602 CTTGGAGACTTTCTT-ACCTTC
64 CTTGGAGAC-TTCTTCACCTTA
* * * * * * * ** ** * * * * *
491623 AGTCTACCTGTTAACTTTAACCATAGAGACTGCCACATCTCAAGTCTGCTTGTC-GACTTTGACT
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTTACCTTAAGTCTACCTGTCAG-CTTTGACC
*
491687 TTAGAGACTTTCTTCACCTTTA
65 TTGGAGAC-TTCTTCACC-TTA
* * * * * * * *
491709 AGTCTACCTGT-TGACTTTAACCTTGGAGACTTAT-TTACCTTCAGTTTGCCTGTC-GACTTTGA
1 AGTCTGCTTGTCAG-CTTTGACCCTGGAGACTT-TCTTACCTTAAGTCTACCTGTCAG-CTTTGA
* * *
491771 CCTTGGAGACTGC--CAATCTCA
63 CCTTGGAGACTTCTTC-ACCTTA
* * * * * * * *
491792 AGTCTGCCTGTCGGCTTTGACCCTAGAAACTTT-TTCACCCTAAAGTCTGCTTGT-TGACTTTGA
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTT-A-CCTTAAGTCTACCTGTCAG-CTTTGA
* * *
491855 CCTTTGAGACTTTTTCACCTTC
63 CCTTGGAGACTTCTTCACCTTA
* * * * * * * * * **
491877 AGTTTACCTGTCGGCTTTGACCTTGGAGA-TTACCTCATCTCAAGTCTGTCTGTCAGCTTTGACC
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTT-TCTTACCTTAAGTCTACCTGTCAGCTTTGACC
*
491941 TT-AAGGACTTTCTT-ACCTTA
65 TTGGA-GAC-TTCTTCACCTTA
* ** * ** * * * * * *
491961 AGTCTGCCTGTTGGCTTTGACCTTGGAGACTACCTCATCTCAAG-CCAGCCTATCGGCTTTGACC
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTTACCTTAAGTCTA-CCTGTCAGCTTTGACC
* *
492025 TTGAAGACTTCTTTTATCCTTA
65 TTGGAGACTTC-TTCA-CCTTA
* * * * * * * *
492047 AGTCTACCTGTCGGCTTTGACCCTAGAGACTTCCTTTATCCTTAAGTCTGCTTGTCAGCTTTAAC
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTC-TTA-CCTTAAGTCTACCTGTCAGCTTTGAC
* * * *
492112 CCTGAAGACTGCCTT-ATCTTA
64 CTTGGAGACT-TCTTCACCTTA
* * * * *
492133 AGTCTGCCTATCAGCTTTGACCTTGGAGAC-TTCTTCACCCTTAAGTCTGCTTGTCAGCTTTGAC
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTT-A-CCTTAAGTCTACCTGTCAGCTTTGA-
* * *
492197 CCTAGG-GATTTCTTTCACCGTTT
63 CCTTGGAGACTTC-TTCACC-TTA
* * * ** * * * * * *
492220 AGTCTACTTGTCGGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTACCTATCGGCTTTGACCC
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTTACCTTAAGTCTACCTGTCAGCTTTGACCT
* *
492285 TAGAGACTTCTTATATCGCTT-
66 TGGAGACTTCTT-CA-C-CTTA
* ** *
492306 AGTCTACTTGTTGGCTTTGACCTTGGAGACT
1 AGTCTGCTTGTCAGCTTTGACCCTGGAGACT
492337 ACCTCGTCTC
Statistics
Matches: 1239, Mismatches: 321, Indels: 161
0.72 0.19 0.09
Matches are distributed among these distances:
80 4 0.00
81 45 0.04
82 10 0.01
83 67 0.05
84 392 0.32
85 396 0.32
86 255 0.21
87 38 0.03
88 30 0.02
89 2 0.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.37
Consensus pattern (84 bp):
AGTCTGCTTGTCAGCTTTGACCCTGGAGACTTTCTTACCTTAAGTCTACCTGTCAGCTTTGACCT
TGGAGACTTCTTCACCTTA
Found at i:490842 original size:127 final size:127
Alignment explanation
Indices: 490608--492336 Score: 1310
Period size: 127 Copynumber: 13.6 Consensus size: 127
490598 TACTTTAACT
* * * * * * *
490608 TTCAGTCTACTTGTCGACTTTGACCCTAGAGACTACCTCATCTTAAGTCTGCCTGTCAGCTTTGA
1 TTCAGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTGA
* * *
490673 CCTTGGAGACTTCTTCACCCTTAAGTCTGCTTGTCGGCTTTGACCCTCGAGACTTTCTTACC
66 CCTTGGAGACTTCTTCACCCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC
* * * *
490735 TTCAGTCTACCTGTCGGTTTTGACCTTAGAGACTGTCTCTTCTCAAGTCTGCTTGTCAGCTTTGA
1 TTCAGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTGA
* * * **** *
490800 CCTTGGAGACTTCTTCACCCTT-AGCTCTACTTGTTAGTTTTGACCCCAAAGAATTTCTTACC
66 CCTTGGAGACTTCTTCACCCTTAAG-TCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC
* ** ** * * ** *
490862 TTAAGTCTGTCTGTAAGCTTTGACCCTAGAGACTGCTTCATCTCAAGTCCACTTGTCGGCTTTAA
1 TTCAGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTGA
* * *
490927 CCTTGGAGACTTTTTCACCCTTAAGTCTACTTATCAGCTTTGACCTTGGAGACTTTCTTACC
66 CCTTGGAGACTTCTTCACCCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC
* * * * * * *
490989 TTTAATCTAGCTGTCAGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTACCTGTCGGCTTTGA
1 TTCAGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTGA
* * * * * * * **
491054 CCCTAGAGACTTTCTTCACCTTTAAATCTGCCTATCAGCTTTGACCCTAAAGACTTTCTTACC
66 CCTTGGAGAC-TTCTTCACCCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC
* ** * *
491117 TTTAGTCTGTCTGTCGGCTTTTACCTTGGAGACTGCCTCATCTCAAGTCTG-TCTGTCGGCTTTG
1 TTCAGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCT-TGTCGGCTTTG
* * * * *
491181 ACCTTGGAGACTTCTTTACCCTTAAGTTTGCCTGTCAGCTTTGACCTTGGGGACTTTTTTACC
65 ACCTTGGAGACTTCTTCACCCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC
* *** * * * * * *
491244 TTAAGTCTGTTTGTCGGCTTTGACTCTT-GAGACTGCTTCTTCTCAAGTTTACCTGTCGGCTTTA
1 TTCAGTCTACCTGTCGGCTTTGAC-CTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTG
* * ** * * *
491308 ACCTTAGAGACTTCTTCACCCTT-A--C-GCCTGTGGGCTATGACCATAGAGACTTTCTTACC
65 ACCTTGGAGACTTCTTCACCCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC
* ** * *
491367 TTCAGCCTACCTGTTAGCTTTGACCTTGGAGACTGCCTCATCTCAAGTCTGCTTGTCGGTTTTGA
1 TTCAGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTGA
* * * * * * * * *
491432 CC-TGGAAATGTTTTTCACCTTTAAGTCTGCTTGTCAGTTTTGACCCTAGAAACTTTCTTACT
66 CCTTGGAGA-CTTCTTCACCCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC
* * * * * * * * *
491494 TTAAGTCT-GCTGGTTGACTTTGACCCTAGAGACTACCTCATCTCAAGTCTACCTATCGGCTTTG
1 TTCAGTCTACCT-GTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTG
* * * * * *
491558 ACCTAGGAAACTT-TTCACCCTTAAGTCTACCTGCCGGCTTTGACCTTGGAGACTTTCTTACC
65 ACCTTGGAGACTTCTTCACCCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC
*** * * * *
491620 TTCAGTCTACCTGTTAACTTTAACCATAGAGACTGCCACATCTCAAGTCTGCTTGTCGACTTTGA
1 TTCAGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTGA
* * * * * * *
491685 CTTTAGAGACTTTCTTCACCTTTAAGTCTACCTGT-TGACTTTAACCTTGGAGACTTAT-TTACC
66 CCTTGGAGAC-TTCTTCACCCTTAAGTCTGCTTGTCAG-CTTTGACCTTGGAGACTT-TCTTACC
* * * * * *
491748 TTCAGTTTGCCTGTCGACTTTGACCTTGGAGACTGCC-AATCTCAAGTCTGCCTGTCGGCTTTGA
1 TTCAGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTGA
* * * * * * *
491812 CCCTAGAAACTTTTTCACCCTAAAGTCTGCTTGT-TGACTTTGACCTTTGAGACTTT-TTCACC
66 CCTTGGAGACTTCTTCACCCTTAAGTCTGCTTGTCAG-CTTTGACCTTGGAGACTTTCTT-ACC
* * * * *
491874 TTCAGTTTACCTGTCGGCTTTGACCTTGGAGATTACCTCATCTCAAGTCTG-TCTGTCAGCTTTG
1 TTCAGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCT-TGTCGGCTTTG
* * ** ** * *
491938 ACCTT-AAGGACTTTCTT-A-CCTTAAGTCTGCCTGTTGGCTTTGACCTTGGAGACTACCTCATC
65 ACCTTGGA-GAC-TTCTTCACCCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC
* * * * * * * *
492000 -TCAAG-CCAGCCTATCGGCTTTGACCTT-GAAGACTTCTTTTATCCTTAAGTCTACCTGTCGGC
1 TTC-AGTCTA-CCTGTCGGCTTTGACCTTAG-AGACTGC-CTCAT-CTCAAGTCTGCTTGTCGGC
* * * * * * * **
492062 TTTGACCCTAGAGACTTCCTTTATCCTTAAGTCTGCTTGTCAGCTTTAACCCTGAAGACTGCCTT
61 TTTGACCTTGGAGACTT-CTTCACCCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTT
*
492127 ATC
125 ACC
* * * * * * * * * *
492130 TTAAGTCTGCCTATCAGCTTTGACCTTGGAGACTTCTTCACCCTTAAGTCTGCTTGTCAGCTTTG
1 TTCAGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCTCA-TCTCAAGTCTGCTTGTCGGCTTTG
* * * * * * ** * *
492195 ACCCTAGG-GATTTCTTTCACCGTTTAGTCTACTTGTCGGCTTTGACCTTGGAGACTGCCTCATC
65 A-CCTTGGAGACTTC-TTCACCCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC
* * * * * * * * *
492259 -TCAAGTCTACCTATCGGCTTTGACCCTAGAGACTTCTTATATCGCTTAGTCTACTTGTTGGCTT
1 TTC-AGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCT-CATCTC-AAGTCTGCTTGTCGGCTT
492323 TGACCTTGGAGACT
63 TGACCTTGGAGACT
492337 ACCTCGTCTC
Statistics
Matches: 1289, Mismatches: 267, Indels: 89
0.78 0.16 0.05
Matches are distributed among these distances:
122 7 0.01
123 86 0.07
124 1 0.00
125 7 0.01
126 233 0.18
127 535 0.42
128 224 0.17
129 107 0.08
130 86 0.07
131 3 0.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.37
Consensus pattern (127 bp):
TTCAGTCTACCTGTCGGCTTTGACCTTAGAGACTGCCTCATCTCAAGTCTGCTTGTCGGCTTTGA
CCTTGGAGACTTCTTCACCCTTAAGTCTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC
Found at i:492135 original size:172 final size:168
Alignment explanation
Indices: 491849--492266 Score: 403
Period size: 172 Copynumber: 2.4 Consensus size: 168
491839 TGCTTGTTGA
* * * *
491849 CTTTGACCTTTGAGACTTTTTCACCTTCAGTTTACCTGTCGGCTTTGACCTTGGAGATTACCTCA
1 CTTTGACCTTTGAGACTTTTTCACCTTAAGTCTACCTGTCGGCTTTGACCCTAGAGATTACCTCA
* * ** * **
491914 TCTCAAGTCTGTCTGTCAGCTTTGACCTTAAGGACTTTCTTACCTTAAGTCTGCCTGTTGGCTTT
66 TCTCAAGTCTGTCTGTCAGCTTTAACCTGAAGGACTGCCTTACCTTAAGTCTGCCTATCAGCTTT
491979 GACCTTGGAGACTACCTCATCTCAAGCCAGCCTATCGG
131 GACCTTGGAGACTACCTCATCTCAAGCCAGCCTATCGG
*
492017 CTTTGACC-TTGAAGACTTCTTTTATCCTTAAGTCTACCTGTCGGCTTTGACCCTAGAGACTT-C
1 CTTTGACCTTTG-AGACTT-TTTCA-CCTTAAGTCTACCTGTCGGCTTTGACCCTAGAGA-TTAC
* * *
492080 CTTTATCCTTAAGTCTG-CTTGTCAGCTTTAACCCTGAA-GACTGCCTTATCTTAAGTCTGCCTA
62 C-TCAT-CTCAAGTCTGTC-TGTCAGCTTTAA-CCTGAAGGACTGCCTTACCTTAAGTCTGCCTA
* * * * * * * * *
492143 TCAGCTTTGACCTTGGAGACTTCTTCACCCTTAAGTCTGCTTGTCAG
123 TCAGCTTTGACCTTGGAGACTACCTCA-TCTCAAGCCAGCCTATCGG
* * * * * * * * * *
492190 CTTTGACCCTAGGGATTTCTTTCACCGTTTAGTCTACTTGTCGGCTTTGACCTTGGAGACTGCCT
1 CTTTGACCTTTGAGACTT-TTTCACC-TTAAGTCTACCTGTCGGCTTTGACCCTAGAGATTACCT
492255 CATCTCAAGTCT
64 CATCTCAAGTCT
492267 ACCTATCGGC
Statistics
Matches: 203, Mismatches: 35, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
167 3 0.01
168 14 0.07
169 4 0.02
170 32 0.16
171 14 0.07
172 70 0.34
173 64 0.32
174 2 0.01
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (168 bp):
CTTTGACCTTTGAGACTTTTTCACCTTAAGTCTACCTGTCGGCTTTGACCCTAGAGATTACCTCA
TCTCAAGTCTGTCTGTCAGCTTTAACCTGAAGGACTGCCTTACCTTAAGTCTGCCTATCAGCTTT
GACCTTGGAGACTACCTCATCTCAAGCCAGCCTATCGG
Found at i:492437 original size:83 final size:83
Alignment explanation
Indices: 492350--492604 Score: 207
Period size: 83 Copynumber: 3.1 Consensus size: 83
492340 TCGTCTCAAT
* *
492350 TCTGCCTGTCGGCTTAGACCCATAGACCTCTTCATCTTTTGTCTGCCCATCGACTTAGACCTCAG
1 TCTGCCTGTCGGCTTAGACCCATAGACCTCTTAATCTTTCGTCTGCCCATCGACTTAGACCTCAG
*
492415 AGACTTTTTTATCAATCG
66 AGACTTTTTCATCAATCG
* * * * * * *
492433 TCTGCCCGTCAGCTTAGACTC-TGATACCTCTTAATCTTTCATCTACCCATCGGCTTAGA-CTCG
1 TCTGCCTGTCGGCTTAGACCCAT-AGACCTCTTAATCTTTCGTCTGCCCATCGACTTAGACCTC-
* * * * *
492496 GGAGA-TTTCTGATTAATCA
64 AGAGACTTTTTCATCAATCG
* * * * * * * *
492515 TCT-ACTCGTCGGCTTAGACCCAAGAGACTTTTTTATCTTTCGTCTGCCTATCGTCTCAGACCT-
1 TCTGCCT-GTCGGCTTAGACCC-ATAGACCTCTTAATCTTTCGTCTGCCCATCGACTTAGACCTC
492578 AGGAGACTTTTTCATGC-ATCG
64 A-GAGACTTTTTCAT-CAATCG
492599 TCTGCC
1 TCTGCC
492605 GTCAGCTCAA
Statistics
Matches: 128, Mismatches: 34, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
81 1 0.01
82 29 0.23
83 83 0.65
84 14 0.11
85 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (83 bp):
TCTGCCTGTCGGCTTAGACCCATAGACCTCTTAATCTTTCGTCTGCCCATCGACTTAGACCTCAG
AGACTTTTTCATCAATCG
Found at i:492668 original size:42 final size:42
Alignment explanation
Indices: 492361--493222 Score: 262
Period size: 42 Copynumber: 20.6 Consensus size: 42
492351 CTGCCTGTCG
* * * *
492361 GCTTAGACCC-ATAGACCTCTTCATCTTTTGTCTGCCCATC-
1 GCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTACCCATCA
* * ** * *
492401 GACTTAGACCTC-AGAGACTTTTTTATCAATCGTCTGCCCGTCA
1 G-CTTAGACC-CGAGAGACTTCTTCATCTTTCGTCTACCCATCA
* * * * * * *
492444 GCTTAGACTC-TGATACCTCTTAATCTTTCATCTACCCATCG
1 GCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTACCCATCA
* * * * * * * * *
492485 GCTTAGACTCGGGAGATTTC-TGAT-TAATCATCTACTCGTCG
1 GCTTAGACCCGAGAGACTTCTTCATCT-TTCGTCTACCCATCA
* * * * *
492526 GCTTAGACCCAAGAGACTTTTTTATCTTTCGTCTGCCTATC-
1 GCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTACCCATCA
* * * * * *
492567 GTCTCAGA-CCTAGGAGACTTTTTCATGC-ATCGTCT-GCCGTCA
1 G-CTTAGACCCGA-GAGACTTCTTCAT-CTTTCGTCTACCCATCA
* ** * * * * *
492609 GCTCA-ATCTTGGGAGACTTCCTCATCTTTCGTCAACCTATTA
1 GCTTAGA-CCCGAGAGACTTCTTCATCTTTCGTCTACCCATCA
* * *
492651 GCTTAGACCCGAGAGACTTCTTCATTTTTCGTCTACTCATTA
1 GCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTACCCATCA
* * * * *
492693 GCTTAGACCCGGGAGACTTCCTCATCTTTCATCTGCCCGTCA
1 GCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTACCCATCA
* **
492735 GCTTAGA-CCTAGGAGACTTCTTCATCCATCGTCTACCCATCA
1 GCTTAGACCCGA-GAGACTTCTTCATCTTTCGTCTACCCATCA
* * * * *
492777 GCTTAGACCCAAGAGACTTCTTTATCTTTCATCTGCCCGTC-
1 GCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTACCCATCA
* * * * **
492818 GACTTAGACTC-AGAAGACTTCCTT-ATCTTTTGTCTGCCTATTG
1 G-CTTAGACCCGAG-AGACTT-CTTCATCTTTCGTCTACCCATCA
* * ** * * **
492861 GCTTAGACCCAAGAGATTTCTTCATCCATCGTCTGCCCGTTG
1 GCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTACCCATCA
** * * * *
492903 GCTTAGACTTG-GAGACTTCCTCATCTTTTGTCTGCCCGTCA
1 GCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTACCCATCA
** * * * ** *
492944 ATTTAGACTCGGGAGACTTCTGT-ATCTTTTC-TCTGCCTGTCG
1 GCTTAGACCCGAGAGACTTCT-TCATC-TTTCGTCTACCCATCA
* * * *
492986 GCTTATACTCGAGAGACTTCCTT-ATCTTTTC-TCTGCCCGTCA
1 GCTTAGACCCGAGAGACTT-CTTCATC-TTTCGTCTACCCATCA
* ** ** * *
493028 ACTTAGACTTGAGAGACTT-TCTCATCTTTATTCTGCCCATCC
1 GCTTAGACCCGAGAGACTTCT-TCATCTTTCGTCTACCCATCA
* * * * *
493070 GTTTAGACTCGAGAGAGTTCTTCATCTGTT-GTTTGCCCATC-
1 GCTTAGACCCGAGAGACTTCTTCATCT-TTCGTCTACCCATCA
* ** * ** * * **
493111 GATTTAGACCTAAGAGACTTCCTCATCCATCTTCTACCCGTTG
1 G-CTTAGACCCGAGAGACTTCTTCATCTTTCGTCTACCCATCA
* ** * * *
493154 GCTTAGACCCAAGAGAC-TCTTTCATCCATCATCTGCCCATCG
1 GCTTAGACCCGAGAGACTTC-TTCATCTTTCGTCTACCCATCA
*
493196 GCTTA-ATCCCAAGAGACTTTCTTCATC
1 GCTTAGA-CCCGAGAGAC-TTCTTCATC
493223 AATTGTCTGC
Statistics
Matches: 624, Mismatches: 158, Indels: 77
0.73 0.18 0.09
Matches are distributed among these distances:
40 5 0.01
41 144 0.23
42 444 0.71
43 29 0.05
44 2 0.00
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (42 bp):
GCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTACCCATCA
Found at i:492738 original size:84 final size:85
Alignment explanation
Indices: 492621--493137 Score: 355
Period size: 84 Copynumber: 6.2 Consensus size: 85
492611 TCAATCTTGG
* ** ** * *
492621 GAGACTTCCTCATCTTTCGTCAACCTATTAGCTTAGACCCGAGAGACTTCTTCAT-TTTTCGTCT
1 GAGACTTCCTCATCTTTCATCTGCCCGTCAGCTTAGACTCGAGAGACTTCTTCATCTTTTCGTCT
* * * *
492685 ACTCATTAGCTTAGACCCGG
66 GCCCATCAGCTTAGACCCGA
* **
492705 GAGACTTCCTCATCTTTCATCTGCCCGTCAGCTTAGAC-CTAGGAGACTTCTTCATC-CATCGTC
1 GAGACTTCCTCATCTTTCATCTGCCCGTCAGCTTAGACTCGA-GAGACTTCTTCATCTTTTCGTC
* *
492768 TACCCATCAGCTTAGACCCAA
65 TGCCCATCAGCTTAGACCCGA
* *
492789 GAGACTTCTTTATCTTTCATCTGCCCGTC-GACTTAGACTC-AGAAGACTTCCTT-ATCTTTT-G
1 GAGACTTCCTCATCTTTCATCTGCCCGTCAG-CTTAGACTCGAG-AGACTT-CTTCATCTTTTCG
* ** *
492850 TCTGCCTATTGGCTTAGACCCAA
63 TCTGCCCATCAGCTTAGACCCGA
* * ** * ** * *
492873 GAGATTTCTTCATCCATCGTCTGCCCGTTGGCTTAGACTTG-GAGACTTCCTCATCTTTT-GTCT
1 GAGACTTCCTCATCTTTCATCTGCCCGTCAGCTTAGACTCGAGAGACTTCTTCATCTTTTCGTCT
* ** * *
492936 GCCCGTCAATTTAGACTCGG
66 GCCCATCAGCTTAGACCCGA
* * * *
492956 GAGACTT-CTGTATCTTTTC-TCTGCCTGTCGGCTTATACTCGAGAGACTTCCTT-ATCTTTTC-
1 GAGACTTCCT-CATC-TTTCATCTGCCCGTCAGCTTAGACTCGAGAGACTT-CTTCATCTTTTCG
* * **
493017 TCTGCCCGTCAACTTAGACTTGA
63 TCTGCCCATCAGCTTAGACCCGA
* * * * * * *
493040 GAGACTTTCTCATCTTT-ATTCTGCCCATCCGTTTAGACTCGAGAGAGTTCTTCATCTGTT-GTT
1 GAGACTTCCTCATCTTTCA-TCTGCCCGTCAGCTTAGACTCGAGAGACTTCTTCATCTTTTCGTC
* **
493103 TGCCCATC-GATTTAGACCTAA
65 TGCCCATCAG-CTTAGACCCGA
493124 GAGACTTCCTCATC
1 GAGACTTCCTCATC
493138 CATCTTCTAC
Statistics
Matches: 346, Mismatches: 66, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
82 3 0.01
83 65 0.19
84 268 0.77
85 10 0.03
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (85 bp):
GAGACTTCCTCATCTTTCATCTGCCCGTCAGCTTAGACTCGAGAGACTTCTTCATCTTTTCGTCT
GCCCATCAGCTTAGACCCGA
Found at i:492824 original size:126 final size:126
Alignment explanation
Indices: 492526--493244 Score: 367
Period size: 126 Copynumber: 5.7 Consensus size: 126
492516 CTACTCGTCG
* * * * * * **
492526 GCTTAGACCCAAGAGACTTTTTTATCTTTCGTCTGCCTATCGTCTCAGACCTAGGAGACTTTTTC
1 GCTTAGACCCAAGAGACTTCTTCATCTTTCGTCTGCCCATCGACTTAGACCCAGGAGACTTCCTC
* * * * * ** * *
492591 ATGC-ATCGTCTG-CCGTCAGCTCA-ATCTTGGGAGACTTCCTCATCTTTCGTCAACCTATTA
66 AT-CTTTCGTCTGCCCGTCAGCTTAGA-CCTAGGAGACTTCTTCATCCATCGTCTACCCATTA
* * * * * *
492651 GCTTAGACCCGAGAGACTTCTTCATTTTTCGTCTACTCAT-TAGCTTAGACCCGGGAGACTTCCT
1 GCTTAGACCCAAGAGACTTCTTCATCTTTCGTCTGCCCATCGA-CTTAGACCCAGGAGACTTCCT
* *
492715 CATCTTTCATCTGCCCGTCAGCTTAGACCTAGGAGACTTCTTCATCCATCGTCTACCCATCA
65 CATCTTTCGTCTGCCCGTCAGCTTAGACCTAGGAGACTTCTTCATCCATCGTCTACCCATTA
* * * * * *
492777 GCTTAGACCCAAGAGACTTCTTTATCTTTCATCTGCCCGTCGACTTAGACTCAGAAGACTTCCTT
1 GCTTAGACCCAAGAGACTTCTTCATCTTTCGTCTGCCCATCGACTTAGACCCAGGAGACTTCCTC
* ** ** * * * * * *
492842 ATCTTTTGTCTGCCTATTGGCTTAGACCCAAGAGATTTCTTCATCCATCGTCTGCCCGTTG
66 ATCTTTCGTCTGCCCGTCAGCTTAGACCTAGGAGACTTCTTCATCCATCGTCTACCCATTA
*** * * * * * * *
492903 GCTTAGA-CTTGGAGACTTCCTCATCTTTTGTCTGCCCGTCAATTTAGACTCGGGAGACTT-CTG
1 GCTTAGACCCAAGAGACTTCTTCATCTTTCGTCTGCCCATCGACTTAGACCCAGGAGACTTCCT-
* * * * * ** * * *
492966 TATCTTTTC-TCTGCCTGTCGGCTTATA-CTCGAGAGACTTCCTT-ATCTTTTC-TCTGCCCGTC
65 CATC-TTTCGTCTGCCCGTCAGCTTAGACCTAG-GAGACTT-CTTCATC-CATCGTCTACCCATT
493027 A
126 A
* *** ** * * *
493028 ACTTAGACTTGAGAGACTT-TCTCATCTTTATTCTGCCCATCCG-TTTAGACTC-GAGAGAGTTC
1 GCTTAGACCCAAGAGACTTCT-TCATCTTTCGTCTGCCCAT-CGACTTAGACCCAG-GAGACTTC
* * * * * * * *
493090 TTCATCTGTT-GTTTGCCCATC-GATTTAGACCTAAGAGACTTCCTCATCCATCTTCTACCCGTT
63 CTCATCT-TTCGTCTGCCCGTCAG-CTTAGACCTAGGAGACTTCTTCATCCATCGTCTACCCATT
*
493153 G
126 A
** * * *
493154 GCTTAGACCCAAGAGAC-TCTTTCATCCATCATCTGCCCATCGGCTTA-ATCCCAAGAGACTTTC
1 GCTTAGACCCAAGAGACTTC-TTCATCTTTCGTCTGCCCATCGACTTAGA-CCCAGGAGAC-TTC
* * *
493217 TTCATCAATT-GTCTGCCCGTCGGCTTAG
63 CTCATC-TTTCGTCTGCCCGTCAGCTTAG
493245 GCCCAAAAAA
Statistics
Matches: 451, Mismatches: 114, Indels: 56
0.73 0.18 0.09
Matches are distributed among these distances:
124 4 0.01
125 154 0.34
126 261 0.58
127 31 0.07
128 1 0.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.35
Consensus pattern (126 bp):
GCTTAGACCCAAGAGACTTCTTCATCTTTCGTCTGCCCATCGACTTAGACCCAGGAGACTTCCTC
ATCTTTCGTCTGCCCGTCAGCTTAGACCTAGGAGACTTCTTCATCCATCGTCTACCCATTA
Found at i:493568 original size:85 final size:84
Alignment explanation
Indices: 493468--493795 Score: 320
Period size: 85 Copynumber: 3.9 Consensus size: 84
493458 CAGTCAACCT
* * * * * * * *
493468 TTTTTACCTTGGTGACCTGTGAGCTTTTTTCTTGGTCAATCATTCTTACCTTTTATTTACCTGTC
1 TTTTTACCTTGGTGACCTATCAGCTTTTTCCTCGGTCAACCTTTCTTACCTTTTGTTTACCTGTT
493533 GACTATGTCCCCGGTAAAC
66 GACTATGTCCCCGGTAAAC
* * * * *
493552 TTTTTACCCTTGGTGACTTATCAGCTTTGTCCCCGGTCAGCCTTTCTTACCTTTTGTTTACTTGT
1 TTTTTA-CCTTGGTGACCTATCAGCTTTTTCCTCGGTCAACCTTTCTTACCTTTTGTTTACCTGT
* *
493617 TGGCTATG-CCCCTAGTAAAC
65 TGACTATGTCCCC-GGTAAAC
* * *
493637 TTCTTATTCCTTGGTGACCTATCAGC-TTTTCCTCGGTCAACCTTTCTTACCCTTTGTTTACCTA
1 TT-TT-TACCTTGGTGACCTATCAGCTTTTTCCTCGGTCAACCTTTCTTACCTTTTGTTTACCTG
493701 TTGACTATGTCCCCGGTAAAC
64 TTGACTATGTCCCCGGTAAAC
* * * * * * * *
493722 TTCTTCT-CTATTGGTGAACTATCACCTTTGTCCTCGATCAGCCTTTTTTACCCTTTGTTTACCT
1 TT-TT-TAC-CTTGGTGACCTATCAGCTTTTTCCTCGGTCAACCTTTCTTACCTTTTGTTTACCT
* *
493786 ATTGGCTATG
63 GTTGACTATG
493796 CCCTCGCTAA
Statistics
Matches: 203, Mismatches: 34, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
84 11 0.05
85 126 0.62
86 65 0.32
87 1 0.00
ACGTcount: A:0.16, C:0.27, G:0.15, T:0.43
Consensus pattern (84 bp):
TTTTTACCTTGGTGACCTATCAGCTTTTTCCTCGGTCAACCTTTCTTACCTTTTGTTTACCTGTT
GACTATGTCCCCGGTAAAC
Found at i:493700 original size:43 final size:43
Alignment explanation
Indices: 493653--493787 Score: 98
Period size: 42 Copynumber: 3.1 Consensus size: 43
493643 TTCCTTGGTG
493653 ACCTATCAGCTTTTCCTCGGTCAACCTTTCTTACCCTTTGTTT
1 ACCTATCAGCTTTTCCTCGGTCAACCTTTCTTACCCTTTGTTT
* * * * * * *
493696 ACCTAT-TGACTATGTCCCCGGT-AAAC-TTCTT-CTCTATTGGTG
1 ACCTATCAG-CT-TTTCCTCGGTCAACCTTTCTTACCCT-TTGTTT
* * * * *
493738 AACTATCACCTTTGTCCTCGATCAGCCTTTTTTACCCTTTGTTT
1 ACCTATCAGCTTT-TCCTCGGTCAACCTTTCTTACCCTTTGTTT
493782 ACCTAT
1 ACCTAT
493788 TGGCTATGCC
Statistics
Matches: 64, Mismatches: 20, Indels: 15
0.65 0.20 0.15
Matches are distributed among these distances:
41 4 0.06
42 23 0.36
43 13 0.20
44 21 0.33
45 3 0.05
ACGTcount: A:0.17, C:0.30, G:0.11, T:0.42
Consensus pattern (43 bp):
ACCTATCAGCTTTTCCTCGGTCAACCTTTCTTACCCTTTGTTT
Found at i:493765 original size:171 final size:171
Alignment explanation
Indices: 493474--493830 Score: 434
Period size: 171 Copynumber: 2.1 Consensus size: 171
493464 ACCTTTTTTA
* * * * * * *
493474 CCTTGGTGACCTGTGAGCTTTTTTCTTGGTCAATCATTCTTACCTTTTATTTACCTGTCGACTAT
1 CCTTGGTGACCTATCAGCTTTTTCCTCGGTCAACCATTCTTACCCTTTATTTACCTATCGACTAT
* * * *
493539 GTCCCCGGTAAACTTTTTACCCTTGGTGACTTATCAGCTTTGTCCCCGGTCAGCCTTTCTTACCT
66 GTCCCCGGTAAACTTTTTACCATTGGTGACTTATCACCTTTGTCCCCGATCAGCCTTTCTTACCC
* * *
493604 TTTGTTTACTTGTTGGCTATGCCCCTAG-TAAACTTCTTATT
131 TTTGTTTACCTATTGGCTATG-CCCTAGCTAAACTTCTTACT
* * *
493645 CCTTGGTGACCTATCAGC-TTTTCCTCGGTCAACCTTTCTTACCCTTTGTTTACCTATTGACTAT
1 CCTTGGTGACCTATCAGCTTTTTCCTCGGTCAACCATTCTTACCCTTTATTTACCTATCGACTAT
* * *
493709 GTCCCCGGTAAACTTCTTCT-CTATTGGTGAAC-TATCACCTTTGTCCTCGATCAGCCTTTTTTA
66 GTCCCCGGTAAACTT-TT-TACCATTGGTG-ACTTATCACCTTTGTCCCCGATCAGCCTTTCTTA
* *
493772 CCCTTTGTTTACCTATTGGCTATGCCCTCGCTAAATTTCTTACT
128 CCCTTTGTTTACCTATTGGCTATGCCCTAGCTAAACTTCTTACT
**
493816 CCTAAGTGACCTATC
1 CCTTGGTGACCTATC
493831 GGTTTTGTCT
Statistics
Matches: 158, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
170 58 0.37
171 97 0.61
172 3 0.02
ACGTcount: A:0.16, C:0.28, G:0.14, T:0.42
Consensus pattern (171 bp):
CCTTGGTGACCTATCAGCTTTTTCCTCGGTCAACCATTCTTACCCTTTATTTACCTATCGACTAT
GTCCCCGGTAAACTTTTTACCATTGGTGACTTATCACCTTTGTCCCCGATCAGCCTTTCTTACCC
TTTGTTTACCTATTGGCTATGCCCTAGCTAAACTTCTTACT
Found at i:493830 original size:86 final size:86
Alignment explanation
Indices: 493510--493839 Score: 323
Period size: 85 Copynumber: 3.9 Consensus size: 86
493500 TGGTCAATCA
* * * * * * * * *
493510 TTCTTACCTTTTATTTACCTGTCGACTATGTCCCC-GGTAAACTTTTTAC-CCTTGGTGACTTAT
1 TTCTTACCCTTTGTTTACCTATTGGCTATG-CCCCTCGTAAACTTCTTACTCCTAGGTGACCTAT
*
493573 CAGCTTTGTCCCCGGTCAGCCT
65 CAGCTTTGTCCTCGGTCAGCCT
* * * * * *
493595 TTCTTACCTTTTGTTTACTTGTTGGCTATGCCCCTAGTAAACTTCTTATTCCTTGGTGACCTATC
1 TTCTTACCCTTTGTTTACCTATTGGCTATGCCCCTCGTAAACTTCTTACTCCTAGGTGACCTATC
*
493660 AGCTTT-TCCTCGGTCAACCT
66 AGCTTTGTCCTCGGTCAGCCT
* * *
493680 TTCTTACCCTTTGTTTACCTATTGACTATGTCCCC-GGTAAACTTCTT-CT-CTATTGGTGAACT
1 TTCTTACCCTTTGTTTACCTATTGGCTATG-CCCCTCGTAAACTTCTTACTCCTA--GGTGACCT
* *
493742 ATCACCTTTGTCCTCGATCAGCCT
63 ATCAGCTTTGTCCTCGGTCAGCCT
* * *
493766 TTTTTACCCTTTGTTTACCTATTGGCTATG-CCCTCGCTAAATTTCTTACTCCTAAGTGACCTAT
1 TTCTTACCCTTTGTTTACCTATTGGCTATGCCCCTCG-TAAACTTCTTACTCCTAGGTGACCTAT
* *
493830 CGGTTTTGTC
65 CAGCTTTGTC
493840 TCCAAGTAAC
Statistics
Matches: 205, Mismatches: 30, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
83 2 0.01
84 8 0.04
85 102 0.50
86 88 0.43
87 2 0.01
88 3 0.01
ACGTcount: A:0.16, C:0.28, G:0.14, T:0.42
Consensus pattern (86 bp):
TTCTTACCCTTTGTTTACCTATTGGCTATGCCCCTCGTAAACTTCTTACTCCTAGGTGACCTATC
AGCTTTGTCCTCGGTCAGCCT
Found at i:494557 original size:21 final size:21
Alignment explanation
Indices: 494512--494559 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
494502 CAGCACCACT
***
494512 AGTAGCACCACAACCACCCGT
1 AGTAGCACCACAACCACCAAC
*
494533 AGTAGCACCACTACCACCAAC
1 AGTAGCACCACAACCACCAAC
494554 AGTAGC
1 AGTAGC
494560 TGAAGACAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.40, G:0.15, T:0.10
Consensus pattern (21 bp):
AGTAGCACCACAACCACCAAC
Found at i:494558 original size:24 final size:21
Alignment explanation
Indices: 494511--494550 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
494501 ACAGCACCAC
494511 TAGTAGCACCACAACCACCCG
1 TAGTAGCACCACAACCACCCG
*
494532 TAGTAGCACCACTACCACC
1 TAGTAGCACCACAACCACC
494551 AACAGTAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.42, G:0.12, T:0.12
Consensus pattern (21 bp):
TAGTAGCACCACAACCACCCG
Found at i:498259 original size:19 final size:21
Alignment explanation
Indices: 498216--498267 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
498206 TTCAATAATT
498216 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
*
498237 TGTATCGATACATA-AGT-AA
1 TGTATCGATACAAACAGTAAA
498256 TGTATCGATACA
1 TGTATCGATACA
498268 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:498338 original size:13 final size:13
Alignment explanation
Indices: 498320--498345 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
498310 ATTTGTAGAA
498320 TGTATCGATACAT
1 TGTATCGATACAT
498333 TGTATCGATACAT
1 TGTATCGATACAT
498346 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:500873 original size:52 final size:50
Alignment explanation
Indices: 500703--500877 Score: 208
Period size: 51 Copynumber: 3.4 Consensus size: 50
500693 GTTTCTCAAA
* * * * *
500703 TTTTCACAATCGGGGGTACTCCAACCCCGGTTTTAATTCTAAAACACTAAT
1 TTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-AAAACACCAAT
* * *
500754 TTTCCACAATCGGGGACACTCCAACTCCGATTTTATTTTCGAAACACCAA-
1 TTTTCACAATCGGGGATACTCCAACTCCGATTTTA-TTTCAAAACACCAAT
*
500804 TTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
1 TTTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTT-C-AAAACACCAAT
*
500857 TTTTCACAATCAGGGATACTC
1 TTTTCACAATCGGGGATACTC
500878 TAACCCCGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
50 7 0.07
51 67 0.64
52 26 0.25
53 5 0.05
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.31
Consensus pattern (50 bp):
TTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCAAAACACCAAT
Found at i:501023 original size:79 final size:79
Alignment explanation
Indices: 500855--501227 Score: 604
Period size: 79 Copynumber: 4.7 Consensus size: 79
500845 AAAAACACCA
* * * *
500855 ATTTTTCACAATCAGGGATACTCTAACCCCGTTATTTCCGAGGGGATACTCC-ACCCCGGCTTTA
1 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTA
*
500919 TTTCTAAAATATTG
66 TTCCTAAAATATTG
* * * *
500933 ATTTCTCACAATCGGGAATACTCCAACCCTGTTATTTTCGAGGGGATACTACAACCCCGGTTTTA
1 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTA
*
500998 TTTCTAAAATATTG
66 TTCCTAAAATATTG
501012 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTA
1 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTA
501077 TTCCTAAAATATTG
66 TTCCTAAAATATTG
* *
501091 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGTTTTA
1 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTA
501156 TTCCTAAAATATTG
66 TTCCTAAAATATTG
** *
501170 ATTTCTCACAATCGGGGATACTTGAACCCCGTTATTTTCGCGGGGATACTCCAACCCC
1 ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC
501228 ATTATTTTTT
Statistics
Matches: 275, Mismatches: 19, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
78 45 0.16
79 230 0.84
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (79 bp):
ATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTA
TTCCTAAAATATTG
Found at i:501225 original size:28 final size:28
Alignment explanation
Indices: 501182--501254 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
501172 TTCTCACAAT
** *
501182 CGGGGATACTTGAACCCCGTTATTTTCG
1 CGGGGATACTCCAACCCCATTATTTTCG
**
501210 CGGGGATACTCCAACCCCATTATTTTTT
1 CGGGGATACTCCAACCCCATTATTTTCG
*
501238 AGGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
501255 TGATTTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCATTATTTTCG
Found at i:501295 original size:79 final size:79
Alignment explanation
Indices: 501212--501361 Score: 212
Period size: 79 Copynumber: 1.9 Consensus size: 79
501202 TATTTTCGCG
*** *
501212 GGGATACTCCAACCCCATTATTTTTTAGGGGATACTCCAACC-CTGATTTTATTTTCAAAACACC
1 GGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAACCTC-GATTTTATTTCCAAAACACC
501276 AATTTTCTATCATTA
65 AATTTTCTATCATTA
** * *
501291 GGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCTCGATTTTATTTCCAGAACACCG
1 GGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCA
501356 ATTTTC
66 ATTTTC
501362 CATAATCAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 61 0.98
80 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (79 bp):
GGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCA
ATTTTCTATCATTA
Found at i:501297 original size:237 final size:238
Alignment explanation
Indices: 500765--501305 Score: 523
Period size: 237 Copynumber: 2.3 Consensus size: 238
500755 TTCCACAATC
* *
500765 GGGGACACTCCAACTCCGATTTTATTTTCGAAACACCAATTTTCTATAATCGGGGATACTCCAAC
1 GGGGATACTCCAAC-CCGATTTTATTTTC-AAACACCAATTTTCTATCAT-GGGGATACTCCAAC
* * * *
500830 TCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAGGGATACTCTAACCCCGTTATTTCCG
63 CCCGACTTTATTTCCAAAAACACCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCG
* *
500895 AGGGGATACTCCACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGAATACTCCAAC
128 AAGGGATACTCCACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGAATACTCCAAC
* *
500960 CCTGTTATTTTCGAGGGGATACTACAACCCCGGTTTTATTTCTAAAAT
193 CCCGTTATTTTCGAGGGGATACTACAACCCCGATTTTATTTCT--AAT
*** * * *** ** * **
501008 ATTGATTTCTCACAA-TCG--GGGATACTCCAAC-CCCGTTATT-T-TCGA-GGGGATACTCCAA
1 GGGGA-TACTC-CAACCCGATTTTATTTTCAAACACCAATT-TTCTATC-ATGGGGATACTCCAA
* * * *** * *
501066 CCCCGGCTTTA-TTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTC
62 CCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCC
* * **
501130 GAAGGGATACTCCAACCCCGGTTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTTGA
127 GAAGGGATACTCC-ACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGAATACTCCA
* *
501195 ACCCCGTTATTTTCGCGGGGATACTCCAACCCC-ATTATT-TTT-T-A-
191 ACCCCGTTATTTTCGAGGGGATACTACAACCCCGATT-TTATTTCTAAT
*
501239 GGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTCTATCATTAGGGATACTCCAAC
1 GGGGATACTCCAACCC-GATTTTATTTTC-AAACACCAATTTTCTATCA-TGGGGATACTCCAAC
501304 CC
63 CC
501306 TGTTATTTCC
Statistics
Matches: 231, Mismatches: 51, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
229 3 0.01
230 5 0.02
231 3 0.01
232 1 0.00
233 4 0.02
234 5 0.02
235 7 0.03
236 63 0.27
237 114 0.49
238 1 0.00
239 6 0.03
240 5 0.02
241 4 0.02
243 4 0.02
244 3 0.01
245 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (238 bp):
GGGGATACTCCAACCCGATTTTATTTTCAAACACCAATTTTCTATCATGGGGATACTCCAACCCC
GACTTTATTTCCAAAAACACCAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCGAAG
GGATACTCCACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGAATACTCCAACCCC
GTTATTTTCGAGGGGATACTACAACCCCGATTTTATTTCTAAT
Found at i:503777 original size:13 final size:13
Alignment explanation
Indices: 503759--503783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
503749 CATAAAATGT
503759 TGTATCGATACAA
1 TGTATCGATACAA
503772 TGTATCGATACA
1 TGTATCGATACA
503784 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:503795 original size:33 final size:33
Alignment explanation
Indices: 503739--503805 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
503729 TTCAACGATC
*
503739 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCAATACAA
*** *
503772 TGTATCGATACATATTTTTTTGTATCAATACAA
1 TGTATCGATACATAAAATGTTGTATCAATACAA
503805 T
1 T
503806 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCAATACAA
Found at i:503864 original size:13 final size:13
Alignment explanation
Indices: 503846--503870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
503836 ATTACTCAAA
503846 TGTATCGATACAT
1 TGTATCGATACAT
503859 TGTATCGATACA
1 TGTATCGATACA
503871 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:503972 original size:52 final size:52
Alignment explanation
Indices: 503879--504006 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
503869 CACTGATCTT
*
503879 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
503930 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
503982 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
504007 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:517698 original size:12 final size:11
Alignment explanation
Indices: 517677--517749 Score: 57
Period size: 12 Copynumber: 6.9 Consensus size: 11
517667 CATTCTCTTC
*
517677 TAAAAAAAAAA
1 TAAAACAAAAA
517688 TGAAAACAAAAA
1 T-AAAACAAAAA
*
517700 CAAAAACAAAAA
1 -TAAAACAAAAA
*
517712 TAAAAC-AACA
1 TAAAACAAAAA
517722 -AAAACAAAAA
1 TAAAACAAAAA
*
517732 -ACAA-AAAAA
1 TAAAACAAAAA
517741 -AAAACAAAA
1 TAAAACAAAA
517750 CAAAGAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
9 13 0.25
10 13 0.25
11 6 0.12
12 19 0.37
ACGTcount: A:0.84, C:0.11, G:0.01, T:0.04
Consensus pattern (11 bp):
TAAAACAAAAA
Found at i:517699 original size:6 final size:6
Alignment explanation
Indices: 517690--517753 Score: 76
Period size: 6 Copynumber: 10.3 Consensus size: 6
517680 AAAAAAAATG
* *
517690 AAAACA AAAACA AAAACA AAAATAA AACAACA AAAACAA AAAACA AAAAAA
1 AAAACA AAAACA AAAACA AAAA-CA AA-AACA AAAAC-A AAAACA AAAACA
517741 AAAAC- AAAACA AA
1 AAAACA AAAACA AA
517754 GAAAAAAGAG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 5 0.10
6 31 0.62
7 12 0.24
8 2 0.04
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (6 bp):
AAAACA
Found at i:517721 original size:20 final size:19
Alignment explanation
Indices: 517690--517749 Score: 86
Period size: 19 Copynumber: 3.1 Consensus size: 19
517680 AAAAAAAATG
517690 AAAACAAAAACAAAAACAA
1 AAAACAAAAACAAAAACAA
517709 AAATA-AAACAACAAAAACAA
1 AAA-ACAAA-AACAAAAACAA
*
517729 AAAACAAAAAAAAAAACAA
1 AAAACAAAAACAAAAACAA
517748 AA
1 AA
517750 CAAAGAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 19 0.51
20 18 0.49
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (19 bp):
AAAACAAAAACAAAAACAA
Found at i:517737 original size:33 final size:32
Alignment explanation
Indices: 517690--517752 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
517680 AAAAAAAATG
* *
517690 AAAACAAAAACAAAAACAAAAATAAAACAACA
1 AAAACAAAAACAAAAAAAAAAACAAAACAACA
517722 AAAACAAAAAACAAAAAAAAAAACAAAACAA
1 AAAAC-AAAAACAAAAAAAAAAACAAAACAA
517753 AGAAAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 5 0.18
33 23 0.82
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (32 bp):
AAAACAAAAACAAAAAAAAAAACAAAACAACA
Found at i:517820 original size:15 final size:15
Alignment explanation
Indices: 517800--517829 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
517790 GAAAACCCGA
517800 AAGGGCGGCTTGAGT
1 AAGGGCGGCTTGAGT
517815 AAGGGCGGCTTGAGT
1 AAGGGCGGCTTGAGT
517830 GCCCGAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.47, T:0.20
Consensus pattern (15 bp):
AAGGGCGGCTTGAGT
Found at i:519042 original size:110 final size:110
Alignment explanation
Indices: 518845--519270 Score: 455
Period size: 110 Copynumber: 3.7 Consensus size: 110
518835 CTCCTTTCAC
* * *
518845 CCTT-CAGTCCTCAAAGAGCAGGACACCTTTGAAAGCCCACACAAGTTGGCGGCACATTTCAGTC
1 CCTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* *
518909 TTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 CTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
518954 -CTTCCCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT-AG
1 CCTT-CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTTCAG
* * * * *
519017 TCCTCAAAAAGCAGGACTCCTTTTAAAGCCCACATAAGCTAGCGGCA
64 TCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
519064 CCTT-CAGTCCTCAAAGAGCAGAACACCTTCTCTTTTTAAAGCCCATACAAGTTGGTGGCACTTT
1 CCTTCCAGTCCTCAAAGAGCAGGACACCTT-TC-----AAAGCCCACACAAGTTGGTGGCACTTT
* *
519128 TCAGTCCTCAAAGAGTAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCA
60 TCAGTCCTCAAAGAGCAGGA--C--TCCTTTT--AAAGCCCACACAAGTTGGTGGCA
* * * *
519185 TCTTCCAGTCCTCAAAGGGTAGGACACCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTT
1 CCTTCCAGTCCTCAAAGAGCAGGACA-C----C-TTTCAAAGCCCACACAAGTTGGTGGCACTTT
*
519250 TCAGTCCTCAAAGAGCGGGAC
60 TCAGTCCTCAAAGAGCAGGAC
519271 ACACTTCTTT
Statistics
Matches: 262, Mismatches: 31, Indels: 37
0.79 0.09 0.11
Matches are distributed among these distances:
108 3 0.01
109 22 0.08
110 90 0.34
111 7 0.03
114 5 0.02
115 38 0.15
117 1 0.00
119 6 0.02
120 1 0.00
121 22 0.08
122 61 0.23
123 1 0.00
127 3 0.01
128 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (110 bp):
CCTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
CTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:519271 original size:61 final size:59
Alignment explanation
Indices: 518847--519280 Score: 402
Period size: 55 Copynumber: 7.5 Consensus size: 59
518837 CCTTTCACCC
* * *
518847 TTCAGTCCTCAAAGAGCAGGACA-C--C-TTTGAAAGCCCACACAAGTTGGCGGCACAT
1 TTCAGTCCTCAAAGAGCAGGACACCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* *
518902 TTCAGTCTTCAAAGAGCAGGAC-GC--CTTTT-AAAGCCCACACAAGTTGGTGGCACTT
1 TTCAGTCCTCAAAGAGCAGGACACCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
** * *
518957 CCCAGTCCTCAAAGAGTAGGAC-GC--C-TTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 TTCAGTCCTCAAAGAGCAGGACACCTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CTT
* * * * * * *
519013 TT-AGTCCTCAAAAAGCAGG--A-CTCCTTTT-AAAGCCCACATAAGCTAGCGGCAC-C
1 TTCAGTCCTCAAAGAGCAGGACACCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * *
519066 TTCAGTCCTCAAAGAGCAGAACACCTTCTCTTTTTAAAGCCCATACAAGTTGGTGGCACTT
1 TTCAGTCCTCAAAGAGCAGGACACC-T-TCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* ** *
519127 TTCAGTCCTCAAAGAGTAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCA-TCT
1 TTCAGTCCTCAAAGAGCAGGACACCTTC-TTTT-CAAAGCCCACACAAGTTGGTGGCACT-T
* * * *
519188 TCCAGTCCTCAAAGGGTAGGACACCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTT
1 TTCAGTCCTCAAAGAGCAGGACACC--TTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
*
519249 TTCAGTCCTCAAAGAGCGGGACACACTTCTTT
1 TTCAGTCCTCAAAGAGCAGGACAC-CTTCTTT
519281 CCCTTCTTTT
Statistics
Matches: 314, Mismatches: 42, Indels: 41
0.79 0.11 0.10
Matches are distributed among these distances:
53 3 0.01
54 19 0.06
55 126 0.40
56 10 0.03
57 1 0.00
58 1 0.00
59 7 0.02
60 31 0.10
61 107 0.34
62 6 0.02
63 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (59 bp):
TTCAGTCCTCAAAGAGCAGGACACCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
Found at i:522144 original size:12 final size:12
Alignment explanation
Indices: 522127--522168 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
522117 GATTTTTTTG
522127 ATTTTTTCCAAC
1 ATTTTTTCCAAC
*
522139 ATTTTTCCCAAC
1 ATTTTTTCCAAC
522151 ATTTTTTCCAAC
1 ATTTTTTCCAAC
522163 ATTTTT
1 ATTTTT
522169 GAATGAGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTTTTTCCAAC
Found at i:522595 original size:51 final size:51
Alignment explanation
Indices: 522538--522724 Score: 243
Period size: 51 Copynumber: 3.6 Consensus size: 51
522528 TTAAGTTTCT
* *
522538 CAATTTTTCATAATCGGGGGTACTCCAACCCCGATTTTATTTTGAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTGAAAACAC
* * * *
522589 TAATTTTCCACAATCGGGGACACTCCAACTCCGATTTTATTTTCG-AAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTT-GAAAACAC
* * **
522640 CAA-TTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTT-TGAAAACAC
522692 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
522725 TTAATAATTG
Statistics
Matches: 117, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
50 4 0.03
51 76 0.65
52 32 0.27
53 5 0.04
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTGAAAACAC
Found at i:522950 original size:79 final size:78
Alignment explanation
Indices: 522735--523014 Score: 465
Period size: 79 Copynumber: 3.6 Consensus size: 78
522725 TTAATAATTG
522735 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCC-ACCCCGGCTTTATTTCTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTG
522799 ATTTCTCACAATC
66 ATTTCTCACAATC
* *
522812 GGGAATACTCCAA-CCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATT
1 GGG-ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATT
522876 GATTTCTCACAATC
65 GATTTCTCACAATC
*
522890 GAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATT
1 G-GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATT
522955 GATTTCTCACAATC
65 GATTTCTCACAATC
* * *
522969 GGGGATACTCCAACCCCATTATTTTCGCGGGGATACTCCAACCCCG
1 -GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
523015 TTATTTTTTA
Statistics
Matches: 190, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
77 27 0.14
78 57 0.30
79 105 0.55
80 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (78 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTG
ATTTCTCACAATC
Found at i:523008 original size:28 final size:28
Alignment explanation
Indices: 522968--523040 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
522958 TTCTCACAAT
522968 CGGGGATACTCCAACCCCATTATTTTCG
1 CGGGGATACTCCAACCCCATTATTTTCG
* **
522996 CGGGGATACTCCAACCCCGTTATTTTTT
1 CGGGGATACTCCAACCCCATTATTTTCG
*
523024 AGGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
523041 TAATTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCATTATTTTCG
Found at i:523081 original size:79 final size:79
Alignment explanation
Indices: 522998--523173 Score: 214
Period size: 79 Copynumber: 2.2 Consensus size: 79
522988 TATTTTCGCG
***
522998 GGGATACTCCAACCCCGTTATTTTTTAGGGGATACTCCAACC-CTAATTTTATTTAC-AAAACAC
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTC-AATTTTATTT-CTAAAACAC
*
523061 CAA-TTTTCTATAATTA
64 CAATTTTTC-ATAATCA
* * * *
523077 GGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCTCAATTTTATTTCTAGAACATCG
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCAATTTTATTTCTAAAACACCA
523142 ATTTTTCATAATCA
66 ATTTTTCATAATCA
* *
523156 GGGGTACTCCAGCCCCGT
1 GGGATACTCCAACCCCGT
523174 CGTCATCTCT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 76 0.92
80 6 0.07
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCAATTTTATTTCTAAAACACCA
ATTTTTCATAATCA
Found at i:527525 original size:14 final size:15
Alignment explanation
Indices: 527506--527539 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
527496 TAGTTCGATA
*
527506 AATTTC-TTTTCAAG
1 AATTTCATTTTCAAC
527520 AATTTCATTTTCAAC
1 AATTTCATTTTCAAC
527535 AATTT
1 AATTT
527540 TTGATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (15 bp):
AATTTCATTTTCAAC
Found at i:527976 original size:3 final size:3
Alignment explanation
Indices: 527968--528011 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
527958 CGAGTCAACT
* * *
527968 TCA TCA TCA TCA TCA TCA TCA TTA TCG TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
528012 TTTGATGGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:529458 original size:165 final size:165
Alignment explanation
Indices: 528894--529482 Score: 717
Period size: 166 Copynumber: 3.6 Consensus size: 165
528884 AGAGGGGGTG
* * * * * * *
528894 ATTATTATTT-TTTCATATTAAAATAAGTTTTAAAAATTCATTCATTTTCATTCATTTTTCATTT
1 ATTATTATTTAATTCATATT-AAATCAGTTTTAAAAATTAATTCATTTTCA-TGAGTTTTGAATT
* * * * *
528958 TTTTC-TTGAAATTC-CTCTATTTTCAAAATATAGAGTTTTCTAATTCATAAATATTTTCGAAGG
64 TTTTCTTTGAAATTCTC-CTCTTTTCAAAATATGGAGTTTTCTACTCCATAAATATTTTCGAGGG
*
529021 GATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAAT
128 GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAAT
* * * *
529059 ATTATTATTTAATTCATATTAAATCAAATTTAAAAAATTCATACATTTTCATGAGTTTTGAATTT
1 ATTATTATTTAATTCATATTAAATC-AGTTTTAAAAATTAATTCATTTTCATGAGTTTTGAATTT
* * * *
529124 TTTCTTTGAAATTCTCTTATTTTCAAAATATGGAGTTTTCTACTCCATAAATATTTTTG-GGGAA
65 TTTCTTTGAAATTCTCCTCTTTTCAAAATATGGAGTTTTCTACTCCATAAATATTTTCGAGGG-G
*
529188 ATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAAT
129 ATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAAT
* * * * *
529225 ATTATTATTTAAGTCCTATTAAATCA-TTCTTCTAAAATTAATTTATTTTTATGAGTTTTGAA-T
1 ATTATTATTTAATTCATATTAAATCAGTT-TT-AAAAATTAATTCATTTTCATGAGTTTTGAATT
* *
529288 TTTTCTTTGAAATTCTCCTC-TTTCTGAAATATGGAGTTTTCTACTCCATAAATGTTTTCGAGGG
64 TTTTCTTTGAAATTCTCCTCTTTTC-AAAATATGGAGTTTTCTACTCCATAAATATTTTCGAGGG
*
529352 GATTTCTCTTGGTTTTTAATTTTT-AAATTCATCAAAT
128 GATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAAT
* * *
529389 ATTATTATATAATTCATATTAAATCAGTTTTGAAAAATTAATTTATTTTCATGAGTTTTTAATTT
1 ATTATTATTTAATTCATATTAAATCAGTTTT-AAAAATTAATTCATTTTCATGAGTTTTGAATTT
* *
529454 TTTCTTTGAAATTTTCCTGTTTTCGAAAA
65 TTTCTTTGAAATTCTCCTCTTTTC-AAAA
529483 ATTAAATTTT
Statistics
Matches: 367, Mismatches: 45, Indels: 23
0.84 0.10 0.05
Matches are distributed among these distances:
164 71 0.19
165 125 0.34
166 170 0.46
167 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (165 bp):
ATTATTATTTAATTCATATTAAATCAGTTTTAAAAATTAATTCATTTTCATGAGTTTTGAATTTT
TTCTTTGAAATTCTCCTCTTTTCAAAATATGGAGTTTTCTACTCCATAAATATTTTCGAGGGGAT
TTTTCTTGGTTTTTAATTTTTAAAATTCATCAAAT
Found at i:529578 original size:330 final size:330
Alignment explanation
Indices: 528983--529619 Score: 809
Period size: 330 Copynumber: 1.9 Consensus size: 330
528973 TCTATTTTCA
* *
528983 AAATATAGAGTTTTCTAATTCATAAATATTTTCGAAGGGATTTTTCTTGGTTTTTAATTTTTAAA
1 AAATATAGAGTTTTCTAATCCATAAATATTTTCGAAGGGATTTCTCTTGGTTTTTAATTTTTAAA
* *
529048 ATTCATAAAATATTATTATTTAATTCATATTAAATCAAATTTAAAAAATTCATACATTTTCATGA
66 ATTCATAAAATATTATTATATAATTCATATTAAATCAAATTTAAAAAATTAATACATTTTCATGA
* * *
529113 GTTTTGAATTTTTTCTTTGAAATTCTCTTATTTTCAAAATATGGAGTTTTCTACTCCATAAATAT
131 GTTTTGAATTTTTTCTTTGAAATTCTCCTATTTTCAAAATATGAAATTTTCTACTCCATAAATAT
* * ** * * * * *
529178 TTTTGGGGAAATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTAAGTCCTA
196 TTTTGGGG-AATTTTTCTCAATTTAAAATTGTTAAAATTCATCAAATATTATCATTGAACTCCCA
** *
529243 TTAAATCA-TTCTTCTAAAATT-AATTTATTTTTATGAGTTTTGAATTTTTCTTTGAAATTCTCC
260 TTAAATCAGTT-TTAAAAAATTCAATTTA-TTTTATGAATTTTGAATTTTTCTTTGAAATTCTCC
529306 TCTTTCTG
323 TCTTTCTG
* * * *
529314 AAATATGGAGTTTTCTACTCCATAAATGTTTTCGAGGGGATTTCTCTTGGTTTTTAATTTTT-AA
1 AAATATAGAGTTTTCTAATCCATAAATATTTTCGAAGGGATTTCTCTTGGTTTTTAATTTTTAAA
* ** * **
529378 ATTCATCAAATATTATTATATAATTCATATTAAATCAGTTTTGAAAAATTAATTTATTTTCATGA
66 ATTCATAAAATATTATTATATAATTCATATTAAATCAAATTTAAAAAATTAATACATTTTCATGA
* * * * * *
529443 GTTTTTAATTTTTTCTTTGAAATTTTCCTGTTTTCGAAAA-ATTAAATTTTTTATTCCATAAATG
131 GTTTTGAATTTTTTCTTTGAAATTCTCCTATTTTC-AAAATATGAAATTTTCTACTCCATAAAT-
* * * *
529507 TTTTTTGGTGG-ATTTTTCTCAATTTAAAATTGTTAGAATTTAT-ATAATATTGTCATTGAACTC
194 ATTTTTGG-GGAATTTTTCTCAATTTAAAATTGTTAAAATTCATCA-AATATTATCATTGAACTC
*
529570 CCATTAAATTAGTTTTAAAAAATTCAATTTATTTTATGAATTTTGAATTT
257 CCATTAAATCAGTTTTAAAAAATTCAATTTATTTTATGAATTTTGAATTT
529620 ATTTGTGTAA
Statistics
Matches: 260, Mismatches: 40, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
329 1 0.00
330 182 0.70
331 75 0.29
332 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (330 bp):
AAATATAGAGTTTTCTAATCCATAAATATTTTCGAAGGGATTTCTCTTGGTTTTTAATTTTTAAA
ATTCATAAAATATTATTATATAATTCATATTAAATCAAATTTAAAAAATTAATACATTTTCATGA
GTTTTGAATTTTTTCTTTGAAATTCTCCTATTTTCAAAATATGAAATTTTCTACTCCATAAATAT
TTTTGGGGAATTTTTCTCAATTTAAAATTGTTAAAATTCATCAAATATTATCATTGAACTCCCAT
TAAATCAGTTTTAAAAAATTCAATTTATTTTATGAATTTTGAATTTTTCTTTGAAATTCTCCTCT
TTCTG
Found at i:531467 original size:15 final size:16
Alignment explanation
Indices: 531447--531477 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
531437 AATGATTTTT
531447 TAATAATT-AAATAAA
1 TAATAATTGAAATAAA
531462 TAATAATTGAAATAAA
1 TAATAATTGAAATAAA
531478 ATCAATCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
TAATAATTGAAATAAA
Found at i:535773 original size:52 final size:52
Alignment explanation
Indices: 535687--535817 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 52
535677 TCTAGAAAGA
* * * *
535687 AAATGTATCGATACATTTTCCATTGTATCGATACACTCTGGGTTTTTAACCC
1 AAATGTATCGATACATTTTTCATTGTACCGATACACTCTAGATTTTTAACCC
* * * *
535739 AAATATATCGATACATTTTTCATTGTACCTATACATTCTAGATTTTTGACCC
1 AAATGTATCGATACATTTTTCATTGTACCGATACACTCTAGATTTTTAACCC
* * *
535791 AAACGTATCGATACATTCTTCAATGTA
1 AAATGTATCGATACATTTTTCATTGTA
535818 TCAATACATG
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.39
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTGTACCGATACACTCTAGATTTTTAACCC
Found at i:538175 original size:70 final size:70
Alignment explanation
Indices: 538015--538177 Score: 191
Period size: 70 Copynumber: 2.3 Consensus size: 70
538005 ATTCTTCCAA
* ** * * *
538015 GGGGATACTCCAAATTCATTTTTAAACTTGTCAAGATTTTAATCTTGTTTTTTCCTAAATTATCA
1 GGGGACACTCCAACCTCATTTTTAAACTTGTCAAGATTTAAATCTTATTTTTACCTAAATTATCA
538080 TCACC
66 TCACC
** * * * *
538085 GGGGATGCTCTAACCCCATTTTTAAACTTGTCAAGCTTTAAATTTTATTTTTACCTAAATTATCA
1 GGGGACACTCCAACCTCATTTTTAAACTTGTCAAGATTTAAATCTTATTTTTACCTAAATTATCA
*
538150 TCATC
66 TCACC
**
538155 TTGGACACTCCAACCTCATTTTT
1 GGGGACACTCCAACCTCATTTTT
538178 CAACCAAAAA
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
70 76 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.42
Consensus pattern (70 bp):
GGGGACACTCCAACCTCATTTTTAAACTTGTCAAGATTTAAATCTTATTTTTACCTAAATTATCA
TCACC
Found at i:539109 original size:20 final size:21
Alignment explanation
Indices: 539057--539129 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 21
539047 TTCTACAATT
*
539057 TGTATCGATACA-ATAGTAAA
1 TGTATTGATACATATAGTAAA
*
539077 TGTATTGATACATA-AGTGAA
1 TGTATTGATACATATAGTAAA
* * *
539097 TGTATTGATACATGTCGAAAA
1 TGTATTGATACATATAGTAAA
*
539118 TGTATCGATACA
1 TGTATTGATACA
539130 GGACTATTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.33
Consensus pattern (21 bp):
TGTATTGATACATATAGTAAA
Found at i:542301 original size:13 final size:13
Alignment explanation
Indices: 542283--542307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
542273 ATATTGCTTG
542283 GTATCGATACATT
1 GTATCGATACATT
542296 GTATCGATACAT
1 GTATCGATACAT
542308 GTTTTTTGTA
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):
GTATCGATACATT
Found at i:543990 original size:90 final size:90
Alignment explanation
Indices: 543837--544103 Score: 409
Period size: 90 Copynumber: 3.0 Consensus size: 90
543827 ATGAAACCTA
* * * *
543837 TGCCTCCGTAGCTAGGTTAGAAGCCATTAGAATACTTCTAGCTTTTGCATGTTTCTGTAACTTCA
1 TGCCTCTGTAGCTAGATTATAAGCCATTAGAATACTTCTAGCTTTTGCATGTTTCTATAACTTCA
543902 AGTTATTTCAAATGGATGTCAAAAG
66 AGTTATTTCAAATGGATGTCAAAAG
543927 TGCCTCTGTAGCTAGATTATAAGCCATTAGAATACTTCTAGCTTTTGCATGTTTCTATAACTTCA
1 TGCCTCTGTAGCTAGATTATAAGCCATTAGAATACTTCTAGCTTTTGCATGTTTCTATAACTTCA
* * *
543992 ATTTATTTCAAATAGATGTCAAAAA
66 AGTTATTTCAAATGGATGTCAAAAG
* * *
544017 TGCCTTTGTAGCTAGA-T-T-AG-AATTAGAATACTTCTAGC-TTTACATGTTTCTATAACTTCA
1 TGCCTCTGTAGCTAGATTATAAGCCATTAGAATACTTCTAGCTTTTGCATGTTTCTATAACTTCA
544077 AGTTATTTCAAATGGATGTCAAAAG
66 AGTTATTTCAAATGGATGTCAAAAG
544102 TG
1 TG
544104 TATTTTTAAA
Statistics
Matches: 164, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
85 45 0.27
86 17 0.10
87 2 0.01
88 1 0.01
89 1 0.01
90 98 0.60
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (90 bp):
TGCCTCTGTAGCTAGATTATAAGCCATTAGAATACTTCTAGCTTTTGCATGTTTCTATAACTTCA
AGTTATTTCAAATGGATGTCAAAAG
Found at i:546479 original size:19 final size:19
Alignment explanation
Indices: 546455--546522 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
546445 AATTCAACAG
546455 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
546474 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
546489 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
546506 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
546523 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:546493 original size:32 final size:32
Alignment explanation
Indices: 546457--546519 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
546447 TTCAACAGTT
*
546457 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
546489 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
546520 TAATTAGCTA
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:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:546494 original size:13 final size:13
Alignment explanation
Indices: 546476--546500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
546466 ACATAAGTTT
546476 TGTATCGATACAA
1 TGTATCGATACAA
546489 TGTATCGATACA
1 TGTATCGATACA
546501 TAAGTATTGT
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:546580 original size:13 final size:13
Alignment explanation
Indices: 546562--546587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
546552 CATTTTTCTG
546562 TGTATCGATACAT
1 TGTATCGATACAT
546575 TGTATCGATACAT
1 TGTATCGATACAT
546588 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:546584 original size:33 final size:33
Alignment explanation
Indices: 546542--546608 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
546532 GCCAAGGAAA
***
546542 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
546575 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
546608 T
1 T
546609 TGAAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:549002 original size:51 final size:51
Alignment explanation
Indices: 548944--549321 Score: 274
Period size: 51 Copynumber: 7.4 Consensus size: 51
548934 TCAATTCTCC
* *
548944 ACAATCGGGGATATTCCAACTCTGATTTTATTTTCAAAACACTAATTTTCT
1 ACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCT
* * * *
548995 ATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA-AATACCAATTTCTT
1 ACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTA--ATTTTC-T
* *** * * * *
549048 CACAATCGGGGATACTCCAACCCCG--GGGATATTC-CAACCCT-GTTATT-T
1 -ACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATT-TTCT
* * * * * * *
549096 CCGA--GGGGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTT-T
1 ACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCT
* * * * *
549144 CATAATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCC
1 -ACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACTAA-TTTTCT
* *
549197 ACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATCTTCT
1 ACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCT
* * * * *
549248 ATAATCGGGGATACTCCAACTCCAATTTTATTTCCATAAAATACCAA-TTTCTT
1 ACAATCGGGGATACTCCAACTCCGATTTTATTTTC--AAAACACTAATTTTC-T
549301 CACAATCGGGGATACTCCAAC
1 -ACAATCGGGGATACTCCAAC
549322 CCCATTAATC
Statistics
Matches: 252, Mismatches: 54, Indels: 39
0.73 0.16 0.11
Matches are distributed among these distances:
45 18 0.07
47 7 0.03
48 7 0.03
49 4 0.02
50 8 0.03
51 101 0.40
52 53 0.21
53 13 0.05
54 41 0.16
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
ACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCT
Found at i:549076 original size:17 final size:17
Alignment explanation
Indices: 549054--549087 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
549044 TCTTCACAAT
549054 CGGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
*
549071 CGGGGATATTCCAACCC
1 CGGGGATACTCCAACCC
549088 TGTTATTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.38, G:0.24, T:0.15
Consensus pattern (17 bp):
CGGGGATACTCCAACCC
Found at i:549339 original size:27 final size:28
Alignment explanation
Indices: 549305--549379 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
549295 TTTCTTCACA
549305 ATCGGGGATACTCCAACCCCATTA-ATC
1 ATCGGGGATACTCCAACCCCATTATATC
* *
549332 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCATTATATC
***
549360 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
549380 GGCTTTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTATATC
Found at i:549516 original size:78 final size:79
Alignment explanation
Indices: 549332--549536 Score: 270
Period size: 78 Copynumber: 2.6 Consensus size: 79
549322 CCCATTAATC
* *
549332 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTTCCAAAAT
* *
549397 ATTGATTTCTCATA
66 ATCGATTTCTCACA
* * * * *
549411 ATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTTCCAAAAT
549474 CATCGATTTCTCACA
66 -ATCGATTTCTCACA
* * * *
549489 ATCGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCC
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC
549537 ATTATTATCT
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
77 3 0.03
78 62 0.56
79 45 0.41
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTTCCAAAAT
ATCGATTTCTCACA
Found at i:559281 original size:79 final size:78
Alignment explanation
Indices: 558717--559290 Score: 504
Period size: 79 Copynumber: 7.3 Consensus size: 78
558707 ATTTTTGGTG
** * * *
558717 AAAATCGGGGTTGGAGTAT-CTCCTCAAAAATGGTGGGGTTAGAGAATCCTCGAAATGAAAAATT
1 AAAAT-GGGGTTGGAGTATCCT-CTCAAAAATAAT-GGGTTGGAGTATCCTCGAGATGAAAAATT
* ** * *
558781 TATTATTTTGGGAGTG
63 TAATATTTTGAAAATA
* * * * * * * *
558797 AAAACGTGGTTGGAGTATCCTTTCAGAAATTATGGGGTTGGAGTATTCTTGATGGTGAAAAA-TT
1 AAAATGGGGTTGGAGTATCCTCTCAAAAATAAT-GGGTTGGAGTATCCTCGA-GATGAAAAATTT
*
558861 GATATTTTGAAAATA
64 AATATTTTGAAAATA
* * * * * *** * * * *
558876 AAAATGGGGCTAGAGTTTCTTTTTGGAAATAACGAGGTTGGAGTATCCCCAAGATGAAAATTTTA
1 AAAATGGGGTTGGAGTATCCTCTCAAAAATAATG-GGTTGGAGTATCCTCGAGATGAAAAATTTA
558941 ATATTTTGAAAATA
65 ATATTTTGAAAATA
* * * * * * *
558955 AAAATGGGGTTAGAGTATCCCCTTAGAAATAATAAGGTTGGAGTAACCTCGAGATAAAAAATTTA
1 AAAATGGGGTTGGAGTATCCTCTCAAAAATAAT-GGGTTGGAGTATCCTCGAGATGAAAAATTTA
*
559020 ATATTTTGGAAATA
65 ATATTTTGAAAATA
** * * * * *
559034 AAAATGATGTTAGAGTATCCCCTTAAAAATAATAGGGTTGGAGTATCCTTGAGATGAAATATTTA
1 AAAATGGGGTTGGAGTATCCTCTCAAAAATAAT-GGGTTGGAGTATCCTCGAGATGAAAAATTTA
*
559099 ATATTTTGGAAATA
65 ATATTTTGAAAATA
* ** * * *
559113 AAAATGGGATTGGAGCCTCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGAGATGAAAAATTTA
1 AAAATGGGGTTGGAGTATCCTCTCAAAAATAAT-GGGTTGGAGTATCCTCGAGATGAAAAATTTA
* **
559178 ATGTTTCAAAAATA
65 ATATTTTGAAAATA
** *
559192 AAAACAGGGTTGGAGTATCCTCTCAAAAATAACGGGATTGGAGTATCCTCGAGATGAAAAATTTA
1 AAAATGGGGTTGGAGTATCCTCTCAAAAATAATGGG-TTGGAGTATCCTCGAGATGAAAAATTTA
*
559257 ATATTTCGAAAATA
65 ATATTTTGAAAATA
559271 AAAATGGGGTTGGAGTATCC
1 AAAATGGGGTTGGAGTATCC
559291 CCTCTTGATG
Statistics
Matches: 402, Mismatches: 86, Indels: 13
0.80 0.17 0.03
Matches are distributed among these distances:
78 11 0.03
79 378 0.94
80 13 0.03
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (78 bp):
AAAATGGGGTTGGAGTATCCTCTCAAAAATAATGGGTTGGAGTATCCTCGAGATGAAAAATTTAA
TATTTTGAAAATA
Found at i:561947 original size:33 final size:33
Alignment explanation
Indices: 561903--561965 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
561893 CACACCCAGA
*
561903 TGTATCGATACATATTGCTTGGTATCGATACAT
1 TGTATCAATACATATTGCTTGGTATCGATACAT
* * *
561936 TGTATCAATACATGTTGGTTTGTATCGATA
1 TGTATCAATACATATTGCTTGGTATCGATA
561966 GACCACAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (33 bp):
TGTATCAATACATATTGCTTGGTATCGATACAT
Found at i:562050 original size:20 final size:20
Alignment explanation
Indices: 562025--562062 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
562015 TTTTCACAAT
562025 TGAATTGTATCGATACATGG
1 TGAATTGTATCGATACATGG
562045 TGAATTGTATCGATACAT
1 TGAATTGTATCGATACAT
562063 TGAGCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (20 bp):
TGAATTGTATCGATACATGG
Found at i:562563 original size:35 final size:35
Alignment explanation
Indices: 562494--562628 Score: 188
Period size: 34 Copynumber: 3.9 Consensus size: 35
562484 CAAGTGATTG
**
562494 AGAGGTTCTATCTTATTCTTTGAAAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTTG-AAAAAGATAGGGA
562530 AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
562565 AGAGGTTCTATCTTAG-CTTGTG-AAAAGATAGGG-
1 AGAGGTTCTATCTTAGCCTT-TGAAAAAGATAGGGA
*
562598 AGAAGGTTCTATCTTAGCCTAT-AAAAAGATA
1 AG-AGGTTCTATCTTAGCCTTTGAAAAAGATA
562629 AGGTTGTAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 10
0.88 0.03 0.10
Matches are distributed among these distances:
33 2 0.02
34 37 0.40
35 33 0.36
36 20 0.22
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (35 bp):
AGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
Found at i:562609 original size:69 final size:69
Alignment explanation
Indices: 562494--562628 Score: 195
Period size: 69 Copynumber: 1.9 Consensus size: 69
562484 CAAGTGATTG
* *
562494 AGAGGTTCTATCTTATTCTTTGAAAAAAGATAGGGAAGAGGTTCTATCTTAGCCTTTGAAAAAGA
1 AGAGGTTCTATCTTATGCTTTG-AAAAAGATAGGGAAGAGGTTCTATCTTAGCCTAT-AAAAAGA
562559 TAGGGA
64 TAGGGA
562565 AGAGGTTCTATCTTA-GCTTGTG-AAAAGATAGGG-AGAAGGTTCTATCTTAGCCTATAAAAAGA
1 AGAGGTTCTATCTTATGCTT-TGAAAAAGATAGGGAAG-AGGTTCTATCTTAGCCTATAAAAAGA
562627 TA
64 TA
562629 AGGTTGTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
68 11 0.18
69 29 0.48
70 3 0.05
71 17 0.28
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (69 bp):
AGAGGTTCTATCTTATGCTTTGAAAAAGATAGGGAAGAGGTTCTATCTTAGCCTATAAAAAGATA
GGGA
Found at i:563035 original size:51 final size:52
Alignment explanation
Indices: 562980--563101 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 52
562970 TCAAACATTA
* **
562980 AAGAATGTATCGATACATTTAGGTAAAAAATCTAGTATATATCGAT-CAATG
1 AAGAATGTATCGATACATTTAGGTAAAAAATCCAAAATATATCGATACAATG
* * * *
563031 AAGAATGAATCGATACATTTTGGTCAAAAATCCAAAATGTATCGATACAATG
1 AAGAATGTATCGATACATTTAGGTAAAAAATCCAAAATATATCGATACAATG
*
563083 -AGAAATGTATCGATGCATT
1 AAG-AATGTATCGATACATT
563102 GCAAGCATGT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
51 41 0.68
52 19 0.32
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (52 bp):
AAGAATGTATCGATACATTTAGGTAAAAAATCCAAAATATATCGATACAATG
Found at i:563204 original size:21 final size:21
Alignment explanation
Indices: 563180--563235 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
563170 GACATGGTCC
563180 TGTATTGATACATTTCAAACA
1 TGTATTGATACATTTCAAACA
***
563201 TGTATTGATACA-TTCACTTA
1 TGTATTGATACATTTCAAACA
563221 TGTATTGATACATTT
1 TGTATTGATACATTT
563236 ACTGTTTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (21 bp):
TGTATTGATACATTTCAAACA
Found at i:563251 original size:21 final size:20
Alignment explanation
Indices: 563180--563253 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
563170 GACATGGTCC
***
563180 TGTATTGATACATTTCAAACA
1 TGTATTGATACA-TTCACTTA
563201 TGTATTGATACATTCACTTA
1 TGTATTGATACATTCACTTA
* *
563221 TGTATTGATACATTTACTGTT
1 TGTATTGATACATTCACT-TA
*
563242 TGTATCGATACA
1 TGTATTGATACA
563254 AATTGTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 22 0.48
21 24 0.52
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (20 bp):
TGTATTGATACATTCACTTA
Found at i:566731 original size:20 final size:22
Alignment explanation
Indices: 566706--566763 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
566696 TCAAAAACCC
566706 AGAATGTATTGATACAA-TG-G
1 AGAATGTATTGATACAATTGTG
* * *
566726 ATAATGTATCGACACAATTGTG
1 AGAATGTATTGATACAATTGTG
*
566748 AGCATGTATTGATACA
1 AGAATGTATTGATACA
566764 TTTACCTATG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
20 14 0.48
21 2 0.07
22 13 0.45
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (22 bp):
AGAATGTATTGATACAATTGTG
Found at i:566838 original size:20 final size:21
Alignment explanation
Indices: 566813--566863 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
566803 GGTGGTTTTA
566813 TATCGATACATTCACT-TATG
1 TATCGATACATTCACTATATG
* * *
566833 TATCGATATATTTACTATTTG
1 TATCGATACATTCACTATATG
566854 TATCGATACA
1 TATCGATACA
566864 AATTGTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (21 bp):
TATCGATACATTCACTATATG
Found at i:573202 original size:124 final size:124
Alignment explanation
Indices: 572982--573226 Score: 454
Period size: 124 Copynumber: 2.0 Consensus size: 124
572972 GACAAAACAG
*
572982 GGGAGGTATTTAGTGTTTTCGATATCCCCATTGGGTTAACTCGTACCACGGATGTTCAAACGCCC
1 GGGAGGTATTTAGTGTTTTCGATATCCCCATTGGGTTAACTCATACCACGGATGTTCAAACGCCC
*
573047 ATAATCGAGGGGAGGAGGTGACATGGGCATCATGAGTTCATTCCACAATCTTGGAGCAA
66 ATAACCGAGGGGAGGAGGTGACATGGGCATCATGAGTTCATTCCACAATCTTGGAGCAA
* *
573106 GGGAGGTATTTGGTGTTTTCGATATCCCTATTGGGTTAACTCATACCACGGATGTTCAAACGCCC
1 GGGAGGTATTTAGTGTTTTCGATATCCCCATTGGGTTAACTCATACCACGGATGTTCAAACGCCC
573171 ATAACCGAGGGGAGGAGGTGACATGGGCATCATGAGTTCATTCCACAATCTTGGAG
66 ATAACCGAGGGGAGGAGGTGACATGGGCATCATGAGTTCATTCCACAATCTTGGAG
573227 TAGATTGGAA
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 117 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (124 bp):
GGGAGGTATTTAGTGTTTTCGATATCCCCATTGGGTTAACTCATACCACGGATGTTCAAACGCCC
ATAACCGAGGGGAGGAGGTGACATGGGCATCATGAGTTCATTCCACAATCTTGGAGCAA
Found at i:574876 original size:51 final size:51
Alignment explanation
Indices: 574741--574901 Score: 198
Period size: 51 Copynumber: 3.2 Consensus size: 51
574731 ATTCATTGAG
* * * * * *
574741 AAATATATCGATACATTTGGGTTCAAACCCATAATGTATTGATATAATG-A
1 AAATGTATCAATACATCTGGGTTAAAACCCAGAATGTATCGATATAATGAA
* * *
574791 AATTATATCAATACATCTGGGTTAAAACCTAGAATGTATCGATATAATGAA
1 AAATGTATCAATACATCTGGGTTAAAACCCAGAATGTATCGATATAATGAA
* * *
574842 AAATGTATTAATATATCTGGGTTAAAACCCAGAATGTATCGATACAATGAA
1 AAATGTATCAATACATCTGGGTTAAAACCCAGAATGTATCGATATAATGAA
*
574893 GAATGTATC
1 AAATGTATC
574902 GATATAAATA
Statistics
Matches: 95, Mismatches: 15, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
50 42 0.44
51 53 0.56
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (51 bp):
AAATGTATCAATACATCTGGGTTAAAACCCAGAATGTATCGATATAATGAA
Found at i:575727 original size:48 final size:48
Alignment explanation
Indices: 575671--575767 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
575661 AATGCTTTCT
575671 AGTAGCCATGTATCGATATAATTCATAATGTATCAATACACTGATTTG
1 AGTAGCCATGTATCGATATAATTCATAATGTATCAATACACTGATTTG
575719 AGTAGCCATGTATCGATATAATTCATAATGTATCAATACACTGATTTG
1 AGTAGCCATGTATCGATATAATTCATAATGTATCAATACACTGATTTG
575767 A
1 A
575768 AATTATAGCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (48 bp):
AGTAGCCATGTATCGATATAATTCATAATGTATCAATACACTGATTTG
Found at i:575865 original size:33 final size:33
Alignment explanation
Indices: 575801--575872 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
575791 ACAATTATTG
* * *
575801 ATACATTGTATCGATACAATTCATCATGTATCA
1 ATACAATGTATCGATACAATTCACCACGTATCA
* *
575834 ATACAATGTATCGATAC-ATTGTACCACGTATCG
1 ATACAATGTATCGATACAATT-CACCACGTATCA
575867 ATACAA
1 ATACAA
575873 ATAGTGGTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (33 bp):
ATACAATGTATCGATACAATTCACCACGTATCA
Found at i:577704 original size:20 final size:20
Alignment explanation
Indices: 577681--577744 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
577671 ACACCCAAAT
577681 GTATCGATACAAATTGCTAA
1 GTATCGATACAAATTGCTAA
*
577701 GTATTGATAC--A-T--T--
1 GTATCGATACAAATTGCTAA
577714 GTATCGATACAAATTGCTAA
1 GTATCGATACAAATTGCTAA
577734 GTATCGATACA
1 GTATCGATACA
577745 CCATAAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 9 0.26
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
20 20 0.57
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (20 bp):
GTATCGATACAAATTGCTAA
Found at i:577722 original size:33 final size:33
Alignment explanation
Indices: 577680--577744 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
577670 CACACCCAAA
*
577680 TGTATCGATACAAATTGCTAAGTATTGATACAT
1 TGTATCGATACAAATTGCTAAGTATCGATACAT
577713 TGTATCGATACAAATTGCTAAGTATCGATACA
1 TGTATCGATACAAATTGCTAAGTATCGATACA
577745 CCATAAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAATTGCTAAGTATCGATACAT
Found at i:579133 original size:51 final size:50
Alignment explanation
Indices: 579021--579134 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 50
579011 CTCCAGAAAT
* *
579021 AACGGGGTTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGAAAATAA
1 AACGGGGTTGGAATATCCCTGATTGTGAGAAATTGGTATTTTGAAAATAA
*
579071 AACTGGAGTTGGAATATCTCC-GATTGTG-GAAAATTGGTATTTT-AGAAATAA
1 AAC-GGGGTTGGAATATC-CCTGATTGTGAG-AAATTGGTATTTTGA-AAATAA
579122 AATCGGGGTTGGA
1 AA-CGGGGTTGGA
579135 GCATCCCCTC
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
50 5 0.09
51 47 0.85
52 3 0.05
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (50 bp):
AACGGGGTTGGAATATCCCTGATTGTGAGAAATTGGTATTTTGAAAATAA
Found at i:579175 original size:130 final size:130
Alignment explanation
Indices: 578838--579300 Score: 592
Period size: 130 Copynumber: 3.6 Consensus size: 130
578828 AGAGTATCCT
* * * * *
578838 CGATTTTGGAAAATCGATGTTTTAGAAGTAAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACA
1 CGATTGTGGAAAATTGGTATTTTAGAAAT-AAAATCGGGGTTGGAGTATCCCCTCGAAAATAAC-
* * * *
578903 GGG-TTGGAGTATCCCTGATTAT-AGAAAATTGGTATTTTAAAAATAAAATCGGAGTTGGAGTAT
64 GGGATTGGAGTATCCCTGATTGTGAG-AAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAATAT
*
578966 CCC
128 CTC
* * *
578969 CGATTGTGAAAAATTGG-----T---AATAAAGTCGGGGTTGGAGTAT-CCCTCCAGAAATAACG
1 CGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGA-AAATAACG
*
579025 GGGTTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGAAAATAAAA-CTGGAGTTGGAATATC
65 GGATTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGAAAATAAAATC-GGAGTTGGAATATC
579089 TC
129 TC
* *
579091 CGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGCATCCCCTC-AGAAATAATG
1 CGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGA-AAATAACG
* * *
579155 GGATTGGTGTATCCCTGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGGAGTTGAAATATCT
65 GGATTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAATATCT
579220 C
130 C
* *
579221 TGATTGTGGAAAATTGGTATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACGG
1 CGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGG
579286 GATTGGAGTATCCCT
66 GATTGGAGTATCCCT
579301 ATGACATAAC
Statistics
Matches: 292, Mismatches: 25, Indels: 31
0.84 0.07 0.09
Matches are distributed among these distances:
121 10 0.03
122 94 0.32
123 4 0.01
126 1 0.00
127 1 0.00
130 162 0.55
131 20 0.07
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (130 bp):
CGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGG
GATTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAATATCTC
Found at i:579401 original size:28 final size:30
Alignment explanation
Indices: 579361--579437 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 30
579351 GATATAAAGC
*
579361 CGGGGTTAGAGTATCCCCTC-A-AAAATAA
1 CGGGGTTGGAGTATCCCCTCGATAAAATAA
* *
579389 CGGGGTTGGAGTAT--TCTCGATGAAATAA
1 CGGGGTTGGAGTATCCCCTCGATAAAATAA
579417 CGGGGTTGGAGTA-CCCC-CGAT
1 CGGGGTTGGAGTATCCCCTCGAT
579438 TATGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 36 0.88
29 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (30 bp):
CGGGGTTGGAGTATCCCCTCGATAAAATAA
Found at i:579494 original size:108 final size:107
Alignment explanation
Indices: 579239--579554 Score: 463
Period size: 108 Copynumber: 3.0 Consensus size: 107
579229 GAAAATTGGT
* ** * * * *
579239 ATTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTA-TCCCTAT
1 ATTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATTCCCGAT
* * *
579303 GACATAACGGGGTTGGAGTACCCCCGATTATGAAAAATCAAT
66 GAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAACAAC
* *
579345 ATTTTAGATATAAAGCCGGGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATTCTCGAT
1 ATTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATTCCCGAT
579410 GAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAACAAC
66 GAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAACAAC
* * *
579452 ATTTTTAGATATGAAGCTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGA
1 A-TTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATTCCCGA
**
579517 TGAAATAATAGGGTTGGAGTACCCCCGATTATGAAAAA
65 TGAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAA
579555 TTAGTGTTTT
Statistics
Matches: 189, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
106 50 0.26
107 45 0.24
108 94 0.50
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (107 bp):
ATTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATTCCCGAT
GAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAACAAC
Found at i:579522 original size:28 final size:28
Alignment explanation
Indices: 579470--579545 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
579460 ATATGAAGCT
*
579470 GGGGTTGGAGTATCCCCTCA-AAAATAAC
1 GGGGTTGGAGTATCCCC-GATAAAATAAC
* *
579498 GGGGTTGGAGTATCCCCGATGAAATAAT
1 GGGGTTGGAGTATCCCCGATAAAATAAC
* *
579526 AGGGTTGGAGTACCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
579546 TATGAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.98
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATAAAATAAC
Found at i:579594 original size:51 final size:51
Alignment explanation
Indices: 579529--579707 Score: 191
Period size: 51 Copynumber: 3.5 Consensus size: 51
579519 AAATAATAGG
* *
579529 GTTGGAGTACCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGGAAATAAAATCGGA
* ** ** * * *
579580 GTTTGAGTATCCCCGATTGCGGTAAATCAATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGGAAATAAAATCGGA
* * ** *
579631 GTTGGAGTATCCCCGATTAAGAAAAATTAACGTTTTGGAAATGGAACCGG-
1 GTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGGAAATAAAATCGGA
*
579681 GATTGGAGTATCCCCGA-GATGAAAAAT
1 G-TTGGAGTATCCCCGATTATGAAAAAT
579708 CTACAAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
50 9 0.09
51 94 0.91
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGGAAATAAAATCGGA
Found at i:582054 original size:13 final size:13
Alignment explanation
Indices: 582036--582063 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
582026 ACAATGAGCC
582036 ATGTATCGATACA
1 ATGTATCGATACA
582049 ATGTATCGATACA
1 ATGTATCGATACA
582062 AT
1 AT
582064 AAGCAAAGTA
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:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:582062 original size:33 final size:33
Alignment explanation
Indices: 582015--582084 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
582005 TACATTGTAA
* * * * *
582015 AATGTATTGGTACAATGAGCCATGTATCGATAC
1 AATGTATCGATACAATAAGCAAAGTATCGATAC
582048 AATGTATCGATACAATAAGCAAAGTATCGATAC
1 AATGTATCGATACAATAAGCAAAGTATCGATAC
582081 AATG
1 AATG
582085 CAAAATGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATAAGCAAAGTATCGATAC
Found at i:582094 original size:20 final size:20
Alignment explanation
Indices: 582048--582101 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
582038 GTATCGATAC
582048 AATGTATCGATACAATAAGCA
1 AATGTATCGATACAAT-AGCA
582069 AA-GTATCGATACAAT-GCAA
1 AATGTATCGATACAATAGC-A
*
582088 AATGTATGGATACA
1 AATGTATCGATACA
582102 TCTGGGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.07
19 3 0.10
20 23 0.77
21 2 0.07
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACAATAGCA
Found at i:582164 original size:13 final size:13
Alignment explanation
Indices: 582117--582146 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
582107 GTAAACCCAG
582117 AATGCATCGATAC
1 AATGCATCGATAC
*
582130 AATGTATCGATAC
1 AATGCATCGATAC
582143 AATG
1 AATG
582147 AACAATGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (13 bp):
AATGCATCGATAC
Found at i:582765 original size:40 final size:41
Alignment explanation
Indices: 582721--582820 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
582711 GTCCCACTTT
* * *
582721 TTGAGGACAAAGGAAAAGAG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAA-AGTGTCCTGCTCC
* *
582761 TTGAGGACAAAGGAAAAAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCCTGCTCC
582802 TTGAGGACAAAGTGAAAAA
1 TTGAGGACAAAG-GAAAAA
582821 GAGTACATCC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 21 0.40
41 25 0.48
42 6 0.12
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.18
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:582861 original size:42 final size:40
Alignment explanation
Indices: 582810--582940 Score: 118
Period size: 42 Copynumber: 3.1 Consensus size: 40
582800 TCTTGAGGAC
* * *
582810 AAAGTGAAAAAGAGTACATCCTGCTTTTCGAGGACAAAGGAAA
1 AAAG-GAAAAAGAGTGCGTCCTGCTTTT-GAGGACAAAAG-AA
* * *
582853 AAAGGAAAACGAAATGCGTCCTACTCTTTGAGGACAAAAGAA
1 AAAGGAAAAAG-AGTGCGTCCTGCT-TTTGAGGACAAAAGAA
* *
582895 AGAGGAAAATAAAGTGCGTCCTGCTTTTTGAGGACAAAAGAGA
1 AAAGGAAAA-AGAGTGCGTCCTGC-TTTTGAGGACAAAAGA-A
582938 AAA
1 AAA
582941 TAAGGGAATG
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
42 41 0.58
43 27 0.38
44 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (40 bp):
AAAGGAAAAAGAGTGCGTCCTGCTTTTGAGGACAAAAGAA
Found at i:582970 original size:45 final size:43
Alignment explanation
Indices: 582851--582979 Score: 129
Period size: 45 Copynumber: 3.0 Consensus size: 43
582841 GGACAAAGGA
*
582851 AAAAAGGAAAACGAAA-TGCGTCCTACTCTTTGAGGAC-AAAAG
1 AAAAAGGAAAA-TAAAGTGCGTCCTACTCTTTGAGGACAAAAAG
* * *
582893 AAAGAGGAAAATAAAGTGCGTCCTGCTTTTTGAGGACAAAAGAG
1 AAAAAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAA-AG
* * * *
582937 AAAATAAGG-GAATGAAGTGTGTCCTACTCTTTGAGGATAAAAA
1 -AAA-AAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAA
582980 AGTGCCACCA
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.04
42 29 0.41
43 3 0.04
44 3 0.04
45 30 0.42
46 3 0.04
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (43 bp):
AAAAAGGAAAATAAAGTGCGTCCTACTCTTTGAGGACAAAAAG
Found at i:583059 original size:61 final size:60
Alignment explanation
Indices: 582978--583214 Score: 286
Period size: 61 Copynumber: 4.0 Consensus size: 60
582968 TGAGGATAAA
*
582978 AAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAGAAAGGCATCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAAAGGCATCCTGCTCTTTGAGGACTGG
* * *
583039 AAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGACAAAGCATCCTGCTCTTTGAGGACTGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAGGCATCCTGCTCTTTGAGGACTGG
* * * * * * *
583100 AAAATGCCACCAACTTGCGTGGGCTTTGAAATGAAAAGGCATACTGTTCTTTAAGGACTAGA
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG-AAAGGCATCCTGCTCTTTGAGGACT-GG
* *
583162 AAAGTGCCACTAACTTGTATGGGCTTT----A-AAAGGCATCCTGCTCTTTGAGGACT
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGCATCCTGCTCTTTGAGGACT
583215 AAAGGGCAAA
Statistics
Matches: 151, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
56 22 0.15
60 5 0.03
61 99 0.66
62 25 0.17
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (60 bp):
AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGCATCCTGCTCTTTGAGGACTGG
Found at i:583309 original size:94 final size:94
Alignment explanation
Indices: 583147--583405 Score: 376
Period size: 94 Copynumber: 2.7 Consensus size: 94
583137 GGCATACTGT
* * * * *
583147 TCTTTAAGGACTAGAAAAGTGCCACTAACTTGTATGGGCTTTAAAAGGCATCCTGCTCTTTGAGG
1 TCTTTGAGGACTAG-GAAGTGCCACAAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTGAGG
583212 ACTAAAGGGCAAAAGGAGAGAGCGTCCTAC
65 ACTAAAGGGCAAAAGGAGAGAGCGTCCTAC
* *
583242 TCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGA
1 TCTTTGAGGACTAGGAAGTGCCACAAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTGAGGA
* * *
583307 CTAAAGGGCGAAAGGAGAGAGTGTCCTGC
66 CTAAAGGGCAAAAGGAGAGAGCGTCCTAC
* * *
583336 TCTTTGAGGACTGGGAAGTGCCACAAACTTATGTGGGCTTTAAAA-GTCATCCTGCTCTTTAAGG
1 TCTTTGAGGACTAGGAAGTGCCACAAACTTGTGTGGGCTTTAAAAGGT-ATCCTGCTCTTTGAGG
583400 ACTAAA
65 ACTAAA
583406 AAAAATGCCA
Statistics
Matches: 149, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
93 2 0.01
94 134 0.90
95 13 0.09
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (94 bp):
TCTTTGAGGACTAGGAAGTGCCACAAACTTGTGTGGGCTTTAAAAGGTATCCTGCTCTTTGAGGA
CTAAAGGGCAAAAGGAGAGAGCGTCCTAC
Found at i:583567 original size:116 final size:118
Alignment explanation
Indices: 583330--583610 Score: 364
Period size: 116 Copynumber: 2.4 Consensus size: 118
583320 GGAGAGAGTG
* * ** * *
583330 TCCTGCTCTTTGAGGACTGGGAAGTGCCACAAACTTATGTGGGCTTT------AAAAGTCATCCT
1 TCCTACTCTTTAAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCATCCT
*
583389 GCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
66 GCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * *
583442 TCCTGCTCTTTAAGGACTGGAAAA-TGCCACCAACTTGTGTGGG-TTTGAAAGGAAAAGGCATCT
1 TCCTACTCTTTAAGGACT-GAAAAGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCATCC
* * *
583505 TGCTCTTTCAGGACT-AGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
65 TGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
*
583558 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTGAAAGG
1 TCCTACTCTTTAAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTGAAAGG
583611 CGTCCTGGTC
Statistics
Matches: 146, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
111 3 0.02
112 34 0.23
113 3 0.02
115 5 0.03
116 69 0.47
117 32 0.22
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (118 bp):
TCCTACTCTTTAAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTGAAAGGAAAAGGCATCCT
GCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:583599 original size:55 final size:56
Alignment explanation
Indices: 583330--583631 Score: 351
Period size: 55 Copynumber: 5.3 Consensus size: 56
583320 GGAGAGAGTG
** * * * *
583330 TCCTGCTCTTTGAGGACT-GGGAAGTGCCACAAACTTATGTGGGCTTTAAAAGTCA
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * * *
583385 TCCTGCTCTTTAAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-AGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* *
583442 TCCTGCTCTTTAAGGACTGGAAAA-TGCCACCAACTTGTGTGGG-TTTGAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCA
* *
583502 TCTTGCTCTTTCAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * *
583558 TCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTATGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
*
583613 TCCTGGTCTTTGAGGACTA
1 TCCTGCTCTTTGAGGACTA
583632 AAGGGTCAAA
Statistics
Matches: 213, Mismatches: 23, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
54 3 0.01
55 87 0.41
56 26 0.12
57 47 0.22
59 1 0.00
60 27 0.13
61 19 0.09
62 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (56 bp):
TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:584739 original size:16 final size:16
Alignment explanation
Indices: 584706--584758 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
584696 AAGCAGGTTC
* * *
584706 TTTTCTTTGCTCTCTT
1 TTTTCTTTGTTTTGTT
584722 TTTTCTTTGTTTTGTT
1 TTTTCTTTGTTTTGTT
* *
584738 TTTTTTGTTTTTTTGTT
1 TTTTCT-TTGTTTTGTT
584755 TTTT
1 TTTT
584759 GGTTTTTCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.81
Consensus pattern (16 bp):
TTTTCTTTGTTTTGTT
Found at i:584748 original size:8 final size:8
Alignment explanation
Indices: 584720--584787 Score: 64
Period size: 8 Copynumber: 7.9 Consensus size: 8
584710 CTTTGCTCTC
*
584720 TTTTTTCT
1 TTTTTTGT
584728 TTGTTTTGTT
1 TT-TTTTG-T
584738 TTTTTTGT
1 TTTTTTGT
584746 TTTTTTGT
1 TTTTTTGT
*
584754 TTTTTGGT
1 TTTTTTGT
584762 TTTTCTTGTT
1 TTTT-TTG-T
*
584772 GTTTTTTAT
1 -TTTTTTGT
584781 TTTTTTG
1 TTTTTTG
584788 AAAAAGAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
8 28 0.56
9 12 0.24
10 6 0.12
11 4 0.08
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.82
Consensus pattern (8 bp):
TTTTTTGT
Found at i:584748 original size:25 final size:25
Alignment explanation
Indices: 584720--584777 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
584710 CTTTGCTCTC
* * *
584720 TTTTTTCTTTGTTTTGTTTTTTTTGT
1 TTTTTTGTTT-TTTGGTTTTTCTTGT
584746 TTTTTTGTTTTTTGGTTTTTCTTGT
1 TTTTTTGTTTTTTGGTTTTTCTTGT
584771 TGTTTTT
1 T-TTTTT
584778 TATTTTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (25 bp):
TTTTTTGTTTTTTGGTTTTTCTTGT
Found at i:584765 original size:17 final size:17
Alignment explanation
Indices: 584731--584787 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
584721 TTTTTCTTTG
*
584731 TTTTGTTTTTTTTGTTT
1 TTTTGTTTTTTGTGTTT
584748 TTTTGTTTTTTG-GTTT
1 TTTTGTTTTTTGTGTTT
* *
584764 TTCTTGTTGTTTTTTATTT
1 TT-TTGTT-TTTTGTGTTT
584783 TTTTG
1 TTTTG
584788 AAAAAGAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 6 0.18
17 16 0.47
18 7 0.21
19 5 0.15
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.82
Consensus pattern (17 bp):
TTTTGTTTTTTGTGTTT
Found at i:584783 original size:25 final size:24
Alignment explanation
Indices: 584731--584783 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
584721 TTTTTCTTTG
* *
584731 TTTTGTTTTTTTTGTTTTTTTGTT
1 TTTTGTTTTTCTTGTTTTTTTGTA
584755 TTTTGGTTTTTCTTGTTGTTTTT-TA
1 TTTT-GTTTTTCTTGTT-TTTTTGTA
584780 TTTT
1 TTTT
584784 TTTGAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.16
25 16 0.64
26 5 0.20
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.83
Consensus pattern (24 bp):
TTTTGTTTTTCTTGTTTTTTTGTA
Found at i:595082 original size:4 final size:4
Alignment explanation
Indices: 595073--595101 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
595063 AAAACAAAAC
595073 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
595102 CCTCAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:597504 original size:130 final size:130
Alignment explanation
Indices: 597167--597626 Score: 566
Period size: 130 Copynumber: 3.6 Consensus size: 130
597157 AGAGTATCCT
* * * * * * * *
597167 CGATTATGGAAAATCGGTGTTCTAGAAGTAAAAGTTGGGGTTGGAGTATCCCCTCGTAAATAACA
1 CGATTGTGGAAAATTGGTATTTTAGAAATAAAA-TCGAGGTTGGAGTATCCCCTCGAAAATAAC-
* * * *
597232 GGG-TTGGAGTATCCCTGATTAT-AGAAAATCGGTATTTTGAAAATAAAATCGGAGTTGGAGTAT
64 GGGATTGGAGTATCCCTGATTGTGAG-AAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAATAT
*
597295 CCC
128 CTC
* *
597298 CGATTGTGGAAAATTGG-----T---AATAAAGTC-AGGGTTGGAGTATCCCCCCAGAAAA-AAC
1 CGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGA-GGTTGGAGTATCCCCTC-GAAAATAAC
*
597353 GGGGTTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAATATC
64 GGGATTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAATATC
*
597418 TT
129 TC
* *
597420 CAACTGTGGAAAATTGGTATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGG
1 CGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGG
* * *
597485 GATTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAACCGGAGTTGGAATATCTC
66 GATTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAATATCTC
* * *
597550 CGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATTCCCTCGAAAATAATGG
1 CGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGG
597615 GATTGGAGTATC
66 GATTGGAGTATC
597627 TCCAATGACA
Statistics
Matches: 287, Mismatches: 28, Indels: 29
0.83 0.08 0.08
Matches are distributed among these distances:
121 3 0.01
122 89 0.31
123 11 0.04
126 1 0.00
127 1 0.00
129 5 0.02
130 161 0.56
131 16 0.06
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (130 bp):
CGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGG
GATTGGAGTATCCCTGATTGTGAGAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAATATCTC
Found at i:597553 original size:51 final size:51
Alignment explanation
Indices: 597487--597593 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
597477 AATAACGGGA
* * *
597487 TTGGAGTATCCCCGATTGT-GAGAAATTGGTGTTTTGGAAATAAAACCGGAG
1 TTGGAATATCCCCGATTGTGGA-AAATTGGTATTTTAGAAATAAAACCGGAG
* * *
597538 TTGGAATATCTCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCGGGG
1 TTGGAATATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAACCGGAG
597589 TTGGA
1 TTGGA
597594 GTATTCCCTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
51 47 0.96
52 2 0.04
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (51 bp):
TTGGAATATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAACCGGAG
Found at i:597755 original size:28 final size:29
Alignment explanation
Indices: 597692--597766 Score: 102
Period size: 27 Copynumber: 2.7 Consensus size: 29
597682 ATATAAAGTT
*
597692 GGGGTTGGAGTATCCCC-TTGAAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAAATAAC
*
597720 GTGG-TGGAGTATCCCCGATG-AAATAAC
1 GGGGTTGGAGTATCCCCGATGAAAATAAC
*
597747 GGGGTTGGAGTACCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
597767 TATGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (29 bp):
GGGGTTGGAGTATCCCCGATGAAAATAAC
Found at i:597773 original size:106 final size:105
Alignment explanation
Indices: 597567--597829 Score: 332
Period size: 107 Copynumber: 2.5 Consensus size: 105
597557 GGAAAATTGG
* * * * *
597567 TATTTTAGAAATAAAATCGGGGTTGGAGTATTCCCTCGAAAATAATGGGATTGGAGTATCTCCAA
1 TATTTTAGATATAAAGTCGGGGTTGGAGTA-TCCCTTGAAAATAACGGGA-TGGAGTATCCCCAA
* * * *
597632 TGACATAATGGGGTTGGAGTACCCTCGATTATGAAAAATCAA
64 TGAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAACAA
* *
597674 TATTTTAGATATAAAGTTGGGGTTGGAGTATCCCCTTGAAAATAACGTGG-TGGAGTATCCCCGA
1 TATTTTAGATATAAAGTCGGGGTTGGAGTAT-CCCTTGAAAATAACG-GGATGGAGTATCCCCAA
597738 TGAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAACAA
64 TGAAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAACAA
* *
597780 CATTTTTAGATATAAAG-CGGGGGTTGGAGTATCCCTTCAAAAATAACGGG
1 TA-TTTTAGATATAAAGTC-GGGGTTGGAGTATCCCTT-GAAAATAACGGG
597830 GTTGGAATAC
Statistics
Matches: 137, Mismatches: 14, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
106 59 0.43
107 76 0.55
108 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (105 bp):
TATTTTAGATATAAAGTCGGGGTTGGAGTATCCCTTGAAAATAACGGGATGGAGTATCCCCAATG
AAATAACGGGGTTGGAGTACCCCCGATTATGAAAAAACAA
Found at i:597898 original size:51 final size:50
Alignment explanation
Indices: 597850--597947 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 50
597840 CCTCGATTGT
** *
597850 GAAAAATTGGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAA
1 GAAAAATTGACGTTTTAGAAATAAAA-CCGAGTTGGAGTATCCCCGATTAA
* **
597901 GAAAAATTGACGTTTTGGAAATGGAACCGAGATTGGAGTATCCCCGA
1 GAAAAATTGACGTTTTAGAAATAAAACCGAG-TTGGAGTATCCCCGA
597948 GATGAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 4 0.10
51 36 0.90
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.27
Consensus pattern (50 bp):
GAAAAATTGACGTTTTAGAAATAAAACCGAGTTGGAGTATCCCCGATTAA
Found at i:600295 original size:13 final size:13
Alignment explanation
Indices: 600277--600305 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
600267 ACAATGAGCC
600277 ATGTATCGATACA
1 ATGTATCGATACA
600290 ATGTATCGATACA
1 ATGTATCGATACA
600303 ATG
1 ATG
600306 AGCAAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:600302 original size:33 final size:33
Alignment explanation
Indices: 600256--600363 Score: 117
Period size: 33 Copynumber: 3.1 Consensus size: 33
600246 TACATTGTAA
* *
600256 AATGTATCAATACAATGAGCCATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
*
600289 AATGTATCGATACAATGAGCAAAGTATCGATACCATGC
1 AATGTATCGATACAATGAGCAATGTATCGAT---A--C
*
600327 AAATTGTATCGATACAATGAACAATGTATCGATAC
1 -AA-TGTATCGATACAATGAGCAATGTATCGATAC
600362 AA
1 AA
600364 ATTGTGAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
33 28 0.44
34 2 0.03
35 1 0.02
36 1 0.02
37 1 0.02
38 1 0.02
39 2 0.03
40 27 0.43
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.26
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:600317 original size:20 final size:20
Alignment explanation
Indices: 600292--600363 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
600282 TCGATACAAT
600292 GTATCGATACAATGAGCAAA
1 GTATCGATACAATGAGCAAA
*
600312 GTATCGATACCAT--GCAAA
1 GTATCGATACAATGAGCAAA
* *
600330 TTGTATCGATACAATGAACAAT
1 --GTATCGATACAATGAGCAAA
600352 GTATCGATACAA
1 GTATCGATACAA
600364 ATTGTGAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.11
20 36 0.82
22 3 0.07
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (20 bp):
GTATCGATACAATGAGCAAA
Found at i:604861 original size:13 final size:13
Alignment explanation
Indices: 604843--604868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
604833 ATTTTTCAAC
604843 ATATCGATACATT
1 ATATCGATACATT
604856 ATATCGATACATT
1 ATATCGATACATT
604869 GATCTTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
ATATCGATACATT
Found at i:611128 original size:740 final size:739
Alignment explanation
Indices: 608321--611846 Score: 5235
Period size: 740 Copynumber: 4.8 Consensus size: 739
608311 GTGTCTATAG
* *
608321 AGAGGTTCTATCTTAGCCTTGAAAGATAAAGTTGTAAGGTTATACCTTTTCCTTAAAGGTAACAA
1 AGAGGTTCTATCTTAGCCTTGAAAGATAGAGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAA
* * * * *
608386 TTCAAATAGGGGATTATGGTGATCACTTGGCAAGGAAGTGCCAAGGAGAAAGGACACAGGTGTTG
66 TTCAAGTAGTGAATTATGGTGATCACTTGGCAAGGAAGTGCCAAGGAGAAAGGACATAGGTGTCG
* * *
608451 AGTTTACACTGAACCTCTATAAATCTCGTGTTTGATCTCTCTTACTTTTACTCTCTTCATCTTTC
131 AGTTTAGACTGAACCTCTATAAATCTCGTGTTTGATCTCTCTTACCTTTACTCTCTTTATCTTTC
* *
608516 GATTTATTTTTATTCACACTTGCTTCTAAAGTTTTAATTTTCCATAAGAACCAATTCA-CCCCTC
196 GATTTGTTTTTATTCACACTTGCTTCAAAAGTTTTAATTTTCCATAAGAACCAATTCACCCCCTC
* * * *
608580 TTAGTTCATTCTCTTTGAGCTTGCAAAACTAGAAAGAAGAATATAGAAAATTGGATTTTGGCTAC
261 TTAGTTCATTCTCTTTGAGCTTACAAAACTGGAGAGAAGAATATAGAAAATTGGATTTTGGCTAT
* * * *
608645 ACAAGAAGAATTAAACTAATTTGTGACAAGTAGTGTGTGGAGTTTAGTCAAAAGACCTAGTGACC
326 GCAAGAAGAATTAAACCAATTTGAGAGAAGTAGTGTGTGGAGTTTAGTCAAAAGACCTAGTGACC
* * * ***
608710 ATCTGATCATAGGAATGAAATAGGTATTTAGGAATAAAATCGATGAAGATGGAACTGGAGTTAGA
391 ATCTGATCATAGGAATGAAATGGGTGTTTAGGAATAAACTCGATGAAGATGGAACCATAGTTAGA
* * * *
608775 AATAAAGTAAAGCTAGTTGCTAAAGGTTATAGTCAAGAAGAAGGTATTGACTATGATGAAACCTA
456 AACAAAGCAAGGCTAGTTGCTAAAGGTTATAGTCAAGAGGAAGGTATTGACTATGATGAAACCTA
* *
608840 TGCCACT-GTAGCTAGGTTAGAAGCCATTAGCATATTACTATCTTTTGCATGTTGTTATTCTTTG
521 TGCC-CTCGTAGCTAGGTTAGAAGCCATTAGGATATTACTAGCTTTTGCATGTTGTTATTCTTTG
*
608904 TCAAGCT-TTTTGTATTTTGTACTTAAACTTCCAC--ACAATTGCCTATTTAGAGGTATTTCGAG
585 TCAAGCTCTTTTGTATTTTGTACTTAAACTTCCACAAACACTTGCCTATTTAGAGGTATTTCGAG
608966 TTTGTAAAAGTTCATTTGTATTGTATAAGGTTGTGTTCAATCTTAGGGAAAATCACTCAAGAATT
650 TTTGTAAAAGTTCATTTGTATTGTATAAGGTTGTGTTCAATCTTAGGGAAAATCACTCAAGAATT
* *
609031 TAGGGTATAACTCTCGGAGTGATTG
715 TAGAGTATAACTCTCGGAGTGATTA
*
609056 AGAGGTTCTATCTTAGCCTTGAAAGATAGAGTTGTAAGGTTATACCTTTGCCTTAAAGATAACAA
1 AGAGGTTCTATCTTAGCCTTGAAAGATAGAGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAA
*
609121 TTCAAGTAGTGAATTATGATGATCACTTGGCAAGGAAGTGCCAAGGAGAAAGGACATAGGTGTCG
66 TTCAAGTAGTGAATTATGGTGATCACTTGGCAAGGAAGTGCCAAGGAGAAAGGACATAGGTGTCG
* * * * *
609186 AGTTTAGA-TCGAACCTCTATAACTCTCGTGTTTAATCTCTCTTGCTTTTACTCTCTTCATCTTT
131 AGTTTAGACT-GAACCTCTATAAATCTCGTGTTTGATCTCTCTTACCTTTACTCTCTTTATCTTT
* * *
609250 CGATTTATTTTTATTCACACTTGCTTCAAAAGTTTTAATTTTCCATAAGAATCAATTCACCCCTT
195 CGATTTGTTTTTATTCACACTTGCTTCAAAAGTTTTAATTTTCCATAAGAACCAATTCACCCCCT
* *
609315 CTTAGTTCATTCTTTTTGATCTTACAAAACTGGAGAGAAGAATATAGAAAATTGGATTTTGGCTA
260 CTTAGTTCATTCTCTTTGAGCTTACAAAACTGGAGAGAAGAATATAGAAAATTGGATTTTGGCTA
* *
609380 AGCAAGAAGAATTAAACCAATTTAAGAG-AGTAGTGTGTGGAGTTTAGTCAAAAGACCTAGTGAC
325 TGCAAGAAGAATTAAACCAATTTGAGAGAAGTAGTGTGTGGAGTTTAGTCAAAAGACCTAGTGAC
* * * * * * *
609444 CATCCGATCATAGGAACGAAATAGGTGCTTAGAAATAAACTCGATGAATATGGAACCACAGTTAG
390 CATCTGATCATAGGAATGAAATGGGTGTTTAGGAATAAACTCGATGAAGATGGAACCATAGTTAG
* * *
609509 AAACAAAGAAAGGCTAGCTGCTAAAGGTTATAGTCAAGAGGAAGGTATTGACTATGATGAAACTT
455 AAACAAAGCAAGGCTAGTTGCTAAAGGTTATAGTCAAGAGGAAGGTATTGACTATGATGAAACCT
* * *
609574 ATGCCCCCATAGCTAGGTTAGAAGCCATTAGGATATTACTATCTTTTGCATGTTGTTATTCTTTG
520 ATGCCCTCGTAGCTAGGTTAGAAGCCATTAGGATATTACTAGCTTTTGCATGTTGTTATTCTTTG
* * ** *
609639 TGAAGCCCTTTTGTATTTTGTACTTAAACTTCTGCAAACACTTGCCTATTTAGAGGTATTTCAAG
585 TCAAGCTCTTTTGTATTTTGTACTTAAACTTCCACAAACACTTGCCTATTTAGAGGTATTTCGAG
*
609704 TTTGTAAAAGTTCATTTGTATTGTATAAGGTTGTGTTCAATCTTAGGGAAAATCCCTCAAGAATT
650 TTTGTAAAAGTTCATTTGTATTGTATAAGGTTGTGTTCAATCTTAGGGAAAATCACTCAAGAATT
* * *
609769 TA-AGGGATAACTCTCGGAGTCATTG
715 TAGA-GTATAACTCTCGGAGTGATTA
** *
609794 AGAGGTTCTATCTTAGCCTTGAAAGATAGAGTTGTAAGGTTATACCTTTTTCTTAAAAGTAACAA
1 AGAGGTTCTATCTTAGCCTTGAAAGATAGAGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAA
* * * * * *
609859 TTCAAGTAGTGAATTATAGTGATCACATGGCAAGAAAGTGCCAAGGAAAAAGGACGTAGATGTCG
66 TTCAAGTAGTGAATTATGGTGATCACTTGGCAAGGAAGTGCCAAGGAGAAAGGACATAGGTGTCG
* * * * * * *
609924 AGTTTAGACCGAACCACTGTAAATCTCGAGTCTAATCTCTCTTGCCTTTACTCTCTTTATCTTTC
131 AGTTTAGACTGAACCTCTATAAATCTCGTGTTTGATCTCTCTTACCTTTACTCTCTTTATCTTTC
* ** *
609989 AATTTGTTTTTATTCACACTTGCTTCAAAAGTTTTAATTTTTTATAAGAACTAATTC-CCCCTCT
196 GATTTGTTTTTATTCACACTTGCTTCAAAAGTTTTAATTTTCCATAAGAACCAATTCACCCC-CT
**
610053 CTTAGTTCATTCTCTTTGAATTTACAAAACTGGAGAGAAGAATATAGAAAATTGGATTTTGGCTA
260 CTTAGTTCATTCTCTTTGAGCTTACAAAACTGGAGAGAAGAATATAGAAAATTGGATTTTGGCTA
* * * *
610118 TGCAAGAAGAATTAAACCAATTTGAGGGAAGTACTGTGTGGAGTTTAGGCAAAAAACCTAGTGAC
325 TGCAAGAAGAATTAAACCAATTTGAGAGAAGTAGTGTGTGGAGTTTAGTCAAAAGACCTAGTGAC
** *
610183 CATCTGATTGTAGGAACGAAATGGGTGTTTAGGAATAAACTCGATGAAGATGGAACCATAGTTAG
390 CATCTGATCATAGGAATGAAATGGGTGTTTAGGAATAAACTCGATGAAGATGGAACCATAGTTAG
610248 AAACAAAGCAAGGCTAGTTGCTAAAGGTTATAGTCAAGAGGAAGGTATTGACTATGATGAAACCT
455 AAACAAAGCAAGGCTAGTTGCTAAAGGTTATAGTCAAGAGGAAGGTATTGACTATGATGAAACCT
* ** *
610313 ATGCCCCCGTAGCTAGGTTAGAAGTTATTAGGATATTACTAGCTTTTGCATGTTGTTCTTCTTTG
520 ATGCCCTCGTAGCTAGGTTAGAAGCCATTAGGATATTACTAGCTTTTGCATGTTGTTATTCTTTG
* *
610378 TCAAGCTCTTTTGTATTTTGTACTTAAACTTCCACAAACACTTGTCTATTTAGAGGTATTTTGAG
585 TCAAGCTCTTTTGTATTTTGTACTTAAACTTCCACAAACACTTGCCTATTTAGAGGTATTTCGAG
* *
610443 TTTGTAAAAGTTCATTTGTATTGTATAAGGTTGTGTTTAATCTTAGGGACAATCACTCAAGAATT
650 TTTGTAAAAGTTCATTTGTATTGTATAAGGTTGTGTTCAATCTTAGGGAAAATCACTCAAGAATT
* * * * *
610508 TACAATATAATTCTTGCAGTGATTA
715 TAGAGTATAACTCTCGGAGTGATTA
* * *
610533 AGAGGTTCTATATTAGCCTTGAAAGATAGAGTTGTAGGGTTAGACCTTTGCCTTAAAGGTAACAA
1 AGAGGTTCTATCTTAGCCTTGAAAGATAGAGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAA
* * *
610598 TTCAAGTAGTGAATTATGGTGATCACTTGGCAAGGAAATGCTAAGGAGCGAA-GACATAGGTGTC
66 TTCAAGTAGTGAATTATGGTGATCACTTGGCAAGGAAGTGCCAAGGAG-AAAGGACATAGGTGTC
* *
610662 GAGTTTAGATTGAACCTCTATAAATCTCGTGTTTGACCTCTCTTACCTTTACTCTCTTTATCTTT
130 GAGTTTAGACTGAACCTCTATAAATCTCGTGTTTGATCTCTCTTACCTTTACTCTCTTTATCTTT
* * *
610727 TGATTTGTTTTTATTTACACTTGCTTCAAAAGTTTTAATTTTCAATAAGAACCAATTCACCCTCC
195 CGATTTGTTTTTATTCACACTTGCTTCAAAAGTTTTAATTTTCCATAAGAACCAATTCACCC-CC
* *
610792 TCTTAGATCATTCTCTTTGAGCTTACAAAAATGGAGAGAAGAATATAGAAAATTGGATTTTGGCT
259 TCTTAGTTCATTCTCTTTGAGCTTACAAAACTGGAGAGAAGAATATAGAAAATTGGATTTTGGCT
* * *
610857 ATGCAAAAAAAATTAAACCAATTTGAGAGAAATAGTGTGTGGAGTTTAGTCGAAAA-ACCTAGTG
324 ATGCAAGAAGAATTAAACCAATTTGAGAGAAGTAGTGTGTGGAGTTTAGTC-AAAAGACCTAGTG
* * * *
610921 ACGATCCGATTATAGGAATGAAATGGGTGTTTAGGAATAAACTTGATGAAGATGGAACCATAGTT
388 ACCATCTGATCATAGGAATGAAATGGGTGTTTAGGAATAAACTCGATGAAGATGGAACCATAGTT
* * *
610986 AGAAACAAAGCAAGGCTAGTTGCTAAAGGTTATAATGAACAGGAAGGTATTGACTATGATGAAAC
453 AGAAACAAAGCAAGGCTAGTTGCTAAAGGTTATAGTCAAGAGGAAGGTATTGACTATGATGAAAC
*
611051 CTATGCCCTCGTAGCTAGGTTAGAAGCCATTAAGATATTACTAGCTTTTGCATGTTGTTATTCTT
518 CTATGCCCTCGTAGCTAGGTTAGAAGCCATTAGGATATTACTAGCTTTTGCATGTTGTTATTCTT
* * **
611116 TGTCATGCTCTTTTGTATTTTATACTTAAACTTCTGCAAACACTTGCCTATTTAGAGGTATTTCG
583 TGTCAAGCTCTTTTGTATTTTGTACTTAAACTTCCACAAACACTTGCCTATTTAGAGGTATTTCG
* * * * * *
611181 AGTTTGTAAAAG-TCTATATGTACTGTATAAGGCTGTGTTCTATCTTATGGAAAATCATTCAAGA
648 AGTTTGTAAAAGTTC-ATTTGTATTGTATAAGGTTGTGTTCAATCTTAGGGAAAATCACTCAAGA
* * *
611245 ATTTAGGGTATAATTCTGGGAGTGATTA
712 ATTTAGAGTATAACTCTCGGAGTGATTA
*
611273 AGAGGTTCTATCTTAGCCTTGAAAGATAGAGTTGTAAGATTATACCTTTGCCTTAAAGGTAACAA
1 AGAGGTTCTATCTTAGCCTTGAAAGATAGAGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAA
** * * * *
611338 TTCAAGTAGTGAATTATGGTGGCCACTTGGCAAAGAAGTGCCATGGAGAGAGGACGTAGGTGTCG
66 TTCAAGTAGTGAATTATGGTGATCACTTGGCAAGGAAGTGCCAAGGAGAAAGGACATAGGTGTCG
* * * *
611403 AGATTAGACTGAACCTCTATAAATCTCATGTTTGATCTTTCTTAACTTTACTCTCTTTATCTTTC
131 AGTTTAGACTGAACCTCTATAAATCTCGTGTTTGATCTCTCTTACCTTTACTCTCTTTATCTTTC
*
611468 GATTTGTTTTTATTCACACTTGCTTCAAAAGTTTTAATTTTCCATAGGAACCAATTCACCCCCTT
196 GATTTGTTTTTATTCACACTTGCTTCAAAAGTTTTAATTTTCCATAAGAACCAATTCACCCCC-T
* * * *
611533 TTTAGTTCATTCTCTTTGAGCTTGCAAAACTGGAGAAAAGAATATAGAAGATTGGATTTTGGCTA
260 CTTAGTTCATTCTCTTTGAGCTTACAAAACTGGAGAGAAGAATATAGAAAATTGGATTTTGGCTA
* * *
611598 TGCAAGAAAAATTAAACCAAATGGAGAGAAGTAGTGTGTGGAGTTTAGTCAAAAGACC-AGTGAC
325 TGCAAGAAGAATTAAACCAATTTGAGAGAAGTAGTGTGTGGAGTTTAGTCAAAAGACCTAGTGAC
* * * * * *
611662 CATCTAATCACAGGAATGAAATGGATGTTTAGGAATAAACTTGATGAAGATGGAGCCATAATTAG
390 CATCTGATCATAGGAATGAAATGGGTGTTTAGGAATAAACTCGATGAAGATGGAACCATAGTTAG
611727 AAAACAAAGCAAGGCTAGTTGCTAAAGGTTATAGTCAAGAGGAAGGTATTGACTATGATGAAACC
455 -AAACAAAGCAAGGCTAGTTGCTAAAGGTTATAGTCAAGAGGAAGGTATTGACTATGATGAAACC
* * * * *
611792 TATGCCACT-GTAGGTAGTTTAGAAGACATTAGGATAGTACAAGCTTTTGCATGTT
519 TATGCC-CTCGTAGCTAGGTTAGAAGCCATTAGGATATTACTAGCTTTTGCATGTT
611847 TTTTCAACTT
Statistics
Matches: 2524, Mismatches: 246, Indels: 37
0.90 0.09 0.01
Matches are distributed among these distances:
734 2 0.00
735 451 0.18
736 111 0.04
737 4 0.00
738 425 0.17
739 639 0.25
740 885 0.35
741 7 0.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (739 bp):
AGAGGTTCTATCTTAGCCTTGAAAGATAGAGTTGTAAGGTTATACCTTTGCCTTAAAGGTAACAA
TTCAAGTAGTGAATTATGGTGATCACTTGGCAAGGAAGTGCCAAGGAGAAAGGACATAGGTGTCG
AGTTTAGACTGAACCTCTATAAATCTCGTGTTTGATCTCTCTTACCTTTACTCTCTTTATCTTTC
GATTTGTTTTTATTCACACTTGCTTCAAAAGTTTTAATTTTCCATAAGAACCAATTCACCCCCTC
TTAGTTCATTCTCTTTGAGCTTACAAAACTGGAGAGAAGAATATAGAAAATTGGATTTTGGCTAT
GCAAGAAGAATTAAACCAATTTGAGAGAAGTAGTGTGTGGAGTTTAGTCAAAAGACCTAGTGACC
ATCTGATCATAGGAATGAAATGGGTGTTTAGGAATAAACTCGATGAAGATGGAACCATAGTTAGA
AACAAAGCAAGGCTAGTTGCTAAAGGTTATAGTCAAGAGGAAGGTATTGACTATGATGAAACCTA
TGCCCTCGTAGCTAGGTTAGAAGCCATTAGGATATTACTAGCTTTTGCATGTTGTTATTCTTTGT
CAAGCTCTTTTGTATTTTGTACTTAAACTTCCACAAACACTTGCCTATTTAGAGGTATTTCGAGT
TTGTAAAAGTTCATTTGTATTGTATAAGGTTGTGTTCAATCTTAGGGAAAATCACTCAAGAATTT
AGAGTATAACTCTCGGAGTGATTA
Found at i:613191 original size:21 final size:21
Alignment explanation
Indices: 613162--613204 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
613152 GATGTTTGAA
*
613162 TGATCTTGTGTTGTTAACTGT
1 TGATCTTGTGTGGTTAACTGT
* *
613183 TGATGTTGTGTGGTTAATTGT
1 TGATCTTGTGTGGTTAACTGT
613204 T
1 T
613205 CGTGAATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.05, G:0.28, T:0.53
Consensus pattern (21 bp):
TGATCTTGTGTGGTTAACTGT
Found at i:615317 original size:21 final size:21
Alignment explanation
Indices: 615280--615325 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
615270 TGTTAACAGC
*
615280 CTATG-TTCATGCATTTTGAG
1 CTATGTTTCATACATTTTGAG
* *
615300 CTATGTTTCATACGTTTTTAG
1 CTATGTTTCATACATTTTGAG
615321 -TATGT
1 CTATGT
615326 CCAACACCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.50
Consensus pattern (21 bp):
CTATGTTTCATACATTTTGAG
Found at i:622031 original size:20 final size:20
Alignment explanation
Indices: 622006--622059 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
621996 GTTAGAAGAA
* *
622006 ATGTATCCATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
622026 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
622046 ATGTATCGATACAA
1 ATGTATCGATACAA
622060 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:624226 original size:31 final size:30
Alignment explanation
Indices: 624188--624330 Score: 182
Period size: 31 Copynumber: 4.6 Consensus size: 30
624178 AAAAAAAAAA
624188 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTCTC
*
624219 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTCTC
*
624250 AAAGTCCACGACGCAGTGGCATC-CTTCTC
1 AAAGTCCACGACTCAGTGGCATCTCTTCTC
* *
624279 TTTAAAGTCCACAACTCAGTGGCAT-TTTGTCTC
1 ---AAAGTCCACGACTCAGTGGCATCTCT-TCTC
624312 AAAGTCCACGACTCAGTGG
1 AAAGTCCACGACTCAGTGG
624331 TATTTTTTCT
Statistics
Matches: 100, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
29 5 0.05
30 21 0.21
31 49 0.49
32 21 0.21
33 4 0.04
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTCTTCTC
Found at i:624258 original size:62 final size:60
Alignment explanation
Indices: 624188--624363 Score: 194
Period size: 62 Copynumber: 2.9 Consensus size: 60
624178 AAAAAAAAAA
*
624188 AAAGTCCACGACTCAGTGGCAATCTCTTCTC-AAAGTCCACGACTCAGTGGCAATCTCTG-CTC
1 AAAGTCCACGACTCAGTGGC-ATC-CTTCTCTAAAGTCCACAACTCAGTGGC-AT-TCTGTCTC
* *
624250 AAAGTCCACGACGCAGTGGCATCCTTCTCTTTAAAGTCCACAACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCCTTCTC--TAAAGTCCACAACTCAGTGGCATTCTGTCTC
* ** * * *
624312 AAAGTCCACGACTCAGTGGTATTTTTTCTTTAAAGCCCACAACTCTGTGGCA
1 AAAGTCCACGACTCAGTGGCA-TCCTTCTCTAAAGTCCACAACTCAGTGGCA
624364 CCTACAACTT
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
60 6 0.06
61 26 0.26
62 43 0.43
63 24 0.24
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (60 bp):
AAAGTCCACGACTCAGTGGCATCCTTCTCTAAAGTCCACAACTCAGTGGCATTCTGTCTC
Done.