Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 197 of 322
Found at i:64757830 original size:46 final size:46
Alignment explanation
Indices: 64757777--64757865 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
64757767 GAAAGTGTAT
* *
64757777 ATATGTGGCGAAGCCGAATGGCTAATGCGAAACATGTATGAGACGG
1 ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGACGG
* * * *
64757823 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGA
1 ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGA
64757866 TGTGTATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.24
Consensus pattern (46 bp):
ATATGTGGCAAAGCCAAATGGCTAATGCGAAACATGTATGAGACGG
Found at i:64758123 original size:37 final size:37
Alignment explanation
Indices: 64758015--64758123 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
64758005 GGAAATATAT
* *
64758015 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
64758052 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
64758089 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
64758124 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:64764863 original size:47 final size:48
Alignment explanation
Indices: 64764778--64765057 Score: 299
Period size: 47 Copynumber: 5.9 Consensus size: 48
64764768 CAGCCACATT
* * *
64764778 ATGATAGCCAGTGTAAGACCATGACTGGGACATGGCAACGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* * * *
64764826 ACGAGAGCTAGTGTAAGA-CATGTCTGGAACATGGCAACGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* * * **
64764873 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
*
64764919 ATGTA-AGCCAGTGTTAGA-CATGTCTGGGACAT-GCATCGGC-TATGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAG
* * * *
64764965 AT--GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGTGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGAG
*
64765013 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
64765058 ACACCCTATG
Statistics
Matches: 198, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
44 10 0.05
45 15 0.08
46 56 0.28
47 59 0.30
48 24 0.12
50 34 0.17
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
Found at i:64764946 original size:46 final size:47
Alignment explanation
Indices: 64764743--64765054 Score: 253
Period size: 47 Copynumber: 6.6 Consensus size: 47
64764733 TGTGTGCTAT
* * * ** *
64764743 TGTAAGACATGTCTGGGACAT-ACATCAGCCACATTATGATAGCCAG
1 TGTAAGACATGTCTGGGACATGGCATCGGCCTCAAGATGAGAGCCAG
* * * ** * *
64764789 TGTAAGACCATGACTGGGACATGGCAACGGCATTGAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACATGGCATCGGCCTCAAGATGAGAGCCAG
* * * ** * *
64764837 TGTAAGACATGTCTGGAACATGGCAACGGCATTGAGACGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGGCATCGGCCTCAAGATGAGAGCCAG
64764884 TGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAGATGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGGCATCGGCCTCAAGATG-AGAGCCAG
* * * *
64764930 TGTTAGACATGTCTGGGACAT-GCATCGG-CT-ATGA-GATGTGTCAG
1 TGTAAGACATGTCTGGGACATGGCATCGGCCTCAAGATGA-GAGCCAG
* *
64764974 TGTAAGACCATGTCTGGGACATGGCATCGGCACAGT-GATATGAGAGCCAG
1 TGTAAGA-CATGTCTGGGACATGGCATCGGC-C--TCAAGATGAGAGCCAG
*
64765024 TGTAAGACCATGTTTGGGACATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACATGGCATCGGC
64765055 ATTACACCCT
Statistics
Matches: 221, Mismatches: 33, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 13 0.06
45 16 0.07
46 58 0.26
47 72 0.33
48 21 0.10
50 37 0.17
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
TGTAAGACATGTCTGGGACATGGCATCGGCCTCAAGATGAGAGCCAG
Found at i:64765036 original size:141 final size:141
Alignment explanation
Indices: 64764743--64765054 Score: 357
Period size: 141 Copynumber: 2.2 Consensus size: 141
64764733 TGTGTGCTAT
* * **
64764743 TGTAAGACATGTCTGGGACATACATCAGCCACATTATGATAGCCAGTGTAAGACCATGACTGGGA
1 TGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGATAGCCAGTGTAAGACCATGACTGGGA
*
64764808 CATGGCAACGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGAACATGGCAACGGCATTGAG
66 CATGGCAACGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGAACATGGCAACGGCAGTGAG
*
64764873 ACGAGAGCTAG
131 ACGAGAGCCAG
* * *
64764884 TGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-TAAGCCAGTGTTAGA-CATGTCTGGG
1 TGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAT-AGCCAGTGTAAGACCATGACTGGG
* * * * * *
64764947 ACAT-GCATCGGC-TATGAGATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACA
65 ACATGGCAACGGCAT-TGAGACGAGAGCTAGTGTAAGA-CATGTCTGGAACATGGCAACGG--CA
* *
64765008 GTGATATGAGAGCCAG
126 GTGAGACGAGAGCCAG
*
64765024 TGTAAGACCATGTTTGGGACATGGCATCGGC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGC
64765055 ATTACACCCT
Statistics
Matches: 146, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
137 9 0.06
138 22 0.15
139 14 0.10
140 35 0.24
141 58 0.40
142 8 0.05
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (141 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGATAGCCAGTGTAAGACCATGACTGGGA
CATGGCAACGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGAACATGGCAACGGCAGTGAG
ACGAGAGCCAG
Found at i:64766426 original size:16 final size:17
Alignment explanation
Indices: 64766397--64766428 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
64766387 AAAGTCACTT
64766397 TCATAATGATCATGAAC
1 TCATAATGATCATGAAC
64766414 TCATAAT-ATCATGAA
1 TCATAATGATCATGAA
64766429 GCCAATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (17 bp):
TCATAATGATCATGAAC
Found at i:64766658 original size:42 final size:41
Alignment explanation
Indices: 64766612--64766775 Score: 179
Period size: 41 Copynumber: 4.0 Consensus size: 41
64766602 TTATATGGGA
*
64766612 TCTCATATTGATGCCAATAG-CCCA-ACTATGGTCTTACACGAT
1 TCTCATATCGATGCC-AT-GTCCCAGA-TATGGTCTTACACGAT
* * * *
64766654 TCTCATATCAATGCCATGTCCCATACATGGTCTTACACAAT
1 TCTCATATCGATGCCATGTCCCAGATATGGTCTTACACGAT
* * *
64766695 TCTCATATCGATTCCATGTCCCAGAAATGGTCTTACACGAAA
1 TCTCATATCGATGCCATGTCCCAGATATGGTCTTACACG-AT
** *
64766737 TCTCATATCGATTTCATATCCCAGATATGGTCTTACACG
1 TCTCATATCGATGCCATGTCCCAGATATGGTCTTACACG
64766776 TAAACTCATA
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.01
41 54 0.51
42 51 0.48
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (41 bp):
TCTCATATCGATGCCATGTCCCAGATATGGTCTTACACGAT
Found at i:64766697 original size:41 final size:41
Alignment explanation
Indices: 64766639--64766774 Score: 182
Period size: 41 Copynumber: 3.3 Consensus size: 41
64766629 TAGCCCAACT
* * * * *
64766639 ATGGTCTTACACGATTCTCATATCAATGCCATGTCCCATAC
1 ATGGTCTTACACAATTCTCATATCGATTCCATGTCCCAGAA
64766680 ATGGTCTTACACAATTCTCATATCGATTCCATGTCCCAGAA
1 ATGGTCTTACACAATTCTCATATCGATTCCATGTCCCAGAA
* * * *
64766721 ATGGTCTTACACGAAATCTCATATCGATTTCATATCCCAGAT
1 ATGGTCTTACAC-AATTCTCATATCGATTCCATGTCCCAGAA
64766763 ATGGTCTTACAC
1 ATGGTCTTACAC
64766775 GTAAACTCAT
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
41 48 0.56
42 37 0.44
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (41 bp):
ATGGTCTTACACAATTCTCATATCGATTCCATGTCCCAGAA
Found at i:64774916 original size:35 final size:36
Alignment explanation
Indices: 64774855--64774923 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
64774845 ACAATCCAAC
*
64774855 CCAAAAAACACCAGATGCTCACAAGAGCTGATCCAT
1 CCAAAAAACACCAGATGCTCACAAGAGCTAATCCAT
* *
64774891 CCAAAATACACCA-ATGCTCATAAGAGCTAATCC
1 CCAAAAAACACCAGATGCTCACAAGAGCTAATCC
64774924 CTCTGCAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 18 0.60
36 12 0.40
ACGTcount: A:0.42, C:0.30, G:0.12, T:0.16
Consensus pattern (36 bp):
CCAAAAAACACCAGATGCTCACAAGAGCTAATCCAT
Found at i:64775003 original size:35 final size:35
Alignment explanation
Indices: 64774885--64775009 Score: 126
Period size: 35 Copynumber: 3.6 Consensus size: 35
64774875 ACAAGAGCTG
* * ** *
64774885 ATCCATCCAAAATACACCAATGCTCATAAGAGCTA
1 ATCCATCTAAAACACACCAATGCTTGTAAGAGTTA
* ** * *
64774920 ATCCCTCTGCAACACACTAATGCTTGTAAAAGTTA
1 ATCCATCTAAAACACACCAATGCTTGTAAGAGTTA
* *
64774955 ATCCCT-TCGAAACACACCAATGCTTGTAAGAGTTA
1 ATCCATCT-AAAACACACCAATGCTTGTAAGAGTTA
64774990 ATCCATCTAAAACACACCAA
1 ATCCATCTAAAACACACCAA
64775010 AACAGAGAGT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
34 1 0.01
35 71 0.97
36 1 0.01
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.23
Consensus pattern (35 bp):
ATCCATCTAAAACACACCAATGCTTGTAAGAGTTA
Found at i:64778834 original size:53 final size:52
Alignment explanation
Indices: 64778751--64778859 Score: 200
Period size: 53 Copynumber: 2.1 Consensus size: 52
64778741 AAAGGGATTC
64778751 AAAATATTGTTTTTTAGTTTTTAATAGGCTCAAAAATATTTTTCTAACTTTT
1 AAAATATTGTTTTTTAGTTTTTAATAGGCTCAAAAATATTTTTCTAACTTTT
*
64778803 AAAATATTGTTTTTTTAGTTTTTAATGGGCTCAAAAATATTTTTCTAACTTTT
1 AAAATATTG-TTTTTTAGTTTTTAATAGGCTCAAAAATATTTTTCTAACTTTT
64778856 AAAA
1 AAAA
64778860 GTCAAACAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 9 0.16
53 46 0.84
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.50
Consensus pattern (52 bp):
AAAATATTGTTTTTTAGTTTTTAATAGGCTCAAAAATATTTTTCTAACTTTT
Found at i:64778960 original size:32 final size:32
Alignment explanation
Indices: 64778906--64778986 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
64778896 ACAAAAATAG
* *
64778906 CTTTTAAAGG-CCCAAAAAATTTTTGT-ACCAA
1 CTTTTAAGGGACCTAAAAAATTTTT-TCACCAA
*
64778937 CTTTTAAGGGACCTAAAAAATTTTTTCTCCAA
1 CTTTTAAGGGACCTAAAAAATTTTTTCACCAA
**
64778969 CTTTTAAGAAACCTAAAA
1 CTTTTAAGGGACCTAAAA
64778987 TCTCATTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 10 0.23
32 33 0.77
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (32 bp):
CTTTTAAGGGACCTAAAAAATTTTTTCACCAA
Found at i:64781610 original size:49 final size:49
Alignment explanation
Indices: 64781492--64781766 Score: 244
Period size: 49 Copynumber: 5.7 Consensus size: 49
64781482 AGGGTATGAT
* * * * * *
64781492 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGC--TCACATATCTAA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTTTCATATATCGAG
* * *
64781540 GTCGATGTCATGCCCCAGACAGGTCTTACACT-GACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAG-CTTTCATATATCGAG
* * *
64781589 GCCGACGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATTTATCG-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAG
* * * *
64781637 TGTCGATGCCATGTCCCAGACAGGTCTTCCACTAGCTTGCATATCTCGAG
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAG
* * * *
64781687 GCCGATG-CATGTCCCAGACATGTCTTACATTGGCTCTCATA-AT--ATG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGA-G
* * *
64781733 GCCAATG-CATGTCCCATACATGTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGC
64781767 ACACATATCA
Statistics
Matches: 187, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 32 0.17
47 13 0.07
48 45 0.24
49 94 0.50
50 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATATCGAG
Found at i:64781660 original size:98 final size:97
Alignment explanation
Indices: 64781492--64781726 Score: 287
Period size: 98 Copynumber: 2.4 Consensus size: 97
64781482 AGGGTATGAT
* * * * *
64781492 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACA-TATCTAAGTCGATGTCATGCCCC
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATTATCGAAGTCGATGCCATGCCCC
*
64781556 AGACAGGTCTTACACT-GACTTTCATATATCGAG
65 AGACAGGTCTTACACTAG-CTTGCATATATCGAG
* * ** *
64781589 GCCGACGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATTTATCGGTGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCA-TTATCGAAGTCGATGCCATGCCCC
* *
64781654 AGACAGGTCTTCCACTAGCTTGCATATCTCGAG
65 AGACAGGTCTTACACTAGCTTGCATATATCGAG
* *
64781687 GCCGATG-CATGTCCCAGACATGTCTTACATTGGCTCTCAT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAT
64781727 AATATGGCCA
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
96 18 0.15
97 47 0.40
98 52 0.44
99 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTATCGAAGTCGATGCCATGCCCCA
GACAGGTCTTACACTAGCTTGCATATATCGAG
Found at i:64783361 original size:18 final size:19
Alignment explanation
Indices: 64783338--64783376 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
64783328 TTAAGCTCTA
64783338 TAAATTTAA-AAAA-AAAAT
1 TAAA-TTAATAAAATAAAAT
64783356 TAAATTAATAAAATAAAAT
1 TAAATTAATAAAATAAAAT
64783375 TA
1 TA
64783377 TACTTTACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 8 0.42
19 7 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAATTAATAAAATAAAAT
Found at i:64785326 original size:31 final size:31
Alignment explanation
Indices: 64785288--64785359 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
64785278 TAAAAGAGAG
64785288 AATTTTTGGAAAAAGTAATGTTATGAAATTA
1 AATTTTTGGAAAAAGTAATGTTATGAAATTA
*
64785319 AATTTTTGGAAAAAGTACTGTTATGAAATTA
1 AATTTTTGGAAAAAGTAATGTTATGAAATTA
64785350 ACATATTTTG
1 A-AT-TTTTG
64785360 TGCATCTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 31 0.82
32 2 0.05
33 5 0.13
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (31 bp):
AATTTTTGGAAAAAGTAATGTTATGAAATTA
Found at i:64791661 original size:29 final size:29
Alignment explanation
Indices: 64791629--64791697 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
64791619 TAAGGGTTAA
*
64791629 TTTCAATTTTTG-AATATTATTTAATATTT
1 TTTCAATTTTTGTAATATTAATTAAT-TTT
* *
64791658 TTTC-ATTTATGTAATTTTAATTAATTTT
1 TTTCAATTTTTGTAATATTAATTAATTTT
*
64791686 TTTATAATTTTT
1 TTT-CAATTTTT
64791698 TATAATAGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 12 0.38
29 15 0.47
30 5 0.16
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (29 bp):
TTTCAATTTTTGTAATATTAATTAATTTT
Found at i:64791962 original size:16 final size:16
Alignment explanation
Indices: 64791941--64791973 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
64791931 AAAGATTCAT
64791941 TTTTATTATATTTTTA
1 TTTTATTATATTTTTA
64791957 TTTTATTATATTTTTA
1 TTTTATTATATTTTTA
64791973 T
1 T
64791974 GGTCTATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTATATTTTTA
Found at i:64796503 original size:62 final size:60
Alignment explanation
Indices: 64796387--64796503 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
64796377 TTGTACAAAC
* * ****
64796387 TATTTTTATATTATTTCATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAGTCAAT
1 TATTTTTATATTATTTCATTTAATAAAATAAAAGTTCTTTTAAATAAGGAAATAGTCAAT
64796447 TATTTTTATA-TATTATCCTATTTAATAAAATAAAAGTTCTTTTAAATAAGGAAATAG
1 TATTTTTATATTATT-T-C-ATTTAATAAAATAAAAGTTCTTTTAAATAAGGAAATAG
64796504 AAATAATACA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 4 0.08
60 11 0.23
61 1 0.02
62 32 0.67
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (60 bp):
TATTTTTATATTATTTCATTTAATAAAATAAAAGTTCTTTTAAATAAGGAAATAGTCAAT
Found at i:64799761 original size:127 final size:127
Alignment explanation
Indices: 64799503--64800027 Score: 666
Period size: 127 Copynumber: 4.2 Consensus size: 127
64799493 TAAAGCCAAG
* * * * * *
64799503 CAGGAACTGCTGTAGAAAAAGAGCGTCCACAT-AGGAG-ATTTTTAAGTAATTTTTCTAACT-GT
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGA-GAGCTTTTTTTAGTAATTTTGCTGA-TAGT
* *
64799565 GCATACTGCTTGAAG--TGTTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAATTATTTTTT
64 GCATACTGCTTGAAGCAT-TTTTTTACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * * *
64799628 TAGGAACTACTGTAGAAAAGGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGTTGATAGTAC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTTAGTAATTTTGCTGATAGTGC
* * * *
64799693 ATACTACTTGAAGCGTTTTTTTACATTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
66 ATACTGCTTGAAGCATTTTTTTACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * *
64799755 CAGGAACTATTGTAGAAAAAGAGCGTCTACGTGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTTAGTAATTTTGCTGATAGTGC
* * * * *
64799820 ATATTGCTTGAAGCATTTTTTTACATTATTTTTTCAGAATCGTATTCTTAAAATTATTTTTT
66 ATACTGCTTGAAGCATTTTTTTACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
** * *
64799882 CAAAAACTACTGTAGAAAAAGAGCGTCCATGTGAGAGCTTTTTTTAGTACTTTTGCTGATAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTTAGTAATTTTGCTGATAGTGC
* * * *
64799947 ATCCTGCTTGAAGCATTTATGT-CACTATTTTTTCAGAACCGTCTTCTCAAAATTAATTTTT
66 ATACTGCTTGAAGCATTTTTTTACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
*
64800008 CAGAAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
64800028 AAAACCAAAA
Statistics
Matches: 346, Mismatches: 49, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
125 32 0.09
126 85 0.25
127 228 0.66
128 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (127 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTTAGTAATTTTGCTGATAGTGC
ATACTGCTTGAAGCATTTTTTTACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:64800161 original size:34 final size:34
Alignment explanation
Indices: 64800123--64800228 Score: 144
Period size: 34 Copynumber: 3.1 Consensus size: 34
64800113 ATTATTTTAA
*
64800123 AAAAACCTTAAACCTTAATTTAATTAATTTTCTT
1 AAAAACCCTAAACCTTAATTTAATTAATTTTCTT
*
64800157 AAAAACCCTAAACCTTAATTTAATTAATTTACTT
1 AAAAACCCTAAACCTTAATTTAATTAATTTTCTT
* * *
64800191 TAAAACCCTAAACC-AAATTTAA-TAATTTTTTTT
1 AAAAACCCTAAACCTTAATTTAATTAA-TTTTCTT
64800224 AAAAA
1 AAAAA
64800229 AATTATAAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
32 3 0.05
33 16 0.25
34 45 0.70
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAAACCCTAAACCTTAATTTAATTAATTTTCTT
Found at i:64801360 original size:15 final size:15
Alignment explanation
Indices: 64801340--64801387 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
64801330 GCGATAGATC
64801340 TTAAATTATATAAAT
1 TTAAATTATATAAAT
*
64801355 TTAAATTTTATAAAT
1 TTAAATTATATAAAT
*
64801370 ATAAA-TAT-TAAAT
1 TTAAATTATATAAAT
64801383 TTAAA
1 TTAAA
64801388 CATAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 9 0.31
14 2 0.07
15 18 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAAATTATATAAAT
Found at i:64801399 original size:28 final size:30
Alignment explanation
Indices: 64801341--64801399 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 30
64801331 CGATAGATCT
** *
64801341 TAAATTATATAAATTTAAATTTTATAAATA
1 TAAATTATATAAATTTAAACATAATAAATA
*
64801371 TAAA-TAT-TAAATTTAAACATAATATATA
1 TAAATTATATAAATTTAAACATAATAAATA
64801399 T
1 T
64801400 TTGAATCGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 18 0.72
29 3 0.12
30 4 0.16
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
TAAATTATATAAATTTAAACATAATAAATA
Found at i:64814632 original size:49 final size:50
Alignment explanation
Indices: 64814555--64814798 Score: 278
Period size: 49 Copynumber: 4.9 Consensus size: 50
64814545 TATTGTGAGA
* *
64814555 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTAGG
* *** ** * *
64814604 TCGCATGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAA-TTAGG
* **
64814655 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAATTAGG
**
64814705 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTAGG
** * *
64814754 TTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAGATAA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAA
64814799 CCTTGTCTAC
Statistics
Matches: 161, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
49 79 0.49
50 46 0.29
51 36 0.22
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTAGG
Found at i:64815183 original size:18 final size:18
Alignment explanation
Indices: 64815162--64815197 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
64815152 CAGGGGGAGC
64815162 AAAAGAGTTCTATATTAT
1 AAAAGAGTTCTATATTAT
64815180 AAAAGAGTTCTATATTAT
1 AAAAGAGTTCTATATTAT
64815198 GTGATATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (18 bp):
AAAAGAGTTCTATATTAT
Found at i:64817467 original size:39 final size:40
Alignment explanation
Indices: 64817424--64817591 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
64817414 CTCGTTCAAG
* * * *
64817424 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
64817463 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
64817503 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
64817543 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
64817583 TGCCTTCGG
1 TGCCTTCGG
64817592 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:64817575 original size:80 final size:80
Alignment explanation
Indices: 64817459--64817644 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
64817449 AGTAACTCAT
* * *
64817459 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
64817523 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
64817538 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
64817602 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
64817619 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
64817645 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:64817604 original size:40 final size:40
Alignment explanation
Indices: 64817461--64817644 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
64817451 TAACTCATAC
* *
64817461 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
64817501 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
64817541 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
64817581 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
64817622 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
64817645 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:64823113 original size:20 final size:20
Alignment explanation
Indices: 64823072--64823114 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
64823062 AAAGGAAGCA
* *
64823072 AAAGAAGAAAAATAAAATGG
1 AAAGAAAAAAAAGAAAATGG
64823092 AAAGAAAAAGAAAGAAAA-GG
1 AAAGAAAAA-AAAGAAAATGG
64823112 AAA
1 AAA
64823115 ATGGGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (20 bp):
AAAGAAAAAAAAGAAAATGG
Found at i:64823115 original size:27 final size:24
Alignment explanation
Indices: 64823071--64823130 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 24
64823061 GAAAGGAAGC
*
64823071 AAAAG-AAGAAAAATAAAATGGAAAGA
1 AAAAGAAAGAAAAAGAAAATGG---GA
*
64823097 AAAAGAAAGAAAAGGAAAATGGGA
1 AAAAGAAAGAAAAAGAAAATGGGA
64823121 AAAAGAAAGA
1 AAAAGAAAGA
64823131 GGAAGGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 12 0.39
26 5 0.16
27 14 0.45
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (24 bp):
AAAAGAAAGAAAAAGAAAATGGGA
Found at i:64827716 original size:25 final size:25
Alignment explanation
Indices: 64827688--64827742 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
64827678 AATTGTTTTT
* *
64827688 GATAGTATATCCTAAAACTGCTATA
1 GATAGTATATACTAAAACTACTATA
* *
64827713 GATAGTATATACTGAGACTACTATA
1 GATAGTATATACTAAAACTACTATA
64827738 GATAG
1 GATAG
64827743 ACTGCATTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (25 bp):
GATAGTATATACTAAAACTACTATA
Found at i:64839198 original size:3 final size:3
Alignment explanation
Indices: 64839190--64839216 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
64839180 AATAGGGACT
64839190 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
64839217 AGAGCTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:64851901 original size:39 final size:39
Alignment explanation
Indices: 64851846--64851938 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
64851836 GTGTTTGAGA
*
64851846 TAGAAAAATATCCGGACATGAGATCCGCAGGCTATATGC
1 TAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGC
* * * *
64851885 TAGAAATATATTCGGACTTGAGGTCCGCAGGCTACATGC
1 TAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGC
64851924 TAGAAAAATATCCGG
1 TAGAAAAATATCCGG
64851939 GTTAAAGACC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (39 bp):
TAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGC
Found at i:64859297 original size:39 final size:39
Alignment explanation
Indices: 64859231--64859321 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
64859221 GTGTTTGAGA
*
64859231 TAGAAAAATATCCGGACATGAGATCCGCAGGCTATATGC
1 TAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGC
* * * * *
64859270 TTGAAATATATCCGGACTTGAGGTCCGCAGGCTGCATGC
1 TAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGC
64859309 TAGAAAAATATCC
1 TAGAAAAATATCC
64859322 CGGTTAAAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (39 bp):
TAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGC
Found at i:64867790 original size:42 final size:41
Alignment explanation
Indices: 64867671--64867832 Score: 180
Period size: 42 Copynumber: 3.8 Consensus size: 41
64867661 CCGTACCAAT
* * *
64867671 GCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGAC
1 GCCATAT-CCAGATATGGTCTTACACGAAATCTCATATCGAC
* * * *
64867713 GCCAATAGTCCAGCTATGGTCTTACACGAAGTCTCATATAGAT
1 GCC-ATA-TCCAGATATGGTCTTACACGAAATCTCATATCGAC
* *
64867756 GCCATATCTCAGATATAGTCTTACACGAAATCTCATACCGAC
1 GCCATATC-CAGATATGGTCTTACACGAAATCTCATATCGAC
* *
64867798 ACCATATGCCAGATATGGTCTTACACGTAATCTCA
1 GCCATAT-CCAGATATGGTCTTACACGAAATCTCA
64867833 ACTAACCCTA
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.02
42 63 0.63
43 34 0.34
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (41 bp):
GCCATATCCAGATATGGTCTTACACGAAATCTCATATCGAC
Found at i:64868772 original size:30 final size:30
Alignment explanation
Indices: 64868728--64868816 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
64868718 CAAAGATAAC
64868728 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
64868757 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
64868787 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
64868817 CGATACTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 35 0.73
31 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:64868776 original size:15 final size:15
Alignment explanation
Indices: 64868728--64868807 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
64868718 CAAAGATAAC
*
64868728 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
64868742 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
64868757 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
64868772 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
64868787 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
64868802 AAGAAA
1 AAGAAA
64868808 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:64868816 original size:15 final size:15
Alignment explanation
Indices: 64868739--64868816 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
64868729 AGAAAACCGA
*
64868739 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
64868754 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
64868768 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
64868783 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
64868799 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
64868814 ATA
1 ATA
64868817 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:64871859 original size:93 final size:93
Alignment explanation
Indices: 64871751--64871923 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
64871741 CGCCCATAAG
* ** *
64871751 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
64871816 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
64871844 CGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
64871909 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
64871924 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:64871919 original size:46 final size:46
Alignment explanation
Indices: 64871744--64871922 Score: 211
Period size: 46 Copynumber: 3.9 Consensus size: 46
64871734 TGTAACCCGC
* *
64871744 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* *
64871790 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATG-CTCG---CAT
* * * *
64871840 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* *
64871883 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGC
64871923 CCAAATATCC
Statistics
Matches: 112, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 70 0.62
47 30 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
Found at i:64875174 original size:28 final size:25
Alignment explanation
Indices: 64875129--64875238 Score: 78
Period size: 28 Copynumber: 4.0 Consensus size: 25
64875119 GCTGCACAAT
*
64875129 CGATGTCTT-GCACGCTAAGTGCTATAC
1 CGATGT-TTCGCACACTAAGTGC-AT-C
64875156 CAGATGTTTCGCACACTAAGTGCCATCC
1 C-GATGTTTCGCACACTAAGTG-CAT-C
** *
64875184 TCGATACTTCGCACACTAAGTTGCATTT
1 -CGATGTTTCGCACACTAAG-TGCA-TC
64875212 CGTATGTTTCGCACACTAAGTGTCATC
1 CG-ATGTTTCGCACACTAAGTG-CATC
64875239 ATCAATACTT
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
27 8 0.12
28 54 0.81
29 5 0.07
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (25 bp):
CGATGTTTCGCACACTAAGTGCATC
Found at i:64875298 original size:54 final size:55
Alignment explanation
Indices: 64875158--64875311 Score: 197
Period size: 54 Copynumber: 2.8 Consensus size: 55
64875148 TGCTATACCA
* *
64875158 GATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTTGCATTTCG
1 GATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACT-AGTTGCATTTCG
* * * *
64875214 TATGTTTCGCACACTAAGTGTCATCATCAATACTTCATACACT-G-TGTCATTTCG
1 GATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAGTTG-CATTTCG
*
64875268 GATGTCTT-GCACACTAAGTGCCATCCTCAATACTTCGCACACTA
1 GATGT-TTCGCACACTAAGTGCCATCCTCAATACTTCACACACTA
64875312 AGTGCCGTTC
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
53 2 0.02
54 43 0.51
55 2 0.02
56 37 0.44
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (55 bp):
GATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAGTTGCATTTCG
Found at i:64875316 original size:28 final size:28
Alignment explanation
Indices: 64875163--64875317 Score: 115
Period size: 28 Copynumber: 5.6 Consensus size: 28
64875153 TACCAGATGT
*
64875163 TTCGCACACTAAGTGCCATCCTCGATAC
1 TTCGCACACTAAGTGCCATCCTCAATAC
* * **
64875191 TTCGCACACTAAGTTG-CAT-TTCGTATGT
1 TTCGCACACTAAG-TGCCATCCTC-AATAC
* *
64875219 TTCGCACACTAAGTGTCATCATCAATAC
1 TTCGCACACTAAGTGCCATCCTCAATAC
** * * * *
64875247 TTCATACACT--GTGTCAT-TTCGGATGTC
1 TTCGCACACTAAGTGCCATCCTC-AAT-AC
64875274 TT-GCACACTAAGTGCCATCCTCAATAC
1 TTCGCACACTAAGTGCCATCCTCAATAC
64875301 TTCGCACACTAAGTGCC
1 TTCGCACACTAAGTGCC
64875318 GTTCGTTTGG
Statistics
Matches: 98, Mismatches: 19, Indels: 20
0.72 0.14 0.15
Matches are distributed among these distances:
25 2 0.02
26 14 0.14
27 10 0.10
28 66 0.67
29 6 0.06
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCAATAC
Found at i:64878369 original size:51 final size:51
Alignment explanation
Indices: 64878287--64878386 Score: 121
Period size: 52 Copynumber: 2.0 Consensus size: 51
64878277 ATGAACAAAT
* *
64878287 GAGTTACTTAATACATGACATAACTTAATGATGTAAACTTTAACTAACATAG
1 GAGTTACATAATACATGACATAACTTAATGATGCAAAC-TTAACTAACATAG
* * * * *
64878339 GAGTTACATAATGCATGTCATCA-TTTATGATGCAAACTTAAGTAACAT
1 GAGTTACATAATACATGACATAACTTAATGATGCAAACTTAACTAACAT
64878387 GATGTCTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 10 0.24
51 12 0.29
52 19 0.46
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (51 bp):
GAGTTACATAATACATGACATAACTTAATGATGCAAACTTAACTAACATAG
Found at i:64885690 original size:12 final size:12
Alignment explanation
Indices: 64885673--64885697 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64885663 ATCTTTTTAA
64885673 TTTTATAAATAT
1 TTTTATAAATAT
64885685 TTTTATAAATAT
1 TTTTATAAATAT
64885697 T
1 T
64885698 ATATATGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTATAAATAT
Found at i:64896220 original size:40 final size:40
Alignment explanation
Indices: 64896159--64896331 Score: 177
Period size: 40 Copynumber: 4.3 Consensus size: 40
64896149 ACATGGATCT
* * * *
64896159 ACCGTTGTGCTATCAGGAGTACAAAAGTACAGTCAGGAGC
1 ACCGTTGTGCTATTAGGAGTACAAAAGTACGGTTAAGAGC
*
64896199 ACCGTTGTGCTATTAGTAGTACAAAAGTACGGTTAAGAGC
1 ACCGTTGTGCTATTAGGAGTACAAAAGTACGGTTAAGAGC
* * * * *
64896239 ATTC-TTGAGCTATTAGGAGTACGAAAGTATGGTTAGGAGC
1 A-CCGTTGTGCTATTAGGAGTACAAAAGTACGGTTAAGAGC
** ** **
64896279 ATTGTTGTGCTATTAGGAGTATGAAAGTATTGTTAAGAGC
1 ACCGTTGTGCTATTAGGAGTACAAAAGTACGGTTAAGAGC
*
64896319 ACCGTAGTGCTAT
1 ACCGTTGTGCTAT
64896332 CAAGAGCACT
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 110 0.98
41 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (40 bp):
ACCGTTGTGCTATTAGGAGTACAAAAGTACGGTTAAGAGC
Found at i:64896331 original size:80 final size:80
Alignment explanation
Indices: 64896159--64896333 Score: 199
Period size: 80 Copynumber: 2.2 Consensus size: 80
64896149 ACATGGATCT
*
64896159 ACCGTTGTGCTATCAGGAGTACAAAAGTACAGTCAGGAGCACCGTTGTGCTATTAGTAGTACAAA
1 ACCGTTGTGCTATCAGGAGTACAAAAGTACAGTCAGGAGCACCGTTGTGCTATTAGGAGTACAAA
64896224 AGTACGGTTAAGAGC
66 AGTACGGTTAAGAGC
* * * * ** * ** **
64896239 ATTC-TTGAGCTATTAGGAGTACGAAAGTATGGTTAGGAGCATTGTTGTGCTATTAGGAGTATGA
1 A-CCGTTGTGCTATCAGGAGTACAAAAGTACAGTCAGGAGCACCGTTGTGCTATTAGGAGTACAA
**
64896303 AAGTATTGTTAAGAGC
65 AAGTACGGTTAAGAGC
*
64896319 ACCGTAGTGCTATCA
1 ACCGTTGTGCTATCA
64896334 AGAGCACTTA
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
79 1 0.01
80 73 0.97
81 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (80 bp):
ACCGTTGTGCTATCAGGAGTACAAAAGTACAGTCAGGAGCACCGTTGTGCTATTAGGAGTACAAA
AGTACGGTTAAGAGC
Found at i:64897968 original size:24 final size:24
Alignment explanation
Indices: 64897936--64898035 Score: 146
Period size: 24 Copynumber: 4.0 Consensus size: 24
64897926 TGACATTGCG
* *
64897936 CTAAGTGAAATAAGACTATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
64897960 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
64897987 GCTAAGTGAAATAAGTCCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
64898012 CTAAGTGAAATAAGTCCATGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
64898036 TGTGCTAAGT
Statistics
Matches: 70, Mismatches: 2, Indels: 8
0.88 0.03 0.10
Matches are distributed among these distances:
24 44 0.63
25 2 0.03
27 2 0.03
28 22 0.31
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:64898001 original size:52 final size:52
Alignment explanation
Indices: 64897935--64898047 Score: 199
Period size: 52 Copynumber: 2.2 Consensus size: 52
64897925 ATGACATTGC
*
64897935 GCTAAGTGAAATAAGACTATGGCATCTAAGTGAAATAAGTCCATGGCAATGT
1 GCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGT
* *
64897987 GCTAAGTGAAATAAGTCCATGGCATCTAAGTGAAATAAGTCCATGGCATTGT
1 GCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGT
64898039 GCTAAGTGA
1 GCTAAGTGA
64898048 GAAATTTCCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (52 bp):
GCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCCATGGCAATGT
Found at i:64898126 original size:51 final size:51
Alignment explanation
Indices: 64898071--64898321 Score: 353
Period size: 51 Copynumber: 4.9 Consensus size: 51
64898061 TGAACCTTAG
* *
64898071 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCATTTTTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* **
64898122 GAATATAATAGCTTTGGACACAAGTGT-GTGACTATGTGAACACCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGT-ACTATGTGAAGGCCACTTTGT
* * * *
64898173 GAATATAATAGCTTTGGACACAAGTGTGGTACTATATGAAGGCCACTATAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
64898224 GAATAAAATAGCTTTGCATACAAGTGTGGTACTATGTGAAGGACACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
64898275 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACT
64898322 GTGTATCCGT
Statistics
Matches: 176, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 2 0.01
51 172 0.98
52 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:64901896 original size:30 final size:30
Alignment explanation
Indices: 64901860--64901920 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
64901850 CATTTAATAC
*
64901860 AAACTTTGGAAAAATTACATTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
64901890 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
64901920 A
1 A
64901921 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:64908024 original size:14 final size:14
Alignment explanation
Indices: 64908005--64908031 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
64907995 ACAGGGGATC
64908005 CAGAAATCACTCTG
1 CAGAAATCACTCTG
64908019 CAGAAATCACTCT
1 CAGAAATCACTCT
64908032 AGCCCTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.30, G:0.11, T:0.22
Consensus pattern (14 bp):
CAGAAATCACTCTG
Found at i:64912817 original size:27 final size:28
Alignment explanation
Indices: 64912787--64912850 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 28
64912777 CTACTGCTCA
*
64912787 TTCAGAGTTCGCCATACATACTATC-CC
1 TTCAGAGTTCGCCACACATACTATCTCC
*
64912814 TTCAGTGTTCGCCACACATACTATCTCC
1 TTCAGAGTTCGCCACACATACTATCTCC
64912842 TT-AGAGTTC
1 TTCAGAGTTC
64912851 ATTGGGAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.33
Consensus pattern (28 bp):
TTCAGAGTTCGCCACACATACTATCTCC
Found at i:64914353 original size:21 final size:20
Alignment explanation
Indices: 64914329--64914376 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
64914319 GATGACTTTT
64914329 AAATAATTTTTTATTAAGTAA
1 AAAT-ATTTTTTATTAAGTAA
*
64914350 AAATA--TTTTAATAAGTAA
1 AAATATTTTTTATTAAGTAA
64914368 AAATATTTT
1 AAATATTTT
64914377 ATTAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 17 0.71
20 3 0.12
21 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
AAATATTTTTTATTAAGTAA
Found at i:64914364 original size:18 final size:18
Alignment explanation
Indices: 64914337--64914377 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
64914327 TTAAATAATT
*
64914337 TTTTATTAAGTAAAAATA
1 TTTTAATAAGTAAAAATA
64914355 TTTTAATAAGTAAAAATA
1 TTTTAATAAGTAAAAATA
64914373 TTTTA
1 TTTTA
64914378 TTAATTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
TTTTAATAAGTAAAAATA
Found at i:64918963 original size:40 final size:40
Alignment explanation
Indices: 64918926--64919110 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
64918916 GCTACTCGTT
*
64918926 CAAATGCCTTCGGGACATAGCCCGG-TTATAGGAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGGAACTCGCA
* *
64918966 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGGAACTCGCA
* * *
64919006 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGGAACTCGCA
* * * *
64919045 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGG-AAC-TCGCA
64919086 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64919111 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 76 0.61
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGGAACTCGCA
Found at i:64919043 original size:79 final size:82
Alignment explanation
Indices: 64918926--64919110 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
64918916 GCTACTCGTT
* *
64918926 CAAATGCCTTCGGGACATAGCCCGG-TTATAGGAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGGAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
64918989 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
64919006 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGGAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
64919069 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
64919086 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64919111 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGGAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:64929800 original size:27 final size:27
Alignment explanation
Indices: 64929778--64930066 Score: 303
Period size: 27 Copynumber: 10.7 Consensus size: 27
64929768 TTAGTTTACC
64929778 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
64929805 AAATTACTAAAATACTCTTAGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
64929832 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
** * **
64929859 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
64929886 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * *
64929913 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
64929940 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
64929967 AAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* **
64929994 AAATTACTAAAATACCCCTA-TAAGGTA
1 AAATTACCAAAATACCCCTAGT-TTGTA
* * * **
64930021 GAATTACTAGAATACCCCTA-TAGGGTA
1 AAATTACCAAAATACCCCTAGT-TTGTA
*
64930048 AAATTACCGAAATACCCCT
1 AAATTACCAAAATACCCCT
64930067 GTAGGGTAGA
Statistics
Matches: 223, Mismatches: 38, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 222 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:64929843 original size:54 final size:54
Alignment explanation
Indices: 64929778--64930013 Score: 373
Period size: 54 Copynumber: 4.4 Consensus size: 54
64929768 TTAGTTTACC
* *
64929778 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACTCTTAGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
64929832 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
64929886 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
64929940 AAATCACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
64929994 AAATTACTAAAATACCCCTA
1 AAATTACCAAAATACCCCTA
64930014 TAAGGTAGAA
Statistics
Matches: 167, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 167 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:64929915 original size:81 final size:81
Alignment explanation
Indices: 64929778--64930012 Score: 344
Period size: 81 Copynumber: 2.9 Consensus size: 81
64929768 TTAGTTTACC
* * * * *
64929778 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACTCTTAGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAA
*
64929843 ATACCCCTGGTTTGTA
66 ATACCCCTGGTTTATA
** * ** *
64929859 AAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAA
*
64929924 ATACCCTTGGTTTATA
66 ATACCCCTGGTTTATA
*
64929940 AAATCACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAA
64930005 ATACCCCT
66 ATACCCCT
64930013 ATAAGGTAGA
Statistics
Matches: 133, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 133 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAA
ATACCCCTGGTTTATA
Found at i:64930026 original size:54 final size:54
Alignment explanation
Indices: 64929885--64930433 Score: 489
Period size: 54 Copynumber: 10.2 Consensus size: 54
64929875 ATTGGTTTAC
** * * ***
64929885 AAAATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCTTGGT-TTAT
1 AAAATTACCAAAATACCCCT-GTAGGGTAGAATTACTAAAATACCCCT-GTAGGGT
* ** * **
64929939 AAAATCACCAAAATACCCCTAGT-TTGTAAAATTACTAAAATACCCCTGGT-TTGT
1 AAAATTACCAAAATACCCCT-GTAGGGTAGAATTACTAAAATACCCCT-GTAGGGT
* * * * *
64929993 AAAATTACTAAAATACCCCTATAAGGTAGAATTACTAGAATACCCCTATAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGT
* ***
64930047 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGGAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGT
* ** ** *
64930101 AAAATTATCGGAATACCCCTGTAGGGTAGAATTACTGGAATACCCCTATAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGT
* ** * * * ** *
64930155 AGAATTACCGGAATATCCCTGTAAGGTAGAATTATTGCAACACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGT
* * *
64930209 AGAATTACCGAAATACCCCTGTAGGGTAGAATTA-TCGAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACT-AAAATACCCCTGTAGGGT
* * * ** *
64930263 AGAATTACAAAAATACCCCTGTAGGGTAGAATTGCCGAAATACCCTTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGT
** * ** *
64930317 AAAATTACTGAAATACCCTTGTAGGGTAGAATTA-TCGCAATACCCCAGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACT-AAAATACCCCTGTAGGGT
* * *
64930371 AGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGT
**
64930425 GGAATTACC
1 AAAATTACC
64930434 GAGATACCTT
Statistics
Matches: 429, Mismatches: 60, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
53 3 0.01
54 425 0.99
55 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGT
Found at i:64930071 original size:27 final size:27
Alignment explanation
Indices: 64930003--64930441 Score: 547
Period size: 27 Copynumber: 16.3 Consensus size: 27
64929993 AAAATTACTA
* * *
64930003 AAATACCCCTATAAGGTAGAATTA-CT
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
64930029 AGAATACCCCTATAGGGTAAAATTACCG
1 A-AATACCCCTGTAGGGTAGAATTACCG
64930057 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
64930084 GAATACCCCTGTAGGGTAAAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
64930111 GAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
64930138 GAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * **
64930165 GAATATCCCTGTAAGGTAGAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
64930192 CAACACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
64930219 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
64930246 AAATACCCCTGTAGGGTAGAATTACAA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
64930273 AAATACCCCTGTAGGGTAGAATTGCCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
64930300 AAATACCCTTGTAGGGTAAAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
64930327 AAATACCCTTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
64930354 CAATACCCCAGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
64930381 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
64930408 AAATACCCCTGTAGGGTGGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
64930435 AGATACC
1 AAATACC
64930442 TTATGGGGTA
Statistics
Matches: 357, Mismatches: 54, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 354 0.99
28 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:64930875 original size:22 final size:21
Alignment explanation
Indices: 64930823--64930887 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
64930813 TTAAAGCCTT
*
64930823 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTTT-TGCCAAC
*
64930845 CT-ACATATGGCTCTTTGCCAAC
1 CTGA-TTATGGCT-TTTGCCAAC
*
64930867 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCT-TTTGCCAA
64930888 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.03
22 31 0.89
23 3 0.09
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (21 bp):
CTGATTATGGCTTTTGCCAAC
Found at i:64931077 original size:27 final size:27
Alignment explanation
Indices: 64931046--64931147 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
64931036 ATTCTGTTAA
*
64931046 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
* *
64931073 CTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTTTGCCAC-AATATCTGTTTCTG
* *
64931100 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
* *
64931127 GTGACTTTGTCACAATATCTG
1 GTGGCTTTGCCACAATATCTG
64931148 ATAACTGAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.12
27 49 0.77
28 7 0.11
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTTTGCCACAATATCTGTTTCTG
Found at i:64931335 original size:31 final size:31
Alignment explanation
Indices: 64931284--64931364 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
64931274 TTGCATTCAC
* *
64931284 ATTCTGATTTTTAATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTA
64931316 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
*
64931347 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
64931365 ATTCTGTCAC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 39 0.85
32 7 0.15
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTA
Found at i:64931388 original size:6 final size:6
Alignment explanation
Indices: 64931307--64931370 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
64931297 ATTCTGTTAC
* * * *
64931307 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTAATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
64931356 CTGATT CTGATT CTG
1 CTGATT CTGATT CTG
64931371 TCACCTAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
5 2 0.04
6 42 0.88
7 3 0.06
8 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:64931388 original size:37 final size:37
Alignment explanation
Indices: 64931307--64931397 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 37
64931297 ATTCTGTTAC
* * * *
64931307 CTGATACTGATTCTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGATTCTGATTCTGTCACCTAATA
* *
64931344 CTAATTCTGATTCTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTGATTCTGTCACCTAATA
64931381 CTGATTCT-AGTTCTGAT
1 CTGATTCTGA-TTCTGAT
64931398 AATGTTTCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
36 1 0.02
37 45 0.98
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGATTCTGTCACCTAATA
Found at i:64938945 original size:13 final size:13
Alignment explanation
Indices: 64938929--64938974 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
64938919 AAAATAATTC
64938929 TCAAAAGCACTTT
1 TCAAAAGCACTTT
* *
64938942 TCAATATCACTTT
1 TCAAAAGCACTTT
* *
64938955 TTAAGAGCACTTT
1 TCAAAAGCACTTT
64938968 TCAAAAG
1 TCAAAAG
64938975 TAATACTAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (13 bp):
TCAAAAGCACTTT
Found at i:64942928 original size:18 final size:18
Alignment explanation
Indices: 64942905--64942940 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
64942895 TTCCCGGGTG
64942905 ATAGTCATTTATCAGCTC
1 ATAGTCATTTATCAGCTC
* *
64942923 ATAGTCCTTTATTAGCTC
1 ATAGTCATTTATCAGCTC
64942941 TAACCACCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (18 bp):
ATAGTCATTTATCAGCTC
Found at i:64963145 original size:15 final size:17
Alignment explanation
Indices: 64963125--64963157 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
64963115 GGAGTTTTGG
64963125 GTTTTC-TTATG-TTTT
1 GTTTTCTTTATGCTTTT
64963140 GTTTTCTTTATGCTTTT
1 GTTTTCTTTATGCTTTT
64963157 G
1 G
64963158 AGATGTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.06, C:0.09, G:0.15, T:0.70
Consensus pattern (17 bp):
GTTTTCTTTATGCTTTT
Found at i:64986285 original size:70 final size:70
Alignment explanation
Indices: 64986139--64986287 Score: 217
Period size: 70 Copynumber: 2.1 Consensus size: 70
64986129 TAGTCGTTTA
* * * *
64986139 ACGATAATTGTGCCCAGCACTAGTCGAACGAGTTGACAAATTATTGCGCCAAGCGCTAGCCGGAT
1 ACGATAGTTGTGCCCAGCACTAGTCGAACAAGTTGACAAATTATTGCGCCAAGCACTAGCCGCAT
64986204 AACCG
66 AACCG
* * * *
64986209 ATGATAGTTGTGCCCAGCACTAGTCGAACAAGTTGGCAAATTATTGCGCCCAGCACTAGTCGCAT
1 ACGATAGTTGTGCCCAGCACTAGTCGAACAAGTTGACAAATTATTGCGCCAAGCACTAGCCGCAT
*
64986274 AATCG
66 AACCG
64986279 ACGATAGTT
1 ACGATAGTT
64986288 ACTCATCCAC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (70 bp):
ACGATAGTTGTGCCCAGCACTAGTCGAACAAGTTGACAAATTATTGCGCCAAGCACTAGCCGCAT
AACCG
Found at i:64986428 original size:36 final size:36
Alignment explanation
Indices: 64986347--64986418 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
64986337 TCATATAAAT
*
64986347 ACATATACTTCCATAAACTTCCATTCAATTGAATTA
1 ACATATACATCCATAAACTTCCATTCAATTGAATTA
*
64986383 ACATATACATCCATAAACTTTCATTCAATTGAATTA
1 ACATATACATCCATAAACTTCCATTCAATTGAATTA
64986419 GCAATTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.36
Consensus pattern (36 bp):
ACATATACATCCATAAACTTCCATTCAATTGAATTA
Found at i:64989649 original size:33 final size:34
Alignment explanation
Indices: 64989556--64989651 Score: 110
Period size: 33 Copynumber: 2.9 Consensus size: 34
64989546 CATGGCATCT
* *
64989556 ACAAAGTAAA-TCCATCAGGACAGTAAACACGAA
1 ACAAAGTAAAGTCCATCGGGACAGTAAACACAAA
* *
64989589 ACAAAGT-AAGTCTA-CTGGGATAGTAAACACAAA
1 ACAAAGTAAAGTCCATC-GGGACAGTAAACACAAA
*
64989622 AC-AAGTAAAGTCCATCGGGACATTAAACAC
1 ACAAAGTAAAGTCCATCGGGACAGTAAACAC
64989652 GGGCTCTGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
32 7 0.13
33 44 0.85
34 1 0.02
ACGTcount: A:0.48, C:0.20, G:0.17, T:0.16
Consensus pattern (34 bp):
ACAAAGTAAAGTCCATCGGGACAGTAAACACAAA
Found at i:64990777 original size:22 final size:22
Alignment explanation
Indices: 64990752--64990794 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
64990742 ATATTTTAAA
*
64990752 AATATTTATATTATATTATTTT
1 AATATTAATATTATATTATTTT
* *
64990774 AATATTAATATTTTTTTATTT
1 AATATTAATATTATATTATTT
64990795 ATTAAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
AATATTAATATTATATTATTTT
Found at i:64990790 original size:17 final size:18
Alignment explanation
Indices: 64990758--64990812 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
64990748 TAAAAATATT
*
64990758 TATATT-ATATTATTTTA
1 TATATTAATATTTTTTTA
64990775 -ATATTAATATTTTTTTA
1 TATATTAATATTTTTTTA
* *
64990792 TTTATTAA-AATTTTTTA
1 TATATTAATATTTTTTTA
64990809 TATA
1 TATA
64990813 ATCATCTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 5 0.16
17 21 0.66
18 6 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATTAATATTTTTTTA
Found at i:64990799 original size:18 final size:18
Alignment explanation
Indices: 64990754--64990807 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
64990744 ATTTTAAAAA
* *
64990754 TATTTATATTATATTATTT
1 TATTTAT-TAATATTTTTT
*
64990773 TA-ATATTAATATTTTTT
1 TATTTATTAATATTTTTT
*
64990790 TATTTATTAAAATTTTTT
1 TATTTATTAATATTTTTT
64990808 ATATAATCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 11 0.38
18 16 0.55
19 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTATTAATATTTTTT
Found at i:64994977 original size:12 final size:12
Alignment explanation
Indices: 64994960--64994985 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64994950 TTCTACATGG
64994960 CTTACTGGACTA
1 CTTACTGGACTA
64994972 CTTACTGGACTA
1 CTTACTGGACTA
64994984 CT
1 CT
64994986 CTCTTTAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (12 bp):
CTTACTGGACTA
Found at i:64999604 original size:11 final size:11
Alignment explanation
Indices: 64999578--64999607 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
64999568 ATTATTCATT
*
64999578 TATTAATAAAA
1 TATTTATAAAA
64999589 TATTTATAAAA
1 TATTTATAAAA
64999600 TATTTATA
1 TATTTATA
64999608 TTAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATTTATAAAA
Found at i:65000004 original size:9 final size:9
Alignment explanation
Indices: 64999992--65000041 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
64999982 AAAATAATTT
64999992 TTTTAAAAA
1 TTTTAAAAA
65000001 TTTTAAAAA
1 TTTTAAAAA
* *
65000010 TATAGTAAAAT
1 T-T-TTAAAAA
65000021 TTTTAAAAAA
1 TTTT-AAAAA
65000031 TTTTAAAAA
1 TTTTAAAAA
65000040 TT
1 TT
65000042 AAATTAACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 18 0.53
10 10 0.29
11 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:65005941 original size:40 final size:41
Alignment explanation
Indices: 65005806--65005991 Score: 243
Period size: 41 Copynumber: 4.6 Consensus size: 41
65005796 TACTCGAATG
*
65005806 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
65005847 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
65005888 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * * * *
65005928 ATATCCAGGCTAAGTCCCAAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
65005968 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
65005992 CTTGTGTGAG
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 58 0.45
41 69 0.53
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:65005951 original size:81 final size:82
Alignment explanation
Indices: 65005808--65005961 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 82
65005798 CTCGAATGAT
* * * * *
65005808 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCAGGCTAAGTCCCAAAGGCAT
*
65005873 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
65005890 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCAGGCTAAGTCCCAAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCAGGCTAAGTCCCAAAGGCA
65005953 TTTATGCTA
65 TTTATGCTA
65005962 GTGACCATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 37 0.57
82 27 0.42
83 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCAGGCTAAGTCCCAAAGGCAT
TTATGCTAAGCGACTAC
Found at i:65008889 original size:21 final size:21
Alignment explanation
Indices: 65008865--65008967 Score: 152
Period size: 21 Copynumber: 4.9 Consensus size: 21
65008855 ATTGGGTGGA
** *
65008865 TCAGCTCTTGTGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
*
65008886 TCAGCTCTTACAAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
65008907 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
65008928 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
* *
65008949 TTAGCTCTTACAAGCTTCT
1 TCAGCTCTTACGAGCTTCT
65008968 ATTGGCGTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.16, C:0.26, G:0.17, T:0.41
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:65009715 original size:26 final size:26
Alignment explanation
Indices: 65009679--65009729 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
65009669 TGGTGAAATA
65009679 TGATAGACTAATTTTAAATAGTTTAT
1 TGATAGACTAATTTTAAATAGTTTAT
*
65009705 TGATAGACTAATTTTAAATGGTTTA
1 TGATAGACTAATTTTAAATAGTTTA
65009730 CTAGTGCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (26 bp):
TGATAGACTAATTTTAAATAGTTTAT
Found at i:65010874 original size:18 final size:18
Alignment explanation
Indices: 65010832--65010874 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
65010822 GCACATTCCG
*
65010832 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
65010850 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
65010868 AAGTATG
1 AAGTATG
65010875 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:65011354 original size:27 final size:28
Alignment explanation
Indices: 65011270--65011367 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
65011260 GTTGATCTCG
* * * *
65011270 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
65011299 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
65011327 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
65011354 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
65011368 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:65011378 original size:27 final size:27
Alignment explanation
Indices: 65011298--65011380 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
65011288 TAAATTGTAC
* *
65011298 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
65011326 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
65011353 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
65011380 A
1 A
65011381 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:65011381 original size:29 final size:27
Alignment explanation
Indices: 65011270--65011381 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
65011260 GTTGATCTCG
** * *
65011270 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
65011299 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
65011327 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
65011354 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
65011382 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:65024455 original size:56 final size:56
Alignment explanation
Indices: 65024369--65024656 Score: 576
Period size: 56 Copynumber: 5.1 Consensus size: 56
65024359 ACAAGGGATG
65024369 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
65024425 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
65024481 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
65024537 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
65024593 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
65024649 ATGGGCAA
1 ATGGGCAA
65024657 TAAACTAATA
Statistics
Matches: 232, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 232 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:65026848 original size:28 final size:28
Alignment explanation
Indices: 65026810--65026883 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
65026800 GTTCAAATTG
*
65026810 TATAGCACTAAGTGTGCGAGGTT-GATTA
1 TATAGCACTAAGTGTGCGA-GTTCGACTA
*
65026838 TATAGCACTAACTGTGCGAGTTCGACTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
65026866 T-TAAGCACTAAGTGTGCG
1 TAT-AGCACTAAGTGTGCG
65026884 GGCTTATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 4 0.10
28 37 0.90
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTCGACTA
Found at i:65028866 original size:79 final size:81
Alignment explanation
Indices: 65028730--65028912 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
65028720 TCGAATGATG
* *
65028730 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
65028794 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
65028809 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
65028871 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
65028889 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
65028913 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:65028928 original size:40 final size:40
Alignment explanation
Indices: 65028731--65028914 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
65028721 CGAATGATGT
* * * *
65028731 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
65028771 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
65028811 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65028849 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65028890 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
65028915 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:65028936 original size:79 final size:79
Alignment explanation
Indices: 65028783--65028947 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
65028773 GGACTAAGAT
* **
65028783 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
65028848 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
65028862 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
65028925 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
65028941 CCGAAGG
1 CCGAAGG
65028948 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:65032077 original size:39 final size:40
Alignment explanation
Indices: 65031963--65032147 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
65031953 GCTACTCGTT
*
65031963 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
65032003 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
65032043 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * * * * *
65032082 CAAATGCCTTC-GGATCTTAGTTCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
65032123 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65032148 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 75 0.61
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:65032131 original size:79 final size:81
Alignment explanation
Indices: 65031963--65032147 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
65031953 GCTACTCGTT
* * *
65031963 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
65032027 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* ***
65032044 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTTCA
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
* *
65032106 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
65032123 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
65032148 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCAC
Found at i:65033443 original size:85 final size:85
Alignment explanation
Indices: 65033314--65033832 Score: 1029
Period size: 85 Copynumber: 6.1 Consensus size: 85
65033304 TATTTTATTG
*
65033314 CCCATGCTCTTTATTTTATTAATCTTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
65033379 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
65033399 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
65033464 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
65033484 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
65033549 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
65033569 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
65033634 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
65033654 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
65033719 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
65033739 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
65033804 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
65033824 CCCATGCTC
1 CCCATGCTC
65033833 ATGGCCGGCC
Statistics
Matches: 433, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 433 1.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:65035329 original size:38 final size:38
Alignment explanation
Indices: 65035278--65035396 Score: 177
Period size: 38 Copynumber: 3.1 Consensus size: 38
65035268 TTAAGCTCAA
*
65035278 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
65035316 ATATAGTACCAGCACGAAGCCTGCGGGATTTAACCCGA
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
65035354 ATATAATACCAGCACGAAGCCTGC-GGACCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGA--TTTAA-CCCGG
65035394 ATA
1 ATA
65035397 CACATCAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
37 3 0.04
38 58 0.79
39 5 0.07
40 7 0.10
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:65035366 original size:76 final size:79
Alignment explanation
Indices: 65035230--65035396 Score: 207
Period size: 76 Copynumber: 2.1 Consensus size: 79
65035220 TAGGTTTAAA
* * * * *
65035230 AACCCGAATCTAGTCACTAGCACAAAACCTGCGGGACTTTAAGCTCAAATATAATACCAGCACTA
1 AACCCGGATATAGTCACCAGCACAAAACCTGCGGGACTTTAAGCCCAAATATAATACCAGCACGA
65035295 AGCCTGCGGGA-TTT
66 AGCCTGC-GGACTTT
* * *
65035309 AACCCGGATATAGT-ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGAATATAATACCAGCACGA
1 AACCCGGATATAGTCACCAGCACAAAACCTGCGGGACTTTAAGCCCAAATATAATACCAGCACGA
65035371 AGCCTGCGGACCTTT
66 AGCCTGCGGA-CTTT
65035386 AAGCCCGGATA
1 AA-CCCGGATA
65035397 CACATCAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
75 3 0.04
76 26 0.34
77 10 0.13
78 26 0.34
79 12 0.16
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (79 bp):
AACCCGGATATAGTCACCAGCACAAAACCTGCGGGACTTTAAGCCCAAATATAATACCAGCACGA
AGCCTGCGGACTTT
Found at i:65046921 original size:40 final size:40
Alignment explanation
Indices: 65046866--65046943 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
65046856 ATGGAACTCT
65046866 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTAC
1 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTAC
65046906 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCT
1 ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCT
65046944 GCAGTATAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (40 bp):
ATCTAAATTGGCAAAATAACTTATTTGCTTGAGTATCTAC
Found at i:65049421 original size:24 final size:24
Alignment explanation
Indices: 65049391--65049476 Score: 69
Period size: 24 Copynumber: 3.8 Consensus size: 24
65049381 AATAATAATT
65049391 TTATATTAA-AATTATTATTAAAAA
1 TTATATTAATAA-TATTATTAAAAA
*
65049415 TTATATTAATAATGTTATT--AAA
1 TTATATTAATAATATTATTAAAAA
* *
65049437 TTATA-T-ATTATTTTATT--AAA
1 TTATATTAATAATATTATTAAAAA
65049457 TTATATTTAATAATAATTAT
1 TTATA-TTAATAAT-ATTAT
65049477 GTTAAAATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
20 17 0.33
21 1 0.02
22 9 0.17
23 4 0.08
24 19 0.37
25 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (24 bp):
TTATATTAATAATATTATTAAAAA
Found at i:65049701 original size:44 final size:46
Alignment explanation
Indices: 65049632--65049717 Score: 131
Period size: 44 Copynumber: 1.9 Consensus size: 46
65049622 TTACAACATC
65049632 ATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTACTCT
1 ATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTCT
***
65049676 ATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTA
1 ATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTA
65049718 TTTCATTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 23 0.62
45 2 0.05
46 12 0.32
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTACTCT
Found at i:65049727 original size:16 final size:16
Alignment explanation
Indices: 65049706--65049760 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
65049696 TGAATTACTG
65049706 ATTACAGCTCTATTTC
1 ATTACAGCTCTATTTC
65049722 ATTACAGCTCTA-TTC
1 ATTACAGCTCTATTTC
* * *
65049737 AATTACAACCCTATTCC
1 -ATTACAGCTCTATTTC
65049754 ATTACAG
1 ATTACAG
65049761 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 3 0.09
16 28 0.85
17 2 0.06
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTTC
Found at i:65057742 original size:43 final size:44
Alignment explanation
Indices: 65057694--65057814 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 44
65057684 CATCGACTTA
* ** *
65057694 TGATTTACGTGTAAGACCATGTCTGAGACGTTGGCATTG-TTTT
1 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCACAGATATT
* *
65057737 TGATTT-CGTGTAAGACCCTGTCTGGGATAG-TGGCACAGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGA-CGTTGGCACAGATATT
* *
65057780 TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCA
65057815 ATGTATGAGC
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 28 0.44
43 36 0.56
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCACAGATATT
Found at i:65064099 original size:46 final size:46
Alignment explanation
Indices: 65064023--65064193 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 46
65064013 TAACCTGCCC
* * * *
65064023 ATAAGCGAACTCGGACTCAACGCAATGAGCTCAGGTGTTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGTGTTTGCATCT
*
65064069 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATGCCTAGTTACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-TG--T--TTGCATCT
* * * **
65064119 CA-CA---AACTTGGACTCAACTCAACGAGTTCAGACGTTTGCATCT
1 -ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGTGTTTGCATCT
* *
65064162 ATAAGTGAACTCGAACTCAAATCAACGAGCTC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC
65064194 GGATGCCTAG
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
45 3 0.03
46 52 0.53
47 24 0.24
48 2 0.02
50 7 0.07
51 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGTGTTTGCATCT
Found at i:65064135 original size:47 final size:47
Alignment explanation
Indices: 65064076--65064247 Score: 183
Period size: 47 Copynumber: 3.7 Consensus size: 47
65064066 TCTATAAGTG
65064076 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
* * * * * *
65064123 AACTTGGACTCAACTCAACGAGTTCAGA--CGT--TTGCATCT-ATAA
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA-CA
* * *
65064166 GTGAACTCGAACTCAAATCAACGAGCTCGGATGCCTAGTTACATCTCACG
1 ---AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
*
65064216 AACTCGGACTCAACTCAACGAGTTCGGATGCC
1 AACTCGGACTCAACTCAACGAGCTCGGATGCC
65064248 CAAATATCCG
Statistics
Matches: 98, Mismatches: 18, Indels: 18
0.73 0.13 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
45 2 0.02
46 23 0.23
47 54 0.55
48 2 0.02
50 7 0.07
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
Found at i:65064194 original size:93 final size:93
Alignment explanation
Indices: 65064030--65064240 Score: 332
Period size: 93 Copynumber: 2.3 Consensus size: 93
65064020 CCCATAAGCG
* * * ** * *
65064030 AACTCGGACTCAACGCAATGAGCTCAGGTGTTCGCATCTATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCTATAAGTGAACTCGAACTCAAATCAAC
65064095 GAGCTCGGATGCCTAGTTACATCTCACA
66 GAGCTCGGATGCCTAGTTACATCTCACA
* *
65064123 AACTTGGACTCAACTCAACGAGTTCAGACGTTTGCATCTATAAGTGAACTCGAACTCAAATCAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCTATAAGTGAACTCGAACTCAAATCAAC
*
65064188 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACA
65064216 AACTCGGACTCAACTCAACGAGTTC
1 AACTCGGACTCAACTCAACGAGTTC
65064241 GGATGCCCAA
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 107 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCTATAAGTGAACTCGAACTCAAATCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Found at i:65066346 original size:27 final size:28
Alignment explanation
Indices: 65066316--65066369 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
65066306 TGGCATTATA
65066316 GATCAA-GAAAAATGTGATACAGGTCTT
1 GATCAAGGAAAAATGTGATACAGGTCTT
* *
65066343 GATCAAGGGAAAAATTTGATAGAGGTC
1 GATCAA-GGAAAAATGTGATACAGGTC
65066370 ATTGTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
29 17 0.74
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (28 bp):
GATCAAGGAAAAATGTGATACAGGTCTT
Found at i:65068035 original size:40 final size:40
Alignment explanation
Indices: 65067998--65068263 Score: 335
Period size: 40 Copynumber: 6.7 Consensus size: 40
65067988 GCTACTCGTT
*
65067998 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
65068038 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
65068078 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
65068118 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
65068158 CAAACGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
65068198 CAAATGCCTTC-GGATCTTAGCCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
65068239 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65068264 CATCATTCAA
Statistics
Matches: 199, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
39 5 0.03
40 178 0.89
41 16 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:65068247 original size:120 final size:121
Alignment explanation
Indices: 65067998--65068263 Score: 369
Period size: 120 Copynumber: 2.2 Consensus size: 121
65067988 GCTACTCGTT
* *
65067998 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAACGCCTTCGGGACTTAACCCG
* * * *
65068062 GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGTA
66 GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTAGCA
* * **
65068118 CAAATGCCTTCGGGCCTTAACCCGGATT-TAGTAACTCGCACAAACGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAACGCCTTCGGGA-CTTAACCC
* * *
65068181 GGATTTAGTAACTCGTACAAATGCCTTCGGATCTTAGCCCGGATATGGTCACCTAGCA
65 GGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAGT-AACTAGCA
65068239 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65068264 CATCATTCAA
Statistics
Matches: 128, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
119 3 0.02
120 114 0.89
121 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAACGCCTTCGGGACTTAACCCG
GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTAGCA
Found at i:65070828 original size:12 final size:12
Alignment explanation
Indices: 65070808--65070841 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65070798 CTGATCGGTT
*
65070808 GGAGGGATTTTA
1 GGAGAGATTTTA
65070820 GGAGAGATTTTA
1 GGAGAGATTTTA
*
65070832 GGAGAAATTT
1 GGAGAGATTT
65070842 GTGGGGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (12 bp):
GGAGAGATTTTA
Found at i:65075872 original size:40 final size:39
Alignment explanation
Indices: 65075774--65075996 Score: 175
Period size: 40 Copynumber: 5.6 Consensus size: 39
65075764 TCCTCGTTCA
* * *
65075774 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACT-AGCAC
* * *
65075813 AATGCCTTCAGGACATAACCCGGATTTAATAACTAGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCAC
* * *
65075852 GAATGCCTTCGGGGCTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCAC
* * *
65075892 AAAGGCCTTCAGGG-CTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTC-GGGACTTAACCCGG-ATTTAGTAACTAGCAC
** * * *
65075932 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TAGCAC
* *
65075973 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
65075997 CAACATTCAA
Statistics
Matches: 153, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
38 3 0.02
39 36 0.24
40 99 0.65
41 15 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCAC
Found at i:65075943 original size:80 final size:79
Alignment explanation
Indices: 65075772--65075943 Score: 202
Period size: 80 Copynumber: 2.2 Consensus size: 79
65075762 GCTCCTCGTT
* * *
65075772 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCAGGACATAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCAGGACATAACCCGGA
65075837 TTTAATAACTAGCA
66 TTTAATAACTAGCA
* * * * * * *
65075851 CGAATGCCTTCGGGGCTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCAGGGCTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCAGGACATAACCCGG
* * *
65075916 AATTT-GTATCTCGCA
65 -ATTTAATAACTAGCA
65075931 CAAATGCCTTCGG
1 CAAATGCCTTCGG
65075944 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 34 0.44
80 39 0.51
81 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCAGGACATAACCCGGA
TTTAATAACTAGCA
Found at i:65076005 original size:41 final size:41
Alignment explanation
Indices: 65075928--65076005 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
65075918 TTTGTATCTC
* * *
65075928 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
65075969 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAACATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGA-AACATTCA
65076006 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 16 0.50
41 16 0.50
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGAAACATTCACTTA
Found at i:65090203 original size:55 final size:55
Alignment explanation
Indices: 65090117--65090225 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 55
65090107 GCACTTAAAA
* *
65090117 TTTAAGTCAGTGTTGTACACGGGCAGTCCACACGGGCATGTGCCATGGTCGTGTT
1 TTTAAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTT
* **
65090172 TTTAAGTCAGTGTTGTACATGGGCAGGCCACACGGGGGTGTGCCATGGCCGTGT
1 TTTAAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGT
65090226 ACTAAAGTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.17, C:0.21, G:0.34, T:0.28
Consensus pattern (55 bp):
TTTAAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTT
Found at i:65090239 original size:55 final size:55
Alignment explanation
Indices: 65090120--65090241 Score: 163
Period size: 55 Copynumber: 2.2 Consensus size: 55
65090110 CTTAAAATTT
* * ** *
65090120 AAGTCAGTGTTGTACACGGGCAGTCCACACGGGCATGTGCCATGGTCGTGTTTTT
1 AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTACTA
* **
65090175 AAGTCAGTGTTGTACATGGGCAGGCCACACGGGGGTGTGCCATGGCCGTGTACTA
1 AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTACTA
*
65090230 AAGTTAGTGTTG
1 AAGTCAGTGTTG
65090242 CACAGGGACT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.27
Consensus pattern (55 bp):
AAGTCAGTGTTGTACACGGGCAGGCCACACGGGCATGTGCCATGGCCGTGTACTA
Found at i:65106495 original size:40 final size:40
Alignment explanation
Indices: 65106387--65106586 Score: 237
Period size: 40 Copynumber: 5.0 Consensus size: 40
65106377 ATGATAACCA
* * * *
65106387 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCG
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCG
* * *
65106427 GGCTAAG-CCTGAAGGCAATT-GTGCGAGTTATTATATCCA
1 GGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATATCCG
*
65106466 GGCTAAGTCCCGAAGGCATTCGTGAGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCG
* *
65106506 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCG
* *
65106546 GGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCCG
65106586 G
1 G
65106587 TTAAATTCTG
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 32 0.23
40 106 0.77
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCG
Found at i:65106559 original size:80 final size:79
Alignment explanation
Indices: 65106380--65106586 Score: 265
Period size: 80 Copynumber: 2.6 Consensus size: 79
65106370 TATTCGGATG
* * * * *
65106380 ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAGCCTGAAGGCA
1 ATAACCAGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCGGGCTAAGCCCGAAGGCA
*
65106444 ATTGTGCGAGTTATT
65 ATTGTGCGAGTTACT
* *
65106459 ATATCCAGGCTAAGTCCCGAAGGCATTCGTGAGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCAGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCA
*
65106524 TTTGTGCGAGTTACT
65 ATTGTGCGAGTTACT
* * *
65106539 ATAACCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCGG
1 ATAACCAGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCCGG
65106587 TTAAATTCTG
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 48 0.43
80 63 0.57
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCAGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCGAAGGCAA
TTGTGCGAGTTACT
Found at i:65117983 original size:19 final size:17
Alignment explanation
Indices: 65117938--65117985 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
65117928 GAACAATAGA
65117938 ATAATAAGAAAAGTAAG
1 ATAATAAGAAAAGTAAG
* *
65117955 AAAAGGAAGATAAAGTAAG
1 ATAA-TAAGA-AAAGTAAG
65117974 ATAATAAAGAAA
1 ATAAT-AAGAAA
65117986 GTGGATTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.12
18 6 0.25
19 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (17 bp):
ATAATAAGAAAAGTAAG
Found at i:65119606 original size:291 final size:291
Alignment explanation
Indices: 65119082--65119655 Score: 1121
Period size: 291 Copynumber: 2.0 Consensus size: 291
65119072 ATAGATTCAA
*
65119082 TAAGATTTAATTCTATATCTCATTCATCATCTAATTCTATTTATACTATTCTTGGTGATTTTTCA
1 TAAGATTTAATTCTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCA
65119147 AGATCACGTCATTGTGGCTGTTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTT
66 AGATCACGTCATTGTGGCTGTTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTT
65119212 GTATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAATAGCT
131 GTATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAATAGCT
65119277 AATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTC
196 AATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTC
65119342 TAAGTCCCTATACATGCCATAAATATCTCAT
261 TAAGTCCCTATACATGCCATAAATATCTCAT
*
65119373 TAAGATTTAATTTTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCA
1 TAAGATTTAATTCTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCA
65119438 AGATCACGTCATTGTGGCTGTTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTT
66 AGATCACGTCATTGTGGCTGTTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTT
65119503 GTATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAATAGCT
131 GTATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAATAGCT
65119568 AATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTC
196 AATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTC
*
65119633 TAAGTCCCTATACATGTCATAAA
261 TAAGTCCCTATACATGCCATAAA
65119656 CTAGAACATT
Statistics
Matches: 280, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
291 280 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (291 bp):
TAAGATTTAATTCTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCA
AGATCACGTCATTGTGGCTGTTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTT
GTATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAATAGCT
AATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTC
TAAGTCCCTATACATGCCATAAATATCTCAT
Found at i:65120291 original size:53 final size:54
Alignment explanation
Indices: 65120210--65120409 Score: 204
Period size: 53 Copynumber: 3.7 Consensus size: 54
65120200 TTTCCATTTT
* * ** *
65120210 GAACTTACCATTGCCATATCTTGACATGGTCTTACGTGGTACCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTACCCTTGCCTTATA
* * *
65120263 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTACCCTTGCCTTATA
* * * * * ** *
65120317 GTAACTCATCAATTCCATGTCTTGATATGGTCTTACATGATTTCCTTACCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTACCCTTGCCTTATA
* * * *
65120372 GAACTTATCAATGCCATGCCTTGGCATGGTCTTCCATG
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATG
65120410 ATATCCTTAT
Statistics
Matches: 120, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 45 0.38
54 32 0.27
55 43 0.36
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTACCCTTGCCTTATA
Found at i:65120410 original size:54 final size:54
Alignment explanation
Indices: 65120229--65120423 Score: 205
Period size: 54 Copynumber: 3.6 Consensus size: 54
65120219 ATTGCCATAT
* * * * * *
65120229 CTTGACATGGTCTTACGTGGTACCCTTGCCTTAT-GAACTCACCAATGCCATGC
1 CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
** * * *
65120282 CTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATTCCATGT
1 CTTGGCATGGTCTTACATGATATCC-TTACCTTATAG-AACTCATCAATGCCATGC
** * *
65120337 CTTGATATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAATGCCATGC
1 CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
* *
65120391 CTTGGCATGGTCTTCCATGATATCCTTATCTTA
1 CTTGGCATGGTCTTACATGATATCCTTACCTTA
65120424 CCAAATGCCA
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 28 0.24
54 44 0.37
55 42 0.36
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
Done.