Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 106 of 255
Found at i:33312720 original size:50 final size:47
Alignment explanation
Indices: 33312665--33312787 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 47
33312655 TACATGATGT
* * *
33312665 GTCAGTATAAGACCATGTCTAGGACATGGCATCGGCACAGATATGTGGGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATC-G-ACAGA-ACGTGAGA
* **
33312715 GTCAGTGTAAGACCATGTTTAGGACATGGCATCGACTTAACGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACAGAACGTGAGA
33312762 GTCAGTGTAAGACCATGTCTAGGACA
1 GTCAGTGTAAGACCATGTCTAGGACA
33312788 CGGCGTTGAC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
47 31 0.47
48 3 0.05
49 1 0.02
50 31 0.47
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACAGAACGTGAGA
Found at i:33312785 original size:47 final size:46
Alignment explanation
Indices: 33312627--33312787 Score: 168
Period size: 50 Copynumber: 3.5 Consensus size: 46
33312617 TGTAAGCCAC
* * *
33312627 TGTAAGA-CATGTCTGGGACAT-GCATC-ACT-ACATGATGTGTCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGACTAACGTGA-GAGTCAG
* * * *
33312670 TATAAGACCATGTCTAGGACATGGCATCGGCACAGATATGTGGGAGTCAG
1 TGTAAGACCATGTCTAGGACATGGCATC-G-AC-TA-ACGTGAGAGTCAG
*
33312720 TGTAAGACCATGTTTAGGACATGGCATCGACTTAACGTGAGAGTCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGAC-TAACGTGAGAGTCAG
33312767 TGTAAGACCATGTCTAGGACA
1 TGTAAGACCATGTCTAGGACA
33312788 CGGCGTTGAC
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 13 0.14
45 5 0.05
47 31 0.32
48 5 0.05
49 1 0.01
50 32 0.33
51 3 0.03
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (46 bp):
TGTAAGACCATGTCTAGGACATGGCATCGACTAACGTGAGAGTCAG
Found at i:33325185 original size:5 final size:5
Alignment explanation
Indices: 33325175--33325202 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
33325165 TTGTGTGTTC
33325175 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
33325203 TCACAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:33327400 original size:20 final size:20
Alignment explanation
Indices: 33327363--33327401 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33327353 TAGATGCATA
*
33327363 ACAGAGGCACCAAAGTGCAG
1 ACAGAGGCACAAAAGTGCAG
33327383 ACAGAGGCA-AAAATGTGCA
1 ACAGAGGCACAAAA-GTGCA
33327402 AGCAAAGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.44, C:0.21, G:0.28, T:0.08
Consensus pattern (20 bp):
ACAGAGGCACAAAAGTGCAG
Found at i:33327438 original size:40 final size:41
Alignment explanation
Indices: 33327394--33327482 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 41
33327384 CAGAGGCAAA
*
33327394 AATGTGCAAGCAAAGGCACTGAAATGCAAACAGAGG-TGCG
1 AATGTGCAAGCAAAGGCACTGAAATGCAAACAGAGGCTCCG
*** * * * *
33327434 AATGTATGATCAGAGGCATTGAAGTGCAAACAGAGGCTCCG
1 AATGTGCAAGCAAAGGCACTGAAATGCAAACAGAGGCTCCG
33327475 AA-GTGCAA
1 AATGTGCAA
33327483 ATCTCGTACA
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
40 32 0.86
41 5 0.14
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.16
Consensus pattern (41 bp):
AATGTGCAAGCAAAGGCACTGAAATGCAAACAGAGGCTCCG
Found at i:33331861 original size:27 final size:27
Alignment explanation
Indices: 33331821--33331925 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
33331811 AGGAAGCGTC
*
33331821 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
33331848 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
33331875 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
33331903 CTAGTGACTCTGTCAC-ATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
33331926 ATTCTGGCAG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.04
27 48 0.71
28 17 0.25
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:33331931 original size:54 final size:54
Alignment explanation
Indices: 33331821--33331932 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
33331811 AGGAAGCGTC
* * * *
33331821 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTATT
* * *
33331875 CTGGTGGCTCTGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGCCACATATATCTATT
33331929 CTGG
1 CTGG
33331933 CAGCCATGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTATT
Found at i:33340388 original size:25 final size:24
Alignment explanation
Indices: 33340360--33340437 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 24
33340350 ATGCTCAATT
*
33340360 GAGCTGTAGATCGGTATGCTCTCAC
1 GAGCTATA-ATCGGTATGCTCTCAC
*
33340385 GAGCTATAAGTCGGTATGCTCTCAT
1 GAGCTATAA-TCGGTATGCTCTCAC
*
33340410 GAGCTATAAATCAGTATGCTCTCAC
1 GAGCTAT-AATCGGTATGCTCTCAC
33340435 GAG
1 GAG
33340438 TGGTCGAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.02
25 44 0.94
26 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
GAGCTATAATCGGTATGCTCTCAC
Found at i:33341721 original size:38 final size:38
Alignment explanation
Indices: 33341678--33341753 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
33341668 TTCATCCTTT
33341678 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
33341716 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
33341754 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:33343034 original size:40 final size:40
Alignment explanation
Indices: 33342940--33343084 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
33342930 TACTCGAATG
*
33342940 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
33342981 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
33343021 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
33343061 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
33343085 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:33349776 original size:38 final size:38
Alignment explanation
Indices: 33349733--33349808 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
33349723 TTCATCCTTT
33349733 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
33349771 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
33349809 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:33351088 original size:40 final size:40
Alignment explanation
Indices: 33350994--33351138 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
33350984 TACTCGAATG
*
33350994 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
33351035 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
33351075 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
33351115 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
33351139 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:33376444 original size:27 final size:26
Alignment explanation
Indices: 33376388--33376444 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
33376378 CAACCTTAAC
* * * *
33376388 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAACCAGTAATTTTCCA
*
33376414 CCTAGGGGTAAACCTGTAAATTTTCCA
1 CCTAGGGGTAAACCAGT-AATTTTCCA
33376441 CCTA
1 CCTA
33376445 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (26 bp):
CCTAGGGGTAAACCAGTAATTTTCCA
Found at i:33382675 original size:47 final size:45
Alignment explanation
Indices: 33382606--33382868 Score: 187
Period size: 46 Copynumber: 5.7 Consensus size: 45
33382596 GTTGTTGGCT
** *
33382606 AGTGTAAGACATGTCTAAGACAT-GCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATC-GCCACA-GATGAGAGCC
* *** *
33382652 AGTGAAAGACCATGTCTGGGACATGGCATCGGCTTTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATC-GC-CACAGATGAGAGCC
*
33382700 AGTGTAAGACATGTCTGGGACAT-GCATCGACCTCGAGACAT-A-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCG-CCAC-AG--ATGAGAGCC
* * * *
33382746 AATGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGATAG-T
1 AGTGTAAGACATGTCTGGGACATGGCATC-GCCAC-AGATGAGAGCC
* *** *
33382791 TGTGTAAGACCATGTCTGGGACATGGCATCGACTTTAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCG-CCACAGATGAGAGCC
*
33382838 AGTGTAAGACCATGTCTGGGACATAGCATCG
1 AGTGTAAGA-CATGTCTGGGACATGGCATCG
33382869 GTAACTTACC
Statistics
Matches: 177, Mismatches: 26, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
44 2 0.01
45 10 0.06
46 75 0.42
47 64 0.36
48 25 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGCCACAGATGAGAGCC
Found at i:33382754 original size:46 final size:46
Alignment explanation
Indices: 33382648--33382868 Score: 191
Period size: 46 Copynumber: 4.8 Consensus size: 46
33382638 ACATTATGAG
* * * * * *
33382648 AGCCAGTGAAAGACCATGTCTGGGACATGGCATCGGCTTTGAGATGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGAC-TCGAGA-CAT
*
33382696 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGA-CTCGAGACAT
* * *
33382741 AAGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT
1 -AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACT-CGAGA-CAT
** * ** **
33382788 AG-TTGTGTAAGACCATGTCTGGGACATGGCATCGACTTTAGATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTCGAGACAT
33382833 GAGCCAGTGTAAGACCATGTCTGGGACATAGCATCG
1 -AGCCAGTGTAAGACCATGTCTGGGACATAGCATCG
33382869 GTAACTTACC
Statistics
Matches: 144, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
45 11 0.08
46 68 0.47
47 54 0.38
48 11 0.08
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTCGAGACAT
Found at i:33389239 original size:23 final size:23
Alignment explanation
Indices: 33389209--33389258 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
33389199 CATACGTCCT
33389209 TGTGGAGGCAAAGCACACGCCCG
1 TGTGGAGGCAAAGCACACGCCCG
*
33389232 TGTGGAGGCAAAGCACACGCCTG
1 TGTGGAGGCAAAGCACACGCCCG
33389255 TGTG
1 TGTG
33389259 CTTGGGACAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.26, G:0.36, T:0.14
Consensus pattern (23 bp):
TGTGGAGGCAAAGCACACGCCCG
Found at i:33389388 original size:28 final size:28
Alignment explanation
Indices: 33389348--33389417 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
33389338 ACGGCCAAAC
*
33389348 ACACGCCCGTGTCCCTCACATGGCCTAG
1 ACACACCCGTGTCCCTCACATGGCCTAG
*
33389376 ACACACCTGTGTCCCTCACATGGCCTAG
1 ACACACCCGTGTCCCTCACATGGCCTAG
33389404 ACACACCCGTGTCC
1 ACACACCCGTGTCC
33389418 AAAAACCCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.20, C:0.43, G:0.19, T:0.19
Consensus pattern (28 bp):
ACACACCCGTGTCCCTCACATGGCCTAG
Found at i:33392205 original size:46 final size:46
Alignment explanation
Indices: 33392127--33392251 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 46
33392117 GAGGTAAGGT
*
33392127 GCCGATGCTATGTCCCAGACATGGTCTTACACTGACTATA--TCTTTGTA-
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGACT-TACGTC-TCG-AG
* *
33392175 GCCGATGCATGTCCCAGATATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTCGAG
33392221 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
33392252 AGATCTAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
45 3 0.04
46 45 0.64
47 14 0.20
48 8 0.11
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTCGAG
Found at i:33394936 original size:79 final size:82
Alignment explanation
Indices: 33394825--33395009 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
33394815 GCTACTCGTT
* * *
33394825 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
33394888 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
33394905 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
33394968 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
33394985 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33395010 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:33395009 original size:40 final size:40
Alignment explanation
Indices: 33394806--33395009 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
33394796 CGGAATTTAA
** * *
33394806 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGTCATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33394846 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33394886 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33394925 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33394965 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33395005 CCGGA
1 CCGGA
33395010 CATCATTCGA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33396236 original size:55 final size:56
Alignment explanation
Indices: 33396135--33396253 Score: 222
Period size: 55 Copynumber: 2.1 Consensus size: 56
33396125 TATTAGTTTA
33396135 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
33396191 TTGCCCATGCTTCTTATTTTATT-TTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
33396246 TTTCCCAT
1 TTGCCCAT
33396254 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 39 0.63
56 23 0.37
ACGTcount: A:0.23, C:0.24, G:0.08, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:33402170 original size:39 final size:40
Alignment explanation
Indices: 33402049--33402233 Score: 175
Period size: 40 Copynumber: 4.7 Consensus size: 40
33402039 GCTACTCGTT
* * *
33402049 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
33402089 CAAATGCCTGCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
*
33402129 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
33402168 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
* *
33402209 CAAA-GCCTTTGGGACTTAGCTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33402234 CATCATTCGA
Statistics
Matches: 120, Mismatches: 16, Indels: 17
0.78 0.10 0.11
Matches are distributed among these distances:
38 2 0.02
39 33 0.28
40 73 0.61
41 12 0.10
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:33403427 original size:56 final size:56
Alignment explanation
Indices: 33403360--33403479 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
33403350 CATTAGTTTA
33403360 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
33403416 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
33403472 TTGCCCAT
1 TTGCCCAT
33403480 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:33404246 original size:40 final size:39
Alignment explanation
Indices: 33404169--33404387 Score: 244
Period size: 40 Copynumber: 5.5 Consensus size: 39
33404159 AAACCAAGTA
* *
33404169 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGG-TATAG-TAACTCGCACAAATG
33404208 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
* *
33404248 CCTTCGTGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
* * * * * *
33404288 CCTTCGGGGCTTAGCCCAGAATTAGTCACTAGAACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATG
* * * *
33404328 CCTTCGGGGCTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATG
33404368 CCTTCGGGACTTAGCCCGGT
1 CCTTCGGGACTTAGCCCGGT
33404388 TATCATCCGA
Statistics
Matches: 159, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.09
40 144 0.91
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATG
Found at i:33406517 original size:57 final size:57
Alignment explanation
Indices: 33406454--33406565 Score: 197
Period size: 57 Copynumber: 2.0 Consensus size: 57
33406444 AAAACCTTAG
* *
33406454 ACTTTCAATCATTTTGCAATATAGTACCCTCATTTGAAAGCTCATGCTTCAAGGGGT
1 ACTTTCAACCATTTTGCAAAATAGTACCCTCATTTGAAAGCTCATGCTTCAAGGGGT
*
33406511 ACTTTCAACCATTTTGCAAAATAGTACCCTCATTTGAAAGCTCATGCTTTAAGGG
1 ACTTTCAACCATTTTGCAAAATAGTACCCTCATTTGAAAGCTCATGCTTCAAGGG
33406566 TTCAAAAATG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.34
Consensus pattern (57 bp):
ACTTTCAACCATTTTGCAAAATAGTACCCTCATTTGAAAGCTCATGCTTCAAGGGGT
Found at i:33411183 original size:43 final size:41
Alignment explanation
Indices: 33411136--33411226 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 41
33411126 TACCAGATGT
* * * *
33411136 GGTCTTACATGTAATCAAACATTGATGCCACTGTCCTAGACAG
1 GGTCTTACACGAAATCAAACA-CGATGCCAATGTCC-AGACAG
* *
33411179 GGTCTTACACGAAATCAAATACGATGCCAATGTCCAGACAT
1 GGTCTTACACGAAATCAAACACGATGCCAATGTCCAGACAG
33411220 GGTCTTA
1 GGTCTTA
33411227 TACATAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 12 0.29
42 12 0.29
43 18 0.43
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (41 bp):
GGTCTTACACGAAATCAAACACGATGCCAATGTCCAGACAG
Found at i:33415845 original size:40 final size:39
Alignment explanation
Indices: 33415801--33415982 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 39
33415791 GCCACTAGCT
*
33415801 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
33415841 CAAATGCCTTCGGGACTTAGCTCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
33415880 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* ** * *
33415920 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
33415960 CAAATG-CTCTCGGGACTTAGCCC
1 CAAATGCCT-TCGGGACTTAGCCC
33415983 TATTATCATC
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 39 0.30
40 89 0.70
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:33423412 original size:40 final size:39
Alignment explanation
Indices: 33423361--33423512 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 39
33423351 GGATATAGCC
*
33423361 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTA
* * *
33423401 ACTTGCACAAATGCCTTCGGGACTTAGCTCGGTATAATA
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTA
* * * **
33423440 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGCC
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTA-TAGTA
*
33423480 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGT
33423513 TATCATCCGA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 38 0.40
40 57 0.60
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTA
Found at i:33423453 original size:39 final size:40
Alignment explanation
Indices: 33423368--33423469 Score: 170
Period size: 39 Copynumber: 2.6 Consensus size: 40
33423358 GCCACTAGCT
* *
33423368 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
*
33423408 CAAATGCCTTCGGGACTTAGCTCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
33423447 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
33423470 AGAATTAGCC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 34 0.59
40 24 0.41
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTCGCA
Found at i:33432207 original size:16 final size:16
Alignment explanation
Indices: 33432166--33432208 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
33432156 ACGAATCGGC
33432166 AAAAGTCGAAATGCCG
1 AAAAGTCGAAATGCCG
* *
33432182 AAATGTCGAAATGCTG
1 AAAAGTCGAAATGCCG
*
33432198 AAAAGCCGAAA
1 AAAAGTCGAAA
33432209 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.14
Consensus pattern (16 bp):
AAAAGTCGAAATGCCG
Found at i:33432499 original size:28 final size:28
Alignment explanation
Indices: 33432419--33432502 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
33432409 GTGAGCATGA
* * *
33432419 ATATGAATGTGACTGGGCCTAACGGTCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
33432447 ATAT-AGATGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGA-TTGGGCCTAATGGGCC
* *
33432476 ATATGAATATGATTGGGCTTAATGGGC
1 ATATGAATGTGATTGGGCCTAATGGGC
33432503 TAGATACAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
27 1 0.02
28 24 0.50
29 22 0.46
30 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:33439571 original size:28 final size:28
Alignment explanation
Indices: 33439506--33439654 Score: 235
Period size: 28 Copynumber: 5.3 Consensus size: 28
33439496 GAGATTGGCG
* * * *
33439506 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
33439535 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
33439563 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
33439591 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
33439619 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
33439647 CTGAGTGT
1 CTAAGTGT
33439655 ACGGACTTAA
Statistics
Matches: 114, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
28 99 0.87
29 15 0.13
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:33446915 original size:28 final size:28
Alignment explanation
Indices: 33446850--33446998 Score: 235
Period size: 28 Copynumber: 5.3 Consensus size: 28
33446840 GAGATTGGCG
* * * *
33446850 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
33446879 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
33446907 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
33446935 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
33446963 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
33446991 CTGAGTGT
1 CTAAGTGT
33446999 ACGGACTTAA
Statistics
Matches: 114, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
28 99 0.87
29 15 0.13
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:33449794 original size:39 final size:41
Alignment explanation
Indices: 33449694--33449876 Score: 177
Period size: 40 Copynumber: 4.6 Consensus size: 41
33449684 TCGAATGATG
* * * *
33449694 TCCGGGCTAAGCCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTACTAATA
* * *
33449734 TCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAATA
*
33449774 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAATA
* *
33449813 TCCGGG-T-TGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAATA
* *
33449851 ACCGGGCTATA-TCCCGAAGGCATTTG
1 TCCGGGCTA-AGACCCGAAGGCATTTG
33449877 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
37 2 0.02
38 31 0.26
39 32 0.27
40 46 0.38
41 9 0.08
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:33449840 original size:38 final size:40
Alignment explanation
Indices: 33449747--33449876 Score: 187
Period size: 39 Copynumber: 3.3 Consensus size: 40
33449737 GGACTAAGAT
* *
33449747 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTATGTC
*
33449786 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGG-T-TGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTATGTC
*
33449824 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATATC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTATGTC
33449864 CCGAAGGCATTTG
1 CCGAAGGCATTTG
33449877 AACGAGTAGC
Statistics
Matches: 82, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
37 1 0.01
38 31 0.38
39 34 0.41
40 16 0.20
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTATGTC
Found at i:33452898 original size:46 final size:46
Alignment explanation
Indices: 33452843--33453025 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
33452833 TATATATACA
* * * * *
33452843 CATCTCATACATATCTCACATTAGTCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
33452889 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
33452935 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
33452981 CATCTCATACACATTTCGCATTAGCCATTCGACTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
33453026 ATACACTTCC
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:33453070 original size:47 final size:47
Alignment explanation
Indices: 33452999--33453377 Score: 535
Period size: 47 Copynumber: 8.1 Consensus size: 47
33452989 ACACATTTCG
* * * * * * *
33452999 CATTAGCCATTCGACTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
33453046 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
33453093 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
33453140 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
33453187 CATTGGCCATTCGGCCTTATCACACATATGCACGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
33453234 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
33453281 CATTGGCCATTCGGCCTTATCTCATATATGAATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * * ** *
33453328 CATTTGCCATTCGGCCTTATCTCATTTATACACATTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
33453375 CAT
1 CAT
33453378 AAAATCCTAA
Statistics
Matches: 307, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 306 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:33453139 original size:25 final size:25
Alignment explanation
Indices: 33453064--33453189 Score: 79
Period size: 25 Copynumber: 5.3 Consensus size: 25
33453054 ATTCTGCCTT
*
33453064 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATATTCACATTC
* * * *
33453089 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCATATTC-ACATTC
33453111 ATCACATATATGCATATTCACATTC
1 ATCACATATATGCATATTCACATTC
* * * *
33453136 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCATATTC-ACATTC
* *
33453158 ATCACACATATGCATGTTCACATTC
1 ATCACATATATGCATATTCACATTC
33453183 ATCACAT
1 ATCACAT
33453190 TGGCCATTCG
Statistics
Matches: 71, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 20 0.28
23 12 0.17
24 12 0.17
25 27 0.38
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCATATTCACATTC
Found at i:33453234 original size:25 final size:25
Alignment explanation
Indices: 33453158--33453282 Score: 72
Period size: 23 Copynumber: 5.2 Consensus size: 25
33453148 ATTCGGCCTT
*
33453158 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCACGTTCACATTC
* * *
33453183 AT--CACAT-TGGC-CATTCGGCCTT-
1 ATCACACATAT-GCACGTTC-ACATTC
33453205 ATCACACATATGCACGTTCACATTC
1 ATCACACATATGCACGTTCACATTC
* * *
33453230 AT--CACAT-TGGC-CATTCGGCCTT-
1 ATCACACATAT-GCACGTTC-ACATTC
*
33453252 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCACGTTCACATTC
33453277 ATCACA
1 ATCACA
33453283 TTGGCCATTC
Statistics
Matches: 72, Mismatches: 14, Indels: 28
0.63 0.12 0.25
Matches are distributed among these distances:
22 13 0.18
23 20 0.28
24 20 0.28
25 19 0.26
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.30
Consensus pattern (25 bp):
ATCACACATATGCACGTTCACATTC
Found at i:33459831 original size:17 final size:18
Alignment explanation
Indices: 33459809--33459842 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33459799 CACATTGAAG
33459809 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
33459826 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
33459843 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:33461120 original size:29 final size:29
Alignment explanation
Indices: 33461060--33461135 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
33461050 CATACATGCT
* *
33461060 TATGGCCCACTAGGCCC-AATCTCATTCA
1 TATGGCCCAATAGGCCCAAATCACATTCA
*
33461088 TATGGCCCATTAGGCCCAAATCACA-TCTA
1 TATGGCCCAATAGGCCCAAATCACATTC-A
*
33461117 TATGGCACAATAGGCCCAA
1 TATGGCCCAATAGGCCCAA
33461136 TTACTTTTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 18 0.43
29 24 0.57
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (29 bp):
TATGGCCCAATAGGCCCAAATCACATTCA
Found at i:33466825 original size:22 final size:21
Alignment explanation
Indices: 33466796--33466836 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
33466786 GTTACAACCC
*
33466796 AAATAAAATAGTAATAATTTA
1 AAATAAAATAGTAAAAATTTA
*
33466817 AAATCAAAATATTAAAAATT
1 AAAT-AAAATAGTAAAAATT
33466837 ACATAAAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
AAATAAAATAGTAAAAATTTA
Found at i:33467814 original size:28 final size:28
Alignment explanation
Indices: 33467778--33467857 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
33467768 CATACATGCT
*
33467778 TATGACCCACTAGGCCCAATCTCAT-TCA
1 TATGACCCACTAGGCCCAATCACATCT-A
* * **
33467806 TATGGCCCATTAGGTCAAAATCACATCTA
1 TATGACCCACTAGG-CCCAATCACATCTA
33467835 TATGACCCACTAGGCCCAATCAC
1 TATGACCCACTAGGCCCAATCAC
33467858 TTTTACAGTC
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 19 0.46
29 21 0.51
30 1 0.02
ACGTcount: A:0.31, C:0.33, G:0.12, T:0.24
Consensus pattern (28 bp):
TATGACCCACTAGGCCCAATCACATCTA
Found at i:33468112 original size:8 final size:8
Alignment explanation
Indices: 33468085--33468127 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
33468075 AATTTTGGCT
*
33468085 TTTCGACA
1 TTTCGGCA
* *
33468093 TTTCAGCT
1 TTTCGGCA
33468101 TTTCGGCA
1 TTTCGGCA
33468109 TTTCGGCA
1 TTTCGGCA
*
33468117 TTTCGGGA
1 TTTCGGCA
33468125 TTT
1 TTT
33468128 ACCGATCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (8 bp):
TTTCGGCA
Found at i:33470784 original size:14 final size:14
Alignment explanation
Indices: 33470765--33470792 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33470755 AAGCTTTCAA
33470765 TAATTAATTTAATT
1 TAATTAATTTAATT
33470779 TAATTAATTTAATT
1 TAATTAATTTAATT
33470793 CATGTGACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTAATTTAATT
Found at i:33474696 original size:40 final size:40
Alignment explanation
Indices: 33474493--33474713 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
33474483 TATTCAAATG
* * * *
33474493 ATATCCGGGCTAAGTCCGGAAGGCTTTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
* * *
33474533 ATATCCGGACTAAGATCCGAAGGAATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* *
33474573 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
* * * **
33474613 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCAAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* *
33474653 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
*
33474693 ATATCC-GGCTAAAACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
33474714 ATACTTGGGT
Statistics
Matches: 153, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
39 14 0.09
40 136 0.89
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:33474981 original size:22 final size:22
Alignment explanation
Indices: 33474941--33474982 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33474931 GAATGTGCAT
*
33474941 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
33474963 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
33474983 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:33482820 original size:40 final size:40
Alignment explanation
Indices: 33482758--33482978 Score: 265
Period size: 40 Copynumber: 5.5 Consensus size: 40
33482748 TATTCGAATG
*
33482758 ATATCCGGGCTAAG-TCCGGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCTAGTGACT
* * *
33482798 ATATCCGGACTAAGATTCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
33482838 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
33482878 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * *
33482918 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
33482958 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGAT-CCGAAG
33482979 ATACTTGGGT
Statistics
Matches: 157, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 13 0.08
40 137 0.87
41 6 0.04
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:33483246 original size:22 final size:22
Alignment explanation
Indices: 33483206--33483247 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33483196 GAATGTGCAT
*
33483206 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
33483228 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
33483248 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:33488498 original size:22 final size:22
Alignment explanation
Indices: 33488471--33488592 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
33488461 CATGCATATG
33488471 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
33488493 TGTGATGAATG-TGAACAT-GCAAATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
33488518 TGTGATAAGGCCGAATGGTCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
33488540 TGTGATGAATG-TGAACAT-GCAAATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
33488565 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
33488587 TGTGAT
1 TGTGAT
33488593 GAATGTGAAC
Statistics
Matches: 72, Mismatches: 14, Indels: 28
0.63 0.12 0.25
Matches are distributed among these distances:
22 22 0.31
23 17 0.24
24 17 0.24
25 16 0.22
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:33488662 original size:47 final size:47
Alignment explanation
Indices: 33488449--33488642 Score: 334
Period size: 47 Copynumber: 4.1 Consensus size: 47
33488439 GATTCTATGA
* *
33488449 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
*
33488496 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGTCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
33488543 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
* **
33488590 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
33488637 GATGAA
1 GATGAA
33488643 CGTGGAAGTG
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 140 1.00
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
Found at i:33490335 original size:23 final size:23
Alignment explanation
Indices: 33490309--33490367 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
33490299 GGTATTATGG
33490309 GTTAATAGGTGTTTTAA-TTAGAA
1 GTTAATAGG-GTTTTAAGTTAGAA
* *
33490332 GTTAGTATGGTTTTAAGTTAGAA
1 GTTAATAGGGTTTTAAGTTAGAA
33490355 ---AATAGGGTTTTAA
1 GTTAATAGGGTTTTAA
33490368 AGGGTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 11 0.35
22 7 0.23
23 13 0.42
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (23 bp):
GTTAATAGGGTTTTAAGTTAGAA
Found at i:33496210 original size:79 final size:79
Alignment explanation
Indices: 33496085--33496237 Score: 213
Period size: 79 Copynumber: 1.9 Consensus size: 79
33496075 CCTTCAAAAT
* *
33496085 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 TTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGAAT-TAGTAACTCGCAC
33496149 AAATGCCTTCAGGAC
65 AAATGCCTTCAGGAC
* * *
33496164 TTAACCTGGATTTAG-TAACTCGCACCAATGCCTTCGGGA-TTAGCCCGGAATTAGTAACTCGCA
1 TTAACC-GGATATAGCT-ACTCGCACAAATGCCTTCGGGACATAGCCCGGAATTAGTAACTCGCA
33496227 CAAATGCCTTC
64 CAAATGCCTTC
33496238 TGATCTTAGT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 38 0.58
80 28 0.42
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
TTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGAATTAGTAACTCGCACA
AATGCCTTCAGGAC
Found at i:33496233 original size:39 final size:40
Alignment explanation
Indices: 33496101--33496278 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
33496091 GGATATAGCT
* *
33496101 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
33496141 ACTCGCACAAATGCCTTCAGGACTTAACCTGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
33496181 ACTCGCACCAATGCCTTCGGGA-TTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
33496220 ACTCGCACAAATGCCTTC-TGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
33496260 ACTTAGCACAAAAGCCTTC
1 AC-TCGCACAAATGCCTTC
33496279 TGTAACACCC
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 2 0.02
39 31 0.27
40 67 0.58
41 16 0.14
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:33497668 original size:27 final size:27
Alignment explanation
Indices: 33497629--33497806 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
33497619 ATATTGAGTC
* * *
33497629 CGCACACTCAGTGCTACATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33497656 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33497683 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33497711 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* ***
33497738 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33497765 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
33497792 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
33497807 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33517038 original size:16 final size:17
Alignment explanation
Indices: 33517006--33517044 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
33516996 ACAAAGAAAG
*
33517006 TTTGGGATTTCGGGATT
1 TTTGGGATTTCGAGATT
33517023 TTTGGG-TTTCGAGATT
1 TTTGGGATTTCGAGATT
33517039 TTTGGG
1 TTTGGG
33517045 GCGTTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.10, C:0.05, G:0.36, T:0.49
Consensus pattern (17 bp):
TTTGGGATTTCGAGATT
Found at i:33517353 original size:18 final size:19
Alignment explanation
Indices: 33517327--33517367 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
33517317 GGCCTCTCAG
33517327 CGGTAGCTA-ACTACC-CCT
1 CGGTAGCTATAC-ACCACCT
*
33517345 CGGTGGCTATACACCACCT
1 CGGTAGCTATACACCACCT
33517364 CGGT
1 CGGT
33517368 CCACAACTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.20, C:0.37, G:0.22, T:0.22
Consensus pattern (19 bp):
CGGTAGCTATACACCACCT
Found at i:33519938 original size:28 final size:29
Alignment explanation
Indices: 33519906--33519989 Score: 118
Period size: 29 Copynumber: 2.9 Consensus size: 29
33519896 TACTTGTATC
*
33519906 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
33519934 TGGCCCATTAAGCCCAAATCACATGT-ATA
1 TGGCCCATTAAGCCCAAATCACAT-TCATA
* *
33519963 TGGTCCATTAGGCCCAAATCACATTCA
1 TGGCCCATTAAGCCCAAATCACATTCA
33519990 GAATCATGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
28 16 0.32
29 33 0.66
30 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:33521311 original size:16 final size:17
Alignment explanation
Indices: 33521279--33521317 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
33521269 ACAAAGAAAG
*
33521279 TTTGGGATTTCGGGATT
1 TTTGGGATTTCGAGATT
33521296 TTTGGG-TTTCGAGATT
1 TTTGGGATTTCGAGATT
33521312 TTTGGG
1 TTTGGG
33521318 GCATTACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.10, C:0.05, G:0.36, T:0.49
Consensus pattern (17 bp):
TTTGGGATTTCGAGATT
Found at i:33522948 original size:17 final size:16
Alignment explanation
Indices: 33522917--33522950 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33522907 TTCCTCCATC
33522917 GAAAACAAAAACAAAA
1 GAAAACAAAAACAAAA
*
33522933 GAAAAGAAACAACAAAA
1 GAAAACAAA-AACAAAA
33522950 G
1 G
33522951 CTAGGTTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.12, G:0.12, T:0.00
Consensus pattern (16 bp):
GAAAACAAAAACAAAA
Found at i:33528324 original size:39 final size:39
Alignment explanation
Indices: 33528260--33528414 Score: 238
Period size: 39 Copynumber: 4.0 Consensus size: 39
33528250 ATTGATGAAG
*
33528260 TATATCCGGACTTAAGGCCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
33528299 TATATCCAGAGTGAAGGTCCACAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
33528338 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* *
33528377 TATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
33528415 ATATGTCCCG
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 103 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:33528349 original size:78 final size:78
Alignment explanation
Indices: 33528260--33528442 Score: 242
Period size: 78 Copynumber: 2.3 Consensus size: 78
33528250 ATTGATGAAG
* *
33528260 TATATCCGGACTTAAGGCCCGCAGGCTATGTGCTGGAATTATATCCAGAGTGAAGGTCCACAGGC
1 TATATCCGGACTTAAGGCCCGCAGGCTATGTGCTGGAATTATAACCAGACTGAAGGTCCACAGGC
* *
33528325 TATGTGCTAGAAT
66 TACGTGCTAGAAA
* * * *
33528338 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGC
1 TATATCCGGACTTAAGGCCCGCAGGCTATGTGCTGGAATTATAACCAGACTGAAGGTCCACAGGC
*
33528403 TACGTGCTGGAAA
66 TACGTGCTAGAAA
* * *
33528416 TATGTCCCGG-CTAAAGTCCCGCAGGCT
1 TATAT-CCGGACTTAAGGCCCGCAGGCT
33528443 TCGAGCTGGT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 87 0.96
79 4 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (78 bp):
TATATCCGGACTTAAGGCCCGCAGGCTATGTGCTGGAATTATAACCAGACTGAAGGTCCACAGGC
TACGTGCTAGAAA
Found at i:33536503 original size:39 final size:39
Alignment explanation
Indices: 33536449--33536573 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
33536439 AGTGATGAAG
*
33536449 TATATCCGGACTTAAGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
33536488 TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
33536527 TATAACCGGACTTAAGGTCCACAGGCTACGTGCTGGAA-
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
33536565 TATGTCCGG
1 TATATCCGG
33536574 GTTAAAGTCC
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 7 0.09
39 71 0.91
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:33542311 original size:24 final size:27
Alignment explanation
Indices: 33542279--33542339 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
33542269 TATTAGAAAA
*
33542279 ATTATATT-AATTTAAT-TT-TTTAAT
1 ATTAAATTAAATTTAATATTATTTAAT
33542303 ATTAAATTAAATTTAATACTTAATTTAAT
1 ATTAAATTAAATTTAATA-TT-ATTTAAT
33542332 ATTAAATT
1 ATTAAATT
33542340 GACTATCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 7 0.23
25 8 0.26
27 2 0.06
29 14 0.45
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTAAATTAAATTTAATATTATTTAAT
Found at i:33542329 original size:12 final size:11
Alignment explanation
Indices: 33542282--33542371 Score: 65
Period size: 12 Copynumber: 7.5 Consensus size: 11
33542272 TAGAAAAATT
33542282 ATATTAATTTA
1 ATATTAATTTA
*
33542293 ATTTTTTAATATTA
1 A--TATTAAT-TTA
33542307 A-ATTAAATTTA
1 ATATT-AATTTA
33542318 ATACTTAATTTA
1 ATA-TTAATTTA
*
33542330 ATATTAAATTGA
1 ATATT-AATTTA
*
33542342 CTATCTTAATATTA
1 --ATATTAAT-TTA
33542356 ATATTAATTTA
1 ATATTAATTTA
33542367 ATATT
1 ATATT
33542372 TATATCGTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
11 17 0.27
12 25 0.40
13 11 0.17
14 10 0.16
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (11 bp):
ATATTAATTTA
Found at i:33542358 original size:6 final size:6
Alignment explanation
Indices: 33542298--33542376 Score: 60
Period size: 6 Copynumber: 13.2 Consensus size: 6
33542288 ATTTAATTTT
*
33542298 TTAATA TTAA-A TTAA-A TTTAATA CTTAAT- TTAATA TTAA-A TTGACTATC
1 TTAATA TTAATA TTAATA -TTAATA -TTAATA TTAATA TTAATA TT-A--ATA
*
33542347 TTAATA TTAATA TTAAT- TTAATA TTTATA T
1 TTAATA TTAATA TTAATA TTAATA TTAATA T
33542377 CGTAGATAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
5 19 0.31
6 32 0.52
7 6 0.10
8 2 0.03
9 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (6 bp):
TTAATA
Found at i:33542376 original size:17 final size:17
Alignment explanation
Indices: 33542280--33542376 Score: 72
Period size: 17 Copynumber: 5.4 Consensus size: 17
33542270 ATTAGAAAAA
*
33542280 TTATATTAATTTAATTTT
1 TTATATTAATTTAA-TAT
*
33542298 TTAATATTAAATTAA-AT
1 TT-ATATTAATTTAATAT
33542315 TTAATACTTAATTTAATA-
1 TT-ATA-TTAATTTAATAT
*
33542333 TTAAATTGACTATCTTAATAT
1 TTATATT-A--AT-TTAATAT
*
33542354 TAATATTAATTTAATAT
1 TTATATTAATTTAATAT
33542371 TTATAT
1 TTATAT
33542377 CGTAGATAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
16 2 0.03
17 22 0.34
18 14 0.22
19 14 0.22
20 7 0.11
21 5 0.08
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (17 bp):
TTATATTAATTTAATAT
Found at i:33545846 original size:13 final size:13
Alignment explanation
Indices: 33545828--33545857 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
33545818 TTGTTTCCAT
*
33545828 TTTTATGTTTTTC
1 TTTTATGTTTTTA
33545841 TTTTATGTTTTTA
1 TTTTATGTTTTTA
33545854 TTTT
1 TTTT
33545858 CAATTGTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTATGTTTTTA
Found at i:33553020 original size:40 final size:40
Alignment explanation
Indices: 33552756--33553137 Score: 375
Period size: 40 Copynumber: 9.6 Consensus size: 40
33552746 TCGAATGATG
* *
33552756 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * *
33552796 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * *
33552835 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * * *
33552875 TCCGGGTTAAGTCTCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
33552915 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
33552955 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
33552995 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
**
33553035 TCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * *
33553075 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
33553115 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
33553138 ATCATGCTGG
Statistics
Matches: 297, Mismatches: 38, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.12
40 242 0.81
41 20 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:33556086 original size:47 final size:47
Alignment explanation
Indices: 33556035--33556398 Score: 586
Period size: 47 Copynumber: 7.7 Consensus size: 47
33556025 TTAGGATTCT
* * *
33556035 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
33556082 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
33556129 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
33556176 ATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
33556223 ATGTGACGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
33556270 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
33556317 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
33556364 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
33556399 TCCCGAAGGG
Statistics
Matches: 299, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 298 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:33556110 original size:25 final size:25
Alignment explanation
Indices: 33556082--33556160 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
33556072 CTAATGGCCG
33556082 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
33556107 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
33556129 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
33556154 ATGTGAT
1 ATGTGAT
33556161 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:33556586 original size:37 final size:37
Alignment explanation
Indices: 33556517--33556595 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
33556507 CTGAGCTCTA
* * * * *
33556517 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGCGGAGATTATGTCCGGAT
*
33556554 AAGACCCGATAACTTCGTGCGGAGATTATGTCCGGAT
1 AAGACCCGATAACTACGTGCGGAGATTATGTCCGGAT
33556591 AAGAC
1 AAGAC
33556596 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGCGGAGATTATGTCCGGAT
Found at i:33560957 original size:16 final size:16
Alignment explanation
Indices: 33560936--33560966 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33560926 GTAACGCCAT
*
33560936 AAAAATCCTGAAATCC
1 AAAAATCCCGAAATCC
33560952 AAAAATCCCGAAATC
1 AAAAATCCCGAAATC
33560967 TTGAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAATCCCGAAATCC
Found at i:33562216 original size:24 final size:24
Alignment explanation
Indices: 33562180--33562231 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
33562170 AACGAATCGA
* *
33562180 AAAAAGCCGAAATGCCGAAAAGCC
1 AAAAAGCCAAAATGCCGAAAAACC
* *
33562204 AAAAAGCTAAAATGCTGAAAAACC
1 AAAAAGCCAAAATGCCGAAAAACC
33562228 AAAA
1 AAAA
33562232 GTTGGGCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (24 bp):
AAAAAGCCAAAATGCCGAAAAACC
Found at i:33562485 original size:29 final size:29
Alignment explanation
Indices: 33562441--33562559 Score: 143
Period size: 29 Copynumber: 4.2 Consensus size: 29
33562431 ATGAGCATGA
*
33562441 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
33562469 ATATGAATATGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * **
33562498 ATAAGAATATGAACTGGGCCGGATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * *
33562527 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
33562555 ATATG
1 ATATG
33562560 CATGTATGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 21 0.28
29 54 0.72
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:33565448 original size:16 final size:16
Alignment explanation
Indices: 33565427--33565459 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33565417 TTGTAACTCC
*
33565427 CCAAAAATTCTGAAAT
1 CCAAAAATCCTGAAAT
33565443 CCAAAAATCCTGAAAT
1 CCAAAAATCCTGAAAT
33565459 C
1 C
33565460 TTGAGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (16 bp):
CCAAAAATCCTGAAAT
Found at i:33571488 original size:29 final size:29
Alignment explanation
Indices: 33571447--33571518 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
33571437 GCATGAATAT
* *
33571447 AATATGATTTGGGCCTAATGGGCCATAAG
1 AATATGAATTGGGCCTAATGGACCATAAG
* *
33571476 AATGTGAATTGGGCCTAGTGGACCATAAG
1 AATATGAATTGGGCCTAATGGACCATAAG
*
33571505 AATATGAACTGGGC
1 AATATGAATTGGGC
33571519 TGGATGAGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGACCATAAG
Found at i:33580288 original size:46 final size:48
Alignment explanation
Indices: 33580200--33580373 Score: 159
Period size: 46 Copynumber: 3.8 Consensus size: 48
33580190 GTATATTTGT
* *
33580200 GCCGATGCCATGGCCCAGACATGGTCTTACACT-G-A-TAGATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACT-CATCTCGTA
* *
33580246 GCCGATG-CATGTCCGAGACAT-GTCTTACACTAGCACTCATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGTA
* * * * * *
33580291 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCAT-CTCGTA
*
33580340 GCCGATG-CATGTCCCAGACAT-GTTTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
33580374 TCACCCAAGT
Statistics
Matches: 104, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.10
45 14 0.13
46 30 0.29
47 26 0.25
48 23 0.22
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGTA
Found at i:33597369 original size:29 final size:28
Alignment explanation
Indices: 33597327--33597397 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 28
33597317 AATGAGATTG
*
33597327 GCACTAAGTGTGCGAGTTTAAATT-GTATA
1 GCACTAAGTGTGCGAGTTT-AATTATTA-A
*
33597356 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
33597384 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33597398 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
28 18 0.46
29 21 0.54
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:33597395 original size:28 final size:29
Alignment explanation
Indices: 33597327--33597397 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
33597317 AATGAGATTG
33597327 GCACTAAGTGTGCGAGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTTAAATTGTATA
* *
33597356 GCACTAAGTGTGCGAGTTT-GATTAT-TAA
1 GCACTAAGTGTGCGAGTTTAAATTGTAT-A
33597384 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33597398 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 1 0.03
28 19 0.49
29 19 0.49
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAATTGTATA
Found at i:33602052 original size:40 final size:40
Alignment explanation
Indices: 33602007--33602278 Score: 368
Period size: 40 Copynumber: 6.8 Consensus size: 40
33601997 ATAACCACAA
* * * *
33602007 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
33602047 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
33602087 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
33602127 GCACAAATGCCTTCGAGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33602167 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
33602207 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
33602247 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
33602279 CATTCAAATG
Statistics
Matches: 204, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.02
40 193 0.95
41 7 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:33602090 original size:80 final size:80
Alignment explanation
Indices: 33601987--33602274 Score: 427
Period size: 80 Copynumber: 3.6 Consensus size: 80
33601977 TCTTCGGAAT
* * * *
33601987 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
33602051 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
33602066 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
*
33602131 AAATGCCTTCGAGTC
66 AAATGCCTTCGGGTC
* * * * *
33602146 TTAGCCCGGAT-ATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCA
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCA
33602210 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
* * *
33602226 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGG
33602275 ATATCATTCA
Statistics
Matches: 191, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
79 8 0.04
80 179 0.94
81 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:33610322 original size:40 final size:40
Alignment explanation
Indices: 33610277--33610508 Score: 279
Period size: 40 Copynumber: 5.8 Consensus size: 40
33610267 ATAACCACAA
* * *
33610277 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
33610317 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * *
33610357 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
33610397 GCACAAATGCTTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
33610437 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
33610477 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
33610509 CATTCAAATG
Statistics
Matches: 165, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.02
40 154 0.93
41 7 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:33610490 original size:120 final size:120
Alignment explanation
Indices: 33610277--33610504 Score: 366
Period size: 120 Copynumber: 1.9 Consensus size: 120
33610267 ATAACCACAA
* *
33610277 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
33610342 CGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
66 CGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTC
* * * *
33610397 GCACAAATGCTTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
33610462 CGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
66 CGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAACCCGG
33610505 ATATCATTCA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 98 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTC
Found at i:33610508 original size:80 final size:79
Alignment explanation
Indices: 33610257--33610508 Score: 337
Period size: 80 Copynumber: 3.2 Consensus size: 79
33610247 TCTTCGGAAT
* *
33610257 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAT-ATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
33610321 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
*
33610336 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGAT-ATATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
*
33610401 AAATGCTTTCGGGTC
65 AAATGCCTTCGGGTC
* * * * * * *
33610416 TTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCA
1 TTAGCCCGGATATATC-ACTAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCA
* *
33610480 TAAATGCCTTCGGGAC
64 CAAATGCCTTCGGGTC
33610496 TTAGCCCGGATAT
1 TTAGCCCGGATAT
33610509 CATTCAAATG
Statistics
Matches: 154, Mismatches: 15, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
79 8 0.05
80 142 0.92
81 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
TTAGCCCGGATATATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:33615364 original size:15 final size:15
Alignment explanation
Indices: 33615346--33615406 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
33615336 TTTCTTTCTC
33615346 CTGGATCTCTTTATT
1 CTGGATCTCTTTATT
*
33615361 CTGGATTTCTTTATT
1 CTGGATCTCTTTATT
* * *
33615376 -TCGGGTTTCTCTA-T
1 CT-GGATCTCTTTATT
33615390 CTTGGATCTCTTTATT
1 C-TGGATCTCTTTATT
33615406 C
1 C
33615407 AGTTTCCTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
14 2 0.06
15 31 0.86
16 3 0.08
ACGTcount: A:0.11, C:0.20, G:0.15, T:0.54
Consensus pattern (15 bp):
CTGGATCTCTTTATT
Found at i:33617932 original size:46 final size:46
Alignment explanation
Indices: 33617783--33617955 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
33617773 ATATTGGGCA
* *
33617783 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-GCGAGCG-
1 TCCGAGCT-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
33617828 TCCGAACTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 TCCGAGCTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
33617873 ATCCGAGCTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 -TCCGAGCTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
33617920 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCT-GTTGAGTTGAGTCCGAGTTCACTTATGG
33617956 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
41 4 0.04
42 1 0.01
43 2 0.02
44 21 0.19
45 14 0.13
46 55 0.51
47 4 0.04
49 4 0.04
50 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAGCTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:33620905 original size:14 final size:15
Alignment explanation
Indices: 33620878--33620913 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
33620868 ATCTTGGGTT
33620878 TCTTTATCCTGGATC
1 TCTTTATCCTGGATC
*
33620893 TCTTTAT-CTGGATT
1 TCTTTATCCTGGATC
33620907 TCTTTAT
1 TCTTTAT
33620914 TCCGGGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.14, C:0.19, G:0.11, T:0.56
Consensus pattern (15 bp):
TCTTTATCCTGGATC
Found at i:33620938 original size:15 final size:15
Alignment explanation
Indices: 33620867--33620943 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
33620857 CATAGTATCG
*
33620867 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
* *
33620882 TATCCTGGATCTCTT
1 TATCTTGGATTTCTT
33620897 TATC-TGGATTTCTT
1 TATCTTGGATTTCTT
* * *
33620911 TAT-TCCGGGTTTCTC
1 TATCT-TGGATTTCTT
33620926 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
33620941 TAT
1 TAT
33620944 TCGGTTTTCT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
14 12 0.24
15 36 0.73
16 1 0.02
ACGTcount: A:0.12, C:0.18, G:0.16, T:0.55
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:33620952 original size:29 final size:29
Alignment explanation
Indices: 33620867--33620953 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
33620857 CATAGTATCG
* * * *
33620867 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
33620897 TATC-TGGATTTCTTTATTCCGGGTTTCTC
1 TATCTTGGATTTCTTTATT-CGGATTTCTC
*
33620926 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
33620954 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 30 0.61
30 19 0.39
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.55
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:33620954 original size:14 final size:14
Alignment explanation
Indices: 33620876--33620954 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
33620866 GTATCTTGGG
*
33620876 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
*
33620891 TCTCTTTA-TCTGGA
1 TTTCTTTATTC-GGA
*
33620905 TTTCTTTATTCCGGG
1 TTTCTTTATT-CGGA
* *
33620920 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
33620935 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
33620949 TTTCTT
1 TTTCTT
33620955 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
14 21 0.41
15 28 0.55
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:33623373 original size:46 final size:46
Alignment explanation
Indices: 33623322--33623501 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
33623312 GGATATTTGG
33623322 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*
33623368 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT--C-T-TGAGATGTAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATG---CGA
*
33623414 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* ** * *
33623461 ACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
33623502 CGGGTTACAT
Statistics
Matches: 118, Mismatches: 7, Indels: 18
0.83 0.05 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
44 1 0.01
46 70 0.59
47 32 0.27
49 1 0.01
50 5 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:33623480 original size:93 final size:93
Alignment explanation
Indices: 33623321--33623492 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
33623311 TGGATATTTG
* *
33623321 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCATCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
33623386 TTGAGTCCGAGTTCTTGAGATGTAACTA
66 TTGAGTCCGAGTTCTTGAGATGTAACTA
* * *
33623414 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
33623479 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
33623493 GCTTATGGAC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCTTGAGATGTAACTA
Found at i:33630812 original size:28 final size:27
Alignment explanation
Indices: 33630779--33630852 Score: 112
Period size: 28 Copynumber: 2.7 Consensus size: 27
33630769 CGATAATGAG
33630779 ATTAGCACTAAGTGTGCGAGTTTAATT
1 ATTAGCACTAAGTGTGCGAGTTTAATT
* *
33630806 GTATAGCACTAAGTGTGCGAGTTTGATT
1 AT-TAGCACTAAGTGTGCGAGTTTAATT
33630834 ATTAAGCACTAAGTGTGCG
1 ATT-AGCACTAAGTGTGCG
33630853 GACTTACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.05
28 40 0.95
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (27 bp):
ATTAGCACTAAGTGTGCGAGTTTAATT
Found at i:33641110 original size:46 final size:46
Alignment explanation
Indices: 33641058--33641151 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
33641048 GAGGATGAAA
33641058 TTGTTTTGATGTCAATTTATGAGCTTAAGGACTAAATTGTAAAAAG
1 TTGTTTTGATGTCAATTTATGAGCTTAAGGACTAAATTGTAAAAAG
33641104 TTGTTTTGATGTCAATTTATGAGCTTAAGGACTAAATTGTAAAAAG
1 TTGTTTTGATGTCAATTTATGAGCTTAAGGACTAAATTGTAAAAAG
33641150 TT
1 TT
33641152 AAAATGTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.40
Consensus pattern (46 bp):
TTGTTTTGATGTCAATTTATGAGCTTAAGGACTAAATTGTAAAAAG
Found at i:33644785 original size:46 final size:46
Alignment explanation
Indices: 33644735--33644910 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
33644725 TGGTTGAGCA
33644735 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
33644781 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
33644826 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
33644874 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33644911 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33644891 original size:93 final size:93
Alignment explanation
Indices: 33644732--33644903 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
33644722 GGATGGTTGA
* *
33644732 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33644797 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
33644825 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
33644890 TGAGTTCGAGTTCG
66 TGAGTCCGAGTTCG
33644904 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:33665847 original size:48 final size:48
Alignment explanation
Indices: 33665771--33666000 Score: 293
Period size: 48 Copynumber: 4.8 Consensus size: 48
33665761 ACTGTGCTAA
* * * *
33665771 ATGTGCCTA-TGTAAGACCATCTCCGGGACA-GAGCATCGGTGATTATAT
1 ATGTGCC-AGTGTAAGACCATGTCTGGGACATG-GCATCGGCGATGATAT
* * *
33665819 ATGTGCCAGTATAAGACCATGTCTGGGACATGTCATCGGTGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
33665867 ATATGCCAGTGTAAGTCCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
33665915 ATGTGCCTGTGTAATACCATGTCTAGGACATGGCATCAGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
33665963 GTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
33666001 AAAATGAAAT
Statistics
Matches: 160, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
47 1 0.01
48 158 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:33666024 original size:96 final size:96
Alignment explanation
Indices: 33665830--33666033 Score: 241
Period size: 96 Copynumber: 2.1 Consensus size: 96
33665820 TGTGCCAGTA
* * * * * *
33665830 TAAGACCATGTCTGGGACATGTCATCGGTGATGATATATATGCCAGTGTAAGTCCATGTCTGGGA
1 TAAGACCATGTCTAGGACATGGCATCAGCGATGATATATATGCCAGTGTAAGACCATGTCTAGGA
*** * *
33665895 CATGGCATCGGCGATGATATATGTGCCTGTG
66 CATGGCATCGAAAATGATATATGTGACTATG
* * *
33665926 TAATACCATGTCTAGGACATGGCATCAGCGATGATATGTGTGCCAGTGTAAGACCATGTCTAGGA
1 TAAGACCATGTCTAGGACATGGCATCAGCGATGATATATATGCCAGTGTAAGACCATGTCTAGGA
*
33665991 CATGGCATCGAAAATGA-A-ATGTGGATTCATG
66 CATGGCATCGAAAATGATATATGT-GACT-ATG
33666022 TAAGACCATGTC
1 TAAGACCATGTC
33666034 GGAAACATGG
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
94 4 0.04
95 3 0.03
96 83 0.92
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (96 bp):
TAAGACCATGTCTAGGACATGGCATCAGCGATGATATATATGCCAGTGTAAGACCATGTCTAGGA
CATGGCATCGAAAATGATATATGTGACTATG
Found at i:33666031 original size:144 final size:144
Alignment explanation
Indices: 33665771--33666046 Score: 308
Period size: 144 Copynumber: 1.9 Consensus size: 144
33665761 ACTGTGCTAA
* * * *
33665771 ATGTGCCTATGTAAGACCATCTCCGGGACAGAGCATCGGTGATTATATATGTGCCAGTATAAGAC
1 ATGTGCCTATGTAAGACCATCTCCAGGACAGAGCATCAGCGATGATATATGTGCCAGTATAAGAC
* * *** * * *
33665836 CATGTCTGGGACATGTCATCGGTGATGATATATATGCCAGTGTAAGTCCATGTCTGG-GACATGG
66 CATGTCTAGGACATGGCATCGAAAATGAAATATATGCCAGTGTAAGACCATGTC-GGAAACATGG
33665900 CATCGGCGATGATAT
130 CATCGGCGATGATAT
* * * * * *
33665915 ATGTGCCTGTGTAATACCATGTCTAGGACATG-GCATCAGCGATGATATGTGTGCCAGTGTAAGA
1 ATGTGCCTATGTAAGACCATCTCCAGGACA-GAGCATCAGCGATGATATATGTGCCAGTATAAGA
* *
33665979 CCATGTCTAGGACATGGCATCGAAAATGAAATGTGGAT-TCA-TGTAAGACCATGTCGGAAACAT
65 CCATGTCTAGGACATGGCATCGAAAATGAAATAT--ATGCCAGTGTAAGACCATGTCGGAAACAT
33666042 GGCAT
128 GGCAT
33666047 TGGTACTTTA
Statistics
Matches: 108, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
143 2 0.02
144 101 0.94
145 3 0.03
146 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (144 bp):
ATGTGCCTATGTAAGACCATCTCCAGGACAGAGCATCAGCGATGATATATGTGCCAGTATAAGAC
CATGTCTAGGACATGGCATCGAAAATGAAATATATGCCAGTGTAAGACCATGTCGGAAACATGGC
ATCGGCGATGATAT
Found at i:33668415 original size:40 final size:40
Alignment explanation
Indices: 33668355--33668538 Score: 225
Period size: 40 Copynumber: 4.6 Consensus size: 40
33668345 TATTAGAATG
*
33668355 ATATCCGGGCTAAG-TGCCGAAGG-ATTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCA-TTTGTGCTAGTGACT
* *
33668395 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
*
33668435 ATATCCGGGCTAAGA-CCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCTAGTGACT
* *
33668475 ATATCCGGGCTAAG-TCCCGAAGGCATTTTTGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
33668515 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
33668539 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 10, Indels: 16
0.83 0.07 0.11
Matches are distributed among these distances:
39 3 0.02
40 117 0.93
41 6 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:33695582 original size:39 final size:40
Alignment explanation
Indices: 33695504--33695599 Score: 158
Period size: 39 Copynumber: 2.4 Consensus size: 40
33695494 ACATAGCCCG
*
33695504 CGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACT
1 CGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACT
* *
33695544 CGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACT
1 CGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACT
33695583 CGCACAAATGCCTTCGG
1 CGCACAAATGCCTTCGG
33695600 ATCTTAGTCC
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 35 0.67
40 17 0.33
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGAATTAGTAACT
Found at i:33697575 original size:29 final size:29
Alignment explanation
Indices: 33697541--33697784 Score: 154
Period size: 29 Copynumber: 8.4 Consensus size: 29
33697531 TGTATAAGTC
* * *
33697541 AGCCTTTGTAGCTATTTCTATTATAA-GGA
1 AGCCTTTATGGCTATCTCTATTA-AATGGA
* *
33697570 AGCCTTTAT-GCTGATCAT-TGTTAAAAGGA
1 AGCCTTTATGGCT-ATC-TCTATTAAATGGA
*
33697599 AGCCTTTATGGCGATCTCTATTAAATGGA
1 AGCCTTTATGGCTATCTCTATTAAATGGA
* *
33697628 AGCCTTTGTGGCAATCTCTATTAAATGGA
1 AGCCTTTATGGCTATCTCTATTAAATGGA
** * * * * *
33697657 AGCCTTGGTGACAATCTATGTTAAAAGGA
1 AGCCTTTATGGCTATCTCTATTAAATGGA
* * * * *
33697686 AGCCTTTGTGCCCATCTCTATAAAAAAGGA
1 AGCCTTTATGGCTATCTCTAT-TAAATGGA
* * *
33697716 TGCTTTTGTGGCTATCT-TAGTTAAATGGA
1 AGCCTTTATGGCTATCTCTA-TTAAATGGA
* * * *
33697745 TGTCTTTGTGGCTATCTCTATTAAAAGGA
1 AGCCTTTATGGCTATCTCTATTAAATGGA
* *
33697774 TGCCCTTATGG
1 AGCCTTTATGG
33697785 TGATTCTCTG
Statistics
Matches: 176, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
28 6 0.03
29 144 0.82
30 26 0.15
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (29 bp):
AGCCTTTATGGCTATCTCTATTAAATGGA
Found at i:33697652 original size:58 final size:58
Alignment explanation
Indices: 33697590--33697793 Score: 185
Period size: 58 Copynumber: 3.5 Consensus size: 58
33697580 CTGATCATTG
33697590 TTAAAAGGAAGCCTTTATGGCGATCTCTATTAAATGGAAGCCTTTGTGGCAATCTCTA
1 TTAAAAGGAAGCCTTTATGGCGATCTCTATTAAATGGAAGCCTTTGTGGCAATCTCTA
* ** * * * * * * *
33697648 TTAAATGGAAGCCTTGGTGACAATCTATGTTAAAAGGAAGCCTTTGTGCCCATCTCTA
1 TTAAAAGGAAGCCTTTATGGCGATCTCTATTAAATGGAAGCCTTTGTGGCAATCTCTA
* * * * * * * *
33697706 TAAAAAAGGATGCTTTTGTGGCTATCT-TAGTTAAATGGATGTCTTTGTGGCTATCTCTA
1 T-TAAAAGGAAGCCTTTATGGCGATCTCTA-TTAAATGGAAGCCTTTGTGGCAATCTCTA
* * *
33697765 TTAAAAGGATGCCCTTATGGTGATTCTCT
1 TTAAAAGGAAGCCTTTATGGCGA-TCTCT
33697794 GACAGGAAAA
Statistics
Matches: 113, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
58 66 0.58
59 46 0.41
60 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (58 bp):
TTAAAAGGAAGCCTTTATGGCGATCTCTATTAAATGGAAGCCTTTGTGGCAATCTCTA
Found at i:33712688 original size:13 final size:13
Alignment explanation
Indices: 33712670--33712694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33712660 TTTGGGTGCA
33712670 CACGGCCGTGTCG
1 CACGGCCGTGTCG
33712683 CACGGCCGTGTC
1 CACGGCCGTGTC
33712695 TATCTTCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:33723966 original size:9 final size:9
Alignment explanation
Indices: 33723952--33723976 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33723942 TGGATTAAAT
33723952 TGAATGAAA
1 TGAATGAAA
33723961 TGAATGAAA
1 TGAATGAAA
33723970 TGAATGA
1 TGAATGA
33723977 TTGAATGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
TGAATGAAA
Found at i:33724350 original size:43 final size:41
Alignment explanation
Indices: 33724265--33724361 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 41
33724255 TCCTGAGACA
* * *
33724265 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTATAAGACCATGTCTGGGACACAGGCATCGATT-AGATT
33724307 TACGTATAAGACCATGTCTGGGACATCA-GCATCGTATCT-GATT
1 T-CGTATAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATT
*
33724350 TCGTGTAAGACC
1 TCGTATAAGACC
33724362 CTATTTGAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
42 11 0.23
43 31 0.66
44 4 0.09
45 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (41 bp):
TCGTATAAGACCATGTCTGGGACACAGGCATCGATTAGATT
Found at i:33728676 original size:9 final size:9
Alignment explanation
Indices: 33728662--33728686 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33728652 TGGGTCTTAT
33728662 TGAATTTTG
1 TGAATTTTG
33728671 TGAATTTTG
1 TGAATTTTG
33728680 TGAATTT
1 TGAATTT
33728687 GATGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (9 bp):
TGAATTTTG
Found at i:33729092 original size:40 final size:40
Alignment explanation
Indices: 33729024--33729116 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
33729014 ACTATGTTGA
* *
33729024 CACTTAGTGTGCATTTCGAGATAGCTTCGGCTATATATT-G
1 CACTTAGTGTGCATATCGAGATAACTTCGGCTATAT-TTGG
* *
33729064 CACTTAGTGTGCGTATCG-GAATAACTTCGGTTATATTTGG
1 CACTTAGTGTGCATATCGAG-ATAACTTCGGCTATATTTGG
33729104 CACTTAGTGTGCA
1 CACTTAGTGTGCA
33729117 AGACCGAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.07
40 43 0.93
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (40 bp):
CACTTAGTGTGCATATCGAGATAACTTCGGCTATATTTGG
Found at i:33736968 original size:142 final size:141
Alignment explanation
Indices: 33736712--33736994 Score: 539
Period size: 142 Copynumber: 2.0 Consensus size: 141
33736702 GAAAGAATAA
33736712 AATAAGAGGTTAGCAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCAT
1 AATAAGAGGTTAGCAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCAT
33736777 GCCCCCCTCCATTGCCGTGAATTGAAGGAAGAAAACAAAAGAAAAGAAAAAAAATGTTCATCTTC
66 GCCCCCCTCCATTGCCGTGAATTGAAGGAAGAAAACAAAAGAAAAG-AAAAAAATGTTCATCTTC
33736842 TTCTCCTACCTC
130 TTCTCCTACCTC
*
33736854 AATAAGAGGTTAGTAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCAT
1 AATAAGAGGTTAGCAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCAT
*
33736919 GCCCCCCTCCATTGCCGTGAATTGAAGGAAGGAAACAAAAGAAAAGAAAAAAATGTTCATCTTCT
66 GCCCCCCTCCATTGCCGTGAATTGAAGGAAGAAAACAAAAGAAAAGAAAAAAATGTTCATCTTCT
33736984 TCTCCTACCTC
131 TCTCCTACCTC
33736995 TCTCAAGCCG
Statistics
Matches: 139, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
141 30 0.22
142 109 0.78
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (141 bp):
AATAAGAGGTTAGCAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCAT
GCCCCCCTCCATTGCCGTGAATTGAAGGAAGAAAACAAAAGAAAAGAAAAAAATGTTCATCTTCT
TCTCCTACCTC
Found at i:33739092 original size:18 final size:20
Alignment explanation
Indices: 33739069--33739107 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
33739059 TATACATGAT
33739069 AGTATATGTGG-T-ATGTGA
1 AGTATATGTGGATGATGTGA
*
33739087 AGTATATTTGGATGATGTGA
1 AGTATATGTGGATGATGTGA
33739107 A
1 A
33739108 TACATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 1 0.06
20 7 0.39
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (20 bp):
AGTATATGTGGATGATGTGA
Found at i:33739199 original size:47 final size:47
Alignment explanation
Indices: 33739141--33739334 Score: 253
Period size: 47 Copynumber: 4.1 Consensus size: 47
33739131 TTAGGATTTT
** * *
33739141 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
33739188 ATGCGATGAATGTGGACATACGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
33739235 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
33739282 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
33739329 ATGTGA
1 ATGTGA
33739335 AATATGTATG
Statistics
Matches: 125, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:33739290 original size:25 final size:25
Alignment explanation
Indices: 33739215--33739290 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
33739205 ATACGTATAT
33739215 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
33739240 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
33739262 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
33739287 GTGA
1 GTGA
33739291 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:33739367 original size:48 final size:48
Alignment explanation
Indices: 33739304--33739529 Score: 333
Period size: 48 Copynumber: 4.8 Consensus size: 48
33739294 TGAACATGCA
33739304 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
33739352 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
33739400 CATATGT-G--AA----AATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
33739441 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
33739491 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
33739530 GGCGATGTGC
Statistics
Matches: 162, Mismatches: 5, Indels: 22
0.86 0.03 0.12
Matches are distributed among these distances:
41 38 0.23
42 1 0.01
44 2 0.01
45 2 0.01
47 2 0.01
48 71 0.44
49 4 0.02
50 41 0.25
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:33739417 original size:41 final size:41
Alignment explanation
Indices: 33739369--33739448 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
33739359 GGTAAAGCCG
33739369 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGAA
1 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGAA
33739410 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTG
1 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTG
33739449 GTAAAGCCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (41 bp):
AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGAA
Found at i:33739425 original size:89 final size:91
Alignment explanation
Indices: 33739321--33739498 Score: 299
Period size: 89 Copynumber: 2.0 Consensus size: 91
33739311 GGTAAAGCCG
*
33739321 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAATGTG-AA
1 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAA
*
33739384 -ATATGTATGAGATATGCATATGTGAA
65 TATATATATGAGATATGCATATGTGAA
33739410 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAT
1 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAT
*
33739475 ATATATATGAGATATGTATATGTG
66 ATATATATGAGATATGCATATGTG
33739499 GTAAAGCCGA
Statistics
Matches: 83, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
89 58 0.70
90 3 0.04
91 22 0.27
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (91 bp):
AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAT
ATATATATGAGATATGCATATGTGAA
Found at i:33739497 original size:50 final size:50
Alignment explanation
Indices: 33739410--33739526 Score: 177
Period size: 50 Copynumber: 2.4 Consensus size: 50
33739400 CATATGTGAA
*
33739410 AATGGCTAATGTG-AA-ATATGTATGAGATATGCATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATATATATGAGATATGCATATGTGGTAAAGCCG
*
33739458 AATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCT-AATGTGAAATATATATATGAGATATGCATATGTGGTAAAGCCG
*
33739508 AATGGCTAGTGTGAAATAT
1 AATGGCTAATGTGAAATAT
33739527 GTAGGCGATG
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
47 1 0.02
48 11 0.18
49 2 0.03
50 47 0.76
51 1 0.02
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (50 bp):
AATGGCTAATGTGAAATATATATATGAGATATGCATATGTGGTAAAGCCG
Found at i:33739544 original size:50 final size:50
Alignment explanation
Indices: 33739410--33739550 Score: 166
Period size: 50 Copynumber: 2.8 Consensus size: 50
33739400 CATATGTGAA
33739410 AATGGCTAATGTGAAATATGTATGAGATATGC--ATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGCGTATATGTGGTAAAGCCG
*
33739458 AATGG-TCAATGTGAAATATATATATGAGATAT--GTATATGTGGTAAAGCCG
1 AATGGCT-AATGTG-AA-ATATGTATGAGATATGCGTATATGTGGTAAAGCCG
* * * *
33739508 AATGGCTAGTGTGAAATATGTAGGCGATGTGCGTATATTGTGG
1 AATGGCTAATGTGAAATATGTATGAGATATGCGTATA-TGTGG
33739551 CCGAACGACC
Statistics
Matches: 78, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
47 1 0.01
48 22 0.28
49 4 0.05
50 45 0.58
51 6 0.08
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.31
Consensus pattern (50 bp):
AATGGCTAATGTGAAATATGTATGAGATATGCGTATATGTGGTAAAGCCG
Found at i:33739725 original size:37 final size:37
Alignment explanation
Indices: 33739675--33739746 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
33739665 GGAAATATAT
*
33739675 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
33739712 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
33739747 CGTCTGAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:33741306 original size:159 final size:160
Alignment explanation
Indices: 33741016--33741326 Score: 500
Period size: 159 Copynumber: 1.9 Consensus size: 160
33741006 GAGAATTGAG
**
33741016 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
1 AGTGATATATCCGGAATAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
* * *
33741081 AAGAGCATTCGTGCTAGTGATGTATCTGGACTAAGCCTCGAAGAGCATTCGTGCTAGTGATGTAT
66 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGCCTCGAAGAGCATTCATGCTAGTGATATAT
33741146 CCGGGCTAAGT-CCGAAGAGCATTCGTGCT
131 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
33741175 AGTGATGTATCCGGAATAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
1 AGTGATATATCCGGAATAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
* * * *
33741240 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAG-TTCCGAAGAGCATTCATGCTGGTGTTATA
66 AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGCCT-CGAAGAGCATTCATGCTAGTGATATA
*
33741304 TCCGGGCTAGGTCCCGAAGAGCA
130 TCCGGGCTAAGTCCCGAAGAGCA
33741327 ATCATGCTGG
Statistics
Matches: 139, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
158 1 0.01
159 128 0.92
160 10 0.07
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (160 bp):
AGTGATATATCCGGAATAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
AAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGCCTCGAAGAGCATTCATGCTAGTGATATAT
CCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Done.