Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 126 of 333
Found at i:40683008 original size:29 final size:27
Alignment explanation
Indices: 40682870--40683008 Score: 136
Period size: 28 Copynumber: 5.0 Consensus size: 27
40682860 TAAATTGTAC
* * *
40682870 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
40682898 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
40682926 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
40682954 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
* *
40682981 AGCACTGAGTGTGTGGACTTAA-TATAT
1 AGCACTAAGTGTG-CGACTTAATTATAT
40683008 A
1 A
40683009 CTTTTGAATC
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
27 28 0.27
28 74 0.73
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:40690558 original size:28 final size:28
Alignment explanation
Indices: 40690518--40690639 Score: 201
Period size: 28 Copynumber: 4.4 Consensus size: 28
40690508 GAGATTGGCG
*
40690518 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
40690546 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
40690574 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
40690602 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
40690629 CTGAGTGTGCG
1 CTAAGTGTGCG
40690640 GACTTAATAT
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.27
28 66 0.73
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:40692958 original size:79 final size:82
Alignment explanation
Indices: 40692841--40693025 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
40692831 GCTACTCGTT
* *
40692841 CAAATGCCTTCGGGACATAGCCCGG-TTGTAGTAACTCGCACAAATGCCTTCGGGAT-TTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
40692904 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
40692921 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
40692984 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
40693001 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40693026 TATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 4 0.04
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATGTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:40693026 original size:40 final size:40
Alignment explanation
Indices: 40692822--40693028 Score: 226
Period size: 40 Copynumber: 5.2 Consensus size: 40
40692812 CGGAATTTTA
** *
40692822 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
40692862 CCGGTTGTAGTAACTCGCACAAATGCCTTCGGGATTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
40692902 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40692941 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
40692981 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
40693021 CCGGATAT
1 CCGGATAT
40693029 CATTCAAATA
Statistics
Matches: 141, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 95 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40695718 original size:27 final size:27
Alignment explanation
Indices: 40695687--40695744 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
40695677 ACCCCTTAAT
40695687 TGATAAAATGACTATTATGCCCCTATG
1 TGATAAAATGACTATTATGCCCCTATG
*
40695714 TGATAAAATGACTGTTATGCCCCTATG
1 TGATAAAATGACTATTATGCCCCTATG
40695741 TGAT
1 TGAT
40695745 GTATGATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (27 bp):
TGATAAAATGACTATTATGCCCCTATG
Found at i:40702897 original size:43 final size:42
Alignment explanation
Indices: 40702806--40702923 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
40702796 TTTCCACAAA
*
40702806 TGCCGCTAAAGGTCATGTTCTTTA-CGGCATTTGTGAGGAAAG
1 TGCCGCTAAAGGTCATGTTC-TTAGTGGCATTTGTGAGGAAAG
** *
40702848 CACCGCTAGAGGTCATGTTCGTTAGTGGCATTTGTG-GGAAAAG
1 TGCCGCTAAAGGTCATGTTC-TTAGTGGCATTTGTGAGG-AAAG
40702891 TGCCGCTAAAGGTCATGTTCTATAGTGGCATTT
1 TGCCGCTAAAGGTCATGTTCT-TAGTGGCATTT
40702924 TTCCACATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
42 23 0.35
43 42 0.65
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (42 bp):
TGCCGCTAAAGGTCATGTTCTTAGTGGCATTTGTGAGGAAAG
Found at i:40712327 original size:40 final size:40
Alignment explanation
Indices: 40712271--40712407 Score: 175
Period size: 40 Copynumber: 3.4 Consensus size: 40
40712261 GCTCGATATC
* * * * *
40712271 TCGCACACTAAGTGCCAAACATAGCCAAAACTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
* *
40712311 TCACACACTAAGTGCCATATATAGCCAAAGCTATGTTGAA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
** * *
40712351 TCGCATGCTAAGTGCCATATATAGCCGAAGCTATGTCGTA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
40712391 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
40712408 CAAATAACTG
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
Found at i:40715196 original size:24 final size:24
Alignment explanation
Indices: 40715169--40715214 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
40715159 GAATTTAACA
40715169 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
40715193 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
40715215 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:40721461 original size:28 final size:28
Alignment explanation
Indices: 40721417--40721478 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
40721407 ATCTACTAGA
*
40721417 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATAACCATT
* *
40721445 ATACCCCTATGTGTGCAAAATAACCTTT
1 ATACCCCTATGTATGCAAAATAACCATT
40721473 ATACCC
1 ATACCC
40721479 TAGGGTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATAACCATT
Found at i:40721627 original size:28 final size:27
Alignment explanation
Indices: 40721586--40721675 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
40721576 AGGAAGCGTC
40721586 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* **
40721614 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
40721641 CTGGTGGCACTGCCACAAGATATCTGTAT
1 CTGGTGGCACTGCCACAA-ATATCTGT-T
40721670 CTGGTG
1 CTGGTG
40721676 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:40721686 original size:29 final size:28
Alignment explanation
Indices: 40721596--40721686 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 28
40721586 CTGGTGGCTA
* *
40721596 TGCCACAA-ATTATCTGTTCTGGTGGCCC
1 TGCCACAAGA-TATCTGTTCTGGTGACAC
*
40721624 TGCCAC--GTATATCTGTTCTGGTGGCAC
1 TGCCACAAG-ATATCTGTTCTGGTGACAC
*
40721651 TGCCACAAGATATCTGTATCTGGTGACTC
1 TGCCACAAGATATCTGT-TCTGGTGACAC
*
40721680 TGTCACA
1 TGCCACA
40721687 TTTCTTGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
27 23 0.43
28 15 0.28
29 16 0.30
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (28 bp):
TGCCACAAGATATCTGTTCTGGTGACAC
Found at i:40722795 original size:11 final size:10
Alignment explanation
Indices: 40722767--40722800 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
40722757 AGCCTGTAAG
40722767 TATTCTGAAT
1 TATTCTGAAT
*
40722777 TTTTCTGAAT
1 TATTCTGAAT
40722787 ATATTCTGAAT
1 -TATTCTGAAT
40722798 TAT
1 TAT
40722801 CTATCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:40727838 original size:39 final size:39
Alignment explanation
Indices: 40727721--40727944 Score: 211
Period size: 39 Copynumber: 5.6 Consensus size: 39
40727711 GCTACTCGTT
* * *
40727721 CAAATGCCTTCCGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTT-CGGGCTTAGCCCGGAAT-TAGTAACTCGCA
* * *
40727761 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
* *
40727801 CAAATGCCTTTGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * *
40727840 TAAATGCCTTCGAGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
** * * * *
40727879 CAAATGCCTTCAGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTC-GGGCTTAGCCCGGAAT-TAGTAAC-TCGCA
40727920 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
40727945 CATCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
39 74 0.48
40 71 0.46
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:40727898 original size:79 final size:79
Alignment explanation
Indices: 40727749--40727944 Score: 200
Period size: 79 Copynumber: 2.5 Consensus size: 79
40727739 AGCCCGGTTA
* * * * *
40727749 TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTTGG
1 TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTAGA
40727814 GCTTAGCCCGGAAT
66 GCTTAGCCCGGAAT
* * * *
40727828 TAGTATCTCGCATAAATGCCTTCGAG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCAG
1 TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTT-AG
* *
40727892 ATCTTAGTCCGG-AT
65 AGCTTAGCCCGGAAT
* * * * *
40727906 ATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGAGACTTAACCCGGA
40727945 CATCATTCAA
Statistics
Matches: 96, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
78 34 0.35
79 44 0.46
80 18 0.19
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (79 bp):
TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTAGA
GCTTAGCCCGGAAT
Found at i:40732866 original size:28 final size:27
Alignment explanation
Indices: 40732825--40732912 Score: 108
Period size: 27 Copynumber: 3.2 Consensus size: 27
40732815 GGAAGCGTCC
40732825 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
40732853 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
40732880 CTGGTGGCACTGCCACAAA-ATTTGTAT
1 CTGGTGGCACTGCCACAAATATCTGT-T
40732907 CTGGTG
1 CTGGTG
40732913 ACTCTGTCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.09
27 32 0.60
28 16 0.30
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:40743347 original size:16 final size:15
Alignment explanation
Indices: 40743318--40743348 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
40743308 TAAAATAATT
40743318 ATAAAATATAATATA
1 ATAAAATATAATATA
40743333 ATAAAATAATAATATA
1 ATAAAAT-ATAATATA
40743349 TACTAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAAATATAATATA
Found at i:40755838 original size:18 final size:18
Alignment explanation
Indices: 40755815--40755868 Score: 108
Period size: 18 Copynumber: 3.0 Consensus size: 18
40755805 TGAATAGGGG
40755815 AATCCGAATTCATTCTGA
1 AATCCGAATTCATTCTGA
40755833 AATCCGAATTCATTCTGA
1 AATCCGAATTCATTCTGA
40755851 AATCCGAATTCATTCTGA
1 AATCCGAATTCATTCTGA
40755869 CTCTGTCTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
AATCCGAATTCATTCTGA
Found at i:40760890 original size:43 final size:43
Alignment explanation
Indices: 40760787--40760903 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
40760777 GTTCAACTCG
* * * **
40760787 GGATTACCCGTATGGGCTAAATTCTTTATATACTGAAATCAAT
1 GGATTACCTGTATGGGCTAAATCCATTCCATACTGAAATCAAT
** *
40760830 GGATTACCCT-TCCGGGCTAAATCCATTCCATACTGAGATCAAT
1 GGATTA-CCTGTATGGGCTAAATCCATTCCATACTGAAATCAAT
*
40760873 GGATTACCTGTTTGGGCTAAATCCATTCCAT
1 GGATTACCTGTATGGGCTAAATCCATTCCAT
40760904 CACATTCACT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 3 0.05
43 57 0.92
44 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (43 bp):
GGATTACCTGTATGGGCTAAATCCATTCCATACTGAAATCAAT
Found at i:40760919 original size:146 final size:144
Alignment explanation
Indices: 40760654--40760939 Score: 362
Period size: 146 Copynumber: 2.0 Consensus size: 144
40760644 TTACCCATCC
* ** *
40760654 GGGCTAAATCCTTTATATACAGAGATTGATGGATTACCCGTCCCAGGCTAAATCCTTTACAATAT
1 GGGCTAAATCCTTTATATACAGAAATCAATGGATTACCCGTCCCAGGCTAAATCCATTACAATAT
* * *
40760719 AAACCAATGGATTACCCGTTTGGGCTAAATCCATTCTATCATATTTATTCGAGAGGAAGTTCAAC
66 AAACCAATGGATTACCCGTTTGGGCTAAATCCATTCCATCACATTCATTCGAGA-G-AGTTCAAC
40760784 TCGGGATTACCCGTAT
129 TCGGGATTACCCGTAT
* * * * *
40760800 GGGCTAAATTCTTTATATACTGAAATCAATGGATTACCC-TTCCGGGCTAAATCCATT-CCATAC
1 GGGCTAAATCCTTTATATACAGAAATCAATGGATTACCCGTCCCAGGCTAAATCCATTACAATA-
* * * *
40760863 TGAGATCAATGGATTACCTGTTTGGGCTAAATCCATTCCATCACATTCACTT-GAGAGAGTTTAA
65 T-AAACCAATGGATTACCCGTTTGGGCTAAATCCATTCCATCACATTCA-TTCGAGAGAGTTCAA
40760927 CTCGGGATTACCC
128 CTCGGGATTACCC
40760940 ATCCAGGCTA
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
144 23 0.19
145 17 0.14
146 79 0.65
147 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (144 bp):
GGGCTAAATCCTTTATATACAGAAATCAATGGATTACCCGTCCCAGGCTAAATCCATTACAATAT
AAACCAATGGATTACCCGTTTGGGCTAAATCCATTCCATCACATTCATTCGAGAGAGTTCAACTC
GGGATTACCCGTAT
Found at i:40767001 original size:16 final size:17
Alignment explanation
Indices: 40766971--40767003 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
40766961 TCACACCATG
*
40766971 AATTTCACAAGTGAATT
1 AATTTCACAAATGAATT
40766988 AATTT-ACAAATGAATT
1 AATTTCACAAATGAATT
40767004 CAGAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (17 bp):
AATTTCACAAATGAATT
Found at i:40770180 original size:18 final size:18
Alignment explanation
Indices: 40770159--40770199 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
40770149 TCTTTACTTT
40770159 CCTCCAAAACTTTTATTC
1 CCTCCAAAACTTTTATTC
*
40770177 CCTCTAAAACTTTTATTC
1 CCTCCAAAACTTTTATTC
40770195 CCTCC
1 CCTCC
40770200 CACATTCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.37, G:0.00, T:0.39
Consensus pattern (18 bp):
CCTCCAAAACTTTTATTC
Found at i:40770207 original size:30 final size:30
Alignment explanation
Indices: 40770173--40770256 Score: 150
Period size: 30 Copynumber: 2.8 Consensus size: 30
40770163 CAAAACTTTT
* *
40770173 ATTCCCTCTAAAACTTTTATTCCCTCCCAC
1 ATTCCCCCCAAAACTTTTATTCCCTCCCAC
40770203 ATTCCCCCCAAAACTTTTATTCCCTCCCAC
1 ATTCCCCCCAAAACTTTTATTCCCTCCCAC
40770233 ATTCCCCCCAAAACTTTTATTCCC
1 ATTCCCCCCAAAACTTTTATTCCC
40770257 CTCGTATCCC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.33
Consensus pattern (30 bp):
ATTCCCCCCAAAACTTTTATTCCCTCCCAC
Found at i:40770332 original size:19 final size:19
Alignment explanation
Indices: 40770310--40770365 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
40770300 ATTTTTTTTA
40770310 CTCCACCCATTTATTTTCC
1 CTCCACCCATTTATTTTCC
* *
40770329 CTCCA---A--AATTTT-A
1 CTCCACCCATTTATTTTCC
40770342 CTCCACCCATTTATTTTCC
1 CTCCACCCATTTATTTTCC
40770361 CTCCA
1 CTCCA
40770366 AAATTTTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 12
0.63 0.09 0.28
Matches are distributed among these distances:
13 5 0.19
14 5 0.19
16 2 0.07
18 5 0.19
19 10 0.37
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCCACCCATTTATTTTCC
Found at i:40770344 original size:32 final size:32
Alignment explanation
Indices: 40770305--40770375 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
40770295 CCCTAATTTT
40770305 TTTTACTCCACCCATTTATTTTCCCTCCAAAA
1 TTTTACTCCACCCATTTATTTTCCCTCCAAAA
40770337 TTTTACTCCACCCATTTATTTTCCCTCCAAAA
1 TTTTACTCCACCCATTTATTTTCCCTCCAAAA
40770369 TTTTACT
1 TTTTACT
40770376 TCCTTAACCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (32 bp):
TTTTACTCCACCCATTTATTTTCCCTCCAAAA
Found at i:40779862 original size:79 final size:81
Alignment explanation
Indices: 40779720--40779902 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 81
40779710 TACTCGTTCA
* * *
40779720 AATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
40779784 TTTAGT-AGC-TCGCACC
66 TATAGTCA-CTTAGCA-C
* **
40779800 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
40779862 ATATGGTCACTTAGCAC
65 ATATAGTCACTTAGCAC
*
40779879 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
40779903 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 29 0.33
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTCACTTAGCAC
Found at i:40779902 original size:40 final size:39
Alignment explanation
Indices: 40779699--40779902 Score: 209
Period size: 40 Copynumber: 5.1 Consensus size: 39
40779689 CGGAATTTAA
** * *
40779699 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGTCATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
40779739 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
* *
40779779 CCGGATTTAGTAGCTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
*
40779818 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTA-CTCGCACAAATGCCTTCGGGA-CTTAGC
* *
40779858 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
40779898 CCGGA
1 CCGGA
40779903 CATCATTCGA
Statistics
Matches: 138, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 90 0.65
41 13 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40781193 original size:55 final size:55
Alignment explanation
Indices: 40781031--40781205 Score: 332
Period size: 56 Copynumber: 3.1 Consensus size: 55
40781021 TATTAGTTTA
40781031 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATT-TTCCATTAACACAACATGTTTCATGACATGTT
40781087 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTA-TTTTCCATTAACACAACATGTTTCATGACATGTT
40781143 TTGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTTCATGACATGTT
40781198 TTGCCCAT
1 TTGCCCAT
40781206 CATCCCTTGT
Statistics
Matches: 118, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
55 42 0.36
56 74 0.63
57 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (55 bp):
TTGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:40787046 original size:40 final size:39
Alignment explanation
Indices: 40787009--40787180 Score: 220
Period size: 40 Copynumber: 4.3 Consensus size: 39
40786999 GCTACTCGTT
* * *
40787009 CAAATGCCTTCGGGTCATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
*
40787049 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
*
40787089 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCG-GTTTAGTAACTCGCA
* * * *
40787129 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
40787168 CAAATGCCTTCGG
1 CAAATGCCTTCGG
40787181 ATCTTAGTCT
Statistics
Matches: 117, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 32 0.27
40 83 0.71
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:40787187 original size:40 final size:39
Alignment explanation
Indices: 40787009--40787233 Score: 215
Period size: 40 Copynumber: 5.6 Consensus size: 39
40786999 GCTACTCGTT
* * *
40787009 CAAATGCCTTCGGGTCATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
40787049 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAATTAGTAACTCGCA
*
40787089 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAA-TTAGTAACTCGCA
* * *
40787129 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * *
40787168 CAAATGCCTTCGGATCTTAGTCTGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
40787209 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
40787234 CATCATTCGA
Statistics
Matches: 157, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 37 0.24
40 107 0.68
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:40787217 original size:79 final size:78
Alignment explanation
Indices: 40787009--40787233 Score: 218
Period size: 79 Copynumber: 2.8 Consensus size: 78
40786999 GCTACTCGTT
* * * ** * * *
40787009 CAAATGCCTTCGGGTCATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAA-GCCTTC-GGGCTTAGCCCGG
*
40787074 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * *
40787089 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCA-CAAAGCCTTCGGGCTTAGCCCGGA
*
40787154 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
** * * * *
40787168 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACAAAGCCTTCGGG-CTTAGCCCG
40787232 GA
63 GA
40787234 CATCATTCGA
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
78 3 0.02
79 60 0.50
80 55 0.45
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACAAAGCCTTCGGGCTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:40787217 original size:119 final size:120
Alignment explanation
Indices: 40787011--40787231 Score: 288
Period size: 119 Copynumber: 1.9 Consensus size: 120
40787001 TACTCGTTCA
*
40787011 AATGCCTTCGGGTCATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
1 AATGCCTTCGGGTCATAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
* *
40787076 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
* * ** *
40787131 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTGG
1 AATGCCTTCGGGTCATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGG
* * *
40787193 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCG
40787232 GACATCATTC
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 63 0.72
120 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGTCATAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
Found at i:40788450 original size:55 final size:56
Alignment explanation
Indices: 40788360--40788478 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
40788350 TATTAGTTTA
40788360 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
40788416 TTGCCCATGCTTCTTA-TTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
40788471 TTGCCCAT
1 TTGCCCAT
40788479 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 47 0.75
56 16 0.25
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:40790632 original size:13 final size:13
Alignment explanation
Indices: 40790614--40790638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40790604 GAAAGAGATT
40790614 TTGATGATTTTTC
1 TTGATGATTTTTC
40790627 TTGATGATTTTT
1 TTGATGATTTTT
40790639 GCACTTTTAG
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:40791445 original size:48 final size:47
Alignment explanation
Indices: 40791341--40791757 Score: 176
Period size: 46 Copynumber: 8.8 Consensus size: 47
40791331 TCATTTGTGT
*
40791341 GCTAGTGTAAGA-CATGTCT-AGGACAT-GCATTGGCCACATT-ATGAGAGA
1 GCTAGTGTAAGACCATGTCTGA-GACATGGCATCGG---CATTGA-GAGAGA
40791389 -C-AGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGA-GAGA
* * **
40791435 GCTAGTGTAAGA-CATGTGT-AGGACAT-GCATCGGCCTCAAGAG-GTAA
1 GCTAGTGTAAGACCATGTCTGA-GACATGGCATCGGCATTGAGAGAG--A
* * * *
40791481 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCTGC--T-ACGAGATGT
1 GCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGA-GAGA-GA
* * *
40791525 G-TCAGTGTAAGACCATGT-TCAGGACATGGCATCTGCACATAT-AGAG-GT
1 GCT-AGTGTAAGACCATGTCTGA-GACATGGCATC-G-GCAT-TGAGAGAGA
* * * * * * *
40791573 GTTAGTGTAAGACAATGTCTGGGACATGGCATTGGCACGGATGTGCGAGA
1 GCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCA---TTGAGAGAGA
* * * * ** *
40791623 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTGATA
1 GCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGA--GAGAGA
* * * *
40791672 G-TCAGTGTAAGGCCATGTTTGGGACATGGCATCGAC-TTGATG-GACGA
1 GCT-AGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGA-GAGA-GA
* *
40791719 GCCAGTGTAAGACCATGTCTGAGATATGGCATCGGCATT
1 GCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATT
40791758 ATACCCTATG
Statistics
Matches: 284, Mismatches: 49, Indels: 72
0.70 0.12 0.18
Matches are distributed among these distances:
43 1 0.00
44 15 0.05
45 17 0.06
46 67 0.24
47 58 0.20
48 51 0.18
49 37 0.13
50 36 0.13
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGAGAGA
Found at i:40798130 original size:13 final size:13
Alignment explanation
Indices: 40798112--40798136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40798102 TACAAGTGTT
40798112 TTGATGATTTTTC
1 TTGATGATTTTTC
40798125 TTGATGATTTTT
1 TTGATGATTTTT
40798137 GCACTTTTAG
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:40798989 original size:46 final size:46
Alignment explanation
Indices: 40798845--40799155 Score: 219
Period size: 46 Copynumber: 6.6 Consensus size: 46
40798835 TTTGTGCGCT
* * *
40798845 AGTGTAAGACATGTCTGGGAAATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * *
40798891 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
* *
40798939 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGAGGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * *
40798985 AGTGTAAGACATGTCTAGGACATGCATCGG-CTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
* * *
40799029 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CACG-GATGTGCGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA--T--GAGAGCC
* * * *
40799079 TGTGTAAGACCATGTCTGGGACATGGCAT-TGACT--TGATGGACGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-GA-GAGCC
*
40799126 AGTGTAAGACCATGTCTGGGGCATGTCATC
1 AGTGTAAGA-CATGTCTGGGACATG-CATC
40799156 TGCATTATAC
Statistics
Matches: 217, Mismatches: 29, Indels: 36
0.77 0.10 0.13
Matches are distributed among these distances:
44 13 0.06
45 16 0.07
46 73 0.34
47 57 0.26
48 24 0.11
49 4 0.02
50 30 0.14
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:40800632 original size:40 final size:40
Alignment explanation
Indices: 40800549--40800811 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
40800539 GTGAATGCTG
* * * * * *
40800549 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
40800589 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40800629 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
40800669 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40800709 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40800749 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40800788 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
40800812 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:40807935 original size:40 final size:40
Alignment explanation
Indices: 40807852--40808114 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
40807842 GTGAATGCTG
* * * * * *
40807852 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
40807892 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
40807932 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
40807972 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40808012 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40808052 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40808091 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
40808115 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.18
40 154 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:40808134 original size:79 final size:80
Alignment explanation
Indices: 40807891--40808149 Score: 254
Period size: 80 Copynumber: 3.3 Consensus size: 80
40807881 AAGTGAATAT
* * * * * *
40807891 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * ** *
40807955 TCGTGCAAGTTGTTAA
65 TCGAACGAGGAGCTAA
* * *
40807971 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
40808036 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
40808051 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
40808115 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
40808130 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
40808150 TACGTGATTT
Statistics
Matches: 157, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.09
79 47 0.30
80 96 0.61
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:40809955 original size:28 final size:28
Alignment explanation
Indices: 40809915--40809969 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
40809905 AAGGTTTTTA
*
40809915 GACATGGGCGTGT-CATGGCCGTGTGAGG
1 GACACGGGCGTGTCCA-GGCCGTGTGAGG
40809943 GACACGGGCGTGTGCCAGGCCGTGTGA
1 GACACGGGCGTGT-CCAGGCCGTGTGA
40809970 AAACCCCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 12 0.50
29 10 0.42
30 2 0.08
ACGTcount: A:0.15, C:0.22, G:0.45, T:0.18
Consensus pattern (28 bp):
GACACGGGCGTGTCCAGGCCGTGTGAGG
Found at i:40815325 original size:85 final size:85
Alignment explanation
Indices: 40815182--40815360 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
40815172 GGCCGGCCAT
40815182 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
40815247 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
40815267 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
40815332 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
40815352 GAGCATGGG
1 GAGCATGGG
40815361 CAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:40816630 original size:39 final size:41
Alignment explanation
Indices: 40816529--40816712 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
40816519 TCGAATGATG
* * *
40816529 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
40816569 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
40816609 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
40816648 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
40816688 ACCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40816713 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
39 49 0.39
40 67 0.53
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:40816665 original size:79 final size:80
Alignment explanation
Indices: 40816529--40816710 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 80
40816519 TCGAATGATG
* *
40816529 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
40816593 TGTGCGAGTTACTA-A
65 TGTGCGAGTTACTATA
* * * **
40816608 TTCCGGGCTAAGCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
40816671 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* * *
40816688 ACCGGGCTATGTCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATT
40816711 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 70 0.79
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:40816719 original size:79 final size:78
Alignment explanation
Indices: 40816582--40816745 Score: 206
Period size: 79 Copynumber: 2.1 Consensus size: 78
40816572 GGACTAAGAT
* **
40816582 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTA
*
40816646 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* * *
40816661 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTA
* *
40816725 TATCCGGTTAAATT
65 AATCCGGTTAAATC
40816739 CCGAAGG
1 CCGAAGG
40816746 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 18 0.24
79 56 0.76
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:40821836 original size:40 final size:40
Alignment explanation
Indices: 40821787--40821937 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
40821777 CGGAATTTAA
** * *
40821787 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
* *
40821827 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * * *
40821867 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
40821906 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGG
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGG
40821938 ATCTTAGTCC
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.36
40 62 0.64
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:40821920 original size:39 final size:40
Alignment explanation
Indices: 40821806--40821990 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
40821796 GCTACTCGTT
* *
40821806 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
40821846 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
40821886 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
40821925 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
40821966 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40821991 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40821974 original size:79 final size:80
Alignment explanation
Indices: 40821806--40821990 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
40821796 GCTACTCGTT
* * *
40821806 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
40821870 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* **
40821887 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
40821950 ATATGGTCACTTAGTA-
65 ATATAGTAAC-TAGCAC
40821966 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
40821991 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 59 0.67
80 23 0.26
81 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:40823281 original size:55 final size:56
Alignment explanation
Indices: 40823117--40823291 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
40823107 TATTAGTTTA
40823117 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
40823173 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
40823229 TTGCCCATGCTTCTTATTTTATT-TTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
40823284 TTGCCCAT
1 TTGCCCAT
40823292 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
55 40 0.34
56 79 0.66
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:40829860 original size:40 final size:40
Alignment explanation
Indices: 40829786--40829969 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
40829776 GCTACTCGTT
*
40829786 CAAATGCCTTCGGGA-ATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
40829825 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
40829865 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
40829904 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
40829945 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40829970 CATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 48 0.38
40 63 0.50
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:40829885 original size:79 final size:79
Alignment explanation
Indices: 40829788--40829969 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 79
40829778 TACTCGTTCA
** *
40829788 AATGCCTTCGGGAATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
40829851 TTTAGTAAC-TCGCACC
64 TATAGTAACTTAGCA-C
**
40829867 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
* *
40829932 TGGTCACTTAGCAC
66 TAGTAACTTAGCAC
*
40829946 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
40829970 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 70 0.79
80 16 0.18
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATA
TAGTAACTTAGCAC
Found at i:40831164 original size:56 final size:56
Alignment explanation
Indices: 40831097--40831272 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
40831087 TATTAGTTTA
40831097 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
40831153 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
40831209 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
40831265 TTGCCCAT
1 TTGCCCAT
40831273 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:40833946 original size:85 final size:85
Alignment explanation
Indices: 40833803--40833981 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
40833793 GGCTGGCCAT
40833803 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
40833868 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
40833888 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
40833953 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
40833973 GAGCATGGG
1 GAGCATGGG
40833982 CAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:40835281 original size:79 final size:80
Alignment explanation
Indices: 40835145--40835323 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 80
40835135 TCGAATGATG
* *
40835145 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
40835210 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
40835224 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
40835286 TTTGTGCGAGTTACTATA
63 TTTGTGCGAGTTACTATA
* *
40835304 ACCGGGCTATGTCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
40835324 AATTTGAACG
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.69
80 26 0.30
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:40835336 original size:40 final size:39
Alignment explanation
Indices: 40835146--40835329 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
40835136 CGAATGATGT
* * * *
40835146 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
40835186 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
40835226 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40835264 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
40835305 CCGGGCTATGTCCCGAAGGAATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
40835330 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40835351 original size:79 final size:79
Alignment explanation
Indices: 40835198--40835362 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
40835188 GGACTAAGAT
* * **
40835198 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGAATTGGAACGAGTTACTAA
*
40835263 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
40835277 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGAATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGAATTGGAACGAGTTA-C
* *
40835340 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
40835356 CCGAAGG
1 CCGAAGG
40835363 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.66
80 23 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGAATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:40838039 original size:47 final size:47
Alignment explanation
Indices: 40837985--40838178 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
40837975 TTAGGATTTT
** * *
40837985 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
40838032 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
40838079 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
40838126 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
40838173 ATGTGA
1 ATGTGA
40838179 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:40838060 original size:25 final size:25
Alignment explanation
Indices: 40838032--40838110 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
40838022 CGAATGGCCA
40838032 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAGCATGCATAT
* * *
40838057 ATGTGAT-AA-G-GCCGAATGGC-CA-
1 ATGTGATGAATGTG-AGCAT-GCATAT
40838079 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAGCATGCATAT
*
40838104 GTGTGAT
1 ATGTGAT
40838111 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 9 0.22
25 14 0.35
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAGCATGCATAT
Found at i:40838085 original size:22 final size:22
Alignment explanation
Indices: 40838014--40838085 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
40838004 GTATATATGA
40838014 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
40838036 GATGAATGTG-AGCAT-GCATATATGT
1 GAT-AA-G-GCCGAATGGC-CA-ATGT
40838061 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
40838083 GAT
1 GAT
40838086 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:40838134 original size:25 final size:25
Alignment explanation
Indices: 40838059--40838134 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
40838049 ATGCATATAT
40838059 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
40838084 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
40838106 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
40838131 GTGA
1 GTGA
40838135 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:40838212 original size:48 final size:48
Alignment explanation
Indices: 40838149--40838284 Score: 211
Period size: 50 Copynumber: 2.8 Consensus size: 48
40838139 GAACATGCAT
40838149 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* *
40838197 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGC
*
40838247 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
40838285 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
47 1 0.01
48 33 0.41
49 4 0.05
50 41 0.51
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:40838299 original size:50 final size:50
Alignment explanation
Indices: 40838143--40838305 Score: 201
Period size: 50 Copynumber: 3.3 Consensus size: 50
40838133 GAATATGAAC
*
40838143 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
40838193 ATGC--ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGAT
* * *
40838243 AT--GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
40838291 GTGCGTATATTGTGG
1 ATGCGTATA-TGTGG
40838306 CCGAACGACC
Statistics
Matches: 98, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
47 1 0.01
48 38 0.39
49 4 0.04
50 49 0.50
51 6 0.06
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
Found at i:40838538 original size:37 final size:37
Alignment explanation
Indices: 40838430--40838538 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
40838420 GGAAATATAT
*
40838430 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
40838467 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
40838504 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
40838539 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:40840686 original size:29 final size:27
Alignment explanation
Indices: 40840668--40840737 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
40840658 ATATTAAGTC
40840668 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
40840695 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
40840723 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
40840738 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:40840731 original size:28 final size:28
Alignment explanation
Indices: 40840668--40840762 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
40840658 ATATTAAGTC
*
40840668 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
40840695 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
40840723 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
40840752 CGCACACTTAG
1 CGCACACTTAG
40840763 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:40848702 original size:29 final size:27
Alignment explanation
Indices: 40848684--40848753 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
40848674 ATATTAAGTC
40848684 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
40848711 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
40848739 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
40848754 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:40848747 original size:28 final size:28
Alignment explanation
Indices: 40848684--40848778 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
40848674 ATATTAAGTC
*
40848684 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
40848711 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
40848739 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
40848768 CGCACACTTAG
1 CGCACACTTAG
40848779 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:40850703 original size:27 final size:27
Alignment explanation
Indices: 40850672--40850823 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
40850662 ATATTAAGTC
* * *
40850672 CGCACACTCAGTGCTATATAATCAAGT
1 CGCACACTTAGTGCTACATAATCAACT
40850699 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
40850727 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
40850754 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
40850782 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
40850809 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
40850824 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 66 0.56
28 51 0.44
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:40850733 original size:55 final size:55
Alignment explanation
Indices: 40850672--40850848 Score: 237
Period size: 55 Copynumber: 3.2 Consensus size: 55
40850662 ATATTAAGTC
* * * *
40850672 CGCACACTCAGTGCTATATAATCAAGTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
40850727 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
40850782 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
40850838 CGCACACTTAG
1 CGCACACTTAG
40850849 CGCCAATCTC
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
55 92 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:40858644 original size:27 final size:27
Alignment explanation
Indices: 40858613--40858756 Score: 198
Period size: 28 Copynumber: 5.2 Consensus size: 27
40858603 ATATTAAGTC
* * *
40858613 CGCACACTCAGTGCTATATAATCAAGT
1 CGCACACTTAGTGCTACATAATCAACT
40858640 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
40858668 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
40858695 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
40858723 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
40858750 CTGCACA
1 C-GCACA
40858757 TTAATTCGCA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
27 52 0.48
28 56 0.52
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:40858674 original size:55 final size:55
Alignment explanation
Indices: 40858613--40858756 Score: 207
Period size: 55 Copynumber: 2.6 Consensus size: 55
40858603 ATATTAAGTC
* * * *
40858613 CGCACACTCAGTGCTATATAATCAAGTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
40858668 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
40858723 CGCACACTTAGTGCTACATATTCAATTCTGCACA
1 CGCACACTTAGTGCTACATAATCAACTC-GCACA
40858757 TTAATTCGCA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 75 0.94
56 5 0.06
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:40865160 original size:29 final size:29
Alignment explanation
Indices: 40865103--40865259 Score: 212
Period size: 29 Copynumber: 5.5 Consensus size: 29
40865093 ATAGTAAGTC
* *
40865103 CGCACACTTAGT-TTTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
40865131 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
40865160 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
40865189 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
40865217 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
40865246 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40865260 CAATCTCATG
Statistics
Matches: 116, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
28 38 0.33
29 76 0.66
30 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:40865211 original size:57 final size:58
Alignment explanation
Indices: 40865103--40865259 Score: 212
Period size: 57 Copynumber: 2.7 Consensus size: 58
40865093 ATAGTAAGTC
* *
40865103 CGCACACTTAGT-TTTATATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
*
40865160 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
* * * * *
40865217 TGCACACTTAGTGCTATGCA-ATTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCT-TACATAATCAAACTCGCACACTTAGTGC
40865260 CAATCTCATG
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
57 59 0.66
58 31 0.34
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.29
Consensus pattern (58 bp):
CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
Found at i:40868202 original size:42 final size:42
Alignment explanation
Indices: 40868091--40868244 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 42
40868081 TATTACACCA
* * ** * *
40868091 ATGCCATATCCCAGATAT-GTCATACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* *
40868132 ATGCCAATAACCTAGCA-ATGGTCTTACACGAAATCTCATATTG
1 ATGCC-ATATCCCAG-ATATGGTCTTACACGAAATCTCATATTG
*
40868175 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAATG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* * * *
40868217 CTGTCATATCCCAGATATAGACTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
40868245 ATAGCCTCGG
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
41 6 0.06
42 65 0.69
43 23 0.24
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
Found at i:40872813 original size:17 final size:18
Alignment explanation
Indices: 40872787--40872822 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
40872777 CAATTTGGGC
40872787 CGTGTAGGCC-ACACGGG
1 CGTGTAGGCCAACACGGG
*
40872804 CGTGTGGGCCAACACGGG
1 CGTGTAGGCCAACACGGG
40872822 C
1 C
40872823 AAGCCACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.17, C:0.31, G:0.42, T:0.11
Consensus pattern (18 bp):
CGTGTAGGCCAACACGGG
Found at i:40886978 original size:30 final size:28
Alignment explanation
Indices: 40886908--40886982 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 28
40886898 GAATTATGCT
* * *
40886908 ATTATGAAAATGGATGATATGACCATCA
1 ATTATGAAAAGGGATGGTATGACCACCA
** *
40886936 ACAATAAAAAGGGATGGTGATGACCACCGA
1 ATTATGAAAAGGGATGGT-ATGACCACC-A
40886966 ATTATGAAAAGGGATGG
1 ATTATGAAAAGGGATGG
40886983 CTTTGGCTAT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
28 13 0.36
29 8 0.22
30 15 0.42
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (28 bp):
ATTATGAAAAGGGATGGTATGACCACCA
Found at i:40886998 original size:30 final size:30
Alignment explanation
Indices: 40886964--40887158 Score: 164
Period size: 30 Copynumber: 6.5 Consensus size: 30
40886954 GATGACCACC
*
40886964 GAATTATGAAAAGGGATGGCTTTGGCTATA
1 GAATTATGAAAAGGGATGGCTTCGGCTATA
* * *
40886994 GAATTATGAAAAAGGATGGCTTCAGCTATC
1 GAATTATGAAAAGGGATGGCTTCGGCTATA
* * *
40887024 GAATTATGAAAATGGATAGCTTTGGCTATCA
1 GAATTATGAAAAGGGATGGCTTCGGCTAT-A
** * * *
40887055 G-ATTATGAAAATAGATGG-TGAT-GACCATT
1 GAATTATGAAAAGGGATGGCT--TCGGCTATA
40887084 GAATTATGAAAAGGGATGGCTTCGGCTATCA
1 GAATTATGAAAAGGGATGGCTTCGGCTAT-A
** * * *
40887115 -AAACATGGAAAGGGATAGCTTCGGCTATT
1 GAATTATGAAAAGGGATGGCTTCGGCTATA
*
40887144 GAACTATGAAAAGGG
1 GAATTATGAAAAGGG
40887159 GTGGTAACAA
Statistics
Matches: 130, Mismatches: 27, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
29 3 0.02
30 124 0.95
31 3 0.02
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (30 bp):
GAATTATGAAAAGGGATGGCTTCGGCTATA
Found at i:40887031 original size:60 final size:61
Alignment explanation
Indices: 40886963--40887158 Score: 197
Period size: 60 Copynumber: 3.3 Consensus size: 61
40886953 TGATGACCAC
40886963 CGAATTATGAAAAGGGATGGCTTTGGCTAT-AGAATTATGAAAAAGGATGGCTTCAGCTAT
1 CGAATTATGAAAAGGGATGGCTTTGGCTATCAGAATTATGAAAAAGGATGGCTTCAGCTAT
* * * *
40887023 CGAATTATGAAAATGGATAGCTTTGGCTATCAG-ATTATGAAAATA-GATGG--TGATGACCAT
1 CGAATTATGAAAAGGGATGGCTTTGGCTATCAGAATTATGAAAA-AGGATGGCTTCA-G-CTAT
* * ** * * * *
40887083 TGAATTATGAAAAGGGATGGCTTCGGCTATCA-AAACATGGAAAGGGATAGCTTCGGCTAT
1 CGAATTATGAAAAGGGATGGCTTTGGCTATCAGAATTATGAAAAAGGATGGCTTCAGCTAT
* *
40887143 TGAACTATGAAAAGGG
1 CGAATTATGAAAAGGG
40887159 GTGGTAACAA
Statistics
Matches: 111, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 103 0.93
61 4 0.04
62 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.27
Consensus pattern (61 bp):
CGAATTATGAAAAGGGATGGCTTTGGCTATCAGAATTATGAAAAAGGATGGCTTCAGCTAT
Found at i:40887172 original size:90 final size:90
Alignment explanation
Indices: 40886994--40887172 Score: 198
Period size: 90 Copynumber: 2.0 Consensus size: 90
40886984 TTTGGCTATA
* ** * * *
40886994 GAATTATGAAAAAGGATGGCTTCAGCTATCGAATTATGAAAATGGATAGCTTTGGCTATCAGATT
1 GAATTATGAAAAAGGATGGCTTCAGCTATCAAAACATGAAAAGGGATAGCTTCGGCTATCAGACT
* * **
40887059 ATGAAAATAGATGGTGATGACCATT
66 ATGAAAAGAGATGGTAACAACCATT
* * * *
40887084 GAATTATGAAAAGGGATGGCTTCGGCTATCAAAACATGGAAAGGGATAGCTTCGGCTAT-TGAAC
1 GAATTATGAAAAAGGATGGCTTCAGCTATCAAAACATGAAAAGGGATAGCTTCGGCTATCAG-AC
* *
40887148 TATGAAAAGGGGTGGTAACAACCAT
65 TATGAAAAGAGATGGTAACAACCAT
40887173 CGTGATTTTA
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
89 1 0.01
90 71 0.99
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (90 bp):
GAATTATGAAAAAGGATGGCTTCAGCTATCAAAACATGAAAAGGGATAGCTTCGGCTATCAGACT
ATGAAAAGAGATGGTAACAACCATT
Found at i:40894762 original size:47 final size:47
Alignment explanation
Indices: 40894675--40895274 Score: 986
Period size: 47 Copynumber: 12.6 Consensus size: 47
40894665 GTATATTTGA
40894675 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
* *
40894724 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
40894771 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
40894820 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
40894867 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
40894914 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
40894963 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
40895010 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
40895057 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
40895104 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
40895151 ATGAATGTGAAAGTGTATATATGTTATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * **
40895198 ATGAATGTGAAAGTGTATATATGTGA-CAGGGCTGAGTGGCCAACATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTG
* *
40895245 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
40895275 TCCCGAAGGG
Statistics
Matches: 520, Mismatches: 25, Indels: 13
0.93 0.04 0.02
Matches are distributed among these distances:
46 5 0.01
47 409 0.79
48 2 0.00
49 104 0.20
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:40894862 original size:143 final size:141
Alignment explanation
Indices: 40894675--40895274 Score: 986
Period size: 143 Copynumber: 4.2 Consensus size: 141
40894665 GTATATTTGA
40894675 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
40894740 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
64 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
40894805 CTAATGGCCGATGTG
127 CTAATGGCCGATGTG
*
40894820 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
40894885 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
*
40894950 AATGGTCGATGTG
129 AATGGCCGATGTG
40894963 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
40895028 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
40895093 TGGCCGATGTG
131 TGGCCGATGTG
40895104 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * *
40895169 ATATGTTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA-CAGGGCTGA
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT-A
* * **
40895233 GTGGCCAACATG
130 ATGGCCGATGTG
* *
40895245 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
40895275 TCCCGAAGGG
Statistics
Matches: 437, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
140 5 0.01
141 186 0.43
143 231 0.53
145 15 0.03
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (141 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
TGGCCGATGTG
Found at i:40895443 original size:37 final size:36
Alignment explanation
Indices: 40895393--40895530 Score: 222
Period size: 37 Copynumber: 3.8 Consensus size: 36
40895383 CCAAGCTCTA
*
40895393 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGA-TTTGTCCGGGT
*
40895430 AAGACCCGATGACTACGTGTGGAGATTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTGTCCGGGT
40895466 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGA-TTTGTCCGGGT
* *
40895503 AAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
40895531 CGTCTGAGCT
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
36 37 0.39
37 58 0.61
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (36 bp):
AAGACCCGATGACTACGTGTGGAGATTTGTCCGGGT
Found at i:40895484 original size:73 final size:73
Alignment explanation
Indices: 40895393--40895530 Score: 240
Period size: 73 Copynumber: 1.9 Consensus size: 73
40895383 CCAAGCTCTA
*
40895393 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
40895458 GCCCGGGT
66 GCCCGGGT
* * *
40895466 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
40895531 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (73 bp):
AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
GCCCGGGT
Found at i:40897483 original size:40 final size:40
Alignment explanation
Indices: 40896800--40897471 Score: 1074
Period size: 40 Copynumber: 16.8 Consensus size: 40
40896790 GAGAATTGAG
40896800 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
40896840 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
40896880 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
40896920 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
40896960 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
40897000 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
40897040 AGTGATATATCCGGGCTAAATCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
40897080 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
40897120 AGTGATGTATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
40897160 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
40897200 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
40897240 AGTGATGTATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
40897280 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
40897320 AGTGATATATCCGAGCTAAATCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
40897360 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
40897400 AGTGATATATCCGTGCTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
40897440 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
40897472 ATCATGCTGG
Statistics
Matches: 585, Mismatches: 47, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 585 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:40901277 original size:47 final size:47
Alignment explanation
Indices: 40901190--40901599 Score: 667
Period size: 47 Copynumber: 8.6 Consensus size: 47
40901180 GTATATTTGA
40901190 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
* *
40901239 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
40901286 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
40901335 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
40901382 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
40901429 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
40901476 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * * * *
40901523 ATGATTGTGAAAGTGTATATGTGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
40901570 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
40901600 TCCCGAAGGG
Statistics
Matches: 339, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 279 0.82
49 60 0.18
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:40901768 original size:37 final size:37
Alignment explanation
Indices: 40901718--40901862 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
40901708 CCGAGCTCTA
* *
40901718 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
40901755 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
40901792 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
40901829 AAGACCCGATAACTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
40901863 AGCTAAAGGT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:40902910 original size:46 final size:46
Alignment explanation
Indices: 40902860--40903032 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
40902850 TGGTTGAGCA
*
40902860 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
40902906 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
40902953 TCCAAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
40902999 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
40903033 GGGGCAGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 56 0.54
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:40903016 original size:93 final size:93
Alignment explanation
Indices: 40902857--40903027 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
40902847 GGATGGTTGA
* * *
40902857 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
40902922 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
40902950 GCATCCAAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
40903014 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
40903028 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40903294 original size:19 final size:20
Alignment explanation
Indices: 40903257--40903294 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40903247 ATAAGGTGGT
40903257 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40903277 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40903295 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40905050 original size:19 final size:19
Alignment explanation
Indices: 40905005--40905050 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
40904995 TATTATGAAA
40905005 AACTAAAATAAAAGTAATT
1 AACTAAAATAAAAGTAATT
*
40905024 AA-TCAAAATAACA-TAAATT
1 AACT-AAAATAAAAGT-AATT
40905043 AACTAAAA
1 AACTAAAA
40905051 ATTAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 2 0.09
19 20 0.87
20 1 0.04
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (19 bp):
AACTAAAATAAAAGTAATT
Found at i:40909776 original size:50 final size:50
Alignment explanation
Indices: 40909687--40910056 Score: 293
Period size: 50 Copynumber: 7.6 Consensus size: 50
40909677 AGGGTAAGAT
* * *
40909687 GCCGACGCTATGTCCCAGACATGGTCTTACACTGACTCTCATATATTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
* ** * * *
40909737 GCTGACACCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTGTCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
* * ** *
40909786 TACCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCACCTGTTG-G
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
* * * *
40909836 TGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCA----A
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-ATTGTG
* * * * * *
40909882 GCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCTTTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
* * * * * *
40909932 GTCGATGCCATGTCCCAGACATGGCCTTACACTAGTTCTCGTCTCA-T-T-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-ATTGTG
* *
40909980 GCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATA-A-TGTT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
**
40910028 GTTGATG-CATGTCCCAGACAT-GTCTTACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACA
40910057 TTAGTACACA
Statistics
Matches: 259, Mismatches: 50, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
45 31 0.12
46 11 0.04
47 19 0.07
48 45 0.17
49 2 0.01
50 151 0.58
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATTGTG
Found at i:40909936 original size:95 final size:96
Alignment explanation
Indices: 40909687--40910067 Score: 350
Period size: 95 Copynumber: 3.9 Consensus size: 96
40909677 AGGGTAAGAT
* * * **
40909687 GCCGACGCTATGTCCCAGACATGGTCTTACACTGACTCTCATATATTGTGG-CTGACACCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATA-TG-GGTC-GATGCCATGTC
* * * *
40909751 CCAGACATGGTCTTACACTGGCT-CTCATCTGTCGGTA
63 CCAGACATGGTCTTACACTAG-TACACA--TATC-ATA
* *
40909788 -CCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCACCTGT-TGGTGTCGATGCCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--TATATGG-GTCGATGCCATGTC
40909851 CCAGACATGGTCTTACACT-G-ACACATATCA-A
63 CCAGACATGGTCTTACACTAGTACACATATCATA
* * * *
40909882 GCCGATGCCATGTCCCAGACATGGTCTTAAACTAGCTTTCATATCTCGAGGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAT-G-GGTCGATGCCATGTCC
* * * * * *
40909947 CAGACATGGCCTTACACTAGTTCTCGTCTCATT
64 CAGACATGGTCTTACACTAGTACACATATCATA
* * *
40909980 GCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTTGTTGATG-CATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATG-GGTCGATGCCATGTCCC
*
40910043 AGACAT-GTCTTACATTAGTACACAT
65 AGACATGGTCTTACACTAGTACACAT
40910068 GTCACCCAAA
Statistics
Matches: 234, Mismatches: 34, Indels: 31
0.78 0.11 0.10
Matches are distributed among these distances:
93 2 0.01
94 16 0.07
95 83 0.35
96 12 0.05
97 7 0.03
98 42 0.18
99 2 0.01
100 67 0.29
101 1 0.00
102 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGGGTCGATGCCATGTCCCA
GACATGGTCTTACACTAGTACACATATCATA
Found at i:40910039 original size:145 final size:145
Alignment explanation
Indices: 40909686--40910054 Score: 381
Period size: 145 Copynumber: 2.5 Consensus size: 145
40909676 TAGGGTAAGA
* * * **
40909686 TGCCGACGCTATGTCCCAGACATGGTCTTACACTGACTCTCATATATTGTGGCTGACACCATGTC
1 TGCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATA-A-TGTAGCTGA-TGCATGTC
* * * * *
40909751 CCAGACATGGTCTTACACTGGCTCTCATCTGTCGGTACCGATGCCATGTCCCAGACATAGTCTTA
63 CCAGACATGGTCTTAAACTAGCTCTCATATCTCGGTA-CGATGCCATGTCCCAGACATAGCCTTA
* **
40909816 CACTGGCTCTCACCTGTTGG
127 CACTAGCTCTCACCTCAT-G
* * * * ** *
40909836 TGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-ATCAAGCCGATGCCATGTCCC
1 TGCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGCTGATG-CATGTCCC
* *
40909898 AGACATGGTCTTAAACTAGCTTTCATATCTCGAGGT-CGATGCCATGTCCCAGACATGGCCTTAC
65 AGACATGGTCTTAAACTAGCTCTCATATCTC--GGTACGATGCCATGTCCCAGACATAGCCTTAC
* **
40909962 ACTAGTTCTCGTCTCAT-
128 ACTAGCTCTCACCTCATG
* *
40909979 TGCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTTGTTGATGCATGTCCCA
1 TGCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGCTGATGCATGTCCCA
40910044 GACAT-GTCTTA
66 GACATGGTCTTA
40910055 CATTAGTACA
Statistics
Matches: 179, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
143 32 0.18
144 7 0.04
145 94 0.53
146 8 0.04
147 3 0.02
148 4 0.02
150 31 0.17
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (145 bp):
TGCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGCTGATGCATGTCCCA
GACATGGTCTTAAACTAGCTCTCATATCTCGGTACGATGCCATGTCCCAGACATAGCCTTACACT
AGCTCTCACCTCATG
Found at i:40912345 original size:48 final size:48
Alignment explanation
Indices: 40912213--40912480 Score: 195
Period size: 48 Copynumber: 5.6 Consensus size: 48
40912203 CTCATATTGG
* * * * * * *
40912213 TGCCATGTCCCAGACATGGTCTTATACGA-AATCACGTAACGATGCTGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCA-CACATATCGGTGCTGA
* * * * * * * *
40912261 AGCCATATCCCTAATATGGTCTTATAC-GGGATCACATATTGGTGCTGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCA-CACATATCGGTGCTGA
*
40912309 TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACGT-C-GA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATC--GGTGCTGA
* * *** *
40912357 TGCCATGTCGCAGACATGGTCTTACACTAGCACACATATCAACGTTGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCGGTGCTGA
* * * * *
40912405 TGCCATGTCCCAAACATGGTCTTACA-TGGGATCTCATCTCGGATGCCGA
1 TGCCATGTCCCAAACATGGTCTTACACTAGCA-CACATATCGG-TGCTGA
*
40912454 TGCCATGTCCCAGACATGGTCTTACAC
1 TGCCATGTCCCAAACATGGTCTTACAC
40912481 GGGATCTCAT
Statistics
Matches: 173, Mismatches: 38, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
47 3 0.02
48 137 0.79
49 31 0.18
50 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCGGTGCTGA
Found at i:40917530 original size:20 final size:19
Alignment explanation
Indices: 40917494--40917544 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
40917484 AAGGGCTATT
*
40917494 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
40917513 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
40917533 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
40917545 GTTACAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:40917721 original size:17 final size:17
Alignment explanation
Indices: 40917689--40917721 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
40917679 TTAATTATAG
40917689 AATGTATTAAATAATGT
1 AATGTATTAAATAATGT
40917706 AATG-ATTAAATGAATG
1 AATGTATTAAAT-AATG
40917722 AATTTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
AATGTATTAAATAATGT
Found at i:40918768 original size:13 final size:13
Alignment explanation
Indices: 40918750--40918825 Score: 82
Period size: 13 Copynumber: 5.9 Consensus size: 13
40918740 AGTTCTTCAT
40918750 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
40918763 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
40918776 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
40918789 TGC-TTTGAGAAG
1 TGCTTTTGAAAAG
** *
40918801 TATTTTTGAGAAG
1 TGCTTTTGAAAAG
*
40918814 TGCTTTGGAAAA
1 TGCTTTTGAAAA
40918826 ATTTAAGTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
12 7 0.14
13 44 0.86
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:40923335 original size:7 final size:7
Alignment explanation
Indices: 40923323--40923348 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
40923313 CCATTCCTAA
40923323 TCATCCC
1 TCATCCC
40923330 TCATCCC
1 TCATCCC
40923337 TCATCCC
1 TCATCCC
40923344 TCATC
1 TCATC
40923349 ATTTTCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.54, G:0.00, T:0.31
Consensus pattern (7 bp):
TCATCCC
Found at i:40931402 original size:16 final size:17
Alignment explanation
Indices: 40931383--40931419 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
40931373 ACTAAAAGGT
40931383 TAAACATG-TAAAATAA
1 TAAACATGTTAAAATAA
*
40931399 TAAACATGTTAATATAA
1 TAAACATGTTAAAATAA
40931416 TAAA
1 TAAA
40931420 ACATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (17 bp):
TAAACATGTTAAAATAA
Found at i:40932467 original size:27 final size:27
Alignment explanation
Indices: 40932436--40932519 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
40932426 TAGTTTACCA
** *
40932436 AATTACCAAAGTACCCCCGATTTATAG
1 AATTACCAATCTACCCTCGATTTATAG
**
40932463 AATTACCGCTCTACCCTCGATTTATAG
1 AATTACCAATCTACCCTCGATTTATAG
* *
40932490 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCAATCTACCCTCGATTTATAG
40932517 AAT
1 AAT
40932520 ACTTTAATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (27 bp):
AATTACCAATCTACCCTCGATTTATAG
Found at i:40932590 original size:28 final size:28
Alignment explanation
Indices: 40932526--40932604 Score: 115
Period size: 28 Copynumber: 2.9 Consensus size: 28
40932516 GAATACTTTA
*
40932526 ATTTACAAAATTACTAAAATA-CCCCTG
1 ATTTGCAAAATTACTAAAATACCCCCTG
*
40932553 GTTTGCAAAATTACTAAAATACCCCCTG
1 ATTTGCAAAATTACTAAAATACCCCCTG
* *
40932581 ATTTGTAAAATTACTGAAATACCC
1 ATTTGCAAAATTACTAAAATACCC
40932605 TCAACTTGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 19 0.41
28 27 0.59
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (28 bp):
ATTTGCAAAATTACTAAAATACCCCCTG
Found at i:40932618 original size:28 final size:28
Alignment explanation
Indices: 40932532--40932632 Score: 89
Period size: 28 Copynumber: 3.6 Consensus size: 28
40932522 TTTAATTTAC
*** *
40932532 AAAATTACTAAAATA-CCCCTGGTTTGC
1 AAAATTACTAAAATACCCCCTAACTTGT
* *
40932559 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTAACTTGT
* *
40932587 AAAATTACTGAAATACCCTC-AACTTGT
1 AAAATTACTAAAATACCCCCTAACTTGT
* *
40932614 AAAAATTACCAAAGTACCC
1 -AAAATTACTAAAATACCC
40932633 TCGATTTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 20 0.32
28 43 0.68
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.28
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTAACTTGT
Found at i:40932658 original size:27 final size:27
Alignment explanation
Indices: 40932628--40932731 Score: 140
Period size: 27 Copynumber: 3.9 Consensus size: 27
40932618 ATTACCAAAG
*
40932628 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTT
40932655 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * * *
40932682 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
40932709 TACCCTCGA-TTAT-GAAATTACTG
1 TACCCTCGATTTATAG-AATTACTG
40932732 AAATACCCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.15
27 57 0.85
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:40932781 original size:27 final size:26
Alignment explanation
Indices: 40932751--40932902 Score: 119
Period size: 27 Copynumber: 5.7 Consensus size: 26
40932741 TATAGGGTAG
*
40932751 AATTACCAAAACACTCCTAGTTTGTAA
1 AATTACCAAAATAC-CCTAGTTTGTAA
* *
40932778 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTAGTTTGTAA
* * *
40932805 AATTATCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
**
40932832 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATA-CCCTAG-TTTGTAA
* *
40932859 AATTA-CAGAAATACCCTTGATTTGTAG
1 AATTACCA-AAATACCCTAG-TTTGTAA
* *
40932886 ATTTACCAAAACACCCT
1 AATTACCAAAATACCCT
40932903 TGTAGGATGA
Statistics
Matches: 100, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
26 9 0.09
27 85 0.85
28 6 0.06
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:40932862 original size:54 final size:54
Alignment explanation
Indices: 40932526--40932901 Score: 160
Period size: 54 Copynumber: 6.9 Consensus size: 54
40932516 GAATACTTTA
** * *
40932526 ATTTACAAAATTACTA-AAATACCC-CTGGTTTGCAAAATTACTAAAATACCCCCTG
1 ATTTACAAAATTAC-AGAAATACCCTC-AATTTGTAAAATTACCAAAATA-CCCCTG
** * * *
40932581 ATTTGTAAAATTACTGAAATACCCTCAACTTGTAAAAATTACCAAAGTA-CCCTCG
1 ATTTACAAAATTACAGAAATACCCTCAATTTGT-AAAATTACCAAAATACCCCT-G
* * *** * * * ***** *
40932636 ATTTATAGAATTACTA-TTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTG
1 ATTTACAAAATTAC-AGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
* *** * **
40932690 ATTTACAAAATTACCGTTTTACCCTCGATTATG--AAATTACTGAAATACCCCT-
1 ATTTACAAAATTACAGAAATACCCTCAATT-TGTAAAATTACCAAAATACCCCTG
**** * * * *
40932742 ATAGGGTAGAATTACCA-AAACACTCCT-AGTTTGTAAAATTACCAAAATACCACTG
1 AT-TTACAAAATTA-CAGAAATAC-CCTCAATTTGTAAAATTACCAAAATACCCCTG
* ***
40932797 GTTTGTGAAATTATC-GAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
1 ATTTACAAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
** * * *
40932851 ATTTACAAAATTACAGAAATACCCTTGATTTGTAGATTTACCAAAACACCC
1 ATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCC
40932902 TTGTAGGATG
Statistics
Matches: 237, Mismatches: 67, Indels: 35
0.70 0.20 0.10
Matches are distributed among these distances:
52 4 0.02
53 28 0.12
54 139 0.59
55 52 0.22
56 14 0.06
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
ATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
Found at i:40932965 original size:27 final size:27
Alignment explanation
Indices: 40932922--40932995 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
40932912 AAATGACTAA
*
40932922 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
40932949 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
40932976 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
40932996 TGATGAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:40933817 original size:26 final size:26
Alignment explanation
Indices: 40933787--40933961 Score: 264
Period size: 26 Copynumber: 6.8 Consensus size: 26
40933777 GAAGAAGTGC
*
40933787 AAAAGGGTTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
40933813 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
40933839 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
40933865 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
40933891 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
40933917 AAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATCG
40933942 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
40933962 ATTAAAGAGG
Statistics
Matches: 138, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 31 0.22
26 107 0.78
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:40934165 original size:42 final size:42
Alignment explanation
Indices: 40934106--40934197 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
40934096 TAGTCTCCCC
* *
40934106 AAATGGGCTTGCATACATTCATTG-GTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGAG-ATTACATGTGATATTG
40934148 AAATGGGCTTGCATACATCCATTGAGATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGAGATTACATGTGATATTG
40934190 AAATGGGC
1 AAATGGGC
40934198 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
42 46 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGAGATTACATGTGATATTG
Found at i:40934298 original size:31 final size:31
Alignment explanation
Indices: 40934212--40934304 Score: 143
Period size: 31 Copynumber: 3.0 Consensus size: 31
40934202 GGGCCATACC
* * *
40934212 ATTTATAGTAAAGGCTTCGACCCAATGATATG
1 ATTTAT-GAAAAGGCTTCGGCCCAGTGATATG
40934244 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
40934275 ATTTATGAAAAGGCTTCGGCCCAGT-ATATG
1 ATTTATGAAAAGGCTTCGGCCCAGTGATATG
40934305 TTAAGACTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 5 0.09
31 47 0.81
32 6 0.10
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (31 bp):
ATTTATGAAAAGGCTTCGGCCCAGTGATATG
Found at i:40936797 original size:40 final size:39
Alignment explanation
Indices: 40936699--40936921 Score: 250
Period size: 40 Copynumber: 5.6 Consensus size: 39
40936689 TCCTCGTTCA
* * * * *
40936699 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
40936738 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
40936777 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
40936817 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
40936857 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
40936898 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
40936922 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 38 0.23
40 116 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:40936921 original size:120 final size:119
Alignment explanation
Indices: 40936699--40936921 Score: 279
Period size: 120 Copynumber: 1.9 Consensus size: 119
40936689 TCCTCGTTCA
* * * *
40936699 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
40936764 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAATAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
40936818 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
40936882 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATAATAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
40936922 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.43
120 45 0.52
121 5 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAATAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:40944768 original size:40 final size:40
Alignment explanation
Indices: 40944586--40944754 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
40944576 TCCTCGTTCA
* * * * *
40944586 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
40944625 CATGCCTTCGGGAC-TAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
40944664 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
40944704 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
40944744 AAGGCCTTCGG
1 AATGCCTTCGG
40944755 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 19 0.17
39 26 0.23
40 69 0.61
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:40974859 original size:40 final size:41
Alignment explanation
Indices: 40974789--40974869 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 41
40974779 TGTTACTAAA
*
40974789 TACTGCATGATTGACACTGATACTGTGATGGGCTAAGGCCC
1 TACTGCATGATTGACACTGATACTGAGATGGGCTAAGGCCC
*
40974830 TACTGCAT-ATTCGATACTG-TACTGAGATGGGCTAAGGCCC
1 TACTGCATGATT-GACACTGATACTGAGATGGGCTAAGGCCC
40974870 AAACTGTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 23 0.62
41 14 0.38
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (41 bp):
TACTGCATGATTGACACTGATACTGAGATGGGCTAAGGCCC
Found at i:40982381 original size:25 final size:25
Alignment explanation
Indices: 40982337--40982384 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
40982327 TTTTTTTAAA
* *
40982337 CTGAAACTATTATTGATAGTATATT
1 CTGAAACTACTATAGATAGTATATT
*
40982362 CTGAAACTACTATAGGTAGTATA
1 CTGAAACTACTATAGATAGTATA
40982385 CTGTACTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
CTGAAACTACTATAGATAGTATATT
Found at i:40982393 original size:28 final size:26
Alignment explanation
Indices: 40982336--40982395 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
40982326 ATTTTTTTAA
* *
40982336 ACTGAAACTATTATTGATAGTATATT
1 ACTGAAACTACTATAGATAGTATATT
*
40982362 -CTGAAACTACTATAGGTAGTATACTGT
1 ACTGAAACTACTATAGATAGTATA-T-T
40982389 ACTGAAA
1 ACTGAAA
40982396 GCACTTTAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 20 0.71
26 1 0.04
27 1 0.04
28 6 0.21
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (26 bp):
ACTGAAACTACTATAGATAGTATATT
Found at i:40997188 original size:318 final size:315
Alignment explanation
Indices: 40996581--40997213 Score: 1158
Period size: 318 Copynumber: 2.0 Consensus size: 315
40996571 GTGCATGGTA
40996581 CACTGAGTTCGTTCGTACGAACCCAAATGTACGACCTCCCCCACCTCCCCAATTCCTCAACCTAT
1 CACTGAGTTCGTTCGTACGAACCCAAATGTACGACCTCCCCCACCTCCCCAATTCCTCAACCTAT
*
40996646 GCCTCCGATGCCTCAGGGAGTGGATATGATAAAATTTCACAGAACCCCGTTGACAGAATTCGTAA
66 GCCTCCGATGCCTCAAGGAGTGGATATGATAAAATTTCACAGAACCCCGTTGACAGAATTCGTAA
*
40996711 ACAAGGGGCTGAAGAATTTAGAGCAAATATTGATGATGATGTAGAGAAAGCAGAGTTCTGGCTTG
131 ACAAGGGGCTGAAGAATTTAGAGCAAATATTGATGATGATGCAGAGAAAGCAGAGTTCTGGCTTG
40996776 AAATTCTATCCGGGTATTTGATGAATTATCTTGTACACCTGAAGAATGTTTGAAATGTGCTACAT
196 AAATTCTATCCGGGTATTTGATGAATTATCTTGTACACCTGAAGAATGTTTGAAATGTGCTACAT
40996841 CTTTGTTGAGAGATTCAGCCTATAATTGGTGGAAGACTTTGATTTCGGTGGTACC
261 CTTTGTTGAGAGATTCAGCCTATAATTGGTGGAAGACTTTGATTTCGGTGGTACC
* *
40996896 CACTGAGTTCGTTCGTATGAACCCAAATGTACGACCTCCTCCACCTCCCCCAATTCCTCAACCTA
1 CACTGAGTTCGTTCGTACGAACCCAAATGTACGACCTCCCCCACCT-CCCCAATTCCTCAACCTA
*
40996961 TGCCTCCGATGCCTCAAGGAGTGGATATGATAAAATTTCGCAGAACCTCCGTTGACAGAATTCGT
65 TGCCTCCGATGCCTCAAGGAGTGGATATGATAAAATTTCACAGAACC-CCGTTGACAGAATTCGT
40997026 AAACAAGGGGCTGAAGAATTTAGAGCAAATATTGATGATGATGCAGAGAAAGCAGAGTTCTGGCT
129 AAACAAGGGGCTGAAGAATTTAGAGCAAATATTGATGATGATGCAGAGAAAGCAGAGTTCTGGCT
*
40997091 TGAAAATTTTATCCGGGTATTTGATGAATTATCTTGTACACCTGAAGAATGTTTGAAATGTGCTA
194 TG-AAATTCTATCCGGGTATTTGATGAATTATCTTGTACACCTGAAGAATGTTTGAAATGTGCTA
* * *
40997156 CATCTTTGTTGAGCGGTTCAGCCTATAATTGGTGGAAGATTTTGATTTCGGTGGTACC
258 CATCTTTGTTGAGAGATTCAGCCTATAATTGGTGGAAGACTTTGATTTCGGTGGTACC
40997214 GAAAGAGAGG
Statistics
Matches: 306, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
315 44 0.14
316 63 0.21
317 83 0.27
318 116 0.38
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (315 bp):
CACTGAGTTCGTTCGTACGAACCCAAATGTACGACCTCCCCCACCTCCCCAATTCCTCAACCTAT
GCCTCCGATGCCTCAAGGAGTGGATATGATAAAATTTCACAGAACCCCGTTGACAGAATTCGTAA
ACAAGGGGCTGAAGAATTTAGAGCAAATATTGATGATGATGCAGAGAAAGCAGAGTTCTGGCTTG
AAATTCTATCCGGGTATTTGATGAATTATCTTGTACACCTGAAGAATGTTTGAAATGTGCTACAT
CTTTGTTGAGAGATTCAGCCTATAATTGGTGGAAGACTTTGATTTCGGTGGTACC
Found at i:41003476 original size:50 final size:49
Alignment explanation
Indices: 41003399--41003538 Score: 189
Period size: 48 Copynumber: 2.9 Consensus size: 49
41003389 GGTAAGATGC
*
41003399 CGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCATATATCG-GTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAG-G
* * *
41003447 TCGATGCCATGTCCCAAACATGGTCTTACACTAGC-C-CACATGTCGAGG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGG
41003495 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA
41003539 AATGTCGTGT
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
47 1 0.01
48 40 0.51
49 14 0.18
50 24 0.30
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGG
Found at i:41005952 original size:6 final size:6
Alignment explanation
Indices: 41005941--41006117 Score: 141
Period size: 6 Copynumber: 28.8 Consensus size: 6
41005931 TATCATAACT
* *
41005941 AGAATC AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
41005990 AGAACC AGAATC AGAATT AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC
* * *
41006040 AGAATC AGAATC AGAACC AAAATC AGAAT- AGGTAAT- AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
*
41006088 AGTATC AGGTAA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
41006118 GTGAATGCAA
Statistics
Matches: 138, Mismatches: 18, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
5 11 0.08
6 107 0.78
7 15 0.11
8 5 0.04
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:41005983 original size:37 final size:37
Alignment explanation
Indices: 41005936--41006117 Score: 146
Period size: 37 Copynumber: 4.9 Consensus size: 37
41005926 AACATTATCA
41005936 TAACTAGAATCAGAATCAGAATCAGAATCAGAATCAGG
1 TAAC-AGAATCAGAATCAGAATCAGAATCAGAATCAGG
* * * *
41005974 TGACAGAATCAAAATCAGAACCAGAATCAGAATTAGG
1 TAACAGAATCAGAATCAGAATCAGAATCAGAATCAGG
*
41006011 TAACAGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G
1 TAACAGAATCAGAATCAGAATCA-G-AATCAGAATCAGG
* *
41006048 -AATCAGAACCAAAATCAGAAT-AGGTAAT-AGAATCA-G
1 TAA-CAGAATCAGAATCAGAATCA-G-AATCAGAATCAGG
* *
41006084 -AATTAGTATCAGGTAA-CAGAATCAGAATCAGAAT
1 TAA-CAGAATCA-G-AATCAGAATCAGAATCAGAAT
41006118 GTGAATGCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 17
0.78 0.10 0.11
Matches are distributed among these distances:
36 27 0.22
37 77 0.64
38 14 0.12
39 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (37 bp):
TAACAGAATCAGAATCAGAATCAGAATCAGAATCAGG
Found at i:41005984 original size:25 final size:24
Alignment explanation
Indices: 41005941--41006117 Score: 141
Period size: 25 Copynumber: 7.2 Consensus size: 24
41005931 TATCATAACT
41005941 AGAATCAGAATCAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGAATC
* *
41005965 AGAATCAG-GTGACAGAATCAAAATC
1 AGAATCAGAAT--CAGAATCAGAATC
* *
41005990 AGAACCAGAATCAGAATTAGGTAA-C
1 AGAATCAGAATCAGAATCA-G-AATC
*
41006015 AGAATCAGAATCAGTATCAGGTAA-C
1 AGAATCAGAATCAGAATCA-G-AATC
* *
41006040 AGAATCAGAATCAGAACCAAAATC
1 AGAATCAGAATCAGAATCAGAATC
*
41006064 AGAAT-AGGTAAT-AGAATCAGAATT
1 AGAATCA-G-AATCAGAATCAGAATC
*
41006088 AGTATCAGGTAA-CAGAATCAGAATC
1 AGAATCA-G-AATCAGAATCAGAATC
41006113 AGAAT
1 AGAAT
41006118 GTGAATGCAA
Statistics
Matches: 125, Mismatches: 18, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
23 4 0.03
24 35 0.28
25 83 0.66
26 3 0.02
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.18
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGAATC
Found at i:41005984 original size:31 final size:31
Alignment explanation
Indices: 41005946--41006117 Score: 167
Period size: 31 Copynumber: 5.6 Consensus size: 31
41005936 TAACTAGAAT
*
41005946 CAGAATCAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
41005977 CAGAATCAAAATCAGAACCAGAATCA-G-AA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
41006006 TTAGGTAA-CAGAATCAGAATCAGTATCAGGTAA
1 -CA-G-AATCAGAATCAGAATCAGAATCAGGTAA
* *
41006039 CAGAATCAGAATCAGAACCAAAATCA-G-AA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
41006068 TAGGTAAT-AGAATCAGAATTAGTATCAGGTAA
1 CA-G-AATCAGAATCAGAATCAGAATCAGGTAA
41006100 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
41006118 GTGAATGCAA
Statistics
Matches: 113, Mismatches: 17, Indels: 22
0.74 0.11 0.14
Matches are distributed among these distances:
29 4 0.04
30 24 0.21
31 76 0.67
32 7 0.06
33 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Done.