Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 151 of 410
Found at i:45714478 original size:94 final size:92
Alignment explanation
Indices: 45714234--45714500 Score: 292
Period size: 92 Copynumber: 2.9 Consensus size: 92
45714224 AGCATATCTG
* * * * * *
45714234 TGCCGATGCCATGTCCCAGACATGATCTTACACT-GACACATCTTGTAGTCGATGCATGTCCTAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCTCAT-TTGTGGCCGATGCATGTCCCAG
*
45714298 ACATGTCTTACACTAG-TTTACGTCTCAA
65 ACATGTCTTACACTAGCCTTA-GTCTCAA
* * * * **
45714326 GGCCGATG-TATGTCCCAGACAT-GTCTTTCACTAGTTTACATTTCAAGGCCGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCT-CATTT-GTGGCCGATGCATGTCCCA
* *
45714389 AACATGTCTTACACTAGCACTT-GTTTCAA
64 GACATGTCTTACACTAGC-CTTAGTCTCAA
*
45714418 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TCTCAT-TTGTGGCCGATGCATGTCCCA
45714483 GACATGTCTTACACTAGC
64 GACATGTCTTACACTAGC
45714501 TCACACAAGT
Statistics
Matches: 143, Mismatches: 23, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
90 8 0.06
91 16 0.11
92 53 0.37
93 13 0.09
94 50 0.35
95 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (92 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCTCATTTGTGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCCTTAGTCTCAA
Found at i:45714502 original size:46 final size:46
Alignment explanation
Indices: 45714188--45714502 Score: 208
Period size: 46 Copynumber: 6.7 Consensus size: 46
45714178 GTCAGACGTT
* *
45714188 GATGCCATGTCCCAGACATGGTCTTACACAAGTTCTAGCAT-ATCTGTGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTA-CATAAT-TG-GCC
* * *
45714238 GATGCCATGTCCCAGACATGATCTTACACT-G-AC-ACAT-CTTGTAGTC
1 GATG-CATGTCCCAGACATG-TCTTACACTAGCTCTACATAATTG--GCC
* * *
45714284 GATGCATGTCCTAGACATGTCTTACACTAG-TTTACGTCTCAA--GGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTAC--AT-AATTGGCC
* * *
45714330 GATGTATGTCCCAGACATGTCTTTCACTAG-TTTACAT--TTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTACATAATT---GGCC
* * ***
45714376 GATGCATGTCCCAAACATGTCTTACACTAGCACTTGTTTCAA-T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC-TACAT-AATTGGCC
45714422 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTACATAAT-TGGCC
45714470 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
45714503 ACACAAGTGA
Statistics
Matches: 215, Mismatches: 27, Indels: 50
0.74 0.09 0.17
Matches are distributed among these distances:
44 10 0.05
45 19 0.09
46 100 0.47
47 30 0.14
48 26 0.12
49 2 0.01
50 28 0.13
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTACATAATTGGCC
Found at i:45719336 original size:13 final size:13
Alignment explanation
Indices: 45719320--45719356 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
45719310 TTTAATAACT
45719320 TAAATTAAATAAA
1 TAAATTAAATAAA
*
45719333 TAAATTAACTAAA
1 TAAATTAAATAAA
*
45719346 AAAATTAAATA
1 TAAATTAAATA
45719357 TTTTATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAATTAAATAAA
Found at i:45720902 original size:54 final size:54
Alignment explanation
Indices: 45720751--45720973 Score: 220
Period size: 54 Copynumber: 4.2 Consensus size: 54
45720741 AGGATACACG
* * * * *
45720751 GGTA-CCTTTCCTTATTA-AACTTACCATTGCCATGTCTTGATATGGTCTTACGT
1 GGTATCCTTGCCTTA-TAGAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
* * * *
45720804 GGTATCCTTGTCTTAT-GAACTCACCATTGCCATGCCTTGGCATGGTCTTAC-T
1 GGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
* * ** * *
45720856 GGGATCTTTGCCTTATAGTAGTTTATCAATGCCATGTCTTGACATGGTCTTACAT
1 GGTATCCTTGCCTTATAG-AACTTACCAATGCCATGCCTTGACATGGTCTTACAT
* * * * *
45720911 GATTTCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGCATGGTCTTACTT
1 GGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
45720965 GGTATCCTT
1 GGTATCCTT
45720974 AAACCCTAAT
Statistics
Matches: 136, Mismatches: 29, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
52 14 0.10
53 36 0.26
54 72 0.53
55 14 0.10
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.39
Consensus pattern (54 bp):
GGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACAT
Found at i:45739830 original size:39 final size:40
Alignment explanation
Indices: 45739775--45739945 Score: 233
Period size: 39 Copynumber: 4.3 Consensus size: 40
45739765 GGACTAAGAT
* *
45739775 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
45739814 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
45739853 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
45739893 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
45739933 CCGAAGGCATTTG
1 CCGAAGGCATTTG
45739946 AGCTAGTCGT
Statistics
Matches: 122, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 73 0.60
40 42 0.34
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:45749024 original size:40 final size:40
Alignment explanation
Indices: 45748979--45749180 Score: 275
Period size: 40 Copynumber: 5.0 Consensus size: 40
45748969 AGATTTAACT
* * *
45748979 GGATATAGCT-ATTCGCTCGAATGCCTTCGGGACATAGCCC
1 GGATATAG-TAATTCGCACAAATGCCTTCGGGACTTAGCCC
*
45749019 GGATATAGTAACTT-GCACCAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAA-TTCGCACAAATGCCTTCGGGACTTAGCCC
*
45749059 GGATATAGTAACTT-GCACAAATGCCTTCAGGACTTAGCCC
1 GGATATAGTAA-TTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
45749099 GAATATAGTAACTCGCACAAATGCCTTTGGGACTTAGCCC
1 GGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCC
*
45749139 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCC
45749179 GG
1 GG
45749181 TTATCATCCA
Statistics
Matches: 148, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
39 2 0.01
40 144 0.97
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
GGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:45752794 original size:50 final size:50
Alignment explanation
Indices: 45752728--45753089 Score: 363
Period size: 50 Copynumber: 7.2 Consensus size: 50
45752718 TAGTATGTGT
* * *
45752728 AGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGC
1 AGGCTACTATGTGTACCAGATTGTTAGGTCACGTGTGTAGTACTAAGTGC
* * * *
45752778 AGGCTACTATGCGTACCCGATAT-TTTGATCACGTGTGTAGTACTAAGTGC
1 AGGCTACTATGTGTACCAGAT-TGTTAGGTCACGTGTGTAGTACTAAGTGC
* * * *
45752828 AAGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTTC
1 AGGCTACTATGTGTACCAGATTGTTAGGTCACGTGTGTAGTACTAAGTGC
* * *
45752878 AGGCTACTATGTGTACCGGATTGATAGGTCACATGTGTAGTACTAAGTGC
1 AGGCTACTATGTGTACCAGATTGTTAGGTCACGTGTGTAGTACTAAGTGC
* * * * * * **
45752928 AGGCTACTATGCGTACCCG-TTAACTTCGATCACGTGTGCAGTACTAAACGC
1 AGGCTACTATGTGTACCAGATT--GTTAGGTCACGTGTGTAGTACTAAGTGC
* * * * * *
45752979 AGGCTACTACT-TGTATCAGATGGATAAGTCATGTGTGTAGTACTAAGAGC
1 AGGCTACTA-TGTGTACCAGATTGTTAGGTCACGTGTGTAGTACTAAGTGC
* * * *
45753029 AGGCTACTACGTGTACCAAATTGATAGGT-ATCTTGTGTAGTACTAAGTGC
1 AGGCTACTATGTGTACCAGATTGTTAGGTCA-CGTGTGTAGTACTAAGTGC
45753079 AGGCTACTATG
1 AGGCTACTATG
45753090 CATACTAGAG
Statistics
Matches: 250, Mismatches: 54, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
49 3 0.01
50 210 0.84
51 35 0.14
52 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
AGGCTACTATGTGTACCAGATTGTTAGGTCACGTGTGTAGTACTAAGTGC
Found at i:45753016 original size:101 final size:100
Alignment explanation
Indices: 45752806--45753046 Score: 259
Period size: 101 Copynumber: 2.4 Consensus size: 100
45752796 GATATTTTGA
* * * ** * *
45752806 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATACTTAGATCACGTGTGCAGTAC
*** * * *
45752871 TAAGTTCAGGCTACTATGTGTACCGGATTGATAGG
66 TAAACGCAGGCTACTATGTGTACCAGATGGATAAG
* * * *
45752906 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGCAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT-ACTTAGATCACGTGTGCAGTA
*
45752971 CTAAACGCAGGCTACTACT-TGTATCAGATGGATAAG
65 CTAAACGCAGGCTACTA-TGTGTACCAGATGGATAAG
* * * *
45753007 TCATGTGTGTAGTACTAAGAGCAGGCTACTACGTGTACCA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
45753047 AATTGATAGG
Statistics
Matches: 115, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
100 37 0.32
101 77 0.67
102 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATACTTAGATCACGTGTGCAGTAC
TAAACGCAGGCTACTATGTGTACCAGATGGATAAG
Found at i:45753036 original size:151 final size:150
Alignment explanation
Indices: 45752728--45753090 Score: 523
Period size: 151 Copynumber: 2.4 Consensus size: 150
45752718 TAGTATGTGT
* *
45752728 AGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
1 AGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
* * * ** * *
45752793 CCCGATATTTTGATCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATGGTTAGGTC
66 CCCGATACTTCGATCACGTGTGCAGTACTAAACGCAAGCTACTATGTGTATCAGATGGATAAGTC
**
45752858 ACGTGTGTAGTACTAAGTTC
131 ACGTGTGTAGTACTAAGAGC
* *
45752878 AGGCTACTATGTGTACCGGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
1 AGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
* *
45752943 CCCGTTAACTTCGATCACGTGTGCAGTACTAAACGCAGGCTACTACT-TGTATCAGATGGATAAG
66 CCCGAT-ACTTCGATCACGTGTGCAGTACTAAACGCAAGCTACTA-TGTGTATCAGATGGATAAG
*
45753007 TCATGTGTGTAGTACTAAGAGC
129 TCACGTGTGTAGTACTAAGAGC
* *
45753029 AGGCTACTACGTGTACCAAATTGATAGGT-ATCTTGTGTAGTACTAAGTGCAGGCTACTATGC
1 AGGCTACTACGTGTACCAGATTGATAGGTCA-CATGTGTAGTACTAAGTGCAGGCTACTATGC
45753091 ATACTAGAGA
Statistics
Matches: 190, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
150 67 0.35
151 122 0.64
152 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (150 bp):
AGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
CCCGATACTTCGATCACGTGTGCAGTACTAAACGCAAGCTACTATGTGTATCAGATGGATAAGTC
ACGTGTGTAGTACTAAGAGC
Found at i:45753960 original size:180 final size:178
Alignment explanation
Indices: 45753656--45753990 Score: 483
Period size: 180 Copynumber: 1.9 Consensus size: 178
45753646 CATCCGATAT
** *
45753656 TAATTTTTACTGAAGAAAGATCGGAACTATCGGACAGTGAAACAGGGTATTTTTAATGAATAAAC
1 TAATTTTTACTGAAGAAAGATCGGAACTATCGGACAGTGAAACAGGGTAACTATAATGAATAAAC
* * * *
45753721 TGTACTAATTTGCTCGACCAAAAATTCTAAAAATTTTATGGTAAGAATATATCTGAGTCTAGTTT
66 TGTACTAAATGGCTCGACAAAAAATTCTAAAAATTTTAGGGTAAGAATATATCTGAGTCTAGTTT
* * *
45753786 CTGGGAAAATTAGCGGTTCTTTATTTTTAGTCCCGTACCATGAGATAAA
131 CT-GGAAAATTAACGGATCTTAATTTTTAGTCCCGTACCATGAGATAAA
* * * * *
45753835 TAATTTTTAGTGAAGAGAGGTTGGAACTATTGGACAGTGAAACAAGGGTAACTATAATGAATAAA
1 TAATTTTTACTGAAGAAAGATCGGAACTATCGGACAGTGAAAC-AGGGTAACTATAATGAATAAA
* *
45753900 CTGTACTAAATGGCT-GAATAAAAAATTCTAAAAATTTTAGGGTAAGAATATATGTGAGTCTAGT
65 CTGTACTAAATGGCTCG-ACAAAAAATTCTAAAAATTTTAGGGTAAGAATATATCTGAGTCTAGT
45753964 TTCTGGAAAATTAACGGATCTTAATTT
129 TTCTGGAAAATTAACGGATCTTAATTT
45753991 GGAGTACCGT
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
179 59 0.43
180 78 0.57
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (178 bp):
TAATTTTTACTGAAGAAAGATCGGAACTATCGGACAGTGAAACAGGGTAACTATAATGAATAAAC
TGTACTAAATGGCTCGACAAAAAATTCTAAAAATTTTAGGGTAAGAATATATCTGAGTCTAGTTT
CTGGAAAATTAACGGATCTTAATTTTTAGTCCCGTACCATGAGATAAA
Found at i:45758043 original size:40 final size:40
Alignment explanation
Indices: 45757998--45758127 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
45757988 CGGAATATAA
*
45757998 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
45758038 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
45758078 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
45758118 CCGGATATAA
1 CCGGATATAA
45758128 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 72 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45758148 original size:80 final size:80
Alignment explanation
Indices: 45758014--45758163 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 80
45758004 ATAACCATGT
* *
45758014 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
45758079 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * * *
45758094 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATGATTGTCTTCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAATGCCTTCGGGGCTTAGC
45758158 CCGGAT
65 CCGGAT
45758164 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
79 1 0.02
80 59 0.98
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:45766055 original size:40 final size:40
Alignment explanation
Indices: 45766010--45766177 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
45766000 CGGAATATAA
*
45766010 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
45766050 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
45766090 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
45766130 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
45766170 CCGGATAT
1 CCGGATAT
45766178 CATTCAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
40 102 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45766160 original size:80 final size:80
Alignment explanation
Indices: 45766026--45766175 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
45766016 ATAACCATGT
* *
45766026 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
45766091 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
45766106 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
45766169 CCCGGAT
64 CCCGGAT
45766176 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:45768859 original size:46 final size:44
Alignment explanation
Indices: 45768807--45768981 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 44
45768797 TGGTTCAGCA
*
45768807 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATG
* * * *
45768853 TTCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTAGGATGGAA-T--G
*
45768898 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA-GGATG-GAATG
* * * *
45768946 CCCGAGCTCCTTGAGTTGAGTTCGAGTTCACTTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTAGG
45768982 GGCGGGTTAC
Statistics
Matches: 106, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 57 0.54
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (44 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTAGGATGGAATG
Found at i:45768963 original size:93 final size:93
Alignment explanation
Indices: 45768804--45768974 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
45768794 GGATGGTTCA
* * **
45768804 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTGAGT
45768869 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
45768897 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCCTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTGAGT
*
45768962 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
45768975 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45776428 original size:46 final size:46
Alignment explanation
Indices: 45776378--45776542 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
45776368 TGAGCATCCA
*
45776378 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
45776424 AACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
45776471 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCT
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
45776516 AAGCTCGTTGAATTGAGTCCGAGTTCA
1 AA-CTCGTTGAGTTGAGTCCGAGTTCA
45776543 ATTAGGGGCG
Statistics
Matches: 97, Mismatches: 12, Indels: 20
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.07
46 47 0.48
47 27 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:45776532 original size:93 final size:93
Alignment explanation
Indices: 45776371--45776541 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
45776361 GGATGGTTGA
* * *
45776371 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAAT
*
45776436 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
45776464 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTAAGCTCGTTGAA
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAA-CTCGTTGAA
45776528 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
45776542 AATTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAAT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45779517 original size:12 final size:12
Alignment explanation
Indices: 45779500--45779532 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
45779490 CCTAGACACA
45779500 TGCCCATGTTTC
1 TGCCCATGTTTC
45779512 TGCCCATGTTTC
1 TGCCCATGTTTC
*
45779524 TACCCATGT
1 TGCCCATGT
45779533 GAACAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.33, G:0.15, T:0.39
Consensus pattern (12 bp):
TGCCCATGTTTC
Found at i:45780966 original size:2 final size:2
Alignment explanation
Indices: 45780959--45780984 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45780949 ACCATAACAG
45780959 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
45780985 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45781282 original size:27 final size:27
Alignment explanation
Indices: 45781252--45781606 Score: 383
Period size: 27 Copynumber: 13.2 Consensus size: 27
45781242 AACACCCTAG
** * *
45781252 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
45781279 GGGTAAAACGGTAATTCTGTAAACCAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
45781306 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
45781333 GGGTAAAATAGTAAATT-TTTAAATCGA
1 GGGTAAAACAGT-AATTCTGTAAATCGA
** *
45781360 GGGTAAAACAACAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
**
45781387 GGGT-AAACAGTAATTCTGTAAATTTA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
45781413 GGGTAAAAAAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
45781440 GGGTAAAAC-GATAATTCTGTAAATCGA
1 GGGTAAAACAG-TAATTCTGTAAATCGA
* *
45781467 GGGTAAAACAGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
45781494 GGGTAAAACAGTAATTCTATAAATTGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
45781521 GGTTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
45781548 GGGTAAAATAGTAATTTTGTAGATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
** * *
45781575 GGGTAAAATGGAAATTCTGTAAGTCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
45781602 GGGTA
1 GGGTA
45781607 CTTTGGTAAT
Statistics
Matches: 280, Mismatches: 43, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
26 26 0.09
27 249 0.89
28 5 0.02
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GGGTAAAACAGTAATTCTGTAAATCGA
Found at i:45781625 original size:27 final size:27
Alignment explanation
Indices: 45781595--45781725 Score: 115
Period size: 27 Copynumber: 4.9 Consensus size: 27
45781585 GAAATTCTGT
45781595 AAGTCGAGGGTACTTT-GGTAATTTTAC
1 AAGTCGAGGGTA-TTTCGGTAATTTTAC
* * *
45781622 AAGTTGAGGGTATTTCAGTAATTTTGC
1 AAGTCGAGGGTATTTCGGTAATTTTAC
* *
45781649 AA-ACTGAGGGTATTTCGATAATTTTAC
1 AAGTC-GAGGGTATTTCGGTAATTTTAC
* * * *
45781676 AAATCGAGGATATTTGGGTAATTTTAT
1 AAGTCGAGGGTATTTCGGTAATTTTAC
** *
45781703 AAACCGA-GGTATTTCAGTAATTT
1 AAGTCGAGGGTATTTCGGTAATTT
45781726 GGTAAAGTAA
Statistics
Matches: 84, Mismatches: 17, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
26 16 0.19
27 67 0.80
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
AAGTCGAGGGTATTTCGGTAATTTTAC
Found at i:45783623 original size:40 final size:39
Alignment explanation
Indices: 45783578--45783784 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
45783568 CGGAATACAA
*
45783578 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
45783618 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
45783658 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
45783698 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
45783738 CC-GATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
45783777 CCGGATAT
1 CCGGATAT
45783785 CATTCAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.22
40 108 0.78
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:45783718 original size:80 final size:80
Alignment explanation
Indices: 45783578--45783783 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
45783568 CGGAATACAA
* * *
45783578 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
45783642 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
45783658 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
45783722 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
45783738 CC-GATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
45783784 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 38 0.36
80 66 0.62
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:45797822 original size:40 final size:40
Alignment explanation
Indices: 45797695--45797824 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
45797685 ATGCTGGAAA
* * *
45797695 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
45797735 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
45797775 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
45797815 TTATATCCGG
1 TTATATCCGG
45797825 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:45799812 original size:40 final size:39
Alignment explanation
Indices: 45799767--45799974 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
45799757 CGGAATACAA
*
45799767 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
45799807 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
45799847 CCGGATTTAACAACTTGCACGAATGCCTTCGAGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
45799887 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
45799927 CCGGATATAAATACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
45799967 CCGGATAT
1 CCGGATAT
45799975 CATTCAATTG
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
39 4 0.03
40 131 0.95
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:45799907 original size:80 final size:80
Alignment explanation
Indices: 45799767--45799973 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 80
45799757 CGGAATACAA
* * *
45799767 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
45799831 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * **
45799847 CCGGATTTAACAACTTGCACGAATGCCTTCGAGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
45799911 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * *
45799927 CCGGATATAA-ATACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACA-ACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
45799974 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 4 0.04
80 100 0.94
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:45803260 original size:27 final size:26
Alignment explanation
Indices: 45803212--45803271 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
45803202 GCGAGGCTGC
*
45803212 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
45803239 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
45803265 CAGATAT
1 CAGATAT
45803272 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:45803275 original size:2 final size:2
Alignment explanation
Indices: 45803268--45803309 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
45803258 ACCAGAACAG
*
45803268 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45803310 GGCGAAGCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45803954 original size:27 final size:27
Alignment explanation
Indices: 45803561--45803943 Score: 469
Period size: 27 Copynumber: 14.2 Consensus size: 27
45803551 AACACCCTAG
* *
45803561 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
45803588 GGGTAAAGTGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*** * *
45803615 GGGTACTTTGGTAATTTTGTAAATCAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
45803642 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
** * *
45803669 GGGTAAAACAGTAATTCTGTCAATCAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
45803696 AGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
** * *
45803723 GGGTAAAACAGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
45803750 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
45803777 GGGTAAAATGATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
45803804 GGGTAAAATAGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
***
45803831 GGGTAAAACATTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
45803858 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
45803885 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
45803912 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTCTGTAAATCGA
45803939 GGGTA
1 GGGTA
45803944 CTTTGGTAAT
Statistics
Matches: 309, Mismatches: 47, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 309 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (27 bp):
GGGTAAAATGGTAATTCTGTAAATCGA
Found at i:45803954 original size:81 final size:81
Alignment explanation
Indices: 45803561--45803943 Score: 523
Period size: 81 Copynumber: 4.7 Consensus size: 81
45803551 AACACCCTAG
* * * ** ***
45803561 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAGTGGTAATTCTGTAAATCGAGGGTACTTTGG
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
* *
45803626 TAATTTTGTAAATCAA
66 TAATTCTGTAAATCGA
* * * * *
45803642 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTCAATCAAAGGTAAAACGG
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
45803707 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * *
45803723 GGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGA
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
*
45803788 TAATTTTGTAAATCGA
66 TAATTCTGTAAATCGA
* * ** *
45803804 GGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACATTAATTCTGTAAATCGAGGGTAAAATAG
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
45803869 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * *
45803885 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTA
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
45803944 CTTTGGTAAT
Statistics
Matches: 264, Mismatches: 38, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 264 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (81 bp):
GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
TAATTCTGTAAATCGA
Found at i:45803965 original size:27 final size:26
Alignment explanation
Indices: 45803932--45804068 Score: 139
Period size: 27 Copynumber: 5.1 Consensus size: 26
45803922 GTAATTCTGT
45803932 AAATCAAGGGTACTTTGGTAATTTTAC
1 AAATCAAGGGTA-TTTGGTAATTTTAC
* * * *
45803959 AAGTCAAGTGTATTTTAGTAATTTTTC
1 AAATCAAGGGTA-TTTGGTAATTTTAC
**
45803986 AAATTGAGGGTATTTCGGTAATTTTAC
1 AAATCAAGGGTATTT-GGTAATTTTAC
* *
45804013 AAATCAAGGATATTTGGGTAATTTTAT
1 AAATCAAGGGTATTT-GGTAATTTTAC
**
45804040 AAATCGGGGGTACTTTGGTAATTTTAC
1 AAATCAAGGGTA-TTTGGTAATTTTAC
45804067 AA
1 AA
45804069 CTAGGGGTAT
Statistics
Matches: 88, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
26 3 0.03
27 82 0.93
28 3 0.03
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (26 bp):
AAATCAAGGGTATTTGGTAATTTTAC
Found at i:45803978 original size:81 final size:79
Alignment explanation
Indices: 45803561--45803997 Score: 462
Period size: 81 Copynumber: 5.4 Consensus size: 79
45803551 AACACCCTAG
* * * ** * ***
45803561 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAGTGGTAATTCTGTAAATCGAGGGTACTTTGG
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGG
*
45803626 TAATTTTGTAAATCAA
66 TAA-TTT-TAAATCGA
* * * *
45803642 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTCTGTCAATCAAAGGTAAAACGG
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGG
45803707 TAATTCTGTAAATCGA
66 TAATT-T-TAAATCGA
* * * *
45803723 GGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGA
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGG
45803788 TAATTTTGTAAATCGA
66 TAA-TTT-TAAATCGA
* * ** * *
45803804 GGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACATTAATTCTGTAAATCGAGGGTAAAATAG
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGG
45803869 TAATTCTGTAAATCGA
66 TAATT-T-TAAATCGA
* * ***
45803885 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTACTTTGG
1 GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGG
*
45803950 TAATTTTACAAGTCAA
66 TAATTTTA-AA-TCGA
* ***
45803966 GTGTATTTTAGTAATTTT-TCAAATTGAGGGTA
1 GGGTAAAATAGTAATTTTGT-AAATTGAGGGTA
45803998 TTTCGGTAAT
Statistics
Matches: 304, Mismatches: 46, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.01
80 8 0.03
81 292 0.96
82 2 0.01
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (79 bp):
GGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGG
TAATTTTAAATCGA
Found at i:45803980 original size:54 final size:52
Alignment explanation
Indices: 45803922--45804089 Score: 169
Period size: 54 Copynumber: 3.1 Consensus size: 52
45803912 GGGTAAAACG
* * *
45803922 GTAATTCTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTCAAGTGTATTTTA
1 GTAATT-TATAAATCGAGGGTACTTTGGTAATTTTACAAATCAAG-GTATTTTA
* * **
45803976 GTAATTTTTCAAATTGAGGGTA-TTTCGGTAATTTTACAAATCAAGGATATTTGG
1 GTAATTTAT-AAATCGAGGGTACTTT-GGTAATTTTACAAATCAAGG-TATTTTA
* * *
45804030 GTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAACT-AGGGGTATTTTA
1 GTAA-TTTATAAATCGAGGGTACTTTGGTAATTTTACAAATCA-AGGTATTTTA
45804083 GTAATTT
1 GTAATTT
45804090 GGTAAACTAA
Statistics
Matches: 95, Mismatches: 13, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
52 3 0.03
53 16 0.17
54 69 0.73
55 7 0.07
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (52 bp):
GTAATTTATAAATCGAGGGTACTTTGGTAATTTTACAAATCAAGGTATTTTA
Found at i:45804075 original size:27 final size:25
Alignment explanation
Indices: 45803932--45804089 Score: 109
Period size: 27 Copynumber: 5.9 Consensus size: 25
45803922 GTAATTCTGT
45803932 AAATCAAGGGTACTTTGGTAATTTTAC
1 AAAT-AAGGGTA-TTTGGTAATTTTAC
* * * *
45803959 AAGTCAAGTGTATTTTAGTAATTTTTC
1 AAAT-AAGGGTA-TTTGGTAATTTTAC
*
45803986 AAATTGAGGGTATTTCGGTAATTTTAC
1 AAA-TAAGGGTATTT-GGTAATTTTAC
* *
45804013 AAATCAAGGATATTTGGGTAATTTTAT
1 AAAT-AAGGGTATTT-GGTAATTTTAC
**
45804040 AAATCGGGGGTACTTTGGTAATTTTAC
1 AAAT-AAGGGTA-TTTGGTAATTTTAC
* * *
45804067 AACTAGGGGTATTTTAGTAATTT
1 AAATAAGGGTA-TTTGGTAATTT
45804090 GGTAAACTAA
Statistics
Matches: 105, Mismatches: 22, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
26 20 0.19
27 81 0.77
28 4 0.04
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (25 bp):
AAATAAGGGTATTTGGTAATTTTAC
Found at i:45804314 original size:10 final size:10
Alignment explanation
Indices: 45804301--45804325 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45804291 GGCCCCTTTT
45804301 GGCCCATCGC
1 GGCCCATCGC
45804311 GGCCCATCGC
1 GGCCCATCGC
45804321 GGCCC
1 GGCCC
45804326 GAAGTAGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.52, G:0.32, T:0.08
Consensus pattern (10 bp):
GGCCCATCGC
Found at i:45807600 original size:38 final size:39
Alignment explanation
Indices: 45807489--45807708 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 39
45807479 TCGAATGATG
* * * * *
45807489 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAA
1 TCCGGGATAAGTCCCGAAGGCATTGTGC-GAGTTACTAAT
45807529 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGA-TAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAT
45807569 TCCGGGATAAG-CCCGAAGGCATTGTGCGAGTTACTAAAT
1 TCCGGGATAAGTCCCGAAGGCATTGTGCGAGTTACT-AAT
* *
45807608 T-CGGG-TTAGTCCCGAAGGCATTGTGCGAGTTACTAAA
1 TCCGGGATAAGTCCCGAAGGCATTGTGCGAGTTACTAAT
*
45807645 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGATAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAT
* * *
45807684 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGATAAGTCCCGAAGGCATT
45807709 TGAACGAGTA
Statistics
Matches: 157, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
37 6 0.04
38 46 0.29
39 32 0.20
40 63 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGATAAGTCCCGAAGGCATTGTGCGAGTTACTAAT
Found at i:45811359 original size:30 final size:30
Alignment explanation
Indices: 45811324--45811403 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
45811314 CAAGAAAACT
*
45811324 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* *
45811354 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* *
45811384 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
45811404 CGATACTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:45811363 original size:15 final size:15
Alignment explanation
Indices: 45811324--45811394 Score: 90
Period size: 15 Copynumber: 4.7 Consensus size: 15
45811314 CAAGAAAACT
45811324 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
45811339 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
45811354 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
45811369 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
45811384 GGATAAAGAAA
1 GAATAAAGAAA
45811395 CCCAAGATAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
14 1 0.02
15 45 0.96
16 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:45811403 original size:15 final size:15
Alignment explanation
Indices: 45811326--45811403 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
45811316 AGAAAACTGA
45811326 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
45811341 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
45811355 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
45811370 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
45811386 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
45811401 ATA
1 ATA
45811404 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:45814417 original size:93 final size:93
Alignment explanation
Indices: 45814305--45814476 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
45814295 GCCCATAAGT
* *
45814305 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45814370 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
45814398 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45814463 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
45814477 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45814472 original size:46 final size:46
Alignment explanation
Indices: 45814297--45814472 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
45814287 TGTAACCCGC
* * *
45814297 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
45814343 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
45814393 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
45814436 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45814473 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45816503 original size:39 final size:38
Alignment explanation
Indices: 45816433--45816634 Score: 172
Period size: 39 Copynumber: 5.2 Consensus size: 38
45816423 AATTGAATGA
* * ** * *
45816433 TATCCGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 TATCCGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTT
* * ***
45816471 TATCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACCA
1 TATCC-GGCTAAGACCCGAAGG-CATTCGTGCAAGT-AGTT
* *
45816511 CATCCGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 TATCCGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTT
* * * *
45816549 AATCCGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 TATCCGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTT
* *
45816587 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 -TATCC-GGCTAAGACCCGAAGGCATTCGTGCAAGTAGTT
45816627 ATATCCGG
1 -TATCCGG
45816635 TTGTATTCCG
Statistics
Matches: 134, Mismatches: 24, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
38 43 0.32
39 48 0.36
40 43 0.32
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (38 bp):
TATCCGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTT
Found at i:45816565 original size:38 final size:38
Alignment explanation
Indices: 45816512--45816634 Score: 165
Period size: 38 Copynumber: 3.2 Consensus size: 38
45816502 TAGTGACCAC
*
45816512 ATCCGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 ATCCGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTA
* * *
45816550 ATCCGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT-A
* *
45816589 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTA
1 ATCC-GGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTA
45816628 TATCCGG
1 -ATCCGG
45816635 TTGTATTCCG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
38 34 0.47
39 6 0.08
40 33 0.45
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (38 bp):
ATCCGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTA
Found at i:45824544 original size:40 final size:40
Alignment explanation
Indices: 45824465--45824622 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
45824455 TTCGAATGAT
* * * *
45824465 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
45824505 ATCCGGACTAAGATCCGATGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * * *
45824545 ATCCAGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
**
45824585 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
45824623 GTAACCGGGC
Statistics
Matches: 95, Mismatches: 20, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 1 0.01
40 88 0.93
41 6 0.06
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:45824643 original size:80 final size:80
Alignment explanation
Indices: 45824465--45824652 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
45824455 TTCGAATGAT
* *
45824465 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGATGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
45824530 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
45824545 ATCCAGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
45824606 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
45824626 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
45824653 ATGTGTAGCC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 2 0.02
80 78 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:45826132 original size:39 final size:39
Alignment explanation
Indices: 45826089--45826248 Score: 266
Period size: 39 Copynumber: 4.1 Consensus size: 39
45826079 ATGCAAGATA
*
45826089 CTGGAAATGTATCTGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
45826128 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
* *
45826167 CTGGAAATGTATTCGGGCTAAAGTCTCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
* * *
45826206 CAGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
45826245 CTGG
1 CTGG
45826249 TAATATAATT
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
Found at i:45859048 original size:30 final size:29
Alignment explanation
Indices: 45858954--45859055 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
45858944 TATAGTGAAT
* * *
45858954 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
45858983 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
45859011 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
45859041 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
45859056 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:45862797 original size:9 final size:9
Alignment explanation
Indices: 45862777--45862816 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
45862767 TCAAGTCAAT
45862777 AAAAATTATA
1 AAAAATT-TA
45862787 AAAAATTTA
1 AAAAATTTA
*
45862796 AAGAAAGTTA
1 AA-AAATTTA
45862806 AAAAATTTA
1 AAAAATTTA
45862815 AA
1 AA
45862817 CATGACTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 12 0.44
10 15 0.56
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (9 bp):
AAAAATTTA
Found at i:45862874 original size:12 final size:14
Alignment explanation
Indices: 45862847--45862875 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45862837 AATATTAAAA
45862847 ATTTAAAAATATAT
1 ATTTAAAAATATAT
45862861 ATTTAAAAATATAT
1 ATTTAAAAATATAT
45862875 A
1 A
45862876 AAAATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTAAAAATATAT
Found at i:45864519 original size:33 final size:33
Alignment explanation
Indices: 45864482--45864546 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
45864472 TTTGATCTTG
45864482 ACCATTGTCGGCAACAATCTCAATTGGTGATCA
1 ACCATTGTCGGCAACAATCTCAATTGGTGATCA
* *
45864515 ACCATTGTCGGCGATAATCTCAATTGGTGATC
1 ACCATTGTCGGCAACAATCTCAATTGGTGATC
45864547 TCGTGATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (33 bp):
ACCATTGTCGGCAACAATCTCAATTGGTGATCA
Found at i:45883812 original size:43 final size:43
Alignment explanation
Indices: 45883765--45883859 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
45883755 TCCCGAACAG
* *
45883765 GGTCTTACACAAAATCGATTAA-CG-ATGCCAATGTACCATAAAT
1 GGTCTTACACAAAATC--TTAATAGAATGCCAATGTACCAGAAAT
* * *
45883808 GGTCTTACACGAAATCTTAATAGAATGCCAATGTCCCAGACAT
1 GGTCTTACACAAAATCTTAATAGAATGCCAATGTACCAGAAAT
45883851 GGTCTTACA
1 GGTCTTACA
45883860 TGTAATCACA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 4 0.09
42 1 0.02
43 40 0.89
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACACAAAATCTTAATAGAATGCCAATGTACCAGAAAT
Found at i:45891962 original size:29 final size:26
Alignment explanation
Indices: 45891897--45892004 Score: 76
Period size: 29 Copynumber: 4.0 Consensus size: 26
45891887 AATTTACATC
45891897 AAAGGACA-CCTTTGTGGCTATCTTTA
1 AAAGGA-AGCCTTTGTGGCTATCTTTA
*
45891923 AAAGGAAGCCTTTGTGGCGATCTCTGTTA
1 AAAGGAAGCCTTTGTGGC--TATCT-TTA
* * * * *
45891952 AATGGATGCCTTTGTGG-TGAGACTCTG
1 AAAGGAAGCCTTTGTGGCT-A-TCTTTA
*
45891979 AAAGGAAGGCCTCTGTGGCTATCTTT
1 AAAGGAA-GCCTTTGTGGCTATCTTT
45892005 GGAAAAGAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
25 1 0.02
26 17 0.27
27 9 0.15
28 16 0.26
29 19 0.31
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (26 bp):
AAAGGAAGCCTTTGTGGCTATCTTTA
Found at i:45896172 original size:29 final size:29
Alignment explanation
Indices: 45896055--45896170 Score: 123
Period size: 29 Copynumber: 4.1 Consensus size: 29
45896045 TTAAAAACAC
* *
45896055 CAATATCT-ATAAAAGGATGCCTTTGTGG
1 CAATATCTCTTAAAAGGAAGCCTTTGTGG
*
45896083 C--TATCTC-TAAAAGGAAGCCTTTGTTG
1 CAATATCTCTTAAAAGGAAGCCTTTGTGG
** * *
45896109 CTTTATCTGTTAAAAGTAAGCCTTTGTGG
1 CAATATCTCTTAAAAGGAAGCCTTTGTGG
* *
45896138 CAATCTCTCTTAAAAGGAAGCCTTTTTGG
1 CAATATCTCTTAAAAGGAAGCCTTTGTGG
45896167 CAAT
1 CAAT
45896171 CTATGTTAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 23 0.32
28 6 0.08
29 44 0.60
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (29 bp):
CAATATCTCTTAAAAGGAAGCCTTTGTGG
Found at i:45899490 original size:42 final size:42
Alignment explanation
Indices: 45899440--45899554 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 42
45899430 GGGATCTCAC
*
45899440 ATCAATGCCATATCCTAGATATGGTCTTATACAAAATATCAT
1 ATCAATGCCATATCCTAGATATGGTCTTACACAAAATATCAT
* * * ** *
45899482 TTCGATGCCATGTCCTAGACGTGGTCTTACACAAAATCTCAT
1 ATCAATGCCATATCCTAGATATGGTCTTACACAAAATATCAT
* * *
45899524 ATCAACGCCATATCCCATATATGGTCTTACA
1 ATCAATGCCATATCCTAGATATGGTCTTACA
45899555 AGATAACACA
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (42 bp):
ATCAATGCCATATCCTAGATATGGTCTTACACAAAATATCAT
Found at i:45899573 original size:84 final size:84
Alignment explanation
Indices: 45899403--45899574 Score: 186
Period size: 84 Copynumber: 2.0 Consensus size: 84
45899393 AAGATACAAT
* **** * *
45899403 TGCCATGTCCCAGGCGTGGTCTTACATGGGATCTCACATCAATGCCATATCCTAGATATGGTCTT
1 TGCCATGTCCCAGACGTGGTCTTACACAAAATCTCACATCAACGCCATATCCCAGATATGGTCTT
* * *
45899468 ATACAAAATATCATTTCGA
66 ATACAAAATAACAATACGA
* * *
45899487 TGCCATGTCCTAGACGTGGTCTTACACAAAATCTCATATCAACGCCATATCCCATATATGGTC-T
1 TGCCATGTCCCAGACGTGGTCTTACACAAAATCTCACATCAACGCCATATCCCAGATATGGTCTT
*
45899551 -TACAAGATAACACATACTGA
66 ATACAAAATAACA-ATAC-GA
45899571 TGCC
1 TGCC
45899575 GATGCCATAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
82 10 0.14
83 3 0.04
84 59 0.82
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (84 bp):
TGCCATGTCCCAGACGTGGTCTTACACAAAATCTCACATCAACGCCATATCCCAGATATGGTCTT
ATACAAAATAACAATACGA
Found at i:45901468 original size:28 final size:27
Alignment explanation
Indices: 45901436--45901497 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 27
45901426 AGAAAAAGGG
45901436 TTAAAGGAACAATAAAAGGAAAACATAA
1 TTAAAGGAACAATAAAAGGAAAA-ATAA
*
45901464 TTAAAGGAACAATGAAAGGAAAAATAA
1 TTAAAGGAACAATAAAAGGAAAAATAA
*
45901491 ATAAAGG
1 TTAAAGG
45901498 GGATGGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 10 0.31
28 22 0.69
ACGTcount: A:0.63, C:0.05, G:0.18, T:0.15
Consensus pattern (27 bp):
TTAAAGGAACAATAAAAGGAAAAATAA
Found at i:45908531 original size:4 final size:4
Alignment explanation
Indices: 45908522--45908546 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
45908512 AATTTATGCT
45908522 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
45908547 GTGTCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:45908642 original size:27 final size:26
Alignment explanation
Indices: 45908612--45908667 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
45908602 ACATAGCTTA
45908612 AATGTGTCTAGTTTAG-GACATCAATTT
1 AATGTGTCTAGTTTAGAGACA--AATTT
45908639 AATGTGTCTAGTTTAGAGACAAATTT
1 AATGTGTCTAGTTTAGAGACAAATTT
45908665 AAT
1 AAT
45908668 TAGTTACAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (26 bp):
AATGTGTCTAGTTTAGAGACAAATTT
Found at i:45909912 original size:12 final size:12
Alignment explanation
Indices: 45909895--45909925 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
45909885 TTCCAATCAT
45909895 TTTTTTTTGAAA
1 TTTTTTTTGAAA
45909907 TTTTTTTTGAAA
1 TTTTTTTTGAAA
45909919 TTTTTTT
1 TTTTTTT
45909926 CGATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (12 bp):
TTTTTTTTGAAA
Found at i:45909938 original size:12 final size:11
Alignment explanation
Indices: 45909895--45909936 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
45909885 TTCCAATCAT
45909895 TTTTTTTTGAAA
1 TTTTTTTTG-AA
45909907 TTTTTTTTGAAA
1 TTTTTTTTG-AA
*
45909919 TTTTTTTCG-A
1 TTTTTTTTGAA
45909929 TTTTTTTT
1 TTTTTTTT
45909937 TCAACTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 8 0.29
12 20 0.71
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:45910632 original size:21 final size:22
Alignment explanation
Indices: 45910597--45910642 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
45910587 ATTGGGGCTA
45910597 GAACCATCCTTGAAGATT-CTT
1 GAACCATCCTTGAAGATTCCTT
*
45910618 GAACC-TCCTTGGAAGCTTCCTT
1 GAACCATCCTT-GAAGATTCCTT
45910640 GAA
1 GAA
45910643 GTTTTCAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 11 0.50
22 6 0.27
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
GAACCATCCTTGAAGATTCCTT
Found at i:45911257 original size:27 final size:26
Alignment explanation
Indices: 45911210--45911265 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
45911200 GCTGTAACTA
45911210 ATTAAATTTGTCTCTAAACTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
45911236 ATTAAATTGATGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
45911263 ATT
1 ATT
45911266 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:45911280 original size:27 final size:27
Alignment explanation
Indices: 45911223--45911280 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
45911213 AAATTTGTCT
* *
45911223 CTAAACTAGACACATTAAATTGATGTC
1 CTAAACTAGACACATTAAACTGATGTA
*
45911250 CTAAACTAGACACATTTAAGCT-ATGTA
1 CTAAACTAGACACA-TTAAACTGATGTA
45911277 CTAA
1 CTAA
45911281 TATAAGACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
CTAAACTAGACACATTAAACTGATGTA
Found at i:45913530 original size:30 final size:30
Alignment explanation
Indices: 45913449--45913554 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 30
45913439 CATTCAGGAG
* *
45913449 CACTAGATAGCCACGAA-GGTGTCCATAAAA
1 CACTAGATAGCCAC-AAGGGTGTCCATACAT
* * * * * * *
45913479 AAATAAAAAGCCGCAAGGGTGTCCTTACTT
1 CACTAGATAGCCACAAGGGTGTCCATACAT
*
45913509 CA-TAAGATAGCCACAATGGTGTCCATACAT
1 CACT-AGATAGCCACAAGGGTGTCCATACAT
45913539 CACTAGATAGCCACAA
1 CACTAGATAGCCACAA
45913555 AGGCATCCAA
Statistics
Matches: 57, Mismatches: 16, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
29 3 0.05
30 53 0.93
31 1 0.02
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.20
Consensus pattern (30 bp):
CACTAGATAGCCACAAGGGTGTCCATACAT
Found at i:45922145 original size:40 final size:40
Alignment explanation
Indices: 45922083--45922299 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
45922073 AAGCCAAGTA
* * * * *
45922083 CCTTCGGGATTTA-ACCGGATATAGCT-ATTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
45922122 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45922162 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45922202 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * **
45922242 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGTGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
45922282 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45922300 TTATCATCCA
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 26 0.16
40 135 0.84
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45924487 original size:40 final size:40
Alignment explanation
Indices: 45924432--45924628 Score: 168
Period size: 40 Copynumber: 5.2 Consensus size: 40
45924422 TGAATGATAC
* *
45924432 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
*
45924472 CCGGGCTAAGACCCGAAGGCA--T-T-C--GT-A--GTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
45924503 CC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
45924542 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
45924582 CCGGGTTAAGA-CCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
45924621 CC-GGCTAA
1 CCGGGCTAA
45924629 ATTCCGAAGA
Statistics
Matches: 125, Mismatches: 20, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
30 18 0.14
31 5 0.04
33 2 0.02
34 3 0.02
36 2 0.02
37 2 0.02
38 6 0.05
39 28 0.22
40 59 0.47
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:45924511 original size:30 final size:31
Alignment explanation
Indices: 45924469--45924527 Score: 111
Period size: 30 Copynumber: 1.9 Consensus size: 31
45924459 CTAGTGATTA
45924469 TATCCGGGCTAAGACCCGAAGGCATTCGTAG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTAG
45924500 TATCC-GGCTAAGACCCGAAGGCATTCGT
1 TATCCGGGCTAAGACCCGAAGGCATTCGT
45924528 GCGAGTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.20
Consensus pattern (31 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTAG
Found at i:45932629 original size:40 final size:39
Alignment explanation
Indices: 45932574--45932781 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 39
45932564 TGAATGATAC
* * *
45932574 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
45932614 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
45932654 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
45932694 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* * **
45932734 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
45932774 CC-GGCTAA
1 CCGGGCTAA
45932782 ATTCGAAGAA
Statistics
Matches: 148, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 6 0.04
40 138 0.93
41 2 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:45936936 original size:40 final size:39
Alignment explanation
Indices: 45936872--45937119 Score: 216
Period size: 40 Copynumber: 6.2 Consensus size: 39
45936862 TCTTCAGAAT
* **
45936872 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTC
* * *** *
45936911 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
*
45936951 TTAGCCCGAATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
* * *
45936991 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTC
* * *
45937031 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTC
* * *
45937071 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTC
45937111 TTAGCCCGG
1 TTAGCCCGG
45937120 GTATCATTCA
Statistics
Matches: 185, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 179 0.97
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
Found at i:45937101 original size:120 final size:120
Alignment explanation
Indices: 45936872--45937119 Score: 311
Period size: 120 Copynumber: 2.1 Consensus size: 120
45936862 TCTTCAGAAT
* * * ** *
45936872 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTAGCAC
* * * *
45936936 AAATGCCTTCGGGTCTTAGCCCGAATATAACAACTCGCACGAATGCCTTCGGGTC
66 AAATGCCTTCGGGACTTAGCCCGAATATAACAACTAGCACAAATGCCTTCGGGAC
* * * * * *
45936991 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAT
1 TTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTAGCAC
* *
45937056 AAATGCCTTCGGGACTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
66 AAATGCCTTCGGGACTTAGCCCGAATATAA-CAACTAGCACAAATGCCTTCGGGAC
45937111 TTAGCCCGG
1 TTAGCCCGG
45937120 GTATCATTCA
Statistics
Matches: 109, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
119 4 0.04
120 104 0.95
121 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
TTAGCCCGGATATAACCACAAGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTAGCAC
AAATGCCTTCGGGACTTAGCCCGAATATAACAACTAGCACAAATGCCTTCGGGAC
Found at i:45937119 original size:80 final size:79
Alignment explanation
Indices: 45936872--45937119 Score: 327
Period size: 80 Copynumber: 3.1 Consensus size: 79
45936862 TCTTCAGAAT
* * * * ** * * *
45936872 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
*
45936936 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGAC
* * *
45936951 TTAGCCCGAATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
45937016 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
* *
45937031 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
45937096 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
45937111 TTAGCCCGG
1 TTAGCCCGG
45937120 GTATCATTCA
Statistics
Matches: 148, Mismatches: 18, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
79 5 0.03
80 142 0.96
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATA
AATGCCTTCGGGAC
Found at i:45942519 original size:20 final size:20
Alignment explanation
Indices: 45942494--45942531 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45942484 GTTTATTCGC
*
45942494 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
45942514 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
45942532 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:45944190 original size:28 final size:28
Alignment explanation
Indices: 45944158--45944226 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
45944148 GCGTAGATCA
45944158 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
45944186 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
45944214 CGATA-TACCCCTA
1 CGAAATTACCCCTA
45944227 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:45953326 original size:93 final size:93
Alignment explanation
Indices: 45953217--45953389 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
45953207 CGCCCATAAG
* * * *
45953217 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGGAT-CAATAAGTGAACTCGGACTCAACTC
1 TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCAA-AAGTGAACTCGGACTCAACTC
45953281 AACGAGCTCGGATGCCTAGTTACATCACT
65 AACGAGCTCGGATGCCTAGTTACATCACT
* *
45953310 TGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCAAAAGTGAACTCGGTCTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCA
*
45953375 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
45953390 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 69 0.96
94 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (93 bp):
TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCACT
Found at i:45953385 original size:46 final size:45
Alignment explanation
Indices: 45953214--45953385 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
45953204 ACCCGCCCAT
* * *
45953214 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGGATCAA
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAA
*
45953259 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATC--
1 -AAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCAA
** * *
45953307 ACTTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCAA
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT-CAA
* *
45953353 AAGTGAACTCGGTCTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGA
45953386 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
46 61 0.59
47 29 0.28
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (45 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCAA
Found at i:45954159 original size:46 final size:46
Alignment explanation
Indices: 45954106--45954198 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
45954096 CTTACCAGAA
45954106 AAGTGGTCTTCACTTTTAATCTCATATTCGGTGCCGAAGAACTTTC
1 AAGTGGTCTTCACTTTTAATCTCATATTCGGTGCCGAAGAACTTTC
45954152 AAGTGGTCTTCACTTTTAATCTCATATTCGGTGCCGAAGAACTTTC
1 AAGTGGTCTTCACTTTTAATCTCATATTCGGTGCCGAAGAACTTTC
45954198 A
1 A
45954199 CTTAGGCTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (46 bp):
AAGTGGTCTTCACTTTTAATCTCATATTCGGTGCCGAAGAACTTTC
Found at i:45955243 original size:30 final size:30
Alignment explanation
Indices: 45955199--45955287 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
45955189 CAAAGATAAT
45955199 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
45955228 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
45955258 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
45955288 CGATATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:45955247 original size:15 final size:15
Alignment explanation
Indices: 45955199--45955278 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
45955189 CAAAGATAAT
*
45955199 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
45955213 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
45955228 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
45955243 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
45955258 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
45955273 AAGAAA
1 AAGAAA
45955279 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:45955287 original size:15 final size:15
Alignment explanation
Indices: 45955210--45955287 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
45955200 AGAAAACCGA
45955210 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
45955225 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
45955239 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
45955254 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
45955270 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
45955285 ATA
1 ATA
45955288 CGATATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:45964173 original size:40 final size:39
Alignment explanation
Indices: 45964129--45964286 Score: 146
Period size: 41 Copynumber: 3.9 Consensus size: 39
45964119 CGATTCTTAA
45964129 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGG
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-G
* * *
45964168 CCACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-TTATG
1 -CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGATTA-G
* * *
45964208 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 -CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--ATTAG
45964250 CACTGGCTCAAAAGCCCTTCGA-ACCCAAGCTCGGATT
1 CACTGGCTCAAAAGCCCTTCGAGA-CCAAGCTCGGATT
45964287 TACACCCCGA
Statistics
Matches: 100, Mismatches: 9, Indels: 19
0.78 0.07 0.15
Matches are distributed among these distances:
39 3 0.03
40 44 0.44
41 49 0.49
42 1 0.01
43 3 0.03
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAG
Found at i:45964266 original size:41 final size:41
Alignment explanation
Indices: 45964129--45964272 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 41
45964119 CGATTCTTAA
* * *
45964129 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * *
45964168 CCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
45964209 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
45964250 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
45964273 CCCAAGCTCG
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
40 44 0.50
41 41 0.47
43 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:45967621 original size:93 final size:93
Alignment explanation
Indices: 45967515--45967686 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
45967505 GCCCATAAGT
* * *
45967515 GAACTCGGACTCAACTCAACGAGCTCGGTCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
45967580 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
45967608 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGTCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
45967673 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
45967687 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:45967682 original size:46 final size:46
Alignment explanation
Indices: 45967507--45967682 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
45967497 TGTAACCCGC
* * *
45967507 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGTCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
45967553 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
45967599 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
45967646 CCATAAGTGAACTCGGTCTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
45967683 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:45970518 original size:38 final size:39
Alignment explanation
Indices: 45970436--45970617 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
45970426 AATGTTCGAG
45970436 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
45970475 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
45970513 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
45970552 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
45970592 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
45970618 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:45977898 original size:39 final size:39
Alignment explanation
Indices: 45977851--45978033 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
45977841 AATGTTCGAG
45977851 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
45977890 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
45977929 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
45977968 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
45978008 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
45978034 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:45986983 original size:40 final size:40
Alignment explanation
Indices: 45986939--45987130 Score: 223
Period size: 40 Copynumber: 4.8 Consensus size: 40
45986929 TGATACTTGA
* * * *
45986939 GGAATGTTATCCGGGCTTAAGGACCTGCAGGCT-TCGTTCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT
*
45986979 GGAAT-TGTATCCGGGCTTAAAGACCCACAGGCTATATGCT
1 GGAATGT-TATCCGGGCTTAAAGACCCGCAGGCTATATGCT
* *
45987019 AGAATGTTATCCGGGCTTAAAGACCCGCCGGCTATATGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
* *
45987059 GGAATGTTATCTGGG-TTAAAGACCCGCAGGCT-TCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT
* *
45987098 GGAATGCTATTCGGGC-TAAAGACCCGCAGGCTA
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTA
45987131 CGAGCTGGTA
Statistics
Matches: 131, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 49 0.37
40 79 0.60
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
Found at i:45987384 original size:2 final size:2
Alignment explanation
Indices: 45987379--45987408 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45987369 TATATATATA
45987379 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
45987409 GATGAATACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:45988954 original size:384 final size:385
Alignment explanation
Indices: 45988244--45989012 Score: 1396
Period size: 384 Copynumber: 2.0 Consensus size: 385
45988234 TGAGACAGCA
*
45988244 CCGATGGACTCTCAACCTATCACAAGCAATCAGAACGATGAGGCCAGACAGGCTTTTTATAGTGT
1 CCGATGGACTCTCAACCTATCACAAGCAATCAGAACGATGAGGCCACACAGGCTTTTTATAGTGT
* *
45988309 GATGAATGATTGGTTCAACCAATACATTTGAACTAATATAGCTGTTCCACAACCCCCACTCCCGA
66 GATGAATGATTGGTTCAACCAATACATTCGAACTAATACAGCTGTTCCACAACCCCCACTCCCGA
* *
45988374 ATAATACACCCCTTGCACCTACGATACCTCCGATAATTGATTAGATGAGGTTGAATAAGCCCCCG
131 ATAATACACCCCCTGCACCTACGATACCTCCGATAATTGATCAGATGAGGTTGAATAAGCCCCCG
* *
45988439 GTTGACAGAATCCGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATGATGCTGAGCA
196 GTTGACAGAATCCGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATAATGCTAAGCA
*
45988504 AGCTGAATTTTGGTTGGACAATACTATCCGAGTGTTTGATGAACTGTCTTGCACACCCGATGAAT
261 AGCTGAATTTTGGTTGGACAATACTATCCGAGTGTTCGATGAACTGTCTTGCACACCCGATGAAT
45988569 GCCTAAAATGTGTTGTATCTTTGCTACATGATTCTGCCTACTATTGGTGGAATACGTTGG
326 GCCTAAAATGTGTTGTATCTTTGCTACATGATTCTGCCTACTATTGGTGGAATACGTTGG
*
45988629 CCGATGGACTCTCAACCTATCGCAAGCAATCAGAACGATGAGGCCACACAGGCTTTTTATAGTGT
1 CCGATGGACTCTCAACCTATCACAAGCAATCAGAACGATGAGGCCACACAGGCTTTTTATAGTGT
* *
45988694 GATGAATGATTGGTTCAACCAATACATTCGAACTAATACGGTTGTTCCACAA-CCCCACTCCCGA
66 GATGAATGATTGGTTCAACCAATACATTCGAACTAATACAGCTGTTCCACAACCCCCACTCCCGA
* *
45988758 ATAATACACCCCCTGCACCTACGATACCTCCGATGATTGATCATATGAGGTTGAATAAGCCCCCG
131 ATAATACACCCCCTGCACCTACGATACCTCCGATAATTGATCAGATGAGGTTGAATAAGCCCCCG
*
45988823 GTTGACAGAATCTGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATAATGCTAAGCA
196 GTTGACAGAATCCGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATAATGCTAAGCA
*
45988888 AGCTGAATTTTGGTTGGACAATACTATTCGAGTGTTCGATGAACTGTCTTGCACACCCGATGAAT
261 AGCTGAATTTTGGTTGGACAATACTATCCGAGTGTTCGATGAACTGTCTTGCACACCCGATGAAT
45988953 GCCTAAAATGTGTTGTATCTTTGCTACATGATTCTGCCTACTATTGGTGGAATACGTTGG
326 GCCTAAAATGTGTTGTATCTTTGCTACATGATTCTGCCTACTATTGGTGGAATACGTTGG
45989013 TTTCTATTGT
Statistics
Matches: 369, Mismatches: 15, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
384 258 0.70
385 111 0.30
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (385 bp):
CCGATGGACTCTCAACCTATCACAAGCAATCAGAACGATGAGGCCACACAGGCTTTTTATAGTGT
GATGAATGATTGGTTCAACCAATACATTCGAACTAATACAGCTGTTCCACAACCCCCACTCCCGA
ATAATACACCCCCTGCACCTACGATACCTCCGATAATTGATCAGATGAGGTTGAATAAGCCCCCG
GTTGACAGAATCCGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATAATGCTAAGCA
AGCTGAATTTTGGTTGGACAATACTATCCGAGTGTTCGATGAACTGTCTTGCACACCCGATGAAT
GCCTAAAATGTGTTGTATCTTTGCTACATGATTCTGCCTACTATTGGTGGAATACGTTGG
Found at i:45990914 original size:71 final size:71
Alignment explanation
Indices: 45990830--45990993 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
45990820 CGATTTGTCT
45990830 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
45990895 CTTTCA
66 CTTTCA
45990901 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
45990966 CTTTCA
66 CTTTCA
45990972 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
45990994 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:45991031 original size:71 final size:70
Alignment explanation
Indices: 45990830--45991027 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
45990820 CGATTTGTCT
* * * *
45990830 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
45990895 CTTTCA
65 CTTTCA
* * * *
45990901 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
45990966 CTTTCA
65 CTTTCA
* *
45990972 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
45991028 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:45997920 original size:40 final size:40
Alignment explanation
Indices: 45997862--45998049 Score: 222
Period size: 40 Copynumber: 4.7 Consensus size: 40
45997852 ATTAAATTGA
*
45997862 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCATGCT
* * *
45997902 GGAAT-TGTATCCGAGCTTAAAGACCCGTAGGCTAT-ATGCT
1 GGAATGT-TATCCGGGCTTAAAGACCCGCAAGCT-TCATGCT
* *
45997942 GGAATGTTATCCGGGCTTAAAGACCCGC-AGGTTATATGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTT-CATGCT
* * * *
45997982 GGAATGTTATTCGGGCTTAAAGACCCGCAGGTTTCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCATGCT
*
45998022 GGAATGCTATCCGGGC-TAAAGACCCGCA
1 GGAATGTTATCCGGGCTTAAAGACCCGCA
45998050 GGCTACGAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 106 0.83
41 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCATGCT
Found at i:45998291 original size:2 final size:2
Alignment explanation
Indices: 45998284--45998313 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45998274 TCAAAGAACG
45998284 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45998314 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46006291 original size:24 final size:24
Alignment explanation
Indices: 46006263--46006308 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
46006253 AAGTTTTTTC
* *
46006263 TCCTAGTTAAACTCTTATTAATCT
1 TCCTAGTCAAACTCTAATTAATCT
*
46006287 TCCTAGTCGAACTCTAATTAAT
1 TCCTAGTCAAACTCTAATTAAT
46006309 TTAGGATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (24 bp):
TCCTAGTCAAACTCTAATTAATCT
Found at i:46028016 original size:42 final size:42
Alignment explanation
Indices: 46027898--46028024 Score: 150
Period size: 43 Copynumber: 3.0 Consensus size: 42
46027888 TACATAGTGC
* *
46027898 CATACCAATGCCATATCCCAGATATGGTCTTACATGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
* * * *
46027940 CGTATCGATGTCAATAGCCCA-ACTATGGTCTTACACG-AAGTCT
1 CATATCAATG-CCATATCCCAGA-TATGGTCTTACACGTAA-TCT
*
46027983 CATATCAATGCCATATCTCAGATATGGTCTTACACGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
46028025 TAGTAACCCT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
42 34 0.49
43 35 0.51
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
Found at i:46033903 original size:20 final size:21
Alignment explanation
Indices: 46033878--46033919 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
46033868 CCTTTGAAAC
*
46033878 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCATGTGGA
*
46033898 AGGGCAACATGCCCATGTGGA
1 AGGGCAACACGCCCATGTGGA
46033919 A
1 A
46033920 CTTGTACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:46035536 original size:93 final size:93
Alignment explanation
Indices: 46035377--46035548 Score: 267
Period size: 93 Copynumber: 1.8 Consensus size: 93
46035367 GTCCATAAGT
* * *
46035377 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATGAGTGAACTCGTACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGTACTCAACTCAA
46035442 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
46035470 GAACTCGGACTCAACTCAACAAGTTC-GGACATTTGCATCCATAAGTGAACTCAG-ACTCAACTC
1 GAACTCGGACTCAACTCAACAAGCTCAGG-CATTCGCATCCATAAGTGAACTC-GTACTCAACTC
46035533 AACGAGTTCGGATGCC
64 AACGAGTTCGGATGCC
46035549 AAAATATCCC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 2 0.03
93 69 0.96
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGTACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46035541 original size:46 final size:46
Alignment explanation
Indices: 46035368--46035544 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
46035358 ATGTAACCCG
* * *
46035368 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCA
* * * *
46035414 TCCATGAGTGAACTCGTACTCAACTCAACGAGTTCGGATGCCTAGTTACA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCA
* * *
46035464 T-C-TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCA
*
46035507 TCCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46035545 TGCCAAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 59 0.56
47 27 0.25
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCA
Found at i:46037502 original size:30 final size:30
Alignment explanation
Indices: 46037458--46037546 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
46037448 CAAAGATAAC
46037458 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
46037487 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
46037517 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
46037547 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:46037506 original size:15 final size:15
Alignment explanation
Indices: 46037458--46037537 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
46037448 CAAAGATAAC
*
46037458 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
46037472 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
46037487 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
46037502 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
46037517 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
46037532 AAGAAA
1 AAGAAA
46037538 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:46037546 original size:15 final size:15
Alignment explanation
Indices: 46037469--46037546 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
46037459 AGAAAACCGA
46037469 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
46037484 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
46037498 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
46037513 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
46037529 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
46037544 ATA
1 ATA
46037547 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:46040568 original size:46 final size:48
Alignment explanation
Indices: 46040446--46040575 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 48
46040436 TGTAACCCGC
*
46040446 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATACGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* *
46040496 -C-TCAC--GAACTCGGACTCAACTCAACGAGTTCGGA-C-ATTTGCAT
1 CCAT-ACGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
46040539 CCATACGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATACGTGAACTCGGACTCAACTCAACGAGTTCGGA
46040576 TGCCCAAATA
Statistics
Matches: 72, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
43 6 0.08
44 4 0.06
45 1 0.01
46 29 0.40
47 29 0.40
48 1 0.01
49 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (48 bp):
CCATACGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:46042712 original size:47 final size:46
Alignment explanation
Indices: 46042555--46042724 Score: 148
Period size: 47 Copynumber: 3.6 Consensus size: 46
46042545 CCATGTCCCA
* * *
46042555 GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTT-CATA-AT-GTG
* * * * * *
46042604 GCCGATG-CATAT-CCAAACATGTCTTACACTAGCTCTCGTATTATT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCT-TCATAATGTG
* *
46042649 ACCAATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAATGTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCT-TCATAATGTG
* *
46042697 GCCGATG-AATGTCCCAGGCATGTCTTAC
1 GCCGATGCCATGTCCCAGACATGTCTTAC
46042725 GCTCGAATGT
Statistics
Matches: 96, Mismatches: 21, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
45 5 0.05
46 12 0.12
47 42 0.44
48 30 0.31
49 7 0.07
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTTCATAATGTG
Found at i:46051757 original size:26 final size:26
Alignment explanation
Indices: 46051726--46051788 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
46051716 ATCAAACCAC
46051726 ATACATATATAAATACATCTAAGCAT
1 ATACATATATAAATACATCTAAGCAT
46051752 ATACATATATAAATACATCTAAGCAT
1 ATACATATATAAATACATCTAAGCAT
* *
46051778 ATTCGTATATA
1 ATACATATATA
46051789 TATCAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (26 bp):
ATACATATATAAATACATCTAAGCAT
Found at i:46068688 original size:35 final size:35
Alignment explanation
Indices: 46068642--46068711 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
46068632 AAAATTAAAT
46068642 TCAACATGCATAAACATCCAATTAGGTTACACGAC
1 TCAACATGCATAAACATCCAATTAGGTTACACGAC
*
46068677 TCAACATGCATAAGCATCCAATTAGGTTACACGAC
1 TCAACATGCATAAACATCCAATTAGGTTACACGAC
46068712 CTTACCTAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (35 bp):
TCAACATGCATAAACATCCAATTAGGTTACACGAC
Found at i:46073019 original size:34 final size:34
Alignment explanation
Indices: 46072979--46073058 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 34
46072969 AGTACATAAT
* *
46072979 TATATATGTATAGTTTGGTATAATCAAAAGTGAA
1 TATATATGTATAGTTTGATATAACCAAAAGTGAA
* * * * *
46073013 TATATATGAATGGTTTGATATCACCGAAGGTGAA
1 TATATATGTATAGTTTGATATAACCAAAAGTGAA
*
46073047 TATATATATATA
1 TATATATGTATA
46073059 CATTTATTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (34 bp):
TATATATGTATAGTTTGATATAACCAAAAGTGAA
Found at i:46075750 original size:40 final size:39
Alignment explanation
Indices: 46075632--46075756 Score: 128
Period size: 40 Copynumber: 3.1 Consensus size: 39
46075622 TTTGAATGAT
*
46075632 ATCCGGGCTAAG-TCCCGAAGGCTTT-GTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCTTTCGTGC-AAGT-ACTAA
* * * * *
46075672 ATTCGGACTAAGATCCGATGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAG-TACTAA
*
46075712 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAG-TACTAA
46075752 ATCCG
1 ATCCG
46075757 AGTTGAGTCC
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
40 63 0.91
41 6 0.09
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (39 bp):
ATCCGGACTAAGATCCGAAGGCTTTCGTGCAAGTACTAA
Found at i:46079066 original size:46 final size:46
Alignment explanation
Indices: 46078999--46079172 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
46078989 TGTAACCCGC
*
46078999 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
46079045 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
46079095 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
46079137 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
46079173 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:46079165 original size:92 final size:93
Alignment explanation
Indices: 46079007--46079177 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
46078997 GCCCATAAGT
* *
46079007 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
46079072 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
46079100 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
46079164 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
46079178 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46081600 original size:30 final size:30
Alignment explanation
Indices: 46081556--46081644 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
46081546 CAAAGATAAC
46081556 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
46081585 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
46081615 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
46081645 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:46081604 original size:15 final size:15
Alignment explanation
Indices: 46081556--46081635 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
46081546 CAAAGATAAC
*
46081556 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
46081570 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
46081585 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
46081600 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
46081615 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
46081630 AAGAAA
1 AAGAAA
46081636 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:46081644 original size:15 final size:15
Alignment explanation
Indices: 46081567--46081644 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
46081557 AGAAAACCGA
46081567 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
46081582 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
46081596 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
46081611 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
46081627 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
46081642 ATA
1 ATA
46081645 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:46084614 original size:46 final size:46
Alignment explanation
Indices: 46084547--46084720 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
46084537 TGTAACCCGC
*
46084547 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
46084593 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
46084643 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
46084685 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
46084721 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:46084713 original size:92 final size:93
Alignment explanation
Indices: 46084555--46084725 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
46084545 GCCCATAAGT
* *
46084555 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
46084620 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
46084648 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
46084712 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
46084726 CAAATATCCA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46084739 original size:45 final size:45
Alignment explanation
Indices: 46084552--46084739 Score: 168
Period size: 46 Copynumber: 4.1 Consensus size: 45
46084542 CCCGCCCATA
* * * * * *
46084552 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCC
*
46084598 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * *
46084646 A-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-CGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCC
* *
46084690 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
46084735 AGTGA
1 AGTGA
46084740 CATGTCACTT
Statistics
Matches: 115, Mismatches: 18, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.02
44 9 0.08
45 35 0.30
46 36 0.31
47 28 0.24
48 3 0.03
49 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:46090151 original size:29 final size:29
Alignment explanation
Indices: 46090118--46090191 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
46090108 CCTTCGAGCT
46090118 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
46090147 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
46090176 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
46090192 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:46090152 original size:58 final size:58
Alignment explanation
Indices: 46090059--46090191 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
46090049 ATACTCGATT
* * * * *
46090059 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
46090117 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
46090175 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
46090192 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:46097966 original size:29 final size:29
Alignment explanation
Indices: 46097932--46098063 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
46097922 TACTCGATTT
** * *
46097932 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
46097961 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
46097990 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
46098019 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
46098048 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
46098064 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:46100404 original size:19 final size:18
Alignment explanation
Indices: 46100382--46100421 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
46100372 TGAATAAAAC
46100382 TTATCTAACTAAATAAGAT
1 TTATCTAACTAAATAA-AT
*
46100401 TTATCTACCTAAATAAAT
1 TTATCTAACTAAATAAAT
46100419 TTA
1 TTA
46100422 AAATATATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTAACTAAATAAAT
Found at i:46114319 original size:13 final size:14
Alignment explanation
Indices: 46114296--46114340 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
46114286 ACAACAAAAG
46114296 AAAG-TGAAAAGAA
1 AAAGATGAAAAGAA
*
46114309 AATGA-GAAAAGAA
1 AAAGATGAAAAGAA
46114322 AAAGATGAGAAAGAA
1 AAAGATGA-AAAGAA
46114337 AAAG
1 AAAG
46114341 CATGTGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 15 0.56
14 2 0.07
15 10 0.37
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (14 bp):
AAAGATGAAAAGAA
Done.