Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 149 of 345
Found at i:40825694 original size:46 final size:46
Alignment explanation
Indices: 40825644--40825816 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
40825634 TGGTTGAGCA
40825644 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
40825690 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
40825735 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
40825783 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40825817 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:40825800 original size:93 final size:93
Alignment explanation
Indices: 40825641--40825811 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
40825631 GGATGGTTGA
* *
40825641 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40825706 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
40825734 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40825799 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40825812 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:40829751 original size:50 final size:49
Alignment explanation
Indices: 40829584--40829808 Score: 306
Period size: 49 Copynumber: 4.5 Consensus size: 49
40829574 CTGGTACGCA
* * * *
40829584 TAGTAGCCTGGACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
40829633 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
40829682 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
40829732 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
40829783 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
40829809 TGCGACCTCA
Statistics
Matches: 157, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
49 78 0.50
50 43 0.27
51 35 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:40829752 original size:99 final size:100
Alignment explanation
Indices: 40829571--40829815 Score: 323
Period size: 99 Copynumber: 2.5 Consensus size: 100
40829561 TAGCCAAAGC
* * * * * ** *
40829571 TATCTGGTACGCATAGTAGCCTGGACATAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
40829636 TAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
66 TAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
40829669 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
*
40829734 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * * *
40829770 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
40829816 TCACAATAGA
Statistics
Matches: 126, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 39 0.31
99 43 0.34
100 1 0.01
101 43 0.34
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (100 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:40831991 original size:15 final size:15
Alignment explanation
Indices: 40831943--40832007 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
40831933 TAAAGATAAC
*
40831943 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
40831957 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
40831972 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
* *
40831987 AAGAAACCTAGAGTA
1 AAGAAACCCAGAATA
40832002 AAGAAA
1 AAGAAA
40832008 TCCAAGATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
14 9 0.21
15 32 0.76
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.17, T:0.09
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:40832007 original size:30 final size:29
Alignment explanation
Indices: 40831943--40832007 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
40831933 TAAAGATAAC
40831943 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAAACCGAATAAAGAAATCCAAGATA
* * *
40831972 GAGAAACCCAGAATAAAGAAA-CCTAGAGTA
1 AAGAAAACC-GAATAAAGAAATCCAAGA-TA
40832002 AAGAAA
1 AAGAAA
40832008 TCCAAGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.60, C:0.14, G:0.17, T:0.09
Consensus pattern (29 bp):
AAGAAAACCGAATAAAGAAATCCAAGATA
Found at i:40840941 original size:21 final size:21
Alignment explanation
Indices: 40840917--40840956 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
40840907 TATATTTTAT
40840917 AGCATA-AGTAATAAAATAAAG
1 AGCATAGA-TAATAAAATAAAG
*
40840938 AGCATGGATAATAAAATAA
1 AGCATAGATAATAAAATAA
40840957 TAGTGGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (21 bp):
AGCATAGATAATAAAATAAAG
Found at i:40842902 original size:40 final size:40
Alignment explanation
Indices: 40842847--40843068 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
40842837 TATTCGAATG
* * *
40842847 ATATCCGGGTTAAGTCCCAAAGGGATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
40842887 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
40842927 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
40842967 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
40843007 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
*
40843047 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
40843069 TACTTGGGTT
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 151 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:40846320 original size:48 final size:48
Alignment explanation
Indices: 40846215--40846431 Score: 134
Period size: 48 Copynumber: 4.5 Consensus size: 48
40846205 ATAGCCTAGC
** * * * * * * *
40846215 TATGGTCTTACACGAAGTCTCATAATGGTGCTGATGCCATGTCCTAGA
1 TATGGTCTTACACGGGGCCTCATATTGATGCCGATGCCATATCCCAAA
* * * * *
40846263 CATGATCTTATACGGGGCCTCATATTGATGCCAATGCCATATCCCATA
1 TATGGTCTTACACGGGGCCTCATATTGATGCCGATGCCATATCCCAAA
* * * * *
40846311 TATGGTCTTACATGGGATCC-CACACTGATGTCGATGCCATATCCCAAA
1 TATGGTCTTACACGGG-GCCTCATATTGATGCCGATGCCATATCCCAAA
* * ** * *
40846359 TATGGTCTTACA-GGAAGTCTCATA-ACAGTGCCGATGCCATGTCCCAGA
1 TATGGTCTTACACGG-GGCCTCATATTGA-TGCCGATGCCATATCCCAAA
* * *
40846407 CATGGTCTTATACGGGACCTCATAT
1 TATGGTCTTACACGGGGCCTCATAT
40846432 CATGTAATAG
Statistics
Matches: 126, Mismatches: 37, Indels: 11
0.72 0.21 0.06
Matches are distributed among these distances:
47 4 0.03
48 118 0.94
49 4 0.03
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (48 bp):
TATGGTCTTACACGGGGCCTCATATTGATGCCGATGCCATATCCCAAA
Found at i:40846408 original size:144 final size:139
Alignment explanation
Indices: 40846151--40846431 Score: 366
Period size: 144 Copynumber: 2.0 Consensus size: 139
40846141 ACATGAAAAT
* * * **
40846151 ATGCCAATGCCATATCCCAGATGTGGTCTTACATGGGATCTCACATCGATGCTAATAGCCTAGCT
1 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACACATCGATGCTAATAGCCCAAAT
** * * *
40846216 ATGGTCTTACACGAAGTCTCATAATGGTGCTGATGCCATGTCCTAGACATGATCTTATACGGGGC
66 ATGGTCTTACACGAAGTCTCATAACAGTGCCGATGCCATGTCCCAGACATGATCTTATACGGGAC
40846281 CTCATATTG
131 CTCATATTG
* * *
40846290 ATGCCAATGCCATATCCCATATATGGTCTTACATGGGATCCCACACTGATGTCGATGC-CATATC
1 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGAT--CACAC--A--TCGATGCTAATAGC
* *
40846354 CCAAATATGGTCTTACAGGAAGTCTCATAACAGTGCCGATGCCATGTCCCAGACATGGTCTTATA
60 CCAAATATGGTCTTACACGAAGTCTCATAACAGTGCCGATGCCATGTCCCAGACATGATCTTATA
40846419 CGGGACCTCATAT
125 CGGGACCTCATAT
40846432 CATGTAATAG
Statistics
Matches: 121, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
139 37 0.31
141 4 0.03
143 1 0.01
144 72 0.60
145 7 0.06
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (139 bp):
ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACACATCGATGCTAATAGCCCAAAT
ATGGTCTTACACGAAGTCTCATAACAGTGCCGATGCCATGTCCCAGACATGATCTTATACGGGAC
CTCATATTG
Found at i:40847588 original size:30 final size:30
Alignment explanation
Indices: 40847554--40847632 Score: 149
Period size: 30 Copynumber: 2.6 Consensus size: 30
40847544 ATGAATCGGA
*
40847554 AGCTTTGGCACTAAGTGTGTGATTTAAACT
1 AGCTTTGGTACTAAGTGTGTGATTTAAACT
40847584 AGCTTTGGTACTAAGTGTGTGATTTAAACT
1 AGCTTTGGTACTAAGTGTGTGATTTAAACT
40847614 AGCTTTGGTACTAAGTGTG
1 AGCTTTGGTACTAAGTGTG
40847633 CGATACCAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.38
Consensus pattern (30 bp):
AGCTTTGGTACTAAGTGTGTGATTTAAACT
Found at i:40851037 original size:39 final size:39
Alignment explanation
Indices: 40850923--40851107 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 39
40850913 GCTACTCGTT
* * *
40850923 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCCCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
40850963 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
40851003 CAAATGCCTTCGGG-CTTAGCCCGGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGATTAGTAACTCGCA
* * * * *
40851042 CAAATGCCTTC-CGATCTTAGTCCGGATATAATCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
*
40851083 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40851108 CATCATTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 35 0.28
40 77 0.62
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:40851067 original size:79 final size:81
Alignment explanation
Indices: 40850923--40851106 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 81
40850913 GCTACTCGTT
* * * *
40850923 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCCCATAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGGATATAGTAACTCCCACAAATGCCTTCGCGACTTAACCCG
* * *
40850987 GATTTAGTAAC-TCGCA
65 GATATAATAACTTAGCA
* **
40851003 CAAATGCCTTCGGGCTTAGCCCGGGAT-TAGTAACTCGCACAAATGCCTTC-CGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGGATATAGTAACTCCCACAAATGCCTTCGCGA-CTTAACCCG
*
40851066 GATATAATCACTTAGCA
65 GATATAATAACTTAGCA
*
40851083 CAAA-GCCTTCAGGACTTAGCCCGG
1 CAAATGCCTTC-GGGCTTAGCCCGG
40851107 ACATCATTCG
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 49 0.56
80 37 0.42
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGGATATAGTAACTCCCACAAATGCCTTCGCGACTTAACCCGG
ATATAATAACTTAGCA
Found at i:40859126 original size:40 final size:39
Alignment explanation
Indices: 40859089--40859272 Score: 239
Period size: 40 Copynumber: 4.7 Consensus size: 39
40859079 GCTACTCGTT
* *
40859089 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
40859129 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
40859169 CAAATGCCTTCGGG-CTTAGCCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
40859207 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
40859248 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40859273 CATCATTCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
37 2 0.02
38 24 0.19
39 21 0.16
40 69 0.54
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:40859232 original size:78 final size:81
Alignment explanation
Indices: 40859089--40859272 Score: 252
Period size: 78 Copynumber: 2.3 Consensus size: 81
40859079 GCTACTCGTT
* * *
40859089 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
40859154 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
**
40859169 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
40859231 GATATAGTCACTTAGCA
65 GATATAGTAACTTAGCA
40859248 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40859273 CATCATTCGA
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
77 3 0.03
78 47 0.51
79 29 0.31
80 14 0.15
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:40869641 original size:27 final size:27
Alignment explanation
Indices: 40869611--40869786 Score: 253
Period size: 27 Copynumber: 6.5 Consensus size: 27
40869601 ATTACCAAAG
* ** *
40869611 TACCCTCAATTTTTAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
40869638 TACCCTCGATTTACAGATTTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
40869665 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
40869692 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
40869719 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
40869746 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
40869773 TACCCTCGATTTAC
1 TACCCTCGATTTAC
40869787 TAAAATACCC
Statistics
Matches: 132, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:40869813 original size:27 final size:27
Alignment explanation
Indices: 40869789--40869949 Score: 205
Period size: 27 Copynumber: 6.0 Consensus size: 27
40869779 CGATTTACTA
*
40869789 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
40869816 AAATACCCCTGTTGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
40869843 AAATATCCCTGTAGGGTAGAATCACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
40869870 AAATACCCCTGTAGGGTATAAATACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
40869897 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
40869924 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
40869950 ATTTTATCCC
Statistics
Matches: 113, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:40869924 original size:81 final size:81
Alignment explanation
Indices: 40869789--40869941 Score: 227
Period size: 81 Copynumber: 1.9 Consensus size: 81
40869779 CGATTTACTA
* * *
40869789 AAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTTGGGTAGAATTATCGAAATATCCC-T
1 AAATACCCCTATAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTATCGAAATA-CCCTT
40869853 GTAGGGTAGAATCACCG
65 GTAGGGTAGAATCACCG
* * *
40869870 AAATACCCCTGTAGGGTATAAATACCAAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTG
1 AAATACCCCTATAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTG
*
40869935 TGGGGTA
66 TAGGGTA
40869942 AAATTACCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
80 3 0.05
81 61 0.95
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (81 bp):
AAATACCCCTATAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTG
TAGGGTAGAATCACCG
Found at i:40870240 original size:27 final size:26
Alignment explanation
Indices: 40870196--40870247 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
40870186 CTCGCTGCAA
40870196 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGGCCTCGCCACA-ATATCTGT
* *
40870223 TCTGGTGGCTTCGTCACAATATCTG
1 TCTGGTGGCCTCGCCACAATATCTG
40870248 GTAGCCTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCCTCGCCACAATATCTGT
Found at i:40870249 original size:21 final size:19
Alignment explanation
Indices: 40870223--40870275 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
40870213 ATATATCTGT
40870223 TCTGGTGGCTTCGTCACAATA
1 TCTGGTGGCTTCGTCAC-A-A
* * **
40870244 TCTGGTAGCCTCGTTGCAA
1 TCTGGTGGCTTCGTCACAA
40870263 TCTGGTGGCTTCG
1 TCTGGTGGCTTCG
40870276 CCATATATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 12 0.46
20 1 0.04
21 13 0.50
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (19 bp):
TCTGGTGGCTTCGTCACAA
Found at i:40870285 original size:2 final size:2
Alignment explanation
Indices: 40870278--40870307 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
40870268 TGGCTTCGCC
40870278 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
40870308 CTGTTCTGGT
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:40870497 original size:6 final size:6
Alignment explanation
Indices: 40870488--40870569 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
40870478 TCACATTCAC
* * *
40870488 ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG -TCACCTG ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
40870538 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
40870570 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
5 4 0.07
6 46 0.79
7 6 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:40870516 original size:25 final size:25
Alignment explanation
Indices: 40870488--40870548 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
40870478 TCACATTCAC
*
40870488 ATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGTCACCTGATACTG
* *
40870513 ATTCTGATTTTGTCACCTGATTCTG
1 ATTCTGATTCTGTCACCTGATACTG
40870538 ATTCTGATTCT
1 ATTCTGATTCT
40870549 CATTTTGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGTCACCTGATACTG
Found at i:40870617 original size:31 final size:33
Alignment explanation
Indices: 40870582--40870647 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 33
40870572 TGTTTCTTAT
40870582 TCTG-TAATGGGCTAAA-GCCC-ATCTGGTACTG
1 TCTGTTAATGGGCTAAAGGCCCAAT-TGGTACTG
40870613 TCTGTTATAATGGGCTAAAGGCCCAATTGGTACTG
1 TCTG-T-TAATGGGCTAAAGGCCCAATTGGTACTG
40870648 AAACTGTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
31 4 0.13
34 12 0.40
35 12 0.40
36 2 0.07
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (33 bp):
TCTGTTAATGGGCTAAAGGCCCAATTGGTACTG
Found at i:40875722 original size:21 final size:19
Alignment explanation
Indices: 40875693--40875731 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
40875683 TTCTAACCAA
*
40875693 TAATTATTTTCATACAATTTT
1 TAATGATTTT-ATA-AATTTT
40875714 TAATGATTTTATAAATTT
1 TAATGATTTTATAAATTT
40875732 AAGACAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (19 bp):
TAATGATTTTATAAATTTT
Found at i:40876498 original size:48 final size:49
Alignment explanation
Indices: 40876367--40876648 Score: 231
Period size: 48 Copynumber: 5.9 Consensus size: 49
40876357 AATGGTGCAG
* * * * * *
40876367 ATGCCATGTCCCAGACATGGTTTTATACGAGA-CATCATA-TCAATGCCA
1 ATGCCATATCCCAGATATGGTCTTACACGGGATC-TCATACTCGATGCCA
* * * * *
40876415 ATCCCATAT-CCAGATATGGTCTCACATGGGATCTCATACT-GATGTCG
1 ATGCCATATCCCAGATATGGTCTTACACGGGATCTCATACTCGATGCCA
* * * ***
40876462 ATGCCATATCCTAGATATGGTCTTACAC-GAAGTCTCATA-AC-AGTGTTG
1 ATGCCATATCCCAGATATGGTCTTACACGGGA-TCTCATACTCGA-TGCCA
* * * * * *
40876510 ATGCGATGTCCCAAACATGGTCTTATACGGGACCTCATA-TCGATGCCA
1 ATGCCATATCCCAGATATGGTCTTACACGGGATCTCATACTCGATGCCA
*
40876558 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCAT-CTCGATGCCA
1 ATGCCATATCCCAGATATGGTCTTACACGGGATCTCATACTCGATGCCA
* *
40876606 ATTCCATATCCCAGATATGGTCTTATACGGGATCTCAATACTC
1 ATGCCATATCCCAGATATGGTCTTACACGGGATCTC-ATACTC
40876649 ACATGTCGTG
Statistics
Matches: 183, Mismatches: 40, Indels: 20
0.75 0.16 0.08
Matches are distributed among these distances:
47 36 0.20
48 139 0.76
49 5 0.03
50 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (49 bp):
ATGCCATATCCCAGATATGGTCTTACACGGGATCTCATACTCGATGCCA
Found at i:40876522 original size:143 final size:144
Alignment explanation
Indices: 40876348--40876630 Score: 399
Period size: 143 Copynumber: 2.0 Consensus size: 144
40876338 TTACACAACA
** * *
40876348 AAGTCTCATAATGGTGCAGATGCCATGTCCCAGACATGGTTTTATACGAGACATCATATCAATGC
1 AAGTCTCATAACAGTGCAGATGCCATGTCCCAAACATGGTCTTATACGAGACATCATATCAATGC
* * *
40876413 CAATCCCATAT-CCAGATATGGTCTCACATGGGATCTCATACT-GATGTCGATGCCATATCCTAG
66 CAATCCCATATCCCAGATATGGTCTCACATGGGATCTCAT-CTCGATGCCAATGCCATATCCCAG
40876476 ATATGGTCTTACACG
130 ATATGGTCTTACACG
** * * * *
40876491 AAGTCTCATAACAGTGTTGATGCGATGTCCCAAACATGGTCTTATACGGGACCTCATATCGATGC
1 AAGTCTCATAACAGTGCAGATGCCATGTCCCAAACATGGTCTTATACGAGACATCATATCAATGC
* * *
40876556 CAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATCTCGATGCCAATTCCATATCCCAGA
66 CAATCCCATATCCCAGATATGGTCTCACATGGGATCTCATCTCGATGCCAATGCCATATCCCAGA
40876621 TATGGTCTTA
131 TATGGTCTTA
40876631 TACGGGATCT
Statistics
Matches: 122, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
143 67 0.55
144 55 0.45
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (144 bp):
AAGTCTCATAACAGTGCAGATGCCATGTCCCAAACATGGTCTTATACGAGACATCATATCAATGC
CAATCCCATATCCCAGATATGGTCTCACATGGGATCTCATCTCGATGCCAATGCCATATCCCAGA
TATGGTCTTACACG
Found at i:40895965 original size:47 final size:47
Alignment explanation
Indices: 40895893--40896023 Score: 192
Period size: 47 Copynumber: 2.8 Consensus size: 47
40895883 CACAATCGAT
*
40895893 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCA
* * * *
40895940 GAGTACCTATACCATGG-CCAGTAGCCAAATCAAGGTAGCTCCTCTCA
1 AAGTACCTATACCATGGCCCA-TAGCCAAATCAAGGTAACTCATCCCA
*
40895987 AATTACCTATACCATGGCCCATAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
40896024 TTACTCACAC
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 3 0.04
47 69 0.92
48 3 0.04
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.21
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCA
Found at i:40900264 original size:40 final size:40
Alignment explanation
Indices: 40900121--40900288 Score: 133
Period size: 40 Copynumber: 4.2 Consensus size: 40
40900111 CGGAATATAA
* ** * *
40900121 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCTCCAGCATAATTGCCTTCGGGTCTTAGC
* * * *
40900161 CCGGATAGAATGTCCCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCTCCAGCA-TAATTGCCTTCGGGTCTTAGC
* ** * * * * *
40900201 CCGGATGTAGCCACTAGCGTAATTGCCTTCGGGTCTCAAC
1 CCGGATATAATCTCCAGCATAATTGCCTTCGGGTCTTAGC
* *
40900241 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCTCCAGCATAATTGCCTTCGGG-TCTTAGC
40900281 CCGGATAT
1 CCGGATAT
40900289 CATTCAATTT
Statistics
Matches: 97, Mismatches: 28, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
39 2 0.02
40 92 0.95
41 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCTCCAGCATAATTGCCTTCGGGTCTTAGC
Found at i:40905439 original size:20 final size:19
Alignment explanation
Indices: 40905392--40905439 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
40905382 ATATAATCTT
40905392 TATTATGTT-TTATTTTCA
1 TATTATGTTATTATTTTCA
* *
40905410 TATTAT-TTATTTTTTTTA
1 TATTATGTTATTATTTTCA
40905428 TATATATGTTAT
1 TAT-TATGTTAT
40905440 GTATATCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (19 bp):
TATTATGTTATTATTTTCA
Found at i:40908047 original size:28 final size:28
Alignment explanation
Indices: 40907982--40908080 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
40907972 CATGAGATTG
* * *
40907982 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
40908011 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
40908039 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
40908067 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40908081 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:40910313 original size:40 final size:40
Alignment explanation
Indices: 40910227--40910393 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
40910217 AAATTGAATG
* * ** *
40910227 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * *
40910266 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * * *
40910306 ATGTCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
40910346 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
40910386 ATATCCGG
1 ATATCCGG
40910394 TTATATTCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 17 0.17
40 83 0.81
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:40913234 original size:66 final size:65
Alignment explanation
Indices: 40913107--40913234 Score: 159
Period size: 66 Copynumber: 1.9 Consensus size: 65
40913097 GTTTCCACAT
* * * * *
40913107 ACACCATGTAGACAAGAGAGCTAGGGGAATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAG
1 ACACCATGTAGACAAGAGAGCTACGAGAAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAAG
40913172 G
65 G
* *
40913173 ACACCATGTAGACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCATGTAGACAAGAGAGCTACGAGA-AAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
40913235 TTCACCATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 49 0.92
67 2 0.04
68 2 0.04
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.20
Consensus pattern (65 bp):
ACACCATGTAGACAAGAGAGCTACGAGAAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAGG
Found at i:40921714 original size:53 final size:53
Alignment explanation
Indices: 40921612--40921806 Score: 158
Period size: 53 Copynumber: 3.6 Consensus size: 53
40921602 TCCTTTCTAA
* * * * *
40921612 ACTTACCATTTCCATGTCTTGACATGGTCTTACATAGTGTCATTCCCTTAT-GT
1 ACTTACCAATGCCATGCCTTGACATGGTCTTACAT-GAGTCATTGCCTTATAGT
* * * * * *
40921665 ACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGT
1 ACTTACCAATGCCATGCCTTGACATGGTCTTACATGAG-TCATTGCCTTATAGT
* * * * * * **
40921719 AGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAA
1 A-CTTACCAATGCCATGCCTTGACATGGTCTTACATGA-GTCATTGCCTTATAGT
* *
40921774 ACTTACAAATGCCATGCCTTGGCATGGTCTTAC
1 ACTTACCAATGCCATGCCTTGACATGGTCTTAC
40921807 TTGGTATCCT
Statistics
Matches: 113, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
52 2 0.02
53 41 0.36
54 30 0.27
55 40 0.35
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (53 bp):
ACTTACCAATGCCATGCCTTGACATGGTCTTACATGAGTCATTGCCTTATAGT
Found at i:40921766 original size:55 final size:53
Alignment explanation
Indices: 40921623--40921806 Score: 145
Period size: 55 Copynumber: 3.4 Consensus size: 53
40921613 CTTACCATTT
* * *
40921623 CCATGTCTTGACATGGTCTTACAT-AGTGTCATTCCCTTATGTACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGA-TATCATTGCCTTATGTACTCACCAATG
* * ** * * * *
40921676 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGATATCATTGCCTTAT-GTA-CTCACCAATG
* * * ** * *
40921731 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACAAATG
1 CCATGTCTTGACATGGTCTTACATGATATCATTGCCTTAT-GTACTCACCAATG
* *
40921785 CCATGCCTTGGCATGGTCTTAC
1 CCATGTCTTGACATGGTCTTAC
40921807 TTGGTATCCT
Statistics
Matches: 102, Mismatches: 26, Indels: 5
0.77 0.20 0.04
Matches are distributed among these distances:
53 32 0.31
54 30 0.29
55 40 0.39
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGATATCATTGCCTTATGTACTCACCAATG
Found at i:40921817 original size:54 final size:55
Alignment explanation
Indices: 40921674--40921817 Score: 157
Period size: 54 Copynumber: 2.6 Consensus size: 55
40921664 TACTCACCAT
* * ** **
40921674 TGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATCAAAACTTATCAA
* * * * *
40921729 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGT-AAAACTTA-CAAA
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATCAAAACTTATC-AA
*
40921783 TGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
40921818 AAACCCTAAT
Statistics
Matches: 72, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
53 1 0.01
54 36 0.50
55 35 0.49
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (55 bp):
TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATCAAAACTTATCAA
Found at i:40924332 original size:2 final size:2
Alignment explanation
Indices: 40924325--40924353 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
40924315 CCACCTCAAT
40924325 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
40924354 CTTTTGATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:40926216 original size:47 final size:47
Alignment explanation
Indices: 40926146--40926276 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
40926136 CTCAATCGAT
* * *
40926146 AAGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCA
* * * *
40926193 GAGTACCTATATCATGGCCCGTAGACAAATCAAGGTAACTTCTCTCA
1 AAGTACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCA
* *
40926240 AAATACCTATATCATGGCCCGTATCCAAATCAAGGTA
1 AAGTACCTATATCATGGCCCGTAGCCAAATCAAGGTA
40926277 TTATTCGCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (47 bp):
AAGTACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCA
Found at i:40927411 original size:13 final size:13
Alignment explanation
Indices: 40927393--40927419 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
40927383 TACAAATGAT
40927393 AAAATTTTCACAC
1 AAAATTTTCACAC
40927406 AAAATTTTCACAC
1 AAAATTTTCACAC
40927419 A
1 A
40927420 TATCACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:40939839 original size:29 final size:29
Alignment explanation
Indices: 40939798--40939898 Score: 139
Period size: 29 Copynumber: 3.5 Consensus size: 29
40939788 TGGCCCATCT
40939798 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
*
40939827 CATTCATATGGCCCATCAGGACCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * *
40939856 TATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* *
40939885 CCTTTATATGGCCC
1 CATTCATATGGCCC
40939899 GTTAAGCCCA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:40939907 original size:29 final size:28
Alignment explanation
Indices: 40939803--40939921 Score: 94
Period size: 29 Copynumber: 4.1 Consensus size: 28
40939793 CATCTCATTC
* * * *
40939803 ATATGGCCCATCAGGCCCAATTCACATT
1 ATATGGCCCATTAAGCCCAAATCACCTT
* * * * **
40939831 CATATGGCCCATCAGGACCAATTCATATT
1 -ATATGGCCCATTAAGCCCAAATCACCTT
* *
40939860 CATATGGCCTATTAGGCCCAAATCACCTTT
1 -ATATGGCCCATTAAGCCCAAATCACC-TT
*
40939890 ATATGGCCCGTTAAGCCCAAATCACCTT
1 ATATGGCCCATTAAGCCCAAATCACCTT
40939918 ATAT
1 ATAT
40939922 TCATGCTCAC
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.08
29 70 0.90
30 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATTAAGCCCAAATCACCTT
Found at i:40944770 original size:232 final size:232
Alignment explanation
Indices: 40944364--40944804 Score: 749
Period size: 232 Copynumber: 1.9 Consensus size: 232
40944354 GTCATAGGGC
40944364 CTAGCACATGGGTTTGTGACTTGGCTGTGTGGCATAAGTCAATATACCCTCCAGTTTTTACACGG
1 CTAGCACATGGGTTTGTGACTTGGCTGTGTGGCATAAGTCAATATACCCTCCAGTTTTTACACGG
* * *
40944429 CCTAGCACACAACTTGGCATACAGGCGTGTGAGGTAATTTTGAAGGGAACATTGGCTAGTCACAC
66 CCTAGCACACAACTTGGCACACAGGCGTGTGAGGCAATTTTGAAGGGAACACTGGCTAGTCACAC
* * *
40944494 AGGTGTGGTTGGCTGTGTGACCCAAGTCAGAGAGTTACACGGGGTCGAACACGGGCTGGGACACT
131 AGGTGTGGTTGGCCGTGTAACCCAAGTCAGAGAGTTACACGGGGTCGAAAACGGGCTGGGACACT
40944559 GCCATGGGATCCCACAAAGTCCATAGCTTCACACGGA
196 GCCATGGGATCCCACAAAGTCCATAGCTTCACACGGA
*
40944596 CTAGCACATGGGTTTGTGACTTGGCTGTGTGGCATAAGTCAATATACCCTCCAGTTTTTACATGG
1 CTAGCACATGGGTTTGTGACTTGGCTGTGTGGCATAAGTCAATATACCCTCCAGTTTTTACACGG
* * * *
40944661 CCTAGCACACGACTTGGCACATAGGCGTGTGAGGCCATTTTGAAGGGTACACTGGCTAGTCACAC
66 CCTAGCACACAACTTGGCACACAGGCGTGTGAGGCAATTTTGAAGGGAACACTGGCTAGTCACAC
* *
40944726 -GGTCGTGGTTGGCCGTGTAACCCAAGTCAGAGGGTTACACGGGGTCGAAAATGGGCTGGGACAC
131 AGGT-GTGGTTGGCCGTGTAACCCAAGTCAGAGAGTTACACGGGGTCGAAAACGGGCTGGGACAC
40944790 TGCCATGGGATCCCA
195 TGCCATGGGATCCCA
40944805 TTTTGAATGT
Statistics
Matches: 195, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
231 3 0.02
232 192 0.98
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (232 bp):
CTAGCACATGGGTTTGTGACTTGGCTGTGTGGCATAAGTCAATATACCCTCCAGTTTTTACACGG
CCTAGCACACAACTTGGCACACAGGCGTGTGAGGCAATTTTGAAGGGAACACTGGCTAGTCACAC
AGGTGTGGTTGGCCGTGTAACCCAAGTCAGAGAGTTACACGGGGTCGAAAACGGGCTGGGACACT
GCCATGGGATCCCACAAAGTCCATAGCTTCACACGGA
Found at i:40947331 original size:30 final size:30
Alignment explanation
Indices: 40947295--40947395 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
40947285 GACAAGATTG
* * *
40947295 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
40947325 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
40947353 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
40947382 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40947396 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:40947407 original size:29 final size:28
Alignment explanation
Indices: 40947324--40947399 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
40947314 AAAATTGTAC
* *
40947324 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
40947352 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
40947381 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
40947400 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:40955219 original size:30 final size:30
Alignment explanation
Indices: 40955183--40955283 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
40955173 GACAAGATTG
* * *
40955183 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
40955213 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
40955241 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
40955270 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40955284 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:40955295 original size:29 final size:28
Alignment explanation
Indices: 40955212--40955287 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
40955202 AAAATTGTAC
* *
40955212 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
40955240 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
40955269 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
40955288 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:40962073 original size:14 final size:13
Alignment explanation
Indices: 40962053--40962089 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
40962043 AATATATGAT
40962053 TTGTTCTTAATTA
1 TTGTTCTTAATTA
40962066 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
40962080 TTGTT-TTAAT
1 TTGTTCTTAAT
40962090 ATTCCAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:40962844 original size:19 final size:19
Alignment explanation
Indices: 40962809--40962846 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
40962799 TTGCAATTTA
*
40962809 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
40962828 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
40962847 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:40976776 original size:40 final size:37
Alignment explanation
Indices: 40976727--40976832 Score: 131
Period size: 40 Copynumber: 2.7 Consensus size: 37
40976717 ATCACGATTT
** *
40976727 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAG--CCACTA
40976767 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGCCACTA
*
40976805 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
40976833 TATAATTTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
37 2 0.03
38 27 0.45
40 31 0.52
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGCCACTA
Found at i:40984607 original size:40 final size:38
Alignment explanation
Indices: 40984558--40984665 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
40984548 ATCACGATTT
*
40984558 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
40984598 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
40984638 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
40984666 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:40984625 original size:80 final size:80
Alignment explanation
Indices: 40984517--40984665 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
40984507 TATGGTAACC
* * * *
40984517 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
40984581 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
40984597 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
40984662 CCGG
66 CCGG
40984666 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:40990402 original size:23 final size:23
Alignment explanation
Indices: 40990372--40990423 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
40990362 GTGTATCTGA
40990372 TAATAGTAACACAGCAAAGCTAC
1 TAATAGTAACACAGCAAAGCTAC
* * *
40990395 TAATAGTAACATAGGAAAGCTGC
1 TAATAGTAACACAGCAAAGCTAC
40990418 TAATAG
1 TAATAG
40990424 AGGTAAACGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.21
Consensus pattern (23 bp):
TAATAGTAACACAGCAAAGCTAC
Found at i:40991069 original size:20 final size:19
Alignment explanation
Indices: 40991028--40991072 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
40991018 TACACAAGTG
* *
40991028 GGCCCACGGGGCCCATTAA
1 GGCCCACGAGGCCCATCAA
*
40991047 GGCCCATCGAGGCCCATCGA
1 GGCCCA-CGAGGCCCATCAA
40991067 GGCCCA
1 GGCCCA
40991073 GTACACGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.20, C:0.40, G:0.31, T:0.09
Consensus pattern (19 bp):
GGCCCACGAGGCCCATCAA
Found at i:40997192 original size:29 final size:30
Alignment explanation
Indices: 40997141--40997198 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
40997131 AATTTGCCGG
* * *
40997141 ACATCAAATAGTGCGAGACAATCGCCAATA
1 ACATAAAATAGTGCGAGAAAATCACCAATA
*
40997171 ACATAAAATA-TGCGATAAAATCACCAAT
1 ACATAAAATAGTGCGAGAAAATCACCAAT
40997199 CCCTCAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.48, C:0.21, G:0.12, T:0.19
Consensus pattern (30 bp):
ACATAAAATAGTGCGAGAAAATCACCAATA
Found at i:41013912 original size:31 final size:31
Alignment explanation
Indices: 41013871--41013934 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41013861 CCTTTTCATA
*
41013871 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
41013902 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
41013933 TT
1 TT
41013935 ACGGTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:41014180 original size:24 final size:24
Alignment explanation
Indices: 41014128--41014317 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
41014118 GCTTTATCAT
* *
41014128 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
41014153 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
41014177 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
* *
41014200 ATAACTAGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
41014224 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
41014248 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
41014272 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
41014295 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41014318 TCACTTCCTC
Statistics
Matches: 150, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
23 42 0.28
24 96 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:41014217 original size:47 final size:47
Alignment explanation
Indices: 41014153--41014317 Score: 267
Period size: 47 Copynumber: 3.5 Consensus size: 47
41014143 GCCTCTTTTA
** *
41014153 ATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTG
1 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTG
*
41014200 ATAACTAGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTG
*
41014248 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTG
*
41014295 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCGTAAGCCCTTTT
41014318 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
47 64 0.58
48 46 0.42
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTG
Found at i:41014231 original size:71 final size:72
Alignment explanation
Indices: 41014142--41014318 Score: 277
Period size: 71 Copynumber: 2.5 Consensus size: 72
41014132 CTGGAGGCCT
*
41014142 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC-TTTGATAACT
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTGATAACT
*
41014206 AGGGCGTA
65 AGGGCATA
* * * *
41014214 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCGTAAGCCCTTTTGATAACTG
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTGATAACTA
41014279 GGGCATA
66 GGGCATA
41014286 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
41014319 CACTTCCTCC
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
71 71 0.74
72 25 0.26
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (72 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTTGATAACTA
GGGCATA
Found at i:41014390 original size:9 final size:9
Alignment explanation
Indices: 41014376--41014432 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
41014366 ATCTCGTGTG
41014376 CATATCATA
1 CATATCATA
*
41014385 CATATCATGTG
1 CATATCA--TA
41014396 CATATCATA
1 CATATCATA
* *
41014405 CATGTCATGTG
1 CATATCA--TA
41014416 CATATCATA
1 CATATCATA
41014425 CATATCAT
1 CATATCAT
41014433 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:41014395 original size:20 final size:20
Alignment explanation
Indices: 41014372--41014434 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
41014362 GAACATCTCG
41014372 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
41014392 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
41014412 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
41014432 TGT
1 TGT
41014435 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:41014517 original size:25 final size:25
Alignment explanation
Indices: 41014471--41014518 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
41014461 ATATATAAAC
* * * *
41014471 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
41014496 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
41014519 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:41015674 original size:27 final size:27
Alignment explanation
Indices: 41015644--41015864 Score: 302
Period size: 27 Copynumber: 8.2 Consensus size: 27
41015634 TGTAAATTAG
41015644 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
41015671 GGGTAAAATAGTAATTCTGTAAA-CTGA
1 GGGTAAAACGGTAATTCTATAAATC-GA
41015698 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
41015725 GGGTAAAACGATAATTTTACAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
41015752 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
41015779 GGGTAAAATAGTAATTCTGTAAA-CTGA
1 GGGTAAAACGGTAATTCTATAAATC-GA
*
41015806 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
41015833 GGGTAAAACGGTAATTTTACAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
41015860 GGGTA
1 GGGTA
41015865 TTTCAATAAT
Statistics
Matches: 170, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 166 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTATAAATCGA
Found at i:41015833 original size:108 final size:108
Alignment explanation
Indices: 41015644--41015864 Score: 424
Period size: 108 Copynumber: 2.0 Consensus size: 108
41015634 TGTAAATTAG
41015644 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
41015709 TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
66 TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
41015752 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
* *
41015817 TAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
66 TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
41015860 GGGTA
1 GGGTA
41015865 TTTCAATAAT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 111 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (108 bp):
GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
Found at i:41015874 original size:27 final size:27
Alignment explanation
Indices: 41015843--41016038 Score: 184
Period size: 27 Copynumber: 7.3 Consensus size: 27
41015833 GGGTAAAACG
* *
41015843 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCAAGGGTATTTTA
* ** * *
41015870 ATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCAAGGGTATTTTA
* * * *
41015897 GTAATTTCACAAATTAGGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTA
*
41015924 GTAATTTTACAAA-CTAGGGGTATTTT-
1 GTAATTTTACAAATC-AAGGGTATTTTA
*
41015950 GATAATTTTACAAA-CTAAGGGTATTTTG
1 G-TAATTTTACAAATC-AAGGGTATTTTA
* *
41015978 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAATCAAGGGTATTTTA
* *
41016005 GTAATTTTACAAAGC-AGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTA
41016031 GTAATTTT
1 GTAATTTT
41016039 GTAAACCAAA
Statistics
Matches: 145, Mismatches: 20, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
26 19 0.13
27 124 0.86
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCAAGGGTATTTTA
Found at i:41015902 original size:108 final size:108
Alignment explanation
Indices: 41015644--41015891 Score: 370
Period size: 108 Copynumber: 2.3 Consensus size: 108
41015634 TGTAAATTAG
** *
41015644 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
1 GGGTAAAACAATAATTCTACAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
41015709 TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
66 TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
** *
41015752 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
1 GGGTAAAACAATAATTCTACAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
* *
41015817 TAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
66 TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
*** * **
41015860 GGGTATTTCAATAATTTTACAGGTCGAGGGTA
1 GGGTAAAACAATAATTCTACAAATCGAGGGTA
41015892 TTTCAGTAAT
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 129 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (108 bp):
GGGTAAAACAATAATTCTACAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
Found at i:41015971 original size:81 final size:81
Alignment explanation
Indices: 41015842--41016038 Score: 204
Period size: 81 Copynumber: 2.4 Consensus size: 81
41015832 AGGGTAAAAC
* ** ** *
41015842 GGTAATTTTACAAA-TCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCA
1 GGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAACTCAAGGGTATTTCAGTAATTTCA
** *
41015906 CAAATTAGGGGTATTTT
65 CAAACCAAGGGTATTTT
** *
41015923 GGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACT-AAGGGTATTTTGGTAATTTTA
1 GGTAATTTTACAAACTAGGGGTATTTTGATAATTTTAC-AACTCAAGGGTATTTCAGTAATTTCA
*
41015987 TAAACCAAGGGTATTTT
65 CAAACCAAGGGTATTTT
* *
41016004 AGTAATTTTACAAAGC-A-GGGTATTTTGGTAATTTT
1 GGTAATTTTACAAA-CTAGGGGTATTTTGATAATTTT
41016039 GTAAACCAAA
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 17 0.17
81 76 0.78
82 5 0.05
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (81 bp):
GGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAACTCAAGGGTATTTCAGTAATTTCAC
AAACCAAGGGTATTTT
Found at i:41018882 original size:31 final size:31
Alignment explanation
Indices: 41018841--41018904 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41018831 CCTTTTCATA
*
41018841 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
41018872 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
41018903 TT
1 TT
41018905 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:41019150 original size:24 final size:24
Alignment explanation
Indices: 41019098--41019286 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
41019088 GCTTTATCAT
* *
41019098 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
41019123 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
41019147 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTG
*
41019169 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
41019193 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
41019217 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
41019241 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
41019264 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41019287 TCACTTCCTC
Statistics
Matches: 153, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
22 18 0.12
23 28 0.18
24 95 0.62
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:41019234 original size:94 final size:96
Alignment explanation
Indices: 41019098--41019286 Score: 303
Period size: 94 Copynumber: 2.0 Consensus size: 96
41019088 GCTTTATCAT
* *
41019098 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAG
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
*
41019163 CCCTTT-ATAACTGGGGCGTAAGCCCTTTTG
66 CCCTTTAATAACTGGGGCATAAGCCCTTTTG
* *
41019193 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAA
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
41019256 GCCCTTTAATAACTGGGGCATAAGCCCTTTT
65 GCCCTTTAATAACTGGGGCATAAGCCCTTTT
41019287 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
94 53 0.61
95 34 0.39
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (96 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
CCCTTTAATAACTGGGGCATAAGCCCTTTTG
Found at i:41019359 original size:9 final size:9
Alignment explanation
Indices: 41019345--41019401 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
41019335 ATCTCGTGTG
41019345 CATATCATA
1 CATATCATA
*
41019354 CATATCATGTG
1 CATATCA--TA
41019365 CATATCATA
1 CATATCATA
* *
41019374 CATGTCATGTG
1 CATATCA--TA
41019385 CATATCATA
1 CATATCATA
41019394 CATATCAT
1 CATATCAT
41019402 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:41019364 original size:20 final size:20
Alignment explanation
Indices: 41019341--41019403 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
41019331 GAACATCTCG
41019341 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
41019361 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
41019381 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
41019401 TGT
1 TGT
41019404 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:41019486 original size:25 final size:25
Alignment explanation
Indices: 41019440--41019487 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
41019430 ATATATAAAC
* * * *
41019440 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
41019465 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
41019488 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:41020640 original size:27 final size:27
Alignment explanation
Indices: 41020610--41020830 Score: 302
Period size: 27 Copynumber: 8.2 Consensus size: 27
41020600 TGTAAATTAG
41020610 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
41020637 GGGTAAAATAGTAATTCTGTAAA-CTGA
1 GGGTAAAACGGTAATTCTATAAATC-GA
41020664 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
41020691 GGGTAAAACGATAATTTTACAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
41020718 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
41020745 GGGTAAAATAGTAATTCTGTAAA-CTGA
1 GGGTAAAACGGTAATTCTATAAATC-GA
*
41020772 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
41020799 GGGTAAAACGGTAATTTTACAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
41020826 GGGTA
1 GGGTA
41020831 TTTTAATAAT
Statistics
Matches: 170, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 166 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTATAAATCGA
Found at i:41020799 original size:108 final size:108
Alignment explanation
Indices: 41020610--41020830 Score: 424
Period size: 108 Copynumber: 2.0 Consensus size: 108
41020600 TGTAAATTAG
41020610 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
41020675 TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
66 TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
41020718 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
* *
41020783 TAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
66 TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
41020826 GGGTA
1 GGGTA
41020831 TTTTAATAAT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 111 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (108 bp):
GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
TAATTCTATAAATCGAGGGTAAAACGATAATTTTACAAATCGA
Found at i:41020840 original size:27 final size:27
Alignment explanation
Indices: 41020808--41021003 Score: 193
Period size: 27 Copynumber: 7.3 Consensus size: 27
41020798 AGGGTAAAAC
*
41020808 GGTAATTTTACAAATCGAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
** ** * *
41020835 AATAATTTTACAGGTCGA-GGTATTTC
1 GGTAATTTTACAAATCAAGGGTATTTT
* * * *
41020861 AGTAATTTCACAAATTAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
41020888 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
*
41020915 GATAATTTTACAAA-CTAAGGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
* *
41020942 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* *
41020969 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
41020995 GGTAATTTT
1 GGTAATTTT
41021004 GTAAACCAAA
Statistics
Matches: 142, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
26 36 0.25
27 105 0.74
28 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTAATTTTACAAATCAAGGGTATTTT
Found at i:41023844 original size:31 final size:31
Alignment explanation
Indices: 41023803--41023866 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41023793 CCTTTTCATA
*
41023803 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
41023834 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
41023865 TT
1 TT
41023867 ACGGTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:41024128 original size:24 final size:24
Alignment explanation
Indices: 41024060--41024248 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
41024050 GCTTTATCAT
* *
41024060 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
41024085 ATAACTGGGGCAAAAG-CCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
41024108 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
41024131 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
41024155 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
41024179 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
41024203 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
41024226 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41024249 TACTTCCTCC
Statistics
Matches: 152, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
23 63 0.41
24 79 0.52
25 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:41024164 original size:47 final size:47
Alignment explanation
Indices: 41024085--41024248 Score: 276
Period size: 47 Copynumber: 3.5 Consensus size: 47
41024075 GCCTCTTTTA
* *
41024085 ATAACTGGGGCAAAAG-CCTTTTTATAACTGGGGCATAAGCCCTTTG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTG
*
41024131 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTG
*
41024179 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTG
41024226 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41024249 TACTTCCTCC
Statistics
Matches: 111, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
46 14 0.13
47 51 0.46
48 46 0.41
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTG
Found at i:41024320 original size:9 final size:9
Alignment explanation
Indices: 41024306--41024362 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
41024296 ATCTCGTGTT
41024306 CATATCATA
1 CATATCATA
*
41024315 CATATCATGTG
1 CATATCA--TA
41024326 CATATCATA
1 CATATCATA
* *
41024335 CATGTCATGTG
1 CATATCA--TA
41024346 CATATCATA
1 CATATCATA
41024355 CATATCAT
1 CATATCAT
41024363 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:41024329 original size:20 final size:20
Alignment explanation
Indices: 41024306--41024364 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
41024296 ATCTCGTGTT
41024306 CATATCATACATATCATGTG
1 CATATCATACATATCATGTG
*
41024326 CATATCATACATGTCATGTG
1 CATATCATACATATCATGTG
41024346 CATATCATACATATCATGT
1 CATATCATACATATCATGT
41024365 TTATCAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
CATATCATACATATCATGTG
Found at i:41024447 original size:25 final size:25
Alignment explanation
Indices: 41024401--41024448 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
41024391 ATATATAAAC
* * * *
41024401 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
41024426 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
41024449 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:41025604 original size:27 final size:27
Alignment explanation
Indices: 41025574--41025794 Score: 311
Period size: 27 Copynumber: 8.2 Consensus size: 27
41025564 TGTAAATTAG
41025574 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
41025601 GGGTAAAATAGTAATTCTGTAAA-CTGA
1 GGGTAAAACGGTAATTCTATAAATC-GA
41025628 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
41025655 GGGTAAAACGGTAATTTTACAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
41025682 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
** *
41025709 GGGTAAAATAGTAATTCTGTAAA-CTGA
1 GGGTAAAACGGTAATTCTATAAATC-GA
*
41025736 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
41025763 GGGTAAAACGGTAATTTTACAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
41025790 GGGTA
1 GGGTA
41025795 TTTCAATAAT
Statistics
Matches: 172, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 168 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.27
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTATAAATCGA
Found at i:41025763 original size:108 final size:108
Alignment explanation
Indices: 41025574--41025794 Score: 433
Period size: 108 Copynumber: 2.0 Consensus size: 108
41025564 TGTAAATTAG
41025574 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
41025639 TAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
66 TAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
41025682 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
*
41025747 TAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
66 TAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
41025790 GGGTA
1 GGGTA
41025795 TTTCAATAAT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 112 1.00
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.27
Consensus pattern (108 bp):
GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
TAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
Found at i:41025804 original size:27 final size:27
Alignment explanation
Indices: 41025773--41025968 Score: 186
Period size: 27 Copynumber: 7.3 Consensus size: 27
41025763 GGGTAAAACG
* *
41025773 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCTAGGGTATTTTA
* ** * *
41025800 ATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCTAGGGTATTTTA
* *
41025827 GTAATTTCACAAAT-TAGGGTTATTTTG
1 GTAATTTTACAAATCTAGGG-TATTTTA
41025854 GTAATTTTACAAA-CTAGGGGTATTTT-
1 GTAATTTTACAAATCTA-GGGTATTTTA
*
41025880 GATAATTTTACAAA-CTAGGGGTATTTTG
1 G-TAATTTTACAAATCTA-GGGTATTTTA
* * *
41025908 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAATCTAGGGTATTTTA
* *
41025935 GTAATTTTACAAAGC-AGGGTATTTTG
1 GTAATTTTACAAATCTAGGGTATTTTA
41025961 GTAATTTT
1 GTAATTTT
41025969 GTAAACCAAA
Statistics
Matches: 146, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
26 23 0.16
27 117 0.80
28 6 0.04
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCTAGGGTATTTTA
Found at i:41025832 original size:108 final size:108
Alignment explanation
Indices: 41025574--41025821 Score: 379
Period size: 108 Copynumber: 2.3 Consensus size: 108
41025564 TGTAAATTAG
** *
41025574 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
1 GGGTAAAACAATAATTCTACAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
41025639 TAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
66 TAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
** *
41025682 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
1 GGGTAAAACAATAATTCTACAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
*
41025747 TAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
66 TAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
*** * **
41025790 GGGTATTTCAATAATTTTACAGGTCGAGGGTA
1 GGGTAAAACAATAATTCTACAAATCGAGGGTA
41025822 TTTCAGTAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 130 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (108 bp):
GGGTAAAACAATAATTCTACAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGG
TAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGA
Found at i:41025982 original size:26 final size:26
Alignment explanation
Indices: 41025847--41025985 Score: 134
Period size: 27 Copynumber: 5.2 Consensus size: 26
41025837 AAATTAGGGT
* * *
41025847 TATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTATAAACCA-AGG
* * * *
41025874 TATTTTGATAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTATAAACCA-AGG
41025901 TATTTTGGTAATTTTATAAACCAAGGG
1 TATTTTGGTAATTTTATAAACCAA-GG
* * * *
41025928 TATTTTAGTAATTTTACAAAGCAGGG
1 TATTTTGGTAATTTTATAAACCAAGG
* *
41025954 TATTTTGGTAATTTTGTAAACCAAAG
1 TATTTTGGTAATTTTATAAACCAAGG
41025980 TATTTT
1 TATTTT
41025986 AAATAGGGAT
Statistics
Matches: 96, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.29
27 68 0.71
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.42
Consensus pattern (26 bp):
TATTTTGGTAATTTTATAAACCAAGG
Found at i:41031690 original size:28 final size:28
Alignment explanation
Indices: 41031608--41031697 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 28
41031598 TGAGCGTGAC
41031608 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
41031637 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
41031666 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
41031694 TATA
1 TATA
41031698 CAGGTATGTG
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
28 21 0.37
29 36 0.63
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:41039718 original size:44 final size:42
Alignment explanation
Indices: 41039668--41039824 Score: 133
Period size: 44 Copynumber: 3.7 Consensus size: 42
41039658 TGTGTTATCA
41039668 TGTAAGAACACGTCTGGGACGTTGGCATCGATTTGAGATTTACG
1 TGTAAGAACACGTCTGGGACGTTGGCATCGATTT--GATTTACG
* * * *
41039712 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTT-TG
1 TGTAAGAACACGTCTGGGACGTTGGCATCG-ATTTGATTTACG
* * * * *
41039754 TGTAAG-ACCCTATCTGGGATAG-TGGCATCGATATT-TTATTACA
1 TGTAAGAACAC-GTCTGGGA-CGTTGGCATCGAT-TTGAT-TTACG
*
41039797 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGAACACGTCTGGGACGTTGGCAT
41039825 TGTACGAGCC
Statistics
Matches: 88, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
41 4 0.05
42 27 0.31
43 24 0.27
44 29 0.33
45 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGAACACGTCTGGGACGTTGGCATCGATTTGATTTACG
Found at i:41039770 original size:42 final size:42
Alignment explanation
Indices: 41039679--41039824 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 42
41039669 GTAAGAACAC
* *
41039679 GTCTGGGACGTTGGCATCG-ATTTGAGATTTACGTGTAAGACCAT
1 GTCTGGGACATTGGCATCGTATTT--GATTT-CGTGTAAGACCCT
*
41039723 GTCTGGGACATTGGCATCGTATTTGATTTTGTGTAAGACCCT
1 GTCTGGGACATTGGCATCGTATTTGATTTCGTGTAAGACCCT
* * * * * *
41039765 ATCTGGGATAGTGGCATCGATATTTTATTACATGTAAGACCAC-
1 GTCTGGGACATTGGCATCG-TATTTGATTTCGTGTAAGACC-CT
*
41039808 GTCTGGGACGTTGGCAT
1 GTCTGGGACATTGGCAT
41039825 TGTACGAGCC
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 27 0.32
43 35 0.41
44 19 0.22
45 4 0.05
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (42 bp):
GTCTGGGACATTGGCATCGTATTTGATTTCGTGTAAGACCCT
Found at i:41045282 original size:17 final size:18
Alignment explanation
Indices: 41045255--41045288 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
41045245 AATTAAATAT
41045255 ATGCATATTAATTTATTA
1 ATGCATATTAATTTATTA
41045273 ATGC-TATTAATTTATT
1 ATGCATATTAATTTATT
41045289 TAAACAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
ATGCATATTAATTTATTA
Found at i:41045483 original size:25 final size:22
Alignment explanation
Indices: 41045455--41045513 Score: 55
Period size: 25 Copynumber: 2.4 Consensus size: 22
41045445 ATCCTAACTC
*
41045455 TATAATAAGTTGATAATAATTAATA
1 TATAATAA-TGGAT-ATAATT-ATA
41045480 TATATTATAATGGATATAATTATA
1 TATA--ATAATGGATATAATTATA
41045504 TATTAATAAT
1 TA-TAATAAT
41045514 TATTATCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
23 5 0.17
24 5 0.17
25 12 0.40
26 4 0.13
27 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
TATAATAATGGATATAATTATA
Found at i:41045552 original size:127 final size:126
Alignment explanation
Indices: 41045308--41045543 Score: 323
Period size: 127 Copynumber: 1.9 Consensus size: 126
41045298 ATGAAATATG
* **
41045308 ATTAAAACTAATCCTAATTCTATGCTAAATTGATAAAAATTAATATATAAATTATAATAGATATA
1 ATTAAAACTAATCCTAACTCTATAATAAATTGATAAAAATTAATATAT-AATTATAATAGATATA
*
41045373 ATTATATATTAAAGATTATCATCTTATTATTATTAAAAACTTTTCAAATAAAATATGATGAA
65 ATTATATATTAAAGATTATCATCTTATTATTATTAAAAACATTTCAAATAAAATATGATGAA
* * * *
41045435 ATTAACACTAATCCTAACTCTATAATAAGTTGATAATAATTAATATAT-ATTATAATGGATATAA
1 ATTAAAACTAATCCTAACTCTATAATAAATTGATAAAAATTAATATATAATTATAATAGATATAA
* * *
41045499 TTATATATTAATA-ATTATTATCTTTTTTTTGAATTAAAAACATTT
66 TTATATATTAA-AGATTATCATCTTATTATT--ATTAAAAACATTT
41045544 ATTCTAAAAG
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
125 40 0.42
126 1 0.01
127 54 0.57
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (126 bp):
ATTAAAACTAATCCTAACTCTATAATAAATTGATAAAAATTAATATATAATTATAATAGATATAA
TTATATATTAAAGATTATCATCTTATTATTATTAAAAACATTTCAAATAAAATATGATGAA
Found at i:41045949 original size:13 final size:13
Alignment explanation
Indices: 41045931--41045955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41045921 ATGAACGAAA
41045931 TTTGATTCTGTTG
1 TTTGATTCTGTTG
41045944 TTTGATTCTGTT
1 TTTGATTCTGTT
41045956 CAGTCTTATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (13 bp):
TTTGATTCTGTTG
Found at i:41063206 original size:28 final size:28
Alignment explanation
Indices: 41063166--41063285 Score: 177
Period size: 28 Copynumber: 4.3 Consensus size: 28
41063156 TGGGAAGTAG
*
41063166 TTGGCCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
41063194 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
41063222 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
** * * *
41063250 TTGGGCCTGATGGAACATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
41063278 TTGGGCCT
1 TTGGGCCT
41063286 AAAGGGGCCA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 84 1.00
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:41063632 original size:27 final size:27
Alignment explanation
Indices: 41063601--41063833 Score: 229
Period size: 27 Copynumber: 8.6 Consensus size: 27
41063591 TAATGAAGAG
*
41063601 AAAATTATCGAAATACCCTTGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* * * *
41063628 GAAATTATCGGAACACCCTCGATTTGA
1 AAAATTATCGAAATACCCTCGATTTGT
* *
41063655 AAAATTA-CTGAAACACCCTCAATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
* * ** *
41063682 AAAATTTTTGAAGCACCCTCGATTTTT
1 AAAATTATCGAAATACCCTCGATTTGT
*
41063709 AAAATTATTGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* * *
41063736 AAAATTATCTAAATGCCCTGGATTTGT
1 AAAATTATCGAAATACCCTCGATTTGT
* *
41063763 AAAATTA-CTGAAACACCCCCGATTTGT
1 AAAATTATC-GAAATACCCTCGATTTGT
* *
41063790 AAAATTATCGAAATACCCTTG-TAGTGT
1 AAAATTATCGAAATACCCTCGAT-TTGT
*
41063817 AAAATTATTGAAATACC
1 AAAATTATCGAAATACC
41063834 ATTGTAGTGT
Statistics
Matches: 169, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.02
27 165 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGATTTGT
Found at i:41063838 original size:27 final size:27
Alignment explanation
Indices: 41063787--41063848 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
41063777 ACCCCCGATT
*
41063787 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCATTGTAG
*
41063814 TGTAAAATTATTGAAATACCATTGTAG
1 TGTAAAATTATCGAAATACCATTGTAG
41063841 TGTAAAAT
1 TGTAAAAT
41063849 GACCGACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCATTGTAG
Found at i:41063859 original size:27 final size:27
Alignment explanation
Indices: 41063787--41063878 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
41063777 ACCCCCGATT
*
41063787 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGATCGAAATACCCTTGTAG
* * *
41063814 TGTAAAATTATTGAAATACCATTGTAG
1 TGTAAAATGATCGAAATACCCTTGTAG
* * *
41063841 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATGATCGAAATACCCTTGTAG
41063868 -GTTAAAATGAT
1 TG-TAAAATGAT
41063879 TGTTTTGCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (27 bp):
TGTAAAATGATCGAAATACCCTTGTAG
Found at i:41066340 original size:23 final size:24
Alignment explanation
Indices: 41066260--41066400 Score: 216
Period size: 24 Copynumber: 6.0 Consensus size: 24
41066250 CCTCTTTTAG
*
41066260 TAACTGGGGCAAAAGCCCTTTTTG-
1 TAACTGGGGCATAAGCCC-TTTTGA
41066284 TAACTGGGGCATAAGCCCTTTTGA
1 TAACTGGGGCATAAGCCCTTTTGA
* *
41066308 TCACTAGGGCATAAGCCC-TTTGA
1 TAACTGGGGCATAAGCCCTTTTGA
41066331 TAACTGGGGCATAAGCCCTTTTGA
1 TAACTGGGGCATAAGCCCTTTTGA
*
41066355 TAACTGGGGCATAAGCCC-TTTAA
1 TAACTGGGGCATAAGCCCTTTTGA
41066378 TAACTGGGGCATAAGCCCTTTTG
1 TAACTGGGGCATAAGCCCTTTTG
41066401 CACTTCCTCC
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
23 48 0.45
24 59 0.55
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
TAACTGGGGCATAAGCCCTTTTGA
Found at i:41066349 original size:47 final size:47
Alignment explanation
Indices: 41066260--41066400 Score: 212
Period size: 47 Copynumber: 3.0 Consensus size: 47
41066250 CCTCTTTTAG
* *
41066260 TAACTGGGGCAAAAGCCCTTTTTG-TAACTGGGGCATAAGCCCTTTTGA
1 TAACTAGGGCATAAGCCC--TTTGATAACTGGGGCATAAGCCCTTTTGA
*
41066308 TCACTAGGGCATAAGCCCTTTGATAACTGGGGCATAAGCCCTTTTGA
1 TAACTAGGGCATAAGCCCTTTGATAACTGGGGCATAAGCCCTTTTGA
* *
41066355 TAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTG
1 TAACTAGGGCATAAGCCCTTTGATAACTGGGGCATAAGCCCTTTTG
41066401 CACTTCCTCC
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
46 4 0.05
47 67 0.78
48 15 0.17
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (47 bp):
TAACTAGGGCATAAGCCCTTTGATAACTGGGGCATAAGCCCTTTTGA
Found at i:41066474 original size:20 final size:20
Alignment explanation
Indices: 41066449--41066515 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
41066439 TTATGAATAC
41066449 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
41066469 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41066489 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41066509 ACCATGT
1 ATCATGT
41066516 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:41066480 original size:11 final size:11
Alignment explanation
Indices: 41066449--41066504 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
41066439 TTATGAATAC
41066449 ATCATGTGCAT
1 ATCATGTGCAT
*
41066460 ATCA--TACAT
1 ATCATGTGCAT
41066469 ATCATGTGCAT
1 ATCATGTGCAT
*
41066480 ATCA--TACAT
1 ATCATGTGCAT
*
41066489 GTCATGTGCAT
1 ATCATGTGCAT
41066500 ATCAT
1 ATCAT
41066505 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:41067718 original size:27 final size:28
Alignment explanation
Indices: 41067668--41067728 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 28
41067658 TATTCGTCAT
41067668 TTTACCATACAGGGGGCTTTACGGTCTC
1 TTTACCATACAGGGGGCTTTACGGTCTC
* *
41067696 TTTACCCTACA-GGGGCTTTACGGTCTT
1 TTTACCATACAGGGGGCTTTACGGTCTC
41067723 TTTACC
1 TTTACC
41067729 TTTTAGGGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.36
Consensus pattern (28 bp):
TTTACCATACAGGGGGCTTTACGGTCTC
Found at i:41067812 original size:27 final size:27
Alignment explanation
Indices: 41067759--41067970 Score: 149
Period size: 27 Copynumber: 7.8 Consensus size: 27
41067749 TTTCATCCTA
* * * *
41067759 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* **
41067786 CAAAGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
41067813 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-C
* ** *
41067842 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAC
* * *
41067869 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** ** *
41067896 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
*
41067923 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
41067950 TAGGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
41067971 GCAATCGAGG
Statistics
Matches: 148, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
26 1 0.01
27 117 0.79
28 15 0.10
29 15 0.10
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:41068003 original size:27 final size:27
Alignment explanation
Indices: 41067973--41068253 Score: 257
Period size: 27 Copynumber: 10.4 Consensus size: 27
41067963 GTAATTTTGC
* *
41067973 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTATGTA
* ** * **
41068000 AATCAAGGGTAAAATAGTAATTCTAAA
1 AATCGAGGGTAAAACGGTAATTATGTA
* *
41068027 AATCAAGGGTAAAACAGTAATTATGTA
1 AATCGAGGGTAAAACGGTAATTATGTA
* *
41068054 AAT-TAGGGGTAAAACGGTAATTCTGTA
1 AATCGA-GGGTAAAACGGTAATTATGTA
* * *
41068081 AGTCGAGGGTAAAATGATAATTATGTA
1 AATCGAGGGTAAAACGGTAATTATGTA
* *
41068108 AAT-TAGGGGTAAAACGATAATTATGTA
1 AATCGA-GGGTAAAACGGTAATTATGTA
* *
41068135 AAT-TAGGGGTAAAACGGTAATTCTGTA
1 AATCGA-GGGTAAAACGGTAATTATGTA
* * *
41068162 AGTCGAGGGTAAAATGATAATTATGTA
1 AATCGAGGGTAAAACGGTAATTATGTA
41068189 AATC-AGGGGTAAAACGGTAATTATGTA
1 AATCGA-GGGTAAAACGGTAATTATGTA
* *
41068216 AAT-TAGGGGTAAAACGGTAATTCTGTA
1 AATCGA-GGGTAAAACGGTAATTATGTA
*
41068243 AATCGGGGGTA
1 AATCGAGGGTA
41068254 CTTTGGTAAT
Statistics
Matches: 215, Mismatches: 32, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
26 3 0.01
27 210 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTATGTA
Found at i:41068253 original size:54 final size:54
Alignment explanation
Indices: 41067973--41068246 Score: 307
Period size: 54 Copynumber: 5.1 Consensus size: 54
41067963 GTAATTTTGC
* * * * * ** **
41067973 AATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTAAA
1 AATCAAGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
*
41068027 AATCAAGGGTAAAACAGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
1 AATCAAGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
* * * * * *
41068081 AGTCGAGGGTAAAATGATAATTATGTAAATTAGGGGTAAAACGATAATTATGTA
1 AATCAAGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
* * * * * * * *
41068135 AATTAGGGGTAAAACGGTAATTCTGT-AAGTCGAGGGTAAAATGATAATTATGTA
1 AATCAAGGGTAAAACGGTAATTATGTAAATTAG-GGGTAAAACGGTAATTCTGTA
*
41068189 AATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
1 AATCAAGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
41068243 AATC
1 AATC
41068247 GGGGGTACTT
Statistics
Matches: 186, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
53 4 0.02
54 178 0.96
55 4 0.02
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (54 bp):
AATCAAGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
Found at i:41068264 original size:81 final size:81
Alignment explanation
Indices: 41067979--41068253 Score: 426
Period size: 81 Copynumber: 3.4 Consensus size: 81
41067969 TTGCAATCGA
* * * ** * *
41067979 GGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAT-AGTAATTCTAAAAATCAAGGGTAAAACA
1 GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGA-TAATTATGTAAATCAGGGGTAAAACG
41068043 GTAATTATGTAAATTAG
65 GTAATTATGTAAATTAG
* * *
41068060 GGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATGATAATTATGTAAATTAGGGGTAAAACGA
1 GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTATGTAAATCAGGGGTAAAACGG
41068125 TAATTATGTAAATTAG
66 TAATTATGTAAATTAG
*
41068141 GGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATGATAATTATGTAAATCAGGGGTAAAACGG
1 GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTATGTAAATCAGGGGTAAAACGG
41068206 TAATTATGTAAATTAG
66 TAATTATGTAAATTAG
*
41068222 GGGTAAAACGGTAATTCTGTAAATCGGGGGTA
1 GGGTAAAACGGTAATTCTGTAAATCGAGGGTA
41068254 CTTTGGTAAT
Statistics
Matches: 179, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
81 178 0.99
82 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (81 bp):
GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTATGTAAATCAGGGGTAAAACGG
TAATTATGTAAATTAG
Found at i:41068280 original size:27 final size:27
Alignment explanation
Indices: 41068250--41068348 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
41068240 GTAAATCGGG
*
41068250 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAAATCGAA
* *
41068277 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAA
* * *
41068304 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCGGTAATTTTACAAATCGAA
41068330 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
41068349 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.92
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAA
Found at i:41068288 original size:54 final size:53
Alignment explanation
Indices: 41068242--41068346 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
41068232 GTAATTCTGT
* * *
41068242 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
41068296 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
41068347 TAGTAAACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 11 0.25
54 33 0.75
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:41068362 original size:27 final size:27
Alignment explanation
Indices: 41068259--41068363 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
41068249 GGGTACTTTG
* * *
41068259 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
41068286 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
41068313 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
41068340 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
41068364 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:41071410 original size:16 final size:16
Alignment explanation
Indices: 41071389--41071419 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41071379 AAAGTAGTGC
41071389 AAAAATTTCTCCTTAA
1 AAAAATTTCTCCTTAA
*
41071405 AAAAATTTTTCCTTA
1 AAAAATTTCTCCTTA
41071420 GTAACTATGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAAATTTCTCCTTAA
Found at i:41072610 original size:40 final size:40
Alignment explanation
Indices: 41072527--41072610 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
41072517 GTTAATTATC
** *
41072527 CCCTGTTTGTACTTCAGTACCATTGAATTGCACATTTGTG
1 CCCTGTTTGTACTTCAGTACCATTGAATTGCACATACGAG
41072567 CCCTGTTTGTACTTC-GATACCATTGAATTGCACATACGAG
1 CCCTGTTTGTACTTCAG-TACCATTGAATTGCACATACGAG
41072607 CCCT
1 CCCT
41072611 ATTTACACTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (40 bp):
CCCTGTTTGTACTTCAGTACCATTGAATTGCACATACGAG
Found at i:41072621 original size:40 final size:40
Alignment explanation
Indices: 41072544--41072622 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
41072534 TGTACTTCAG
** * * **
41072544 TACCATTGAATTGCACATTTGTGCCCTGTTTGTACTTCGA
1 TACCATTGAATTGCACATACGAGCCCTATTTACACTTCGA
41072584 TACCATTGAATTGCACATACGAGCCCTATTTACACTTCG
1 TACCATTGAATTGCACATACGAGCCCTATTTACACTTCG
41072623 GTAACTTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (40 bp):
TACCATTGAATTGCACATACGAGCCCTATTTACACTTCGA
Found at i:41081090 original size:27 final size:27
Alignment explanation
Indices: 41081059--41081208 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
41081049 TTAGTTTACC
* *
41081059 AAATTACTAAAATACCCTCAACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
41081086 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
41081113 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
41081140 AAATTAC-AGAAATACCCTC-AGTTTGCA
1 AAATTACTA-AAATACCCTCGA-TTTGTA
*
41081167 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
41081194 AAATTACTGAAATAC
1 AAATTACTAAAATAC
41081209 TCCTGTAAGA
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 101 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:41081207 original size:81 final size:82
Alignment explanation
Indices: 41081059--41081212 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 82
41081049 TTAGTTTACC
*
41081059 AAATTACTAAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACTAAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
41081124 ATA-TCCTCGATTTGTA
66 ATACTCCTCGATTTGTA
** * * * **
41081140 AAATTAC-AGAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACTG
1 AAATTACTA-AAATACCCTCAACTTGCAAAATTAC-CAAAGTACCCCCGATTTATAAAATTACCC
41081203 AAATACTCCT
64 AAATACTCCT
41081213 GTAAGATAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
80 1 0.02
81 54 0.87
82 7 0.11
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (82 bp):
AAATTACTAAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
ATACTCCTCGATTTGTA
Found at i:41081250 original size:27 final size:27
Alignment explanation
Indices: 41081220--41081373 Score: 220
Period size: 27 Copynumber: 5.7 Consensus size: 27
41081210 CCTGTAAGAT
*
41081220 AGAATTACCATTTTACCTTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
41081247 AGAAGTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
41081274 AGAATTACTATTTTACCCTCAATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
41081301 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
41081328 A-AATTACCGTCTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
41081354 AGAATTACCATTTTACCCTC
1 AGAATTACCATTTTACCCTC
41081374 AATGTAAAAA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 23 0.20
27 90 0.80
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:41081264 original size:81 final size:79
Alignment explanation
Indices: 41081179--41081377 Score: 195
Period size: 81 Copynumber: 2.5 Consensus size: 79
41081169 ATTACTGAAA
* * *
41081179 TACCCTCGATTTGTAAAATTACTGA-AATACTCCTGTAA-GATAGAATTACCATTTTACCTTCGA
1 TACCCTCGATTTATAAAATTACT-ATAATAC-CCT-CAATGATAGAATTACCATTTTACCCTCGA
*
41081242 TTTACAGAAGTACCATTT
63 TTTACA-AAGTACCATCT
* ** * *
41081260 TACCCTCGATTTATAGAATTACTATTTTACCCTCAATTTATAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACTATAATACCCTCAA-TGATAGAATTACCATTTTACCCTCGATT
* *
41081325 TACAAATTACCGTCT
65 TACAAAGTACCATCT
* * * **
41081340 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
1 TACCCTCGATTTATAAAATTACTATAATACCCTCAATG
41081378 TAAAAAATTA
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
79 3 0.03
80 46 0.46
81 52 0.51
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.38
Consensus pattern (79 bp):
TACCCTCGATTTATAAAATTACTATAATACCCTCAATGATAGAATTACCATTTTACCCTCGATTT
ACAAAGTACCATCT
Found at i:41081368 original size:80 final size:81
Alignment explanation
Indices: 41081218--41081376 Score: 248
Period size: 80 Copynumber: 2.0 Consensus size: 81
41081208 CTCCTGTAAG
* * * *
41081218 ATAGAATTACCATTTTACCTTCGATTTACAGAAGTACCATTTTACCCTCGATTTATAGAATTACT
1 ATAGAATTACCATTTTACCCTCGATTTACAGAAGTACCATCTTACCCTCGATTTACAGAATTACC
41081283 ATTTTACCCTCAATTT
66 ATTTTACCCTCAATTT
* * *
41081299 ATAGAATTACTATTTTACCCTCGATTTACA-AATTACCGTCTTACCCTCGATTTACAGAATTACC
1 ATAGAATTACCATTTTACCCTCGATTTACAGAAGTACCATCTTACCCTCGATTTACAGAATTACC
41081363 ATTTTACCCTCAAT
66 ATTTTACCCTCAAT
41081377 GTAAAAAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 43 0.61
81 28 0.39
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
ATAGAATTACCATTTTACCCTCGATTTACAGAAGTACCATCTTACCCTCGATTTACAGAATTACC
ATTTTACCCTCAATTT
Found at i:41081398 original size:80 final size:80
Alignment explanation
Indices: 41081233--41081417 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
41081223 ATTACCATTT
* * * * * *
41081233 TACCTTCGATTTACAGAAGTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCAATT
1 TACCCTCGATTTACA-AATTACCATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATG
* * **
41081298 TATAGAATTACTATTT
65 TAAAAAATTACTATAA
*
41081314 TACCCTCGATTTACAAATTACCGTCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGT
1 TACCCTCGATTTACAAATTACCATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGT
41081379 AAAAAATTACTGA-AA
66 AAAAAATTACT-ATAA
* *
41081394 TACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTAC-AAATTACCA
41081418 AAATACCCTC
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 65 0.74
81 23 0.26
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.37
Consensus pattern (80 bp):
TACCCTCGATTTACAAATTACCATCTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGT
AAAAAATTACTATAA
Found at i:41081408 original size:54 final size:53
Alignment explanation
Indices: 41081232--41081442 Score: 181
Period size: 54 Copynumber: 3.9 Consensus size: 53
41081222 AATTACCATT
* * * * *
41081232 TTACCTTCGATTTACAGAAGTACCATTTTACCCTCGATTTATAGAATTACT-ATT
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGA-TTAAAAAATTACTGA-A
* * * * * * **
41081286 TTACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACAAATTACCGTC
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTAAAAAATTACTGAA
*
41081339 TTACCCTCGATTTACAGAATTACCATTTTACCCTCAATGTAAAAAATTACTGAA
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGAT-TAAAAAATTACTGAA
* * * * *** *
41081393 ATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAATAAAATTAC
1 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTAA-AAAATTAC
41081443 CAAAATACCA
Statistics
Matches: 124, Mismatches: 30, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
53 44 0.35
54 80 0.65
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.36
Consensus pattern (53 bp):
TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTAAAAAATTACTGAA
Found at i:41081411 original size:27 final size:27
Alignment explanation
Indices: 41081381--41081509 Score: 141
Period size: 27 Copynumber: 4.8 Consensus size: 27
41081371 CTCAATGTAA
** *
41081381 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTAT
* * **
41081408 AAAATTACCAAAATACCCTCGATCAAT
1 AAAATTACCAAAATACCCTTGGTTTAT
* *
41081435 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTAT
* *
41081462 AAAATTACCAAAATACCCTTGCTTTGT
1 AAAATTACCAAAATACCCTTGGTTTAT
* *
41081489 GAAATTACCGAAATACCCTTG
1 AAAATTACCAAAATACCCTTG
41081510 TAGGGTAGAA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTAT
Done.