Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 142 of 297
Found at i:48904801 original size:19 final size:19
Alignment explanation
Indices: 48904701--48904789 Score: 76
Period size: 20 Copynumber: 4.7 Consensus size: 19
48904691 AATTTCTAAT
*
48904701 AAAAA-TATAAAAAT-ATT
1 AAAAATTATAAAAATCATA
* *
48904718 AAAAATTAGAAAAA-AATTA
1 AAAAATTATAAAAATCA-TA
** *
48904737 TAAAAATCGTAAAAAGCTATA
1 -AAAAATTATAAAAATC-ATA
48904758 AAAAATTATAAAAATCATA
1 AAAAATTATAAAAATCATA
48904777 AAAAATTATAAAA
1 AAAAATTATAAAA
48904790 TGCATCAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
17 5 0.09
18 8 0.14
19 17 0.30
20 24 0.42
21 2 0.04
22 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
AAAAATTATAAAAATCATA
Found at i:48907852 original size:40 final size:40
Alignment explanation
Indices: 48907795--48908012 Score: 336
Period size: 40 Copynumber: 5.5 Consensus size: 40
48907785 CGGATGATAA
* *
48907795 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
48907835 CCGGGCTAAG-CCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCC-CGAAGGCATTTGTGCGAGTTACTATAT
48907875 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48907915 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48907955 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
48907995 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48908013 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
39 19 0.11
40 146 0.87
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48923600 original size:26 final size:26
Alignment explanation
Indices: 48923571--48923654 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
48923561 TGATACAAAT
*
48923571 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
48923597 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
48923623 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
48923649 TGATAA
1 TGATAA
48923655 GAATTTCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:48929977 original size:26 final size:26
Alignment explanation
Indices: 48929948--48930055 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
48929938 TGGTACAAAT
48929948 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
48929974 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48930000 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
48930026 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48930052 TGAT
1 TGAT
48930056 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:48937234 original size:650 final size:650
Alignment explanation
Indices: 48935993--48937293 Score: 2548
Period size: 650 Copynumber: 2.0 Consensus size: 650
48935983 CTTATCCAAC
48935993 GCTCCAATACTAATGCCACCGAACCCCGATAAGCCGTTGATACTGTATTTGGTAGTATTCGAGAA
1 GCTCCAATACTAATGCCACCGAACCCCGATAAGCCGTTGATACTGTATTTGGTAGTATTCGAGAA
48936058 CTCCATGGGTTGCGTATTGGGTCAGCATGATGAGTCAAGAAGGAAAGAAAAAGCTATTTACTATC
66 CTCCATGGGTTGCGTATTGGGTCAGCATGATGAGTCAAGAAGGAAAGAAAAAGCTATTTACTATC
48936123 TCAGTAAAAAGTTCACGGAATGTGAGACAAGGTACCTGCCGATAGAGAAGTTGTGTTGTGCCCTA
131 TCAGTAAAAAGTTCACGGAATGTGAGACAAGGTACCTGCCGATAGAGAAGTTGTGTTGTGCCCTA
48936188 ATTTGGACAACCCGAAGGCTGAGGCAGTATATGTTGTATCACACCACTTGGCTCATATCAAAATT
196 ATTTGGACAACCCGAAGGCTGAGGCAGTATATGTTGTATCACACCACTTGGCTCATATCAAAATT
48936253 GGACCCTTTAAAGTACATGATGGAGTCAACAGCCTTGAATGGAAGGATGGCCCGATGGCAGATTC
261 GGACCCTTTAAAGTACATGATGGAGTCAACAGCCTTGAATGGAAGGATGGCCCGATGGCAGATTC
48936318 TACTTTCTGAATTCGACATAGTCTATGTGAACCAGAAAGCAGTAAAAGGAAGTACAATAGCAAAT
326 TACTTTCTGAATTCGACATAGTCTATGTGAACCAGAAAGCAGTAAAAGGAAGTACAATAGCAAAT
* *
48936383 TTTCTAGCTAGTAGAGCTTTGGAAGACTACGAGCCTCTGAACTTTGACTTTCCGAATGAAGACTT
391 TTTCTAGCTAGTAGAGCTTTGGAAGACTACGAGCCTCTGAACTTCGACTTTCCGAATGAAGACCT
* *
48936448 GATGTGTATTGCGACCATTGAAGAAGGAGCTTTGGAAGAACTTCCTTGGAAACTAAACTTCGATG
456 GATGTGTATTGCGACCATTGAAGAAGGAGCTTTAGAAGAACTTCCCTGGAAACTAAACTTCGATG
* *
48936513 GGGCATCAAATGCCGTGGGTAATGGAATCGGGGCAGTCTTGGTATCCCCTAACGGAGATCATTAT
521 GGGCAACAAATGCCATGGGTAATGGAATCGGGGCAGTCTTGGTATCCCCTAACGGAGATCATTAT
48936578 CCATTCACTAGTAAATTGGATTTTGATTGTATGAATAACATGGCAGAATACGAAGCATGCATCCT
586 CCATTCACTAGTAAATTGGATTTTGATTGTATGAATAACATGGCAGAATACGAAGCATGCATCCT
48936643 GCTCCAATACTAATGCCACCGAACCCCGATAAGCCGTTGATACTGTATTTGGTAGTATTCGAGAA
1 GCTCCAATACTAATGCCACCGAACCCCGATAAGCCGTTGATACTGTATTTGGTAGTATTCGAGAA
48936708 CTCCATGGGTTGCGTATTGGGTCAGCATGATGAGTCAAGAAGGAAAGAAAAAGCTATTTACTATC
66 CTCCATGGGTTGCGTATTGGGTCAGCATGATGAGTCAAGAAGGAAAGAAAAAGCTATTTACTATC
48936773 TCAGTAAAAAGTTCACGGAATGTGAGACAAGGTACCTGCCGATAGAGAAGTTGTGTTGTGCCCTA
131 TCAGTAAAAAGTTCACGGAATGTGAGACAAGGTACCTGCCGATAGAGAAGTTGTGTTGTGCCCTA
48936838 ATTTGGACAACCCGAAGGCTGAGGCAGTATATGTTGTATCACACCACTTGGCTCATATCAAAATT
196 ATTTGGACAACCCGAAGGCTGAGGCAGTATATGTTGTATCACACCACTTGGCTCATATCAAAATT
48936903 GGACCCTTTAAAGTACATGATGGAGTCAACAGCCTTGAATGGAAGGATGGCCCGATGGCAGATTC
261 GGACCCTTTAAAGTACATGATGGAGTCAACAGCCTTGAATGGAAGGATGGCCCGATGGCAGATTC
48936968 TACTTTCTGAATTCGACATAGTCTATGTGAACCAGAAAGCAGTAAAAGGAAGTACAATAGCAAAT
326 TACTTTCTGAATTCGACATAGTCTATGTGAACCAGAAAGCAGTAAAAGGAAGTACAATAGCAAAT
48937033 TTTCTAGCTAGTAGAGCTTTGGAAGACTACGAGCCTCTGAACTTCGACTTTCCGAATGAAGACCT
391 TTTCTAGCTAGTAGAGCTTTGGAAGACTACGAGCCTCTGAACTTCGACTTTCCGAATGAAGACCT
48937098 GATGTGTATTGCGACCATTGAAGAAGGAGCTTTAGAAGAACTTCCCTGGAAACTAAACTTCGATG
456 GATGTGTATTGCGACCATTGAAGAAGGAGCTTTAGAAGAACTTCCCTGGAAACTAAACTTCGATG
48937163 GGGCAACAAATGCCATGGGTAATGGAATCGGGGCAGTCTTGGTATCCCCTAACGGAGATCATTAT
521 GGGCAACAAATGCCATGGGTAATGGAATCGGGGCAGTCTTGGTATCCCCTAACGGAGATCATTAT
48937228 CCATTCACTAGTAAATTGGATTTTGATTGTATGAATAACATGGCAGAATACGAAGCATGCATCCT
586 CCATTCACTAGTAAATTGGATTTTGATTGTATGAATAACATGGCAGAATACGAAGCATGCATCCT
48937293 G
1 G
48937294 GGTATCTGCG
Statistics
Matches: 645, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
650 645 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (650 bp):
GCTCCAATACTAATGCCACCGAACCCCGATAAGCCGTTGATACTGTATTTGGTAGTATTCGAGAA
CTCCATGGGTTGCGTATTGGGTCAGCATGATGAGTCAAGAAGGAAAGAAAAAGCTATTTACTATC
TCAGTAAAAAGTTCACGGAATGTGAGACAAGGTACCTGCCGATAGAGAAGTTGTGTTGTGCCCTA
ATTTGGACAACCCGAAGGCTGAGGCAGTATATGTTGTATCACACCACTTGGCTCATATCAAAATT
GGACCCTTTAAAGTACATGATGGAGTCAACAGCCTTGAATGGAAGGATGGCCCGATGGCAGATTC
TACTTTCTGAATTCGACATAGTCTATGTGAACCAGAAAGCAGTAAAAGGAAGTACAATAGCAAAT
TTTCTAGCTAGTAGAGCTTTGGAAGACTACGAGCCTCTGAACTTCGACTTTCCGAATGAAGACCT
GATGTGTATTGCGACCATTGAAGAAGGAGCTTTAGAAGAACTTCCCTGGAAACTAAACTTCGATG
GGGCAACAAATGCCATGGGTAATGGAATCGGGGCAGTCTTGGTATCCCCTAACGGAGATCATTAT
CCATTCACTAGTAAATTGGATTTTGATTGTATGAATAACATGGCAGAATACGAAGCATGCATCCT
Found at i:48939905 original size:44 final size:44
Alignment explanation
Indices: 48939830--48940320 Score: 725
Period size: 44 Copynumber: 11.2 Consensus size: 44
48939820 TGGCGAATCC
*
48939830 AGCAAATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
* * *
48939874 AGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
48939918 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
48939962 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
* * * * * *
48940006 AACAGATTTGGCATCTCTATGTTGACAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
**
48940050 AGCAGATTTGGTGTCTCTGTATTGGCGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
* * *
48940094 AGCAGATTTGGCACCTCTGTAATGGCGGAGAGCAGATCAAAGGT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
* * * * * *
48940138 AGCAGATTTGGCATATCTATGTTGACAGAGAGTAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
*
48940182 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
*
48940226 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
* *
48940270 AGCAGATTTGACATCTCTG-A-TGGACGGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGG-CGGAGAGCAGATCAAAGAT
*
48940313 AACAGATT
1 AGCAGATT
48940321 GGTGTTCCCG
Statistics
Matches: 402, Mismatches: 44, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
42 3 0.01
43 25 0.06
44 374 0.93
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (44 bp):
AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
Found at i:48940072 original size:132 final size:132
Alignment explanation
Indices: 48939830--48940320 Score: 806
Period size: 132 Copynumber: 3.7 Consensus size: 132
48939820 TGGCGAATCC
* * *
48939830 AGCAAATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTA
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTATG
48939895 TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAG
66 TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAG
48939960 AT
131 AT
*
48939962 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTATG
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTATG
**
48940027 TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTCTGTATTGGCGGAGAGCAGATCAAAG
66 TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAG
48940092 AT
131 AT
* * * *
48940094 AGCAGATTTGGCACCTCTGTAATGGCGGAGAGCAGATCAAAGGTAGCAGATTTGGCATATCTATG
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTATG
* * *
48940159 TTGACAGAGAGTAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAG
66 TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAG
48940224 AT
131 AT
* *
48940226 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAGCAGATTTGACATCTCTGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCT-AT
* *
48940291 G--GACGGAGAGCAGATCGAAGATAACAGATT
65 GTTGACAGAGAGCAGATCGAAGATAGCAGATT
48940321 GGTGTTCCCG
Statistics
Matches: 332, Mismatches: 26, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
131 25 0.08
132 304 0.92
133 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (132 bp):
AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTATG
TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAG
AT
Found at i:48948781 original size:22 final size:22
Alignment explanation
Indices: 48948756--48948800 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
48948746 AAGGCAAGTA
*
48948756 GGAGAAATATTTGCTGCTGGTT
1 GGAGAAATATTTGCCGCTGGTT
48948778 GGAGAAATATTTGCCGCTGGTT
1 GGAGAAATATTTGCCGCTGGTT
48948800 G
1 G
48948801 AATCCGCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.11, G:0.33, T:0.33
Consensus pattern (22 bp):
GGAGAAATATTTGCCGCTGGTT
Found at i:48953943 original size:30 final size:30
Alignment explanation
Indices: 48953907--48953966 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
48953897 GGCAGTGGAG
48953907 TCTCTCGGTGACCACTAGACTATGAACTGA
1 TCTCTCGGTGACCACTAGACTATGAACTGA
48953937 TCTCTCGGTGACCACTAGACTATGAACTGA
1 TCTCTCGGTGACCACTAGACTATGAACTGA
48953967 CTTTAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (30 bp):
TCTCTCGGTGACCACTAGACTATGAACTGA
Found at i:48954392 original size:10 final size:10
Alignment explanation
Indices: 48954379--48954408 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
48954369 AATTTCAATC
48954379 AATTTACCTT
1 AATTTACCTT
*
48954389 AATTTACCTC
1 AATTTACCTT
48954399 AATTTACCTT
1 AATTTACCTT
48954409 TTCTTCTCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTTACCTT
Found at i:48956014 original size:22 final size:21
Alignment explanation
Indices: 48955984--48956049 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
48955974 TACAAATTAA
48955984 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
48956006 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
48956027 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
48956046 ATCT
1 ATCT
48956050 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:48956036 original size:19 final size:19
Alignment explanation
Indices: 48956001--48956098 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
48955991 AGATTACAAG
48956001 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
48956022 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
48956041 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
48956058 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
48956077 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
48956096 ATC
1 ATC
48956099 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:48956065 original size:36 final size:37
Alignment explanation
Indices: 48956001--48956098 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
48955991 AGATTACAAG
48956001 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
*
48956041 ATCATATCTAAGATTG-TATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
48956077 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
48956099 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:48956492 original size:45 final size:45
Alignment explanation
Indices: 48956436--48956527 Score: 116
Period size: 44 Copynumber: 2.0 Consensus size: 45
48956426 CGATATCTGC
* *
48956436 TATCTTTGATCTGCTCTTC-GTCTAATACAGAGACGCCAAATC-TCT
1 TATCTTCGATCTG-TCTTCTGAC-AATACAGAGACGCCAAATCATCT
* *
48956481 TATCTTCGATCTGTTTTCTGACAATACAGAGATGCCAAATCATCT
1 TATCTTCGATCTGTCTTCTGACAATACAGAGACGCCAAATCATCT
48956526 TA
1 TA
48956528 GATCTGCTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 22 0.54
45 19 0.46
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (45 bp):
TATCTTCGATCTGTCTTCTGACAATACAGAGACGCCAAATCATCT
Found at i:48956956 original size:84 final size:84
Alignment explanation
Indices: 48956791--48957403 Score: 801
Period size: 84 Copynumber: 7.3 Consensus size: 84
48956781 ATCATCTTGG
* * * * *
48956791 ACCCTACTGCTTAAGGGG-TTAAGGTGCATTGTCTTTGATCTGTTCCGCTACTGGTTA-GG-GAT
1 ACCCTACTGCTT-AGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
*
48956853 AAGATCTGTAAATTTAACCTGTT
62 AAGATCTGCAAATTTAACCTGTT
* * *
48956876 ACCCTACTGCTTAGGGGATTAAGGTGGGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
48956941 TCTACAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* * * * **
48956960 ACCCTACTACTTAGGGGATTAAGGTGAGTCGTCGTTGATCTGCTTCGTTACTGCTTAGGGAGATA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGATA
*
48957025 AGATCTGC-----GAACCTGTT
63 AGATCTGCAAATTTAACCTGTT
* *
48957042 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGG
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
48957107 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
** * *
48957126 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTATTCCACTACTGTTTAGAGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* *
48957191 TTTGCAAATTTAACCTATT
66 TCTGCAAATTTAACCTGTT
*
48957210 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
** *
48957275 AATGCAAATTTAACCTATT
66 TCTGCAAATTTAACCTGTT
* * *
48957294 ACCCTAGTGCTTAGGGGATTGAGGCGAGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
48957359 TCTGCAAATTTAACCAGTT
66 TCTGCAAATTTAACCTGTT
*
48957378 ACCCTACTGCTGAGGGGATTAAGGCG
1 ACCCTACTGCTTAGGGGATTAAGGCG
48957404 CTGAATTTTG
Statistics
Matches: 467, Mismatches: 50, Indels: 23
0.86 0.09 0.04
Matches are distributed among these distances:
79 33 0.07
81 1 0.00
82 58 0.12
83 2 0.00
84 319 0.68
85 21 0.04
87 33 0.07
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (84 bp):
ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTGCAAATTTAACCTGTT
Found at i:48957106 original size:41 final size:41
Alignment explanation
Indices: 48957045--48957270 Score: 144
Period size: 41 Copynumber: 5.4 Consensus size: 41
48957035 ACCTGTTACC
* **
48957045 CTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGAGATTAAGGCGAGTCTTCGATCTATTCCA
* * * *
48957086 CTACTGCTTAGGAAGA-TAAGGTCTGCAAAT-TT-AACCTGTTACC-
1 CTACTGCTTAGG-AGATTAAGG-C-G--AGTCTTCGATCTATT-CCA
*
48957129 CTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTATTCCA
1 CTACTGCTTAGGAGATTAAGGCGAGTCTTCGATCTATTCCA
* * * * *
48957170 CTACTGTTTAGAGAGA-TAAGATTTGCAAAT-TT-AACCTATTACC-
1 CTACTGCTTAG-GAGATTAAG----GCGAGTCTTCGATCTATT-CCA
* *
48957213 CTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTACTCCA
1 CTACTGCTTAGGAGATTAAGGCGAGTCTTCGATCTATTCCA
48957254 CTACTGCTTAGGGAGAT
1 CTACTGCTTA-GGAGAT
48957271 AAGAAATGCA
Statistics
Matches: 140, Mismatches: 24, Indels: 41
0.68 0.12 0.20
Matches are distributed among these distances:
39 6 0.04
40 8 0.06
41 52 0.37
42 17 0.12
43 43 0.31
44 8 0.06
45 6 0.04
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (41 bp):
CTACTGCTTAGGAGATTAAGGCGAGTCTTCGATCTATTCCA
Found at i:48957350 original size:41 final size:41
Alignment explanation
Indices: 48957213--48957350 Score: 111
Period size: 41 Copynumber: 3.3 Consensus size: 41
48957203 ACCTATTACC
* *
48957213 CTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTACTCCA
1 CTACTGCTTAGGGGATTGAGGCGAGTCTTTGATCTACTCCA
* * ** * * *
48957254 CTACTGCTTAGGGAGATAAGAAATGC-A-AATTTAACCTATTACC-
1 CTACTGCTTAGGG-GAT-TG--AGGCGAGTCTTTGATCTACT-CCA
* *
48957297 CTAGTGCTTAGGGGATTGAGGCGAGTCTTTGATCTGCTCCA
1 CTACTGCTTAGGGGATTGAGGCGAGTCTTTGATCTACTCCA
48957338 CTACTGCTTAGGG
1 CTACTGCTTAGGG
48957351 AGATAAGATC
Statistics
Matches: 70, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
39 3 0.04
40 3 0.04
41 33 0.47
42 6 0.09
43 19 0.27
44 3 0.04
45 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (41 bp):
CTACTGCTTAGGGGATTGAGGCGAGTCTTTGATCTACTCCA
Found at i:48958364 original size:7 final size:7
Alignment explanation
Indices: 48958352--48958422 Score: 58
Period size: 7 Copynumber: 9.9 Consensus size: 7
48958342 TCTCTCCATT
48958352 TTTTTTC
1 TTTTTTC
48958359 TTTTTTC
1 TTTTTTC
48958366 TTTTTTC
1 TTTTTTC
48958373 TCTTTTT-
1 T-TTTTTC
*
48958380 TATTTTTAT
1 T-TTTTT-C
48958389 TTTTTTCC
1 TTTTTT-C
*
48958397 CTTTTTC
1 TTTTTTC
48958404 --TTTTC
1 TTTTTTC
48958409 TTTTTTCC
1 TTTTTT-C
48958417 TTTTTT
1 TTTTTT
48958423 TTGAAATAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
5 5 0.09
7 26 0.48
8 22 0.41
9 1 0.02
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:48958364 original size:8 final size:8
Alignment explanation
Indices: 48958351--48958423 Score: 50
Period size: 8 Copynumber: 9.9 Consensus size: 8
48958341 GTCTCTCCAT
48958351 TTTTTTTC
1 TTTTTTTC
48958359 -TTTTTTC
1 TTTTTTTC
48958366 -TTTTTTC
1 TTTTTTTC
*
48958373 TCTTTTT-
1 TTTTTTTC
* *
48958380 TATTTTTA
1 TTTTTTTC
48958388 TTTTTTTC
1 TTTTTTTC
**
48958396 CCTTTTTC
1 TTTTTTTC
48958404 ---TTTTC
1 TTTTTTTC
*
48958409 TTTTTTCC
1 TTTTTTTC
48958417 TTTTTTT
1 TTTTTTT
48958424 TGAAATAGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
5 5 0.10
7 20 0.38
8 27 0.52
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTTC
Found at i:48962394 original size:14 final size:14
Alignment explanation
Indices: 48962375--48962401 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48962365 CGATTCAATC
48962375 TTATTTAGAAAAAT
1 TTATTTAGAAAAAT
48962389 TTATTTAGAAAAA
1 TTATTTAGAAAAA
48962402 GAATATCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
TTATTTAGAAAAAT
Found at i:48964567 original size:40 final size:40
Alignment explanation
Indices: 48964510--48964650 Score: 196
Period size: 40 Copynumber: 3.5 Consensus size: 40
48964500 TCGAATGATG
48964510 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACCATA
* * *
48964550 TCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACTATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACCATA
*
48964590 TCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCATA
* *
48964630 TCCGGGTTAAGACCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
48964651 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 79 0.89
41 9 0.10
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCATA
Found at i:48966335 original size:21 final size:21
Alignment explanation
Indices: 48966311--48966353 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
48966301 CGAGTTCAGT
48966311 TCAGGGGAATACATTTCCCTA
1 TCAGGGGAATACATTTCCCTA
48966332 TCAGGGGAATACATTTCCCTA
1 TCAGGGGAATACATTTCCCTA
48966353 T
1 T
48966354 GGCTACACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (21 bp):
TCAGGGGAATACATTTCCCTA
Found at i:48971831 original size:30 final size:30
Alignment explanation
Indices: 48971797--48971857 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48971787 TCCTTAACTC
48971797 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
48971827 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
48971857 A
1 A
48971858 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:48980530 original size:79 final size:79
Alignment explanation
Indices: 48980399--48980555 Score: 269
Period size: 79 Copynumber: 2.0 Consensus size: 79
48980389 CACCGGCACA
* *
48980399 GATTCGGGTTTCTTTCCTAACTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGTACCCTTT
1 GATTCGGGTTTCTTTCCTAACTCCTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTT
*
48980464 TCTTACATATTTCC
66 CCTTACATATTTCC
* *
48980478 GATTCGGGTTTCTTTTCTAACTCCTTGTCATCAAGTACATACGCGAGGTATGCTTCGCACCCTTT
1 GATTCGGGTTTCTTTCCTAACTCCTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTT
48980543 CCTTACATATTTC
66 CCTTACATATTTC
48980556 TGGGCCAACA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (79 bp):
GATTCGGGTTTCTTTCCTAACTCCTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTT
CCTTACATATTTCC
Found at i:48980736 original size:143 final size:143
Alignment explanation
Indices: 48980478--48980762 Score: 480
Period size: 143 Copynumber: 2.0 Consensus size: 143
48980468 ACATATTTCC
* *
48980478 GATTCGGGTTTCTTTTCTAACTCCTTGTCATCAAGTACATACGCGAGGTATGCTTCGCACCCTTT
1 GATTCGGGTTTCTTTCCTAACTCCTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTT
*
48980543 CCTTACATATTTCTGGGCCAACATTGCTGATATTACAGCTGGCAACCCCCTTAAGTCCGCAGACT
66 CCTTACATATTTCTGGGCCAACATTGCCGATATTACAGCTGGCAACCCCCTTAAGTCCGCAGACT
*
48980608 CAACTCGGATTAA
131 CAACTCGAATTAA
* *
48980621 GATTCGGGTTTCTTTCCTAACTCTTTGTCATCAAGTACATACGCAAGGTATGCTTCGTACCCTTT
1 GATTCGGGTTTCTTTCCTAACTCCTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTT
* * *
48980686 TCTTACATATTTCTGGGCCAACATTGCCGATATTACAGCTGGCAATCCCCTTAAGTCCGTAGACT
66 CCTTACATATTTCTGGGCCAACATTGCCGATATTACAGCTGGCAACCCCCTTAAGTCCGCAGACT
*
48980751 CAATTCGAATTA
131 CAACTCGAATTA
48980763 TCTCGTTATT
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
143 132 1.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.33
Consensus pattern (143 bp):
GATTCGGGTTTCTTTCCTAACTCCTTGTCATCAAGTACATACGCAAGGTATGCTTCGCACCCTTT
CCTTACATATTTCTGGGCCAACATTGCCGATATTACAGCTGGCAACCCCCTTAAGTCCGCAGACT
CAACTCGAATTAA
Found at i:48984014 original size:39 final size:40
Alignment explanation
Indices: 48983969--48984153 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
48983959 GCTCCTCGTT
* * *
48983969 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
48984009 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
48984048 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
48984088 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
48984129 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
48984154 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:48984069 original size:40 final size:39
Alignment explanation
Indices: 48983936--48984153 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
48983926 AAATCACGTA
* * **
48983936 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
48983975 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
48984014 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
48984054 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
48984094 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
48984134 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
48984154 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:48989668 original size:208 final size:207
Alignment explanation
Indices: 48989299--48989690 Score: 631
Period size: 208 Copynumber: 1.9 Consensus size: 207
48989289 GCAACAGGCT
* **
48989299 AAAGCATAGCAGATTTGACCTTCAGGTGTTTACGCTGAAGTGGATCCAAGATGATTTAACATCTC
1 AAAGCATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTC
* * *
48989364 TGTATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGGAGATC
66 TGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATC
48989429 GAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCCTTGCGTTGAC
131 GAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCCTTGCGTTGAC
48989494 AAGGAGCAGATC
196 AAGGAGCAGATC
* * * *
48989506 AAAGACATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAGCATCT
1 AAAG-CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCT
*
48989571 CTGTACTGTCTGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
65 CTGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
* * * * *
48989636 CGAAGACATAGCAGGTCTGACCTTCTTTGAAGCAGATCCAAGGTGATTTGGCATC
130 CGAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATC
48989691 TCTGTATTAG
Statistics
Matches: 168, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
207 4 0.02
208 164 0.98
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (207 bp):
AAAGCATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTC
TGTACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATC
GAAGACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCCTTGCGTTGAC
AAGGAGCAGATC
Found at i:48989896 original size:78 final size:78
Alignment explanation
Indices: 48989602--48989896 Score: 405
Period size: 78 Copynumber: 3.8 Consensus size: 78
48989592 CGAAGAAACA
** * * * * *
48989602 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGGTCTGACCTTCTTTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAACAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
48989667 GCAGATCCAAGGT
66 GCAGATCCAAGAT
* * *
48989680 GATTTGGCATCTCTGTATTAGAC-GGGAAGCAGATTGAAGACACAGCAGATCTGACCTTTATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAA-CAGATCGAAGACATAGCAGATCTGACCTTCATTGA
48989744 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * * *
48989758 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGAT-TGGACTTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAACAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
48989822 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
*
48989836 GATTTGGCATCTCTGTATTAGACGGGGAACAGATCAAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAACAGATCGAAGACATAGCAGATCTGACCTTCAT
48989897 GTGTTTACAT
Statistics
Matches: 190, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
77 4 0.02
78 181 0.95
79 5 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAACAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:48989974 original size:45 final size:45
Alignment explanation
Indices: 48989910--48990109 Score: 267
Period size: 45 Copynumber: 4.5 Consensus size: 45
48989900 TTTACATCGA
** *
48989910 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
48989955 AGCAAATTGAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
1 AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
48990000 AGCAGATTAAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
48990044 AGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
** *
48990089 AGCAGATCAAAGATAGCAGAT
1 AGCAGATTGAAGATAACAGAT
48990110 GTCGCCTTCC
Statistics
Matches: 137, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 39 0.28
45 98 0.72
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (45 bp):
AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:48990043 original size:89 final size:90
Alignment explanation
Indices: 48989910--48990109 Score: 305
Period size: 89 Copynumber: 2.2 Consensus size: 90
48989900 TTTACATCGA
* * *
48989910 AGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGAAGATAACAG
1 AGCAGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAA
48989974 ATTTGGCATCTCTGTATTAGACAGGG
65 ATTTGGCATCTCTGTATTAGACAGGG
* * *
48990000 AGCAGATTAAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAAA
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAAA
* *
48990064 TTTGGCGTCTCTGTATTAGACGGGG
66 TTTGGCATCTCTGTATTAGACAGGG
48990089 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
48990110 GTCGCCTTCC
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 80 0.81
90 19 0.19
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAAA
TTTGGCATCTCTGTATTAGACAGGG
Found at i:48990452 original size:19 final size:19
Alignment explanation
Indices: 48990428--48990518 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
48990418 ATAATCTTCA
48990428 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
48990447 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
48990466 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
48990483 ATGAT-TGCGATCTTAGAT
1 ATGATATGCAATCTTAGAT
48990501 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
48990519 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.22
19 36 0.54
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:48990503 original size:35 final size:37
Alignment explanation
Indices: 48990428--48990518 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
48990418 ATAATCTTCA
48990428 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
*
48990466 ATGATA-CAATCTTAGATATGAT-TGCGATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
48990501 ATGATATGCAATCTTAGA
1 ATGATA-GCAATCTTAGA
48990519 GATTTAATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 18 0.36
36 16 0.32
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:48997122 original size:43 final size:43
Alignment explanation
Indices: 48996985--48997178 Score: 202
Period size: 43 Copynumber: 4.6 Consensus size: 43
48996975 TAAGCTCGTA
* * * * *
48996985 CAATGCC-ATATCCCTGATATGGTCTTACATGCT-ATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACG-TAATCTCATAT
** * *
48997027 TGATGCCACTGTCCCAGACAGGGTCTTACACG-AA--TCATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATAT
*
48997067 -ACATGCCAATGTCCCAAACATGGTCTTACACGTAATCTCATAT
1 CA-ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATAT
** * *
48997110 CAATGCCAATGTCTTAGACATGGTCTTACACATAATCTCATAG
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATAT
48997153 CAATGCCAATGTCCCAGACATGGTCT
1 CAATGCCAATGTCCCAGACATGGTCT
48997179 CATAGGAAAT
Statistics
Matches: 125, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
40 32 0.26
41 2 0.02
42 6 0.05
43 84 0.67
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATAT
Found at i:49005289 original size:28 final size:28
Alignment explanation
Indices: 49005222--49005282 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
49005212 ATATTTTCCT
*
49005222 TCGCACACTTAGTGCTCGATAATCAAAC
1 TCGCACACTTAGTGCTCGATAACCAAAC
*
49005250 TCGTACACTTAGTGCTC-ATTAACCAAAC
1 TCGCACACTTAGTGCTCGA-TAACCAAAC
49005278 TCGCA
1 TCGCA
49005283 TGCTTAGCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCGATAACCAAAC
Found at i:49012118 original size:16 final size:16
Alignment explanation
Indices: 49012097--49012128 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49012087 CTTATACATG
49012097 CCATAAGTTTAAACTT
1 CCATAAGTTTAAACTT
49012113 CCATAAGTTTAAACTT
1 CCATAAGTTTAAACTT
49012129 AAGCTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
CCATAAGTTTAAACTT
Found at i:49012890 original size:28 final size:28
Alignment explanation
Indices: 49012840--49012894 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
49012830 TTTCCTTCGC
*
49012840 ACACTTAGTGCTCGATAATCAAACTCGT
1 ACACTTAGTGCTCGATAACCAAACTCGT
*
49012868 ACACTTAGTGCT-TATTAACCAAACTCG
1 ACACTTAGTGCTCGA-TAACCAAACTCG
49012895 CATGCTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (28 bp):
ACACTTAGTGCTCGATAACCAAACTCGT
Found at i:49022191 original size:46 final size:45
Alignment explanation
Indices: 49022083--49022248 Score: 199
Period size: 46 Copynumber: 3.6 Consensus size: 45
49022073 GGATACCGTG
* * * *
49022083 GTGTCTTTCAACCATGGTCTTATTTATTCTT-AACTTGATGCCATA
1 GTGTCTTTCAACCATGGTCTTATTCATT-TTCATCATGTTGCCATA
49022128 GTGTCTTTCAACCATGGTCTTATTCATTTTCCATCATGTTGCCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTTT-CATCATGTTGCCATA
* * * * *
49022174 GTGTCTTTCAACTATGGTCTTATTTATTCTCTGTCATGTTTCCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTTTC-ATCATGTTGCCATA
* *
49022220 GCGTCTTTCAACTATGGTCTTATTCATTT
1 GTGTCTTTCAACCATGGTCTTATTCATTT
49022249 GATTCGTGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
44 2 0.02
45 28 0.26
46 76 0.72
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (45 bp):
GTGTCTTTCAACCATGGTCTTATTCATTTTCATCATGTTGCCATA
Found at i:49025446 original size:42 final size:42
Alignment explanation
Indices: 49025399--49025482 Score: 100
Period size: 41 Copynumber: 2.0 Consensus size: 42
49025389 GAAAAAAATT
*
49025399 AAAAATCCCAATAACATTTTTGATT-TTTG-TTTTTAATTTTTC
1 AAAAAT-CCAAAAACATTTTT-ATTGTTTGTTTTTTAATTTTTC
* *
49025441 AAAAATCCAAAAATATTTTTCTTGTTTGTTTTTTTAATTTTT
1 AAAAATCCAAAAACATTTTTATTGTTTG-TTTTTTAATTTTT
49025483 GTTATTGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
40 2 0.06
41 16 0.44
42 6 0.17
43 12 0.33
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (42 bp):
AAAAATCCAAAAACATTTTTATTGTTTGTTTTTTAATTTTTC
Found at i:49029735 original size:43 final size:42
Alignment explanation
Indices: 49029600--49029758 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
49029590 TATGTGTTAT
* *
49029600 CATGTAAGACCATGTCTGGGACATTGGTATCGACATATGATTTA
1 CATGTAAGACCATGTCTGGGACA-TGGCATCGACATTTGA-TTA
* * * * *
49029644 CATGTAGGACCATGTCTGGGACATCGACATTG-TATTTGATTT
1 CATGTAAGACCATGTCTGGGACAT-GGCATCGACATTTGATTA
**
49029686 TGTGTAAGACTC-TGTCTGGGACAGTGGCATCGACATTTGATTA
1 CATGTAAGAC-CATGTCTGGGACA-TGGCATCGACATTTGATTA
** *
49029729 CATGTAAGACCACATTTGGGACATTGGCAT
1 CATGTAAGACCATGTCTGGGACA-TGGCAT
49029759 TGTACAAGAT
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
42 26 0.29
43 38 0.42
44 26 0.29
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATGGCATCGACATTTGATTA
Found at i:49029770 original size:85 final size:86
Alignment explanation
Indices: 49029602--49029771 Score: 209
Period size: 85 Copynumber: 2.0 Consensus size: 86
49029592 TGTGTTATCA
* * * **
49029602 TGTAAGACCATGTCTGGGACATTGGTATCGACATATGATTTACATGTAGGACCATGTCTGGGACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGACATATGATTTACATGTAAGACCACATCTGGGACA
***
49029667 TCGACATTGTATTTGATTTTG
66 TCGACATTGTACAAGATTTTG
* *
49029688 TGTAAGACTC-TGTCTGGGACAGTGGCATCGACATTTGA-TTACATGTAAGACCACATTTGGGAC
1 TGTAAGAC-CATGTCTGGGACAGTGGCATCGACATATGATTTACATGTAAGACCACATCTGGGAC
* *
49029751 ATTGGCATTGTACAAGATTTT
65 ATCGACATTGTACAAGATTTT
49029772 AGAGCTATCT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
85 37 0.52
86 33 0.46
87 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (86 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGACATATGATTTACATGTAAGACCACATCTGGGACA
TCGACATTGTACAAGATTTTG
Found at i:49037440 original size:10 final size:10
Alignment explanation
Indices: 49037425--49037449 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
49037415 AGGCTCAAAT
49037425 TTTTTTTTGA
1 TTTTTTTTGA
49037435 TTTTTTTTGA
1 TTTTTTTTGA
49037445 TTTTT
1 TTTTT
49037450 CTATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:49038523 original size:17 final size:16
Alignment explanation
Indices: 49038484--49038523 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
49038474 GGTAGGGAGT
*
49038484 AACAAATGAACAAAAA
1 AACAAATGAAAAAAAA
*
49038500 GACAAATGAAAAAAAA
1 AACAAATGAAAAAAAA
49038516 AACTAAAT
1 AAC-AAAT
49038524 TTAAATACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.72, C:0.10, G:0.07, T:0.10
Consensus pattern (16 bp):
AACAAATGAAAAAAAA
Found at i:49043400 original size:39 final size:40
Alignment explanation
Indices: 49043339--49043420 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 40
49043329 TATTCGGATG
* *
49043339 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCAGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
*
49043379 ATATCCAGACT-AGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCAGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
49043418 ATA
1 ATA
49043421 ACCGGGTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 29 0.74
40 10 0.26
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (40 bp):
ATATCCAGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
Found at i:49043456 original size:40 final size:40
Alignment explanation
Indices: 49043394--49043494 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
49043384 CAGACTAGAT
*
49043394 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTGGTTATTATAACCGGGTTAAGTC
* *
49043434 CCGAAGGCATTCGTGCGGGTTATTATAACTGGGTTAAGTC
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
*
49043474 CCAAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCTGGTT
49043495 GTTACATCCG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.05
40 52 0.95
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
Found at i:49046719 original size:32 final size:33
Alignment explanation
Indices: 49046676--49046739 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
49046666 ACGAAGTCAC
* *
49046676 CAGATACATATAT-TGTGGCTAGGCCACCAGAA
1 CAGATACATATATGTGTGGCGAAGCCACCAGAA
*
49046708 CAGATATATATATGTGTGGCGAAGCCACCAGA
1 CAGATACATATATGTGTGGCGAAGCCACCAGA
49046740 TTGTAGCGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (33 bp):
CAGATACATATATGTGTGGCGAAGCCACCAGAA
Found at i:49050522 original size:40 final size:40
Alignment explanation
Indices: 49050478--49050741 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
49050468 GCTCCTCGTT
* *
49050478 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
49050518 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
49050558 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
49050598 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
49050638 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
49050677 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
49050718 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49050742 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:49054547 original size:20 final size:20
Alignment explanation
Indices: 49054522--49054561 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
49054512 GGATACTAAC
49054522 ATGACCCAAGAAGCTAACCT
1 ATGACCCAAGAAGCTAACCT
49054542 ATGACCCAAGAAGCTAACCT
1 ATGACCCAAGAAGCTAACCT
49054562 CTCTTAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.30, G:0.15, T:0.15
Consensus pattern (20 bp):
ATGACCCAAGAAGCTAACCT
Found at i:49067262 original size:29 final size:28
Alignment explanation
Indices: 49067168--49067275 Score: 130
Period size: 27 Copynumber: 3.9 Consensus size: 28
49067158 TACCTGTATC
* * *
49067168 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTTATA
*
49067196 TGGCCCATTAGGCCCGAATCAC--CTATA
1 TGGCCCATTAGGCCC-AATCACATTTATA
49067223 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTTATA
* *
49067252 TGGCCCGTTAGGCCCAGTCACATT
1 TGGCCCATTAGGCCCAATCACATT
49067276 CATAATCATG
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 24 0.35
28 22 0.32
29 23 0.33
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTTATA
Found at i:49067370 original size:18 final size:19
Alignment explanation
Indices: 49067347--49067382 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
49067337 ATGGGCCCAA
49067347 TAGCCCATCA-GGCCCATT
1 TAGCCCATCACGGCCCATT
*
49067365 TAGCCCATTACGGCCCAT
1 TAGCCCATCACGGCCCAT
49067383 ATGGCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.39, G:0.17, T:0.22
Consensus pattern (19 bp):
TAGCCCATCACGGCCCATT
Found at i:49067504 original size:8 final size:8
Alignment explanation
Indices: 49067491--49067533 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
49067481 ACAGCCAAAC
49067491 TTTCGGCT
1 TTTCGGCT
49067499 TTTCGG-T
1 TTTCGGCT
*
49067506 ATTTCAGCT
1 -TTTCGGCT
*
49067515 TTTCGGCA
1 TTTCGGCT
49067523 TTTCGGCT
1 TTTCGGCT
49067531 TTT
1 TTT
49067534 GCCGATACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 1 0.03
8 27 0.93
9 1 0.03
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:49067515 original size:16 final size:16
Alignment explanation
Indices: 49067491--49067533 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
49067481 ACAGCCAAAC
*
49067491 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCGGCA
*
49067507 TTTCAGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
49067523 TTTCGGCTTTT
1 TTTCGGCTTTT
49067534 GCCGATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:49068632 original size:16 final size:17
Alignment explanation
Indices: 49068601--49068637 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
49068591 ATAAAGAAAG
49068601 TTTGGGATTTCAGGATT
1 TTTGGGATTTCAGGATT
*
49068618 TTTGGG-TTTCGGGATT
1 TTTGGGATTTCAGGATT
49068634 TTTG
1 TTTG
49068638 TGGCGTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.11, C:0.05, G:0.32, T:0.51
Consensus pattern (17 bp):
TTTGGGATTTCAGGATT
Found at i:49070621 original size:3 final size:3
Alignment explanation
Indices: 49070613--49070638 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49070603 AATTTCAATG
49070613 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
49070639 TCAAGTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:49075706 original size:29 final size:29
Alignment explanation
Indices: 49075640--49075758 Score: 116
Period size: 29 Copynumber: 4.2 Consensus size: 29
49075630 AATTTCACAT
* * *
49075640 ACATGTATCTGGCCCATTAAGCCC-AATC
1 ACATTTATATGGCCCATTAGGCCCAAATC
* * *
49075668 ATATTCATATGGCCCATTAGGCCTAAATC
1 ACATTTATATGGCCCATTAGGCCCAAATC
* * *
49075697 ACCTTTATATGGCCTATTAGGCCCAAATT
1 ACATTTATATGGCCCATTAGGCCCAAATC
* * *
49075726 AGATTTATATGGCCCGTTAGGCCC-AGTC
1 ACATTTATATGGCCCATTAGGCCCAAATC
49075754 ACATT
1 ACATT
49075759 CATAATCATG
Statistics
Matches: 71, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
28 24 0.34
29 47 0.66
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (29 bp):
ACATTTATATGGCCCATTAGGCCCAAATC
Found at i:49075995 original size:16 final size:16
Alignment explanation
Indices: 49075974--49076008 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
49075964 ATAACCAAAC
49075974 TTTCGGCATTTCGGCT
1 TTTCGGCATTTCGGCT
*
49075990 TTTCGGCATTTTGGCT
1 TTTCGGCATTTCGGCT
49076006 TTT
1 TTT
49076009 GCCAATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.20, G:0.23, T:0.51
Consensus pattern (16 bp):
TTTCGGCATTTCGGCT
Found at i:49079860 original size:41 final size:41
Alignment explanation
Indices: 49079796--49079944 Score: 139
Period size: 41 Copynumber: 3.6 Consensus size: 41
49079786 CGGGCTGTAA
* * *
49079796 GCCTAGCAAGCATTATGCTGGTGAATGTAATCAAGCTTTAT
1 GCCTAGCAGGCTTTATGCCGGTGAATGTAATCAAGCTTTAT
* *
49079837 GCCTAGCAGGC-TTATTGCCGGTGAATATAAT-ATCAGACTTTAA
1 GCCTAGCAGGCTTTA-TGCCGGTGAATGTAATCA--AG-CTTTAT
* *
49079880 GTCTAGCAGGCTTTGA-GCCGGTG--TGTAATACAGGC-TTAT
1 GCCTAGCAGGCTTT-ATGCCGGTGAATGTAAT-CAAGCTTTAT
49079919 GCCTAGCAGGCTTTATGCCGGTGAAT
1 GCCTAGCAGGCTTTATGCCGGTGAAT
49079945 TATTAAAAGT
Statistics
Matches: 88, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
38 1 0.01
39 23 0.26
40 5 0.06
41 31 0.35
42 2 0.02
43 23 0.26
44 2 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (41 bp):
GCCTAGCAGGCTTTATGCCGGTGAATGTAATCAAGCTTTAT
Found at i:49085061 original size:55 final size:54
Alignment explanation
Indices: 49084871--49085125 Score: 215
Period size: 55 Copynumber: 4.8 Consensus size: 54
49084861 ATACACGGAC
* * * * * *
49084871 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTTT---TGA--AA
1 CTTACCAATGCCATGTCTTGACATGGTCCTACATGGTATCCTTTGCCTTATGAA
* *
49084920 CTTACCATTGCCATGTCTCGACATGG-CCTTACATGGTATCC-TTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCC-TACATGGTATCCTTTGCCTTATGAA
* * * * *
49084973 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCCTACATGGTATCCTTTGCCTTAT-G-AA
*
49085028 CTTATCAATGCCATGTCTTGACATGGTCCTACATGGTATCCTTT-CCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCCTACATGGTATCCTTTGCCTTATG-AA
* * * * *
49085081 TCGTACCGATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACC-AATGCCATGTCTTGACATGGTCCTACATGGTATCCTT
49085126 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
48 3 0.02
49 34 0.20
51 2 0.01
52 2 0.01
53 43 0.26
54 6 0.04
55 72 0.43
56 5 0.03
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGTCTTGACATGGTCCTACATGGTATCCTTTGCCTTATGAA
Found at i:49085062 original size:108 final size:109
Alignment explanation
Indices: 49084918--49085118 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 109
49084908 ATCCTTTTGA
* *
49084918 AACTTACCATTGCCATGTCTCGACATGGCCTTACATGGTATCCTTGCCTTATGAACTC-ACC-AA
1 AACTTACCAATGCCATGTCTCGACATGGCCTTACATGGTATCCTTGCCTTA-GAAATCGACCGAA
49084981 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
49085026 AACTTATCAATGCCATGTCTTGACATGGTCC-TACATGGTATCCTTTCCTTAGAAATCGTACCGA
1 AACTTACCAATGCCATGTCTCGACATGG-CCTTACATGGTATCCTTGCCTTAGAAATCG-ACCGA
*
49085090 TTGCCATGCCTTGGCATGGTCTTACATGG
64 ATGCCATGCCTTGGCATGGTCTTACATGG
49085119 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
107 5 0.06
108 44 0.53
109 5 0.06
110 29 0.35
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTCGACATGGCCTTACATGGTATCCTTGCCTTAGAAATCGACCGAAT
GCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:49090129 original size:13 final size:13
Alignment explanation
Indices: 49090111--49090137 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49090101 TGATATGTAA
49090111 TGTGTGAAAATTT
1 TGTGTGAAAATTT
49090124 TGTGTGAAAATTT
1 TGTGTGAAAATTT
49090137 T
1 T
49090138 ATCGTTTCTG
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:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:49102538 original size:34 final size:35
Alignment explanation
Indices: 49102500--49102583 Score: 107
Period size: 34 Copynumber: 2.4 Consensus size: 35
49102490 CTGTATTGAT
*
49102500 ATGGGCTAAGGCCCAGACTGCCACTGTTAC-TAAA
1 ATGGGCTAAGGCCCAGACTGACACTGTTACGTAAA
* * *
49102534 ATGGGCTCAGGCCCAGATTGATACTGTTACTGTAAA
1 ATGGGCTAAGGCCCAGACTGACACTGTTAC-GTAAA
*
49102570 AGGGGCTAAGGCCC
1 ATGGGCTAAGGCCC
49102584 TAACTGGAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 26 0.62
36 16 0.38
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (35 bp):
ATGGGCTAAGGCCCAGACTGACACTGTTACGTAAA
Found at i:49105544 original size:27 final size:27
Alignment explanation
Indices: 49105527--49106380 Score: 1638
Period size: 27 Copynumber: 31.6 Consensus size: 27
49105517 ATATTAAGTC
* * *
49105527 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
49105554 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
49105582 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105609 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
49105637 CGCA-ACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105663 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105690 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105717 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105744 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105771 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105798 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105825 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105852 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105879 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105906 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105933 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105960 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49105987 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106014 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106041 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106068 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106095 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106122 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106149 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106176 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106203 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106230 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106257 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106284 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106311 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49106338 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
49106366 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49106381 GCACAATTTA
Statistics
Matches: 820, Mismatches: 3, Indels: 7
0.99 0.00 0.01
Matches are distributed among these distances:
26 8 0.01
27 759 0.93
28 53 0.06
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:49107433 original size:201 final size:200
Alignment explanation
Indices: 49107089--49107490 Score: 768
Period size: 201 Copynumber: 2.0 Consensus size: 200
49107079 TATCAAATAA
*
49107089 CTCATTTCCTTACTCATGTGACCACGTATATTCGGTCATGCATACACACATAAAATTAATTTAGA
1 CTCATTTCCTTACTCATGTGACCACGTATATTCGGTCATGCATACACACATAAAATCAATTTAGA
49107154 GACTCTATCAATCCAACATACATTCGGCACCTTCATCCACCATTCTACCAAGCATGTAATATTCA
66 GACTCTATCAATCCAACATACATTCGGCACCTTCATCCACCATTCTACCAAGCATGTAATATTCA
49107219 AACACAACCAAACTCACATTCGGCCCTAGCTCATAACAAGGTAGCCGATTCTTTTTATAGTTCAA
131 AACACAACCAAACTCACATTCGGCCCTAGCTCATAACAAGGTAGCCGATTCTTTTTATAGTTCAA
49107284 ACACT
196 ACACT
* *
49107289 CTCATTTCCTTACTCATGTGACCACGTATATTCGGTCTTGCATACACACATAAAAATCAATTTGG
1 CTCATTTCCTTACTCATGTGACCACGTATATTCGGTCATGCATACACACAT-AAAATCAATTTAG
49107354 AGACTCTATCAATCCAACATACATTCGGCACCTTCATCCACCATTCTACCAAGCATGTAATATTC
65 AGACTCTATCAATCCAACATACATTCGGCACCTTCATCCACCATTCTACCAAGCATGTAATATTC
49107419 AAACACAACCAAACTCACATTCGGCCCTAGCTCATAACAAGGTAGCCGATTCTTTTTATAGTTCA
130 AAACACAACCAAACTCACATTCGGCCCTAGCTCATAACAAGGTAGCCGATTCTTTTTATAGTTCA
49107484 AACACT
195 AACACT
49107490 C
1 C
49107491 CTCTATCATC
Statistics
Matches: 198, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
200 50 0.25
201 148 0.75
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.29
Consensus pattern (200 bp):
CTCATTTCCTTACTCATGTGACCACGTATATTCGGTCATGCATACACACATAAAATCAATTTAGA
GACTCTATCAATCCAACATACATTCGGCACCTTCATCCACCATTCTACCAAGCATGTAATATTCA
AACACAACCAAACTCACATTCGGCCCTAGCTCATAACAAGGTAGCCGATTCTTTTTATAGTTCAA
ACACT
Found at i:49116512 original size:19 final size:19
Alignment explanation
Indices: 49116481--49116521 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
49116471 TCAACTTTCC
49116481 CTTTCACATTTCTCTTCTT
1 CTTTCACATTTCTCTTCTT
49116500 CTTTC-CATATTCTCTTCTT
1 CTTTCACAT-TTCTCTTCTT
49116519 CTT
1 CTT
49116522 GTAGATCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.10, C:0.32, G:0.00, T:0.59
Consensus pattern (19 bp):
CTTTCACATTTCTCTTCTT
Found at i:49123280 original size:42 final size:43
Alignment explanation
Indices: 49123172--49123329 Score: 119
Period size: 43 Copynumber: 3.7 Consensus size: 43
49123162 AACAAGTACA
* * * * *
49123172 ATGCTGATGTCCCGGACGTGGTCTTACATGTAATTCAATATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCAATATCG
** * *
49123215 ATGCCTCTGTCTCAGACAGGGTCTTACACG-AAATCAGATAT-G
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCA-ATATCG
* *
49123257 ATGTCGATGTCCCAGACATGGTCTTATACGTAAATTTC-A-ATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACGTAAA--TCAATATCG
* * *
49123300 AGGCCTG-TGTCCCAAACACGGTCTTACACG
1 ATGCC-GATGTCCCAGACATGGTCTTACACG
49123330 ATGTCTCAGA
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
42 32 0.36
43 54 0.61
44 1 0.01
45 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCAATATCG
Found at i:49127497 original size:14 final size:14
Alignment explanation
Indices: 49127478--49127506 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49127468 TGAGGGTTAG
49127478 TTTGTAAAATGCTC
1 TTTGTAAAATGCTC
49127492 TTTGTAAAATGCTC
1 TTTGTAAAATGCTC
49127506 T
1 T
49127507 AAATATGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (14 bp):
TTTGTAAAATGCTC
Found at i:49129368 original size:174 final size:174
Alignment explanation
Indices: 49129070--49129433 Score: 539
Period size: 174 Copynumber: 2.1 Consensus size: 174
49129060 CAGTTTTGAT
* * * **
49129070 ACGGCCTAGACATACGGATGTGTCTATCGGTCGTGTGTCGCACATGGGCTGGCACATGGGCGTGT
1 ACGGCCTAGACACACGGATGTGTCTATAGGTCGTGGGTCGCACACAGGCTGGCACATGGGCGTGT
* * *
49129135 GGTCGACCGTGTGATCTAAGTCAGTAGCCTCCCTAATTTCCACACGGCATGGTACACGGGCGTGT
66 CGTCGACCGTGTGATCTAAGTCAGTAGCCTCCCTAATTTCCACACGGCATGGCACACGGGCATGT
* *
49129200 CTTATGGCCATGTGGACAAGTCAGTATGTATGCCCTATTTTGCC
131 CTTATAGCCATGTGGACAACTCAGTATGTATGCCCTATTTTGCC
* * * * *
49129244 ATGGCCTAGACACACGGGTGTGTCTATAGGTCTTGGGTGGCACACAGGTTGGCACATGGGCGTGT
1 ACGGCCTAGACACACGGATGTGTCTATAGGTCGTGGGTCGCACACAGGCTGGCACATGGGCGTGT
* * *
49129309 CGTCGACCGTGTGATCTAAGTCAGTAGCCTCTCTAATTTTCACACGGCCTGGCACACGGGCATGT
66 CGTCGACCGTGTGATCTAAGTCAGTAGCCTCCCTAATTTCCACACGGCATGGCACACGGGCATGT
* *
49129374 CTTGTAGCCGTGTGGACAACTCAGTATGTATGCCCTATTTTGCC
131 CTTATAGCCATGTGGACAACTCAGTATGTATGCCCTATTTTGCC
*
49129418 ACAGCCTAGACACACG
1 ACGGCCTAGACACACG
49129434 AGCATGTCTC
Statistics
Matches: 168, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
174 168 1.00
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.26
Consensus pattern (174 bp):
ACGGCCTAGACACACGGATGTGTCTATAGGTCGTGGGTCGCACACAGGCTGGCACATGGGCGTGT
CGTCGACCGTGTGATCTAAGTCAGTAGCCTCCCTAATTTCCACACGGCATGGCACACGGGCATGT
CTTATAGCCATGTGGACAACTCAGTATGTATGCCCTATTTTGCC
Found at i:49140988 original size:42 final size:40
Alignment explanation
Indices: 49140926--49141047 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 40
49140916 GATTTGAGAT
*
49140926 TTACATGTAAGACCATGTCTGGGACATCGGCATTGTATTTGA
1 TTACATGTAAGACC-CGTCTGGGACAT-GGCATTGTATTTGA
* **
49140968 TT-CTATGTAAGACCCGGTCTGCGACAGTGGCATCAATATTTGA
1 TTAC-ATGTAAGACCC-GTCTGGGACA-TGGCAT-TGTATTTGA
49141011 TTACATGTAAGACCACGTCTGGGACATTGGCATTGTA
1 TTACATGTAAGACC-CGTCTGGGACA-TGGCATTGTA
49141048 CGAGCTTTCC
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
41 1 0.02
42 28 0.42
43 35 0.53
44 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (40 bp):
TTACATGTAAGACCCGTCTGGGACATGGCATTGTATTTGA
Found at i:49145144 original size:20 final size:18
Alignment explanation
Indices: 49145097--49145145 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
49145087 CAAGATAAAC
49145097 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
49145114 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
49145134 ATTAAATTAATA
1 ATTAAATTAATA
49145146 AAAATACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:49155385 original size:15 final size:15
Alignment explanation
Indices: 49155365--49155397 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
49155355 CTGTTATTTA
49155365 TTATTTTTATCTTTT
1 TTATTTTTATCTTTT
49155380 TTATTTTTATCTTTT
1 TTATTTTTATCTTTT
49155395 TTA
1 TTA
49155398 AACTACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTTTATCTTTT
Found at i:49158380 original size:71 final size:67
Alignment explanation
Indices: 49158301--49158442 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
49158291 TCACTAAATA
* * * *
49158301 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCTACCAGATTGAAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGAAGCGA
49158366 GGCTAC
62 GGCTAC
* * *
49158372 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGAAGCGAGGCT
49158437 AC
66 AC
49158439 CAGA
1 CAGA
49158443 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGAAGCGAGGCT
AC
Found at i:49158401 original size:26 final size:27
Alignment explanation
Indices: 49158372--49158423 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
49158362 GCGAGGCTAC
*
49158372 CAGATAT-TGTGACGAAGTCACCAGAA
1 CAGATATATGTGACGAAGCCACCAGAA
* *
49158398 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATATATGTGACGAAGCCACCAGA
49158424 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (27 bp):
CAGATATATGTGACGAAGCCACCAGAA
Found at i:49159050 original size:26 final size:27
Alignment explanation
Indices: 49159021--49159074 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
49159011 TCACACAAGT
*
49159021 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
49159047 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
49159074 T
1 T
49159075 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:49159142 original size:27 final size:27
Alignment explanation
Indices: 49159076--49159221 Score: 175
Period size: 27 Copynumber: 5.4 Consensus size: 27
49159066 GGGCAAAATG
* * * * **
49159076 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
*
49159103 GTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTTA
*
49159130 GTAATTCTACCCTATAGGGGTATTTTCA
1 GTAATTCTACCCTACAGGGGTATTTT-A
* *
49159158 ATAATTATACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
49159185 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
49159212 GTAATTCTAC
1 GTAATTCTAC
49159222 AACTTATCCA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
27 81 0.78
28 23 0.22
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:49159178 original size:55 final size:54
Alignment explanation
Indices: 49159076--49159217 Score: 176
Period size: 55 Copynumber: 2.6 Consensus size: 54
49159066 GGGCAAAATG
* * * * ** * *
49159076 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCAATAATTATACCCTACAGGGGTATTTTA
*
49159130 GTAATTCTACCCTATAGGGGTATTTTCAATAATTATACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTA-TTTCAATAATTATACCCTACAGGGGTATTTTA
* *
49159185 GTAATTCTACCTTACAGGGGTATTTCAGTAATT
1 GTAATTCTACCCTACAGGGGTATTTCAATAATT
49159218 CTACAACTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
54 28 0.37
55 47 0.63
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCAATAATTATACCCTACAGGGGTATTTTA
Found at i:49161490 original size:40 final size:40
Alignment explanation
Indices: 49161434--49161557 Score: 169
Period size: 40 Copynumber: 3.1 Consensus size: 40
49161424 CGGGATTTAA
* * * *
49161434 CCGGATATAGCT-ACTCGCTCGAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTAGGGACTTAGC
* *
49161474 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTAGGGACTTAGC
*
49161514 CCGGATATAGTAACTCGCACAAATGCCTTAGGGACTTACC
1 CCGGATATAGTAACTCGCACAAATGCCTTAGGGACTTAGC
49161554 CCGG
1 CCGG
49161558 TTATCATCCA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTAGGGACTTAGC
Found at i:49172425 original size:30 final size:30
Alignment explanation
Indices: 49172389--49172449 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
49172379 CCTACCATAT
49172389 TTTCACATATTTTCACTTTGACCCCTAAAC
1 TTTCACATATTTTCACTTTGACCCCTAAAC
* *
49172419 TTTCACATATTTTCACTTTGGCCCTTAAAC
1 TTTCACATATTTTCACTTTGACCCCTAAAC
49172449 T
1 T
49172450 CGTAAAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.28, G:0.05, T:0.43
Consensus pattern (30 bp):
TTTCACATATTTTCACTTTGACCCCTAAAC
Found at i:49173131 original size:42 final size:43
Alignment explanation
Indices: 49173047--49173132 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
49173037 TGCAATTTCA
49173047 TGCTTAAAACTTCTAGAATGCAAGTTTTGCACTTTATTCAATT
1 TGCTTAAAACTTCTAGAATGCAAGTTTTGCACTTTATTCAATT
49173090 TGCTTAAAACTTCTAGAATGCAAG-TTTGCACTTTATTCAATT
1 TGCTTAAAACTTCTAGAATGCAAGTTTTGCACTTTATTCAATT
49173132 T
1 T
49173133 TGTCTCTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 19 0.44
43 24 0.56
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (43 bp):
TGCTTAAAACTTCTAGAATGCAAGTTTTGCACTTTATTCAATT
Found at i:49177452 original size:40 final size:40
Alignment explanation
Indices: 49177397--49177508 Score: 206
Period size: 40 Copynumber: 2.8 Consensus size: 40
49177387 CGGATGATAA
*
49177397 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAACT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
49177437 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
*
49177477 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
49177509 AGCTATATCC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:49183219 original size:49 final size:48
Alignment explanation
Indices: 49183108--49183470 Score: 229
Period size: 49 Copynumber: 7.7 Consensus size: 48
49183098 GGGATAAGAT
* * * * * *
49183108 GCCGATGCCATGTCCTAGACATGGTTTTACACTGGC-T-AGTACATCAAA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGACTTCA-TATATCGAG
* * *
49183156 GTCAATGCCGTGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGAC-TTCATATATCGAG
* *
49183205 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACT-TCATATATCGAG
* * * * *
49183253 TGTCGATGCCATGTCCCAAACAGGTCTTACACTGAC-ACACA-A-C-AA
1 -GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCGAG
* * * *
49183298 GCTGATGCCATGTCCCAGACAAGTATTACACT-AGCTT-GTATATCCCGAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCATATAT--CGAG
* * * *
49183347 GCCGATG-CATGTCCCAGACATGTCTTACACT-AGC-TC-TAGTCTCAAT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCATA-TATCGAG
* * * * *
49183393 GCCGATG-CATGTCCTAGACATGTCTTACACTGGC-TCACATAAT-GTG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATAT-ATCGAG
* *
49183439 GCCGATG-CATGTCCCAAACATGTCTTACACTG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTG
49183471 GCTCACATGC
Statistics
Matches: 252, Mismatches: 45, Indels: 38
0.75 0.13 0.11
Matches are distributed among these distances:
43 1 0.00
44 29 0.12
45 2 0.01
46 67 0.27
47 19 0.08
48 47 0.19
49 86 0.34
50 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGACTTCATATATCGAG
Found at i:49183414 original size:46 final size:45
Alignment explanation
Indices: 49183346--49183478 Score: 173
Period size: 46 Copynumber: 2.9 Consensus size: 45
49183336 TATATCCCGA
*
49183346 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTAGTC-TCAA-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTC-A--CAT-AAGT
*
49183393 -GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCACATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATAA-GT
*
49183438 GGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCACAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACAT
49183479 GCCACGCAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 72 0.92
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATAAGT
Found at i:49185719 original size:35 final size:35
Alignment explanation
Indices: 49184761--49185702 Score: 1742
Period size: 35 Copynumber: 26.9 Consensus size: 35
49184751 TTCCTCATTG
* *
49184761 AAATACCATACCTACATTTCAT-ACTCGGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49184795 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49184830 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49184865 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49184900 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49184935 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49184970 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185005 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185040 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185075 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185110 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185145 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185180 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185215 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185250 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185285 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185320 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185355 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185390 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185425 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185460 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185495 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185530 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185565 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
49185600 AAATACCATACCTACGTTTCATAACTCAGTATGGA
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
** * * * * *
49185635 CGATGCCATACCTACGTATCATAGCTAAGTATGGC
1 AAATACCATACCTACGTTTCATAACTCAGTATGGA
** ** * *
49185670 CGACGCCATACCTACGTATCATAGCTCAGTATG
1 AAATACCATACCTACGTTTCATAACTCAGTATG
49185703 ATCGATGTCA
Statistics
Matches: 896, Mismatches: 11, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
34 21 0.02
35 875 0.98
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.28
Consensus pattern (35 bp):
AAATACCATACCTACGTTTCATAACTCAGTATGGA
Found at i:49192714 original size:20 final size:20
Alignment explanation
Indices: 49192668--49192706 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
49192658 CATTGATAAA
*
49192668 AAATCATGTAATTATCGCTT
1 AAATCATGTAAATATCGCTT
49192688 AAATCATGTAAATAT-GCTT
1 AAATCATGTAAATATCGCTT
49192707 TTAATCATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
AAATCATGTAAATATCGCTT
Found at i:49194508 original size:22 final size:23
Alignment explanation
Indices: 49194483--49194525 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
49194473 TTTAGTGGCC
*
49194483 CAATTTTAATTTGGTT-GGATTT
1 CAATTATAATTTGGTTAGGATTT
*
49194505 CAATTATAGTTTGGTTAGGAT
1 CAATTATAATTTGGTTAGGAT
49194526 AGAACTGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (23 bp):
CAATTATAATTTGGTTAGGATTT
Found at i:49194926 original size:22 final size:22
Alignment explanation
Indices: 49194898--49194941 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
49194888 AGAGTTGGAC
49194898 ATCTTTAGCTTACCCAATAAAT
1 ATCTTTAGCTTACCCAATAAAT
*
49194920 ATCTTTAGCTTAGCCAATAAAT
1 ATCTTTAGCTTACCCAATAAAT
49194942 GCTTGTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (22 bp):
ATCTTTAGCTTACCCAATAAAT
Found at i:49195803 original size:27 final size:27
Alignment explanation
Indices: 49195772--49195873 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
49195762 AGTTTGTAAG
49195772 GATAGTAAACACGAGGTAGTCCATCAA
1 GATAGTAAACACGAGGTAGTCCATCAA
* * *
49195799 TATAGTAAACACGAGGTAGTCTATCAG
1 GATAGTAAACACGAGGTAGTCCATCAA
* * * **
49195826 GACAGTAAACACGGGGTAGTCCGTTGA
1 GATAGTAAACACGAGGTAGTCCATCAA
49195853 GATAGTAAACAC-AGAGTAGTC
1 GATAGTAAACACGAG-GTAGTC
49195874 TACTAGGACG
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.02
27 60 0.98
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (27 bp):
GATAGTAAACACGAGGTAGTCCATCAA
Found at i:49195858 original size:54 final size:53
Alignment explanation
Indices: 49195770--49195919 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 53
49195760 ATAGTTTGTA
* * * * *
49195770 AGGATAGTAAACACGAGGTAGTCCATCAATATAGTAAACACGAGGTAGTCTA-T
1 AGGACAGTAAACACGGGGTAGTCCGTCGAGATAGTAAACAC-AGGTAGTCTACT
*
49195823 CAGGACAGTAAACACGGGGTAGTCCGTTGAGATAGTAAACACAGAGTAGTCTACT
1 -AGGACAGTAAACACGGGGTAGTCCGTCGAGATAGTAAACACAG-GTAGTCTACT
* * * *
49195878 AGGAC-GATAAACACAGGGTAGTCTGTCGGGACAGTAAACACA
1 AGGACAG-TAAACACGGGGTAGTCCGTCGAGATAGTAAACACA
49195920 AGGTTACATT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.04
54 78 0.95
55 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.19
Consensus pattern (53 bp):
AGGACAGTAAACACGGGGTAGTCCGTCGAGATAGTAAACACAGGTAGTCTACT
Found at i:49199968 original size:6 final size:6
Alignment explanation
Indices: 49199959--49199996 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
49199949 TTGAAATGAG
49199959 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
49199997 GATAAGAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:49205440 original size:13 final size:13
Alignment explanation
Indices: 49205422--49205454 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
49205412 GGTTGTTTAT
49205422 TAAACTAATTAAC
1 TAAACTAATTAAC
*
49205435 TAAACTAATTATC
1 TAAACTAATTAAC
49205448 T-AACTAA
1 TAAACTAA
49205455 ACTAAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:49209266 original size:33 final size:33
Alignment explanation
Indices: 49209229--49209296 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
49209219 TTTAAAACAA
49209229 CTCAAAAACATAAACTCATTCTTCCGATCATTT
1 CTCAAAAACATAAACTCATTCTTCCGATCATTT
*
49209262 CTCAAAAACATAAACTCATTTTTCCGATCATTT
1 CTCAAAAACATAAACTCATTCTTCCGATCATTT
49209295 CT
1 CT
49209297 TAATAATCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (33 bp):
CTCAAAAACATAAACTCATTCTTCCGATCATTT
Found at i:49209836 original size:22 final size:22
Alignment explanation
Indices: 49209795--49209836 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
49209785 GTTTTATGCA
49209795 TAAACATTTTAAAACATCTATT
1 TAAACATTTTAAAACATCTATT
49209817 TAAACAGTTTTAAAAC-TCTA
1 TAAACA-TTTTAAAACATCTA
49209837 ATGTCATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAACATTTTAAAACATCTATT
Found at i:49219231 original size:40 final size:40
Alignment explanation
Indices: 49219147--49219330 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
49219137 TTGAATGCTG
* * * *
49219147 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
49219186 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
49219227 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
49219267 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
*
49219307 TCCGGGTTAAGTCCCAAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
49219331 GTATGAGTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:49219284 original size:80 final size:81
Alignment explanation
Indices: 49219147--49219327 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
49219137 TTGAATGCTG
* *
49219147 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
49219211 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
49219227 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
49219288 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
*
49219307 TCCGGGTTAAGTCCCAAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
49219328 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:49219351 original size:39 final size:38
Alignment explanation
Indices: 49219148--49219367 Score: 165
Period size: 40 Copynumber: 5.6 Consensus size: 38
49219138 TGAATGCTGT
* * * * *
49219148 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AA
** * *
49219188 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
49219228 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
*
49219268 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA
* **
49219307 TCCGGGTTAAGTCCCAAAGGCATTGTATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* *
49219347 CCGGGCTATGTCCCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
49219368 CTTGAACGAG
Statistics
Matches: 149, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 32 0.21
40 109 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:49223748 original size:8 final size:8
Alignment explanation
Indices: 49223735--49223783 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
49223725 GCATCTCATT
49223735 TTTTTCTC
1 TTTTTCTC
49223743 TTTTTCTC
1 TTTTTCTC
*
49223751 TTCTTCT-
1 TTTTTCTC
*
49223758 TTTTTTTC
1 TTTTTCTC
49223766 TTTTAT-TC
1 TTTT-TCTC
49223774 TTTTTCTC
1 TTTTTCTC
49223782 TT
1 TT
49223784 CTTAAACCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
7 6 0.17
8 28 0.80
9 1 0.03
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCTC
Found at i:49223765 original size:17 final size:17
Alignment explanation
Indices: 49223743--49223778 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49223733 TTTTTTTCTC
*
49223743 TTTTTCTCTTCTTCTTT
1 TTTTTCTCTTATTCTTT
*
49223760 TTTTTCTTTTATTCTTT
1 TTTTTCTCTTATTCTTT
49223777 TT
1 TT
49223779 CTCTTCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTCTCTTATTCTTT
Found at i:49223783 original size:25 final size:24
Alignment explanation
Indices: 49223728--49223783 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
49223718 ATTGGAGGCA
*
49223728 TCTCATTTTTTTCTCTTTTTCTCT
1 TCTCTTTTTTTTCTCTTTTTCTCT
*
49223752 TCTTCTTTTTTTTCT-TTTATTCTTTT
1 TC-TCTTTTTTTTCTCTTT-TTC-TCT
49223778 TCTCTT
1 TCTCTT
49223784 CTTAAACCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 18 0.67
26 4 0.15
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (24 bp):
TCTCTTTTTTTTCTCTTTTTCTCT
Found at i:49224140 original size:6 final size:6
Alignment explanation
Indices: 49224129--49224158 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
49224119 AATTAGGAAG
49224129 GATGAA GATGAA GATGAA GATGAA GATGAA
1 GATGAA GATGAA GATGAA GATGAA GATGAA
49224159 TGGGGAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (6 bp):
GATGAA
Found at i:49236906 original size:47 final size:47
Alignment explanation
Indices: 49236835--49237707 Score: 1674
Period size: 47 Copynumber: 18.6 Consensus size: 47
49236825 CCCTTCGGGA
* * * *
49236835 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
*
49236882 CCTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49236929 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49236976 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237023 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237070 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237117 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237164 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237211 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237258 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237305 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237352 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237399 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237446 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237493 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237540 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237587 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
* * *
49237634 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
49237681 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
49237708 TATTCAAATA
Statistics
Matches: 817, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 817 1.00
ACGTcount: A:0.26, C:0.30, G:0.08, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACTTTGGCCATTCGGC
Found at i:49247260 original size:68 final size:66
Alignment explanation
Indices: 49247188--49247334 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 66
49247178 CATCATGTGT
* * * *
49247188 ACAAGAGAGCTACAAGAAATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GAAA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
49247251 TGTAG
62 TGTAG
** * *
49247256 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAAATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
49247321 AG
65 AG
49247323 ACAAGAGAGCTA
1 ACAAGAGAGCTA
49247335 TGAGATAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 24 0.35
65 3 0.04
66 4 0.06
67 24 0.35
68 13 0.19
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGAAATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:49247293 original size:64 final size:64
Alignment explanation
Indices: 49247212--49247395 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
49247202 AGAAATTATG
* * *
49247212 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
49247276 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTATGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
49247341 AA
63 AA
* * * *
49247343 AT-TGGCTAGGTCACACGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
49247396 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 25 0.26
66 20 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:49251643 original size:68 final size:66
Alignment explanation
Indices: 49251571--49251746 Score: 178
Period size: 67 Copynumber: 2.6 Consensus size: 66
49251561 CATCATGTGT
* * *
49251571 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCA
49251634 TGTAG
62 TGTAG
** * * *
49251639 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGATACCA-GTGAAGGACACCATGT
49251704 AG
65 AG
* * * *
49251706 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTG
49251747 GTACTGAGTG
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
64 24 0.26
65 3 0.03
66 20 0.22
67 32 0.35
68 13 0.14
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCATGTA
G
Found at i:49251676 original size:64 final size:64
Alignment explanation
Indices: 49251595--49251779 Score: 196
Period size: 67 Copynumber: 2.9 Consensus size: 64
49251585 AGACATTATG
* * *
49251595 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
49251659 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
49251724 AA
63 AA
* * * *
49251726 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTAAAAGAGAGCT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
49251780 GAACTATATG
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:49260591 original size:29 final size:27
Alignment explanation
Indices: 49260557--49260613 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
49260547 ACCTATTACA
*
49260557 ATACTACATGGATATATACCTATATATAT
1 ATACTACA--GATATATACCTACATATAT
* *
49260586 ATACTAGAGATATATACGTACATATAT
1 ATACTACAGATATATACCTACATATAT
49260613 A
1 A
49260614 AAACATATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.72
29 7 0.28
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (27 bp):
ATACTACAGATATATACCTACATATAT
Found at i:49261854 original size:40 final size:40
Alignment explanation
Indices: 49261795--49261979 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
49261785 CGGATGATAA
*
49261795 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
49261835 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
49261875 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* * *
49261915 CCGGGCTAAGTTCCGAAGGCATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
*
49261955 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
49261980 AGTGAGTAGC
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 1 0.01
40 130 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:49276590 original size:18 final size:18
Alignment explanation
Indices: 49276563--49276603 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
49276553 TGACTACTCC
49276563 CTTG-AGAGATTGGCTAA
1 CTTGTAGAGATTGGCTAA
49276580 CTTGTAGAGATTGGCTAA
1 CTTGTAGAGATTGGCTAA
49276598 CTTGTA
1 CTTGTA
49276604 TGTTTCTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (18 bp):
CTTGTAGAGATTGGCTAA
Found at i:49280754 original size:21 final size:22
Alignment explanation
Indices: 49280722--49280764 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
49280712 ATTTGAGTGT
*
49280722 ATAAATCGATTTT-TTGATTTA
1 ATAAATCGATTTTATTAATTTA
49280743 ATAAAT-GAATTTTATTAATTTA
1 ATAAATCG-ATTTTATTAATTTA
49280765 GATCAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 1 0.05
21 11 0.58
22 7 0.37
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (22 bp):
ATAAATCGATTTTATTAATTTA
Found at i:49283102 original size:85 final size:85
Alignment explanation
Indices: 49282959--49283118 Score: 284
Period size: 85 Copynumber: 1.9 Consensus size: 85
49282949 TATCAAGCAC
* * * *
49282959 ACCTTTTCTCACATACTTTTGAGCTAACATCGAAGATATCACTGCTGGTAAACCATTCAGATCAT
1 ACCTTTTCTCACATACTTCTAAGCTAACATCAAAGATATCACTGCCGGTAAACCATTCAGATCAT
49283024 TAGATTCAATAAGCTTCACA
66 TAGATTCAATAAGCTTCACA
49283044 ACCTTTTCTCACATACTTCTAAGCTAACATCAAAGATATCACTGCCGGTAAACCATTCAGATCAT
1 ACCTTTTCTCACATACTTCTAAGCTAACATCAAAGATATCACTGCCGGTAAACCATTCAGATCAT
49283109 TAGATTCAAT
66 TAGATTCAAT
49283119 CTGAATAATC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (85 bp):
ACCTTTTCTCACATACTTCTAAGCTAACATCAAAGATATCACTGCCGGTAAACCATTCAGATCAT
TAGATTCAATAAGCTTCACA
Found at i:49286908 original size:42 final size:42
Alignment explanation
Indices: 49286771--49286934 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
49286761 CGTACAATGT
**
49286771 CAATGTCCCAGATGTGGTCTTACATGCAATCACATATCGATGC
1 CAATGTCCCAGACATGGTCTTACATG-AATCACATATCGATGC
* * * *
49286814 CACTGTCCCAGACAGGGTCTTACACGAATCAAATA-CGATGC
1 CAATGTCCCAGACATGGTCTTACATGAATCACATATCGATGC
* * * *
49286855 CAATATTCCAGACATGTTCTTACATGTATCACATATCGATGC
1 CAATGTCCCAGACATGGTCTTACATGAATCACATATCGATGC
* *
49286897 CAATGTCCCAGACGTGGTCTTACATGAGAACACATATC
1 CAATGTCCCAGACATGGTCTTACATGA-ATCACATATC
49286935 AAAAATCCTT
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
41 33 0.33
42 36 0.36
43 30 0.30
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (42 bp):
CAATGTCCCAGACATGGTCTTACATGAATCACATATCGATGC
Found at i:49288796 original size:46 final size:46
Alignment explanation
Indices: 49288746--49288921 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
49288736 TGGTTGAGCA
49288746 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49288792 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
49288837 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49288885 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49288922 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49288902 original size:93 final size:93
Alignment explanation
Indices: 49288743--49288914 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49288733 GGATGGTTGA
* *
49288743 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49288808 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
49288836 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49288901 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
49288915 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49296379 original size:46 final size:46
Alignment explanation
Indices: 49296329--49296500 Score: 272
Period size: 46 Copynumber: 3.7 Consensus size: 46
49296319 TGGTTGGGCA
*
49296329 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
49296375 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
49296421 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATCCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49296467 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49296501 GGGGCGGTTT
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 117 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49297673 original size:50 final size:50
Alignment explanation
Indices: 49297616--49297716 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
49297606 ATATATATGA
49297616 GTCTAGATTTAGGAAAAATTTACGGATCTAGATTTCGAGTTTCGTAACTC
1 GTCTAGATTTAGGAAAAATTTACGGATCTAGATTTCGAGTTTCGTAACTC
49297666 GTCTAGATTTAGGAAAAATTTACGGATCTAGATTTCGAGTTTCGTAACTC
1 GTCTAGATTTAGGAAAAATTTACGGATCTAGATTTCGAGTTTCGTAACTC
49297716 G
1 G
49297717 AGATATGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (50 bp):
GTCTAGATTTAGGAAAAATTTACGGATCTAGATTTCGAGTTTCGTAACTC
Found at i:49301164 original size:42 final size:43
Alignment explanation
Indices: 49301053--49301209 Score: 128
Period size: 42 Copynumber: 3.7 Consensus size: 43
49301043 ATCTCGTAAA
* *
49301053 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
* * * *
49301096 ATG-CACTATCCTAGACAG-GGTTTTACACG-ACATCAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTA-ATCAAATATCG
* * *
49301137 ATGCCAATGTCCCAAACGTGGTCTTACACGTAAATCATAA-GTCA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGT-AATCA-AATATCG
** *
49301181 ACACCAACGT-CCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
49301210 ACCACACATA
Statistics
Matches: 89, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
41 7 0.08
42 45 0.51
43 26 0.29
44 11 0.12
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:49304135 original size:15 final size:15
Alignment explanation
Indices: 49304115--49304146 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
49304105 TTCTGAGTCA
49304115 TCAGCTATTTCAAAC
1 TCAGCTATTTCAAAC
49304130 TCAGCTATTTCAAAC
1 TCAGCTATTTCAAAC
49304145 TC
1 TC
49304147 TTATGATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (15 bp):
TCAGCTATTTCAAAC
Found at i:49315409 original size:37 final size:37
Alignment explanation
Indices: 49315309--49315411 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
49315299 CAAATAGTCC
* *
49315309 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
49315346 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
49315383 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
49315412 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:49315610 original size:48 final size:48
Alignment explanation
Indices: 49315552--49316430 Score: 1704
Period size: 48 Copynumber: 18.3 Consensus size: 48
49315542 ATATACACAC
*
49315552 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49315600 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49315648 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49315696 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49315744 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49315792 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49315840 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49315888 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49315936 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49315984 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49316032 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49316080 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49316128 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49316176 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49316224 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49316272 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49316320 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* ** *
49316368 ATCTCATACATATTTCACACTAGCCATTCATCTTTACCTCATATACAT
1 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
49316416 ATCTCATACATATTT
1 ATCTCGTACATATTT
49316431 ATCTTGTACA
Statistics
Matches: 826, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 826 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (48 bp):
ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:49323189 original size:13 final size:13
Alignment explanation
Indices: 49323171--49323207 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
49323161 AGCAATCGAA
49323171 CACGGGCGTGTGC
1 CACGGGCGTGTGC
49323184 CACGGGCGTGTGC
1 CACGGGCGTGTGC
49323197 CACGGGCGTGT
1 CACGGGCGTGT
49323208 CCCTGCCGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.08, C:0.30, G:0.46, T:0.16
Consensus pattern (13 bp):
CACGGGCGTGTGC
Found at i:49323588 original size:20 final size:20
Alignment explanation
Indices: 49323563--49323605 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
49323553 AAATATTTAA
49323563 CTTGTTCTTAATTATGTGTT
1 CTTGTTCTTAATTATGTGTT
49323583 CTTGTTCTTAATTATGTGTT
1 CTTGTTCTTAATTATGTGTT
49323603 CTT
1 CTT
49323606 AATTCTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.60
Consensus pattern (20 bp):
CTTGTTCTTAATTATGTGTT
Found at i:49327830 original size:42 final size:43
Alignment explanation
Indices: 49327727--49327884 Score: 153
Period size: 42 Copynumber: 3.7 Consensus size: 43
49327717 TATGTGATTT
* * * * *
49327727 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGATTTG
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-TATATGAGTTA
* * *
49327771 CGTGTAAGAGCATGTCTGGGACATCGGCATCGTATATGAGTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGTATATGAGTTA
* * *
49327813 CGTGTAAGACC-CTGTCTGGGAAAGTGGCATCG-ATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGTATATGAG-TTA
*
49327856 CATGTAAGACCACGTC-GGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
49327885 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
41 6 0.06
42 39 0.41
43 20 0.21
44 29 0.31
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGTATATGAGTTA
Done.