Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 166 of 332
Found at i:54814003 original size:21 final size:21
Alignment explanation
Indices: 54813939--54814004 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
54813929 ACTTAGAGTG
* **
54813939 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAAACA
* * **
54813960 GCGGTAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAAACA
*
54813981 GAGGCAGCAGCGATGGAAACA
1 GAGGCAGCAGCGAGGGAAACA
54814002 GAG
1 GAG
54814005 CAGAGCAGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.32, C:0.17, G:0.48, T:0.03
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAAACA
Found at i:54830151 original size:49 final size:46
Alignment explanation
Indices: 54830098--54830266 Score: 161
Period size: 45 Copynumber: 3.6 Consensus size: 46
54830088 GTAAGGAGTT
54830098 GATGCTATGTCCCAGACATGGTCTTACACAAGCTCTAACATATCTTGCC
1 GATGC-ATGTCCCAGACATGGTCTTACAC-AGCTCT-ACATATCTTGCC
* * * * *
54830147 GATGCCATGTCCCTGACACGGTCTTACACCGC-C-ACATCTCATAGCC
1 GATG-CATGTCCCAGACATGGTCTTACACAGCTCTACATATC-TTGCC
*
54830193 GATGCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-TTGGCC
1 GATGCATGTCCCAGACATGGTCTTACAC-AGCTCTACAT-ATCTT-GCC
54830240 GATGCATG-CCCTAGACAT-GTCTTACAC
1 GATGCATGTCCC-AGACATGGTCTTACAC
54830267 TAGCCCACAG
Statistics
Matches: 102, Mismatches: 10, Indels: 19
0.78 0.08 0.15
Matches are distributed among these distances:
45 28 0.27
46 23 0.23
47 22 0.22
48 3 0.03
49 25 0.25
50 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACAGCTCTACATATCTTGCC
Found at i:54834241 original size:30 final size:30
Alignment explanation
Indices: 54834205--54834265 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
54834195 GACATTCCTT
54834205 TTGCAGTAGGTTATGTCACGGTGGGATGAG
1 TTGCAGTAGGTTATGTCACGGTGGGATGAG
54834235 TTGCAGTAGGTTATGTCACGGTGGGATGAG
1 TTGCAGTAGGTTATGTCACGGTGGGATGAG
54834265 T
1 T
54834266 CATGCACTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.10, G:0.39, T:0.31
Consensus pattern (30 bp):
TTGCAGTAGGTTATGTCACGGTGGGATGAG
Found at i:54839004 original size:87 final size:89
Alignment explanation
Indices: 54838877--54839048 Score: 244
Period size: 87 Copynumber: 2.0 Consensus size: 89
54838867 TTTCATCGCT
* * *
54838877 GTTCAACGGATTTTATTCCAATTTTTATTTTATTTCCAAAAACGAG-TATTAAAATTAAAATAAA
1 GTTCAACGGATTTTATTACAATTTTGATTTTATTTCCAAAAACGAGAAATTAAAATT-AAATAAA
*
54838941 ATCTGTTTTGGGATTTATTCCCATC
65 ATCTATTTTGGGATTTATTCCCATC
* *
54838966 GTTCAACGGA-TTTATTAC-ATTTTGATTTTGTTGT-CAAAAATGAGAAATTAAAATTAAATAAA
1 GTTCAACGGATTTTATTACAATTTTGATTTTATT-TCCAAAAACGAGAAATTAAAATTAAATAAA
54839028 ATCTATTTTGGGATTTATTCC
65 ATCTATTTTGGGATTTATTCC
54839049 TGTAGTTTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
87 48 0.64
88 17 0.23
89 10 0.13
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (89 bp):
GTTCAACGGATTTTATTACAATTTTGATTTTATTTCCAAAAACGAGAAATTAAAATTAAATAAAA
TCTATTTTGGGATTTATTCCCATC
Found at i:54843718 original size:43 final size:43
Alignment explanation
Indices: 54843574--54843722 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 43
54843564 GATTACTGAG
* *
54843574 ATGTGATTACATGTAAGACCCTATTTGGGACATTGGCAT-TAT
1 ATGTGATTACATGTAAGACCCTGTTTGGGACATTGGCATCGAT
* * * * *
54843616 ATTGTGCTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCCTGTTTGGGACATTGGCATCGAT
* * ***
54843660 AT-TCGATTTCGTGTAAGACCCTGTTTGGGACAGAAGCATCGAT
1 ATGT-GATTACATGTAAGACCCTGTTTGGGACATTGGCATCGAT
*
54843703 ATGTGATAACATGTAAGACC
1 ATGTGATTACATGTAAGACC
54843723 ATATCTGGGA
Statistics
Matches: 85, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
42 2 0.02
43 80 0.94
44 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCCTGTTTGGGACATTGGCATCGAT
Found at i:54843732 original size:43 final size:43
Alignment explanation
Indices: 54843574--54843740 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
54843564 GATTACTGAG
* * *
54843574 ATGTGATTACATGTAAGACCCTATTTGGGACATTGGCAT-TAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGAT
* * * *
54843616 ATTGTGCTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGAT
* * * * * ***
54843660 AT-TCGATTTCGTGTAAGACCCTGTTTGGGACAGAAGCATCGAT
1 ATGT-GATTACATGTAAGACCATATCTGGGACATTGGCATCGAT
* *
54843703 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCAT
54843741 TGTAGGAGCT
Statistics
Matches: 97, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 6 0.06
43 88 0.91
44 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGAT
Found at i:54850577 original size:24 final size:24
Alignment explanation
Indices: 54850526--54850578 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
54850516 TTTAGTGTTT
* *
54850526 ATTAGTATAATATATTTAGCATTT
1 ATTAGCATAATATATTTAGCATTG
54850550 ATTAGCATAATATATTT-GACATTG
1 ATTAGCATAATATATTTAG-CATTG
54850574 ATTAG
1 ATTAG
54850579 AATTAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (24 bp):
ATTAGCATAATATATTTAGCATTG
Found at i:54851627 original size:37 final size:37
Alignment explanation
Indices: 54851574--54851676 Score: 181
Period size: 37 Copynumber: 2.8 Consensus size: 37
54851564 CGAATAGTCC
*
54851574 CCACACGTAGTTATCGGGTCTTACCCGGACGA-AATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGAC-ATAATCT
54851611 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
54851648 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
54851677 ATATATTTCC
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
36 1 0.02
37 63 0.98
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:54851875 original size:48 final size:48
Alignment explanation
Indices: 54851817--54852588 Score: 1215
Period size: 48 Copynumber: 16.0 Consensus size: 48
54851807 ATATACACAC
* *
54851817 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54851865 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54851913 ATCTCATACATATTTCAC-TCTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACAT-TAGCCATTCGGCTTTACCACATATACAT
* * *
54851961 ATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54852009 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54852057 ATCTCATTCATATTTCAC-TCTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACAT-TAGCCATTCGGCTTTACCACATATACAT
* * *
54852105 ATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54852153 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54852201 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
54852249 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54852297 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54852345 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
54852393 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTA-C-CACATATACAT
*
54852443 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
54852491 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
54852539 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
54852587 AT
1 AT
54852589 ATATTTATCT
Statistics
Matches: 668, Mismatches: 50, Indels: 12
0.92 0.07 0.02
Matches are distributed among these distances:
47 1 0.00
48 621 0.93
49 4 0.01
50 42 0.06
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:54856616 original size:40 final size:40
Alignment explanation
Indices: 54856570--54856855 Score: 428
Period size: 40 Copynumber: 7.2 Consensus size: 40
54856560 CCGAATACAC
* * * * *
54856570 ATCACCAGCATGATTGCTCTTTGGGACCTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * * *
54856610 AACACCAGCACGAATGCTCTTCAGGACTTAACCCTGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * *
54856650 AACTCTAGCACGAATGCTCTTCGAGACTTAGCCCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
54856690 ATCACTAGCACGAATTCTCTTCAGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
54856730 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
54856770 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
54856810 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
54856850 ATCACT
1 ATCACT
54856856 CTCAATTCTC
Statistics
Matches: 223, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:54858134 original size:37 final size:37
Alignment explanation
Indices: 54858081--54858183 Score: 181
Period size: 37 Copynumber: 2.8 Consensus size: 37
54858071 CGAATAGTCC
*
54858081 CCACACGTAGTTATCGGGTCTTACCCGGACGA-AATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGAC-ATAATCT
54858118 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
54858155 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
54858184 ATATATTTCC
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
36 1 0.02
37 63 0.98
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:54858382 original size:48 final size:48
Alignment explanation
Indices: 54858324--54859283 Score: 1498
Period size: 48 Copynumber: 20.0 Consensus size: 48
54858314 ATATACACAC
* *
54858324 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54858372 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54858420 ATCTCATACATATTTCAC-TCTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACAT-TAGCCATTCGGCTTTACCACATATACAT
* *
54858468 ATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATAT--AT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54858514 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
54858562 ATCTCATACATATTTCAC-TCTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACAT-TAGCCATTCGGCTTTACCACATATACAT
* * *
54858610 ATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
54858658 ATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54858706 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
54858754 ATCTCATACATATTTCAC-TCTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACAT-TAGCCATTCGGCTTTACCACATATACAT
* * *
54858802 ATCTCATATATATTTCACATTAGCCATTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54858850 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
54858898 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
54858946 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54858994 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
54859042 ATCTCATACATATTTCACACTAGTCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * * *
54859090 ATCTCATACATATATCATACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54859138 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
54859186 ATCTCGTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * * *
54859234 ATCTCATACATATATCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
54859282 AT
1 AT
54859284 TTATCTTGTA
Statistics
Matches: 846, Mismatches: 58, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
46 43 0.05
47 2 0.00
48 798 0.94
49 3 0.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:54864016 original size:40 final size:40
Alignment explanation
Indices: 54863959--54864130 Score: 157
Period size: 40 Copynumber: 4.2 Consensus size: 40
54863949 GTTATGATTA
54863959 TCGGCTAAAA-TGGCACTTAGTGTGCGGTTCGAAATAGCT
1 TCGGCTAAAAGTGGCACTTAGTGTGCGGTTCGAAATAGCT
* * ** * *
54863998 TTGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAAGTGGCACTTAGTGTGCGGTTCGAAATAGCT
* **
54864038 TCGGCTATATATATAAATTTCACTTAGTGTGCGGTTCGAAATAGCT
1 TCGGC----TA-A-AAGTGGCACTTAGTGTGCGGTTCGAAATAGCT
* ** * *
54864084 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAAGTGGCACTTAGTGTGCGGTTCGAAATAGCT
54864124 TCGGCTA
1 TCGGCTA
54864131 TATATATATA
Statistics
Matches: 103, Mismatches: 23, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
39 9 0.09
40 59 0.57
41 1 0.01
42 2 0.02
44 2 0.02
45 1 0.01
46 29 0.28
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (40 bp):
TCGGCTAAAAGTGGCACTTAGTGTGCGGTTCGAAATAGCT
Found at i:54864117 original size:86 final size:86
Alignment explanation
Indices: 54863972--54864138 Score: 325
Period size: 86 Copynumber: 1.9 Consensus size: 86
54863962 GCTAAAATGG
*
54863972 CACTTAGTGTGCGGTTCGAAATAGCTTTGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGC
1 CACTTAGTGTGCGGTTCGAAATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGC
54864037 TTCGGCTATATATATAAATTT
66 TTCGGCTATATATATAAATTT
54864058 CACTTAGTGTGCGGTTCGAAATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGC
1 CACTTAGTGTGCGGTTCGAAATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGC
54864123 TTCGGCTATATATATA
66 TTCGGCTATATATATA
54864139 TATAAATGAC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (86 bp):
CACTTAGTGTGCGGTTCGAAATAGCTTCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGC
TTCGGCTATATATATAAATTT
Found at i:54865027 original size:15 final size:15
Alignment explanation
Indices: 54865007--54865037 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54864997 GTAAAAATGC
54865007 AAATATGATTGTATT
1 AAATATGATTGTATT
*
54865022 AAATATGGTTGTATT
1 AAATATGATTGTATT
54865037 A
1 A
54865038 CCTTGAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (15 bp):
AAATATGATTGTATT
Found at i:54868539 original size:24 final size:24
Alignment explanation
Indices: 54868511--54868567 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
54868501 AAGAATTAGT
*
54868511 ATTTATTAGTATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
*
54868535 ATTTATTAGCATAATATATTTCAC
1 ATTTATTAGCATAATATATTTAAC
*
54868559 ATTGATTAG
1 ATTTATTAG
54868568 AATTAGGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Found at i:54871341 original size:19 final size:18
Alignment explanation
Indices: 54871317--54871364 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
54871307 ATTCAGGACT
54871317 AATTTGAAACAAA-TTAGAA
1 AATTTGAAA-AAAGTT-GAA
54871336 AATTTGGAAAAAAGTTGAA
1 AATTT-GAAAAAAGTTGAA
*
54871355 ACTTTGAAAA
1 AATTTGAAAA
54871365 CAGGGGTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.19
19 15 0.58
20 6 0.23
ACGTcount: A:0.54, C:0.04, G:0.15, T:0.27
Consensus pattern (18 bp):
AATTTGAAAAAAGTTGAA
Found at i:54877436 original size:50 final size:50
Alignment explanation
Indices: 54877377--54877493 Score: 164
Period size: 50 Copynumber: 2.3 Consensus size: 50
54877367 GCCAAATCCT
*
54877377 AGACATGGTCTTACACTAACTCTT-ATATATCGAGACTGATACCATGTCCC
1 AGACATGGTCTTACACTAACT-TTCAGATATCGAGACTGATACCATGTCCC
* * * * *
54877427 AGACATGGTCTTACACTAGCTTTCAGGTCTCGAGGCTGATGCCATGTCCC
1 AGACATGGTCTTACACTAACTTTCAGATATCGAGACTGATACCATGTCCC
54877477 AGACATGGTCTTACACT
1 AGACATGGTCTTACACT
54877494 GGATCTCATA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 2 0.03
50 58 0.97
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (50 bp):
AGACATGGTCTTACACTAACTTTCAGATATCGAGACTGATACCATGTCCC
Found at i:54892220 original size:42 final size:43
Alignment explanation
Indices: 54892165--54892246 Score: 132
Period size: 42 Copynumber: 1.9 Consensus size: 43
54892155 TGTGTCTCAT
54892165 AATCATGAACTCAG-ACTACAACTC-ATGAGTTCAAATCACATA
1 AATCATGAACTCAGAAC-ACAACTCAATGAGTTCAAATCACATA
*
54892207 AATCATGAACTCAGAACACAACTCAATGAGTTCAGATCAC
1 AATCATGAACTCAGAACACAACTCAATGAGTTCAAATCAC
54892247 GTAATTCTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 21 0.57
43 16 0.43
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (43 bp):
AATCATGAACTCAGAACACAACTCAATGAGTTCAAATCACATA
Found at i:54900087 original size:42 final size:43
Alignment explanation
Indices: 54900024--54900105 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
54900014 TGTGTCTCGT
*
54900024 AATCATAAACTCAAACTACAACTC-ATGAGTTCAAATCACATA
1 AATCATAAACTCAAACCACAACTCAATGAGTTCAAATCACATA
* * *
54900066 AATCATGAACTCAGACCACAACTCAATGAGTTCAGATCAC
1 AATCATAAACTCAAACCACAACTCAATGAGTTCAAATCAC
54900106 GTAATTCCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 21 0.60
43 14 0.40
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.22
Consensus pattern (43 bp):
AATCATAAACTCAAACCACAACTCAATGAGTTCAAATCACATA
Found at i:54900833 original size:21 final size:22
Alignment explanation
Indices: 54900808--54900862 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
54900798 AACAGCGGTG
* *
54900808 GCGGTGAGATTAGT-TACTGTA
1 GCGGTGAGATTAGTATAATATA
54900829 GCGGTGAGATT-GTATAATATA
1 GCGGTGAGATTAGTATAATATA
54900850 GCGGTGAGATTAG
1 GCGGTGAGATTAG
54900863 AAATAGCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.07, G:0.35, T:0.31
Consensus pattern (22 bp):
GCGGTGAGATTAGTATAATATA
Found at i:54900870 original size:18 final size:21
Alignment explanation
Indices: 54900827--54900873 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
54900817 TTAGTTACTG
*
54900827 TAGCGGTGAGATTGTATAATA
1 TAGCGGTGAGATTGTAGAATA
54900848 TAGCGGTGAGA-T-TAGAA-A
1 TAGCGGTGAGATTGTAGAATA
54900866 TAGCGGTG
1 TAGCGGTG
54900874 GAGTGTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 4 0.16
20 1 0.04
21 11 0.44
ACGTcount: A:0.32, C:0.06, G:0.34, T:0.28
Consensus pattern (21 bp):
TAGCGGTGAGATTGTAGAATA
Found at i:54904218 original size:5 final size:5
Alignment explanation
Indices: 54904208--54904243 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
54904198 TGGTAATTAT
54904208 AATAA AATAA AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA A
54904244 GCCAAATTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:54905923 original size:15 final size:15
Alignment explanation
Indices: 54905905--54905936 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
54905895 TACTACTTCA
54905905 TATTATTATTATATT
1 TATTATTATTATATT
*
54905920 TATTATTATTATTTT
1 TATTATTATTATATT
54905935 TA
1 TA
54905937 AATATTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTATTATTATATT
Found at i:54906080 original size:26 final size:26
Alignment explanation
Indices: 54906026--54906081 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
54906016 ATTATTATTC
*
54906026 TTTAATATATATATATTATGCATATAT
1 TTTAATATATATATATTAT-CATACAT
54906053 TTTAATACTATAT-TATATAT-ATACAT
1 TTTAATA-TATATATAT-TATCATACAT
54906079 TTT
1 TTT
54906082 TACAGTATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 8 0.31
27 10 0.38
28 8 0.31
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTAATATATATATATTATCATACAT
Found at i:54906325 original size:106 final size:106
Alignment explanation
Indices: 54906190--54906407 Score: 402
Period size: 108 Copynumber: 2.0 Consensus size: 106
54906180 ATATATATCC
54906190 TTATATATTATATGTATATTTAGTATTATATTTTTATATCTATGTTTTTAATACCATAC-TATAT
1 TTATATATTATATGTATATTTAGTATTATATTTTTATATCTATGTTTTTAATACCATACATATAT
54906254 ATATTATTATATTTTATTACATAATTAGTACACATGTTTTA
66 ATATTATTATATTTTATTACATAATTAGTACACATGTTTTA
54906295 TTATATATTATATGTATATTTTAGTATTATATTTTTATATCTATGTTTTTAATACCATACTATAT
1 TTATATATTATATGTATA-TTTAGTATTATATTTTTATATCTATGTTTTTAATACCATAC-ATAT
54906360 ATATATTATTATATTTTATTACATAATTAGTACACATGTTTTA
64 ATATATTATTATATTTTATTACATAATTAGTACACATGTTTTA
*
54906403 GTATA
1 TTATA
54906408 CGTGTATATA
Statistics
Matches: 109, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
105 18 0.17
106 41 0.38
108 50 0.46
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.54
Consensus pattern (106 bp):
TTATATATTATATGTATATTTAGTATTATATTTTTATATCTATGTTTTTAATACCATACATATAT
ATATTATTATATTTTATTACATAATTAGTACACATGTTTTA
Found at i:54906628 original size:15 final size:15
Alignment explanation
Indices: 54906610--54906643 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
54906600 TATATACTAT
54906610 GTATACATATATTTA
1 GTATACATATATTTA
**
54906625 GTATGTATATATTTA
1 GTATACATATATTTA
54906640 GTAT
1 GTAT
54906644 TATTACACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (15 bp):
GTATACATATATTTA
Found at i:54906804 original size:4 final size:4
Alignment explanation
Indices: 54906797--54906826 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
54906787 CATACACATA
54906797 TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TA
54906827 ATATTATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:54907003 original size:25 final size:25
Alignment explanation
Indices: 54906975--54907025 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
54906965 TATTATCATA
54906975 TTTA-TTATTTACTTTAATATATTTT
1 TTTAGTTATTT-CTTTAATATATTTT
* * *
54907000 TTTAGTTCTTTCTTTTATCTATTTT
1 TTTAGTTATTTCTTTAATATATTTT
54907025 T
1 T
54907026 ATTTCATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTAGTTATTTCTTTAATATATTTT
Found at i:54907196 original size:12 final size:12
Alignment explanation
Indices: 54907179--54907204 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
54907169 CGCCCTTCTC
54907179 AAAAAACTAAAA
1 AAAAAACTAAAA
54907191 AAAAAACTAAAA
1 AAAAAACTAAAA
54907203 AA
1 AA
54907205 CTAAAACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAAAACTAAAA
Found at i:54919030 original size:74 final size:75
Alignment explanation
Indices: 54918908--54919072 Score: 215
Period size: 74 Copynumber: 2.2 Consensus size: 75
54918898 TCAATTTCTA
* * * * * * *
54918908 TTCAATTTATAATTTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGGGCCTCGGGGCATG
1 TTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGGCAAG
54918973 CTGAGGTATT
66 CTGAGGTATT
* *
54918983 TTCAATTTCTATTTTTC-AAAAAATTAACTCATATTGCGAAAGGTGAGTTGAGCTTCAGGGCAAG
1 TTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGGCAAG
*
54919047 TTGAGGTATT
66 CTGAGGTATT
* *
54919057 TTCAATTCCTTTTTTT
1 TTCAATTTCTATTTTT
54919073 TTTGCATGTT
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
74 63 0.81
75 15 0.19
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (75 bp):
TTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGGCAAG
CTGAGGTATT
Found at i:54919278 original size:14 final size:13
Alignment explanation
Indices: 54919245--54919278 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
54919235 GCTGAGGTAA
54919245 TTTCAATTTCTGT
1 TTTCAATTTCTGT
54919258 TTCTCAATTTCTGCT
1 TT-TCAATTTCTG-T
54919273 TTTCAA
1 TTTCAA
54919279 AAAAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 14 0.74
15 3 0.16
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (13 bp):
TTTCAATTTCTGT
Found at i:54919315 original size:90 final size:87
Alignment explanation
Indices: 54919161--54919773 Score: 399
Period size: 90 Copynumber: 6.8 Consensus size: 87
54919151 ATTCTGTTGC
* * * *
54919161 TCAAATTCTGTTTTT-AATTTCTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TCAAATTCTGTTTTTCAAATTAT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
54919225 CTCAGG-ACACGCTGAGGTAATT
65 CTCAGGCACACGCTGAGGTAATT
* * * *
54919247 TCAATTTCTGTTTCTCAATTTCTGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TCAAATTCTGTTTTTCAAATTATG-TTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *
54919312 AGCCT-TGGCTCACATGCTGAGGTATTT
62 AGCCTCAGG--CACACGCTGAGGTAATT
*
54919339 TCAAAATCTGTTTTTCAAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TCAAATTCTGTTTTTCAAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
54919404 TCAGGTCACATGCCGAGGT-ATT
66 TCAGG-CACACGCTGAGGTAATT
* * * * ** * *
54919426 CTCAAATTCTGTCTTTCAAACTCTGTTTTTAATTTTTACTTTTCAAAAACTCA-ACT-C-ATATT
1 -TCAAATTCTGTTTTTCAAATTATGTTTTCAA-----A--AATC---AACTCATATTGCGAGA--
* * * * *
54919488 GCGAGAAG-TGAGTTGAGCCT-TGGCTCGCATGCCGAGGT-ATT
53 G-GTG-AGTTGA-----GCCTCAGG--CACACGCTGAGGTAATT
*
54919529 TCCAATTTCTG-TTTT--AATTCATGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 T-CAAATTCTGTTTTTCAAATT-ATGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
54919591 GCCTCAGG-ACACGCTGAGGTATTT
63 GCCTCAGGCACACGCTGAGGTAATT
* * * *
54919615 TCAATTTTTGTTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TCAAATTCTG---TTTTTCAAATTAT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
** * * *
54919680 AGCCTTGGGTTCACATGCCGAGGTATTT
62 AGCCTCAGG--CACACGCTGAGGTAATT
* * * *
54919708 TCAAAATCTGTTTTTCAAATTATGTTTTCAAAAATCAACTCATATCGCGAGAAGTGAATTGAGCC
1 TCAAATTCTGTTTTTCAAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
54919773 T
66 T
54919774 TGGCTCACTT
Statistics
Matches: 421, Mismatches: 57, Indels: 95
0.73 0.10 0.17
Matches are distributed among these distances:
85 17 0.04
86 16 0.04
87 18 0.04
88 78 0.19
89 47 0.11
90 89 0.21
91 15 0.04
92 44 0.10
93 25 0.06
94 1 0.00
95 8 0.02
96 1 0.00
97 4 0.01
98 11 0.03
99 2 0.00
100 3 0.01
101 6 0.01
102 8 0.02
103 28 0.07
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (87 bp):
TCAAATTCTGTTTTTCAAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAGGCACACGCTGAGGTAATT
Found at i:54919413 original size:88 final size:88
Alignment explanation
Indices: 54919185--54919799 Score: 355
Period size: 88 Copynumber: 6.8 Consensus size: 88
54919175 TAATTTCTAC
* * *
54919185 TTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTT
** * * *
54919248 CAATTTCTGTTTCTCAATTTCTG
66 CAAAATCTGTTTTTCAAATTATG
*
54919271 CTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGT
1 -TTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGT
54919335 ATTTTCAAAATCTGTTTTTCAAATTATG
61 ATTTTCAAAATCTGTTTTTCAAATTATG
* *
54919363 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTT
* * * *
54919428 CAAATTCTGTCTTTCAAACTCTG
66 CAAAATCTGTTTTTCAAATTATG
* ** * * * * * *
54919451 TTTTTAATTTTTACTTTTCAAAAACTCA-ACT-C-ATATTGCGAGAAG-TGAG-TTGA-G-C-CT
1 TTTTCAA-----A--AATC---AACTCATATTGCGAGA--G-GTG-AGTTGAGCCTCAGGTCACA
* * **** * **
54919508 TGGCTCGCATGCCG-AGGTATTTCCA-AT-TTCTGTTTTAATTCATG
52 T-GCT-G-A-G--GTA-TTTTCAAAATCTGTT-T-TTCAAATT-ATG
*
54919552 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTT
1 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTT
** * * *
54919615 TCAATTTTTGTTTTTTTTCAATTTATAT
65 TCAAAATCTG---TTTTTCAAATTAT-G
** *
54919643 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTTCACATGCCGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGTATTT
54919708 TCAAAATCTGTTTTTCAAATTATG
65 TCAAAATCTGTTTTTCAAATTATG
* * * * * *
54919732 TTTTCAAAAATCAACTCATATCGCGAGAAGTGAATTGAGCCT-TGGCTCACTTGCTGAGCTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGTATTT
54919796 TCAA
65 TCAA
54919800 TCCCTATTTT
Statistics
Matches: 401, Mismatches: 78, Indels: 97
0.70 0.14 0.17
Matches are distributed among these distances:
87 5 0.01
88 103 0.26
89 45 0.11
90 90 0.22
91 18 0.04
92 47 0.12
93 32 0.08
94 5 0.01
95 11 0.03
96 3 0.01
97 7 0.02
98 14 0.03
99 5 0.01
100 8 0.02
101 6 0.01
102 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (88 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTT
CAAAATCTGTTTTTCAAATTATG
Found at i:54919558 original size:280 final size:276
Alignment explanation
Indices: 54918984--54919735 Score: 884
Period size: 280 Copynumber: 2.7 Consensus size: 276
54918974 TGAGGTATTT
** * * * * * *
54918984 TCAATTTCTATTTTTCAAAAAATTAACTCATATTGCGAAAGGTGAGTTGAGCTTCAGGGCAAGTT
1 TCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * **
54919049 GAGGTATTTTC-AATTCCT-TTTTTT---TTTGCATGTTTTCAAAAAAATCAACTCATATTGTAA
66 GAGGTATTTTCAAAAT-CTGTTTTTTCAAATT--ATGTTTTC--AAAAATCAACTCATATTGCGA
* * * *
54919109 GAGGTGAGTTGAGCCTTGGGCCACATACCAAGGTATTTTCAAATTCTGTTGCTCAAATTCTGTTT
126 GAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATTTTCAAATTCTGTT-TTCAAATTCTGTTT
* *
54919174 TTAATTTCTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
190 TTAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTG
54919239 AGGTAATTTCAATTTCTGTTTC
255 AGGTAATTTCAATTTCTGTTTC
*
54919261 TCAATTTCTGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCAC
1 TCAATTTCTGCTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
*
54919325 ATGCTGAGGTATTTTCAAAATCTG-TTTTTCAAATTATGTTTTCAAAAATCAACTCATATTGCGA
61 ACGCTGAGGTATTTTCAAAATCTGTTTTTTCAAATTATGTTTTCAAAAATCAACTCATATTGCGA
** * *
54919389 GAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTCTCAAATTCTGTCTTTCAAACTCTGTTT
126 GAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATTTTCAAATTCTGT-TTTCAAATTCTGTTT
* * *
54919454 TTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGG-CTCGCA
190 TTAATTTCTACTTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGC-
54919517 TGCCGAGGT-ATTTCCAATTTCTGTTT-
253 T---GAGGTAATTT-CAATTTCTGTTTC
54919543 T-AA-TTCATG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TCAATTTC-TGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
** * * *
54919605 TGAGGTATTTTCAATTTTTGTTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAG
65 TGAGGTATTTTCAAAATCTG--TTTTTTCAAATTAT-GTTTTCAAAAATCAACTCATATTGCGAG
* *
54919670 AGGTGAGTTGAGCCTTGGGTTCACATGCCGAGGTATTTTCAAAATCTGTTTTTCAAATTATGTTT
127 AGGTGAGTTGAGCCTTGGG-TCACATGCCGAGGTATTTTCAAATTCTG-TTTTCAAATTCTGTTT
54919735 T
190 T
54919736 CAAAAATCAA
Statistics
Matches: 411, Mismatches: 39, Indels: 46
0.83 0.08 0.09
Matches are distributed among these distances:
276 22 0.05
277 14 0.03
278 40 0.10
279 53 0.13
280 148 0.36
281 98 0.24
282 17 0.04
283 17 0.04
284 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (276 bp):
TCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAAAATCTGTTTTTTCAAATTATGTTTTCAAAAATCAACTCATATTGCGAGAGGT
GAGTTGAGCCTTGGGTCACATGCCGAGGTATTTTCAAATTCTGTTTTCAAATTCTGTTTTTAATT
TCTACTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
TTTCAATTTCTGTTTC
Found at i:54919645 original size:17 final size:17
Alignment explanation
Indices: 54919612--54919646 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
54919602 CGCTGAGGTA
* *
54919612 TTTTCAATTTTTGTTTT
1 TTTTCAATTTATATTTT
54919629 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
54919646 T
1 T
54919647 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:54919770 original size:89 final size:88
Alignment explanation
Indices: 54919439--54919799 Score: 376
Period size: 89 Copynumber: 4.1 Consensus size: 88
54919429 AAATTCTGTC
* * * *
54919439 TTTCAAACTCTGTTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTCAAATTCTGTTTTTAAATTATAGTTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGA
*
54919504 GCCTTGGCTCGCATGCCGAGGTAT
65 GCCTTGGCTCACATGCCGAGGTAT
* * *
54919528 TTCCAATTTCTG-TTTT-AATTCAT-GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTCAAATTCTGTTTTTAAATT-ATAGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTG
* * *
54919590 AGCCTCAGG---ACACGCTGAGGTAT
64 AGCCT-TGGCTCACATGCCGAGGTAT
* * * * *
54919613 TTTCAATTTTTGTTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTCAAATTCTG---TTTTT-AAATTATAGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGT
*
54919678 TGAGCCTTGGGTTCACATGCCGAGGTAT
62 TGAGCCTT-GGCTCACATGCCGAGGTAT
* * *
54919706 TTTCAAAATCTGTTTTTCAAATTAT-GTTTTCAAAAATCAACTCATATCGCGAGAAGTGAATTGA
1 TTTCAAATTCTGTTTTT-AAATTATAGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
* * *
54919770 GCCTTGGCTCACTTGCTGAGCTAT
65 GCCTTGGCTCACATGCCGAGGTAT
54919794 TTTCAA
1 TTTCAA
54919800 TCCCTATTTT
Statistics
Matches: 228, Mismatches: 30, Indels: 29
0.79 0.10 0.10
Matches are distributed among these distances:
85 21 0.09
87 39 0.17
88 33 0.14
89 53 0.23
90 53 0.23
91 8 0.04
93 21 0.09
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (88 bp):
TTTCAAATTCTGTTTTTAAATTATAGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
CCTTGGCTCACATGCCGAGGTAT
Found at i:54922357 original size:15 final size:15
Alignment explanation
Indices: 54922339--54922372 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
54922329 TATATACTAT
54922339 GTATACATATATTTA
1 GTATACATATATTTA
**
54922354 GTATGTATATATTTA
1 GTATACATATATTTA
54922369 GTAT
1 GTAT
54922373 TATTACACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (15 bp):
GTATACATATATTTA
Found at i:54922902 original size:11 final size:11
Alignment explanation
Indices: 54922886--54922910 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54922876 CGTCCTTCTC
54922886 AAAAAACTAAA
1 AAAAAACTAAA
54922897 AAAAAACTAAA
1 AAAAAACTAAA
54922908 AAA
1 AAA
54922911 CTAAAACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAACTAAA
Found at i:54923848 original size:28 final size:28
Alignment explanation
Indices: 54923801--54923868 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
54923791 ATATAAATGA
** * * *
54923801 CACTTAGTGTGCAATGTATCGAGGATGG
1 CACTTAGTGTGCAAAATATCCAGAATAG
*
54923829 CACTTATTGTGCAAAATATCCAGAATAG
1 CACTTAGTGTGCAAAATATCCAGAATAG
*
54923857 CACTTAGCGTGC
1 CACTTAGTGTGC
54923869 GAGGTAACGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTGCAAAATATCCAGAATAG
Found at i:54935597 original size:18 final size:18
Alignment explanation
Indices: 54935574--54935618 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
54935564 CCCATGTGGA
54935574 GGCCGTGTGGCGATACAT
1 GGCCGTGTGGCGATACAT
54935592 GGCCGTGTGGCGATACAT
1 GGCCGTGTGGCGATACAT
54935610 GGCCGTGTG
1 GGCCGTGTG
54935619 ATCGACGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.22, G:0.42, T:0.22
Consensus pattern (18 bp):
GGCCGTGTGGCGATACAT
Found at i:54936244 original size:40 final size:40
Alignment explanation
Indices: 54936178--54936255 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
54936168 TGCAGTACCT
* *
54936178 TATGGTGTGTAAGGACGGATGGGTCGATGGTATCCCCATA
1 TATGGTGTGCAAGGACGGATGCGTCGATGGTATCCCCATA
* * **
54936218 TATGGTGTGCAAGGATGGGTGCGTCGATTTTATCCCCA
1 TATGGTGTGCAAGGACGGATGCGTCGATGGTATCCCCA
54936256 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (40 bp):
TATGGTGTGCAAGGACGGATGCGTCGATGGTATCCCCATA
Found at i:54940129 original size:20 final size:17
Alignment explanation
Indices: 54940093--54940132 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
54940083 TTTTTAATTA
54940093 TTTTTATTTTTTCCTTT
1 TTTTTATTTTTTCCTTT
54940110 TTTTTATTTGTTAGTCCTTT
1 TTTTTATTT-TT--TCCTTT
54940130 TTT
1 TTT
54940133 CGTTTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 2 0.10
20 9 0.45
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTTCCTTT
Found at i:54946054 original size:62 final size:62
Alignment explanation
Indices: 54945973--54946113 Score: 185
Period size: 62 Copynumber: 2.3 Consensus size: 62
54945963 GTGTGAACGA
* *
54945973 CCGTATAACACACTGTTCATTATATAAAACCACACGGACAAGGACATAGG-CGTGTACCCAGG
1 CCGTGTAACTCACTGTTCATTATATAAAACCACACGGACAAGGACAT-GGACGTGTACCCAGG
* * * *
54946035 CCGTGTAACTCACTGTTCATTGTATAAAACCACACGGCCAGGGACATGGACGTGTGCCCAGG
1 CCGTGTAACTCACTGTTCATTATATAAAACCACACGGACAAGGACATGGACGTGTACCCAGG
* * *
54946097 CAGTGTGACTTACTGTT
1 CCGTGTAACTCACTGTT
54946114 TGTGCTTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 2 0.03
62 67 0.97
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (62 bp):
CCGTGTAACTCACTGTTCATTATATAAAACCACACGGACAAGGACATGGACGTGTACCCAGG
Found at i:54952384 original size:25 final size:22
Alignment explanation
Indices: 54952327--54952391 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 22
54952317 TTCTATTATT
54952327 TTTTTCTTTTTCCTTCTTTTTC
1 TTTTTCTTTTTCCTTCTTTTTC
*
54952349 TTTCTCCCTTTATTCCTTCTTTATTC
1 TTT-T-TCTTT-TTCCTTCTTT-TTC
54952375 TATTTTCTTTTTACCTT
1 T-TTTTCTTTTT-CCTT
54952392 TTCCCTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 3 0.09
23 1 0.03
24 6 0.17
25 18 0.51
26 5 0.14
27 2 0.06
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTCTTTTTCCTTCTTTTTC
Found at i:54953037 original size:62 final size:62
Alignment explanation
Indices: 54952951--54953204 Score: 319
Period size: 62 Copynumber: 4.1 Consensus size: 62
54952941 CCATGTGAAC
* * * * * *
54952951 GGCCATGTAACTCACAATTTATTGTATAAAACCACACGGCCAGGGACACGGGCATGTGTCCA
1 GGCCGTGTAACTCACTATTCATTGTATAAAACCACACGGCCAGGGACATGGGCATATGCCCA
* * *
54953013 GGCCGTGTAACTCACTATTCATTGTATAAAACCTCGCGGCCAGGGACATGGGCGTATGCCCA
1 GGCCGTGTAACTCACTATTCATTGTATAAAACCACACGGCCAGGGACATGGGCATATGCCCA
* * * *
54953075 GGCCATGTAACTCACTATTCATTGTATAAAACCAAACGGCCAGGGATATGAGCATATGCCCA
1 GGCCGTGTAACTCACTATTCATTGTATAAAACCACACGGCCAGGGACATGGGCATATGCCCA
* * * ** ** *
54953137 AGCCGTGTAACTCACTGTTCATAGTATAAAACCACATAGCCAGGGACATGGGTGTGTGCCCA
1 GGCCGTGTAACTCACTATTCATTGTATAAAACCACACGGCCAGGGACATGGGCATATGCCCA
54953199 GGCCGT
1 GGCCGT
54953205 ATGATTTACT
Statistics
Matches: 163, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 163 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.22
Consensus pattern (62 bp):
GGCCGTGTAACTCACTATTCATTGTATAAAACCACACGGCCAGGGACATGGGCATATGCCCA
Found at i:54953179 original size:124 final size:124
Alignment explanation
Indices: 54952951--54953202 Score: 351
Period size: 124 Copynumber: 2.0 Consensus size: 124
54952941 CCATGTGAAC
* * * * * *
54952951 GGCCATGTAACTCACAATTTATTGTATAAAACCACACGGCCAGGGACACGGGCATGTGTCCAGGC
1 GGCCATGTAACTCACAATTCATTGTATAAAACCAAACGGCCAGGGACACGAGCATATGCCCAAGC
* * * *
54953016 CGTGTAACTCACTATTCATTGTATAAAACCTCGCGGCCAGGGACATGGGCGTATGCCCA
66 CGTGTAACTCACTATTCATAGTATAAAACCACACAGCCAGGGACATGGGCGTATGCCCA
* * *
54953075 GGCCATGTAACTCACTATTCATTGTATAAAACCAAACGGCCAGGGATATGAGCATATGCCCAAGC
1 GGCCATGTAACTCACAATTCATTGTATAAAACCAAACGGCCAGGGACACGAGCATATGCCCAAGC
* * * *
54953140 CGTGTAACTCACTGTTCATAGTATAAAACCACATAGCCAGGGACATGGGTGTGTGCCCA
66 CGTGTAACTCACTATTCATAGTATAAAACCACACAGCCAGGGACATGGGCGTATGCCCA
54953199 GGCC
1 GGCC
54953203 GTATGATTTA
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
124 111 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (124 bp):
GGCCATGTAACTCACAATTCATTGTATAAAACCAAACGGCCAGGGACACGAGCATATGCCCAAGC
CGTGTAACTCACTATTCATAGTATAAAACCACACAGCCAGGGACATGGGCGTATGCCCA
Found at i:54957470 original size:23 final size:19
Alignment explanation
Indices: 54957424--54957499 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 19
54957414 TTTTGATATC
* *
54957424 TACATAATTTAAA-AAAAA
1 TACATAAATTAAATATAAA
54957442 TACATAAATTAAATATAAA
1 TACATAAATTAAATATAAA
*
54957461 TATCTGCATAATTTAAA-A-AAA
1 TA----CATAAATTAAATATAAA
54957482 TACATAAATTAAATATAA
1 TACATAAATTAAATATAA
54957500 TTAATTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
17 10 0.21
18 13 0.28
19 8 0.17
21 5 0.11
22 1 0.02
23 10 0.21
ACGTcount: A:0.61, C:0.07, G:0.01, T:0.32
Consensus pattern (19 bp):
TACATAAATTAAATATAAA
Found at i:54957490 original size:40 final size:41
Alignment explanation
Indices: 54957419--54957499 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 41
54957409 AGACATTTTG
54957419 ATATCTACATAATTTAAAAAAAATACATAAATTAAATATAA
1 ATATCTACATAATTTAAAAAAAATACATAAATTAAATATAA
*
54957460 ATATCTGCATAATTT-AAAAAAATACATAAATTAAATATAA
1 ATATCTACATAATTTAAAAAAAATACATAAATTAAATATAA
54957500 TTAATTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 25 0.64
41 14 0.36
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.32
Consensus pattern (41 bp):
ATATCTACATAATTTAAAAAAAATACATAAATTAAATATAA
Found at i:54958259 original size:14 final size:14
Alignment explanation
Indices: 54958242--54958285 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
54958232 TTATAAAACA
54958242 AATAGTAAACAAAT
1 AATAGTAAACAAAT
*
54958256 AATAATAAACAAAT
1 AATAGTAAACAAAT
*
54958270 AA-AGAAAAACAAAT
1 AATAG-TAAACAAAT
54958284 AA
1 AA
54958286 ATAAAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 1 0.04
14 25 0.96
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.16
Consensus pattern (14 bp):
AATAGTAAACAAAT
Found at i:54958286 original size:14 final size:14
Alignment explanation
Indices: 54958248--54958350 Score: 70
Period size: 14 Copynumber: 7.2 Consensus size: 14
54958238 AACAAATAGT
*
54958248 AAACAAATAATA-AT
1 AAACAAATAA-AGAA
54958262 AAACAAATAAAGAA
1 AAACAAATAAAGAA
54958276 AAACAAATAAATAAAGAA
1 AAAC----AAATAAAGAA
*
54958294 AAAGGAAATAAAGAA
1 AAA-CAAATAAAGAA
54958309 AAACAAATAAA-AA
1 AAACAAATAAAGAA
* * * *
54958322 ATAGAAA-AAGGAC
1 AAACAAATAAAGAA
54958335 AAACAAATAAA-AA
1 AAACAAATAAAGAA
54958348 AAA
1 AAA
54958351 GAAAAATACA
Statistics
Matches: 70, Mismatches: 11, Indels: 17
0.71 0.11 0.17
Matches are distributed among these distances:
12 2 0.03
13 18 0.26
14 24 0.34
15 13 0.19
18 13 0.19
ACGTcount: A:0.77, C:0.06, G:0.08, T:0.10
Consensus pattern (14 bp):
AAACAAATAAAGAA
Found at i:54958301 original size:25 final size:25
Alignment explanation
Indices: 54958259--54958397 Score: 102
Period size: 26 Copynumber: 5.3 Consensus size: 25
54958249 AACAAATAAT
* *
54958259 AATAAACAAATAAAGAAAA-ACAAATA
1 AATAAA-AAA-AAGGAAAAGACAAACA
*
54958285 AATAAAGAAAAAGGAAATAAAGAAAAACA
1 AATAAA-AAAAAGG--A-AAAGACAAACA
* *
54958314 AATAAAAAATAGAAAAAGGACAAACA
1 AATAAAAAAAAGGAAAA-GACAAACA
* *
54958340 AATAAAAAAAAGAAAAATACAAACA
1 AATAAAAAAAAGGAAAAGACAAACA
* * *
54958365 AATAAAAAAACAGAAAAAG-GAAATA
1 AATAAAAAAA-AGGAAAAGACAAACA
54958390 AATAAAAA
1 AATAAAAA
54958398 TAAATAAAAA
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
25 35 0.37
26 40 0.42
27 1 0.01
28 8 0.08
29 11 0.12
ACGTcount: A:0.77, C:0.06, G:0.09, T:0.09
Consensus pattern (25 bp):
AATAAAAAAAAGGAAAAGACAAACA
Found at i:54958302 original size:19 final size:18
Alignment explanation
Indices: 54958266--54958330 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
54958256 AATAATAAAC
54958266 AAATAAAGAAAAACAAAT
1 AAATAAAGAAAAACAAAT
**
54958284 AAATAAAG--AAA-AAGG
1 AAATAAAGAAAAACAAAT
54958299 AAATAAAGAAAAACAAAT
1 AAATAAAGAAAAACAAAT
*
54958317 AAAAAATAGAAAAA
1 AAATAA-AGAAAAA
54958331 GGACAAACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 10 0.26
16 3 0.08
17 3 0.08
18 15 0.39
19 7 0.18
ACGTcount: A:0.78, C:0.03, G:0.09, T:0.09
Consensus pattern (18 bp):
AAATAAAGAAAAACAAAT
Found at i:54958304 original size:33 final size:34
Alignment explanation
Indices: 54958266--54958333 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
54958256 AATAATAAAC
*
54958266 AAATAAAGAAAAACAAATAAATAA-AGAAAAAGG
1 AAATAAAGAAAAACAAATAAAAAATAGAAAAAGG
54958299 AAATAAAGAAAAACAAATAAAAAATAGAAAAAGG
1 AAATAAAGAAAAACAAATAAAAAATAGAAAAAGG
54958333 A
1 A
54958334 CAAACAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 23 0.70
34 10 0.30
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (34 bp):
AAATAAAGAAAAACAAATAAAAAATAGAAAAAGG
Found at i:54958339 original size:26 final size:26
Alignment explanation
Indices: 54958339--54958407 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
54958329 AAGGACAAAC
*
54958339 AAATAAAAAAAAGAAAAA-TACAAAC
1 AAATAAAAAAAAGAAAAAGGACAAAC
*
54958364 AAATAAAAAAACAGAAAAAGG--AAAT
1 AAATAAAAAAA-AGAAAAAGGACAAAC
*
54958389 AAATAAAAATAAATAAAAA
1 AAATAAAAA-AAAGAAAAA
54958408 AACATAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
25 29 0.76
26 9 0.24
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (26 bp):
AAATAAAAAAAAGAAAAAGGACAAAC
Found at i:54958369 original size:51 final size:51
Alignment explanation
Indices: 54958309--54958407 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 51
54958299 AAATAAAGAA
*
54958309 AAACAAAT-AAAAAATAGAAAAAGGACAAACAAATAAAAA-AAAGAAAAATAC
1 AAACAAATAAAAAAACAGAAAAAGG--AAACAAATAAAAATAAAGAAAAATAC
* *
54958360 AAACAAATAAAAAAACAGAAAAAGGAAATAAATAAAAATAAATAAAAA
1 AAACAAATAAAAAAACAGAAAAAGGAAACAAATAAAAATAAAGAAAAA
54958408 AACATAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 12 0.28
51 16 0.37
52 15 0.35
ACGTcount: A:0.78, C:0.06, G:0.07, T:0.09
Consensus pattern (51 bp):
AAACAAATAAAAAAACAGAAAAAGGAAACAAATAAAAATAAAGAAAAATAC
Found at i:54958382 original size:35 final size:35
Alignment explanation
Indices: 54958343--54958418 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
54958333 ACAAACAAAT
*
54958343 AAAAA-AAAGAAAAATACAAACAAATAAAAAAACAG
1 AAAAAGAAA-AAAAATAAAAACAAATAAAAAAACAG
* * * *
54958378 AAAAAGGAAATAAATAAAAATAAATAAAAAAACAT
1 AAAAAGAAAAAAAATAAAAACAAATAAAAAAACAG
54958413 AAAAAG
1 AAAAAG
54958419 GACAATAGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.79, C:0.05, G:0.07, T:0.09
Consensus pattern (35 bp):
AAAAAGAAAAAAAATAAAAACAAATAAAAAAACAG
Found at i:54958398 original size:10 final size:10
Alignment explanation
Indices: 54958339--54958417 Score: 51
Period size: 10 Copynumber: 7.9 Consensus size: 10
54958329 AAGGACAAAC
54958339 AAATAAAAA-
1 AAATAAAAAT
*
54958348 AAAGAAAAAT
1 AAATAAAAAT
*
54958358 ACAA-ACAAAT
1 A-AATAAAAAT
*
54958368 AAA-AAAACAG
1 AAATAAAA-AT
54958378 AAA-AAGGAAAT
1 AAATAA--AAAT
54958389 AAATAAAAAT
1 AAATAAAAAT
54958399 AAATAAAAA-
1 AAATAAAAAT
54958408 AACATAAAAA
1 AA-ATAAAAA
54958418 GGACAATAGG
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
9 15 0.26
10 33 0.57
11 6 0.10
12 4 0.07
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:54958419 original size:35 final size:36
Alignment explanation
Indices: 54958354--54958425 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
54958344 AAAAAAAGAA
*
54958354 AAATACAAACAAATAAAAAAACAGAAAAAGGA-AAT
1 AAATAAAAACAAATAAAAAAACAGAAAAAGGACAAT
* *
54958389 AAATAAAAATAAATAAAAAAACATAAAAAGGACAAT
1 AAATAAAAACAAATAAAAAAACAGAAAAAGGACAAT
54958425 A
1 A
54958426 GGCAATAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.75, C:0.07, G:0.07, T:0.11
Consensus pattern (36 bp):
AAATAAAAACAAATAAAAAAACAGAAAAAGGACAAT
Found at i:54960400 original size:47 final size:47
Alignment explanation
Indices: 54960253--54960403 Score: 134
Period size: 47 Copynumber: 3.2 Consensus size: 47
54960243 TATGAGAACT
* * *
54960253 AGTGTAAGACCATGT-TTGGGACATGGCATCGACATTGAGACGA-GGGCT
1 AGTGTAAGACCATGTCTT-GGACATGGCATCGAC-TTGAGA-TATGAGCC
* ** *
54960301 AGTGTAAGA-CATGTCTGGGACAT-GCATCTG-CTACAGGATGAT-AGTC
1 AGTGTAAGACCATGTCTTGGACATGGCATC-GACTTGA-GAT-ATGAGCC
*
54960347 AATGTAAGACCATGTCTTGGACATGGCATCGACTTGAGATATGAGCC
1 AGTGTAAGACCATGTCTTGGACATGGCATCGACTTGAGATATGAGCC
54960394 AGTGTAAGAC
1 AGTGTAAGAC
54960404 TATGCCTGCG
Statistics
Matches: 81, Mismatches: 13, Indels: 19
0.72 0.12 0.17
Matches are distributed among these distances:
45 2 0.02
46 20 0.25
47 41 0.51
48 18 0.22
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTTGGACATGGCATCGACTTGAGATATGAGCC
Found at i:54967310 original size:21 final size:22
Alignment explanation
Indices: 54967286--54967333 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
54967276 GAAGTTGTTA
54967286 TAAGAGT-AAAAATAGTTTAGC
1 TAAGAGTAAAAAATAGTTTAGC
**
54967307 TAAGCTTAAAAAAATAGTTTAGC
1 TAAGAGT-AAAAAATAGTTTAGC
54967330 TAAG
1 TAAG
54967334 CTTAAGAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
23 18 0.78
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (22 bp):
TAAGAGTAAAAAATAGTTTAGC
Found at i:54967323 original size:23 final size:23
Alignment explanation
Indices: 54967293--54967338 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
54967283 TTATAAGAGT
54967293 AAAAATAGTTTAGCTAAGCTTAA
1 AAAAATAGTTTAGCTAAGCTTAA
54967316 AAAAATAGTTTAGCTAAGCTTAA
1 AAAAATAGTTTAGCTAAGCTTAA
54967339 GAGGAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (23 bp):
AAAAATAGTTTAGCTAAGCTTAA
Found at i:54967829 original size:46 final size:46
Alignment explanation
Indices: 54967778--54967943 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 46
54967768 TGTGAGCTAG
* *
54967778 TGTAAGACATGTCTGGGACATGCATCTGCCTT-ATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCTGCCTTGA-GATGAGAGCCAA
* * * * * * *
54967824 TGTAAGACCATGTTTTGGACATGGCATCGGCATTGAGACGAGGGCTAA
1 TGTAAGA-CATGTCTGGGACAT-GCATCTGCCTTGAGATGAGAGCCAA
*
54967872 TGTAAGACATGTCTGGGACATGCAT-TGGCCTTGAGATGTA-AGTCAA
1 TGTAAGACATGTCTGGGACATGCATCT-GCCTTGAGATG-AGAGCCAA
*
54967918 TGTAAGACATGTCTGGGATATGCATC
1 TGTAAGACATGTCTGGGACATGCATC
54967944 CGCTACGGGA
Statistics
Matches: 96, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
46 47 0.49
47 25 0.26
48 23 0.24
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCTGCCTTGAGATGAGAGCCAA
Found at i:54967962 original size:46 final size:46
Alignment explanation
Indices: 54967778--54967991 Score: 132
Period size: 46 Copynumber: 4.6 Consensus size: 46
54967768 TGTGAGCTAG
* * * * *
54967778 TGTAAGACATGTCTGGGACATGCATCTGCCT-TATTATG-AGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCCGCCTCGA-GATGTA-AGTCAA
* * * * * * * *
54967824 TGTAAGACCATGTTTTGGACATGGCATCGGCATTGAGACG-AGGGCTAA
1 TGTAAGA-CATGTCTGGGACAT-GCATCCGCCTCGAGATGTAAGTC-AA
** *
54967872 TGTAAGACATGTCTGGGACATGCATTGGCCTTGAGATGTAAGTCAA
1 TGTAAGACATGTCTGGGACATGCATCCGCCTCGAGATGTAAGTCAA
* * *
54967918 TGTAAGACATGTCTGGGATATGCATCCG-CTACGGGATG-ATAGTCAG
1 TGTAAGACATGTCTGGGACATGCATCCGCCT-CGAGATGTA-AGTCAA
*
54967964 TGTAAGGCCATGTCTGGGACATGGCATC
1 TGTAA-GACATGTCTGGGACAT-GCATC
54967992 AAATTAAGAT
Statistics
Matches: 134, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
45 3 0.02
46 63 0.47
47 43 0.32
48 24 0.18
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCCGCCTCGAGATGTAAGTCAA
Found at i:54971199 original size:26 final size:24
Alignment explanation
Indices: 54971169--54971218 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
54971159 AAATAAAAAA
*
54971169 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
54971195 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
54971219 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:54971238 original size:21 final size:21
Alignment explanation
Indices: 54971189--54971247 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
54971179 ATAATAAATC
*
54971189 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
54971209 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
54971231 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
54971248 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:54976382 original size:10 final size:10
Alignment explanation
Indices: 54976367--54976391 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
54976357 AGAAAGTGGG
54976367 GAGGGGAAGA
1 GAGGGGAAGA
54976377 GAGGGGAAGA
1 GAGGGGAAGA
54976387 GAGGG
1 GAGGG
54976392 CAAAGGTGAC
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:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (10 bp):
GAGGGGAAGA
Found at i:54979658 original size:12 final size:12
Alignment explanation
Indices: 54979641--54979667 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
54979631 TTATTGCTGC
54979641 TATATAATTTTT
1 TATATAATTTTT
54979653 TATATAATTTTT
1 TATATAATTTTT
54979665 TAT
1 TAT
54979668 TGCTGCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATATAATTTTT
Found at i:54991149 original size:21 final size:22
Alignment explanation
Indices: 54991120--54991166 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
54991110 CAGAAGGAGT
*
54991120 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
54991142 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
54991163 GAGT
1 GAGT
54991167 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:54993471 original size:19 final size:19
Alignment explanation
Indices: 54993426--54993472 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
54993416 ATCAAATTAA
*
54993426 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
54993445 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
54993464 AATAAAAAT
1 AATAAAAAT
54993473 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:54996670 original size:48 final size:48
Alignment explanation
Indices: 54996599--54996696 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
54996589 CAAGATAAAT
* *
54996599 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
*
54996647 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
54996695 AT
1 AT
54996697 GTGTGTATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
Found at i:55001458 original size:14 final size:14
Alignment explanation
Indices: 55001439--55001468 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
55001429 AAATCAAAGG
55001439 GATGGAGATTTAGA
1 GATGGAGATTTAGA
55001453 GATGGAGATTTAGA
1 GATGGAGATTTAGA
55001467 GA
1 GA
55001469 AGCAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (14 bp):
GATGGAGATTTAGA
Found at i:55001555 original size:14 final size:14
Alignment explanation
Indices: 55001536--55001565 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
55001526 AATGGTGGAA
55001536 GGATTTTGATTTGG
1 GGATTTTGATTTGG
55001550 GGATTTTGATTTGG
1 GGATTTTGATTTGG
55001564 GG
1 GG
55001566 GAAAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (14 bp):
GGATTTTGATTTGG
Found at i:55003371 original size:41 final size:41
Alignment explanation
Indices: 55003122--55003371 Score: 283
Period size: 41 Copynumber: 6.1 Consensus size: 41
55003112 ATTATATGAC
* * *
55003122 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTG-G
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGTG
* * * *
55003162 TTTTTAGCGGCGTTTTTCCAAATACACTGCTAATGCTCTG-G
1 -TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGTG
* * *
55003203 ATTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGTT
1 -TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGTG
* *
55003245 TTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTGT-
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGTG
** * *
55003285 TTTTAGCGGCGTTTTAAGAAAAAACGTCGCTATTGCTCTGT-
1 TTTTAGCGGCGTTTT-ACCAAAAACGCCGCTAATGCTCTGTG
* *
55003326 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCCGTG
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGTG
55003367 TTTTA
1 TTTTA
55003372 TAATTTTTGT
Statistics
Matches: 181, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 35 0.19
41 146 0.81
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGTG
Found at i:55013645 original size:46 final size:44
Alignment explanation
Indices: 55013432--55013648 Score: 143
Period size: 46 Copynumber: 4.7 Consensus size: 44
55013422 TGTGTGAGCT
* * * * * *
55013432 AGTGTAAGACATGTTTGGGACATGCATCGCCCACATTATGA-GAGCC
1 AGTGTAAGACATGTTTGGGACATGCATTG-GC-TATGA-GATGTGTC
* * *
55013478 AGTGTAAGACCATGTTTGGGACATGGCATTGGC-ATTGAGACGAGCGC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATTGGCTA-TGAGATGTG-TC
* * *
55013525 TAGTGTAAGACATGTCTAGGACATACATTGG-TATCGAGATGTAAGTC
1 -AGTGTAAGACATGTTTGGGACATGCATTGGCTAT-GAGATGT--GTC
* ** * *
55013572 AATGTAAGACATGTACGAGACATGCATTGGCTATGAAATGTGTC
1 AGTGTAAGACATGTTTGGGACATGCATTGGCTATGAGATGTGTC
55013616 AGTGTAAGACCATGTTTGGGACATGGCATTGGC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATTGGC
55013649 AACTTACCCT
Statistics
Matches: 137, Mismatches: 21, Indels: 26
0.74 0.11 0.14
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 64 0.47
47 32 0.23
48 15 0.11
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATTGGCTATGAGATGTGTC
Found at i:55021127 original size:46 final size:44
Alignment explanation
Indices: 55020959--55021130 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 44
55020949 TTATGAGAGC
* * *
55020959 CAGTGTAAGACCATGTTTGGGACATGGCATTGGC-ATTGAGACGAGCG
1 CAGTGTAAGA-CATGTTTGGGACAT-GCATTGGCTA-TGAGATGTG-T
* * *
55021006 CTAGTGTAAGACATGTCTAGGACATACATTGG-TATCGAGATGTAAGT
1 C-AGTGTAAGACATGTTTGGGACATGCATTGGCTAT-GAGATGT--GT
* ** * *
55021053 CAATGTAAGACATGTACGAGACATGCATTGGCTATGAAATGTGT
1 CAGTGTAAGACATGTTTGGGACATGCATTGGCTATGAGATGTGT
55021097 CAGTGTAAGACCATGTTTGGGACATGGCATTGGC
1 CAGTGTAAGA-CATGTTTGGGACAT-GCATTGGC
55021131 AACTTACCCT
Statistics
Matches: 100, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
44 11 0.11
45 12 0.12
46 50 0.50
47 17 0.17
48 10 0.10
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (44 bp):
CAGTGTAAGACATGTTTGGGACATGCATTGGCTATGAGATGTGT
Found at i:55029495 original size:40 final size:40
Alignment explanation
Indices: 55029436--55029686 Score: 312
Period size: 40 Copynumber: 6.3 Consensus size: 40
55029426 CATTTGAATG
*
55029436 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
55029476 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* * *
55029516 ATACCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
55029556 TTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
55029596 TTATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* * *
55029635 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
55029675 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55029687 ATTCCGAAGA
Statistics
Matches: 184, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 42 0.23
40 140 0.76
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:55037617 original size:40 final size:40
Alignment explanation
Indices: 55037558--55037810 Score: 332
Period size: 40 Copynumber: 6.3 Consensus size: 40
55037548 CATTTGAATG
*
55037558 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
55037598 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* *
55037638 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
55037678 TTATCCGGGCTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGC-TAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
55037719 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATT
* * *
55037759 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
55037799 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55037811 ATTCCGAAGA
Statistics
Matches: 188, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 10 0.05
40 133 0.71
41 45 0.24
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:55037789 original size:121 final size:120
Alignment explanation
Indices: 55037558--55037810 Score: 418
Period size: 121 Copynumber: 2.1 Consensus size: 120
55037548 CATTTGAATG
*
55037558 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
* *
55037623 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
66 TTTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
55037678 TTATCCGGGCTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGC-TAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGC
* * * *
55037743 ATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
65 ATTTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
55037799 ATATCC-GGCTAA
1 ATATCCGGGCTAA
55037811 ATTCCGAAGA
Statistics
Matches: 123, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
119 3 0.02
120 12 0.10
121 108 0.88
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:55042343 original size:18 final size:18
Alignment explanation
Indices: 55042320--55042380 Score: 122
Period size: 18 Copynumber: 3.4 Consensus size: 18
55042310 GTGTCCATAG
55042320 CCACACGGGCGTGTGTGA
1 CCACACGGGCGTGTGTGA
55042338 CCACACGGGCGTGTGTGA
1 CCACACGGGCGTGTGTGA
55042356 CCACACGGGCGTGTGTGA
1 CCACACGGGCGTGTGTGA
55042374 CCACACG
1 CCACACG
55042381 ACCTACCCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.18, C:0.31, G:0.36, T:0.15
Consensus pattern (18 bp):
CCACACGGGCGTGTGTGA
Found at i:55048602 original size:48 final size:48
Alignment explanation
Indices: 55048531--55048885 Score: 442
Period size: 48 Copynumber: 7.4 Consensus size: 48
55048521 CACTACTATT
* * * *
55048531 ATTATGTGAGCCAGTGTAAGACCATGTCTGGGAAATGGGATCGACATT
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
* * * * * *
55048579 ATTACGAGAGCCAGTGTAGGACCATATTTGGGATATGGCATCGGCATC
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
* * *
55048627 ATTATGTGAGCTAGTGTAAGACCATGTTTGAGACATGGCATCAACATC
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
*** *
55048675 ATTATGTGAGCCAACATAAGACCATGTTTGGGACATGGCATCGGCATC
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
*
55048723 ATTATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
* * *
55048771 ATTATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
* * * * * *
55048819 ATTATGAGAGCTAGTGTAAGAACATATCTGGGATATGGCATCGACATC
1 ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
*
55048867 ATTAT-TAGAGCCAATGTAA
1 ATTATGT-GAGCCAGTGTAA
55048886 TACCGTAACT
Statistics
Matches: 262, Mismatches: 44, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
48 262 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (48 bp):
ATTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACATC
Found at i:55052321 original size:14 final size:15
Alignment explanation
Indices: 55052263--55052323 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
55052253 GATATAGTAT
*
55052263 TTTATCTTGGGTTTC
1 TTTATCTTGGATTTC
55052278 TTTAT-TCTGGATTTC
1 TTTATCT-TGGATTTC
*
55052293 TCTATCTTGGATTTC
1 TTTATCTTGGATTTC
*
55052308 TTTA-CTTGGTTTTC
1 TTTATCTTGGATTTC
55052322 TT
1 TT
55052324 GTTATCTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
14 12 0.30
15 27 0.68
16 1 0.03
ACGTcount: A:0.10, C:0.15, G:0.15, T:0.61
Consensus pattern (15 bp):
TTTATCTTGGATTTC
Found at i:55054872 original size:48 final size:48
Alignment explanation
Indices: 55054771--55055199 Score: 468
Period size: 48 Copynumber: 9.0 Consensus size: 48
55054761 CACTGCTATT
* * * *
55054771 ATTATGTGAGCCAGTGTAAGACCATATCT-GGGCATGGCATCAGCATT
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * *
55054818 ATTACGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCAGCATT
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * * * *
55054866 ATTACGAGAGCCAGTGTAAGGCTATATCTAGGATATGGCATTGGCATC
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * *
55054914 ATTATGTA-AGCCAGTGTAAGACCATATCTGGGACATGACATCGACATC
1 ATTATG-AGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * * *
55054962 ATTA-GTGAGCCAGTGTAAGACCATGTATAGGACATGGCATCGACATC
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * * *
55055009 ATTATAAGAGGCAGTGTAAGACCATGTCTAGGACAAGGCATCGGCATC
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
** ** * ** *
55055057 ATTATCTGAGATAGTGTAAGACCATGTCCGGGACATGGCATCGGCATT
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * * * **
55055105 ATTATGAGAGCCAGTGTAAGACCATATTTGGGATATGTCATCGAAATC
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
* * *
55055153 ATTATGAGAACCAGTGTAAGACCATATCTGGGATATGGCATCGGCAT
1 ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCAT
55055200 TGATATGTGT
Statistics
Matches: 325, Mismatches: 53, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
47 68 0.21
48 256 0.79
49 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
ATTATGAGAGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATC
Found at i:55055039 original size:143 final size:144
Alignment explanation
Indices: 55054771--55055199 Score: 542
Period size: 143 Copynumber: 3.0 Consensus size: 144
55054761 CACTGCTATT
55054771 ATTATGTGAGCCAGTGTAAGACCATATCTGGG-CATGGCATC-AGCATTATTACGAGAGCCAGTG
1 ATTATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGA-CATTATTACGAGAGCCAGTG
* * * * *
55054834 TAAGACCATATCTAGGACATGGCATC-AGCATTATTACGAGAGCCAGTGTAAGGCTATATCTAGG
65 TAAGACCATATATAGGACATGGCATCGA-CATCATTATGAGAGCCAGTGTAAGACCATATCTAGG
*
55054898 ATATGGCATTGGCATC
129 ATATGGCATCGGCATC
* * * *
55054914 ATTATGTAAGCCAGTGTAAGACCATATCTGGGACATGACATCGACATCATTA-GTGAGCCAGTGT
1 ATTATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGACATTATTACGAGAGCCAGTGT
* * * * *
55054978 AAGACCATGTATAGGACATGGCATCGACATCATTATAAGAGGCAGTGTAAGACCATGTCTAGGAC
66 AAGACCATATATAGGACATGGCATCGACATCATTATGAGAGCCAGTGTAAGACCATATCTAGGAT
*
55055043 AAGGCATCGGCATC
131 ATGGCATCGGCATC
* ** * * * *
55055057 ATTATCTGAGATAGTGTAAGACCATGTCCGGGACATGGCATCGGCATTATTATGAGAGCCAGTGT
1 ATTATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGACATTATTACGAGAGCCAGTGT
* * * * * * *
55055122 AAGACCATATTTGGGATATGTCATCGAAATCATTATGAGAACCAGTGTAAGACCATATCTGGGAT
66 AAGACCATATATAGGACATGGCATCGACATCATTATGAGAGCCAGTGTAAGACCATATCTAGGAT
55055187 ATGGCATCGGCAT
131 ATGGCATCGGCAT
55055200 TGATATGTGT
Statistics
Matches: 243, Mismatches: 39, Indels: 7
0.84 0.13 0.02
Matches are distributed among these distances:
143 150 0.62
144 92 0.38
145 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (144 bp):
ATTATGTGAGCCAGTGTAAGACCATATCTGGGACATGGCATCGACATTATTACGAGAGCCAGTGT
AAGACCATATATAGGACATGGCATCGACATCATTATGAGAGCCAGTGTAAGACCATATCTAGGAT
ATGGCATCGGCATC
Found at i:55057776 original size:96 final size:93
Alignment explanation
Indices: 55057663--55057930 Score: 287
Period size: 94 Copynumber: 2.8 Consensus size: 93
55057653 AAGTCAATGA
* *
55057663 CATGTCCCAGACATGGTCTTACATTGGCTCTCACATATCCGTGTCGATGCCATGTCCCAGACATG
1 CATGT-CCAGACATGGTCTTACACTGGCTCTCACATAT--GTGCCGATGCCATGTCCCAGACATG
55057728 GTCTTACACTAACACATCTC-ATAGCTGATGC
63 GTCTTACACTAACACATCTCAAT-GCTGATGC
* * * *
55057759 CATGTCCTAGACATGGTCTTACACTGG--CTCACATCTTGAGGCCGATTCCATGTCCCACACATG
1 CATGTCC-AGACATGGTCTTACACTGGCTCTCACAT-ATG-TGCCGATGCCATGTCCCAGACATG
* * *
55057822 GTCTTACACTAGCTCTCGTCTCAATGCTGATGC
63 GTCTTACACTA--ACACATCTCAATGCTGATGC
* * *
55057855 CATGTCCAGACATTGTCTTACACTGGCTCTCATA-ATGTGGCCTATG-CATGTCCCAGACAT-GT
1 CATGTCCAGACATGGTCTTACACTGGCTCTCACATATGT-GCCGATGCCATGTCCCAGACATGGT
*
55057917 CTTACACTAGCACA
65 CTTACACTAACACA
55057931 CATGTCACCT
Statistics
Matches: 144, Mismatches: 19, Indels: 23
0.77 0.10 0.12
Matches are distributed among these distances:
91 2 0.01
93 12 0.08
94 51 0.35
95 28 0.19
96 44 0.31
97 7 0.05
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (93 bp):
CATGTCCAGACATGGTCTTACACTGGCTCTCACATATGTGCCGATGCCATGTCCCAGACATGGTC
TTACACTAACACATCTCAATGCTGATGC
Found at i:55057812 original size:48 final size:48
Alignment explanation
Indices: 55057613--55057933 Score: 212
Period size: 46 Copynumber: 6.8 Consensus size: 48
55057603 TAGGATGCCA
* * * * * * * *
55057613 ATGCCATGGCCCATACATGGTCTTACACT-GCTCATA-CATCAAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTTGAGGCCG
* * * * * *
55057659 ATGACATGTCCCAGACATGGTCTTACATTGGCTCTCACATATCCG-TGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGG--CTCACATCT-TGAGGCCG
** *
55057709 ATGCCATGTCCCAGACATGGTCTTACACT--AACACATCTCAT-A-GCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCT--TGAGGCCG
*
55057755 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATCTTGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTTGAGGCCG
* * * * * ** * *
55057803 ATTCCATGTCCCACACATGGTCTTACACTAGCTCTCGTCTCAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTTGAGGCCG
* * ** * *
55057851 ATGCCATGT-CCAGACATTGTCTTACACTGGCTCTCATAATGTGGCCT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTTGAGGCCG
* *
55057898 ATG-CATGTCCCAGACAT-GTCTTACACTAGCACACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
55057934 GTCACCTAAA
Statistics
Matches: 213, Mismatches: 50, Indels: 24
0.74 0.17 0.08
Matches are distributed among these distances:
46 83 0.39
47 39 0.18
48 56 0.26
49 5 0.02
50 30 0.14
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTTGAGGCCG
Found at i:55059779 original size:28 final size:28
Alignment explanation
Indices: 55059716--55059838 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
55059706 ATATTAAGTC
*
55059716 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55059743 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55059771 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55059799 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
55059828 CGCACACTTAG
1 CGCACACTTAG
55059839 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 21 0.25
28 48 0.56
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55067800 original size:96 final size:95
Alignment explanation
Indices: 55067700--55067972 Score: 299
Period size: 96 Copynumber: 2.9 Consensus size: 95
55067690 ACCAAGGTCT
*
55067700 ATGCCATGTTCTAGACATGGTCTTACATTGGCTTTCACATATCTGTACCGATGCCATGTCCCAGA
1 ATGCCATGTCCTAGACATGGTCTTACATTGGCTTTCACATATCTG-ACCGATGCCATGTCCCAGA
* *
55067765 CATGGTCTTACACTGGCACATCTC-ATAGCCG
65 CATGGTCTTACACTAGCACATCTCAAT-GCCA
** * * *
55067796 ATGCCATGTCCTAGACATGGTCTTACATTAAC-TT-ACAT-CCCGAGGCCGATACCATGTCCCAG
1 ATGCCATGTCCTAGACATGGTCTTACATTGGCTTTCACATATCTGA--CCGATGCCATGTCCCAG
* *
55067858 ACATGGTCTTACACTAGCTCTTGTCTCAATGCCA
64 ACATGGTCTTACACTAGCAC--ATCTCAATGCCA
* * * * * *
55067892 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGACTGATG-CATGTCCCAGAC
1 ATGCCATGTCCTAGACATGGTCTTACATTGGCTTTCACATATCTGACCGATGCCATGTCCCAGAC
55067955 AT-GTCTTACACTAGCACA
66 ATGGTCTTACACTAGCACA
55067973 CATGTCACCC
Statistics
Matches: 146, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
92 1 0.01
93 2 0.01
94 52 0.36
95 16 0.11
96 68 0.47
97 3 0.02
98 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (95 bp):
ATGCCATGTCCTAGACATGGTCTTACATTGGCTTTCACATATCTGACCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCACATCTCAATGCCA
Found at i:55067899 original size:48 final size:46
Alignment explanation
Indices: 55067598--55067969 Score: 211
Period size: 48 Copynumber: 7.8 Consensus size: 46
55067588 ATAGGCTAGG
* *
55067598 ATGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTC-ATACATC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAT-C-TC
* * * * * * * *
55067645 AAGTCGATGACATGTCCCAGACATGATCTTACAATAACTATCA-CAACC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ATC--TC
* * * * * * *
55067693 AAGGTCTATGCCATGTTCTAGACATGGTCTTACATTGGCTTTCACATATCT-
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC--T--C-TATCTC
* * * *
55067744 GTACCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC-ATCTC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTATCTC
* * * *
55067789 ATAGCCGATGCCATGTCCTAGACATGGTCTTACATTAACT-TACATCCC
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--ATCTC
* * *
55067837 GAGGCCGATACCATGTCCCAGACATGGTCTTACACTAGCTCTTGTCTC
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TATCTC
* * *
55067885 AATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-AT-CTC
* *
55067933 GTGACTGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 ATG-CCGATGCCATGTCCCAGACATGGTCTTACACTAGC
55067970 ACACATGTCA
Statistics
Matches: 248, Mismatches: 56, Indels: 43
0.71 0.16 0.12
Matches are distributed among these distances:
44 4 0.02
45 1 0.00
46 44 0.18
47 49 0.20
48 83 0.33
49 32 0.13
50 31 0.12
51 1 0.00
53 1 0.00
54 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTATCTC
Found at i:55069667 original size:55 final size:53
Alignment explanation
Indices: 55069559--55069813 Score: 211
Period size: 55 Copynumber: 4.8 Consensus size: 53
55069549 ATTAGGGTTT
* *
55069559 AAGGATACCATGTAAGACCATG-CGAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * * *
55069614 AAGGAAATCTTGTAAGACCATGTCAATACATGGCATTGGCAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * ** *
55069669 AAAGG-TCCCATGTAAAACCATGCCAAGGTATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
*
55069722 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGC
** * * *
55069771 AAGGATACCACCTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
55069814 GTACCCACGT
Statistics
Matches: 164, Mismatches: 29, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
49 39 0.24
51 1 0.01
52 8 0.05
53 42 0.26
54 8 0.05
55 61 0.37
56 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:55069736 original size:108 final size:110
Alignment explanation
Indices: 55069566--55069766 Score: 273
Period size: 108 Copynumber: 1.8 Consensus size: 110
55069556 TTTAAGGATA
* * * *
55069566 CCATGTAAGACCATGCGAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCTTGTAAGA
1 CCATGTAAAACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
55069631 CCATGTCAATACATGGCATTGGCAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGGCAAGTTACTATAAGGCAAAGGTC
* * * *
55069676 CCATGTAAAACCATGCCAAGGTATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAAACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
55069738 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGGCAAGTT
55069767 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.58
109 7 0.09
110 23 0.29
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAAACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGGCAAGTTACTATAAGGCAAAGGTC
Found at i:55077220 original size:55 final size:54
Alignment explanation
Indices: 55077133--55077387 Score: 278
Period size: 55 Copynumber: 4.8 Consensus size: 54
55077123 ATTAGGGTTT
*
55077133 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
55077188 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
55077243 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
55077296 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
55077345 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
55077388 GTACCCGCGT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:55077339 original size:108 final size:110
Alignment explanation
Indices: 55077140--55077340 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
55077130 TTTAAGGATA
*
55077140 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
55077205 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
55077250 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
55077312 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
55077341 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:55077598 original size:20 final size:20
Alignment explanation
Indices: 55077573--55077612 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
55077563 GTATTAATAA
*
55077573 ATTTAATTAAGTAAGTAAGT
1 ATTTAAGTAAGTAAGTAAGT
*
55077593 ATTTAAGTAAGTGAGTAAGT
1 ATTTAAGTAAGTAAGTAAGT
55077613 GAAGAAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (20 bp):
ATTTAAGTAAGTAAGTAAGT
Found at i:55077600 original size:16 final size:16
Alignment explanation
Indices: 55077579--55077609 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55077569 ATAAATTTAA
55077579 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
55077595 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
55077610 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:55088379 original size:13 final size:13
Alignment explanation
Indices: 55088361--55088386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55088351 ATATTATAAT
55088361 TATTTTATGTTAA
1 TATTTTATGTTAA
55088374 TATTTTATGTTAA
1 TATTTTATGTTAA
55088387 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:55091328 original size:96 final size:97
Alignment explanation
Indices: 55091227--55091575 Score: 548
Period size: 96 Copynumber: 3.6 Consensus size: 97
55091217 GTGAACATGC
*
55091227 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCC
*
55091291 TAATGGCCGATGCGATGAATGTGAAAGTGTAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTAT
55091323 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGC
55091388 CTAATGGCCGATGTGATGAATGTGAAAGTG--T
65 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
55091419 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGC
55091484 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
65 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * * *
55091517 ATATA--TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG-TATAAATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAG
55091576 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 10, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
94 14 0.06
96 173 0.72
98 52 0.22
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (97 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:55091345 original size:49 final size:49
Alignment explanation
Indices: 55091227--55091575 Score: 561
Period size: 49 Copynumber: 7.3 Consensus size: 49
55091217 GTGAACATGC
*
55091227 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
55091274 ATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
55091323 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
55091372 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
55091419 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
55091468 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * *
55091517 ATATA--TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
55091564 A-A-ATGTGATAAG
1 ATATATGTGATAAG
55091576 TCCCGAAGGG
Statistics
Matches: 284, Mismatches: 12, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
45 1 0.00
46 1 0.00
47 132 0.46
49 150 0.53
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:55091398 original size:145 final size:145
Alignment explanation
Indices: 55091227--55091575 Score: 594
Period size: 145 Copynumber: 2.4 Consensus size: 145
55091217 GTGAACATGC
*
55091227 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
55091292 AATGGCCGATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 AATGGCCGATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
55091357 AATGTGAAAGTGTAT
131 AATGTGAAAGTGTAT
55091372 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
55091437 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 AATGGCCGATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
55091502 AATGTGAAAGTGTAT
131 AATGTGAAAGTGTAT
* * * * * * * *
55091517 ATATA--TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55091576 TCCCGAAGGG
Statistics
Matches: 194, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
143 46 0.24
145 148 0.76
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (145 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAGTGTAT
Found at i:55091750 original size:37 final size:37
Alignment explanation
Indices: 55091694--55091772 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
55091684 CCGAGCTTTA
* * *
55091694 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
55091731 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55091768 AAGAC
1 AAGAC
55091773 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55093704 original size:40 final size:40
Alignment explanation
Indices: 55093660--55093819 Score: 243
Period size: 40 Copynumber: 4.0 Consensus size: 40
55093650 CGAAGGCATT
55093660 GCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
1 GCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
* *
55093700 GCATTTGTGCTAGTTACTATATCCGGGCTAAGTTCCGAAG
1 GCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
* *
55093740 GCATCTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAG
1 GCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
* *
55093780 GCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 GCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAG
55093819 G
1 G
55093820 TACTTGGGTT
Statistics
Matches: 111, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.14
40 95 0.86
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
GCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
Found at i:55097169 original size:20 final size:18
Alignment explanation
Indices: 55097087--55097196 Score: 57
Period size: 20 Copynumber: 5.9 Consensus size: 18
55097077 TTCTAAAATT
* *
55097087 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
55097106 AATATTAAATTTAAT-TT-
1 AATATT-AATTTAATATTA
* * *
55097123 AATACATATTTTAATAGTA
1 AATA-TTAATTTAATATTA
**
55097142 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
*
55097161 AAGTGATT-ATCTTAATATTT
1 AA-T-ATTAAT-TTAATATTA
55097181 AAT-TTAATTTAATATT
1 AATATTAATTTAATATT
55097197 TATCTTGTAG
Statistics
Matches: 70, Mismatches: 12, Indels: 20
0.69 0.12 0.20
Matches are distributed among these distances:
17 21 0.30
18 6 0.09
19 21 0.30
20 22 0.31
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:55103705 original size:47 final size:47
Alignment explanation
Indices: 55103654--55104213 Score: 926
Period size: 47 Copynumber: 11.7 Consensus size: 47
55103644 TTAGGATTCT
* * *
55103654 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
55103701 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
55103750 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
55103799 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
55103846 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
55103895 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
55103944 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
55103991 ATGTGATGAATGTGAAAGTGTAAATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
55104038 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
55104085 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
55104132 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC-AAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA-TGGCCG
* * *
55104179 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55104214 TCCCGAAGGG
Statistics
Matches: 494, Mismatches: 13, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
46 3 0.01
47 301 0.61
49 190 0.38
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:55103832 original size:145 final size:145
Alignment explanation
Indices: 55103654--55104213 Score: 960
Period size: 145 Copynumber: 3.9 Consensus size: 145
55103644 TTAGGATTCT
* * *
55103654 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
55103718 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
65 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55103783 TAAGGCCTAATGGCCG
130 TAAGGCCTAATGGCCG
55103799 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
55103864 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
55103929 AAGGCCTAATGGCCG
131 AAGGCCTAATGGCCG
55103944 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
55104009 TGTA-A-ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
*
55104070 AAGGCCTAATAGCCG
131 AAGGCCTAATGGCCG
55104085 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * *
55104150 TG--TATATATGTGATAGGGCC-AAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
66 TGTATATATATGTGATAAGGCCTAA-TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55104210 TAAG
130 TAAG
55104214 TCCCGAAGGG
Statistics
Matches: 401, Mismatches: 8, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
140 3 0.01
141 140 0.35
142 1 0.00
143 46 0.11
144 2 0.00
145 209 0.52
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (145 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
AAGGCCTAATGGCCG
Found at i:55107217 original size:23 final size:22
Alignment explanation
Indices: 55107174--55107229 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
55107164 AAAGGATATC
* *
55107174 TACAAATAAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
55107195 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
55107218 TACATATCATAT
1 TACAAATCATAT
55107230 ATAAGATTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 16 0.53
23 11 0.37
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:55109558 original size:26 final size:26
Alignment explanation
Indices: 55109492--55109558 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
55109482 CTTTACATAT
*
55109492 ATGCTCACACGAGCTATGAAAAAAGT
1 ATGCTCACACGAGCTATGAAAAAAGC
** **
55109518 ATGCTCACAAAAGCTAT-AAAATGGGC
1 ATGCTCACACGAGCTATGAAAA-AAGC
*
55109544 CTGCTCACACGAGCT
1 ATGCTCACACGAGCT
55109559 GTGGGTCGGA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (26 bp):
ATGCTCACACGAGCTATGAAAAAAGC
Found at i:55111417 original size:48 final size:48
Alignment explanation
Indices: 55111348--55111629 Score: 268
Period size: 48 Copynumber: 5.9 Consensus size: 48
55111338 GGGGATACAC
* * *
55111348 TGATATGGCTACGGGCCATGATATTAGTACTTCGGGTGCGAGTTACTT
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTT
* * * * *
55111396 TGATTTGGCTTTGGGCAATGATATTGGCACTTCGAGTGCGAGCTT-CAT
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAG-TTACTT
* *
55111444 TGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTTCGAGTTACTT
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTT
** * *
55111492 TGATTTGGCTTCAAGCCATGATATTGGCACCTT-GGGTGCTAGCTTCAC--
1 TGATTTGGCTTCGGGCCATGATATTAGCA-CTTCGGGTGCGAG-TT-ACTT
* * * *
55111540 AGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCAAGATA-TAT
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACT-T
* ** * * *
55111588 TGAGTTGGCTTTAGGCCATGATATTGGCACTTAGTGTGCGAG
1 TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAG
55111630 ACTCCTGAGT
Statistics
Matches: 188, Mismatches: 37, Indels: 18
0.77 0.15 0.07
Matches are distributed among these distances:
46 1 0.01
47 6 0.03
48 172 0.91
49 7 0.04
50 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (48 bp):
TGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTT
Found at i:55111517 original size:96 final size:95
Alignment explanation
Indices: 55111345--55111629 Score: 392
Period size: 96 Copynumber: 3.0 Consensus size: 95
55111335 TTAGGGGATA
* * *
55111345 CACTGATATGGCTACGGGCCATGATATTAGTACTTCGGGTGCGAGTTACTTTGATTTGGCTTTGG
1 CACTGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTTAG
*
55111410 GCAATGATATTGGCACTTCGAGTGCGAGCTT
66 GCCATGATATTGGCACTT-GAGTGCGAGCTT
* * * *
55111441 CATTGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTTCGAGTTACTTTGATTTGGCTTCAA
1 CACTGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTTAG
* *
55111506 GCCATGATATTGGCACCTTGGGTGCTAGCTT
66 GCCATGATATTGGCA-CTTGAGTGCGAGCTT
* * * *
55111537 CACAGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCAAGATA-TATTGAGTTGGCTTTA
1 CACTGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCGAGTTACT-TTGATTTGGCTTTA
*
55111601 GGCCATGATATTGGCACTTAGTGTGCGAG
65 GGCCATGATATTGGCACTT-GAGTGCGAG
55111630 ACTCCTGAGT
Statistics
Matches: 166, Mismatches: 20, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
95 4 0.02
96 159 0.96
97 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (95 bp):
CACTGATTTGGCTACGGGCCATGATATTAGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTTAG
GCCATGATATTGGCACTTGAGTGCGAGCTT
Found at i:55131336 original size:14 final size:14
Alignment explanation
Indices: 55131319--55131345 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55131309 TTTTACTTAG
55131319 AAAAACATGCATAA
1 AAAAACATGCATAA
55131333 AAAAACATGCATA
1 AAAAACATGCATA
55131346 CTATCATGAT
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:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAAACATGCATAA
Found at i:55141725 original size:29 final size:29
Alignment explanation
Indices: 55141692--55141765 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
55141682 GTTGTGAGAT
* *
55141692 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
55141721 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
55141750 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55141766 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:55151757 original size:28 final size:28
Alignment explanation
Indices: 55151717--55151842 Score: 236
Period size: 28 Copynumber: 4.5 Consensus size: 28
55151707 TAAATTGTAC
55151717 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
55151745 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
55151773 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
55151801 AGCACTAAGTGTGCGAG-TTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
55151828 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55151843 GACTTAATAT
Statistics
Matches: 97, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
27 24 0.25
28 73 0.75
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:55155214 original size:96 final size:96
Alignment explanation
Indices: 55155103--55155644 Score: 921
Period size: 96 Copynumber: 5.6 Consensus size: 96
55155093 CAAGACAGTG
*
55155103 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
55155168 TAATGGCCGATGTGATGAATGTGAAAGTGTA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTA
55155199 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
*
55155264 CCTAATGGCCGATGTGATGAATCTGAAAGTG--
64 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
55155295 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
55155360 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
64 CCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
55155393 TATATATGTGATAAGGCCTAATGGCCGATTTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
55155458 TAATGGCCGATGTGATGAATGTGAAAGTGTA
66 TAATGGCCGATGTGATGAATGTGAAAGTGTA
55155489 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
55155554 TAATGGCCGATGTGATGAATGTGAAAGTG--
66 TAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * * *
55155583 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55155645 TCCCGAAGGG
Statistics
Matches: 429, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
94 54 0.13
96 283 0.66
98 92 0.21
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:55155222 original size:49 final size:49
Alignment explanation
Indices: 55155103--55155644 Score: 910
Period size: 49 Copynumber: 11.3 Consensus size: 49
55155093 CAAGACAGTG
*
55155103 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
55155150 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
55155199 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
55155248 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATCTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
55155295 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
55155344 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
55155393 TATATATGTGATAAGGCCTAATGGCCGATTTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
55155440 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
55155489 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
55155536 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * *
55155583 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
55155632 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
55155645 TCCCGAAGGG
Statistics
Matches: 473, Mismatches: 14, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
47 233 0.49
48 1 0.00
49 239 0.51
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:55155360 original size:145 final size:145
Alignment explanation
Indices: 55155103--55155644 Score: 966
Period size: 145 Copynumber: 3.8 Consensus size: 145
55155093 CAAGACAGTG
*
55155103 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
55155168 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
55155233 GAATGTGAAAGTGTA
131 GAATGTGAAAGTGTA
*
55155248 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATCTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
55155313 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
55155378 GAATGTGAAAGTGTA
131 GAATGTGAAAGTGTA
*
55155393 TATATATGTGATAAGGCCTAATGGCCGATTTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
55155458 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
55155523 GAATGTGAAAGTG--
131 GAATGTGAAAGTGTA
* *
55155536 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * *
55155601 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
55155645 TCCCGAAGGG
Statistics
Matches: 386, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 90 0.23
145 285 0.74
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (145 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTGTA
Found at i:55155813 original size:37 final size:37
Alignment explanation
Indices: 55155763--55155877 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
55155753 CCGAGCTCTA
55155763 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
55155800 AAGACCCGATGACTACGTGT-GGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
55155836 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
55155873 AAGAC
1 AAGAC
55155878 TTCGTAATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 34 0.47
37 39 0.53
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:55166503 original size:21 final size:22
Alignment explanation
Indices: 55166477--55166517 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
55166467 TGCTAAACAC
55166477 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
*
55166498 AGGGGCAATACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
55166518 ACCAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:55167593 original size:46 final size:45
Alignment explanation
Indices: 55167540--55167761 Score: 170
Period size: 46 Copynumber: 4.8 Consensus size: 45
55167530 GGGATAGGAT
* *
55167540 GCCGATGCTATGTCCCGGACATGGTCTTACACTAGCT-TAACTCATA
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCTCTAACTCATG
* * *
55167586 GCCGATGCATATCCCAGTCATGTCTTACACTGGCT-TATATCTCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTA-A-CTC-ATG
* * *
55167632 GCTGATGCATGTCCCAGACATGTCTTATACTAGCTCTCATCTCACT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-AACTCA-TG
* * * *
55167678 GTCGATGCCATGTTCC-GAACATGGTCTTACACGAACTCTCGTAA-T-ATG
1 GCCGATG-CATGTCCCAG-ACAT-GTCTTACAC-TA-GCTC-TAACTCATG
55167726 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
55167762 ACAATAGTCC
Statistics
Matches: 139, Mismatches: 22, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
44 18 0.13
45 13 0.09
46 59 0.42
47 25 0.18
48 17 0.12
49 2 0.01
50 4 0.03
51 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTAACTCATG
Found at i:55171785 original size:12 final size:14
Alignment explanation
Indices: 55171770--55171801 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
55171760 GTGAGAACAC
55171770 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
55171782 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
55171796 ATGTGT
1 ATGTGT
55171802 TTAAGATCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:55171886 original size:50 final size:50
Alignment explanation
Indices: 55171815--55172013 Score: 211
Period size: 50 Copynumber: 4.0 Consensus size: 50
55171805 AGATCGTTGA
*
55171815 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATAGTT
* * * * * *
55171865 AGGTCACATGTGCAGTACTAAGTGCAGGCTACCATGCATACCCA-ACAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCATA-CCAGA-TAGTT
* * * * ** ** *
55171916 CGATCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATAGTT
* *
55171966 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATAG
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATAG
55172014 CTTCGGTTAC
Statistics
Matches: 115, Mismatches: 31, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
50 78 0.68
51 37 0.32
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATAGTT
Found at i:55172018 original size:101 final size:101
Alignment explanation
Indices: 55171822--55172007 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
55171812 TGAAGGTCAC
55171822 GTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAGTTAGGTCACATGTGCAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAGTTAGGTCACATGTGCAGTACTAAG
55171887 TGCAGGCTACCATGCATACCCAACAACTTCGATCAT
66 TGCAGGCTACCATGCATACCCAACAACTTCGATCAT
* * ** * ** *
55171923 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTTAGGTCATGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAGTTAGGTCACATGTGCAGTACTAAG
*
55171988 TGCAGGCTACTATGCATACC
66 TGCAGGCTACCATGCATACC
55172008 AGATAGCTTC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (101 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATAGTTAGGTCACATGTGCAGTACTAAG
TGCAGGCTACCATGCATACCCAACAACTTCGATCAT
Done.