Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 59 of 322
Found at i:18689217 original size:49 final size:49
Alignment explanation
Indices: 18689135--18689265 Score: 208
Period size: 49 Copynumber: 2.7 Consensus size: 49
18689125 CTAGTATGCA
* * *
18689135 TAGTGGCCTACACTTAGTACTACACATGCGACCAATAATCTGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGACCAATAATCCGGTACACG
* *
18689184 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGACCAATAATCCGGTACACG
*
18689233 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTACACTTAGTACTACACATGTGACC
18689266 TCACAATAGT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 75 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACATGTGACCAATAATCCGGTACACG
Found at i:18693429 original size:48 final size:47
Alignment explanation
Indices: 18693310--18693929 Score: 751
Period size: 48 Copynumber: 12.9 Consensus size: 47
18693300 ATTATAAGAT
* * *
18693310 GCCGATGCCATGTCCCAGA-ATGGTCTTACACTGGCTCTCATAT-ATCAG
1 GCCGATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATCA--AG
* *
18693358 TGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAG
1 -GCCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * * *
18693407 GCCGATGCCATGTCCTAGACATGGTCTTACAGTAGCTCTCATATAAAT
1 GCCGATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATATCAAG
*
18693455 GCCGCA-GCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAG
1 GCCG-ATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * * *
18693503 GCCGATGCCATGTCCTAGACATGGTCTTACAGTAGCTCTCATATAAAT
1 GCCGATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATATCAAG
* *
18693551 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCATATATCAAA
1 GCCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * * *
18693599 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATCAAG
* *
18693647 GTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAG
1 GCCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * * *
18693695 GCCGATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATCTAAAT
1 GCCGATGCCATGTCCAA-ACATGGTCTTACACTAGCTCACATATCAAG
*
18693743 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAG
1 GCCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAG
* * *
18693791 GCCGATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTCCAA-ACATGGTCTTACACTAGCTCACATATCAAG
*
18693839 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCACG
1 GCCGATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAG
*
18693887 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA
1 GCCGATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATA
18693930 ACCCTAGTAT
Statistics
Matches: 492, Mismatches: 63, Indels: 33
0.84 0.11 0.06
Matches are distributed among these distances:
47 19 0.04
48 415 0.84
49 35 0.07
50 23 0.05
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCAAACATGGTCTTACACTAGCTCACATATCAAG
Found at i:18693482 original size:96 final size:96
Alignment explanation
Indices: 18693310--18693929 Score: 1039
Period size: 96 Copynumber: 6.4 Consensus size: 96
18693300 ATTATAAGAT
* * *
18693310 GCCGATGCCATGTCCCAGA-ATGGTCTTACACTGGCTCTCATATATCAGTGTCGATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTC
18693374 CAAACATGGTCTTACACTAGCTCACATATCGAG
64 CAAACATGGTCTTACACTAGCTCACATATCGAG
* *
18693407 GCCGATGCCATGTCCTAGACATGGTCTTACAGTAGCTCTCATATAAATGCCGCA-GCCATGTTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCG-ATGCCATGTTCC
18693471 AAACATGGTCTTACACTAGCTCACATATCGAG
65 AAACATGGTCTTACACTAGCTCACATATCGAG
* *
18693503 GCCGATGCCATGTCCTAGACATGGTCTTACAGTAGCTCTCATATAAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
* * *
18693568 AACATGGTCTTACACTAGCTCATATATCAAA
66 AACATGGTCTTACACTAGCTCACATATCGAG
* *
18693599 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
18693664 AACATGGTCTTACACTAGCTCACATATCGAG
66 AACATGGTCTTACACTAGCTCACATATCGAG
* *
18693695 GCCGATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATCTAAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
18693760 AACATGGTCTTACACTAGCTCACATATCGAG
66 AACATGGTCTTACACTAGCTCACATATCGAG
*
18693791 GCCGATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
18693856 AACATGGTCTTACACTAGCTCACATATC-ACG
66 AACATGGTCTTACACTAGCTCACATATCGA-G
*
18693887 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA
18693930 ACCCTAGTAT
Statistics
Matches: 497, Mismatches: 22, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
95 2 0.00
96 453 0.91
97 19 0.04
98 23 0.05
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
AACATGGTCTTACACTAGCTCACATATCGAG
Found at i:18695603 original size:50 final size:49
Alignment explanation
Indices: 18695486--18695719 Score: 270
Period size: 49 Copynumber: 4.7 Consensus size: 49
18695476 ATCTAGTACG
* * *
18695486 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACA
* * **
18695535 CGTAGTAGCCTGCACTTAGTACTACACACGTTACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGATACA
* * * * * *
18695585 CGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGATACA
* ** * *
18695636 CATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACA
*
18695685 CATAGTAGCCTGCAATTAGTACTACACACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
18695720 TCACAATAGA
Statistics
Matches: 155, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
49 72 0.46
50 47 0.30
51 36 0.23
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACA
Found at i:18695712 original size:26 final size:26
Alignment explanation
Indices: 18695636--18695712 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 26
18695626 ATCGGGTACG
*
18695636 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCAATTAGTACTACA
* * *
18695662 CAT-GCA-AC--CAATTA-TCCGGTACA
1 CATAGTAGCCTGCAATTAGTAC--TACA
18695685 CATAGTAGCCTGCAATTAGTACTACA
1 CATAGTAGCCTGCAATTAGTACTACA
18695711 CA
1 CA
18695713 CGTGACCTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
21 2 0.05
22 5 0.14
23 7 0.19
24 3 0.08
25 3 0.08
26 9 0.24
27 6 0.16
28 2 0.05
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (26 bp):
CATAGTAGCCTGCAATTAGTACTACA
Found at i:18700649 original size:39 final size:39
Alignment explanation
Indices: 18700565--18700721 Score: 176
Period size: 39 Copynumber: 4.0 Consensus size: 39
18700555 CAAATCCAAT
* * *
18700565 CACCACCAC-AAAGCATGCGGGGCATTAAGCCCAGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TT-AGCCCAGATATAA
* *
18700605 TACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TTAGCCCAGATATAA
*
18700644 CACCAGCACGAATGCCTTG-GGGACTTAGCCCAGATATAA
1 CACCAGCACGAAAGCC-TGCGGGACTTAGCCCAGATATAA
* * *
18700683 CACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCAGATATAA
18700722 TTCTTCATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 69 0.67
40 31 0.30
41 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTGCGGGACTTAGCCCAGATATAA
Found at i:18708794 original size:46 final size:46
Alignment explanation
Indices: 18708628--18708795 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 46
18708618 TGAGCATCCA
* * * *
18708628 AACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
* ** *
18708674 AACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGTAATAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGA-ACGC--CCG
* *
18708720 AACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
* *
18708766 AGCTCGTTGAGTTGATTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
18708796 GGGGCGGGTT
Statistics
Matches: 97, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 1 0.01
46 73 0.75
47 1 0.01
48 3 0.03
49 5 0.05
50 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
Found at i:18716372 original size:93 final size:93
Alignment explanation
Indices: 18716208--18716378 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
18716198 GGATGGTTGA
* **
18716208 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
18716273 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
18716301 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
18716366 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
18716379 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18716381 original size:46 final size:46
Alignment explanation
Indices: 18716212--18716383 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
18716202 GGTTGAGCAT
* * * *
18716212 CCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
18716258 TCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
18716303 ATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
18716351 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18716384 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 57 0.55
47 28 0.27
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:18724799 original size:40 final size:40
Alignment explanation
Indices: 18724744--18724921 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
18724734 TGGATGATAA
* *
18724744 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
18724784 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
18724824 CCGGGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
18724864 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
18724904 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
18724922 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 16 0.13
40 109 0.87
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:18731963 original size:9 final size:9
Alignment explanation
Indices: 18731949--18731980 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
18731939 GCTGGGGGAT
18731949 TGGAGGGGG
1 TGGAGGGGG
18731958 TGGAGGGGG
1 TGGAGGGGG
*
18731967 TGGAGGAGG
1 TGGAGGGGG
18731976 TGGAG
1 TGGAG
18731981 TGTTCGGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.72, T:0.12
Consensus pattern (9 bp):
TGGAGGGGG
Found at i:18735198 original size:46 final size:46
Alignment explanation
Indices: 18735027--18735298 Score: 165
Period size: 46 Copynumber: 5.8 Consensus size: 46
18735017 TCACTTGTCT
* ** * ***
18735027 GAGCTAGTGTAAGACATGTCTGGGACATGCATTTGCCACCTTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
* ** *
18735073 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTATTGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
* * * * ** *
18735121 GTGCTAGTGTAAGACATGTTTGAGATGTGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-A
18735168 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGAT--
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
* * * * * * * *
18735211 GTGTCAGTGTAAGACCCTGTCTGGGTCATGGCATTGGCATAGATATGCTA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATG--A
** *
18735261 GAGCTTGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
18735299 ACCTGCAGTC
Statistics
Matches: 170, Mismatches: 44, Indels: 20
0.73 0.19 0.09
Matches are distributed among these distances:
44 11 0.06
45 14 0.08
46 68 0.40
47 26 0.15
48 21 0.12
50 30 0.18
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:18736720 original size:48 final size:48
Alignment explanation
Indices: 18736649--18736754 Score: 185
Period size: 48 Copynumber: 2.2 Consensus size: 48
18736639 GGGCATTACA
* *
18736649 CTTACACTAGCTAACATATCGAGGCCGATGCCATGTCCCAGACATGGT
1 CTTACACTAGATAACATATCGAGGCCGATGCCATGTCCCAAACATGGT
*
18736697 CTTACACTAGATCACATATCGAGGCCGATGCCATGTCCCAAACATGGT
1 CTTACACTAGATAACATATCGAGGCCGATGCCATGTCCCAAACATGGT
18736745 CTTACACTAG
1 CTTACACTAG
18736755 CTCTCATAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (48 bp):
CTTACACTAGATAACATATCGAGGCCGATGCCATGTCCCAAACATGGT
Found at i:18741335 original size:6 final size:6
Alignment explanation
Indices: 18741310--18741357 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
18741300 ATTTAAACTC
*
18741310 AAACCT AATACC- -AACC- AAACCC AAACCT AAACCT AAACCT AAACCT
1 AAACCT AA-ACCT AAACCT AAACCT AAACCT AAACCT AAACCT AAACCT
18741356 AA
1 AA
18741358 GCTCAATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
4 3 0.08
5 5 0.13
6 27 0.71
7 3 0.08
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.12
Consensus pattern (6 bp):
AAACCT
Found at i:18741353 original size:18 final size:17
Alignment explanation
Indices: 18741303--18741357 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
18741293 AATATATATT
18741303 TAAACTCAAACCTAATACC
1 TAAAC-CAAACCTAA-ACC
*
18741322 --AACCAAACCCAAACC
1 TAAACCAAACCTAAACC
18741337 TAAACCTAAACCTAAACC
1 TAAACC-AAACCTAAACC
18741355 TAA
1 TAA
18741358 GCTCAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 3 0.10
16 8 0.26
17 7 0.23
18 13 0.42
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.15
Consensus pattern (17 bp):
TAAACCAAACCTAAACC
Found at i:18761935 original size:22 final size:23
Alignment explanation
Indices: 18761909--18761959 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
18761899 TTATTTTTAA
*
18761909 ATTAATATAT-AATTTTATAATC
1 ATTAATATATAAATTTTATAAAC
*
18761931 ATTAA-ATTTAAATTTTATAAAC
1 ATTAATATATAAATTTTATAAAC
*
18761953 TTTAATA
1 ATTAATA
18761960 ATTATTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 20 0.83
23 1 0.04
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTAATATATAAATTTTATAAAC
Found at i:18762990 original size:41 final size:41
Alignment explanation
Indices: 18762930--18763030 Score: 107
Period size: 39 Copynumber: 2.5 Consensus size: 41
18762920 AAATAGGTTT
** *
18762930 TTAGCGGCGTTTTGAAGAAAAACGCCACTAAAGAGCGAGCA
1 TTAGCGGCGTTTTTTAGAAAAACGCCACTAAAGAGCAAGCA
* * * *
18762971 TTAGCGGCGTTTTTTAG--AAACGCCGCTAAAGATCAATCT
1 TTAGCGGCGTTTTTTAGAAAAACGCCACTAAAGAGCAAGCA
* *
18763010 TTAGCGGTGTTTTTTATAAAA
1 TTAGCGGCGTTTTTTAGAAAA
18763031 GAGGCGCTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 32 0.65
41 17 0.35
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (41 bp):
TTAGCGGCGTTTTTTAGAAAAACGCCACTAAAGAGCAAGCA
Found at i:18764112 original size:7 final size:7
Alignment explanation
Indices: 18764102--18764175 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
18764092 TTAGGGGCCA
18764102 GTTTAGG
1 GTTTAGG
*
18764109 GTTTAGA
1 GTTTAGG
*
18764116 GTTTA-T
1 GTTTAGG
* *
18764122 GTGTAAG
1 GTTTAGG
18764129 GTTTATGG
1 GTTTA-GG
*
18764137 TTTTAGG
1 GTTTAGG
*
18764144 GTTTTGG
1 GTTTAGG
*
18764151 GTTTTATG
1 G-TTTAGG
18764159 GTTTAGG
1 GTTTAGG
*
18764166 GTTTATG
1 GTTTAGG
18764173 GTT
1 GTT
18764176 AATAAATTAT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
6 4 0.08
7 37 0.73
8 10 0.20
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (7 bp):
GTTTAGG
Found at i:18764153 original size:15 final size:15
Alignment explanation
Indices: 18764128--18764169 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
18764118 TTATGTGTAA
*
18764128 GGTTTATGGTTTTAG
1 GGTTTAGGGTTTTAG
* *
18764143 GGTTTTGGGTTTTAT
1 GGTTTAGGGTTTTAG
18764158 GGTTTAGGGTTT
1 GGTTTAGGGTTT
18764170 ATGGTTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.10, C:0.00, G:0.36, T:0.55
Consensus pattern (15 bp):
GGTTTAGGGTTTTAG
Found at i:18764172 original size:14 final size:14
Alignment explanation
Indices: 18764102--18764175 Score: 53
Period size: 15 Copynumber: 5.2 Consensus size: 14
18764092 TTAGGGGCCA
18764102 GTTTAGGGTTTA-G
1 GTTTAGGGTTTATG
* * *
18764115 AGTTTA-TGTGTAAG
1 -GTTTAGGGTTTATG
* *
18764129 GTTTATGGTTTTAGG
1 GTTTA-GGGTTTATG
*
18764144 GTTTTGGGTTTTATG
1 GTTTAGGG-TTTATG
18764159 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
18764173 GTT
1 GTT
18764176 AATAAATTAT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
13 9 0.20
14 17 0.37
15 20 0.43
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:18764198 original size:14 final size:14
Alignment explanation
Indices: 18764154--18764204 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
18764144 GTTTTGGGTT
*
18764154 TTATGGTTTAGGGT
1 TTATGGTTTAGGGA
* ***
18764168 TTATGGTTAATAAA
1 TTATGGTTTAGGGA
18764182 TTATGGTTTAGGGA
1 TTATGGTTTAGGGA
18764196 TTA-GGTTTA
1 TTATGGTTTA
18764205 TATGGTTAAT
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
13 6 0.21
14 22 0.79
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGA
Found at i:18768607 original size:15 final size:13
Alignment explanation
Indices: 18768575--18768656 Score: 66
Period size: 13 Copynumber: 6.3 Consensus size: 13
18768565 TTACATAATA
18768575 CATAAATATATAT
1 CATAAATATATAT
18768588 CATAAATATATAT
1 CATAAATATATAT
18768601 CATATAATA-ACT-T
1 CATA-AATATA-TAT
*
18768614 ACATAAATTATATAC
1 -CATAAA-TATATAT
*
18768629 CTTACAA-A-ATA-
1 CATA-AATATATAT
18768640 CATAAATATATAT
1 CATAAATATATAT
18768653 CATA
1 CATA
18768657 TCATAACTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 20
0.71 0.04 0.25
Matches are distributed among these distances:
10 2 0.04
11 4 0.07
12 6 0.11
13 26 0.46
14 15 0.27
15 3 0.05
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:18768627 original size:43 final size:44
Alignment explanation
Indices: 18768580--18768713 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 44
18768570 TAATACATAA
*
18768580 ATATATAT-CATAAATATATATCATATAATAACTTACATAAATT
1 ATATATATACATAAATATATATCATATCATAACTTACATAAATT
* *
18768623 ATATACCTTACAAAATACATAAATATATATCATATCATAACTTACACAACTT
1 ATATA---T-----ATACATAAATATATATCATATCATAACTTACATAAATT
*
18768675 ACATA-ATACATAAATATATATCATATCATAACTTACATA
1 ATATATATACATAAATATATATCATATCATAACTTACATA
18768714 CCTTACATAA
Statistics
Matches: 77, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
43 38 0.49
46 1 0.01
51 2 0.03
52 36 0.47
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (44 bp):
ATATATATACATAAATATATATCATATCATAACTTACATAAATT
Found at i:18768679 original size:36 final size:36
Alignment explanation
Indices: 18768638--18768756 Score: 139
Period size: 36 Copynumber: 3.1 Consensus size: 36
18768628 CCTTACAAAA
*
18768638 TACATAAATATATATCATATCATAACTTACACAACTTACAT
1 TACATAAATATATATCATATCATAACTT--AC-A-TAAC-T
*
18768679 AATACATAAATATATATCATATCATAACTTACATACCT
1 --TACATAAATATATATCATATCATAACTTACATAACT
* *
18768717 TACATAAATGTATATCATAACATAACTTACATAACT
1 TACATAAATATATATCATATCATAACTTACATAACT
18768753 TACA
1 TACA
18768757 AAGCTTACTT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
36 37 0.52
38 1 0.01
39 2 0.03
40 1 0.01
41 2 0.03
43 28 0.39
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (36 bp):
TACATAAATATATATCATATCATAACTTACATAACT
Found at i:18768713 original size:9 final size:9
Alignment explanation
Indices: 18768701--18768773 Score: 60
Period size: 9 Copynumber: 8.1 Consensus size: 9
18768691 TATATCATAT
18768701 CATAACTTA
1 CATAACTTA
*
18768710 CATACCTTA
1 CATAACTTA
*
18768719 CATAAATGTA
1 CATAACT-TA
* * *
18768729 TATCA-TAA
1 CATAACTTA
18768737 CATAACTTA
1 CATAACTTA
18768746 CATAACTTA
1 CATAACTTA
18768755 CA-AAGCTTA
1 CATAA-CTTA
*
18768764 CTTAACTTA
1 CATAACTTA
18768773 C
1 C
18768774 GTAATACATA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
8 6 0.12
9 37 0.74
10 7 0.14
ACGTcount: A:0.42, C:0.22, G:0.03, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:18768719 original size:43 final size:43
Alignment explanation
Indices: 18768615--18768723 Score: 173
Period size: 43 Copynumber: 2.5 Consensus size: 43
18768605 TAATAACTTA
* * *
18768615 CATAAATTATATACCTTACAAAATACATAAATATATATCATAT
1 CATAACTTACATACCTTACATAATACATAAATATATATCATAT
* *
18768658 CATAACTTACACAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACATACCTTACATAATACATAAATATATATCATAT
18768701 CATAACTTACATACCTTACATAA
1 CATAACTTACATACCTTACATAA
18768724 ATGTATATCA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (43 bp):
CATAACTTACATACCTTACATAATACATAAATATATATCATAT
Found at i:18770576 original size:12 final size:12
Alignment explanation
Indices: 18770559--18770584 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18770549 AAGATCGAGG
18770559 GATGAATCTGAT
1 GATGAATCTGAT
18770571 GATGAATCTGAT
1 GATGAATCTGAT
18770583 GA
1 GA
18770585 AGAGGATGAT
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:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:18773896 original size:13 final size:14
Alignment explanation
Indices: 18773880--18773908 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18773870 TTCTAAATAT
18773880 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
18773893 TTATAATTGTTTAA
1 TTATAATTGTTTAA
18773907 TT
1 TT
18773909 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:18774387 original size:21 final size:21
Alignment explanation
Indices: 18774322--18774376 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
18774312 ACTTAGAGCG
18774322 GAGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
18774343 -ACGACAGCAGCGAGGGAGGCA
1 GA-GGCAGCAGCGAGGGAGGCA
18774364 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
18774377 TGGCAGCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.47, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:18774826 original size:43 final size:42
Alignment explanation
Indices: 18774765--18774845 Score: 144
Period size: 43 Copynumber: 1.9 Consensus size: 42
18774755 GTAAAAAAAG
*
18774765 CGCCGCTAAAAGTCATGACTTTTAGCGGCGCCTTTTTTACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCG-CTTTTTTACAAA
18774808 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTTTA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTTTA
18774846 AATAAACGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
42 8 0.22
43 29 0.78
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (42 bp):
CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTTTACAAA
Found at i:18776951 original size:26 final size:26
Alignment explanation
Indices: 18776902--18776952 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
18776892 CCGTTATTTT
**
18776902 ATTTTTATTGTCGTTTTTTTGTTGAA
1 ATTTTTATTGTCGTTTTTAAGTTGAA
*
18776928 ATTTTTATTGTGGTTTTTAAGTTGA
1 ATTTTTATTGTCGTTTTTAAGTTGA
18776953 CTGTATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.63
Consensus pattern (26 bp):
ATTTTTATTGTCGTTTTTAAGTTGAA
Found at i:18777180 original size:15 final size:15
Alignment explanation
Indices: 18777160--18777202 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
18777150 TTAAATCGGT
18777160 ATATTTTTAATTTAA
1 ATATTTTTAATTTAA
*
18777175 ATATTTTATAATTTTTA
1 ATATTTT-TAA-TTTAA
18777192 A-ATTTTTAATT
1 ATATTTTTAATT
18777203 AATAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 10 0.40
16 8 0.32
17 5 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATTTTTAATTTAA
Found at i:18782273 original size:34 final size:35
Alignment explanation
Indices: 18782193--18782270 Score: 95
Period size: 39 Copynumber: 2.1 Consensus size: 35
18782183 TTTTTTTTGA
*
18782193 AAAAACGAACCATTTTCTTAAGTTTTTTTTATTTT
1 AAAAATGAACCATTTTCTTAAGTTTTTTTTATTTT
18782228 GGAAAAAAATGAACCATTTTCTTAAGTTTTTTTT-TCTTT
1 ----AAAAATGAACCATTTTCTTAAGTTTTTTTTAT-TTT
18782267 AAAA
1 AAAA
18782271 TGACGACTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
35 4 0.11
38 1 0.03
39 32 0.86
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (35 bp):
AAAAATGAACCATTTTCTTAAGTTTTTTTTATTTT
Found at i:18785229 original size:49 final size:49
Alignment explanation
Indices: 18785171--18785389 Score: 157
Period size: 49 Copynumber: 4.6 Consensus size: 49
18785161 ACATTGAGGT
* *
18785171 CGATTCCATGTCCCAGACAGGTCTTACACTGGCTCTCGCTTATCTATGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCGCTTATCTATGC
* * * ** * *
18785220 TGATGCCATGTCCCATATAGGTCTTACACT-AATACAC-C---TC-AAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCT-CTCGCTTATCTATGC
* * * *
18785264 CGATGCCATGTCCTAGACAGGTCTTACACTAGCT-T-GCATATCTTAAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCGCTTATC-T-ATGC
* * * * * *
18785313 CAATGCCATGTCCCAGAGAGGTCTTACACTGGCTTTCACTTATCTGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCGCTTATCTATGC
** *
18785362 CGATGCTGTGTCTCAGACAGGTCTTACA
1 CGATGCCATGTCCCAGACAGGTCTTACA
18785390 TTGACATGCA
Statistics
Matches: 128, Mismatches: 31, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.01
44 28 0.22
45 3 0.02
46 2 0.02
48 2 0.02
49 85 0.66
50 2 0.02
51 5 0.04
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCGCTTATCTATGC
Found at i:18790997 original size:37 final size:37
Alignment explanation
Indices: 18790939--18791080 Score: 221
Period size: 37 Copynumber: 3.8 Consensus size: 37
18790929 CAGACGAAAC
* * *
18790939 CTCCACACGAAGTTATCGGGTCTTACCCGGACAAAAT
1 CTCCACACGTAGTCATCGGGTCTTACCCGGACATAAT
* *
18790976 CTCCACACGTAGTCATTGGGTCTTACCCGGACATACT
1 CTCCACACGTAGTCATCGGGTCTTACCCGGACATAAT
*
18791013 CTCCACACATAGTCATCGGGTCTTACCCGGACATAAT
1 CTCCACACGTAGTCATCGGGTCTTACCCGGACATAAT
*
18791050 CTCCACACGTAGTCATCGGGTCTCACCCGGA
1 CTCCACACGTAGTCATCGGGTCTTACCCGGA
18791081 ATATATTTCC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 95 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
CTCCACACGTAGTCATCGGGTCTTACCCGGACATAAT
Found at i:18791295 original size:47 final size:47
Alignment explanation
Indices: 18791243--18791428 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 47
18791233 TTTCACACTA
* * * *
18791243 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
18791290 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
18791337 GCGATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
18791384 GCCATTCGGCCTTATCACATATATACATGTTCACATTCGTCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
18791429 AAAATCCTAA
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:18797701 original size:43 final size:42
Alignment explanation
Indices: 18797654--18797752 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
18797644 TCCTAGACGT
* * *
18797654 GGTCTTACATGTAGTCGAATATCGATGCC-ACTGTCCCAGACAA
1 GGTCTTACATGTAATCAAATAT-AATGCCGA-TGTCCCAGACAA
* * *
18797697 GGTCTTACATGAAATCAAATATAATGCCGATGTCCTAGACAT
1 GGTCTTACATGTAATCAAATATAATGCCGATGTCCCAGACAA
18797739 GGTCTTACATGTAA
1 GGTCTTACATGTAA
18797753 ATCATAAGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.58
43 20 0.42
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATATAATGCCGATGTCCCAGACAA
Found at i:18797756 original size:43 final size:44
Alignment explanation
Indices: 18797644--18797756 Score: 135
Period size: 43 Copynumber: 2.6 Consensus size: 44
18797634 AATGCCAACA
* * * *
18797644 TCCTAGACGTGGTCTTACATGT-AGTCGAATATCGATGCCACTG
1 TCCTAGACATGGTCTTACATGTAAATCAAATATCAATGCCACTG
* *
18797687 TCCCAGACAAGGTCTTACATG-AAATCAAATAT-AATGCCGA-TG
1 TCCTAGACATGGTCTTACATGTAAATCAAATATCAATGCC-ACTG
18797729 TCCTAGACATGGTCTTACATGTAAATCA
1 TCCTAGACATGGTCTTACATGTAAATCA
18797757 TAAGTTAGAC
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (44 bp):
TCCTAGACATGGTCTTACATGTAAATCAAATATCAATGCCACTG
Found at i:18798542 original size:28 final size:28
Alignment explanation
Indices: 18798503--18798563 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
18798493 ACAATCACAA
18798503 AAAACGTAGAAATTATCAAAAACGAATC
1 AAAACGTAGAAATTATCAAAAACGAATC
* *
18798531 AAAATGTAGAAATTATCAAAAACGGATC
1 AAAACGTAGAAATTATCAAAAACGAATC
18798559 AAAAC
1 AAAAC
18798564 ACATACCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.11, T:0.18
Consensus pattern (28 bp):
AAAACGTAGAAATTATCAAAAACGAATC
Found at i:18803860 original size:27 final size:26
Alignment explanation
Indices: 18803829--18804006 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
18803819 TAAATTGTAC
18803829 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
18803856 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
18803882 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
18803910 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
18803938 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
18803965 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
18803992 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18804007 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:18803945 original size:82 final size:81
Alignment explanation
Indices: 18803830--18803985 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
18803820 AAATTGTACA
* * *
18803830 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18803894 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18803911 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18803976 TGCGAGTTGA
65 TGCGAATTGA
18803986 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.73
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18803997 original size:82 final size:81
Alignment explanation
Indices: 18803826--18804006 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
18803816 GATTAAATTG
* * *
18803826 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18803891 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
18803907 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18803971 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
18803989 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18804007 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18804017 original size:27 final size:27
Alignment explanation
Indices: 18803911--18804017 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
18803901 TGACCATGCG
* * *
18803911 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
18803939 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
18803966 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
18803993 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
18804018 CATTTGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:18812828 original size:40 final size:40
Alignment explanation
Indices: 18812775--18812855 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
18812765 ATTGAGATCG
18812775 GAAGAAACAATGGAGCCAGTTAGTGATTTAAGCGATTTAA
1 GAAGAAACAATGGAGCCAGTTAGTGATTTAAGCGATTTAA
*
18812815 GAAGATACAATGGAGCCAGTTAGTGATTTAAGCGATTTAA
1 GAAGAAACAATGGAGCCAGTTAGTGATTTAAGCGATTTAA
18812855 G
1 G
18812856 TCCCTTGTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (40 bp):
GAAGAAACAATGGAGCCAGTTAGTGATTTAAGCGATTTAA
Found at i:18818710 original size:48 final size:48
Alignment explanation
Indices: 18818658--18818821 Score: 150
Period size: 48 Copynumber: 3.4 Consensus size: 48
18818648 CAACATATGG
* * *
18818658 GCTAGTGTAAGACCAAGTTTGGAACATGGCATTGACATTTATATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATATATATGAGA
* * * * * ** * * *
18818706 GCTAGTGTGAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGG
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATATATATGAGA
* *
18818754 GCTAATGTAAGTCCATGTTTGGAACATGGCATCGGCACCA-ATATATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATC-G-A-CATATATATGAGA
*
18818804 GCCAGTGTAAGACCATGT
1 GCTAGTGTAAGACCATGT
18818822 CTAGGAATGG
Statistics
Matches: 86, Mismatches: 27, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
48 64 0.74
49 1 0.01
50 20 0.23
51 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATATATATGAGA
Found at i:18818819 original size:98 final size:95
Alignment explanation
Indices: 18818650--18818838 Score: 254
Period size: 96 Copynumber: 2.0 Consensus size: 95
18818640 CACAGCTTCA
* * * * *
18818650 ACATATGGGCTAGTGTAAGACCAAGTTTGGAACATGGCATTGACATTTATATGAGAGCTAGTGTG
1 ACATATGGGCTAATGTAAGACCAAGTTTGGAACATGGCATGGACATATATATGAGAGCCAGTGTA
*
18818715 AGACCATGTCTGGGACATGGCATCGGCCTCG
66 AGACCATGTCTAGGA-ATGGCATCGGCCTCG
* * *
18818746 ACATGTGGGCTAATGTAAGTCCATGTTTGGAACATGGCATCGGCACCA-ATATATGAGAGCCAGT
1 ACATATGGGCTAATGTAAGACCAAGTTTGGAACATGGCAT-GG-A-CATATATATGAGAGCCAGT
18818810 GTAAGACCATGTCTAGGAATGGCATCGGC
63 GTAAGACCATGTCTAGGAATGGCATCGGC
18818839 ATTGTACCCT
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
96 36 0.44
97 12 0.15
98 31 0.38
99 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (95 bp):
ACATATGGGCTAATGTAAGACCAAGTTTGGAACATGGCATGGACATATATATGAGAGCCAGTGTA
AGACCATGTCTAGGAATGGCATCGGCCTCG
Found at i:18837049 original size:29 final size:27
Alignment explanation
Indices: 18837008--18837113 Score: 97
Period size: 29 Copynumber: 3.7 Consensus size: 27
18836998 TAATATGATT
* *
18837008 TGGGCCTAATGGGCCATATGAATGAGAA
1 TGGGCTTAGTGGGCCATATGAAT-AGAA
*
18837036 TGGAGCTTAGTGGGCCATAAGAATATGAA
1 TGG-GCTTAGTGGGCCATATGAATA-GAA
* * *
18837065 CTGGGC-CAGATGGGCCATTTGAATAAGAT
1 -TGGGCTTAG-TGGGCCATATGAAT-AGAA
18837094 TGGGCTTAGTGGGCCATATG
1 TGGGCTTAGTGGGCCATATG
18837114 CATGTATGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
28 21 0.33
29 38 0.60
30 4 0.06
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (27 bp):
TGGGCTTAGTGGGCCATATGAATAGAA
Found at i:18837062 original size:58 final size:57
Alignment explanation
Indices: 18836999--18837111 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
18836989 GCATGAATAT
** *
18836999 AATATGATTTGGGCCTA-ATGGGCCATATGAATGAGAATGGAGCTTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATAAGAATGG-GCTTAGTGGGCCATAAG
* *
18837057 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCTTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATAAGAATGGGCTTAGTGGGCCATA
18837112 TGCATGTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 16 0.33
58 33 0.67
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATAAGAATGGGCTTAGTGGGCCATAAG
Found at i:18838432 original size:48 final size:48
Alignment explanation
Indices: 18838350--18838534 Score: 156
Period size: 48 Copynumber: 3.8 Consensus size: 48
18838340 ATACTAGGGT
* * * *
18838350 TATGTGAGCCAGTGTAAGACCATATTTGGAACATGGCATCGGCATTTA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATATA
* * * * **
18838398 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-ATCCTCGA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGA-CATATA
* * * * * * *
18838446 CATGTGGGCTAGTGTAAAACTATGTTTGGAACATGGCATCGACACCGATA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACA--TATA
* * *
18838496 TATGAAAGCCAGTGTAAGACCATGTATGGGACATGGCAT
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCAT
18838535 TGGCCTCGAC
Statistics
Matches: 104, Mismatches: 29, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
48 72 0.69
49 1 0.01
50 31 0.30
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATATA
Found at i:18838528 original size:98 final size:96
Alignment explanation
Indices: 18838351--18838559 Score: 274
Period size: 98 Copynumber: 2.2 Consensus size: 96
18838341 TACTAGGGTT
* * * * ** * *
18838351 ATGTGAGCCAGTGTAAGACCATATTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAG
1 ATGTGGGCTAGTGTAAAACCATATTTGGAACATGGCATCGACAGATATATGAAAGCCAGTGTAAG
* *
18838416 ACCATGTCTGGGACATGGCATCATCCTCGAC
66 ACCATGTATGGGACATGGCATCAGCCTCGAC
* *
18838447 ATGTGGGCTAGTGTAAAACTATGTTTGGAACATGGCATCGACACCGATATATGAAAGCCAGTGTA
1 ATGTGGGCTAGTGTAAAACCATATTTGGAACATGGCATCGACA--GATATATGAAAGCCAGTGTA
**
18838512 AGACCATGTATGGGACATGGCATTGGCCTCGAC
64 AGACCATGTATGGGACATGGCATCAGCCTCGAC
18838545 ATGTGGGCTAGTGTA
1 ATGTGGGCTAGTGTA
18838560 TGTAGCACCC
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 37 0.38
98 60 0.62
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (96 bp):
ATGTGGGCTAGTGTAAAACCATATTTGGAACATGGCATCGACAGATATATGAAAGCCAGTGTAAG
ACCATGTATGGGACATGGCATCAGCCTCGAC
Found at i:18840802 original size:48 final size:48
Alignment explanation
Indices: 18840693--18840918 Score: 197
Period size: 48 Copynumber: 4.6 Consensus size: 48
18840683 GGGGCGTTAC
* *
18840693 AGTGTAAGACCATGTTTGGAACATGGCATCAGCACCGATATATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATC-G-ACCTATATATGAGAGCT
* * *
18840743 AGTGGAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCTATATATGAGAGCT
* * ** * * *
18840791 AGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCTCGACATGTGGGCT
1 AGTGTAAGACCATGT-TTGGAACATGGCATCGACCTATATATGAGAGCT
* * * * *
18840839 AATGTAAGGCCATGTTTGGAACATGGCATTGGCACCAATATATAAGAGCCT
1 AGTGTAAGACCATGTTTGGAACATGGCA-TCG-ACCTATATATGAGAG-CT
* *
18840890 -GTGTAAGACCGTGTCTAGG-ACATGGCATC
1 AGTGTAAGACCATGT-TTGGAACATGGCATC
18840919 CACATCTTAC
Statistics
Matches: 139, Mismatches: 31, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
47 3 0.02
48 69 0.50
49 7 0.05
50 55 0.40
51 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGACCTATATATGAGAGCT
Found at i:18844181 original size:13 final size:13
Alignment explanation
Indices: 18844163--18844187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18844153 TAAACATTTC
18844163 AAATCATATTAAT
1 AAATCATATTAAT
18844176 AAATCATATTAA
1 AAATCATATTAA
18844188 AACCAATACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATCATATTAAT
Found at i:18855488 original size:17 final size:17
Alignment explanation
Indices: 18855450--18855487 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18855440 AACTTGTCCC
18855450 CTTTTATATATATTTTG
1 CTTTTATATATATTTTG
*
18855467 CTTTTATTTATATTTT-
1 CTTTTATATATATTTTG
18855483 CTTTT
1 CTTTT
18855488 TCGGGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.71
Consensus pattern (17 bp):
CTTTTATATATATTTTG
Found at i:18862756 original size:3 final size:3
Alignment explanation
Indices: 18862748--18862805 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
18862738 ATTGGCTTAT
18862748 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
18862796 AGA AGA AGA A
1 AGA AGA AGA A
18862806 TAAAATCAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:18868260 original size:64 final size:64
Alignment explanation
Indices: 18868155--18868362 Score: 197
Period size: 67 Copynumber: 3.2 Consensus size: 64
18868145 CATCATGTGT
* *
18868155 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACAAG--A-TA-AATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
18868220 TAG
62 TAG
** * * * * * *
18868223 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
18868288 AG
63 AG
* * *
18868290 ACAAGAGAGCTACAAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACAAGATAAA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
18868352 TACAAGAGAGC
1 -ACAAGAGAGC
18868363 CGAACTATAT
Statistics
Matches: 115, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 25 0.22
65 2 0.02
66 22 0.19
67 30 0.26
68 16 0.14
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:18871779 original size:31 final size:30
Alignment explanation
Indices: 18871741--18871989 Score: 91
Period size: 31 Copynumber: 7.7 Consensus size: 30
18871731 CTCGCTGCAA
18871741 TCTGGTGGCTTCGCCACATATATATATCTGT
1 TCTGGTGGCTTCGCCACA-ATATATATCTGT
* *
18871772 TCTGGTGGCCTAGCCAC---A-ATATCTGT
1 TCTGGTGGCTTCGCCACAATATATATCTGT
* * * *
18871798 ATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
1 -TCTGGTGGCTTCGCCACAATATAT---A---T--CTG--T
18871839 TCTGGTGGCTTCGCCACATATATATATCTGT
1 TCTGGTGGCTTCGCCACA-ATATATATCTGT
* *
18871870 TCTGGTGGCCTAGCCAC---A-ATATCTGT
1 TCTGGTGGCTTCGCCACAATATATATCTGT
* * * *
18871896 ATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
1 -TCTGGTGGCTTCGCCACAATATAT---A---T--CTG--T
18871937 TCTGGTGGCTTCGCCACATATATATATCTGT
1 TCTGGTGGCTTCGCCACA-ATATATATCTGT
* *
18871968 TCTGGTGGCCTAGCCACAATAT
1 TCTGGTGGCTTCGCCACAATAT
18871990 CTGTATCTGG
Statistics
Matches: 160, Mismatches: 26, Indels: 65
0.64 0.10 0.26
Matches are distributed among these distances:
26 16 0.10
27 28 0.17
30 6 0.04
31 48 0.30
33 6 0.04
34 2 0.01
35 2 0.01
37 2 0.01
38 2 0.01
39 6 0.04
40 32 0.20
41 10 0.06
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.32
Consensus pattern (30 bp):
TCTGGTGGCTTCGCCACAATATATATCTGT
Found at i:18871793 original size:26 final size:27
Alignment explanation
Indices: 18871764--18871823 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
18871754 CCACATATAT
*
18871764 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
18871790 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
18871817 ATATCTG
1 ATATCTG
18871824 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:18871805 original size:98 final size:98
Alignment explanation
Indices: 18871674--18872035 Score: 681
Period size: 98 Copynumber: 3.7 Consensus size: 98
18871664 CTCGCTGCAA
* * *
18871674 TCTGGTGGCCTCGCCACATATATCTGT-TATGGTGATTTCGTCACAATATCTGGCAGCCTCGCTG
1 TCTGGTGGCCTAGCCACA-ATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTG
18871738 CAATCTGGTGGCTTCGCCACATATATATATCTGT
65 CAATCTGGTGGCTTCGCCACATATATATATCTGT
18871772 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGC
1 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGC
18871837 AATCTGGTGGCTTCGCCACATATATATATCTGT
66 AATCTGGTGGCTTCGCCACATATATATATCTGT
18871870 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGC
1 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGC
18871935 AATCTGGTGGCTTCGCCACATATATATATCTGT
66 AATCTGGTGGCTTCGCCACATATATATATCTGT
18871968 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGC
1 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGC
18872033 AAT
66 AAT
18872036 TTCTGTGGTG
Statistics
Matches: 260, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
97 8 0.03
98 252 0.97
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (98 bp):
TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGC
AATCTGGTGGCTTCGCCACATATATATATCTGT
Found at i:18871891 original size:26 final size:27
Alignment explanation
Indices: 18871862--18871921 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
18871852 CCACATATAT
*
18871862 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
18871888 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
18871915 ATATCTG
1 ATATCTG
18871922 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:18871989 original size:26 final size:27
Alignment explanation
Indices: 18871960--18872019 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
18871950 CCACATATAT
*
18871960 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
18871986 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
18872013 ATATCTG
1 ATATCTG
18872020 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:18874727 original size:12 final size:12
Alignment explanation
Indices: 18874710--18874757 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
18874700 TGTCATTAAC
18874710 ATATAAAACCAA
1 ATATAAAACCAA
*
18874722 ATATAAAACTTTAA
1 ATATAAAAC--CAA
18874736 CATATAAAACCAA
1 -ATATAAAACCAA
18874749 ATATAAAAC
1 ATATAAAAC
18874758 TTTACTCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
ATATAAAACCAA
Found at i:18874743 original size:27 final size:27
Alignment explanation
Indices: 18874705--18874761 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
18874695 CAGTATGTCA
18874705 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
18874732 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
18874759 TTA
1 TTA
18874762 CTCCCACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAAAACT
Found at i:18891460 original size:35 final size:35
Alignment explanation
Indices: 18891349--18891494 Score: 166
Period size: 35 Copynumber: 4.2 Consensus size: 35
18891339 GTTATCTACT
* * *
18891349 GGTCCTTCAGGGCGACACCATGTAAATGGTATACA
1 GGTCCTTCAAGGCGACACCGTGTAAATGGTATATA
* * * *
18891384 AGTCCATCGAGGCGACACCGTGTAAATGGTATAAA
1 GGTCCTTCAAGGCGACACCGTGTAAATGGTATATA
* *
18891419 GCTCCTTCAAGGCGACACCGTGTAAATGCTATATA
1 GGTCCTTCAAGGCGACACCGTGTAAATGGTATATA
** * **
18891454 GGTCCTTTGAGGTGACATTGTGTAAATGGTATATA
1 GGTCCTTCAAGGCGACACCGTGTAAATGGTATATA
18891489 GGTCCT
1 GGTCCT
18891495 ACGGGGCAAC
Statistics
Matches: 92, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 92 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (35 bp):
GGTCCTTCAAGGCGACACCGTGTAAATGGTATATA
Found at i:18907288 original size:31 final size:31
Alignment explanation
Indices: 18907253--18907312 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
18907243 TCAATTTTGG
*
18907253 TCATGGGTTACATAAAAAACTTAATGTCTTT
1 TCATGGGTTACACAAAAAACTTAATGTCTTT
*
18907284 TCATGGGTTACACAAAGAACTTAATGTCT
1 TCATGGGTTACACAAAAAACTTAATGTCT
18907313 AACTCAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (31 bp):
TCATGGGTTACACAAAAAACTTAATGTCTTT
Found at i:18907709 original size:6 final size:6
Alignment explanation
Indices: 18907690--18907727 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
18907680 CATGAGAGCC
* *
18907690 TTTCTT TTTTTT TTTCTT TTTCTT TCTC-T TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
18907728 TCATCATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:18915123 original size:6 final size:6
Alignment explanation
Indices: 18915105--18915141 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
18915095 CATGAGAGCC
*
18915105 TTTCTT TTT-TT TTTCTT TTTCTT TCTC-T TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
18915142 TCATCATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 9 0.33
6 18 0.67
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:18915127 original size:17 final size:17
Alignment explanation
Indices: 18915105--18915141 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
18915095 CATGAGAGCC
* *
18915105 TTTCTTTTTTTTTTCTT
1 TTTCTTTCTCTTTTCTT
18915122 TTTCTTTCTCTTTTCTT
1 TTTCTTTCTCTTTTCTT
18915139 TTT
1 TTT
18915142 TCATCATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTCTTTCTCTTTTCTT
Found at i:18916666 original size:69 final size:69
Alignment explanation
Indices: 18916555--18916693 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
18916545 ATTACCTTTG
* *
18916555 ATTCAGAATAGCATAGAGTTTCACATCCTCACGACAGATTCACTCAAATCACTCACGGTGTTTAA
1 ATTCAGAATAGCATAGAGTTTCACATCCTCACGAAAGATTCACTCAAATCACTCAAGGTGTTTAA
18916620 GGAC
66 GGAC
* *
18916624 ATTCAGAATATCATAGAGTTTCACATCCTCACTAAAGATTCACTCAAATCACTCAAGGTGTTTAA
1 ATTCAGAATAGCATAGAGTTTCACATCCTCACGAAAGATTCACTCAAATCACTCAAGGTGTTTAA
18916689 GGAC
66 GGAC
18916693 A
1 A
18916694 ATAAATGAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.27
Consensus pattern (69 bp):
ATTCAGAATAGCATAGAGTTTCACATCCTCACGAAAGATTCACTCAAATCACTCAAGGTGTTTAA
GGAC
Found at i:18917347 original size:88 final size:88
Alignment explanation
Indices: 18917198--18917376 Score: 349
Period size: 88 Copynumber: 2.0 Consensus size: 88
18917188 GCATGAGTGG
*
18917198 GTTAATCCTAAGTTCCTTAATCATTTTGATATATCAAATCAGATGGTGTGGTCTCAACATGCATA
1 GTTAATCCTAAGTGCCTTAATCATTTTGATATATCAAATCAGATGGTGTGGTCTCAACATGCATA
18917263 ATCAAGCAAGTTCTAGAATAACA
66 ATCAAGCAAGTTCTAGAATAACA
18917286 GTTAATCCTAAGTGCCTTAATCATTTTGATATATCAAATCAGATGGTGTGGTCTCAACATGCATA
1 GTTAATCCTAAGTGCCTTAATCATTTTGATATATCAAATCAGATGGTGTGGTCTCAACATGCATA
18917351 ATCAAGCAAGTTCTAGAATAACA
66 ATCAAGCAAGTTCTAGAATAACA
18917374 GTT
1 GTT
18917377 CAATACTGAC
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (88 bp):
GTTAATCCTAAGTGCCTTAATCATTTTGATATATCAAATCAGATGGTGTGGTCTCAACATGCATA
ATCAAGCAAGTTCTAGAATAACA
Found at i:18917939 original size:17 final size:17
Alignment explanation
Indices: 18917917--18917955 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18917907 TTTGAAAAGG
18917917 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
* *
18917934 AAAACAATTGAGTCTTA
1 AAAACAAATGAATCTTA
18917951 AAAAC
1 AAAAC
18917956 TTAATAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.23
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:18926182 original size:41 final size:41
Alignment explanation
Indices: 18926125--18926207 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
18926115 TACGGCATTT
18926125 ACGCCCATACAAAGCCTCGTAAGGTGCCATCTTAATACTTG
1 ACGCCCATACAAAGCCTCGTAAGGTGCCATCTTAATACTTG
18926166 ACGCCCATACAAAGCCTCGTAAGGTGCCATCTTAATACTTG
1 ACGCCCATACAAAGCCTCGTAAGGTGCCATCTTAATACTTG
18926207 A
1 A
18926208 TTGAAAACTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (41 bp):
ACGCCCATACAAAGCCTCGTAAGGTGCCATCTTAATACTTG
Found at i:18932954 original size:120 final size:119
Alignment explanation
Indices: 18932765--18933027 Score: 341
Period size: 120 Copynumber: 2.2 Consensus size: 119
18932755 TCCTCGTTCA
* * **
18932765 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACATAACCCGGATT
* * *
18932830 TAACAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCA-CAC
66 TAACAACTCGCACAAAGGCCTTC-GGATCTTAACCCGGATATAATAACTCAGCAC
* * *
18932883 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACAC-AATGCCTTCGGGACATAACCCGGA
** * * *
18932948 TTTAACAACTCGCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCAC
64 TTTAACAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAATAACTCAGCAC
*
18933004 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
18933028 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
119 36 0.29
120 85 0.69
121 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAATAACTCAGCAC
Found at i:18932988 original size:40 final size:40
Alignment explanation
Indices: 18932765--18932974 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
18932755 TCCTCGTTCA
* * * ** *
18932765 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
18932804 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
18932844 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
18932884 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
18932924 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
18932964 AAGGCCTTCGG
1 AATGCCTTCGG
18932975 ATCTTAGTCC
Statistics
Matches: 158, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 34 0.22
40 124 0.78
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:18933011 original size:80 final size:80
Alignment explanation
Indices: 18932768--18933027 Score: 276
Period size: 80 Copynumber: 3.3 Consensus size: 80
18932758 TCGTTCAAAT
* * * ** * * *
18932768 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCACACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
18932832 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
* * * *
18932847 GCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCACACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
18932912 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
* **
18932927 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCACACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
18932991 ATTC-ACTTAGCAC-AAA
65 A-ACAAC-TAGCACGAAA
*
18933007 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
18933028 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
79 35 0.22
80 120 0.75
81 6 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAACAACTCACACAAAGGCCTTCGGGACTTAACCCGGATATA
ACAACTAGCACGAAA
Found at i:18933036 original size:41 final size:41
Alignment explanation
Indices: 18932959--18933036 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
18932949 TTAACAACTC
* * *
18932959 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
18933000 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
18933037 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:18948629 original size:65 final size:65
Alignment explanation
Indices: 18948525--18948655 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
18948515 CTATTTCTAT
* *
18948525 CGTGTCGGATAGAGATCCGAGATTCACCTCGCGATTTTGGAAGAAATTGCAAGAAGCTTTGGGTA
1 CGTGTCGGATAGAGATCCGAGATTCACCTCACGATTTTGGAAGAAATTACAAGAAGCTTTGGGTA
18948590 CGTGTCGGATAGAGATCCGAGATTCACCTCACGATTTTGGAAGAAATTACAAGAAGCTTTGGGTA
1 CGTGTCGGATAGAGATCCGAGATTCACCTCACGATTTTGGAAGAAATTACAAGAAGCTTTGGGTA
18948655 C
1 C
18948656 CAAGCTGCAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (65 bp):
CGTGTCGGATAGAGATCCGAGATTCACCTCACGATTTTGGAAGAAATTACAAGAAGCTTTGGGTA
Found at i:18950640 original size:13 final size:13
Alignment explanation
Indices: 18950622--18950646 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18950612 TGATGGTATA
18950622 TTGAATCCATGAC
1 TTGAATCCATGAC
18950635 TTGAATCCATGA
1 TTGAATCCATGA
18950647 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:18951229 original size:27 final size:27
Alignment explanation
Indices: 18951194--18951372 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
18951184 TTAAATTGTA
18951194 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
18951221 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
18951248 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
18951275 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
18951303 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
18951330 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
18951357 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
18951373 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:18951310 original size:82 final size:81
Alignment explanation
Indices: 18951196--18951351 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
18951186 AAATTGTATA
* *
18951196 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
18951260 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
18951277 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
18951342 TGCGAGTTGA
65 TGCGAATTGA
18951352 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18951363 original size:82 final size:81
Alignment explanation
Indices: 18951192--18951372 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
18951182 GATTAAATTG
* *
18951192 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
18951257 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
18951273 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
18951337 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
18951355 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
18951373 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18962129 original size:18 final size:19
Alignment explanation
Indices: 18962095--18962133 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
18962085 ATTCGAAAAA
*
18962095 AATTCGACTTGACTCAAAT
1 AATTCGACTTAACTCAAAT
18962114 AATTCGA-TTAACTCAAAT
1 AATTCGACTTAACTCAAAT
18962132 AA
1 AA
18962134 CTCAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (19 bp):
AATTCGACTTAACTCAAAT
Found at i:18962553 original size:11 final size:11
Alignment explanation
Indices: 18962497--18962591 Score: 70
Period size: 11 Copynumber: 8.6 Consensus size: 11
18962487 TCCCACCTTT
*
18962497 TCAATTCACTC
1 TCAATTCATTC
* *
18962508 ACAATTCACTC
1 TCAATTCATTC
* *
18962519 ACAATTCACTC
1 TCAATTCATTC
*
18962530 TCAACTC-TCTC
1 TCAATTCAT-TC
18962541 TCAATTCATTC
1 TCAATTCATTC
*
18962552 TCAA-TCCTCTC
1 TCAATTCAT-TC
18962563 TCAATTCATTC
1 TCAATTCATTC
*
18962574 TCAA-TCCTCTC
1 TCAATTCAT-TC
18962585 TCAATTC
1 TCAATTC
18962592 TTTGTCATTT
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
10 6 0.09
11 58 0.83
12 6 0.09
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (11 bp):
TCAATTCATTC
Found at i:18962553 original size:22 final size:22
Alignment explanation
Indices: 18962497--18962591 Score: 120
Period size: 22 Copynumber: 4.3 Consensus size: 22
18962487 TCCCACCTTT
* * *
18962497 TCAATTCACTCACAATTCACTC
1 TCAATTCACTCTCAATCCTCTC
*
18962519 ACAATTCACTCTCAA-CTCTCTC
1 TCAATTCACTCTCAATC-CTCTC
*
18962541 TCAATTCATTCTCAATCCTCTC
1 TCAATTCACTCTCAATCCTCTC
*
18962563 TCAATTCATTCTCAATCCTCTC
1 TCAATTCACTCTCAATCCTCTC
18962585 TCAATTC
1 TCAATTC
18962592 TTTGTCATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
22 64 0.98
23 1 0.02
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (22 bp):
TCAATTCACTCTCAATCCTCTC
Found at i:18962576 original size:33 final size:33
Alignment explanation
Indices: 18962497--18962578 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
18962487 TCCCACCTTT
* *
18962497 TCAATTCACTCACAATTCACTCACAATTCACTC
1 TCAATTCACTCTCAATTCACTCACAATCCACTC
* * * * *
18962530 TCAACTCTCTCTCAATTCATTCTCAATCCTCTC
1 TCAATTCACTCTCAATTCACTCACAATCCACTC
*
18962563 TCAATTCATTCTCAAT
1 TCAATTCACTCTCAAT
18962579 CCTCTCTCAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.28, C:0.35, G:0.00, T:0.37
Consensus pattern (33 bp):
TCAATTCACTCTCAATTCACTCACAATCCACTC
Found at i:18962627 original size:24 final size:23
Alignment explanation
Indices: 18962600--18962655 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
18962590 TCTTTGTCAT
*
18962600 TTTTTTATTAAAATTGTATTAAGG
1 TTTTTTATTAAAATTGTATT-ACG
* **
18962624 TTTTTAATTAATTTTGTATTACG
1 TTTTTTATTAAAATTGTATTACG
18962647 TTTTTTATT
1 TTTTTTATT
18962656 CTATTTATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.62
Consensus pattern (23 bp):
TTTTTTATTAAAATTGTATTACG
Found at i:18966369 original size:43 final size:42
Alignment explanation
Indices: 18966301--18966437 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 42
18966291 CATACAATGA
* *
18966301 GTCTTACATGTAATCACATGT-TGATGCCATTGTCCTAGACAGG
1 GTCTTACACGAAATCACAT-TATGATGCCA-TGTCCTAGACAGG
* *
18966344 GTCTTACACG-AATCACAATTATGATGCCGATGTCCCAGACATG
1 GTCTTACACGAAATCAC-ATTATGATGCC-ATGTCCTAGACAGG
* *
18966387 GTCTTACTCGAAATCACA-TATCGATGCCAACGTCCTAGAC-GTG
1 GTCTTACACGAAATCACATTAT-GATGCC-ATGTCCTAGACAG-G
18966430 GTCTTACA
1 GTCTTACA
18966438 TGTGAACATA
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
42 10 0.13
43 62 0.78
44 7 0.09
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (42 bp):
GTCTTACACGAAATCACATTATGATGCCATGTCCTAGACAGG
Found at i:18967638 original size:26 final size:26
Alignment explanation
Indices: 18967608--18967659 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
18967598 TAATAAACAC
18967608 TGAAAATAATTTTTAAATATTTTTCT
1 TGAAAATAATTTTTAAATATTTTTCT
18967634 TGAAAATAATTTTTAAATATTTTTCT
1 TGAAAATAATTTTTAAATATTTTTCT
18967660 AACTTGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (26 bp):
TGAAAATAATTTTTAAATATTTTTCT
Found at i:18980945 original size:40 final size:40
Alignment explanation
Indices: 18980897--18981000 Score: 163
Period size: 40 Copynumber: 2.6 Consensus size: 40
18980887 GCAAACACCT
* *
18980897 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
* *
18980937 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
*
18980977 TTGCCTTCGGGTCATAGCCCGGAC
1 TTGCCTTCGGGTCTTAGCCCGGAC
18981001 TTCCAATGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
Found at i:18981057 original size:236 final size:236
Alignment explanation
Indices: 18980765--18981200 Score: 854
Period size: 236 Copynumber: 1.8 Consensus size: 236
18980755 GAATCGACTT
18980765 TTCCAATGCACATGCAACACACCTTATCGTTCGAGTTGGTCGAGCATATTTATTGAATTAGTTAC
1 TTCCAATGCACATGCAACACACCTTATCGTTCGAGTTGGTCGAGCATATTTATTGAATTAGTTAC
18980830 AGCACAAAACGCTCACATTCAAACCCAAGTTTCTTCGGTATTTAACCGAATACAACCGCAAACAC
66 AGCACAAAACGCTCACATTCAAACCCAAGTTTCTTCGGTATTTAACCGAATACAACCGCAAACAC
*
18980895 CTTTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGA
131 CTTTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
18980960 TATATCATCTCGCATAATTGCCTTCGGGTCATAGCCCGGAC
196 TATATCATCTCGCATAATTGCCTTCGGGTCATAGCCCGGAC
18981001 TTCCAATGCACATGCAACACACCTTATCGTTCGAGTTGGTCGAGCATATTTATTGAATTAGTTAC
1 TTCCAATGCACATGCAACACACCTTATCGTTCGAGTTGGTCGAGCATATTTATTGAATTAGTTAC
18981066 AGCACAAAACGCTCACATTCAAACCCAAGTTTCTTCGGTATTTAACCGAATACAACCGCAAACAC
66 AGCACAAAACGCTCACATTCAAACCCAAGTTTCTTCGGTATTTAACCGAATACAACCGCAAACAC
*
18981131 CTTTGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
131 CTTTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
18981196 TATAT
196 TATAT
18981201 TCCAATGCTC
Statistics
Matches: 198, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
236 198 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (236 bp):
TTCCAATGCACATGCAACACACCTTATCGTTCGAGTTGGTCGAGCATATTTATTGAATTAGTTAC
AGCACAAAACGCTCACATTCAAACCCAAGTTTCTTCGGTATTTAACCGAATACAACCGCAAACAC
CTTTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGA
TATATCATCTCGCATAATTGCCTTCGGGTCATAGCCCGGAC
Found at i:18983618 original size:103 final size:103
Alignment explanation
Indices: 18983439--18983644 Score: 412
Period size: 103 Copynumber: 2.0 Consensus size: 103
18983429 AATTCCTCAT
18983439 ACAATTGGCAAAATTAGGGAATGAAATTTCCACATATGCATGTACACACATAATAAGCATAGAAT
1 ACAATTGGCAAAATTAGGGAATGAAATTTCCACATATGCATGTACACACATAATAAGCATAGAAT
18983504 ATAACAATTAATTATTTTCTTAACTCGGTTTTGTGGTC
66 ATAACAATTAATTATTTTCTTAACTCGGTTTTGTGGTC
18983542 ACAATTGGCAAAATTAGGGAATGAAATTTCCACATATGCATGTACACACATAATAAGCATAGAAT
1 ACAATTGGCAAAATTAGGGAATGAAATTTCCACATATGCATGTACACACATAATAAGCATAGAAT
18983607 ATAACAATTAATTATTTTCTTAACTCGGTTTTGTGGTC
66 ATAACAATTAATTATTTTCTTAACTCGGTTTTGTGGTC
18983645 CCGAAACCAC
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (103 bp):
ACAATTGGCAAAATTAGGGAATGAAATTTCCACATATGCATGTACACACATAATAAGCATAGAAT
ATAACAATTAATTATTTTCTTAACTCGGTTTTGTGGTC
Found at i:19001756 original size:40 final size:40
Alignment explanation
Indices: 19001660--19002063 Score: 329
Period size: 40 Copynumber: 10.1 Consensus size: 40
19001650 CGGATGATAA
* * ** *
19001660 CCGGACTAAGATCCAAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGATCCGAAGGCATTTATGCGAGTCGCTATAT
* * * *
19001700 CCGGGCTATG-TCCCGAAGGCATTTATGCTAG-CGATTATAA
1 CCGGGCTAAGAT-CCGAAGGCATTTATGCGAGTCG-CTATAT
* ** *
19001740 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGATCCGAAGGCATTTATGCGAGTCGCTATAT
* * * *
19001780 CCGGGCTATG-TCCCGAAGGCATTTATGCTAG-CGATTATAA
1 CCGGGCTAAGAT-CCGAAGGCATTTATGCGAGTCG-CTATAT
* ** *
19001820 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGATCCGAAGGCATTTATGCGAGTCGCTATAT
* * * *
19001860 CCGGGCTATG-TCCCGAAGGCATTTATGCTAG-CGATTATAA
1 CCGGGCTAAGAT-CCGAAGGCATTTATGCGAGTCG-CTATAT
* ** *
19001900 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGATCCGAAGGCATTTATGCGAGTCGCTATAT
* * *
19001940 CCGGGCTATG-TCCCGAAGGCATTTATGCTAG-CGATTATAT
1 CCGGGCTAAGAT-CCGAAGGCATTTATGCGAGTCG-CTATAT
* * *
19001980 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGATCCGAAGGCATTTATGCGAGTCGCTATAT
* * * *
19002020 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGATCCGAAGGCATTTATGCGAGTCGCTATAT
19002060 CCGG
1 CCGG
19002064 TTAAATCCCG
Statistics
Matches: 285, Mismatches: 63, Indels: 32
0.75 0.17 0.08
Matches are distributed among these distances:
39 8 0.03
40 270 0.95
41 7 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGATCCGAAGGCATTTATGCGAGTCGCTATAT
Found at i:19002063 original size:80 final size:80
Alignment explanation
Indices: 19001656--19002043 Score: 713
Period size: 80 Copynumber: 4.8 Consensus size: 80
19001646 TATTCGGATG
*
19001656 ATAACCGGACTAAGATCCAAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
19001721 TTTATGCTAGCGATT
66 TTTATGCTAGCGATT
19001736 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
19001801 TTTATGCTAGCGATT
66 TTTATGCTAGCGATT
19001816 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
19001881 TTTATGCTAGCGATT
66 TTTATGCTAGCGATT
19001896 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
19001961 TTTATGCTAGCGATT
66 TTTATGCTAGCGATT
* * * * * *
19001976 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
19002041 TTT
66 TTT
19002044 GTGCGAGTTG
Statistics
Matches: 301, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 301 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCA
TTTATGCTAGCGATT
Found at i:19004572 original size:41 final size:42
Alignment explanation
Indices: 19004501--19004607 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 42
19004491 ATGCTATCTC
* * *
19004501 ATATCGATGCCATTGTCCAAGACAGAGTCTTACACA-AATCAA
1 ATAT-GATGCCAATGTCCCAGACAGAGTCTTACACATAACCAA
* * *
19004543 ATATGATGCCAATGTCCCAGGCATG-GTCTTACTCATAACCAC
1 ATATGATGCCAATGTCCCAGACA-GAGTCTTACACATAACCAA
*
19004585 ATACCGATGCCAATGTCCCAGAC
1 ATA-TGATGCCAATGTCCCAGAC
19004608 GTCGTCTTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 25 0.46
42 12 0.22
43 17 0.31
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
ATATGATGCCAATGTCCCAGACAGAGTCTTACACATAACCAA
Found at i:19006468 original size:40 final size:41
Alignment explanation
Indices: 19006379--19006525 Score: 224
Period size: 41 Copynumber: 3.6 Consensus size: 41
19006369 CGCTGACTCA
* *
19006379 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * *
19006420 AAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
19006460 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
19006501 AAAAGCCCTTCGAGACCAAGCTCGG
1 AAAAGCCCTTCGAGACCAAGCTCGG
19006526 TTTTAAACCC
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 33 0.35
41 60 0.65
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:19006526 original size:81 final size:81
Alignment explanation
Indices: 19006379--19006527 Score: 235
Period size: 81 Copynumber: 1.8 Consensus size: 81
19006369 CGCTGACTCA
* * * * *
19006379 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCCAAAGGCCCTTCGAAACTAGGTTCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
19006444 GTTATGACACTGGCTC
66 GTTATGACACTGGCTC
* *
19006460 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCG
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
19006525 GTT
66 GTT
19006528 TTAAACCCCG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (81 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCCAAAAGCCCTTCGAAACCAAGCTCG
GTTATGACACTGGCTC
Found at i:19012886 original size:28 final size:27
Alignment explanation
Indices: 19012823--19012966 Score: 225
Period size: 27 Copynumber: 5.3 Consensus size: 27
19012813 ATATTAAGTC
* * *
19012823 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
19012850 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
19012878 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
19012905 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
19012933 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
19012960 CGCACAC
1 CGCACAC
19012967 AGTCAAACTC
Statistics
Matches: 111, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
27 58 0.52
28 53 0.48
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:19012907 original size:55 final size:55
Alignment explanation
Indices: 19012823--19013045 Score: 283
Period size: 55 Copynumber: 4.3 Consensus size: 55
19012813 ATATTAAGTC
* * * *
19012823 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
19012878 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
19012933 CGCACACTTAGTGCTACATAGTCAATTCG----C--A---C-AC--AGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* *
19012976 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGT-GCTACATAGTCAAACT
19013031 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19013046 GCACAATTTA
Statistics
Matches: 149, Mismatches: 6, Indels: 26
0.82 0.03 0.14
Matches are distributed among these distances:
43 38 0.26
45 2 0.01
46 1 0.01
47 1 0.01
49 2 0.01
51 1 0.01
53 1 0.01
54 2 0.01
55 97 0.65
56 4 0.03
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:19012985 original size:43 final size:43
Alignment explanation
Indices: 19012924--19013009 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
19012914 AGTGCTACAT
19012924 AGTCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACAC
1 AGTCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACAC
19012967 AGTCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACAC
1 AGTCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACAC
19013010 TTAGTGGCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (43 bp):
AGTCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACAC
Found at i:19013007 original size:27 final size:27
Alignment explanation
Indices: 19012975--19013045 Score: 133
Period size: 28 Copynumber: 2.6 Consensus size: 27
19012965 ACAGTCAAAC
19012975 TCGCACACTTAGTGCTACATAGTCAAT
1 TCGCACACTTAGTGCTACATAGTCAAT
19013002 TCGCACACTTAGTGGCTACATAGTCAAT
1 TCGCACACTTAGT-GCTACATAGTCAAT
19013030 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
19013046 GCACAATTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
27 16 0.37
28 27 0.63
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (27 bp):
TCGCACACTTAGTGCTACATAGTCAAT
Found at i:19013020 original size:71 final size:70
Alignment explanation
Indices: 19012897--19013037 Score: 248
Period size: 71 Copynumber: 2.0 Consensus size: 70
19012887 AGTGCTACAT
19012897 AGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATTCG
1 AGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATTCG
19012962 CACAC
66 CACAC
*
19012967 AGTCAAACTCGCACACTTAGTGCTACATAGTC-AATTCGCACACTTAGTGGCTACATAGTCAATT
1 AGTC-AACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGT-GCTACATAGTCAATT
19013031 CGCACAC
64 CGCACAC
19013038 TTAGTGCTGC
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
70 19 0.28
71 49 0.72
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (70 bp):
AGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATTCG
CACAC
Found at i:19014803 original size:22 final size:22
Alignment explanation
Indices: 19014775--19014849 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
19014765 CATCAGTGTT
*
19014775 ATCAGTGGCAGTTTATCTACAA
1 ATCAGTGGTAGTTTATCTACAA
*
19014797 ATCAGTGGTTA-TTTATTTACAA
1 ATCAGTGG-TAGTTTATCTACAA
* * * *
19014819 ATCAATGATAGTTTAACTCCAA
1 ATCAGTGGTAGTTTATCTACAA
19014841 ATCAGTGGT
1 ATCAGTGGT
19014850 GGCTAGTCCA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
21 2 0.05
22 39 0.93
23 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (22 bp):
ATCAGTGGTAGTTTATCTACAA
Found at i:19014953 original size:18 final size:18
Alignment explanation
Indices: 19014930--19014966 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19014920 GGGTAGGAAA
*
19014930 ATTTTTAAAATGTGCATC
1 ATTTTTAAAATATGCATC
*
19014948 ATTTTTAAAGTATGCATC
1 ATTTTTAAAATATGCATC
19014966 A
1 A
19014967 ATATGTCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (18 bp):
ATTTTTAAAATATGCATC
Found at i:19020447 original size:40 final size:40
Alignment explanation
Indices: 19020403--19020582 Score: 163
Period size: 40 Copynumber: 4.5 Consensus size: 40
19020393 GCTACTCGTT
* *
19020403 CAAATGCCTTCGGGACATAGCCCGGTTATACTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
19020443 CAAATGCCTTCAGGACTTAACCTGAATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-GTTATAGTAACTCGCA
* * *
19020483 CCAATGCCTTTGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
19020522 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
19020563 CAAA-GCCTTCGGGACTTAGC
1 CAAATGCCTTCGGGACTTAGC
19020583 TCGGACATCA
Statistics
Matches: 111, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
38 2 0.02
39 28 0.25
40 67 0.60
41 14 0.13
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:19028509 original size:40 final size:40
Alignment explanation
Indices: 19028433--19028614 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 40
19028423 GCTACTCGTT
* * *
19028433 CAAATGCCTTCGGGACATAGCCCAG-TTATAGAAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
19028473 CAAATGCCTTCGGGACTTAACACGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
19028513 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
19028552 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
19028593 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
19028615 AGACATCATT
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 72 0.61
41 14 0.12
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19028578 original size:79 final size:80
Alignment explanation
Indices: 19028433--19028614 Score: 185
Period size: 79 Copynumber: 2.3 Consensus size: 80
19028423 GCTACTCGTT
* ** * *
19028433 CAAATGCCTTCGGGACATAGCCC-AGTTATAGAAACTCGCACAAATGCCTTCGGGACTTAACACG
1 CAAA-GCCTTCGGGACTTAGCCCGAAAT-TAGTAACTAGCACAAATGCCTTCGGGACTTAACACG
* *
19028497 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* *
19028513 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTAGCACAAATGCCTTC-GGATCTTAGTC-C
1 -CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTAGCACAAATGCCTTCGGGA-CTTA-ACAC
* *
19028575 GGATATGGTCACTTAGCA
63 GGATATAGTAACTTAGCA
19028593 CAAAGCCTTCGGGACTTAGCCC
1 CAAAGCCTTCGGGACTTAGCCC
19028615 AGACATCATT
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
78 3 0.04
79 54 0.64
80 24 0.29
81 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTAGCACAAATGCCTTCGGGACTTAACACGGA
TATAGTAACTTAGCA
Found at i:19033244 original size:29 final size:29
Alignment explanation
Indices: 19033204--19033317 Score: 192
Period size: 29 Copynumber: 3.9 Consensus size: 29
19033194 GCATGTAGAT
*
19033204 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
19033233 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
19033262 AAATGTGATTCGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
19033291 GAATGTGATTTGGGCCTAGTGGGCCAT
1 GAATGTGATTTGGGCCTAATGGGCCAT
19033318 GTACATGTAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:19036453 original size:40 final size:40
Alignment explanation
Indices: 19036399--19036583 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
19036389 CTTGCATAAG
* * *
19036399 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
19036439 GCCTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
19036479 GCCTTCGGGTCTTAGCCCGGATATAGTAACTGGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
19036519 GCCTTC-GAATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
19036560 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
19036584 CATTTGAATA
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 91 0.76
41 26 0.22
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:19044471 original size:40 final size:40
Alignment explanation
Indices: 19044381--19044601 Score: 213
Period size: 40 Copynumber: 5.5 Consensus size: 40
19044371 CTCAAGTAAT
* * * *
19044381 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
19044419 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
19044459 CTTCAGGACTTAGCCCGAATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
19044499 CTTCGGGTCTTAGCCCGGATATAG-CA--ACGCACACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTA-GCACA--AATGC
* * *
19044539 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
19044580 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
19044602 CATTCGAATA
Statistics
Matches: 148, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
37 1 0.01
38 16 0.11
39 17 0.11
40 83 0.56
41 22 0.15
42 3 0.02
43 5 0.03
44 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:19049131 original size:29 final size:29
Alignment explanation
Indices: 19049064--19049131 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
19049054 GAAAGCATGT
*
19049064 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTCGGGCCTAATGGGCC
* *
19049093 ATACGAATGTGATTCGGGCCTAGTGGGCC
1 ATATGAATGTGATTCGGGCCTAATGGGCC
*
19049122 ATATGCATGT
1 ATATGAATGT
19049132 ATGTAGACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTCGGGCCTAATGGGCC
Found at i:19051623 original size:39 final size:39
Alignment explanation
Indices: 19051561--19051687 Score: 209
Period size: 39 Copynumber: 3.3 Consensus size: 39
19051551 GGGCCATGAG
19051561 CCTAGCAGGCCTCGTGCCGGTGTTAAGTTCAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGTTAAGTTCAGGTTTATA
* ** *
19051600 CCTAGCAGGCCTAGTGCTAGTGTTAAGTTTAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGTTAAGTTCAGGTTTATA
*
19051639 CCTAGCAGGCATCGTGCCGGTGTTAAGTTCAGGTTTATA
1 CCTAGCAGGCCTCGTGCCGGTGTTAAGTTCAGGTTTATA
19051678 CCTAGCAGGC
1 CCTAGCAGGC
19051688 ATATTGCTGG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (39 bp):
CCTAGCAGGCCTCGTGCCGGTGTTAAGTTCAGGTTTATA
Found at i:19055279 original size:10 final size:10
Alignment explanation
Indices: 19055264--19055294 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
19055254 TATTATGTAA
19055264 AAAAATAAAC
1 AAAAATAAAC
19055274 AAAAATAAAC
1 AAAAATAAAC
19055284 AGAAAATAAAC
1 A-AAAATAAAC
19055295 GCCACCCCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.55
11 9 0.45
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (10 bp):
AAAAATAAAC
Found at i:19058135 original size:101 final size:101
Alignment explanation
Indices: 19057960--19058162 Score: 325
Period size: 101 Copynumber: 2.0 Consensus size: 101
19057950 GATTTGTGAG
* *
19057960 TTTTTTAGCAGGTAAAAGCAGAGCATCAGGTACCATCGGGATTATTATAGCCTATTATGATTCCA
1 TTTTTCAGCAGGTAAAAGCAGAGCATCAGGTACCATCGAGATTATTATAGCCTATTATGATTCCA
* *
19058025 TAGTGGAAGTGAAAGTGAGTCACGATGAATTTCATA
66 TAGTGGAAGTGAAAGTGAATCACAATGAATTTCATA
* * *
19058061 TTTTTCAGCAGGTAAAAGCAGATCATCAGGTACCATCGAGATTTTTATAGCCTGTTATGATTCCA
1 TTTTTCAGCAGGTAAAAGCAGAGCATCAGGTACCATCGAGATTATTATAGCCTATTATGATTCCA
* *
19058126 TAGTGGAAGTGAGAGTGAATCACAATGTATTTCATA
66 TAGTGGAAGTGAAAGTGAATCACAATGAATTTCATA
19058162 T
1 T
19058163 CTCGTTTGCC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 93 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (101 bp):
TTTTTCAGCAGGTAAAAGCAGAGCATCAGGTACCATCGAGATTATTATAGCCTATTATGATTCCA
TAGTGGAAGTGAAAGTGAATCACAATGAATTTCATA
Found at i:19060423 original size:20 final size:20
Alignment explanation
Indices: 19060400--19060475 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
19060390 TATGCGGCCT
19060400 TGTTTGTACTTTGGTACCCC
1 TGTTTGTACTTTGGTACCCC
* *
19060420 TGTTTGTACTTCGATACCCC
1 TGTTTGTACTTTGGTACCCC
* * * *
19060440 TGATTGCACTTTTGTGCCCC
1 TGTTTGTACTTTGGTACCCC
* *
19060460 TGTTTATACTCTGGTA
1 TGTTTGTACTTTGGTA
19060476 ACTCTGAATC
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.13, C:0.25, G:0.18, T:0.43
Consensus pattern (20 bp):
TGTTTGTACTTTGGTACCCC
Found at i:19060464 original size:60 final size:60
Alignment explanation
Indices: 19060356--19060475 Score: 134
Period size: 60 Copynumber: 2.0 Consensus size: 60
19060346 CACTTACATG
* * * * * *
19060356 CCCCTATTTATACTTCAGTACGCCTGATTGTACTTATGCGGCCTTGTTTGTACTTTGGTA
1 CCCCTATTTATACTTCAGTACCCCTGATTGCACTTATGCGCCCCTGTTTATACTCTGGTA
* * * *
19060416 CCCCTGTTTGTACTTC-GATACCCCTGATTGCACTTTTGTGCCCCTGTTTATACTCTGGTA
1 CCCCTATTTATACTTCAG-TACCCCTGATTGCACTTATGCGCCCCTGTTTATACTCTGGTA
19060476 ACTCTGAATC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
59 1 0.02
60 48 0.98
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (60 bp):
CCCCTATTTATACTTCAGTACCCCTGATTGCACTTATGCGCCCCTGTTTATACTCTGGTA
Found at i:19064157 original size:20 final size:20
Alignment explanation
Indices: 19064132--19064170 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
19064122 AACATTCAAA
19064132 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
19064152 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
19064171 ACCATATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:19065605 original size:48 final size:48
Alignment explanation
Indices: 19065518--19065654 Score: 231
Period size: 48 Copynumber: 2.9 Consensus size: 48
19065508 TTGTACACCG
*
19065518 TTGGATTTATGTCGTTT-ATAACACAGTAAATTGCATACTAAACGTCA
1 TTGGATTTATGTCGTTTCATAACACGGTAAATTGCATACTAAACGTCA
* *
19065565 TTGGATTTATGTCGTTTCATAACACGGTAAGTTGCATACTAAACGTCG
1 TTGGATTTATGTCGTTTCATAACACGGTAAATTGCATACTAAACGTCA
*
19065613 TTGGATTTATGTCGTTTCATAACACGGTAAATTGCAAACTAA
1 TTGGATTTATGTCGTTTCATAACACGGTAAATTGCATACTAA
19065655 TATATATATT
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
47 17 0.20
48 67 0.80
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (48 bp):
TTGGATTTATGTCGTTTCATAACACGGTAAATTGCATACTAAACGTCA
Found at i:19067963 original size:34 final size:34
Alignment explanation
Indices: 19067916--19067987 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
19067906 ATTTTTAATA
19067916 ATAA-TATGTTGATAAATGACCCGATTGAGATTG
1 ATAAGTATGTTGATAAATGACCCGATTGAGATTG
19067949 ATAAGTATGTTGATAAATGACCCGATTGAGATTG
1 ATAAGTATGTTGATAAATGACCCGATTGAGATTG
19067983 ATAAG
1 ATAAG
19067988 GAAATTCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (34 bp):
ATAAGTATGTTGATAAATGACCCGATTGAGATTG
Found at i:19071421 original size:40 final size:40
Alignment explanation
Indices: 19071330--19071499 Score: 189
Period size: 40 Copynumber: 4.3 Consensus size: 40
19071320 TCCTCGTTCA
* * * *
19071330 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* * * *
19071369 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
*
19071409 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* * * * * *
19071449 AATGCCCTCGAGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
*
19071489 AAGGCCTTCGG
1 AATGCCTTCGG
19071500 ATCTTAGTCC
Statistics
Matches: 108, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 32 0.30
40 76 0.70
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
Found at i:19071431 original size:79 final size:80
Alignment explanation
Indices: 19071328--19071499 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 80
19071318 GCTCCTCGTT
* * * * * *
19071328 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-CATGCCTTCGGGACGTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCCCTCGAGACGTAACCCGG
19071392 ATTTAACAACTCGCA
66 ATTTAACAACTCGCA
* * *
19071407 CGAATGCCTTCGGGACTTAACCCGGCTTTAATAACTCACACGAATGCCCTCGAGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCCCTCGAGACGTAACCCGG
** *
19071472 ATTTAGTATCTCGCA
66 ATTTAACAACTCGCA
*
19071487 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
19071500 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
79 36 0.46
80 42 0.54
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAACCCGGCTTTAATAACTCACACGAATGCCCTCGAGACGTAACCCGG
ATTTAACAACTCGCA
Found at i:19073820 original size:54 final size:55
Alignment explanation
Indices: 19073738--19073853 Score: 207
Period size: 54 Copynumber: 2.1 Consensus size: 55
19073728 TTTCGAATGA
*
19073738 AGAGCGGGGCATGTTTCATATGCGGTTCTCTTGACCACTTCCTTAGGGACTG-CN
1 AGAGCGGGGCATGTTTCATATGCGGTTCTCTTGACCACTTCCTTAGGGACTGCCT
*
19073792 AGAGCGGTGCATGTTTCATATGCGGTTCTCTTGACCACTTCCTTAGGGACTGCCT
1 AGAGCGGGGCATGTTTCATATGCGGTTCTCTTGACCACTTCCTTAGGGACTGCCT
19073847 AGAGCGG
1 AGAGCGG
19073854 AATGAAAAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
54 51 0.86
55 8 0.14
ACGTcount: A:0.17, C:0.24, G:0.28, T:0.29
Consensus pattern (55 bp):
AGAGCGGGGCATGTTTCATATGCGGTTCTCTTGACCACTTCCTTAGGGACTGCCT
Done.