Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 58 of 170
Found at i:16917718 original size:75 final size:75
Alignment explanation
Indices: 16917455--16917833 Score: 348
Period size: 75 Copynumber: 5.0 Consensus size: 75
16917445 CCACATAACT
* * * * *
16917455 TCACCACTAAGGCTGTCCGAATAATACGCCACATAGGCCTTTCAGATAATTCGCCACAAAGGCTT
1 TCACCACAAAGGCTTTCCGAATAATACGCCACAAAGACCATTCAGATAATTCGCCACAAAGGCTT
*
16917520 TACAGATAAC
66 TACAGATTAC
** * * * * * **
16917530 TTTGCCACTAAGGCTTTCTGAATAATACACCACATATG-CCTTTCAGATAATTTTCCACAAAGGC
1 -TCACCACAAAGGCTTTCCGAATAATACGCCACA-AAGACCATTCAGATAATTCGCCACAAAGGC
* * *
16917594 TTTATAGGTAAC
64 TTTACAGATTAC
* * * * * * *
16917606 TTTACTACTAAA-GCTTTCTGAATAATACACTACAAAGACCATTCAAATAATTCACCACAAAGGC
1 -TCACCAC-AAAGGCTTTCCGAATAATACGCCACAAAGACCATTCAGATAATTCGCCACAAAGGC
16917670 TTTACAGATTAC
64 TTTACAGATTAC
* * * * * **
16917682 TCACTACAAAGGCTTCCCAAATAATACGCCACAAAGACCATTCAGATAATTTGCCATAAAGATTT
1 TCACCACAAAGGCTTTCCGAATAATACGCCACAAAGACCATTCAGATAATTCGCCACAAAGGCTT
*
16917747 TACAAATTAC
66 TACAGATTAC
* * * * * *
16917757 TCACCACAAAGGCTTTCCGAATAATACGCCATAAAGGCCTTTAAGATAATTCGTCAAAAAGGCTT
1 TCACCACAAAGGCTTTCCGAATAATACGCCACAAAGACCATTCAGATAATTCGCCACAAAGGCTT
*
16917822 TACAGACTAC
66 TACAGATTAC
16917832 TC
1 TC
16917834 GTCTCAAAGT
Statistics
Matches: 249, Mismatches: 50, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
74 3 0.01
75 123 0.49
76 120 0.48
77 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (75 bp):
TCACCACAAAGGCTTTCCGAATAATACGCCACAAAGACCATTCAGATAATTCGCCACAAAGGCTT
TACAGATTAC
Found at i:16939904 original size:16 final size:18
Alignment explanation
Indices: 16939876--16939909 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
16939866 TAGAATTGTG
16939876 TTTGAGAAAATT-ATTTA
1 TTTGAGAAAATTAATTTA
16939893 TTTGAG-AAATTAATTTA
1 TTTGAGAAAATTAATTTA
16939910 GTTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (18 bp):
TTTGAGAAAATTAATTTA
Found at i:16949262 original size:125 final size:125
Alignment explanation
Indices: 16949059--16949414 Score: 622
Period size: 125 Copynumber: 2.8 Consensus size: 125
16949049 ACAAGGGAGT
* * *
16949059 CCACCAAACTCACCTAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
1 CCACCAAGCTCGCCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
16949124 AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
66 AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
*
16949184 CCACCAAGCTCGCCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAG
1 CCACCAAGCTCGCCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
16949249 AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
66 AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
* * * *
16949309 CCACCAAGCTCGCTGAATGTAGACTTCACCGAAAGGCGCACTTCCTGACTTACATTCTTAGTCAC
1 CCACCAAGCTCGCCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
* *
16949374 ACTTAATACCTTACCCACTCAGCACTTGCTCTAAACACCAT
66 AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCAT
16949415 ACTTTGATAA
Statistics
Matches: 220, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 220 1.00
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (125 bp):
CCACCAAGCTCGCCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
Found at i:16949985 original size:51 final size:52
Alignment explanation
Indices: 16949921--16950031 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 52
16949911 ATTTCCAGAC
* *
16949921 CATTTTCATTTTGGAGAAAACCA-CATACATTTTCAAATGATTC-CATTTCTT
1 CATTTTCATTTTGGAGAAAACCATAATA-ATTTTCAAAAGATTCTCATTTCTT
* * *
16949972 TATTTTTATTTTGGAGAAAACCATAATAATTTTCAAAAGTTTCTCATTTCTT
1 CATTTTCATTTTGGAGAAAACCATAATAATTTTCAAAAGATTCTCATTTCTT
16950024 CATTTTCA
1 CATTTTCA
16950032 CCGTTTATGT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 34 0.67
52 17 0.33
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (52 bp):
CATTTTCATTTTGGAGAAAACCATAATAATTTTCAAAAGATTCTCATTTCTT
Found at i:16957792 original size:12 final size:12
Alignment explanation
Indices: 16957760--16957794 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
16957750 ATCAAATACG
16957760 AACTCAAATTTA
1 AACTCAAATTTA
* *
16957772 AAATAAAATTTA
1 AACTCAAATTTA
16957784 AACTCAAATTT
1 AACTCAAATTT
16957795 CGCATATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (12 bp):
AACTCAAATTTA
Found at i:16958110 original size:17 final size:19
Alignment explanation
Indices: 16958075--16958112 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
16958065 AAAAATTGCG
16958075 TATTTAAAATATAAATATA
1 TATTTAAAATATAAATATA
16958094 TATTTAAAA-AT-AATATA
1 TATTTAAAATATAAATATA
16958111 TA
1 TA
16958113 ATAAATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATTTAAAATATAAATATA
Found at i:16960388 original size:44 final size:44
Alignment explanation
Indices: 16960340--16960485 Score: 157
Period size: 44 Copynumber: 3.5 Consensus size: 44
16960330 AAATTCAATT
*
16960340 TTTTATTAAAA-TAATAATTATTCGTAAATTTATTTAACTAAATA
1 TTTTAATAAAATTAA-AATTATTCGTAAATTTATTTAACTAAATA
* * *
16960384 TTTTAATAAAATTAAAATTA-GCATTAAA-TTA-TT--C--AATT
1 TTTTAATAAAATTAAAATTATTC-GTAAATTTATTTAACTAAATA
*
16960422 TTTTATTAAAA-TAATAATTATTCGTAAATTTATTTAACTAAATA
1 TTTTAATAAAATTAA-AATTATTCGTAAATTTATTTAACTAAATA
16960466 TTTTAATAAAATTAAAATTA
1 TTTTAATAAAATTAAAATTA
16960486 GCATTAAATT
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
37 3 0.04
38 22 0.27
39 4 0.05
40 3 0.04
42 3 0.04
43 4 0.05
44 37 0.45
45 6 0.07
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (44 bp):
TTTTAATAAAATTAAAATTATTCGTAAATTTATTTAACTAAATA
Found at i:16960426 original size:82 final size:82
Alignment explanation
Indices: 16960332--16960496 Score: 330
Period size: 82 Copynumber: 2.0 Consensus size: 82
16960322 TGAATATAAA
16960332 ATTCAATTTTTTATTAAAATAATAATTATTCGTAAATTTATTTAACTAAATATTTTAATAAAATT
1 ATTCAATTTTTTATTAAAATAATAATTATTCGTAAATTTATTTAACTAAATATTTTAATAAAATT
16960397 AAAATTAGCATTAAATT
66 AAAATTAGCATTAAATT
16960414 ATTCAATTTTTTATTAAAATAATAATTATTCGTAAATTTATTTAACTAAATATTTTAATAAAATT
1 ATTCAATTTTTTATTAAAATAATAATTATTCGTAAATTTATTTAACTAAATATTTTAATAAAATT
16960479 AAAATTAGCATTAAATT
66 AAAATTAGCATTAAATT
16960496 A
1 A
16960497 CTATGACAAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (82 bp):
ATTCAATTTTTTATTAAAATAATAATTATTCGTAAATTTATTTAACTAAATATTTTAATAAAATT
AAAATTAGCATTAAATT
Found at i:16960784 original size:40 final size:36
Alignment explanation
Indices: 16960686--16960790 Score: 131
Period size: 36 Copynumber: 2.8 Consensus size: 36
16960676 GGGATAAAGC
16960686 AGGAAAACGCTTCCTCAAGGAAGCACTTTGTGTCGT
1 AGGAAAACGCTTCCTCAAGGAAGCACTTTGTGTCGT
*
16960722 AGGAAGACGCTTCCTCAAGGAAGCACTTTGTGTCCACGT
1 AGGAAAACGCTTCCTCAAGGAAGCACTTTGTGT---CGT
**
16960761 -GGACAAAGCGCTTCCTTGAGGAAGCACTTT
1 AGGA-AAA-CGCTTCCTCAAGGAAGCACTTT
16960791 CCCCGTTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
36 32 0.53
38 3 0.05
39 5 0.08
40 20 0.33
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (36 bp):
AGGAAAACGCTTCCTCAAGGAAGCACTTTGTGTCGT
Found at i:16961632 original size:96 final size:95
Alignment explanation
Indices: 16961524--16961738 Score: 315
Period size: 96 Copynumber: 2.2 Consensus size: 95
16961514 AACAACTAGC
* *
16961524 TTTATTTAATTTTTCCTTACAAATCC-TAAATACTAAACCCCAATCTAATTTTTTTAAAATTTAT
1 TTTATTTAATTTTTCCTTA-AAAACCATAAACACTAAACCCCAATCTAA-TTTTTTAAAATTTAT
* *
16961588 AATTAATTTACTCAAGTAACCCTAAACCCTAA
64 AATTAATTTAATCAAGAAACCCTAAACCCTAA
* *
16961620 TTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAATTTATA
1 TTTATTT-AATTTTTCCTTAAAAACCATAAACACTAAACCCCAATCTAATTTTTTAAAATTTATA
* *
16961685 ATTAATTTAATTAAGAAACCCTAAACCCTTA
65 ATTAATTTAATCAAGAAACCCTAAACCCTAA
16961716 TTTATTTAATTTTATCCTTAAAA
1 TTTATTTAATTTT-TCCTTAAAA
16961739 CTCTAAAATC
Statistics
Matches: 107, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
95 5 0.05
96 71 0.66
97 31 0.29
ACGTcount: A:0.39, C:0.17, G:0.01, T:0.42
Consensus pattern (95 bp):
TTTATTTAATTTTTCCTTAAAAACCATAAACACTAAACCCCAATCTAATTTTTTAAAATTTATAA
TTAATTTAATCAAGAAACCCTAAACCCTAA
Found at i:16961752 original size:7 final size:8
Alignment explanation
Indices: 16961734--16961775 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
16961724 ATTTTATCCT
16961734 TAAAACTC
1 TAAAACTC
16961742 TAAAA-TC
1 TAAAACTC
16961749 TAAAACTC
1 TAAAACTC
*
16961757 CAAAACTC
1 TAAAACTC
* *
16961765 CAAAACCC
1 TAAAACTC
16961773 TAA
1 TAA
16961776 CCCTAATTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 7 0.23
8 23 0.77
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (8 bp):
TAAAACTC
Found at i:16961754 original size:15 final size:16
Alignment explanation
Indices: 16961734--16961775 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
16961724 ATTTTATCCT
16961734 TAAAACTCTAAAA-TC
1 TAAAACTCTAAAACTC
*
16961749 TAAAACTCCAAAACTC
1 TAAAACTCTAAAACTC
* *
16961765 CAAAACCCTAA
1 TAAAACTCTAA
16961776 CCCTAATTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAACTCTAAAACTC
Found at i:16961912 original size:40 final size:41
Alignment explanation
Indices: 16961823--16961920 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 41
16961813 GAAAGTGTTT
*
16961823 CCTCAAGGAAGCG-CTT-TGTCCACGTGGACGCAAAGCGCGC
1 CCTCAAGGAAGCGTTTTCTGTCCACGTGGAC-CAAAGCGCGC
* **
16961863 CCTCAAGGAAGTGTTTTCTGTCCACGTGGA-CAAAGCGCTT
1 CCTCAAGGAAGCGTTTTCTGTCCACGTGGACCAAAGCGCGC
**
16961903 CCTTGAGGAAGCGTTTTC
1 CCTCAAGGAAGCGTTTTC
16961921 CTACTTTATC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
40 35 0.71
41 2 0.04
42 12 0.24
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTCAAGGAAGCGTTTTCTGTCCACGTGGACCAAAGCGCGC
Found at i:16984532 original size:20 final size:20
Alignment explanation
Indices: 16984507--16984557 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
16984497 ACAAGGATGT
* *
16984507 CGAAGTGTATATAGGGGCAC
1 CGAAGTGTAAACAGGGGCAC
*
16984527 CGAAGTGCAAACAGGGGCAC
1 CGAAGTGTAAACAGGGGCAC
16984547 CGAAGTGTAAA
1 CGAAGTGTAAA
16984558 TCTCGTACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.33, T:0.14
Consensus pattern (20 bp):
CGAAGTGTAAACAGGGGCAC
Found at i:16987841 original size:9 final size:9
Alignment explanation
Indices: 16987827--16987856 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
16987817 TTAGTATCGT
16987827 AAATAGTTG
1 AAATAGTTG
16987836 AAATAGTTG
1 AAATAGTTG
16987845 AAATAGTTG
1 AAATAGTTG
16987854 AAA
1 AAA
16987857 AATATACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (9 bp):
AAATAGTTG
Found at i:16989451 original size:19 final size:19
Alignment explanation
Indices: 16989411--16989454 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
16989401 TTTATATTTT
* *
16989411 TAAAAAATATTAATTATTA
1 TAAAAAATATTAAGTATGA
16989430 TAAAAAATTATT-AGTATGA
1 TAAAAAA-TATTAAGTATGA
16989449 TAAAAA
1 TAAAAA
16989455 TAATTTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TAAAAAATATTAAGTATGA
Found at i:16990515 original size:15 final size:14
Alignment explanation
Indices: 16990488--16990535 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
16990478 TTAAATAATA
*
16990488 TTTAGGATTTAGGG
1 TTTAGAATTTAGGG
16990502 TTTAGAATTTTAGGG
1 TTTAGAA-TTTAGGG
*
16990517 TTTAGTATTTAGGG
1 TTTAGAATTTAGGG
16990531 TTTAG
1 TTTAG
16990536 GGTCTATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (14 bp):
TTTAGAATTTAGGG
Found at i:16993361 original size:41 final size:41
Alignment explanation
Indices: 16993326--16993471 Score: 247
Period size: 41 Copynumber: 3.6 Consensus size: 41
16993316 GTGAAGTAAT
* *
16993326 CCAGACATTACTTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCAGTGAAACATA
16993367 CCAGACATTACGTCTAGCAGGCTTGATGCCAGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCAGTGAAACATA
16993408 CCAGACATTACGTCTAGCAGGCTTGATGCCAGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCAGTGAAACATA
* * *
16993449 TCAGACTTTATGTCTAGCAGGCT
1 CCAGACATTACGTCTAGCAGGCT
16993472 AAGTGTCGGT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCAGTGAAACATA
Found at i:16993507 original size:82 final size:82
Alignment explanation
Indices: 16993339--16993512 Score: 190
Period size: 82 Copynumber: 2.1 Consensus size: 82
16993329 GACATTACTT
* *
16993339 CTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTTGATGCCAGTGAAA
1 CTAGCAGGCTTGATGCCAGTGAAACATACCAGACATTACGTCTAGCAGGCTAGATGCCAGTGAAA
* * * *
16993404 CATACCAGACATTACGT
66 CAAAACAGACATTAAGC
* * * * * *
16993421 CTAGCAGGCTTGATGCCAGTGAAACATATCAGACTTTATGTCTAGCAGGCTA-AGTGTCGGTG-T
1 CTAGCAGGCTTGATGCCAGTGAAACATACCAGACATTACGTCTAGCAGGCTAGA-TGCCAGTGAA
* *
16993484 ACTAAAACAGGCTTTAAGC
65 AC-AAAACAGACATTAAGC
16993503 CTAGCAGGCT
1 CTAGCAGGCT
16993513 AAGTGCCGGT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 3 0.04
82 73 0.96
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (82 bp):
CTAGCAGGCTTGATGCCAGTGAAACATACCAGACATTACGTCTAGCAGGCTAGATGCCAGTGAAA
CAAAACAGACATTAAGC
Found at i:16995577 original size:30 final size:31
Alignment explanation
Indices: 16995538--16995597 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
16995528 AGAGGTGGGA
*
16995538 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
*
16995569 TGGG-AGGGAGTAAAAATTTTAGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
16995598 TAAAAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:16995825 original size:9 final size:9
Alignment explanation
Indices: 16995811--16995847 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
16995801 TATAGTTTGA
16995811 TATTCGAAT
1 TATTCGAAT
16995820 TATTCGAAT
1 TATTCGAAT
*
16995829 TATTCGAGT
1 TATTCGAAT
16995838 TATTCGAAT
1 TATTCGAAT
16995847 T
1 T
16995848 CGGAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:16995918 original size:9 final size:9
Alignment explanation
Indices: 16995901--16995931 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16995891 TCGAGTTGAT
16995901 TCGAATAAC
1 TCGAATAAC
*
16995910 TCGATTAAC
1 TCGAATAAC
16995919 TCGAATAAC
1 TCGAATAAC
16995928 TCGA
1 TCGA
16995932 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:17001861 original size:51 final size:50
Alignment explanation
Indices: 17001801--17002021 Score: 232
Period size: 51 Copynumber: 4.4 Consensus size: 50
17001791 GATGAACACG
17001801 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-AAATAATGGTCACA
* * * * *
17001852 TGTGTAGTACTAAGTGAAGACTACTATGTGTATCGAAAAGCT-TTTGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAA--TAATGGTCACA
* * * *
17001903 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACT--TGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-AAAA-TAATGGTCACA
* * * *
17001953 TGTGTAGTACTATGTGAAGGCTACTACGTGTATTGAATGATAATAGTAACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAA-AATAATGGTCACA
* *
17002004 TGGGTGGTACTATGTGAA
1 TGTGTAGTACTATGTGAA
17002022 AACCCCCAAA
Statistics
Matches: 141, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
49 3 0.02
50 41 0.29
51 92 0.65
52 5 0.04
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAATAATGGTCACA
Found at i:17001985 original size:101 final size:102
Alignment explanation
Indices: 17001801--17001985 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
17001791 GATGAACACG
* * *
17001801 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATGATCACATGTGTAGTACTAAG
*
17001866 TGAAGACTACTATGTGTATCGAAAAGCTTTTGTCACA
66 TGAAGACTACTACGTGTATCGAAAAGCTTTTGTCACA
* * *
17001903 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA-ATGATCACATGTGTAGTACTAA
*
17001966 GTGAAGGCTACTACGTGTAT
65 GTGAAGACTACTACGTGTAT
17001986 TGAATGATAA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 1 0.01
101 40 0.54
102 33 0.45
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (102 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATGATCACATGTGTAGTACTAAG
TGAAGACTACTACGTGTATCGAAAAGCTTTTGTCACA
Found at i:17002005 original size:101 final size:102
Alignment explanation
Indices: 17001801--17002021 Score: 259
Period size: 101 Copynumber: 2.2 Consensus size: 102
17001791 GATGAACACG
* * *
17001801 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATGATCACATGTGTAGTACTAAG
* * * * *
17001866 TGAAGACTACTATGTGTATCGAAAAGCTTTTGTCACA
66 TGAAGACTACTACGTGTATCGAAAAGATATAGTAACA
* * *
17001903 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA-ATGATCACATGTGTAGTACTAA
* * *
17001966 GTGAAGGCTACTACGTGTATTG-AATGATAATAGTAACA
65 GTGAAGACTACTACGTGTATCGAAAAGAT-ATAGTAACA
* *
17002004 TGGGTGGTACTATGTGAA
1 TGTGTAGTACTATGTGAA
17002022 AACCCCCAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
100 5 0.05
101 63 0.62
102 33 0.33
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (102 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATGATCACATGTGTAGTACTAAG
TGAAGACTACTACGTGTATCGAAAAGATATAGTAACA
Found at i:17005569 original size:41 final size:41
Alignment explanation
Indices: 17005534--17005679 Score: 229
Period size: 41 Copynumber: 3.6 Consensus size: 41
17005524 GTGAAGTAAT
*
17005534 CCAGACATTACGTCTAGCAGACTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* *
17005575 CTAGACATTACGTCTAGCAGGCTTGATGCCGATGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
*
17005616 CCAGACATTACGTCTAGTAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
17005657 TCAGACTTTATGTCTAGCAGGCT
1 CCAGACATTACGTCTAGCAGGCT
17005680 AAGTGTCGGT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:17022981 original size:20 final size:21
Alignment explanation
Indices: 17022946--17022996 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
17022936 AATTTCTATA
*
17022946 GTAAGTTTTAGATTTATGAT-T
1 GTAATTTTTAGATTTA-GATAT
17022967 GTAATTTTTAG-TTTAGATAT
1 GTAATTTTTAGATTTAGATAT
*
17022987 TTAATTTTTA
1 GTAATTTTTA
17022997 CTGTAGTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 10 0.37
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (21 bp):
GTAATTTTTAGATTTAGATAT
Found at i:17026741 original size:55 final size:56
Alignment explanation
Indices: 17026654--17026810 Score: 181
Period size: 55 Copynumber: 2.8 Consensus size: 56
17026644 AATCTATTTA
* * *
17026654 TATAATAAATAACAACATAACTATTTACATAACAACATTTTTAACGGATACCAAAATC
1 TATAATATATAA-AA-ATAAATATTTATATAACAACATTTTTAACGGATACCAAAATC
* * ** * * * *
17026712 TATAATATAT-GACATATTTATTTATATAACAACATTTCTAATGGATGCCAAACTC
1 TATAATATATAAAAATAAATATTTATATAACAACATTTTTAACGGATACCAAAATC
*
17026767 TATGATATATAAAAATAAATATTTATATAACAACATTTTTAACG
1 TATAATATATAAAAATAAATATTTATATAACAACATTTTTAACG
17026811 CGGTGTGGGC
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
55 44 0.54
56 28 0.35
58 9 0.11
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.35
Consensus pattern (56 bp):
TATAATATATAAAAATAAATATTTATATAACAACATTTTTAACGGATACCAAAATC
Found at i:17027486 original size:17 final size:17
Alignment explanation
Indices: 17027446--17027491 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
17027436 TTGAATGTTA
*
17027446 AGGTTCATGTACTAGTT
1 AGGTTCATGTATTAGTT
* *
17027463 AGATTCATGTATTGGTT
1 AGGTTCATGTATTAGTT
*
17027480 TGGTTCATGTAT
1 AGGTTCATGTAT
17027492 CCCATTAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.46
Consensus pattern (17 bp):
AGGTTCATGTATTAGTT
Found at i:17036026 original size:27 final size:27
Alignment explanation
Indices: 17035996--17036200 Score: 234
Period size: 27 Copynumber: 7.6 Consensus size: 27
17035986 ATATTGAGTC
* *
17035996 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
17036023 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
17036049 CGCACACTTAGTGCTACATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
* ** *
17036077 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
17036104 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
17036131 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
17036158 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
17036186 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17036201 GTACAATTTA
Statistics
Matches: 156, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
26 26 0.17
27 90 0.58
28 40 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:17036134 original size:54 final size:54
Alignment explanation
Indices: 17035996--17036199 Score: 261
Period size: 54 Copynumber: 3.8 Consensus size: 54
17035986 ATATTGAGTC
* * * * *
17035996 CGCACACTCAGTGCTATATAATCAA-CTCGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAAT
* *
17036049 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAA-T
** *
17036104 CGCACACTTAGTGC-ATCATTTTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAATCTCGCACACTTAGTGCAACATAGTC-AAT
*
17036158 CGCACACTTAGTGCTACATAGTCAATCTCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGC
17036200 TGTACAATTT
Statistics
Matches: 131, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
53 23 0.18
54 68 0.52
55 40 0.31
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCAACATAGTCAAT
Found at i:17037723 original size:23 final size:24
Alignment explanation
Indices: 17037692--17037738 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17037682 TCCTCCCTTA
17037692 TTTTATTCA-TCCTTTT-TTTTCT
1 TTTTATTCACTCCTTTTATTTTCT
*
17037714 TTTTAATTCACTTCTTTTATTTTCT
1 TTTT-ATTCACTCCTTTTATTTTCT
17037739 AATCTACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 5 0.24
24 6 0.29
25 6 0.29
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTATTCACTCCTTTTATTTTCT
Found at i:17040461 original size:41 final size:39
Alignment explanation
Indices: 17040368--17040724 Score: 354
Period size: 41 Copynumber: 8.7 Consensus size: 39
17040358 TGACCTTTCG
* * * *
17040368 GGGCTTTAGTGGCGTTTCTGAAAAGCGTCGCTAATGTTC
1 GGGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTC
*
17040407 AGGGCTTTAGCGGCGTTTTTGACAAAGTGCCGCTAATGCTC
1 -GGGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGCTC
* * *
17040448 GGGTCTTTCGCGGCGTTTTTGAAAAGACGCCGGTAATGCTTA
1 GGG-CTTTAGCGGCGTTTTTGAAAAG-CGCCGCTAATGC-TC
* *
17040490 GGGCTTTAGTGACGTTTTTGAAAAGACGCCGCTAATGCTC
1 GGGCTTTAGCGGCGTTTTTGAAAAG-CGCCGCTAATGCTC
* * *
17040530 GGGTTTTTAGCGGCATTTTTGAAAAGGCGCCGCTAATGCTTA
1 GGG-CTTTAGCGGCGTTTTTGAAAA-GCGCCGCTAATGC-TC
* ** *
17040572 GGCCTTTAGCGGCGTTTTCCAAGAAGCGCCACTAATGCTC
1 GGGCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTC
* * *
17040612 GGGGATTTAGCGGCGTTTTTAAAAAAGCGTCGCTAATGCTC
1 -GGGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTC
* **
17040653 GGAGCTATAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTC
1 GG-GCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTC
*
17040694 GGGGCTTTAGCGGTGTTTTTGAAAATGCGCC
1 -GGGCTTTAGCGGCGTTTTTGAAAA-GCGCC
17040725 ACAAAAACAT
Statistics
Matches: 262, Mismatches: 41, Indels: 27
0.79 0.12 0.08
Matches are distributed among these distances:
40 37 0.14
41 211 0.81
42 14 0.05
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (39 bp):
GGGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTC
Found at i:17040506 original size:82 final size:82
Alignment explanation
Indices: 17040365--17040718 Score: 396
Period size: 82 Copynumber: 4.3 Consensus size: 82
17040355 TTCTGACCTT
* * * **
17040365 TCGGGGCTTTAGTGGCGTTTCTGAAAAG-CGTCGCTAATG-TTCAGGGCTTTAGCGGCGTTTTTG
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAGACGCCGCTAATGCTT-AGGGCTTTAGCGGCGTTTTCC
*
17040428 ACA-AAGTGCCGCTAATGC
65 A-AGAAGCGCCGCTAATGC
* * * * * **
17040446 TCGGGTCTTTCGCGGCGTTTTTGAAAAGACGCCGGTAATGCTTAGGGCTTTAGTGACGTTTTTGA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAGACGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTCCA
17040511 A-AAGACGCCGCTAATGC
66 AGAAG-CGCCGCTAATGC
** * * *
17040528 TCGGGTTTTTAGCGGCATTTTTGAAAAGGCGCCGCTAATGCTTAGGCCTTTAGCGGCGTTTTCCA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAGACGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTCCA
*
17040593 AGAAGCGCCACTAATGC
66 AGAAGCGCCGCTAATGC
* * * * *
17040610 TCGGGGATTTAGCGGCGTTTTT-AAAAAAGCGTCGCTAATGC-TCGGAGCTATAGCGGCGTTTTC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAGA-CGCCGCTAATGCTTAGG-GCTTTAGCGGCGTTTTC
17040673 CAAGAAGCGCCGCTAATGC
64 CAAGAAGCGCCGCTAATGC
*
17040692 TCGGGGCTTTAGCGGTGTTTTTGAAAA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAA
17040719 TGCGCCACAA
Statistics
Matches: 234, Mismatches: 32, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
81 35 0.15
82 190 0.81
83 9 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (82 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAGACGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTCCA
AGAAGCGCCGCTAATGC
Found at i:17041122 original size:15 final size:15
Alignment explanation
Indices: 17041104--17041166 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 15
17041094 TAGTGTAAGG
17041104 TTTAAGGAGTATGGA
1 TTTAAGGAGTATGGA
* *
17041119 TTTAGGGATTATGGA
1 TTTAAGGAGTATGGA
* *
17041134 -TTAGGGATTATGG-
1 TTTAAGGAGTATGGA
17041147 TTTAAGG-GT-TGTGA
1 TTTAAGGAGTATG-GA
17041161 TTTAAG
1 TTTAAG
17041167 ATTTAGGGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
12 2 0.05
13 2 0.05
14 24 0.59
15 13 0.32
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (15 bp):
TTTAAGGAGTATGGA
Found at i:17041139 original size:14 final size:15
Alignment explanation
Indices: 17041113--17041150 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
17041103 GTTTAAGGAG
17041113 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
17041128 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
17041142 TATGG-TTTA
1 TATGGATTTA
17041151 AGGGTTGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:17041179 original size:7 final size:7
Alignment explanation
Indices: 17041169--17041199 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
17041159 GATTTAAGAT
17041169 TTAGGGG
1 TTAGGGG
17041176 TTAGGGG
1 TTAGGGG
*
17041183 TTAGAGG
1 TTAGGGG
17041190 TTAGGGG
1 TTAGGGG
17041197 TTA
1 TTA
17041200 AGAGTTAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:17041191 original size:14 final size:14
Alignment explanation
Indices: 17041169--17041208 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
17041159 GATTTAAGAT
*
17041169 TTAGGGGTTAGGGG
1 TTAGAGGTTAGGGG
17041183 TTAGAGGTTAGGGG
1 TTAGAGGTTAGGGG
17041197 TTA-AGAGTTAGG
1 TTAGAG-GTTAGG
17041209 AATTTATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 2 0.08
14 22 0.92
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (14 bp):
TTAGAGGTTAGGGG
Found at i:17041573 original size:14 final size:14
Alignment explanation
Indices: 17041532--17041581 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
17041522 TTTTGTGTAT
*
17041532 GGTTTAGGGTTT-G
1 GGTTTAGAGTTTGG
* *
17041545 GGATT-GAGATTGG
1 GGTTTAGAGTTTGG
17041558 GGTTTAGAGTTTGG
1 GGTTTAGAGTTTGG
*
17041572 GGTTTGGAGT
1 GGTTTAGAGT
17041582 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 4 0.14
13 9 0.31
14 16 0.55
ACGTcount: A:0.14, C:0.00, G:0.46, T:0.40
Consensus pattern (14 bp):
GGTTTAGAGTTTGG
Found at i:17041847 original size:7 final size:7
Alignment explanation
Indices: 17041835--17041865 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
17041825 AGGTCTTGGA
17041835 TTTAGGG
1 TTTAGGG
17041842 TTTAGGG
1 TTTAGGG
17041849 TTTAGGG
1 TTTAGGG
*
17041856 TTTAAGG
1 TTTAGGG
17041863 TTT
1 TTT
17041866 TATCCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:17043999 original size:13 final size:13
Alignment explanation
Indices: 17043981--17044005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17043971 TTGCTGCAAG
17043981 TTCTGGTTAATGT
1 TTCTGGTTAATGT
17043994 TTCTGGTTAATG
1 TTCTGGTTAATG
17044006 CTGTGGTTAA
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:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (13 bp):
TTCTGGTTAATGT
Found at i:17044811 original size:18 final size:18
Alignment explanation
Indices: 17044780--17044829 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
17044770 TATATCAAAC
*
17044780 CATAACTTAAATAAATCA
1 CATAACTTACATAAATCA
*
17044798 CATAA-TATACATAACTCA
1 CATAACT-TACATAAATCA
17044816 CATAACTTACATAA
1 CATAACTTACATAA
17044830 TAACTTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (18 bp):
CATAACTTACATAAATCA
Found at i:17044820 original size:27 final size:27
Alignment explanation
Indices: 17044780--17044831 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
17044770 TATATCAAAC
*
17044780 CATAACTTAAATAAATCACATAATATA
1 CATAACTCAAATAAATCACATAATATA
* * *
17044807 CATAACTCACATAACTTACATAATA
1 CATAACTCAAATAAATCACATAATA
17044832 ACTTATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (27 bp):
CATAACTCAAATAAATCACATAATATA
Found at i:17044866 original size:51 final size:56
Alignment explanation
Indices: 17044808--17044931 Score: 141
Period size: 60 Copynumber: 2.2 Consensus size: 56
17044798 CATAATATAC
* *
17044808 ATAACTCACATAACTTA-C-A-TAATAAC-T-TATATATATCATACCATTACTTAA
1 ATAACTCACATAACTTACCAACTAATAACTTATATATATATCAAACCATAACTTAA
*
17044859 ATAACTCACATAAGTTACCTAACTTAATAACTTATATATATATATCAAACCATAACTTAA
1 ATAACTCACATAACTTACC-AAC-TAATAAC-T-TATATATATATCAAACCATAACTTAA
*
17044919 ATAAATCACATAA
1 ATAACTCACATAA
17044932 TCCCGGAAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
51 16 0.27
52 1 0.02
54 1 0.02
56 7 0.12
59 1 0.02
60 34 0.57
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.33
Consensus pattern (56 bp):
ATAACTCACATAACTTACCAACTAATAACTTATATATATATCAAACCATAACTTAA
Found at i:17044882 original size:60 final size:60
Alignment explanation
Indices: 17044818--17045106 Score: 179
Period size: 56 Copynumber: 4.7 Consensus size: 60
17044808 ATAACTCACA
* * *
17044818 TAACTTACATAA-TAACT-TATATATATCATACCATTACTTAAATAACTCACATAAGTTACC
1 TAACTTA-ATAACTAA-TATATATATATCAAACCATAACTTAAATAAATCACATAAGTTACC
*
17044878 TAACTTAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATCCCGGAAACT
1 TAACTTAATAACTAATATATATATATCAAACCATAACTTAAATAAATCACATAA-----G----T
* *
17044943 CACA
57 TACC
* * *
17044947 TAACTTACATAACTTAATA-ACTTATATATATCATACCATAACTTAAATAACTCACATAAATTAC
1 TAACTTA-ATAAC-TAATATA--TAT--ATATCAAACCATAACTTAAATAAATCACATAAGTTAC
17045011 C
60 C
* * * * * * *
17045012 TAACTTAATAAC---T-TATATATATCATATCATAA-TCTACATAACTCACATAACTCACA
1 TAACTTAATAACTAATATATATATATCAAACCATAACT-TAAATAAATCACATAAGTTACC
*
17045068 TAACTTAATAAC---T-TATATATATCATACCATAACTTAAAT
1 TAACTTAATAACTAATATATATATATCAAACCATAACTTAAAT
17045107 GTATCTCATA
Statistics
Matches: 190, Mismatches: 19, Indels: 44
0.75 0.08 0.17
Matches are distributed among these distances:
55 1 0.01
56 66 0.35
57 1 0.01
58 3 0.02
59 5 0.03
60 45 0.24
64 5 0.03
65 11 0.06
69 10 0.05
70 6 0.03
71 4 0.02
72 3 0.02
74 30 0.16
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.34
Consensus pattern (60 bp):
TAACTTAATAACTAATATATATATATCAAACCATAACTTAAATAAATCACATAAGTTACC
Found at i:17044950 original size:129 final size:131
Alignment explanation
Indices: 17044756--17045040 Score: 438
Period size: 134 Copynumber: 2.2 Consensus size: 131
17044746 ACAACTTACA
*
17044756 TAATAAC-T-TATATATATATCAAACCATAACTTAAATAAATCACATAATATACATAACTCACAT
1 TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATACACATAACTCACAT
* *
17044819 AACTTAC-A-TAATAACTTATATATATCATACCATTACTTAAATAACTCACATAAGTTACCTAAC
66 AACTTACAACTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTACCTAAC
17044882 T
131 T
*
17044883 TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAAT-CCCGGA-AACTCAC
1 TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATACAC--ATAACTCAC
17044946 ATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTAC
64 ATAACTTAC--AAC-TAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTAC
17045011 CTAACT
126 CTAACT
17045017 TAATAACTTATATATATCATATCA
1 TAATAACTTATATATAT-ATATCA
17045041 TAATCTACAT
Statistics
Matches: 144, Mismatches: 4, Indels: 12
0.90 0.03 0.08
Matches are distributed among these distances:
127 7 0.05
128 2 0.01
129 56 0.39
130 1 0.01
132 1 0.01
134 71 0.49
135 6 0.04
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (131 bp):
TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATACACATAACTCACAT
AACTTACAACTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTACCTAAC
T
Found at i:17044999 original size:56 final size:56
Alignment explanation
Indices: 17044939--17045485 Score: 597
Period size: 56 Copynumber: 10.1 Consensus size: 56
17044929 TAATCCCGGA
* *
17044939 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACTTACAT
* *
17044995 AACTCACATAAATTACCTAACTTAATAACTTATATATATCATATCATAA-TCTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACT-TACAT
* * *
17045051 AACTCACATAACTCACATAACTTAATAACTTATATATATCATACCATAACTTAAAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACTTACAT
* * * * *
17045107 GTA-TCTCATAAATTA-GTGAA--TAATAACTTATTTATATCATATCATAA-TCTACAT
1 -AACTCACATAACTTACAT-AACTTAATAACTTATATATATCATATCATAACT-TACAT
* *
17045161 AACTCACATAACTTACATAAGTTAACAAC---T-TATAT-ATATCATAACTTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACTTACAT
** * *
17045212 AACTTGCATAACTTACCTAACTTAATAACTTATATGTATCATATCATAA-TCTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACT-TACAT
17045268 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAA-TCTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACT-TACAT
* * *
17045324 AACTCACATGACTTACATAAGTTAACAAC---T-TATAT-ATATCATAACTTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACTTACAT
** * *
17045375 AACTTGCATAACTTACCTAAC-T--TAA---A-ATGTATCATATCATAA-TCTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACT-TACAT
*
17045424 AACTCACATAACTTACATAACTTAACAACTTATATATATATCATATCATAACTTACAT
1 AACTCACATAACTTACATAACTTAATAAC-T-TATATATATCATATCATAACTTACAT
17045482 AACT
1 AACT
17045486 TGCATAATAC
Statistics
Matches: 413, Mismatches: 47, Indels: 60
0.79 0.09 0.12
Matches are distributed among these distances:
48 7 0.02
49 32 0.08
50 2 0.00
51 68 0.16
52 14 0.03
53 4 0.01
54 42 0.10
55 8 0.02
56 208 0.50
57 3 0.01
58 24 0.06
59 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (56 bp):
AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACTTACAT
Found at i:17045236 original size:273 final size:261
Alignment explanation
Indices: 17044939--17045507 Score: 720
Period size: 273 Copynumber: 2.1 Consensus size: 261
17044929 TAATCCCGGA
*
17044939 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAA-CTTAAATAACTCACA
1 AACTTACATAACTTACATAACTTAATAACTTATATATATCATACCATAATC-TAAATAACTCACA
*
17045003 TAAATTACCTAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATAACTCACA
65 TAAATTACATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATAACTCACA
* * * * * *
17045068 TAACTTAATAACTTATATATATCATACCATAACTTAAATGTATCTCATAAATTA-GTGAA-TAAT
130 TAACTTAACAACTTATATATATCATAAC-TAACAT-AA-CT-T-GCATAAATTACCT-AACT--T
* *
17045131 AACTTATTTATATCATATCATAATCTACATAACTCACATAACTTACATAAGTTAACAACTTATAT
187 AA---A-ATATATCATATCATAATCTACATAACTCACATAACTTACATAACTTAACAACTTATAT
*
17045196 ATATCATAACT-TACAT
248 ATAT-ATCA-TAT-CAT
* * * * *
17045212 AACTTGCATAACTTACCTAACTTAATAACTTATATGTATCATATCATAATCTACATAACTCACAT
1 AACTTACATAACTTACATAACTTAATAACTTATATATATCATACCATAATCTAAATAACTCACAT
* * *
17045277 AACTTACATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATGACTTACAT
66 AAATTACATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATAACTCACAT
* * * *
17045342 AAGTTAACAACTTATATATATCATAACTTACATAACTTGCATAACTTACCTAACTTAAAATGTAT
131 AACTTAACAACTTATATATATCATAACTAACATAACTTGCATAAATTACCTAACTTAAAATATAT
17045407 CATATCATAATCTACATAACTCACATAACTTACATAACTTAACAACTTATATATATATCATATCA
196 CATATCATAATCTACATAACTCACATAACTTACATAACTTAACAACTTATATATATATCATATCA
17045472 T
261 T
*
17045473 AACTTACATAACTTGCATAA--TACATAA-TTATATAT
1 AACTTACATAACTTACATAACTTA-ATAACTTATATAT
17045508 TCTTATCATA
Statistics
Matches: 264, Mismatches: 27, Indels: 24
0.84 0.09 0.08
Matches are distributed among these distances:
259 9 0.03
260 4 0.02
261 21 0.08
262 4 0.02
263 59 0.22
264 1 0.00
267 3 0.01
268 10 0.04
269 3 0.01
270 1 0.00
271 2 0.01
272 4 0.02
273 142 0.54
274 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (261 bp):
AACTTACATAACTTACATAACTTAATAACTTATATATATCATACCATAATCTAAATAACTCACAT
AAATTACATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATAACTCACAT
AACTTAACAACTTATATATATCATAACTAACATAACTTGCATAAATTACCTAACTTAAAATATAT
CATATCATAATCTACATAACTCACATAACTTACATAACTTAACAACTTATATATATATCATATCA
T
Found at i:17045297 original size:8 final size:9
Alignment explanation
Indices: 17044939--17045531 Score: 189
Period size: 9 Copynumber: 64.7 Consensus size: 9
17044929 TAATCCCGGA
*
17044939 AACTCACAT
1 AACTTACAT
17044948 AACTTACAT
1 AACTTACAT
17044957 AACTTA-AT
1 AACTTACAT
*
17044965 AACTTATAT
1 AACTTACAT
*
17044974 ATATCATACCAT
1 A-A-CTTA-CAT
*
17044986 AACTTAAAT
1 AACTTACAT
*
17044995 AACTCACAT
1 AACTTACAT
* *
17045004 AAATTACCT
1 AACTTACAT
17045013 AACTTA-AT
1 AACTTACAT
*
17045021 AACTTATAT
1 AACTTACAT
*
17045030 ATATCATATCAT
1 A-A-CTTA-CAT
17045042 AA-TCTACAT
1 AACT-TACAT
*
17045051 AACTCACAT
1 AACTTACAT
*
17045060 AACTCACAT
1 AACTTACAT
17045069 AACTTA-AT
1 AACTTACAT
*
17045077 AACTTATAT
1 AACTTACAT
*
17045086 ATATCATACCAT
1 A-A-CTTA-CAT
*
17045098 AACTTAAAT
1 AACTTACAT
*
17045107 GTA-TCT-CAT
1 -AACT-TACAT
* *
17045116 AAATTA-GT
1 AACTTACAT
17045124 GAA--TA-AT
1 -AACTTACAT
*
17045131 AACTTATTTAT
1 AACTTA--CAT
* *
17045142 ATCATATCAT
1 AACTTA-CAT
17045152 AA-TCTACAT
1 AACT-TACAT
*
17045161 AACTCACAT
1 AACTTACAT
17045170 AACTTACAT
1 AACTTACAT
* *
17045179 AAGTTA-AC
1 AACTTACAT
*
17045187 AACTTATAT
1 AACTTACAT
17045196 -A--TATCAT
1 AACTTA-CAT
17045203 AACTTACAT
1 AACTTACAT
*
17045212 AACTTGCAT
1 AACTTACAT
*
17045221 AACTTACCT
1 AACTTACAT
17045230 AACTTA-AT
1 AACTTACAT
*
17045238 AACTTATATGT
1 AACTTACA--T
* *
17045249 ATCATATCAT
1 AACTTA-CAT
17045259 AA-TCTACAT
1 AACT-TACAT
*
17045268 AACTCACAT
1 AACTTACAT
17045277 AACTTACAT
1 AACTTACAT
17045286 AACTTA-AT
1 AACTTACAT
*
17045294 AACTTATAT
1 AACTTACAT
*
17045303 ATATCATATCAT
1 A-A-CTTA-CAT
17045315 AA-TCTACAT
1 AACT-TACAT
*
17045324 AACTCACAT
1 AACTTACAT
*
17045333 GACTTACAT
1 AACTTACAT
* *
17045342 AAGTTA-AC
1 AACTTACAT
*
17045350 AACTTATAT
1 AACTTACAT
17045359 -A--TATCAT
1 AACTTA-CAT
17045366 AACTTACAT
1 AACTTACAT
*
17045375 AACTTGCAT
1 AACTTACAT
*
17045384 AACTTACCT
1 AACTTACAT
*
17045393 AACTTAAAATGT
1 AACTT-ACA--T
* *
17045405 ATCATATCAT
1 AACTTA-CAT
17045415 AA-TCTACAT
1 AACT-TACAT
*
17045424 AACTCACAT
1 AACTTACAT
17045433 AACTTACAT
1 AACTTACAT
*
17045442 AACTTA-AC
1 AACTTACAT
*
17045450 AACTTATATAT
1 AAC-T-TACAT
*
17045461 ATATCATATCAT
1 A-A-CTTA-CAT
17045473 AACTTACAT
1 AACTTACAT
*
17045482 AACTTGCAT
1 AACTTACAT
17045491 AA--TACAT
1 AACTTACAT
*
17045498 AA-TTATAT
1 AACTTACAT
*
17045506 ATTCTTATCAT
1 A-ACTTA-CAT
*
17045517 AAGTTACAT
1 AACTTACAT
17045526 AACTTA
1 AACTTA
17045532 ATTATACTTA
Statistics
Matches: 434, Mismatches: 86, Indels: 128
0.67 0.13 0.20
Matches are distributed among these distances:
6 6 0.01
7 13 0.03
8 68 0.16
9 237 0.55
10 51 0.12
11 36 0.08
12 22 0.05
13 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.36
Consensus pattern (9 bp):
AACTTACAT
Found at i:17045440 original size:100 final size:98
Alignment explanation
Indices: 17045279--17045486 Score: 305
Period size: 100 Copynumber: 2.1 Consensus size: 98
17045269 ACTCACATAA
* *
17045279 CTTACATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATGACTTACATAA
1 CTTACATAACTTAATAACTTAAATATATCATATCATAATCTACATAACTCACATAACTTACATAA
*
17045344 GTTAACAACTTATATATATCATAACTTACATAA
66 CTTAACAACTTATATATATCATAACTTACATAA
* * *
17045377 CTTGCATAACTTACCTAACTTAAAATGTATCATATCATAATCTACATAACTCACATAACTTACAT
1 CTTACATAACTTA-ATAACTT-AAATATATCATATCATAATCTACATAACTCACATAACTTACAT
*
17045442 AACTTAACAACTTATATATAT-AT--CATATCATAA
64 AACTTAACAACTTATATATATCATAACTTA-CATAA
17045475 CTTACATAACTT
1 CTTACATAACTT
17045487 GCATAATACA
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
97 3 0.03
98 28 0.28
99 8 0.08
100 60 0.61
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.36
Consensus pattern (98 bp):
CTTACATAACTTAATAACTTAAATATATCATATCATAATCTACATAACTCACATAACTTACATAA
CTTAACAACTTATATATATCATAACTTACATAA
Found at i:17045492 original size:58 final size:58
Alignment explanation
Indices: 17045363--17045499 Score: 174
Period size: 58 Copynumber: 2.4 Consensus size: 58
17045353 TTATATATAT
* * *
17045363 CATAACTTACATAACTTGCATAACTTACCTAACTTAAAATGTATCATATCATAATCTA
1 CATAACTTACATAACTTACATAACTTAACTAACTTAAAATATATCATATCATAATCTA
* *
17045421 CATAACTCACATAACTTACATAACTTAAC-AACTTATATATATATCATATCATAA-CTTA
1 CATAACTTACATAACTTACATAACTTAACTAACTTA-AAATATATCATATCATAATC-TA
*
17045479 CATAACTTGCATAA--TACATAA
1 CATAACTTACATAACTTACATAA
17045500 TTATATATTC
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
56 7 0.10
57 7 0.10
58 56 0.80
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (58 bp):
CATAACTTACATAACTTACATAACTTAACTAACTTAAAATATATCATATCATAATCTA
Found at i:17051089 original size:21 final size:21
Alignment explanation
Indices: 17051038--17051078 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17051028 ACCACAACTT
* *
17051038 AAAGCAAATGCAGCAGCGAGG
1 AAAGCAGAGGCAGCAGCGAGG
*
17051059 AAAGCAGAGGCAGCATCGAG
1 AAAGCAGAGGCAGCAGCGAG
17051079 AGAAGCTGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.20, G:0.34, T:0.05
Consensus pattern (21 bp):
AAAGCAGAGGCAGCAGCGAGG
Found at i:17051122 original size:87 final size:86
Alignment explanation
Indices: 17050972--17051155 Score: 242
Period size: 87 Copynumber: 2.1 Consensus size: 86
17050962 TACTCAACTT
* *
17050972 AAAGCGGAGGCAGCATCGAGAGAAGCTGAAGTCCAAAGAAAATATGAAGAACACCAACCACAACT
1 AAAGCAGAGGCAGCATCGAGAGAAGCTGAAGTCCAAAGAAAACATGAAGAACACCAACCACAACT
17051037 TAAAGCAAATGCAGCAGCGAGG
66 TAAAGCAAATGCAGCAGCGA-G
* * * * * *
17051059 AAAGCAGAGGCAGCATCGAGAGAAGCTGAGGTTCAAAGAAAACATGAAGAACTCTAGCTACAACT
1 AAAGCAGAGGCAGCATCGAGAGAAGCTGAAGTCCAAAGAAAACATGAAGAACACCAACCACAACT
*** *
17051124 TAAAGTTGATGCAGCAGTGAG
66 TAAAGCAAATGCAGCAGCGAG
17051145 AGAAGCAGAGG
1 A-AAGCAGAGG
17051156 AGAAAGTACG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 2 0.02
87 82 0.98
ACGTcount: A:0.43, C:0.18, G:0.27, T:0.12
Consensus pattern (86 bp):
AAAGCAGAGGCAGCATCGAGAGAAGCTGAAGTCCAAAGAAAACATGAAGAACACCAACCACAACT
TAAAGCAAATGCAGCAGCGAG
Found at i:17051552 original size:43 final size:43
Alignment explanation
Indices: 17051499--17051740 Score: 349
Period size: 43 Copynumber: 5.6 Consensus size: 43
17051489 TAAAAAAGTA
* *
17051499 CCGCTAAAAGTCATGATCTATAGCAGCGTTTGTGGGAGAAGCA
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
*
17051542 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGTG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* * *
17051585 CCGCTAAGAGTCATGATATATAGCGGCGTTTGTGGAAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
*
17051628 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGGAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* * * *
17051671 CTGCTAAAGGTCATGATCTGTAGCGGTGTTTGTGGGAGAAGCG
1 CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
* * * *
17051714 CCACTAAAGGTCATGACCTTTAGCGGC
1 CCGCTAAAAGTCATGATCTATAGCGGC
17051741 ATTTTTGTAA
Statistics
Matches: 178, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 178 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (43 bp):
CCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCG
Found at i:17052335 original size:18 final size:18
Alignment explanation
Indices: 17052314--17052356 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17052304 TAATTTAGCC
*
17052314 ATTTTTATTTTTATTATA
1 ATTTTTATTTTTAGTATA
* *
17052332 ATTTTTGTTTTTAGTGTA
1 ATTTTTATTTTTAGTATA
17052350 ATTTTTA
1 ATTTTTA
17052357 CATTCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
ATTTTTATTTTTAGTATA
Found at i:17053381 original size:18 final size:18
Alignment explanation
Indices: 17053354--17053391 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
17053344 GGAGGTGAAA
*
17053354 TAAATTATCCAGAATATT
1 TAAATAATCCAGAATATT
17053372 TAAATAATCCAGAATATT
1 TAAATAATCCAGAATATT
17053390 TA
1 TA
17053392 CCCTTTGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (18 bp):
TAAATAATCCAGAATATT
Found at i:17058575 original size:13 final size:13
Alignment explanation
Indices: 17058555--17058608 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
17058545 CCTTTTACCC
17058555 ATTATTTTTA-TT
1 ATTATTTTTATTT
17058567 -TTATTTTTTATTT
1 ATTA-TTTTTATTT
* *
17058580 ATTGTCTTTATTT
1 ATTATTTTTATTT
17058593 ATTATTTCTT-TTT
1 ATTATTT-TTATTT
17058606 ATT
1 ATT
17058609 TTAGCCTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
11 3 0.09
12 6 0.18
13 21 0.62
14 4 0.12
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.76
Consensus pattern (13 bp):
ATTATTTTTATTT
Found at i:17059992 original size:20 final size:20
Alignment explanation
Indices: 17059964--17060006 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
17059954 ACCCATATGA
17059964 GGATGATTGAGAGACTTCAT
1 GGATGATTGAGAGACTTCAT
* *
17059984 GGATTATTGAGCGACTTCAT
1 GGATGATTGAGAGACTTCAT
17060004 GGA
1 GGA
17060007 GTGGATCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (20 bp):
GGATGATTGAGAGACTTCAT
Found at i:17060345 original size:16 final size:15
Alignment explanation
Indices: 17060325--17060377 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
17060315 TTTATTTTCT
17060325 TTTTAGTTTTTTTTA
1 TTTTAGTTTTTTTTA
17060340 TGTTTATGTTTATTTTTA
1 T-TTTA-GTTT-TTTTTA
* *
17060358 TTCTTAGTTGTTTTTG
1 TT-TTAGTTTTTTTTA
17060374 TTTT
1 TTTT
17060378 CTTAGACTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 3 0.09
16 11 0.34
17 8 0.25
18 10 0.31
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.75
Consensus pattern (15 bp):
TTTTAGTTTTTTTTA
Found at i:17065984 original size:25 final size:24
Alignment explanation
Indices: 17065927--17065997 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
17065917 AGATGATGCA
**
17065927 TAAAATAAATAATATTGAAAAATTT
1 TAAAATAAATAATATT-AAATTTTT
*
17065952 GAAAATAAATAATATTAAATTTTT
1 TAAAATAAATAATATTAAATTTTT
*
17065976 TAAATATAATTAA-ATTATAATT
1 TAAA-ATAAATAATATTA-AATT
17065998 ATAATTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
24 13 0.33
25 26 0.67
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (24 bp):
TAAAATAAATAATATTAAATTTTT
Found at i:17067187 original size:25 final size:26
Alignment explanation
Indices: 17067157--17067214 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
17067147 AACTTAAGTT
17067157 AATTTAAAT-TAAAAATGAAT-G-GTAA
1 AATTTAAATATAAAAATG--TGGAGTAA
17067182 AATTT-AATATAAAAATGTGGAGTAA
1 AATTTAAATATAAAAATGTGGAGTAA
17067207 AATTTAAA
1 AATTTAAA
17067215 AGCGCTACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 1 0.03
24 4 0.14
25 22 0.76
26 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (26 bp):
AATTTAAATATAAAAATGTGGAGTAA
Found at i:17070129 original size:13 final size:13
Alignment explanation
Indices: 17070113--17070144 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17070103 TTCAAAAATC
17070113 ATAAATAAAAGTT
1 ATAAATAAAAGTT
*
17070126 ATAAAAAAAAGTT
1 ATAAATAAAAGTT
17070139 ATAAAT
1 ATAAAT
17070145 TTTTTTAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (13 bp):
ATAAATAAAAGTT
Found at i:17070156 original size:17 final size:19
Alignment explanation
Indices: 17070134--17070171 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
17070124 TTATAAAAAA
17070134 AAGTTAT-AAATTTTT-TT
1 AAGTTATAAAATTTTTATT
17070151 AAGTTATAAAATTTTTATT
1 AAGTTATAAAATTTTTATT
17070170 AA
1 AA
17070172 AAATTAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
AAGTTATAAAATTTTTATT
Found at i:17070295 original size:24 final size:24
Alignment explanation
Indices: 17070267--17070314 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17070257 TTTTTAATAA
17070267 AAAATTTATGATTT-TAAAATTTTT
1 AAAATTT-TGATTTGTAAAATTTTT
* *
17070291 AAAATTTTGTTTTGTAAATTTTTT
1 AAAATTTTGATTTGTAAAATTTTT
17070315 TTATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (24 bp):
AAAATTTTGATTTGTAAAATTTTT
Found at i:17070659 original size:48 final size:48
Alignment explanation
Indices: 17070604--17070700 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
17070594 TCTAGGGTAT
17070604 AACAAAAAAGATTTTGAGGTACTTTTTACTGTGTTTTCAATGCAATGA
1 AACAAAAAAGATTTTGAGGTACTTTTTACTGTGTTTTCAATGCAATGA
17070652 AACAAAAAAGATTTTGAGGTACTTTTTACTGTGTTTTCAATGCAATGA
1 AACAAAAAAGATTTTGAGGTACTTTTTACTGTGTTTTCAATGCAATGA
17070700 A
1 A
17070701 GACACTGCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.37
Consensus pattern (48 bp):
AACAAAAAAGATTTTGAGGTACTTTTTACTGTGTTTTCAATGCAATGA
Found at i:17072814 original size:26 final size:26
Alignment explanation
Indices: 17072784--17072856 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
17072774 GCTGTAAATA
*
17072784 GTAAGCTCCTCCGAGTTGAAATAATG
1 GTAAGCTCCTACGAGTTGAAATAATG
* *
17072810 GTAAGCTCCTTCGAGCTG-AATAATG
1 GTAAGCTCCTACGAGTTGAAATAATG
* *
17072835 GTAAGCTCATAAGAGTTGAAAT
1 GTAAGCTCCTACGAGTTGAAAT
17072857 CATAACCCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (26 bp):
GTAAGCTCCTACGAGTTGAAATAATG
Found at i:17072837 original size:25 final size:26
Alignment explanation
Indices: 17072784--17072842 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
17072774 GCTGTAAATA
*
17072784 GTAAGCTCCTCCGAGTTGAAATAATG
1 GTAAGCTCCTCCGAGCTGAAATAATG
*
17072810 GTAAGCTCCTTCGAGCTG-AATAATG
1 GTAAGCTCCTCCGAGCTGAAATAATG
17072835 GTAAGCTC
1 GTAAGCTC
17072843 ATAAGAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 15 0.48
26 16 0.52
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (26 bp):
GTAAGCTCCTCCGAGCTGAAATAATG
Found at i:17074963 original size:21 final size:21
Alignment explanation
Indices: 17074939--17074980 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
17074929 AACAACAAAG
*
17074939 CATCAAACCTGAATCAATAAT
1 CATCAAACCCGAATCAATAAT
17074960 CATCAAACCCGAATCAATAAT
1 CATCAAACCCGAATCAATAAT
17074981 TTAGCTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.26, G:0.05, T:0.21
Consensus pattern (21 bp):
CATCAAACCCGAATCAATAAT
Found at i:17077039 original size:18 final size:18
Alignment explanation
Indices: 17077016--17077058 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
17077006 TAAACAATTG
17077016 ATAAAAATGCATAATAAA-
1 ATAAAAATGCATAA-AAAT
*
17077034 ATAAAAATGTATAAAAAT
1 ATAAAAATGCATAAAAAT
17077052 ATAAAAA
1 ATAAAAA
17077059 CAAAAGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (18 bp):
ATAAAAATGCATAAAAAT
Found at i:17079961 original size:21 final size:21
Alignment explanation
Indices: 17079936--17079991 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
17079926 GTGGAAAACT
*
17079936 CACACGCTCGTGTGGCTAAGG
1 CACACGCTCGTGTGGCCAAGG
* *
17079957 GACACGGCT-GTGTGTCCAAGG
1 CACAC-GCTCGTGTGGCCAAGG
*
17079978 CACACGCCCGTGTG
1 CACACGCTCGTGTG
17079992 AAAATCGACA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 2 0.07
21 23 0.82
22 3 0.11
ACGTcount: A:0.18, C:0.30, G:0.34, T:0.18
Consensus pattern (21 bp):
CACACGCTCGTGTGGCCAAGG
Found at i:17080478 original size:21 final size:21
Alignment explanation
Indices: 17080450--17080500 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
17080440 ATATTGTAAT
17080450 AAAAGAAATA-AATTGAA-GAAC
1 AAAAGAAA-AGAATT-AAGGAAC
*
17080471 AAATGAAAAGAATTAAGGAAC
1 AAAAGAAAAGAATTAAGGAAC
17080492 AAAAGAAAA
1 AAAAGAAAA
17080501 AAAAGTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.69, C:0.04, G:0.16, T:0.12
Consensus pattern (21 bp):
AAAAGAAAAGAATTAAGGAAC
Found at i:17091384 original size:5 final size:6
Alignment explanation
Indices: 17091366--17091390 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17091356 AAGCTTTCGC
17091366 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
17091391 CATTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:17093790 original size:20 final size:20
Alignment explanation
Indices: 17093767--17093822 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
17093757 AGAATATCAC
* *
17093767 AGAACAGAATAGAGTAAAGT
1 AGAACAGAACAGAGCAAAGT
*
17093787 AGAACGGAACAGAGCAAAGT
1 AGAACAGAACAGAGCAAAGT
17093807 AGAAC-GAAACAGAGCA
1 AGAACAG-AACAGAGCA
17093823 GAACTGAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.54, C:0.12, G:0.27, T:0.07
Consensus pattern (20 bp):
AGAACAGAACAGAGCAAAGT
Found at i:17093831 original size:20 final size:20
Alignment explanation
Indices: 17093786--17093831 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
17093776 TAGAGTAAAG
* *
17093786 TAGAACGGAACAGAGCAAAG
1 TAGAACGAAACAGAGCAAAC
17093806 TAGAACGAAACAGAGCAGAAC
1 TAGAACGAAACAGAGCA-AAC
17093827 T-GAAC
1 TAGAAC
17093832 TGAACTATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.50, C:0.17, G:0.26, T:0.07
Consensus pattern (20 bp):
TAGAACGAAACAGAGCAAAC
Found at i:17099754 original size:23 final size:23
Alignment explanation
Indices: 17099688--17099809 Score: 147
Period size: 23 Copynumber: 5.3 Consensus size: 23
17099678 AGTGTTATTA
*
17099688 ATCAGTGATAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
17099711 TTCAATGGTAGGTAT-GACTACAT
1 ATCAGTGGTAGCT-TCGGCTACAT
17099734 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
17099757 TTTAGTGGTAGCTTCGGTTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
17099780 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
17099803 ATCAGTG
1 ATCAGTG
17099810 TGGCACTTAT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
22 1 0.01
23 80 0.98
24 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:17106072 original size:20 final size:20
Alignment explanation
Indices: 17106047--17106100 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
17106037 GGATGAAATT
17106047 CTCAAATGAGCTGAATT-GAG
1 CTCAAATGAGCT-AATTGGAG
* *
17106067 CTCAAAGGAGCTAGTTGGAG
1 CTCAAATGAGCTAATTGGAG
*
17106087 CTGAAATGAGCTAA
1 CTCAAATGAGCTAA
17106101 GGGAGTTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (20 bp):
CTCAAATGAGCTAATTGGAG
Found at i:17108284 original size:18 final size:17
Alignment explanation
Indices: 17108251--17108289 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
17108241 TTATATAAAT
17108251 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
17108269 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
17108286 TGTG
1 TGTG
17108290 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:17108547 original size:23 final size:23
Alignment explanation
Indices: 17108513--17108565 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
17108503 AGTGTTATTG
17108513 ATCAGTGATAGCTTCGGCTACAT
1 ATCAGTGATAGCTTCGGCTACAT
* *
17108536 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGATAGCTTCGGCTACAT
17108559 ATCAGTG
1 ATCAGTG
17108566 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGATAGCTTCGGCTACAT
Found at i:17110244 original size:18 final size:18
Alignment explanation
Indices: 17110218--17110252 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17110208 ATTACGTTTT
*
17110218 TATTTTTTATTCAATTTA
1 TATTATTTATTCAATTTA
*
17110236 TATTATTTATTTAATTT
1 TATTATTTATTCAATTT
17110253 TCATATTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTATTTATTCAATTTA
Found at i:17112444 original size:64 final size:63
Alignment explanation
Indices: 17112343--17112466 Score: 155
Period size: 64 Copynumber: 2.0 Consensus size: 63
17112333 ATGTATAACT
* *
17112343 TGCAAGAAAACAAACATACTTAAAATAACAAAAAAATG-TCAAAATAACACCGACTTATTCTTTA
1 TGCAAGAAAAAAAACATACTTAAAATAACAAAAAAATGCT-AAAATAACACCAACTT-TTCTTTA
* *
17112407 TGCAAGAAAAAAAACATGCTT-AAA-AACTACATAAAATGCTAAAATAACACCAACTTTTCT
1 TGCAAGAAAAAAAACATACTTAAAATAAC-A-AAAAAATGCTAAAATAACACCAACTTTTCT
17112467 AATGATTCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
62 3 0.06
63 8 0.15
64 41 0.77
65 1 0.02
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.23
Consensus pattern (63 bp):
TGCAAGAAAAAAAACATACTTAAAATAACAAAAAAATGCTAAAATAACACCAACTTTTCTTTA
Found at i:17113973 original size:19 final size:20
Alignment explanation
Indices: 17113949--17113993 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
17113939 TCTTGAATCG
17113949 ATTTTTATATATTA-TTTTT
1 ATTTTTATATATTATTTTTT
* *
17113968 ATTTTTATTTTTTATTTTTT
1 ATTTTTATATATTATTTTTT
17113988 ATTTTT
1 ATTTTT
17113994 TTATTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (20 bp):
ATTTTTATATATTATTTTTT
Found at i:17113986 original size:8 final size:7
Alignment explanation
Indices: 17113950--17114000 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
17113940 CTTGAATCGA
17113950 TTTTTAT
1 TTTTTAT
* *
17113957 ATATTA-
1 TTTTTAT
17113963 TTTTTA-
1 TTTTTAT
17113969 TTTTTAT
1 TTTTTAT
17113976 TTTTTAT
1 TTTTTAT
17113983 TTTTTATT
1 TTTTTA-T
17113991 TTTTTAT
1 TTTTTAT
17113998 TTT
1 TTT
17114001 AAAATAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
6 10 0.26
7 21 0.55
8 7 0.18
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:17113987 original size:15 final size:15
Alignment explanation
Indices: 17113958--17114000 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
17113948 GATTTTTATA
17113958 TATTATTTTTA-TTTT
1 TATT-TTTTTATTTTT
17113973 TA-TTTTTTATTTTT
1 TATTTTTTTATTTTT
17113987 TATTTTTTTATTTT
1 TATTTTTTTATTTT
17114001 AAAATAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.23
14 7 0.27
15 13 0.50
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TATTTTTTTATTTTT
Found at i:17114000 original size:13 final size:13
Alignment explanation
Indices: 17113949--17114001 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
17113939 TCTTGAATCG
*
17113949 ATTTTTATATATT
1 ATTTTTATATTTT
17113962 ATTTTTAT-TTTT
1 ATTTTTATATTTT
*
17113974 ATTTTTTATTTTTT
1 A-TTTTTATATTTT
*
17113988 ATTTTTTTATTTT
1 ATTTTTATATTTT
17114001 A
1 A
17114002 AAATAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 4 0.11
13 26 0.74
14 5 0.14
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
ATTTTTATATTTT
Found at i:17114012 original size:11 final size:11
Alignment explanation
Indices: 17113996--17114022 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17113986 TTATTTTTTT
17113996 ATTTTAAAATA
1 ATTTTAAAATA
17114007 ATTTTAAAATA
1 ATTTTAAAATA
17114018 ATTTT
1 ATTTT
17114023 TTTATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTAAAATA
Found at i:17114071 original size:26 final size:27
Alignment explanation
Indices: 17114007--17114068 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
17113997 TTTTAAAATA
* *
17114007 ATTTTAAAATAATTTTTTTATTTTTTT
1 ATTTTAAAATAATTTTTTTATATGTTT
17114034 ATTTTGAAAATAA-TTTTTTA-ATGTTT
1 ATTTT-AAAATAATTTTTTTATATGTTT
17114060 ATTTTAAAA
1 ATTTTAAAA
17114069 ATAGGCCGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 4 0.12
26 9 0.28
27 12 0.38
28 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (27 bp):
ATTTTAAAATAATTTTTTTATATGTTT
Found at i:17117392 original size:15 final size:14
Alignment explanation
Indices: 17117368--17117397 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
17117358 AAGAGAACCT
17117368 AATTTGACATATTA
1 AATTTGACATATTA
17117382 AATTGTGACATATTA
1 AATT-TGACATATTA
17117397 A
1 A
17117398 TAAGTTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (14 bp):
AATTTGACATATTA
Found at i:17122384 original size:26 final size:26
Alignment explanation
Indices: 17122349--17122402 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
17122339 TCTTAAGTTT
17122349 AAAAATCAGAAAGACATGAACAAACA
1 AAAAATCAGAAAGACATGAACAAACA
17122375 AAAAATCAGAAAGACATGAACAAACA
1 AAAAATCAGAAAGACATGAACAAACA
17122401 AA
1 AA
17122403 GTATGCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.67, C:0.15, G:0.11, T:0.07
Consensus pattern (26 bp):
AAAAATCAGAAAGACATGAACAAACA
Found at i:17123071 original size:41 final size:41
Alignment explanation
Indices: 17123015--17123247 Score: 340
Period size: 41 Copynumber: 5.7 Consensus size: 41
17123005 TTAATATAAA
* * * *
17123015 CAGATTCACTGGCACTTAGCTTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
17123057 CAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTAATC
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
17123098 CAGTTCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
17123139 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATA
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
17123180 CAAATCACCGGCACTTAGCCTGCTATGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
17123221 TAGATCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
17123248 TTTTAAAACC
Statistics
Matches: 170, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
41 166 0.98
42 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:17123683 original size:31 final size:31
Alignment explanation
Indices: 17123645--17123705 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
17123635 GGCCCATTTT
17123645 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAG
*
17123676 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAA
17123706 TTAAAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAG
Found at i:17123685 original size:11 final size:11
Alignment explanation
Indices: 17123645--17123778 Score: 74
Period size: 11 Copynumber: 12.9 Consensus size: 11
17123635 GGCCCATTTT
17123645 TATTTT-AAAA
1 TATTTTAAAAA
17123655 -ATTTTAAAAA
1 TATTTTAAAAA
**
17123665 -ATTAAAAAAA
1 TATTTTAAAAA
17123675 GTATTTTAAAAA
1 -TATTTTAAAAA
17123687 TATTTT--AAA
1 TATTTTAAAAA
17123696 -A--TTAAAAA
1 TATTTTAAAAA
* **
17123704 AATTAAAAAAA
1 TATTTTAAAAA
17123715 GTATTTTAAAAA
1 -TATTTTAAAAA
17123727 TATTTT--AAA
1 TATTTTAAAAA
17123736 -ATTTTAAAAA
1 TATTTTAAAAA
* **
17123746 AAAATTAAAAA
1 TATTTTAAAAA
* *
17123757 GTATGTAAAAAA
1 -TATTTTAAAAA
17123769 TATTTTAAAA
1 TATTTTAAAA
17123779 TTAAAAAAAA
Statistics
Matches: 94, Mismatches: 17, Indels: 25
0.69 0.12 0.18
Matches are distributed among these distances:
6 2 0.02
8 9 0.10
9 12 0.13
10 15 0.16
11 33 0.35
12 23 0.24
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:17123710 original size:40 final size:41
Alignment explanation
Indices: 17123645--17123789 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 41
17123635 GGCCCATTTT
*
17123645 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAA
17123687 TATTTTAAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAA
* *
17123727 TATTTTAAAATTTTAAAAAAA--AATTAAAAAGTATGTAAAAAA
1 TATTTTAAAA-TTTAAAAAAATTAA--AAAAAGTATTTTAAAAA
*
17123769 TATTTTAAAATTAAAAAAAAT
1 TATTTTAAAATTTAAAAAAAT
17123790 AAATATATTT
Statistics
Matches: 94, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
40 41 0.44
41 13 0.14
42 40 0.43
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (41 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:17133922 original size:20 final size:20
Alignment explanation
Indices: 17133899--17133937 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
17133889 ATTCTTTCCC
*
17133899 TTTTTCCTTTTCTT-TTATT
1 TTTTTTCTTTTCTTCTTATT
17133918 TTTTTTCTTTTCTTCTTATT
1 TTTTTTCTTTTCTTCTTATT
17133938 CTCCTCCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTCTTTTCTTCTTATT
Found at i:17133927 original size:26 final size:26
Alignment explanation
Indices: 17133867--17133928 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
17133857 ATTTTTCTAG
17133867 TTTTCCTTTTTCCTTTTCTTTTATTC
1 TTTTCCTTTTTCCTTTTCTTTTATTC
* *
17133893 TTTCCCTTTTTCCTTTTCTTTTATTT
1 TTTTCCTTTTTCCTTTTCTTTTATTC
*
17133919 TTTTTCTTTT
1 TTTTCCTTTT
17133929 CTTCTTATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTTCCTTTTTCCTTTTCTTTTATTC
Found at i:17139292 original size:28 final size:27
Alignment explanation
Indices: 17139232--17139308 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 27
17139222 ATTATTAACA
17139232 AATA-TTTAAATTA-AATATTTAAAAAT
1 AATATTTTAAATTATAAT-TTTAAAAAT
* *
17139258 AATATTTTAAATGATAATTTTTAAAAT
1 AATATTTTAAATTATAATTTTAAAAAT
* * *
17139285 TATCATTTGAATTTATAATTTTAA
1 AAT-ATTTTAAATTATAATTTTAA
17139309 TTGAAAAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.10
27 18 0.44
28 19 0.46
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (27 bp):
AATATTTTAAATTATAATTTTAAAAAT
Found at i:17141471 original size:49 final size:49
Alignment explanation
Indices: 17141378--17141473 Score: 113
Period size: 49 Copynumber: 2.0 Consensus size: 49
17141368 ACTATTTAAT
* * * *
17141378 ATTTTACCCTCCCGGATGGCCCAACAATGATAGTTTTTACAATTTTTAC
1 ATTTTACCATCCCGGATGGCCCAACAACGATAGTTTTCAAAATTTTTAC
* * *
17141427 ATTTTACCATCTCGGGTGGCCCATCAACGAT-GATTTTCAAAATTTTT
1 ATTTTACCATCCCGGATGGCCCAACAACGATAG-TTTTCAAAATTTTT
17141474 CTTATTCCAC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 1 0.03
49 38 0.97
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.38
Consensus pattern (49 bp):
ATTTTACCATCCCGGATGGCCCAACAACGATAGTTTTCAAAATTTTTAC
Found at i:17141985 original size:192 final size:193
Alignment explanation
Indices: 17141734--17142107 Score: 574
Period size: 193 Copynumber: 1.9 Consensus size: 193
17141724 ACTAAGACCA
* *
17141734 ATTCACAGTTCCGACATTCAACACTGTCACACAATTCAATCTGATCCTCTATCTCGATA-TCAAT
1 ATTCACAGTTCCGACATTCAACACTGTCACACAATTCAATCTAATCCACTATCTCGATATTCAAT
* * *
17141798 ATCAATCACACCAATTCAATTCATACAATCATTATATACTCACCTCAATATTCAAA-CGTGCAAT
66 ATCAATCACACCAATTCAATTCATACAACCATTATATACTCACCTCAACATT-AAATCATGCAAT
*
17141862 TAACATGTATATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACCGATGGATTGAT
130 TAACATGTACATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACCGATGGATTGAT
** ** * *
17141926 ATTCACAGTTTTGACATTCTGCACTGTCACAGAATTTAAT-TCAATCCACTATCTCGATATTCAA
1 ATTCACAGTTCCGACATTCAACACTGTCACACAATTCAATCT-AATCCACTATCTCGATATTCAA
*
17141990 TATCAATCACACCAGTTCAATTCATACAACCATTATATACTCACCTCAACATTAAATCATGCAAT
65 TATCAATCACACCAATTCAATTCATACAACCATTATATACTCACCTCAACATTAAATCATGCAAT
* *
17142055 TAACATGTACATGCAAACAATTAAATCGATTCCAAATCATAAAAGTACAAACC
130 TAACATGTACATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACC
17142108 AGGGTCTTAT
Statistics
Matches: 164, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
191 1 0.01
192 52 0.32
193 111 0.68
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (193 bp):
ATTCACAGTTCCGACATTCAACACTGTCACACAATTCAATCTAATCCACTATCTCGATATTCAAT
ATCAATCACACCAATTCAATTCATACAACCATTATATACTCACCTCAACATTAAATCATGCAATT
AACATGTACATACAAACAATTAAATCGATCCCAAATCATAAAAGTACAAACCGATGGATTGAT
Found at i:17143084 original size:14 final size:14
Alignment explanation
Indices: 17143065--17143234 Score: 171
Period size: 14 Copynumber: 12.1 Consensus size: 14
17143055 GACATTCTGT
*
17143065 ATCTATGAATCCAC
1 ATCTATGAATCCGC
*
17143079 ATCTATGAATCCGT
1 ATCTATGAATCCGC
*
17143093 ATCTATGAATTCGC
1 ATCTATGAATCCGC
* *
17143107 ATATATGAATCCAC
1 ATCTATGAATCCGC
*
17143121 ATCTATAAATCCGC
1 ATCTATGAATCCGC
*
17143135 ATGTATGAATCCGC
1 ATCTATGAATCCGC
* * *
17143149 ATTTATAAATCTGC
1 ATCTATGAATCCGC
* *
17143163 ATGTATGAATCTGC
1 ATCTATGAATCCGC
*
17143177 ATCTATGAATCCAC
1 ATCTATGAATCCGC
* *
17143191 A-CGTATGGATCCGT
1 ATC-TATGAATCCGC
* *
17143205 ATCTATGAATTCAC
1 ATCTATGAATCCGC
17143219 ATCTATGAATCCGC
1 ATCTATGAATCCGC
17143233 AT
1 AT
17143235 GTGAGAGTTC
Statistics
Matches: 125, Mismatches: 29, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
13 1 0.01
14 123 0.98
15 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.32
Consensus pattern (14 bp):
ATCTATGAATCCGC
Found at i:17144108 original size:14 final size:15
Alignment explanation
Indices: 17144089--17144118 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17144079 TAATTCAATG
17144089 TTTA-TTTAAAATTT
1 TTTATTTTAAAATTT
17144103 TTTATTTTAAAATTT
1 TTTATTTTAAAATTT
17144118 T
1 T
17144119 GCGTGCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATTTTAAAATTT
Found at i:17159708 original size:50 final size:50
Alignment explanation
Indices: 17159602--17159831 Score: 235
Period size: 50 Copynumber: 4.5 Consensus size: 50
17159592 GGGAATGAGA
* * * *
17159602 TCCCATGTAAGACCAGGTATGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATGAGAGG
* * * * *
17159658 TCCTAGGTAAGACCATGTTTGAGACATGGCGTTGGCACCGGGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* **
17159708 TCCCATGTAAGACCATGTCTGGGACATGACGTTGGCATTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* * * * * *
17159758 TCCCCTGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATGAGAGC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
*
17159808 TCCCATGTAAGACCATATCTGGGA
1 TCCCATGTAAGACCATGTCTGGGA
17159832 TATGACATTG
Statistics
Matches: 147, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 113 0.77
53 2 0.01
55 1 0.01
56 31 0.21
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
Found at i:17159795 original size:100 final size:101
Alignment explanation
Indices: 17159602--17159844 Score: 281
Period size: 100 Copynumber: 2.4 Consensus size: 101
17159592 GGGAATGAGA
* * * *
17159602 TCCCATGTAAGACCAGGTATGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCTAGGTA
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGG---CATTGAG--TATGAGAGGTCCCAGGTA
* * * * * *
17159667 AGACCATGTTTGAGACATGGCGTTGGCACCGGGATGAGAGG
61 AGACCATGTCTGAGACATAGCATGGGCACCGAGATGAGAGC
* **
17159708 TCCCATGTAAGACCATGTCTGGGACATGACGTTGGCATTGAG-ATGAGAGGTCCCCTGTAAGACC
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTGAGTATGAGAGGTCCCAGGTAAGACC
* *
17159772 ATGTCTGGGACATAGCATGGGCACCGATATGAGAGC
66 ATGTCTGAGACATAGCATGGGCACCGAGATGAGAGC
* *
17159808 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
17159845 GTACAACAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
100 81 0.68
103 7 0.06
106 31 0.26
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (101 bp):
TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTGAGTATGAGAGGTCCCAGGTAAGACC
ATGTCTGAGACATAGCATGGGCACCGAGATGAGAGC
Found at i:17164029 original size:15 final size:15
Alignment explanation
Indices: 17164005--17164035 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17163995 TGAAATTGAA
*
17164005 TATGTGTACTTAAAG
1 TATGTATACTTAAAG
17164020 TATGTATACTTAAAG
1 TATGTATACTTAAAG
17164035 T
1 T
17164036 GTTGCTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (15 bp):
TATGTATACTTAAAG
Found at i:17165040 original size:44 final size:44
Alignment explanation
Indices: 17164992--17165106 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
17164982 GTTTTAATCC
* * **
17164992 GCTCCACTGCTACTTCAGGGAGATAGGATTAATAGCTTCAATTT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCT
* ** *
17165036 GCTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCT
*
17165080 ACTCCACTGCAACTTCAGGGAGATAAG
1 GCTCCACTGCAACTTCAGGGAGATAAG
17165107 GTTTGTTATC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCT
Found at i:17165182 original size:51 final size:51
Alignment explanation
Indices: 17165127--17165229 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 51
17165117 TTCAGTCTTG
* * *
17165127 ATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTA
1 ATCTGCTCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTCAGCTTTA
* * * * * **
17165178 ATCTGTTCCACTGTAACGCTAAGGAGATAAGATTCGCTGTCTTCAGCTTTA
1 ATCTGCTCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTCAGCTTTA
17165229 A
1 A
17165230 CGCCAGGGAG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (51 bp):
ATCTGCTCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTCAGCTTTA
Found at i:17165240 original size:36 final size:36
Alignment explanation
Indices: 17165191--17165265 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
17165181 TGTTCCACTG
* * *
17165191 TAACGCTAAGGAGATAAGATTCGCTGTCTTCAGCTT
1 TAACGCCAAGGAGATAAGATTCGCTGCCTTCAACTT
*
17165227 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAACTT
1 TAACGCCAAGGAGATAAGATTCGCTGCCTTCAACTT
17165263 TAA
1 TAA
17165266 TATGCTCCGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (36 bp):
TAACGCCAAGGAGATAAGATTCGCTGCCTTCAACTT
Found at i:17165280 original size:138 final size:135
Alignment explanation
Indices: 17165127--17165889 Score: 676
Period size: 138 Copynumber: 5.8 Consensus size: 135
17165117 TTCAGTCTTG
*
17165127 ATCTGCTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* *
17165192 AACGCTAAGGAGATAAGATTCGCTGTCTTCAGCTTTAACGCCAGGGAGATAAGATTCGCTGCCTT
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAA-GCCAGGGAGATAAGATTC-CT-CCTT
*
17165257 CAACTTTA
128 CAGCTTTA
* * * *
17165265 ATATGCTCCGCTGCAATGCTAGGGAAACAAGATTTGCTACCTTTAGCTTTAATCTGTTCTACTGT
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * * *
17165330 AACGCCAAGGAGATAGGATTTGCTACCTTCAGCTTTAATCC-----------ACTCC-ACTTCAG
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAAGCCAGGGAGATAAGATTCCTCCTTCAG
17165383 CTTTA
131 CTTTA
* ** ** * * * * **
17165388 ATATATTCTACTGCAAAGCCAGGGAAACAAAATTCGCTACCTTTAGCTTTAATCTTTTTCACTAC
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * * *
17165453 AAAGCC-AGAGAAACAAGATTCTCTGTCTTCAGCTTTAATGTCAGGGAGATAAGATTCACTGCCT
66 AACGCCAAG-GAGATAAGATTCGCTGCCTTCAGCTTTAA-GCCAGGGAGATAAGATTC-CT-CCT
17165517 TCAGCTTTA
127 TCAGCTTTA
* * * *
17165526 ATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCCACCTTTAGCTTTAACCTATTCCACTGT
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * * *
17165591 AACGCCAATGAGATAGGATTCGCTGCCTTCAGCTTTAATCC----------G-CTCC-ACTTCAA
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAAGCCAGGGAGATAAGATTCCTCCTTCAG
17165644 CTTTA
131 CTTTA
** * * * * * *
17165649 ATCTATTCCACTGTAACGCTAGGGAAACAAGATTCGCTACCTTTAACTTTAATCTGTTCCACTGC
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * * * *
17165714 AAAGCCAGGGAAATAAGATTTGCTGTCTTCAGCTTTAATGCCAGGGAGATAAAATTCGCTACCTT
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAA-GCCAGGGAGATAAGATTC-CT-CCTT
17165779 CAGCTTTA
128 CAGCTTTA
* * * * * *
17165787 ATCTGCTCTGCTGCAATGCCAGAGAAATAAGATTCGCTACTTTTAACTTTAATCTGTTGCACTGT
1 ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
* * * *
17165852 AACACCAAGGAGATAGGATTCACTACCTTCAGCTTTAA
66 AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAA
17165890 TTCGCTCCAC
Statistics
Matches: 485, Mismatches: 108, Indels: 64
0.74 0.16 0.10
Matches are distributed among these distances:
122 2 0.00
123 185 0.38
124 3 0.01
125 2 0.00
126 5 0.01
127 1 0.00
135 5 0.01
136 2 0.00
137 3 0.01
138 276 0.57
139 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (135 bp):
ATCTGCTCCGCTGCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGT
AACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAAGCCAGGGAGATAAGATTCCTCCTTCAG
CTTTA
Found at i:17165297 original size:87 final size:87
Alignment explanation
Indices: 17165141--17165316 Score: 199
Period size: 87 Copynumber: 2.0 Consensus size: 87
17165131 GCTCCGCTGC
* * * * * * *
17165141 AACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAACGCTAAGGAGAT
1 AACGCCAGGGAAACAAGATTCGCTACCTTCAACTTTAATATGCTCCACTGCAACGCTAAGGAAAC
**
17165206 AAGATTCGCTGTCTTCAGCTTT
66 AAGATTCGCTACCTTCAGCTTT
* * * * * *
17165228 AACGCCAGGGAGATAAGATTCGCTGCCTTCAACTTTAATATGCTCCGCTGCAATGCTAGGGAAAC
1 AACGCCAGGGAAACAAGATTCGCTACCTTCAACTTTAATATGCTCCACTGCAACGCTAAGGAAAC
* *
17165293 AAGATTTGCTACCTTTAGCTTT
66 AAGATTCGCTACCTTCAGCTTT
17165315 AA
1 AA
17165317 TCTGTTCTAC
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (87 bp):
AACGCCAGGGAAACAAGATTCGCTACCTTCAACTTTAATATGCTCCACTGCAACGCTAAGGAAAC
AAGATTCGCTACCTTCAGCTTT
Found at i:17165483 original size:123 final size:123
Alignment explanation
Indices: 17165275--17166008 Score: 560
Period size: 123 Copynumber: 5.7 Consensus size: 123
17165265 ATATGCTCCG
* * * * * *
17165275 CTGCAATGCTAGGGAAACAAGATTTGCTACCTTTAGCTTTAATCTGTTCTACTGTAACGCCA-AG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGA-
* * * ** * *
17165339 GAGATAGGATTTGCTACCTTCAGCTTTAATCCACTCCACTTCAGCTTTAATATATTCTA
65 GAAATAAGATTCGCTGTCTTCAGCTTTAATCCACTCCACTTCAGCTTTAATCTATTCCA
* * * * *
17165398 CTGCAAAGCCAGGGAAACAAAATTCGCTACCTTTAGCTTTAATCTTTTTCACTACAAAGCCAGAG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGAG
* * *
17165463 AAACAAGATTCTCTGTCTTCAGCTTTAATGTCAGGGAGATAAGATTCACTGC-CTTCAGCTTTAA
66 AAATAAGATTCGCTGTCTTCAGCTTTAA--TC--------------CACTCCACTTCAGCTTTAA
** *
17165527 TCTGCTCCG
115 TCTATTCCA
* * * * * * *
17165536 CTGCAATGCTAGGGAAACAAGATTCGCCACCTTTAGCTTTAACCTATTCCACTGTAACGCCA-AT
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGA-
* * * * *
17165600 GAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAACTTTAATCTATTCCA
65 GAAATAAGATTCGCTGTCTTCAGCTTTAATCCACTCCACTTCAGCTTTAATCTATTCCA
* * * *
17165659 CTGTAACGCTAGGGAAACAAGATTCGCTACCTTTAACTTTAATCTGTTCCACTGCAAAGCCAGGG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGAG
* *
17165724 AAATAAGATTTGCTGTCTTCAGCTTTAATGCCAGGGAGATAAAATTCGCTACCTTCAGCTTTAAT
66 AAATAAGATTCGCTGTCTTCAGCTTTAAT-CC-----------ACTC-C-A-CTTCAGCTTTAAT
** **
17165789 CTGCTCTG
116 CTATTCCA
* * * * * * *
17165797 CTGCAATGCCAGAGAAATAAGATTCGCTACTTTTAACTTTAATCTGTTGCACTGTAACA-CCA-A
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAA-AGCCAGA
* * * ** * *
17165860 GGAGATAGGATTCACTACCTTCAGCTTTAATTCGCTCCACTTCAGCTTTAATCTATTCCA
65 -GAAATAAGATTCGCTGTCTTCAGCTTTAATCCACTCCACTTCAGCTTTAATCTATTCCA
*
17165920 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGAG
*
17165985 AAATAAAATTCGCTGTCTTCAGCT
66 AAATAAGATTCGCTGTCTTCAGCT
17166009 GCTCCACTGC
Statistics
Matches: 472, Mismatches: 100, Indels: 78
0.73 0.15 0.12
Matches are distributed among these distances:
122 5 0.01
123 259 0.55
124 5 0.01
125 3 0.01
126 2 0.00
135 2 0.00
136 3 0.01
137 3 0.01
138 184 0.39
139 6 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (123 bp):
CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGAG
AAATAAGATTCGCTGTCTTCAGCTTTAATCCACTCCACTTCAGCTTTAATCTATTCCA
Found at i:17165608 original size:261 final size:261
Alignment explanation
Indices: 17165137--17166008 Score: 1305
Period size: 261 Copynumber: 3.3 Consensus size: 261
17165127 ATCTGCTCCG
** * *
17165137 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAACGCTA-AG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGA-
* * *
17165201 GAGATAAGATTCGCTGTCTTCAGCTTTAACGCCAGGGAGATAAGATTCGCTGCCTTCAACTTTAA
65 GAAATAAGATTCGCTGTCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAA
* * *
17165266 TATGCTCCGCTGCAATGCTAGGGAAACAAGATTTGCTACCTTTAGCTTTAATCTGTTCTACTGTA
130 TCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTA
* * *
17165331 ACGCCAAGGAGATAGGATTTGCTACCTTCAGCTTTAATCCACTCCACTTCAGCTTTAATATATTC
195 ACGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTC
*
17165396 TA
260 CA
* * * *
17165398 CTGCAAAGCCAGGGAAACAAAATTCGCTACCTTTAGCTTTAATCTTTTTCACTACAAAGCCAGAG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAG
* * * *
17165463 AAACAAGATTCTCTGTCTTCAGCTTTAATGTCAGGGAGATAAGATTCACTGCCTTCAGCTTTAAT
66 AAATAAGATTCGCTGTCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAAT
* * *
17165528 CTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCCACCTTTAGCTTTAACCTATTCCACTGTAA
131 CTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAA
* * *
17165593 CGCCAATGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAACTTTAATCTATTCC
196 CGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCC
17165658 A
261 A
* * * * *
17165659 CTGTAACGCTAGGGAAACAAGATTCGCTACCTTTAACTTTAATCTGTTCCACTGCAAAGCCAGGG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAG
* * *
17165724 AAATAAGATTTGCTGTCTTCAGCTTTAATGCCAGGGAGATAAAATTCGCTACCTTCAGCTTTAAT
66 AAATAAGATTCGCTGTCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAAT
* * * * * * *
17165789 CTGCTCTGCTGCAATGCCAGAGAAATAAGATTCGCTACTTTTAACTTTAATCTGTTGCACTGTAA
131 CTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAA
* * *
17165854 CACCAAGGAGATAGGATTCACTACCTTCAGCTTTAATTCGCTCCACTTCAGCTTTAATCTATTCC
196 CGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCC
17165919 A
261 A
17165920 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAG
*
17165985 AAATAAAATTCGCTGTCTTCAGCT
66 AAATAAGATTCGCTGTCTTCAGCT
17166009 GCTCCACTGC
Statistics
Matches: 543, Mismatches: 67, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
261 542 1.00
262 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (261 bp):
CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAG
AAATAAGATTCGCTGTCTTCAGCTTTAATGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAAT
CTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAA
CGCCAAGGAGATAGGATTCGCTACCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCC
A
Found at i:17165638 original size:51 final size:51
Alignment explanation
Indices: 17165497--17165644 Score: 127
Period size: 51 Copynumber: 2.9 Consensus size: 51
17165487 TTAATGTCAG
* * * * * *
17165497 GGAGATAAGATTCACTGCCTTCAGCTTTAATCTGCTCCGCTGCAATGCTAG
1 GGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTGCAACGCCAA
* * ** * ** *
17165548 GGAAACAAGATTCGCCACCTTTAGCTTTAA-CCTATTCCACTGTAACGCCAA
1 GGAGATAAGATTCGCTGCCTTCAGCTTTAATCC-GCTCCACTGCAACGCCAA
* * *
17165599 TGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAAC
1 GGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTGCAAC
17165645 TTTAATCTAT
Statistics
Matches: 70, Mismatches: 25, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
50 1 0.01
51 67 0.96
52 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (51 bp):
GGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTGCAACGCCAA
Found at i:17165699 original size:72 final size:72
Alignment explanation
Indices: 17165572--17165711 Score: 172
Period size: 72 Copynumber: 1.9 Consensus size: 72
17165562 CCACCTTTAG
* * * * * *
17165572 CTTTAACCTATTCCACTGTAACGCCAATGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCC
1 CTTTAACCTATTCCACTGTAACGCCAAGGAAACAAGATTCGCTACCTTCAACTTTAATCCGCTCC
17165637 ACTTCAA
66 ACTTCAA
* * * * * *
17165644 CTTTAATCTATTCCACTGTAACGCTAGGGAAACAAGATTCGCTACCTTTAACTTTAATCTGTTCC
1 CTTTAACCTATTCCACTGTAACGCCAAGGAAACAAGATTCGCTACCTTCAACTTTAATCCGCTCC
17165709 ACT
66 ACT
17165712 GCAAAGCCAG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (72 bp):
CTTTAACCTATTCCACTGTAACGCCAAGGAAACAAGATTCGCTACCTTCAACTTTAATCCGCTCC
ACTTCAA
Found at i:17165750 original size:51 final size:51
Alignment explanation
Indices: 17165638--17165752 Score: 140
Period size: 51 Copynumber: 2.3 Consensus size: 51
17165628 ATCCGCTCCA
* * *
17165638 CTTCAACTTTAATCTATTCCACTGTAACGCTAGGGAAACAAGATTCGCTAC
1 CTTCAACTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTAC
* * * * **
17165689 CTTTAACTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAAGATTTGCTGT
1 CTTCAACTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTAC
*
17165740 CTTCAGCTTTAAT
1 CTTCAACTTTAAT
17165753 GCCAGGGAGA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
CTTCAACTTTAATCTATTCCACTGCAAAGCCAGGGAAACAAGATTCGCTAC
Found at i:17165780 original size:36 final size:36
Alignment explanation
Indices: 17165717--17165788 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
17165707 CCACTGCAAA
* * **
17165717 GCCAGGGAAATAAGATTTGCTGTCTTCAGCTTTAAT
1 GCCAGGGAAATAAAATTCGCTACCTTCAGCTTTAAT
*
17165753 GCCAGGGAGATAAAATTCGCTACCTTCAGCTTTAAT
1 GCCAGGGAAATAAAATTCGCTACCTTCAGCTTTAAT
17165789 CTGCTCTGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (36 bp):
GCCAGGGAAATAAAATTCGCTACCTTCAGCTTTAAT
Found at i:17165837 original size:87 final size:87
Alignment explanation
Indices: 17165680--17165839 Score: 205
Period size: 87 Copynumber: 1.8 Consensus size: 87
17165670 GGGAAACAAG
* * * * *
17165680 ATTCGCTACCTTTAACTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAAGATTTGCTGTCTTCA
1 ATTCGCTACCTTCAACTTTAATCTGCTCCACTGCAAAGCCAGAGAAATAAGATTCGCTCTCTTCA
*
17165745 GCTTTAATGCCAGGGAGATAAA
66 ACTTTAATGCCAGGGAGATAAA
* ** * *
17165767 ATTCGCTACCTTCAGCTTTAATCTGCTCTGCTGCAATGCCAGAGAAATAAGATTCGCTACT-TTT
1 ATTCGCTACCTTCAACTTTAATCTGCTCCACTGCAAAGCCAGAGAAATAAGATTCGCT-CTCTTC
17165831 AACTTTAAT
65 AACTTTAAT
17165840 CTGTTGCACT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
87 60 0.98
88 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (87 bp):
ATTCGCTACCTTCAACTTTAATCTGCTCCACTGCAAAGCCAGAGAAATAAGATTCGCTCTCTTCA
ACTTTAATGCCAGGGAGATAAA
Found at i:17165921 original size:21 final size:21
Alignment explanation
Indices: 17165869--17165911 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17165859 AGGAGATAGG
*
17165869 ATTCACTAC-CTTCAGCTTTA
1 ATTCACTCCACTTCAGCTTTA
*
17165889 ATTCGCTCCACTTCAGCTTTA
1 ATTCACTCCACTTCAGCTTTA
17165910 AT
1 AT
17165912 CTATTCCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (21 bp):
ATTCACTCCACTTCAGCTTTA
Found at i:17165970 original size:51 final size:52
Alignment explanation
Indices: 17165888--17165998 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 52
17165878 CTTCAGCTTT
* * * *
17165888 AATTCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAA
1 AATTCGCTACACTTCAGCTTTAATCTATTCCACTACAAAGCCAGAGAAACAA
* * * *
17165940 GATTCGCTAC-CTTTAGCTTTAATCTGTTCCACTACAAAGCCAGAGAAATAA
1 AATTCGCTACACTTCAGCTTTAATCTATTCCACTACAAAGCCAGAGAAACAA
17165991 AATTCGCT
1 AATTCGCT
17165999 GTCTTCAGCT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 42 0.84
52 8 0.16
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.28
Consensus pattern (52 bp):
AATTCGCTACACTTCAGCTTTAATCTATTCCACTACAAAGCCAGAGAAACAA
Found at i:17167342 original size:5 final size:5
Alignment explanation
Indices: 17167332--17167370 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
17167322 GGCCTCTCCT
*
17167332 TTTTC TTTTC TTTT- TTTTC TTCTC TTTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTT
17167371 TTCATCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:17167344 original size:11 final size:11
Alignment explanation
Indices: 17167332--17167371 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
17167322 GGCCTCTCCT
17167332 TTTTC-TTTTC
1 TTTTCTTTTTC
17167342 -TTT-TTTTTC
1 TTTTCTTTTTC
*
17167351 TTCTCTTTTTC
1 TTTTCTTTTTC
17167362 TTTTCTTTTT
1 TTTTCTTTTT
17167372 TCATCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.32
10 2 0.08
11 15 0.60
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:17167362 original size:20 final size:20
Alignment explanation
Indices: 17167337--17167391 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
17167327 CTCCTTTTTC
*
17167337 TTTTCTTTTTTTTCTTC-TCT
1 TTTTCTTTTTTTT-TTCATCA
17167357 TTTTCTTTTCTTTTTTCATCA
1 TTTTCTTTT-TTTTTTCATCA
17167378 TTTTCATTTTTTTT
1 TTTTC-TTTTTTTT
17167392 GAAATATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 12 0.39
21 15 0.48
22 4 0.13
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTTTTTTCATCA
Found at i:17169072 original size:3 final size:3
Alignment explanation
Indices: 17169056--17169094 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
17169046 AAAGATAAAT
* * *
17169056 ATA ATA ACA GTA ATA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17169095 GTAGTAGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Done.