Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 37 of 211
Found at i:10846255 original size:13 final size:14
Alignment explanation
Indices: 10846236--10846267 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
10846226 TAAGTTAGTT
10846236 TATGGGTTGAATTA
1 TATGGGTTGAATTA
10846250 -ATGGGTTGAATTA
1 TATGGGTTGAATTA
10846263 TATGG
1 TATGG
10846268 TCTTTTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (14 bp):
TATGGGTTGAATTA
Found at i:10848314 original size:62 final size:59
Alignment explanation
Indices: 10848231--10848346 Score: 160
Period size: 62 Copynumber: 1.9 Consensus size: 59
10848221 TTTCTTAATC
* * *
10848231 TAATATTAAATTTAATTTAATATTTATCTTGTAGATAAACATTCTATTATTTTAATAACATT
1 TAATATTAAATTTAATCTAATATTTAT-TT-TA-ATAAACATTATATTAATTTAATAACATT
* *
10848293 TAATGTTAAATTTAATCTAATATTTATTTTAATAAATATTATATTAATTTAATA
1 TAATATTAAATTTAATCTAATATTTATTTTAATAAACATTATATTAATTTAATA
10848347 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.41
60 2 0.04
61 2 0.04
62 25 0.51
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (59 bp):
TAATATTAAATTTAATCTAATATTTATTTTAATAAACATTATATTAATTTAATAACATT
Found at i:10855333 original size:21 final size:21
Alignment explanation
Indices: 10855292--10855333 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10855282 GTGGTTATCT
* *
10855292 CACACGTCTGTGTGACTACCC
1 CACACGCCTGTGTGACCACCC
*
10855313 CACACGCCTGTGTGCCCACCC
1 CACACGCCTGTGTGACCACCC
10855334 GTGTGTCCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.45, G:0.19, T:0.19
Consensus pattern (21 bp):
CACACGCCTGTGTGACCACCC
Found at i:10857019 original size:16 final size:18
Alignment explanation
Indices: 10856998--10857035 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10856988 ATTTTATAAA
10856998 AATTGCA-AAAA-GACTT
1 AATTGCATAAAATGACTT
*
10857014 AATTGCATAAAATGATTT
1 AATTGCATAAAATGACTT
10857032 AATT
1 AATT
10857036 TTTCTGTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (18 bp):
AATTGCATAAAATGACTT
Found at i:10868145 original size:19 final size:19
Alignment explanation
Indices: 10868121--10868158 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10868111 CACATTATCG
10868121 ATTATTTTCCTAATTTGTT
1 ATTATTTTCCTAATTTGTT
10868140 ATTATTTTCCTAATTTGTT
1 ATTATTTTCCTAATTTGTT
10868159 CTTTATCGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.63
Consensus pattern (19 bp):
ATTATTTTCCTAATTTGTT
Found at i:10870609 original size:17 final size:18
Alignment explanation
Indices: 10870587--10870624 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
10870577 GATGTTTTTA
10870587 TTTTAAGCATGGACT-AT
1 TTTTAAGCATGGACTAAT
10870604 TTTTAAGCATGGACTAAT
1 TTTTAAGCATGGACTAAT
10870622 TTT
1 TTT
10870625 CTAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (18 bp):
TTTTAAGCATGGACTAAT
Found at i:10873012 original size:18 final size:17
Alignment explanation
Indices: 10872973--10873013 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
10872963 TAGATGTTTT
10872973 TATTTTTAAGCATGGAC
1 TATTTTTAAGCATGGAC
10872990 TATTTTTAAGCATGGAC
1 TATTTTTAAGCATGGAC
10873007 TAATTTT
1 T-ATTTT
10873014 CTAAAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (17 bp):
TATTTTTAAGCATGGAC
Found at i:10876381 original size:14 final size:14
Alignment explanation
Indices: 10876362--10876388 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10876352 GAAAGTATCA
10876362 CTTGATACGAGAGG
1 CTTGATACGAGAGG
10876376 CTTGATACGAGAG
1 CTTGATACGAGAG
10876389 ACAGTAGTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (14 bp):
CTTGATACGAGAGG
Found at i:10877911 original size:23 final size:23
Alignment explanation
Indices: 10877885--10877962 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
10877875 ATTTGAGAAA
10877885 GTATGTGAATTGAGTATTTAAAT
1 GTATGTGAATTGAGTATTTAAAT
* * * *
10877908 GTATGT-ATTTAATTAAATTTGAGAAG
1 GTATGTGAATTGAGT--ATTT-A-AAT
*
10877934 GTATGCGAATTGAGTATTTAAAT
1 GTATGTGAATTGAGTATTTAAAT
10877957 GTATGT
1 GTATGT
10877963 ATTTAAATGA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 5 0.12
23 13 0.32
24 5 0.12
25 5 0.12
26 7 0.17
27 5 0.12
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.42
Consensus pattern (23 bp):
GTATGTGAATTGAGTATTTAAAT
Found at i:10877928 original size:49 final size:49
Alignment explanation
Indices: 10877875--10877968 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
10877865 TATATATGTG
*
10877875 ATTTGAGAAAGTATGTGAATTGAGTATTTAAATGTATGTATTTAATTAA
1 ATTTGAGAAAGTATGCGAATTGAGTATTTAAATGTATGTATTTAATTAA
*
10877924 ATTTGAGAAGGTATGCGAATTGAGTATTTAAATGTATGTATTTAA
1 ATTTGAGAAAGTATGCGAATTGAGTATTTAAATGTATGTATTTAA
10877969 ATGAATAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.20, T:0.41
Consensus pattern (49 bp):
ATTTGAGAAAGTATGCGAATTGAGTATTTAAATGTATGTATTTAATTAA
Found at i:10878228 original size:23 final size:23
Alignment explanation
Indices: 10878198--10878287 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 23
10878188 AGCCTATTGT
10878198 TTTCAGCTCATTAGAGCTTACTG
1 TTTCAGCTCATTAGAGCTTACTG
*
10878221 TTTCAGCTC-GTATGAGCTTACTG
1 TTTCAGCTCATTA-GAGCTTACTG
* * * *
10878244 TCT-AGCTCGTCAGAGCTTACCG
1 TTTCAGCTCATTAGAGCTTACTG
* *
10878266 TTTCAGCTCAATAGAGCCTACT
1 TTTCAGCTCATTAGAGCTTACT
10878288 ATTTATCAGC
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
22 18 0.34
23 35 0.66
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (23 bp):
TTTCAGCTCATTAGAGCTTACTG
Found at i:10879387 original size:13 final size:13
Alignment explanation
Indices: 10879369--10879393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10879359 ATATGTTTGG
10879369 ATATGAAATTGAT
1 ATATGAAATTGAT
10879382 ATATGAAATTGA
1 ATATGAAATTGA
10879394 CATTGAATTT
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:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:10880719 original size:30 final size:30
Alignment explanation
Indices: 10880642--10880719 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
10880632 TTTTAGATGC
10880642 CTTAATAAGAATTTTCAAGAAAATTGAGGG
1 CTTAATAAGAATTTTCAAGAAAATTGAGGG
* * * *
10880672 TTTAACTAAAAAATTTCAA-ATAATTGAGGGG
1 CTTAA-TAAGAATTTTCAAGAAAATTGA-GGG
10880703 CTTAATAAGAATTTTCA
1 CTTAATAAGAATTTTCA
10880720 TAAATTTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 21 0.54
31 18 0.46
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (30 bp):
CTTAATAAGAATTTTCAAGAAAATTGAGGG
Found at i:10890248 original size:6 final size:7
Alignment explanation
Indices: 10890233--10890262 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10890223 CATACTCCCA
10890233 TTTTATT
1 TTTTATT
10890240 TTTTATT
1 TTTTATT
10890247 TTTTA-T
1 TTTTATT
10890253 TTTTATT
1 TTTTATT
10890260 TTT
1 TTT
10890263 GGGTTCCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTATT
Found at i:10890255 original size:13 final size:14
Alignment explanation
Indices: 10890233--10890262 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
10890223 CATACTCCCA
10890233 TTTTATTTTTTATT
1 TTTTATTTTTTATT
10890247 TTTTA-TTTTTATT
1 TTTTATTTTTTATT
10890260 TTT
1 TTT
10890263 GGGTTCCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTATTTTTTATT
Found at i:10899972 original size:100 final size:100
Alignment explanation
Indices: 10899719--10900006 Score: 366
Period size: 100 Copynumber: 2.9 Consensus size: 100
10899709 AACAAATCAC
* *
10899719 AAATCACAATACACATTAAACT-AA-ACAAATAATTTATAACCTAATCATAAATTACTAACAAAA
1 AAATCACAATAAACACTAAACTAAACACAAATAATTTATAACCTAATCATAAATTACTAACAAAA
* ** * *
10899782 TAA-ATTAAAAAACACAAAAAAATTTACATTTATAAC
66 TAACATTAAAATA-ATTAAAAAA-TTACATTAATAAA
* * *
10899818 AAGTCACAATAAACACTAAACTAAACATAAATAATTTATAACCTAATCATAAATTACTAAAAAAA
1 AAATCACAATAAACACTAAACTAAACACAAATAATTTATAACCTAATCATAAATTACTAACAAAA
* *
10899883 TAACTTTAAAATAATTAAAAAATTATATTAATAAA
66 TAACATTAAAATAATTAAAAAATTACATTAATAAA
* * * *
10899918 AAATCACAATAAACACTGAACTAAACACAAACAATTTATAATCTAACCATAAATTACTAACAAAA
1 AAATCACAATAAACACTAAACTAAACACAAATAATTTATAACCTAATCATAAATTACTAACAAAA
* *
10899983 TGACATTAAAATGATTTAAAAAAT
66 TAACATTAAAAT-AATTAAAAAAT
10900007 ACAAAAAATT
Statistics
Matches: 163, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
99 19 0.12
100 80 0.49
101 57 0.35
102 7 0.04
ACGTcount: A:0.58, C:0.14, G:0.01, T:0.27
Consensus pattern (100 bp):
AAATCACAATAAACACTAAACTAAACACAAATAATTTATAACCTAATCATAAATTACTAACAAAA
TAACATTAAAATAATTAAAAAATTACATTAATAAA
Found at i:10900124 original size:34 final size:34
Alignment explanation
Indices: 10900081--10900147 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
10900071 TTAATAACAT
10900081 AAAAAATAACAAATCCCTTTAAATTAAAAAAATA
1 AAAAAATAACAAATCCCTTTAAATTAAAAAAATA
*
10900115 AAAAAATAACTAATCCCTTTAAATTAAAAAAAT
1 AAAAAATAACAAATCCCTTTAAATTAAAAAAAT
10900148 TTAATTGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.25
Consensus pattern (34 bp):
AAAAAATAACAAATCCCTTTAAATTAAAAAAATA
Found at i:10900550 original size:19 final size:20
Alignment explanation
Indices: 10900513--10900553 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
10900503 TGGCACTACT
10900513 AATAAAATAATATTTAAAAA
1 AATAAAATAATATTTAAAAA
10900533 AATAAAA-AAT-TATTAAAAA
1 AATAAAATAATAT-TTAAAAA
10900552 AA
1 AA
10900554 ACTCCTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.05
19 12 0.60
20 7 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AATAAAATAATATTTAAAAA
Found at i:10900554 original size:20 final size:20
Alignment explanation
Indices: 10900513--10900554 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10900503 TGGCACTACT
*
10900513 AATAAAATAATATTTAAAAA
1 AATAAAATAATATTAAAAAA
10900533 AATAAAA-AATTATTAAAAAA
1 AATAAAATAA-TATTAAAAAA
10900553 AA
1 AA
10900555 CTCCTAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
AATAAAATAATATTAAAAAA
Found at i:10900797 original size:22 final size:20
Alignment explanation
Indices: 10900756--10900800 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
10900746 ATTTATTTTT
*
10900756 TTATAAAAATATATACAAAA
1 TTATAAAAATATATAAAAAA
10900776 TTATAAAAATATTTATAAAAAA
1 TTATAAAAATA--TATAAAAAA
10900798 TTA
1 TTA
10900801 ATATCTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
22 11 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TTATAAAAATATATAAAAAA
Found at i:10900837 original size:19 final size:20
Alignment explanation
Indices: 10900821--10900876 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
10900811 TCTTATTTTC
10900821 TAAAATAA-AATTTATTTAT
1 TAAAATAATAATTTATTTAT
* *
10900840 TAAAATAATAATTTCA-TAAA
1 TAAAATAATAATTT-ATTTAT
10900860 TAAAATAATAATCTTAT
1 TAAAATAATAAT-TTAT
10900877 AAATAAAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 8 0.26
20 20 0.65
21 3 0.10
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATAATAATTTATTTAT
Found at i:10900863 original size:20 final size:20
Alignment explanation
Indices: 10900840--10900883 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
10900830 ATTTATTTAT
10900840 TAAAATAATAAT-TTCATAAA
1 TAAAATAATAATCTT-ATAAA
10900860 TAAAATAATAATCTTATAAA
1 TAAAATAATAATCTTATAAA
10900880 TAAA
1 TAAA
10900884 GCAATTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:10906753 original size:44 final size:46
Alignment explanation
Indices: 10906668--10906756 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
10906658 AGTTGTAATG
10906668 GAATAGAGCTGTAATCAGTAATTCAATTATTTGGTTGAATAGAATT
1 GAATAGAGCTGTAATCAGTAATTCAATTATTTGGTTGAATAGAATT
* *
10906714 GAATAGAGCTGTAAT-AG-CATTC-TTGTATTTGGTTGAATAGAAT
1 GAATAGAGCTGTAATCAGTAATTCAAT-TATTTGGTTGAATAGAAT
10906757 AGACATTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 1 0.03
44 22 0.55
45 2 0.05
46 15 0.38
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (46 bp):
GAATAGAGCTGTAATCAGTAATTCAATTATTTGGTTGAATAGAATT
Found at i:10906920 original size:61 final size:58
Alignment explanation
Indices: 10906855--10906989 Score: 148
Period size: 61 Copynumber: 2.3 Consensus size: 58
10906845 TTTTAATAAG
* *
10906855 ATTATTATTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATATATTTTAA-AAAAAT---AATAAATAATTTAATAACATTCTTAACATA
* * * * * *
10906916 ATTATTATTAAATACAATTTAACAAAATGATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATATTTTAAAAAAATAATAAATAATTTAATAACATTCTTAACATA
10906974 ATTATTATTAAA-ATAT
1 ATTATTATTAAATATAT
10906990 GAATTAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
57 19 0.30
58 19 0.30
60 5 0.08
61 20 0.32
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAATATATTTTAAAAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:10923576 original size:25 final size:25
Alignment explanation
Indices: 10923542--10923590 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10923532 ATGGGGGTAG
*
10923542 GACATGATATGATATGATATGTTAC
1 GACATGATATGATATGATAAGTTAC
*
10923567 GACATGATATGATCTGATAAGTTA
1 GACATGATATGATATGATAAGTTA
10923591 TATTTCGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (25 bp):
GACATGATATGATATGATAAGTTAC
Found at i:10938598 original size:88 final size:88
Alignment explanation
Indices: 10938477--10939179 Score: 435
Period size: 88 Copynumber: 7.8 Consensus size: 88
10938467 AAAATGGCAA
* ** * * *
10938477 ATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTAAAGCCAATAATCCTATCTCTCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAATAATCTTATCTCCCTGAAGTTGC
*
10938542 AGTGGAGCGGATTAAAGTTACAG
66 AGTGGAGCAGATTAAAGTTACAG
* * * *
10938565 ATCTTATCTCACTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAATAATCTTATCTCCCTGAAGTTGC
* * *
10938630 AGTGGAGCGGATTAAAGATAGAG
66 AGTGGAGCAGATTAAAGTTACAG
* * * * * * *
10938653 AGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGATAGCA-AATCTTATTTCCCTAAAGT
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACA--ATAATCTTATCTCCCTGAAGT
* *
10938717 TGCAGTGGAACAAATTAAAGCTATAAATCACAG
63 TGCAGTGGAGCAGATTAAAG---T---T-ACAG
* * * * * **
10938750 ATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCATGGTA-AAT--T-TTATCTCCCTGAAGTTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-ACAATAATCTTATCTCCCTGAAGTTG
* ** *
10938811 CAGTGGAGTAGATTAAAGTCGCAA
65 CAGTGGAGCAGATTAAAGTTACAG
* * * * ** * *
10938835 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCTTGAAGTTGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAATAATCTTATCTCCCTGAAGTTGC
* *
10938900 AGTGGAGCAGATTGAAGCTACTA-
66 AGTGGAGCAGATTAAAGTTAC-AG
* * * * * * **
10938923 ATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAA-ACAACGAATCCTATACT-TTTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAA-TAATCTTAT-CTCCCTGAAGTT
* * **
10938986 GCAATAGG-TC-GAATTAAACCTACCATAG
64 GCAGT-GGAGCAG-ATTAAAGTTA-C--AG
* *
10939014 AAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TATCAAGTCTTATCTCCCTGAA
1 -A--TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAAT-AA-TCTTATCTCCCTGAA
* *
10939078 GTTGCAGTGGAGCAAACTAAAGATAATA-AG
61 GTTGCAGTGGAGCAGATTAAAG-T--TACAG
* * * * * * *
10939108 -TCTTATCTCCCTAAAGTTGTAGTGGAGCAAACTAAAGATAGTTAATCTCAT-TCCTCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACA-ATAATCTTATCTCC-CTGAAGTT
*
10939171 GCAGAGGAG
64 GCAGTGGAG
10939180 TGGGTTGAAG
Statistics
Matches: 476, Mismatches: 100, Indels: 76
0.73 0.15 0.12
Matches are distributed among these distances:
84 1 0.00
85 31 0.07
87 4 0.01
88 170 0.36
89 43 0.09
90 90 0.19
91 3 0.01
92 32 0.07
93 1 0.00
94 41 0.09
95 23 0.05
96 30 0.06
97 5 0.01
98 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAATAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATTAAAGTTACAG
Found at i:10938681 original size:45 final size:44
Alignment explanation
Indices: 10938476--10939147 Score: 385
Period size: 44 Copynumber: 15.0 Consensus size: 44
10938466 GAAAATGGCA
** ** *
10938476 AATCTTATCTCCCTAAAGTTGCAGTGGAATAGATTAAAGCCAAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAAG
* * * * *
10938520 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATA-AG
* * ** *
10938565 -ATCTTATCTCACTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAAG
* *
10938608 AATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAGATAGAG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATA-AG
* * * *
10938653 AGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGAT-AG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAAG
* * * *
10938696 CAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAGCTATAAATCAC
1 --AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG--AT--A--AG
* * * * * *
10938748 AGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGA-TCATGGT-A-
1 A-ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAAG
* * * *
10938790 AATTTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAG-T-CG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAAG
* * * * **
10938832 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACC
1 --AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAAG
* * * * * **
10938878 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTACT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAAG
* * * * * *
10938922 AATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAA-ACAACG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAA-G
* ** * * * * *
10938966 AATCCTATACT-TTTGAAGTTGCAATAGG-TC-GAATTAAACCTACCATAG
1 AATCTTAT-CTCCCTAAAGTTGCAGT-GGAGCAG-ATTAAA--GA-TA-AG
* * **
10939014 AAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATC
1 AA--TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAAG
* * * *
10939060 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAAT
1 AA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAAG
* * *
10939105 AAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAAACTAAAGATA
1 AA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATA
10939148 GTTAATCTCA
Statistics
Matches: 497, Mismatches: 98, Indels: 65
0.75 0.15 0.10
Matches are distributed among these distances:
41 29 0.06
42 4 0.01
43 6 0.01
44 233 0.47
45 152 0.31
46 3 0.01
47 4 0.01
48 7 0.01
49 5 0.01
50 26 0.05
51 27 0.05
52 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAAG
Found at i:10939170 original size:45 final size:45
Alignment explanation
Indices: 10939017--10939179 Score: 213
Period size: 45 Copynumber: 3.6 Consensus size: 45
10939007 ACCATAGAAG
* * * *
10939017 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATATTAA
*
10939062 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATAATAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATATTAA
* *
10939107 GTCTTATCTCCCTAAAGTTGTAGTGGAGCAAACTAAAGATAGTTAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATA-TTAA
* *
10939153 -TCTCAT-TCCTCTGAAGTTGCAGAGGAG
1 GTCTTATCTCC-CTGAAGTTGCAGTGGAG
10939180 TGGGTTGAAG
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 3 0.03
45 98 0.94
46 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAAGATATTAA
Found at i:10949362 original size:34 final size:34
Alignment explanation
Indices: 10949323--10949389 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
10949313 AATGTAGATG
* *
10949323 AAAAAACAATGATATTTGAAATATTTTACTTATA
1 AAAAAACAATGATATTTGAAATAATTAACTTATA
* *
10949357 AAAAAATAATTATATTTGAAATAATTAACTTAT
1 AAAAAACAATGATATTTGAAATAATTAACTTAT
10949390 TTTATAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (34 bp):
AAAAAACAATGATATTTGAAATAATTAACTTATA
Found at i:10964511 original size:18 final size:20
Alignment explanation
Indices: 10964470--10964511 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
10964460 AACTTCAACC
10964470 ATATGCTTGTAAAAAAAAAT
1 ATATGCTTGTAAAAAAAAAT
10964490 ATATGCTTGTAAAAAAAAAT
1 ATATGCTTGTAAAAAAAAAT
10964510 AT
1 AT
10964512 TCAAGCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (20 bp):
ATATGCTTGTAAAAAAAAAT
Found at i:10972408 original size:12 final size:11
Alignment explanation
Indices: 10972380--10972409 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
10972370 TTTAATTTTT
10972380 TATTTTTAAAA
1 TATTTTTAAAA
10972391 TATTTTTAAAA
1 TATTTTTAAAA
10972402 TACTTTTT
1 TA-TTTTT
10972410 TTAATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:10975575 original size:39 final size:39
Alignment explanation
Indices: 10975456--10975575 Score: 91
Period size: 42 Copynumber: 2.9 Consensus size: 39
10975446 AAAAATATCC
* * * *
10975456 AATTTTAGATTAGACAATGTCATTAACAATAA-AAATATAA
1 AATTTTAGATTA-AAAATATTATTAACAATAAGATAT-TAA
* * * *
10975496 AATAGTTTATATTAAATAAATATTA-CAAAAAAAAGAATATTAA
1 AAT--TTTAGATT-AA-AAATATTATTAACAATAAG-ATATTAA
10975539 AATTTTAGATTAAAAATATTATTAACAATAAGATATT
1 AATTTTAGATTAAAAATATTATTAACAATAAGATATT
10975576 TATAATAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
39 13 0.21
40 12 0.20
41 7 0.11
42 14 0.23
43 12 0.20
44 3 0.05
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (39 bp):
AATTTTAGATTAAAAATATTATTAACAATAAGATATTAA
Found at i:10986144 original size:9 final size:9
Alignment explanation
Indices: 10986130--10986214 Score: 98
Period size: 9 Copynumber: 9.4 Consensus size: 9
10986120 TTTGGTTAAA
*
10986130 AATTAATCG
1 AATTAACCG
10986139 AATTAACCG
1 AATTAACCG
*
10986148 AATTACCCG
1 AATTAACCG
10986157 AATTAACCG
1 AATTAACCG
* *
10986166 AATTACCCT
1 AATTAACCG
**
10986175 AATTAATTG
1 AATTAACCG
10986184 AATTAACCG
1 AATTAACCG
*
10986193 AATTACCCG
1 AATTAACCG
*
10986202 AATTACCCG
1 AATTAACCG
10986211 AATT
1 AATT
10986215 TAATCACTAC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 64 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:10986158 original size:18 final size:18
Alignment explanation
Indices: 10986137--10986214 Score: 111
Period size: 18 Copynumber: 4.3 Consensus size: 18
10986127 AAAAATTAAT
10986137 CGAATTAACCGAATTACC
1 CGAATTAACCGAATTACC
10986155 CGAATTAACCGAATTACC
1 CGAATTAACCGAATTACC
* ** *
10986173 CTAATTAATTGAATTAAC
1 CGAATTAACCGAATTACC
*
10986191 CGAATTACCCGAATTACC
1 CGAATTAACCGAATTACC
10986209 CGAATT
1 CGAATT
10986215 TAATCACTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.27
Consensus pattern (18 bp):
CGAATTAACCGAATTACC
Found at i:10986168 original size:27 final size:27
Alignment explanation
Indices: 10986130--10986214 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
10986120 TTTGGTTAAA
* *
10986130 AATTAATCGAATTAACCGAATTACCCG
1 AATTAACCGAATTACCCGAATTACCCG
* ***
10986157 AATTAACCGAATTACCCTAATTAATTG
1 AATTAACCGAATTACCCGAATTACCCG
10986184 AATTAACCGAATTACCCGAATTACCCG
1 AATTAACCGAATTACCCGAATTACCCG
10986211 AATT
1 AATT
10986215 TAATCACTAC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTAACCGAATTACCCGAATTACCCG
Found at i:10986316 original size:18 final size:19
Alignment explanation
Indices: 10986293--10986328 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10986283 AATTTTTATG
*
10986293 ATTGGG-TTGGGTTGGGTA
1 ATTGGGTTTGGATTGGGTA
10986311 ATTGGGTTTGGATTGGGT
1 ATTGGGTTTGGATTGGGT
10986329 TTAGGTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.11, C:0.00, G:0.47, T:0.42
Consensus pattern (19 bp):
ATTGGGTTTGGATTGGGTA
Found at i:10986684 original size:28 final size:28
Alignment explanation
Indices: 10986620--10986724 Score: 99
Period size: 28 Copynumber: 3.8 Consensus size: 28
10986610 GGAATTACTG
* *
10986620 TAAATGTGGAAG-TCTTCCAGGATGATCT
1 TAAATGTGGAAGTTCGT-CAGGACGATCT
*
10986648 T--ATGTGGAAGTTCGTCAGCACGATCT
1 TAAATGTGGAAGTTCGTCAGGACGATCT
* * * *
10986674 TAAATGTGGAACTCCGTTAGGTCGATCT
1 TAAATGTGGAAGTTCGTCAGGACGATCT
* *
10986702 TAAATGTGGAAGTCCGCCAGGAC
1 TAAATGTGGAAGTTCGTCAGGAC
10986725 TATTTTTGTG
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
26 19 0.31
27 3 0.05
28 40 0.65
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (28 bp):
TAAATGTGGAAGTTCGTCAGGACGATCT
Found at i:10994714 original size:18 final size:18
Alignment explanation
Indices: 10994691--10994725 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10994681 ACTAGGACCT
* *
10994691 CTTCCTCTTCCACAACAA
1 CTTCCTCCTCAACAACAA
10994709 CTTCCTCCTCAACAACA
1 CTTCCTCCTCAACAACA
10994726 GGTGCTTCTT
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:0.46, G:0.00, T:0.26
Consensus pattern (18 bp):
CTTCCTCCTCAACAACAA
Found at i:10995260 original size:162 final size:161
Alignment explanation
Indices: 10994991--10995312 Score: 430
Period size: 162 Copynumber: 2.0 Consensus size: 161
10994981 TTGTTATAGG
** * * * *
10994991 CCTTGGTATAAGTGTACAAAAAATTTTGTGATCTATCCATATCCTCTATTGTAGCGACAAGCCTG
1 CCTTGGTATAAACGTACAAAAAATTTTGTAATATACCCATATCCTCTATTGTAGAGACAAGCCTG
** *
10995056 ATCATCTTATTGTTGATGGAATTGACCAACTTCTTGATATCCTTCATTTTGCGCAACAACGACAT
66 ATCATCTTATTGTTGATGGAATTGACCAACTTCTCAATATCCTTCATCTTGC-CAACAACGACAT
* *
10995121 TTCTGCAGTCAGGTTCGTTCCCTTGGTCTCTA
130 TTCTACAGTCAGGTTCGTTCCCTCGGTCTCTA
* * * * * *
10995153 CCTTGGTATAAACGTAGAACAAATTTTGTAATATGCCCATATCCTCTATTTTAGAGATAAGCTTG
1 CCTTGGTATAAACGTACAAAAAATTTTGTAATATACCCATATCCTCTATTGTAGAGACAAGCCTG
* * **
10995218 ATC-TGTTTATTGTTGATGGAATTGGCCAACTTCTCAATATCCTTCATCTTGCCAACAACGATGT
66 ATCAT-CTTATTGTTGATGGAATTGACCAACTTCTCAATATCCTTCATCTTGCCAACAACGACAT
10995282 TTCTACAGTCAGGTTCGTTCCCTCGGTCTCT
130 TTCTACAGTCAGGTTCGTTCCCTCGGTCTCT
10995313 GCCTCATTCA
Statistics
Matches: 138, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
161 40 0.29
162 98 0.71
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (161 bp):
CCTTGGTATAAACGTACAAAAAATTTTGTAATATACCCATATCCTCTATTGTAGAGACAAGCCTG
ATCATCTTATTGTTGATGGAATTGACCAACTTCTCAATATCCTTCATCTTGCCAACAACGACATT
TCTACAGTCAGGTTCGTTCCCTCGGTCTCTA
Found at i:11001225 original size:28 final size:28
Alignment explanation
Indices: 11001194--11001250 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11001184 TGTGGTAGTC
11001194 ACTGCAAATCTCATAACAAAAGGCCAGA
1 ACTGCAAATCTCATAACAAAAGGCCAGA
*
11001222 ACTGCAAATCTCATAACAAAAGGTCAGA
1 ACTGCAAATCTCATAACAAAAGGCCAGA
11001250 A
1 A
11001251 TATCAACTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.23, G:0.14, T:0.16
Consensus pattern (28 bp):
ACTGCAAATCTCATAACAAAAGGCCAGA
Found at i:11003707 original size:30 final size:30
Alignment explanation
Indices: 11003639--11003709 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
11003629 TTTTGCTATC
*
11003639 AATTAGGAAAAGGGACGGTGATGACCATCA
1 AATTATGAAAAGGGACGGTGATGACCATCA
** * **
11003669 AACAATGAAAAGGGATGGTGATGACCATTT
1 AATTATGAAAAGGGACGGTGATGACCATCA
11003699 AATTATGAAAA
1 AATTATGAAAA
11003710 AGGGTAGCTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.44, C:0.10, G:0.25, T:0.21
Consensus pattern (30 bp):
AATTATGAAAAGGGACGGTGATGACCATCA
Found at i:11003786 original size:119 final size:119
Alignment explanation
Indices: 11003554--11003773 Score: 289
Period size: 119 Copynumber: 1.8 Consensus size: 119
11003544 GCTATCGATT
* * * * *
11003554 ATGAAAAGGGATGGTGACGACCATTGAATTATGAAAAGGGATGGCTTCGGCTATCGATCTGTGAA
1 ATGAAAAGGGATGGTGACGACCATTGAATTATGAAAAGGGATAGCTTCGACTATCAAACTATGAA
* ** * *
11003619 AAGGGATAAATTTTGCTATCAATTAGGAAAAGGGACGGTGATGACCATCAAACA
66 AAGGGATAAATTTGGCTATCAATTACAAAAAGAGACGGTGATAACCATCAAACA
* *
11003673 ATGAAAAGGGATGGTGATGACCATTTAATTATGAAAAAGGG-TAGCTTCGACTATCAAACTATGA
1 ATGAAAAGGGATGGTGACGACCATTGAATTATG-AAAAGGGATAGCTTCGACTATCAAACTATGA
* *
11003737 AAAGGGATAACTTTGGTTATCGAATTACAAAAAGAGA
65 AAAGGGATAAATTTGGCTATC-AATTACAAAAAGAGA
11003774 TGTGTCAACC
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
119 67 0.78
120 19 0.22
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (119 bp):
ATGAAAAGGGATGGTGACGACCATTGAATTATGAAAAGGGATAGCTTCGACTATCAAACTATGAA
AAGGGATAAATTTGGCTATCAATTACAAAAAGAGACGGTGATAACCATCAAACA
Found at i:11009315 original size:42 final size:43
Alignment explanation
Indices: 11009260--11009345 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 43
11009250 TTCCAAAGTG
* *
11009260 TGATTTTGGGTAAGACCACGTCTGGGACA-TTAGCATCG-TATA
1 TGATTTCGGGTAAGACCACGTCTGAGACAGTT-GCATCGATATA
* **
11009302 TGATTTCGTGTAAGACCTTGTCTGAGACAGTTGCATCGATATA
1 TGATTTCGGGTAAGACCACGTCTGAGACAGTTGCATCGATATA
11009345 T
1 T
11009346 TATAACATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 30 0.81
43 7 0.19
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
TGATTTCGGGTAAGACCACGTCTGAGACAGTTGCATCGATATA
Found at i:11009998 original size:22 final size:22
Alignment explanation
Indices: 11009973--11010254 Score: 171
Period size: 22 Copynumber: 12.4 Consensus size: 22
11009963 GATGACAAGG
*
11009973 TGCTGTTCGAATGTTGTTTAAA
1 TGCTGTTCGAATGTTGGTTAAA
* *
11009995 TGCT-ATCAAAATGTTGGTTAAA
1 TGCTGTTC-GAATGTTGGTTAAA
* *
11010017 TGCTGTTC--ATTTTGTAGCATACTAA
1 TGCTGTTCGAATGTTG--G-TTA--AA
* *
11010042 TGTTGTTTGAATGTTGGTTAAA
1 TGCTGTTCGAATGTTGGTTAAA
*
11010064 TGTTGTTCGAATGTTGGTTAAA
1 TGCTGTTCGAATGTTGGTTAAA
* * **
11010086 TGCTGTTC-ATTTTTTAGCATACTAA
1 TGCTGTTCGA-ATGTT-GGTTA--AA
* *
11010111 TGCTG-TCTGAATTTTGTTTAAA
1 TGCTGTTC-GAATGTTGGTTAAA
* *
11010133 TGTTGTCCGAATGTTGGTTAAA
1 TGCTGTTCGAATGTTGGTTAAA
* * * * *
11010155 TGCTATT-TATTTTTGAGCATACTAA
1 TGCTGTTCGAATGTTG-G-TTA--AA
* **
11010180 TGTTGTTCGAATGTTTTTTAAA
1 TGCTGTTCGAATGTTGGTTAAA
11010202 TGCTGTTCGAATGTTGGTTAAA
1 TGCTGTTCGAATGTTGGTTAAA
11010224 TGCTGTTCGAATGTTGGTTAAA
1 TGCTGTTCGAATGTTGGTTAAA
11010246 TGCTGTTCG
1 TGCTGTTCG
11010255 TGTTTTAACA
Statistics
Matches: 198, Mismatches: 41, Indels: 42
0.70 0.15 0.15
Matches are distributed among these distances:
20 5 0.03
21 8 0.04
22 129 0.65
23 10 0.05
24 9 0.05
25 27 0.14
26 5 0.03
27 5 0.03
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (22 bp):
TGCTGTTCGAATGTTGGTTAAA
Found at i:11010087 original size:11 final size:11
Alignment explanation
Indices: 11010040--11010087 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
11010030 GTAGCATACT
* *
11010040 AATGTTGTTTG
1 AATGTTGGTTA
11010051 AATGTTGGTTA
1 AATGTTGGTTA
*
11010062 AATGTT-GTTCG
1 AATGTTGGTT-A
11010073 AATGTTGGTTA
1 AATGTTGGTTA
11010084 AATG
1 AATG
11010088 CTGTTCATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 3 0.10
11 25 0.81
12 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (11 bp):
AATGTTGGTTA
Found at i:11010092 original size:69 final size:68
Alignment explanation
Indices: 11009976--11010231 Score: 343
Period size: 69 Copynumber: 3.7 Consensus size: 68
11009966 GACAAGGTGC
* * * *
11009976 TGTTCGAATGTTGTTTAAATGCT-ATCAAAATGTTGGTTAAATGCTGTTCATTTTGTAGCATACT
1 TGTTTGAATGTTGTTTAAATGTTGTTC-GAATGTTGGTTAAATGCTGTTCATTTT-TAGCATACT
11010040 AATGT
64 AATGT
*
11010045 TGTTTGAATGTTGGTTAAATGTTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAGCATACTA
1 TGTTTGAATGTTGTTTAAATGTTGTTCGAATGTTGGTTAAATGCTGTTCA-TTTTTAGCATACTA
*
11010110 ATGC
65 ATGT
* * * * *
11010114 TGTCTGAATTTTGTTTAAATGTTGTCCGAATGTTGGTTAAATGCTATTTATTTTTGAGCATACTA
1 TGTTTGAATGTTGTTTAAATGTTGTTCGAATGTTGGTTAAATGCTGTTCATTTTT-AGCATACTA
11010179 ATGT
65 ATGT
* * *
11010183 TGTTCGAATGTTTTTTAAATGCTGTTCGAATGTTGGTTAAATGCTGTTC
1 TGTTTGAATGTTGTTTAAATGTTGTTCGAATGTTGGTTAAATGCTGTTC
11010232 GAATGTTGGT
Statistics
Matches: 163, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
68 5 0.03
69 152 0.93
70 6 0.04
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.46
Consensus pattern (68 bp):
TGTTTGAATGTTGTTTAAATGTTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTAGCATACTAA
TGT
Found at i:11010194 original size:11 final size:11
Alignment explanation
Indices: 11010178--11010239 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
11010168 TGAGCATACT
11010178 AATGTTGTTCG
1 AATGTTGTTCG
* **
11010189 AATGTTTTTTA
1 AATGTTGTTCG
*
11010200 AATGCTGTTCG
1 AATGTTGTTCG
*
11010211 AATGTTGGTT-A
1 AATGTT-GTTCG
*
11010222 AATGCTGTTCG
1 AATGTTGTTCG
11010233 AATGTTG
1 AATGTTG
11010240 GTTAAATGCT
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
10 3 0.08
11 31 0.84
12 3 0.08
ACGTcount: A:0.23, C:0.08, G:0.24, T:0.45
Consensus pattern (11 bp):
AATGTTGTTCG
Found at i:11010221 original size:138 final size:138
Alignment explanation
Indices: 11009973--11010231 Score: 387
Period size: 138 Copynumber: 1.9 Consensus size: 138
11009963 GATGACAAGG
*
11009973 TGCTGTTCGAATGTTGTTTAAATGCTATCAAAATGTTGGTTAAATGCTGTTCATTTTGTAGCATA
1 TGCTGTTCGAATGTTGTTTAAATGCTATCAAAATGTTGGTTAAATGCTATTCATTTTGTAGCATA
* *
11010038 CTAATGTTGTTTGAATGTTGGTTAAATGTTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAG
66 CTAATGTTGTTCGAATGTTGGTTAAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAG
11010103 CATACTAA
131 CATACTAA
* * * ** *
11010111 TGCTG-TCTGAATTTTGTTTAAATGTTGTCCGAATGTTGGTTAAATGCTATTTATTTT-TGAGCA
1 TGCTGTTC-GAATGTTGTTTAAATGCTATCAAAATGTTGGTTAAATGCTATTCATTTTGT-AGCA
**
11010174 TACTAATGTTGTTCGAATGTTTTTTAAATGCTGTTCGAATGTTGGTTAAATGCTGTTC
64 TACTAATGTTGTTCGAATGTTGGTTAAATGCTGTTCGAATGTTGGTTAAATGCTGTTC
11010232 GAATGTTGGT
Statistics
Matches: 108, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
137 3 0.03
138 105 0.97
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (138 bp):
TGCTGTTCGAATGTTGTTTAAATGCTATCAAAATGTTGGTTAAATGCTATTCATTTTGTAGCATA
CTAATGTTGTTCGAATGTTGGTTAAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAG
CATACTAA
Found at i:11010272 original size:91 final size:91
Alignment explanation
Indices: 11010109--11010276 Score: 223
Period size: 91 Copynumber: 1.8 Consensus size: 91
11010099 TTAGCATACT
* * * * *
11010109 AATGCTGTCTGAATTTTGTTTAAATGTTGTCCGAATGTTGGTTAAATGCTATTTATTTTTGAGCA
1 AATGCTGTCTGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAAATGCTATTCATTTTTGAACA
11010174 TACTAATGTTGTTCGAATGTTTTTTA
66 TACTAATGTTGTTCGAATGTTTTTTA
* * *
11010200 AATGCTGT-TCGAATGTTGGTTAAATGCTGTTCGAATGTTGGTTAAATGCTGTTCGTGTTTT-AA
1 AATGCTGTCT-GAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAAATGCTATTCAT-TTTTGAA
*
11010263 CATATTAATGTTGT
64 CATACTAATGTTGT
11010277 CCAAATCAGT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
90 1 0.02
91 61 0.92
92 4 0.06
ACGTcount: A:0.24, C:0.09, G:0.21, T:0.46
Consensus pattern (91 bp):
AATGCTGTCTGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAAATGCTATTCATTTTTGAACA
TACTAATGTTGTTCGAATGTTTTTTA
Found at i:11010273 original size:138 final size:136
Alignment explanation
Indices: 11009989--11010310 Score: 336
Period size: 138 Copynumber: 2.3 Consensus size: 136
11009979 TCGAATGTTG
* * * * *
11009989 TTTAAATGCTATCAAAATGTTGGTTAAATGCTGTTCA-TTTTGTAGCATACTAATGTTGTTTGAA
1 TTTAAATGTTGTCCAAATGTTGGTTAAATGCT-TTTATTTTTGTAGCATACTAATGTTGTTCGAA
* * *
11010053 TGTTGGTTAAATGTTGTTCGAATGTTGGTTAAATGCTGTTCATTTTTTAGCATACTAATGCTGTC
65 TGTTGGTTAAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATATGTTAGCATAC-AATGCTGTC
*
11010118 TGAATTTTG
129 TG-ATTTTA
*
11010127 TTTAAATGTTGTCCGAATGTTGGTTAAATGCTATTTATTTTTG-AGCATACTAATGTTGTTCGAA
1 TTTAAATGTTGTCCAAATGTTGGTTAAATGCT-TTTATTTTTGTAGCATACTAATGTTGTTCGAA
** **
11010191 TGTTTTTTAAATGCTGTTCGAATGTTGGTTAAATGCTGTTCGA-ATGTT-GGTTA-AATGCTGTT
65 TGTTGGTTAAATGCTGTTCGAATGTTGGTTAAATGCTGTTC-ATATGTTAGCATACAATGCTG-T
11010253 CGTG-TTTTAACA
128 C-TGATTTT---A
11010265 TATT-AATGTTGTCCAAATCAG-TGGTTAAATGCTTTTCATTTTTGTA
1 T-TTAAATGTTGTCCAAAT--GTTGGTTAAATGCTTTT-ATTTTTGTA
11010311 CAAATCAATG
Statistics
Matches: 156, Mismatches: 16, Indels: 22
0.80 0.08 0.11
Matches are distributed among these distances:
135 11 0.07
136 2 0.01
137 5 0.03
138 109 0.70
139 27 0.17
140 2 0.01
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.46
Consensus pattern (136 bp):
TTTAAATGTTGTCCAAATGTTGGTTAAATGCTTTTATTTTTGTAGCATACTAATGTTGTTCGAAT
GTTGGTTAAATGCTGTTCGAATGTTGGTTAAATGCTGTTCATATGTTAGCATACAATGCTGTCTG
ATTTTA
Found at i:11017830 original size:22 final size:22
Alignment explanation
Indices: 11017797--11017957 Score: 146
Period size: 22 Copynumber: 7.2 Consensus size: 22
11017787 GATGACAAGG
* *
11017797 TGTTGTCTGAATGTTGTTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
* *
11017819 TGTTGTTCGAATGTAGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
*
11017841 TGCTGTCCGAATGTTGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
* * * **
11017863 TGTTGTTC-ATTTTTTAGCATACTAA
1 TGTTGTCCGA-ATGTT-GGTTA--AA
*
11017888 TGTTGTCCGAATGTTGTTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
*
11017910 TGCTT-TCCAAATGTTGGTTAAA
1 TG-TTGTCCGAATGTTGGTTAAA
*
11017932 TGCTGTCCGAATGTTGGTTAAA
1 TGTTGTCCGAATGTTGGTTAAA
11017954 TGTT
1 TGTT
11017958 TTTTGTTTTT
Statistics
Matches: 109, Mismatches: 23, Indels: 14
0.75 0.16 0.10
Matches are distributed among these distances:
21 2 0.02
22 86 0.79
23 5 0.05
24 3 0.03
25 12 0.11
26 1 0.01
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (22 bp):
TGTTGTCCGAATGTTGGTTAAA
Found at i:11017903 original size:47 final size:47
Alignment explanation
Indices: 11017839--11018007 Score: 175
Period size: 47 Copynumber: 3.7 Consensus size: 47
11017829 ATGTAGGTTA
11017839 AATGCTGTCCGAATGTTGGTTAAATGTTGTTCATTTTTTAGCATACT
1 AATGCTGTCCGAATGTTGGTTAAATGTTGTTCATTTTTTAGCATACT
* * * ** * **
11017886 AATGTTGTCCGAATGTTGTTTAAATGCTT-TCCAAATGTT-GGTTA--
1 AATGCTGTCCGAATGTTGGTTAAATG-TTGTTCATTTTTTAGCATACT
* **
11017930 AATGCTGTCCGAATGTTGGTTAAATGTTTTTTGTTTTTTAGCATACT
1 AATGCTGTCCGAATGTTGGTTAAATGTTGTTCATTTTTTAGCATACT
* * *
11017977 AATGTTGTCCGAATGTTGTTTAAATGCTGTT
1 AATGCTGTCCGAATGTTGGTTAAATGTTGTT
11018008 TGAATGTTGG
Statistics
Matches: 95, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
43 2 0.02
44 28 0.29
45 3 0.03
46 3 0.03
47 57 0.60
48 2 0.02
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (47 bp):
AATGCTGTCCGAATGTTGGTTAAATGTTGTTCATTTTTTAGCATACT
Found at i:11017952 original size:91 final size:90
Alignment explanation
Indices: 11017797--11018026 Score: 361
Period size: 91 Copynumber: 2.5 Consensus size: 90
11017787 GATGACAAGG
* * *
11017797 TGTTGTCTGAATGTTGTTTAAATGTTGTTCGAATGTAGGTTAAATGCTGTCCGAATGTTGGTTAA
1 TGTTGTCCGAATGTTGTTTAAATGCT-TTCGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAA
11017862 ATGTTGTTCATTTTTTAGCATACTAA
65 ATGTTGTTCATTTTTTAGCATACTAA
*
11017888 TGTTGTCCGAATGTTGTTTAAATGCTTTCCAAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAA
1 TGTTGTCCGAATGTTGTTTAAATGCTTT-CGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAA
* **
11017953 ATGTTTTTTGTTTTTTAGCATACTAA
65 ATGTTGTTCATTTTTTAGCATACTAA
*
11017979 TGTTGTCCGAATGTTGTTTAAATGCTGTTTGAATGTTGGTTAAATGCT
1 TGTTGTCCGAATGTTGTTTAAATGCT-TTCGAATGTTGGTTAAATGCT
11018027 ATTCGTTTTT
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
90 2 0.02
91 124 0.97
92 2 0.02
ACGTcount: A:0.23, C:0.10, G:0.22, T:0.46
Consensus pattern (90 bp):
TGTTGTCCGAATGTTGTTTAAATGCTTTCGAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAAA
TGTTGTTCATTTTTTAGCATACTAA
Found at i:11017992 original size:69 final size:69
Alignment explanation
Indices: 11017915--11018075 Score: 214
Period size: 69 Copynumber: 2.3 Consensus size: 69
11017905 TTAAATGCTT
* * * *
11017915 TCCAAATGTTGGTTAAATGCTGTCCGAATGTTGGTTAAATGTTTTTTGTTTTTTAGCATACTAAT
1 TCCAAATGTTGCTTAAATGCTGTCCGAATGTTGGTTAAATGCTATTCGTTTTTTAGCATACTAAT
11017980 GTTG
66 GTTG
* * ** **
11017984 TCCGAATGTTGTTTAAATGCTGTTTGAATGTTGGTTAAATGCTATTCGTTTTTTAGCATTTTAAT
1 TCCAAATGTTGCTTAAATGCTGTCCGAATGTTGGTTAAATGCTATTCGTTTTTTAGCATACTAAT
11018049 GTTG
66 GTTG
*
11018053 TCCAAATTGGTGCTTAAATGCTG
1 TCCAAA-TGTTGCTTAAATGCTG
11018076 ATCATTTTTG
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
69 65 0.82
70 14 0.18
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (69 bp):
TCCAAATGTTGCTTAAATGCTGTCCGAATGTTGGTTAAATGCTATTCGTTTTTTAGCATACTAAT
GTTG
Found at i:11019605 original size:52 final size:52
Alignment explanation
Indices: 11019527--11019630 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
11019517 AATACGGGTT
*
11019527 CATTTCTCAAGATTCTCGATCGGAATGATAA-TCGAGCTAAAATGGAGATTAA
1 CATTTCTCAAGATTCTCGATCGGAATGATAACT-GAGCTAAAACGGAGATTAA
* *
11019579 CATTTCTCAAGATTCTCGATGGGAATGATAACTGAGCTAAACCGGAGATTAA
1 CATTTCTCAAGATTCTCGATCGGAATGATAACTGAGCTAAAACGGAGATTAA
11019631 TTGAGCATGA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 47 0.98
53 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (52 bp):
CATTTCTCAAGATTCTCGATCGGAATGATAACTGAGCTAAAACGGAGATTAA
Found at i:11024247 original size:13 final size:13
Alignment explanation
Indices: 11024215--11024253 Score: 64
Period size: 12 Copynumber: 3.2 Consensus size: 13
11024205 CCCAGGGCCC
11024215 AAACCAAATATTA
1 AAACCAAATATTA
11024228 AAA-CAAATATTA
1 AAACCAAATATTA
11024240 AAACCAAAT-TTA
1 AAACCAAATATTA
11024252 AA
1 AA
11024254 TAGTCTACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (13 bp):
AAACCAAATATTA
Found at i:11032311 original size:22 final size:22
Alignment explanation
Indices: 11032268--11032311 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11032258 TGGTGCACAG
*
11032268 TGTCCATTCACTTTTTTATTTT
1 TGTCCATTCACTTTTATATTTT
*
11032290 TGTCCATTCTA-TTTTATGTTTT
1 TGTCCATTC-ACTTTTATATTTT
11032312 AAACAATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.14, C:0.16, G:0.07, T:0.64
Consensus pattern (22 bp):
TGTCCATTCACTTTTATATTTT
Found at i:11043054 original size:18 final size:18
Alignment explanation
Indices: 11043020--11043054 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11043010 AAAATTTTGG
11043020 TGAAAGCAAAGACAAAAA
1 TGAAAGCAAAGACAAAAA
*
11043038 TGAAA-CAATGACAAAAA
1 TGAAAGCAAAGACAAAAA
11043055 GAATTTAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.66, C:0.11, G:0.14, T:0.09
Consensus pattern (18 bp):
TGAAAGCAAAGACAAAAA
Found at i:11043958 original size:20 final size:20
Alignment explanation
Indices: 11043910--11043988 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
11043900 GACTCATTTG
*
11043910 AAAATCATTTTGA-TGTG-TT
1 AAAATCATTTTAACT-TGATT
*
11043929 AAAATGATTTTAACTTGATT
1 AAAATCATTTTAACTTGATT
* * *
11043949 GAAATCATTTTGACTTGGTT
1 AAAATCATTTTAACTTGATT
*
11043969 AAAATCATTTTCACTTGATT
1 AAAATCATTTTAACTTGATT
11043989 TTAAAATTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 13 0.27
20 36 0.73
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.46
Consensus pattern (20 bp):
AAAATCATTTTAACTTGATT
Found at i:11043970 original size:40 final size:39
Alignment explanation
Indices: 11043911--11043988 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
11043901 ACTCATTTGA
*
11043911 AAATCATTTTGATGTGTTAAAATGATTTTAACTTGATTG
1 AAATCATTTTGATGTGTTAAAATCATTTTAACTTGATTG
*
11043950 AAATCATTTTGACT-TGGTTAAAATCATTTTCACTTGATT
1 AAATCATTTTGA-TGT-GTTAAAATCATTTTAACTTGATT
11043989 TTAAAATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 13 0.37
40 22 0.63
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (39 bp):
AAATCATTTTGATGTGTTAAAATCATTTTAACTTGATTG
Found at i:11049962 original size:20 final size:20
Alignment explanation
Indices: 11049937--11049975 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
11049927 AAACTATAAT
11049937 ATTATTTTTATTTAATAAAG
1 ATTATTTTTATTTAATAAAG
11049957 ATTATTTTTATTTAATAAA
1 ATTATTTTTATTTAATAAA
11049976 ATATTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTATTTTTATTTAATAAAG
Found at i:11052266 original size:20 final size:20
Alignment explanation
Indices: 11052233--11052282 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
11052223 GTAGGTTCCA
* * *
11052233 GTATCAATACATTTCTTAAG
1 GTATCGATATATTTCCTAAG
11052253 GTATCGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
*
11052273 GTATTGATAT
1 GTATCGATAT
11052283 TCCTGCTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (20 bp):
GTATCGATATATTTCCTAAG
Found at i:11054285 original size:53 final size:53
Alignment explanation
Indices: 11054205--11054311 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
11054195 TGGAATTTGA
* *
11054205 AGTCATGATGTCAAAACATAATAAAAATGTTTCAAAATTGAGAGATAAAAATG
1 AGTCATGATGTCAAAACACAAGAAAAATGTTTCAAAATTGAGAGATAAAAATG
*
11054258 AGTCATGATGTCAAAACACAAGAAAAATGTTTCAAAATTGAGAGATAACAATG
1 AGTCATGATGTCAAAACACAAGAAAAATGTTTCAAAATTGAGAGATAAAAATG
11054311 A
1 A
11054312 CTTACTTTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.24
Consensus pattern (53 bp):
AGTCATGATGTCAAAACACAAGAAAAATGTTTCAAAATTGAGAGATAAAAATG
Found at i:11054593 original size:13 final size:13
Alignment explanation
Indices: 11054575--11054602 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11054565 TTTTACAAGG
11054575 GAAAACTTGTTAA
1 GAAAACTTGTTAA
11054588 GAAAACTTGTTAA
1 GAAAACTTGTTAA
11054601 GA
1 GA
11054603 GTGTATGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (13 bp):
GAAAACTTGTTAA
Found at i:11062922 original size:29 final size:29
Alignment explanation
Indices: 11062880--11062938 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
11062870 AATCTCACAG
11062880 TAAGTTTCAAGATATAATTCCTATTTTGC
1 TAAGTTTCAAGATATAATTCCTATTTTGC
11062909 TAAGTTTCAAGATATAATTCCTATTTTGC
1 TAAGTTTCAAGATATAATTCCTATTTTGC
11062938 T
1 T
11062939 CCAATGGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.46
Consensus pattern (29 bp):
TAAGTTTCAAGATATAATTCCTATTTTGC
Found at i:11063928 original size:17 final size:16
Alignment explanation
Indices: 11063855--11063929 Score: 62
Period size: 17 Copynumber: 4.5 Consensus size: 16
11063845 CACCAGTATT
11063855 ATTTTTTATTTTTTAAA
1 ATTTTTTA-TTTTTAAA
*
11063872 ATATTTTTA-TTTTAAT
1 AT-TTTTTATTTTTAAA
** * *
11063888 ATTTAATAATTTTATAT
1 ATTTTTTATTTTTA-AA
11063905 ATTTTTTATTTATTAAA
1 ATTTTTTATTT-TTAAA
11063922 ATTTTTTA
1 ATTTTTTA
11063930 GTCATATTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
15 4 0.09
16 13 0.28
17 21 0.45
18 9 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTTATTTTTAAA
Found at i:11065162 original size:22 final size:22
Alignment explanation
Indices: 11065137--11065183 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
11065127 AATAGTGTTT
11065137 CTGGCTCCTTTCAAAAGTTAAC
1 CTGGCTCCTTTCAAAAGTTAAC
11065159 CTGGCTCCTTTCAAAAGTTAAC
1 CTGGCTCCTTTCAAAAGTTAAC
11065181 CTG
1 CTG
11065184 AGCTGGTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (22 bp):
CTGGCTCCTTTCAAAAGTTAAC
Found at i:11065547 original size:20 final size:22
Alignment explanation
Indices: 11065504--11065561 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
11065494 GGGTTAAGAG
11065504 TTTAG-AGTTTTTT-TATACTT
1 TTTAGAAGTTTTTTATATACTT
11065524 TTTA-AA-TTTTTTATATA-TT
1 TTTAGAAGTTTTTTATATACTT
*
11065543 ATTTAGAAGCTTTTTATAT
1 -TTTAGAAGTTTTTTATAT
11065562 TTTTTTGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 8 0.25
20 13 0.41
21 2 0.06
22 9 0.28
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (22 bp):
TTTAGAAGTTTTTTATATACTT
Found at i:11065668 original size:15 final size:15
Alignment explanation
Indices: 11065648--11065680 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
11065638 TCCAAAAGGA
11065648 TATTTACTA-CAATCG
1 TATTTAC-ACCAATCG
11065663 TATTTACACCAATCG
1 TATTTACACCAATCG
11065678 TAT
1 TAT
11065681 ATTCGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.06
15 16 0.94
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (15 bp):
TATTTACACCAATCG
Found at i:11068324 original size:26 final size:26
Alignment explanation
Indices: 11068289--11068339 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11068279 AATGTGAAAG
*
11068289 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
11068315 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
11068340 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:11068351 original size:103 final size:104
Alignment explanation
Indices: 11068211--11068433 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
11068201 TGTATATAAA
** * *
11068211 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
11068275 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
11068314 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
11068379 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
11068418 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
11068434 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:11068485 original size:71 final size:72
Alignment explanation
Indices: 11068352--11068503 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
11068342 TCATTGGTGG
* *
11068352 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
11068417 GAGGGGT
66 GAGGGGT
***
11068424 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
11068488 GAGGGGT
66 GAGGGGT
11068495 TGCTAAGTG
1 TGCTAAGTG
11068504 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:11075608 original size:104 final size:104
Alignment explanation
Indices: 11075427--11075651 Score: 371
Period size: 104 Copynumber: 2.2 Consensus size: 104
11075417 TTGTATATAA
** * *
11075427 AAGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCT
11075492 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
11075531 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATC
11075595 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
11075635 AAGGGGTTGCTAAGTGC
1 AAGGGGTTGCTAAGTGC
11075652 GATATCCATT
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
104 111 0.99
105 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCT
TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:11075703 original size:71 final size:72
Alignment explanation
Indices: 11075570--11075721 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
11075560 TCATTGGTGG
* *
11075570 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
11075635 AAGGGGT
66 AAGGGGT
***
11075642 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
11075706 GAGGGGT
66 AAGGGGT
11075713 TGCTAAGTG
1 TGCTAAGTG
11075722 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 44 0.59
72 30 0.41
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
AAGGGGT
Found at i:11081180 original size:20 final size:19
Alignment explanation
Indices: 11081157--11081198 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
11081147 TAAAGAAAGT
11081157 AAATGC-AATGGAAAGTAATG
1 AAATGCAAAT-GAAAGTAA-G
11081177 AAATGCAAATGAAAGTAAG
1 AAATGCAAATGAAAGTAAG
11081196 AAA
1 AAA
11081199 AATTGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.21, T:0.17
Consensus pattern (19 bp):
AAATGCAAATGAAAGTAAG
Found at i:11091254 original size:107 final size:107
Alignment explanation
Indices: 11091099--11091302 Score: 329
Period size: 107 Copynumber: 1.9 Consensus size: 107
11091089 ATCTTCACTT
* ** *
11091099 TTTTCATTAATTTATACTAATTTTTGATTGATATAATGGCTTTTAATGTTTATACATTCTAAAAT
1 TTTTCATTAATTTATACTAATTTTTGATTGATATAATGGATTCCAATGTTTATACAGTCTAAAAT
11091164 TTTGTATTAATTTTTAAAAAATTAATAAATTTGATGTCGACA
66 TTTGTATTAATTTTTAAAAAATTAATAAATTTGATGTCGACA
* *
11091206 TTTTCATTAATTTATACTACA-TTTTGATTGGTATAATGGATTCCAATGTTTATACAGTCTACAA
1 TTTTCATTAATTTATACTA-ATTTTTGATTGATATAATGGATTCCAATGTTTATACAGTCTAAAA
*
11091270 TTTTGTATTAATTTTTAAAAAGTTAATAAATTT
65 TTTTGTATTAATTTTTAAAAAATTAATAAATTT
11091303 AACCCTCAAC
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
107 88 0.99
108 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (107 bp):
TTTTCATTAATTTATACTAATTTTTGATTGATATAATGGATTCCAATGTTTATACAGTCTAAAAT
TTTGTATTAATTTTTAAAAAATTAATAAATTTGATGTCGACA
Found at i:11091327 original size:107 final size:107
Alignment explanation
Indices: 11091107--11091327 Score: 284
Period size: 107 Copynumber: 2.1 Consensus size: 107
11091097 TTTTTTCATT
* ** *
11091107 AATTTATACTAATTTTTGATTGATATAATGGCTTTTAATGTTTATACATTCTAAAATTTTGTATT
1 AATTTATACTAATTTTTGATTGATATAATGGATTCCAATGTTTATACAGTCTAAAATTTTGTATT
* ** * * *
11091172 AATTTTTAAAAAATTAATAAATTTGATGTCGACATTTTCATT
66 AATTTTTAAAAAATTAATAAATTTAACCTCAACATTTACATC
* *
11091214 AATTTATACTACA-TTTTGATTGGTATAATGGATTCCAATGTTTATACAGTCTACAATTTTGTAT
1 AATTTATACTA-ATTTTTGATTGATATAATGGATTCCAATGTTTATACAGTCTAAAATTTTGTAT
*
11091278 TAATTTTTAAAAAGTTAATAAATTTAACCCTCAACATTTACA-C
65 TAATTTTTAAAAAATTAATAAATTTAA-CCTCAACATTTACATC
*
11091321 ATTTTAT
1 AATTTAT
11091328 CAATTTGGTC
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
107 87 0.89
108 11 0.11
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.47
Consensus pattern (107 bp):
AATTTATACTAATTTTTGATTGATATAATGGATTCCAATGTTTATACAGTCTAAAATTTTGTATT
AATTTTTAAAAAATTAATAAATTTAACCTCAACATTTACATC
Found at i:11095320 original size:31 final size:31
Alignment explanation
Indices: 11095285--11095348 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
11095275 ATGTTGATAG
11095285 TGGAATATGATGGCTTGACATTATTGAAATT
1 TGGAATATGATGGCTTGACATTATTGAAATT
11095316 TGGAATATGATGGCTTGACATTATTGAAATT
1 TGGAATATGATGGCTTGACATTATTGAAATT
11095347 TG
1 TG
11095349 TAATGTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.39
Consensus pattern (31 bp):
TGGAATATGATGGCTTGACATTATTGAAATT
Found at i:11096826 original size:30 final size:30
Alignment explanation
Indices: 11096790--11096874 Score: 107
Period size: 33 Copynumber: 2.7 Consensus size: 30
11096780 TTATATGTTT
*
11096790 TATACATTGCCGAATTGATTTGTATGTAGA
1 TATACATTGCCGAATTGATTTGTATGGAGA
* *
11096820 TATACATTGCCGAATTTGATTCGTATATGGATA
1 TATACATTGCCGAA-TTGATT--TGTATGGAGA
*
11096853 TATATATTGCCGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
11096875 AGCATTGGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
30 15 0.32
31 6 0.13
32 6 0.13
33 20 0.43
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATGGAGA
Found at i:11097045 original size:43 final size:43
Alignment explanation
Indices: 11096992--11097182 Score: 256
Period size: 43 Copynumber: 4.4 Consensus size: 43
11096982 TCTGAGGTGT
* *
11096992 GATTTTGTGTAAGACCATAGCTGGGATATTGGCATCGATTTGA
1 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
* *
11097035 GATTTCGTGTAAGACCATAGCTGGGTTATTGGCATCGATTTAA
1 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
* * *
11097078 GATTTCGTGTGAGACCATAGCTGGGCTATTGACATTGATTTGA
1 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
* * * **
11097121 GATTTTGTGTAAGACTATAGTTGGGCTATTGGCATCGATACGA
1 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
*
11097164 GATTTCCATGTAAGACCAT
1 GATTT-CGTGTAAGACCAT
11097183 GTCTAGGACA
Statistics
Matches: 128, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 118 0.92
44 10 0.08
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
Found at i:11115872 original size:101 final size:102
Alignment explanation
Indices: 11115757--11115941 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 102
11115747 AAAATGATGG
* *
11115757 TCACGTGTGTAGTACTATGTGCA-GACTAATACGTGTACCGGAATGAT-A-GGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCATG-CTAATACGTGTACCAG-ATGATAATGGTCACATGTGTAG
11115819 TACTATGTGCAGGCTACTATGCGTACCAGATAGTTTGGA
64 TACTATGTGCAGGCTACTATGCGTACCAGATAGTTTGGA
* * *
11115858 TCACGTGTGTAGTACTATGTGCATGCTACTACGTGTATCAGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCATGCTAATACGTGTACCAGATGATAATGGTCACATGTGTAGTA
11115923 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
11115942 TGAACCGAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 4 0.05
101 37 0.49
102 35 0.46
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCATGCTAATACGTGTACCAGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAGATAGTTTGGA
Found at i:11115880 original size:51 final size:50
Alignment explanation
Indices: 11115754--11115939 Score: 212
Period size: 51 Copynumber: 3.7 Consensus size: 50
11115744 GTGAAAATGA
* * * * *
11115754 TGGTCACGTGTGTAGTACTATGTGCAGACTAATACGTGTACCGGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA-GTT
* * * *
11115804 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
11115854 TGGATCACGTGTGTAGTACTATGTGCATGCTACTACGTGTATCAGATGGTAA
1 TGG-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT-T
11115906 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
11115940 TGTGAACCGA
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 41 0.36
51 69 0.61
52 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:11121919 original size:17 final size:16
Alignment explanation
Indices: 11121888--11121921 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11121878 TAAAATAATT
*
11121888 ATAATAAAAAGAAAGA
1 ATAAAAAAAAGAAAGA
11121904 ATAAAAAAACAGAAAGA
1 ATAAAAAAA-AGAAAGA
11121921 A
1 A
11121922 GAAAGCCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (16 bp):
ATAAAAAAAAGAAAGA
Found at i:11122401 original size:7 final size:7
Alignment explanation
Indices: 11122389--11122414 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11122379 TAAAAATTGA
11122389 AATATTC
1 AATATTC
11122396 AATATTC
1 AATATTC
11122403 AATATTC
1 AATATTC
11122410 AATAT
1 AATAT
11122415 GAAATTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:11127708 original size:33 final size:32
Alignment explanation
Indices: 11127651--11127721 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
11127641 ATCTTAATTT
*
11127651 ATTTCAAATTAATCCTATTAAAATCTTAACTAGA
1 ATTT-AAATTAATCCTATTAAAATCCTAA-TAGA
* * *
11127685 ATTTAAATTACTCCTTTTCAAATCCTAATAGA
1 ATTTAAATTAATCCTATTAAAATCCTAATAGA
11127717 ATTTA
1 ATTTA
11127722 TCTTTCTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 9 0.27
33 20 0.61
34 4 0.12
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (32 bp):
ATTTAAATTAATCCTATTAAAATCCTAATAGA
Found at i:11127744 original size:13 final size:13
Alignment explanation
Indices: 11127728--11127752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11127718 TTTATCTTTC
11127728 TTATTTATAATTA
1 TTATTTATAATTA
11127741 TTATTTATAATT
1 TTATTTATAATT
11127753 CCCCATTTGT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATAATTA
Found at i:11128181 original size:29 final size:28
Alignment explanation
Indices: 11128112--11128195 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
11128102 TGTACCATCA
* *
11128112 TTTTACAGATTTTACAATTCTGCCACTG
1 TTTTCCAGATTTTACAATTTTGCCACTG
*
11128140 TTTTCCAGATTTTACATTTTTGCCACTGG
1 TTTTCCAGATTTTACAATTTTGCCACT-G
** * *
11128169 TTTTTTAGATTTTATAGTTTTGCCACT
1 TTTTCCAGATTTTACAATTTTGCCACT
11128196 CTTCTTTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 24 0.50
29 24 0.50
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (28 bp):
TTTTCCAGATTTTACAATTTTGCCACTG
Found at i:11130588 original size:559 final size:559
Alignment explanation
Indices: 11129531--11130648 Score: 2236
Period size: 559 Copynumber: 2.0 Consensus size: 559
11129521 AAACCAATGT
11129531 TTGTTTTGTCTGTTCCGTAATTTCTCGCCGCCATCCATTCAACAAAGTTGGATATATCTATTCAG
1 TTGTTTTGTCTGTTCCGTAATTTCTCGCCGCCATCCATTCAACAAAGTTGGATATATCTATTCAG
11129596 CACTAAATACAATATAGTTTACATATATATCATCCCAGCTATTACATTAACTTGAGTTACTGGAG
66 CACTAAATACAATATAGTTTACATATATATCATCCCAGCTATTACATTAACTTGAGTTACTGGAG
11129661 TCTATTCACGGTTCATTAGCCTGTTTCATGCTTTCATCATAGTTTTCTCTTTAGAAAATGCTTGT
131 TCTATTCACGGTTCATTAGCCTGTTTCATGCTTTCATCATAGTTTTCTCTTTAGAAAATGCTTGT
11129726 CTATCGACTAAGCTTATAAAATATTTTGCAGCAGAGGATGTAGTTGTTAGCAATGTGTAGGTCTT
196 CTATCGACTAAGCTTATAAAATATTTTGCAGCAGAGGATGTAGTTGTTAGCAATGTGTAGGTCTT
11129791 CACTCAACTGATGGGAAGTGAATACAATCGATGATGATGGTAATTTGTTGTGTTGGTTTGGTGAT
261 CACTCAACTGATGGGAAGTGAATACAATCGATGATGATGGTAATTTGTTGTGTTGGTTTGGTGAT
11129856 AATTTCTGTTTTATATATTAATCTAAAACTTAGTTGACAATCAATCAAACACCTTATCTGCCACT
326 AATTTCTGTTTTATATATTAATCTAAAACTTAGTTGACAATCAATCAAACACCTTATCTGCCACT
11129921 ATTCAAGTAAGATAATGCTCCGGGCTTTTGCTTTTACCTGCATTTTAGGAGTAGGAAAACAGGGG
391 ATTCAAGTAAGATAATGCTCCGGGCTTTTGCTTTTACCTGCATTTTAGGAGTAGGAAAACAGGGG
11129986 AAGTGTAATTGAGATTTTGGATTTGCATTTGCAGTATTTGTGACTCATTCACTGATTTAAATTGC
456 AAGTGTAATTGAGATTTTGGATTTGCATTTGCAGTATTTGTGACTCATTCACTGATTTAAATTGC
11130051 GATAAAATATATATATATTAGTCATCTTGTGTTTCCATC
521 GATAAAATATATATATATTAGTCATCTTGTGTTTCCATC
11130090 TTGTTTTGTCTGTTCCGTAATTTCTCGCCGCCATCCATTCAACAAAGTTGGATATATCTATTCAG
1 TTGTTTTGTCTGTTCCGTAATTTCTCGCCGCCATCCATTCAACAAAGTTGGATATATCTATTCAG
11130155 CACTAAATACAATATAGTTTACATATATATCATCCCAGCTATTACATTAACTTGAGTTACTGGAG
66 CACTAAATACAATATAGTTTACATATATATCATCCCAGCTATTACATTAACTTGAGTTACTGGAG
11130220 TCTATTCACGGTTCATTAGCCTGTTTCATGCTTTCATCATAGTTTTCTCTTTAGAAAATGCTTGT
131 TCTATTCACGGTTCATTAGCCTGTTTCATGCTTTCATCATAGTTTTCTCTTTAGAAAATGCTTGT
11130285 CTATCGACTAAGCTTATAAAATATTTTGCAGCAGAGGATGTAGTTGTTAGCAATGTGTAGGTCTT
196 CTATCGACTAAGCTTATAAAATATTTTGCAGCAGAGGATGTAGTTGTTAGCAATGTGTAGGTCTT
11130350 CACTCAACTGATGGGAAGTGAATACAATCGATGATGATGGTAATTTGTTGTGTTGGTTTGGTGAT
261 CACTCAACTGATGGGAAGTGAATACAATCGATGATGATGGTAATTTGTTGTGTTGGTTTGGTGAT
11130415 AATTTCTGTTTTATATATTAATCTAAAACTTAGTTGACAATCAATCAAACACCTTATCTGCCACT
326 AATTTCTGTTTTATATATTAATCTAAAACTTAGTTGACAATCAATCAAACACCTTATCTGCCACT
11130480 ATTCAAGTAAGATAATGCTCCGGGCTTTTGCTTTTACCTGCATTTTAGGAGTAGGAAAACAGGGG
391 ATTCAAGTAAGATAATGCTCCGGGCTTTTGCTTTTACCTGCATTTTAGGAGTAGGAAAACAGGGG
11130545 AAGTGTAATTGAGATTTTGGATTTGCATTTGCAGTATTTGTGACTCATTCACTGATTTAAATTGC
456 AAGTGTAATTGAGATTTTGGATTTGCATTTGCAGTATTTGTGACTCATTCACTGATTTAAATTGC
11130610 GATAAAATATATATATATTAGTCATCTTGTGTTTCCATC
521 GATAAAATATATATATATTAGTCATCTTGTGTTTCCATC
11130649 ATGATAAATA
Statistics
Matches: 559, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
559 559 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (559 bp):
TTGTTTTGTCTGTTCCGTAATTTCTCGCCGCCATCCATTCAACAAAGTTGGATATATCTATTCAG
CACTAAATACAATATAGTTTACATATATATCATCCCAGCTATTACATTAACTTGAGTTACTGGAG
TCTATTCACGGTTCATTAGCCTGTTTCATGCTTTCATCATAGTTTTCTCTTTAGAAAATGCTTGT
CTATCGACTAAGCTTATAAAATATTTTGCAGCAGAGGATGTAGTTGTTAGCAATGTGTAGGTCTT
CACTCAACTGATGGGAAGTGAATACAATCGATGATGATGGTAATTTGTTGTGTTGGTTTGGTGAT
AATTTCTGTTTTATATATTAATCTAAAACTTAGTTGACAATCAATCAAACACCTTATCTGCCACT
ATTCAAGTAAGATAATGCTCCGGGCTTTTGCTTTTACCTGCATTTTAGGAGTAGGAAAACAGGGG
AAGTGTAATTGAGATTTTGGATTTGCATTTGCAGTATTTGTGACTCATTCACTGATTTAAATTGC
GATAAAATATATATATATTAGTCATCTTGTGTTTCCATC
Found at i:11132591 original size:12 final size:12
Alignment explanation
Indices: 11132574--11132606 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
11132564 CCCTCTGCCA
11132574 CCACCAACTCAG
1 CCACCAACTCAG
11132586 CCACCAACTCAG
1 CCACCAACTCAG
*
11132598 CTACCAACT
1 CCACCAACT
11132607 TTGCCACCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.48, G:0.06, T:0.12
Consensus pattern (12 bp):
CCACCAACTCAG
Found at i:11133559 original size:3 final size:3
Alignment explanation
Indices: 11133551--11133660 Score: 96
Period size: 3 Copynumber: 36.7 Consensus size: 3
11133541 TATTTTTAAC
* * * *
11133551 ATT ATT ATT TTT AAT ATT TTT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** ** * * *
11133599 ATT ATT ATT ATT AGC ATCT -TT CCT ATT ATT ATT AAT ATT AAT GTT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
11133644 ATT ATT ATT ATC ATT AT
1 ATT ATT ATT ATT ATT AT
11133661 ATTTCTATTT
Statistics
Matches: 82, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
2 1 0.01
3 81 0.99
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:11134533 original size:109 final size:108
Alignment explanation
Indices: 11134353--11134658 Score: 409
Period size: 109 Copynumber: 2.8 Consensus size: 108
11134343 TTTCTAATTG
* * * * * *
11134353 AGGCAATATTTAGCGTTTGGAAATTCGAGAAAACGTACCTTAATCTGCTAGGTTTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTCT
* * * **
11134418 CATTCAACCAAATAACTAAGTATCCTTTTAAAAATTTCAAAATA
65 CGTTCAACCAAATAACCAAATATCCTTCCAAAAATTTCAAAATA
*
11134462 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTTTCGATTTATCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTT-TCT
*
11134527 CGTTCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATA
65 CGTTCAACCAAATAACCAAATATCCTTCCAAAAATTTCAAAATA
* * * *
11134571 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGCGCGGGGTTTCGA-TTTCTT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTC
* *
11134634 GTTTAACCAAATAGCCAAATATCCT
66 GTTCAACCAAATAACCAAATATCCT
11134659 CTTGAATTTG
Statistics
Matches: 177, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
106 27 0.15
107 2 0.01
108 27 0.15
109 121 0.68
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (108 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTC
GTTCAACCAAATAACCAAATATCCTTCCAAAAATTTCAAAATA
Found at i:11137350 original size:21 final size:21
Alignment explanation
Indices: 11137326--11137369 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11137316 GCGGACACAT
* *
11137326 GGGTGGGCACACGGGGGTGTG
1 GGGTAGGCACACGGGCGTGTG
*
11137347 GGGTAGTCACACGGGCGTGTG
1 GGGTAGGCACACGGGCGTGTG
11137368 GG
1 GG
11137370 ATAACCACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.11, C:0.16, G:0.57, T:0.16
Consensus pattern (21 bp):
GGGTAGGCACACGGGCGTGTG
Found at i:11137378 original size:21 final size:21
Alignment explanation
Indices: 11137333--11137378 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
11137323 CATGGGTGGG
* * **
11137333 CACACGGGGGTGTGGGGTAGT
1 CACACGGGCGTGTGGGATAAC
11137354 CACACGGGCGTGTGGGATAAC
1 CACACGGGCGTGTGGGATAAC
11137375 CACA
1 CACA
11137379 GGACCATGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.41, T:0.15
Consensus pattern (21 bp):
CACACGGGCGTGTGGGATAAC
Found at i:11148391 original size:22 final size:22
Alignment explanation
Indices: 11148326--11148381 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
11148316 AGAGATACGT
*
11148326 AGATATATATAATAAGATATAA
1 AGATATACATAATAAGATATAA
*
11148348 ATATATACATAATAAGATATAA
1 AGATATACATAATAAGATATAA
11148370 AGATATACATAA
1 AGATATACATAA
11148382 ATAGTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
AGATATACATAATAAGATATAA
Found at i:11149641 original size:18 final size:18
Alignment explanation
Indices: 11149618--11149654 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11149608 TTTGGGCTTC
11149618 GGTTTGGGTTGTAATTGG
1 GGTTTGGGTTGTAATTGG
*
11149636 GGTTTGGGTTGTATTTGG
1 GGTTTGGGTTGTAATTGG
11149654 G
1 G
11149655 TAGGCTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (18 bp):
GGTTTGGGTTGTAATTGG
Found at i:11150358 original size:207 final size:208
Alignment explanation
Indices: 11150068--11150461 Score: 657
Period size: 207 Copynumber: 1.9 Consensus size: 208
11150058 ACTTTAATCC
* * * * *
11150068 GCTCCATGCTTCAACCTATTCTGCTGCAACTTCAGGGAAATAAGATTTGACATGATAAGAATCGT
1 GCTCCATGCTTCAACCTATTCTGCTACAACTTCAAGGAAATAAGATTCGACATGATAAGAACCGC
11150133 TATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTTGTTGTTTTCAGTCTACTCCACT
66 TATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTTGTTGTTTTCAGTCTACTCCACT
11150198 GCATCTTC-AGGGAAATAAGACTTGTACCTTCAACCTACT-CACTGAAACTTCAGGGAAATAGGA
131 GCATCTTCAAGGG-AATAAGACTTGTACCTTCAACCTACTCCACTGAAACTTCAGGGAAATAGGA
11150261 TTCGTAGCCGATCT
195 TTCGTAGCCGATCT
11150275 GCTCCATGCTTCAACCTATTCTGCTACAACTTCAAGGAAATAAGATTCGACATGATAAGAACCGC
1 GCTCCATGCTTCAACCTATTCTGCTACAACTTCAAGGAAATAAGATTCGACATGATAAGAACCGC
* * * *
11150340 TATCTGCTGTCTGCTCCACTACAACTTTAGGGAGATACGACTTGTTGTTTTCTGTCTACTCCACT
66 TATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTTGTTGTTTTCAGTCTACTCCACT
* * *
11150405 GCATCTTCAAGGGAATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGGA
131 GCATCTTCAAGGGAATAAGACTTGTACCTTCAACCTACTCCACTGAAACTTCAGGGA
11150462 GATAAGACTT
Statistics
Matches: 173, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
207 153 0.88
208 20 0.12
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (208 bp):
GCTCCATGCTTCAACCTATTCTGCTACAACTTCAAGGAAATAAGATTCGACATGATAAGAACCGC
TATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTTGTTGTTTTCAGTCTACTCCACT
GCATCTTCAAGGGAATAAGACTTGTACCTTCAACCTACTCCACTGAAACTTCAGGGAAATAGGAT
TCGTAGCCGATCT
Found at i:11150449 original size:44 final size:44
Alignment explanation
Indices: 11150398--11150544 Score: 140
Period size: 44 Copynumber: 3.4 Consensus size: 44
11150388 TTTCTGTCTA
*
11150398 CTCCACTGCATCTTCAAGGGAATAAGACTTGTATCTTCAACCTG
1 CTCCACTGCAACTTCAAGGGAATAAGACTTGTATCTTCAACCTG
* * *
11150442 CTCCACTGCAACTTC-AGGGAGATAAGACTTATAT-TTTAACTTG
1 CTCCACTGCAACTTCAAGGGA-ATAAGACTTGTATCTTCAACCTG
* * * * *
11150485 CCCCACTTCAACTTCAGGGGTATAAG-GTTAGTGA-CTTCAACCTG
1 CTCCACTGCAACTTCAAGGGAATAAGACTT-GT-ATCTTCAACCTG
* *
11150529 CTCTACTGTAACTTCA
1 CTCCACTGCAACTTCA
11150545 GAGAGACAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 2 0.02
43 31 0.38
44 49 0.60
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAAGGGAATAAGACTTGTATCTTCAACCTG
Found at i:11150496 original size:207 final size:206
Alignment explanation
Indices: 11149983--11150496 Score: 635
Period size: 207 Copynumber: 2.5 Consensus size: 206
11149973 TCAATTTGCC
* * * * * *
11149983 CCACTGCAACTTCAGGGAAGTAAGACTTATATATTGAACCTGTTCCACTGCAACTTCAGGGGGAT
1 CCACTGCATCTTCAGGGAA-TAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGAT
* * *
11150048 AATG-TTAGTGACTTTAA-TCCGCTCCATGCTTCAACCTATTCTGCTGCAACTTCAGGGAAATAA
65 AA-GATTA-T-ACTTTAACT-TGCTCCA-GCTTCAACCTATTCTGCTACAACTTCAAGGAAATAA
* * *
11150111 GATTTGACATGATAAGAATCGTTATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTT
125 GATTCGACATGATAAGAACCGCTATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTT
11150176 GTTGTTTTCAGTCTACT
190 GTTGTTTTCAGTCTACT
* * * *
11150193 CCACTGCATCTTCAGGGAAATAAGACTTGTACCTTCAACCTACT-CACTGAAACTTCAGGGAAAT
1 CCACTGCATCTTCAGGG-AATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGAT
* * ** *
11150257 AGGATTCGTAGC-CGATC-TGCTCCATGCTTCAACCTATTCTGCTACAACTTCAAGGAAATAAGA
65 AAGATT-ATA-CTTTAACTTGCTCCA-GCTTCAACCTATTCTGCTACAACTTCAAGGAAATAAGA
* * *
11150320 TTCGACATGATAAGAACCGCTATCTGCTGTCTGCTCCACTACAACTTTAGGGAGATACGACTTGT
127 TTCGACATGATAAGAACCGCTATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTTGT
*
11150385 TGTTTTCTGTCTACT
192 TGTTTTCAGTCTACT
11150400 CCACTGCATCTTCAAGGGAATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGAT
1 CCACTGCATCTTC-AGGGAATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGAT
* *
11150465 AAGACTTATATTTTAACTTGCCCCA-CTTCAAC
65 AAGA-TTATACTTTAACTTGCTCCAGCTTCAAC
11150497 TTCAGGGGTA
Statistics
Matches: 258, Mismatches: 36, Indels: 23
0.81 0.11 0.07
Matches are distributed among these distances:
207 160 0.62
208 32 0.12
209 30 0.12
210 34 0.13
211 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (206 bp):
CCACTGCATCTTCAGGGAATAAGACTTGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
AGATTATACTTTAACTTGCTCCAGCTTCAACCTATTCTGCTACAACTTCAAGGAAATAAGATTCG
ACATGATAAGAACCGCTATCTACTGTCCGCTCCACTACAACTTTAGGGAGACACGACTTGTTGTT
TTCAGTCTACT
Found at i:11150497 original size:43 final size:43
Alignment explanation
Indices: 11150400--11150503 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
11150390 TCTGTCTACT
* * *
11150400 CCACTGCATCTTCAAGGGAATAAGACTTGTATCTTCAACCTGCT
1 CCACTGCAACTTC-AGGGAATAAGACTTATATCTTCAACCTGCC
* *
11150444 CCACTGCAACTTCAGGGAGATAAGACTTATAT-TTTAACTTGCC
1 CCACTGCAACTTCAGGGA-ATAAGACTTATATCTTCAACCTGCC
*
11150487 CCACTTCAACTTCAGGG
1 CCACTGCAACTTCAGGG
11150504 GTATAAGGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
43 29 0.55
44 24 0.45
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGAATAAGACTTATATCTTCAACCTGCC
Found at i:11150664 original size:106 final size:106
Alignment explanation
Indices: 11150479--11150691 Score: 349
Period size: 106 Copynumber: 2.0 Consensus size: 106
11150469 CTTATATTTT
*
11150479 AACTTGCCCCACTTCAACTTCAGGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGTAACTTC
1 AACTTGCCCCACTTCAACTTCAGGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGCAACTTC
*
11150544 AGAGAGACAAAGTTTGATATGATCTGCTCTATTGCAACTTC
66 AGAGAGACAAAGTTTGATATGATCTGCTCTACTGCAACTTC
* * *
11150585 AACTTGCCCCA-TTGCAACTTCATGGGG-ATAAGGTTTGTTATTTCAACCTGCTCTACTGCAACT
1 AACTTGCCCCACTT-CAACTTCA-GGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGCAACT
11150648 TCAGAGAGACAAAGTTTGATATGATCTGCTCTACTGCAACTTC
64 TCAGAGAGACAAAGTTTGATATGATCTGCTCTACTGCAACTTC
11150691 A
1 A
11150692 GAGAGACGAG
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
105 2 0.02
106 94 0.94
107 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (106 bp):
AACTTGCCCCACTTCAACTTCAGGGGTATAAGGTTAGTGACTTCAACCTGCTCTACTGCAACTTC
AGAGAGACAAAGTTTGATATGATCTGCTCTACTGCAACTTC
Found at i:11150665 original size:44 final size:42
Alignment explanation
Indices: 11150617--11150924 Score: 128
Period size: 41 Copynumber: 7.0 Consensus size: 42
11150607 TGGGGATAAG
11150617 GTTTGTTATTTCAACCTGCTCTACTGCAACTTCAGAGAGACAAA
1 GTTTG-TATTT-AACCTGCTCTACTGCAACTTCAGAGAGACAAA
* * * *
11150661 GTTTG-ATATGATCTGCTCTACTGCAACTTCAGAGAGACGAGATCT
1 GTTTGTATTTAACCTGCTCTACTGCAACTTCAGAGAGAC-A-A--A
* * *
11150706 GTTATGATAGATTTAATCC-GTTCCACTGCAACTTCAGA-A-A-AATGC
1 GTT-TG-T--ATTTAA-CCTGCTCTACTGCAACTTCAGAGAGACAA--A
** * * *
11150751 GATTTGCTATCTTTAATATGCTCCACTGCAACTTCAGGGAGA-TAA
1 G-TTTG-TA--TTTAACCTGCTCTACTGCAACTTCAGAGAGACAAA
* * * * * * * * *
11150796 GACTTGTACCTTCAACTTGCCCCATTGCAACTTCATG-GGGATAAG
1 G-TTTGTA--TTTAACCTGCTCTACTGCAACTTCA-GAGAGACAAA
*
11150841 GTTTTTTATTTCAACCTGCTCTACTGCAACTTCAGAGAGACAAA
1 G-TTTGTATTT-AACCTGCTCTACTGCAACTTCAGAGAGACAAA
* * *
11150885 GTTTG-ATATGATCTGCTCTACTGCAACTTCAGAGAGACAA
1 GTTTGTATTTAACCTGCTCTACTGCAACTTCAGAGAGACAA
11150925 GATCTGTTCC
Statistics
Matches: 201, Mismatches: 43, Indels: 43
0.70 0.15 0.15
Matches are distributed among these distances:
41 56 0.28
42 7 0.03
43 8 0.04
44 55 0.27
45 43 0.21
46 6 0.03
47 2 0.01
48 1 0.00
49 1 0.00
50 21 0.10
51 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (42 bp):
GTTTGTATTTAACCTGCTCTACTGCAACTTCAGAGAGACAAA
Found at i:11152686 original size:42 final size:42
Alignment explanation
Indices: 11152639--11152738 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
11152629 TGCCCCGGTT
* * *
11152639 TGATCAAAATTTGAGCTGCTTTGAT-TACCTCATGCCCCAATC
1 TGATCAAAATTTGAGCCGCTATGATCGA-CTCATGCCCCAATC
*
11152681 TGATCAAAATTTGAGCCGCTATGATCGACTCATGCCCCAATT
1 TGATCAAAATTTGAGCCGCTATGATCGACTCATGCCCCAATC
11152723 TGATCCAAAATTTGAG
1 TGAT-CAAAATTTGAG
11152739 TCGCCATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 40 0.77
43 12 0.23
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
TGATCAAAATTTGAGCCGCTATGATCGACTCATGCCCCAATC
Found at i:11152857 original size:13 final size:13
Alignment explanation
Indices: 11152814--11152856 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
11152804 TTGGCCTCTC
* *
11152814 CTTTTCCTTTTTT
1 CTTTTTCTTTTCT
11152827 CTTTTTCTTTTCT
1 CTTTTTCTTTTCT
11152840 CTTTTT-TTTTCT
1 CTTTTTCTTTTCT
11152852 -TTTTT
1 CTTTTT
11152857 TGAATCTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 5 0.18
12 6 0.21
13 17 0.61
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
CTTTTTCTTTTCT
Found at i:11157833 original size:24 final size:24
Alignment explanation
Indices: 11157805--11157850 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11157795 TTCATAGATC
*
11157805 AAATAAATTATGCTAATAAATATT
1 AAATAAATTATACTAATAAATATT
* *
11157829 AAATATATTATATTAATAAATA
1 AAATAAATTATACTAATAAATA
11157851 CTGAATCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATATT
Found at i:11162105 original size:24 final size:23
Alignment explanation
Indices: 11162069--11162122 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
11162059 AGATAAATGT
* *
11162069 TAAATATAAATATTTTAAA-AGA
1 TAAATATAAATATATTAAACACA
11162091 TAAATATATATATATATTAAACACA
1 TAAATATA-A-ATATATTAAACACA
11162116 TAAATAT
1 TAAATAT
11162123 CGTCTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 8 0.30
23 1 0.04
24 9 0.33
25 9 0.33
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAATATAAATATATTAAACACA
Found at i:11172618 original size:33 final size:32
Alignment explanation
Indices: 11172581--11172642 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
11172571 CATAGTGCGA
11172581 CACGAAGTG-GGATGATTTTAAATCCCTTTACTG
1 CACGAAG-GAGGATGATTTT-AATCCCTTTACTG
*
11172614 CACGAAGGAGGATGATTTTAATCCTTTTA
1 CACGAAGGAGGATGATTTTAATCCCTTTA
11172643 ATGCTTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (32 bp):
CACGAAGGAGGATGATTTTAATCCCTTTACTG
Found at i:11172915 original size:92 final size:92
Alignment explanation
Indices: 11172783--11172968 Score: 320
Period size: 92 Copynumber: 2.0 Consensus size: 92
11172773 AAACTAGACA
* *
11172783 CAGGGGGAGGGGGTTCATTCAGGTAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
1 CAGGGGGAGGGGGTTCATTCAGGCAGTAAATTCCAATCACATCACAAAGTTTGTTTAAATTAAAA
11172848 ACATGATTGGAAATCACTGAATCATCT
66 ACATGATTGGAAATCACTGAATCATCT
11172875 CAGGGGGAGGGGGTTCATTCCA-GCAGTAAATTCCAATCACATCACAAAGTTTGTTTAAATTAAA
1 CAGGGGGAGGGGGTTCATT-CAGGCAGTAAATTCCAATCACATCACAAAGTTTGTTTAAATTAAA
* *
11172939 AACATGATTGGATATCGCTGAATCATCT
65 AACATGATTGGAAATCACTGAATCATCT
11172967 CA
1 CA
11172969 TATATGCAAA
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 87 0.98
93 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (92 bp):
CAGGGGGAGGGGGTTCATTCAGGCAGTAAATTCCAATCACATCACAAAGTTTGTTTAAATTAAAA
ACATGATTGGAAATCACTGAATCATCT
Found at i:11174958 original size:22 final size:22
Alignment explanation
Indices: 11174932--11174977 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
11174922 CAAATAGAAA
*
11174932 CAAACCCAAAACAAATCAAATC
1 CAAACACAAAACAAATCAAATC
*
11174954 CAAACACAAAATAAATCAAATC
1 CAAACACAAAACAAATCAAATC
11174976 CA
1 CA
11174978 TTACAAATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.61, C:0.28, G:0.00, T:0.11
Consensus pattern (22 bp):
CAAACACAAAACAAATCAAATC
Found at i:11176969 original size:13 final size:13
Alignment explanation
Indices: 11176951--11176975 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11176941 GGTTACTAAT
11176951 TTTATTTTATTTA
1 TTTATTTTATTTA
11176964 TTTATTTTATTT
1 TTTATTTTATTT
11176976 GATATTCGTT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:11179143 original size:11 final size:13
Alignment explanation
Indices: 11179123--11179154 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11179113 AATAAATTAA
11179123 TAAAATATCAT-T
1 TAAAATATCATAT
11179135 TAAAA-ATCATAT
1 TAAAATATCATAT
11179147 TAAAATAT
1 TAAAATAT
11179155 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:11181092 original size:5 final size:5
Alignment explanation
Indices: 11181082--11181115 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
11181072 AACCTTATTC
11181082 TAAAA TAAAA TAAAA TAAAA TAAAA TAAATA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA-A TAA
11181116 TTCTATATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:11185825 original size:21 final size:21
Alignment explanation
Indices: 11185777--11185817 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11185767 AATGATATAT
11185777 ATAA-TATATATTTTTATTTC
1 ATAATTATATATTTTTATTTC
11185797 ATAATTATATATTTATTATTT
1 ATAATTATATATTT-TTATTT
11185818 GATTTTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
ATAATTATATATTTTTATTTC
Found at i:11189259 original size:28 final size:29
Alignment explanation
Indices: 11189221--11189280 Score: 113
Period size: 28 Copynumber: 2.1 Consensus size: 29
11189211 AGTAAAGTGG
11189221 AAGGTGCTACCAAATATTCAAAGGAGGAA
1 AAGGTGCTACCAAATATTCAAAGGAGGAA
11189250 AAGG-GCTACCAAATATTCAAAGGAGGAA
1 AAGGTGCTACCAAATATTCAAAGGAGGAA
11189278 AAG
1 AAG
11189281 AAAAAGGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 27 0.87
29 4 0.13
ACGTcount: A:0.47, C:0.13, G:0.25, T:0.15
Consensus pattern (29 bp):
AAGGTGCTACCAAATATTCAAAGGAGGAA
Found at i:11202466 original size:8 final size:8
Alignment explanation
Indices: 11202449--11202482 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
11202439 TTACTATTTA
11202449 TTTT-TAT
1 TTTTATAT
11202456 TTTTATAT
1 TTTTATAT
11202464 TTTTATAT
1 TTTTATAT
11202472 TTTTAT-T
1 TTTTATAT
11202479 TTTT
1 TTTT
11202483 GTAACTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 9 0.35
8 17 0.65
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTATAT
Found at i:11202466 original size:14 final size:13
Alignment explanation
Indices: 11202445--11202481 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
11202435 GTAATTACTA
11202445 TTTATTTTTATTT
1 TTTATTTTTATTT
11202458 TTATATTTTTATATT
1 TT-TATTTTTAT-TT
11202473 TTTATTTTT
1 TTTATTTTT
11202482 TGTAACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 16 0.73
15 4 0.18
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:11205813 original size:22 final size:23
Alignment explanation
Indices: 11205788--11205849 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
11205778 CATATGAATG
11205788 AGGCACACGCCCGTGTGA-AATA
1 AGGCACACGCCCGTGTGACAATA
* * *
11205810 AGGCACACGGCCATGTGACTATA
1 AGGCACACGCCCGTGTGACAATA
*
11205833 A--CACACGCCCGTATGAC
1 AGGCACACGCCCGTGTGAC
11205850 CCAGAAACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 13 0.39
22 16 0.48
23 4 0.12
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.15
Consensus pattern (23 bp):
AGGCACACGCCCGTGTGACAATA
Found at i:11207711 original size:33 final size:33
Alignment explanation
Indices: 11207671--11207738 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
11207661 AGGACGAAGA
11207671 TGTCTGTCACATGATAGATTTTGTATTTCATTC
1 TGTCTGTCACATGATAGATTTTGTATTTCATTC
*
11207704 TGTCTGTCACATGATAGATTTTGTCTTTCATTC
1 TGTCTGTCACATGATAGATTTTGTATTTCATTC
11207737 TG
1 TG
11207739 ACTTGATGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (33 bp):
TGTCTGTCACATGATAGATTTTGTATTTCATTC
Found at i:11207997 original size:18 final size:18
Alignment explanation
Indices: 11207974--11208010 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11207964 CGTTTACTCT
11207974 CTTTTTT-TCCATTTTGGC
1 CTTTTTTAT-CATTTTGGC
11207992 CTTTTTTATCATTTTGGC
1 CTTTTTTATCATTTTGGC
11208010 C
1 C
11208011 CTCAACCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.08, C:0.22, G:0.11, T:0.59
Consensus pattern (18 bp):
CTTTTTTATCATTTTGGC
Found at i:11213163 original size:11 final size:10
Alignment explanation
Indices: 11213119--11213179 Score: 52
Period size: 11 Copynumber: 6.0 Consensus size: 10
11213109 TTAAAGAATC
11213119 TGTTAGTAGT
1 TGTTAGTAGT
* * *
11213129 TG-AAGAAAT
1 TGTTAGTAGT
11213138 TGTTAGTAGT
1 TGTTAGTAGT
*
11213148 TGTTAGTGATT
1 TGTTAGT-AGT
11213159 TGTTAGTAGT
1 TGTTAGTAGT
*
11213169 TAGTTAATAGT
1 T-GTTAGTAGT
11213180 AGTTGGTATG
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
9 6 0.15
10 16 0.41
11 17 0.44
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (10 bp):
TGTTAGTAGT
Found at i:11214052 original size:12 final size:12
Alignment explanation
Indices: 11214035--11214076 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
11214025 ACTAATCCTT
11214035 TCTCAAATTTCC
1 TCTCAAATTTCC
11214047 TCTCAAA-TTCC
1 TCTCAAATTTCC
11214058 T-TCAAAATTT-C
1 TCTC-AAATTTCC
11214069 TCTCAAAT
1 TCTCAAAT
11214077 CCATATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.07
11 14 0.52
12 11 0.41
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (12 bp):
TCTCAAATTTCC
Done.