Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 601 of 770
Found at i:188069642 original size:89 final size:89
Alignment explanation
Indices: 188069446--188069723 Score: 439
Period size: 89 Copynumber: 3.0 Consensus size: 89
188069436 GTATATGTGA
* * *
188069446 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
188069511 ATGTGGTGAATGTGAAAGTGTATGTATATGTG
66 ATGTGGTGAATGTGAAA--G--TG--TA--TG
188069543 ATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCC
1 -TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCC
188069608 GATGTGGTGAATGTGAAAGTGTATG
65 GATGTGGTGAATGTGAAAGTGTATG
*
188069633 TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
188069698 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
188069722 TA
1 TA
188069724 TATGTGATAA
Statistics
Matches: 176, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
89 90 0.51
90 2 0.01
92 2 0.01
94 2 0.01
96 1 0.01
98 79 0.45
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (89 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATG
Found at i:188069670 original size:138 final size:143
Alignment explanation
Indices: 188069392--188069744 Score: 581
Period size: 138 Copynumber: 2.5 Consensus size: 143
188069382 TACATATGTG
* * * *
188069392 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
188069457 GGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
66 GGCCGATGTGATGAATGTGAAA--GGATG-ATATGTGA-GAGGCCTAATGGCCGATGTGGTGAAT
*
188069522 GTGAAAGTGTATGTATA
127 GTAAAAGTGTATGTATA
188069539 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
*
188069604 GGCCGATGTGGTGAATGTGAAA-G-TG-TATGT-A-AGGCCTAATGGCCGATGTGGTGAATGTAA
66 GGCCGATGTGATGAATGTGAAAGGATGATATGTGAGAGGCCTAATGGCCGATGTGGTGAATGTAA
188069664 AAGTGTATGTATA
131 AAGTGTATGTATA
188069677 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
188069742 GGC
66 GGC
188069745 TAATGTAAAA
Statistics
Matches: 200, Mismatches: 6, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
138 109 0.55
140 1 0.00
141 5 0.03
143 2 0.01
144 1 0.00
147 82 0.41
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (143 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGGATGATATGTGAGAGGCCTAATGGCCGATGTGGTGAATGTAA
AAGTGTATGTATA
Found at i:188069750 original size:89 final size:90
Alignment explanation
Indices: 188069468--188069754 Score: 377
Period size: 89 Copynumber: 3.1 Consensus size: 90
188069458 GCCGATGTGA
* * *
188069468 TGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
188069533 TGTATATGTGATAAGGCCTAATGGCC
66 TGTATATGTGATAAGGCCTAATGG-C
*
188069559 GATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
1 -------TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
* * *
188069624 AAGTGTATGTA-A-G-GCCTAATGGCC-GATGTGG
59 AAGTGTATGTATATGTG-ATAA-GGCCTAATG-GC
188069655 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
188069720 TGTATATGTGATAAGGCCTAATGGC
66 TGTATATGTGATAAGGCCTAATGGC
188069745 T-AATGTAAAA
1 TGAATGTAAAA
188069755 TATATGTGTG
Statistics
Matches: 173, Mismatches: 9, Indels: 23
0.84 0.04 0.11
Matches are distributed among these distances:
89 77 0.45
90 7 0.04
91 7 0.04
92 1 0.01
95 1 0.01
96 7 0.04
97 6 0.03
98 67 0.39
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (90 bp):
TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
TGTATATGTGATAAGGCCTAATGGC
Found at i:188069896 original size:37 final size:37
Alignment explanation
Indices: 188069846--188069930 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
188069836 GGAATATGTT
*
188069846 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
188069883 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
188069920 CCGGGTAAGAC
1 CCGGGTAAGAC
188069931 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:188071732 original size:28 final size:28
Alignment explanation
Indices: 188071698--188071852 Score: 150
Period size: 28 Copynumber: 5.5 Consensus size: 28
188071688 AACCGATCTT
188071698 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTTGGTTACGGAACTC
**** * *
188071726 GCACACACAGTGCCTTAACAACCGATCTC
1 GCACACACAGTG-CTTGGTTACGGAACTC
*
188071755 G-AGCACACAGTGCTCGGTTACGGAACTC
1 GCA-CACACAGTGCTTGGTTACGGAACTC
***** * *
188071783 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTTGGTTACGGAACTC
188071812 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTTGGTTACGGAACTC
188071840 GCACACACAGTGC
1 GCACACACAGTGC
188071853 CTCAACAACC
Statistics
Matches: 97, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
28 54 0.56
29 43 0.44
ACGTcount: A:0.28, C:0.34, G:0.21, T:0.17
Consensus pattern (28 bp):
GCACACACAGTGCTTGGTTACGGAACTC
Found at i:188071738 original size:57 final size:57
Alignment explanation
Indices: 188071668--188071881 Score: 349
Period size: 57 Copynumber: 3.7 Consensus size: 57
188071658 GATCTCATAT
* *
188071668 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
* *
188071727 CACACACAGTGCCTTAACAACCGATCTCG-AGCACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCA-CACACAGTGCTTGGTTACGGAACTCG
188071784 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
*
188071841 CACACACAGTGCCTCAACAACCGATCTCGCCCACACAGTGC
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGC
188071882 CTATGTTCAC
Statistics
Matches: 146, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
56 1 0.01
57 137 0.94
58 1 0.01
59 7 0.05
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
Found at i:188071765 original size:29 final size:29
Alignment explanation
Indices: 188071668--188071883 Score: 161
Period size: 29 Copynumber: 7.5 Consensus size: 29
188071658 GATCTCATAT
* *
188071668 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
***** * *
188071699 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
*
188071727 CACACACAGTGCCTTAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** * *
188071756 -AGCACACAGTG-CTCGGTTACGGAACTCG
1 CA-CACACAGTGCCTCAACAACCGATCTCG
188071784 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
***** * *
188071813 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
188071841 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
*
188071870 CCCACACAGTGCCT
1 CACACACAGTGCCT
188071884 ATGTTCACTT
Statistics
Matches: 137, Mismatches: 43, Indels: 12
0.71 0.22 0.06
Matches are distributed among these distances:
28 60 0.44
29 70 0.51
31 7 0.05
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.18
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:188073955 original size:28 final size:28
Alignment explanation
Indices: 188073849--188073955 Score: 142
Period size: 28 Copynumber: 3.8 Consensus size: 28
188073839 GAATCATTCG
* * *
188073849 ATATTTTGCACACTAAGTGTCATTCTTA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
188073877 ATATCTCGCACACTAAGTTCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
188073905 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
188073933 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
188073956 ATTTGATTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:188080563 original size:48 final size:48
Alignment explanation
Indices: 188080509--188080606 Score: 162
Period size: 48 Copynumber: 2.0 Consensus size: 48
188080499 TCACCTTAGG
* *
188080509 GTGCTTCGGTTTTGTTTGTGGAAAAGAAAGAT-GGATTAATGAGATTAT
1 GTGCTTCGGTTTTGTTTGTGAAAAAGAAAGATAGG-TCAATGAGATTAT
188080557 GTGCTTCGGTTTTGTTTGTGAAAAAGAAAGATAGGTCAATGAGATTAT
1 GTGCTTCGGTTTTGTTTGTGAAAAAGAAAGATAGGTCAATGAGATTAT
188080605 GT
1 GT
188080607 ATAGATTATC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 45 0.96
49 2 0.04
ACGTcount: A:0.30, C:0.05, G:0.29, T:0.37
Consensus pattern (48 bp):
GTGCTTCGGTTTTGTTTGTGAAAAAGAAAGATAGGTCAATGAGATTAT
Found at i:188085286 original size:34 final size:34
Alignment explanation
Indices: 188085243--188085314 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
188085233 TTAGTTCGAT
*
188085243 AGTAATTGATTCTAGGTTGCTTAGTATTAGATTA
1 AGTAATTGATTCTAGGTTGCTTAGTATTAGACTA
*
188085277 AGTATTTGATTCTAGGTTGCTTAGTATTAGACTA
1 AGTAATTGATTCTAGGTTGCTTAGTATTAGACTA
188085311 AGTA
1 AGTA
188085315 GTTCACTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (34 bp):
AGTAATTGATTCTAGGTTGCTTAGTATTAGACTA
Found at i:188086292 original size:20 final size:20
Alignment explanation
Indices: 188086267--188086306 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
188086257 TTATACATCA
188086267 TACTAGAATTATGTGTTTAG
1 TACTAGAATTATGTGTTTAG
188086287 TACTAGAATTATGTGTTTAG
1 TACTAGAATTATGTGTTTAG
188086307 CACATTGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (20 bp):
TACTAGAATTATGTGTTTAG
Found at i:188092949 original size:46 final size:46
Alignment explanation
Indices: 188092896--188093071 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
188092886 TATTTGGGCA
*
188092896 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
188092942 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
188092987 CATCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
188093035 CCCGAGCTCGTTGAGTTCAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
188093072 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:188093051 original size:93 final size:93
Alignment explanation
Indices: 188092892--188093063 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
188092882 GGGATATTTG
* *
188092892 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
188092957 TTGAGTCCGAGTTCATGAGATGTAACTA
66 TTCAGTCCGAGTTCATGAGATGTAACTA
* * *
188092985 GGCATCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
188093050 TTCAGTCCGAGTTC
66 TTCAGTCCGAGTTC
188093064 GCTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTCAGTCCGAGTTCATGAGATGTAACTA
Found at i:188096025 original size:15 final size:15
Alignment explanation
Indices: 188095987--188096055 Score: 72
Period size: 14 Copynumber: 4.7 Consensus size: 15
188095977 GTATCTTGGG
*
188095987 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
188096002 TCT-TTTATTCTGGA
1 TTTCTTTATTCTGGA
*
188096016 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
188096031 TTT-TTCTA-TCTTGA
1 TTTCTT-TATTCTGGA
188096045 TTTCTTTATTC
1 TTTCTTTATTC
188096056 GTTTCTTGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
14 23 0.52
15 21 0.48
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:188096029 original size:29 final size:29
Alignment explanation
Indices: 188095978--188096055 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
188095968 CATAGTATCG
* *
188095978 TATCTTGGGTTTCTTTATCCTGGATCTTTTA
1 TATC-TGGATTTCTTTATTCTGGAT-TTTTA
* *
188096009 T-TCTGGATTTCTTTATTCTGGGTTTTTC
1 TATCTGGATTTCTTTATTCTGGATTTTTA
*
188096037 TATCTTGATTTCTTTATTC
1 TATCTGGATTTCTTTATTC
188096056 GTTTCTTGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.12
29 33 0.80
30 2 0.05
31 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.14, T:0.59
Consensus pattern (29 bp):
TATCTGGATTTCTTTATTCTGGATTTTTA
Found at i:188100828 original size:46 final size:45
Alignment explanation
Indices: 188100778--188100949 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
188100768 TGGTTGAGCA
188100778 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
188100824 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
188100870 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
188100916 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
188100950 GGGGGGTTAC
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:188100932 original size:92 final size:92
Alignment explanation
Indices: 188100775--188100944 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
188100765 GGATGGTTGA
* *
188100775 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
188100840 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
188100867 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
188100932 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
188100945 ACTTAGGGGG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:188105734 original size:30 final size:30
Alignment explanation
Indices: 188105698--188105794 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
188105688 AGCTCACTCC
188105698 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
188105728 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
188105758 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
188105788 TAGCTCA
1 TAGCTCA
188105795 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:188109987 original size:46 final size:45
Alignment explanation
Indices: 188109937--188110107 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
188109927 TGGTTGAGCA
188109937 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
* * * *
188109983 TCCGAACTCGTTGAGTTGAGTCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAA-T--G
*
188110027 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
* * *
188110075 CCCGAGCTCATTGAGTTGAGTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTA
188110108 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 19 0.18
46 60 0.58
47 7 0.07
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATG
Found at i:188110091 original size:92 final size:92
Alignment explanation
Indices: 188109934--188110102 Score: 302
Period size: 92 Copynumber: 1.8 Consensus size: 92
188109924 GGATGGTTGA
* * *
188109934 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
188109999 TGAGTCGAGTTCGTGAAATGTAACTAG
66 TGAGTCGAGTTCGTGAAATGTAACTAG
*
188110026 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
188110091 TGAGTCGAGTTC
66 TGAGTCGAGTTC
188110103 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCGAGTTCGTGAAATGTAACTAG
Found at i:188111992 original size:11 final size:11
Alignment explanation
Indices: 188111976--188112017 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
188111966 CATTTTCTCA
188111976 TTTTTCTTCTT
1 TTTTTCTTCTT
*
188111987 TTTTTCATCTT
1 TTTTTCTTCTT
188111998 TTTCTT-TTCTCT
1 TTT-TTCTTCT-T
188112010 TTTTTCTT
1 TTTTTCTT
188112018 TCTCTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:188112005 original size:14 final size:13
Alignment explanation
Indices: 188111976--188112061 Score: 56
Period size: 14 Copynumber: 6.5 Consensus size: 13
188111966 CATTTTCTCA
188111976 TTTT-TCTTCTTT-
1 TTTTCTCTT-TTTC
188111988 TTTTCATCTTTTTC
1 TTTTC-TCTTTTTC
188112002 TTTTCTCTTTTTTC
1 TTTTCTC-TTTTTC
*
188112016 TTTCTCTCTTTTGC
1 TTT-TCTCTTTTTC
188112030 TATTT-T-TTCTTTC
1 T-TTTCTCTT-TTTC
*
188112043 TTTCTCTCATTTT-
1 TTT-TCTCTTTTTC
188112056 TTTTCT
1 TTTTCT
188112062 TTACCTTTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
12 11 0.18
13 14 0.23
14 29 0.48
15 7 0.11
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.74
Consensus pattern (13 bp):
TTTTCTCTTTTTC
Found at i:188112019 original size:27 final size:27
Alignment explanation
Indices: 188111976--188112071 Score: 65
Period size: 27 Copynumber: 3.4 Consensus size: 27
188111966 CATTTTCTCA
188111976 TTTT-TCTTCTTTT-TTTCATCTTTTTC
1 TTTTCTCTT-TTTTCTTTCATCTTTTTC
188112002 TTTTCTCTTTTTTCTTTC-TCTCTTTTGC
1 TTTTCTCTTTTTTCTTTCATCT-TTTT-C
* * *
188112030 TATTTTTTCTTTCTTTCTCTCATTTTTTTTC
1 --TTTTCTCTTT-TTTCTTTCA-TCTTTTTC
*
188112061 TTTAC-CTTTTT
1 TTTTCTCTTTTT
188112072 ACATTCTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
26 11 0.20
27 14 0.25
28 5 0.09
29 3 0.05
30 9 0.16
31 8 0.14
32 4 0.07
33 2 0.04
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.74
Consensus pattern (27 bp):
TTTTCTCTTTTTTCTTTCATCTTTTTC
Found at i:188113684 original size:93 final size:93
Alignment explanation
Indices: 188113572--188113743 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
188113562 CGCCCATAAG
* *
188113572 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
188113637 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
188113665 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
188113730 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
188113744 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:188113740 original size:46 final size:46
Alignment explanation
Indices: 188113565--188113740 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
188113555 TGTAACCCGC
* * *
188113565 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
188113611 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
188113661 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
188113704 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
188113741 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:188121260 original size:93 final size:93
Alignment explanation
Indices: 188121148--188121319 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
188121138 CGCCCATAAG
* *
188121148 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
188121213 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
188121241 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
188121306 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
188121320 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:188121316 original size:46 final size:46
Alignment explanation
Indices: 188121141--188121316 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
188121131 TGTAACCCGC
* * *
188121141 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
188121187 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
188121237 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
188121280 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
188121317 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:188125058 original size:11 final size:12
Alignment explanation
Indices: 188125026--188125058 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
188125016 GAGCTGTAGC
188125026 AAACTTAATTAT
1 AAACTTAATTAT
*
188125038 AAACTGAATTA-
1 AAACTTAATTAT
188125049 AAACTTAATT
1 AAACTTAATT
188125059 TATTAGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
AAACTTAATTAT
Found at i:188127726 original size:20 final size:19
Alignment explanation
Indices: 188127690--188127729 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
188127680 ATAAAAATTA
188127690 TAGATGAGCTCAATTGAGC
1 TAGATGAGCTCAATTGAGC
* *
188127709 TAGATGGAGCTGAGTTGAGC
1 TAGAT-GAGCTCAATTGAGC
188127729 T
1 T
188127730 CATGGAACCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.28
Consensus pattern (19 bp):
TAGATGAGCTCAATTGAGC
Found at i:188128103 original size:39 final size:39
Alignment explanation
Indices: 188128059--188128135 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
188128049 ATGCAGAACA
*
188128059 CATATTAATAATGTGCAAACTATGACATAGTTAAAGACT
1 CATATTAATAATGTGCAAACTATGACATAATTAAAGACT
* *
188128098 CATATTAATGATGTTCAAACTATGACATAATTAAAGAC
1 CATATTAATAATGTGCAAACTATGACATAATTAAAGAC
188128136 ACAAACTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (39 bp):
CATATTAATAATGTGCAAACTATGACATAATTAAAGACT
Found at i:188131105 original size:68 final size:70
Alignment explanation
Indices: 188131033--188131230 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
188131023 ACACCCTGTA
* * * *
188131033 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
188131095 ATAAAT
65 ATAAAT
*
188131101 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
188131166 ATAAAT
65 ATAAAT
*
188131172 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
188131231 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:188131144 original size:41 final size:41
Alignment explanation
Indices: 188131099--188131216 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
188131089 TGAAAGATAA
188131099 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
188131140 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188131170 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
188131211 ATGTAG
1 ATGTAG
188131217 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:188131156 original size:71 final size:71
Alignment explanation
Indices: 188131067--188131230 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
188131057 GAGATGTATC
188131067 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188131132 AGGACA
66 AGGACA
188131138 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
188131203 AGGACA
66 AGGACA
188131209 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
188131231 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:188137658 original size:28 final size:29
Alignment explanation
Indices: 188137626--188137724 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
188137616 ATAATAAGCC
*
188137626 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
188137654 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
188137682 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
188137711 CGCACACTTAGTGC
1 CGCACACTTAGTGC
188137725 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:188145672 original size:28 final size:29
Alignment explanation
Indices: 188145640--188145738 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
188145630 ATAATAAGCC
*
188145640 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
188145668 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
188145696 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
188145725 CGCACACTTAGTGC
1 CGCACACTTAGTGC
188145739 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:188149371 original size:39 final size:40
Alignment explanation
Indices: 188149263--188149492 Score: 365
Period size: 40 Copynumber: 5.8 Consensus size: 40
188149253 CGGATGATAA
188149263 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
188149303 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * *
188149343 TCGAGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * *
188149382 TCGAGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
**
188149421 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
188149461 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
188149493 AGCTATATCC
Statistics
Matches: 179, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 73 0.41
40 106 0.59
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:188161691 original size:40 final size:40
Alignment explanation
Indices: 188161583--188161792 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
188161573 CGGGATTTAA
* * * * *
188161583 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
188161623 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
188161663 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
188161703 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
188161743 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
188161783 CCGGATATAT
1 CCGGATATAT
188161793 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:188169826 original size:40 final size:40
Alignment explanation
Indices: 188169718--188169927 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
188169708 CGGGATTTAA
* * * * *
188169718 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
188169758 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
188169798 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
188169838 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
188169878 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
188169918 CCGGATATAT
1 CCGGATATAT
188169928 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:188173704 original size:29 final size:29
Alignment explanation
Indices: 188173665--188173739 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
188173655 GGTTGAGAGA
*
188173665 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTGC
*
188173694 ATGGCACTAAGTGTGCGAGTTTAAAGTGC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTGC
188173723 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
188173740 TGGTTGATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 5 0.12
29 38 0.88
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTGC
Found at i:188175455 original size:12 final size:13
Alignment explanation
Indices: 188175436--188175468 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
188175426 GGGTTCAGCT
188175436 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
188175449 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
188175461 ATGGAGAA
1 ATGGAGAA
188175469 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:188177285 original size:13 final size:13
Alignment explanation
Indices: 188177267--188177291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
188177257 GAATTGAGAT
188177267 GTGTGAAAATTTC
1 GTGTGAAAATTTC
188177280 GTGTGAAAATTT
1 GTGTGAAAATTT
188177292 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:188178525 original size:42 final size:41
Alignment explanation
Indices: 188178409--188178533 Score: 117
Period size: 42 Copynumber: 3.0 Consensus size: 41
188178399 GATATGTGAT
* * * * *
188178409 TTCGTGTAAGACCACGTCTGGGA-TGTTGGCATCGATTTGTGAT
1 TTCGTGTAAGACCATGTCTGGAACAG-TGGCATCGA--TATGAG
*
188178452 TTACGTGTAAGACCATGTCTGGAACATTGGCATCGTATATGAG
1 TT-CGTGTAAGACCATGTCTGGAACAGTGGCATCG-ATATGAG
* * *
188178495 TTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATG
1 TTCGTGTAAGACCATGTCTGGAACAGTGGCATCGATATG
188178534 TGATTACATG
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
41 5 0.07
42 28 0.41
43 8 0.12
44 27 0.39
45 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (41 bp):
TTCGTGTAAGACCATGTCTGGAACAGTGGCATCGATATGAG
Found at i:188178557 original size:43 final size:44
Alignment explanation
Indices: 188178398--188178560 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 44
188178388 CATAGGATTC
* *
188178398 CGATATGTGA-TTTCGTGTAAGACCACGTCTGGGA-TGTTGGCAT
1 CGATATGTGAGTTACGTGTAAGACCACGTCTGGGACAG-TGGCAT
* * * * *
188178441 CGATTTGTGATTTACGTGTAAGACCATGTCTGGAACATTGGCAT
1 CGATATGTGAGTTACGTGTAAGACCACGTCTGGGACAGTGGCAT
* *
188178485 CG-TATATGAGTT-CGTGTAAGACC-CTGTTTGGGACAGTGGCAT
1 CGATATGTGAGTTACGTGTAAGACCAC-GTCTGGGACAGTGGCAT
* * *
188178527 CGATATGTGA-TTACATGGAAGACCACGTTTGGGA
1 CGATATGTGAGTTACGTGTAAGACCACGTCTGGGA
188178561 TGTTAGAATT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
42 29 0.30
43 39 0.40
44 30 0.31
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (44 bp):
CGATATGTGAGTTACGTGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:188179905 original size:27 final size:27
Alignment explanation
Indices: 188179875--188179944 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
188179865 TCGCCCCTAG
* *
188179875 GGGTATTTCAG-AAGTTTTACAAGTCGA
1 GGGTATTTCAGTAA-TTGTACAAGTCAA
* *
188179902 GGGTATTTCAGTAATTGTACAGGTTAA
1 GGGTATTTCAGTAATTGTACAAGTCAA
188179929 GGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
188179945 TCACAAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTGTACAAGTCAA
Found at i:188179962 original size:27 final size:26
Alignment explanation
Indices: 188179875--188179972 Score: 74
Period size: 27 Copynumber: 3.7 Consensus size: 26
188179865 TCGCCCCTAG
* **
188179875 GGGTATTTCAG-AAGTTTTACAAGTCGA
1 GGGTATTTCAGTAA--TTTACAAATTAA
**
188179902 GGGTATTTCAGTAATTGTACAGGTTAA
1 GGGTATTTCAGTAATT-TACAAATTAA
188179929 GGGTATTTCAGTAATTTCACAAATT-A
1 GGGTATTTCAGTAATTT-ACAAATTAA
**
188179955 GGGTTATTTTGGTAATTT
1 GGG-TATTTCAGTAATTT
188179973 TCCTTTATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.12
27 51 0.85
28 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTACAAATTAA
Found at i:188180362 original size:29 final size:28
Alignment explanation
Indices: 188180268--188180386 Score: 143
Period size: 28 Copynumber: 4.2 Consensus size: 28
188180258 AAGTCTACAT
* * *
188180268 ACATGCATAAGGCTCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
188180296 TCATTCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
188180324 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
188180353 ACATTCATATGGCCCATCTA-GCCCGAATC
1 ACATTCATATGGCCCAT-TAGGCCC-AATC
188180382 A-ATTC
1 ACATTC
188180387 CAAGCCATGT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
28 50 0.62
29 29 0.36
30 2 0.02
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:188180627 original size:16 final size:16
Alignment explanation
Indices: 188180603--188180640 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
188180593 GTAGCCAGAC
*
188180603 TTTCAGCTTTTAGGCA
1 TTTCGGCTTTTAGGCA
*
188180619 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTAGGCA
188180635 TTTCGG
1 TTTCGG
188180641 GATTTGTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.21, G:0.24, T:0.45
Consensus pattern (16 bp):
TTTCGGCTTTTAGGCA
Found at i:188196523 original size:29 final size:29
Alignment explanation
Indices: 188196484--188196558 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
188196474 GGTTGAGAGA
*
188196484 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTGC
*
188196513 ATGGCACTAAGTGTGCGAGTTTAAAGTGC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTGC
188196542 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
188196559 TGGTTGATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 5 0.12
29 38 0.88
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTGC
Found at i:188198271 original size:12 final size:13
Alignment explanation
Indices: 188198252--188198284 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
188198242 GGGTTCAGCT
188198252 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
188198265 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
188198277 ATGGAGAA
1 ATGGAGAA
188198285 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:188200104 original size:13 final size:13
Alignment explanation
Indices: 188200086--188200110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
188200076 GAATTGAGAT
188200086 GTGTGAAAATTTC
1 GTGTGAAAATTTC
188200099 GTGTGAAAATTT
1 GTGTGAAAATTT
188200111 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:188201376 original size:43 final size:42
Alignment explanation
Indices: 188201217--188201379 Score: 125
Period size: 43 Copynumber: 3.8 Consensus size: 42
188201207 CATAGGATTC
* * *
188201217 CGATATGTGATTTCGTGTAAGACCACGTCTGGGA-TGTTGGCAT
1 CGATATGTGA-TTCATGGAAGACCACGTCTGGGACAG-TGGCAT
* * * * *
188201260 CGATTTGTGATTTATGTGTAAGACCATGTCTGGAACATTGGCAT
1 CGATATGTGATTCATG-G-AAGACCACGTCTGGGACAGTGGCAT
* * * *
188201304 CG-TATATGAGTTCGTGTAAGACC-CTGTTTGGGACAGTGGCAT
1 CGATATGTGA-TTCATGGAAGACCAC-GTCTGGGACAGTGGCAT
*
188201346 CGATATGTGATTACATGGAAGACCACGTTTGGGA
1 CGATATGTGATT-CATGGAAGACCACGTCTGGGA
188201380 TGTTAGAATT
Statistics
Matches: 92, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
42 28 0.30
43 37 0.40
44 27 0.29
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (42 bp):
CGATATGTGATTCATGGAAGACCACGTCTGGGACAGTGGCAT
Found at i:188202725 original size:27 final size:27
Alignment explanation
Indices: 188202695--188202764 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
188202685 TCGCCCCTAG
* *
188202695 GGGTATTTCAG-AAGTTTTACAAGTCGA
1 GGGTATTTCAGTAA-TTGTACAAGTCAA
* *
188202722 GGGTATTTCAGTAATTGTACAGGTTAA
1 GGGTATTTCAGTAATTGTACAAGTCAA
188202749 GGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
188202765 TCACAAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTGTACAAGTCAA
Found at i:188202782 original size:27 final size:26
Alignment explanation
Indices: 188202695--188202792 Score: 74
Period size: 27 Copynumber: 3.7 Consensus size: 26
188202685 TCGCCCCTAG
* **
188202695 GGGTATTTCAG-AAGTTTTACAAGTCGA
1 GGGTATTTCAGTAA--TTTACAAATTAA
**
188202722 GGGTATTTCAGTAATTGTACAGGTTAA
1 GGGTATTTCAGTAATT-TACAAATTAA
188202749 GGGTATTTCAGTAATTTCACAAATT-A
1 GGGTATTTCAGTAATTT-ACAAATTAA
**
188202775 GGGTTATTTTGGTAATTT
1 GGG-TATTTCAGTAATTT
188202793 TCCTTTATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.12
27 51 0.85
28 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTACAAATTAA
Found at i:188203182 original size:29 final size:28
Alignment explanation
Indices: 188203088--188203206 Score: 134
Period size: 28 Copynumber: 4.2 Consensus size: 28
188203078 AAGTCTACAT
* * *
188203088 ACATGCATAAGGCTCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
188203116 TCATTCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
**
188203144 TTATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
188203173 ACATTCATATGGCCCATCTA-GCCCGAATC
1 ACATTCATATGGCCCAT-TAGGCCC-AATC
188203202 A-ATTC
1 ACATTC
188203207 CAAGCCATGT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
28 49 0.62
29 28 0.35
30 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:188203447 original size:16 final size:16
Alignment explanation
Indices: 188203423--188203460 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
188203413 GTAGCCAGAC
*
188203423 TTTCAGCTTTTAGGCA
1 TTTCGGCTTTTAGGCA
*
188203439 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTAGGCA
188203455 TTTCGG
1 TTTCGG
188203461 GATTTGTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.21, G:0.24, T:0.45
Consensus pattern (16 bp):
TTTCGGCTTTTAGGCA
Found at i:188212622 original size:93 final size:93
Alignment explanation
Indices: 188212510--188212681 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
188212500 GCCCATAAGT
* *
188212510 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188212575 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
188212603 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188212668 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
188212682 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:188212677 original size:46 final size:46
Alignment explanation
Indices: 188212502--188212677 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
188212492 TGTAACCCGC
* * *
188212502 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
188212548 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
188212598 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
188212641 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
188212678 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:188215077 original size:30 final size:30
Alignment explanation
Indices: 188215033--188215121 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
188215023 CAAAGATAAC
188215033 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
188215062 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
188215092 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
188215122 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:188215081 original size:15 final size:15
Alignment explanation
Indices: 188215033--188215112 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
188215023 CAAAGATAAC
*
188215033 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
188215047 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
188215062 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
188215077 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
188215092 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
188215107 AAGAAA
1 AAGAAA
188215113 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:188215121 original size:15 final size:15
Alignment explanation
Indices: 188215044--188215121 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
188215034 AGAAAACCGA
188215044 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
188215059 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
188215073 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
188215088 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
188215104 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
188215119 ATA
1 ATA
188215122 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:188218180 original size:93 final size:93
Alignment explanation
Indices: 188218068--188218239 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
188218058 GCCCATAAGT
* *
188218068 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188218133 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
188218161 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188218226 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
188218240 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:188218235 original size:46 final size:46
Alignment explanation
Indices: 188218060--188218235 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
188218050 TGTAACCCGC
* * *
188218060 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
188218106 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
188218156 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
188218199 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
188218236 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:188220657 original size:30 final size:30
Alignment explanation
Indices: 188220613--188220701 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
188220603 CAAAGATAAC
188220613 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
188220642 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
188220672 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
188220702 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:188220661 original size:15 final size:15
Alignment explanation
Indices: 188220613--188220692 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
188220603 CAAAGATAAC
*
188220613 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
188220627 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
188220642 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
188220657 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
188220672 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
188220687 AAGAAA
1 AAGAAA
188220693 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:188220701 original size:15 final size:15
Alignment explanation
Indices: 188220624--188220701 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
188220614 AGAAAACCGA
188220624 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
188220639 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
188220653 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
188220668 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
188220684 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
188220699 ATA
1 ATA
188220702 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:188223759 original size:93 final size:93
Alignment explanation
Indices: 188223647--188223818 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
188223637 GCCCATAAGT
* *
188223647 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188223712 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
188223740 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188223805 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
188223819 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:188223814 original size:46 final size:46
Alignment explanation
Indices: 188223639--188223814 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
188223629 TGTAACCCGC
* * *
188223639 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
188223685 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
188223735 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
188223778 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
188223815 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:188226239 original size:30 final size:30
Alignment explanation
Indices: 188226195--188226283 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
188226185 CAAAGATAAC
188226195 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
188226224 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
188226254 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
188226284 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:188226243 original size:15 final size:15
Alignment explanation
Indices: 188226195--188226274 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
188226185 CAAAGATAAC
*
188226195 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
188226209 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
188226224 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
188226239 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
188226254 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
188226269 AAGAAA
1 AAGAAA
188226275 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:188226283 original size:15 final size:15
Alignment explanation
Indices: 188226206--188226283 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
188226196 AGAAAACCGA
188226206 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
188226221 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
188226235 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
188226250 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
188226266 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
188226281 ATA
1 ATA
188226284 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:188229287 original size:46 final size:46
Alignment explanation
Indices: 188229220--188229388 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
188229210 TGTAACCCGC
*
188229220 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
188229266 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
188229316 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
188229357 CCATAAGTGAACTCGGACTCAACTCAACGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT
188229389 AAGTGAACTC
Statistics
Matches: 106, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 25 0.24
46 35 0.33
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:188229392 original size:28 final size:28
Alignment explanation
Indices: 188229360--188229416 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
188229350 CTCGCATCCA
188229360 TAAGTGAACTCGGACTCAACTCAACGAG
1 TAAGTGAACTCGGACTCAACTCAACGAG
188229388 TAAGTGAACTCGGACTCAACTCAACGAG
1 TAAGTGAACTCGGACTCAACTCAACGAG
188229416 T
1 T
188229417 TCGGATGCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (28 bp):
TAAGTGAACTCGGACTCAACTCAACGAG
Found at i:188231849 original size:30 final size:30
Alignment explanation
Indices: 188231805--188231893 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
188231795 CAAAGATAAC
188231805 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
188231834 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
188231864 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
188231894 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:188231853 original size:15 final size:15
Alignment explanation
Indices: 188231805--188231884 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
188231795 CAAAGATAAC
*
188231805 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
188231819 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
188231834 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
188231849 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
188231864 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
188231879 AAGAAA
1 AAGAAA
188231885 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:188231893 original size:15 final size:15
Alignment explanation
Indices: 188231816--188231893 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
188231806 AGAAAACCGA
188231816 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
188231831 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
188231845 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
188231860 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
188231876 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
188231891 ATA
1 ATA
188231894 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:188234956 original size:93 final size:93
Alignment explanation
Indices: 188234844--188235015 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
188234834 GCCCATAAGT
* *
188234844 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188234909 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
188234937 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188235002 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
188235016 AAATCCAGTG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:188235011 original size:46 final size:46
Alignment explanation
Indices: 188234836--188235011 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
188234826 TGTAACCCGC
* * *
188234836 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
188234882 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
188234932 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
188234975 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
188235012 TGCCAAATCC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:188237433 original size:30 final size:30
Alignment explanation
Indices: 188237388--188237476 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
188237378 CAAAGATAAC
*
188237388 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
188237417 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
188237447 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
188237477 TGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:188237436 original size:15 final size:14
Alignment explanation
Indices: 188237388--188237470 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
188237378 CAAAGATAAC
*
188237388 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
188237402 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
188237417 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
188237432 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
188237447 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
188237462 AAGAAACCC
1 AAGAAACCC
188237471 AAGATATGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:188237476 original size:15 final size:15
Alignment explanation
Indices: 188237399--188237476 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
188237389 AGAAAACCGA
188237399 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
188237414 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
188237428 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
188237443 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
188237459 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
188237474 ATA
1 ATA
188237477 TGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:188239679 original size:46 final size:46
Alignment explanation
Indices: 188239611--188239701 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
188239601 TATATATACA
* *
188239611 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* * *
188239657 CATCTCATACGCATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
188239702 ATACACTTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:188239746 original size:47 final size:47
Alignment explanation
Indices: 188239675--188240195 Score: 873
Period size: 47 Copynumber: 11.1 Consensus size: 47
188239665 ACGCATTTCG
* * * * * * *
188239675 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCA-TGTTCACATTCATCA
188239722 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
* * *
188239769 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
*
188239816 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACAATCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
188239863 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
* * *
188239910 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCGTCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
*
188239957 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
188240004 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
* *
188240051 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCGTCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
188240098 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
188240145 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
188240192 CATT
1 CATT
188240196 AAATCCTAAA
Statistics
Matches: 446, Mismatches: 27, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
46 1 0.00
47 445 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
Found at i:188243973 original size:40 final size:40
Alignment explanation
Indices: 188243909--188244347 Score: 662
Period size: 40 Copynumber: 11.0 Consensus size: 40
188243899 GAATACACAT
* *
188243909 CACCAGCATGAATGCTCTTCGGGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
188243949 CACTAGTACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
188243989 CTCCAGCACGAATGCTCTTCGAGATTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
188244029 CACCAGCACGTATGCTCTTCGGGACTTAGCCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
188244069 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
188244109 CTCGAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
188244149 CACCAGCACGTATGCTCTTCGGGACTTAACCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
188244189 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
188244229 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
188244269 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
188244309 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
188244348 TAACTCTCAA
Statistics
Matches: 364, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 364 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:188245849 original size:49 final size:49
Alignment explanation
Indices: 188245777--188245945 Score: 293
Period size: 49 Copynumber: 3.4 Consensus size: 49
188245767 NNNNNNNNNN
*
188245777 TCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACA
1 TCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACA
*
188245826 TCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACA
1 TCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACA
*
188245875 TCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCA
1 TCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACA
* *
188245924 TTGGCCATTCGGCCTTATCACA
1 TCGGCCATTAGGCCTTATCACA
188245946 CATATATGTA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 114 1.00
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.30
Consensus pattern (49 bp):
TCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACA
Found at i:188253660 original size:40 final size:40
Alignment explanation
Indices: 188253605--188253707 Score: 197
Period size: 40 Copynumber: 2.6 Consensus size: 40
188253595 TGAATGATAC
188253605 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
188253645 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
*
188253685 CCGGGCTAAGACCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
188253708 CGTGCAAGTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:188253727 original size:40 final size:40
Alignment explanation
Indices: 188253605--188253765 Score: 196
Period size: 40 Copynumber: 4.0 Consensus size: 40
188253595 TGAATGATAC
*
188253605 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
188253645 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
** * * ** *
188253685 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
188253725 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
188253765 C
1 C
188253766 TGGCTAAATT
Statistics
Matches: 103, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:188263084 original size:13 final size:13
Alignment explanation
Indices: 188263066--188263094 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
188263056 GGTTATTTAT
188263066 TAAACTAATTAAC
1 TAAACTAATTAAC
188263079 TAAACTAATTAAC
1 TAAACTAATTAAC
188263092 TAA
1 TAA
188263095 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:188273497 original size:29 final size:29
Alignment explanation
Indices: 188273464--188273566 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
188273454 GTGACGAGAT
188273464 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
188273493 TGGCACTAAGTGTGCTTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
188273522 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
188273551 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
188273567 AGTTCGGAGG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:188285036 original size:79 final size:82
Alignment explanation
Indices: 188284896--188285080 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
188284886 TCGAATGATG
* * *
188284896 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
188284960 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
188284976 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
188285038 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
188285056 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
188285081 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:188285088 original size:40 final size:40
Alignment explanation
Indices: 188284897--188285088 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
188284887 CGAATGATGT
* * * * *
188284897 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
188284937 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
188284977 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
188285016 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
188285056 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
188285089 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:188285111 original size:79 final size:79
Alignment explanation
Indices: 188284896--188285113 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
188284886 TCGAATGATG
* * * * ** *
188284896 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
188284959 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
188284976 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
188285041 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
188285056 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
188285114 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:188293068 original size:79 final size:82
Alignment explanation
Indices: 188292928--188293112 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
188292918 TCGAATGATG
* * *
188292928 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
188292992 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
188293008 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
188293070 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
188293088 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
188293113 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:188293120 original size:40 final size:40
Alignment explanation
Indices: 188292929--188293120 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
188292919 CGAATGATGT
* * * * *
188292929 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
188292969 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
188293009 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
188293048 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
188293088 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
188293121 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:188293143 original size:79 final size:79
Alignment explanation
Indices: 188292928--188293145 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
188292918 TCGAATGATG
* * * * ** *
188292928 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
188292991 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
188293008 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
188293073 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
188293088 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
188293146 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:188301115 original size:79 final size:82
Alignment explanation
Indices: 188300975--188301159 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
188300965 TCGAATGATG
* * *
188300975 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
188301039 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
188301055 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
188301117 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
188301135 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
188301160 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:188301167 original size:40 final size:40
Alignment explanation
Indices: 188300976--188301167 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
188300966 CGAATGATGT
* * * * *
188300976 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
188301016 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
188301056 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
188301095 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
188301135 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
188301168 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:188301190 original size:79 final size:79
Alignment explanation
Indices: 188300975--188301192 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
188300965 TCGAATGATG
* * * * ** *
188300975 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
188301038 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
188301055 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
188301120 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
188301135 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
188301193 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:188304588 original size:93 final size:93
Alignment explanation
Indices: 188304429--188304599 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
188304419 GCCCATAAGT
* *
188304429 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188304494 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
188304522 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188304587 CGAGTTCGGATGC
66 CGAGTTCGGATGC
188304600 TCAACTATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:188304596 original size:46 final size:46
Alignment explanation
Indices: 188304421--188304596 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
188304411 TGTAACCCGC
* * *
188304421 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
188304467 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
188304517 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
188304560 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
188304597 TGCTCAACTA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:188309199 original size:93 final size:93
Alignment explanation
Indices: 188309087--188309257 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
188309077 GCCCATAAGT
* *
188309087 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188309152 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
188309180 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
188309245 CGAGTTCGGATGC
66 CGAGTTCGGATGC
188309258 TCAACTATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:188309254 original size:46 final size:46
Alignment explanation
Indices: 188309079--188309254 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
188309069 TGTAACCCGC
* * * *
188309079 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
188309125 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
188309175 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
188309218 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
188309255 TGCTCAACTA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:188316435 original size:79 final size:82
Alignment explanation
Indices: 188316295--188316479 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
188316285 TCGAATGATG
* * *
188316295 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
188316359 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
188316375 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
188316437 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
188316455 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
188316480 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:188316487 original size:40 final size:40
Alignment explanation
Indices: 188316296--188316487 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
188316286 CGAATGATGT
* * * * *
188316296 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
188316336 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
188316376 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
188316415 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
188316455 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
188316488 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:188316510 original size:79 final size:79
Alignment explanation
Indices: 188316295--188316512 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
188316285 TCGAATGATG
* * * * ** *
188316295 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
188316358 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
188316375 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
188316440 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
188316455 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
188316513 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:188327998 original size:21 final size:21
Alignment explanation
Indices: 188327969--188328010 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
188327959 TATTAAAAGG
* *
188327969 TATATATACATACGTAATATA
1 TATAAATACATACATAATATA
*
188327990 TATAAATACATATATAATATA
1 TATAAATACATACATAATATA
188328011 ATTGTGAAAA
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:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (21 bp):
TATAAATACATACATAATATA
Found at i:188332934 original size:15 final size:14
Alignment explanation
Indices: 188332903--188332947 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
188332893 AATATATGCC
* *
188332903 TATATATATATATA
1 TATATATATAAACA
*
188332917 TATATAT-TAAAGA
1 TATATATATAAACA
188332930 TATATATATAAACA
1 TATATATATAAACA
188332944 TATA
1 TATA
188332948 CTAACATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (14 bp):
TATATATATAAACA
Found at i:188333112 original size:25 final size:24
Alignment explanation
Indices: 188333078--188333153 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 24
188333068 ATAGTAAGAA
*
188333078 ATATACAATACATA-ACATTAAAAAT
1 ATATATAATA-ATATACA-TAAAAAT
*
188333103 ATATATAATAATATACATAAATAT
1 ATATATAATAATATACATAAAAAT
* *
188333127 ATAATATATATATTATA-ATAATAAT
1 AT-ATATA-ATAATATACATAAAAAT
188333152 AT
1 AT
188333154 GAAAAAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 11 0.26
25 25 0.58
26 7 0.16
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATATAATAATATACATAAAAAT
Found at i:188333139 original size:31 final size:30
Alignment explanation
Indices: 188333085--188333146 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
188333075 GAAATATACA
188333085 ATACATAACATTAAAAATATATATAATAAT
1 ATACATAACATTAAAAATATATATAATAAT
* *
188333115 ATACATAA-ATATATAATATATATATTATAAT
1 ATACATAACAT-TA-AAAATATATATAATAAT
188333146 A
1 A
188333147 ATAATATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 10 0.36
31 16 0.57
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (30 bp):
ATACATAACATTAAAAATATATATAATAAT
Found at i:188333150 original size:20 final size:19
Alignment explanation
Indices: 188333101--188333153 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
188333091 AACATTAAAA
188333101 ATATAT-ATAATAATATAC
1 ATATATAATAATAATATAC
* *
188333119 ATAAAT-AT-ATAATATAT
1 ATATATAATAATAATATAC
188333136 ATATTATAATAATAATAT
1 ATA-TATAATAATAATAT
188333154 GAAAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 11 0.38
18 9 0.31
19 2 0.07
20 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATAATAATAATATAC
Found at i:188337605 original size:20 final size:20
Alignment explanation
Indices: 188337580--188337620 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
188337570 GATCCCAGAG
188337580 ATAGTTTTGGTGCACAAGAA
1 ATAGTTTTGGTGCACAAGAA
188337600 ATAGTTTTGGTGCACAAGAA
1 ATAGTTTTGGTGCACAAGAA
188337620 A
1 A
188337621 GCTTAGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (20 bp):
ATAGTTTTGGTGCACAAGAA
Found at i:188338541 original size:8 final size:8
Alignment explanation
Indices: 188338528--188338558 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
188338518 ATATAGATAT
188338528 TTCATACA
1 TTCATACA
188338536 TTCATACA
1 TTCATACA
188338544 TTCATACA
1 TTCATACA
188338552 TTCATAC
1 TTCATAC
188338559 TAAAATACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (8 bp):
TTCATACA
Found at i:188339989 original size:24 final size:24
Alignment explanation
Indices: 188339961--188340024 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
188339951 GCTGAAACGA
188339961 TAAGCT-TTGACAAGCTAAAAATAG
1 TAAGCTCTT-ACAAGCTAAAAATAG
* * *
188339985 TAAGCTCTTACGAGCTGAGAATAG
1 TAAGCTCTTACAAGCTAAAAATAG
*
188340009 TAAGCTCTTACGAGCT
1 TAAGCTCTTACAAGCT
188340025 GATATATCGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 34 0.94
25 2 0.06
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (24 bp):
TAAGCTCTTACAAGCTAAAAATAG
Found at i:188340025 original size:24 final size:24
Alignment explanation
Indices: 188339980--188340026 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
188339970 ACAAGCTAAA
188339980 AATAGTAAGCTCTTACGAGCTGAG
1 AATAGTAAGCTCTTACGAGCTGAG
188340004 AATAGTAAGCTCTTACGAGCTGA
1 AATAGTAAGCTCTTACGAGCTGA
188340027 TATATCGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (24 bp):
AATAGTAAGCTCTTACGAGCTGAG
Found at i:188341645 original size:18 final size:18
Alignment explanation
Indices: 188341622--188341657 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
188341612 GAAATCCCTA
188341622 GGTTGATTAATTGAAATC
1 GGTTGATTAATTGAAATC
188341640 GGTTGATTAATTGAAATC
1 GGTTGATTAATTGAAATC
188341658 TCTTTCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (18 bp):
GGTTGATTAATTGAAATC
Found at i:188344137 original size:16 final size:15
Alignment explanation
Indices: 188344109--188344145 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
188344099 TCTAAGAAAA
188344109 TAAAAATAAAACAAC
1 TAAAAATAAAACAAC
188344124 TAAAAAT--AACAAC
1 TAAAAATAAAACAAC
188344137 -AAAAATAAA
1 TAAAAATAAA
188344146 CATAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.30
13 6 0.30
14 1 0.05
15 7 0.35
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.14
Consensus pattern (15 bp):
TAAAAATAAAACAAC
Found at i:188344147 original size:13 final size:14
Alignment explanation
Indices: 188344109--188344147 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
188344099 TCTAAGAAAA
188344109 TAAAAATAAAACAAC
1 TAAAAAT-AAACAAC
188344124 TAAAAAT-AACAAC
1 TAAAAATAAACAAC
188344137 -AAAAATAAACA
1 TAAAAATAAACA
188344148 TAAAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
15 7 0.30
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (14 bp):
TAAAAATAAACAAC
Found at i:188345854 original size:21 final size:20
Alignment explanation
Indices: 188345830--188345895 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
188345820 GACTAAATAT
*
188345830 AATAAACAAAATAATAATAAC
1 AATAAA-AAAATAATAATAAA
** *
188345851 AATAAAGGCAATAGTAATAAA
1 AATAAA-AAAATAATAATAAA
*
188345872 AATAAAAAAATAA-AATAGA
1 AATAAAAAAATAATAATAAA
188345891 AATAA
1 AATAA
188345896 TTACAGAACT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 10 0.28
20 4 0.11
21 22 0.61
ACGTcount: A:0.71, C:0.05, G:0.06, T:0.18
Consensus pattern (20 bp):
AATAAAAAAATAATAATAAA
Found at i:188346527 original size:22 final size:23
Alignment explanation
Indices: 188346501--188346546 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
188346491 CAACCAAACC
188346501 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
188346523 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
188346546 A
1 A
188346547 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:188348314 original size:40 final size:40
Alignment explanation
Indices: 188348270--188348477 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
188348260 CGGAATACAA
* *
188348270 CCGGATATAACCACATGCACGAATGCCTTCGAGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGAGTCTTAGC
* * * * *
188348310 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGAGTCTTAGC
*
188348350 CCGGATTTAACAACTTGCACGAATGCCTTCGAGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGAGTCTTAGC
* * * * * *
188348390 CCGGATTTAGTC-ACTAGCA-TAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACGAA-TGCCTTCGAGTCTTAGC
* * * ** * * *
188348430 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGAGTCTTAGC
188348470 CCGGATAT
1 CCGGATAT
188348478 CATTTAATTG
Statistics
Matches: 141, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 135 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGAGTCTTAGC
Found at i:188348417 original size:80 final size:81
Alignment explanation
Indices: 188348270--188348475 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
188348260 CGGAATACAA
* * * *
188348270 CCGGATATAACCACATGCACGAATGCCTTCGAGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGAGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
188348334 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
188348350 CCGGATTTAACAACTTGCACGAATGCCTTCGAGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGAGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
188348413 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * * *
188348430 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGAGTCTTAGCCCGGAT
188348476 ATCATTTAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 103 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGAGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Done.