Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1688
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: 613586
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 4
Found at i:170387 original size:32 final size:32
Alignment explanation
Indices: 170300--170393 Score: 120
Period size: 31 Copynumber: 2.9 Consensus size: 32
170290 CATAAGTCGG
170300 TGGCAACCTTTTTATAAAGCCCACACAAGT-TAA
1 TGGCAACC-TTTT-TAAAGCCCACACAAGTCTAA
* * *
170333 AGGTAACCCTTTTAAAGCCCACACAAGTCT-A
1 TGGCAACCTTTTTAAAGCCCACACAAGTCTAA
170364 TGGCAACCTTTTTCAAAGCCCACACAAGTC
1 TGGCAACCTTTTT-AAAGCCCACACAAGTC
170394 AGTGGCATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
31 27 0.51
32 20 0.38
33 6 0.11
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (32 bp):
TGGCAACCTTTTTAAAGCCCACACAAGTCTAA
Found at i:170400 original size:32 final size:29
Alignment explanation
Indices: 170130--170400 Score: 126
Period size: 28 Copynumber: 9.2 Consensus size: 29
170120 CATGACTCAA
* * *
170130 TGGC-ACCTTCTCAAAGCCCAAAAGTTAG
1 TGGCAACCTTTTCAAAGCCCACAAGTCAG
* * *
170158 TGGC-ACCTTTTTAAATCCCACAAGTCAA
1 TGGCAACCTTTTCAAAGCCCACAAGTCAG
* * * *
170186 TGGC-ACCCTCTCAAAGCCCAGAAG-CTG
1 TGGCAACCTTTTCAAAGCCCACAAGTCAG
* * * *
170213 ATAGCATCCCCTCTCAAAGCCCACAAGTCAG
1 -TGGCA-ACCTTTTCAAAGCCCACAAGTCAG
* * * *
170244 TGAC-ACCCTCTCAAAGCCCACAAGTTAG
1 TGGCAACCTTTTCAAAGCCCACAAGTCAG
* * * *
170272 TGGC-ACCCTCTCAAAGCCCATAAGTCGG
1 TGGCAACCTTTTCAAAGCCCACAAGTCAG
* * *
170300 TGGCAACCTTTTTATAAAGCCCACACAAGTTAA
1 TGGCAACC-TTTT-CAAAG-CC-CACAAGTCAG
* *
170333 AGGTAACCCTTTT-AAAGCCCACACAAGTCTA-
1 TGGCAA-CCTTTTCAAAG-CC-CACAAGTC-AG
170364 TGGCAACCTTTTTCAAAGCCCACACAAGTCAG
1 TGGCAACC-TTTTCAAAG-CC-CACAAGTCAG
170396 TGGCA
1 TGGCA
170401 TTTCTTTCTA
Statistics
Matches: 192, Mismatches: 37, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.01
28 94 0.49
29 3 0.02
30 24 0.12
31 30 0.16
32 24 0.12
33 14 0.07
34 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (29 bp):
TGGCAACCTTTTCAAAGCCCACAAGTCAG
Found at i:170465 original size:52 final size:52
Alignment explanation
Indices: 170409--170810 Score: 349
Period size: 52 Copynumber: 7.8 Consensus size: 52
170399 CATTTCTTTC
* ** * *
170409 TAAGTCTAATGTCACTAACCTTAAATCAACACATTGGCACCCTTATCATTTT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCCTTATCATTTT
* * ** * **
170461 TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCCT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCCTTATCATTTT
* ** ** * * * * *
170513 TAGGTCCAATGTTGCTGGCCTTGAATCATTACGTTGGCACTCATCTC-TTTC
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCCTTATCATTTT
* * * *
170564 TATGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCCTTATCATTTT
** * * * * * *
170616 TAAGTCTGATATCGCTAGCCTTGAATCAGTATATTGGCACCTTTATCA-TTT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCCTTATCATTTT
* * * * *
170667 TAAGCCCAATGTCGCTAGCTTTGAATTAGCACATTGGCACCCTTATCATTTT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCCTTATCATTTT
** * * *
170719 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCATTCTTCTTATCTT
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCCTTATCATTTT
* ** * *
170771 TAAGTCCAATTTTGCTAGCCTTGAATCAGCATATTGGCAC
1 TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
170811 TCTTCACATC
Statistics
Matches: 276, Mismatches: 72, Indels: 4
0.78 0.20 0.01
Matches are distributed among these distances:
51 79 0.29
52 197 0.71
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (52 bp):
TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCCTTATCATTTT
Found at i:170613 original size:103 final size:103
Alignment explanation
Indices: 170439--170810 Score: 340
Period size: 103 Copynumber: 3.6 Consensus size: 103
170429 TTAAATCAAC
* * *
170439 ACATTGGCACCCTT-ATCATTTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCA-TT
1 ACATTGGCA-CCTTCATCA-TTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCT
* * * * *
170502 CTTCTCATCCTTAGGTCCAATGTTGCTGGCCTTGAATCATT
64 -TTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGT
* * *
170543 ACGTTGGCA-C-TCATCTCTTTCTATGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCT
1 ACATTGGCACCTTCATC-ATTT-TAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCT
* ** * *
170606 TTGTCATCTTTAAGTCTGATATCGCTAGCCTTGAATCAGT
64 TTATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGT
* * * * * * * *
170646 ATATTGGCACCTTTATCATTTTAAGCCCAATGTCGCTAGCTTTGAATTAGCACATTGGCACCCTT
1 ACATTGGCACCTTCATCATTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTT
* * *
170711 ATCATTTTTAAGTCCAATGTCACTGGCCTTGAATCAGC
66 ATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGT
* * * ** * *
170749 ACATTGGCATTCTTC-TTATCTTTAAGTCCAATTTTGCTAGCCTTGAATCAGCATATTGGCAC
1 ACATTGGCA-CCTTCATCAT-TTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
170811 TCTTCACATC
Statistics
Matches: 216, Mismatches: 44, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
101 1 0.00
102 7 0.03
103 152 0.70
104 52 0.24
105 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (103 bp):
ACATTGGCACCTTCATCATTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTT
ATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGT
Found at i:170726 original size:155 final size:155
Alignment explanation
Indices: 170403--170823 Score: 458
Period size: 155 Copynumber: 2.7 Consensus size: 155
170393 CAGTGGCATT
* ** * * * *
170403 TCTTTCTAAGTCTAATGTCACTAACCTTAAATCAACACATTGGCACCCTTATCATTTTTAAGTCC
1 TCTTTCTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCA-CCTTTTCATCTTTAAGTCC
* * * * * * * *
170468 AATATCACTGGCCTTGAATCAGCATATTGGCA-TTCTTCTCATCCTTAGGTCCAATGTTGCTGGC
65 AATATCGCTAGCCTTGAATCAGCATATTGGCACCTCTTATCATCCTTAAGCCCAATGTCGCTAGC
** * * *
170532 CTTGAATCATTACGTTGGCACTCATC
130 CTTGAATCAGCACATTGGCACCCATA
* *
170558 TCTTTCTATGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGTCT
1 TCTTTCTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTT-TCATCTTTAAGTCC
* * *
170623 GATATCGCTAGCCTTGAATCAGTATATTGGCACCT-TTATCAT-TTTAAGCCCAATGTCGCTAGC
65 AATATCGCTAGCCTTGAATCAGCATATTGGCACCTCTTATCATCCTTAAGCCCAATGTCGCTAGC
* * *
170686 TTTGAATTAGCACATTGGCACCCTTA
130 CTTGAATCAGCACATTGGCACCCATA
* *
170712 TCATTTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCATTCTTCTT-ATCTTTAAGT
1 TC-TTTCTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCA-CCTT-TTCATCTTTAAGT
* *
170776 CCAATTTTGCTAGCCTTGAATCAGCATATTGGCA-CTCTTCA-CATCCTT
63 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTCTT-ATCATCCTT
170824 TTTATCATTT
Statistics
Matches: 221, Mismatches: 37, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
154 42 0.19
155 170 0.77
156 8 0.04
157 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.36
Consensus pattern (155 bp):
TCTTTCTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCA
ATATCGCTAGCCTTGAATCAGCATATTGGCACCTCTTATCATCCTTAAGCCCAATGTCGCTAGCC
TTGAATCAGCACATTGGCACCCATA
Found at i:173313 original size:70 final size:70
Alignment explanation
Indices: 173175--173332 Score: 176
Period size: 70 Copynumber: 2.3 Consensus size: 70
173165 AAAATTTTAT
* * * **
173175 TCATCGGGGATATTCCAACCTCGTTTTTAAACTTATCAAAATCTAAACCTTATTCTTACTTAAAT
1 TCATTGGGGATACTCCAACCTCGTTTTTAAACTTATCAAAATCTAAACCTTATTCTCACCCAAAT
173240 TGTCA
66 TGTCA
* * * *
173245 TCATTGGGGATACTCCAACC-CTGTTTTTAAACTTGTCAAGATTTAAATCTTAATT-TCACCCAA
1 TCATTGGGGATACTCCAACCTC-GTTTTTAAACTTATCAAAATCTAAACCTT-ATTCTCACCCAA
*
173308 GTTGTCA
64 ATTGTCA
* *
173315 TCTTTAGGGATACTCCAA
1 TCATTGGGGATACTCCAA
173333 ATTCCTTTGA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
69 1 0.01
70 70 0.95
71 3 0.04
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (70 bp):
TCATTGGGGATACTCCAACCTCGTTTTTAAACTTATCAAAATCTAAACCTTATTCTCACCCAAAT
TGTCA
Found at i:174735 original size:20 final size:21
Alignment explanation
Indices: 174675--174746 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
174665 TTCAGTAATT
*
174675 TGTATCGATACAATAAG-GTAA
1 TGTATCGATAC-ATAAGTGAAA
174696 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
***
174716 TGTATCGATACATGTTTGAAA
1 TGTATCGATACATAAGTGAAA
174737 TGTATCGATA
1 TGTATCGATA
174747 TAGGACCATG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
20 22 0.48
21 24 0.52
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:174746 original size:21 final size:20
Alignment explanation
Indices: 174675--174728 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
174665 TTCAGTAATT
174675 TGTATCGATACAATAAG-GTAA
1 TGTATCGATAC-ATAAGTG-AA
174696 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
174716 TGTATCGATACAT
1 TGTATCGATACAT
174729 GTTTGAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:174898 original size:52 final size:48
Alignment explanation
Indices: 174790--174923 Score: 146
Period size: 52 Copynumber: 2.7 Consensus size: 48
174780 ACAGAAAAGA
*
174790 TATCGAAACATTTTTATTA-TATCGATACATTCTGGATTTATCCAAATG
1 TATCGATACATTTTT-TTAGTATCGATACATTCTGGATTTATCCAAATG
* * *
174838 TATCGATACATTTTTTGTAGTATCGATACATTTTAGGTTTTTGATCCAGATG
1 TATCGATACATTTTTT-TAGTATCGATACATTCT-GG-ATTT-ATCCAAATG
*
174890 TATCGATACATTATTCATT-GTATCGATACATTCT
1 TATCGATACATT-TT-TTTAGTATCGATACATTCT
174924 TCAATGTATC
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 16 0.22
49 13 0.18
50 2 0.03
51 3 0.04
52 34 0.47
53 3 0.04
54 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (48 bp):
TATCGATACATTTTTTTAGTATCGATACATTCTGGATTTATCCAAATG
Found at i:174913 original size:20 final size:20
Alignment explanation
Indices: 174887--174933 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
174877 TTTGATCCAG
174887 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
* *
174907 TTGTATCGATACATTCTTCA
1 ATGTATCGATACATTATTCA
174927 ATGTATC
1 ATGTATC
174934 AATATATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:178556 original size:89 final size:88
Alignment explanation
Indices: 178396--178690 Score: 272
Period size: 89 Copynumber: 3.3 Consensus size: 88
178386 TAACCTACGC
* * * * * *
178396 AAGCCTAATTTCCTTTGGGCAAGGGTGTAGCCCACACATTCCTAATCATATC-CCTTTCACCCAA
1 AAGCCTAATTTCCTTGGGGCAA-GGTGCAACCCATACATTCCCAATCATATCTCC-TTCATCCAA
* *
178460 CCACTAGATGGTATTAATGTATTACA
64 -CACTAGATGGTATTAATGCATCACA
* *
178486 AAGCTTAATTTCCTTGGGGCAAGGTGCAACCCATACATTCCCAATCATATCTCCTTAATCCAATC
1 AAGCCTAATTTCCTTGGGGCAAGGTGCAACCCATACATTCCCAATCATATCTCCTTCATCCAA-C
* *
178551 GCTAGATGGTATTAATACATCACA
65 ACTAGATGGTATTAATGCATCACA
* * * * * * *
178575 AAACCTGATTTTCTTAGGGCATGGATATCTAGACCACAT--ATTCTCAATCATATCTCCTTCATC
1 AAGCCTAATTTCCTTGGGGCAAGG-T-GC-A-ACC-CATACATTCCCAATCATATCTCCTTCATC
* * *
178638 CAACTACTAGATGGTATTGATGGATCATA
61 CAAC-ACTAGATGGTATTAATGCATCACA
*
178667 AAGCCTAATTTTCTTGGGGCAAGG
1 AAGCCTAATTTCCTTGGGGCAAGG
178691 ATATCCCAAC
Statistics
Matches: 167, Mismatches: 31, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
89 71 0.43
90 23 0.14
91 2 0.01
92 65 0.39
93 3 0.02
94 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (88 bp):
AAGCCTAATTTCCTTGGGGCAAGGTGCAACCCATACATTCCCAATCATATCTCCTTCATCCAACA
CTAGATGGTATTAATGCATCACA
Found at i:178648 original size:92 final size:91
Alignment explanation
Indices: 178427--178724 Score: 236
Period size: 92 Copynumber: 3.3 Consensus size: 91
178417 AGGGTGTAGC
* * * * ** * * *
178427 CCACACATTCCTAATCATATC-CCTTTCACCCAACCACTAGATGGTATTAATGTATTACAAAGCT
1 CCACATATTCC-AATCATATCTCC-TTAATCCAATCACTAGATGGTATTAATACATCACAAAACC
* * *
178491 TAATTTCCTTGGGGCAAGG---T-GCAA
64 TAATTTTCTTAGGGCAAGGATATCCCAA
*
178515 CC-CATACATTCCCAATCATATCTCCTTAATCCAATCGCTAGATGGTATTAATACATCACAAAAC
1 CCACAT--ATT-CCAATCATATCTCCTTAATCCAATCACTAGATGGTATTAATACATCACAAAAC
* * *
178579 CTGATTTTCTTAGGGCATGGATAT-CTAGA
63 CTAATTTTCTTAGGGCAAGGATATCCCA-A
* * ** * *
178608 CCACATATTCTCAATCATATCTCCTTCATCCAA-CTACTAGATGGTATTGATGGATCATAAAGCC
1 CCACATATTC-CAATCATATCTCCTTAATCCAATC-ACTAGATGGTATTAATACATCACAAAACC
*
178672 TAATTTTCTTGGGGCAAGGATATCCCAA
64 TAATTTTCTTAGGGCAAGGATATCCCAA
*
178700 CCACTTATTCCTAATCATATC-CCTT
1 CCACATATTCC-AATCATATCTCCTT
178725 TCTTTTAGCC
Statistics
Matches: 169, Mismatches: 28, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
87 2 0.01
88 2 0.01
89 58 0.34
90 4 0.02
91 7 0.04
92 88 0.52
93 5 0.03
94 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (91 bp):
CCACATATTCCAATCATATCTCCTTAATCCAATCACTAGATGGTATTAATACATCACAAAACCTA
ATTTTCTTAGGGCAAGGATATCCCAA
Found at i:178879 original size:30 final size:29
Alignment explanation
Indices: 178845--178939 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
178835 ACTTTTGTTC
*
178845 GACTATACTTGTTCAAGTTTTTCCTCACTT
1 GACTATACTTGATCAAGTTTTT-CTCACTT
* * *
178875 GACTATATTTGATCAAGTCTTTCATTA-TT
1 GACTATACTTGATCAAGTTTTTC-TCACTT
* * *
178904 GGACTATACTCGATCAAATTTTT-TCGCTT
1 -GACTATACTTGATCAAGTTTTTCTCACTT
178933 GACTATA
1 GACTATA
178940 TCTGGTCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
28 8 0.15
29 5 0.10
30 39 0.75
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (29 bp):
GACTATACTTGATCAAGTTTTTCTCACTT
Found at i:179125 original size:44 final size:42
Alignment explanation
Indices: 178985--179611 Score: 304
Period size: 44 Copynumber: 14.3 Consensus size: 42
178975 TTAGTGTTTA
* * *
178985 ACCCTAGTCAAACTCTTCTCATTTTGATCTGATGTATGGTTACC
1 ACCCTGGTCAAA-TCTTCTCATTTT-ATTTGACGTATGGTTACC
* * * * * * *
179029 ACCCTAGAT-AGATTCTTTTCATTCTGATTTGATGCATGGTTACT
1 ACCCT-GGTCA-AATCTTCTCATT-TTATTTGACGTATGGTTACC
* * * * *
179073 ATCTTGGTCAAATCTGCCTCCTTCCTATTTGACGTATGGTTACC
1 ACCCTGGTCAAATCT-TCTCATT-TTATTTGACGTATGGTTACC
* ** *
179117 ACCCTGGTCAAACTCTTTTCAAGTCAGTTTGACGTA-GTGTTACC
1 ACCCTGGTCAAA-TCTTCTCATTTTA-TTTGACGTATG-GTTACC
* * * * * *
179161 ACCCTAGTCAAATGTTTTTCAAGTTAATTTGACGTAAGGTTACC
1 ACCCTGGTCAAAT-CTTCTC-ATTTTATTTGACGTATGGTTACC
* * *
179205 ACCTTGGTCAAACTCTTCTCATTTTGATCTGATGTATGGTTACC
1 ACCCTGGTCAAA-TCTTCTCATTTT-ATTTGACGTATGGTTACC
* * * * * * * *
179249 ATCCTGGTTAGATTCTTTTCATTATGATTTAACATATAGTTACC
1 ACCCTGGTCA-AATCTTCTCATT-TTATTTGACGTATGGTTACC
* * * * * * *
179293 ACACTGGTCAAATCTGCCTCCTTCTTGTCTGACGTAAGGTTACT
1 ACCCTGGTCAAATCT-TCTCATT-TTATTTGACGTATGGTTACC
** *
179337 ACCCTGGTCAAACTCTTCTCATTTCGGTCTGACGTATGGTTACC
1 ACCCTGGTCAAA-TCTTCTCATTT-TATTTGACGTATGGTTACC
* * *
179381 ACCCTAGTCAGATTCTTTTCATTTTGATTTGACGTATGGTTACC
1 ACCCTGGTCA-AATCTTCTCATTTT-ATTTGACGTATGGTTACC
** * * * *
179425 ACCCAAGTCAAATCTACCTCTTTCTTGTTTGATGTATGGTTACC
1 ACCCTGGTCAAATCT-TCTCATT-TTATTTGACGTATGGTTACC
* * * *
179469 ACCCTGGTCGAACTCTTCTTATTTTGGTTTGACATATGGTTACC
1 ACCCTGGTC-AAATCTTCTCATTTT-ATTTGACGTATGGTTACC
* * * ** * * *
179513 ACCCTAGTCAAACTTTTTTCAAGTCAGTTTGACATATGGATACC
1 ACCCTGGTCAAA-TCTTCTCATTTTA-TTTGACGTATGGTTACC
* * ** * *
179557 ACCCTGGTCAGACTCTTTTCATTCTTGCTTAACATATGGTTACC
1 ACCCTGGTCA-AATCTTCTCATT-TTATTTGACGTATGGTTACC
*
179601 ACCCTAGTCAA
1 ACCCTGGTCAA
179612 GCTCATTTCA
Statistics
Matches: 437, Mismatches: 118, Indels: 57
0.71 0.19 0.09
Matches are distributed among these distances:
43 26 0.06
44 385 0.88
45 26 0.06
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (42 bp):
ACCCTGGTCAAATCTTCTCATTTTATTTGACGTATGGTTACC
Found at i:179247 original size:88 final size:85
Alignment explanation
Indices: 179099--179611 Score: 356
Period size: 88 Copynumber: 5.9 Consensus size: 85
179089 CCTCCTTCCT
* ** *
179099 ATTTGACGTATGGTTACCACCCTGGTCAAACTCTTTTCA-AGTCAGTTTGACGTA-GTGTTACCA
1 ATTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTTGA-TTTGACGTATG-GTTACCA
179162 CCCTAGTCAAATGTTTTTCAAGTTA
64 CCCTAGTCAAAT-TTTTTC-A-TTA
* * * * *
179187 ATTTGACGTAAGGTTACCACCTTGGTCAAACTCTTCTCATTTTGATCTGATGTATGGTTACCATC
1 ATTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTTGATTTGACGTATGGTTACCACC
* * *
179252 CTGGTTAGATTCTTTTCATTA
66 CTAGTCAAATT-TTTTCATTA
* * * * * * * *
179273 TGATTTAACATATAGTTACCACACTGGTCAAA-TCTGCCTCCTTCTTG-TCTGACGTAAGGTTAC
1 --ATTTGACGTATGGTTACCACCCTGGTCAAACTCT-TCTCATT-TTGATTTGACGTATGGTTAC
* * * * *
179336 TACCCTGGTCAAACTCTTCTCATTTCG
62 CACCCTAGTCAAA-TTTTTTCA-TT-A
* * * * * *
179363 GTCTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGACGTATGGTTACCACC
1 ATTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTTGATTTGACGTATGGTTACCACC
*
179428 CAAGTCAAATCTACCTCTTTC-TT-
66 CTAGTCAAAT-T---T-TTTCATTA
* * * * * *
179451 GTTTGATGTATGGTTACCACCCTGGTCGAACTCTTCTTATTTTGGTTTGACATATGGTTACCACC
1 ATTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTTGATTTGACGTATGGTTACCACC
*
179516 CTAGTCAAACTTTTTTCAAGTCA
66 CTAGTCAAA-TTTTTTC-A-TTA
* * * * * * * *
179539 GTTTGACATATGGATACCACCCTGGTCAGACTCTTTTCATTCTTG-CTTAACATATGGTTACCAC
1 ATTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATT-TTGATTTGACGTATGGTTACCAC
179603 CCTAGTCAA
65 CCTAGTCAA
179612 GCTCATTTCA
Statistics
Matches: 334, Mismatches: 68, Indels: 46
0.75 0.15 0.10
Matches are distributed among these distances:
84 4 0.01
85 1 0.00
86 3 0.01
87 10 0.03
88 294 0.88
89 16 0.05
90 2 0.01
91 1 0.00
92 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (85 bp):
ATTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTTGATTTGACGTATGGTTACCACC
CTAGTCAAATTTTTTCATTA
Found at i:179582 original size:132 final size:132
Alignment explanation
Indices: 179102--179657 Score: 464
Period size: 132 Copynumber: 4.2 Consensus size: 132
179092 CCTTCCTATT
* * *
179102 TGACGTATGGTTACCACCCTGGTCAAACTCTTTTCAAGTCAG-TTTGACGTA-GTGTTACCACCC
1 TGACGTATGGTTACCACCCTAGTCAAATTCTTTTC-AGTCAGATTTGACATATG-GTTACCACCC
* *** * ** *
179165 TAGTCAAATGTTTTTCAAGT-TAATTTGACGTAAGGTTACCACCTTGGTCAAACTCTTCTCATTT
64 TAGTCAAATCTACCTC-ATTCTTGTTTGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTT
*
179229 TGATC
128 TGGTC
* * * * * * * * *
179234 TGATGTATGGTTACCATCCTGGTTAGATTCTTTTCA-TTATGATTTAACATATAGTTACCACACT
1 TGACGTATGGTTACCACCCTAGTCAAATTCTTTTCAGTCA-GATTTGACATATGGTTACCACCCT
* * * * * *
179298 GGTCAAATCTGCCTCCTTCTTGTCTGACGTAAGGTTACTACCCTGGTCAAACTCTTCTCATTTCG
65 AGTCAAATCTACCTCATTCTTGTTTGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTTG
179363 GTC
130 GTC
* * ** * *
179366 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGATTTGACGTATGGTTACCACCCAA
1 TGACGTATGGTTACCACCCTAGTCAAATTCTTTTCAGTCAGATTTGACATATGGTTACCACCCTA
* * * * *
179431 GTCAAATCTACCTCTTTCTTGTTTGATGTATGGTTACCACCCTGGTCGAACTCTTCTTATTTTGG
66 GTCAAATCTACCTCATTCTTGTTTGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTTGG
*
179496 TT
131 TC
* *
179498 TGACATATGGTTACCACCCTAGTCAAACTT-TTTTCAAGTCAG-TTTGACATATGGATACCACCC
1 TGACGTATGGTTACCACCCTAGTCAAA-TTCTTTTC-AGTCAGATTTGACATATGGTTACCACCC
* * ** * * * * * *
179561 TGGTCAGACTCT-TTTCATTCTTGCTTAACATATGGTTACCACCCTAGTCAAGCTCATT-TCATT
64 TAGTCA-AATCTACCTCATTCTTGTTTGACGTAAGGTTACCACCCTGGTCAAACTC-TTCTCATT
* *
179624 CCT-GTT
127 -TTGGTC
* * *
179630 TGATGTATGATTACCACTCTAGTCAAAT
1 TGACGTATGGTTACCACCCTAGTCAAAT
179658 GTTTCATATA
Statistics
Matches: 343, Mismatches: 71, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
130 2 0.01
131 4 0.01
132 323 0.94
133 14 0.04
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (132 bp):
TGACGTATGGTTACCACCCTAGTCAAATTCTTTTCAGTCAGATTTGACATATGGTTACCACCCTA
GTCAAATCTACCTCATTCTTGTTTGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTTGG
TC
Found at i:179723 original size:44 final size:42
Alignment explanation
Indices: 179591--179730 Score: 129
Period size: 44 Copynumber: 3.2 Consensus size: 42
179581 TTGCTTAACA
* *
179591 TATGGTTACCACCCTAGTCAAGCTCATTTCATTCCTGTTTGATG
1 TATGGTTACCA-CCTAGTCAA-ATGATTTCATTCCTGTTTGATG
* * * **
179635 TATGATTACCACTCTAGTCAAATG-TTTCATATATCGGTCAGATG
1 TATGGTTACCAC-CTAGTCAAATGATTTCAT-T-CCTGTTTGATG
*
179679 TATGGTTACCACCGTAGTCAAATGATTTGCATTCCTATTTGATG
1 TATGGTTACCACC-TAGTCAAATGATTT-CATTCCTGTTTGATG
179723 TAATGGTT
1 T-ATGGTT
179731 CAGCCTTGTT
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 53 0.70
45 10 0.13
46 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (42 bp):
TATGGTTACCACCTAGTCAAATGATTTCATTCCTGTTTGATG
Found at i:181435 original size:165 final size:161
Alignment explanation
Indices: 181135--181551 Score: 448
Period size: 165 Copynumber: 2.6 Consensus size: 161
181125 TTCACTGATC
* * * * * * *
181135 CAAAATTTTTAAAATTTATCAAATATTATTATTTAACTCACAATAAATCAATTTCAAAAAATTCC
1 CAAAATTTTTAAAATTCATCAAATATCATCATTTAAATCATAATAAATTAATTTTAAAAAATT-C
* * * *
181200 ATTTA-TTTCATTAATTTTTCATTTTTCCTTGAAATTTCCCTATTTTCAAAAAATTAAGTTTTTG
65 ATTTATTTTCATGAATTTTTCATTTTTCCATGAAAATTCCCTATTTTCAAAAAACTAAGTTTTTG
* * *
181264 ATTCCATAAAGGTTTTTGTGGGGATTTTTCTCG-GTT
130 ATTCCAT--A-GTTTTCGAGGGG-GTTTTCT-GAGTT
* * *
181300 CAAAATTTTTAAAATTCATCAAATATCATCATTTAAATCATATTAAATTAGTTTTAAAAAAATCA
1 CAAAATTTTTAAAATTCATCAAATATCATCATTTAAATCATAATAAATTAATTTTAAAAAATTCA
* * * *
181365 TTTATTTTCATGAGTTTTTCATTTTTCCAT-AAAATTCTC-ATTTTCTTGAAAAACTGAGTTTTC
66 TTTATTTTCATGAATTTTTCATTTTTCCATGAAAATTCCCTATTTTC--AAAAAACTAAGTTTT-
181428 T-ATTCCATAGTTTTCGAGGGGGTTTTCTGAGTT
128 TGATTCCATAGTTTTCGAGGGGGTTTTCTGAGTT
* * * * * * *
181461 TATAATTTTTAATATTCATAAAATATCATCATTTAATTCATAATAAATTATTTTTGAAAAATTCA
1 CAAAATTTTTAAAATTCATCAAATATCATCATTTAAATCATAATAAATTAATTTTAAAAAATTCA
* *
181526 TTTATTTTCATGATTTTTTAATTTTT
66 TTTATTTTCATGAATTTTTCATTTTT
181552 TCCTTGCCCT
Statistics
Matches: 215, Mismatches: 32, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
160 1 0.00
161 89 0.41
162 10 0.05
163 7 0.03
164 13 0.06
165 94 0.44
166 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (161 bp):
CAAAATTTTTAAAATTCATCAAATATCATCATTTAAATCATAATAAATTAATTTTAAAAAATTCA
TTTATTTTCATGAATTTTTCATTTTTCCATGAAAATTCCCTATTTTCAAAAAACTAAGTTTTTGA
TTCCATAGTTTTCGAGGGGGTTTTCTGAGTT
Found at i:183238 original size:2 final size:2
Alignment explanation
Indices: 183231--183259 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
183221 AGGTTCATCT
183231 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
183260 CATTTTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:184870 original size:24 final size:24
Alignment explanation
Indices: 184842--184891 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
184832 TTTATGTTGT
184842 TTATATTTTTCATTAACCCCTGTG
1 TTATATTTTTCATTAACCCCTGTG
184866 TTATATTTTTCATTAACCCCTGTG
1 TTATATTTTTCATTAACCCCTGTG
184890 TT
1 TT
184892 TTCTTTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (24 bp):
TTATATTTTTCATTAACCCCTGTG
Found at i:193044 original size:13 final size:14
Alignment explanation
Indices: 193028--193072 Score: 74
Period size: 15 Copynumber: 3.2 Consensus size: 14
193018 AGTCAAAAGT
193028 AAAAACACA-AAAA
1 AAAAACACACAAAA
193041 AAAAACACACAAAA
1 AAAAACACACAAAA
193055 AACAAACACACAAAA
1 AA-AAACACACAAAA
193070 AAA
1 AAA
193073 TAGTGGAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.30
14 7 0.23
15 14 0.47
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAACACACAAAA
Found at i:193340 original size:14 final size:15
Alignment explanation
Indices: 193321--193353 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
193311 CCCAACACAA
*
193321 AAAAAAAGAAAA-AG
1 AAAAAAACAAAACAG
193335 AAAAAAACAAAACAG
1 AAAAAAACAAAACAG
193350 AAAA
1 AAAA
193354 TCTCAGTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAACAG
Found at i:194393 original size:30 final size:31
Alignment explanation
Indices: 194347--194427 Score: 110
Period size: 30 Copynumber: 2.6 Consensus size: 31
194337 TTCTTCAAAT
*
194347 CATCTTTTCTTCAAAGTCCACGACTCAGTGG
1 CATCTTTTCTTCAAAGTCCAAGACTCAGTGG
*
194378 CATCTTTTC-TCAAAGTCCAAGACTTAGTGG
1 CATCTTTTCTTCAAAGTCCAAGACTCAGTGG
*
194408 CACCGTTTTCCTTCAAAGTC
1 CATC-TTTT-CTTCAAAGTC
194428 TGTCATAACG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 22 0.50
31 13 0.30
32 1 0.02
33 8 0.18
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (31 bp):
CATCTTTTCTTCAAAGTCCAAGACTCAGTGG
Found at i:195608 original size:51 final size:51
Alignment explanation
Indices: 195552--195670 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
195542 GGAAAATAAT
* * *
195552 GGGGTTGGGGTGTCCCCAATTATGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
* ** * *
195603 GGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
195654 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
195671 TCGGAAATAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:195677 original size:131 final size:130
Alignment explanation
Indices: 195364--195697 Score: 313
Period size: 131 Copynumber: 2.6 Consensus size: 130
195354 ATCTCCCGAC
*
195364 GAGAAATTTAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTC-GAAAATAACAGGGTCG
1 GAGAAA-TTAATATTTTGGAAATAA-AACGGGGTTGGAGTATCCCCTCGGAAAATAACAGGGTCG
* * * *
195428 GAGTATCCCCGATTATGAAAAATCGATGATTTAGAAATAAGGTAAGGGTTGAAGTGTCCTCGATT
64 GAGTATCCCCAATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTGAAGTATCCTCGATT
195493 TA
129 TA
* * * *** * * * ** *
195495 TAGAAAATTGATGTTTCAAAAATAAAATCGGGATTGGAATATCCCC-GGGAAAATAATGGGGTTG
1 GAG-AAATTAATATTTTGGAAATAAAA-CGGGGTTGGAGTATCCCCTCGGAAAATAACAGGGTCG
* * * **
195559 GGGTGTCCCCAATTATGAGAAATCAAT-ATTTTAGAAATAAGGCCGGGGTTGAAGTATCC-CTGA
64 GAGTATCCCCAATTATGAAAAATCAATGA-TTTAGAAATAAGGCAAGGGTTGAAGTATCCTC-GA
195622 TTGT-
127 TT-TA
* * *
195626 GAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGG-AAATAAC-GGAGTTG
1 GAGAAATTAATATTTTGGAAATAAA-ACGGGGTTGGAGTATCCCCTCGGAAAATAACAGG-GTCG
195689 GAGTATCCC
64 GAGTATCCC
195698 TGATGAAATA
Statistics
Matches: 158, Mismatches: 36, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
129 2 0.01
130 53 0.34
131 99 0.63
132 4 0.03
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (130 bp):
GAGAAATTAATATTTTGGAAATAAAACGGGGTTGGAGTATCCCCTCGGAAAATAACAGGGTCGGA
GTATCCCCAATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTGAAGTATCCTCGATTTA
Found at i:195692 original size:28 final size:27
Alignment explanation
Indices: 195655--195726 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
195645 AATAAAGCCG
195655 GGGTTGGAGTATCCCCTCG-GAAATAAC
1 GGGTTGGAGTATCCCCT-GAGAAATAAC
195682 GGAGTTGGAGTAT-CCCTGATGAAATAAC
1 GG-GTTGGAGTATCCCCTGA-GAAATAAC
195710 GGGATTGGAGTATCCCC
1 GGG-TTGGAGTATCCCC
195727 GATTGTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
26 1 0.03
27 7 0.17
28 29 0.73
29 3 0.08
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCTGAGAAATAAC
Found at i:195764 original size:79 final size:78
Alignment explanation
Indices: 195679--196011 Score: 331
Period size: 79 Copynumber: 4.3 Consensus size: 78
195669 CCTCGGAAAT
* * *
195679 AACGGAGTTGGAGTAT-CCCT-GATGAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTA
1 AACGGAGTTGGAGTATCCCCTCG--GAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTA
195742 GTGTTTT-GAAAATAA
64 GTGTTTTAG-AAATAA
* *
195757 AATCGGAGTTGGAATATCCCCTCGGAAATAACGGGGTTGGGGTATCCTCGATTATGAAAAATT-G
1 AA-CGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTAG
195821 ATGTTTTAGAAATAA
65 -TGTTTTAGAAATAA
* * * * * * *
195836 AACCGAGGTTGGAGAATCCCCTCGGGAATGATGGGGTTGGAGTATCCTCGATTATGAGAAATTAA
1 AACGGA-GTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTAG
*
195901 TTTTTTAGAAATAA
65 TGTTTTAGAAATAA
* * * * * * * *
195915 AGCCGGGGTTGGAGTATCCCCTCGGGAATTATGAGGTAGGAGTATCCCCG---ATGAAAAATT-G
1 A-ACGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTAG
195976 ATGTTTTAGAAATAA
65 -TGTTTTAGAAATAA
*
195991 AACCGGGGTTGGAGTATCCCC
1 AA-CGGAGTTGGAGTATCCCC
196012 GATTAAGAAA
Statistics
Matches: 218, Mismatches: 27, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
76 41 0.19
78 6 0.03
79 163 0.75
80 7 0.03
81 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (78 bp):
AACGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTAGT
GTTTTAGAAATAA
Found at i:195802 original size:107 final size:107
Alignment explanation
Indices: 195602--195803 Score: 278
Period size: 107 Copynumber: 1.9 Consensus size: 107
195592 GAAATAAGGC
* * * * * * *
195602 CGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGATTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGAAAATAAAACCGGAGTTGGAATAT
195667 CCCCTCGGAAATAACGGAGTTGGAGTATCCCTGATGAAATAA
66 CCCCTCGGAAATAACGGAGTTGGAGTATCCCTGATGAAATAA
* * * * *
195709 CGGGATTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATAT
1 CGGGATTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGAAAATAAAACCGGAGTTGGAATAT
* *
195774 CCCCTCGGAAATAACGGGGTTGGGGTATCC
66 CCCCTCGGAAATAACGGAGTTGGAGTATCC
195804 TCGATTATGA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
107 81 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (107 bp):
CGGGATTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGAAAATAAAACCGGAGTTGGAATAT
CCCCTCGGAAATAACGGAGTTGGAGTATCCCTGATGAAATAA
Found at i:195913 original size:158 final size:155
Alignment explanation
Indices: 195714--196011 Score: 391
Period size: 158 Copynumber: 1.9 Consensus size: 155
195704 AATAACGGGA
* * *
195714 TTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCT
1 TTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCT
* * * *
195779 CGGAAATAACGGGGTTGGGGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGG
66 CGGAAATAACGAGGTAGGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAACCGAGG
195844 TTGGAGAATCCCCTCGGGAATGATGGGG
128 TTGGAGAATCCCCTCGGGAATGATGGGG
* * * * * *
195872 TTGGAGTATCCTCGATTATGAGAAATTAAT-TTTTTAGAAATAAAGCCGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGA-AAATAAAACCGGAGTTGGAATATCCCC
* * * *
195936 TCGGGAATTATGAGGTAGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTT
65 TCGGAAATAACGAGGTAGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTT
*
196001 GGAGTATCCCC
130 GGAGAATCCCC
196012 GATTAAGAAA
Statistics
Matches: 121, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
155 45 0.37
157 5 0.04
158 71 0.59
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (155 bp):
TTGGAGTATCCCCGATTATGAAAAATTAATGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCT
CGGAAATAACGAGGTAGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTG
GAGAATCCCCTCGGGAATGATGGGG
Found at i:196039 original size:51 final size:48
Alignment explanation
Indices: 195953--196074 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 48
195943 TTATGAGGTA
* * *
195953 GGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTT
1 GGAGTATCCCCGATGAAAAATTAACGTTTTAGAAATAAAACCGGGATT
* **
196001 GGAGTATCCCCGATTAAGAAAAATTAACGTTTTGGAAATGGAACCGGGATT
1 GGAGTATCCCCGA-T--GAAAAATTAACGTTTTAGAAATAAAACCGGGATT
196052 GGAGTATCCCCGAGATGAAAAAT
1 GGAGTATCCCC--GATGAAAAAT
196075 CTAGAAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
48 13 0.21
49 1 0.02
50 7 0.11
51 39 0.62
52 1 0.02
53 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (48 bp):
GGAGTATCCCCGATGAAAAATTAACGTTTTAGAAATAAAACCGGGATT
Found at i:198369 original size:20 final size:21
Alignment explanation
Indices: 198344--198399 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
198334 AATGCCTGAA
*
198344 GTATCGATACATTGTA-AAAT
1 GTATCGATACAATGTAGAAAT
*
198364 GTATCGATACAATG-AGCAAT
1 GTATCGATACAATGTAGAAAT
198384 GTATCGATACAATGTA
1 GTATCGATACAATGTA
198400 TCGATACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (21 bp):
GTATCGATACAATGTAGAAAT
Found at i:198396 original size:13 final size:13
Alignment explanation
Indices: 198380--198409 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
198370 ATACAATGAG
198380 CAATGTATCGATA
1 CAATGTATCGATA
198393 CAATGTATCGATA
1 CAATGTATCGATA
198406 CAAT
1 CAAT
198410 ATGCCATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:198403 original size:33 final size:33
Alignment explanation
Indices: 198361--198430 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
198351 TACATTGTAA
198361 AATGTATCGATACAATGA-GCAATGTATCGATAC
1 AATGTATCGATACAAT-ATGCAATGTATCGATAC
* *
198394 AATGTATCGATACAATATGCCATGTATTGATAC
1 AATGTATCGATACAATATGCAATGTATCGATAC
198427 AATG
1 AATG
198431 CAAAATGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 1 0.03
33 33 0.97
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATATGCAATGTATCGATAC
Found at i:199162 original size:41 final size:40
Alignment explanation
Indices: 199063--199164 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 40
199053 GTCCCACTTT
* * *
199063 TTGAGGACAAAGG-AAAAGAGAATGAAATAAGTCTTGCTCC
1 TTGAGGACAAAGGAAAAAGAAAAAGAAAT-AGTCCTGCTCC
*
199103 TTGAGGACAAAGGAAAAAAGAAAAAGAAAGT-GTCCTGCTTC
1 TTGAGGACAAAGG-AAAAAGAAAAAGAAA-TAGTCCTGCTCC
199144 TTGAGGACAAAGTGAAAAAGA
1 TTGAGGACAAAG-GAAAAAGA
199165 GTACGTCCTG
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
40 13 0.24
41 27 0.50
42 13 0.24
43 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.25, T:0.18
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAGAAAAAGAAATAGTCCTGCTCC
Found at i:199243 original size:42 final size:43
Alignment explanation
Indices: 199176--199283 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 43
199166 TACGTCCTGT
* *
199176 TTTTCGAGGATAAAGGAAAAAAGGAAAATGAAA-TGCGTCTTGC
1 TTTTCGAGGACAAAAGAAAAAAGGAAAAT-AAAGTGCGTCTTGC
* *
199219 TTTTCGAGGACAAAAG-AAAGAGGAAAATAAAGTGTGTCTTGC
1 TTTTCGAGGACAAAAGAAAAAAGGAAAATAAAGTGCGTCTTGC
199261 TCTTT-GAGGACAAAA-AAGAAAAG
1 T-TTTCGAGGACAAAAGAA-AAAAG
199284 AAGAGAATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
41 3 0.05
42 32 0.57
43 21 0.38
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.22
Consensus pattern (43 bp):
TTTTCGAGGACAAAAGAAAAAAGGAAAATAAAGTGCGTCTTGC
Found at i:199307 original size:45 final size:45
Alignment explanation
Indices: 199191--199328 Score: 137
Period size: 45 Copynumber: 3.1 Consensus size: 45
199181 GAGGATAAAG
*
199191 GAAAA-AAGGAAAATGAAATGCGTCTTGCT-TTTCGAGGAC--AAAA
1 GAAAAGAA-GAAAATGAAATGTGTCTTGCTCTTT-GAGGACAAAAAA
*
199234 G-AAAGAGGAAAAT-AAAGTGTGTCTTGCTCTTTGAGGACAAAAAA
1 GAAAAGAAGAAAATGAAA-TGTGTCTTGCTCTTTGAGGACAAAAAA
* * * *
199278 GAAAAGAAGAGAATGAAATGTGTCCTGCTCTTTAAGGA-AAAAGGA
1 GAAAAGAAGAAAATGAAATGTGTCTTGCTCTTTGAGGACAAAA-AA
199323 GAAAAG
1 GAAAAG
199329 GAAAAGACGT
Statistics
Matches: 80, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
41 3 0.04
42 25 0.31
43 5 0.06
44 9 0.11
45 35 0.44
46 3 0.04
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.20
Consensus pattern (45 bp):
GAAAAGAAGAAAATGAAATGTGTCTTGCTCTTTGAGGACAAAAAA
Found at i:199427 original size:61 final size:60
Alignment explanation
Indices: 199324--200109 Score: 903
Period size: 61 Copynumber: 13.5 Consensus size: 60
199314 GAAAAAGGAG
* *
199324 AAAAGGAAAAGACGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT
* * *
199385 GAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
199446 -----AAAAGGCGTCCTGCTCTTTGAGGAC-AGAAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAATGCCACCAACTTGTGTGGGCTTT
* *
199501 AAAAAGAAAAGGCATCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
*
199562 -----AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
* *
199617 AAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTGGGTTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
* *
199678 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAAAT-CCACCAGCTTGTGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAATGCCACCAACTTGTGTGGGCTTT
* *
199739 ----G-AAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTATGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
* *
199794 ----G-AAAGGCGTACTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
*
199849 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAATTTGTGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
** * *
199910 AAAAGGAAAAGATGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACCTGTGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
* * * * *
199971 -----AAAAGGCGTCGTGCTCTTTGAGGACTAAAAAAAATGGCACCAACTTGTGTAGCCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACT--AGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
200028 ----G-AAAGGCGACCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTT
* *
200083 ----G-AAAGGCGTCTTGCTCTTTAAGGACTA
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTA
200110 AAAGGTGAAA
Statistics
Matches: 638, Mismatches: 57, Indels: 64
0.84 0.08 0.08
Matches are distributed among these distances:
54 9 0.01
55 262 0.41
56 1 0.00
57 45 0.07
60 5 0.01
61 301 0.47
62 15 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (60 bp):
AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:199482 original size:116 final size:116
Alignment explanation
Indices: 199330--200109 Score: 947
Period size: 116 Copynumber: 6.8 Consensus size: 116
199320 GGAGAAAAGG
* * *
199330 AAAAGACGTCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAA
* * *
199394 AGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTATGGGCTTT
65 AGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
199446 AAAAGGCGTCCTGCTCTTTGAGGAC-AGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAA
* *
199510 AGGCATCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
65 AGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
*
199562 AAAAGGCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAA
* *
199626 AGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTATGTGGGTTTT
65 AGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
* *
199678 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAAAT-CCACCAGCTTGTGTGGGCTTT---
1 ------AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAA
* *
199739 -G-AAAGGTGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTATGGGCTTT
60 AGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
* *
199794 GAAAGGCGTACTGCTCTTTGAGGACTA-AAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAA-GAAA
*
199858 AGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAATTTGTGTGGGCTTT
65 AGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
199910 AAAAGGAAAAGATGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACCTGTGTGGGCTTT---
1 AAAA-G----G-CGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAA
* * * * *
199971 --AAAAGGCGTCGTGCTCTTTGAGGACTAAAAAAAATGGCACCAACTTGTGTAGCCTTT
60 AGAAAAGGCGTCCTGCTCTTTGAGGACT--AGAAAATGCCACCAACTTGTGTGGGCTTT
* * * **
200028 GAAAGGCGACCTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* *
200087 GGCGTCTTGCTCTTTAAGGACTA
66 GGCGTCCTGCTCTTTGAGGACTA
200110 AAAGGTGAAA
Statistics
Matches: 591, Mismatches: 46, Indels: 60
0.85 0.07 0.09
Matches are distributed among these distances:
109 6 0.01
110 45 0.08
111 1 0.00
112 65 0.11
113 1 0.00
115 2 0.00
116 344 0.58
117 3 0.01
118 27 0.05
121 1 0.00
122 90 0.15
123 6 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (116 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
GGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:199620 original size:27 final size:27
Alignment explanation
Indices: 199535--199620 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
199525 TGAGGACTAG
199535 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTGTGGGCTTT
* ** ** * * * **
199562 AAAAGGCGTCCTGCTCTTTGAGGACTGG
1 AAAATGCCACCAACT-TGTGTGGGCTTT
199590 AAAATGCCACCAACTTGTGTGGGCTTT
1 AAAATGCCACCAACTTGTGTGGGCTTT
199617 AAAA
1 AAAA
199621 AGAAAAGGCG
Statistics
Matches: 38, Mismatches: 20, Indels: 2
0.63 0.33 0.03
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (27 bp):
AAAATGCCACCAACTTGTGTGGGCTTT
Found at i:200208 original size:94 final size:94
Alignment explanation
Indices: 200041--200276 Score: 393
Period size: 94 Copynumber: 2.5 Consensus size: 94
200031 AGGCGACCTA
*
200041 CTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTAAG
1 CTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAG
* *
200105 GACTAAAAGGTGAAAGTAGAGAGCGTCCTG
65 GACTAAAAGGTGAAAGGAGAGAGCATCCTG
*
200135 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
1 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGG
* *
200200 ATTGAAAGGTGAAAGGAGAGAGCATCCTG
66 ACTAAAAGGTGAAAGGAGAGAGCATCCTG
*
200229 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
200277 AAAAGACGTC
Statistics
Matches: 134, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
94 133 0.99
95 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (94 bp):
CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGG
ACTAAAAGGTGAAAGGAGAGAGCATCCTG
Found at i:201317 original size:21 final size:20
Alignment explanation
Indices: 201292--201367 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 20
201282 CTTTTCTCTC
201292 TTTTTCTTTGTTTTTTTTGT
1 TTTTTCTTTGTTTTTTTTGT
*
201312 TATTTTTTTTGTTTTTTTTTGT
1 T-TTTTCTTTG-TTTTTTTTGT
*
201334 TTTTT-TTTG-TTCTTTTGT
1 TTTTTCTTTGTTTTTTTTGT
201352 TGTTTTC-TTGTTTTTT
1 T-TTTTCTTTGTTTTTT
201368 GGAAAAGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
18 9 0.19
19 7 0.15
20 9 0.19
21 12 0.25
22 11 0.23
ACGTcount: A:0.01, C:0.04, G:0.11, T:0.84
Consensus pattern (20 bp):
TTTTTCTTTGTTTTTTTTGT
Found at i:201327 original size:31 final size:30
Alignment explanation
Indices: 201292--201367 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 30
201282 CTTTTCTCTC
* *
201292 TTTTTCTTTGTTTTTTTTGTTATTTTTTTTG
1 TTTTTCTTTGTTTTTTTTGTT-CTTTTGTTG
*
201323 TTTTTTTTTGTTTTTTTTTGTTCTTTTGTTG
1 TTTTTCTTTG-TTTTTTTTGTTCTTTTGTTG
201354 -TTTTC-TTGTTTTTT
1 TTTTTCTTTGTTTTTT
201368 GGAAAAGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 6 0.15
29 3 0.08
30 4 0.10
31 16 0.40
32 11 0.28
ACGTcount: A:0.01, C:0.04, G:0.11, T:0.84
Consensus pattern (30 bp):
TTTTTCTTTGTTTTTTTTGTTCTTTTGTTG
Found at i:201367 original size:10 final size:10
Alignment explanation
Indices: 201292--201357 Score: 80
Period size: 10 Copynumber: 6.4 Consensus size: 10
201282 CTTTTCTCTC
*
201292 TTTTTCTTTG
1 TTTTTTTTTG
201302 -TTTTTTTTG
1 TTTTTTTTTG
201311 TTATTTTTTTTG
1 -T-TTTTTTTTG
201323 TTTTTTTTTG
1 TTTTTTTTTG
201333 TTTTTTTTTG
1 TTTTTTTTTG
*
201343 TTCTTTTGTTG
1 TT-TTTTTTTG
201354 TTTT
1 TTTT
201358 CTTGTTTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
9 8 0.16
10 23 0.46
11 10 0.20
12 9 0.18
ACGTcount: A:0.02, C:0.03, G:0.11, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:213999 original size:130 final size:128
Alignment explanation
Indices: 213716--214049 Score: 332
Period size: 130 Copynumber: 2.6 Consensus size: 128
213706 ATTTCCCGAC
* * * * * *
213716 GAGAAATTTAATATTATGGAGATAATAATGGGGTTAGAGTATCCCCACAAAAATAACGGGGTTGG
1 GAGAAA-TCAATATTTTGGAAATAA-AATGGGGTTGGAGTATCCCC-TAAAAATAATGGGGTTGG
* * * *
213781 AGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAGGCAAGGGTTGAAGTGTCCTCTATTA
63 AGTATCCCCAATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTGAAGTATCCTCTATTA
213846 T
128 T
** * *** *
213847 -AGAAAATGGATGTTTCAAAAATAAAATTGGGATTGGAGTATCCCCGTAAAAATAATGGGGTTGG
1 GAG-AAATCAATATTTTGGAAATAAAA-TGGGGTTGGAGTATCCCC-TAAAAATAATGGGGTTGG
* * **
213911 AGTGTCCCCAATTATGAGAAATCAAT-ATTTTAGAAATAAGGCCGGGGTTGAAGTAT-CTCTGAT
63 AGTATCCCCAATTATGAAAAATCAATGA-TTTAGAAATAAGGCAAGGGTTGAAGTATCCTCT-AT
*
213974 TGT
126 TAT
** *
213977 GAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGA
1 GAGAAATCAATATTTTGGAAATAAA-ATGGGGTTGGAGTATCCCCT-AAAAATAATGGGGTTGGA
214042 GTATCCCC
64 GTATCCCC
214050 GATGAAATAA
Statistics
Matches: 163, Mismatches: 33, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
129 8 0.05
130 150 0.92
131 5 0.03
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (128 bp):
GAGAAATCAATATTTTGGAAATAAAATGGGGTTGGAGTATCCCCTAAAAATAATGGGGTTGGAGT
ATCCCCAATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTGAAGTATCCTCTATTAT
Found at i:214078 original size:28 final size:30
Alignment explanation
Indices: 214005--214080 Score: 124
Period size: 28 Copynumber: 2.7 Consensus size: 30
213995 AAATAAAGCC
214005 GGGGTTGGAGTATCCCC--TCGAAAATAAT
1 GGGGTTGGAGTATCCCCGATCGAAAATAAT
214033 GGGGTTGGAGTATCCCCGAT-G-AAATAAT
1 GGGGTTGGAGTATCCCCGATCGAAAATAAT
214061 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
214081 TGTGAAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
28 44 0.96
29 1 0.02
30 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (30 bp):
GGGGTTGGAGTATCCCCGATCGAAAATAAT
Found at i:214100 original size:107 final size:107
Alignment explanation
Indices: 213954--214156 Score: 280
Period size: 107 Copynumber: 1.9 Consensus size: 107
213944 AAATAAGGCC
* * * * * *
213954 GGGGTTGAAGTATCTCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
1 GGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAACCGGAGTTGGAATATC
*
214019 CCCTCGAAAATAATGGGGTTGGAGTATCCCCGATGAAATAAT
66 CCCTAGAAAATAATGGGGTTGGAGTATCCCCGATGAAATAAT
* * * * *
214061 GGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTCTTTTGGAAATAAAATCGGAGTTGGAATATC
1 GGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAACCGGAGTTGGAATATC
* *
214126 CCCTAGGAAATAATGGGGTTGGGGTATCCCC
66 CCCTAGAAAATAATGGGGTTGGAGTATCCCC
214157 AATTATGAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
107 82 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.28
Consensus pattern (107 bp):
GGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAACCGGAGTTGGAATATC
CCCTAGAAAATAATGGGGTTGGAGTATCCCCGATGAAATAAT
Found at i:214119 original size:79 final size:79
Alignment explanation
Indices: 214033--214365 Score: 381
Period size: 79 Copynumber: 4.3 Consensus size: 79
214023 CGAAAATAAT
* * * *
214033 GGGGTTGGAGTATCCCCGATGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTCTT
1 GGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTT
* *
214098 TTGGAAATAAAATC
66 TTAGAAATAAAACC
* * * * * * *
214112 GGAGTTGGAATATCCCCTAGGAAATAATGGGGTTGGGGTATCCCCAATTATGAAAAATTAATGTT
1 GGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTT
*
214177 TTAGAAATAAAATC
66 TTAGAAATAAAACC
* * * * * *
214191 GGGGTTGGAGTATCCCCTCA-GGAATGACGGGGTTGAAGTATCCCCGATTATGAGAAATTAATTT
1 GGGGTTGGAGTATCCCC-GATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGT
*
214255 TTTAGAAATAAAGCC
65 TTTAGAAATAAAACC
* *
214270 GGGGTTGGAGTATCCCC--TCGAGAATGACGAGGTTGGAGTATCCCCG---ATGAAAAATTAATG
1 GGGGTTGGAGTATCCCCGAT-GA-AATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATG
214330 TTTTAGAAATAAAACC
64 TTTTAGAAATAAAACC
*
214346 AGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
214366 TAAGAAAAAT
Statistics
Matches: 218, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
76 43 0.20
78 2 0.01
79 172 0.79
80 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTT
TTAGAAATAAAACC
Found at i:216708 original size:33 final size:33
Alignment explanation
Indices: 216662--216728 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
216652 TACATTGTAA
* * *
216662 AATGTATCGATACAATGAGCCATGTATCGATAC
1 AATGTAACAATACAACGAGCCATGTATCGATAC
216695 AATGTAACAATACAACGAGCCATGTATCGATAC
1 AATGTAACAATACAACGAGCCATGTATCGATAC
216728 A
1 A
216729 TTTGATACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.24
Consensus pattern (33 bp):
AATGTAACAATACAACGAGCCATGTATCGATAC
Found at i:216778 original size:20 final size:20
Alignment explanation
Indices: 216753--216827 Score: 123
Period size: 20 Copynumber: 3.8 Consensus size: 20
216743 GTAAACCCAA
*
216753 AATGTATTGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
216773 AATGTATCGATAAAATGAAC
1 AATGTATCGATACAATGAAC
*
216793 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAAC
216813 AATGTATCGATACAA
1 AATGTATCGATACAA
216828 ATTGTGAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:217158 original size:30 final size:30
Alignment explanation
Indices: 217124--217677 Score: 554
Period size: 30 Copynumber: 17.9 Consensus size: 30
217114 GAGGTGTCTA
*
217124 CAAAGTCCATGACTTAGTGGCATCTTTTCT
1 CAAAGTCCATGACTCAGTGGCATCTTTTCT
* *
217154 CAAAGTCCACGACTTAGTGGCATCTTTTC-
1 CAAAGTCCATGACTCAGTGGCATCTTTTCT
* ** * *
217183 CAAAAGTCCACGACTCAGTGGTGTCTCTTCC
1 C-AAAGTCCATGACTCAGTGGCATCTTTTCT
** **
217214 CAAAGTCCACAACTCAGTGGCATATCTACTCT
1 CAAAGTCCATGACTCAGTGGC--ATCTTTTCT
217246 CAAAGTCCATGACTCAGTGGCATCTTTTCT
1 CAAAGTCCATGACTCAGTGGCATCTTTTCT
* *
217276 CAAAGTCCACGACTCAATGGCATCTTTTCTT
1 CAAAGTCCATGACTCAGTGGCATCTTTTC-T
* * *
217307 CAAAGTCCA-CAGCCCAGTGGCATATCTCTTCT
1 CAAAGTCCATGA-CTCAGTGGC--ATCTTTTCT
*
217339 CAAAGTCAATGACTCAGTGGCATCTTTTCT
1 CAAAGTCCATGACTCAGTGGCATCTTTTCT
**
217369 CAAAGTCCACAACTCAGTGGCATCTTTTTCCTT
1 CAAAGTCCATGACTCAGTGGCATC-TTTT-C-T
* * *
217402 CAAAGTCCATGACTCAATAGCAATCTCTTCT
1 CAAAGTCCATGACTCAGTGGC-ATCTTTTCT
* **
217433 CAATGTCCATGACTCAGTGGCAATCTCCTCT
1 CAAAGTCCATGACTCAGTGGC-ATCTTTTCT
* * *
217464 CAAAGTCCACGACTCAGTGGCATCTTGTCC
1 CAAAGTCCATGACTCAGTGGCATCTTTTCT
217494 CAAAGTCCATGACTCAGTGGCATCTTTTCTT
1 CAAAGTCCATGACTCAGTGGCATCTTTTC-T
** *
217525 CAAAGTCCACAACTCAATGGCATCTTTTTTCTT
1 CAAAGTCCATGACTCAGTGGCATC--TTTTC-T
*
217558 CAAAGTCTATGACTCAGTGGCATCTTTTCTT
1 CAAAGTCCATGACTCAGTGGCATCTTTTC-T
* *
217589 CAAAGTCCATGACTTAGTGGCAATCTCTTCT
1 CAAAGTCCATGACTCAGTGGC-ATCTTTTCT
* * *
217620 CAAAGTCCATGACTCAATGGCATCTCTTCC
1 CAAAGTCCATGACTCAGTGGCATCTTTTCT
** * *
217650 CAAAGTCCACAACTCTGTGGCACCTTTT
1 CAAAGTCCATGACTCAGTGGCATCTTTT
217678 TCCTTTAAGT
Statistics
Matches: 443, Mismatches: 64, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.00
30 197 0.44
31 136 0.31
32 50 0.11
33 56 0.13
34 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (30 bp):
CAAAGTCCATGACTCAGTGGCATCTTTTCT
Found at i:217459 original size:125 final size:123
Alignment explanation
Indices: 217124--217664 Score: 621
Period size: 125 Copynumber: 4.4 Consensus size: 123
217114 GAGGTGTCTA
* * *
217124 CAAAGTCCATGACTTAGTGGCATCTTTTCTCAAAGTCCACGACTTAGTGGCATCTTTTC--CAAA
1 CAAAGTCCATGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAATGGCATCTTTTCTTC-AA
* ** * * **
217187 AGTCCACGACTCAGTGG-TGTCTCTTCCCAAAGTCCACAACTCAGTGGCATATCTACTCT
65 AGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCA-ATCTTTTCT
217246 CAAAGTCCATGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAATGGCATCTTTTCTTCAAA
1 CAAAGTCCATGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAATGGCATCTTTTCTTCAAA
* * * *
217311 GTCCA-CAGCCCAGTGGCATATCTCTTCTCAAAGTCAATGACTCAGTGGC-ATCTTTTCT
66 GTCCATGA-CTCAGTGGCA-ATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTTTTCT
** * * *
217369 CAAAGTCCACAACTCAGTGGCATCTTTTTCCTTCAAAGTCCATGACTCAATAGCAATCTCTTC-T
1 CAAAGTCCATGACTCAGTGGCATC-TTTT-C-TCAAAGTCCACGACTCAATGGC-ATCTTTTCTT
* * * *
217433 CAATGTCCATGACTCAGTGGCAATCTCCTCTCAAAGTCCACGACTCAGTGGC-ATCTTGTCC
62 CAAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTTTTCT
*
217494 CAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAATGGCATCTTTTTTCTTC
1 CAAAGTCCATGACTCAGTGGCATCTTTTC-TCAAAGTCCACGACTCAATGGCATC--TTTTCTTC
* * * * *
217559 AAAGTCTATGACTCAGTGGC-ATCTTTTCTTCAAAGTCCATGACTTAGTGGCAATCTCTTCT
63 AAAGTCCATGACTCAGTGGCAATCTCTTC-TCAAAGTCCACGACTCAGTGGCAATCTTTTCT
* * * *
217620 CAAAGTCCATGACTCAATGGCATCTCTTCCCAAAGTCCACAACTC
1 CAAAGTCCATGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTC
217665 TGTGGCACCT
Statistics
Matches: 360, Mismatches: 44, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
122 60 0.17
123 65 0.18
124 19 0.05
125 137 0.38
126 71 0.20
127 8 0.02
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (123 bp):
CAAAGTCCATGACTCAGTGGCATCTTTTCTCAAAGTCCACGACTCAATGGCATCTTTTCTTCAAA
GTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTTTTCT
Found at i:217550 original size:156 final size:153
Alignment explanation
Indices: 217124--217677 Score: 675
Period size: 156 Copynumber: 3.6 Consensus size: 153
217114 GAGGTGTCTA
* * * * *
217124 CAAAGTCCATGACTTAGTGGCATCTTTTCTCAAAGTCCACGACTTAGTGGCATCTTTTCCAAAAG
1 CAAAGTCCATGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAG
** * * * *
217189 TCCACGACTCAGTGGTGTCTCTTCCCAAAGTCCACAACTCAGTGGCA--TATCTACTCTCAAAGT
66 TCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACAACTCAGTGGCATCTTTTTACT-TCAAAGT
217252 CCATGACTCAGTGGCATCTTTTCT
130 CCATGACTCAGTGGCATCTTTTCT
* * * * *
217276 CAAAGTCCACGACTCAATGGCATCTTTTCTTCAAAGTCCAC-AGCCCAGTGGCATATCTCTTCTC
1 CAAAGTCCATGACTCAGTGGCATCTCTTC-TCAAAGTCCACGA-CTCAGTGGC--ATCTCTTCCC
* * *
217340 AAAGTCAATGACTCAGTGGCATCTTTTCTCAAAGTCCACAACTCAGTGGCATCTTTTTCCTTCAA
62 AAAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACAACTCAGTGGCATCTTTTTACTTCAA
* * *
217405 AGTCCATGACTCAATAGCAATCTCTTCT
127 AGTCCATGACTCAGTGGC-ATCTTTTCT
* *
217433 CAATGTCCATGACTCAGTGGCAATCTCCTCTCAAAGTCCACGACTCAGTGGCATCT-TGTCCCAA
1 CAAAGTCCATGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCT-TCCCAA
* * *
217497 AGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAATGGCATCTTTTTTCTTCAAA
64 AGTCCACGACTCAGTGGCATCTTTTC-TCAAAGTCCACAACTCAGTGGCATCTTTTTACTTCAAA
*
217562 GTCTATGACTCAGTGGCATCTTTTCTT
128 GTCCATGACTCAGTGGCATCTTTTC-T
* * *
217589 CAAAGTCCATGACTTAGTGGCAATCTCTTCTCAAAGTCCATGACTCAATGGCATCTCTTCCCAAA
1 CAAAGTCCATGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAA
* * *
217654 GTCCACAACTCTGTGGCACCTTTT
65 GTCCACGACTCAGTGGCATCTTTT
217678 TCCTTTAAGT
Statistics
Matches: 346, Mismatches: 43, Indels: 22
0.84 0.10 0.05
Matches are distributed among these distances:
152 27 0.08
153 18 0.05
154 1 0.00
155 93 0.27
156 149 0.43
157 51 0.15
158 7 0.02
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (153 bp):
CAAAGTCCATGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAG
TCCACGACTCAGTGGCATCTTTTCTCAAAGTCCACAACTCAGTGGCATCTTTTTACTTCAAAGTC
CATGACTCAGTGGCATCTTTTCT
Found at i:217723 original size:59 final size:60
Alignment explanation
Indices: 217652--217765 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 60
217642 TCTCTTCCCA
* *
217652 AAGTCCACAACTCTGTGGCACCTTTTTCC-TTTAAGTCCATAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
* *
217711 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTTTGTGGCACC
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACC
217766 TTGTTCCTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 27 0.54
60 23 0.46
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (60 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
Found at i:217775 original size:33 final size:32
Alignment explanation
Indices: 217652--217901 Score: 217
Period size: 33 Copynumber: 7.8 Consensus size: 32
217642 TCTCTTCCCA
217652 AAGTCCACAACTCTGTGGCACCTTTTTCC-TTT
1 AAGTCCACAACTCTGTGGCACC-TTTTCCTTTT
*
217684 AAGTCCATAACTCTGTGGCA-C----CCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
* *
217711 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTTCCTTTT
*
217744 AAGTCCACAACTTTGTGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTT-TTCCTTTT
* * * * * *
217777 GACTTCATAACTCTATGGCACCTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
* **
217809 AAGTCCACGACTCCATGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCTGTGGCA-CCTTTT-CCTTTT
* * * *
217843 AAGCCCACACCTTTGTGGCATCCTTTTTTCC-TGT
1 AAGTCCACAACTCTGTGGCA-CC--TTTTCCTTTT
*
217877 AAGTCCACAACTCTGTGGTACCTTT
1 AAGTCCACAACTCTGTGGCACCTTT
217902 AAGTCCAATA
Statistics
Matches: 173, Mismatches: 33, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
26 2 0.01
27 21 0.12
31 4 0.02
32 43 0.25
33 58 0.34
34 39 0.23
35 2 0.01
36 4 0.02
ACGTcount: A:0.19, C:0.30, G:0.13, T:0.38
Consensus pattern (32 bp):
AAGTCCACAACTCTGTGGCACCTTTTCCTTTT
Found at i:217944 original size:43 final size:43
Alignment explanation
Indices: 217896--218602 Score: 398
Period size: 48 Copynumber: 15.2 Consensus size: 43
217886 ACTCTGTGGT
*
217896 ACCTTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCACC
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG---C
* * ** *
217942 TTTACCATCTTAAGTCTAATATTGCTGGATTTGAATTAGCATATTGGC
1 ---ACC-T-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
** * * *
217990 ACCTTGCCTTTAAAACCAATGTCACTGGCCTTGAATCAACATATTGGC
1 A-----CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
*
218038 ACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGC
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* * * *
218081 ACCTTCATCTTTAAGCCCGATATCGCTGACCTTGAATCAACATATTGGCAC
1 A----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--C
* *
218132 ATTTACCATCTTAAGTCGAATATTGCTGGCCTTGAATCAGCATATTGGC
1 ----ACC-T-TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* * *
218181 ACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC
1 A-C----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
218229 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* * * *
218272 ACCTTGTCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGC
1 A-C----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* *
218320 ACTTTTAAGTCCAATATCGCTGGCCTTGAATCATCATATTGGC
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* * * *
218363 ACCTTCATCTTTAAGCCCGATATCGTTGGCCTTGAATTAGCATATTGGC
1 A----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* * * * * *
218412 ACCTTGTCTTTAAGACTAAT-GCACTGGCCTTGAATCGGCACATTGG-
1 A-C----CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* * **
218458 ---TGTAAGCCCAATATCGCTGGCCTTGAATCATTATATTGGC
1 ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* * * * *
218498 ACCTCATCTTTAAGACCAATGTCGTTGGCCTTAAATCAGCACATTGGC
1 A---C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* **
218546 ACCTTCATCTTTAAGTCCGATATCATTGGCCTTGAATCAGCATATTGGC
1 A----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
*
218595 ATCTTTAA
1 ACCTTTAA
218603 CATTCCTAAG
Statistics
Matches: 517, Mismatches: 91, Indels: 106
0.72 0.13 0.15
Matches are distributed among these distances:
38 9 0.02
39 20 0.04
43 120 0.23
44 1 0.00
45 2 0.00
46 2 0.00
47 24 0.05
48 148 0.29
49 119 0.23
50 5 0.01
51 66 0.13
55 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (43 bp):
ACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
Found at i:218229 original size:191 final size:189
Alignment explanation
Indices: 217898--218416 Score: 701
Period size: 191 Copynumber: 2.8 Consensus size: 189
217888 TCTGTGGTAC
* *
217898 CTTTAAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTTACCATCTTAAGTCTAATA
1 CTTTAAGACCAATATCGCTGACCTTGAATCAGCATATTGGCA-CTTTACCATCTTAAGTCCAATA
** * * * *
217963 TTGCTGGATTTGAATTAGCATATTGGCACCTTGCCTTTAAAACCAATGTCACTGGCCTTGAATCA
65 TTGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCA
* *
218028 ACATATTGGCACCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT
130 GCATATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-AT
* * * *
218089 CTTTAAGCCCGATATCGCTGACCTTGAATCAACATATTGGCACATTTACCATCTTAAGTCGAATA
1 CTTTAAGACCAATATCGCTGACCTTGAATCAGCATATTGGCAC-TTTACCATCTTAAGTCCAATA
218154 TTGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCA
65 TTGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCA
* *
218219 GCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT
130 GCATATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
* * * *
218279 CTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCAC--T----T-TTAAGTCCAATAT
1 CTTTAAGACCAATATCGCTGACCTTGAATCAGCATATTGGCACTTTACCATCTTAAGTCCAATAT
* * * * * * * *
218337 CGCTGGCCTTGAATCATCATATTGGCACCTTCATCTTTAAGCCCGATATCGTTGGCCTTGAATTA
66 TGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCTTGAATCA
218402 GCATATTGGCACCTT
130 GCATATTGGCACCTT
218417 GTCTTTAAGA
Statistics
Matches: 295, Mismatches: 31, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
182 41 0.14
183 42 0.14
187 1 0.00
190 38 0.13
191 173 0.59
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (189 bp):
CTTTAAGACCAATATCGCTGACCTTGAATCAGCATATTGGCACTTTACCATCTTAAGTCCAATAT
TGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAG
CATATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTAT
Found at i:218283 original size:91 final size:91
Alignment explanation
Indices: 218142--218416 Score: 433
Period size: 91 Copynumber: 3.0 Consensus size: 91
218132 ATTTACCATC
* *
218142 TTAAGTCGAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCT
218207 GGCCTTGAATCAGCACATTGGCACCT
66 GGCCTTGAATCAGCACATTGGCACCT
*
218233 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTTGCT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCT
*
218298 GGCCTTGAATCAGCACATTGGCACTT
66 GGCCTTGAATCAGCACATTGGCACCT
* * * * * *
218324 TTAAGTCCAATATCGCTGGCCTTGAATCATCATATTGGCACCTTCATCTTTAAGCCCGATATCGT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGC
* *
218389 TGGCCTTGAATTAGCATATTGGCACCT
65 TGGCCTTGAATCAGCACATTGGCACCT
218416 T
1 T
218417 GTCTTTAAGA
Statistics
Matches: 169, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
91 130 0.77
92 39 0.23
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (91 bp):
TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACCT
Found at i:218480 original size:86 final size:87
Alignment explanation
Indices: 218374--218544 Score: 227
Period size: 86 Copynumber: 2.0 Consensus size: 87
218364 CCTTCATCTT
* * * ** *
218374 TAAGCCCGATATCGTTGGCCTTGAATTAGCATATTGGCACCTTGTCTTTAAGACTAATG-CACTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCACTG
* *
218438 GCCTTGAATCGGCACATTGGTG
66 GCCTTAAATCAGCACATTGGTG
** **
218460 TAAGCCCAATATCGCTGGCCTTGAATCATTATATTGGCACCTCATCTTTAAGACCAATGTCGTTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCACTG
218525 GCCTTAAATCAGCACATTGG
66 GCCTTAAATCAGCACATTGG
218545 CACCTTCATC
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
86 51 0.71
87 21 0.29
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGACCAATGTCACTG
GCCTTAAATCAGCACATTGGTG
Found at i:218527 original size:48 final size:49
Alignment explanation
Indices: 218460--218595 Score: 175
Period size: 49 Copynumber: 2.8 Consensus size: 49
218450 CACATTGGTG
* * **
218460 TAAGCCCAATATCGCTGGCCTTGAATCATTATATTGGCACC-TCATCTT
1 TAAGACCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
218508 TAAGACCAATGTCGTTGGCCTTAAATCAGCACATTGGCACCTTCATCTT
1 TAAGACCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
218557 TAAGTCCGATATCATTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGTTGGCCTTGAATCAGCATATTGGCA
218596 TCTTTAACAT
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
48 34 0.46
49 40 0.54
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGACCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:224849 original size:16 final size:18
Alignment explanation
Indices: 224830--224868 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
224820 CCTTCTAAAT
224830 AAAAAATA-TA-AAAAAG
1 AAAAAATAGTATAAAAAG
*
224846 AAAAAATAGTATAAAATG
1 AAAAAATAGTATAAAAAG
224864 AAAAA
1 AAAAA
224869 GTGCAGATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (18 bp):
AAAAAATAGTATAAAAAG
Found at i:225960 original size:88 final size:85
Alignment explanation
Indices: 225770--226103 Score: 316
Period size: 88 Copynumber: 3.8 Consensus size: 85
225760 AAATTAGGAT
* * *
225770 TAGATGACATTGGCATTTGCAACATTGCATATGCA-TTGCCACTTTATTGATGCTTGCATTT-CA
1 TAGATGACATTGGCATTTGCATCATT-CATATACATTTGCCACTTTATTGATACTTGCATTTGCA
* *
225833 TCATTTCACACACTTGCATTT
65 TCATTTCACACAATTGCATTC
* * * * *
225854 TAGATAACATTGGCATTTGCATCAGTTCACATCCATTTGCAACTTTTTTGATACTTGCATTTGCA
1 TAGATGACATTGGCATTTGCATCA-TTCATATACATTTGCCACTTTATTGATACTTGCATTTGCA
225919 TCATTTCACGTA-AATATGCATTC
65 TCATTTCAC--ACAAT-TGCATTC
* * ** *
225942 TATATGACATTGGCATTTGCATAATTTCATATATGTTTGCCACTTTATTGAAACTTGCATTTGCA
1 TAGATGACATTGGCATTTGCATCA-TTCATATACATTTGCCACTTTATTGATACTTGCATTTGCA
** *
226007 TTGTTTCACACACATCTGCA-CC
65 TCATTTCACACA-AT-TGCATTC
* * * * * * *
226029 ATTAGATGAAATTGGTATTTGCATCATCTCATATGCATTTGCCATTTTATTGATGCTTGTATTTA
1 --TAGATGACATTGGCATTTGCATCAT-TCATATACATTTGCCACTTTATTGATACTTGCATTTG
226094 CATCATTTCA
63 CATCATTTCA
226104 TGTGCATCTA
Statistics
Matches: 201, Mismatches: 38, Indels: 17
0.79 0.15 0.07
Matches are distributed among these distances:
84 28 0.14
85 25 0.12
86 12 0.06
87 4 0.02
88 75 0.37
89 57 0.28
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.41
Consensus pattern (85 bp):
TAGATGACATTGGCATTTGCATCATTCATATACATTTGCCACTTTATTGATACTTGCATTTGCAT
CATTTCACACAATTGCATTC
Found at i:226100 original size:177 final size:172
Alignment explanation
Indices: 225773--226103 Score: 402
Period size: 177 Copynumber: 1.9 Consensus size: 172
225763 TTAGGATTAG
**
225773 ATGACATTGGCATTTGCAACATTGCATATGCATTGCCACTTTATTGATGCTTGCATTTCATCATT
1 ATGACATTGGCATTTGCAACATTGCATATGCATTGCCACTTTATTGAAACTTGCATTTCATCATT
**
225838 TCACACACTTGCATTTTAGATAACATTGGCATTTGCATCAGTTCACATCCATTTGCAACTTTTTT
66 TCACACACTTGCACATTAGATAACATTGGCATTTGCATCAGTTCACATCCATTTGCAACTTTTTT
*
225903 GATACTTGCATTTGCATCATTTCACGTAAATATGCATTCTAT
131 GATACTTGCATTTACATCATTTCACGTAAATATGCATTCTAT
* *
225945 ATGACATTGGCATTTGCATA-ATTTCATATATG-TTTGCCACTTTATTGAAACTTGCATTTGCAT
1 ATGACATTGGCATTTGCA-ACATTGC--ATATGCATTGCCACTTTATTGAAACTTGCATTT-CAT
** * * *
226008 TGTTTCACACACATCTGCACCATTAGATGAA-ATTGGTATTTGCATCA-TCTCATATGCATTTGC
62 CATTTCACACAC-T-TGCA-CATTAGAT-AACATTGGCATTTGCATCAGT-TCACATCCATTTGC
* * *
226071 CA-TTTTATTGATGCTTGTATTTACATCATTTCA
122 AACTTTT-TTGATACTTGCATTTACATCATTTCA
226104 TGTGCATCTA
Statistics
Matches: 134, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
172 22 0.16
173 25 0.19
174 18 0.13
175 1 0.01
176 9 0.07
177 57 0.43
178 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (172 bp):
ATGACATTGGCATTTGCAACATTGCATATGCATTGCCACTTTATTGAAACTTGCATTTCATCATT
TCACACACTTGCACATTAGATAACATTGGCATTTGCATCAGTTCACATCCATTTGCAACTTTTTT
GATACTTGCATTTACATCATTTCACGTAAATATGCATTCTAT
Found at i:226553 original size:89 final size:89
Alignment explanation
Indices: 226358--226666 Score: 372
Period size: 89 Copynumber: 3.4 Consensus size: 89
226348 CTAATCATAT
* * * *
226358 ACCACTAGATGGTATTGGTGCATCACAAAGCCTAATTTCCTTGGGGCAAGGGTGTAGCCCACAAA
1 ACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAA-GGTGCAGCCCACACA
*
226423 TTCCTAATCATATC-CCTTTCA-CCTA
65 TTCCCAATCATATCTCC-TTCATCC-A
* * * *
226448 ACCACTAGATAGTATTGATACATCACAAAGCTTGATTTCCTTGGGGCAAAGTGCAGCCCACACAT
1 ACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCACACAT
*
226513 TCCCAATTATATCTCCTTCATCCA
66 TCCCAATCATATCTCCTTCATCCA
* * * * * * *
226537 ACCACTAGATGTTATTGATGCATTACCAAA-CCTTATTTCCTTGGGGTAGGGATATCTAGACCAC
1 ACCACTAGATGGTATTGATGCATCA-CAAAGCCTGATTTCCTTGGGGCAAGG-T-GC-AGCCCAC
*
226601 ACATTCCCACTCATATCTCCTTCATCCA
62 ACATTCCCAATCATATCTCCTTCATCCA
226629 ACCACTAGATGGTATTGATGCATCACAAAGCCTGATTT
1 ACCACTAGATGGTATTGATGCATCACAAAGCCTGATTT
226667 TCTCAAGGCA
Statistics
Matches: 186, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
89 66 0.35
90 53 0.28
91 5 0.03
92 62 0.33
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (89 bp):
ACCACTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCACACAT
TCCCAATCATATCTCCTTCATCCA
Found at i:226692 original size:92 final size:92
Alignment explanation
Indices: 226358--226709 Score: 258
Period size: 92 Copynumber: 3.9 Consensus size: 92
226348 CTAATCATAT
* * *** * ** *
226358 ACCACTAGATGGTATTGGTGCATCA-CAAAGCCTAATTTCCTTGGGGCAAGGGT--GTAGCCCAC
1 ACCACTAGATGGTATTGATGCATCACCAAA-CCTGATTTCCTCAAGGCAAGGATACCCAGACCAC
* *
226420 AAATTCCTAATCATATC-CCTTTCA-CCTA
65 ACATTCCCAATCATATCTCC-TTCATCC-A
* * * *** * * *
226448 ACCACTAGATAGTATTGATACATCA-CAAAGCTTGATTTCCTTGGGGCAAAG-T--GCAGCCCAC
1 ACCACTAGATGGTATTGATGCATCACCAAA-CCTGATTTCCTCAAGGCAAGGATACCCAGACCAC
*
226509 ACATTCCCAATTATATCTCCTTCATCCA
65 ACATTCCCAATCATATCTCCTTCATCCA
* * * *** * * * *
226537 ACCACTAGATGTTATTGATGCATTACCAAACCTTATTTCCTTGGGGTAGGGATATCTAGACCACA
1 ACCACTAGATGGTATTGATGCATCACCAAACCTGATTTCCTCAAGGCAAGGATACCCAGACCACA
*
226602 CATTCCCACTCATATCTCCTTCATCCA
66 CATTCCCAATCATATCTCCTTCATCCA
*
226629 ACCACTAGATGGTATTGATGCATCA-CAAAGCCTGATTTTCTCAAGGCAAGGATAACCCA-ACCA
1 ACCACTAGATGGTATTGATGCATCACCAAA-CCTGATTTCCTCAAGGCAAGGAT-ACCCAGACCA
* *
226692 CTCATTCCTAATCATATC
64 CACATTCCCAATCATATC
226710 CTTTTCTTTT
Statistics
Matches: 216, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
89 65 0.30
90 54 0.25
91 4 0.02
92 90 0.42
93 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (92 bp):
ACCACTAGATGGTATTGATGCATCACCAAACCTGATTTCCTCAAGGCAAGGATACCCAGACCACA
CATTCCCAATCATATCTCCTTCATCCA
Found at i:227189 original size:88 final size:88
Alignment explanation
Indices: 227085--227278 Score: 244
Period size: 88 Copynumber: 2.2 Consensus size: 88
227075 CATTATGATT
* * * * * *
227085 TGATGTATAGTTACCACCCTGGTTAAATTTGCCTCTTTCCTATTTGACATATGGTTATCACCCTA
1 TGATGTATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTATTTGACACATGCTTACCACCCTA
* * * **
227150 GTCAAACTCTTTTTATTTTGGTC
66 GTCAAACACTTCTTAATTCAGTC
* * * *
227173 TGATGTATGGATACCACCCTGGTCAAATCTGCCTTTTTCCTATTTTACACGTGCTTACCACCCTA
1 TGATGTATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTATTTGACACATGCTTACCACCCTA
*
227238 GTCAAACACTTCTTAATTCAGTT
66 GTCAAACACTTCTTAATTCAGTC
227261 TGATGTATGGTTACCACC
1 TGATGTATGGTTACCACC
227279 TCGATTTTAG
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (88 bp):
TGATGTATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTATTTGACACATGCTTACCACCCTA
GTCAAACACTTCTTAATTCAGTC
Found at i:227415 original size:44 final size:44
Alignment explanation
Indices: 227361--227690 Score: 148
Period size: 44 Copynumber: 7.5 Consensus size: 44
227351 CTCCTTCTTA
*
227361 TTTGATGTATGGTTACCACCCTGGTCAAACTCTTCCCATTTCTG
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCCCATTTCTG
* * * * * * * * ***
227405 CTTAACGTATGGTTACAATCTTGGTCAGATTTTTTTTATTT-TG
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCCCATTTCTG
* * * *
227448 ATTTGACGTATGGCTACCACCCTGGTCAAA-TCTACCTTC-TTCCTA
1 -TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCC--CATTTCTG
* ** ** **
227493 TTTGACGTATAGTTACCACCCTGGTCAAACTCTTTTCAAGTAGG
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCCCATTTCTG
* * * * * *
227537 TTTGACGTATGGATACCACCTTGGTCAGACTCCTT-TCATTCCTA
1 TTTGACGTATGGTTACCACCCTGGTCAAACT-CTTCCCATTTCTG
* * * * * *** *
227581 CTTGACGTGTGGGTACCACCTTGGTCAAGCTCTTTTTATTCCTG
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCCCATTTCTG
* * * * * *
227625 TTTAACATATGATTACCACTCTGGTCAAACGT-TTCTCATTTCGG
1 TTTGACGTATGGTTACCACCCTGGTCAAAC-TCTTCCCATTTCTG
* ** *
227669 TCTGGTGTATGGTTACTACCCT
1 TTTGACGTATGGTTACCACCCT
227691 TGTTAAATGA
Statistics
Matches: 202, Mismatches: 75, Indels: 18
0.68 0.25 0.06
Matches are distributed among these distances:
43 8 0.04
44 186 0.92
45 8 0.04
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (44 bp):
TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCCCATTTCTG
Found at i:227518 original size:88 final size:88
Alignment explanation
Indices: 227360--227616 Score: 234
Period size: 88 Copynumber: 2.9 Consensus size: 88
227350 TCTCCTTCTT
* * * * * *
227360 ATTTGATGTATGGTTACCACCCTGGTCAAA-CT-CTTCCCATTTCTGCTTAACGTATGGTTACAA
1 ATTTGACGTATGGATACCACCCTGGTCAAATCTCCTT--CATTCCTACTTGACGTATGGTTACCA
* * * * * ** *
227423 TCTTGGTCAGATTTTTTTTATTTTG
64 CCTTGGTCAAACTCTTTTCAAGTAG
* * *
227448 ATTTGACGTATGGCTACCACCCTGGTCAAATCTACCTTC-TTCCTATTTGACGTATAGTTACCAC
1 ATTTGACGTATGGATACCACCCTGGTCAAATCT-CCTTCATTCCTACTTGACGTATGGTTACCAC
*
227512 CCTGGTCAAACTCTTTTCAAGTAG
65 CTTGGTCAAACTCTTTTCAAGTAG
* * * * *
227536 GTTTGACGTATGGATACCACCTTGGTCAGA-CTCCTTTCATTCCTACTTGACGTGTGGGTACCAC
1 ATTTGACGTATGGATACCACCCTGGTCAAATCTCC-TTCATTCCTACTTGACGTATGGTTACCAC
*
227600 CTTGGTCAAGCTCTTTT
65 CTTGGTCAAACTCTTTT
227617 TATTCCTGTT
Statistics
Matches: 137, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
86 2 0.01
87 5 0.04
88 124 0.91
89 3 0.02
91 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (88 bp):
ATTTGACGTATGGATACCACCCTGGTCAAATCTCCTTCATTCCTACTTGACGTATGGTTACCACC
TTGGTCAAACTCTTTTCAAGTAG
Found at i:227545 original size:132 final size:132
Alignment explanation
Indices: 227290--227565 Score: 318
Period size: 132 Copynumber: 2.1 Consensus size: 132
227280 CGATTTTAGC
* * * **
227290 ACCTTGGTTAAATTTTTTTCATTCTGATTTAACATATGATTACCACCCTGATCAAATCTGTCTCC
1 ACCTTGGTCAGATTTTTTTCATTCTGATTTAACATATGACTACCACCCTGATCAAATCTACCTCC
* * * ** ** *
227355 TTCTTATTTGATGTATGGTTACCACCCTGGTCAAACTCTTCCCATTTCTGCTTAACGTATGGTTA
66 TTCCTATTTGACGTATAGTTACCACCCTGGTCAAACTCTTCCCAAGTAGGCTTAACGTATGGATA
227420 CA
131 CA
* * * * * * * *
227422 ATCTTGGTCAGATTTTTTTTATTTTGATTTGACGTATGGCTACCACCCTGGTCAAATCTACCTTC
1 ACCTTGGTCAGATTTTTTTCATTCTGATTTAACATATGACTACCACCCTGATCAAATCTACCTCC
** * *
227487 TTCCTATTTGACGTATAGTTACCACCCTGGTCAAACTCTTTTCAAGTAGGTTTGACGTATGGATA
66 TTCCTATTTGACGTATAGTTACCACCCTGGTCAAACTCTTCCCAAGTAGGCTTAACGTATGGATA
*
227552 CC
131 CA
227554 ACCTTGGTCAGA
1 ACCTTGGTCAGA
227566 CTCCTTTCAT
Statistics
Matches: 117, Mismatches: 27, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
132 117 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (132 bp):
ACCTTGGTCAGATTTTTTTCATTCTGATTTAACATATGACTACCACCCTGATCAAATCTACCTCC
TTCCTATTTGACGTATAGTTACCACCCTGGTCAAACTCTTCCCAAGTAGGCTTAACGTATGGATA
CA
Found at i:227586 original size:132 final size:132
Alignment explanation
Indices: 227306--227608 Score: 302
Period size: 132 Copynumber: 2.3 Consensus size: 132
227296 GTTAAATTTT
* * * ** * ** * *
227306 TTTCATTCTGATTTAACATATGATTACCACCCTGATCAAATCTGTCTCCTTCTTATTTGATGTAT
1 TTTCATTCTGACTTGACGTATGGCTACCACCCTGGTCAAATCTACCTCCTTCCTATTTGACGTAT
* ** ** * * *
227371 GGTTACCACCCTGGTCAAACTCTTCCCATTTCTGCTTAACGTATGGTTACAATCTTGGTCAGATT
66 AGTTACCACCCTGGTCAAACTCTTCCCAAGTAGGCTTAACGTATGGATACAACCTTGGTCAGACT
**
227436 TT
131 CC
* * * *
227438 TTTTATTTTGATTTGACGTATGGCTACCACCCTGGTCAAATCTACCTTCTTCCTATTTGACGTAT
1 TTTCATTCTGACTTGACGTATGGCTACCACCCTGGTCAAATCTACCTCCTTCCTATTTGACGTAT
** * * *
227503 AGTTACCACCCTGGTCAAACTCTTTTCAAGTAGGTTTGACGTATGGATACCACCTTGGTCAGACT
66 AGTTACCACCCTGGTCAAACTCTTCCCAAGTAGGCTTAACGTATGGATACAACCTTGGTCAGACT
227568 CC
131 CC
* * *
227570 TTTCATTCCT-ACTTGACGTGTGGGTACCACCTTGGTCAA
1 TTTCATT-CTGACTTGACGTATGGCTACCACCCTGGTCAA
227609 GCTCTTTTTA
Statistics
Matches: 137, Mismatches: 33, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
132 136 0.99
133 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (132 bp):
TTTCATTCTGACTTGACGTATGGCTACCACCCTGGTCAAATCTACCTCCTTCCTATTTGACGTAT
AGTTACCACCCTGGTCAAACTCTTCCCAAGTAGGCTTAACGTATGGATACAACCTTGGTCAGACT
CC
Found at i:229254 original size:165 final size:163
Alignment explanation
Indices: 228945--229527 Score: 442
Period size: 165 Copynumber: 3.5 Consensus size: 163
228935 TTTTGATCCC
* * * *
228945 AAAATTCCTTAAATATTATCATTTAATCACCATAAAATTAGTTTTGAAAATTTCTTTTTATTTTA
1 AAAATTCATTAAATATTATCATTTAATCACAAT-AAATCAGTTTTGAAAATTTC-TTTTATTTCA
* * * * ** * * * * *
229010 TGACTTGTTAATTTTCTTTTTG-AATTCCTCATGTTTTCAAAATACGAAGTTTTCTACTT-TAT-
64 TTAATTTTTCATTTT-TCCTTGAAAAT-CTCCTGTTTTCAAAAAACTAAGTTTTCTA-TTCCATA
** *
229072 AATTTTTTTAGGAGGA-TTTTCATTAATCCAAAATTTTT
126 AAAGTTTTTAGGAGGATTTTTC-TCAATCCAAAATTTTT
* *
229110 AAAATTCATTAAATATTATTATTTAACTCACAATAAATCAGTTTCGAAAAATTTCTTTTATTTCA
1 AAAATTCATTAAATATTATCATTTAA-TCACAATAAATCAGTTTTG-AAAATTTCTTTTATTTCA
*
229175 TTAATTTTTCATTTTTCCTTGAAACTCTCCTGTTTTCAAAAAACTAAGTTTTCTATTCCATAAAA
64 TTAATTTTTCATTTTTCCTTGAAAATCTCCTGTTTTCAAAAAACTAAGTTTTCTATTCCATAAAA
* *
229240 GTTTTT-GCGAGGATTTTTCTCAGTTCAAAATTTTT
129 GTTTTTAG-GAGGATTTTTCTCAATCCAAAATTTTT
* * * * * * *
229275 AAAATTCATCAAATATCATCATTTAAATCATATTACATCAATTTTGAAAATTTCATTTATTTTCA
1 AAAATTCATTAAATATTATCATTT-AATCACAATAAATCAGTTTTGAAAATTTCTTTTA-TTTCA
* * * * * * * *
229340 -TGAGTTTTCATTTTTTTCCTT-AAAATTTCCCTTTTTTTAAAACATTGAGTTTTCTATTCCATA
64 TTAATTTTTCA--TTTTTCCTTGAAAATCT-CCTGTTTTCAAAAAACTAAGTTTTCTATTCCATA
* * ** * **
229403 ACAGTTTTCGAGGAGGGGTTTTCTCAGTTTAAAATTTTT
126 AAAGTTTT-TAGGAGGATTTTTCTCAATCCAAAATTTTT
* * * * * * * * * *
229442 AATATTCATAAAATATCATCATTTAATTTATAGTAAATCATTTTTGAAAAATTCATTCATTTTCA
1 AAAATTCATTAAATATTATCATTTAA-TCACAATAAATCAGTTTTGAAAATTTCTTTTA-TTTCA
* * *
229507 TGAGTTTTTCATTTTTTCTTG
64 TTAATTTTTCATTTTTCCTTG
229528 CCCTTGTTTC
Statistics
Matches: 343, Mismatches: 58, Indels: 32
0.79 0.13 0.07
Matches are distributed among these distances:
163 2 0.01
164 53 0.15
165 127 0.37
166 76 0.22
167 78 0.23
168 7 0.02
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (163 bp):
AAAATTCATTAAATATTATCATTTAATCACAATAAATCAGTTTTGAAAATTTCTTTTATTTCATT
AATTTTTCATTTTTCCTTGAAAATCTCCTGTTTTCAAAAAACTAAGTTTTCTATTCCATAAAAGT
TTTTAGGAGGATTTTTCTCAATCCAAAATTTTT
Found at i:229524 original size:167 final size:166
Alignment explanation
Indices: 229100--229524 Score: 489
Period size: 167 Copynumber: 2.6 Consensus size: 166
229090 TTCATTAATC
* * * * * * *
229100 CAAAATTTTTAAAATTCATTAAATATTATTATTTAACTCACAATAAATCAGTTTCGAAAAATTTC
1 CAAAATTTTTAAAATTCATAAAATATCATCATTTAAATCATAATAAATCAATTTTGAAAAA-TTC
* * * *
229165 TTTTA-TTTCATTAATTTTTCA-TTTTTCCTTGAAACTCTCCTGTTTTCAAAAAACTAAGTTTTC
65 ATTTATTTTCATGAGTTTTTCATTTTTTCCTTAAAACTCTCCTGTTTTCAAAAAACTAAGTTTTC
* *
229228 TATTCCATAAAAGTTTTTGCGAGGATTTTTCTCAGTT
130 TATTCCATAAAAGTTTTCGCGAGGAGTTTTCTCAGTT
* * * *
229265 CAAAATTTTTAAAATTCATCAAATATCATCATTTAAATCATATTACATCAATTTTGAAAATTTCA
1 CAAAATTTTTAAAATTCATAAAATATCATCATTTAAATCATAATAAATCAATTTTGAAAAATTCA
* * * * * *
229330 TTTATTTTCATGAG-TTTTCATTTTTTTCCTTAAAA-TTTCCCTTTTTTTAAAACATTGAGTTTT
66 TTTATTTTCATGAGTTTTTCA-TTTTTTCCTTAAAACTCT-CCTGTTTTCAAAAAACTAAGTTTT
* * *
229393 CTATTCCATAACAGTTTTCGAGGAGGGGTTTTCTCAGTT
129 CTATTCCATAAAAGTTTTCG-CGAGGAGTTTTCTCAGTT
* * * * * *
229432 TAAAATTTTTAATATTCATAAAATATCATCATTTAATTTATAGTAAATCATTTTTGAAAAATTCA
1 CAAAATTTTTAAAATTCATAAAATATCATCATTTAAATCATAATAAATCAATTTTGAAAAATTCA
*
229497 TTCATTTTCATGAGTTTTTCATTTTTTC
66 TTTATTTTCATGAGTTTTTCATTTTTTC
229525 TTGCCCTTGT
Statistics
Matches: 219, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
164 13 0.06
165 60 0.27
166 49 0.22
167 91 0.42
168 6 0.03
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.47
Consensus pattern (166 bp):
CAAAATTTTTAAAATTCATAAAATATCATCATTTAAATCATAATAAATCAATTTTGAAAAATTCA
TTTATTTTCATGAGTTTTTCATTTTTTCCTTAAAACTCTCCTGTTTTCAAAAAACTAAGTTTTCT
ATTCCATAAAAGTTTTCGCGAGGAGTTTTCTCAGTT
Found at i:230056 original size:16 final size:15
Alignment explanation
Indices: 230025--230058 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
230015 ATTAAATGAT
*
230025 ATGAAAGAAAATAAA
1 ATGAAAGAAAACAAA
230040 ATGAAAGAAAAACAAA
1 ATGAAAG-AAAACAAA
230056 ATG
1 ATG
230059 GAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (15 bp):
ATGAAAGAAAACAAA
Found at i:230180 original size:11 final size:11
Alignment explanation
Indices: 230164--230225 Score: 65
Period size: 11 Copynumber: 5.6 Consensus size: 11
230154 TTGGCAAGTA
230164 AGAAAAAAAAG
1 AGAAAAAAAAG
*
230175 AGAAAAAAAAA
1 AGAAAAAAAAG
230186 AGAGAAAAAAAG
1 AGA-AAAAAAAG
230198 A-AAGAAAAAAG
1 AGAA-AAAAAAG
**
230209 AGAGTAAAAAG
1 AGAAAAAAAAG
230220 -GAAAAA
1 AGAAAAA
230226 TCAAGACAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
10 5 0.12
11 28 0.67
12 9 0.21
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:230184 original size:13 final size:13
Alignment explanation
Indices: 230166--230207 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
230156 GGCAAGTAAG
230166 AAAAAAAAGAGAA
1 AAAAAAAAGAGAA
230179 AAAAAAAAGAGAA
1 AAAAAAAAGAGAA
230192 AAAAAGAAAGA-AA
1 AAAAA-AAAGAGAA
230205 AAA
1 AAA
230208 GAGAGTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 23 0.82
14 5 0.18
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAA
Found at i:230197 original size:23 final size:23
Alignment explanation
Indices: 230163--230225 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 23
230153 TTTGGCAAGT
230163 AAGA-AAAAAAAGAGAAAAAAAA
1 AAGAGAAAAAAAGAGAAAAAAAA
*
230185 AAGAG-AAAAAA-AGAAAGAAAA
1 AAGAGAAAAAAAGAGAAAAAAAA
*
230206 AAGAGAGTAAAAAG-GAAAAA
1 AAGAGA-AAAAAAGAGAAAAA
230226 TCAAGACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 14 0.41
22 10 0.29
23 10 0.29
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (23 bp):
AAGAGAAAAAAAGAGAAAAAAAA
Found at i:230924 original size:13 final size:13
Alignment explanation
Indices: 230892--230924 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
230882 CCCAAAAATT
230892 CAATGTATCAATA
1 CAATGTATCAATA
230905 C-ATGTATCAATA
1 CAATGTATCAATA
230917 CAATGTAT
1 CAATGTAT
230925 AAATGTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (13 bp):
CAATGTATCAATA
Found at i:236346 original size:20 final size:20
Alignment explanation
Indices: 236323--236395 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
236313 ACAATTCAAA
236323 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
236343 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
236364 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
236384 GTATCGATACAT
1 GTATCGATACAT
236396 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:236367 original size:21 final size:21
Alignment explanation
Indices: 236341--236416 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
236331 ACATGTTGCA
236341 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
236362 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
236382 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
236403 TTGTATCGATACAT
1 ATGTATCGATACAT
236417 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:236374 original size:41 final size:41
Alignment explanation
Indices: 236323--236416 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
236313 ACAATTCAAA
*
236323 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
236364 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
236405 GTATCGATACAT
1 GTATCGATACAT
236417 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:240561 original size:15 final size:15
Alignment explanation
Indices: 240541--240571 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
240531 TAAAAATGTC
*
240541 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
240556 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
240571 C
1 C
240572 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:242665 original size:20 final size:21
Alignment explanation
Indices: 242586--242664 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
242576 AATGTCCAAA
*
242586 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
242606 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
242631 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
242651 TTGTATCGATACAT
1 ATGTATCGATACAT
242665 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:242669 original size:13 final size:13
Alignment explanation
Indices: 242651--242689 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
242641 ACATTTTTCT
242651 TTGTATCGATACA
1 TTGTATCGATACA
242664 TTGTATCGATACA
1 TTGTATCGATACA
*
242677 CTGTATCGATACA
1 TTGTATCGATACA
242690 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:245164 original size:20 final size:20
Alignment explanation
Indices: 245141--245213 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
245131 ACAATTCAAA
245141 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
245161 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
245182 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
245202 GTATCGATACAT
1 GTATCGATACAT
245214 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:245185 original size:21 final size:21
Alignment explanation
Indices: 245159--245234 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
245149 ACATGTTGCA
245159 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
245180 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
245200 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
245221 TTGTATCGATACAT
1 ATGTATCGATACAT
245235 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:245192 original size:41 final size:41
Alignment explanation
Indices: 245141--245234 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
245131 ACAATTCAAA
*
245141 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
245182 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
245223 GTATCGATACAT
1 GTATCGATACAT
245235 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:249831 original size:312 final size:307
Alignment explanation
Indices: 249237--250383 Score: 1025
Period size: 312 Copynumber: 3.7 Consensus size: 307
249227 TAGTGTAGAC
* * * * * * *
249237 TAGGGGTATCGTGTACTTTTACGTCGAATGTATCCCCTAGGAGCATTTTCATAATTTTCTAGAAC
1 TAGGGGTATCGGGTACTGTTACGTCAAAGGTATCCCCTAGG-GTATTTTCATAATTTTCTAAAAT
* * * * * * * * * * * **
249302 CAACTCCTACGTCGTC-GTCGAGTTTGCGTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATC
65 CGAGTCCTAGGTTGTCACTAG-GTCT-CTTTTTTGCCAAAAGTGGGCATTTAGGATAGGTTCATC
* * * * * *
249366 CCTTCTATAATACTTTTCAAGTCCTTTAAAGATACCGGAATACTTTCACATCAAAGGTATACCCA
128 CCATCTCTAATCCTTTTTAAGTCCTTTAAGGATACCGGGATACTTTCACATCAAAGGTAT-CCCA
** * * *
249431 TAGGGATATTTTGGTAATTTCTTAGAACCAATTCCTAGGTCGTCATTGAGTTTGCTTTTATGCTG
192 TAGGGGCATTTTGGTAATTTCTTAGAACCAATTCCTAGGTCGTCA-TCAG-GTCCTTTTATGCTG
* * * * *
249496 AAGATGTGTATTTAGGATAGGTTCATCCTATATATAATTCTTTGTAAGTCCTT
255 AAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATTCTTTTTAAGTCCTT
* ** * *
249549 TAGGGGCATCGGGTACTGTTATATCGAAGGTATCCCCTAGGGATATTTTCATAATTTTCCAAAAT
1 TAGGGGTATCGGGTACTGTTACGTCAAAGGTATCCCCTAGGG-TATTTTCATAATTTTCTAAAAT
** * *
249614 CGAGTCCTAAATTGTCACTAGGTCTGCTTTTTTGCCAAATGTGGGCATTTAGGATAGGTTTATCC
65 CGAGTCCTAGGTTGTCACTAGGTCT-CTTTTTTGCCAAAAGTGGGCATTTAGGATAGGTTCATCC
* * ** *
249679 CATCTCTAATCCTTTTTAAGTCCTTTAGGGATACCGGGATACTTTCACGTTGAAGGTATACTCAT
129 CATCTCTAATCCTTTTTAAGTCCTTTAAGGATACCGGGATACTTTCACATCAAAGGTAT-CCCAT
* * *
249744 AGGGGCATTTTGGTAATTTCTTAGAACCAATTCCTAGGTCGTCA-CTAGGTCCATTTTTGTGTTA
193 AGGGGCATTTTGGTAATTTCTTAGAACCAATTCCTAGGTCGTCATC-AGGTCC--TTTTATGCTG
249808 AAGGTGGGTATTTAGCG-TAGGTTCATCCCATCTATAATTCTTTTTAAGT-CTT
255 AAGGTGGGTATTTAG-GATAGGTTCATCCCATCTATAATTCTTTTTAAGTCCTT
* * *
249860 TAAGGGGTATCAGGTACTTTTACGTCAAAGGTATCTCCCAAGGGTATTTTCATAATTTTCTAAAA
1 T-AGGGGTATCGGGTACTGTTACGTCAAAGGTATC-CCCTAGGGTATTTTCATAATTTTCTAAAA
* ** *
249925 CCGAGTTATAGGTTGTCA-TAGGGTC-CTTTTTTATGCCAAAAGTGGGCATTTATGATAGGTTCA
64 TCGAGTCCTAGGTTGTCACTA-GGTCTC-TTTTT-TGCCAAAAGTGGGCATTTAGGATAGGTTCA
** * * * * *
249988 TCCCATCTCTAATCCTTTTTAAGTTTTTTAAGGGTATC-AGATACTTTTACGTCAAAGGTATCCC
126 TCCCATCTCTAATCCTTTTTAAGTCCTTTAAGGATACCGGGATACTTTCACATCAAAGGTATCCC
* ** * * * * * * * ** * *
250052 CTAGGGGCATTTTCATAATTT-TCCATACCCGAGTCGTAGATTATCATCGGGTTTGCTTTTATGC
191 ATAGGGGCATTTTGGTAATTTCT-TAGAACCAATTCCTAGGTCGTCATCAGG--TCCTTTTATGC
* * ** * *
250116 TGAATGTGGGCATTTAGGATAGGTTCATCCCATCTCCAATCCTTTTTAAGTCTTT
253 TGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATTCTTTTTAAGTCCTT
* * * ** * *
250171 TAGGGGTATTGGGTATTGTTACGTCAAAGGCATCCCCTAGGGGTATTTTGGTAATTTTTTAGAAT
1 TAGGGGTATCGGGTACTGTTACGTCAAAGGTATCCCCTA-GGGTATTTTCATAATTTTCTAAAAT
* ** * * * * *
250236 TGAGTCCTAGGTTGTCACCGGGTTTACTTCTATGCCTAAGGTGGGCATTTAGGATAGGTTCATCC
65 CGAGTCCTAGGTTGTCACTAGGTCT-CTTTTTTGCCAAAAGTGGGCATTTAGGATAGGTTCATCC
* * * * * *
250301 CATCTTTAGTCTTTTTTAAGTCTTTTAAGGTTACCGGGATACTTTCACATCGAAGGTATCTCC-T
129 CATCTCTAATCCTTTTTAAGTCCTTTAAGGATACCGGGATACTTTCACATCAAAGGTATC-CCAT
* *
250365 AAGGGCATTTTTGTAATTT
193 AGGGGCATTTTGGTAATTT
250384 TTTTTGAATT
Statistics
Matches: 679, Mismatches: 133, Indels: 47
0.79 0.15 0.05
Matches are distributed among these distances:
309 6 0.01
310 212 0.31
311 77 0.11
312 374 0.55
313 10 0.01
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (307 bp):
TAGGGGTATCGGGTACTGTTACGTCAAAGGTATCCCCTAGGGTATTTTCATAATTTTCTAAAATC
GAGTCCTAGGTTGTCACTAGGTCTCTTTTTTGCCAAAAGTGGGCATTTAGGATAGGTTCATCCCA
TCTCTAATCCTTTTTAAGTCCTTTAAGGATACCGGGATACTTTCACATCAAAGGTATCCCATAGG
GGCATTTTGGTAATTTCTTAGAACCAATTCCTAGGTCGTCATCAGGTCCTTTTATGCTGAAGGTG
GGTATTTAGGATAGGTTCATCCCATCTATAATTCTTTTTAAGTCCTT
Found at i:250385 original size:155 final size:155
Alignment explanation
Indices: 249240--250385 Score: 756
Period size: 155 Copynumber: 7.4 Consensus size: 155
249230 TGTAGACTAG
* * * * **
249240 GGGTATCGTG-TACTTTTACGTCGAATGTATCCCCT-AGGAGCATTTTCATAATTTTCTAGAACC
1 GGGTATCGGGATACTTTCACGTCAAAGGTATCCCCTAAGG-GCATTTTTGTAATTTT-TAGAACC
* * * * * * * * **
249303 AACTCCTACGTCGTC-GTCGAGTTTGCGTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCC
64 GAGTCCTAGGTTGTCACT-GGGTTTGCTTTTATGCCTAAGGTGGGCATTTAGGATAGGTTCATCC
* * *
249367 CTTCTATAATACTTTTCAAGTCCTTTAA
128 CATCTATAATCCTTTTTAAGTCCTTTAA
* * * * * *
249395 AGATACCGGAATACTTTCACATCAAAGGTATACCC-ATAGGG-ATATTTTGGTAATTTCTTAGAA
1 GGGTATCGGGATACTTTCACGTCAAAGGTATCCCCTA-AGGGCAT-TTTT-GTAATTT-TTAGAA
* * * * * * * *
249458 CCAATTCCTAGGTCGTCATTGAGTTTGCTTTTATG-CTGAAGATGTGTATTTAGGATAGGTTCAT
62 CCGAGTCCTAGGTTGTCACTGGGTTTGCTTTTATGCCT-AAGGTGGGCATTTAGGATAGGTTCAT
* * * * *
249522 CCTATATATAATTCTTTGTAAGTCCTTTAG
126 CCCATCTATAATCCTTTTTAAGTCCTTTAA
* ** * * * *
249552 GGGCATCGGG-TACTGTT-ATATCGAAGGTATCCCCT-AGGG-ATATTTTCATAATTTTCCAAAA
1 GGGTATCGGGATACT-TTCACGTCAAAGGTATCCCCTAAGGGCAT-TTTT-GTAATTTT-TAGAA
* ** * * * * * *
249613 TCGAGTCCTAAATTGTCACTAGGTCTGCTTTTTTGCCAAATGTGGGCATTTAGGATAGGTTTATC
62 CCGAGTCCTAGGTTGTCACTGGGTTTGCTTTTATGCCTAAGGTGGGCATTTAGGATAGGTTCATC
*
249678 CCATCTCTAATCCTTTTTAAGTCCTTT-A
127 CCATCTATAATCCTTTTTAAGTCCTTTAA
* ** * * * *
249706 GGGATACCGGGATACTTTCACGTTGAAGGTATACTCATAGGGGCATTTTGGTAATTTCTTAGAAC
1 GGG-TATCGGGATACTTTCACGTCAAAGGTAT-CCCCTAAGGGCATTTTTGTAATTT-TTAGAAC
* * * * **** * * *
249771 CAATTCCTAGGTCGTCACTAGGTCCATTTTTGTG-TTAAAGGTGGGTATTTAGCG-TAGGTTCAT
63 CGAGTCCTAGGTTGTCACTGGGTTTGCTTTTATGCCT-AAGGTGGGCATTTAG-GATAGGTTCAT
*
249834 CCCATCTATAATTCTTTTTAAGT-CTTTAA
126 CCCATCTATAATCCTTTTTAAGTCCTTTAA
* * * ** *
249863 GGGGTATCAGG-TACTTTTACGTCAAAGGTATCTCCC-AAGGGTATTTTCATAATTTTCTAAAAC
1 -GGGTATCGGGATACTTTCACGTCAAAGGTATC-CCCTAAGGGCATTTTTGTAATTTT-TAGAAC
** * * *
249926 CGAGTTATAGGTTGTCA-TAGGGTCCTT--TTTTATGCCAAAAGTGGGCATTTATGATAGGTTCA
63 CGAGTCCTAGGTTGTCACT-GGGT--TTGCTTTTATGCCTAAGGTGGGCATTTAGGATAGGTTCA
* **
249988 TCCCATCTCTAATCCTTTTTAAGTTTTTTAA
125 TCCCATCTATAATCCTTTTTAAGTCCTTTAA
* * * ** * * *
250019 GGGTATC-AGATACTTTTACGTCAAAGGTATCCCCTAGGGGCATTTTCATAATTTTCCATACCCG
1 GGGTATCGGGATACTTTCACGTCAAAGGTATCCCCTAAGGGCATTTTTGTAATTTT-TAGAACCG
* * * *
250083 AGTCGTAGATTATCA-TCGGGTTTGCTTTTATG-CTGAATGTGGGCATTTAGGATAGGTTCATCC
65 AGTCCTAGGTTGTCACT-GGGTTTGCTTTTATGCCT-AAGGTGGGCATTTAGGATAGGTTCATCC
** * *
250146 CATCTCCAATCCTTTTTAAGTCTTTTAG
128 CATCTATAATCCTTTTTAAGTCCTTTAA
* * * * * * **
250174 GGGTATTGGG-TA-TTGTTACGTCAAAGGCATCCCCTAGGGGTATTTTGGTAATTTTTTAGAATT
1 GGGTATCGGGATACTT-TCACGTCAAAGGTATCCCCTAAGGGCATTTTTGTAA-TTTTTAGAACC
* * *
250237 GAGTCCTAGGTTGTCACCGGGTTTACTTCTATGCCTAAGGTGGGCATTTAGGATAGGTTCATCCC
64 GAGTCCTAGGTTGTCACTGGGTTTGCTTTTATGCCTAAGGTGGGCATTTAGGATAGGTTCATCCC
* * * *
250302 ATCTTTAGTCTTTTTTAAGTCTTTTAA
129 ATCTATAATCCTTTTTAAGTCCTTTAA
* * * * *
250329 GGTTACCGGGATACTTTCACATCGAAGGTATCTCCTAAGGGCATTTTTGTAATTTTT
1 GGGTATCGGGATACTTTCACGTCAAAGGTATCCCCTAAGGGCATTTTTGTAATTTTT
250386 TTTGAATTTA
Statistics
Matches: 777, Mismatches: 171, Indels: 86
0.75 0.17 0.08
Matches are distributed among these distances:
153 2 0.00
154 14 0.02
155 442 0.57
156 121 0.16
157 183 0.24
158 13 0.02
159 2 0.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (155 bp):
GGGTATCGGGATACTTTCACGTCAAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTAGAACCGA
GTCCTAGGTTGTCACTGGGTTTGCTTTTATGCCTAAGGTGGGCATTTAGGATAGGTTCATCCCAT
CTATAATCCTTTTTAAGTCCTTTAA
Found at i:252993 original size:52 final size:52
Alignment explanation
Indices: 252921--253043 Score: 183
Period size: 52 Copynumber: 2.4 Consensus size: 52
252911 ATGAAATTTT
*
252921 GCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTGGGCAAATTG
1 GCCTACATGTATCGATACATTTCATAATGTATCGATACATCTGGGCAAATTG
* * * *
252973 GCCTATATGTATCGATACATTTCATAGTGTATCGATGCATCTGGGCAAATTT
1 GCCTACATGTATCGATACATTTCATAATGTATCGATACATCTGGGCAAATTG
* *
253025 GCCTGCATGTATTGATACA
1 GCCTACATGTATCGATACA
253044 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (52 bp):
GCCTACATGTATCGATACATTTCATAATGTATCGATACATCTGGGCAAATTG
Found at i:253054 original size:52 final size:52
Alignment explanation
Indices: 252921--253063 Score: 162
Period size: 52 Copynumber: 2.8 Consensus size: 52
252911 ATGAAATTTT
* ** *
252921 GCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTGGGCAAATTG
1 GCCTACATGTATCGATACATAACATAGTGTATCGATACATCTGGGCAAATTG
* ** * *
252973 GCCTATATGTATCGATACATTTCATAGTGTATCGATGCATCTGGGCAAATTT
1 GCCTACATGTATCGATACATAACATAGTGTATCGATACATCTGGGCAAATTG
* * *
253025 GCCTGCATGTATTGATACA-AAGATCAGTGTATCGATACA
1 GCCTACATGTATCGATACATAACAT-AGTGTATCGATACA
253064 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 2 0.03
52 76 0.97
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (52 bp):
GCCTACATGTATCGATACATAACATAGTGTATCGATACATCTGGGCAAATTG
Found at i:253070 original size:13 final size:13
Alignment explanation
Indices: 253052--253076 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
253042 CAAAGATCAG
253052 TGTATCGATACAA
1 TGTATCGATACAA
253065 TGTATCGATACA
1 TGTATCGATACA
253077 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:253089 original size:21 final size:21
Alignment explanation
Indices: 253063--253121 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
253053 GTATCGATAC
253063 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
253084 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
*
253105 AATGTATCAATACATTT
1 AATGTATCGATACATTT
253122 TCTTGGCAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTGAGT
Found at i:254261 original size:49 final size:49
Alignment explanation
Indices: 254084--255254 Score: 1371
Period size: 49 Copynumber: 23.8 Consensus size: 49
254074 GTGATAAAGA
* * * * *
254084 TGCCAATGTGCTGATTCACGGTCAGCGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G---AAGG
* * * * ** * *
254138 ATGTCAATATGCTGAATCACGGTTAGCTACATTGGACTTGAAGATGAGAAGAA
1 -TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--GAAG-G
* * *
254191 TGCCAATGTGCTGATTTAAGGCCAGCTACATTAGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
254240 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
254289 CGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
254338 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
254387 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
254436 TGCCAATGTGCTGATTCAAGGCCAGCTATATTCGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
254479 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
254528 TGCCAA-ATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
254576 TGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGGTGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
254625 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * *
254674 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGGTGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * * * * * *
254723 TGCCAATGTGC-GATGCCAATGTG-CTGATTCA-AGGCCAGC-TACATTGGACTTAAAGATG
1 TGCCAATGTGCTGAT-TCAA-G-GCCAGCTACATTGG--A-CTTA-A--AGA--TGAAG--G
* * * * *
254781 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA-TT-----TAAAGG
1 --TG-CC-AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
254828 TGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * * *
254877 TGCCAATGTGTTGATTCAAGGCCAGCTACATTAGACTTAAAGGTGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
254926 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
254975 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
*
255024 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
**
255067 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAATA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
255116 TGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
255165 TGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * * *
255214 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
255255 ATTGTTGCCA
Statistics
Matches: 972, Mismatches: 103, Indels: 88
0.84 0.09 0.08
Matches are distributed among these distances:
43 108 0.11
44 3 0.00
45 3 0.00
47 3 0.00
48 48 0.05
49 687 0.71
50 9 0.01
51 3 0.00
52 40 0.04
54 1 0.00
55 39 0.04
56 4 0.00
59 1 0.00
60 3 0.00
61 6 0.01
62 11 0.01
63 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
Found at i:254499 original size:21 final size:21
Alignment explanation
Indices: 254432--254499 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
254422 CTTAAAGATG
254432 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
254453 AA-G-GCCAGCTATATTC-GACTTA
1 AAGGTGCCA---ATGTGCTGA-TTC
254475 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
254496 AAGG
1 AAGG
254500 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 14 0.41
22 10 0.29
23 1 0.03
24 4 0.12
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:254739 original size:13 final size:13
Alignment explanation
Indices: 254721--254746 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
254711 TAAAGGTGAA
254721 GATGCCAATGTGC
1 GATGCCAATGTGC
254734 GATGCCAATGTGC
1 GATGCCAATGTGC
254747 TGATTCAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
GATGCCAATGTGC
Found at i:254775 original size:62 final size:62
Alignment explanation
Indices: 254674--254791 Score: 209
Period size: 62 Copynumber: 1.9 Consensus size: 62
254664 AAGATGAAGG
* *
254674 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGGTGAAGATGCCAATGTGCGA
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATGTGCGA
*
254736 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
254792 ATGCTGATTC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (62 bp):
TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATGTGCGA
Found at i:254818 original size:111 final size:111
Alignment explanation
Indices: 254623--254829 Score: 378
Period size: 111 Copynumber: 1.9 Consensus size: 111
254613 TAAAGGTGAA
*
254623 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
*
254688 TTCAAGGCCAGCTACATTGGGCTTAAAGGTGAAGATGCCAATGTGC
66 TTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGATGCCAATGTGC
254734 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
* *
254799 TTCAAGGCCAGCTATATTGGATTTAAAGGTG
66 TTCAAGGCCAGCTACATTGGACTTAAAGGTG
254830 CCAATGTGCT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 92 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (111 bp):
GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
TTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGATGCCAATGTGC
Found at i:255069 original size:190 final size:189
Alignment explanation
Indices: 254162--255254 Score: 1433
Period size: 190 Copynumber: 5.6 Consensus size: 189
254152 AATCACGGTT
* * * *
254162 AGCTACATTGGACTTGAAGATGAGAAGAATGCCAATGTGCTGATTTAAGGCCAGCTACATTAGAC
1 AGCTACATTGGACTTAAAGAT--GAAG-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
* * * *
254227 TTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGCGC
63 TTAAAGATGAA-GTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGC
* * * *
254292 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
121 CAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA
254357 GGCC
186 GGCC
* * *
254361 AGCTACATTGGACTTAAAGGTGAAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
1 AGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
*
254426 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTCGACTTAAAGGTGCCAATGTGCT
66 AAGATGAA-GTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
* *
254491 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAA-ATGCTGATTCAAGGCC
130 GATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
* *
254550 AGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTA
1 AGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
* *
254615 AAGGTGAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
66 AAGATGAAG-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAA
* *
254680 TGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGGTGAAGATGCCAATGTGCGATGCCAATGT
124 TGTGCTGATTCAAGGCCAGCTACATTAGACTT--A----AAGATG--AA-----GATGCCAATGT
254745 GCTGATTCAAGGCC
176 GCTGATTCAAGGCC
* * *
254759 AGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA-TTT
1 AGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
* *
254823 AA-A-G--GTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
66 AAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
* *
254884 GTGTTGATTCAAGGCCAGCTACATTAGACTTAAAGGTGAAGATGCCAATGTGCTGATTCAAGGCC
125 GTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
254949 AGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1 AGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
255014 AAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
66 AAGATGAAG-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
* *
255079 GATTCAAGGCCAGCTACATTGGACTTAAAGATGAATATGCCAATGTGCTGATTCAAGGCC
130 GATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
* * *
255139 AACTACATTGGACTTAAAGATGAAGATGCCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTA
1 AGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
* * * *
255204 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAA
66 AAGATGAA-GTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAA
255255 ATTGTTGCCA
Statistics
Matches: 815, Mismatches: 51, Indels: 65
0.88 0.05 0.07
Matches are distributed among these distances:
188 1 0.00
189 118 0.14
190 320 0.39
191 5 0.01
192 2 0.00
193 2 0.00
195 45 0.06
196 115 0.14
197 10 0.01
199 19 0.02
201 7 0.01
203 85 0.10
204 1 0.00
206 1 0.00
208 12 0.01
209 72 0.09
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (189 bp):
AGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
AAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTG
ATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
Found at i:255457 original size:32 final size:32
Alignment explanation
Indices: 255287--255511 Score: 236
Period size: 32 Copynumber: 6.9 Consensus size: 32
255277 GGCTTTTGAA
* * * *
255287 AAGAAAAAGGTGCCAC-AGAGTTGTGAACTTGA
1 AAGAAAAAGATGCCACTA-AGTCGTGGACTTGG
* * ** * *
255319 AAGGAAAAGGTGCCACGGAGTTGTGGACTTTG
1 AAGAAAAAGATGCCACTAAGTCGTGGACTTGG
* * *
255351 AAGAAAAAGATGCCACTGAGTCATGGACTTTG
1 AAGAAAAAGATGCCACTAAGTCGTGGACTTGG
* *
255383 AAGAAAAGGATGCCACTGAGTCGTGGACTTCGAG
1 AAGAAAAAGATGCCACTAAGTCGTGGACTT-G-G
* *
255417 AAGAAAAAAATGCCATTAAGTCGTGGACTTGG
1 AAGAAAAAGATGCCACTAAGTCGTGGACTTGG
*
255449 AAGAAAAAAGATGCCACTAAGTCGTGGAATTGG
1 AAG-AAAAAGATGCCACTAAGTCGTGGACTTGG
*
255482 AAGAAAAGGATGCCACTAAGTCGTGGACTT
1 AAGAAAAAGATGCCACTAAGTCGTGGACTT
255512 TGAGAAGAGA
Statistics
Matches: 167, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
32 110 0.66
33 30 0.18
34 27 0.16
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (32 bp):
AAGAAAAAGATGCCACTAAGTCGTGGACTTGG
Found at i:255504 original size:99 final size:98
Alignment explanation
Indices: 255341--255519 Score: 286
Period size: 99 Copynumber: 1.8 Consensus size: 98
255331 CCACGGAGTT
* * * * *
255341 GTGGACTTTGAAGAAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAGGATGCCACTGAGTCG
1 GTGGACTTGGAAGAAAAAGATGCCACTAAGTCATGGAATTGGAAGAAAAGGATGCCACTAAGTCG
255406 TGGACTTCGAGAAGAAAAAAATGCCATTAAGTC
66 TGGACTTCGAGAAGAAAAAAATGCCATTAAGTC
*
255439 GTGGACTTGGAAGAAAAAAGATGCCACTAAGTCGTGGAATTGGAAGAAAAGGATGCCACTAAGTC
1 GTGGACTTGGAAG-AAAAAGATGCCACTAAGTCATGGAATTGGAAGAAAAGGATGCCACTAAGTC
*
255504 GTGGACTTTGAGAAGA
65 GTGGACTTCGAGAAGA
255520 GATTTGAAGG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 12 0.16
99 61 0.84
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (98 bp):
GTGGACTTGGAAGAAAAAGATGCCACTAAGTCATGGAATTGGAAGAAAAGGATGCCACTAAGTCG
TGGACTTCGAGAAGAAAAAAATGCCATTAAGTC
Found at i:258507 original size:19 final size:20
Alignment explanation
Indices: 258464--258514 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
258454 TACAAGCTAA
**
258464 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
258484 TGTATCGATACATACTAT-G
1 TGTATCGATACATACTATGG
258503 TGTATCGATACA
1 TGTATCGATACA
258515 AGTTCAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:258611 original size:20 final size:20
Alignment explanation
Indices: 258569--258618 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
258559 TCTTTTTCAA
*
258569 GTATCGATACAATGCAACAT
1 GTATCGATACAATGAAACAT
* **
258589 GTATCGATACAATTAAATGT
1 GTATCGATACAATGAAACAT
258609 GTATCGATAC
1 GTATCGATAC
258619 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATGAAACAT
Found at i:260892 original size:20 final size:21
Alignment explanation
Indices: 260863--260903 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
260853 TGTTTTTGAA
260863 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
260882 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
260904 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:261053 original size:13 final size:13
Alignment explanation
Indices: 261037--261070 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
261027 AATCCCCTTA
*
261037 TATCGATACAGTG
1 TATCGATACAATG
261050 TATCGATACAATG
1 TATCGATACAATG
261063 TATCGATA
1 TATCGATA
261071 TAAAGAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:267222 original size:13 final size:13
Alignment explanation
Indices: 267204--267228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
267194 CATTTTATGG
267204 TGTATCGATACAA
1 TGTATCGATACAA
267217 TGTATCGATACA
1 TGTATCGATACA
267229 TACTATGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:267244 original size:32 final size:33
Alignment explanation
Indices: 267181--267248 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
267171 CGTTACAAGC
**
267181 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
267214 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
267246 CAA
1 CAA
267249 GTTTAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:267344 original size:20 final size:20
Alignment explanation
Indices: 267302--267351 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
267292 TCTTTTTCAA
*
267302 GTATCGATACAATGCAACAT
1 GTATCGATACAATGAAACAT
* **
267322 GTATCGATACAATTAAATGT
1 GTATCGATACAATGAAACAT
267342 GTATCGATAC
1 GTATCGATAC
267352 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATGAAACAT
Found at i:272894 original size:52 final size:52
Alignment explanation
Indices: 272820--272940 Score: 188
Period size: 52 Copynumber: 2.3 Consensus size: 52
272810 ATGAAATTTT
* *
272820 GCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTGGGTAAATTG
1 GCCTGCATGTATCGATAAATTTCATAATGTATCGATACATCTGGGCAAATTG
* * * *
272872 GCCTGTATGTATCGATAAATTTCATAGTGTATCGATATATCTGGGCAAATTT
1 GCCTGCATGTATCGATAAATTTCATAATGTATCGATACATCTGGGCAAATTG
272924 GCCTGCATGTATCGATA
1 GCCTGCATGTATCGATA
272941 CAAAGATCAG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (52 bp):
GCCTGCATGTATCGATAAATTTCATAATGTATCGATACATCTGGGCAAATTG
Found at i:272953 original size:52 final size:52
Alignment explanation
Indices: 272817--272962 Score: 163
Period size: 52 Copynumber: 2.8 Consensus size: 52
272807 AATATGAAAT
** * *
272817 TTTGCCTGCATGTATCGATACATTTCAT-AATGTATCGATACATCTGGGTAAA
1 TTTGCCTGCATGTATCGATACA-AACATCAGTGTATCGATACATCTGGGCAAA
* * * *
272869 TTGGCCTGTATGTATCGATA-AATTTCAT-AGTGTATCGATATATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACAA--ACATCAGTGTATCGATACATCTGGGCAAA
*
272921 TTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTTGCCTGCATGTATCGATACAAACATCAGTGTATCGATACA
272963 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
51 3 0.04
52 74 0.94
53 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACAAACATCAGTGTATCGATACATCTGGGCAAA
Found at i:272969 original size:13 final size:13
Alignment explanation
Indices: 272951--272975 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
272941 CAAAGATCAG
272951 TGTATCGATACAA
1 TGTATCGATACAA
272964 TGTATCGATACA
1 TGTATCGATACA
272976 TTTGCGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:275759 original size:16 final size:15
Alignment explanation
Indices: 275709--275759 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
275699 TTTATTATTT
275709 CAAAAAAAAAGTTGG
1 CAAAAAAAAAGTTGG
275724 CAAATAAAAATA-TTGG
1 CAAA-AAAAA-AGTTGG
*
275740 CAAAAAAAAGGTTGG
1 CAAAAAAAAAGTTGG
275755 ACAAA
1 -CAAA
275760 CCAGCAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 13 0.42
16 17 0.55
17 1 0.03
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.16
Consensus pattern (15 bp):
CAAAAAAAAAGTTGG
Found at i:280916 original size:50 final size:51
Alignment explanation
Indices: 280830--280955 Score: 177
Period size: 50 Copynumber: 2.5 Consensus size: 51
280820 TTTTAACTAG
*
280830 ATGTATCGATACAT-TGAACGTAAAAAGACAGAATGTATCGATACATTGAAGA
1 ATGTATCGATACATCTG-ACGT-AAAAGACAGAATGTATCGATACATTGAAAA
*
280882 ATGTATCGATACATCTGA-GTAAAAGATAGAATGTATCGATACATTGAAAA
1 ATGTATCGATACATCTGACGTAAAAGACAGAATGTATCGATACATTGAAAA
* *
280932 ATGTATAGATACATCT-AGGTAAAA
1 ATGTATCGATACATCTGACGTAAAA
280956 ATCTGGCTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
49 1 0.01
50 49 0.71
51 2 0.03
52 15 0.22
53 2 0.03
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.27
Consensus pattern (51 bp):
ATGTATCGATACATCTGACGTAAAAGACAGAATGTATCGATACATTGAAAA
Found at i:282649 original size:24 final size:25
Alignment explanation
Indices: 282616--282666 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
282606 AAGAGAAAGA
* *
282616 AGAGAGAGGAGGGATGATAG-GAGG
1 AGAGACAGGAGAGATGATAGAGAGG
*
282640 AGAGACAGGAGAGATTATAGAGAGG
1 AGAGACAGGAGAGATGATAGAGAGG
282665 AG
1 AG
282667 GGATGACAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.41, C:0.02, G:0.47, T:0.10
Consensus pattern (25 bp):
AGAGACAGGAGAGATGATAGAGAGG
Found at i:290087 original size:665 final size:665
Alignment explanation
Indices: 288817--290119 Score: 2588
Period size: 665 Copynumber: 2.0 Consensus size: 665
288807 AGGCCGAGAG
288817 GCCAACAAAGCTTTCCTCACTTCTTTTTCTCTCACAAACAAATTTTCTCTCCTTTCACACTGATT
1 GCCAACAAAGCTTTCCTCACTTCTTTTTCTCTCACAAACAAATTTTCTCTCCTTTCACACTGATT
288882 TTTCTCTCCACTTTTGCTTTCACGCTCATCTTTCTCACTTGTAAGTGTTTTTACTTTTTCCCTTT
66 TTTCTCTCCACTTTTGCTTTCACGCTCATCTTTCTCACTTGTAAGTGTTTTTACTTTTTCCCTTT
288947 TCTTTTTTAGCTTGCCTCCAATCTCACTCTTTTCCTTTTCAGTTTTTCTCTCTTGCTCTCTTCTC
131 TCTTTTTTAGCTTGCCTCCAATCTCACTCTTTTCCTTTTCAGTTTTTCTCTCTTGCTCTCTTCTC
289012 AACCTCATAGTAATTTGGTCTTCACACACTTGACTAGGAGTCATGGGTACTAAGGTGATTTTGCA
196 AACCTCATAGTAATTTGGTCTTCACACACTTGACTAGGAGTCATGGGTACTAAGGTGATTTTGCA
289077 CCCTTTATGTACAAATGTGAACTTGTTGGAATGACCATCATGAATAGCTTTCTTATCAAACTGCC
261 CCCTTTATGTACAAATGTGAACTTGTTGGAATGACCATCATGAATAGCTTTCTTATCAAACTGCC
289142 AAGGTCTCTTCCCAAGAGGATGTGGCTTGCTTCCATAGGCACTACATCACACAAGACTTCATCCT
326 AAGGTCTCTTCCCAAGAGGATGTGGCTTGCTTCCATAGGCACTACATCACACAAGACTTCATCCT
289207 CATACTTGCCAATAGAAAAAGTAATCAAAACCTGCTTATTAACAACCAATTCCCCTTCATCACTC
391 CATACTTGCCAATAGAAAAAGTAATCAAAACCTGCTTATTAACAACCAATTCCCCTTCATCACTC
289272 AACCATTGTAGCTTATAAGGCTTGGGGTGAGGAGTAGTAGTGAGACACAATTTCTCAACAAGCCT
456 AACCATTGTAGCTTATAAGGCTTGGGGTGAGGAGTAGTAGTGAGACACAATTTCTCAACAAGCCT
289337 AACACAAGCCACATTGGTACAACTACCACCATCAATAATAAGAGAACAAACCTTCTCAAGTACCA
521 AACACAAGCCACATTGGTACAACTACCACCATCAATAATAAGAGAACAAACCTTCTCAAGTACCA
289402 AGCACCTTGAATGGAAAATATTTTCTCTTTGTGAAGTGTCATCCTCCTTGGCTCATTGATTTCCT
586 AGCACCTTGAATGGAAAATATTTTCTCTTTGTGAAGTGTCATCCTCCTTGGCTCATTGATTTCCT
289467 CACCATCAATAATAA
651 CACCATCAATAATAA
289482 GCCAACAAAGCTTTCCTCACTTCTTTTTCTCTCACAAACAAATTTTCTCTCCTTTCACACTGATT
1 GCCAACAAAGCTTTCCTCACTTCTTTTTCTCTCACAAACAAATTTTCTCTCCTTTCACACTGATT
289547 TTTCTCTCCACTTTTGCTTTCACGCTCATCTTTCTCACTTGTAAGTGTTTTTACTTTTTCCCTTT
66 TTTCTCTCCACTTTTGCTTTCACGCTCATCTTTCTCACTTGTAAGTGTTTTTACTTTTTCCCTTT
289612 TCTTTTTTAGCTTGCCTCCAATCTCACTCTTTTCCTTTTCAGTTTTTCTCTCTTGCTCTCTTCTC
131 TCTTTTTTAGCTTGCCTCCAATCTCACTCTTTTCCTTTTCAGTTTTTCTCTCTTGCTCTCTTCTC
289677 AACCTCATAGTAATTTGGTCTTCACACACTTGACTAGGAGTCATGGGTACTAAGGTGATTTTGCA
196 AACCTCATAGTAATTTGGTCTTCACACACTTGACTAGGAGTCATGGGTACTAAGGTGATTTTGCA
*
289742 TCCTTTATGTACAAATGTGAACTTGTTGGAATGACCATCATGAATAGCTTTCTTATCAAACTGCC
261 CCCTTTATGTACAAATGTGAACTTGTTGGAATGACCATCATGAATAGCTTTCTTATCAAACTGCC
289807 AAGGTCTCTTCCCAAGAGGATGTGGCTTGCTTCCATAGGCACTACATCACACAAGACTTCATCCT
326 AAGGTCTCTTCCCAAGAGGATGTGGCTTGCTTCCATAGGCACTACATCACACAAGACTTCATCCT
289872 CATACTTGCCAATAGAAAAAGTAATCAAAACCTGCTTATTAACAACCAATTCCCCTTCATCACTC
391 CATACTTGCCAATAGAAAAAGTAATCAAAACCTGCTTATTAACAACCAATTCCCCTTCATCACTC
289937 AACCATTGTAGCTTATAAGGCTTGGGGTGAGGAGTAGTAGTGAGACACAATTTCTCAACAAGCCT
456 AACCATTGTAGCTTATAAGGCTTGGGGTGAGGAGTAGTAGTGAGACACAATTTCTCAACAAGCCT
*
290002 AACACTAGCCACATTGGTACAACTACCACCATCAATAATAAGAGAACAAACCTTCTCAAGTACCA
521 AACACAAGCCACATTGGTACAACTACCACCATCAATAATAAGAGAACAAACCTTCTCAAGTACCA
290067 AGCACCTTGAATGGAAAATATTTTCTCTTTGTGAAGTGTCATCCTCCTTGGCT
586 AGCACCTTGAATGGAAAATATTTTCTCTTTGTGAAGTGTCATCCTCCTTGGCT
290120 AAGCTACCCA
Statistics
Matches: 636, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
665 636 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (665 bp):
GCCAACAAAGCTTTCCTCACTTCTTTTTCTCTCACAAACAAATTTTCTCTCCTTTCACACTGATT
TTTCTCTCCACTTTTGCTTTCACGCTCATCTTTCTCACTTGTAAGTGTTTTTACTTTTTCCCTTT
TCTTTTTTAGCTTGCCTCCAATCTCACTCTTTTCCTTTTCAGTTTTTCTCTCTTGCTCTCTTCTC
AACCTCATAGTAATTTGGTCTTCACACACTTGACTAGGAGTCATGGGTACTAAGGTGATTTTGCA
CCCTTTATGTACAAATGTGAACTTGTTGGAATGACCATCATGAATAGCTTTCTTATCAAACTGCC
AAGGTCTCTTCCCAAGAGGATGTGGCTTGCTTCCATAGGCACTACATCACACAAGACTTCATCCT
CATACTTGCCAATAGAAAAAGTAATCAAAACCTGCTTATTAACAACCAATTCCCCTTCATCACTC
AACCATTGTAGCTTATAAGGCTTGGGGTGAGGAGTAGTAGTGAGACACAATTTCTCAACAAGCCT
AACACAAGCCACATTGGTACAACTACCACCATCAATAATAAGAGAACAAACCTTCTCAAGTACCA
AGCACCTTGAATGGAAAATATTTTCTCTTTGTGAAGTGTCATCCTCCTTGGCTCATTGATTTCCT
CACCATCAATAATAA
Found at i:291096 original size:42 final size:42
Alignment explanation
Indices: 291041--291159 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
291031 TTCTTCTCTC
* *
291041 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
291083 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* * *
291125 CTCCTCCTATCATCCCTCATCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
291160 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.09, C:0.45, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:291125 original size:18 final size:18
Alignment explanation
Indices: 291056--291126 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
291046 CCTGTCATCC
* *
291056 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
291074 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
291096 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
291116 CTCCTGTCTCT
1 CTCCTGTCTCT
291127 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:291934 original size:23 final size:24
Alignment explanation
Indices: 291900--291944 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
291890 TACTGGTTTT
291900 TTTTTC-TCTTTTTGTATTCTTTC
1 TTTTTCTTCTTTTTGTATTCTTTC
*
291923 TTTTTCTTTTTTTTGTATTCTT
1 TTTTTCTTCTTTTTGTATTCTT
291945 GAAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.78
Consensus pattern (24 bp):
TTTTTCTTCTTTTTGTATTCTTTC
Found at i:297243 original size:42 final size:42
Alignment explanation
Indices: 297179--297294 Score: 124
Period size: 42 Copynumber: 2.8 Consensus size: 42
297169 TAGCCTTCAA
* * * *
297179 AGAGAAAGAAGAGATAGGAGGGATGATAAGAGGAGGGATAGG
1 AGAGATAGTAGAGATAGAAGGGATGATAAGAGGAGAGATAGG
* *
297221 AGAGATAGTAGAGATAGAAGGGATGATAGGAGGCGAGATAGG
1 AGAGATAGTAGAGATAGAAGGGATGATAAGAGGAGAGATAGG
* * * * * *
297263 AAAGATAATAGAAAGAGAAGAGATGACAAGAG
1 AGAGATAGTAGAGATAGAAGGGATGATAAGAG
297295 AAAGAGAGAA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.47, C:0.02, G:0.40, T:0.11
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGAAGGGATGATAAGAGGAGAGATAGG
Found at i:297260 original size:12 final size:11
Alignment explanation
Indices: 297189--297263 Score: 50
Period size: 12 Copynumber: 6.8 Consensus size: 11
297179 AGAGAAAGAA
297189 GAGATAGGAGG
1 GAGATAGGAGG
*
297200 GATGATAAGAGG
1 GA-GATAGGAGG
*
297212 AGGGATAGGA--
1 -GAGATAGGAGG
*
297222 GAGATAGTA--
1 GAGATAGGAGG
*
297231 GAGATAGAAGG
1 GAGATAGGAGG
297242 GATGATAGGAGG
1 GA-GATAGGAGG
297254 CGAGATAGGA
1 -GAGATAGGA
297264 AAGATAATAG
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
9 15 0.29
11 4 0.08
12 29 0.57
13 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.45, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:307224 original size:18 final size:18
Alignment explanation
Indices: 307203--307267 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
307193 ATCCCTACTC
307203 TCTCTATTATCTTTCCTA
1 TCTCTATTATCTTTCCTA
307221 TCTCTCATTCTATCATCCCTT-CTA
1 TCTCT-A-T-TATC-T---TTCCTA
*
307245 TCTCTATTATCTCTCCTA
1 TCTCTATTATCTTTCCTA
307263 TCTCT
1 TCTCT
307268 TTTCATATCA
Statistics
Matches: 38, Mismatches: 1, Indels: 16
0.69 0.02 0.29
Matches are distributed among these distances:
17 1 0.03
18 13 0.34
19 1 0.03
20 2 0.05
21 8 0.21
22 2 0.05
23 1 0.03
24 8 0.21
25 2 0.05
ACGTcount: A:0.15, C:0.34, G:0.00, T:0.51
Consensus pattern (18 bp):
TCTCTATTATCTTTCCTA
Found at i:307300 original size:42 final size:42
Alignment explanation
Indices: 307188--307291 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
307178 TTTCCTCCTC
* * *
307188 CTATCATCCCTACTCTCTCTATTATCTTTCCTATCTCTCATT
1 CTATCATCCCTTCTATCTCTATTATCTCTCCTATCTCTCATT
*
307230 CTATCATCCCTTCTATCTCTATTATCTCTCCTATCTCT-TTT
1 CTATCATCCCTTCTATCTCTATTATCTCTCCTATCTCTCATT
307271 CATATCAT-CCTTCCTATCTCT
1 C-TATCATCCCTT-CTATCTCT
307292 TCTTTCTCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 7 0.12
42 49 0.88
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (42 bp):
CTATCATCCCTTCTATCTCTATTATCTCTCCTATCTCTCATT
Done.