Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2323
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: 70515
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Found at i:548 original size:31 final size:32
Alignment explanation
Indices: 503--579 Score: 129
Period size: 31 Copynumber: 2.4 Consensus size: 32
493 AGTAGCTTAA
503 ATTGTATCGATACAAAACTTACGTATCGATAC
1 ATTGTATCGATACAAAACTTACGTATCGATAC
* *
535 ATTGTA-CGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTACGTATCGATAC
566 ATTGTATCGATACA
1 ATTGTATCGATACA
580 GTACTTTATG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
31 29 0.69
32 13 0.31
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTACGTATCGATAC
Found at i:565 original size:19 final size:19
Alignment explanation
Indices: 505--566 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
495 TAGCTTAAAT
*
505 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
524 CGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
537 TGTA-CGATACAACACTTA
1 TGTATCGATACAACACTTA
555 TGTATCGATACA
1 TGTATCGATACA
567 TTGTATCGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 14
0.66 0.06 0.28
Matches are distributed among these distances:
12 4 0.12
13 3 0.09
14 1 0.03
15 3 0.09
16 2 0.06
17 1 0.03
18 4 0.12
19 15 0.45
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:573 original size:13 final size:13
Alignment explanation
Indices: 555--579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
545 ACAACACTTA
555 TGTATCGATACAT
1 TGTATCGATACAT
568 TGTATCGATACA
1 TGTATCGATACA
580 GTACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3495 original size:21 final size:20
Alignment explanation
Indices: 3443--3497 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
3433 CGTTAAGCCA
3443 CATGTATTGATACAATTCAT
1 CATGTATTGATACAATTCAT
* *
3463 CATATATTGATACAATTTAGT
1 CATGTATTGATACAATTCA-T
*
3484 CATGTATCGATACA
1 CATGTATTGATACA
3498 GTCGAAGGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (20 bp):
CATGTATTGATACAATTCAT
Found at i:5625 original size:156 final size:154
Alignment explanation
Indices: 5330--6394 Score: 690
Period size: 155 Copynumber: 6.9 Consensus size: 154
5320 AAAAGTACCT
* * * *
5330 GATACCCCTAAAAGACTTAAATAA-GATTATAGATGGGATAAAGCTATCCTAAATACCCACATTC
1 GATA-CCCTAAAGGACTTAAA-AAGGATTATAAATGGGATAAACCTATCCTAAATACCCACCTTC
** *** * * * * * * *
5394 AACATAAAAGTGGACCTGGTGACAGCTTAAGACTT-ATTCTAGAAAATTATCAAAATGCCCTTAG
64 GGCATAAAAACAGACCTAGTGACAACCTAGGAATTGATTCTAAAAAATTATGAAAATGCCCTTAG
* **
5458 GGGATATCTTCGACGTAGAAATGGCC
129 GGGATACCTTCGACGTAGAAATAACC
* * * *
5484 GATATCCCTAAAGGATTTAAAAAGGATTACAAACTGGGATGAACCTATCCTAAATACCTACCTTC
1 GATA-CCCTAAAGGACTTAAAAAGGATTATAAA-TGGGATAAACCTATCCTAAATACCCACCTTC
* ** * * * *
5549 GGCATAAAAACAGACCTAATGATGACCTAGGAGTTAATTCTAAAAAATTATGAAAATGCGCATAG
64 GGCATAAAAACAGACCTAGTGACAACCTAGGAATTGATTCTAAAAAATTATGAAAATGCCCTTAG
* *
5614 GGGATACCTTCGACGTGGAAGT-ACC
129 GGGATACCTTCGACGTAGAAATAACC
* * * *
5639 TGATACCACTAAAGGACTTAAAACGAATTATAAATGGGATGAACCTATCCTCAATACCCACCTTC
1 -GATACC-CTAAAGGACTTAAAAAGGATTATAAATGGGATAAACCTATCCTAAATACCCACCTTC
* * ** * ** ** * * *
5704 AGCATAAAAGCA-AAATCGGTGATGACCTAGGAATTGGA-TCTAGGAAATTATCAAAATGTCTTT
64 GGCATAAAAACAGACCT-AGTGACAACCTAGGAATT-GATTCTAAAAAATTATGAAAATGCCCTT
* * *
5767 ATGGGTATACCTTCGACGT-GAAATTATCTTG
127 A-GGGGATACCTTCGACGTAGAAA-TAAC--C
* * *
5798 GCAT-CCCTAAAGGACTT-AAAAGGAATTATAGGA-GGGACAAACCTATCCTAAATTCCCACCTT
1 G-ATACCCTAAAGGACTTAAAAAGG-ATTATA-AATGGGATAAACCTATCCTAAATACCCACCTT
** * * * *
5860 CGGCATAAAAATGGACCTGGTGACAACCTAGGACTCGATTCTAAAAAATTATGAAAATGCCCCTA
63 CGGCATAAAAACAGACCTAGTGACAACCTAGGAATTGATTCTAAAAAATTATGAAAATGCCCTTA
** * * * * *
5925 TAGAATACCTTCGATGTACAAGTACCC
128 GGGGATACCTTCGACGTAGAAATAACC
* * ** *
5952 GATACCCATAAAGGACTTAAAAAGG-TT-TGAAATGGGATAAACTTATCCTAACTACATACCTTT
1 GATACCC-TAAAGGACTTAAAAAGGATTAT-AAATGGGATAAACCTATCCTAAATACCCACCTTC
** * * * *
6015 GGCATAAAAGTAGACCTAGTGACAACCTAGTAATTGTTTCTAAAAAATTATGAAAATGTCTTTAG
64 GGCATAAAAACAGACCTAGTGACAACCTAGGAATTGATTCTAAAAAATTATGAAAATGCCCTTAG
* * * *
6080 GGAATACCTTGGACATA-AAAGT-CCTC
129 GGGATACCTTCGACGTAGAAA-TAAC-C
* *** * ** * * * * *
6106 GATACCTTTTTGTGACTTAAAAAGGATAATTGATGAGATGAACCTATCGTAAATATCTACCTTCG
1 GATACCCTAAAG-GACTTAAAAAGGATTATAAATGGGATAAACCTATCCTAAATACCCACCTTCG
** * ** *** * * * * *
6171 ATATAAAATCAGACCCGGTGACAACCTAGGACCCGATTATGAAAAATTACGAAAATGCACATAGG
65 GCATAAAAACAGACCTAGTGACAACCTAGGAATTGATTCTAAAAAATTATGAAAATGCCCTTAGG
* * *
6236 GGATACCTTCAACGTACAAGT-ACC
130 GGATACCTTCGACGTAGAAATAACC
* * * *
6260 TGGTACCCCTAAAGGACTTAAAAAGG-TT-TGAAATGGGATAAACCTATCCTAACTGCCCGCCTT
1 -GATA-CCCTAAAGGACTTAAAAAGGATTAT-AAATGGGATAAACCTATCCTAAATACCCACCTT
* * * * * * * *
6323 TGGCATAAAAGCGGA-CTAGGTGACAACCTTGGAGTTGATTCTAAAATATTACGAAAATACCC-T
63 CGGCATAAAAACAGACCTA-GTGACAACCTAGGAATTGATTCTAAAAAATTATGAAAATGCCCTT
6386 AGGGGATAC
127 AGGGGATAC
6395 TTTTGAAGTA
Statistics
Matches: 697, Mismatches: 181, Indels: 67
0.74 0.19 0.07
Matches are distributed among these distances:
153 24 0.03
154 213 0.31
155 241 0.35
156 123 0.18
157 88 0.13
158 6 0.01
159 2 0.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (154 bp):
GATACCCTAAAGGACTTAAAAAGGATTATAAATGGGATAAACCTATCCTAAATACCCACCTTCGG
CATAAAAACAGACCTAGTGACAACCTAGGAATTGATTCTAAAAAATTATGAAAATGCCCTTAGGG
GATACCTTCGACGTAGAAATAACC
Found at i:6031 original size:154 final size:153
Alignment explanation
Indices: 5281--6394 Score: 557
Period size: 154 Copynumber: 7.2 Consensus size: 153
5271 TAAGTTCAAG
** * * * * * * * *
5281 AAAAATTACGAAAATATCCGTAAGGG-ATAACTTTGACATAAAAGTACCTGATACCCCTAAAAGA
1 AAAAATTACGAAAATGCCCAT-AGGGAATACCTTCGACGTACAAGTACCCGATACCCATAAAGGA
* * * * * * ** *
5345 CTTAAATAAGATTAT-AGATGGGATAAAGCTATCCTAAATACCCACATTCAACATAAAAGTGGAC
65 CTTAAA-AAGGTT-TGAAATGGGATAAACCTATCCTAACTA-CTACCTTCGGCATAAAAGTAGAC
* * * *
5409 CTGGTGACAGCTTAAGACT-TATTCTA
127 CTGGTGACAACCTAGGACTCGATTCTA
* * * * * * **
5435 GAAAATTATC-AAAATGCCCTTAGGGGATATCTTCGACGTAGAAATGGCCGATATCCC-TAAAGG
1 AAAAATTA-CGAAAATGCCCATAGGGAATACCTTCGACGTACAAGTACCCGATA-CCCATAAAGG
* ** * * **
5498 ATTTAAAAAGGATTACAAACTGGGATGAACCTATCCTAAATACCTACCTTCGGCATAAAAACAGA
64 ACTTAAAAAGG-TTTGAAA-TGGGATAAACCTATCCTAACTA-CTACCTTCGGCATAAAAGTAGA
** ** * **
5563 CCTAATGATGACCTAGGAGTTAATTCTA
126 CCTGGTGACAACCTAGGACTCGATTCTA
* * * ** *
5591 AAAAATTATGAAAATGCGCATAGGGGATACCTTCGACGTGGAAGTACCTGATA-CCACTAAAGGA
1 AAAAATTACGAAAATGCCCATAGGGAATACCTTCGACGTACAAGTACCCGATACCCA-TAAAGGA
* * * * * *
5655 CTTAAAACGAATTAT-AAATGGGATGAACCTATCCTCAA-TACCCACCTTCAGCATAAAAGCA-A
65 CTTAAAAAG-GTT-TGAAATGGGATAAACCTATCCT-AACTA-CTACCTTCGGCATAAAAGTAGA
** ** * *
5717 AATCGGTGATGACCTAGGAATTGGA-TCTA
126 CCT-GGTGACAACCTAGG-ACTCGATTCTA
** * ** * * **
5746 GGAAATTATC-AAAATGTCTTTATGGGTATACCTTCGACGTGA-AATTATCTTGGCAT-CCC-TA
1 AAAAATTA-CGAAAATGCCCATA-GGGAATACCTTCGACGT-ACAAGTA-C-CCG-ATACCCATA
* * * * *
5807 AAGGACTT-AAAAGGAATTAT-AGGA-GGGACAAACCTATCCTAAATTCCCACCTTCGGCATAAA
60 AAGGACTTAAAAAGG--TT-TGA-AATGGGATAAACCTATCCT-AACTACTACCTTCGGCATAAA
* *
5869 AATGGACCTGGTGACAACCTAGGACTCGATTCTA
120 AGTAGACCTGGTGACAACCTAGGACTCGATTCTA
* * ** *
5903 AAAAATTATGAAAATGCCCCTATAGAATACCTTCGATGTACAAGTACCCGATACCCATAAAGGAC
1 AAAAATTACGAAAATGCCCATAGGGAATACCTTCGACGTACAAGTACCCGATACCCATAAAGGAC
* * *
5968 TTAAAAAGGTTTGAAATGGGATAAACTTATCCTAACTACATACCTTTGGCATAAAAGTAGACCTA
66 TTAAAAAGGTTTGAAATGGGATAAACCTATCCTAACTAC-TACCTTCGGCATAAAAGTAGACCTG
* * * *
6033 GTGACAACCTAGTAATTGTTTCTA
130 GTGACAACCTAGGACTCGATTCTA
* * ** * * * * ***
6057 AAAAATTATGAAAATGTCTTTAGGGAATACCTTGGACATAAAAGT-CCTCGATA-CCTTTTTGTG
1 AAAAATTACGAAAATGCCCATAGGGAATACCTTCGACGTACAAGTACC-CGATACCCATAAAG-G
* * * * **
6120 ACTTAAAAAGGATAATTG--ATGAGATGAACCTATCGTAAATATCTACCTTCGATATAAAA-TCA
64 ACTTAAAAAGG-T--TTGAAATGGGATAAACCTATCCTAACTA-CTACCTTCGGCATAAAAGT-A
* * * *
6182 GACCCGGTGACAACCTAGGACCCGATTATG
124 GACCTGGTGACAACCTAGGACTCGATTCTA
* * * * * *
6212 AAAAATTACGAAAATGCACATAGGGGATACCTTCAACGTACAAGTACCTGGTACCCCTAAAGGAC
1 AAAAATTACGAAAATGCCCATAGGGAATACCTTCGACGTACAAGTACCCGATACCCATAAAGGAC
* ** * **
6277 TTAAAAAGGTTTGAAATGGGATAAACCTATCCTAACTGCCCGCCTTTGGCATAAAAGCGGA-CTA
66 TTAAAAAGGTTTGAAATGGGATAAACCTATCCTAACT-ACTACCTTCGGCATAAAAGTAGACCT-
* * *
6341 GGTGACAACCTTGGAGTTGATTCTA
129 GGTGACAACCTAGGACTCGATTCTA
* * *
6366 AAATATTACGAAAATACCC-TAGGGGATAC
1 AAAAATTACGAAAATGCCCATAGGGAATAC
6395 TTTTGAAGTA
Statistics
Matches: 727, Mismatches: 183, Indels: 101
0.72 0.18 0.10
Matches are distributed among these distances:
152 3 0.00
153 32 0.04
154 236 0.32
155 235 0.32
156 130 0.18
157 82 0.11
158 5 0.01
159 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (153 bp):
AAAAATTACGAAAATGCCCATAGGGAATACCTTCGACGTACAAGTACCCGATACCCATAAAGGAC
TTAAAAAGGTTTGAAATGGGATAAACCTATCCTAACTACTACCTTCGGCATAAAAGTAGACCTGG
TGACAACCTAGGACTCGATTCTA
Found at i:7156 original size:5 final size:5
Alignment explanation
Indices: 7146--7173 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7136 TATGAAAGTA
7146 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
7174 TTTTTGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTAAT
Found at i:8041 original size:13 final size:13
Alignment explanation
Indices: 8020--8075 Score: 69
Period size: 13 Copynumber: 4.2 Consensus size: 13
8010 TCACCTTGAA
8020 TTTTCTTTTCTCTC
1 TTTT-TTTTCTCTC
*
8034 TATTTTTTTCTCAC
1 T-TTTTTTTCTCTC
*
8048 TTTTTTTTCTCTT
1 TTTTTTTTCTCTC
8061 TTTTTTTTCTC-C
1 TTTTTTTTCTCTC
8073 TTT
1 TTT
8076 CTGCCAGCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
12 3 0.08
13 21 0.57
14 10 0.27
15 3 0.08
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTTTTCTCTC
Found at i:9247 original size:167 final size:165
Alignment explanation
Indices: 8704--9517 Score: 804
Period size: 167 Copynumber: 4.9 Consensus size: 165
8694 GTTTTTTGGG
* * * *
8704 AAAATAGAGATTTCAACG-AAAAATCCAAAAATCATGAAAATGAATGAATTTTTGAAAAAT-AAT
1 AAAAAAGAAATTTCAAGGAAAAAAT-CAAAAATCTTGAAAATGAATGAATTTTTGAAAAATGAA-
* ** * * **
8767 TTAATATAAAATAAATAATAATATTTTTTAAATTTTAAAAA-T-AAAA--AA-TAAAATCCAATC
64 TTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTC
* *
8827 GAAAAAATTTACGAAGTAGAAAACTATGTA-TTT-CAA
129 AAAAAAATTTACGAAGTAGAAAA-TATGTATTTTAGAA
* * * * *
8863 AAAAAGGAAAATTTCAAGGAAAAAATTC-AAAATTTATGGAAATGAATGAATTTTGGAAAACTGA
1 AAAAAAG-AAATTTCAAGGAAAAAA-TCAAAAATCT-TGAAAATGAATGAATTTTTGAAAAATGA
* *
8927 ATTACTATGAAATAAATAATAATATTTGATGAATTTTAAAAA-T-AAAACAAAAGAAAAA-CCTC
63 ATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAAC-CAAGAAAAATCC-C
** * * *
8989 C-CCGAAAAATTTACGGAGTAGAAGAAT-T-CATTTTTCGAA
126 CTCAAAAAAATTTACGAAGTAGAA-AATATGTA-TTTTAGAA
* * ** * *
9028 AAAAGAGAATTTTCAAGGAAAAAATTTAAAATTTATGAAAATGAAAGAATTTTTGAAAAATGAAT
1 AAAAAAGAAATTTCAAGGAAAAAATCAAAAATCT-TGAAAATGAATGAATTTTTGAAAAATGAAT
*
9093 TATTATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCA
65 TAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCA
9158 AAAAAATTTACGAAGTAGAAAATACTGTATTTTAGAA
130 AAAAAATTTACGAAGTAGAAAATA-TGTATTTTAGAA
* *
9195 AAAAAAGAAATTTCAAGGAAAAAATAAAAAACTCTTGAAAATGAATGAATTTTT-AAAAACTAAA
1 AAAAAAGAAATTTCAAGGAAAAAATCAAAAA-TCTTGAAAATGAATGAATTTTTGAAAAA-TGAA
* * *
9259 TTAATATGAAATAAATCATAATGTTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATTCCCCT
64 TTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAA-TCCCCT
* * *
9324 -AGAAAAATTTACGGAGTAGAAAATATCGTATTTCAGAA
128 CAAAAAAATTTACGAAGTAGAAAATAT-GTATTTTAGAA
* * ** * * *
9362 AAAAGAG-AATTTCAAAGAAAAAATCAAGAGCTCATGAAAATGAATGAATATTTG-AAACTGAAT
1 AAAAAAGAAATTTCAAGGAAAAAATCAA-AAATCTTGAAAATGAATGAATTTTTGAAAAATGAAT
* * ** *
9425 CAATATGAAATAAATAAATAAAAATATTTTATGAATTTTAAAAATTAAAAATTAAGAAAAATCCT
65 TAATATGAAATAAAT-AAT---AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCC
* *
9490 CTCGAAAAAAATTTACGAGGAAGAAAAT
126 CTC-AAAAAAATTTACGAAGTAGAAAAT
9518 CTTGTAATTT
Statistics
Matches: 551, Mismatches: 70, Indels: 57
0.81 0.10 0.08
Matches are distributed among these distances:
159 5 0.01
160 14 0.03
161 70 0.13
162 4 0.01
163 2 0.00
164 116 0.21
165 45 0.08
166 75 0.14
167 150 0.27
168 14 0.03
169 36 0.07
170 20 0.04
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (165 bp):
AAAAAAGAAATTTCAAGGAAAAAATCAAAAATCTTGAAAATGAATGAATTTTTGAAAAATGAATT
AATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAA
AAAAATTTACGAAGTAGAAAATATGTATTTTAGAA
Found at i:9417 original size:18 final size:18
Alignment explanation
Indices: 9396--9430 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9386 CAAGAGCTCA
*
9396 TGAAAATGAATGAATATT
1 TGAAAATGAATCAATATT
*
9414 TGAAACTGAATCAATAT
1 TGAAAATGAATCAATAT
9431 GAAATAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (18 bp):
TGAAAATGAATCAATATT
Found at i:9630 original size:336 final size:330
Alignment explanation
Indices: 8714--9578 Score: 840
Period size: 331 Copynumber: 2.6 Consensus size: 330
8704 AAAATAGAGA
* * * * * * *
8714 TTTCAACG-AAAAATCCAAAAATCATGAAAATGAATGAATTTTTGAAAAAT-AATTTAATATAAA
1 TTTCAAAGAAAAAATTCAAAACTCATGAAAATGAAAGAATATTTGAAAAATGAA-TCAATATGAA
** * * ** *
8777 ATAAATAATAATATTTTTTAAATTTTAAAAA-T-AAAA--AA-TAAAATCCAATCGAAAAAATTT
65 ATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTT
* * * **
8837 ACGAAGTAGAAAACTA-TGT-ATTT-CAAAAAAAGGAAAATTTCAAGGAAAAAATTCAAAA-T-T
130 ACGAAGAAGAAAA-TACTGTAATTTAGAAAAAAAAG-AAATTTCAAGG-AAAAATAAAAAACTCT
* * * ** * * *
8897 TATGGAAATGAATGAATTTTGGAAAACTGAATTACTATGAAATAAATAATAATATTTGATGAATT
192 CA--AAAATAAATGAATTTTTAAAAACTAAATTAATAGGAAATAAATAATAATATTTGATGAATT
*
8962 TTAAAAATAAAACAAAAGAAAAACCTCCCCGAAAAATTTACGGAGTAGAAGAATTCATTTTTCGA
255 TTAAAAATAAAACAAAAGAAAAACCTCCCCGAAAAATTTACGGAGTAGAAGAATTCATATTTCGA
9027 AAAAAGAGAAT
320 AAAAAGAGAAT
* * * * * * *
9038 TTTCAAGGAAAAAATTTAAAATTTATGAAAATGAAAGAATTTTTGAAAAATGAATTATTATGAAA
1 TTTCAAAGAAAAAATTCAAAACTCATGAAAATGAAAGAATATTTGAAAAATGAATCAATATGAAA
9103 TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTA
66 TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTA
* * **
9168 CGAAGTAGAAAATACTGTATTTTAGAAAAAAAAGAAATTTCAAGGAAAAAATAAAAAACTCTTGA
131 CGAAGAAGAAAATACTGTAATTTAGAAAAAAAAGAAATTTCAAGG-AAAAATAAAAAACTCTCAA
* * * *
9233 AAATGAATGAATTTTTAAAAACTAAATTAATATGAAATAAATCATAATGTTTGATGAATTTTAAA
195 AAATAAATGAATTTTTAAAAACTAAATTAATAGGAAATAAATAATAATATTTGATGAATTTTAAA
* * *
9298 AATTAAAA-ATCAAGAAAAA-TTCCCCTAGAAAAATTTACGGAGTAGAA-AATATCGTATTTCAG
260 AA-TAAAACA-AAAGAAAAACCTCCCC--GAAAAATTTACGGAGTAGAAGAAT-TCATATTTC-G
9360 AAAAAAGAGAA-
319 AAAAAAGAGAAT
* * *
9371 TTTCAAAGAAAAAA-TCAAGAGCTCATGAAAATGAATGAATATTTG-AAACTGAATCAATATGAA
1 TTTCAAAGAAAAAATTCAA-AACTCATGAAAATGAAAGAATATTTGAAAAATGAATCAATATGAA
* ** *
9434 ATAAATAAATAAAAATATTTTATGAATTTTAAAAATTAAAAATTAAGAAAAATCCTCTCGAAAAA
65 ATAAAT-AAT---AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTC-AAAAA
* * * * *
9499 AATTTACGAGGAAGAAAAT-CTTGTAATTT-GAAAATATGAAG-AATTTAGAAGG-AAAATTAAT
125 AATTTACGAAGAAGAAAATAC-TGTAATTTAGAAAA-A-AAAGAAATTT-CAAGGAAAAATAAAA
9560 AACT-TCAAAAATAAATGAA
186 AACTCTCAAAAATAAATGAA
9579 ATTTCTTGAA
Statistics
Matches: 457, Mismatches: 56, Indels: 45
0.82 0.10 0.08
Matches are distributed among these distances:
324 7 0.02
325 73 0.16
326 3 0.01
327 4 0.01
329 4 0.01
330 34 0.07
331 92 0.20
332 49 0.11
333 66 0.14
334 12 0.03
335 12 0.03
336 59 0.13
337 35 0.08
338 7 0.02
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.29
Consensus pattern (330 bp):
TTTCAAAGAAAAAATTCAAAACTCATGAAAATGAAAGAATATTTGAAAAATGAATCAATATGAAA
TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTA
CGAAGAAGAAAATACTGTAATTTAGAAAAAAAAGAAATTTCAAGGAAAAATAAAAAACTCTCAAA
AATAAATGAATTTTTAAAAACTAAATTAATAGGAAATAAATAATAATATTTGATGAATTTTAAAA
ATAAAACAAAAGAAAAACCTCCCCGAAAAATTTACGGAGTAGAAGAATTCATATTTCGAAAAAAG
AGAAT
Found at i:10739 original size:13 final size:13
Alignment explanation
Indices: 10721--10745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10711 CATAAAGTGT
10721 TGTATCGATACAA
1 TGTATCGATACAA
10734 TGTATCGATACA
1 TGTATCGATACA
10746 TTTTTTTTTT
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:10827 original size:13 final size:13
Alignment explanation
Indices: 10809--10833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10799 ATTACTCAAA
10809 TGTATCGATACAT
1 TGTATCGATACAT
10822 TGTATCGATACA
1 TGTATCGATACA
10834 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:10970 original size:52 final size:52
Alignment explanation
Indices: 10842--10962 Score: 208
Period size: 52 Copynumber: 2.3 Consensus size: 52
10832 CACTGATCTT
*
10842 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAC
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAC
*
10894 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA-
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTA-TAAAC
10946 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
10963 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 62 0.94
53 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAC
Found at i:13006 original size:43 final size:43
Alignment explanation
Indices: 12945--13029 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
12935 CTTTCGGATT
12945 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
1 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
12988 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGT
1 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGT
13030 TTCAAAACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (43 bp):
TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
Found at i:17802 original size:22 final size:21
Alignment explanation
Indices: 17787--17838 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
17777 CAAAAGTAAA
17787 AAAAAAAAACAACAAAAAAAC
1 AAAAAAAAACAACAAAAAAAC
17808 AAAAAAAAACAA-AACACAAAAC
1 AAAAAAAAACAACAA-A-AAAAC
*
17830 ACAAAAAAA
1 AAAAAAAAA
17839 GAGCAGAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 2 0.07
21 13 0.46
22 13 0.46
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (21 bp):
AAAAAAAAACAACAAAAAAAC
Found at i:17805 original size:18 final size:18
Alignment explanation
Indices: 17784--17821 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
17774 AAACAAAAGT
*
17784 AAAAAA-AAAAAACAACA
1 AAAAAACAAAAAAAAACA
17801 AAAAAACAAAAAAAAACA
1 AAAAAACAAAAAAAAACA
17819 AAA
1 AAA
17822 CACAAAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAAAAAAACA
Found at i:17806 original size:25 final size:26
Alignment explanation
Indices: 17766--17838 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 26
17756 AGCCAAAAGT
**
17766 AAACACACAAACAAAAGTAAAAAAAA-A
1 AAACA-ACAAA-AAAACAAAAAAAAACA
17793 AAACAACAAAAAAACAAAAAAAAACA
1 AAACAACAAAAAAACAAAAAAAAACA
*
17819 AAAC-AC-AAAACACAAAAAAA
1 AAACAACAAAAAAACAAAAAAA
17839 GAGCAGAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 13 0.31
25 14 0.33
26 10 0.24
27 5 0.12
ACGTcount: A:0.81, C:0.16, G:0.01, T:0.01
Consensus pattern (26 bp):
AAACAACAAAAAAACAAAAAAAAACA
Found at i:17828 original size:24 final size:24
Alignment explanation
Indices: 17766--17838 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 24
17756 AGCCAAAAGT
*
17766 AAACACACAAACAAAAGTAAAAAAAAA
1 AAACA-ACAAA-AAAA-CAAAAAAAAA
17793 AAACAACAAAAAAACAAAAAAAAA
1 AAACAACAAAAAAACAAAAAAAAA
* *
17817 CAA-AACACAAAACACAAAAAAA
1 AAACAACA-AAAAAACAAAAAAA
17839 GAGCAGAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.10
24 24 0.57
25 4 0.10
26 5 0.12
27 5 0.12
ACGTcount: A:0.81, C:0.16, G:0.01, T:0.01
Consensus pattern (24 bp):
AAACAACAAAAAAACAAAAAAAAA
Found at i:17848 original size:25 final size:23
Alignment explanation
Indices: 17784--17853 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
17774 AAACAAAAGT
*
17784 AAAAAAAAAAAACAACAAAAAAAC
1 AAAAAAAAACAA-AACAAAAAAAC
*
17808 AAAAAAAAACAAAACACAAAACAC
1 AAAAAAAAACAAAACA-AAAAAAC
* *
17832 AAAAAAAGAGCAGAACAAAAAA
1 AAAAAAA-AACAAAACAAAAAA
17854 GGTGCAAAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 4 0.10
24 28 0.72
25 7 0.18
ACGTcount: A:0.81, C:0.14, G:0.04, T:0.00
Consensus pattern (23 bp):
AAAAAAAAACAAAACAAAAAAAC
Found at i:18114 original size:17 final size:17
Alignment explanation
Indices: 18093--18155 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
18083 GTTCTTTTCC
*
18093 AAAAAAAGAAACAAAAC
1 AAAAAAAGAAACAAAAA
18110 AAAAAAAGAAA-AAAAA
1 AAAAAAAGAAACAAAAA
*
18126 AGAAACAAACAAACAAAAA
1 A-AAA-AAAGAAACAAAAA
18145 AAACAAAAGAA
1 AAA-AAAAGAA
18156 GAAGAAGAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 5 0.13
17 14 0.36
18 13 0.33
19 7 0.18
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAACAAAAA
Found at i:18121 original size:22 final size:21
Alignment explanation
Indices: 18096--18152 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
18086 CTTTTCCAAA
*
18096 AAAAGAAACAAAACAAAAAAAG
1 AAAA-AAACAAAACAAAAAAAC
* *
18118 AAAAAAAAAGAAACAAACAAAC
1 AAAAAAACA-AAACAAAAAAAC
18140 AAAAAAAACAAAA
1 -AAAAAAACAAAA
18153 GAAGAAGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 4 0.14
22 17 0.59
23 8 0.28
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (21 bp):
AAAAAAACAAAACAAAAAAAC
Found at i:18135 original size:26 final size:27
Alignment explanation
Indices: 18093--18155 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
18083 GTTCTTTTCC
18093 AAAAAAAGAAACAAAACAAA-AAAAGAA
1 AAAAAAAGAAACAAAACAAACAAAA-AA
18120 AAAAAAAGAAAC-AAACAAACAAAAAA
1 AAAAAAAGAAACAAAACAAACAAAAAA
*
18146 AACAAAAGAA
1 AAAAAAAGAA
18156 GAAGAAGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 18 0.53
27 16 0.47
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (27 bp):
AAAAAAAGAAACAAAACAAACAAAAAA
Found at i:19151 original size:31 final size:31
Alignment explanation
Indices: 19114--19901 Score: 478
Period size: 31 Copynumber: 24.8 Consensus size: 31
19104 TTCAAATACC
*
19114 TTCTCAAAGTCCACGACTCAGTGGCAATCTC
1 TTCTCAAAGTCCACGACTCAGTGGCAATCTT
*
19145 TTCTCAAAGTCCACAACTCAGTGGC-ATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAAT-CTT
*
19176 TTCTTTAAAGTCCACGACTCAGTGGCAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
19208 TTCTCAAAGTCCACGACTCAGTGGC-ATCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCAATC-TT
*
19239 TTCTTTAAAGTCCACGACTCAGTGGCAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
* **
19271 TTCTCAAAGTCCACAACTTTGTGGC-ATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAAT-CTT
* *
19302 TTCTTTAAAGTCTACGACTCAGTGGCAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
*
19334 TTCTCAAAGTCCATGACTCAGTGGC-ATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAAT-CTT
*
19365 TTCTTTAAAGTCCACGACTCAGTGGCAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
* *
19397 TTCTCAAAGCCCACGAATCAGTGGC-AT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * *
19426 TGTC-CTAAAGTCCACGACTCCGTGGCACCTTTTT
1 T-TCTC-AAAGTCCACGACTCAGTGGCA--ATCTT
* *
19460 CTTCTCAAAGCCCACGATTCAGTGGC-AT-TT
1 -TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * * * *
19490 TATC-CTAAAATCCACGAATCCGTAGC-ACCTTT
1 T-TCTC-AAAGTCCACGACTCAGTGGCAATC-TT
* * * * *
19522 TTTTCAATGCCCACAACTCAGTGGCACTCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCAATC-TT
* * * *
19554 TTCCCTTTTAAAGCCCACAACTCCGTGGCACA-CTTT
1 TT--C--TCAAAGTCCACGACTCAGTGGCA-ATC-TT
*** * * *
19590 GTTCCTTTTCAGTCCACGACTCCGTGGCACTTTTT
1 -TT-C-TCAAAGTCCACGACTCAGTGGCA-ATCTT
* *
19625 TTCTTTTTAAAGTCCACGACTCAGTGGC-ATTTT
1 TTC---TCAAAGTCCACGACTCAGTGGCAATCTT
*
19658 CTTTTCAAAGTCCACGACTCAGTGGC-A----
1 -TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * **
19685 ---TCAAAGTCCAC-AATCCTGTGGCACCCTGT
1 TTCTCAAAGTCCACGACT-CAGTGGCAATCT-T
* * *
19714 CCCTT-TCAAAGTCCACAACTCCGTGGC-ACCTT
1 ---TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * * *
19746 CTTTTCAAAGCCCACAACTCAGTGGCACTCTTT
1 -TTCTCAAAGTCCACGACTCAGTGGCAATC-TT
* * *
19779 TTCCCTTTCAAAGCCCACAACTCAGTGGCAATCTC
1 TT--C--TCAAAGTCCACGACTCAGTGGCAATCTT
19814 TTCTCAAAGTCCACGACTCAGTGGC-ATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAAT-CTT
19845 TTCTTCAAAGTCCACGACTCAGTGGC-AT-TT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
*
19875 TGTCTCAAAGTCCACGACTCCGTGGCA
1 T-TCTCAAAGTCCACGACTCAGTGGCA
19902 CCTTTTTCTT
Statistics
Matches: 616, Mismatches: 81, Indels: 120
0.75 0.10 0.15
Matches are distributed among these distances:
22 2 0.00
23 17 0.03
29 6 0.01
30 79 0.13
31 207 0.34
32 139 0.23
33 21 0.03
34 42 0.07
35 50 0.08
36 51 0.08
37 2 0.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.31
Consensus pattern (31 bp):
TTCTCAAAGTCCACGACTCAGTGGCAATCTT
Found at i:19197 original size:63 final size:63
Alignment explanation
Indices: 19119--19901 Score: 562
Period size: 63 Copynumber: 12.3 Consensus size: 63
19109 ATACCTTCTC
*
19119 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
* *
19182 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
**
19245 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTTTGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
* **
19308 AAAGTCTACGACTCAGTGGCAATCTTTTCTCAAAGTCCATGACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
* *
19371 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGCCCACGAA-TCAGTGGCAT--TTTGTC-CT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCAC-AACTCAGTGGCATCCTTT-TCTTT
* * * * * *
19432 AAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGATTCAGTGGCAT--TTTATC-
1 AAAGTCCACGACTCAGTGGCA--ATCTT-TTCTCAAAGTCCACAACTCAGTGGCATCCTTT-TCT
*
19494 CT
62 TT
* * * * * * * * *
19496 AAAATCCACGAATCCGTAGC-ACCTTTTTTTCAATGCCCACAACTCAGTGGCACTCTTTTTCCCT
1 AAAGTCCACGACTCAGTGGCAATC-TTTTCTCAAAGTCCACAACTCAGTGGCA-TCCTTTT--C-
19560 TTT
61 TTT
* * * *** * * **
19563 AAAGCCCACAACTCCGTGGCACA-CTTTGTTCCTTTTCAGTCCACGACTCCGTGGCACTTTTTTT
1 AAAGTCCACGACTCAGTGGCA-ATC-TT-TT-C-TCAAAGTCCACAACTCAGTGGCA-TCCTTTT
19627 CTTTTT
60 C--TTT
* * *
19633 AAAGTCCACGACTCAGTGGC-ATTTTCTTTTCAAAGTCCACGACTCAGTGGCA------TC---
1 AAAGTCCACGACTCAGTGGCAATCTT-TTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
* * ** *
19687 AAAGTCCAC-AATCCTGTGGCACCCTGTCCCTT-TCAAAGTCCACAACTCCGTGGCA-CCTTCTT
1 AAAGTCCACGACT-CAGTGGCAATCT-T---TTCTCAAAGTCCACAACTCAGTGGCATCCTT-TT
*
19749 -TTC
60 CTTT
* * * * *
19752 AAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCAAAGCCCACAACTCAGTGGCAAT-CTCTT
1 AAAGTCCACGACTCAGTGGCAATC-TTTT--C--TCAAAGTCCACAACTCAGTGGC-ATCCTTTT
*
19816 C-TC
60 CTTT
*
19819 AAAGTCCACGACTCAGTGGC-ATCCTTTTCTTCAAAGTCCACGACTCAGTGGCAT--TTTGTC-T
1 AAAGTCCACGACTCAGTGGCAAT-CTTTTC-TCAAAGTCCACAACTCAGTGGCATCCTTT-TCTT
*
19880 C
63 T
*
19881 AAAGTCCACGACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
19902 CCTTTTTCTT
Statistics
Matches: 594, Mismatches: 78, Indels: 96
0.77 0.10 0.12
Matches are distributed among these distances:
53 2 0.00
54 15 0.03
55 1 0.00
56 1 0.00
57 21 0.04
58 3 0.01
59 2 0.00
61 48 0.08
62 32 0.05
63 251 0.42
64 53 0.09
65 19 0.03
66 27 0.05
67 59 0.10
68 12 0.02
69 4 0.01
70 21 0.04
71 23 0.04
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.31
Consensus pattern (63 bp):
AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
Found at i:19762 original size:225 final size:217
Alignment explanation
Indices: 19500--19901 Score: 563
Period size: 225 Copynumber: 1.8 Consensus size: 217
19490 TATCCTAAAA
* * *
19500 TCCACGAATCCGTAGCACCTTTTTTTCAATGCCCACAACTCAGTGGCACTCTTTTTCCCTTTTAA
1 TCCACGAATCCGTAGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCAA
* * * *** * **
19565 AGCCCACAACTCCGTGGCACACTTTGTTCCTTTTCAGTCCACGACTCCGTGGCACTTTTTTTCTT
66 AGCCCACAACTCAGTGGCA-A-TCTCTT-C-TCAAAGTCCACGACTCAGTGGCA-TCCTTTTC--
* * *
19630 TTTAAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGCATCAAAGTCCA
124 TTCAAAGTCCACGACTCAGTGGCATTTT-GTCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCA
19695 CAATCCTGTGGCACCCTGTCCCTTTCAAAG
188 CAATCCTGTGGCACCCTGTCCCTTTCAAAG
*
19725 TCCAC-AACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCA
1 TCCACGAA-TCCGTAGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCA
19789 AAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAA
65 AAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAA
*
19854 GTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCCGTGGCA
130 GTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCA
19902 CCTTTTTCTT
Statistics
Matches: 159, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
217 23 0.14
218 27 0.17
220 6 0.04
221 19 0.12
222 1 0.01
223 4 0.03
224 3 0.02
225 76 0.48
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (217 bp):
TCCACGAATCCGTAGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCAA
AGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAG
TCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCACAATCCTG
TGGCACCCTGTCCCTTTCAAAG
Found at i:19795 original size:36 final size:35
Alignment explanation
Indices: 19715--19976 Score: 209
Period size: 31 Copynumber: 7.9 Consensus size: 35
19705 GCACCCTGTC
* *
19715 CCTTTCAAAGTCCACAACTCCGTGGCAC-C---TT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
*
19746 CTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* *
19781 CCCTTTCAAAGCCCACAACTCAGTGGCAATC-TCTT
1 -CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
19816 -C--TCAAAGTCCACGACTCAGTGGCA-TCCTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
19847 -C-TTCAAAGTCCACGACTCAGTGGCA-T-TTTGT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
19878 -C--TCAAAGTCCACGACTCCGTGGCAC-CTTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
19909 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* *
19944 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTT
1 -CCTTTCAAAGCCCACAACTCAGTGGCACTCTTT
19977 CACCCTCTCT
Statistics
Matches: 199, Mismatches: 18, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
30 24 0.12
31 58 0.29
32 25 0.13
33 1 0.01
34 21 0.11
35 16 0.08
36 54 0.27
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.31
Consensus pattern (35 bp):
CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
Found at i:19799 original size:67 final size:65
Alignment explanation
Indices: 19713--19996 Score: 222
Period size: 67 Copynumber: 4.3 Consensus size: 65
19703 TGGCACCCTG
* *
19713 TCCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTT
1 TCCCTTTCAAAGCCCACAACTCAGTGGCA-CTTCTTTTCAAAGCCCACAACTCAGTGGCA-TCTT
19778 TT
64 TT
* * * * *
19780 TCCCTTTCAAAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 TCCCTTTCAAAGCCCACAACTCAGTGGCACT-TCTTTTCAAAGCCCACAACTCAGTGGCATCTTT
19845 T
65 T
* * * * * *
19846 T--C-TTCAAAGTCCACGACTCAGTGGCA-TT-TTGTCTCAAAGTCCACGACTCCGTGGCACCTT
1 TCCCTTTCAAAGCCCACAACTCAGTGGCACTTCTT-T-TCAAAGCCCACAACTCAGTGGCATCTT
19906 TT
64 TT
* * * *
19908 T-CTTTTTAAAGCCCACAACTCCGTGGCAC-TCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGC
1 TCCCTTTCAAAGCCCACAACTCAGTGGCACTTC-TTTT--C----AAAGCCCACAACTCAGTGGC
*
19971 ATCTTTC
59 ATCTTTT
* *
19978 ACCCTCTCTAAAGCCCACA
1 TCCCTTTC-AAAGCCCACA
19997 CAAGTCAGTG
Statistics
Matches: 175, Mismatches: 26, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
60 2 0.01
61 1 0.01
62 28 0.16
63 22 0.13
64 23 0.13
65 1 0.01
66 10 0.06
67 52 0.30
70 23 0.13
71 3 0.02
72 10 0.06
ACGTcount: A:0.23, C:0.35, G:0.13, T:0.30
Consensus pattern (65 bp):
TCCCTTTCAAAGCCCACAACTCAGTGGCACTTCTTTTCAAAGCCCACAACTCAGTGGCATCTTTT
Found at i:19990 original size:36 final size:36
Alignment explanation
Indices: 19914--19996 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 36
19904 TTTTTCTTTT
** *
19914 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 TAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTC
19950 TAAAGCCCACAACTCCGTGGCA-TCTTTCACCCTCTC
1 TAAAGCCCACAACTCCGTGGCACTCTTTCACCCT-TC
19986 TAAAGCCCACA
1 TAAAGCCCACA
19997 CAAGTCAGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 9 0.21
36 34 0.79
ACGTcount: A:0.24, C:0.39, G:0.11, T:0.27
Consensus pattern (36 bp):
TAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTC
Found at i:20075 original size:43 final size:43
Alignment explanation
Indices: 20012--20287 Score: 345
Period size: 43 Copynumber: 6.1 Consensus size: 43
20002 CAGTGGCAAC
* *
20012 CCTTCTAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
20056 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGTATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
20099 CCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* * *
20148 CCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
20191 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
20240 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
20283 CCTTT
1 CCTTT
20288 TCCATCTTTA
Statistics
Matches: 203, Mismatches: 17, Indels: 25
0.83 0.07 0.10
Matches are distributed among these distances:
43 118 0.58
44 4 0.02
45 2 0.01
47 2 0.01
49 77 0.38
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:20179 original size:92 final size:92
Alignment explanation
Indices: 20017--20340 Score: 549
Period size: 92 Copynumber: 3.5 Consensus size: 92
20007 GCAACCCTTC
*
20017 TAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
* *
20082 GAATCAGTATATTGGCACCTTCTTCTT
66 GAATCAGCATATTGGCACCTTCATCTT
* *
20109 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCTAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
20174 GAATCAGCATATTGGCACCTTCATCTT
66 GAATCAGCATATTGGCACCTTCATCTT
20201 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
20266 GAATCAGCATATTGGCACCTTTTCCATCTT
66 GAATCAGCATATTGGCACC--TT-CATCTT
* *
20296 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
20341 TTCTCATCTT
Statistics
Matches: 219, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
92 169 0.77
94 2 0.01
95 43 0.20
96 5 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
GAATCAGCATATTGGCACCTTCATCTT
Found at i:20319 original size:52 final size:55
Alignment explanation
Indices: 20241--20461 Score: 180
Period size: 52 Copynumber: 3.9 Consensus size: 55
20231 ACATTGGCAC
* *
20241 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* *
20293 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * * ** * *
20348 CTTTAAGCCCAATATCGTTGGCCGCGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TC-TC
20413 AT
54 AT
* * *
20415 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTT
20462 ATCTTTAAGT
Statistics
Matches: 132, Mismatches: 22, Indels: 24
0.74 0.12 0.13
Matches are distributed among these distances:
52 38 0.29
53 2 0.02
54 5 0.04
55 32 0.24
56 1 0.01
57 1 0.01
58 4 0.03
59 1 0.01
60 1 0.01
61 4 0.03
62 1 0.01
63 3 0.02
64 2 0.02
66 3 0.02
67 34 0.26
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:20549 original size:169 final size:173
Alignment explanation
Indices: 20241--20627 Score: 446
Period size: 169 Copynumber: 2.2 Consensus size: 173
20231 ACATTGGCAC
* * *
20241 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTT-CATCTTTAAGTCCAAT
* * *
20306 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
65 ATAGCTAGCC-TGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCC
* *
20371 GCGAATCAACATATTGG-CATCTTTATCACTTTTC-TCATCTTCAT
129 GCGAATCAACATATTGGTCAT-TTTATCACTCTTCATCATCATCAT
*
20415 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACC-TTT-ATCTTTAAGTCCAATA
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
* ** * ** *
20478 TCGCTAGCC-GCATATTGGCTC-TT-TTATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCT
66 TAGCTAGCCTG-A-ATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCC
* * * *
20540 GTGAATCAACGTATTGGTCCTTTTATCACTCTTCATCCTCATCAT
129 GCGAATCAACATATTGGTCATTTTATCACTCTTCATCATCATCAT
* * * * * *
20585 CTTTAAGTCCAGTGTGGCAGGCTTTGAATCTGCACAGTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
20628 ATTGCAATGA
Statistics
Matches: 183, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
169 63 0.34
170 50 0.27
171 26 0.14
173 3 0.02
174 41 0.22
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (173 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
TAGCTAGCCTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGC
GAATCAACATATTGGTCATTTTATCACTCTTCATCATCATCAT
Found at i:21221 original size:13 final size:13
Alignment explanation
Indices: 21203--21227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21193 CATAAAGTGT
21203 TGTATCGATACAA
1 TGTATCGATACAA
21216 TGTATCGATACA
1 TGTATCGATACA
21228 TTTTTTTTTG
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:21308 original size:13 final size:13
Alignment explanation
Indices: 21290--21314 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21280 ATTACTCAAA
21290 TGTATCGATACAT
1 TGTATCGATACAT
21303 TGTATCGATACA
1 TGTATCGATACA
21315 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:21379 original size:52 final size:52
Alignment explanation
Indices: 21323--21495 Score: 319
Period size: 52 Copynumber: 3.3 Consensus size: 52
21313 CACTGATCTT
21323 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
21375 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAC
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
21427 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
21479 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
21496 ATAAATTTTC
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 117 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:23539 original size:43 final size:43
Alignment explanation
Indices: 23478--23562 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
23468 CTTTCGGATT
23478 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
1 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
23521 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGT
1 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGT
23563 TTCAAAACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (43 bp):
TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
Found at i:28331 original size:25 final size:23
Alignment explanation
Indices: 28319--28387 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 23
28309 AAAAGTCAAA
28319 AAAAAAAAAAC-AACAAAAAAAC
1 AAAAAAAAAACAAACAAAAAAAC
*
28341 AAAAAAAAAACAAAACACAAAACAC
1 AAAAAAAAAAC-AAACA-AAAAAAC
* *
28366 AAAAAAAGAGCAGAACAAAAAA
1 AAAAAAAAAACA-AACAAAAAA
28388 GGTGCAAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 11 0.28
24 9 0.23
25 19 0.49
ACGTcount: A:0.81, C:0.14, G:0.04, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAACAAACAAAAAAAC
Found at i:28336 original size:11 final size:11
Alignment explanation
Indices: 28322--28372 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
28312 AGTCAAAAAA
28322 AAAAAAACAAC
1 AAAAAAACAAC
*
28333 AAAAAAACAAA
1 AAAAAAACAAC
28344 AAAAAAACAA-
1 AAAAAAACAAC
28354 AACACAAAAC-AC
1 AA-A-AAAACAAC
28366 AAAAAAA
1 AAAAAAA
28373 GAGCAGAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 6 0.17
11 23 0.64
12 7 0.19
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAC
Found at i:28344 original size:19 final size:18
Alignment explanation
Indices: 28316--28355 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
28306 AACAAAAGTC
*
28316 AAAAAAAAAAAAACAACA
1 AAAAAAAAAAAAAAAACA
28334 AAAAAACAAAAAAAAAACA
1 AAAAAA-AAAAAAAAAACA
28353 AAA
1 AAA
28356 CACAAAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAACA
Found at i:28347 original size:22 final size:23
Alignment explanation
Indices: 28319--28372 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
28309 AAAAGTCAAA
28319 AAAAAAAAAACAACAA-A-AAAAC
1 AAAAAAAAAACAA-AACACAAAAC
28341 AAAAAAAAAACAAAACACAAAAC
1 AAAAAAAAAACAAAACACAAAAC
*
28364 ACAAAAAAA
1 AAAAAAAAA
28373 GAGCAGAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 2 0.07
22 14 0.48
23 13 0.45
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAACAAAACACAAAAC
Found at i:28348 original size:23 final size:25
Alignment explanation
Indices: 28315--28372 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
28305 AAACAAAAGT
*
28315 CAAAAAAAAAAAAACAACA-AAAAAA
1 CAAAAAAAAAACAA-AACACAAAAAA
*
28340 CAAAAAAAAAACAAAACACAAAACA
1 CAAAAAAAAAACAAAACACAAAAAA
28365 CAAAAAAA
1 CAAAAAAA
28373 GAGCAGAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (25 bp):
CAAAAAAAAAACAAAACACAAAAAA
Found at i:28370 original size:8 final size:8
Alignment explanation
Indices: 28315--28372 Score: 64
Period size: 8 Copynumber: 7.0 Consensus size: 8
28305 AAACAAAAGT
28315 CAAAAAAA
1 CAAAAAAA
*
28323 AAAAAACAA
1 CAAAAA-AA
28332 CAAAAAAA
1 CAAAAAAA
28340 CAAAAAAA
1 CAAAAAAA
28348 -AAACAAAA
1 CAAA-AAAA
*
28356 CACAAAACA
1 CA-AAAAAA
28365 CAAAAAAA
1 CAAAAAAA
28373 GAGCAGAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
7 3 0.07
8 24 0.57
9 13 0.31
10 2 0.05
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:28648 original size:17 final size:17
Alignment explanation
Indices: 28627--28689 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
28617 GTTCTTTTCC
*
28627 AAAAAAAGAAACAAAAC
1 AAAAAAAGAAACAAAAA
28644 AAAAAAAGAAA-AAAAA
1 AAAAAAAGAAACAAAAA
*
28660 AGAAACAAACAAACAAAAA
1 A-AAA-AAAGAAACAAAAA
28679 AAACAAAAGAA
1 AAA-AAAAGAA
28690 GAAGAAGAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 5 0.13
17 14 0.36
18 13 0.33
19 7 0.18
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAACAAAAA
Found at i:28655 original size:22 final size:21
Alignment explanation
Indices: 28630--28686 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
28620 CTTTTCCAAA
*
28630 AAAAGAAACAAAACAAAAAAAG
1 AAAA-AAACAAAACAAAAAAAC
* *
28652 AAAAAAAAAGAAACAAACAAAC
1 AAAAAAACA-AAACAAAAAAAC
28674 AAAAAAAACAAAA
1 -AAAAAAACAAAA
28687 GAAGAAGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 4 0.14
22 17 0.59
23 8 0.28
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (21 bp):
AAAAAAACAAAACAAAAAAAC
Found at i:28669 original size:26 final size:27
Alignment explanation
Indices: 28627--28689 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
28617 GTTCTTTTCC
28627 AAAAAAAGAAACAAAACAAA-AAAAGAA
1 AAAAAAAGAAACAAAACAAACAAAA-AA
28654 AAAAAAAGAAAC-AAACAAACAAAAAA
1 AAAAAAAGAAACAAAACAAACAAAAAA
*
28680 AACAAAAGAA
1 AAAAAAAGAA
28690 GAAGAAGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 18 0.53
27 16 0.47
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (27 bp):
AAAAAAAGAAACAAAACAAACAAAAAA
Found at i:29685 original size:31 final size:31
Alignment explanation
Indices: 29648--30435 Score: 480
Period size: 31 Copynumber: 24.8 Consensus size: 31
29638 TTCAAATACC
* *
29648 TTCTCAAAGTCCATGACTCAGTGGCAATCTC
1 TTCTCAAAGTCCACGACTCAGTGGCAATCTT
*
29679 TTCTCAAAGTCCACAACTCAGTGGC-ATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAAT-CTT
* *
29710 TTCTTTAAAGTCCACGACTCAGTGGTAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
29742 TTCTCAAAGTCCACGACTCAGTGGC-ATCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCAATC-TT
*
29773 TTCTTTAAAGTCCACGACTCAGTGGCAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
*
29805 TTCTCAAAGTCCACAACTTC-GTGGC-ATCCTT
1 TTCTCAAAGTCCACGAC-TCAGTGGCAAT-CTT
*
29836 TTCTTTAAAGTCCACGACTCAGTGGCAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
29868 TTCTCAAAGTCCACGACTCAGTGGC-ATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAAT-CTT
*
29899 TTCTTTAAAGTCCACGACTCAGTGGCAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
* *
29931 TTCTCAAAGCCCACGAATCAGTGGC-AT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * *
29960 TGTC-CTAAAGTCCACGACTCCGTGGCACCTTTTT
1 T-TCTC-AAAGTCCACGACTCAGTGGCA--ATCTT
* *
29994 CTTCTCAAAGCCCACGATTCAGTGGC-AT-TT
1 -TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * * * *
30024 TATC-CTAAAATCCACGAATCCGTAGC-ACCTTT
1 T-TCTC-AAAGTCCACGACTCAGTGGCAATC-TT
* * * * *
30056 TTTTCAATGCCCACAACTCAGTGGCACTCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCAATC-TT
* * * *
30088 TTCCCTTTTAAAGCCCACAACTCCGTGGCACA-CTTT
1 TT--C--TCAAAGTCCACGACTCAGTGGCA-ATC-TT
*** * * *
30124 GTTCCTTTTCAGTCCACGACTCCGTGGCACTTTTT
1 -TT-C-TCAAAGTCCACGACTCAGTGGCA-ATCTT
* *
30159 TTCTTTTTAAAGTCCACGACTCAGTGGC-ATTTT
1 TTC---TCAAAGTCCACGACTCAGTGGCAATCTT
*
30192 CTTTTCAAAGTCCACGACTCAGTGGC-A----
1 -TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * **
30219 ---TCAAAGTCCAC-AATCCTGTGGCACCCTGT
1 TTCTCAAAGTCCACGACT-CAGTGGCAATCT-T
* * *
30248 CCCTT-TCAAAGTCCACAACTCCGTGGC-ACCTT
1 ---TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * * *
30280 CTTTTCAAAGCCCACAACTCAGTGGCACTCTTT
1 -TTCTCAAAGTCCACGACTCAGTGGCAATC-TT
* * *
30313 TTCCCTTTCAAAGCCCACAACTCAGTGGCAATCTC
1 TT--C--TCAAAGTCCACGACTCAGTGGCAATCTT
30348 TTCTCAAAGTCCACGACTCAGTGGC-ATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAAT-CTT
30379 TTCTTCAAAGTCCACGACTCAGTGGC-AT-TT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
*
30409 TGTCTCAAAGTCCACGACTCCGTGGCA
1 T-TCTCAAAGTCCACGACTCAGTGGCA
30436 CCTTTTTCTT
Statistics
Matches: 619, Mismatches: 76, Indels: 124
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.00
23 17 0.03
29 6 0.01
30 79 0.13
31 208 0.34
32 141 0.23
33 21 0.03
34 42 0.07
35 50 0.08
36 51 0.08
37 2 0.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.31
Consensus pattern (31 bp):
TTCTCAAAGTCCACGACTCAGTGGCAATCTT
Found at i:29732 original size:63 final size:63
Alignment explanation
Indices: 29653--30435 Score: 564
Period size: 63 Copynumber: 12.3 Consensus size: 63
29643 ATACCTTCTC
* *
29653 AAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
* * *
29716 AAAGTCCACGACTCAGTGGTAATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
29779 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTTC-GTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAAC-TCAGTGGCATCCTTTTCTTT
*
29842 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
* *
29905 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGCCCACGAA-TCAGTGGCAT--TTTGTC-CT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCAC-AACTCAGTGGCATCCTTT-TCTTT
* * * * * *
29966 AAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGATTCAGTGGCAT--TTTATC-
1 AAAGTCCACGACTCAGTGGCA--ATCTT-TTCTCAAAGTCCACAACTCAGTGGCATCCTTT-TCT
*
30028 CT
62 TT
* * * * * * * * *
30030 AAAATCCACGAATCCGTAGC-ACCTTTTTTTCAATGCCCACAACTCAGTGGCACTCTTTTTCCCT
1 AAAGTCCACGACTCAGTGGCAATC-TTTTCTCAAAGTCCACAACTCAGTGGCA-TCCTTTT--C-
30094 TTT
61 TTT
* * * *** * * **
30097 AAAGCCCACAACTCCGTGGCACA-CTTTGTTCCTTTTCAGTCCACGACTCCGTGGCACTTTTTTT
1 AAAGTCCACGACTCAGTGGCA-ATC-TT-TT-C-TCAAAGTCCACAACTCAGTGGCA-TCCTTTT
30161 CTTTTT
60 C--TTT
* * *
30167 AAAGTCCACGACTCAGTGGC-ATTTTCTTTTCAAAGTCCACGACTCAGTGGCA------TC---
1 AAAGTCCACGACTCAGTGGCAATCTT-TTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
* * ** *
30221 AAAGTCCAC-AATCCTGTGGCACCCTGTCCCTT-TCAAAGTCCACAACTCCGTGGCA-CCTTCTT
1 AAAGTCCACGACT-CAGTGGCAATCT-T---TTCTCAAAGTCCACAACTCAGTGGCATCCTT-TT
*
30283 -TTC
60 CTTT
* * * * *
30286 AAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCAAAGCCCACAACTCAGTGGCAAT-CTCTT
1 AAAGTCCACGACTCAGTGGCAATC-TTTT--C--TCAAAGTCCACAACTCAGTGGC-ATCCTTTT
*
30350 C-TC
60 CTTT
*
30353 AAAGTCCACGACTCAGTGGC-ATCCTTTTCTTCAAAGTCCACGACTCAGTGGCAT--TTTGTC-T
1 AAAGTCCACGACTCAGTGGCAAT-CTTTTC-TCAAAGTCCACAACTCAGTGGCATCCTTT-TCTT
*
30414 C
63 T
*
30415 AAAGTCCACGACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
30436 CCTTTTTCTT
Statistics
Matches: 597, Mismatches: 73, Indels: 100
0.78 0.09 0.13
Matches are distributed among these distances:
53 2 0.00
54 15 0.03
55 1 0.00
56 1 0.00
57 21 0.04
58 3 0.01
59 2 0.00
61 48 0.08
62 34 0.06
63 250 0.42
64 55 0.09
65 19 0.03
66 27 0.05
67 59 0.10
68 12 0.02
69 4 0.01
70 21 0.04
71 23 0.04
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.31
Consensus pattern (63 bp):
AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
Found at i:30296 original size:225 final size:217
Alignment explanation
Indices: 30034--30435 Score: 563
Period size: 225 Copynumber: 1.8 Consensus size: 217
30024 TATCCTAAAA
* * *
30034 TCCACGAATCCGTAGCACCTTTTTTTCAATGCCCACAACTCAGTGGCACTCTTTTTCCCTTTTAA
1 TCCACGAATCCGTAGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCAA
* * * *** * **
30099 AGCCCACAACTCCGTGGCACACTTTGTTCCTTTTCAGTCCACGACTCCGTGGCACTTTTTTTCTT
66 AGCCCACAACTCAGTGGCA-A-TCTCTT-C-TCAAAGTCCACGACTCAGTGGCA-TCCTTTTC--
* * *
30164 TTTAAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGCATCAAAGTCCA
124 TTCAAAGTCCACGACTCAGTGGCATTTT-GTCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCA
30229 CAATCCTGTGGCACCCTGTCCCTTTCAAAG
188 CAATCCTGTGGCACCCTGTCCCTTTCAAAG
*
30259 TCCAC-AACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCA
1 TCCACGAA-TCCGTAGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCA
30323 AAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAA
65 AAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAA
*
30388 GTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCCGTGGCA
130 GTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCA
30436 CCTTTTTCTT
Statistics
Matches: 159, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
217 23 0.14
218 27 0.17
220 6 0.04
221 19 0.12
222 1 0.01
223 4 0.03
224 3 0.02
225 76 0.48
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (217 bp):
TCCACGAATCCGTAGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCAA
AGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAG
TCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCACAATCCTG
TGGCACCCTGTCCCTTTCAAAG
Found at i:30329 original size:36 final size:35
Alignment explanation
Indices: 30249--30510 Score: 209
Period size: 31 Copynumber: 7.9 Consensus size: 35
30239 GCACCCTGTC
* *
30249 CCTTTCAAAGTCCACAACTCCGTGGCAC-C---TT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
*
30280 CTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* *
30315 CCCTTTCAAAGCCCACAACTCAGTGGCAATC-TCTT
1 -CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
30350 -C--TCAAAGTCCACGACTCAGTGGCA-TCCTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
30381 -C-TTCAAAGTCCACGACTCAGTGGCA-T-TTTGT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
30412 -C--TCAAAGTCCACGACTCCGTGGCAC-CTTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
30443 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* *
30478 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTT
1 -CCTTTCAAAGCCCACAACTCAGTGGCACTCTTT
30511 CACCCTCTCT
Statistics
Matches: 199, Mismatches: 18, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
30 24 0.12
31 58 0.29
32 25 0.13
33 1 0.01
34 21 0.11
35 16 0.08
36 54 0.27
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.31
Consensus pattern (35 bp):
CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
Found at i:30333 original size:67 final size:65
Alignment explanation
Indices: 30247--30530 Score: 222
Period size: 67 Copynumber: 4.3 Consensus size: 65
30237 TGGCACCCTG
* *
30247 TCCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTT
1 TCCCTTTCAAAGCCCACAACTCAGTGGCA-CTTCTTTTCAAAGCCCACAACTCAGTGGCA-TCTT
30312 TT
64 TT
* * * * *
30314 TCCCTTTCAAAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 TCCCTTTCAAAGCCCACAACTCAGTGGCACT-TCTTTTCAAAGCCCACAACTCAGTGGCATCTTT
30379 T
65 T
* * * * * *
30380 T--C-TTCAAAGTCCACGACTCAGTGGCA-TT-TTGTCTCAAAGTCCACGACTCCGTGGCACCTT
1 TCCCTTTCAAAGCCCACAACTCAGTGGCACTTCTT-T-TCAAAGCCCACAACTCAGTGGCATCTT
30440 TT
64 TT
* * * *
30442 T-CTTTTTAAAGCCCACAACTCCGTGGCAC-TCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGC
1 TCCCTTTCAAAGCCCACAACTCAGTGGCACTTC-TTTT--C----AAAGCCCACAACTCAGTGGC
*
30505 ATCTTTC
59 ATCTTTT
* *
30512 ACCCTCTCTAAAGCCCACA
1 TCCCTTTC-AAAGCCCACA
30531 CAAGTCGGTG
Statistics
Matches: 175, Mismatches: 26, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
60 2 0.01
61 1 0.01
62 28 0.16
63 22 0.13
64 23 0.13
65 1 0.01
66 10 0.06
67 52 0.30
70 23 0.13
71 3 0.02
72 10 0.06
ACGTcount: A:0.23, C:0.35, G:0.13, T:0.30
Consensus pattern (65 bp):
TCCCTTTCAAAGCCCACAACTCAGTGGCACTTCTTTTCAAAGCCCACAACTCAGTGGCATCTTTT
Found at i:30524 original size:36 final size:36
Alignment explanation
Indices: 30448--30530 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 36
30438 TTTTTCTTTT
** *
30448 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 TAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTC
30484 TAAAGCCCACAACTCCGTGGCA-TCTTTCACCCTCTC
1 TAAAGCCCACAACTCCGTGGCACTCTTTCACCCT-TC
30520 TAAAGCCCACA
1 TAAAGCCCACA
30531 CAAGTCGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 9 0.21
36 34 0.79
ACGTcount: A:0.24, C:0.39, G:0.11, T:0.27
Consensus pattern (36 bp):
TAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTC
Found at i:30609 original size:43 final size:43
Alignment explanation
Indices: 30546--30821 Score: 336
Period size: 43 Copynumber: 6.1 Consensus size: 43
30536 CGGTGGCAAC
* *
30546 CCTTCTAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* * *
30590 CCTTTAAGTCCAATATAGCTGGCCTTGAATTAGTATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
30633 CCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* * *
30682 CCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
30725 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
30774 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
30817 CCTTT
1 CCTTT
30822 TCCATCTTTA
Statistics
Matches: 201, Mismatches: 19, Indels: 25
0.82 0.08 0.10
Matches are distributed among these distances:
43 117 0.58
44 4 0.02
45 2 0.01
47 2 0.01
49 76 0.38
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:30720 original size:92 final size:92
Alignment explanation
Indices: 30551--30874 Score: 540
Period size: 92 Copynumber: 3.5 Consensus size: 92
30541 GCAACCCTTC
*
30551 TAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
* * *
30616 GAATTAGTATATTGGCACCTTCTTCTT
66 GAATCAGCATATTGGCACCTTCATCTT
* *
30643 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCTAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
30708 GAATCAGCATATTGGCACCTTCATCTT
66 GAATCAGCATATTGGCACCTTCATCTT
30735 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
30800 GAATCAGCATATTGGCACCTTTTCCATCTT
66 GAATCAGCATATTGGCACC--TT-CATCTT
* *
30830 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
30875 TTCTCATCTT
Statistics
Matches: 218, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
92 168 0.77
94 2 0.01
95 43 0.20
96 5 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (92 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
GAATCAGCATATTGGCACCTTCATCTT
Found at i:30853 original size:52 final size:55
Alignment explanation
Indices: 30775--30995 Score: 180
Period size: 52 Copynumber: 3.9 Consensus size: 55
30765 ACATTGGCAC
* *
30775 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* *
30827 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * * ** * *
30882 CTTTAAGCCCAATATCGTTGGCCGCGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TC-TC
30947 AT
54 AT
* * *
30949 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTT
30996 ATCTTTAAGT
Statistics
Matches: 133, Mismatches: 21, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
52 38 0.29
53 2 0.02
54 5 0.04
55 32 0.24
56 1 0.01
57 1 0.01
58 4 0.03
59 1 0.01
60 1 0.01
61 4 0.03
62 1 0.01
63 3 0.02
64 2 0.02
66 3 0.02
67 35 0.26
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.36
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:31083 original size:169 final size:173
Alignment explanation
Indices: 30775--31161 Score: 446
Period size: 169 Copynumber: 2.2 Consensus size: 173
30765 ACATTGGCAC
* * *
30775 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTT-CATCTTTAAGTCCAAT
* * *
30840 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
65 ATAGCTAGCC-TGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCC
* *
30905 GCGAATCAACATATTGG-CATCTTTATCACTTTTC-TCATCTTCAT
129 GCGAATCAACATATTGGTCAT-TTTATCACTCTTCATCATCATCAT
*
30949 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTT-ATCTTTAAGTCCAATA
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
* ** * ** *
31012 TCGCTAGCC-GCATATTGGCTC-TT-TTATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCT
66 TAGCTAGCCTG-A-ATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCC
* * * *
31074 GTGAATCAACGTATTGGTCCTTTTATCACTCTTCATCCTCATCAT
129 GCGAATCAACATATTGGTCATTTTATCACTCTTCATCATCATCAT
* * * * * *
31119 CTTTAAGTCCAGTGTGGCAGGCTTTGAATCTGCACAGTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
31162 ATTGCAATGA
Statistics
Matches: 183, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
169 63 0.34
170 50 0.27
171 26 0.14
173 3 0.02
174 41 0.22
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (173 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
TAGCTAGCCTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGC
GAATCAACATATTGGTCATTTTATCACTCTTCATCATCATCAT
Found at i:31755 original size:13 final size:13
Alignment explanation
Indices: 31737--31761 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31727 CATAAAGTGT
31737 TGTATCGATACAA
1 TGTATCGATACAA
31750 TGTATCGATACA
1 TGTATCGATACA
31762 TTTTTTTTTT
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:31843 original size:13 final size:13
Alignment explanation
Indices: 31825--31849 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31815 ATTACTCAAA
31825 TGTATCGATACAT
1 TGTATCGATACAT
31838 TGTATCGATACA
1 TGTATCGATACA
31850 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:31914 original size:52 final size:52
Alignment explanation
Indices: 31858--32030 Score: 310
Period size: 52 Copynumber: 3.3 Consensus size: 52
31848 CACTGATCTT
*
31858 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
31910 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAC
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
31962 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
32014 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
32031 ATAAATTTTC
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 116 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:34074 original size:43 final size:43
Alignment explanation
Indices: 34013--34097 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
34003 CTTTCGGATT
34013 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
1 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
34056 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGT
1 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGT
34098 TTCAAAACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (43 bp):
TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
Found at i:38870 original size:11 final size:11
Alignment explanation
Indices: 38856--38906 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
38846 AAAGTCAAAA
38856 AAAAAAACAAC
1 AAAAAAACAAC
*
38867 AAAAAAACAAA
1 AAAAAAACAAC
38878 AAAAAAACAA-
1 AAAAAAACAAC
38888 AACACAAAAC-AC
1 AA-A-AAAACAAC
38900 AAAAAAA
1 AAAAAAA
38907 GAGCAGAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 6 0.17
11 23 0.64
12 7 0.19
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAC
Found at i:38878 original size:19 final size:18
Alignment explanation
Indices: 38852--38889 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
38842 AACAAAAGTC
*
38852 AAAAAAAAAAACAACAAA
1 AAAAAAAAAAAAAACAAA
38870 AAAACAAAAAAAAAACAAA
1 AAAA-AAAAAAAAAACAAA
38889 A
1 A
38890 CACAAAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAACAAA
Found at i:38896 original size:23 final size:22
Alignment explanation
Indices: 38853--38906 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 22
38843 ACAAAAGTCA
38853 AAAAAAAAAACAACAAAAAAAC
1 AAAAAAAAAACAACAAAAAAAC
38875 AAAAAAAAAACAA-AACACAAAAC
1 AAAAAAAAAACAACAA-A-AAAAC
*
38898 ACAAAAAAA
1 AAAAAAAAA
38907 GAGCAGAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 2 0.07
22 14 0.48
23 13 0.45
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAACAACAAAAAAAC
Found at i:38904 original size:8 final size:8
Alignment explanation
Indices: 38851--38906 Score: 62
Period size: 8 Copynumber: 7.0 Consensus size: 8
38841 AAACAAAAGT
38851 CAAAAAAA
1 CAAAAAAA
*
38859 -AAAACAA
1 CAAAAAAA
38866 CAAAAAAA
1 CAAAAAAA
38874 CAAAAAAA
1 CAAAAAAA
38882 -AAACAAAA
1 CAAA-AAAA
*
38890 CACAAAACA
1 CA-AAAAAA
38899 CAAAAAAA
1 CAAAAAAA
38907 GAGCAGAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 9 0.22
8 23 0.57
9 6 0.15
10 2 0.05
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:38916 original size:25 final size:24
Alignment explanation
Indices: 38851--38921 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 24
38841 AAACAAAAGT
*
38851 CAAAAAAAAAA-ACAACAAAAAAA
1 CAAAAAAAAAACAAAACAAAAAAA
*
38874 CAAAAAAAAAACAAAACACAAAACA
1 CAAAAAAAAAACAAAACA-AAAAAA
* * *
38899 CAAAAAAAGAGCAGAACAAAAAA
1 CAAAAAAAAAACAAAACAAAAAA
38922 GGTGCAAAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 11 0.28
24 9 0.22
25 20 0.50
ACGTcount: A:0.80, C:0.15, G:0.04, T:0.00
Consensus pattern (24 bp):
CAAAAAAAAAACAAAACAAAAAAA
Found at i:39182 original size:17 final size:17
Alignment explanation
Indices: 39161--39223 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
39151 GTTCTTTTCC
*
39161 AAAAAAAGAAACAAAAC
1 AAAAAAAGAAACAAAAA
39178 AAAAAAAGAAA-AAAAA
1 AAAAAAAGAAACAAAAA
*
39194 AGAAACAAACAAACAAAAA
1 A-AAA-AAAGAAACAAAAA
39213 AAACAAAAGAA
1 AAA-AAAAGAA
39224 GAAGAAGAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 5 0.13
17 14 0.36
18 13 0.33
19 7 0.18
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAACAAAAA
Found at i:39189 original size:22 final size:21
Alignment explanation
Indices: 39164--39220 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
39154 CTTTTCCAAA
*
39164 AAAAGAAACAAAACAAAAAAAG
1 AAAA-AAACAAAACAAAAAAAC
* *
39186 AAAAAAAAAGAAACAAACAAAC
1 AAAAAAACA-AAACAAAAAAAC
39208 AAAAAAAACAAAA
1 -AAAAAAACAAAA
39221 GAAGAAGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 4 0.14
22 17 0.59
23 8 0.28
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (21 bp):
AAAAAAACAAAACAAAAAAAC
Found at i:39203 original size:26 final size:27
Alignment explanation
Indices: 39161--39223 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
39151 GTTCTTTTCC
39161 AAAAAAAGAAACAAAACAAA-AAAAGAA
1 AAAAAAAGAAACAAAACAAACAAAA-AA
39188 AAAAAAAGAAAC-AAACAAACAAAAAA
1 AAAAAAAGAAACAAAACAAACAAAAAA
*
39214 AACAAAAGAA
1 AAAAAAAGAA
39224 GAAGAAGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 18 0.53
27 16 0.47
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (27 bp):
AAAAAAAGAAACAAAACAAACAAAAAA
Found at i:40219 original size:31 final size:31
Alignment explanation
Indices: 40182--40969 Score: 489
Period size: 31 Copynumber: 24.8 Consensus size: 31
40172 TTCAAATACC
* *
40182 TTCTCAAAGTCCATGACTCAGTGGCAATCTC
1 TTCTCAAAGTCCACGACTCAGTGGCAATCTT
*
40213 TTCTCAAAGTCCACAACTCAGTGGC-ATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAAT-CTT
* *
40244 TTCTTTAAAGTCCACGACTCAGTGGTAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
40276 TTCTCAAAGTCCACGACTCAGTGGC-ATCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCAATC-TT
*
40307 TTCTTTAAAGTCCACGACTCAGTGGCAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
*
40339 TTCTCAAAGTCCACAACTTC-GTGGC-ATCCTT
1 TTCTCAAAGTCCACGAC-TCAGTGGCAAT-CTT
*
40370 TTCTTTAAAGTCCACGACTCAGTGGCAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
40402 TTCTCAAAGTCCACGACTCAGTGGC-ATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAAT-CTT
*
40433 TTCTTTAAAGTCCACGACTCAGTGGCAATCTT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
* *
40465 TTCTCAAAGCCCACGAATCAGTGGC-AT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * *
40494 TGTC-CTAAAGTCCACGACTCCGTGGCACCTTTTT
1 T-TCTC-AAAGTCCACGACTCAGTGGCA--ATCTT
* *
40528 CTTCTCAAAGCCCACGATTCAGTGGC-AT-TT
1 -TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * * * *
40558 TATC-CTAAAATCCACGAATCCGTAGC-ACCTTT
1 T-TCTC-AAAGTCCACGACTCAGTGGCAATC-TT
* * * *
40590 TTTTCAAAGCCCACAACTCAGTGGCACTCTTT
1 TTCTCAAAGTCCACGACTCAGTGGCAATC-TT
* * * *
40622 TTCCCTTTTAAAGCCCACAACTCCGTGGCACA-CTTT
1 TT--C--TCAAAGTCCACGACTCAGTGGCA-ATC-TT
*** * * *
40658 GTTCTTTTTCAGTCCACGACTCCGTGGCACTTTTT
1 -TTC--TCAAAGTCCACGACTCAGTGGCA-ATCTT
* *
40693 TTCTTTTTAAAGTCCACGACTCAGTGGC-ATTTT
1 TTC---TCAAAGTCCACGACTCAGTGGCAATCTT
*
40726 CTTTTCAAAGTCCACGACTCAGTGGC-A----
1 -TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * **
40753 ---TCAAAGTCCAC-AATCCTGTGGCACCCTGT
1 TTCTCAAAGTCCACGACT-CAGTGGCAATCT-T
* * *
40782 CCCTT-TCAAAGTCCACAACTCCGTGGC-ACCTT
1 ---TTCTCAAAGTCCACGACTCAGTGGCAATCTT
* * * *
40814 CTTTTCAAAGCCCACAACTCAGTGGCACTCTTT
1 -TTCTCAAAGTCCACGACTCAGTGGCAATC-TT
* * *
40847 TTCCCTTTCAAAGCCCACAACTCAGTGGCAATCTC
1 TT--C--TCAAAGTCCACGACTCAGTGGCAATCTT
40882 TTCTCAAAGTCCACGACTCAGTGGC-ATCCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAAT-CTT
40913 TTCTTCAAAGTCCACGACTCAGTGGC-AT-TT
1 TTC-TCAAAGTCCACGACTCAGTGGCAATCTT
*
40943 TGTCTCAAAGTCCACGACTCCGTGGCA
1 T-TCTCAAAGTCCACGACTCAGTGGCA
40970 CCTTTTTCTT
Statistics
Matches: 622, Mismatches: 74, Indels: 122
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.00
23 17 0.03
29 6 0.01
30 79 0.13
31 209 0.34
32 141 0.23
33 20 0.03
34 43 0.07
35 53 0.09
36 50 0.08
37 2 0.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.31
Consensus pattern (31 bp):
TTCTCAAAGTCCACGACTCAGTGGCAATCTT
Found at i:40266 original size:63 final size:63
Alignment explanation
Indices: 40187--40969 Score: 573
Period size: 63 Copynumber: 12.3 Consensus size: 63
40177 ATACCTTCTC
* *
40187 AAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
* * *
40250 AAAGTCCACGACTCAGTGGTAATCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
40313 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTTC-GTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAAC-TCAGTGGCATCCTTTTCTTT
*
40376 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
* *
40439 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGCCCACGAA-TCAGTGGCAT--TTTGTC-CT
1 AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCAC-AACTCAGTGGCATCCTTT-TCTTT
* * * * * *
40500 AAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGATTCAGTGGCAT--TTTATC-
1 AAAGTCCACGACTCAGTGGCA--ATCTT-TTCTCAAAGTCCACAACTCAGTGGCATCCTTT-TCT
*
40562 CT
62 TT
* * * * * * * *
40564 AAAATCCACGAATCCGTAGC-ACCTTTTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCT
1 AAAGTCCACGACTCAGTGGCAATC-TTTTCTCAAAGTCCACAACTCAGTGGCA-TCCTTTT--C-
40628 TTT
61 TTT
* * * *** * * **
40631 AAAGCCCACAACTCCGTGGCACA-CTTTGTTCTTTTTCAGTCCACGACTCCGTGGCACTTTTTTT
1 AAAGTCCACGACTCAGTGGCA-ATC-TT-TTC--TCAAAGTCCACAACTCAGTGGCA-TCCTTTT
40695 CTTTTT
60 C--TTT
* * *
40701 AAAGTCCACGACTCAGTGGC-ATTTTCTTTTCAAAGTCCACGACTCAGTGGCA------TC---
1 AAAGTCCACGACTCAGTGGCAATCTT-TTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
* * ** *
40755 AAAGTCCAC-AATCCTGTGGCACCCTGTCCCTT-TCAAAGTCCACAACTCCGTGGCA-CCTTCTT
1 AAAGTCCACGACT-CAGTGGCAATCT-T---TTCTCAAAGTCCACAACTCAGTGGCATCCTT-TT
*
40817 -TTC
60 CTTT
* * * * *
40820 AAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCAAAGCCCACAACTCAGTGGCAAT-CTCTT
1 AAAGTCCACGACTCAGTGGCAATC-TTTT--C--TCAAAGTCCACAACTCAGTGGC-ATCCTTTT
*
40884 C-TC
60 CTTT
*
40887 AAAGTCCACGACTCAGTGGC-ATCCTTTTCTTCAAAGTCCACGACTCAGTGGCAT--TTTGTC-T
1 AAAGTCCACGACTCAGTGGCAAT-CTTTTC-TCAAAGTCCACAACTCAGTGGCATCCTTT-TCTT
*
40948 C
63 T
*
40949 AAAGTCCACGACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
40970 CCTTTTTCTT
Statistics
Matches: 599, Mismatches: 71, Indels: 100
0.78 0.09 0.13
Matches are distributed among these distances:
53 2 0.00
54 15 0.03
55 1 0.00
56 1 0.00
57 21 0.04
58 3 0.01
59 2 0.00
61 49 0.08
62 34 0.06
63 250 0.42
64 55 0.09
65 19 0.03
66 27 0.05
67 59 0.10
68 12 0.02
69 4 0.01
70 21 0.04
71 24 0.04
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (63 bp):
AAAGTCCACGACTCAGTGGCAATCTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTT
Found at i:40802 original size:194 final size:191
Alignment explanation
Indices: 40500--41039 Score: 512
Period size: 194 Copynumber: 2.8 Consensus size: 191
40490 ATTTTGTCCT
* * * *
40500 AAAGTCCACGACTCCGTGGCACCTTTTTCTTCTCAAAGCCCACGATTCAGTGGCATTTTATCCTA
1 AAAGTCCACGACTCAGTGGCATC-TTTTC-T-TCAAAGTCCACGACTCAGTGGCA---T-T-C-A
* * ** *
40565 AAATCCACGAATCCGTAGCA-CCT-T-TTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCC
57 AAGTCCACGAATCCGTGGCACCCTGTCCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
** * * *
40627 TTTTAAAGCCCACAACTCCGTGGCACACTTTGTTCTTTTTC-AGTCCACGACTCCGTGGCACTTT
122 TTTTAAAGCCCACAACTCCGTGGCACACTTT-TTCCCTTTCAAGCCCACAACTCAGTGGCA----
* * * *
40691 TTTTCTTTTT
182 ATCTCTTCTC
*
40701 AAAGTCCACGACTCAGTGGCAT-TTTCTTTTCAAAGTCCACGACTCAGTGGCA-TCAAAGTCCAC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTTCAAAGTCCACGACTCAGTGGCATTCAAAGTCCAC
*
40764 -AATCCTGTGGCACCCTGTCCCTTTCAAAGTCCACAACTCCGTGGCAC-C---TT--CTTTTCAA
65 GAATCC-GTGGCACCCTGTCCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AA
* *
40822 AGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCAAAGCCCACAACTCAGTGGCAATCTCTTCTC
128 AGCCCACAACTCCGTGGCACACTTTTTCCCTTTC-AAGCCCACAACTCAGTGGCAATCTCTTCTC
40887 AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAA
1 AAAGTCCACGACTCAGTGGCAT-CTTTTCTTCAAAGTCCACGACTCAGTGGCA-----T-TCAAA
* * * * * *
40952 GTCCACGACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
59 GTCCACGAATCCGTGGCACCCTGTCCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
41017 TTAAAGCCCACAACTCCGTGGCA
124 TTAAAGCCCACAACTCCGTGGCA
41040 TCTTTCACCC
Statistics
Matches: 284, Mismatches: 31, Indels: 50
0.78 0.08 0.14
Matches are distributed among these distances:
186 28 0.10
187 25 0.09
188 15 0.05
189 25 0.09
190 23 0.08
191 13 0.05
192 4 0.01
193 3 0.01
194 70 0.25
195 5 0.02
198 23 0.08
199 24 0.08
200 6 0.02
201 20 0.07
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.31
Consensus pattern (191 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATTCAAAGTCCACG
AATCCGTGGCACCCTGTCCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGC
CCACAACTCCGTGGCACACTTTTTCCCTTTCAAGCCCACAACTCAGTGGCAATCTCTTCTC
Found at i:40835 original size:225 final size:217
Alignment explanation
Indices: 40568--40969 Score: 572
Period size: 225 Copynumber: 1.8 Consensus size: 217
40558 TATCCTAAAA
* *
40568 TCCACGAATCCGTAGCACCTTTTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTTAA
1 TCCACGAATCCGTAGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCAA
* * * *** * **
40633 AGCCCACAACTCCGTGGCACACTTTGTTCTTTTTCAGTCCACGACTCCGTGGCACTTTTTTTCTT
66 AGCCCACAACTCAGTGGCA-A-TCTCTTC--TCAAAGTCCACGACTCAGTGGCA-TCCTTTTC--
* * *
40698 TTTAAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGCATCAAAGTCCA
124 TTCAAAGTCCACGACTCAGTGGCATTTT-GTCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCA
40763 CAATCCTGTGGCACCCTGTCCCTTTCAAAG
188 CAATCCTGTGGCACCCTGTCCCTTTCAAAG
*
40793 TCCAC-AACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCA
1 TCCACGAA-TCCGTAGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCA
40857 AAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAA
65 AAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAA
*
40922 GTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCCGTGGCA
130 GTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCA
40970 CCTTTTTCTT
Statistics
Matches: 160, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
217 23 0.14
218 27 0.17
220 6 0.04
221 19 0.12
223 5 0.03
224 3 0.02
225 77 0.48
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.30
Consensus pattern (217 bp):
TCCACGAATCCGTAGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTTCCCTTTCAA
AGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAG
TCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCAAAGTCCACAATCCTG
TGGCACCCTGTCCCTTTCAAAG
Found at i:40863 original size:36 final size:35
Alignment explanation
Indices: 40783--41044 Score: 209
Period size: 31 Copynumber: 7.9 Consensus size: 35
40773 GCACCCTGTC
* *
40783 CCTTTCAAAGTCCACAACTCCGTGGCAC-C---TT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
*
40814 CTTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* *
40849 CCCTTTCAAAGCCCACAACTCAGTGGCAATC-TCTT
1 -CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
40884 -C--TCAAAGTCCACGACTCAGTGGCA-TCCTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
40915 -C-TTCAAAGTCCACGACTCAGTGGCA-T-TTTGT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
40946 -C--TCAAAGTCCACGACTCCGTGGCAC-CTTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* * *
40977 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
* *
41012 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTT
1 -CCTTTCAAAGCCCACAACTCAGTGGCACTCTTT
41045 CACCCTCTCT
Statistics
Matches: 199, Mismatches: 18, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
30 24 0.12
31 58 0.29
32 25 0.13
33 1 0.01
34 21 0.11
35 16 0.08
36 54 0.27
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.31
Consensus pattern (35 bp):
CCTTTCAAAGCCCACAACTCAGTGGCACTCTTTTT
Found at i:40867 original size:67 final size:65
Alignment explanation
Indices: 40781--41064 Score: 222
Period size: 67 Copynumber: 4.3 Consensus size: 65
40771 TGGCACCCTG
* *
40781 TCCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCAGTGGCACTCTT
1 TCCCTTTCAAAGCCCACAACTCAGTGGCA-CTTCTTTTCAAAGCCCACAACTCAGTGGCA-TCTT
40846 TT
64 TT
* * * * *
40848 TCCCTTTCAAAGCCCACAACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 TCCCTTTCAAAGCCCACAACTCAGTGGCACT-TCTTTTCAAAGCCCACAACTCAGTGGCATCTTT
40913 T
65 T
* * * * * *
40914 T--C-TTCAAAGTCCACGACTCAGTGGCA-TT-TTGTCTCAAAGTCCACGACTCCGTGGCACCTT
1 TCCCTTTCAAAGCCCACAACTCAGTGGCACTTCTT-T-TCAAAGCCCACAACTCAGTGGCATCTT
40974 TT
64 TT
* * * *
40976 T-CTTTTTAAAGCCCACAACTCCGTGGCAC-TCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGC
1 TCCCTTTCAAAGCCCACAACTCAGTGGCACTTC-TTTT--C----AAAGCCCACAACTCAGTGGC
*
41039 ATCTTTC
59 ATCTTTT
* *
41046 ACCCTCTCTAAAGCCCACA
1 TCCCTTTC-AAAGCCCACA
41065 CAAGTCGGTG
Statistics
Matches: 175, Mismatches: 26, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
60 2 0.01
61 1 0.01
62 28 0.16
63 22 0.13
64 23 0.13
65 1 0.01
66 10 0.06
67 52 0.30
70 23 0.13
71 3 0.02
72 10 0.06
ACGTcount: A:0.23, C:0.35, G:0.13, T:0.30
Consensus pattern (65 bp):
TCCCTTTCAAAGCCCACAACTCAGTGGCACTTCTTTTCAAAGCCCACAACTCAGTGGCATCTTTT
Found at i:41058 original size:36 final size:36
Alignment explanation
Indices: 40982--41064 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 36
40972 TTTTTCTTTT
** *
40982 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 TAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTC
41018 TAAAGCCCACAACTCCGTGGCA-TCTTTCACCCTCTC
1 TAAAGCCCACAACTCCGTGGCACTCTTTCACCCT-TC
41054 TAAAGCCCACA
1 TAAAGCCCACA
41065 CAAGTCGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
35 9 0.21
36 34 0.79
ACGTcount: A:0.24, C:0.39, G:0.11, T:0.27
Consensus pattern (36 bp):
TAAAGCCCACAACTCCGTGGCACTCTTTCACCCTTC
Found at i:41143 original size:43 final size:43
Alignment explanation
Indices: 41080--41355 Score: 336
Period size: 43 Copynumber: 6.1 Consensus size: 43
41070 CGGTGGCAAC
* *
41080 CCTTCTAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
41124 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGTATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
41167 CCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGTACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* * *
41216 CCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
41259 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
41308 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
41351 CCTTT
1 CCTTT
41356 TCCATCTTTA
Statistics
Matches: 203, Mismatches: 17, Indels: 25
0.83 0.07 0.10
Matches are distributed among these distances:
43 117 0.58
44 4 0.02
45 2 0.01
47 2 0.01
49 78 0.38
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:41247 original size:92 final size:92
Alignment explanation
Indices: 41085--41408 Score: 540
Period size: 92 Copynumber: 3.5 Consensus size: 92
41075 GCAACCCTTC
*
41085 TAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
* *
41150 GAATCAGTATATTGGCACCTTCTTCTT
66 GAATCAGCATATTGGCACCTTCATCTT
* * *
41177 TAAGTCCAATGTAGCTGGCCTTGAATCAGTACATTGGCACCTTTAAGTCTAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
41242 GAATCAGCATATTGGCACCTTCATCTT
66 GAATCAGCATATTGGCACCTTCATCTT
41269 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
41334 GAATCAGCATATTGGCACCTTTTCCATCTT
66 GAATCAGCATATTGGCACC--TT-CATCTT
* *
41364 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
41409 TTCTCATCTT
Statistics
Matches: 217, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
92 167 0.77
94 2 0.01
95 43 0.20
96 5 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (92 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTT
GAATCAGCATATTGGCACCTTCATCTT
Found at i:41387 original size:52 final size:55
Alignment explanation
Indices: 41309--41529 Score: 180
Period size: 52 Copynumber: 3.9 Consensus size: 55
41299 ACATTGGCAC
* *
41309 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* *
41361 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * * ** * *
41416 CTTTAAGCCCAATATCGTTGGCCGCGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TC-TC
41481 AT
54 AT
* * *
41483 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTT
41530 ATCTTTAAGT
Statistics
Matches: 133, Mismatches: 21, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
52 38 0.29
53 2 0.02
54 5 0.04
55 32 0.24
56 1 0.01
57 1 0.01
58 4 0.03
59 1 0.01
60 1 0.01
61 4 0.03
62 1 0.01
63 3 0.02
64 2 0.02
66 3 0.02
67 35 0.26
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.36
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:41617 original size:169 final size:173
Alignment explanation
Indices: 41309--41695 Score: 446
Period size: 169 Copynumber: 2.2 Consensus size: 173
41299 ACATTGGCAC
* * *
41309 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTT-CATCTTTAAGTCCAAT
* * *
41374 GTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
65 ATAGCTAGCC-TGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCC
* *
41439 GCGAATCAACATATTGG-CATCTTTATCACTTTTC-TCATCTTCAT
129 GCGAATCAACATATTGGTCAT-TTTATCACTCTTCATCATCATCAT
*
41483 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTT-ATCTTTAAGTCCAATA
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
* ** * ** *
41546 TCGCTAGCC-GCATATTGGCTC-TT-TTATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCT
66 TAGCTAGCCTG-A-ATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCC
* * * *
41608 GTGAATCAACGTATTGGTCCTTTTATCACTCTTCATCCTCATCAT
129 GCGAATCAACATATTGGTCATTTTATCACTCTTCATCATCATCAT
* * * * * *
41653 CTTTAAGTCCAGTGTGGCAGGCTTTGAATCTGCACAGTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
41696 ATTGCAATGA
Statistics
Matches: 183, Mismatches: 26, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
169 63 0.34
170 50 0.27
171 26 0.14
173 3 0.02
174 41 0.22
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (173 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATCTTTAAGTCCAATA
TAGCTAGCCTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCGC
GAATCAACATATTGGTCATTTTATCACTCTTCATCATCATCAT
Found at i:42289 original size:13 final size:13
Alignment explanation
Indices: 42271--42295 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42261 CATAAAGTGT
42271 TGTATCGATACAA
1 TGTATCGATACAA
42284 TGTATCGATACA
1 TGTATCGATACA
42296 TTTTTTTTTT
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:42378 original size:13 final size:13
Alignment explanation
Indices: 42360--42384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42350 ATTACTCAAA
42360 TGTATCGATACAT
1 TGTATCGATACAT
42373 TGTATCGATACA
1 TGTATCGATACA
42385 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:42449 original size:52 final size:52
Alignment explanation
Indices: 42393--42565 Score: 319
Period size: 52 Copynumber: 3.3 Consensus size: 52
42383 CACTGATCTT
42393 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
42445 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAC
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* *
42497 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
42549 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
42566 ATAAATTTTC
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 117 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:44609 original size:43 final size:43
Alignment explanation
Indices: 44548--44632 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
44538 CTTTCGGATT
44548 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
1 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
44591 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGT
1 TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGT
44633 TTCAAAACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.26
Consensus pattern (43 bp):
TCATCTCAGGCACTCGGATGTTTCCGCGCAATCCCGATCAGTG
Found at i:45890 original size:82 final size:82
Alignment explanation
Indices: 45764--45985 Score: 227
Period size: 82 Copynumber: 2.7 Consensus size: 82
45754 GACTTGGGTT
* * * **
45764 GAACTGACAAGACAATAGAGGATAAAAAGATTTACCC-AGGACTAAGCCGACAGGTAAACAAGGG
1 GAACCGACAAGTCAACAGAGGAT-AAAAGATTTACCCGA-GACTAAGCCGACAGGTAAACAAAAG
**
45828 ATA-AAAGATTGACTGGGATT
64 A-AGAAAG-TTGACTGGGACC
** ** * ** *
45848 GAACCGATGA-TCAACA-ATGGATAAAAGATTTACTTGAGACTAAACTAACAAGTAAACAAAAGA
1 GAACCGACAAGTCAACAGA-GGATAAAAGATTTACCCGAGACTAAGCCGACAGGTAAACAAAAGA
*
45911 AGAAAGTTGATTGGGACC
65 AGAAAGTTGACTGGGACC
45929 GAACCGACAAGTCAACAGAGGATAAAAGATTTACCCGAGACTAAGCCGACAGGTAAA
1 GAACCGACAAGTCAACAGAGGATAAAAGATTTACCCGAGACTAAGCCGACAGGTAAA
45986 TGATGGAATG
Statistics
Matches: 109, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
81 18 0.17
82 74 0.68
83 10 0.09
84 7 0.06
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.17
Consensus pattern (82 bp):
GAACCGACAAGTCAACAGAGGATAAAAGATTTACCCGAGACTAAGCCGACAGGTAAACAAAAGAA
GAAAGTTGACTGGGACC
Found at i:46103 original size:43 final size:43
Alignment explanation
Indices: 46055--46261 Score: 146
Period size: 43 Copynumber: 4.8 Consensus size: 43
46045 CTCGGGTATG
* ** *
46055 AGCCAACCGGCAGATGATTGATAAAGGAAGTCTCCCGGGACTA
1 AGCCAACGGGCAGACAATTGATAAAGGAAGTCTCCCAGGACTA
* * * ** *
46098 AGCCAACGGGTAGACAATTGACAAAGGAAATCTCTTAGGACTG
1 AGCCAACGGGCAGACAATTGATAAAGGAAGTCTCCCAGGACTA
* * * * * *
46141 AGCCGATGGGCA-AGCGATTGATAAAAGAAGTCTCCCGGGACTG
1 AGCCAACGGGCAGA-CAATTGATAAAGGAAGTCTCCCAGGACTA
* * * * *
46184 AGCCGATGGGTAAACAATTGATAAAGGAAGTCTTCCAGGACTA
1 AGCCAACGGGCAGACAATTGATAAAGGAAGTCTCCCAGGACTA
* * *** * *
46227 AGTCGATAAGCAGACAATTAATAAAGGAAATCTCC
1 AGCCAACGGGCAGACAATTGATAAAGGAAGTCTCC
46262 TGAGTCTGAG
Statistics
Matches: 128, Mismatches: 34, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
42 1 0.01
43 126 0.98
44 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.18
Consensus pattern (43 bp):
AGCCAACGGGCAGACAATTGATAAAGGAAGTCTCCCAGGACTA
Found at i:46224 original size:86 final size:86
Alignment explanation
Indices: 46064--46300 Score: 253
Period size: 86 Copynumber: 2.8 Consensus size: 86
46054 GAGCCAACCG
* * * * * *
46064 GCAGATGATTGATAAAGGAAGTCTCCCGGGACTAAGCCAACGGGTAGACAATTGACAAAGGAAAT
1 GCAGACGATTGATAAAGGAAGTCTCCCGGGACTGAGCCGATGGGTAGACAATTGATAAAGGAAGT
* * **
46129 CTCTTAGGACTGAGCCGATGG
66 CTCTCAGGACTAAGCCGATAA
* *
46150 GCA-AGCGATTGATAAAAGAAGTCTCCCGGGACTGAGCCGATGGGTAAACAATTGATAAAGGAAG
1 GCAGA-CGATTGATAAAGGAAGTCTCCCGGGACTGAGCCGATGGGTAGACAATTGATAAAGGAAG
*
46214 TCT-TCCAGGACTAAGTCGATAA
65 TCTCT-CAGGACTAAGCCGATAA
* * * * * * * *
46236 GCAGACAATTAATAAAGGAAATCTCCTGAGTCTGAGCCGATAGGTAGACAATTGATAAAAGAAGT
1 GCAGACGATTGATAAAGGAAGTCTCCCGGGACTGAGCCGATGGGTAGACAATTGATAAAGGAAGT
46301 GTCTTGGGAC
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
85 2 0.02
86 122 0.98
87 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.20
Consensus pattern (86 bp):
GCAGACGATTGATAAAGGAAGTCTCCCGGGACTGAGCCGATGGGTAGACAATTGATAAAGGAAGT
CTCTCAGGACTAAGCCGATAA
Found at i:46470 original size:42 final size:42
Alignment explanation
Indices: 46349--46817 Score: 185
Period size: 42 Copynumber: 11.2 Consensus size: 42
46339 TAGTCTCTCA
* * * * * * **
46349 GGTCAAAGCCGATGGGAAGACAAAGGGTGAAGGAATCTCCCA
1 GGTCAAAGCCGACGGGTAGACAAAGGGTAAAAGAGTCTTCTG
** *
46391 GGTCAAAGCCGATC-AATAGACAAAGGGT-GAAGTAGTCTTCTG
1 GGTCAAAGCCGA-CGGGTAGACAAAGGGTAAAAG-AGTCTTCTG
* *
46433 GGTCAAAGCCGACAGGTAGACAAAGGGTAAAAGAGTC-TCTCA
1 GGTCAAAGCCGACGGGTAGACAAAGGGTAAAAGAGTCTTCT-G
* * * * * *
46475 AGTCAAAGTCGACGGGCAGACAAAGGATGAAAA-A-TCTCCCG
1 GGTCAAAGCCGACGGGTAGACAAAGGGT-AAAAGAGTCTTCTG
** ** * * *
46516 GGTCAAAGTGGATC-GACAAACAAAAGGG-AAAAAAGTCTTTTG
1 GGTCAAAGCCGA-CGGGTAGAC-AAAGGGTAAAAGAGTCTTCTG
* * * * * * * *
46558 GGTTAAAGCCAACGAGTATACAAAGGGTGAAGGAATCTCTCAG
1 GGTCAAAGCCGACGGGTAGACAAAGGGTAAAAGAGTCT-TCTG
* * * *
46601 GTTC-AAGCCGATGGGTAAACAAAGGGTGAAAGAGTC-TCTCG
1 GGTCAAAGCCGACGGGTAGACAAAGGGTAAAAGAGTCTTCT-G
* * * * * **
46642 GGTCAAAGTCGACGGGCA-AAAAATGGGTGAAAGAGTCTCCCA
1 GGTCAAAGCCGACGGGTAGACAAA-GGGTAAAAGAGTCTTCTG
* ** * * *
46684 GGTTAAAGCCGACGGACAAACAAAGGGT-GAAGTAGTC-TCTCC
1 GGTCAAAGCCGACGGGTAGACAAAGGGTAAAAG-AGTCTTCT-G
* * *
46726 AGTCAAAGTCAACGGGTAGACAAAGGGTAAAAGA-TCTT-TCG
1 GGTCAAAGCCGACGGGTAGACAAAGGGTAAAAGAGTCTTCT-G
* * * * *
46767 AGTCAAAGCCAAAGGGTAGACAAAGGGTGTAAA-AGTCTCCTG
1 GGTCAAAGCCGACGGGTAGACAAAGGGT-AAAAGAGTCTTCTG
46809 GGTCAAAGC
1 GGTCAAAGC
46818 TGACAGGCAT
Statistics
Matches: 318, Mismatches: 83, Indels: 52
0.70 0.18 0.11
Matches are distributed among these distances:
40 6 0.02
41 74 0.23
42 218 0.69
43 20 0.06
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.17
Consensus pattern (42 bp):
GGTCAAAGCCGACGGGTAGACAAAGGGTAAAAGAGTCTTCTG
Found at i:46496 original size:84 final size:83
Alignment explanation
Indices: 46408--46794 Score: 243
Period size: 84 Copynumber: 4.6 Consensus size: 83
46398 GCCGATCAAT
* * *
46408 AGACAAAGGGTGAAGTAGTCTTCTGGGTCAAAGCCGACAGGTAGACAAAGGGTAAAAGAGTCTCT
1 AGACAAAGGGTGAAGAAGTCTTCCGGGTCAAAGCCGAC-GGTAAACAAAGGGTAAAAGAGTCTCT
* *
46473 CAAGTCAAAGTCGACGGGC
65 CGAGTCAAAGTCAACGGGC
* * * ** ** * *
46492 AGACAAAGGATGAA-AAATCTCCCGGGTCAAAGTGGATCGACAAACAAAAGGG-AAAAAAGTCTT
1 AGACAAAGGGTGAAGAAGTCTTCCGGGTCAAAGCCGA-CGGTAAAC-AAAGGGTAAAAGAGTCTC
* * * * * *
46555 TTGGGTTAAAGCCAACGAGT
64 TCGAGTCAAAGTCAACGGGC
* * * * *
46575 ATACAAAGGGTGAAGGAA-TCTCTCAGGTTC-AAGCCGATGGGTAAACAAAGGGTGAAAGAGTCT
1 AGACAAAGGGTGAA-GAAGTCT-TCCGGGTCAAAGCCGA-CGGTAAACAAAGGGTAAAAGAGTCT
* *
46638 CTCGGGTCAAAGTCGACGGGC
63 CTCGAGTCAAAGTCAACGGGC
* * * * * *
46659 A-AAAAATGGGTGAA-AGAGTCTCCCAGGTTAAAGCCGACGGACAAACAAAGGGT-GAAGTAGTC
1 AGACAAA-GGGTGAAGA-AGTCTTCCGGGTCAAAGCCGACGG-TAAACAAAGGGTAAAAG-AGTC
* *
46721 TCTCCAGTCAAAGTCAACGGGT
62 TCTCGAGTCAAAGTCAACGGGC
* * * * *
46743 AGACAAAGGGT-AA-AAGATCTTTCGAGTCAAAGCCAAAGGGTAGACAAAGGGT
1 AGACAAAGGGTGAAGAAG-TCTTCCGGGTCAAAGCC-GACGGTAAACAAAGGGT
46795 GTAAAAGTCT
Statistics
Matches: 226, Mismatches: 62, Indels: 31
0.71 0.19 0.10
Matches are distributed among these distances:
82 3 0.01
83 97 0.43
84 115 0.51
85 11 0.05
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (83 bp):
AGACAAAGGGTGAAGAAGTCTTCCGGGTCAAAGCCGACGGTAAACAAAGGGTAAAAGAGTCTCTC
GAGTCAAAGTCAACGGGC
Found at i:46792 original size:167 final size:167
Alignment explanation
Indices: 46433--46816 Score: 372
Period size: 167 Copynumber: 2.3 Consensus size: 167
46423 TAGTCTTCTG
* * ** *
46433 GGTCAAAGCCGACA-GGTAGACAAAGGGTAAAAGAGTCTCTCAAGTCAAAGTCGACGGGCAGACA
1 GGTCAAAGCC-AAAGGGTAGACAAAGGGTGAAAGAGTCTCTCGGGTCAAAGTCGACGGGCAGAAA
* ** * *** *
46497 AAGGATGAAAAATCTCCCGGGTCAAAGTGGATCGACAAACAAAAGGGAAAAAAGTCTTTTGGGTT
65 AAGGATGAAAAATCTCCCAGGTCAAAGCCGATCGACAAACAAAAGGGAAAAAAGTCTCTCCAGTC
* * *
46562 AAAGCCAACGAGTATACAAAGGGTGAAGGAATCTCTCA
130 AAAGCCAACGAGTAGACAAAGGGTAAAAGAATCTCTCA
* * *
46600 GGTTC-AAGCCGATGGGTAAACAAAGGGTGAAAGAGTCTCTCGGGTCAAAGTCGACGGGCA-AAA
1 GG-TCAAAGCCAAAGGGTAGACAAAGGGTGAAAGAGTCTCTCGGGTCAAAGTCGACGGGCAGAAA
* * * * **
46663 AATGGGTGAAAGAGTCTCCCAGGTTAAAGCCGA-CGGACAAAC-AAAGGGTGAAGTAGTCTCTCC
65 AA-GGATGAAA-AATCTCCCAGGTCAAAGCCGATC-GACAAACAAAAGGG-AAAAAAGTCTCTCC
* * *
46726 AGTCAAAGTCAACGGGTAGACAAAGGGTAAAAG-ATCTTTC-
126 AGTCAAAGCCAACGAGTAGACAAAGGGTAAAAGAATCTCTCA
46766 GAGTCAAAGCCAAAGGGTAGACAAAGGGTGTAAA-AGTCTC-CTGGGTCAAAG
1 G-GTCAAAGCCAAAGGGTAGACAAAGGGTG-AAAGAGTCTCTC-GGGTCAAAG
46817 CTGACAGGCA
Statistics
Matches: 176, Mismatches: 31, Indels: 20
0.78 0.14 0.09
Matches are distributed among these distances:
166 8 0.05
167 106 0.60
168 62 0.35
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (167 bp):
GGTCAAAGCCAAAGGGTAGACAAAGGGTGAAAGAGTCTCTCGGGTCAAAGTCGACGGGCAGAAAA
AGGATGAAAAATCTCCCAGGTCAAAGCCGATCGACAAACAAAAGGGAAAAAAGTCTCTCCAGTCA
AAGCCAACGAGTAGACAAAGGGTAAAAGAATCTCTCA
Found at i:47131 original size:44 final size:44
Alignment explanation
Indices: 47078--47225 Score: 187
Period size: 44 Copynumber: 3.4 Consensus size: 44
47068 AAATTTGACC
47078 AGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATCTAACT
1 AGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATCTAACT
* * *
47122 AGGGTGGTAACCATACGTCAGAT-AGGAA--AAAGGCAGATTTAACT
1 AGGGTGGTAACCATACGTCAAATCA-GAATGAAAAG-A-ATCTAACT
* *
47166 AGGGTGGTAACCATACGTCAAATC-GAAATGAAAAGAATCTGACC
1 AGGGTGGTAACCATACGTCAAATCAG-AATGAAAAGAATCTAACT
47210 AGGGTGGTAACCATAC
1 AGGGTGGTAACCATAC
47226 ATTAGATAGG
Statistics
Matches: 89, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
42 4 0.04
43 3 0.03
44 77 0.87
45 1 0.01
46 4 0.04
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (44 bp):
AGGGTGGTAACCATACGTCAAATCAGAATGAAAAGAATCTAACT
Found at i:47186 original size:88 final size:88
Alignment explanation
Indices: 47078--47238 Score: 270
Period size: 88 Copynumber: 1.8 Consensus size: 88
47068 AAATTTGACC
* *
47078 AGGGTGGTAACCATACGTCAAATC-AGAATGAAAAGAATCTAACTAGGGTGGTAACCATACGTCA
1 AGGGTGGTAACCATACGTCAAATCGA-AATGAAAAGAATCTAACCAGGGTGGTAACCATACATCA
47142 GATAGGAAAAAGGCAGATTTAACT
65 GATAGGAAAAAGGCAGATTTAACT
* *
47166 AGGGTGGTAACCATACGTCAAATCGAAATGAAAAGAATCTGACCAGGGTGGTAACCATACATTAG
1 AGGGTGGTAACCATACGTCAAATCGAAATGAAAAGAATCTAACCAGGGTGGTAACCATACATCAG
47231 ATAGGAAA
66 ATAGGAAA
47239 GAGGAGAGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
88 67 0.99
89 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (88 bp):
AGGGTGGTAACCATACGTCAAATCGAAATGAAAAGAATCTAACCAGGGTGGTAACCATACATCAG
ATAGGAAAAAGGCAGATTTAACT
Found at i:47253 original size:44 final size:43
Alignment explanation
Indices: 47070--47256 Score: 153
Period size: 44 Copynumber: 4.3 Consensus size: 43
47060 AAGGAGGTAA
* * **
47070 ATTTGACCAGGGTGGTAACCATACGTCAAATCA-GAATGAAAAG
1 ATTTGACCAGGGTGGTAACCATACGTCAGAT-AGGAAAGAGGAG
* * * *
47113 AATCTAACTAGGGTGGTAACCATACGTCAGATAGGAAAAAGGCAG
1 -ATTTGACCAGGGTGGTAACCATACGTCAGATAGGAAAGAGG-AG
* * * * **
47158 ATTTAACTAGGGTGGTAACCATACGTCAAAT-CGAAATGAAAAG
1 ATTTGACCAGGGTGGTAACCATACGTCAGATAGGAAA-GAGGAG
* * *
47201 AATCTGACCAGGGTGGTAACCATACATTAGATAGGAAAGAGGAG
1 -ATTTGACCAGGGTGGTAACCATACGTCAGATAGGAAAGAGGAG
47245 AGTTTGACCAGG
1 A-TTTGACCAGG
47257 CCTTAACACC
Statistics
Matches: 113, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
43 8 0.07
44 99 0.88
45 6 0.05
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (43 bp):
ATTTGACCAGGGTGGTAACCATACGTCAGATAGGAAAGAGGAG
Found at i:47298 original size:48 final size:48
Alignment explanation
Indices: 47243--47351 Score: 173
Period size: 48 Copynumber: 2.3 Consensus size: 48
47233 AGGAAAGAGG
* * *
47243 AGAGTTTGACCAGGCCTTAACACCAATACAATCAAATGAGGGATGAAA
1 AGAGTTTGACCAGGCCCTAACACCAATACAATCAAATAAGAGATGAAA
*
47291 AGAGTTTGACCAGGCCCTAACACCAATACAGTCAAATAAGAGATGAAA
1 AGAGTTTGACCAGGCCCTAACACCAATACAATCAAATAAGAGATGAAA
*
47339 AAAGTTTGACCAG
1 AGAGTTTGACCAG
47352 ATATAGTCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.18
Consensus pattern (48 bp):
AGAGTTTGACCAGGCCCTAACACCAATACAATCAAATAAGAGATGAAA
Found at i:47360 original size:36 final size:36
Alignment explanation
Indices: 47312--47398 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
47302 AGGCCCTAAC
*
47312 ACCA-ATACAGTCAAATAAGAGATGAAAAAAGTTTG
1 ACCAGATATAGTCAAATAAGAGATGAAAAAAGTTTG
* * *
47347 ACCAGATATAGTCAAATGAGGGATGAAAAGAGTTTG
1 ACCAGATATAGTCAAATAAGAGATGAAAAAAGTTTG
*
47383 ATCAGATATAGTCAAA
1 ACCAGATATAGTCAAA
47399 CAATGATGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 4 0.09
36 42 0.91
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (36 bp):
ACCAGATATAGTCAAATAAGAGATGAAAAAAGTTTG
Found at i:47843 original size:90 final size:90
Alignment explanation
Indices: 47659--47902 Score: 327
Period size: 90 Copynumber: 2.7 Consensus size: 90
47649 ATCAACCTTT
* *
47659 GTGATGCATCAATACCATCTAGTTGTTAGAT-AATGGGGATA-GATTGGGAATGTATGGGACAT-
1 GTGATGCATCAATACCATCTAGTGGTTAGATGAA-GGGGATATGATTGGGAATGTGTGGG-C-TG
*
47721 -ACCTTGCCCTATAGGAAATCAGGCTTA
63 CACCTTGCCCTAAAGGAAATCAGGCTTA
*
47748 GTGATGCATCAATACCATCTAGTGGTTAGATGAAGGGGATATGATTGGGAATATGTGGGCTGCAC
1 GTGATGCATCAATACCATCTAGTGGTTAGATGAAGGGGATATGATTGGGAATGTGTGGGCTGCAC
*
47813 CTTG-CCTCAAATGAAATCAGGCTTA
66 CTTGCCCT-AAAGGAAATCAGGCTTA
* * * *
47838 GTGATGCATCAATACCATCGAGTGGTTGGATGAAGGGGATATAATTGGGGAATGTGTGGGTTGCA
1 GTGATGCATCAATACCATCTAGTGGTTAGATGAAGGGGATATGATT-GGGAATGTGTGGGCTGCA
47903 TGATTTCCCT
Statistics
Matches: 139, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
88 1 0.01
89 41 0.29
90 81 0.58
91 16 0.12
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.28
Consensus pattern (90 bp):
GTGATGCATCAATACCATCTAGTGGTTAGATGAAGGGGATATGATTGGGAATGTGTGGGCTGCAC
CTTGCCCTAAAGGAAATCAGGCTTA
Found at i:48429 original size:171 final size:172
Alignment explanation
Indices: 48159--48472 Score: 377
Period size: 171 Copynumber: 1.8 Consensus size: 172
48149 TGAAAAAATG
* * * * * *** *
48159 CAAATGCAAGCATCAATAAAAGGCAAGTGCATATGGAATGATGCAGATACTGATGTCGTGTGAGA
1 CAAATGCAAGCATCAATAAAAGGCAAATGCATATGCAATGATGCAAATACTAATGTCATCAAAAA
* * * **
48224 TGCAAATATGTATGAAGCAATGCAAATACAAGCAT-TAG-GTGGCAAATGCATATGAAATGATGC
66 TGCAAATATGTATGAAGCAACGCAAATACAAGCATATAGAATGACAAATGCATATGAAAACATGC
48287 AAATGCTAATGTTATTTGAATGCAAATGCATGTAAAATGATA
131 AAATGCTAATGTTATTTGAATGCAAATGCATGTAAAATGATA
* *
48329 CAAATGTAAGCATCAATAAAGAGGCAAATGCCTATGCAATGATGCAAATACTAATGTCATCAAAA
1 CAAATGCAAGCATCAATAAA-AGGCAAATGCATATGCAATGATGCAAATACTAATGTCATCAAAA
* *
48394 ATGC-AA-ATGTAGGTG-AGACAACGTAAATGCAAGCATCAATAGAATGACAAATGCATATGAAA
65 ATGCAAATATGTA--TGAAG-CAACGCAAATACAAGCAT--ATAGAATGACAAATGCATATGAAA
48456 ACATGCAAATGCTAATG
125 ACATGCAAATGCTAATG
48473 CAATCTAATT
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
169 5 0.04
170 23 0.19
171 55 0.47
174 3 0.03
175 32 0.27
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.23
Consensus pattern (172 bp):
CAAATGCAAGCATCAATAAAAGGCAAATGCATATGCAATGATGCAAATACTAATGTCATCAAAAA
TGCAAATATGTATGAAGCAACGCAAATACAAGCATATAGAATGACAAATGCATATGAAAACATGC
AAATGCTAATGTTATTTGAATGCAAATGCATGTAAAATGATA
Found at i:48579 original size:10 final size:9
Alignment explanation
Indices: 48561--48592 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
48551 AAGTATTCTA
48561 TTTTTTTGT
1 TTTTTTTGT
48570 TTTTTGTTGT
1 TTTTT-TTGT
48580 TTTTTTTGT
1 TTTTTTTGT
48589 TTTT
1 TTTT
48593 GCTTTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:52540 original size:20 final size:19
Alignment explanation
Indices: 52488--52540 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
52478 TGTATTGATA
**
52488 CATTGTATCGATACATGTT
1 CATTGTATCGATACATACT
* *
52507 CATTATATCAATACATACT
1 CATTGTATCGATACATACT
52526 CAATTGTATCGATAC
1 C-ATTGTATCGATAC
52541 GTGAAACTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:61677 original size:20 final size:22
Alignment explanation
Indices: 61642--61682 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
61632 AACGGTTAAA
61642 ATCCTAGAATGTATCGATACAC
1 ATCCTAGAATGTATCGATACAC
61664 ATCC-AGAA-GTATCGATACA
1 ATCCTAGAATGTATCGATACA
61683 TTATAGCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (22 bp):
ATCCTAGAATGTATCGATACAC
Done.