Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 39 of 145
Found at i:13963638 original size:20 final size:20
Alignment explanation
Indices: 13963613--13963657 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
13963603 TATTCAAATT
13963613 AAGTCTTTATGTACAAGACA
1 AAGTCTTTATGTACAAGACA
13963633 AAGTCTTTATGTACAAGACA
1 AAGTCTTTATGTACAAGACA
13963653 AAGTC
1 AAGTC
13963658 CATATACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (20 bp):
AAGTCTTTATGTACAAGACA
Found at i:13963667 original size:18 final size:19
Alignment explanation
Indices: 13963624--13963673 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
13963614 AGTCTTTATG
* *
13963624 TACAAGACAAAGTCTTTATG
1 TACAAGACAAAGTC-TCATA
13963644 TACAAGACAAAGTC-CATA
1 TACAAGACAAAGTCTCATA
13963662 TACAAGAACAAA
1 TACAAG-ACAAA
13963674 TAATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 8 0.30
19 5 0.19
20 14 0.52
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.20
Consensus pattern (19 bp):
TACAAGACAAAGTCTCATA
Found at i:13970473 original size:23 final size:22
Alignment explanation
Indices: 13970438--13970509 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
13970428 TGTGCGAAAC
* *
13970438 TTATA-AAAATGTGTTAACCGTG
1 TTATACAACATGTGTAAACC-TG
*
13970460 TTATACTACATGTGTAAAACCTG
1 TTATACAACATGTGT-AAACCTG
*
13970483 TTATACAACATGTGTGAACCCTG
1 TTATACAACATGTGT-AAACCTG
13970506 TTAT
1 TTAT
13970510 GATATATGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 5 0.12
23 33 0.79
24 4 0.10
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTATACAACATGTGTAAACCTG
Found at i:13970571 original size:17 final size:17
Alignment explanation
Indices: 13970549--13970581 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13970539 TGAGCCCTTA
13970549 ACCATGTGCGAACCTAC
1 ACCATGTGCGAACCTAC
*
13970566 ACCATGTGTGAACCTA
1 ACCATGTGCGAACCTA
13970582 TATATTATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (17 bp):
ACCATGTGCGAACCTAC
Found at i:13970595 original size:17 final size:17
Alignment explanation
Indices: 13970575--13970632 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
13970565 CACCATGTGT
13970575 GAACCTATATATTATGC
1 GAACCTATATATTATGC
*
13970592 GAACCTATATATGTTGTGC
1 GAACCTATATA--TTATGC
*
13970611 GAACCCATGATA-TATGC
1 GAACCTAT-ATATTATGC
13970628 GAACC
1 GAACC
13970633 CATGTTACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 20 0.57
19 12 0.34
20 3 0.09
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (17 bp):
GAACCTATATATTATGC
Found at i:13970611 original size:19 final size:17
Alignment explanation
Indices: 13970570--13970615 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
13970560 ACCTACACCA
*
13970570 TGTGTGAACCTATATAT
1 TGTGCGAACCTATATAT
*
13970587 TATGCGAACCTATATATGT
1 TGTGCGAACCTATATA--T
13970606 TGTGCGAACC
1 TGTGCGAACC
13970616 CATGATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.58
19 10 0.42
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (17 bp):
TGTGCGAACCTATATAT
Found at i:13970647 original size:17 final size:17
Alignment explanation
Indices: 13970610--13970649 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
13970600 ATATGTTGTG
* *
13970610 CGAACCCATGATATATG
1 CGAACCCATGATACATA
*
13970627 CGAACCCATGTTACATA
1 CGAACCCATGATACATA
13970644 CGAACC
1 CGAACC
13970650 TATAAGGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (17 bp):
CGAACCCATGATACATA
Found at i:13971102 original size:25 final size:25
Alignment explanation
Indices: 13971074--13971127 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
13971064 ATGTGTTATG
*
13971074 TGTTATGTCATATTATCAGGTGAGT
1 TGTTATGTCATATTATCAGGCGAGT
*
13971099 TGTTATGTCATATTATCATGCGAGT
1 TGTTATGTCATATTATCAGGCGAGT
13971124 TGTT
1 TGTT
13971128 TTACCTGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.46
Consensus pattern (25 bp):
TGTTATGTCATATTATCAGGCGAGT
Found at i:13974125 original size:31 final size:30
Alignment explanation
Indices: 13974072--13974144 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 30
13974062 TGGGCGTCGA
* *
13974072 TTCCTTGAATTTCTCCATGCTAGTAAGTGGT
1 TTCCTT-AATTTCTCCAGGCTAGTAAGTAGT
* **
13974103 TTCCTTAATTTCCTCTAGGCTAGTTGGTAGT
1 TTCCTTAATTT-CTCCAGGCTAGTAAGTAGT
*
13974134 TCCCTTAATTT
1 TTCCTTAATTT
13974145 TTACTTCCCG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 5 0.14
31 30 0.86
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (30 bp):
TTCCTTAATTTCTCCAGGCTAGTAAGTAGT
Found at i:13974718 original size:11 final size:11
Alignment explanation
Indices: 13974702--13974729 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
13974692 TGAGGCTTGC
13974702 GGCATTGCTGT
1 GGCATTGCTGT
13974713 GGCATTGCTGT
1 GGCATTGCTGT
13974724 GGCATT
1 GGCATT
13974730 AAGTGGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.11, C:0.18, G:0.36, T:0.36
Consensus pattern (11 bp):
GGCATTGCTGT
Found at i:13981131 original size:7 final size:7
Alignment explanation
Indices: 13981121--13981158 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
13981111 AAATCTCAAA
*
13981121 TGAGATG
1 TGAGCTG
13981128 TGAGCTG
1 TGAGCTG
13981135 TGAGCTG
1 TGAGCTG
13981142 TGAGCTG
1 TGAGCTG
13981149 TGAGCTG
1 TGAGCTG
13981156 TGA
1 TGA
13981159 AGTCGAGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.18, C:0.11, G:0.42, T:0.29
Consensus pattern (7 bp):
TGAGCTG
Found at i:13984424 original size:30 final size:30
Alignment explanation
Indices: 13984390--13984456 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
13984380 ATTTTTTGGG
13984390 AATTTTTACTTTTC-CTTCAAA-TTTTTAGA
1 AATTTTTACTTTTCTCTT-AAAGTTTTTAGA
* * *
13984419 AAATTTTATTTTTCTCTTAAAGTTTTTTGA
1 AATTTTTACTTTTCTCTTAAAGTTTTTAGA
13984449 AATTTTTA
1 AATTTTTA
13984457 GGTAGCTTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.58
Consensus pattern (30 bp):
AATTTTTACTTTTCTCTTAAAGTTTTTAGA
Found at i:13989048 original size:31 final size:31
Alignment explanation
Indices: 13989010--13989068 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
13989000 ACTAACCTAG
13989010 ATGCATAACT-GATACTATCCCCTAATGCTGA
1 ATGCATAACTGGA-ACTATCCCCTAATGCTGA
13989041 ATGCATAACTGGAACTATCCCCTAATGC
1 ATGCATAACTGGAACTATCCCCTAATGC
13989069 ATACAGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (31 bp):
ATGCATAACTGGAACTATCCCCTAATGCTGA
Found at i:13990466 original size:32 final size:32
Alignment explanation
Indices: 13990430--13990495 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
13990420 AAGAAGTAAA
13990430 GCACAAATGTAGAATAAACTAAAAAACATTTT
1 GCACAAATGTAGAATAAACTAAAAAACATTTT
*
13990462 GCACAAATGTAGAATAAACTAAAAACCATTTT
1 GCACAAATGTAGAATAAACTAAAAAACATTTT
13990494 GC
1 GC
13990496 TCAGTCCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (32 bp):
GCACAAATGTAGAATAAACTAAAAAACATTTT
Found at i:13990969 original size:7 final size:7
Alignment explanation
Indices: 13990957--13990981 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13990947 TAAATATAAT
13990957 TTTTATA
1 TTTTATA
13990964 TTTTATA
1 TTTTATA
13990971 TTTTATA
1 TTTTATA
13990978 TTTT
1 TTTT
13990982 GGCTTGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTATA
Found at i:13994814 original size:18 final size:18
Alignment explanation
Indices: 13994791--13994845 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
13994781 AATTTATATG
* *
13994791 AAAATCCTTGAAGAATTT
1 AAAATCCCTGAAGGATTT
13994809 AAAATCCCTGAAGGATTT
1 AAAATCCCTGAAGGATTT
13994827 AAAATCCCTGAAGGATTT
1 AAAATCCCTGAAGGATTT
13994845 A
1 A
13994846 TATGGATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (18 bp):
AAAATCCCTGAAGGATTT
Found at i:13996918 original size:38 final size:37
Alignment explanation
Indices: 13996837--13996920 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 37
13996827 TATTATGTAT
*
13996837 TATCAATTTTTTTAAAATTTCAATTTCAAATTATATTA
1 TATC-ATTTTTTTAAAATTTAAATTTCAAATTATATTA
*
13996875 TATCATTTTTGTTGAAATTTGAAATTTC-AATTATATTA
1 TATCATTTTT-TTAAAATTT-AAATTTCAAATTATATTA
13996913 TATCATTT
1 TATCATTT
13996921 ATATTTATCA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
37 6 0.14
38 30 0.71
39 6 0.14
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.54
Consensus pattern (37 bp):
TATCATTTTTTTAAAATTTAAATTTCAAATTATATTA
Found at i:13998740 original size:2 final size:2
Alignment explanation
Indices: 13998699--13998732 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13998689 TGTTTACAGC
13998699 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13998733 AGATATATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14004672 original size:8 final size:8
Alignment explanation
Indices: 14004659--14004683 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14004649 ACAAAAGCTG
14004659 TTATTATA
1 TTATTATA
14004667 TTATTATA
1 TTATTATA
14004675 TTATTATA
1 TTATTATA
14004683 T
1 T
14004684 ACCCTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTATTATA
Found at i:14010809 original size:25 final size:24
Alignment explanation
Indices: 14010767--14010821 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
14010757 AGCTGAATAA
* * *
14010767 CGGTAAGCTTATACGAGTTGAGTAT
1 CGGTAAGCTCATAAGAGTTG-GAAT
14010792 CGGTAAGCTCATAAGAGTTGGAAT
1 CGGTAAGCTCATAAGAGTTGGAAT
14010816 CGGTAA
1 CGGTAA
14010822 CCCTAATGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (24 bp):
CGGTAAGCTCATAAGAGTTGGAAT
Found at i:14031742 original size:16 final size:16
Alignment explanation
Indices: 14031723--14031806 Score: 59
Period size: 16 Copynumber: 5.4 Consensus size: 16
14031713 TTTTATTAAT
14031723 TTATATTTAATAATAA
1 TTATATTTAATAATAA
*
14031739 TTATA-TTAAAATATAA
1 TTATATTTAATA-ATAA
* ** *
14031755 TTATA-TTATTTTTTA
1 TTATATTTAATAATAA
* *
14031770 TTAT-TTTTATTA-AA
1 TTATATTTAATAATAA
14031784 TTATATTTAATAATAA
1 TTATATTTAATAATAA
*
14031800 TTCTATT
1 TTATATT
14031807 AAAATTTAAT
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
14 5 0.10
15 21 0.41
16 25 0.49
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATATTTAATAATAA
Found at i:14031788 original size:61 final size:61
Alignment explanation
Indices: 14031696--14031816 Score: 197
Period size: 61 Copynumber: 2.0 Consensus size: 61
14031686 TTATTTTCTA
*
14031696 ATATTATATATTATTATTTTTATTAATTTATATTTAATAATAATTATATTAAAATATAATT
1 ATATTATATATTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATT
* * * *
14031757 ATATTATTTTTTATTATTTTTATTAAATTATATTTAATAATAATTCTATTAAAATTTAAT
1 ATATTATATATTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAAT
14031817 AACAATAATC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (61 bp):
ATATTATATATTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATT
Found at i:14038305 original size:644 final size:644
Alignment explanation
Indices: 14037232--14038522 Score: 2503
Period size: 644 Copynumber: 2.0 Consensus size: 644
14037222 TAAGCACATG
14037232 TTCCAAAATTCTTTAGTTCGGTAGAAGAAACCACTAAAATATTGATTGCAAAAGGCACACCATAT
1 TTCCAAAATTCTTTAGTTCGGTAGAAGAAACCACTAAAATATTGATTGCAAAAGGCACACCATAT
14037297 GAAGCTGTCAAAATTGAGGGTGGCATTGCTTTGACGAAACCAATGTTGCTTGATTCTTGGCATTT
66 GAAGCTGTCAAAATTGAGGGTGGCATTGCTTTGACGAAACCAATGTTGCTTGATTCTTGGCATTT
14037362 CAGCACAGGTTTTATGAAGAAAAAAGGGGCATTCTGAACAATAATAGAAAATATTTGAGATAGGT
131 CAGCACAGGTTTTATGAAGAAAAAAGGGGCATTCTGAACAATAATAGAAAATATTTGAGATAGGT
14037427 AGCATGCACCCATCACATTTTCTATCAATTTCCTCCTCCATCTTGTCTGCTAACACCAAGCAATG
196 AGCATGCACCCATCACATTTTCTATCAATTTCCTCCTCCATCTTGTCTGCTAACACCAAGCAATG
* *
14037492 TTGATGACTGAAATGTTGAATCTTTGTAGCTTCCCCAGCTTCATTCAACTCAATAACACGAATGA
261 TTGATGACTGAAATGTTCAATCTTTGAAGCTTCCCCAGCTTCATTCAACTCAATAACACGAATGA
14037557 TGGAAGACTGCATAGATTTTTCTTCAAGCTCCTCACATTGCTTTTCTTCATCAATTACCTTGTAC
326 TGGAAGACTGCATAGATTTTTCTTCAAGCTCCTCACATTGCTTTTCTTCATCAATTACCTTGTAC
* *
14037622 AAACTTTTATCCTCTAAGACACAATTCACATGGACAACGTAATTGCAACCTGGCTTCCTACAAGA
391 AAACTATGATCCTCTAAGACACAATTCACATGGACAACGTAATTGCAACCTGGCTTCCTACAAGA
14037687 GTAACTCCCACACTCTAGTCTCACTTCTTTGAAACAAATCTTACAATCTTGCCTTGTAAGATCTT
456 GTAACTCCCACACTCTAGTCTCACTTCTTTGAAACAAATCTTACAATCTTGCCTTGTAAGATCTT
14037752 TAAGAAAATATTTGTGAAAAATGCAGTGATCATGTCGAGAAAATTTGACGATGCGTGGGAGTGAA
521 TAAGAAAATATTTGTGAAAAATGCAGTGATCATGTCGAGAAAATTTGACGATGCGTGGGAGTGAA
14037817 GTGCAATCCTTATGGACTATGAGGCTGCATGTTGAACATATATATGAAATATAATTTCC
586 GTGCAATCCTTATGGACTATGAGGCTGCATGTTGAACATATATATGAAATATAATTTCC
14037876 TTCCAAAATTCTTTAGTTCGGTAGAAGAAACCACTAAAATATTGATTGCAAAAGGCACACCATAT
1 TTCCAAAATTCTTTAGTTCGGTAGAAGAAACCACTAAAATATTGATTGCAAAAGGCACACCATAT
14037941 GAAGCTGTCAAAATTGAGGGTGGCATTGCTTTGACGAAACCAATGTTGCTTGATTCTTGGCATTT
66 GAAGCTGTCAAAATTGAGGGTGGCATTGCTTTGACGAAACCAATGTTGCTTGATTCTTGGCATTT
14038006 CAGCACAGGTTTTATGAAGAAAAAAGGGGCATTCTGAACAATAATAGAAAATATTTGAGATAGGT
131 CAGCACAGGTTTTATGAAGAAAAAAGGGGCATTCTGAACAATAATAGAAAATATTTGAGATAGGT
14038071 AGCATGCACCCATCACATTTTCTATCAATTTCCTCCTCCATCTTGTCTGCTAACACCAAGCAATG
196 AGCATGCACCCATCACATTTTCTATCAATTTCCTCCTCCATCTTGTCTGCTAACACCAAGCAATG
*
14038136 TTGATGACTGAAATGTTCAATCTTTGAAGCTTCCCCAGCTTCATTCACCTCAATAACACGAATGA
261 TTGATGACTGAAATGTTCAATCTTTGAAGCTTCCCCAGCTTCATTCAACTCAATAACACGAATGA
* *
14038201 TGGAAGACTGCATAGATTTTTCTTCAAGCTCCTCACATTGCTTTTCTTCCTTAATTACCTTGTAC
326 TGGAAGACTGCATAGATTTTTCTTCAAGCTCCTCACATTGCTTTTCTTCATCAATTACCTTGTAC
14038266 -AACTCATGATCCTCTAAGACACAATTCACATGGACAACGTAATTGCAACCTGGCTTCCTACAAG
391 AAACT-ATGATCCTCTAAGACACAATTCACATGGACAACGTAATTGCAACCTGGCTTCCTACAAG
14038330 AGTAACTCCCACACTCTAGTCTCACTTCTTTGAAACAAATCTTACAATCTTGCCTTGTAAGATCT
455 AGTAACTCCCACACTCTAGTCTCACTTCTTTGAAACAAATCTTACAATCTTGCCTTGTAAGATCT
14038395 TTAAGAAAATATTTGTGAAAAATGCAGTGATCATGTCGAGAAAATTTGACGATGCGTGGGAGTGA
520 TTAAGAAAATATTTGTGAAAAATGCAGTGATCATGTCGAGAAAATTTGACGATGCGTGGGAGTGA
14038460 AGTGCAATCCTTATGGACTATGAGGCTGCATGTTGAACATATATATGAAATATAATTTCC
585 AGTGCAATCCTTATGGACTATGAGGCTGCATGTTGAACATATATATGAAATATAATTTCC
14038520 TTC
1 TTC
14038523 AGTGCCACAT
Statistics
Matches: 639, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
643 4 0.01
644 635 0.99
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (644 bp):
TTCCAAAATTCTTTAGTTCGGTAGAAGAAACCACTAAAATATTGATTGCAAAAGGCACACCATAT
GAAGCTGTCAAAATTGAGGGTGGCATTGCTTTGACGAAACCAATGTTGCTTGATTCTTGGCATTT
CAGCACAGGTTTTATGAAGAAAAAAGGGGCATTCTGAACAATAATAGAAAATATTTGAGATAGGT
AGCATGCACCCATCACATTTTCTATCAATTTCCTCCTCCATCTTGTCTGCTAACACCAAGCAATG
TTGATGACTGAAATGTTCAATCTTTGAAGCTTCCCCAGCTTCATTCAACTCAATAACACGAATGA
TGGAAGACTGCATAGATTTTTCTTCAAGCTCCTCACATTGCTTTTCTTCATCAATTACCTTGTAC
AAACTATGATCCTCTAAGACACAATTCACATGGACAACGTAATTGCAACCTGGCTTCCTACAAGA
GTAACTCCCACACTCTAGTCTCACTTCTTTGAAACAAATCTTACAATCTTGCCTTGTAAGATCTT
TAAGAAAATATTTGTGAAAAATGCAGTGATCATGTCGAGAAAATTTGACGATGCGTGGGAGTGAA
GTGCAATCCTTATGGACTATGAGGCTGCATGTTGAACATATATATGAAATATAATTTCC
Found at i:14040306 original size:26 final size:26
Alignment explanation
Indices: 14040267--14040316 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
14040257 ACTTTTATAT
*
14040267 TTTTTTATAAATTTATAATATTTTAA
1 TTTTGTATAAATTTATAATATTTTAA
* * *
14040293 TTTTGTATATATTTGTATTATTTT
1 TTTTGTATAAATTTATAATATTTT
14040317 TAATATAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTTGTATAAATTTATAATATTTTAA
Found at i:14042463 original size:103 final size:104
Alignment explanation
Indices: 14042294--14042508 Score: 398
Period size: 103 Copynumber: 2.1 Consensus size: 104
14042284 TTTATTTTTA
14042294 AAAAAATTTACGAATTAATTTCCATATGATGATTAATTAAATTAGAGTTAATTGTAGGAAGTAAG
1 AAAAAATTTACGAATTAATTTCCATATGATGATTAATTAAATTAGAGTTAATTGTAGGAAGTAAG
14042359 GTATATGGGAAAGTCGCATATTTGAGACTTTTAAAAAGG
66 GTATATGGGAAAGTCGCATATTTGAGACTTTTAAAAAGG
14042398 AAAAAATTTA-GAATTAA-TTCCATATGATGGATTAATTAAATTAGAGTTAATTGTAGGAAGTAA
1 AAAAAATTTACGAATTAATTTCCATATGAT-GATTAATTAAATTAGAGTTAATTGTAGGAAGTAA
*
14042461 GGTATATGGGAAAGTCGCATATTTGAGGCTTTTAAAAAGG
65 GGTATATGGGAAAGTCGCATATTTGAGACTTTTAAAAAGG
14042501 AAAAAATT
1 AAAAAATT
14042509 AAAGTATTGT
Statistics
Matches: 109, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
102 11 0.10
103 88 0.81
104 10 0.09
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (104 bp):
AAAAAATTTACGAATTAATTTCCATATGATGATTAATTAAATTAGAGTTAATTGTAGGAAGTAAG
GTATATGGGAAAGTCGCATATTTGAGACTTTTAAAAAGG
Found at i:14045844 original size:189 final size:188
Alignment explanation
Indices: 14045580--14046136 Score: 740
Period size: 189 Copynumber: 2.9 Consensus size: 188
14045570 CTATCACTGC
* * * *
14045580 CTCTCCTCTGGCTCCCAGTCAACTCGATCTTCCCTTTCTGAACTTCACCTCTCTTCTTTTTCCTC
1 CTCTCCTCTGGCTCCCAGTCAACTCAATCTTTCCTTTTTGAACTTCACCTCTCTTCTTTTGCCTC
* * * * * *
14045645 TCAACATCAGAATCAGAGTCATCCTCACCGGAGTCATTCCTACGACGGCCTTTCTTAACCATTTC
66 CCACCATCAGAATCAGAGTCATCCTCACTGGAGTCATCCCTATGACGACCTTTCTTAACCATTTC
*
14045710 CTTCATACGACCTCTCGCTCTGTCAGTATCAGAATCAGATTCACTACCCATGTCCCTCT
131 CTTC-TACGACCTCTCGCTCTGTCAGCATCAGAATCAGATTCACTACCCATGTCCCTCT
*
14045769 CTCTCATCTGGCTCCCAGTCAACTCAATCTTTCCTTTTTGAACTTCACCTCTCTTCTTTTGCCTC
1 CTCTCCTCTGGCTCCCAGTCAACTCAATCTTTCCTTTTTGAACTTCACCTCTCTTCTTTTGCCTC
* ** * ** *
14045834 CCACCATCAGAATCAAAGTTGTCCTCGCTGGAGTTGTGCCTATGACGACCTTTCTTAACCATTTC
66 CCACCATCAGAATCAGAGTCATCCTCACTGGAGTCATCCCTATGACGACCTTTCTTAACCATTTC
* * * *
14045899 TTTTCTATGACCTCTTGCTCTGTCAGCATCAGAATCAGATTCACTACCCATGTCCCTTT
131 -CTTCTACGACCTCTCGCTCTGTCAGCATCAGAATCAGATTCACTACCCATGTCCCTCT
* ** *
14045958 CTCTCCTCTGGCTCCTAGTTGACTCAATC-TTCCGTTTTTGAACTTCACCTCACTTCTTTTGCCT
1 CTCTCCTCTGGCTCCCAGTCAACTCAATCTTTCC-TTTTTGAACTTCACCTCTCTTCTTTTGCCT
* * * * *
14046022 CCCACCATCACAATCAGAGTCAGCCTCACTGGAGTCATGCCCT-TGACGACCTTCCTTAATCAAT
65 CCCACCATCAGAATCAGAGTCATCCTCACTGGAGTCAT-CCCTATGACGACCTTTCTTAACCATT
* * *
14046086 TCCTTTTTACGCCCTCTCGCTCTGTCAGCATTAGAATCAGATTCACTACCC
129 TCC-TTCTACGACCTCTCGCTCTGTCAGCATCAGAATCAGATTCACTACCC
14046137 TCAAACTTTT
Statistics
Matches: 319, Mismatches: 45, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
188 4 0.01
189 309 0.97
190 6 0.02
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.34
Consensus pattern (188 bp):
CTCTCCTCTGGCTCCCAGTCAACTCAATCTTTCCTTTTTGAACTTCACCTCTCTTCTTTTGCCTC
CCACCATCAGAATCAGAGTCATCCTCACTGGAGTCATCCCTATGACGACCTTTCTTAACCATTTC
CTTCTACGACCTCTCGCTCTGTCAGCATCAGAATCAGATTCACTACCCATGTCCCTCT
Found at i:14047754 original size:3 final size:3
Alignment explanation
Indices: 14047746--14047790 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
14047736 TAACCGAATA
14047746 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14047791 GTCAACTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14055038 original size:14 final size:14
Alignment explanation
Indices: 14055019--14055045 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14055009 CGGAGCGGAT
14055019 CGAATTTGGGTTAG
1 CGAATTTGGGTTAG
14055033 CGAATTTGGGTTA
1 CGAATTTGGGTTA
14055046 CACTTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.33, T:0.37
Consensus pattern (14 bp):
CGAATTTGGGTTAG
Found at i:14065634 original size:34 final size:36
Alignment explanation
Indices: 14065576--14065642 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 36
14065566 CAAACACCAG
*
14065576 AAAATATTTTCCAATAAGTCATTTTACAGAAAAGTA
1 AAAACATTTTCCAATAAGTCATTTTACAGAAAAGTA
* *
14065612 AAAACATTTTCCGA-AA-TCATTTTACGGAAAA
1 AAAACATTTTCCAATAAGTCATTTTACAGAAAA
14065643 TATTTTACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 14 0.50
35 2 0.07
36 12 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (36 bp):
AAAACATTTTCCAATAAGTCATTTTACAGAAAAGTA
Found at i:14065647 original size:14 final size:16
Alignment explanation
Indices: 14065625--14065656 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14065615 ACATTTTCCG
14065625 AAATCATTTTAC-GGA
1 AAATCATTTTACTGGA
14065640 AAAT-ATTTTACTGGA
1 AAATCATTTTACTGGA
14065655 AA
1 AA
14065657 TCAAACAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (16 bp):
AAATCATTTTACTGGA
Found at i:14069807 original size:18 final size:19
Alignment explanation
Indices: 14069748--14069810 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 19
14069738 ATAAAATAGT
* *
14069748 AACAATATAATAACAAAAC
1 AACAAAATAATGACAAAAC
14069767 GACACCAAAATAATGACAAAAC
1 -A-A-CAAAATAATGACAAAAC
*
14069789 AACAAAATAGTGA-AAAAC
1 AACAAAATAATGACAAAAC
14069807 AACA
1 AACA
14069811 GTAAAAAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 9 0.24
19 10 0.26
20 2 0.05
21 2 0.05
22 15 0.39
ACGTcount: A:0.65, C:0.17, G:0.06, T:0.11
Consensus pattern (19 bp):
AACAAAATAATGACAAAAC
Found at i:14070225 original size:6 final size:6
Alignment explanation
Indices: 14070214--14070238 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14070204 TTTTTTTTAT
14070214 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
14070239 AAAATCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:14083986 original size:21 final size:20
Alignment explanation
Indices: 14083929--14083991 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 20
14083919 CTGATCAGTG
14083929 TACGACACATAAGTGCCTGA
1 TACGACACATAAGTGCCTGA
* * *
14083949 AACGACACACGAGGTGCCTGA
1 TACGACACA-TAAGTGCCTGA
14083970 TACGACACATAAAGTGCCTGA
1 TACGACACAT-AAGTGCCTGA
14083991 T
1 T
14083992 CGGCAAAGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.17
Consensus pattern (20 bp):
TACGACACATAAGTGCCTGA
Found at i:14089952 original size:93 final size:93
Alignment explanation
Indices: 14089855--14090142 Score: 200
Period size: 87 Copynumber: 3.1 Consensus size: 93
14089845 TGACAGAGCA
14089855 AGAGGTCATAGGAAGGAAATGGTTAAGAAAGGTCGTCATAGGCACAACTCCAGTGAGGACAAATT
1 AGAGGTCATAGGAAGGAAATGGTTAAGAAAGGTCGTCATAGGCACAACTCCAGTGAGGACAAATT
14089920 TGATTCTGATGGTGGGAGGCAAAAGAAG
66 TGATTCTGATGGTGGGAGGCAAAAGAAG
* ** * * ** * * * * ****
14089948 AGAGGTGAAGTTCAAAAACAGAAGATTGAGTCAA-CTAGG-AGCCAGAGGAGAGCGAGGGACA-T
1 AGAGGT-CA--T-AGGAA-GGAA-A-TG-GTTAAGAAAGGTCGTCATAGG-CA-C-AACTCCAGT
** * * * *
14090010 G-GGTAGTGAATCTGATTCTGATGCT--GA--C-AGAGCA-
55 GAGG-A-CAAATTTGATTCTGATGGTGGGAGGCAAAAGAAG
14090044 AGAGGTCATAGGAAGGAAATGGTTAAGAAAGGTCGTCATAGGCACAACTCCAGTGAGGACAAATT
1 AGAGGTCATAGGAAGGAAATGGTTAAGAAAGGTCGTCATAGGCACAACTCCAGTGAGGACAAATT
14090109 TGATTCTGATGGTGGGAGGCAAAAGAAG
66 TGATTCTGATGGTGGGAGGCAAAAGAAG
14090137 AGAGGT
1 AGAGGT
14090143 GAAGCTAAAA
Statistics
Matches: 130, Mismatches: 42, Indels: 46
0.60 0.19 0.21
Matches are distributed among these distances:
87 18 0.14
88 8 0.06
89 10 0.08
90 7 0.05
91 4 0.03
92 7 0.05
93 13 0.10
94 1 0.01
95 1 0.01
96 7 0.05
97 7 0.05
98 4 0.03
99 7 0.05
100 10 0.08
101 8 0.06
102 18 0.14
ACGTcount: A:0.36, C:0.12, G:0.33, T:0.19
Consensus pattern (93 bp):
AGAGGTCATAGGAAGGAAATGGTTAAGAAAGGTCGTCATAGGCACAACTCCAGTGAGGACAAATT
TGATTCTGATGGTGGGAGGCAAAAGAAG
Found at i:14090141 original size:189 final size:188
Alignment explanation
Indices: 14089821--14090377 Score: 835
Period size: 189 Copynumber: 2.9 Consensus size: 188
14089811 AAAAGTTTGA
14089821 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCATAGGAAGGAAATGGTTAAGAAAG
1 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCATAGGAAGGAAATGGTTAAGAAAG
14089886 GTCGTCATAGGCACAACTCCAGTGAGGACAAATTTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
66 GTCGTCATAGGCACAACTCCAGTGAGGACAAATTTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
** * *
14089951 GGTGAAGTTCAAAAACAGAAGATTGAGTCAACTAGGAGCCAGAGGAGAGCGAGGGACAT
131 GGTGAAGTTCAAAAAC-GAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT
14090010 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCATAGGAAGGAAATGGTTAAGAAAG
1 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCATAGGAAGGAAATGGTTAAGAAAG
14090075 GTCGTCATAGGCACAACTCCAGTGAGGACAAATTTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
66 GTCGTCATAGGCACAACTCCAGTGAGGACAAATTTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
* * *
14090140 GGTGAAGCTAAAAAACGAAAGATTGAGTTGACTGGGAGCCACAGGAGAGAGAGGGACAT
131 GGTGAAGTTCAAAAACG-AAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT
* * * * *
14090199 GGGTAGTGAATCTGATTCTGATACTGACAGAGCGAGAGGTCGTAAGAAGGAAATGGTTAAGAATG
1 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCATAGGAAGGAAATGGTTAAGAAAG
* * * ** * ** * * * * *
14090264 GTTGTCGTAGGAATGACTCCGGTGAGGATGACTCTGATTCTGATGTTGAGAGGAAAAAGAAGAGA
66 GTCGTCATAGGCACAACTCCAGTGAGGACAAATTTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
** *
14090329 GGTGAAGTTCAGAAAGGGAAGATCGAGTTGACTGGGAGCCAGAGGAGAG
131 GGTGAAGTTCA-AAAACGAAGATTGAGTTGACTGGGAGCCAGAGGAGAG
14090378 GCAGTGATAG
Statistics
Matches: 335, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
188 1 0.00
189 330 0.99
190 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.34, T:0.19
Consensus pattern (188 bp):
GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCATAGGAAGGAAATGGTTAAGAAAG
GTCGTCATAGGCACAACTCCAGTGAGGACAAATTTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
GGTGAAGTTCAAAAACGAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT
Found at i:14091107 original size:39 final size:39
Alignment explanation
Indices: 14091048--14091244 Score: 207
Period size: 39 Copynumber: 5.0 Consensus size: 39
14091038 CCAAAGCTTA
* *
14091048 TGGGGAGAATGATGATCGGAATAGGGGTGAATATTCTAGG
1 TGGGGGGAA-GATGATCGGAATAGGGATGAATATTCTAGG
* *
14091088 TGGGGGGAAGATGACCGGAATAAGGATGAATATTCTAGG
1 TGGGGGGAAGATGATCGGAATAGGGATGAATATTCTAGG
* * * * *
14091127 T-GGGGGATGGGTGACCGGAATAGGGATGAATACTCTAGA
1 TGGGGGGA-AGATGATCGGAATAGGGATGAATATTCTAGG
** * *
14091166 TGGGGAAAAGATGATCAGAAGAGGGATGAATATTCTAGG
1 TGGGGGGAAGATGATCGGAATAGGGATGAATATTCTAGG
* * * * *
14091205 TGGGAGAAAGATGATCTGAAAAGGGATGATTATTCTAGG
1 TGGGGGGAAGATGATCGGAATAGGGATGAATATTCTAGG
14091244 T
1 T
14091245 CAGTTAGGTC
Statistics
Matches: 132, Mismatches: 23, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
38 6 0.05
39 114 0.86
40 12 0.09
ACGTcount: A:0.33, C:0.07, G:0.38, T:0.23
Consensus pattern (39 bp):
TGGGGGGAAGATGATCGGAATAGGGATGAATATTCTAGG
Found at i:14093392 original size:23 final size:22
Alignment explanation
Indices: 14093369--14093420 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 22
14093359 TTAATAATTA
14093369 AACATTTTAACAGCTAACACTT
1 AACATTTTAACAGCTAACACTT
*
14093391 AACACTTTTAACATCTAACACTT
1 AACA-TTTTAACAGCTAACACTT
14093414 AACATTT
1 AACATTT
14093421 GTTGTTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (22 bp):
AACATTTTAACAGCTAACACTT
Found at i:14094747 original size:18 final size:17
Alignment explanation
Indices: 14094725--14094819 Score: 68
Period size: 17 Copynumber: 5.4 Consensus size: 17
14094715 TATTTTATAT
*
14094725 TAAAAGTAATAAAAATA
1 TAAAAATAATAAAAATA
*
14094742 TAAAAACAATAAAATATA
1 TAAAAATAATAAAA-ATA
*
14094760 TACAAAT--TAAAAATA
1 TAAAAATAATAAAAATA
* *
14094775 TTATAAATTTATAAAAATA
1 -TA-AAAATAATAAAAATA
*
14094794 TATAAAAGTACAAAAAAATA
1 TA-AAAA-TA-ATAAAAATA
14094814 TAAAAA
1 TAAAAA
14094820 CATATTATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
15 3 0.05
16 7 0.11
17 15 0.24
18 14 0.23
19 13 0.21
20 10 0.16
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.26
Consensus pattern (17 bp):
TAAAAATAATAAAAATA
Found at i:14094847 original size:9 final size:9
Alignment explanation
Indices: 14094736--14094857 Score: 60
Period size: 9 Copynumber: 13.4 Consensus size: 9
14094726 AAAAGTAATA
14094736 AAAATATA-
1 AAAATATAT
*
14094744 AAAACA-AT
1 AAAATATAT
14094752 AAAATATAT
1 AAAATATAT
14094761 ACAAAT-TA-
1 A-AAATATAT
14094769 AAAATAT-T
1 AAAATATAT
*
14094777 ATAAATTTAT
1 A-AAATATAT
14094787 AAAAATATAT
1 -AAAATATAT
*
14094797 AAAAGTACA-
1 AAAA-TATAT
*
14094806 AAAAAATAT
1 AAAATATAT
*
14094815 AAAAACATATT
1 -AAAATATA-T
*
14094826 ATAAATGAAAT
1 A-AAAT-ATAT
14094837 AAAATATAT
1 AAAATATAT
*
14094846 AAATTAT-T
1 AAAATATAT
14094854 AAAA
1 AAAA
14094858 ATTGTCAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
7 5 0.06
8 19 0.22
9 27 0.31
10 27 0.31
11 7 0.08
12 2 0.02
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAATATAT
Found at i:14095862 original size:19 final size:19
Alignment explanation
Indices: 14095838--14095928 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 19
14095828 TTTATATTAA
14095838 AAATAATAAAAA-ATAATAC
1 AAATAATAAAAATAT-ATAC
*
14095857 AAATAATACAAATATATAC
1 AAATAATAAAAATATATAC
*
14095876 AAAT--TTAAAATATTATA-
1 AAATAATAAAAATA-TATAC
* *
14095893 AATTTATAAAAATATATA-
1 AAATAATAAAAATATATAC
*
14095911 AAAGTACAAAAAAATATA
1 AAA-TA-ATAAAAATATA
14095929 AAAACATATT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
17 9 0.16
18 10 0.17
19 27 0.47
20 12 0.21
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (19 bp):
AAATAATAAAAATATATAC
Found at i:14095877 original size:10 final size:10
Alignment explanation
Indices: 14095848--14095910 Score: 57
Period size: 9 Copynumber: 6.9 Consensus size: 10
14095838 AAATAATAAA
14095848 AAATA-ATAC
1 AAATATATAC
14095857 AAATA-ATAC
1 AAATATATAC
14095866 AAATATATAC
1 AAATATATAC
14095876 AAAT-T-TA-
1 AAATATATAC
*
14095883 AAATAT-TAT
1 AAATATATAC
* *
14095892 AAATTTATAA
1 AAATATATAC
14095902 AAATATATA
1 AAATATATA
14095911 AAAGTACAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
7 4 0.09
8 5 0.11
9 20 0.43
10 18 0.38
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATATATAC
Found at i:14095911 original size:10 final size:10
Alignment explanation
Indices: 14095830--14095961 Score: 68
Period size: 10 Copynumber: 13.8 Consensus size: 10
14095820 TATGATATTT
14095830 TATATTAAAAA
1 TATA-TAAAAA
14095841 TA-ATAAAAA
1 TATATAAAAA
*
14095850 -ATAATACAAA
1 TAT-ATAAAAA
*
14095860 TA-ATACAAA
1 TATATAAAAA
*
14095869 TATATACAAA
1 TATATAAAAA
14095879 T-T-T-AAAA
1 TATATAAAAA
*
14095886 TAT-TATAAA
1 TATATAAAAA
*
14095895 TTTATAAAAA
1 TATATAAAAA
*
14095905 TATATAAAAG
1 TATATAAAAA
*
14095915 TACA-AAAAA
1 TATATAAAAA
14095924 -ATATAAAAA
1 TATATAAAAA
* *
14095933 CATATTATAAA
1 TATA-TAAAAA
*
14095944 TGAAAT-AAAA
1 T-ATATAAAAA
14095954 TATATAAA
1 TATATAAA
14095962 TTATTAAAAA
Statistics
Matches: 94, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
7 4 0.04
8 6 0.06
9 33 0.35
10 40 0.43
11 9 0.10
12 2 0.02
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (10 bp):
TATATAAAAA
Found at i:14105649 original size:39 final size:39
Alignment explanation
Indices: 14105565--14105733 Score: 153
Period size: 39 Copynumber: 4.3 Consensus size: 39
14105555 TGGGCCTAGT
* * * * *
14105565 AGGCTTTATGCCGATGTATTGTATCGGGCCTTGAGCCTAAT
1 AGGCTTCATGCCGATG-ACT-TATCAGGCTTTGAGCCTAAC
* * *
14105606 AGGCTTCGTGCCGGTGACTTATCAGGCTTTGAGCCTAGC
1 AGGCTTCATGCCGATGACTTATCAGGCTTTGAGCCTAAC
* *
14105645 AGGCTTCATGCCGATGACTTATCAGGCTTTGAGCGTAAT
1 AGGCTTCATGCCGATGACTTATCAGGCTTTGAGCCTAAC
* * * *
14105684 AGGCTTTATGCCGATG-TTTATCGGGC-TTGATGCCTAGC
1 AGGCTTCATGCCGATGACTTATCAGGCTTTGA-GCCTAAC
* *
14105722 AAGCTTCGTGCC
1 AGGCTTCATGCC
14105734 TGTGTAATGA
Statistics
Matches: 105, Mismatches: 22, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
37 4 0.04
38 21 0.20
39 65 0.62
40 2 0.02
41 13 0.12
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.31
Consensus pattern (39 bp):
AGGCTTCATGCCGATGACTTATCAGGCTTTGAGCCTAAC
Found at i:14105728 original size:77 final size:80
Alignment explanation
Indices: 14105558--14105733 Score: 198
Period size: 78 Copynumber: 2.2 Consensus size: 80
14105548 CGAGTCTTGG
* * * * * *
14105558 GCCTAGTAGGCTTTATGCCGATGTATTGTATCGGGCCTTGAGCCTAATAGGCTTCGTGCCGGTGA
1 GCCTAGCAGGCTTCATGCCGATGTACTGTATCAGGCCTTGAGCCTAATAGGCTTCATGCCGATGA
14105623 CTTATCAGGCTTTGA
66 CTTATCAGGCTTTGA
* * *
14105638 GCCTAGCAGGCTTCATGCCGATG-ACT-TATCAGGCTTTGAGCGTAATAGGCTTTATGCCGATG-
1 GCCTAGCAGGCTTCATGCCGATGTACTGTATCAGGCCTTGAGCCTAATAGGCTTCATGCCGATGA
* *
14105700 TTTATCGGGC-TTGA
66 CTTATCAGGCTTTGA
* *
14105714 TGCCTAGCAAGCTTCGTGCC
1 -GCCTAGCAGGCTTCATGCC
14105734 TGTGTAATGA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
76 4 0.05
77 25 0.30
78 30 0.37
79 2 0.02
80 21 0.26
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.31
Consensus pattern (80 bp):
GCCTAGCAGGCTTCATGCCGATGTACTGTATCAGGCCTTGAGCCTAATAGGCTTCATGCCGATGA
CTTATCAGGCTTTGA
Found at i:14128917 original size:6 final size:6
Alignment explanation
Indices: 14128896--14128935 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
14128886 AGTCCCTTCG
*
14128896 ATTTTT -TTTATT ATTTTT ATTTTT ATTTTT ATTTTA ATTT
1 ATTTTT ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
14128936 CACCACAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 3 0.10
6 25 0.81
7 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:14129367 original size:33 final size:32
Alignment explanation
Indices: 14129302--14129375 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
14129292 TTAAACCATC
* *
14129302 ATATATA-TTATTTATTTTGAATTGTTTTTAT
1 ATATATATTTATTTATTTTAAACTGTTTTTAT
14129333 ATATATCATTTATTT-TTTTAAACTGTTTTGTAT
1 ATATAT-ATTTATTTATTTTAAACTGTTTT-TAT
14129366 AT-TATTATTT
1 ATATA-TATTT
14129376 TAAACTTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
31 6 0.16
32 19 0.51
33 12 0.32
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (32 bp):
ATATATATTTATTTATTTTAAACTGTTTTTAT
Found at i:14129376 original size:25 final size:26
Alignment explanation
Indices: 14129342--14129548 Score: 144
Period size: 26 Copynumber: 8.2 Consensus size: 26
14129332 TATATATCAT
* *
14129342 TTATTT-TTTTAAACTGTTTTGTATA
1 TTATTTATTTTAAATTGTTTTATATA
* *
14129367 TTA-TTATTTTAAACTTCTTTTTACATA
1 TTATTTATTTTAAA-TT-GTTTTATATA
* * *
14129394 TTACTTATATTAAA--CTTTT-TATA
1 TTATTTATTTTAAATTGTTTTATATA
* * *
14129417 -TA-TTATTTTAAATTGTCTTATTTG
1 TTATTTATTTTAAATTGTTTTATATA
* * *
14129441 CTATTTATTTTAAATTGCTTTGTATA
1 TTATTTATTTTAAATTGTTTTATATA
* *
14129467 TTATTTATTTTAATTTGTTTTACATA
1 TTATTTATTTTAAATTGTTTTATATA
*
14129493 TTATTTACTTTAAATTG-TTT-TATA
1 TTATTTATTTTAAATTGTTTTATATA
* * * * *
14129517 CTATTTACTTCAAATTGTTCTACATA
1 TTATTTATTTTAAATTGTTTTATATA
14129543 TTATTT
1 TTATTT
14129549 TGTTTCGTTT
Statistics
Matches: 141, Mismatches: 30, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
21 9 0.06
22 2 0.01
23 6 0.04
24 26 0.18
25 17 0.12
26 62 0.44
27 10 0.07
28 9 0.06
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTTTATATA
Found at i:14129423 original size:28 final size:27
Alignment explanation
Indices: 14129364--14129423 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
14129354 ACTGTTTTGT
* *
14129364 ATATTATTATTTTAAACTTCTTTTTAC
1 ATATTATTATATTAAACTTCTTTATAC
14129391 ATATTACTTATATTAAACTT-TTTAT--
1 ATATTA-TTATATTAAACTTCTTTATAC
14129416 ATATTATT
1 ATATTATT
14129424 TTAAATTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 2 0.07
25 6 0.20
27 10 0.33
28 12 0.40
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATTATTATATTAAACTTCTTTATAC
Found at i:14129541 original size:50 final size:52
Alignment explanation
Indices: 14129442--14129548 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 52
14129432 TCTTATTTGC
* * * * * *
14129442 TATTTATTTTAAATTGCTTTGTATATTATTTATTTTAATTTGTTTTACATAT
1 TATTTACTTTAAATTGCTTTGTATACTATTTACTTCAAATTGTTCTACATAT
14129494 TATTTACTTTAAATTG-TTT-TATACTATTTACTTCAAATTGTTCTACATAT
1 TATTTACTTTAAATTGCTTTGTATACTATTTACTTCAAATTGTTCTACATAT
14129544 TATTT
1 TATTT
14129549 TGTTTCGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
50 31 0.63
51 3 0.06
52 15 0.31
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (52 bp):
TATTTACTTTAAATTGCTTTGTATACTATTTACTTCAAATTGTTCTACATAT
Found at i:14130719 original size:21 final size:22
Alignment explanation
Indices: 14130633--14130752 Score: 72
Period size: 21 Copynumber: 5.7 Consensus size: 22
14130623 TAGCTCTCAC
* *
14130633 GAGCTTCT-GTTTAACTCATAT
1 GAGCTTCTCGTTCAACTCTTAT
* * * *
14130654 GAG-TTTTCGTTCAGCCCTAAT
1 GAGCTTCTCGTTCAACTCTTAT
* * * * *
14130675 GGGTTTC-CATTCAGCTCTTTT
1 GAGCTTCTCGTTCAACTCTTAT
*
14130696 GAGCTTCT-GTTTAACTCTTAT
1 GAGCTTCTCGTTCAACTCTTAT
* *
14130717 GAG-TTTTCGTTCAGCTCTTAT
1 GAGCTTCTCGTTCAACTCTTAT
14130738 GAGCTTC-CGTTCAAC
1 GAGCTTCTCGTTCAAC
14130753 CCATAAGGGT
Statistics
Matches: 71, Mismatches: 23, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
20 6 0.08
21 61 0.86
22 4 0.06
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (22 bp):
GAGCTTCTCGTTCAACTCTTAT
Found at i:14130767 original size:63 final size:63
Alignment explanation
Indices: 14130633--14130771 Score: 161
Period size: 63 Copynumber: 2.2 Consensus size: 63
14130623 TAGCTCTCAC
* * * * * **
14130633 GAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCCCTAATGGGTTTCCATTCAGCTCTTTT
1 GAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCCCTAATGAGCTTCCATTCAACCCATAA
* * * *
14130696 GAGCTTCTGTTTAACTCTTATGAGTTTTCGTTCAGCTCTTATGAGCTTCCGTTCAACCCATAA
1 GAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCCCTAATGAGCTTCCATTCAACCCATAA
* *
14130759 GGGTTTCTGTTTA
1 GAGCTTCTGTTTA
14130772 GCACTTACGT
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (63 bp):
GAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCCCTAATGAGCTTCCATTCAACCCATAA
Found at i:14132726 original size:14 final size:13
Alignment explanation
Indices: 14132703--14132753 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
14132693 TTATTTTTCC
14132703 GCTTGCACTTATTT
1 GCTTGCACTT-TTT
* *
14132717 GCTTGTACTTTTG
1 GCTTGCACTTTTT
14132730 GCTTGCACTTTTT
1 GCTTGCACTTTTT
*
14132743 GGCTTACACTT
1 -GCTTGCACTT
14132754 GTTGGCTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 13 0.42
14 18 0.58
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.49
Consensus pattern (13 bp):
GCTTGCACTTTTT
Found at i:14132735 original size:27 final size:28
Alignment explanation
Indices: 14132703--14132761 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
14132693 TTATTTTTCC
**
14132703 GCTTGCACTTATTT-GCTTGTACTT-TTG
1 GCTTGCACTT-TTTGGCTTACACTTGTTG
14132730 GCTTGCACTTTTTGGCTTACACTTGTTG
1 GCTTGCACTTTTTGGCTTACACTTGTTG
14132758 GCTT
1 GCTT
14132762 TCTCTTTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.11
27 18 0.64
28 7 0.25
ACGTcount: A:0.10, C:0.20, G:0.20, T:0.49
Consensus pattern (28 bp):
GCTTGCACTTTTTGGCTTACACTTGTTG
Found at i:14132758 original size:14 final size:13
Alignment explanation
Indices: 14132723--14132761 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
14132713 ATTTGCTTGT
*
14132723 ACTTTTGGCTTGC
1 ACTTTTGGCTTAC
14132736 ACTTTTTGGCTTAC
1 AC-TTTTGGCTTAC
14132750 ACTTGTTGGCTT
1 ACTT-TTGGCTT
14132762 TCTCTTTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.49
Consensus pattern (13 bp):
ACTTTTGGCTTAC
Found at i:14136126 original size:25 final size:25
Alignment explanation
Indices: 14136092--14136247 Score: 129
Period size: 25 Copynumber: 6.3 Consensus size: 25
14136082 GCTCAATCGA
* *
14136092 AACGGGAAGCTCTTCCGAGCCATAT
1 AACGGGAAGCTCATACGAGCCATAT
** *
14136117 AACGGGAAGCTCATGTGAGCCATGT
1 AACGGGAAGCTCATACGAGCCATAT
* *
14136142 AACGGGAAGCTCATAAGAGCCCTAT
1 AACGGGAAGCTCATACGAGCCATAT
* * *
14136167 -ACGGGAAGCTCATGCAAGCTA-AT
1 AACGGGAAGCTCATACGAGCCATAT
* ** *
14136190 ATCGGGAAGCTCCGAAGAGCCAT-T
1 AACGGGAAGCTCATACGAGCCATAT
* *
14136214 AATCAGGAAGCTCGTACGAGCCATAT
1 AA-CGGGAAGCTCATACGAGCCATAT
*
14136240 ATCGGGAA
1 AACGGGAA
14136248 ACTTCGGAGA
Statistics
Matches: 100, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
23 2 0.02
24 32 0.32
25 64 0.64
26 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (25 bp):
AACGGGAAGCTCATACGAGCCATAT
Found at i:14136208 original size:48 final size:50
Alignment explanation
Indices: 14136108--14136265 Score: 135
Period size: 49 Copynumber: 3.2 Consensus size: 50
14136098 AAGCTCTTCC
** * *
14136108 GAGCCATATAACGGGAAGCTCATGTGAGCCATGTAACGGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATGCAAGCCATATAACGGGAAGCTCAGAA
* * * *
14136158 GAGCCCTAT-ACGGGAAGCTCATGCAAGCTA-ATATCGGGAAGCTCCGAA
1 GAGCCATATAACGGGAAGCTCATGCAAGCCATATAACGGGAAGCTCAGAA
* * * * * * *
14136206 GAGCCAT-TAATCAGGAAGCTCGTACGAGCCATATATCGGGAAACTTC-GGA
1 GAGCCATATAA-CGGGAAGCTCATGCAAGCCATATAACGGGAAGC-TCAGAA
14136256 GAGCCATATA
1 GAGCCATATA
14136266 TTGGGACGCT
Statistics
Matches: 87, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
47 1 0.01
48 21 0.24
49 33 0.38
50 28 0.32
51 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (50 bp):
GAGCCATATAACGGGAAGCTCATGCAAGCCATATAACGGGAAGCTCAGAA
Found at i:14136259 original size:25 final size:25
Alignment explanation
Indices: 14136188--14136271 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
14136178 ATGCAAGCTA
*
14136188 ATATCGGGAAGCTCCGAAGAGCCAT
1 ATATCGGGAAGCTTCGAAGAGCCAT
* *
14136213 -TAATCAGGAAGC-TCGTACGAGCCAT
1 AT-ATCGGGAAGCTTCG-AAGAGCCAT
* *
14136238 ATATCGGGAAACTTCGGAGAGCCAT
1 ATATCGGGAAGCTTCGAAGAGCCAT
*
14136263 ATATTGGGA
1 ATATCGGGA
14136272 CGCTCATAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
24 3 0.06
25 40 0.85
26 4 0.09
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
ATATCGGGAAGCTTCGAAGAGCCAT
Found at i:14142880 original size:25 final size:25
Alignment explanation
Indices: 14142852--14142899 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
14142842 GAATGCTCAA
14142852 TCGAGCACAT-AAACGGAAAGCTCTT
1 TCGAGC-CATGAAACGGAAAGCTCTT
*
14142877 TCGAGCCATGTAACGGAAAGCTC
1 TCGAGCCATGAAACGGAAAGCTC
14142900 ATAAGATCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (25 bp):
TCGAGCCATGAAACGGAAAGCTCTT
Found at i:14143135 original size:24 final size:23
Alignment explanation
Indices: 14143085--14143140 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
14143075 AGCTCCGGAT
*
14143085 AGCCAAATATCAGGAAGCTCAATG
1 AGCC-AATATCAGGAAGCTCAAAG
*
14143109 AGCCAATATCAGGATGCTCATAAG
1 AGCCAATATCAGGAAGCTCA-AAG
*
14143133 AGCTAATA
1 AGCCAATA
14143141 ATGGGACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (23 bp):
AGCCAATATCAGGAAGCTCAAAG
Found at i:14143402 original size:21 final size:21
Alignment explanation
Indices: 14143378--14143417 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14143368 AATTTAAGAC
* *
14143378 CAATTTAATACAATTCATACT
1 CAATTCAATACAATACATACT
*
14143399 CAATTCAATCCAATACATA
1 CAATTCAATACAATACATA
14143418 TCTTTTTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.33
Consensus pattern (21 bp):
CAATTCAATACAATACATACT
Found at i:14145972 original size:482 final size:482
Alignment explanation
Indices: 14145067--14146030 Score: 1903
Period size: 482 Copynumber: 2.0 Consensus size: 482
14145057 AAATTGTTTA
14145067 CAGCTTCTACACTGAATATCTGACCTAAACCAGTAATACCTTTCCAGGTGATTTGTCTTCTTGCA
1 CAGCTTCTACACTGAATATCTGACCTAAACCAGTAATACCTTTCCAGGTGATTTGTCTTCTTGCA
14145132 ATGACAGCATGGTGGATATTTCCCCTTGCCAACATCTTTCCAACTCTACTATGTTTTGTTTGTCC
66 ATGACAGCATGGTGGATATTTCCCCTTGCCAACATCTTTCCAACTCTACTATGTTTTGTTTGTCC
14145197 AGGCTTTCTTTCCTTTGTTGTTTGAAGAGCTTGAGCCTTCCTTGTTTCTCGCTTAAAAAGCTCCA
131 AGGCTTTCTTTCCTTTGTTGTTTGAAGAGCTTGAGCCTTCCTTGTTTCTCGCTTAAAAAGCTCCA
14145262 TCAACGTGCCTCTCTTCTCTTGATGCTCTCCTTTGTTCTTGAGCATATAACACATTGATCAACTC
196 TCAACGTGCCTCTCTTCTCTTGATGCTCTCCTTTGTTCTTGAGCATATAACACATTGATCAACTC
14145327 TTGTAGTGAGATTGTTTACAGGTCCCTCGAGTCTTCAAGAGAGGAAACCTTTGACTCATACTTCT
261 TTGTAGTGAGATTGTTTACAGGTCCCTCGAGTCTTCAAGAGAGGAAACCTTTGACTCATACTTCT
14145392 CAAGAAGTGTAGTTATAACCTTCTCAACTATTCTGCTGTCACTGAATTAGTCTCCTAGCAATCTG
326 CAAGAAGTGTAGTTATAACCTTCTCAACTATTCTGCTGTCACTGAATTAGTCTCCTAGCAATCTG
*
14145457 ATGCTATTGACCACTACCATTATCTTGTTTGCATATTTCTTTACTATCTCAGCCTCTTTTATCTT
391 ATGCTATTGACCACTACCATTATCTTGTTTGCATATTTCTTTACTATCTCAGCCTCCTTTATCTT
14145522 CAAATTCTCAAAATATCTTCTAATATT
456 CAAATTCTCAAAATATCTTCTAATATT
14145549 CAGCTTCTACACTGAATATCTGACCTAAACCAGTAATACCTTTCCA-GTGATTTGTCTATCTTGC
1 CAGCTTCTACACTGAATATCTGACCTAAACCAGTAATACCTTTCCAGGTGATTTGTCT-TCTTGC
14145613 AATGACAGCATGGTGGATATTTCCCCTTGCCAACATCTTTCCAACTCTACTATGTTTTGTTTGTC
65 AATGACAGCATGGTGGATATTTCCCCTTGCCAACATCTTTCCAACTCTACTATGTTTTGTTTGTC
14145678 CAGGCTTTCTTTCCTTTGTTGTTTGAAGAGCTTGAGCCTTCCTTGTTTCTCGCTTAAAAAGCTCC
130 CAGGCTTTCTTTCCTTTGTTGTTTGAAGAGCTTGAGCCTTCCTTGTTTCTCGCTTAAAAAGCTCC
14145743 ATCAACGTGCCTCTCTTCTCTTGATGCTCTCCTTTGTTCTTGAGCATATAACACATTGATCAACT
195 ATCAACGTGCCTCTCTTCTCTTGATGCTCTCCTTTGTTCTTGAGCATATAACACATTGATCAACT
14145808 CTTGTAGTGAGATTGTTTACAGGTCCCTCGAGTCTTCAAGAGAGGAAACCTTTGACTCATACTTC
260 CTTGTAGTGAGATTGTTTACAGGTCCCTCGAGTCTTCAAGAGAGGAAACCTTTGACTCATACTTC
14145873 TCAAGAAGTGTAGTTATAACCTTCTCAACTATTCTGCTGTCACTGAATTAGTCTCCTAGCAATCT
325 TCAAGAAGTGTAGTTATAACCTTCTCAACTATTCTGCTGTCACTGAATTAGTCTCCTAGCAATCT
14145938 GATGCTATTGACCACTACCATTATCTTGTTTGCATATTTCTTTACTATCTCAGCCTCCTTTATCT
390 GATGCTATTGACCACTACCATTATCTTGTTTGCATATTTCTTTACTATCTCAGCCTCCTTTATCT
14146003 TCAAATTCTCAAAATATCTTCTAATATT
455 TCAAATTCTCAAAATATCTTCTAATATT
14146031 AATGAGTTGT
Statistics
Matches: 480, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
481 11 0.02
482 469 0.98
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (482 bp):
CAGCTTCTACACTGAATATCTGACCTAAACCAGTAATACCTTTCCAGGTGATTTGTCTTCTTGCA
ATGACAGCATGGTGGATATTTCCCCTTGCCAACATCTTTCCAACTCTACTATGTTTTGTTTGTCC
AGGCTTTCTTTCCTTTGTTGTTTGAAGAGCTTGAGCCTTCCTTGTTTCTCGCTTAAAAAGCTCCA
TCAACGTGCCTCTCTTCTCTTGATGCTCTCCTTTGTTCTTGAGCATATAACACATTGATCAACTC
TTGTAGTGAGATTGTTTACAGGTCCCTCGAGTCTTCAAGAGAGGAAACCTTTGACTCATACTTCT
CAAGAAGTGTAGTTATAACCTTCTCAACTATTCTGCTGTCACTGAATTAGTCTCCTAGCAATCTG
ATGCTATTGACCACTACCATTATCTTGTTTGCATATTTCTTTACTATCTCAGCCTCCTTTATCTT
CAAATTCTCAAAATATCTTCTAATATT
Found at i:14157841 original size:3 final size:3
Alignment explanation
Indices: 14157835--14157859 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14157825 AGGAGAAAGA
14157835 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
14157860 GGAGAGCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14158738 original size:232 final size:231
Alignment explanation
Indices: 14158332--14158795 Score: 894
Period size: 232 Copynumber: 2.0 Consensus size: 231
14158322 AAATACCTGG
14158332 CCCATTTCGATAAATTTTAAAAATATAGGGCTTTTTCGGTATTTTGAAAAAATAAATTTTGAATA
1 CCCATTTCGATAAATTTTAAAAATATAGGGCTTTTTCGGTATTTTGAAAAAATAAATTTTGAATA
14158397 TTTTTGTACTTGTTTTTTTAATTTTAATCAATTAACTCTTCAATATTACATCAATAGCAACAAGT
66 TTTTTGTACTTGTTTTTTT-ATTTTAATCAATTAACTCTTCAATATTACATCAATAGCAACAAGT
14158462 ACAAAAAAAATTCAAAACCGTTACCAACAAGATTTGAACCAAGGTACTAAGAGAAAAGAGCAAAC
130 ACAAAAAAAATTCAAAACCGTTACCAACAAGATTTGAACCAAGGTACTAAGAGAAAAGAGCAAAC
14158527 ATCTTAACCAACTAAGCTAAACTAATTAATTGACATA
195 ATCTTAACCAACTAAGCTAAACTAATTAATTGACATA
14158564 CCCATTTCGATAAATTTTAAAAATATAGGGCTTTTTCGGTATTTTGAAAAAATAAATTTTGAATA
1 CCCATTTCGATAAATTTTAAAAATATAGGGCTTTTTCGGTATTTTGAAAAAATAAATTTTGAATA
14158629 TTTTTGTACTTGTATTTATTT-TTTTAATCAATTAACTCTTCAATATTACATCAATAGCAACAAG
66 TTTTTGTACTTGT-TTT-TTTATTTTAATCAATTAACTCTTCAATATTACATCAATAGCAACAAG
14158693 TACAAAAAAAATTCAAAACCGTTACCAACAAGATTTGAACCAAGGTACTAAGAGAAAAGAGCAAA
129 TACAAAAAAAATTCAAAACCGTTACCAACAAGATTTGAACCAAGGTACTAAGAGAAAAGAGCAAA
14158758 CATCTTAACCAACTAAGCTAAACTAATTAATTGACATA
194 CATCTTAACCAACTAAGCTAAACTAATTAATTGACATA
14158796 TTATAGAAAT
Statistics
Matches: 230, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
232 224 0.97
233 3 0.01
234 3 0.01
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (231 bp):
CCCATTTCGATAAATTTTAAAAATATAGGGCTTTTTCGGTATTTTGAAAAAATAAATTTTGAATA
TTTTTGTACTTGTTTTTTTATTTTAATCAATTAACTCTTCAATATTACATCAATAGCAACAAGTA
CAAAAAAAATTCAAAACCGTTACCAACAAGATTTGAACCAAGGTACTAAGAGAAAAGAGCAAACA
TCTTAACCAACTAAGCTAAACTAATTAATTGACATA
Found at i:14163797 original size:19 final size:19
Alignment explanation
Indices: 14163773--14163813 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
14163763 TATTTTAAAG
*
14163773 TTATTTAGGTAGATGAATC
1 TTATTTAGGTAGATAAATC
14163792 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
14163811 TTA
1 TTA
14163814 GAAGAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:14163883 original size:41 final size:41
Alignment explanation
Indices: 14163851--14163932 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
14163841 ATATTTTATT
14163851 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
*
14163892 TTATCTTTTAGTAGTTTATTAGAATGAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
14163933 CAATTAGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
Found at i:14165075 original size:170 final size:169
Alignment explanation
Indices: 14164807--14165133 Score: 600
Period size: 170 Copynumber: 1.9 Consensus size: 169
14164797 ACCCGATCTA
14164807 TTTAAAAATAAAAGTCCTTCTTCATATCACTGTGAATTTTGTGAATTGGCTAAACATCATCGGTC
1 TTTAAAAATAAAAGTCCTTCTTCATATCACTGTGAATTTTGTGAATTGGCTAAACATCATCGGTC
*
14164872 ATTCTTCTCACCTCAAAAATATAAAGCTTCTAAACTTTTTTTCATTAATTCATAGTGATGTTTGG
66 ATTCTTCTCACCTCAAAAATATAAAGCTTCTAAAC-TTTTTTCAATAATTCATAGTGATGTTTGG
14164937 GGACCTTCGAGAGTCTCAACTTTTTCTGTTACCTAATTTG
130 GGACCTTCGAGAGTCTCAACTTTTTCTGTTACCTAATTTG
* * *
14164977 TTTAAAAATAAAAGTCCTTTTTCATATCACTGTGAATTTTGTGAATTGGCTAAACATTATTGGTC
1 TTTAAAAATAAAAGTCCTTCTTCATATCACTGTGAATTTTGTGAATTGGCTAAACATCATCGGTC
14165042 ATTCTTCTCACCTCAAAAATATAAAGCTTCTAAACTTTTTTCAATAATTCATAGTGATGTTTGGG
66 ATTCTTCTCACCTCAAAAATATAAAGCTTCTAAACTTTTTTCAATAATTCATAGTGATGTTTGGG
*
14165107 GACCTTTGAGAGTCTCAACTTTTTCTG
131 GACCTTCGAGAGTCTCAACTTTTTCTG
14165134 AAAAACATTG
Statistics
Matches: 152, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
169 55 0.36
170 97 0.64
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (169 bp):
TTTAAAAATAAAAGTCCTTCTTCATATCACTGTGAATTTTGTGAATTGGCTAAACATCATCGGTC
ATTCTTCTCACCTCAAAAATATAAAGCTTCTAAACTTTTTTCAATAATTCATAGTGATGTTTGGG
GACCTTCGAGAGTCTCAACTTTTTCTGTTACCTAATTTG
Found at i:14167815 original size:19 final size:19
Alignment explanation
Indices: 14167791--14167831 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
14167781 TATTTTAAAG
14167791 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
*
14167810 TTATTTAGGTATATAAATC
1 TTATTTAGGTAGATAAATC
14167829 TTA
1 TTA
14167832 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:14167916 original size:41 final size:41
Alignment explanation
Indices: 14167869--14167949 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
14167859 ATATTTTATT
*
14167869 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAAAATAAGGGAATTATTTTCC
14167910 TTATCTTTTAGTAGTTTATTAAAATAAGGGAATTATTTTC
1 TTATCTTTTAGTAGTTTATTAAAATAAGGGAATTATTTTC
14167950 TCAATTAGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAAAATAAGGGAATTATTTTCC
Found at i:14171547 original size:21 final size:21
Alignment explanation
Indices: 14171523--14171563 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
14171513 TTTTTCTGTA
14171523 TTTAA-TTTTAAAAAATATTAT
1 TTTAACTTTTAAAAAA-ATTAT
14171544 TTTAACTTTTAAAAAAATTA
1 TTTAACTTTTAAAAAAATTA
14171564 ACATTTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAACTTTTAAAAAAATTAT
Found at i:14172959 original size:122 final size:123
Alignment explanation
Indices: 14172830--14173075 Score: 485
Period size: 122 Copynumber: 2.0 Consensus size: 123
14172820 AAATGTGTTT
14172830 AGAAGAGGAGGAATTGAAGCTAAGACTCAATTATAAAATCATTATTATTTAACCATTTAACCAAA
1 AGAAGAGGAGGAATTGAAGCTAAGACTCAATTATAAAATCATTATTATTTAACCATTTAACCAAA
14172895 AAGAGCTAATATGTTAAAAACATTAATTAAAAATAATAAAAAACTT-AAACAACATGA
66 AAGAGCTAATATGTTAAAAACATTAATTAAAAATAATAAAAAACTTAAAACAACATGA
14172952 AGAAGAGGAGGAATTGAAGCTAAGACTCAATTATAAAATCATTATTATTTAACCATTTAACCAAA
1 AGAAGAGGAGGAATTGAAGCTAAGACTCAATTATAAAATCATTATTATTTAACCATTTAACCAAA
14173017 AAGAGCTAATATGTTAAAAACATTAATTAAAAATAATAAAAAACTTAAAACAACATGA
66 AAGAGCTAATATGTTAAAAACATTAATTAAAAATAATAAAAAACTTAAAACAACATGA
14173075 A
1 A
14173076 ATAAAAAATA
Statistics
Matches: 123, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
122 111 0.90
123 12 0.10
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (123 bp):
AGAAGAGGAGGAATTGAAGCTAAGACTCAATTATAAAATCATTATTATTTAACCATTTAACCAAA
AAGAGCTAATATGTTAAAAACATTAATTAAAAATAATAAAAAACTTAAAACAACATGA
Found at i:14174579 original size:85 final size:85
Alignment explanation
Indices: 14174436--14174605 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
14174426 CACGTGAATT
14174436 TAATCATAAACAATCATGTACATATCATATAAACAACTTGGGTATGACATATTAAAAAACCAAAC
1 TAATCATAAACAATCATGTACATATCATATAAACAACTTGGGTATGACATATTAAAAAACCAAAC
14174501 AATGTAATTGAAATTCAATA
66 AATGTAATTGAAATTCAATA
*
14174521 TAATCATAAACAATCATGTACATATCATATAAACAACTTGGGTATGACATATTAAAAAACCAAAT
1 TAATCATAAACAATCATGTACATATCATATAAACAACTTGGGTATGACATATTAAAAAACCAAAC
14174586 AATGTAATTGAAATTCAATA
66 AATGTAATTGAAATTCAATA
14174606 AGGCTATCTC
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (85 bp):
TAATCATAAACAATCATGTACATATCATATAAACAACTTGGGTATGACATATTAAAAAACCAAAC
AATGTAATTGAAATTCAATA
Found at i:14182361 original size:14 final size:14
Alignment explanation
Indices: 14182339--14182374 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
14182329 ACGTGGCAAC
14182339 AAAGCGCGTCCTTG
1 AAAGCGCGTCCTTG
*
14182353 AAAGTGCGTCCTTG
1 AAAGCGCGTCCTTG
14182367 AAAGCGCG
1 AAAGCGCG
14182375 ATTTGTGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (14 bp):
AAAGCGCGTCCTTG
Found at i:14182913 original size:125 final size:123
Alignment explanation
Indices: 14182659--14183090 Score: 605
Period size: 125 Copynumber: 3.5 Consensus size: 123
14182649 AAAATCAAAG
* * * * * * * *
14182659 CAGGATGATTTATCAGAAGGATTTTTGCAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGG
* * * *
14182724 TCCCGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAA
66 TCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA
* * * *
14182782 GCAGGATGCTATATGCGAAGAATTTGTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTG
1 -CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTG
* *
14182847 GTCCTGAAATAAACAATTTCGAGTTGATC-TTTCTAAGCAAATAGTATAAAATCGCTTCTA
65 GTCCTGAAA-AAATAATTTCGAGTTGA-CGTTTCTGAGCAAATAGTATAAAATCGCTTCTA
*
14182907 CTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTG
1 C-AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTG
* * *
14182972 GTCCTGGAAGAAATTATTTCGAGTTAACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA
65 GTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA
14183032 CCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTA
1 -CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTA
14183091 TAGTAGCATG
Statistics
Matches: 275, Mismatches: 27, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
124 62 0.23
125 208 0.76
126 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (123 bp):
CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTTGG
TCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA
Found at i:14186749 original size:19 final size:20
Alignment explanation
Indices: 14186725--14186767 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
14186715 AAAAATATGT
*
14186725 ATATAAAGATATATGA-ATA
1 ATATAAAGATATAAGATATA
*
14186744 ATAT-AAGGTATAAGATATA
1 ATATAAAGATATAAGATATA
14186763 ATATA
1 ATATA
14186768 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (20 bp):
ATATAAAGATATAAGATATA
Found at i:14188556 original size:44 final size:43
Alignment explanation
Indices: 14188447--14188697 Score: 142
Period size: 44 Copynumber: 5.9 Consensus size: 43
14188437 GGATGAAGTT
* * * *
14188447 TGTGGTTTTAGTCTACTCCACTGCAACGTCAGGGAGATAAGA-C
1 TGTGATTTTAATCTGCTCCACTGCAAC-TTAGGGAGATAAGATC
*** *** * *
14188490 T-TGA-TGCGATCTGCTTTGCTGCAACTTCAGAGAGATAAGATT
1 TGTGATTTTAATCTGCTCCACTGCAACTT-AGGGAGATAAGATC
* *
14188532 TGTGATTTTAATCTGCTCCACTGCAATTTCAGGGAGATAGGAT-
1 TGTGATTTTAATCTGCTCCACTGCAACTT-AGGGAGATAAGATC
* * * ** *
14188575 TGGTTTATTTT-TTCTGCTCCACTACTGCTTAGGGAGATCAGA-C
1 T-G-TGATTTTAATCTGCTCCACTGCAACTTAGGGAGATAAGATC
*** * *
14188618 T-TGA-TGCGATCTGCTCCACTACTACTTAGGGAGATAAGATC
1 TGTGATTTTAATCTGCTCCACTGCAACTTAGGGAGATAAGATC
*
14188659 TGT-AGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATA
1 TGTGA-TTTTAATCTGCTCCACTGCAAC-TTAGGGAGATA
14188698 GGCTTGGTTT
Statistics
Matches: 154, Mismatches: 41, Indels: 25
0.70 0.19 0.11
Matches are distributed among these distances:
39 1 0.01
40 31 0.20
41 27 0.18
42 4 0.03
43 31 0.20
44 54 0.35
45 6 0.04
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (43 bp):
TGTGATTTTAATCTGCTCCACTGCAACTTAGGGAGATAAGATC
Found at i:14188681 original size:127 final size:128
Alignment explanation
Indices: 14188477--14188707 Score: 333
Period size: 127 Copynumber: 1.8 Consensus size: 128
14188467 CTGCAACGTC
*** * *
14188477 AGGGAGATAAGACTTGATGCGATCTGCTTTGCTGCAACTTCAGAGAGATAAGATTTGTGATTTTA
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACAACTTCAGAGAGATAAGATCTGTGATTTTA
*
14188542 ATCTGCTCCACTGCAA-TTTCAGGGAGATAGGATTGGTTTATTTTTTCTGCTCCACTACTGCTT
66 ATCCGCTCCACTGCAACTTT-AGGGAGATAGGATTGGTTTATTTTTTCTGCTCCACTACTGCTT
* * *
14188605 AGGGAGATCAGACTTGATGCGATCTGCTCCACTACTACTT-AGGGAGATAAGATCTGT-AGTTTT
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACAACTTCAGAGAGATAAGATCTGTGA-TTTT
*
14188668 AATCCGCTCCACTGCAACTTTAGGGAGATAGGCTTGGTTT
65 AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTT
14188708 CTTCTGTCTA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
126 1 0.01
127 53 0.58
128 37 0.41
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (128 bp):
AGGGAGATAAGACTTGATGCGATCTGCTCCACTACAACTTCAGAGAGATAAGATCTGTGATTTTA
ATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTATTTTTTCTGCTCCACTACTGCTT
Found at i:14188948 original size:128 final size:128
Alignment explanation
Indices: 14188718--14188977 Score: 394
Period size: 128 Copynumber: 2.0 Consensus size: 128
14188708 CTTCTGTCTA
*
14188718 GACTTGATTTCTTCTGTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCA
1 GACTTGATTTCTTCTGTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTACTCCA
**
14188783 CTACTACTCAGAGAGATAAAATCTGTAAGCTTCGACCTACTCCACTACTGCTTAGGAAGATAG
66 CTACTACTCAGAGAGATAAAATCTACAAGCTTCGACCTACTCCACTACTGCTTAGGAAGATAG
* *
14188846 GACTTGATTTCTTTTGTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGATGTGATCTACTCCA
1 GACTTGATTTCTTCTGTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTACTCCA
* * * * * * * * *
14188911 CTACTGCTTAGAGAGATAAGATCTACCATCTTTGACCTGCTCTACTACTGCTTAGGGAGATAG
66 CTACTACTCAGAGAGATAAAATCTACAAGCTTCGACCTACTCCACTACTGCTTAGGAAGATAG
14188974 GACT
1 GACT
14188978 GGTGGCTTCA
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
128 118 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (128 bp):
GACTTGATTTCTTCTGTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTACTCCA
CTACTACTCAGAGAGATAAAATCTACAAGCTTCGACCTACTCCACTACTGCTTAGGAAGATAG
Found at i:14189191 original size:86 final size:86
Alignment explanation
Indices: 14189051--14189516 Score: 664
Period size: 86 Copynumber: 5.4 Consensus size: 86
14189041 ACTACTGCTG
* * * * *
14189051 AGGAATGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGA-GAGAAGCAAGGCTTTGTTT
1 AGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTACAACCGATG-GAGGCAAGGCTTTGTTT
*
14189115 TCGATCTGCTTCGCTGTTAACAC
64 TCGATCTGCTTCGCTGTTAACGC
* * * *
14189138 AGGAAGACAAGATCTGCTTCTTTAACCAGCTCCACTGCAATCGATGGAGGCAAGGCTTTATTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTC
**
14189203 GATCTGCTTTACTGTTAACGC
66 GATCTGCTTCGCTGTTAACGC
*
14189224 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACTGATGGAGGCAAGGCTTTGTTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTC
* * *
14189289 AATCTGCTTCGCTATTAATGC
66 GATCTGCTTCGCTGTTAACGC
* *
14189310 AGGAAGGCAAGATCTGCTTCTTTAATCAGCTCCACTACAACCGATGGAGGCAAAGCTTTGTTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTC
*
14189375 GATCTGCTTCGCTGTTAATGC
66 GATCTGCTTCGCTGTTAACGC
* * * * *
14189396 AGGAAGGCAATATATGCTTCTTTAACCAGTTCCACTGCAACCGATGGAGGCAAGGCTTTATTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTC
*
14189461 GATCTGTTTCGCTGTTAACGC
66 GATCTGCTTCGCTGTTAACGC
*
14189482 AGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCA
1 AGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCA
14189517 TTGTAACCTC
Statistics
Matches: 337, Mismatches: 40, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
86 306 0.91
87 31 0.09
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (86 bp):
AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTC
GATCTGCTTCGCTGTTAACGC
Found at i:14189275 original size:43 final size:43
Alignment explanation
Indices: 14189228--14189362 Score: 125
Period size: 43 Copynumber: 3.1 Consensus size: 43
14189218 TAACGCAGGA
*
14189228 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACTGATGG
1 AGGCAAGATCTGCTTCTTTAATCAGCTCCACTACAACTGATGG
* * * * * * *
14189271 AGGCAAGGCTTTG-TT-TTCAATCTGCTTCGCTATTAA-TGCA-GG
1 AGGCAA-GATCTGCTTCTTTAATCAGCTCCACTA-CAACTG-ATGG
*
14189313 AAGGCAAGATCTGCTTCTTTAATCAGCTCCACTACAACCGATGG
1 -AGGCAAGATCTGCTTCTTTAATCAGCTCCACTACAACTGATGG
14189357 AGGCAA
1 AGGCAA
14189363 AGCTTTGTTT
Statistics
Matches: 68, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
42 20 0.29
43 28 0.41
44 20 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
AGGCAAGATCTGCTTCTTTAATCAGCTCCACTACAACTGATGG
Found at i:14189876 original size:171 final size:173
Alignment explanation
Indices: 14189639--14190069 Score: 636
Period size: 171 Copynumber: 2.5 Consensus size: 173
14189629 TCTTGGATCT
* * * *
14189639 GCTCCACTGTAATCTCAG-AGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTTAGGG
1 GCTCCACTGTAATCTCAGCA-AGATAGGA-CTC-AGCTTCAATCTGCTCCACTGTAATCTCAGGG
*
14189703 AGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGATGCGAT
63 AGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAAGGAGATAAGACCTGATGCGAT
*
14189768 CTACTCTGCTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCC
128 CTACTCTGCTGTAACTTCAGAAAGATAAGATCATTTATTTTAATCC
14189814 GCTCCACTGTAA-CTTCAGCAAGATAGGA-T-AGCTTCAATCTGCTCCACTGTAATCTCAGGGAG
1 GCTCCACTGTAATC-TCAGCAAGATAGGACTCAGCTTCAATCTGCTCCACTGTAATCTCAGGGAG
* *
14189876 ATAAGATATGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACCTGATGCGATCT
65 ATAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAAGGAGATAAGACCTGATGCGATCT
* *
14189941 ACTTTGCTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCC
130 ACTCTGCTGTAACTTCAGAAAGATAAGATCATTTATTTTAATCC
* ** * * *
14189985 GCTCTACTGTAATCTCAGGGAGATATGACTACCAGCTTCAATCTGCTCCGCTGTAATCTCAAGGA
1 GCTCCACTGTAATCTCAGCAAGATAGGACT--CAGCTTCAATCTGCTCCACTGTAATCTCAGGGA
14190050 GATAAGATCTGAAATTCTTC
64 GATAAGATCTGAAATTCTTC
14190070 AGTTTATTCC
Statistics
Matches: 232, Mismatches: 17, Indels: 14
0.88 0.06 0.05
Matches are distributed among these distances:
171 155 0.67
172 2 0.01
173 1 0.00
174 1 0.00
175 72 0.31
176 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (173 bp):
GCTCCACTGTAATCTCAGCAAGATAGGACTCAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGA
TAAGATCTGAAATTCTTCGGTCTACTCCACTATAACCTCAAGGAGATAAGACCTGATGCGATCTA
CTCTGCTGTAACTTCAGAAAGATAAGATCATTTATTTTAATCC
Found at i:14192330 original size:39 final size:41
Alignment explanation
Indices: 14192257--14192337 Score: 112
Period size: 39 Copynumber: 2.0 Consensus size: 41
14192247 TCTTTTTTCA
14192257 TTCTTCTTTCTTTTTCTCATTGTCATTTTGATTTTGATTTTT
1 TTCTTCTTTCTTTTTCT-ATTGTCATTTTGATTTTGATTTTT
** *
14192299 TTCTTCTTTCTTTTT-T-TTGTTTTTTTTATTTTGATTTTT
1 TTCTTCTTTCTTTTTCTATTGTCATTTTGATTTTGATTTTT
14192338 AATTTTTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 20 0.56
41 1 0.03
42 15 0.42
ACGTcount: A:0.07, C:0.11, G:0.06, T:0.75
Consensus pattern (41 bp):
TTCTTCTTTCTTTTTCTATTGTCATTTTGATTTTGATTTTT
Found at i:14196706 original size:19 final size:20
Alignment explanation
Indices: 14196682--14196724 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
14196672 AAAAATATGT
*
14196682 ATATAAAGATATATGA-ATA
1 ATATAAAGATATAAGATATA
*
14196701 ATAT-AAGGTATAAGATATA
1 ATATAAAGATATAAGATATA
14196720 ATATA
1 ATATA
14196725 TATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (20 bp):
ATATAAAGATATAAGATATA
Found at i:14196727 original size:2 final size:2
Alignment explanation
Indices: 14196715--14196763 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
14196705 AAGGTATAAG
* * * *
14196715 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AC AA AT AT GT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14196756 AT AT AT AT
1 AT AT AT AT
14196764 TTATGAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14199084 original size:22 final size:22
Alignment explanation
Indices: 14199059--14199244 Score: 139
Period size: 22 Copynumber: 8.3 Consensus size: 22
14199049 TTTAGGGTTT
*
14199059 AGGGTTTAAGGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
14199081 AGGG-TTAGGGGTTTTTAAGTTTA
1 AGGGTTTA-GGGTTTTTAAG-TTA
* * *
14199104 A-AGTTTAGGGTTTTTAGGTTT
1 AGGGTTTAGGGTTTTTAAGTTA
** * *
14199125 AGTATTTGGGGTTTTAAAGTTTA
1 AGGGTTTAGGGTTTTTAAG-TTA
*
14199148 A-GGTTTAGGGTTTTTAGGTTAGGGTTT
1 AGGGTTTAGGGTTTTTA----A--GTTA
*
14199175 AGGGTTTAGGGTTTTTAAGTCA
1 AGGGTTTAGGGTTTTTAAGTTA
* *
14199197 AGGG-TTAGCGTTTTTAATTTA
1 AGGGTTTAGGGTTTTTAAGTTA
*
14199218 AGGG-TTAGTGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTTAAGTTA
14199239 AGGGTT
1 AGGGTT
14199245 AAGATTAGGG
Statistics
Matches: 129, Mismatches: 22, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
21 43 0.33
22 55 0.43
23 10 0.08
24 1 0.01
26 1 0.01
27 3 0.02
28 16 0.12
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (22 bp):
AGGGTTTAGGGTTTTTAAGTTA
Found at i:14199153 original size:7 final size:7
Alignment explanation
Indices: 14199143--14199188 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
14199133 GGGTTTTAAA
*
14199143 GTTTAAG
1 GTTTAGG
14199150 GTTTAGG
1 GTTTAGG
14199157 GTTTTTA-G
1 G--TTTAGG
14199165 G-TTAGG
1 GTTTAGG
14199171 GTTTAGG
1 GTTTAGG
14199178 GTTTAGG
1 GTTTAGG
14199185 GTTT
1 GTTT
14199189 TTAAGTCAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 23 0.68
8 2 0.06
9 4 0.12
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:14199160 original size:14 final size:14
Alignment explanation
Indices: 14199143--14199188 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
14199133 GGGTTTTAAA
14199143 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
*
14199157 GTTTTTAGG-TTAGG
1 G-TTTAAGGTTTAGG
*
14199171 GTTTAGGGTTTAGG
1 GTTTAAGGTTTAGG
14199185 GTTT
1 GTTT
14199189 TTAAGTCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 5 0.19
14 16 0.59
15 6 0.22
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:14199204 original size:28 final size:28
Alignment explanation
Indices: 14199143--14199202 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
14199133 GGGTTTTAAA
* * *
14199143 GTTTAAGGTTTAGGGTTTTTAGGTTAGG
1 GTTTAGGGTTTAGGGTTTTTAAGTAAGG
14199171 GTTTAGGGTTTAGGGTTTTTAAGTCAAGG
1 GTTTAGGGTTTAGGGTTTTTAAGT-AAGG
14199200 GTT
1 GTT
14199203 AGCGTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.18, C:0.02, G:0.35, T:0.45
Consensus pattern (28 bp):
GTTTAGGGTTTAGGGTTTTTAAGTAAGG
Found at i:14199209 original size:21 final size:21
Alignment explanation
Indices: 14199175--14199245 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
14199165 GTTAGGGTTT
* *
14199175 AGGGTTTAGGGTTTTTAAGTCA
1 AGGG-TTAGCGTTTTTAAGTTA
*
14199197 AGGGTTAGCGTTTTTAATTTA
1 AGGGTTAGCGTTTTTAAGTTA
*
14199218 AGGGTTAGTGTTTTTAAGTTA
1 AGGGTTAGCGTTTTTAAGTTA
14199239 AGGGTTA
1 AGGGTTA
14199246 AGATTAGGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 40 0.91
22 4 0.09
ACGTcount: A:0.24, C:0.03, G:0.30, T:0.44
Consensus pattern (21 bp):
AGGGTTAGCGTTTTTAAGTTA
Found at i:14199209 original size:28 final size:28
Alignment explanation
Indices: 14199150--14199209 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
14199140 AAAGTTTAAG
* * *
14199150 GTTTAGGGTTTTTAGGTTAGGGTTTAGG
1 GTTTAGGGTTTTTAAGTAAGGGTTTAGC
14199178 GTTTAGGGTTTTTAAGTCAAGGG-TTAGC
1 GTTTAGGGTTTTTAAGT-AAGGGTTTAGC
14199206 GTTT
1 GTTT
14199210 TTAATTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.45
Consensus pattern (28 bp):
GTTTAGGGTTTTTAAGTAAGGGTTTAGC
Found at i:14199298 original size:29 final size:28
Alignment explanation
Indices: 14199249--14199342 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 28
14199239 AGGGTTAAGA
* *
14199249 TTAGGG-TTAGGGTCTTAAAGTTAAAGTT
1 TTAGGGTTTAGGGTTTTTAAGTT-AAGTT
* *
14199277 TTAGGGTTTAGGGTTTTTAAGTTTATGAT
1 TTAGGGTTTAGGGTTTTTAAG-TTAAGTT
*
14199306 TTAGGGTTTAAGGG-TTTTAAGTTAAGTA
1 TTAGGGTTT-AGGGTTTTTAAGTTAAGTT
14199334 TTAGGGTTT
1 TTAGGGTTT
14199343 TTAGGTTAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
28 19 0.34
29 31 0.55
30 6 0.11
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (28 bp):
TTAGGGTTTAGGGTTTTTAAGTTAAGTT
Found at i:14199350 original size:21 final size:20
Alignment explanation
Indices: 14199311--14199373 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
14199301 ATGATTTAGG
*
14199311 GTTTAAGGG-TTTTAAGTTAA
1 GTTT-AGGGTTTTTAGGTTAA
*
14199331 GTATTAGGGTTTTTAGGTTAGG
1 GT-TTAGGGTTTTTAGGTTA-A
14199353 GTTT-GAGGTTTTTAGGTTAA
1 GTTTAG-GGTTTTTAGGTTAA
14199373 G
1 G
14199374 AGTAATGGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 8 0.22
21 26 0.72
22 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (20 bp):
GTTTAGGGTTTTTAGGTTAA
Found at i:14199384 original size:42 final size:42
Alignment explanation
Indices: 14199305--14199408 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 42
14199295 AAGTTTATGA
* * *
14199305 TTTAGGGTTTAAGGGTTTTAAGTTAAGTATTAGGGTTTTTAGG
1 TTTAGGGTTTGAGGTTTTTAAGTTAAGTATAAGGG-TTTTAGG
* *
14199348 -TTAGGGTTTGAGGTTTTTAGGTTAAG-AGTAATGGTTTTAGG
1 TTTAGGGTTTGAGGTTTTTAAGTTAAGTA-TAAGGGTTTTAGG
* * *
14199389 TTTAAGGTTAGGGGTTTTTA
1 TTTAGGGTTTGAGGTTTTTA
14199409 TGTTTAGGGT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 8 0.16
42 43 0.84
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (42 bp):
TTTAGGGTTTGAGGTTTTTAAGTTAAGTATAAGGGTTTTAGG
Found at i:14199468 original size:15 final size:15
Alignment explanation
Indices: 14199430--14199482 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
14199420 ATGATTAGGG
*
14199430 TTAGGGTTTTAAAG-
1 TTAGGGTTTTGAAGT
* **
14199444 TTAAGGTTTTGGGGT
1 TTAGGGTTTTGAAGT
*
14199459 TTAGGGTTTTTAAGT
1 TTAGGGTTTTGAAGT
14199474 TTAGGGTTT
1 TTAGGGTTT
14199483 ATGGTTTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (15 bp):
TTAGGGTTTTGAAGT
Found at i:14199480 original size:22 final size:22
Alignment explanation
Indices: 14199455--14199532 Score: 106
Period size: 22 Copynumber: 3.6 Consensus size: 22
14199445 TAAGGTTTTG
14199455 GGGTTTAGGGTTTTTAAGTTTA
1 GGGTTTAGGGTTTTTAAGTTTA
*
14199477 GGGTTTATGGTTTTTAAGTTTA
1 GGGTTTAGGGTTTTTAAGTTTA
*
14199499 AGGTTT-GAGGTTTTTAAG-TTA
1 GGGTTTAG-GGTTTTTAAGTTTA
*
14199520 GGGGTTAGGGTTT
1 GGGTTTAGGGTTT
14199533 AAGGTTTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.24
22 37 0.76
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (22 bp):
GGGTTTAGGGTTTTTAAGTTTA
Found at i:14200058 original size:18 final size:18
Alignment explanation
Indices: 14200035--14200074 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14200025 GACTCAGAAA
* * *
14200035 AGGATATATATAAGGGTT
1 AGGATACATAAAAGGGCT
14200053 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
14200071 AGGA
1 AGGA
14200075 AACGCACCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:14200963 original size:20 final size:20
Alignment explanation
Indices: 14200926--14200963 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14200916 TTTATTTTTA
*
14200926 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
14200946 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
14200964 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:14207849 original size:49 final size:49
Alignment explanation
Indices: 14207738--14207834 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
14207728 GAGGAAAAGA
14207738 GGACCAACCCTTTTATTCATTATTCTGCATCAAATAATGATTGAAAATT
1 GGACCAACCCTTTTATTCATTATTCTGCATCAAATAATGATTGAAAATT
14207787 GGACCAACCCTTTTATTCATTATTCTGCATCAAATAATGATTGAAAAT
1 GGACCAACCCTTTTATTCATTATTCTGCATCAAATAATGATTGAAAAT
14207835 ATTATTTTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (49 bp):
GGACCAACCCTTTTATTCATTATTCTGCATCAAATAATGATTGAAAATT
Found at i:14208051 original size:20 final size:21
Alignment explanation
Indices: 14207990--14208070 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 21
14207980 TAAAATTTCA
14207990 AAAAATTTATAAAAAATATTTTT
1 AAAAA-TTATAAAAAATA-TTTT
* * * *
14208013 AAAAATCATTAACATTA-TTT
1 AAAAATTATAAAAAATATTTT
14208033 AAAAATTATAAAAAATATTTT
1 AAAAATTATAAAAAATATTTT
*
14208054 GAAAATT-TAAAAAATAT
1 AAAAATTATAAAAAATAT
14208071 AAATAAATTC
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 26 0.54
21 9 0.19
22 8 0.17
23 5 0.10
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (21 bp):
AAAAATTATAAAAAATATTTT
Found at i:14210672 original size:33 final size:33
Alignment explanation
Indices: 14210593--14210672 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 33
14210583 CCTGGCCCGT
14210593 TTTTTAAATAAATACCAAAAAATTTATTTTAAAAA
1 TTTTTAAA-AAATA-CAAAAAATTTATTTTAAAAA
*** *
14210628 TTAAAACAAAAATA-AAAAATTTTATTTTAAAAA
1 TTTTTA-AAAAATACAAAAAATTTATTTTAAAAA
14210661 TATTTTAAAAAA
1 T-TTTTAAAAAA
14210673 AGTGGTGCCC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
33 24 0.67
34 2 0.06
35 8 0.22
36 2 0.06
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (33 bp):
TTTTTAAAAAATACAAAAAATTTATTTTAAAAA
Found at i:14219447 original size:17 final size:18
Alignment explanation
Indices: 14219411--14219473 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 18
14219401 TAGAGTTTTT
14219411 TTTTTTGAAAATTTTATAAA
1 TTTTTTGAAAA--TTATAAA
14219431 TTTTTTGAAAA-TATAAA
1 TTTTTTGAAAATTATAAA
* **
14219448 -TTTTGGAATTTTATAAA
1 TTTTTTGAAAATTATAAA
*
14219465 TATTTTGAA
1 TTTTTTGAA
14219474 TTTAAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
16 7 0.19
17 12 0.33
18 6 0.17
20 11 0.31
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (18 bp):
TTTTTTGAAAATTATAAA
Found at i:14219477 original size:17 final size:16
Alignment explanation
Indices: 14219423--14219483 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
14219413 TTTTGAAAAT
14219423 TTTATAAATTTTTTGAA
1 TTTATAAA-TTTTTGAA
** *
14219440 AATATAAATTTTGGAA
1 TTTATAAATTTTTGAA
14219456 TTTTATAAATATTTTGAA
1 -TTTATAAAT-TTTTGAA
14219474 TTTA-AAATTT
1 TTTATAAATTT
14219484 ATTTTAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
15 2 0.06
16 11 0.31
17 17 0.47
18 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (16 bp):
TTTATAAATTTTTGAA
Found at i:14220689 original size:14 final size:14
Alignment explanation
Indices: 14220670--14220718 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
14220660 TTAAGGATTA
14220670 AAAATTTGAAATTG
1 AAAATTTGAAATTG
14220684 AAAATTTGAAGATTG
1 AAAATTTGAA-ATTG
* * *
14220699 AAAATATAAAATTC
1 AAAATTTGAAATTG
14220713 AAAATT
1 AAAATT
14220719 GGGGATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (14 bp):
AAAATTTGAAATTG
Found at i:14220698 original size:15 final size:15
Alignment explanation
Indices: 14220665--14220703 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
14220655 GAGGATTAAG
*
14220665 GATTAAAAATTTGAA
1 GATTGAAAATTTGAA
14220680 -ATTGAAAATTTGAA
1 GATTGAAAATTTGAA
14220694 GATTGAAAAT
1 GATTGAAAAT
14220704 ATAAAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (15 bp):
GATTGAAAATTTGAA
Found at i:14236137 original size:20 final size:21
Alignment explanation
Indices: 14236108--14236147 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
14236098 TTTCTTAACA
14236108 AAAAAAGTAA-AATAAAAAAT
1 AAAAAAGTAACAATAAAAAAT
*
14236128 AAAAATGTAACAATAAAAAA
1 AAAAAAGTAACAATAAAAAA
14236148 ATCATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAAAAGTAACAATAAAAAAT
Found at i:14237129 original size:28 final size:25
Alignment explanation
Indices: 14237067--14237130 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 25
14237057 AAAAATGTTC
*
14237067 ATTTCAAT-TTTTTTTAGTTATAAT
1 ATTTAAATATTTTTTTAGTTATAAT
14237091 -TTTAAGA-ATTTTTTTAGATATATACAT
1 ATTTAA-ATATTTTTTTAG-T-TATA-AT
14237118 ATTTAAATATTTT
1 ATTTAAATATTTT
14237131 ATATTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
23 4 0.12
24 10 0.31
25 1 0.03
26 4 0.12
27 3 0.09
28 10 0.31
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (25 bp):
ATTTAAATATTTTTTTAGTTATAAT
Found at i:14239733 original size:27 final size:27
Alignment explanation
Indices: 14239665--14239734 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 27
14239655 GAATATATAA
14239665 TAAATATATATTTTTATTTTTTTAATTT
1 TAAA-ATATATTTTTATTTTTTTAATTT
* *
14239693 TAAAATACTTTTTTTATTTTTTTATTTT
1 TAAAATA-TATTTTTATTTTTTTAATTT
*
14239721 TAAAATAAATTTTT
1 TAAAATATATTTTT
14239735 GGTGTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 8 0.22
28 29 0.78
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (27 bp):
TAAAATATATTTTTATTTTTTTAATTT
Found at i:14250298 original size:160 final size:161
Alignment explanation
Indices: 14250114--14250436 Score: 639
Period size: 160 Copynumber: 2.0 Consensus size: 161
14250104 GTTTGATAAA
14250114 AATTCACCTACTCCCTTAGAATGTATTTCGATGAAGTATTTTAAAAATTTTTAAATAATTAATTA
1 AATTCACCTACTCCCTTAGAATGTATTTCGATGAAGTATTTTAAAAATTTTTAAATAATTAATTA
14250179 ATTTAAGAAAATTAGGTTATTGGAATTTTTTAAATTAAAAAATGATTATTTTTAAAATAATTAAT
66 ATTTAAGAAAATTAGGTTATTGGAATTTTTTAAATTAAAAAATGATTATTTTTAAAATAATTAAT
14250244 ATATTAAATATTCGGCATGGA-TTTTGAAGT
131 ATATTAAATATTCGGCATGGATTTTTGAAGT
14250274 AATTCACCTACTCCCTTAGAATGTATTTCGATGAAGTATTTTAAAAATTTTTAAATAATTAATTA
1 AATTCACCTACTCCCTTAGAATGTATTTCGATGAAGTATTTTAAAAATTTTTAAATAATTAATTA
14250339 ATTTAAGAAAATTAGGTTATTGGAATTTTTTAAATTAAAAAATGATTATTTTTAAAATAATTAAT
66 ATTTAAGAAAATTAGGTTATTGGAATTTTTTAAATTAAAAAATGATTATTTTTAAAATAATTAAT
14250404 ATATTAAATATTCGGCATGGATTTTTGAAGT
131 ATATTAAATATTCGGCATGGATTTTTGAAGT
14250435 AA
1 AA
14250437 GTTTATGAGA
Statistics
Matches: 162, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 151 0.93
161 11 0.07
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.42
Consensus pattern (161 bp):
AATTCACCTACTCCCTTAGAATGTATTTCGATGAAGTATTTTAAAAATTTTTAAATAATTAATTA
ATTTAAGAAAATTAGGTTATTGGAATTTTTTAAATTAAAAAATGATTATTTTTAAAATAATTAAT
ATATTAAATATTCGGCATGGATTTTTGAAGT
Found at i:14252505 original size:46 final size:46
Alignment explanation
Indices: 14252421--14252509 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
14252411 TTAACTTAGC
*
14252421 GAGTAGTATCCCCAAGGGGCAACAGTGTTTCTGCTATCAATTTAAT
1 GAGTAGTATCCCCAAGGGGCAACAGTGTTACTGCTATCAATTTAAT
* * ** * *
14252467 GAGTAGTATCCCCAATGGGTAGTATTGTTACTGTTATCAATTT
1 GAGTAGTATCCCCAAGGGGCAACAGTGTTACTGCTATCAATTT
14252510 TGTAAAAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (46 bp):
GAGTAGTATCCCCAAGGGGCAACAGTGTTACTGCTATCAATTTAAT
Found at i:14254614 original size:32 final size:31
Alignment explanation
Indices: 14254578--14254645 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
14254568 GTAAGGGTTA
*
14254578 ATTTTAATTTTAATTTTT-TAATATTATTTAAT
1 ATTTTAA-TTTAATTTTTGTAAT-TTAATTAAT
* *
14254610 ATTTTTATTTCATTTTTGTAATTTAATTAAT
1 ATTTTAATTTAATTTTTGTAATTTAATTAAT
14254641 ATTTT
1 ATTTT
14254646 TTATATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (31 bp):
ATTTTAATTTAATTTTTGTAATTTAATTAAT
Found at i:14254657 original size:31 final size:30
Alignment explanation
Indices: 14254590--14254656 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
14254580 TTTAATTTTA
*
14254590 ATTTTTTAATATTATTTAATATTTTTATTT
1 ATTTTTTAATATTAATTAATATTTTTATTT
*
14254620 CATTTTTGTAAT-TTAATTAATATTTTT-TAT
1 -ATTTTT-TAATATTAATTAATATTTTTATTT
14254650 ATTTTTT
1 ATTTTTT
14254657 TATAACAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 6 0.18
30 2 0.06
31 20 0.61
32 4 0.12
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (30 bp):
ATTTTTTAATATTAATTAATATTTTTATTT
Found at i:14255157 original size:34 final size:34
Alignment explanation
Indices: 14255114--14255178 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
14255104 CCACATGTAC
14255114 AAATTAAACATCAAACGAATCATAATTCATTACT
1 AAATTAAACATCAAACGAATCATAATTCATTACT
14255148 AAATTAAACATCAAACGAATCATAATTCATT
1 AAATTAAACATCAAACGAATCATAATTCATT
14255179 TATGCGGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (34 bp):
AAATTAAACATCAAACGAATCATAATTCATTACT
Found at i:14259684 original size:58 final size:58
Alignment explanation
Indices: 14259589--14259759 Score: 184
Period size: 58 Copynumber: 2.9 Consensus size: 58
14259579 CATATGCATT
* * *
14259589 AATTTTTTTGAATATATTTGTACAAACTGTTTTTATATTGTTTCATTTAATAAACAGA
1 AATTCTTTTGAATATATTTGTACAAATTATTTTTATATTGTTTCATTTAATAAACAGA
* * * * *
14259647 AGTTGTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTCAATAAAATAGA
1 AATTCTTTTGAATATATTTGTACAAATTATTTTTATATTGTTTCATTTAAT-AAACAGA
**** *
14259706 AATTCTTTTGAATA-AGACAATACAAATTATTTTT-TCATTGTTTTATTTAATAAA
1 AATTCTTTTGAATATA-TTTGTACAAATTATTTTTAT-ATTGTTTCATTTAATAAA
14259760 ATTATGAGTT
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
58 49 0.52
59 45 0.48
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (58 bp):
AATTCTTTTGAATATATTTGTACAAATTATTTTTATATTGTTTCATTTAATAAACAGA
Found at i:14263023 original size:25 final size:25
Alignment explanation
Indices: 14262995--14263044 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14262985 TTCCCGTGAA
14262995 TCCTAGGATATTTTTTCAGAACCAT
1 TCCTAGGATATTTTTTCAGAACCAT
14263020 TCCTAGGATATTTTTTCAGAACCAT
1 TCCTAGGATATTTTTTCAGAACCAT
14263045 CTTCTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (25 bp):
TCCTAGGATATTTTTTCAGAACCAT
Found at i:14263068 original size:28 final size:25
Alignment explanation
Indices: 14263002--14263068 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
14262992 GAATCCTAGG
**
14263002 ATATTTTTTCAGAACCATTCCTAGG
1 ATATTTTTTCAGAACCATTCCTAAA
*
14263027 ATATTTTTTCAGAACCATCTTCTTAAA
1 ATATTTTTTCAGAACCA--TTCCTAAA
14263054 ATTATTTTTTCAGAA
1 A-TATTTTTTCAGAA
14263069 TCAACTGTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 17 0.47
27 6 0.17
28 13 0.36
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.45
Consensus pattern (25 bp):
ATATTTTTTCAGAACCATTCCTAAA
Found at i:14263206 original size:29 final size:29
Alignment explanation
Indices: 14263160--14263232 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
14263150 TATCAAAATA
14263160 ATTTTTTCAGAACACATCACGTCAAATTT
1 ATTTTTTCAGAACACATCACGTCAAATTT
* * * **
14263189 ATTTTTTCATATCCCATCTTGTCAAATTT
1 ATTTTTTCAGAACACATCACGTCAAATTT
*
14263218 ATTTCTTCTAGAACA
1 ATTTTTTC-AGAACA
14263233 ATACTTACCA
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
29 31 0.91
30 3 0.09
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (29 bp):
ATTTTTTCAGAACACATCACGTCAAATTT
Found at i:14267240 original size:33 final size:33
Alignment explanation
Indices: 14267203--14267270 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
14267193 ATTAATCTAA
14267203 AACTTAACAGGGTGGTTAACTTTAAATTAACTG
1 AACTTAACAGGGTGGTTAACTTTAAATTAACTG
* *
14267236 AACTTAATAGGGTGGTTAACTTTATATTAACTG
1 AACTTAACAGGGTGGTTAACTTTAAATTAACTG
14267269 AA
1 AA
14267271 ATAGCAAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (33 bp):
AACTTAACAGGGTGGTTAACTTTAAATTAACTG
Found at i:14280201 original size:129 final size:129
Alignment explanation
Indices: 14279971--14280213 Score: 389
Period size: 129 Copynumber: 1.9 Consensus size: 129
14279961 CCTGAAGAAC
* * **
14279971 GCCACAGGATTGAAATTGTTAATAGAATACAAACTGAAAACTATCTCAATTAACATAGATTAAAG
1 GCCACAAGATTGAAATTGTTAATAGAAAACAAACCAAAAACTATCTCAATTAACATAGATTAAAG
14280036 GCCAATCCAACCTAGCATCAGCAGTGAGAACACGAGTACATAACTAATTTAACATCAATTGAAG
66 GCCAATCCAACCTAGCATCAGCAGTGAGAACACGAGTACATAACTAATTTAACATCAATTGAAG
*
14280100 GCCACAAGATTGAAATTGTTAATAGAAAACAAACCAAAAACTATCTCAATTAACATCA-ATTAAG
1 GCCACAAGATTGAAATTGTTAATAGAAAACAAACCAAAAACTATCTCAATTAACAT-AGATTAAA
* * * *
14280164 GGCCAATTCAACCTAGCATCAGCAGTGAGAATACGAGTACCTGACTAATT
65 GGCCAATCCAACCTAGCATCAGCAGTGAGAACACGAGTACATAACTAATT
14280214 CAAACCAAGA
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
129 103 0.99
130 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.23
Consensus pattern (129 bp):
GCCACAAGATTGAAATTGTTAATAGAAAACAAACCAAAAACTATCTCAATTAACATAGATTAAAG
GCCAATCCAACCTAGCATCAGCAGTGAGAACACGAGTACATAACTAATTTAACATCAATTGAAG
Found at i:14282352 original size:17 final size:17
Alignment explanation
Indices: 14282330--14282362 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14282320 ATTTATTTTT
14282330 ATCCAATTATGTTAACC
1 ATCCAATTATGTTAACC
*
14282347 ATCCAATTCTGTTAAC
1 ATCCAATTATGTTAAC
14282363 TATTATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (17 bp):
ATCCAATTATGTTAACC
Found at i:14282438 original size:32 final size:31
Alignment explanation
Indices: 14282375--14282438 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
14282365 TTATTAAATT
* **
14282375 TGTCATAAAAAATGACGTGACAATTTTAAAA
1 TGTCATAAAAAATGACATGACAATTCAAAAA
* *
14282406 TGTCATAGAAAAATGACATTATAATTCAAAAA
1 TGTCATA-AAAAATGACATGACAATTCAAAAA
14282438 T
1 T
14282439 TAACATGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (31 bp):
TGTCATAAAAAATGACATGACAATTCAAAAA
Found at i:14290898 original size:19 final size:19
Alignment explanation
Indices: 14290861--14290898 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14290851 GTAATTGAAC
* *
14290861 TTGAAAATTGGGTCTGAGA
1 TTGAAAATTGGGCCCGAGA
14290880 TTGAAAATTGGGCCCGAGA
1 TTGAAAATTGGGCCCGAGA
14290899 ATCCAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (19 bp):
TTGAAAATTGGGCCCGAGA
Done.