Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 100 of 333
Found at i:31906760 original size:47 final size:46
Alignment explanation
Indices: 31906581--31906790 Score: 203
Period size: 47 Copynumber: 4.5 Consensus size: 46
31906571 TGTGAGAGCT
* * *
31906581 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCATTGAGATG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCGTCGAC-TTGAGATGTA-AGCC
* * * *
31906629 AGTGTAAGA-CATGTCTGGGAAATGCATCGGCCTAGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCGTC-GACTTGAGATGTAAGCC
* * *
31906675 AGTGTAAGA-CATGTCTGAGACATGCGTCGACTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCGTCGACT-TGAGATGTA-AGCC
* *
31906721 AGTGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCGTCGACTTGAGATGTAAGCC
* *
31906768 AGTGTAAGACCGTGTCTAGGACA
1 AGTGTAAGACCATGTCTGGGACA
31906791 CGACATCGGC
Statistics
Matches: 136, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
45 4 0.03
46 56 0.41
47 58 0.43
48 18 0.13
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCGTCGACTTGAGATGTAAGCC
Found at i:31913852 original size:13 final size:13
Alignment explanation
Indices: 31913830--31913862 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
31913820 AATTTTATTT
31913830 AGTG-ATTAAATA
1 AGTGTATTAAATA
31913842 AGTGTATTAAATA
1 AGTGTATTAAATA
31913855 AGTGTATT
1 AGTGTATT
31913863 TTGCTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (13 bp):
AGTGTATTAAATA
Found at i:31914197 original size:23 final size:23
Alignment explanation
Indices: 31914167--31914213 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
31914157 TAGTGTAAAA
31914167 CCATGTCTGGGACATGCATCGGC
1 CCATGTCTGGGACATGCATCGGC
31914190 CCATGTCTGGGACATGCATCGGC
1 CCATGTCTGGGACATGCATCGGC
31914213 C
1 C
31914214 TCGAGACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.32, G:0.30, T:0.21
Consensus pattern (23 bp):
CCATGTCTGGGACATGCATCGGC
Found at i:31914298 original size:47 final size:47
Alignment explanation
Indices: 31914190--31914298 Score: 134
Period size: 46 Copynumber: 2.3 Consensus size: 47
31914180 ATGCATCGGC
*
31914190 CCATGTCTGGGACATGCATCGGCCTCGAGACATAAGCCAATGTAAGA
1 CCATGTCTGGGACATGCATAGGCCTCGAGACATAAGCCAATGTAAGA
* * * *
31914237 -CATGTCTGGGACATGCGTAGG-CTACGAGATGAT-AGTCAGTGTAAGA
1 CCATGTCTGGGACATGCATAGGCCT-CGAGA-CATAAGCCAATGTAAGA
31914283 CCATGTCTGGGACATG
1 CCATGTCTGGGACATG
31914299 GCTTCGACTT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
45 2 0.04
46 35 0.65
47 17 0.31
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (47 bp):
CCATGTCTGGGACATGCATAGGCCTCGAGACATAAGCCAATGTAAGA
Found at i:31914313 original size:47 final size:47
Alignment explanation
Indices: 31914190--31914341 Score: 132
Period size: 47 Copynumber: 3.3 Consensus size: 47
31914180 ATGCATCGGC
* * * * *
31914190 CCATGTCTGGGACATGCATCGGCCT-CGAGACATAAGCCAATGTAAGA
1 CCATGTCTGGGACATGCGT-AGACTACGAGATATAAGCCAGTGTAAGA
* *
31914237 -CATGTCTGGGACATGCGTAGGCTACGAGATGAT-AGTCAGTGTAAGA
1 CCATGTCTGGGACATGCGTAGACTACGAGAT-ATAAGCCAGTGTAAGA
* * * *
31914283 CCATGTCTGGGACATGGCTTCGACT-TGAGATATAAGCCAGTGCAAGA
1 CCATGTCTGGGACAT-GCGTAGACTACGAGATATAAGCCAGTGTAAGA
**
31914330 CTGTGTCTGGGA
1 CCATGTCTGGGA
31914342 TACAGCATCA
Statistics
Matches: 86, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
45 3 0.03
46 35 0.41
47 42 0.49
48 6 0.07
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
CCATGTCTGGGACATGCGTAGACTACGAGATATAAGCCAGTGTAAGA
Found at i:31919984 original size:3 final size:3
Alignment explanation
Indices: 31919976--31920040 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
31919966 TCCGTTTCAC
31919976 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
31920024 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
31920041 GGTTTAATGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:31920811 original size:11 final size:12
Alignment explanation
Indices: 31920772--31920823 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
31920762 TATAAAATTC
31920772 ATTAAGGTTAAAT
1 ATTAA-GTTAAAT
*
31920785 ATGTAAATTAAAT
1 AT-TAAGTTAAAT
31920798 ATTAAGTT-AAT
1 ATTAAGTTAAAT
31920809 ATTAAGTTAATAT
1 ATTAAGTTAA-AT
31920822 AT
1 AT
31920824 GTTATATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 11 0.32
12 6 0.18
13 14 0.41
14 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (12 bp):
ATTAAGTTAAAT
Found at i:31924247 original size:46 final size:48
Alignment explanation
Indices: 31924093--31924264 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 48
31924083 CATCAAAATT
* ** * *
31924093 GAGGCCGATGCCATGTCTGAGACATGGTCTTACACTAGCTCTCACATATC
1 GAGGCCAATGCCATGTCCCAGACATAGTCTTACACTAGCT-T-ACATCTC
*
31924143 TG-TGCCAATGCCATGTCCCAGACATAGTCTTACACTAGC--ACATCTC
1 -GAGGCCAATGCCATGTCCCAGACATAGTCTTACACTAGCTTACATCTC
* *
31924189 GTA-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTC
1 G-AGGCCAATGCCATGTCCCAGACATAGTCTTACACTAGCTTACATCTC
31924235 GAGGCCAATG-CATGTCCCAGACAT-GTCTTA
1 GAGGCCAATGCCATGTCCCAGACATAGTCTTA
31924265 AACTGGCACA
Statistics
Matches: 107, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
44 12 0.11
45 16 0.15
46 46 0.43
50 32 0.30
51 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
GAGGCCAATGCCATGTCCCAGACATAGTCTTACACTAGCTTACATCTC
Found at i:31933319 original size:49 final size:47
Alignment explanation
Indices: 31933196--31933415 Score: 182
Period size: 50 Copynumber: 4.6 Consensus size: 47
31933186 GGGTATAATA
* * *
31933196 CCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATCCATCAGG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGACTCATCAATCAGG
* * *
31933243 TCGATGCCACATCCCAGACATGGTCTTACATTGACT-ATCGAAATCGAGG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGACTCATC--AATC-AGG
* * * *
31933292 CCGACGCCATTTCCCAGACATGGTCTTACACT-AGCTCTTACATATCCGTG
1 CCGATGCCATATCCCAGACATGGTCTTACACTGA-CTCAT-CA-ATCAG-G
* * * * *
31933342 CCAATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TTGTA-G
1 CCGATGCCATATCCCAGACATGGTCTTACACTGACTCATCAAT-CAGG
*
31933388 CCTATG-CATATCCCAGACAT-GTCTTACA
1 CCGATGCCATATCCCAGACATGGTCTTACA
31933416 TTGGCACACA
Statistics
Matches: 140, Mismatches: 23, Indels: 23
0.75 0.12 0.12
Matches are distributed among these distances:
44 8 0.06
45 13 0.09
46 9 0.06
47 32 0.23
48 4 0.03
49 35 0.25
50 37 0.26
51 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (47 bp):
CCGATGCCATATCCCAGACATGGTCTTACACTGACTCATCAATCAGG
Found at i:31934582 original size:3 final size:3
Alignment explanation
Indices: 31934574--31934660 Score: 51
Period size: 3 Copynumber: 29.3 Consensus size: 3
31934564 AATATATTAA
*
31934574 ATT ATT ATT CTT ATT ATTT ATT ATT A-T AGTT -TT A-T ACTT AATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT ATT ATT A-TT -ATT ATT
* * *
31934620 ATT GTT ATT GTT ATT ATT ATT -TA ATT GA-T ATT A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT A
31934661 AATTAGATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
2 10 0.15
3 46 0.71
4 8 0.12
5 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:31934608 original size:27 final size:28
Alignment explanation
Indices: 31934575--31934637 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
31934565 ATATATTAAA
31934575 TTATTATTCTT-ATTATTTATTATTATAG
1 TTATTATTCTTAATTA-TTATTATTATAG
* * *
31934603 TT-TTATACTTAATTATTATTGTTATTG
1 TTATTATTCTTAATTATTATTATTATAG
31934630 TTATTATT
1 TTATTATT
31934638 ATTTAATTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (28 bp):
TTATTATTCTTAATTATTATTATTATAG
Found at i:31943549 original size:15 final size:17
Alignment explanation
Indices: 31943531--31943562 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
31943521 TAACATATTT
31943531 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
31943546 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
31943563 CAAGTGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:31946082 original size:46 final size:44
Alignment explanation
Indices: 31945939--31946082 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
31945929 CCCACCCATA
* *
31945939 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
31945988 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
31946031 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
31946078 AGTGA
1 AGTGA
31946083 CATGTCACTT
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
45 1 0.01
46 31 0.41
47 26 0.35
48 5 0.07
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:31948311 original size:40 final size:40
Alignment explanation
Indices: 31948249--31948504 Score: 385
Period size: 40 Copynumber: 6.4 Consensus size: 40
31948239 AAACCAAGTA
* * *
31948249 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
31948288 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
31948328 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
31948368 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
31948408 CCTTTGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
31948448 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
31948488 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
31948505 CGTTATCATC
Statistics
Matches: 203, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.07
40 189 0.93
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:31951685 original size:46 final size:46
Alignment explanation
Indices: 31951635--31951807 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
31951625 TGGTTGAGCA
*
31951635 TCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
31951681 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
31951726 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31951774 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31951808 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31951791 original size:93 final size:93
Alignment explanation
Indices: 31951632--31951802 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
31951622 GGATGGTTGA
* * * *
31951632 GCATCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
31951697 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
31951725 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
31951790 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
31951803 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:31957631 original size:46 final size:44
Alignment explanation
Indices: 31957488--31957631 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
31957478 CCCGCCCATA
* * *
31957488 AGTGAACTTGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
31957537 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
31957580 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
31957627 AGTGA
1 AGTGA
31957632 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:31959828 original size:44 final size:40
Alignment explanation
Indices: 31959740--31959845 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 40
31959730 TTTAATGCAC
31959740 TCACACACTTAGTGCCAATTAAGTAATCGAAGCTATAATAGTA
1 TCACACACTTAGTGCC-ATTAAGTAATCGAA-C-ATAATAGTA
31959783 TCACACACTTAGTGCCATTACAGTAAATCGAA-ATAATATGGGTA
1 TCACACACTTAGTGCCATTA-AGT-AATCGAACATAATA---GTA
* *
31959827 TCACCCACATAGTGCCATT
1 TCACACACTTAGTGCCATT
31959846 TATTCAGCCA
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
41 6 0.11
42 4 0.07
43 19 0.34
44 27 0.48
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (40 bp):
TCACACACTTAGTGCCATTAAGTAATCGAACATAATAGTA
Found at i:31971658 original size:34 final size:35
Alignment explanation
Indices: 31971613--31971701 Score: 89
Period size: 34 Copynumber: 2.6 Consensus size: 35
31971603 TATAGTGTTG
*
31971613 AACAGTCTGGG-CTTAAGCTCACATTA-G-TAGCAAT
1 AACAGTGTGGGCCTTAAGC-C-CATTACGATAGCAAT
* *
31971647 AACAGTGTGGGCCTT-AGCCCATTACGATAGTATT
1 AACAGTGTGGGCCTTAAGCCCATTACGATAGCAAT
*
31971681 AACAGTGTGGGTCTT-AGCCCA
1 AACAGTGTGGGCCTTAAGCCCA
31971702 ACTCAGTACA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
32 5 0.10
33 2 0.04
34 38 0.79
35 3 0.06
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (35 bp):
AACAGTGTGGGCCTTAAGCCCATTACGATAGCAAT
Found at i:31976184 original size:47 final size:47
Alignment explanation
Indices: 31976121--31976654 Score: 771
Period size: 47 Copynumber: 11.3 Consensus size: 47
31976111 AGAGTGTATG
*
31976121 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
31976168 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
31976215 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
31976262 TATGTGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTA
*
31976313 TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* * *
31976360 TATGTGTGATAAGGCCTAACAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
31976407 TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
31976454 TATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
31976501 TATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
31976548 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * * * * *
31976595 TATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTGCA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
31976642 TAAATGTGATAAG
1 TATATGTGATAAG
31976655 TCCCGAAAGG
Statistics
Matches: 451, Mismatches: 32, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
47 404 0.90
49 2 0.00
51 45 0.10
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
Found at i:31976448 original size:192 final size:192
Alignment explanation
Indices: 31976113--31976654 Score: 835
Period size: 192 Copynumber: 2.9 Consensus size: 192
31976103 CAGCCAAGAG
31976113 AGTGTATG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
1 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
31976176 ATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGA
66 ATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGA
*
31976241 CGTGATGAATGTGAAAGTGTATATGTGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
131 CGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
31976303 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
1 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
*
31976368 ATAAGGCCTAACAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGA
66 ATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGA
* *
31976433 TGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
131 CGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
31976495 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGTG
1 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
* * * * * * * * * *
31976556 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATGTGACAGGGCCGAGTGGCCAA
66 ATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGA
* * * * *
31976621 CGTAATGGATGTGAAAGTGCATAAATGTGATAAG
131 CGTGATGAATGTGAAAGTGTATATATGTAATAAG
31976655 TCCCGAAAGG
Statistics
Matches: 323, Mismatches: 27, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
188 137 0.42
190 9 0.03
192 177 0.55
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (192 bp):
AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
ATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGA
CGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:31976829 original size:37 final size:37
Alignment explanation
Indices: 31976773--31976851 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
31976763 CCGAGCTCTA
* * *
31976773 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
31976810 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31976847 AAGAC
1 AAGAC
31976852 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31986734 original size:19 final size:19
Alignment explanation
Indices: 31986689--31986748 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
31986679 AAAAAACCCT
31986689 AAACCCTACTTAAAAAAAC
1 AAACCCTACTTAAAAAAAC
* *
31986708 CAATCCTACTT-AAAAAAC
1 AAACCCTACTTAAAAAAAC
*
31986726 AAAACCCTAACCCTAAAAAAAC
1 -AAACCCT-A-CTTAAAAAAAC
31986748 A
1 A
31986749 CAAAGAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 7 0.22
19 14 0.44
20 1 0.03
21 3 0.09
22 7 0.22
ACGTcount: A:0.57, C:0.28, G:0.00, T:0.15
Consensus pattern (19 bp):
AAACCCTACTTAAAAAAAC
Found at i:31992877 original size:21 final size:20
Alignment explanation
Indices: 31992848--31992886 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31992838 TAGTAAGTTA
31992848 AGTTAGT-AAATCAATAATTT
1 AGTTAGTAAAAT-AATAATTT
31992868 AGTTAAGTAAAATAATAAT
1 AGTT-AGTAAAATAATAAT
31992887 ATGGTATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (20 bp):
AGTTAGTAAAATAATAATTT
Found at i:32015174 original size:44 final size:44
Alignment explanation
Indices: 32015096--32015192 Score: 105
Period size: 44 Copynumber: 2.2 Consensus size: 44
32015086 TCCAATATGT
* * *
32015096 GATTTCGTGTAAGACCACATCTGGAACGTTGGCATTG-ATTTGA
1 GATTTCGTGTAAGACCACATCTGGAACATCGGCATCGTATTTGA
32015139 GATTTACGTGTAAGACCATC-TCTTGG-ACATCGGCATCGTATTT--
1 GATTT-CGTGTAAGACCA-CATC-TGGAACATCGGCATCGTATTTGA
32015182 GATTTCGTGTA
1 GATTTCGTGTA
32015193 CGACTTTGTC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
42 6 0.13
43 10 0.21
44 23 0.49
45 8 0.17
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (44 bp):
GATTTCGTGTAAGACCACATCTGGAACATCGGCATCGTATTTGA
Found at i:32015192 original size:42 final size:41
Alignment explanation
Indices: 32015095--32015239 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 41
32015085 TTCCAATATG
*
32015095 TGATTTCGTGTAAGACCA-CATC-TGGAACGTTGGCATTG-ATT
1 TGATTTCGTGTAAGACCATC-TCTTGG-AC-ATGGCATTGTATT
*
32015136 TGAGATTTACGTGTAAGACCATCTCTTGGACATCGGCATCGTATT
1 T--GATTT-CGTGTAAGACCATCTCTTGGACAT-GGCATTGTATT
* ** * *
32015181 TGATTTCGTGTACGACTTTGTCTGGGACAGTGGCATTGATATT
1 TGATTTCGTGTAAGACCATCTCTTGGACA-TGGCATTG-TATT
*
32015224 TGATTTCATGTAAGAC
1 TGATTTCGTGTAAGAC
32015240 TACGTCTAGG
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
41 1 0.01
42 24 0.28
43 30 0.35
44 22 0.26
45 8 0.09
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATCTCTTGGACATGGCATTGTATT
Found at i:32017355 original size:43 final size:43
Alignment explanation
Indices: 32017293--32017463 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
32017283 TAGGATTTTT
*
32017293 GATATGTG-TTCTCGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGATT-TCGAGTAAGACCACGTCTGGGACGTTGGCATC
* *
32017336 GATATGTGATTTCGAGTAAGACCATGTCTGGGACATTGGCATC
1 GATATGTGATTTCGAGTAAGACCACGTCTGGGACGTTGGCATC
* ** *
32017379 G-TAATTGTGA-TTCGTGTAAGACCTTGTCTGGGTCAG-TGGCATC
1 GAT-A-TGTGATTTCGAGTAAGACCACGTCTGGGAC-GTTGGCATC
** *
32017422 GGCATGTGATTAC-ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGTGATTTCGA-GTAAGACCACGTCTGGGACGTTGGCAT
32017464 TGTACGATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
42 7 0.07
43 93 0.87
44 7 0.07
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
GATATGTGATTTCGAGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:32017408 original size:86 final size:86
Alignment explanation
Indices: 32017304--32017463 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 86
32017294 ATATGTGTTC
* * *
32017304 TCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATGTGATTTCGA-GTAAGACCATGTCTGG
1 TCGTGTAAGACCACGTCTGGGACAG-TGGCATCGACATGTGATTAC-ATGTAAGACCACGTCTGG
32017367 GACATTGGCATCGTAATTGTGAT
64 GACATTGGCATCGTAATTGTGAT
** * *
32017390 TCGTGTAAGACCTTGTCTGGGTCAGTGGCATCGGCATGTGATTACATGTAAGACCACGTCTGGGA
1 TCGTGTAAGACCACGTCTGGGACAGTGGCATCGACATGTGATTACATGTAAGACCACGTCTGGGA
*
32017455 CGTTGGCAT
66 CATTGGCAT
32017464 TGTACGATAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.02
86 62 0.97
87 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (86 bp):
TCGTGTAAGACCACGTCTGGGACAGTGGCATCGACATGTGATTACATGTAAGACCACGTCTGGGA
CATTGGCATCGTAATTGTGAT
Found at i:32026024 original size:68 final size:65
Alignment explanation
Indices: 32025810--32026061 Score: 226
Period size: 68 Copynumber: 3.8 Consensus size: 65
32025800 ATATAGTTCG
** *
32025810 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTT-TATCTCGT
1 GCTCTCTTGTACACATGGTGTCCACTTAGTACCACCCATGCGACCTAGCTACA-TTATATCTCGT
32025872 A
65 A
* * * *
32025873 GCTCTCTTGT-CTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACA-TATATCC
1 GCTCTCTTGTAC-ACATGGTGT-C--CACTTAGTACCACCCATGCGACCTAGCTACATTATATCT
32025936 CGTA
62 CGTA
** * *
32025940 GCTCTCTTGTTTACATGGTGTCCACATAGTATCACCCATGCGACCTAGCTACATTATAATGTCTC
1 GCTCTCTTGTACACATGGTGTCCACTTAGTACCACCCATGCGACCTAGCTACATTAT-A--TCTC
32026005 GTA
63 GTA
* * * * * ** *
32026008 GCTTTCTTGTACACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACAT
1 GCTCTCTTGTACACATGGTGTCCACTTAGTACCACCCATGCGACCTAGCTACAT
32026062 ACCATCTGTA
Statistics
Matches: 151, Mismatches: 26, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 26 0.17
65 3 0.02
66 26 0.17
67 27 0.18
68 50 0.33
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTCCACTTAGTACCACCCATGCGACCTAGCTACATTATATCTCGTA
Found at i:32028183 original size:43 final size:43
Alignment explanation
Indices: 32028135--32028284 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
32028125 ATTATCGAGA
*
32028135 TGTGATTACATGTAAGACTATGTCTGAGACATTGACATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGACATTGTAT
*
32028178 TGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGT-T
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGACATTGTAT
* * * * * * *
32028220 ATATGATTTCGTATAAGACCTTGTCT-AGGACAGTGGCATTG-AT
1 -TGTGATTACATGTAAGACCATGTCTGA-GACATTGACATTGTAT
* *
32028263 ATATGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
32028285 ATCCGAGATA
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 88 0.99
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGAGACATTGACATTGTAT
Found at i:32046247 original size:22 final size:23
Alignment explanation
Indices: 32046222--32046264 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
32046212 AAAGCCGAGG
32046222 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
32046244 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
32046265 GTTTTGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:32051756 original size:40 final size:40
Alignment explanation
Indices: 32051697--32051805 Score: 175
Period size: 40 Copynumber: 2.7 Consensus size: 40
32051687 TATTCGGATG
*
32051697 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
32051737 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
32051777 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
32051806 AGCAAGTAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
39 1 0.02
40 61 0.97
41 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:32052105 original size:22 final size:21
Alignment explanation
Indices: 32052064--32052107 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
32052054 GAATGTGCAT
32052064 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
32052086 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
32052108 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:32066729 original size:43 final size:43
Alignment explanation
Indices: 32066679--32066844 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
32066669 ATTATTGATA
* *
32066679 TGTGATTACATGTAAGACCTTGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
32066722 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* *** * * * *
32066766 T-CGATTTTGTGTAAGACCTTGTTTGGGAGAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
32066807 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
32066845 TGTACGATCT
Statistics
Matches: 99, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 88 0.89
44 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:32067121 original size:16 final size:17
Alignment explanation
Indices: 32067090--32067122 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32067080 GATATGCAAA
32067090 TATTTATATGATGGCTT
1 TATTTATATGATGGCTT
*
32067107 TATTTGTAT-ATGGCTT
1 TATTTATATGATGGCTT
32067123 ACTAAGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (17 bp):
TATTTATATGATGGCTT
Found at i:32070370 original size:75 final size:75
Alignment explanation
Indices: 32070247--32070396 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
32070237 CTAGCCTAAG
*
32070247 AATAAAGAGGTTTTGTTTTAATTAACTAATTATCTAATCTAAGAACGCAAAGAGAAAAGAATTGA
1 AATAAAGAGGTTTTGTTTTAATTAACTAATTATCTAAACTAAGAACGCAAAGAGAAAAGAATTGA
32070312 GGAATTGCTT
66 GGAATTGCTT
32070322 AATAAAGAGGTTTTGTTTTAATTAACTAATTATCTAAACTAAGAACGCAAAGAGAAAAGAATTGA
1 AATAAAGAGGTTTTGTTTTAATTAACTAATTATCTAAACTAAGAACGCAAAGAGAAAAGAATTGA
32070387 GGAATTGCTT
66 GGAATTGCTT
32070397 TTGGGAAAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.31
Consensus pattern (75 bp):
AATAAAGAGGTTTTGTTTTAATTAACTAATTATCTAAACTAAGAACGCAAAGAGAAAAGAATTGA
GGAATTGCTT
Found at i:32073180 original size:6 final size:6
Alignment explanation
Indices: 32073169--32073197 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
32073159 AAATCTGCTA
32073169 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
32073198 GTGGCTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:32074843 original size:31 final size:31
Alignment explanation
Indices: 32074800--32074863 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
32074790 CCTTTTCATG
32074800 TTTCATAATTCATAACACTGGGCCGATGCCT
1 TTTCATAATTCATAACACTGGGCCGATGCCT
* **
32074831 TTTCATATTTCATATTACTGGGCCGATGCCT
1 TTTCATAATTCATAACACTGGGCCGATGCCT
32074862 TT
1 TT
32074864 ACTATAGACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGATGCCT
Found at i:32075128 original size:25 final size:25
Alignment explanation
Indices: 32075072--32075154 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
32075062 CTGGAGGCCT
*
32075072 AGCCTCTTTTAAT-AACTAGGGC-AA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
32075096 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
32075121 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
32075146 AGCCCTTTT
1 AGCCCTTTT
32075155 CAGTAAATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 7 0.13
24 12 0.22
25 35 0.65
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:32075250 original size:20 final size:20
Alignment explanation
Indices: 32075227--32075273 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
32075217 TTATGAATAC
32075227 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
32075246 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
32075267 ATCATGT
1 ATCATGT
32075274 ACATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:32078561 original size:27 final size:27
Alignment explanation
Indices: 32078531--32078708 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32078521 ATATTGAGTC
* * * *
32078531 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
32078558 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32078585 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
32078613 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32078640 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
32078667 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32078694 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32078709 GTTCAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:32078670 original size:82 final size:81
Alignment explanation
Indices: 32078552--32078707 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32078542 TGCTATATAA
* *
32078552 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32078617 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32078634 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32078698 CACTTAGTGC
65 CACTTAGTGC
32078708 TGTTCAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32098848 original size:40 final size:40
Alignment explanation
Indices: 32098804--32099029 Score: 221
Period size: 40 Copynumber: 5.7 Consensus size: 40
32098794 GCTCCTCGTT
* *
32098804 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAATTCGCA
* *
32098844 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
*
32098884 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAT-TCGCA
* *
32098924 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAAT-TCGCA
** * * * * *
32098964 CAAATGCCTTC-GGATCTTAGTCCGGGTATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AATTCGCA
*
32099005 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
32099030 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
39 5 0.03
40 134 0.85
41 17 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
Found at i:32098908 original size:80 final size:78
Alignment explanation
Indices: 32098804--32099029 Score: 251
Period size: 80 Copynumber: 2.8 Consensus size: 78
32098794 GCTCCTCGTT
*
32098804 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAA-GCCTTCGGGACTTAACCCGG
32098869 ATTTAATAACTCGCA
65 ATTT-ATAACTCGCA
* * *
32098884 CGAATGCCTTCGGGACTTAACCCGGATT-TAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAAT-TCGCACAAA-GCCTTCGGGACTTAACCC
* *
32098947 GGAATTTGTATCTCGCA
63 GG-ATTTATAACTCGCA
* * * * * *
32098964 CAAATGCCTTC-GGATCTTAGTCCGGGTATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCACAAAGCCTTCGGGACTTAACCCG
32099028 GA
64 GA
32099030 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
79 7 0.06
80 101 0.82
81 14 0.11
82 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAAGCCTTCGGGACTTAACCCGGA
TTTATAACTCGCA
Found at i:32121001 original size:21 final size:21
Alignment explanation
Indices: 32120972--32121011 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32120962 TTCGAATTTT
32120972 TTTACCTATAATTATTATTCA
1 TTTACCTATAATTATTATTCA
* *
32120993 TTTATCTATTATTATTATT
1 TTTACCTATAATTATTATT
32121012 GTTTATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTACCTATAATTATTATTCA
Found at i:32124266 original size:39 final size:40
Alignment explanation
Indices: 32124165--32124388 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
32124155 TTGAATGATG
* *
32124165 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
32124204 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
32124245 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
32124284 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
32124323 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
32124362 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
32124389 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 73 0.45
40 78 0.48
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:32124360 original size:79 final size:80
Alignment explanation
Indices: 32124165--32124388 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 80
32124155 TTGAATGATG
* * * *
32124165 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
32124229 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
*
32124245 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
32124307 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
32124323 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
32124388 G
66 G
32124389 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 36 0.28
79 58 0.46
80 33 0.26
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:32124410 original size:79 final size:79
Alignment explanation
Indices: 32124165--32124421 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
32124155 TTGAATGATG
* * * *
32124165 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAC-CATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGAT-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
32124227 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
32124245 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
32124309 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* * *
32124323 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
32124387 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
32124403 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
32124422 TACGTGATTT
Statistics
Matches: 153, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 36 0.24
79 70 0.46
80 46 0.30
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:32132322 original size:39 final size:40
Alignment explanation
Indices: 32132222--32132445 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
32132212 TTGAATGATG
* *
32132222 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
32132261 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
32132302 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
32132341 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
32132380 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
32132419 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
32132446 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 74 0.45
40 77 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:32132397 original size:79 final size:80
Alignment explanation
Indices: 32132222--32132445 Score: 278
Period size: 79 Copynumber: 2.8 Consensus size: 80
32132212 TTGAATGATG
* * * *
32132222 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGACCCGAAGGCAT
*
32132285 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
32132302 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
32132364 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
32132380 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
32132445 G
66 G
32132446 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
78 35 0.28
79 56 0.44
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:32132467 original size:79 final size:78
Alignment explanation
Indices: 32132275--32132468 Score: 207
Period size: 79 Copynumber: 2.5 Consensus size: 78
32132265 GGACTAAGAT
** * * *
32132275 CCGAAGGCATTTGTGCGAGAT-ACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTA
*
32132339 ATTCCGGGCTAAGC
65 ATACCGGGCTAAGC
** * *
32132353 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGATACTA
*
32132417 ATAACCGGGCTATGTC
65 AT-ACCGGGCTAAG-C
*
32132433 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
32132469 ATTCTGAAGG
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 35 0.35
79 40 0.40
80 25 0.25
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGATACTAA
TACCGGGCTAAGC
Found at i:32139619 original size:22 final size:21
Alignment explanation
Indices: 32139573--32139621 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
32139563 GGGGTTCGAT
*
32139573 ACTCTAATAAAAAATTCAGTT
1 ACTCTAATAAAAAATTCAGTG
*
32139594 ACTCTAATAAAAAATTTAGTAG
1 ACTCTAATAAAAAATTCAGT-G
32139616 ACTCTA
1 ACTCTA
32139622 CAGGAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (21 bp):
ACTCTAATAAAAAATTCAGTG
Found at i:32143087 original size:47 final size:47
Alignment explanation
Indices: 32143033--32143226 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
32143023 TTAGGATTTT
** * *
32143033 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
32143080 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
32143127 ATGCGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
32143174 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
32143221 ATGTGA
1 ATGTGA
32143227 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:32143584 original size:37 final size:37
Alignment explanation
Indices: 32143433--32143582 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
32143423 GGAAATATAT
32143433 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
32143470 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
32143507 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
32143544 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
32143581 TC
1 TC
32143583 TGAGCTAAAG
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:32144995 original size:27 final size:27
Alignment explanation
Indices: 32144965--32145050 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
32144955 ATTACCAAAG
* *
32144965 TACCCTCAATTTATAGAATTATTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
**
32144992 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
* * *
32145019 TACCCTCGATTGT-GA-AATTACAGTTT
1 TACCCTCAATT-TACAGAATTACTGTTT
32145045 TACCCT
1 TACCCT
32145051 TGATTGTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 16 0.31
27 34 0.67
28 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACTGTTT
Found at i:32145044 original size:26 final size:26
Alignment explanation
Indices: 32145008--32145065 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
32144998 TGATTTACAG
*
32145008 AATTACTGTTTTACCCTCGATTGTGA
1 AATTACAGTTTTACCCTCGATTGTGA
*
32145034 AATTACAGTTTTACCCTTGATTGTGA
1 AATTACAGTTTTACCCTCGATTGTGA
32145060 AATTAC
1 AATTAC
32145066 TGAAATACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (26 bp):
AATTACAGTTTTACCCTCGATTGTGA
Found at i:32145074 original size:26 final size:26
Alignment explanation
Indices: 32145019--32145211 Score: 69
Period size: 27 Copynumber: 7.2 Consensus size: 26
32145009 ATTACTGTTT
***
32145019 TACCCTCGATTGTGAAATTACAGTTT
1 TACCCTCGATTGTGAAATTACAGAAA
* *
32145045 TACCCTTGATTGTGAAATTACTGAAA
1 TACCCTCGATTGTGAAATTACAGAAA
* *
32145071 TACCC-CTATAG-GATAGAATTACCA-AAA
1 TACCCTCGATTGTG--A-AATTA-CAGAAA
* *
32145098 TACCC-CTAGTTCGTAAAATTACCA-AAA
1 TACCCTCGA-TT-GTGAAATTA-CAGAAA
* * * *
32145125 TACCACTGGTTTGTGAAATTACCGATA
1 TACC-CTCGATTGTGAAATTACAGAAA
* *
32145152 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTCGA-TTGTGAAATTA-CAGAAA
*
32145179 TACCC-CTGATT-TACAAAATTACAGAAA
1 TACCCTC-GATTGT--GAAATTACAGAAA
32145206 TACCCT
1 TACCCT
32145212 TGACTTTCTA
Statistics
Matches: 126, Mismatches: 24, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
24 1 0.01
25 4 0.03
26 35 0.28
27 78 0.62
28 7 0.06
29 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (26 bp):
TACCCTCGATTGTGAAATTACAGAAA
Found at i:32145117 original size:27 final size:27
Alignment explanation
Indices: 32145087--32145210 Score: 119
Period size: 27 Copynumber: 4.6 Consensus size: 27
32145077 TATAGGATAG
*
32145087 AATTACCAAAATACCCCTAGTTCGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
32145114 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
32145141 AATTACCGATATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
32145168 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
32145195 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
32145211 TTGACTTTCT
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
26 5 0.06
27 69 0.88
28 4 0.05
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:32145261 original size:27 final size:27
Alignment explanation
Indices: 32145166--32145273 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
32145156 CTCAATTTGT
** * *
32145166 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
32145193 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
32145220 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
32145249 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
32145274 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
27 41 0.61
28 7 0.10
29 19 0.28
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:32145365 original size:27 final size:27
Alignment explanation
Indices: 32145314--32145391 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
32145304 AAATGACTAA
* *
32145314 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
* *
32145341 AA-AGCCCTTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
*
32145368 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
32145392 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:32146238 original size:25 final size:25
Alignment explanation
Indices: 32146200--32146269 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
32146190 AGGAAGTGCT
* *
32146200 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
32146225 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
32146250 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
32146270 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:32146282 original size:24 final size:24
Alignment explanation
Indices: 32146199--32146294 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
32146189 GAGGAAGTGC
*
32146199 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
32146224 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
32146248 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
32146272 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
32146295 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:32146293 original size:50 final size:50
Alignment explanation
Indices: 32146200--32146294 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
32146190 AGGAAGTGCT
**
32146200 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
32146250 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
32146295 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:32146541 original size:31 final size:30
Alignment explanation
Indices: 32146489--32146571 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
32146479 TGCTTACAGT
*
32146489 AAAGGCTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGCCCAGTGATATGATTTATGA
*
32146519 AAAGGCTTCAGCCCTGTGATATGATTTATGA
1 AAAGGCTTC-GCCCAGTGATATGATTTATGA
32146550 AAAGGCTTCGACCCAGT-ATATG
1 AAAGGCTTCG-CCCAGTGATATG
32146572 TCGAGACTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
30 15 0.31
31 33 0.69
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGCCCAGTGATATGATTTATGA
Found at i:32150025 original size:42 final size:42
Alignment explanation
Indices: 32149972--32150098 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 42
32149962 TTGTTATCAA
* * *
32149972 ATAT-CGATGCCACTGTCCCAAACAAGGTCTTACACGAAATC
1 ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
*
32150013 ATATACGATGCCAATGTCCCAGACATTGTCTTACAC-ATAATC
1 ATATACGATGCCAATGTCCCAGACATGGTCTTACACGA-AATC
* * *
32150055 -TCATATCAATGCCAATGTCCTAGACATGGTCTTACACGATATC
1 AT-ATA-CGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
32150098 A
1 A
32150099 CATCTCAGAA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
41 6 0.08
42 34 0.47
43 31 0.43
44 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (42 bp):
ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
Found at i:32168852 original size:49 final size:47
Alignment explanation
Indices: 32168754--32169076 Score: 538
Period size: 47 Copynumber: 6.8 Consensus size: 47
32168744 ATTTAGGATT
*
32168754 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
32168801 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
32168850 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
32168899 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
32168946 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
32168993 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * *
32169040 CAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
32169077 TCCCGAAGGG
Statistics
Matches: 264, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 169 0.64
49 95 0.36
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:32169251 original size:37 final size:37
Alignment explanation
Indices: 32169195--32169273 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
32169185 CCGAGCTCTA
* * *
32169195 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
32169232 AAGATCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
32169269 AAGAC
1 AAGAC
32169274 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:32170853 original size:40 final size:40
Alignment explanation
Indices: 32170490--32170841 Score: 546
Period size: 40 Copynumber: 8.8 Consensus size: 40
32170480 GATAATTGAG
*
32170490 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
32170530 AGTGATGTATCCGGGCTAAGTCTCGAAGTGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
32170570 AGTAATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
32170610 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
32170650 AGTAATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
32170690 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
32170730 AGTGATGTATCCGGAG-TAAGT-TCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGG-GCTAAGTCT-CGAAGAGCATTCGTGCT
* * ** *
32170770 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * * * *
32170810 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCA
32170842 ATCATGCTGG
Statistics
Matches: 290, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 287 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
Found at i:32174791 original size:49 final size:47
Alignment explanation
Indices: 32174693--32174968 Score: 435
Period size: 47 Copynumber: 5.8 Consensus size: 47
32174683 ATTTAGGATT
*
32174693 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
32174740 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
32174789 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
32174838 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
32174885 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
32174932 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
32174969 TCCCGAAGGG
Statistics
Matches: 216, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
47 121 0.56
49 95 0.44
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:32174867 original size:96 final size:94
Alignment explanation
Indices: 32174693--32174968 Score: 435
Period size: 96 Copynumber: 2.9 Consensus size: 94
32174683 ATTTAGGATT
*
32174693 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
32174758 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
32174789 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
32174854 AAAGTGTATATATGTGATAAGGCCTAATGGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
* * * * * * *
32174885 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
32174950 AGTGTATAAATGTGATAAG
66 AGTGTATATATGTGATAAG
32174969 TCCCGAAGGG
Statistics
Matches: 169, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 54 0.32
96 69 0.41
98 46 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGC
Found at i:32186848 original size:26 final size:26
Alignment explanation
Indices: 32186819--32186868 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
32186809 ACACCAATAT
*
32186819 CGCAACAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTACCAGTAACAGTAA
* *
32186845 CGCAGCAAAGCTACCAGTATCAGT
1 CGCAACAAAGCTACCAGTAACAGT
32186869 GTATGTGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.28, G:0.20, T:0.14
Consensus pattern (26 bp):
CGCAACAAAGCTACCAGTAACAGTAA
Found at i:32193025 original size:42 final size:43
Alignment explanation
Indices: 32192917--32193030 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 43
32192907 AACGGGTACA
* *
32192917 ATGCCAATGTCCCAGACGTGGTCTTACATATAATTCAGTATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATATAAATCAGTATCG
** * *
32192960 ATGCCTCTGTCCCAGATAGGGTCTTAC-TCA-AAATCAG-ATACG
1 ATGCCAATGTCCCAGACATGGTCTTACAT-ATAAATCAGTAT-CG
* *
32193002 ATGCCGATGTCCTAGACATGGTCTTACAT
1 ATGCCAATGTCCCAGACATGGTCTTACAT
32193031 GATGTCTCAG
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.04
42 31 0.54
43 24 0.42
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATATAAATCAGTATCG
Found at i:32202164 original size:46 final size:46
Alignment explanation
Indices: 32202114--32202270 Score: 253
Period size: 46 Copynumber: 3.4 Consensus size: 46
32202104 TCACTATAAC
*
32202114 GTAGCCGAAGCTACCACTGTATTGTAGTCGAAGCTACCACTGAGAT
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
32202160 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
* * * *
32202206 GTAGCTGAAGCTACCACTATATTATAGCCGAAGCTACCACTGTA-TT
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTG-AGAT
32202252 GTAGCCGAAGCTACCACTG
1 GTAGCCGAAGCTACCACTG
32202271 AGATGTAGTT
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 102 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (46 bp):
GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
Found at i:32202209 original size:69 final size:70
Alignment explanation
Indices: 32202114--32202279 Score: 259
Period size: 69 Copynumber: 2.4 Consensus size: 70
32202104 TCACTATAAC
* *
32202114 GTAGCCGAAGCTACCACTGTA-TTGTAGTC-GAAGCTACCACTGAGA-TGTAGCCGAAGCTACCA
1 GTAGCCGAAGCTACCACTG-AGATGTAGTCTGAAGCTACCACT-AGATTATAGCCGAAGCTACCA
32202176 CTGTATT
64 CTGTATT
*
32202183 GTAGCCGAAGCTACCACTGAGATGTAG-CTGAAGCTACCACTATATTATAGCCGAAGCTACCACT
1 GTAGCCGAAGCTACCACTGAGATGTAGTCTGAAGCTACCACTAGATTATAGCCGAAGCTACCACT
32202247 GTATT
66 GTATT
32202252 GTAGCCGAAGCTACCACTGAGATGTAGT
1 GTAGCCGAAGCTACCACTGAGATGTAGT
32202280 TGATAGATTC
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
68 4 0.04
69 86 0.96
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (70 bp):
GTAGCCGAAGCTACCACTGAGATGTAGTCTGAAGCTACCACTAGATTATAGCCGAAGCTACCACT
GTATT
Found at i:32202270 original size:23 final size:23
Alignment explanation
Indices: 32202114--32202270 Score: 228
Period size: 23 Copynumber: 6.8 Consensus size: 23
32202104 TCACTATAAC
32202114 GTAGCCGAAGCTACCACTGTATT
1 GTAGCCGAAGCTACCACTGTATT
* *
32202137 GTAGTCGAAGCTACCACTG-AGAT
1 GTAGCCGAAGCTACCACTGTA-TT
32202160 GTAGCCGAAGCTACCACTGTATT
1 GTAGCCGAAGCTACCACTGTATT
*
32202183 GTAGCCGAAGCTACCACTG-AGAT
1 GTAGCCGAAGCTACCACTGTA-TT
* *
32202206 GTAGCTGAAGCTACCACTATATT
1 GTAGCCGAAGCTACCACTGTATT
*
32202229 ATAGCCGAAGCTACCACTGTATT
1 GTAGCCGAAGCTACCACTGTATT
32202252 GTAGCCGAAGCTACCACTG
1 GTAGCCGAAGCTACCACTG
32202271 AGATGTAGTT
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
22 2 0.02
23 114 0.97
24 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (23 bp):
GTAGCCGAAGCTACCACTGTATT
Found at i:32207574 original size:6 final size:6
Alignment explanation
Indices: 32207558--32207669 Score: 59
Period size: 6 Copynumber: 18.0 Consensus size: 6
32207548 TAACCCATTA
* * * * *
32207558 CAGAAT AAGAAT CAGAAT CGGAAT TAG-GT GACAGAAT CAAAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT
* * *
32207607 CAGTAT CAGGTAA- CAGAAT CAAAAT CAGAAT CAGTAT CAGGTAA- CAGAAT
1 CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT
*
32207657 CAAAAAT CAGAAT
1 C-AGAAT CAGAAT
32207670 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
5 5 0.06
6 57 0.73
7 13 0.17
8 3 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
CAGAAT
Found at i:32207602 original size:31 final size:31
Alignment explanation
Indices: 32207557--32207669 Score: 165
Period size: 31 Copynumber: 3.6 Consensus size: 31
32207547 TTAACCCATT
* * * *
32207557 ACAGAAT-AAGAATCAGAATCGGAATTAGGTG
1 ACAGAATCAA-AATCAGAATCAGTATCAGGTA
32207588 ACAGAATCAAAATCAGAATCAGTATCAGGTA
1 ACAGAATCAAAATCAGAATCAGTATCAGGTA
32207619 ACAGAATCAAAATCAGAATCAGTATCAGGTA
1 ACAGAATCAAAATCAGAATCAGTATCAGGTA
32207650 ACAGAATCAAAAATCAGAAT
1 ACAGAATC-AAAATCAGAAT
32207670 GTGAATGCAA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
31 63 0.83
32 13 0.17
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
ACAGAATCAAAATCAGAATCAGTATCAGGTA
Found at i:32207625 original size:19 final size:19
Alignment explanation
Indices: 32207601--32207658 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
32207591 GAATCAAAAT
32207601 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
32207620 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
32207632 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
32207651 CAGAATCA
1 CAGAATCA
32207659 AAAATCAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:32207848 original size:27 final size:26
Alignment explanation
Indices: 32207806--32207907 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
32207796 GCTCAGTTAT
* *
32207806 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
32207833 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
32207859 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
32207887 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
32207908 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:32208094 original size:22 final size:22
Alignment explanation
Indices: 32208066--32208130 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
32208056 GCAAATACGT
*
32208066 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
32208088 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
32208110 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
32208131 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:32208612 original size:27 final size:27
Alignment explanation
Indices: 32208573--32209041 Score: 601
Period size: 27 Copynumber: 17.6 Consensus size: 27
32208563 TACCACACAA
* * *
32208573 GGTATCTCGGTAATTCCACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
32208600 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32208627 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
32208654 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
32208681 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
32208708 GGTATTTCAGTGATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32208735 GGTA-TTCTGGTAATTCTACCCTACTGG
1 GGTATTTC-GGTAATTCTACCCTACAGG
* * *
32208762 GGTATTCCGGTAATTCTACCTTATTA-G
1 GGTATTTCGGTAATTCTACCCTA-CAGG
* *
32208789 GGTATTTCGGTAATTCTACTCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
32208816 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32208843 GGTATTTCGGCAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32208870 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32208897 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32208924 GGTATTTCAGTAA-T-T---CTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
32208946 GGTATTCCGGTAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
32208973 GGTATTCCGGTAATTCTGCCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
32209000 GGTATTCCGGTAGTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
32209027 GGTATTCCGGTAATT
1 GGTATTTCGGTAATT
32209042 TTATAAACAA
Statistics
Matches: 391, Mismatches: 42, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
22 18 0.05
23 1 0.00
24 1 0.00
25 1 0.00
26 6 0.02
27 362 0.93
28 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:32209211 original size:27 final size:27
Alignment explanation
Indices: 32209026--32209204 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
32209016 TACCCTACAA
** * *
32209026 GGGTATTCCGGTAATTTTATAAACAAT
1 GGGTATTTTGGTAATTTTATAAACCAG
* * * *
32209053 GGGTATTGTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
32209080 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAG
*
32209107 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
32209134 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
32209161 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
32209188 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
32209205 GGTAAACTAA
Statistics
Matches: 129, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAG
Found at i:32209211 original size:54 final size:54
Alignment explanation
Indices: 32209026--32209204 Score: 270
Period size: 54 Copynumber: 3.3 Consensus size: 54
32209016 TACCCTACAA
** * *
32209026 GGGTATTCCGGTAATTTTATAAA-CAATGGGTATTGTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA-GGGTATTTTAGTAATTTTACAAACCAG
* * *
32209080 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
*
32209134 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
32209188 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
32209205 GGTAAACTAA
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
54 110 0.98
55 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:32215682 original size:16 final size:16
Alignment explanation
Indices: 32215661--32215691 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32215651 CACAAATGCT
32215661 GACTTTTCGGCTTTTC
1 GACTTTTCGGCTTTTC
32215677 GACTTTTCGGCTTTT
1 GACTTTTCGGCTTTT
32215692 ACCGATCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.23, G:0.19, T:0.52
Consensus pattern (16 bp):
GACTTTTCGGCTTTTC
Found at i:32216492 original size:5 final size:5
Alignment explanation
Indices: 32216484--32216515 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
32216474 GTAGATGAAG
32216484 AGAAA AGAAA AGAAA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
32216516 AATTGAATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:32216502 original size:15 final size:16
Alignment explanation
Indices: 32216460--32216515 Score: 71
Period size: 15 Copynumber: 3.6 Consensus size: 16
32216450 TATGGGGGAA
32216460 AAGAAGAAAAG-AAAG
1 AAGAAGAAAAGAAAAG
* * *
32216475 TAGATGAAGAGAAAAG
1 AAGAAGAAAAGAAAAG
32216491 AA-AAGAAAAGAAAAG
1 AAGAAGAAAAGAAAAG
32216506 AAGAAGAAAA
1 AAGAAGAAAA
32216516 AATTGAATCC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 21 0.64
16 12 0.36
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (16 bp):
AAGAAGAAAAGAAAAG
Found at i:32216508 original size:25 final size:26
Alignment explanation
Indices: 32216463--32216515 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
32216453 GGGGGAAAAG
* *
32216463 AAGAAAAGAAAGTAGATGAAG-AGAA
1 AAGAAAAGAAAGTAAAAGAAGAAGAA
32216488 AAGAAAAGAAAAG-AAAAGAAGAAGAA
1 AAGAAAAG-AAAGTAAAAGAAGAAGAA
32216514 AA
1 AA
32216516 AATTGAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.04
Consensus pattern (26 bp):
AAGAAAAGAAAGTAAAAGAAGAAGAA
Found at i:32217575 original size:19 final size:18
Alignment explanation
Indices: 32217538--32217581 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
32217528 ATACTTACAG
32217538 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
32217555 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
32217574 TACTAATT
1 TAATAATT
32217582 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:32218326 original size:20 final size:20
Alignment explanation
Indices: 32218301--32218340 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
32218291 CATGAGTTTT
32218301 GGCTTGCAGTTGTTGATATG
1 GGCTTGCAGTTGTTGATATG
*
32218321 GGCTTGTAGTTGTTGATATG
1 GGCTTGCAGTTGTTGATATG
32218341 TATGACTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.07, G:0.35, T:0.42
Consensus pattern (20 bp):
GGCTTGCAGTTGTTGATATG
Found at i:32219780 original size:24 final size:24
Alignment explanation
Indices: 32219753--32219822 Score: 122
Period size: 24 Copynumber: 2.9 Consensus size: 24
32219743 CTTTAGAAGA
*
32219753 ATGTATCAAATGCGTAGTATCTGG
1 ATGTATCAAATACGTAGTATCTGG
32219777 ATGTATCAAATACGTAGTATCTGG
1 ATGTATCAAATACGTAGTATCTGG
*
32219801 ATGTATCAAATACATAGTATCT
1 ATGTATCAAATACGTAGTATCT
32219823 TTGCTTAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (24 bp):
ATGTATCAAATACGTAGTATCTGG
Found at i:32222412 original size:40 final size:40
Alignment explanation
Indices: 32222353--32222580 Score: 357
Period size: 40 Copynumber: 5.7 Consensus size: 40
32222343 GAGCATTGGA
* *
32222353 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCTAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* * *
32222393 ATATATCCGGGCTATGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* * *
32222433 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
32222473 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
32222513 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* * *
32222553 ATATGTCTGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
32222581 ATGTGTTTGC
Statistics
Matches: 178, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 178 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:32229132 original size:40 final size:40
Alignment explanation
Indices: 32229077--32229215 Score: 131
Period size: 40 Copynumber: 3.4 Consensus size: 40
32229067 TGACTATGTT
32229077 TGGCACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACAAA
1 TGGCACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACAAA
* * *
32229117 TGGCACTAAGTGTGCGAGTT-GGAATAGCTTCGGCTATATGA
1 TGGCACTAAGTGTGCG-GTTCGAAATAGCTTCGGCTACA-AA
* * * *
32229158 -GGCATTAAGTGTGCGATACCGAGAA-AGCTTCGGTTACTGAAA
1 TGGCACTAAGTGTGCGGT-TCGA-AATAGCTTCGGCTAC--AAA
*
32229200 TGGCACTAAGCGTGCG
1 TGGCACTAAGTGTGCG
32229216 AGACTGTTAC
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
39 1 0.01
40 46 0.58
41 15 0.19
42 3 0.04
43 14 0.18
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACAAA
Found at i:32237516 original size:40 final size:40
Alignment explanation
Indices: 32237422--32237606 Score: 232
Period size: 40 Copynumber: 4.6 Consensus size: 40
32237412 TATTCGAATG
*
32237422 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
32237463 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
32237503 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
32237543 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
32237583 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
32237607 CTTGTGCAAG
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 93 0.75
41 29 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:32237590 original size:80 final size:81
Alignment explanation
Indices: 32237422--32237606 Score: 259
Period size: 80 Copynumber: 2.3 Consensus size: 81
32237412 TATTCGAATG
* * *
32237422 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
32237487 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* *
32237503 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
32237566 CATTTATGCTAG-TGACT
65 CATTCATGCGAGTTG-CT
32237583 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
32237607 CTTGTGCAAG
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
79 3 0.03
80 59 0.63
81 32 0.34
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Found at i:32238831 original size:163 final size:163
Alignment explanation
Indices: 32238561--32238890 Score: 624
Period size: 163 Copynumber: 2.0 Consensus size: 163
32238551 TTCGACTTTG
*
32238561 GAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGTCATATATGTACAGGTTCCTTTTT
1 GAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGTCATATATGTACAGGTTCCTTTTC
* *
32238626 GAGTCTAGTTTCTATAGAAACAAACGGAATCAGTATTGAAGCCCTGTATAGGTAGATATCCAAGT
66 GAGTCTAGTTTCTATAGAAACAAACGGAATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAGT
32238691 CGTAATGCACAAAGGTCAGTATAGTCGAACCCT
131 CGTAATGCACAAAGGTCAGTATAGTCGAACCCT
32238724 GAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGTCATATATGTACAGGTTCCTTTTC
1 GAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGTCATATATGTACAGGTTCCTTTTC
32238789 GAGTCTAGTTTCTATAGAAACAAACGGAATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAGT
66 GAGTCTAGTTTCTATAGAAACAAACGGAATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAGT
*
32238854 CGTAATGCGCAAAGGTCAGTATAGTCGAACCCT
131 CGTAATGCACAAAGGTCAGTATAGTCGAACCCT
32238887 GAAA
1 GAAA
32238891 CAGGGGAGAC
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 163 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (163 bp):
GAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGTCATATATGTACAGGTTCCTTTTC
GAGTCTAGTTTCTATAGAAACAAACGGAATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAGT
CGTAATGCACAAAGGTCAGTATAGTCGAACCCT
Found at i:32245930 original size:40 final size:41
Alignment explanation
Indices: 32245836--32246056 Score: 255
Period size: 40 Copynumber: 5.6 Consensus size: 41
32245826 TATTCGAATG
*
32245836 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
32245877 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
32245917 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
32245957 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
32245997 ATATCCGGGCTAAGA-CCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
32246036 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
32246057 ATTACTTGAG
Statistics
Matches: 156, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 16 0.10
40 95 0.61
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:32247927 original size:24 final size:24
Alignment explanation
Indices: 32247889--32247984 Score: 120
Period size: 24 Copynumber: 3.8 Consensus size: 24
32247879 ATTGTGCTAT
*
32247889 GTGAAATAAGACCATGGCATCTAA
1 GTGAAATAAGTCCATGGCATCTAA
* *
32247913 GTGAAACATGTCCATGGCAATGTGCTAA
1 GTGAAATAAGTCCATGGC-A--T-CTAA
*
32247941 GTGAAATAAGTCCATGGTATCTAA
1 GTGAAATAAGTCCATGGCATCTAA
32247965 GTGAAATAAGTCCATGGCAT
1 GTGAAATAAGTCCATGGCAT
32247985 TATGCTAAGT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
24 38 0.62
25 2 0.03
27 2 0.03
28 19 0.31
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (24 bp):
GTGAAATAAGTCCATGGCATCTAA
Found at i:32247945 original size:52 final size:52
Alignment explanation
Indices: 32247881--32247994 Score: 165
Period size: 52 Copynumber: 2.2 Consensus size: 52
32247871 GATATGATAT
* *
32247881 TGTGCTATGTGAAATAAGACCATGGCATCTAAGTGAAACATGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAACAAGTCCATGGCAA
* * * *
32247933 TGTGCTAAGTGAAATAAGTCCATGGTATCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAACAAGTCCATGGCAA
*
32247985 TATGCTAAGT
1 TGTGCTAAGT
32247995 AAGAAATTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAACAAGTCCATGGCAA
Found at i:32248144 original size:50 final size:51
Alignment explanation
Indices: 32248020--32248166 Score: 253
Period size: 50 Copynumber: 2.9 Consensus size: 51
32248010 TGAACCTTAG
32248020 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
32248071 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC-TTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
32248121 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
32248167 CGTGTATCCG
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 1 0.01
50 46 0.50
51 45 0.49
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:32255518 original size:27 final size:27
Alignment explanation
Indices: 32255488--32255747 Score: 358
Period size: 27 Copynumber: 9.6 Consensus size: 27
32255478 TTAGTTTACC
32255488 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
32255515 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
32255542 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
32255569 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
32255596 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
32255623 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
32255650 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
32255677 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
32255704 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
32255731 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
32255748 TCGACCTGTA
Statistics
Matches: 211, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 211 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:32255758 original size:81 final size:81
Alignment explanation
Indices: 32255488--32255800 Score: 332
Period size: 81 Copynumber: 3.9 Consensus size: 81
32255478 TTAGTTTACC
* * * * **
32255488 AAATTACCAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAA
1 AAATTACTAAAATACCCTC-GATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
*
32255552 AATACCCTTGGTTTGTA
65 AATACCCCTGGTTTGTA
* *
32255569 AAATTACTAAAATACCCTTTG-TTTATAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA
1 AAATTACTAAAATACCC-TCGATTTGTAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCA
32255632 AAATACCCCTGGTTTGTA
64 AAATACCCCTGGTTTGTA
* *
32255650 AAATTA-TCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCA
1 AAATTACT-AAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA
** *
32255713 AAATACCCCTAATTTGTG
64 AAATACCCCTGGTTTGTA
* ** *** *
32255731 AAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAA
*
32255795 AGTACC
65 AATACC
32255801 ATTGATTTAC
Statistics
Matches: 197, Mismatches: 25, Indels: 20
0.81 0.10 0.08
Matches are distributed among these distances:
80 5 0.03
81 187 0.95
82 5 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
ATACCCCTGGTTTGTA
Found at i:32255762 original size:54 final size:54
Alignment explanation
Indices: 32255488--32255800 Score: 337
Period size: 54 Copynumber: 5.8 Consensus size: 54
32255478 TTAGTTTACC
* * * **
32255488 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * * * *
32255542 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-TCGATTTGTA
*
32255596 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTC-GATTTGTA
* *
32255650 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTC-GATTTGTA
* * ** **
32255704 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
*** * * *
32255758 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACC
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACC
32255801 ATTGATTTAC
Statistics
Matches: 225, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
53 5 0.02
54 216 0.96
55 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTGTA
Found at i:32255854 original size:27 final size:27
Alignment explanation
Indices: 32255488--32255854 Score: 289
Period size: 27 Copynumber: 13.6 Consensus size: 27
32255478 TTAGTTTACC
*
32255488 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * **
32255515 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
32255542 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
32255569 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
32255596 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
32255623 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
32255650 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
32255677 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
32255704 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
32255731 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
32255758 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * **
32255785 AAATTACCAAAGTACCATTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** *
32255812 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
32255839 AAATTACCGAAATACC
1 AAATTACCAAAATACC
32255855 TTTATAGGGT
Statistics
Matches: 283, Mismatches: 49, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
27 278 0.98
28 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:32255873 original size:27 final size:27
Alignment explanation
Indices: 32255840--32256070 Score: 300
Period size: 27 Copynumber: 8.6 Consensus size: 27
32255830 CGATTTATAA
* ** *
32255840 AATTACCGAAATACCTTTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
32255867 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
32255894 AATTATCGTAATACCCCTGTAAGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
32255921 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
32255948 AATTATCGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * *
32255975 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
32256002 AATTATCAAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
** *
32256029 AATTATTAAAATACCCCTGTAGGGTGG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
32256056 AATTATCGAGATACC
1 AATTATCGAAATACC
32256071 TTGTGGGGTA
Statistics
Matches: 181, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 181 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:32256567 original size:22 final size:22
Alignment explanation
Indices: 32256515--32256579 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
32256505 TTAAAGCCTT
* *
32256515 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
32256537 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
32256559 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
32256580 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:32256817 original size:27 final size:26
Alignment explanation
Indices: 32256737--32256838 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
32256727 ATTCTGTTAA
* ** *
32256737 GTGGCTTTGCCACTTTATCTGTTTCTA
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
32256764 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
32256791 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* * *
32256818 GTGACTCTGTCACATTATCTG
1 GTGGCTCTGCCACAATATCTG
32256839 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 9 0.14
27 50 0.77
28 6 0.09
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:32257010 original size:31 final size:31
Alignment explanation
Indices: 32256975--32257047 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
32256965 TTGCATTCAC
* *
32256975 ATTTTGATTTTGATTCTGTTACCTGATACTG
1 ATTTTGATTCTGATTCTGTCACCTGATACTG
* *
32257006 ATTTTGATTCTGATTCTGTCACTTGATTCTG
1 ATTTTGATTCTGATTCTGTCACCTGATACTG
*
32257037 ATTCTGATTCT
1 ATTTTGATTCT
32257048 AGTTCTGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (31 bp):
ATTTTGATTCTGATTCTGTCACCTGATACTG
Found at i:32257013 original size:6 final size:6
Alignment explanation
Indices: 32256997--32257056 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
32256987 ATTCTGTTAC
* * *
32256997 CTGATA CTGATT TTGATT CTGATT CTG-TCA CTTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT-T C-TGATT CTGATT CTGATT
32257046 CT-AGTT CTGAT
1 CTGA-TT CTGAT
32257057 AATGTTTCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
5 2 0.05
6 37 0.84
7 4 0.09
8 1 0.02
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:32257032 original size:25 final size:25
Alignment explanation
Indices: 32256978--32257047 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
32256968 CATTCACATT
32256978 TTGATTTTGATTCTG-TTACCTGATAC
1 TTGATTTTGATTCTGATT--CTGATAC
32257004 -TGATTTTGATTCTGATTCTG-TCAC
1 TTGATTTTGATTCTGATTCTGAT-AC
*
32257028 TTGATTCTGATTCTGATTCT
1 TTGATTTTGATTCTGATTCT
32257048 AGTTCTGATA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 1 0.03
24 5 0.12
25 32 0.80
26 2 0.05
ACGTcount: A:0.17, C:0.16, G:0.16, T:0.51
Consensus pattern (25 bp):
TTGATTTTGATTCTGATTCTGATAC
Found at i:32262282 original size:41 final size:41
Alignment explanation
Indices: 32262171--32262320 Score: 121
Period size: 41 Copynumber: 3.7 Consensus size: 41
32262161 GATATTCGGG
* * ** * *
32262171 CTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTTAATCGGG
1 CTTTGAGCCTAGCAAGCTTTGTGCTGGTGTATAAAATCAGA
*
32262212 CTTT-ATGCCTAGCAGGCTTAT-TGCTGGTGTATAAAATCAGA
1 CTTTGA-GCCTAGCAAGCTT-TGTGCTGGTGTATAAAATCAGA
* * * *
32262253 CTTTGAGTCTAGCAAGCTTTGTGCCGGTG--TGAAATACAGG
1 CTTTGAGCCTAGCAAGCTTTGTGCTGGTGTATAAAAT-CAGA
* *
32262293 CTTAG-GCCTAGCAAGCTTTATGCTGGTG
1 CTTTGAGCCTAGCAAGCTTTGTGCTGGTG
32262321 AATTATTATA
Statistics
Matches: 88, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
39 25 0.28
40 9 0.10
41 52 0.59
42 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (41 bp):
CTTTGAGCCTAGCAAGCTTTGTGCTGGTGTATAAAATCAGA
Found at i:32266644 original size:40 final size:40
Alignment explanation
Indices: 32266586--32266752 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
32266576 TCTTCAGGAT
*
32266586 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
32266625 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * *
32266665 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTC-GGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* ** *
32266704 ATAGCCCGGATATAGCAACTCGCATGAATGCCTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
32266744 TTAGTCCGG
1 TTAGCCCGG
32266753 TTACCATCCG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.02
39 35 0.32
40 72 0.65
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:32266720 original size:79 final size:79
Alignment explanation
Indices: 32266577--32266752 Score: 232
Period size: 79 Copynumber: 2.2 Consensus size: 79
32266567 ACCCAAGTAT
* * *
32266577 CTTCAGGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTC-GGATCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGC
32266641 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
32266656 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTC-GGACATAGCCCGGATATAG
1 CTTCGGATCTTAG-CCGGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAG
**
32266719 CAACTCGCATGAATGC
64 CAACTCGCACAAATGC
32266735 CTTCGGATCTTAGTCCGG
1 CTTCGGATCTTAG-CCGG
32266753 TTACCATCCG
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 3 0.04
79 55 0.65
80 26 0.31
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:32268797 original size:28 final size:28
Alignment explanation
Indices: 32268734--32268831 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
32268724 ATATTAAGTC
*
32268734 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
32268761 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
32268789 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
32268818 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32268832 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:32282132 original size:55 final size:55
Alignment explanation
Indices: 32282073--32282186 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 55
32282063 AGCATGGCTG
* *
32282073 CCAGATACAGA-A-ATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGA-ACAGATATATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
** *
32282128 CCAGAACAGATATATGTGGTAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
32282183 CCAG
1 CCAG
32282187 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 6 0.12
55 30 0.59
56 15 0.29
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (55 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:32282154 original size:27 final size:28
Alignment explanation
Indices: 32282097--32282186 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
32282087 GTGACAGAGT
* *
32282097 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
*
32282126 CACCAGAACAGATA-TATGTGGTAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
**
32282153 CACCAGAACAGATAATT-TGTGGCATAGC
1 CACCAGAACAGAT-ATTATGTGGCAGGGC
32282181 CACCAG
1 CACCAG
32282187 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 22 0.42
29 8 0.15
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:32282385 original size:28 final size:28
Alignment explanation
Indices: 32282292--32282385 Score: 125
Period size: 28 Copynumber: 3.3 Consensus size: 28
32282282 AAATTAACCC
* * **
32282292 TAGGGGTATAAAGGTCATTTTTAATTACA
1 TAGGGGTATAATGGTAATTTTGCA-TACA
* *
32282321 TAAGGGTAGAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
32282349 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
32282377 TAGGGGTAT
1 TAGGGGTAT
32282386 TCTAGTACAT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 39 0.68
29 18 0.32
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:32285252 original size:47 final size:47
Alignment explanation
Indices: 32285174--32285485 Score: 480
Period size: 47 Copynumber: 6.6 Consensus size: 47
32285164 CCCTTCGGGA
* * * * * *
32285174 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
32285221 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
32285268 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32285315 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32285362 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32285411 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
32285460 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
32285486 CACAATTATC
Statistics
Matches: 247, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 151 0.61
49 96 0.39
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:32288954 original size:40 final size:40
Alignment explanation
Indices: 32288897--32289256 Score: 483
Period size: 40 Copynumber: 9.1 Consensus size: 40
32288887 CGAATACACG
* * * *
32288897 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
32288937 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
32288977 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
32289017 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
32289057 TCACTAGCACGAATGCTCTTCGGG-TTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * *
32289096 TCACTTGAACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
32289136 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
32289175 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
32289215 TCAGTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
32289254 TCA
1 TCA
32289257 TCGAGACCTT
Statistics
Matches: 279, Mismatches: 39, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
39 75 0.27
40 204 0.73
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:32289124 original size:119 final size:118
Alignment explanation
Indices: 32288897--32289256 Score: 533
Period size: 119 Copynumber: 3.0 Consensus size: 118
32288887 CGAATACACG
* * * * * *
32288897 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGG
1 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAATGCTC-TTCGGG
32288962 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
64 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
*
32289017 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGT
1 TCACTAGCATGAATGCTCTTCG-GACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGT
* *
32289082 TTAGCACGGATATATCACTTGAACGAATGCTCTTCGGAACTTAGTCCGGATACA
65 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
* *
32289136 TCACTAGCATGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGAC
1 TCACTAGCATGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG-T
* * * * *
32289201 TTAGCCCGGATACATCAGTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
65 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
32289254 TCA
1 TCA
32289257 TCGAGACCTT
Statistics
Matches: 219, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
118 45 0.21
119 124 0.57
120 50 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (118 bp):
TCACTAGCATGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGTT
TAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
Found at i:32289131 original size:79 final size:79
Alignment explanation
Indices: 32288897--32289256 Score: 445
Period size: 79 Copynumber: 4.5 Consensus size: 79
32288887 CGAATACACG
* * * * * * * **
32288897 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGG
1 TCACTAGCACGAATGCTCTTCGGG-CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
* * *
32288962 TTTAGCACGGATATA
65 CTTAGCCCGGATACA
* *
32288977 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTC-GAG
1 TCACTAGCACGAATGCTCTTCGG-GCTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGA-
32289041 ACTTAGCCCGGATACA
64 ACTTAGCCCGGATACA
* * * * *
32289057 TCACTAGCACGAATGCTCTTCGGGTTTAGCACGGATATATCACTTGAACGAATGCTCTTCGGAAC
1 TCACTAGCACGAATGCTCTTCGGGCTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
32289122 TTAGTCCGGATACA
66 TTAGCCCGGATACA
* * * *
32289136 TCACTAGCATGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGAC
1 TCACTAGCACGAATGCTCTTCGGGCTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
32289201 TTAGCCCGGATACA
66 TTAGCCCGGATACA
*
32289215 TCAGTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CATCA
1 TCACTAGCACGAATGCTCTTCGGG-CTTAGCCCGGATACATCA
32289257 TCGAGACCTT
Statistics
Matches: 241, Mismatches: 35, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
79 141 0.59
80 100 0.41
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
TCACTAGCACGAATGCTCTTCGGGCTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
TTAGCCCGGATACA
Done.