Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 293 of 325
Found at i:89898016 original size:177 final size:177
Alignment explanation
Indices: 89897285--89897987 Score: 906
Period size: 177 Copynumber: 4.0 Consensus size: 177
89897275 TATCCCCATG
* ** * * * *
89897285 AGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCATACTG
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-
** * * *
89897350 AAA-ATCATAGATCTTATCTCCCTAAACAGTAGTGAAGTAGATCGAAGATGGCGAATCTTATCTT
65 AAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTT
* * * *
89897414 CTCGAGGTAGCAAGGGAGCAGATTTTAGCCATCAGCCTTATCTCTCTA
130 CCCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* *
89897462 AGGTAGCAAGAGAGCAGGTTGAAGTTTATAGTCTTATCTTCCTGAGGAAGCAAGAAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * * *
89897527 AAGATTGTAGATCTTATTTCCCTAAGCAGTAGTGGAACTGATCGAAGATGACGAATCTTATCTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTC
* * *
89897592 CCGATGTAGTAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTG
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* * * * * * * *
89897639 ATGTGGTAAGAGAGTAAGTTAAAGTTTAAAGTCTTATCTTCCTTAGGTAGCAAGGAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * *
89897704 AAGATTGTAGATCTTAT-TCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTC
* * * *
89897768 CCGAGGTAGTAGGCGAGCAGATTTTAGCCACCAGTCTTATCTCTCTA
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* * * * * *
89897815 AGGTAACAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTTCTAAGGTAGCAAGGAAGCACACTG
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
89897880 AAGATTGTAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTC
** * * * *
89897945 TAGAGGTAGCAGGGGAACAAATTTTAGCTACTAGTCTTATCTC
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTC
89897988 CCTGAAGTTG
Statistics
Matches: 453, Mismatches: 71, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
176 154 0.34
177 299 0.66
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (177 bp):
AGGTAGCAAGAGAGCAGGTTGAAGTTTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTC
CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
Found at i:89898030 original size:353 final size:355
Alignment explanation
Indices: 89897317--89898034 Score: 946
Period size: 353 Copynumber: 2.0 Consensus size: 355
89897307 AGATTGTAGT
*
89897317 CTTATCTT-CTTGAGGTAGCAAGGAAGCATACTGAAAATCATAGATCTTATCTCCCTAAACAGTA
1 CTTATCTTCCTTGAGGTAGCAAGGAAGCAGACTGAAAATCATAGATCTTATCTCCCTAAACAGTA
* * *
89897381 GTGAAGTAGATCGAAGATGGCGAATCTTATCTTCTCGAGGTAGCAAGGGAGCAGATTTTAGCCAT
66 GTGAAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAAGGGAGCAGATTTTAGCCAC
* *
89897446 CAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGTTTATAGTCTTATCTTCCTGAGGAA
131 CAGCCTTATCTCTCTAAGGTAACAAGAGAGCAGGTTGAAGTTTATAGTCTTATCTTCCTAAGGAA
* * *
89897511 GCAAGAAAGCAGACTAAAGATTGTAGATCTTATTTCCCTAAGCAGTAGTGGAACTGATCGAAGAT
196 GCAAGAAAGCACACTAAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGAT
* * * * * *
89897576 GACGAATCTTATCTTCCCGATGTAGTAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAT
261 GACGAATCTTATCTTCCAGAGGTAGCAGGGGAACAAATTTTAGCCACCAGCCTTATCTCCCTGAA
* * **
89897641 GTGGTAAGAGAGTAAGTTAAAGTTTAAAGT
326 GTGGTAAGAGAGGAAGTTAAAGTTCAAAAC
** * *
89897671 CTTATCTTCCTT-AGGTAGCAAGGAAGCAGACT-AAAGATTGTAGATCTTAT-TCCTTAAGCAGT
1 CTTATCTTCCTTGAGGTAGCAAGGAAGCAGACTGAAA-ATCATAGATCTTATCTCCCTAAACAGT
* * * *
89897733 AGTGGAGCAGATCGAAGATGGTGAATCTTATTTTCCCGAGGTAG-TAGGCGAGCAGATTTTAGCC
65 AGTGAAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAAGG-GAGCAGATTTTAGCC
* * *
89897797 ACCAGTCTTATCTCTCTAAGGTAACAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTTCTAAGG
129 ACCAGCCTTATCTCTCTAAGGTAACAAGAGAGCAGGTTGAAGTTTATAGTCTTATCTTCCTAAGG
* * * * *
89897862 TAGCAAGGAAGCACACTGAAGATTGTAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
194 AAGCAAGAAAGCACACTAAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAG
* * * * *
89897927 ATGGCGAATCTTATCTTCTAGAGGTAGCAGGGGAACAAATTTTAGCTACTAGTCTTATCTCCCTG
259 ATGACGAATCTTATCTTCCAGAGGTAGCAGGGGAACAAATTTTAGCCACCAGCCTTATCTCCCTG
* * * * *
89897992 AAGTTG-CAGTGGAGGAGGTTGAAG-TCACAAAC
324 AAGTGGTAAG-AGAGGAAGTTAAAGTTCA-AAAC
89898024 CTTATCTTCCT
1 CTTATCTTCCT
89898035 GAAGTTGCTG
Statistics
Matches: 314, Mismatches: 45, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
352 7 0.02
353 265 0.84
354 39 0.12
355 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (355 bp):
CTTATCTTCCTTGAGGTAGCAAGGAAGCAGACTGAAAATCATAGATCTTATCTCCCTAAACAGTA
GTGAAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCAAGGGAGCAGATTTTAGCCAC
CAGCCTTATCTCTCTAAGGTAACAAGAGAGCAGGTTGAAGTTTATAGTCTTATCTTCCTAAGGAA
GCAAGAAAGCACACTAAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGAT
GACGAATCTTATCTTCCAGAGGTAGCAGGGGAACAAATTTTAGCCACCAGCCTTATCTCCCTGAA
GTGGTAAGAGAGGAAGTTAAAGTTCAAAAC
Found at i:89899572 original size:2 final size:2
Alignment explanation
Indices: 89899559--89899594 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
89899549 TTTTAGATTG
*
89899559 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89899595 TGTTTTGTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:89899666 original size:15 final size:15
Alignment explanation
Indices: 89899643--89899677 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
89899633 TTATTCTAAA
*
89899643 ATTAATTTATATATT
1 ATTAATTTACATATT
*
89899658 ATTATTTTACATATT
1 ATTAATTTACATATT
89899673 ATTAA
1 ATTAA
89899678 CTTTTGATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTAATTTACATATT
Found at i:89902131 original size:15 final size:15
Alignment explanation
Indices: 89902121--89902172 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
89902111 TTTTTTCTTT
89902121 TTATTTATTTTATTA
1 TTATTTATTTTATTA
**
89902136 TTATTTATACTATTA
1 TTATTTATTTTATTA
89902151 -TATTTTATTATTTATTA
1 TTA-TTTA-T-TTTATTA
89902168 TTATT
1 TTATT
89902173 ATATCCATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 2 0.07
15 17 0.59
16 1 0.03
17 7 0.24
18 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTTATTTTATTA
Found at i:89902172 original size:10 final size:10
Alignment explanation
Indices: 89902129--89902172 Score: 54
Period size: 10 Copynumber: 4.2 Consensus size: 10
89902119 TTTTATTTAT
89902129 TTTATTATTA
1 TTTATTATTA
89902139 TTTATACTATTA
1 TTTAT--TATTA
89902151 TATT-TTATTA
1 T-TTATTATTA
89902161 TTTATTATTA
1 TTTATTATTA
89902171 TT
1 TT
89902173 ATATCCATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.07
10 19 0.63
12 7 0.23
13 2 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTATTATTA
Found at i:89902307 original size:2 final size:2
Alignment explanation
Indices: 89902300--89902330 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
89902290 ATCATTTCAA
89902300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
89902331 AATCGTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89902480 original size:21 final size:20
Alignment explanation
Indices: 89902448--89902502 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
89902438 ATTAATATTA
*
89902448 ATATATGTTTTATTATATAT
1 ATATATATTTTATTATATAT
*
89902468 ATATATATCTTTAATATATAT
1 ATATATAT-TTTATTATATAT
* *
89902489 CTGTATATATTTAT
1 ATATATAT-TTTAT
89902503 GTAATATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (20 bp):
ATATATATTTTATTATATAT
Found at i:89902761 original size:25 final size:25
Alignment explanation
Indices: 89902715--89902762 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
89902705 TTTTTTAAAA
* ** *
89902715 ACTATATTATGTATGTATTTTTAGC
1 ACTATATTACGTACATACTTTTAGC
89902740 ACTATATTACGTACATACTTTTA
1 ACTATATTACGTACATACTTTTA
89902763 ATATCATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.48
Consensus pattern (25 bp):
ACTATATTACGTACATACTTTTAGC
Found at i:89902794 original size:2 final size:2
Alignment explanation
Indices: 89902789--89902814 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
89902779 TATATTTTTA
89902789 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
89902815 TTATGTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89902902 original size:20 final size:21
Alignment explanation
Indices: 89902877--89902916 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89902867 ATATATTATA
89902877 TATATA-TTTTCAATACTATG
1 TATATACTTTTCAATACTATG
*
89902897 TATATACTTTTTAATACTAT
1 TATATACTTTTCAATACTAT
89902917 TATTATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TATATACTTTTCAATACTATG
Found at i:89907922 original size:22 final size:23
Alignment explanation
Indices: 89907893--89907946 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
89907883 CCATGACTAA
* *
89907893 CATTCATTCGTCATTTATTCAAT
1 CATTCATTCGACATTCATTCAAT
* *
89907916 -ATTCATTTGACATTCATTCATT
1 CATTCATTCGACATTCATTCAAT
89907938 CATTCATTC
1 CATTCATTC
89907947 ATTGCATGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.48
Consensus pattern (23 bp):
CATTCATTCGACATTCATTCAAT
Found at i:89916187 original size:74 final size:75
Alignment explanation
Indices: 89916094--89916483 Score: 389
Period size: 73 Copynumber: 5.1 Consensus size: 75
89916084 TGATGTTTTT
* * *
89916094 ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACAC-TTGA
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGA
89916157 GGTATTTTCA
66 GGTATTTTCA
89916167 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTG
*
89916231 AGGTAATGTT-A
65 AGGT-ATTTTCA
* * * * *
89916242 ATTTTTGTTCTTCAGTTTGTGTTTCAAAAAATCAATTCATATTGGGAGAGATGAGTTGAGTCTCA
1 ATTTCTGTT-TTCA-----------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
89916307 GGTCACACACTGAGGTATTTTCA
54 GG-CACACGCTGAGGTATTTTCA
* * *
89916330 ATTTATG-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCATACGCTG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTG
*
89916392 AGGTATTTTTA
65 AGGTATTTTCA
* * * * *
89916403 ATTTCTGTTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTTACACACT
1 ATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCT
*
89916468 TAGGTATTTTCA
64 GAGGTATTTTCA
89916480 ATTT
1 ATTT
89916484 TTACCTTTTC
Statistics
Matches: 265, Mismatches: 30, Indels: 40
0.79 0.09 0.12
Matches are distributed among these distances:
73 67 0.25
74 51 0.19
75 22 0.08
76 4 0.02
77 57 0.22
86 41 0.15
87 5 0.02
88 18 0.07
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (75 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGA
GGTATTTTCA
Found at i:89918255 original size:22 final size:20
Alignment explanation
Indices: 89918227--89918266 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
89918217 TTTATTTTAC
89918227 TATTATTTATACTATTATATTT
1 TATTATTTAT--TATTATATTT
89918249 TATTATTTATTATTATAT
1 TATTATTTATTATTATAT
89918267 CCATTCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTATTTATTATTATATTT
Found at i:89918403 original size:2 final size:2
Alignment explanation
Indices: 89918396--89918450 Score: 51
Period size: 2 Copynumber: 28.0 Consensus size: 2
89918386 ATCATTTCTA
* * *
89918396 AT AT AT AT AT AT AT AT AT AT AT AT CGT AT AT GT -T TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
*
89918438 AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT
89918451 TTTAATATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 2 0.05
2 41 0.93
3 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (2 bp):
AT
Found at i:89918437 original size:22 final size:22
Alignment explanation
Indices: 89918397--89919017 Score: 108
Period size: 22 Copynumber: 26.8 Consensus size: 22
89918387 TCATTTCTAA
*
89918397 TATATATATATATATATATATATCG
1 TATATAT-TTTATATATAT-TAT-G
*
89918422 TATATGTTTTATATATATTATG
1 TATATATTTTATATATATTATG
89918444 TATATATTTTA-ATATTATTA-G
1 TATATATTTTATATA-TATTATG
89918465 TTATATATCTTT-TATACTATTTCATG
1 -TATATAT-TTTATATA-TA-TT-ATG
**
89918491 TATATATTTT-TATATTATCCT-
1 TATATATTTTATATA-TATTATG
89918512 TAT-TATTATTAT-TA-A-TAT-
1 TATATATT-TTATATATATTATG
89918530 TAATATATGTTT-TAT-TA-TATG
1 T-ATATAT-TTTATATATATTATG
*
89918551 TATATATCTTTA-ATATATATCTG
1 TATATAT-TTTATATATAT-TATG
*
89918574 TATATA-TTTATGTAATATTAT-
1 TATATATTTTATAT-ATATTATG
* * *
89918595 TA-ATAGTTGTTTTTTAACATTAT-
1 TATATA-TT-TTATAT-ATATTATG
89918618 TAT-TATTTCTAATATGTATATACTATG
1 TATATATTT-T-ATA--TATAT--TATG
* *
89918645 TAAATATTTCAATACTATATTATG
1 TATATATTT-TATA-TATATTATG
* *
89918669 TATACATTTTTTATATATATTACG
1 TAT--ATATTTTATATATATTATG
*
89918693 TATATATATCTT-T-T-TAATAT-
1 TATATAT-T-TTATATATATTATG
* * *
89918713 TGTAT-TTTTATATATGTCATG
1 TATATATTTTATATATATTATG
89918734 TATATATTTCTA-ATACTA-TAT-
1 TATATATTT-TATATA-TATTATG
* * *
89918755 TACATTTTTTTACATATTATCTTATG
1 TATA-TATTTT--ATA-TATATTATG
*
89918781 TATATATTTTTTAAAAACTATATTATG
1 TATATA--TTTT--ATA-TATATTATG
* * *
89918808 TATTTATTTTTAACACTATATTACG
1 TATATA-TTTT-ATA-TATATTATG
*
89918833 TACATATTTTTAATATCATTATTATG
1 TATATA-TTTT-ATAT-A-TATTATG
89918859 TATATATTTTTAATATATATATATG
1 TATATA-TTTT-ATATATAT-TATG
* *
89918884 TGTATA-TTTATGTAGTATTAT-
1 TATATATTTTATATA-TATTATG
*
89918905 TA-ATAGTTGTT-TTTAATATTAT-
1 TATATA-TT-TTATAT-ATATTATG
*
89918927 TAT-TATTTCTAATATGTATATAT-
1 TATATATTT-T-ATATATAT-TATG
*
89918950 TATATA-TATAT-TCAATATTATG
1 TATATATTTTATAT--ATATTATG
89918972 TATATACTTTTTAATACTATTATTATG
1 TATATA--TTTT-ATA-TA-TATTATG
*
89918999 TTTATATTTTAATATATAT
1 TATATATTTT-ATATATAT
89919018 GCGTATGTAT
Statistics
Matches: 456, Mismatches: 63, Indels: 156
0.68 0.09 0.23
Matches are distributed among these distances:
17 2 0.00
18 4 0.01
19 6 0.01
20 40 0.09
21 43 0.09
22 81 0.18
23 68 0.15
24 53 0.12
25 69 0.15
26 46 0.10
27 37 0.08
28 7 0.02
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
TATATATTTTATATATATTATG
Found at i:89918501 original size:24 final size:23
Alignment explanation
Indices: 89918422--89918580 Score: 78
Period size: 23 Copynumber: 7.2 Consensus size: 23
89918412 ATATATATCG
*
89918422 TATATGTTTTATATATATTATGTA
1 TATATCTTTTATATAT-TTATGTA
*
89918446 TATAT-TTTAATAT-TATTA-GTTA
1 TATATCTTTTATATAT-TTATG-TA
89918468 TATATCTTTTATACTATTTCATGTA
1 TATATCTTTTATA-TATTT-ATGTA
89918493 TATAT-TTTTATATTATCCTTAT-TA
1 TATATCTTTTATA-TAT--TTATGTA
*
89918517 T-TAT-TATTA-ATA-TTA---A
1 TATATCTTTTATATATTTATGTA
*
89918533 TATATGTTTTAT-TA--TATGTA
1 TATATCTTTTATATATTTATGTA
* * *
89918553 TATATCTTTAATATATATCTGTA
1 TATATCTTTTATATATTTATGTA
89918576 TATAT
1 TATAT
89918581 TTATGTAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 35
0.72 0.05 0.23
Matches are distributed among these distances:
16 2 0.02
17 5 0.05
18 9 0.08
20 11 0.10
21 5 0.05
22 13 0.12
23 30 0.27
24 21 0.19
25 11 0.10
26 3 0.03
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (23 bp):
TATATCTTTTATATATTTATGTA
Found at i:89918825 original size:25 final size:24
Alignment explanation
Indices: 89918715--89919017 Score: 149
Period size: 25 Copynumber: 12.7 Consensus size: 24
89918705 TTTAATATTG
* *
89918715 TATTTTT-ATATATGTCATGTATA
1 TATTTTTAATATATATTATGTATA
* *
89918738 TATTTCTAATACTATATTA--CAT-
1 TATTTTTAATA-TATATTATGTATA
*
89918760 T-TTTTTACATATTATCTTATGTATA
1 TATTTTTA-ATA-TATATTATGTATA
* *
89918785 TATTTTTTAAAAACTATATTATGTATT
1 TA-TTTTT-AATA-TATATTATGTATA
* * *
89918812 TATTTTTAACACTATATTACGTACA
1 TATTTTTAATA-TATATTATGTATA
89918837 TATTTTTAATATCATTATTATGTATA
1 TATTTTTAATAT-A-TATTATGTATA
*
89918863 TATTTTTAATATATATATATGTGTA
1 TATTTTTAATATATAT-TATGTATA
*
89918888 TA--TTT-ATGTAGTATTAT-TA-A
1 TATTTTTAATATA-TATTATGTATA
*
89918908 TAGTTGTTT-TTA-ATATTAT-TAT-
1 TA-TT-TTTAATATATATTATGTATA
* *
89918930 TATTTCTAATATGTATATAT-TATA
1 TATTTTTAATATATAT-TATGTATA
* *
89918954 TATATATT--CA-ATATTATGTATA
1 TAT-TTTTAATATATATTATGTATA
*
89918976 TACTTTTTAATACTATTATTATGTTTA
1 TA-TTTTTAATA-TA-TATTATGTATA
89919003 TA-TTTTAATATATAT
1 TATTTTTAATATATAT
89919018 GCGTATGTAT
Statistics
Matches: 216, Mismatches: 34, Indels: 60
0.70 0.11 0.19
Matches are distributed among these distances:
20 5 0.02
21 13 0.06
22 42 0.19
23 26 0.12
24 19 0.09
25 51 0.24
26 27 0.12
27 32 0.15
28 1 0.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (24 bp):
TATTTTTAATATATATTATGTATA
Found at i:89924681 original size:16 final size:15
Alignment explanation
Indices: 89924648--89924721 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 15
89924638 GAATCATCTA
* *
89924648 AAAATATCAAAAGAT
1 AAAATATTAAAAAAT
89924663 AAAATATTAAAAAATT
1 AAAATATTAAAAAA-T
*
89924679 AAAACT-TGTCCTAAAAAT
1 AAAA-TAT-T--AAAAAAT
*
89924697 AAAATATTAGAAAATT
1 AAAATATTA-AAAAAT
89924713 AAAATATTA
1 AAAATATTA
89924722 TCATAATGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
15 12 0.26
16 20 0.43
17 4 0.09
18 6 0.13
19 5 0.11
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.28
Consensus pattern (15 bp):
AAAATATTAAAAAAT
Found at i:89925642 original size:22 final size:22
Alignment explanation
Indices: 89925612--89925653 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
89925602 TTTTGAACAC
* * *
89925612 AAGATAAAACAAAAGTTCATTT
1 AAGACAAAAAAAAAATTCATTT
89925634 AAGACAAAAAAAAAATTCAT
1 AAGACAAAAAAAAAATTCAT
89925654 GCAACTAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (22 bp):
AAGACAAAAAAAAAATTCATTT
Found at i:89930788 original size:29 final size:29
Alignment explanation
Indices: 89930744--89930802 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
89930734 AATTTTAAAT
* *
89930744 TTTTACCTAAAGGTATATATTAACGTTAA
1 TTTTACCTAAACGTATATATTAACATTAA
*
89930773 TTTTACCTAAACGTATATATTTACATTAA
1 TTTTACCTAAACGTATATATTAACATTAA
89930802 T
1 T
89930803 CTTAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTTACCTAAACGTATATATTAACATTAA
Found at i:89934892 original size:14 final size:14
Alignment explanation
Indices: 89934868--89934901 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
89934858 TGAAACATCG
89934868 TAATATTTATTATTT
1 TAAT-TTTATTATTT
89934883 TAATTTTATTATTT
1 TAATTTTATTATTT
89934897 TAATT
1 TAATT
89934902 AAAATATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TAATTTTATTATTT
Found at i:89940238 original size:13 final size:13
Alignment explanation
Indices: 89940222--89940300 Score: 86
Period size: 13 Copynumber: 6.1 Consensus size: 13
89940212 TTTAAACCAA
*
89940222 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
*
89940235 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
89940248 ACTTTTCCATAGC
1 ACTTTTCAAAAGC
* *
89940261 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
* *
89940274 ACTTTTTAGAAGC
1 ACTTTTCAAAAGC
89940287 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
89940300 A
1 A
89940301 TTGCCAAACT
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 54 1.00
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:89940251 original size:26 final size:26
Alignment explanation
Indices: 89940222--89940300 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
89940212 TTTAAACCAA
*
89940222 ACTTTTTAAAAGCACTTCTCAAAAGC
1 ACTTTTTAAAAGCACTTTTCAAAAGC
** * * *
89940248 ACTTTTCCATAGCACTTTTCCACAGC
1 ACTTTTTAAAAGCACTTTTCAAAAGC
*
89940274 ACTTTTTAGAAGCACTTTTCAAAAGC
1 ACTTTTTAAAAGCACTTTTCAAAAGC
89940300 A
1 A
89940301 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (26 bp):
ACTTTTTAAAAGCACTTTTCAAAAGC
Found at i:89942666 original size:17 final size:17
Alignment explanation
Indices: 89942644--89942676 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
89942634 ACTCAACATC
89942644 GCTAACTCCTTTTCCAT
1 GCTAACTCCTTTTCCAT
89942661 GCTAACTCCTTTTCCA
1 GCTAACTCCTTTTCCA
89942677 CCAATCCGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.36, G:0.06, T:0.39
Consensus pattern (17 bp):
GCTAACTCCTTTTCCAT
Found at i:89947876 original size:16 final size:16
Alignment explanation
Indices: 89947855--89947886 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
89947845 ACGTATAAGA
89947855 GTTTTGTTATTTATAT
1 GTTTTGTTATTTATAT
89947871 GTTTTGTTATTTATAT
1 GTTTTGTTATTTATAT
89947887 ATAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (16 bp):
GTTTTGTTATTTATAT
Found at i:89948319 original size:36 final size:36
Alignment explanation
Indices: 89948272--89948353 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
89948262 TTGTGAACCA
* *
89948272 TGTTAACTTGGTGAAT-TATATTATTATGGCGAACTG
1 TGTTAATTTGGTG-ATCTATATTAATATGGCGAACTG
* * *
89948308 TGTTAATTTGGTGATCTGTATTAATCTGGTGAACTG
1 TGTTAATTTGGTGATCTATATTAATATGGCGAACTG
*
89948344 TATTAATTTG
1 TGTTAATTTG
89948354 CCAAATTGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.05
36 37 0.95
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (36 bp):
TGTTAATTTGGTGATCTATATTAATATGGCGAACTG
Found at i:89948331 original size:18 final size:18
Alignment explanation
Indices: 89948274--89948353 Score: 81
Period size: 18 Copynumber: 4.4 Consensus size: 18
89948264 GTGAACCATG
* * *
89948274 TTAACTTGGTGAATTATA
1 TTAATTTGGTGAACTGTA
* *
89948292 TT-ATTATGGCGAACTGTG
1 TTAATT-TGGTGAACTGTA
*
89948310 TTAATTTGGTGATCTGTA
1 TTAATTTGGTGAACTGTA
*
89948328 TTAATCTGGTGAACTGTA
1 TTAATTTGGTGAACTGTA
89948346 TTAATTTG
1 TTAATTTG
89948354 CCAAATTGTG
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
17 2 0.04
18 44 0.90
19 3 0.06
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.45
Consensus pattern (18 bp):
TTAATTTGGTGAACTGTA
Found at i:89949012 original size:17 final size:17
Alignment explanation
Indices: 89948990--89949063 Score: 58
Period size: 17 Copynumber: 4.4 Consensus size: 17
89948980 TTATGATGGA
89948990 GCATGAACTGTTATTTT
1 GCATGAACTGTTATTTT
* **
89949007 GCATGAATTGTTATTCG
1 GCATGAACTGTTATTTT
* * *
89949024 GTATGAACTGATATTTC
1 GCATGAACTGTTATTTT
** *
89949041 ATATGAACTATTATTTT
1 GCATGAACTGTTATTTT
*
89949058 TCATGA
1 GCATGA
89949064 GTTGTAATTT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (17 bp):
GCATGAACTGTTATTTT
Found at i:89949055 original size:51 final size:51
Alignment explanation
Indices: 89948992--89949100 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
89948982 ATGATGGAGC
* * *
89948992 ATGAACTGTTATTTTGCATGAATTGTTATTCGGTATGAACTGATATTTCAT
1 ATGAACTATTATTTTGCATGAATTGTAATTCGGTAAGAACTGATATTTCAT
* * * *
89949043 ATGAACTATTATTTTTCATGAGTTGTAATTTGGTAAGAACTGTTATTTCAT
1 ATGAACTATTATTTTGCATGAATTGTAATTCGGTAAGAACTGATATTTCAT
*
89949094 ATAAACT
1 ATGAACT
89949101 GATGTTTGGT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (51 bp):
ATGAACTATTATTTTGCATGAATTGTAATTCGGTAAGAACTGATATTTCAT
Found at i:89950777 original size:17 final size:19
Alignment explanation
Indices: 89950737--89950779 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
89950727 TAAAAAAAAT
*
89950737 TTTTAATTAAATACTCAAAT
1 TTTTAATT-AATACTCAAAC
89950757 TTTTAATT-ATAC-CAAAC
1 TTTTAATTAATACTCAAAC
89950774 TTTTAA
1 TTTTAA
89950780 CATTTTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 10 0.45
18 4 0.18
20 8 0.36
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTAATTAATACTCAAAC
Found at i:89950777 original size:18 final size:19
Alignment explanation
Indices: 89950733--89950779 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
89950723 TAAATAAAAA
89950733 AAATTTTTAATTAAATACTC
1 AAATTTTTAATT-AATACTC
89950753 AAATTTTTAATT-ATAC-C
1 AAATTTTTAATTAATACTC
*
89950770 AAACTTTTAA
1 AAATTTTTAA
89950780 CATTTTTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 10 0.38
18 4 0.15
20 12 0.46
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTTTTAATTAATACTC
Found at i:89961191 original size:15 final size:14
Alignment explanation
Indices: 89961159--89961224 Score: 80
Period size: 14 Copynumber: 4.6 Consensus size: 14
89961149 TATTTGAATA
*
89961159 TATTCTTTTTCAAT
1 TATTATTTTTCAAT
*
89961173 TATTATTTTTGAAT
1 TATTATTTTTCAAT
89961187 ATATTATATTTTCAAT
1 -TATTAT-TTTTCAAT
89961203 TATTATTTTTCTAAT
1 TATTATTTTTC-AAT
89961218 T-TTATTT
1 TATTATTT
89961225 ATATTATTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
14 23 0.50
15 16 0.35
16 7 0.15
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (14 bp):
TATTATTTTTCAAT
Found at i:89961201 original size:30 final size:29
Alignment explanation
Indices: 89961151--89961212 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
89961141 AATTTAATTA
*
89961151 TTTGAATATATTCTTTTTCAATTATTATT
1 TTTGAATATATTATTTTTCAATTATTATT
89961180 TTTGAATATATTATATTTTCAATTATTATT
1 TTTGAATATATTAT-TTTTCAATTATTATT
89961210 TTT
1 TTT
89961213 CTAATTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (29 bp):
TTTGAATATATTATTTTTCAATTATTATT
Found at i:89961211 original size:29 final size:28
Alignment explanation
Indices: 89961147--89961211 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
89961137 AATTAATTTA
*
89961147 ATTA-TTTGAATATATTCTTTTTCAATT
1 ATTATTTTGAATATATTATTTTTCAATT
89961174 ATTATTTTTGAATATATTATATTTTCAATT
1 ATTA-TTTTGAATATATTAT-TTTTCAATT
89961204 ATTATTTT
1 ATTATTTT
89961212 TCTAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.12
29 17 0.50
30 13 0.38
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (28 bp):
ATTATTTTGAATATATTATTTTTCAATT
Found at i:89962427 original size:16 final size:17
Alignment explanation
Indices: 89962406--89962474 Score: 74
Period size: 16 Copynumber: 4.3 Consensus size: 17
89962396 TTAGTTCGCT
89962406 GTAATAAAATAGAA-TA
1 GTAATAAAATAGAACTA
* *
89962422 GTAATAAAATA-AAGTT
1 GTAATAAAATAGAACTA
*
89962438 GTAATATAATAGAACTA
1 GTAATAAAATAGAACTA
*
89962455 -TAATGAAATAGAACT-
1 GTAATAAAATAGAACTA
89962470 GTAAT
1 GTAAT
89962475 CAGTAATTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
15 2 0.05
16 39 0.89
17 3 0.07
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (17 bp):
GTAATAAAATAGAACTA
Found at i:89962473 original size:32 final size:32
Alignment explanation
Indices: 89962403--89962474 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
89962393 CATTTAGTTC
89962403 GCTGTAATAAAATAGAATAGTAATAAAATAAA
1 GCTGTAATAAAATAGAATAGTAATAAAATAAA
* * *
89962435 GTTGTAATATAATAGAACTA-TAATGAAATAGAA
1 GCTGTAATAAAATAGAA-TAGTAATAAAATA-AA
89962468 -CTGTAAT
1 GCTGTAAT
89962475 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.29
Consensus pattern (32 bp):
GCTGTAATAAAATAGAATAGTAATAAAATAAA
Found at i:89973484 original size:17 final size:18
Alignment explanation
Indices: 89973458--89973498 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
89973448 ATTAAATCTA
* *
89973458 TATAAGATATTAT-TTAT
1 TATAAAATATTATCTTAC
89973475 TATAAAATATTATCTTAC
1 TATAAAATATTATCTTAC
89973493 TATAAA
1 TATAAA
89973499 CCAAAATCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (18 bp):
TATAAAATATTATCTTAC
Found at i:89974911 original size:21 final size:20
Alignment explanation
Indices: 89974872--89974911 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
89974862 CTCGTGTTTC
*
89974872 AATACATAAGATTTTATAAA
1 AATACATAAGATCTTATAAA
*
89974892 AATACATACCGATCTTATAA
1 AATACATA-AGATCTTATAA
89974912 GGTGTAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (20 bp):
AATACATAAGATCTTATAAA
Found at i:89978146 original size:21 final size:22
Alignment explanation
Indices: 89978111--89978151 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
89978101 AAGAGAATAG
89978111 CAAAAAAAAAAAAAA-AAAAGT
1 CAAAAAAAAAAAAAATAAAAGT
* *
89978132 CAAAAAAACATAAAATAAAA
1 CAAAAAAAAAAAAAATAAAA
89978152 ACAATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.83, C:0.07, G:0.02, T:0.07
Consensus pattern (22 bp):
CAAAAAAAAAAAAAATAAAAGT
Found at i:89981256 original size:3 final size:3
Alignment explanation
Indices: 89981248--89981285 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
89981238 GCGTCAACAG
89981248 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
89981286 GTTGTTGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:89981537 original size:22 final size:22
Alignment explanation
Indices: 89981512--89981555 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
89981502 TTATTTTTTT
*
89981512 ATAA-AAATATATAAATTTTATA
1 ATAATAAATATA-AAATTATATA
*
89981534 ATAATACATATAAAATTATATA
1 ATAATAAATATAAAATTATATA
89981556 CATATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAATAAATATAAAATTATATA
Found at i:89981544 original size:21 final size:19
Alignment explanation
Indices: 89981508--89981547 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
89981498 ATGTTTATTT
*
89981508 TTTTATAAAAATATATAAA
1 TTTTATAAAAACATATAAA
89981527 TTTTATAATAATACATATAAA
1 TTTTATAA-AA-ACATATAAA
89981548 ATTATATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTTATAAAAACATATAAA
Found at i:89982764 original size:25 final size:25
Alignment explanation
Indices: 89982736--89982791 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
89982726 TCTACATATA
89982736 TTTTAAGGAATTTAATTTCTCTACT
1 TTTTAAGGAATTTAATTTCTCTACT
89982761 TTTTAAGGAATTTAATTTCTCTACT
1 TTTTAAGGAATTTAATTTCTCTACT
89982786 TTTTAA
1 TTTTAA
89982792 AAAATTTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.54
Consensus pattern (25 bp):
TTTTAAGGAATTTAATTTCTCTACT
Found at i:89982797 original size:25 final size:25
Alignment explanation
Indices: 89982744--89982799 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
89982734 TATTTTAAGG
**
89982744 AATTTAATTTCTCTACTTTTTAAGG
1 AATTTAATTTCTCTACTTTTTAAAA
89982769 AATTTAATTTCTCTACTTTTTAAAA
1 AATTTAATTTCTCTACTTTTTAAAA
89982794 AATTTA
1 AATTTA
89982800 GTTCGTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.52
Consensus pattern (25 bp):
AATTTAATTTCTCTACTTTTTAAAA
Found at i:89983586 original size:21 final size:22
Alignment explanation
Indices: 89983554--89983594 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
89983544 TTCCTTGTAA
*
89983554 AAATCTTAAGTTTTTTCATTCT
1 AAATCTTAAGTTTTTCCATTCT
89983576 AAATC-TAAGTTTTTCCATT
1 AAATCTTAAGTTTTTCCATT
89983595 ATAAGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (22 bp):
AAATCTTAAGTTTTTCCATTCT
Found at i:89986236 original size:35 final size:35
Alignment explanation
Indices: 89986172--89986256 Score: 118
Period size: 35 Copynumber: 2.4 Consensus size: 35
89986162 ACATCTATAA
89986172 CTGTATCTGTATCTGAAAGAGGCTCAGGCCCAAAT
1 CTGTATCTGTATCTGAAAGAGGCTCAGGCCCAAAT
* * * *
89986207 CTGTTTCTGTATCTGACATG-GGCTTAGGCCCGAAT
1 CTGTATCTGTATCTGA-AAGAGGCTCAGGCCCAAAT
89986242 CTGTATCTGTATCTG
1 CTGTATCTGTATCTG
89986257 GACTGATGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 42 0.95
36 2 0.05
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (35 bp):
CTGTATCTGTATCTGAAAGAGGCTCAGGCCCAAAT
Found at i:89990945 original size:5 final size:5
Alignment explanation
Indices: 89990935--89990962 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
89990925 ATAAATAAGA
89990935 ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATA
89990963 ACTAAACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:89995751 original size:22 final size:22
Alignment explanation
Indices: 89995723--89995771 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
89995713 GGATCAAGTC
89995723 TATGCATGATACTAGCACACTT
1 TATGCATGATACTAGCACACTT
*
89995745 TATGCATGATACTAGCATACTT
1 TATGCATGATACTAGCACACTT
89995767 TATGC
1 TATGC
89995772 TTGTCCAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (22 bp):
TATGCATGATACTAGCACACTT
Found at i:89999082 original size:11 final size:11
Alignment explanation
Indices: 89999066--89999115 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
89999056 ATTTAAAAAT
89999066 ATTTTTATATA
1 ATTTTTATATA
*
89999077 ATTTTTATCTA
1 ATTTTTATATA
*
89999088 ATATTTA-ATA
1 ATTTTTATATA
89999098 ATTTTT-TATA
1 ATTTTTATATA
*
89999108 TTTTTTAT
1 ATTTTTAT
89999116 TTATTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 15 0.47
11 17 0.53
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTTTTATATA
Found at i:90002772 original size:29 final size:30
Alignment explanation
Indices: 90002729--90002808 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 30
90002719 GAAGTGAATC
*
90002729 AAATCAAAATTTCATATATAAAATTACACA-
1 AAATCAAAA-TTCATGTATAAAATTACACAT
*
90002759 AAATCAAAATTCATGTATATAATTACACATT
1 AAATCAAAATTCATGTATAAAATTACACA-T
*
90002790 AAATCATAATTCATGTATA
1 AAATCAAAATTCATGTATA
90002809 GTTTTAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 18 0.40
30 9 0.20
31 18 0.40
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.34
Consensus pattern (30 bp):
AAATCAAAATTCATGTATAAAATTACACAT
Found at i:90005687 original size:39 final size:39
Alignment explanation
Indices: 90005628--90005765 Score: 204
Period size: 39 Copynumber: 3.5 Consensus size: 39
90005618 ATCGTGATCT
* *
90005628 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
90005667 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* * * *
90005706 GAAACCCGAAGGTTAACTGAAACACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
90005745 GAAGCCCAAAAGCTAACTGAA
1 GAAGCCCGAAGGCTAACTGAA
90005766 ACTCATCAGA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:90005788 original size:78 final size:78
Alignment explanation
Indices: 90005626--90005790 Score: 206
Period size: 78 Copynumber: 2.1 Consensus size: 78
90005616 ACATCGTGAT
* * * * * * *
90005626 CTGAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCA
1 CTGAAACCCGAAGTCTAACTGAAACACATAAGTGCTAAACAGAAGCCCAAAAGCTAACTGAAACA
*
90005691 CATAAGTGCTAAA
66 CATAAGAGCTAAA
*
90005704 CGGAAACCCGAAGGT-TAACTGAAACACATAAGTGCTAAACAGAAGCCCAAAAGCTAACTGAAAC
1 CTGAAACCCGAA-GTCTAACTGAAACACATAAGTGCTAAACAGAAGCCCAAAAGCTAACTGAAAC
* * *
90005768 TCATCAGAGCTGAA
65 ACATAAGAGCTAAA
90005782 CTGAAACCC
1 CTGAAACCC
90005791 CAAAAAGATT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 71 0.97
79 2 0.03
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (78 bp):
CTGAAACCCGAAGTCTAACTGAAACACATAAGTGCTAAACAGAAGCCCAAAAGCTAACTGAAACA
CATAAGAGCTAAA
Found at i:90005834 original size:21 final size:21
Alignment explanation
Indices: 90005810--90005849 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
90005800 TGACTGAAAC
90005810 TCATAAGAGCTAAACGGAAGT
1 TCATAAGAGCTAAACGGAAGT
90005831 TCATAAGAGCTAAACGGAA
1 TCATAAGAGCTAAACGGAA
90005850 AGTAAACACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (21 bp):
TCATAAGAGCTAAACGGAAGT
Found at i:90013392 original size:46 final size:47
Alignment explanation
Indices: 90013111--90013391 Score: 349
Period size: 46 Copynumber: 6.0 Consensus size: 47
90013101 TTATCTTTGA
* * * * * *
90013111 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* ** *
90013157 CATGTTGCCATGGTATCTTTCAACCATGTTCTTATTCATTTTCCA-GT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-CATAT
**
90013204 CATGTTGCCATGGTATCTCTTTCAACCATGGTCTTATTCATTTTC-TAT
1 CATGTTGCCATGGTA--TCTTTCAACCATGGTCTTACACATTTTCATAT
*
90013252 CATGTTGCCATGGTATCTTTCAACCATGGTCCTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
90013298 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* * *
90013344 CAGGTTGCCATGGTATCTTTTAACTATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
90013390 CA
1 CA
90013392 GAGAGCACAC
Statistics
Matches: 214, Mismatches: 15, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
45 4 0.02
46 149 0.70
47 18 0.08
48 17 0.08
49 26 0.12
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
Found at i:90015580 original size:30 final size:33
Alignment explanation
Indices: 90015540--90015608 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
90015530 TGTCATTATT
90015540 TAATATATTT-ATCAAATAAA-ATC-TTATAATA
1 TAATATATTTAAT-AAATAAATATCTTTATAATA
*
90015571 TAAT-TATTTAATTAATAAATATCTTTTATAATA
1 TAATATATTTAATAAATAAATATC-TTTATAATA
90015604 TAATA
1 TAATA
90015609 AATATCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
30 11 0.34
31 9 0.28
33 12 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATATATTTAATAAATAAATATCTTTATAATA
Found at i:90015614 original size:21 final size:20
Alignment explanation
Indices: 90015575--90015624 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
90015565 ATAATATAAT
90015575 TATTTAAT-TAATAAATATC
1 TATTTAATATAATAAATATC
*
90015594 TTTTATAATATAATAAATATC
1 TATT-TAATATAATAAATATC
90015615 TATTTAATAT
1 TATTTAATAT
90015625 CTAATACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 10 0.37
21 14 0.52
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTAATATAATAAATATC
Found at i:90015790 original size:24 final size:23
Alignment explanation
Indices: 90015710--90015790 Score: 56
Period size: 24 Copynumber: 3.2 Consensus size: 23
90015700 TACTAATTTA
*
90015710 TTTATCAT-ATAAATATCTTATAAT
1 TTTATTATAATAAATAT-TTAT-AT
* *
90015734 ATAATTATAATAAATTAATTTAATAT
1 TTTATTATAATAAA-T-ATTT-ATAT
90015760 CATTTATTACTAATAAATATTTATAT
1 --TTTATTA-TAATAAATATTTATAT
90015786 TTTAT
1 TTTAT
90015791 AATTTGAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
24 10 0.22
25 5 0.11
26 9 0.20
27 8 0.18
28 6 0.13
29 7 0.16
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTATTATAATAAATATTTATAT
Found at i:90017147 original size:18 final size:18
Alignment explanation
Indices: 90017114--90017168 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 18
90017104 CGTGATCCAA
*
90017114 TTGAAAA-ACGAGAATTT
1 TTGAAAACACGAAAATTT
*
90017131 TTTAAAACACGAAAA-TT
1 TTGAAAACACGAAAATTT
90017148 TTGAAAACACGAAAATTT
1 TTGAAAACACGAAAATTT
90017166 TTG
1 TTG
90017169 GGATCCGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (18 bp):
TTGAAAACACGAAAATTT
Found at i:90017652 original size:28 final size:26
Alignment explanation
Indices: 90017617--90017668 Score: 61
Period size: 27 Copynumber: 1.9 Consensus size: 26
90017607 ACAATAAAAG
90017617 AAAAAAAAGTAA-AAATGTATTAATACC
1 AAAAAAAA-TAATAAATGTA-TAATACC
*
90017644 AAAATAAAATAATATATGTATAATA
1 AAAA-AAAATAATAAATGTATAATA
90017669 ACAATATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (26 bp):
AAAAAAAATAATAAATGTATAATACC
Found at i:90017742 original size:26 final size:27
Alignment explanation
Indices: 90017699--90017752 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
90017689 TATGTATACC
*
90017699 AAATAATACATAATAATACT-AAAATA
1 AAATAATACATAACAATACTGAAAATA
*
90017725 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATACTGAAAATA
90017752 A
1 A
90017753 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAATACATAACAATACTGAAAATA
Found at i:90017787 original size:18 final size:17
Alignment explanation
Indices: 90017761--90017814 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
90017751 AATAAGCATA
90017761 ATAATAAATATAATGATAT
1 ATAA-AAATATAAT-ATAT
*
90017780 ATAAAAATAATACTATAT
1 ATAAAAAT-ATAATATAT
*
90017798 ATAAAAGTAT-ATATAT
1 ATAAAAATATAATATAT
90017814 A
1 A
90017815 CGTACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 15 0.48
19 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAAAAATATAATATAT
Found at i:90017880 original size:3 final size:3
Alignment explanation
Indices: 90017872--90017925 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
90017862 AAAAATAAGT
* * * *
90017872 ATA ATA AT- ATA TTA GATA GTA AAA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90017917 ATA ATA ATA
1 ATA ATA ATA
90017926 TGTGAAGGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:90018250 original size:29 final size:30
Alignment explanation
Indices: 90018218--90018274 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
90018208 ATTAGCAGCG
* *
90018218 TGAAAATGATAA-AATAACAAATATTTAAA
1 TGAAAATAATAAGAACAACAAATATTTAAA
*
90018247 TGAAGATAATAAGAACAACAAATATTTA
1 TGAAAATAATAAGAACAACAAATATTTA
90018275 GAAAGTAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (30 bp):
TGAAAATAATAAGAACAACAAATATTTAAA
Found at i:90021729 original size:32 final size:32
Alignment explanation
Indices: 90021692--90021766 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
90021682 AAATAATTAA
*
90021692 TTGAAATATTTCACATATAAACATAATGATAT
1 TTGAAATATTTCACATATAAAAATAATGATAT
90021724 TTGAAATATTTCACATATAAAAATAATGATAT
1 TTGAAATATTTCACATATAAAAATAATGATAT
*
90021756 TTTAAATATTT
1 TTGAAATATTT
90021767 TAAATATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (32 bp):
TTGAAATATTTCACATATAAAAATAATGATAT
Found at i:90021766 original size:9 final size:9
Alignment explanation
Indices: 90021752--90021782 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
90021742 AAAAATAATG
90021752 ATATTTTAA
1 ATATTTTAA
90021761 ATATTTTAA
1 ATATTTTAA
90021770 ATATTTTAA
1 ATATTTTAA
90021779 ATAT
1 ATAT
90021783 AAAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATATTTTAA
Found at i:90021772 original size:41 final size:42
Alignment explanation
Indices: 90021720--90021805 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
90021710 AAACATAATG
* *
90021720 ATATTTGAAATATTTCACATAT-AAAAATAATGATATTTTAA
1 ATATTTGAAATATTTCAAATATAAAAAATAATGATATTTGAA
* *
90021761 ATATTTTAAATATTTTAAATATAAAAAATAATGATATTTGAA
1 ATATTTGAAATATTTCAAATATAAAAAATAATGATATTTGAA
90021803 ATA
1 ATA
90021806 ATTATTTGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 19 0.47
42 21 0.52
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (42 bp):
ATATTTGAAATATTTCAAATATAAAAAATAATGATATTTGAA
Found at i:90021789 original size:18 final size:18
Alignment explanation
Indices: 90021752--90021790 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
90021742 AAAAATAATG
***
90021752 ATATTTTAAATATTTTAA
1 ATATTTTAAATATAAAAA
90021770 ATATTTTAAATATAAAAA
1 ATATTTTAAATATAAAAA
90021788 ATA
1 ATA
90021791 ATGATATTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATTTTAAATATAAAAA
Found at i:90021818 original size:42 final size:42
Alignment explanation
Indices: 90021738--90021825 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
90021728 AATATTTCAC
* *
90021738 ATATAAAAATAATGATATTTTAAATATTTTAAATATTTTA-A
1 ATATAAAAATAATGATATTTGAAATATATTAAATATTTTATA
**
90021779 ATATAAAAAATAATGATATTTGAAATA-ATTATTTGATTTTATA
1 ATAT-AAAAATAATGATATTTGAAATATATTAAAT-ATTTTATA
90021822 ATAT
1 ATAT
90021826 TAGAATTTAC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
41 8 0.20
42 27 0.68
43 5 0.12
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (42 bp):
ATATAAAAATAATGATATTTGAAATATATTAAATATTTTATA
Found at i:90033493 original size:2 final size:2
Alignment explanation
Indices: 90033461--90033485 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90033451 AATAAAACAA
90033461 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
90033486 AGTATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90042344 original size:18 final size:17
Alignment explanation
Indices: 90042297--90042375 Score: 65
Period size: 18 Copynumber: 4.5 Consensus size: 17
90042287 TTTAAATATA
90042297 TATAAATATATTATTTAAT
1 TATAAATATATTA-TT-AT
90042316 TATAAAGTATATTATTAT
1 TATAAA-TATATTATTAT
*
90042334 TGTAAAT-TA-TATTAAT
1 TATAAATATATTATT-AT
*
90042350 TAT-ATTATATTATTATAT
1 TATAAATATATTA-T-TAT
90042368 TATAAATA
1 TATAAATA
90042376 AACTAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
15 6 0.12
16 8 0.16
17 3 0.06
18 13 0.27
19 12 0.24
20 7 0.14
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATAAATATATTATTAT
Found at i:90042366 original size:13 final size:14
Alignment explanation
Indices: 90042339--90042371 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
90042329 ATTATTGTAA
90042339 ATTATATTAATTAT
1 ATTATATTAATTAT
90042353 ATTATATT-ATTAT
1 ATTATATTAATTAT
90042366 ATTATA
1 ATTATA
90042372 AATAAACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTATATTAATTAT
Found at i:90043950 original size:44 final size:44
Alignment explanation
Indices: 90043851--90043934 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
90043841 TGTTCAAGGA
* * * *
90043851 TACTTTGACCTT-GAGTTGATGAGGCACTATATGTGTCGTACTAT
1 TACTTTGA-CTTCAAGTTGATGAGGCACCATATGTGTCATACTAC
*
90043895 TACTTTGACTTCAAGTTGATGAGGCACCATGTGTGTCATA
1 TACTTTGACTTCAAGTTGATGAGGCACCATATGTGTCATA
90043935 TTGCTACTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (44 bp):
TACTTTGACTTCAAGTTGATGAGGCACCATATGTGTCATACTAC
Found at i:90044118 original size:18 final size:18
Alignment explanation
Indices: 90044095--90044174 Score: 106
Period size: 18 Copynumber: 4.4 Consensus size: 18
90044085 TAAATAAAAG
*
90044095 TACTGAATGACTGATTGT
1 TACTGAATAACTGATTGT
*
90044113 TACTGAATAATTGATTGT
1 TACTGAATAACTGATTGT
* *
90044131 TACTAAATAACTGATTGC
1 TACTGAATAACTGATTGT
* *
90044149 TACTGAATAATTGATTAT
1 TACTGAATAACTGATTGT
90044167 TACTGAAT
1 TACTGAAT
90044175 GATATTGAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:90044197 original size:20 final size:20
Alignment explanation
Indices: 90044174--90044222 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
90044164 TATTACTGAA
90044174 TGATATTGAAAAATATCAAT
1 TGATATTGAAAAATATCAAT
90044194 TGATATTGAAAAATATCAAT
1 TGATATTGAAAAATATCAAT
90044214 TGATATTGA
1 TGATATTGA
90044223 GCTTGGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (20 bp):
TGATATTGAAAAATATCAAT
Found at i:90045085 original size:21 final size:21
Alignment explanation
Indices: 90045059--90045114 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
90045049 TAGGCTCTCA
90045059 ACATGGCCGTGTGACCTAGCG
1 ACATGGCCGTGTGACCTAGCG
** * *
90045080 ACATGGTTGTGTGATCTAGTG
1 ACATGGCCGTGTGACCTAGCG
90045101 ACATGGCCGTGTGA
1 ACATGGCCGTGTGA
90045115 GTCACATGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.27
Consensus pattern (21 bp):
ACATGGCCGTGTGACCTAGCG
Found at i:90057925 original size:30 final size:30
Alignment explanation
Indices: 90057891--90057949 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
90057881 ATTGATAGAG
90057891 TTGAAGATGTTTTCAAAATAAAAGTAGTAT
1 TTGAAGATGTTTTCAAAATAAAAGTAGTAT
90057921 TTGAAGATGTTTTCAAAATAAAAGTAGTA
1 TTGAAGATGTTTTCAAAATAAAAGTAGTA
90057950 ATACTGATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (30 bp):
TTGAAGATGTTTTCAAAATAAAAGTAGTAT
Found at i:90061035 original size:34 final size:33
Alignment explanation
Indices: 90060997--90061067 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 33
90060987 TTTTTTAAGC
90060997 AATAAATACTAATTTCAATGAAATTTAAAAAAA
1 AATAAATACTAATTTCAATGAAATTTAAAAAAA
90061030 TAATAAATACTAATTTCAATGAAATTTAAAAAAA
1 -AATAAATACTAATTTCAATGAAATTTAAAAAAA
90061064 AATA
1 AATA
90061068 TTCTTTTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 4 0.11
34 33 0.89
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (33 bp):
AATAAATACTAATTTCAATGAAATTTAAAAAAA
Found at i:90064061 original size:17 final size:17
Alignment explanation
Indices: 90064041--90064075 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
90064031 AAAATATATC
* *
90064041 AAAATTAATATTATAAT
1 AAAATTAAAATTAAAAT
90064058 AAAATTAAAATTAAAAT
1 AAAATTAAAATTAAAAT
90064075 A
1 A
90064076 TTTAACATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTAAAATTAAAAT
Found at i:90072320 original size:2 final size:2
Alignment explanation
Indices: 90072313--90072337 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90072303 GGTTTAGCAA
90072313 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
90072338 CACGCTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90072455 original size:30 final size:29
Alignment explanation
Indices: 90072428--90072508 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
90072418 ACTTTTTTCG
90072428 AAAAATTAATAG-TTAAAATTAAATTTTTAA
1 AAAAATTAA-AGATT-AAATTAAATTTTTAA
* *
90072458 AAAAATTAAAGATTAAATTTAATTTTAAA
1 AAAAATTAAAGATTAAATTAAATTTTTAA
* *
90072487 AAATAAATAAATATTAAATTAA
1 AAA-AATTAAAGATTAAATTAA
90072509 TAAAAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
29 18 0.41
30 26 0.59
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAAATTAAAGATTAAATTAAATTTTTAA
Found at i:90072513 original size:24 final size:23
Alignment explanation
Indices: 90072482--90072528 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
90072472 AAATTTAATT
90072482 TTAAAAAATAA-ATAAATATTAAA
1 TTAAAAAA-AATATAAATATTAAA
90072505 TTAATAAAAAATATAAATATTAAA
1 TTAA-AAAAAATATAAATATTAAA
90072529 GGCTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
TTAAAAAAAATATAAATATTAAA
Found at i:90072526 original size:19 final size:19
Alignment explanation
Indices: 90072488--90072527 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
90072478 AATTTTAAAA
*
90072488 AATAAATAAATATTAAATT
1 AATAAATAAATATAAAATT
90072507 AATAAA-AAATATAAATATT
1 AATAAATAAATATAAA-ATT
90072526 AA
1 AA
90072528 AGGCTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAATAAATATAAAATT
Found at i:90077413 original size:22 final size:21
Alignment explanation
Indices: 90077374--90077414 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
90077364 CATGTCTTTC
*
90077374 TTTTATAAAAATATATAAACT
1 TTTTATAAAAATACATAAACT
*
90077395 TTTTACTAAATATACATAAA
1 TTTTA-TAAAAATACATAAA
90077415 GATTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTTATAAAAATACATAAACT
Found at i:90092420 original size:5 final size:5
Alignment explanation
Indices: 90092410--90092435 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
90092400 GCGTCAACCA
90092410 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
90092436 GAAAATACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:90096082 original size:26 final size:27
Alignment explanation
Indices: 90096042--90096092 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
90096032 TCCATATATT
*
90096042 TTATGTTTAAATATTT-TATTGAAGAA
1 TTATGTTTAAATATTTAAATTGAAGAA
*
90096068 TTATGTTTAATTATTTAAATTGAAG
1 TTATGTTTAAATATTTAAATTGAAG
90096093 TGTGACATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (27 bp):
TTATGTTTAAATATTTAAATTGAAGAA
Found at i:90096391 original size:3 final size:3
Alignment explanation
Indices: 90096383--90096449 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
90096373 AAATCTATGC
90096383 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
90096431 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
90096450 TTGGCTTTAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:90103100 original size:36 final size:36
Alignment explanation
Indices: 90103060--90103139 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
90103050 TTATGATTAA
* *
90103060 TTAATTAGTTTGGGTATTAGGTATTAATAGCTTAGG
1 TTAATTAATTTGGGTATTAGGTATTAATAGATTAGG
90103096 TTAATTAATTTGGGTATTAGGTATTAATAGATTAGGG
1 TTAATTAATTTGGGTATTAGGTATTAATAGATTA-GG
90103133 TT-ATTAA
1 TTAATTAA
90103140 GATTAATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 37 0.90
37 4 0.10
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (36 bp):
TTAATTAATTTGGGTATTAGGTATTAATAGATTAGG
Found at i:90103156 original size:23 final size:23
Alignment explanation
Indices: 90103096--90103164 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
90103086 ATAGCTTAGG
*
90103096 TTAATTAATTTGGG-TATTAGGTA
1 TTAATTAATTTGGGTTATTAAG-A
*
90103119 TTAA-TAGATTAGGGTTATTAAGA
1 TTAATTA-ATTTGGGTTATTAAGA
90103142 TTAATTAATTTGGGTTATTAAGA
1 TTAATTAATTTGGGTTATTAAGA
90103165 AATTAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.05
23 30 0.75
24 8 0.20
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (23 bp):
TTAATTAATTTGGGTTATTAAGA
Found at i:90109468 original size:2 final size:2
Alignment explanation
Indices: 90109461--90109498 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
90109451 TTTATTGAGT
90109461 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90109499 CATTGGTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90110370 original size:25 final size:24
Alignment explanation
Indices: 90110281--90110383 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 24
90110271 GTATATGCAT
**
90110281 GAATGAAAAGGGCACTATGTGTGC
1 GAATGAAAATAGCACTATGTGTGC
***
90110305 GAATG-GGGTAGCACTATGTGTGC
1 GAATGAAAATAGCACTATGTGTGC
*
90110328 GTATGGAAAAGCTAGCACTATGTGTGC
1 GAAT-GAAAA--TAGCACTATGTGTGC
*
90110355 GAATGAATATATGCACTATGTGTGC
1 GAATGAAAATA-GCACTATGTGTGC
90110380 GAAT
1 GAAT
90110384 TTATTAACCG
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
23 16 0.25
24 8 0.13
25 17 0.27
26 4 0.06
27 18 0.29
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (24 bp):
GAATGAAAATAGCACTATGTGTGC
Found at i:90112591 original size:9 final size:9
Alignment explanation
Indices: 90112579--90112619 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
90112569 CATTAAAATT
90112579 AGAAAGAAA
1 AGAAAGAAA
90112588 AGAAAGAAA
1 AGAAAGAAA
*
90112597 CAAAAAG-AA
1 -AGAAAGAAA
90112606 AG-AAGAAA
1 AGAAAGAAA
90112614 AGAAAG
1 AGAAAG
90112620 TCACGCACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
7 3 0.11
8 5 0.19
9 14 0.52
10 5 0.19
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (9 bp):
AGAAAGAAA
Found at i:90117726 original size:19 final size:18
Alignment explanation
Indices: 90117702--90117740 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
90117692 GGTTAGGGTT
90117702 ATGAAAAGAAGAAGAGAGA
1 ATGAAAAGAAGAAGA-AGA
*
90117721 ATGAAAAGGAGAAGAAGA
1 ATGAAAAGAAGAAGAAGA
90117739 AT
1 AT
90117741 AAGATAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (18 bp):
ATGAAAAGAAGAAGAAGA
Found at i:90121659 original size:20 final size:19
Alignment explanation
Indices: 90121627--90121664 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
90121617 GAAAGGAAAC
*
90121627 AATGTCATCAATGTACAGA
1 AATGTCATAAATGTACAGA
90121646 AATGATCATAAATGTACAG
1 AATG-TCATAAATGTACAG
90121665 TGCAATGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (19 bp):
AATGTCATAAATGTACAGA
Found at i:90122975 original size:15 final size:16
Alignment explanation
Indices: 90122955--90122985 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
90122945 CGCACGTTGG
90122955 AATATAAA-CTAGAAT
1 AATATAAATCTAGAAT
90122970 AATATAAATCTAGAAT
1 AATATAAATCTAGAAT
90122986 TCAAACATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
AATATAAATCTAGAAT
Found at i:90128909 original size:25 final size:24
Alignment explanation
Indices: 90128875--90129047 Score: 191
Period size: 25 Copynumber: 7.3 Consensus size: 24
90128865 CCTCAGCATA
90128875 CTCTCTGAATATTAGCAC-TCCAGTG
1 CTCTCTG-ATATTAGCACAT-CAGTG
90128900 CTCTCTGAATATTAGCAC-TCTAGTG
1 CTCTCTG-ATATTAGCACATC-AGTG
90128925 CTCTCTGATATTTAGCACATCAGTG
1 CTCTCTGATA-TTAGCACATCAGTG
**
90128950 CTCTCTG--ATTAGCACATTTGTG
1 CTCTCTGATATTAGCACATCAGTG
*
90128972 CTCTCTGATATTTAGCACGTCAGTG
1 CTCTCTGATA-TTAGCACATCAGTG
90128997 CTCTCTG--ATTAGCACATCAGTG
1 CTCTCTGATATTAGCACATCAGTG
* *
90129019 CTCTCTG-TA-TAACACTTCAGTG
1 CTCTCTGATATTAGCACATCAGTG
90129041 CTCTCTG
1 CTCTCTG
90129048 TTCATTAGTG
Statistics
Matches: 133, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
22 57 0.43
23 3 0.02
24 5 0.04
25 66 0.50
26 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (24 bp):
CTCTCTGATATTAGCACATCAGTG
Found at i:90129055 original size:47 final size:46
Alignment explanation
Indices: 90128875--90129047 Score: 208
Period size: 47 Copynumber: 3.7 Consensus size: 46
90128865 CCTCAGCATA
*
90128875 CTCTCTGAATATTAGCACTCCAGTGCTCTCTGAATATTAGCAC-TCTAGTG
1 CTCTCTG-ATATTAGCACTTCAGTGCTCTCTG---ATTAGCACATC-AGTG
* **
90128925 CTCTCTGATATTTAGCACATCAGTGCTCTCTGATTAGCACATTTGTG
1 CTCTCTGATA-TTAGCACTTCAGTGCTCTCTGATTAGCACATCAGTG
*
90128972 CTCTCTGATATTTAGCACGTCAGTGCTCTCTGATTAGCACATCAGTG
1 CTCTCTGATA-TTAGCACTTCAGTGCTCTCTGATTAGCACATCAGTG
*
90129019 CTCTCTG-TA-TAACACTTCAGTGCTCTCTG
1 CTCTCTGATATTAGCACTTCAGTGCTCTCTG
90129048 TTCATTAGTG
Statistics
Matches: 112, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
44 18 0.16
46 2 0.02
47 62 0.55
48 1 0.01
49 3 0.03
50 26 0.23
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (46 bp):
CTCTCTGATATTAGCACTTCAGTGCTCTCTGATTAGCACATCAGTG
Found at i:90131219 original size:34 final size:36
Alignment explanation
Indices: 90131159--90131226 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 36
90131149 TGTTGTTTAA
* *
90131159 ATTATAAATATATTATTAATGTTATTATTTTATTAT
1 ATTATAAATATATAATTAATGTTATTATTATATTAT
90131195 ATTATAAAT-TA-AATTAAT-TATATTATTATATT
1 ATTATAAATATATAATTAATGT-TATTATTATATT
90131227 TTGAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 1 0.03
34 17 0.59
35 2 0.07
36 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (36 bp):
ATTATAAATATATAATTAATGTTATTATTATATTAT
Found at i:90131236 original size:29 final size:29
Alignment explanation
Indices: 90131182--90131240 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
90131172 TATTAATGTT
*
90131182 ATTATTTTATTATATTATAAATTAAATTA
1 ATTATATTATTATATTATAAATTAAATTA
*
90131211 ATTATATTATTATATTTTGAAA-TAAATTA
1 ATTATATTATTATATTAT-AAATTAAATTA
90131240 A
1 A
90131241 GAAAAGACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATAAATTAAATTA
Found at i:90131575 original size:13 final size:13
Alignment explanation
Indices: 90131557--90131582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90131547 CAGGGGAGAA
90131557 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
90131570 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
90131583 GGGAAAAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:90142867 original size:29 final size:27
Alignment explanation
Indices: 90142803--90142868 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
90142793 AATTTGTTAA
*
90142803 ATTT-ATTATATTATTTTTAATATAAAT
1 ATTTCATTA-ATTATTTTTAAAATAAAT
* *
90142830 -TTACTTTAATTATTATTTAAAATAATAT
1 ATTTCATTAATTATT-TTTAAAATAA-AT
90142858 ATTTCATTAAT
1 ATTTCATTAAT
90142869 CAATAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
26 8 0.27
27 12 0.40
28 2 0.07
29 8 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTCATTAATTATTTTTAAAATAAAT
Found at i:90148332 original size:19 final size:21
Alignment explanation
Indices: 90148304--90148343 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
90148294 CAAGATTAAA
90148304 TAAAATATATATTA-TAAAAT
1 TAAAATATATATTATTAAAAT
90148324 TAAAA-ATATATTATTAAAAT
1 TAAAATATATATTATTAAAAT
90148344 GTATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATATATATTATTAAAAT
Found at i:90154878 original size:23 final size:21
Alignment explanation
Indices: 90154837--90154886 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
90154827 AGTAATATAC
* *
90154837 AAAATAATATACATTAATTTAA
1 AAAATAATATACA-GAAATTAA
90154859 ATAAATAATATACAGAAATTAA
1 A-AAATAATATACAGAAATTAA
90154881 AAAATA
1 AAAATA
90154887 GTTTAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 8 0.32
23 12 0.48
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAATAATATACAGAAATTAA
Found at i:90155130 original size:26 final size:26
Alignment explanation
Indices: 90155101--90155163 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
90155091 TAAAACAGTT
*
90155101 TTAAAAAAAACTAAATAA-TAAATAAA
1 TTAAAAAAAA-TAAAGAATTAAATAAA
* *
90155127 TTAAAAGAAATAAAGAATTACATAAA
1 TTAAAAAAAATAAAGAATTAAATAAA
* *
90155153 CTAAAATAAAT
1 TTAAAAAAAAT
90155164 GAACTCAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 6 0.19
26 25 0.81
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (26 bp):
TTAAAAAAAATAAAGAATTAAATAAA
Found at i:90159074 original size:17 final size:20
Alignment explanation
Indices: 90159035--90159074 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
90159025 TTTTAAAAAA
*
90159035 ATTAAAATATATATTTAATT
1 ATTAAAATATATATTTAACT
90159055 ATTAAAATA-AT-TTT-ACT
1 ATTAAAATATATATTTAACT
90159072 ATT
1 ATT
90159075 TTAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 5 0.26
18 3 0.16
19 2 0.11
20 9 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAAAATATATATTTAACT
Found at i:90159097 original size:9 final size:8
Alignment explanation
Indices: 90159073--90159103 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
90159063 AATTTTACTA
90159073 TTTTAAAT
1 TTTTAAAT
90159081 TTTTAAAT
1 TTTTAAAT
*
90159089 TTTTAAAA
1 TTTTAAAT
90159097 TTTTAAA
1 TTTTAAA
90159104 AAATTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TTTTAAAT
Found at i:90163697 original size:14 final size:14
Alignment explanation
Indices: 90163678--90163705 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90163668 CAATTTCACC
90163678 ATTTTTAAAACATT
1 ATTTTTAAAACATT
90163692 ATTTTTAAAACATT
1 ATTTTTAAAACATT
90163706 TAATTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTTAAAACATT
Found at i:90165305 original size:130 final size:124
Alignment explanation
Indices: 90164905--90165323 Score: 444
Period size: 125 Copynumber: 3.3 Consensus size: 124
90164895 GCCAAACGGT
* * * * * * ** * *
90164905 AAATCGCAACCCAACACGATTGGGCACGATTTATCGAATTTTCAAATACAAAATATTCCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAATACGAAATATTGCCTCATT
* * * *
90164970 TTAATTTAAGACAACATGGATGAAATGTCGAAAGGATATTCCGTATCTTAGTCGAATGAA
66 TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCGTATTTTAGTC-AATGAA
* * * *
90165030 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGGAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAATACGAAATATTGCCTCATT
*** * * *
90165095 TTAATTTAAGAAAGTGTGGATGAAATTTCAAAAAAAAGATATTCCATATTTTAGTTGAATGAA
66 TTAATTTAAGAAAACATGGATGAAATTTC---AAAAGGATATTCCGTATTTTAG-TCAATGAA
* *
90165158 AAAACGAAACCCAGCACGATTGGGCATGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACT-CCCAAATACGAAATATTGCCTCAT
* * *
90165223 TTTAATTTAAAAAAAAAAACATGGACGAAATTTTC-AAAGGATATTCCGTATTTTAGCTCAACGA
65 TTTAATTT----AAGAAAACATGGATGAAA-TTTCAAAAGGATATTCCGTATTTTAG-TCAATGA
90165287 A
124 A
* *
90165288 AAATCGAAACTCAGCACGATTGGGCACGATTTCTCA
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCA
90165324 GACCTTCAAA
Statistics
Matches: 242, Mismatches: 42, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
125 77 0.32
128 62 0.26
129 29 0.12
130 57 0.24
133 13 0.05
134 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (124 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAATACGAAATATTGCCTCATT
TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCGTATTTTAGTCAATGAA
Found at i:90166074 original size:23 final size:22
Alignment explanation
Indices: 90166032--90166074 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
90166022 TACAATACAA
*
90166032 GTAATTTAATAAAAATAATAGC
1 GTAATTTAATAAAAAGAATAGC
90166054 GTAATATTAA-AACAAAGAATA
1 GTAAT-TTAATAA-AAAGAATA
90166075 TTTATTACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (22 bp):
GTAATTTAATAAAAAGAATAGC
Found at i:90166126 original size:60 final size:60
Alignment explanation
Indices: 90166062--90166185 Score: 248
Period size: 60 Copynumber: 2.1 Consensus size: 60
90166052 GCGTAATATT
90166062 AAAACAAAGAATATTTATTACAGAAAATTTTAAAAAAGTGTGTTATAAGATAAAATATAA
1 AAAACAAAGAATATTTATTACAGAAAATTTTAAAAAAGTGTGTTATAAGATAAAATATAA
90166122 AAAACAAAGAATATTTATTACAGAAAATTTTAAAAAAGTGTGTTATAAGATAAAATATAA
1 AAAACAAAGAATATTTATTACAGAAAATTTTAAAAAAGTGTGTTATAAGATAAAATATAA
90166182 AAAA
1 AAAA
90166186 TATTCAAATG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.29
Consensus pattern (60 bp):
AAAACAAAGAATATTTATTACAGAAAATTTTAAAAAAGTGTGTTATAAGATAAAATATAA
Found at i:90166149 original size:32 final size:31
Alignment explanation
Indices: 90166062--90166150 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 31
90166052 GCGTAATATT
*
90166062 AAAACAAAGAATATTTATTACAGAAAATT-T
1 AAAACAAAGAATATTTATTACAGAAAATTAA
* * * * *
90166092 TAAA-AAAG--TGTGTTATAAGATAAAATATAA
1 AAAACAAAGAATAT-TTATTACAGAAAAT-TAA
90166122 AAAACAAAGAATATTTATTACAGAAAATT
1 AAAACAAAGAATATTTATTACAGAAAATT
90166151 TTAAAAAAGT
Statistics
Matches: 42, Mismatches: 11, Indels: 11
0.66 0.17 0.17
Matches are distributed among these distances:
27 2 0.05
28 11 0.26
29 5 0.12
30 6 0.14
31 5 0.12
32 11 0.26
33 2 0.05
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.29
Consensus pattern (31 bp):
AAAACAAAGAATATTTATTACAGAAAATTAA
Found at i:90166157 original size:32 final size:32
Alignment explanation
Indices: 90166062--90166157 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 32
90166052 GCGTAATATT
90166062 AAAACAAAGAATATTTATTACAGAAAATTTT-
1 AAAACAAAGAATATTTATTACAGAAAATTTTA
* * * * * *
90166093 -AAA-AAAG--TGTGTTATAAGATAAAATATAA
1 AAAACAAAGAATAT-TTATTACAGAAAATTTTA
90166122 AAAACAAAGAATATTTATTACAGAAAATTTTA
1 AAAACAAAGAATATTTATTACAGAAAATTTTA
90166154 AAAA
1 AAAA
90166158 AGTGTGTTAT
Statistics
Matches: 47, Mismatches: 12, Indels: 11
0.67 0.17 0.16
Matches are distributed among these distances:
27 2 0.04
28 12 0.26
29 4 0.09
30 6 0.13
31 4 0.09
32 17 0.36
33 2 0.04
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (32 bp):
AAAACAAAGAATATTTATTACAGAAAATTTTA
Found at i:90174737 original size:19 final size:19
Alignment explanation
Indices: 90174713--90174754 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
90174703 ACTATTTTGC
90174713 ATAAGT-TGTAAAATAGTTG
1 ATAAGTATGTAAAATAG-TG
*
90174732 ATAAGTATGTGAAATAGTG
1 ATAAGTATGTAAAATAGTG
90174751 ATAA
1 ATAA
90174755 TTTGAAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (19 bp):
ATAAGTATGTAAAATAGTG
Found at i:90174869 original size:30 final size:30
Alignment explanation
Indices: 90174835--90174892 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
90174825 TTTTTGGGCA
* *
90174835 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
90174865 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
90174893 ATGTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:90175304 original size:47 final size:45
Alignment explanation
Indices: 90175233--90175593 Score: 284
Period size: 47 Copynumber: 7.7 Consensus size: 45
90175223 CGATTTGTAC
*
90175233 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGATA
* *
90175279 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCCAGACGA-G
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CAGATGATA
* ** * *
90175326 GACTAGTGTAAGACATGTCTGGGACATGCATCAACCATACTATGATA
1 G-CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGATA
* * *
90175373 GTCAGTGTAAGACAATGTCTGGGACATGGCATCGGTACAGAGATGAGT-
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGG-CCACAGATGA-TA
*
90175421 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGATGATA
* * * * * *
90175468 GCCAGTGTAAGACGTATCTGGGACACGCATCGACTA-AGA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAT-A
* ** * * *
90175512 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CAC--AGATGATA
90175560 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
90175594 TCAATATATC
Statistics
Matches: 248, Mismatches: 44, Indels: 42
0.74 0.13 0.13
Matches are distributed among these distances:
43 6 0.02
44 28 0.11
45 1 0.00
46 39 0.16
47 90 0.36
48 58 0.23
49 22 0.09
50 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGATA
Found at i:90175397 original size:94 final size:93
Alignment explanation
Indices: 90175236--90175593 Score: 374
Period size: 94 Copynumber: 3.8 Consensus size: 93
90175226 TTTGTACGCC
** * *
90175236 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAACCATACTATGATAGCCAGTGTAAGACCATGTCTGG
*
90175301 GACATGGCATCGGCATCCAGACGAG-GACT
66 GACATGGCATCGGCATCAAGA-GAGTG-CT
* *
90175330 AGTGTAAGACATGTCTGGGACATGCATCAACCATACTATGATAGTCAGTGTAAGACAATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAACCATACTATGATAGCCAGTGTAAGACCATGTCTGG
* *
90175395 GACATGGCATCGGTA-CAGAGATGAGTGCC
66 GACATGGCATCGGCATCA-AGA-GAGTGCT
* ** * * *
90175424 AGTGTAAGACATGTTTGGGACATGCATCGGCC-TCGAC-AGAGATAGCCAGTGTAAGA-CGTATC
1 AGTGTAAGACATGTCTGGGACATGCATCAACCAT--ACTA-TGATAGCCAGTGTAAGACCATGTC
* *
90175486 TGGGACA-CGCATCGAC-T-AAGAGATGTGCT
63 TGGGACATGGCATCGGCATCAAGAGA-GTGCT
* * *
90175515 AGTGTAAGACATGTCTGGGACATGCATTAGCACGCGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCA--AC-CATACTATGATAGCCAGTGTAAGACCATGTC
90175579 TGGGACATGGCATCG
63 TGGGACATGGCATCG
90175594 TCAATATATC
Statistics
Matches: 219, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
90 2 0.01
91 33 0.15
92 16 0.07
93 22 0.10
94 127 0.58
95 19 0.09
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACCATACTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCAAGAGAGTGCT
Found at i:90175488 original size:141 final size:137
Alignment explanation
Indices: 90175235--90175593 Score: 390
Period size: 141 Copynumber: 2.6 Consensus size: 137
90175225 ATTTGTACGC
*
90175235 CAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TTATGA-TAGCCAGTGTAAGACCATGTC
1 CAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGATATGAGT-GCCAGTGTAAGACCATGTC
* * * *
90175298 TGGGACATGGCATCGGCATCCAGACGAGGACTAGTGTAAGACATGTCTGGGACATGCATCAACCA
64 TGGGACATGGCATCGGCATCCAGACGAAGACCAGTGTAAGACATATCTGGGACACGCATCAA-C-
**
90175363 TACTATGATAGT-
127 TAAGA-GAT-GTG
* * *
90175375 CAGTGTAAGACAATGTCTGGGACATGGCATCGGTACAGAGATGAGTGCCAGTGTAAGA-CATGTT
1 CAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCACAGATATGAGTGCCAGTGTAAGACCATGTC
* * *
90175439 TGGGACAT-GCATCGGCCTCGACAGA-GATAG-CCAGTGTAAGACGTATCTGGGACACGCATCGA
64 TGGGACATGGCATCGGCATC--CAGACGA-AGACCAGTGTAAGACATATCTGGGACACGCATCAA
90175501 CTAAGAGATGTG
126 CTAAGAGATGTG
** * *
90175513 CTAGTGTAAGACATGTCTGGGACATGCATTAGCACGCGTATATGAGAGCCAGTGTAAGACCATGT
1 C-AGTGTAAGACATGTCTGGGACATGCATCGGCAC-AG-ATATGAGTGCCAGTGTAAGACCATGT
90175578 CTGGGACATGGCATCG
63 CTGGGACATGGCATCG
90175594 TCAATATATC
Statistics
Matches: 186, Mismatches: 20, Indels: 25
0.81 0.09 0.11
Matches are distributed among these distances:
137 9 0.05
138 18 0.10
139 31 0.17
140 35 0.19
141 64 0.34
142 28 0.15
143 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (137 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCACAGATATGAGTGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATCCAGACGAAGACCAGTGTAAGACATATCTGGGACACGCATCAACTAAG
AGATGTG
Found at i:90176620 original size:24 final size:24
Alignment explanation
Indices: 90176573--90176635 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
90176563 GTGTCCCTGG
* *
90176573 CACACGGTCGTGT-GTTCTATACC
1 CACACGGGCGTGTGGATCTATACC
90176596 CACACGGGCGTGTGGATCTATACC
1 CACACGGGCGTGTGGATCTATACC
90176620 CACACGGGCGTGTGGA
1 CACACGGGCGTGTGGA
90176636 GTCTTGATGC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
23 12 0.32
24 25 0.68
ACGTcount: A:0.19, C:0.29, G:0.30, T:0.22
Consensus pattern (24 bp):
CACACGGGCGTGTGGATCTATACC
Found at i:90177322 original size:35 final size:35
Alignment explanation
Indices: 90177272--90177607 Score: 386
Period size: 35 Copynumber: 9.6 Consensus size: 35
90177262 CATGGCAAAA
* * * * *
90177272 TGTGAAATGTTGGTATGGTATTAACCATATTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
90177307 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
90177342 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * * *
90177377 TTTGAAATGTAAGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * * * **
90177412 TGTGAAACATAAGTATGGTATAAACCATACTGAAA
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
90177447 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
90177482 TGTGAAACGTAGCTATGGTATAAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
90177517 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
** * * * *
90177552 TAAGAAACATAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCAT-CCATACTGAGT
* *
90177587 TGTGAAATGTAAGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
90177608 TTCAATGAGG
Statistics
Matches: 257, Mismatches: 43, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
34 1 0.00
35 256 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
Found at i:90179782 original size:29 final size:30
Alignment explanation
Indices: 90179736--90179798 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
90179726 TTATTAATTA
*
90179736 ATTTAAATAGTTAATATTATTAAT-TTTTC
1 ATTTAAATAATTAATATTATTAATATTTTC
** * *
90179765 ATTTAAATAATTTTTATTGTTAATATTTTT
1 ATTTAAATAATTAATATTATTAATATTTTC
90179795 ATTT
1 ATTT
90179799 TTATAATGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (30 bp):
ATTTAAATAATTAATATTATTAATATTTTC
Done.