Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 102 of 313
Found at i:33647517 original size:16 final size:16
Alignment explanation
Indices: 33647496--33647528 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33647486 AAATAAAGTA
*
33647496 AAAGAATAAAAGAAAC
1 AAAGAAGAAAAGAAAC
33647512 AAAGAAGAAAAGAAAC
1 AAAGAAGAAAAGAAAC
33647528 A
1 A
33647529 GAGACCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAC
Found at i:33652236 original size:25 final size:24
Alignment explanation
Indices: 33652208--33652320 Score: 90
Period size: 25 Copynumber: 4.6 Consensus size: 24
33652198 TTATTATGCA
33652208 CTAATGAACAGAGAGCACAGATGTG
1 CTAAT-AACAGAGAGCACAGATGTG
*
33652233 CT-A-AACAGAGAGCACTGATGTG
1 CTAATAACAGAGAGCACAGATGTG
* *
33652255 CTAAATATCAGAGAGCACCA-ACGTG
1 CT-AATAACAGAGAGCA-CAGATGTG
* * *
33652280 CTAATAGTCAAAGAGCACTA-ACGTG
1 CTAATA-ACAGAGAGCAC-AGATGTG
33652305 CTAATAATCAGAGAGC
1 CTAATAA-CAGAGAGC
33652321 GCGCTAAAGT
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
22 20 0.27
24 7 0.09
25 46 0.62
26 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (24 bp):
CTAATAACAGAGAGCACAGATGTG
Found at i:33652239 original size:22 final size:22
Alignment explanation
Indices: 33652214--33652259 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
33652204 TGCACTAATG
33652214 AACAGAGAGCACAGATGTGCTA
1 AACAGAGAGCACAGATGTGCTA
*
33652236 AACAGAGAGCACTGATGTGCTA
1 AACAGAGAGCACAGATGTGCTA
33652258 AA
1 AA
33652260 TATCAGAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.15
Consensus pattern (22 bp):
AACAGAGAGCACAGATGTGCTA
Found at i:33653358 original size:11 final size:11
Alignment explanation
Indices: 33653342--33653367 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33653332 TCTTTCTTTC
33653342 TTTCTCCCCTG
1 TTTCTCCCCTG
33653353 TTTCTCCCCTG
1 TTTCTCCCCTG
33653364 TTTC
1 TTTC
33653368 GTTTCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:33653443 original size:5 final size:5
Alignment explanation
Indices: 33653433--33653457 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
33653423 TATAATGATG
33653433 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
33653458 ACTTACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:33654253 original size:900 final size:900
Alignment explanation
Indices: 33652993--33654792 Score: 3600
Period size: 900 Copynumber: 2.0 Consensus size: 900
33652983 TACCTTATTT
33652993 CTACTTAAATTCTACTTACAACTTAACTTAACTCTCAAATTTTCACTAATAAACCTTAATTTCGA
1 CTACTTAAATTCTACTTACAACTTAACTTAACTCTCAAATTTTCACTAATAAACCTTAATTTCGA
33653058 ATTTCTTACAATTTTACATTAAACTTATAACTTATTTCTCAATTTCATCCTTTCCCCAGTCCTAG
66 ATTTCTTACAATTTTACATTAAACTTATAACTTATTTCTCAATTTCATCCTTTCCCCAGTCCTAG
33653123 TTTTAATTTCCATCAATTCAACCTCTAATTCATCCACTAATTCAATATAAACTACATAAAAAAAT
131 TTTTAATTTCCATCAATTCAACCTCTAATTCATCCACTAATTCAATATAAACTACATAAAAAAAT
33653188 TCTACTAATTCTCAAAATTTCAACATATGCCTACTAGTATTTTGATCTAGAATCATAAAAACTCA
196 TCTACTAATTCTCAAAATTTCAACATATGCCTACTAGTATTTTGATCTAGAATCATAAAAACTCA
33653253 AAAATTACAAGAAAAGGACTTAATTTGACTTACCAATTTGAAATTAAACCTTAAAACCTTAAATT
261 AAAATTACAAGAAAAGGACTTAATTTGACTTACCAATTTGAAATTAAACCTTAAAACCTTAAATT
33653318 TCTTCTTTACTTTTTCTTTCTTTCTTTCTCCCCTGTTTCTCCCCTGTTTCGTTTCAAATTCTATT
326 TCTTCTTTACTTTTTCTTTCTTTCTTTCTCCCCTGTTTCTCCCCTGTTTCGTTTCAAATTCTATT
33653383 CTGTTTCTTTCTTTTTATTTCTTTTCTTTTGTTATATATATATAATGATGTAATATAATATAATA
391 CTGTTTCTTTCTTTTTATTTCTTTTCTTTTGTTATATATATATAATGATGTAATATAATATAATA
33653448 TAATATAATAACTTACTTATTAATTAAATAACATAATATATAATATATATTTTTTAAAAAATATC
456 TAATATAATAACTTACTTATTAATTAAATAACATAATATATAATATATATTTTTTAAAAAATATC
33653513 TTAGATATTTGGTTTGTTATGCCGCCTCAATTTTAGAAAAAGGCATAATTGCCTATTTGGTCCTT
521 TTAGATATTTGGTTTGTTATGCCGCCTCAATTTTAGAAAAAGGCATAATTGCCTATTTGGTCCTT
33653578 TTAACTTTCTTTAATTTATAATTAAACTTTCACACTTATTTTAATCTAATCCATTTTTCCTAATT
586 TTAACTTTCTTTAATTTATAATTAAACTTTCACACTTATTTTAATCTAATCCATTTTTCCTAATT
33653643 ACCCCTAATTAAATCAATTTCACCTAGTCAAAACATAATTAGACACACAACTAACTTCGTAAATA
651 ACCCCTAATTAAATCAATTTCACCTAGTCAAAACATAATTAGACACACAACTAACTTCGTAAATA
33653708 TTTATAATAAATATTTACGAATCCAATTTATCGGAACGGAGTCCCGGAAATGTATTTTTTATTTA
716 TTTATAATAAATATTTACGAATCCAATTTATCGGAACGGAGTCCCGGAAATGTATTTTTTATTTA
33653773 ATCTATTTAAATAAATTTAATCATATAATCAATAAAATTTTATTATCAAAATTTTCATGCAACCT
781 ATCTATTTAAATAAATTTAATCATATAATCAATAAAATTTTATTATCAAAATTTTCATGCAACCT
33653838 TCCTATCATAATATAGACCATACCACAATATTAAAATAAATTTTCTTTCTAGCTC
846 TCCTATCATAATATAGACCATACCACAATATTAAAATAAATTTTCTTTCTAGCTC
33653893 CTACTTAAATTCTACTTACAACTTAACTTAACTCTCAAATTTTCACTAATAAACCTTAATTTCGA
1 CTACTTAAATTCTACTTACAACTTAACTTAACTCTCAAATTTTCACTAATAAACCTTAATTTCGA
33653958 ATTTCTTACAATTTTACATTAAACTTATAACTTATTTCTCAATTTCATCCTTTCCCCAGTCCTAG
66 ATTTCTTACAATTTTACATTAAACTTATAACTTATTTCTCAATTTCATCCTTTCCCCAGTCCTAG
33654023 TTTTAATTTCCATCAATTCAACCTCTAATTCATCCACTAATTCAATATAAACTACATAAAAAAAT
131 TTTTAATTTCCATCAATTCAACCTCTAATTCATCCACTAATTCAATATAAACTACATAAAAAAAT
33654088 TCTACTAATTCTCAAAATTTCAACATATGCCTACTAGTATTTTGATCTAGAATCATAAAAACTCA
196 TCTACTAATTCTCAAAATTTCAACATATGCCTACTAGTATTTTGATCTAGAATCATAAAAACTCA
33654153 AAAATTACAAGAAAAGGACTTAATTTGACTTACCAATTTGAAATTAAACCTTAAAACCTTAAATT
261 AAAATTACAAGAAAAGGACTTAATTTGACTTACCAATTTGAAATTAAACCTTAAAACCTTAAATT
33654218 TCTTCTTTACTTTTTCTTTCTTTCTTTCTCCCCTGTTTCTCCCCTGTTTCGTTTCAAATTCTATT
326 TCTTCTTTACTTTTTCTTTCTTTCTTTCTCCCCTGTTTCTCCCCTGTTTCGTTTCAAATTCTATT
33654283 CTGTTTCTTTCTTTTTATTTCTTTTCTTTTGTTATATATATATAATGATGTAATATAATATAATA
391 CTGTTTCTTTCTTTTTATTTCTTTTCTTTTGTTATATATATATAATGATGTAATATAATATAATA
33654348 TAATATAATAACTTACTTATTAATTAAATAACATAATATATAATATATATTTTTTAAAAAATATC
456 TAATATAATAACTTACTTATTAATTAAATAACATAATATATAATATATATTTTTTAAAAAATATC
33654413 TTAGATATTTGGTTTGTTATGCCGCCTCAATTTTAGAAAAAGGCATAATTGCCTATTTGGTCCTT
521 TTAGATATTTGGTTTGTTATGCCGCCTCAATTTTAGAAAAAGGCATAATTGCCTATTTGGTCCTT
33654478 TTAACTTTCTTTAATTTATAATTAAACTTTCACACTTATTTTAATCTAATCCATTTTTCCTAATT
586 TTAACTTTCTTTAATTTATAATTAAACTTTCACACTTATTTTAATCTAATCCATTTTTCCTAATT
33654543 ACCCCTAATTAAATCAATTTCACCTAGTCAAAACATAATTAGACACACAACTAACTTCGTAAATA
651 ACCCCTAATTAAATCAATTTCACCTAGTCAAAACATAATTAGACACACAACTAACTTCGTAAATA
33654608 TTTATAATAAATATTTACGAATCCAATTTATCGGAACGGAGTCCCGGAAATGTATTTTTTATTTA
716 TTTATAATAAATATTTACGAATCCAATTTATCGGAACGGAGTCCCGGAAATGTATTTTTTATTTA
33654673 ATCTATTTAAATAAATTTAATCATATAATCAATAAAATTTTATTATCAAAATTTTCATGCAACCT
781 ATCTATTTAAATAAATTTAATCATATAATCAATAAAATTTTATTATCAAAATTTTCATGCAACCT
33654738 TCCTATCATAATATAGACCATACCACAATATTAAAATAAATTTTCTTTCTAGCTC
846 TCCTATCATAATATAGACCATACCACAATATTAAAATAAATTTTCTTTCTAGCTC
33654793 GGATTTGTGG
Statistics
Matches: 900, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
900 900 1.00
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (900 bp):
CTACTTAAATTCTACTTACAACTTAACTTAACTCTCAAATTTTCACTAATAAACCTTAATTTCGA
ATTTCTTACAATTTTACATTAAACTTATAACTTATTTCTCAATTTCATCCTTTCCCCAGTCCTAG
TTTTAATTTCCATCAATTCAACCTCTAATTCATCCACTAATTCAATATAAACTACATAAAAAAAT
TCTACTAATTCTCAAAATTTCAACATATGCCTACTAGTATTTTGATCTAGAATCATAAAAACTCA
AAAATTACAAGAAAAGGACTTAATTTGACTTACCAATTTGAAATTAAACCTTAAAACCTTAAATT
TCTTCTTTACTTTTTCTTTCTTTCTTTCTCCCCTGTTTCTCCCCTGTTTCGTTTCAAATTCTATT
CTGTTTCTTTCTTTTTATTTCTTTTCTTTTGTTATATATATATAATGATGTAATATAATATAATA
TAATATAATAACTTACTTATTAATTAAATAACATAATATATAATATATATTTTTTAAAAAATATC
TTAGATATTTGGTTTGTTATGCCGCCTCAATTTTAGAAAAAGGCATAATTGCCTATTTGGTCCTT
TTAACTTTCTTTAATTTATAATTAAACTTTCACACTTATTTTAATCTAATCCATTTTTCCTAATT
ACCCCTAATTAAATCAATTTCACCTAGTCAAAACATAATTAGACACACAACTAACTTCGTAAATA
TTTATAATAAATATTTACGAATCCAATTTATCGGAACGGAGTCCCGGAAATGTATTTTTTATTTA
ATCTATTTAAATAAATTTAATCATATAATCAATAAAATTTTATTATCAAAATTTTCATGCAACCT
TCCTATCATAATATAGACCATACCACAATATTAAAATAAATTTTCTTTCTAGCTC
Found at i:33654258 original size:11 final size:11
Alignment explanation
Indices: 33654242--33654267 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33654232 TCTTTCTTTC
33654242 TTTCTCCCCTG
1 TTTCTCCCCTG
33654253 TTTCTCCCCTG
1 TTTCTCCCCTG
33654264 TTTC
1 TTTC
33654268 GTTTCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:33654343 original size:5 final size:5
Alignment explanation
Indices: 33654333--33654357 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
33654323 TATAATGATG
33654333 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
33654358 ACTTACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:33655444 original size:5 final size:5
Alignment explanation
Indices: 33655434--33655458 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
33655424 TATAATGATG
33655434 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
33655459 ACTTACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:33658408 original size:22 final size:19
Alignment explanation
Indices: 33658378--33658436 Score: 50
Period size: 22 Copynumber: 2.9 Consensus size: 19
33658368 TCCTTAACAT
33658378 TATT-AAATATTAATAATG
1 TATTAAAATATTAATAATG
*
33658396 TGCATATAAAATAATT-TTAATG
1 T--AT-TAAAAT-ATTAATAATG
33658418 TATTAAAATATTAGATAAT
1 TATTAAAATATTA-ATAAT
33658437 TGATGTGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 4 0.12
19 6 0.19
20 8 0.25
21 1 0.03
22 10 0.31
23 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (19 bp):
TATTAAAATATTAATAATG
Found at i:33658719 original size:23 final size:25
Alignment explanation
Indices: 33658689--33658741 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
33658679 ATAGAAAATA
*
33658689 TTTTTTTCATT-TTTT-AATCTAAT
1 TTTTTTTCATTATTTTCAATATAAT
33658712 TTTTTTTCATTATTTTCAATATAAT
1 TTTTTTTCATTATTTTCAATATAAT
*
33658737 GTTTT
1 TTTTT
33658742 AATTTATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 11 0.42
24 4 0.15
25 11 0.42
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (25 bp):
TTTTTTTCATTATTTTCAATATAAT
Found at i:33658727 original size:25 final size:23
Alignment explanation
Indices: 33658689--33658741 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
33658679 ATAGAAAATA
* *
33658689 TTTTTTTCATTTTTTAATCTAAT
1 TTTTTTTCATTTTTCAATATAAT
33658712 TTTTTTTCATTATTTTCAATATAAT
1 TTTTTTTCA-T-TTTTCAATATAAT
*
33658737 GTTTT
1 TTTTT
33658742 AATTTATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.36
24 1 0.04
25 15 0.60
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTTTTCATTTTTCAATATAAT
Found at i:33660503 original size:12 final size:12
Alignment explanation
Indices: 33660486--33660510 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33660476 AAAGGGGACA
33660486 TTTTGGACTCCC
1 TTTTGGACTCCC
33660498 TTTTGGACTCCC
1 TTTTGGACTCCC
33660510 T
1 T
33660511 CGAGTTCCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.32, G:0.16, T:0.44
Consensus pattern (12 bp):
TTTTGGACTCCC
Found at i:33662213 original size:13 final size:13
Alignment explanation
Indices: 33662197--33662221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33662187 ACCAAAAAGG
33662197 TTTTACTAAAATA
1 TTTTACTAAAATA
33662210 TTTTACTAAAAT
1 TTTTACTAAAAT
33662222 TATGATATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTACTAAAATA
Found at i:33664588 original size:6 final size:6
Alignment explanation
Indices: 33664577--33664607 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
33664567 ACATAAGTTC
33664577 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
33664608 ATCGTCTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:33681215 original size:21 final size:22
Alignment explanation
Indices: 33681174--33681230 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
33681164 AAACCCAACT
*
33681174 AACCTAGCCCAATACCCTAAACC
1 AACCTAGCCCAATA-CCTAAAAC
33681197 AACCTAGCCCAAT-CCTAAAAC
1 AACCTAGCCCAATACCTAAAAC
*
33681218 TACCTGAGCCCAA
1 AACCT-AGCCCAA
33681231 AATTTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 11 0.35
22 7 0.23
23 13 0.42
ACGTcount: A:0.39, C:0.40, G:0.07, T:0.14
Consensus pattern (22 bp):
AACCTAGCCCAATACCTAAAAC
Found at i:33682947 original size:18 final size:20
Alignment explanation
Indices: 33682922--33682965 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
33682912 CTATTTAAAC
33682922 ATATTTTT-TCACACTT-CAT
1 ATATTTTTAT-ACACTTACAT
33682941 A-ATTTTTATACACTTACAT
1 ATATTTTTATACACTTACAT
33682960 ATATTT
1 ATATTT
33682966 ATGCATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTTTATACACTTACAT
Found at i:33683648 original size:106 final size:106
Alignment explanation
Indices: 33683456--33683656 Score: 357
Period size: 106 Copynumber: 1.9 Consensus size: 106
33683446 AAAATTTTTC
33683456 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
* *
33683521 TTCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
* *
33683562 TAAATAAGGCGATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
33683627 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
33683657 CTTAAAGCTT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 90 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:33695196 original size:88 final size:88
Alignment explanation
Indices: 33695054--33695707 Score: 703
Period size: 88 Copynumber: 7.4 Consensus size: 88
33695044 GAAGTCATTA
* * * * ** *
33695054 AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCTTATCTTCCTA
1 AAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTA
*
33695118 TATTGGTAGGAAGTAGATCGACG
66 TATTGGTAGGAAGTAGATCGAAG
* * * *
33695141 ACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCCCA
1 AAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTA
*
33695206 TATTGGTGGCGAAGTAGATCGAAG
66 TATTGGTAG-GAAGTAGATCGAAG
* * * * * *
33695230 AAAGTAGATCTTATCTTCCTATATTGGTAG-GAAGTAGATCGACG-ACGCAGATCTTGTCTTCCC
1 -AAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCT
* * *
33695293 ATATTGGTGGCGAAGTAGGTTGAAG
65 ATATTGGTAG-GAAGTAGATCGAAG
* * * *
33695318 AAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATATTATCTTCCT
1 -AAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCT
*
33695383 ATATTGGTAGGAAGTGGATCGAAG
65 ATATTGGTAGGAAGTAGATCGAAG
* * * *
33695407 ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATG
1 AAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTA
*
33695472 TATTGG-CGTGAAGTAGATCGAAG
66 TATTGGTAG-GAAGTAGATCGAAG
* * * * * * * *
33695495 ATATCAGATCCTATCTTCCTATACTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCC
1 A-AGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCT
*
33695558 ATATTGGT-GGCAAAGTAGATCGCAG
65 ATATTGGTAGG--AAGTAGATCGAAG
* * * * * * * *
33695583 AAAGCAGATCTTATCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCT
1 -AAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCT
*
33695647 ATATTGGTAGGAAGTGGATCGAAG
65 ATATTGGTAGGAAGTAGATCGAAG
* *
33695671 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
1 AAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAG
33695708 NNNNNNNNNN
Statistics
Matches: 473, Mismatches: 79, Indels: 29
0.81 0.14 0.05
Matches are distributed among these distances:
86 1 0.00
87 67 0.14
88 262 0.55
89 94 0.20
90 49 0.10
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (88 bp):
AAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTA
TATTGGTAGGAAGTAGATCGAAG
Found at i:33695290 original size:133 final size:132
Alignment explanation
Indices: 33695053--33695707 Score: 979
Period size: 133 Copynumber: 4.9 Consensus size: 132
33695043 TGAAGTCATT
* *
33695053 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCTTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTATCTTCCTA
* * * *
33695118 TATTGGTAGGAAGTAGATCGACGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
33695183 AG
131 AG
*** * * *
33695185 AAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTATCTTCCT
1 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGTAGATCTTATCTTCCT
* * * * *
33695250 ATATTGGTAGGAAGTAGATCGACGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTTG
65 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
33695315 AAG
130 AAG
*** * * * *
33695318 AAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATATTATCTTCCT
1 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGTAGATCTTATCTTCCT
*
33695383 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCG
65 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
33695448 AAG
130 AAG
* *
33695451 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATA-TCAGATCCTATCTTCCT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGT-AGATCTTATCTTCCT
* *
33695515 ATACTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCG
65 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
33695580 CAG
130 AAG
* * *
33695583 AAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTATCTTCCTA
33695648 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
33695708 NNNNNNNNNN
Statistics
Matches: 486, Mismatches: 34, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 237 0.49
133 248 0.51
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
AG
Found at i:33709218 original size:30 final size:30
Alignment explanation
Indices: 33709163--33709224 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
33709153 CTCTAAGCAA
33709163 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
33709192 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
33709223 GT
1 GT
33709225 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:33709413 original size:25 final size:25
Alignment explanation
Indices: 33709376--33709461 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 25
33709366 GTACATGTAT
* * *
33709376 GCTCATGCAAGCTATAAATCGGTAT
1 GCTCATACGAGCTATAAATCGGTAA
*
33709401 GCTC-TCACGAGCTATGAATCGGTAA
1 GCTCAT-ACGAGCTATAAATCGGTAA
** *
33709426 GCTCATACGAGCTGCAAATCGGGAA
1 GCTCATACGAGCTATAAATCGGTAA
33709451 GCTCATACGAG
1 GCTCATACGAG
33709462 ATGTGGTGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.02
25 49 0.96
26 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCGGTAA
Found at i:33715341 original size:7 final size:6
Alignment explanation
Indices: 33715320--33715427 Score: 51
Period size: 6 Copynumber: 16.8 Consensus size: 6
33715310 GTTTATTATT
* * * *
33715320 AAATCA AAATTA AAACTTA AAA-TA TACATTT AAATTA CAATTA AAATTTCA
1 AAATTA AAATTA AAA-TTA AAATTA -AAATTA AAATTA AAATTA AAA-TT-A
* *
33715371 CAAATATAA ATACATT- AAATTA AAATTA AAAATA TAATTA CAAATT-
1 -AAAT-T-A A-A-ATTA AAATTA AAATTA AAATTA AAATTA -AAATTA
33715417 AAATTA AAATT
1 AAATTA AAATT
33715428 CACCAATTTC
Statistics
Matches: 78, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
5 10 0.13
6 42 0.54
7 14 0.18
8 3 0.04
9 7 0.09
10 2 0.03
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:33715353 original size:31 final size:34
Alignment explanation
Indices: 33715316--33715401 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 34
33715306 AAGAGTTTAT
* *
33715316 TATTAAATCAAAATTAAAACTT-A-AAATATACA
1 TATTAAATTAAAATTAAAACTTCACAAATATAAA
* *
33715348 T-TTAAATTACAATTAAAATTTCACAAATATAAA
1 TATTAAATTAAAATTAAAACTTCACAAATATAAA
33715381 TACATTAAATTAAAATTAAAA
1 T--ATTAAATTAAAATTAAAA
33715402 ATATAATTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 17 0.39
32 2 0.05
33 9 0.20
36 16 0.36
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (34 bp):
TATTAAATTAAAATTAAAACTTCACAAATATAAA
Found at i:33715366 original size:12 final size:12
Alignment explanation
Indices: 33715325--33715427 Score: 63
Period size: 12 Copynumber: 8.5 Consensus size: 12
33715315 TTATTAAATC
*
33715325 AAAATTAAAACTT
1 AAAATTACAA-TT
33715338 AAAATATAC-ATT
1 AAAAT-TACAATT
*
33715350 TAAATTACAATT
1 AAAATTACAATT
*
33715362 AAAATTTCACAAAT
1 AAAA-TT-ACAATT
33715376 ATAAA-TAC-ATT
1 A-AAATTACAATT
*
33715387 -AAATTAAAATT
1 AAAATTACAATT
* *
33715398 AAAAATATAATT
1 AAAATTACAATT
33715410 ACAAATTA-AATT
1 A-AAATTACAATT
33715422 AAAATT
1 AAAATT
33715428 CACCAATTTC
Statistics
Matches: 72, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
9 3 0.04
10 2 0.03
11 13 0.18
12 29 0.40
13 14 0.19
14 8 0.11
15 3 0.04
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATTACAATT
Found at i:33715394 original size:30 final size:30
Alignment explanation
Indices: 33715326--33715427 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 30
33715316 TATTAAATCA
* *
33715326 AAATTAAAACTT-AAAATATACATTTA-AATT
1 AAATTAAAATTTAAAAATATA-A-ATACAATT
*
33715356 ACAATTAAAATTTCACAAATATAAATAC-ATT
1 A-AATTAAAATTT-AAAAATATAAATACAATT
*
33715387 AAATTAAAA-TTAAAAATATAATTACAAATT
1 AAATTAAAATTTAAAAATATAAATAC-AATT
33715417 AAATTAAAATT
1 AAATTAAAATT
33715428 CACCAATTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
28 12 0.20
29 2 0.03
30 21 0.35
31 17 0.28
32 1 0.02
33 7 0.12
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (30 bp):
AAATTAAAATTTAAAAATATAAATACAATT
Found at i:33720452 original size:17 final size:16
Alignment explanation
Indices: 33720417--33720492 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 16
33720407 GAATTCAAAA
*
33720417 TAAAAA-ATAAAA-AC
1 TAAAAATATAAAATTC
33720431 TAAAAATATAAAAGTTC
1 TAAAAATATAAAA-TTC
*
33720448 TAAAAATTTATATAAATTT
1 TAAAAA--TATA-AAATTC
*
33720467 TAAAAAATTTAAAATT-
1 T-AAAAATATAAAATTC
33720483 TAAAAATATA
1 TAAAAATATA
33720493 TAAAAAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
14 6 0.12
15 14 0.27
16 1 0.02
17 12 0.24
18 3 0.06
19 7 0.14
20 8 0.16
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (16 bp):
TAAAAATATAAAATTC
Found at i:33720506 original size:20 final size:19
Alignment explanation
Indices: 33720432--33720513 Score: 82
Period size: 19 Copynumber: 4.5 Consensus size: 19
33720422 AATAAAAACT
* *
33720432 AAAA-ATATAAAAGTTCTA
1 AAAATATATAAAAATTTTA
* *
33720450 AAAATTTATATAAATTTTA
1 AAAATATATAAAAATTTTA
*
33720469 AAAA-AT-TTAAAA-TTTA
1 AAAATATATAAAAATTTTA
33720485 AAAATATATAAAAAATTTTA
1 AAAATATAT-AAAAATTTTA
33720505 AAAATATAT
1 AAAATATAT
33720514 TTCTCAATAA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.16
17 6 0.12
18 6 0.12
19 18 0.35
20 13 0.25
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (19 bp):
AAAATATATAAAAATTTTA
Found at i:33720508 original size:35 final size:36
Alignment explanation
Indices: 33720431--33720512 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 36
33720421 AAATAAAAAC
* *
33720431 TAAAAATATAAAAGTTCTAAAAATTTATATAAATTT
1 TAAAAATATAAAAGTTCTAAAAATATATAAAAATTT
*
33720467 TAAAAAATTTAAAA-TT-TAAAAATATATAAAAAATTT
1 T-AAAAATATAAAAGTTCTAAAAATATAT-AAAAATTT
33720503 TAAAAATATA
1 TAAAAATATA
33720513 TTTCTCAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 18 0.45
36 11 0.28
37 11 0.28
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (36 bp):
TAAAAATATAAAAGTTCTAAAAATATATAAAAATTT
Found at i:33726836 original size:11 final size:11
Alignment explanation
Indices: 33726820--33726852 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
33726810 CAATATATAT
33726820 AAAATTATAAA
1 AAAATTATAAA
33726831 AAAATT-TCAAA
1 AAAATTAT-AAA
33726842 AAAATTATAAA
1 AAAATTATAAA
33726853 TAATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:33727289 original size:20 final size:20
Alignment explanation
Indices: 33727245--33727289 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
33727235 AAAAGTTTGC
* * *
33727245 ATTTTATTAATTTTTAATAT
1 ATTTTATTAATTTTCAAAAG
33727265 ATTTTATTAATTTTCAAAAG
1 ATTTTATTAATTTTCAAAAG
*
33727285 GTTTT
1 ATTTT
33727290 TAGAAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
ATTTTATTAATTTTCAAAAG
Found at i:33727455 original size:21 final size:21
Alignment explanation
Indices: 33727431--33727472 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
33727421 ACATGATGCA
33727431 TTCTAATAGGCTTCATGTGTC
1 TTCTAATAGGCTTCATGTGTC
33727452 TTCTAATAGGCTTCATGTGTC
1 TTCTAATAGGCTTCATGTGTC
33727473 GGGTTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (21 bp):
TTCTAATAGGCTTCATGTGTC
Found at i:33736426 original size:30 final size:30
Alignment explanation
Indices: 33736387--33736449 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
33736377 ACTTATTTTA
*
33736387 TTGTCAATTTTGTTATTATTTTAAAGGTAT
1 TTGTCAATTTTGTTATTATTTTAAAGGCAT
* *
33736417 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTCAATTTTGTTATTATTTTAAAGGCAT
33736447 TTG
1 TTG
33736450 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTCAATTTTGTTATTATTTTAAAGGCAT
Found at i:33743681 original size:6 final size:6
Alignment explanation
Indices: 33743672--33743700 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
33743662 TTTGGGGTGT
33743672 GAATGG GAATGG GAATGG GAATGG GAATG
1 GAATGG GAATGG GAATGG GAATGG GAATG
33743701 TAGTAGGGTT
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:0.34, C:0.00, G:0.48, T:0.17
Consensus pattern (6 bp):
GAATGG
Found at i:33744536 original size:26 final size:30
Alignment explanation
Indices: 33744506--33744575 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 30
33744496 TTTGAGAGTT
33744506 ATTAATATTTATTTATA-AT-AAT-AA-TA
1 ATTAATATTTATTTATATATAAATAAAGTA
* * *
33744532 ATTAATATTTAATTATATTTAAATAAAGTT
1 ATTAATATTTATTTATATATAAATAAAGTA
33744562 ATTAATATTTATTT
1 ATTAATATTTATTT
33744576 GCAAGTTCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 16 0.44
27 1 0.03
28 3 0.08
29 2 0.06
30 14 0.39
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (30 bp):
ATTAATATTTATTTATATATAAATAAAGTA
Found at i:33744882 original size:22 final size:18
Alignment explanation
Indices: 33744841--33744885 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
33744831 CTTCAGTTTT
33744841 CTTTTTTTTTTCTCTCTC
1 CTTTTTTTTTTCTCTCTC
33744859 CTTTGTTTTTTTCATCTTCTTC
1 CTTT-TTTTTTTC-TC-TC-TC
33744881 CTTTT
1 CTTTT
33744886 AACTCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 8 0.35
20 2 0.09
21 3 0.13
22 6 0.26
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.71
Consensus pattern (18 bp):
CTTTTTTTTTTCTCTCTC
Found at i:33747325 original size:27 final size:27
Alignment explanation
Indices: 33747248--33747327 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
33747238 GAAATATTTT
*
33747248 GATATTTTATAATTA-TTTAGTTAGATAA
1 GATATTTTATTATTATTTTA-TTAG-TAA
**
33747276 -ATATTATT-TTATTAATACT-TTAGTAA
1 GATATT-TTATTATT-ATTTTATTAGTAA
33747302 GATATTTTATTATTATTTTATTAGTA
1 GATATTTTATTATTATTTTATTAGTA
33747328 TATAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
26 8 0.20
27 29 0.71
28 3 0.07
29 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (27 bp):
GATATTTTATTATTATTTTATTAGTAA
Found at i:33749252 original size:46 final size:46
Alignment explanation
Indices: 33749200--33749427 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
33749190 AGTGTGCTCT
*
33749200 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
33749246 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
33749292 CTGATATGAAATGTGTAAGACCATTGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
33749338 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** * *
33749384 ATGACA-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
33749428 TCACGTCAAA
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 166 0.99
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:33762151 original size:32 final size:32
Alignment explanation
Indices: 33762099--33762160 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
33762089 AATTTTTAGC
*
33762099 ACTTTGGCCTATATACTTTATTTTTGCTATTA
1 ACTTTAGCCTATATACTTTATTTTTGCTATTA
* *
33762131 ACTTTAGCCTTTATATTTTATTTTTGCTAT
1 ACTTTAGCCTATATACTTTATTTTTGCTAT
33762161 ATAAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (32 bp):
ACTTTAGCCTATATACTTTATTTTTGCTATTA
Found at i:33771743 original size:17 final size:17
Alignment explanation
Indices: 33771708--33771745 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
33771698 ACTTTTCGCA
* *
33771708 TTTT-TTTTTCTTTTTT
1 TTTTGTTTTTCTTGTCT
33771724 TTTTGTTTTTCTTGTCT
1 TTTTGTTTTTCTTGTCT
33771741 TTTTG
1 TTTTG
33771746 CAAATTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (17 bp):
TTTTGTTTTTCTTGTCT
Found at i:33773478 original size:126 final size:126
Alignment explanation
Indices: 33773238--33773540 Score: 306
Period size: 126 Copynumber: 2.4 Consensus size: 126
33773228 AACATAAGGA
* * * * * * *
33773238 AATATTTCGTGTTT-GGGAGTTCGAGGGGTCATGCCCAATCGTGCTGGGTTTCGATTTTTCGTTC
1 AATATTTCGTATTTGGGGAGTTCGAGAGATCATGCCCAATCGTGCTGGGTTTCAATCTTCCATTC
** * * **
33773302 AACTAAAATACGGAATATTCTTTGGAATTTTCGTCCATACTTTTTAAAATTAAAATGAGGC
66 AACTAAAATACAAAATATCCTTTGGAAATTTCACCCATACTTTTTAAAATTAAAATGAGGC
* * * *
33773363 AATATTTCGTATTTGGGGAGTTTGAGAGATCGTGTCTAATCGTGCTGGGTTTCAATCTTCCATTC
1 AATATTTCGTATTTGGGGAGTTCGAGAGATCATGCCCAATCGTGCTGGGTTTCAATCTTCCATTC
* * * *
33773428 GACTAAAATACAAAATATCCTTTTGAAATTTCACCCAT-GTTTTCTTAAATTAAAATGAGGC
66 AACTAAAATACAAAATATCCTTTGGAAATTTCACCCATACTTTT-TAAAATTAAAATGAGGC
* * * * * * * * *
33773489 AATGTTTTGTATTT-GGAAATTCAATAAATCGTGCCCAGTCGTGCTGGGTTTC
1 AATATTTCGTATTTGGGGAGTTCGAGAGATCATGCCCAATCGTGCTGGGTTTC
33773541 GATTTACTGT
Statistics
Matches: 144, Mismatches: 32, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
125 46 0.32
126 98 0.68
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (126 bp):
AATATTTCGTATTTGGGGAGTTCGAGAGATCATGCCCAATCGTGCTGGGTTTCAATCTTCCATTC
AACTAAAATACAAAATATCCTTTGGAAATTTCACCCATACTTTTTAAAATTAAAATGAGGC
Found at i:33784784 original size:64 final size:64
Alignment explanation
Indices: 33784683--33784810 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
33784673 CATTCTGCAG
33784683 CACATCTAACTAGAAGCATTTGATCCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAACTAGAAGCATTTGATCCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * *
33784747 CACATCTACCTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAACTAGAAGCATTTGATCCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
33784811 AAATACATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (64 bp):
CACATCTAACTAGAAGCATTTGATCCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:33784800 original size:32 final size:31
Alignment explanation
Indices: 33784700--33784800 Score: 73
Period size: 32 Copynumber: 3.2 Consensus size: 31
33784690 AACTAGAAGC
33784700 ATTTGATCCATTTTGATCATAGCATCCTAATT
1 ATTTGAT-CATTTTGATCATAGCATCCTAATT
** * * **
33784732 ATTTGA-CA-TAAGCATCACATC-TACCTAGGAGC
1 ATTTGATCATTTTG-ATCATAGCAT-CCTA--ATT
33784764 ATTTGATTCATTTTGATCATAGCATCCTAATT
1 ATTTGA-TCATTTTGATCATAGCATCCTAATT
33784796 ATTTG
1 ATTTG
33784801 GCATAAGCAT
Statistics
Matches: 49, Mismatches: 12, Indels: 16
0.64 0.16 0.21
Matches are distributed among these distances:
29 3 0.06
30 12 0.24
32 19 0.39
34 12 0.24
35 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (31 bp):
ATTTGATCATTTTGATCATAGCATCCTAATT
Found at i:33785141 original size:133 final size:133
Alignment explanation
Indices: 33784971--33785260 Score: 436
Period size: 133 Copynumber: 2.2 Consensus size: 133
33784961 AAATGGCGAG
* * * *
33784971 TCTTATCTCTATCTATCGACTATGGAGCAGATTTTAGCTACCAACCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCTATGTATCGGCTATGGAACAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
* *
33785036 AGAGAGCAGGTTGAAGATATGATTCTTATCTTCCTAAGGTAGCAAGGAAAAAGACTGCAAATTAT
66 AGAGAGCAGGTTGAAGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAAAAGACTGCAAATTAT
33785101 AGA
131 AGA
* * * * *
33785104 TCTTATCTCCATGTATCGGCTATGGAACAGATTTTAGCCACTAGCCTTATCTCTTTGAGGTAGTA
1 TCTTATCTCTATGTATCGGCTATGGAACAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
* * * *
33785169 AGAGAGTAGGTTGAGGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGATTGCAAATTAT
66 AGAGAGCAGGTTGAAGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAAAAGACTGCAAATTAT
33785234 AGA
131 AGA
*
33785237 TCTTATCTCTATGTATTGGCTATG
1 TCTTATCTCTATGTATCGGCTATG
33785261 AAGCTGATCG
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 140 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (133 bp):
TCTTATCTCTATGTATCGGCTATGGAACAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
AGAGAGCAGGTTGAAGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAAAAGACTGCAAATTAT
AGA
Found at i:33785463 original size:45 final size:45
Alignment explanation
Indices: 33785394--33785491 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
33785384 GCAGTAAGGT
* * *
33785394 AACAGACTGAAAATTGCAGATCTTATCTCCATATATCGGCTATGG
1 AACAGATTGAAAATGGCAGATCTTATCTCCATATATCGGCAATGG
*
33785439 AACAGATTGAAAATGGC-GAGTCTTATCTCCATGTATCGGCAATGG
1 AACAGATTGAAAATGGCAGA-TCTTATCTCCATATATCGGCAATGG
*
33785484 AGCAGATT
1 AACAGATT
33785492 TAAGCCATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 2 0.04
45 45 0.96
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (45 bp):
AACAGATTGAAAATGGCAGATCTTATCTCCATATATCGGCAATGG
Found at i:33785475 original size:177 final size:177
Alignment explanation
Indices: 33785104--33785708 Score: 721
Period size: 177 Copynumber: 3.4 Consensus size: 177
33785094 AAATTATAGA
* * * * * *
33785104 TCTTATCTCCATGTATCGGCTATGGAACAGATTTTAGCCACTAGCCTTATCTCTTTGAGGTAGTA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * * * * * * * * * *
33785169 AGAGAGTAGGTTGAGGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGATTGCAAATTAT
66 AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCTAA-GCAGTAAGGTAACAGACTGAAAATTAC
* * * *
33785234 AGATCTTATCTCTATGTATTGGCTAT-GAAGCTGATCGAAAATGGTGAG
130 AGATCTTATCTCCATGTATCGGCTATGGAA-CAGATTGAAAATGGTGAG
* * * * * * *
33785282 TCTTATCTCTATGTATCAGCTATAGAGCATATTTAAGCTACCGGCCTTATCTCTCTAAGATAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * *
33785347 AGAGAGCAGGTTGAAGATGCGAGCCTTAACCCCCTAAGCAGTAAGGTAACAGACTGAAAATTGCA
66 AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCTAAGCAGTAAGGTAACAGACTGAAAATTACA
* *
33785412 GATCTTATCTCCATATATCGGCTATGGAACAGATTGAAAATGGCGAG
131 GATCTTATCTCCATGTATCGGCTATGGAACAGATTGAAAATGGTGAG
* * * *
33785459 TCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCATCAGTCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * ** *
33785524 AGAGAGCAGGTTGAAGATACAAGCCTTAACCTCCTAAGCAGTAGGGTAATGGGCTGAAAATTACA
66 AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCTAAGCAGTAAGGTAACAGACTGAAAATTACA
* * * * *
33785589 GATCTTATCTCCATGTA-CAGACTATGGAGCAGA-TCAGATATGATGAG
131 GATCTTATCTCCATGTATC-GGCTATGGAACAGATTGA-AAATGGTGAG
*
33785636 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
33785701 AGAGAGCA
66 AGAGAGCA
33785709 AGTTAAAGTT
Statistics
Matches: 360, Mismatches: 64, Indels: 7
0.84 0.15 0.02
Matches are distributed among these distances:
176 3 0.01
177 272 0.76
178 85 0.24
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (177 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCTAAGCAGTAAGGTAACAGACTGAAAATTACA
GATCTTATCTCCATGTATCGGCTATGGAACAGATTGAAAATGGTGAG
Found at i:33785507 original size:311 final size:311
Alignment explanation
Indices: 33784915--33785525 Score: 648
Period size: 311 Copynumber: 2.0 Consensus size: 311
33784905 TAACAGGCTA
*
33784915 CAAATTACAGATCTTATCTCCATGTATCGGATATGGAGTAGATCAGAAATGGCGAGTCTTATCTC
1 CAAATTACAGATCTTATCTCCATGTATCGGATATGAAGTAGATCAGAAATGGCGAGTCTTATCTC
* * * *
33784980 TATCTATCGACTATGGAGCAGATTTTAGCTACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAG
66 TATCTATCGACTATAGAGCAGATTTAAGCTACCAACCTTATCTCTCTAAGATAGCAAGAGAGCAG
* ** * ** * * *
33785045 GTTGAAGATATGATTCTTATCTTCCTAAGGTAGCAAGGAAAAAGACTGCAAATTATAGATCTTAT
131 GTTGAAGATACGAGCCTTAACCCCCTAAGGCAGCAAGGAAAAAGACTGAAAATTACAGATCTTAT
* ** * * ** * *
33785110 CTCCATGTATCGGCTATGGAACAGATTTTAGCCACTAGCCTTATCTCTTTGAGGTAGTAAGAGAG
196 CTCCATATATCGGCTATGGAACAGATTAAAACCACGAGCCTTATCTCCATGAGGCAATAAGAGAG
* *
33785175 TAGGTTGAGGATACGAGTCTTATCT-TCCTAAGGTAGCAAGGAAACAGATTG
261 TAGGTTAAGCATACGAGTCTTATCTCT-CTAAGGTAGCAAGGAAACAGATTG
* * * * *
33785226 CAAATTATAGATCTTATCTCTATGTATTGGCTATGAAGCT-GATC-GAAAATGGTGAGTCTTATC
1 CAAATTACAGATCTTATCTCCATGTATCGGATATGAAG-TAGATCAG-AAATGGCGAGTCTTATC
* * **
33785289 TCTATGTATC-AGCTATAGAGCATATTTAAGCTACCGGCCTTATCTCTCTAAGATAGCAAGAGAG
64 TCTATCTATCGA-CTATAGAGCAGATTTAAGCTACCAACCTTATCTCTCTAAGATAGCAAGAGAG
* * * * *
33785353 CAGGTTGAAGATGCGAGCCTTAACCCCCTAA-GCAGTAAGGTAACAGACTGAAAATTGCAGATCT
128 CAGGTTGAAGATACGAGCCTTAACCCCCTAAGGCAGCAAGGAAAAAGACTGAAAATTACAGATCT
*** *
33785417 TATCTCCATATATCGGCTATGGAACAGATTGAAAATGGCGAGTCTTATCTCCATGTATCGGCAAT
193 TATCTCCATATATCGGCTATGGAACAGATT-AAAACCACGAGCCTTATCTCCATG-A--GGCAAT
* * *
33785482 --G-GAGCAGATTTAAGCCAT-C-AGTCTTATCTCTCTGAGGTAGCAAG
254 AAGAGAGTAG-GTTAAG-CATACGAGTCTTATCTCTCTAAGGTAGCAAG
33785526 AGAGCAGGTT
Statistics
Matches: 244, Mismatches: 46, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
310 57 0.23
311 172 0.70
312 9 0.04
313 2 0.01
314 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (311 bp):
CAAATTACAGATCTTATCTCCATGTATCGGATATGAAGTAGATCAGAAATGGCGAGTCTTATCTC
TATCTATCGACTATAGAGCAGATTTAAGCTACCAACCTTATCTCTCTAAGATAGCAAGAGAGCAG
GTTGAAGATACGAGCCTTAACCCCCTAAGGCAGCAAGGAAAAAGACTGAAAATTACAGATCTTAT
CTCCATATATCGGCTATGGAACAGATTAAAACCACGAGCCTTATCTCCATGAGGCAATAAGAGAG
TAGGTTAAGCATACGAGTCTTATCTCTCTAAGGTAGCAAGGAAACAGATTG
Found at i:33788118 original size:126 final size:126
Alignment explanation
Indices: 33787890--33788197 Score: 343
Period size: 126 Copynumber: 2.5 Consensus size: 126
33787880 AACATAAGGA
* * * * * * * *
33787890 AATATTTCGTGTTTAGG-AGTTCGAGGGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCGTTC
1 AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTTTCCATTC
** * * ** *
33787954 AACTAAAATACGGAATATCCTTTGGAATTTTCGTCCATGCTTTT-TAAAATTAAAATGAGGC
66 AACTAAAATACAAAATATCATTTGGAAATTTCACCCATG-TTTTCTAAAATTAAAATGAAGC
* *
33788015 AATATTTCGTATTTTGGAAGTTTGAGAGATCGTACCCAGTCGTGCTGGGTTTCGATTTTCCATTC
1 AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTTTCCATTC
* * *
33788080 GACTAAAATACAAAATATCATTTTGAAATTTCACCCATGTTTTCTTAAATTAAAATGAAGC
66 AACTAAAATACAAAATATCATTTGGAAATTTCACCCATGTTTTCTAAAATTAAAATGAAGC
* * * * * * *
33788141 AATGTTTCGTA-TTTGAAAATTCAATAAATCGTACCCAATTGTGCTGGGTTTCGATTT
1 AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTT
33788198 ACCGTTGGCT
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
125 57 0.38
126 95 0.62
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (126 bp):
AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTTTCCATTC
AACTAAAATACAAAATATCATTTGGAAATTTCACCCATGTTTTCTAAAATTAAAATGAAGC
Found at i:33791601 original size:19 final size:19
Alignment explanation
Indices: 33791574--33791610 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33791564 ATAATGCTAT
33791574 GAATAGAAATTTTGAGAGC
1 GAATAGAAATTTTGAGAGC
*
33791593 GAATGGAAATTTTGAGAG
1 GAATAGAAATTTTGAGAG
33791611 TTTCCATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.30, T:0.27
Consensus pattern (19 bp):
GAATAGAAATTTTGAGAGC
Found at i:33792419 original size:75 final size:75
Alignment explanation
Indices: 33792324--33792497 Score: 267
Period size: 75 Copynumber: 2.3 Consensus size: 75
33792314 GCTGGCCACA
*
33792324 CAATCGTCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGG
1 CAATCATCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGG
33792389 CTCACAATTG
66 CTCACAATTG
* * *
33792399 CAATCATCGGTTAATTCGACTAGCATTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGG
1 CAATCATCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGG
*
33792464 CTCACAATTA
66 CTCACAATTG
** * *
33792474 TTACCATCAGTTAATCCGACTAGC
1 CAATCATCGGTTAATCCGACTAGC
33792498 GCTGAACGCA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 89 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (75 bp):
CAATCATCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGG
CTCACAATTG
Found at i:33798795 original size:20 final size:20
Alignment explanation
Indices: 33798770--33798809 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
33798760 TATATATTAG
33798770 ATAGTGGATGGTTTCAATCT
1 ATAGTGGATGGTTTCAATCT
33798790 ATAGTGGATGGTTTCAATCT
1 ATAGTGGATGGTTTCAATCT
33798810 CCTTTATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (20 bp):
ATAGTGGATGGTTTCAATCT
Found at i:33800700 original size:49 final size:48
Alignment explanation
Indices: 33800596--33800893 Score: 323
Period size: 42 Copynumber: 6.6 Consensus size: 48
33800586 NNNNNNNGTA
* * * *
33800596 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
33800642 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-CGTG
* *
33800691 TAAGACCATAGTTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
33800733 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-CGTG
* *
33800782 TAAGACCATAGTTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
33800824 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA-A---GA-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGATATGTGATTCGTG
* **
33800866 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
33800894 GAAAACGAAG
Statistics
Matches: 224, Mismatches: 15, Indels: 29
0.84 0.06 0.11
Matches are distributed among these distances:
41 1 0.00
42 99 0.44
43 2 0.01
44 2 0.01
45 3 0.01
46 27 0.12
47 2 0.01
48 15 0.07
49 73 0.33
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
Found at i:33800755 original size:91 final size:91
Alignment explanation
Indices: 33800639--33800893 Score: 427
Period size: 91 Copynumber: 2.9 Consensus size: 91
33800629 TATGTGATTC
33800639 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTAAGACCATAGTT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTAAGACCATAGTT
33800704 GGGCTATGGCATCGATATATGAATAT
66 GGGCTATGGCATCGATATATGAATAT
33800730 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTAAGACCATAGTT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTAAGACCATAGTT
33800795 GGGCTATGGCATCGATATATGAATAT
66 GGGCTATGGCATCGATATATGAATAT
33800821 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA-A---GA-T--GTGTAAGACCATAGT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATGTGATATGTGATTACGTGTAAGACCATAGT
**
33800878 TGAACTATGGCATCGA
65 TGGGCTATGGCATCGA
33800894 GAAAACGAAG
Statistics
Matches: 161, Mismatches: 2, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
84 29 0.18
86 1 0.01
87 2 0.01
90 2 0.01
91 127 0.79
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (91 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTAAGACCATAGTT
GGGCTATGGCATCGATATATGAATAT
Found at i:33802712 original size:75 final size:74
Alignment explanation
Indices: 33802607--33802765 Score: 248
Period size: 75 Copynumber: 2.1 Consensus size: 74
33802597 CGGTTAATTC
* *
33802607 GACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCAAAATTACAATCGT
1 GACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTC-AAATTACAACCGT
33802672 CAG-TCAATCT
65 CAGAT-AATCT
* **
33802682 GACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCAAATTATTACCGTC
1 GACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCAAATTACAACCGTC
33802747 AGATAATCT
66 AGATAATCT
33802756 GACTAGCACT
1 GACTAGCACT
33802766 TGACACAACT
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
74 28 0.36
75 50 0.64
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (74 bp):
GACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCAAATTACAACCGTC
AGATAATCT
Found at i:33803192 original size:119 final size:119
Alignment explanation
Indices: 33802993--33803212 Score: 395
Period size: 119 Copynumber: 1.8 Consensus size: 119
33802983 ACTTTAGTGG
* * *
33802993 TTTTCTAATATCAAGTCAAATTCTAACTCGCGTTATTCCTTTATACCCCAATGAAACAACTTTCA
1 TTTTCGAATATCAAGTCAAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
*
33803058 CATCATACTTAAGGAACACCCCAATAAAATTACCTACTGCTCACACTTTAGCAA
66 CATCATACTCAAGGAACACCCCAATAAAATTACCTACTGCTCACACTTTAGCAA
*
33803112 TTTTCGAATATCAAGTCGAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
1 TTTTCGAATATCAAGTCAAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
33803177 CATCATACTCAAGGAACACCCCAATAAAATTACCTA
66 CATCATACTCAAGGAACACCCCAATAAAATTACCTA
33803213 GCTGTTTTGC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 96 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (119 bp):
TTTTCGAATATCAAGTCAAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
CATCATACTCAAGGAACACCCCAATAAAATTACCTACTGCTCACACTTTAGCAA
Found at i:33803717 original size:22 final size:22
Alignment explanation
Indices: 33803692--33803741 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
33803682 AAAAGAAAAA
* *
33803692 AAAGAAAAACGTGCTATAAAGC
1 AAAGAAAAACATGCTACAAAGC
* *
33803714 AAAGAAAAGCATGCTACAAAGT
1 AAAGAAAAACATGCTACAAAGC
33803736 AAAGAA
1 AAAGAA
33803742 TAAATTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.18, T:0.12
Consensus pattern (22 bp):
AAAGAAAAACATGCTACAAAGC
Found at i:33808006 original size:15 final size:15
Alignment explanation
Indices: 33807986--33808037 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
33807976 ACTACAAAAC
33807986 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
33808001 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
33808020 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
33808035 ATT
1 ATT
33808038 AATATTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:33808100 original size:16 final size:16
Alignment explanation
Indices: 33808069--33808105 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
33808059 ATGTGAATAA
33808069 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
33808085 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
33808101 TATTA
1 TATTA
33808106 AACTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:33814748 original size:20 final size:19
Alignment explanation
Indices: 33814697--33814766 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 19
33814687 TTGCTTTCAT
*
33814697 CATTATTATTAT-TACTAA
1 CATTTTTATTATATACTAA
*
33814715 CATTTATATATATATACTACA
1 CATTTTTAT-TATATACTA-A
*
33814736 TATTTTTATTATATTACGTATA
1 CATTTTTATTATA-TAC-TA-A
33814758 CATTTTTAT
1 CATTTTTAT
33814767 ATGTACACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
18 7 0.17
19 3 0.07
20 9 0.22
21 11 0.27
22 11 0.27
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (19 bp):
CATTTTTATTATATACTAA
Found at i:33814762 original size:22 final size:20
Alignment explanation
Indices: 33814699--33814766 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 20
33814689 GCTTTCATCA
33814699 TTATTATTATTACTAACATTT
1 TTATTA-TATTACTAACATTT
* *
33814720 ATA-TATATATACTACATATTT
1 TTATTATAT-TACTA-ACATTT
33814741 TTATTATATTACGTATACATTT
1 TTATTATATTAC-TA-ACATTT
33814763 TTAT
1 TTAT
33814767 ATGTACACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.08
20 7 0.18
21 12 0.32
22 16 0.42
ACGTcount: A:0.35, C:0.09, G:0.01, T:0.54
Consensus pattern (20 bp):
TTATTATATTACTAACATTT
Found at i:33821320 original size:21 final size:21
Alignment explanation
Indices: 33821294--33821334 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33821284 ATCTGCTCAA
* *
33821294 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
33821315 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
33821335 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:33826447 original size:12 final size:12
Alignment explanation
Indices: 33826417--33826449 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
33826407 TATATATTTT
33826417 AAAATT-ATATA
1 AAAATTAATATA
33826428 AAAA-TAATATA
1 AAAATTAATATA
33826439 AAAATTAATAT
1 AAAATTAATAT
33826450 GAGCGGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:33827109 original size:23 final size:23
Alignment explanation
Indices: 33827083--33827157 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
33827073 TGATTTTTAA
* *
33827083 ATTTTGAATTATTTACTGATAAT
1 ATTTAGAATTATTTAATGATAAT
*
33827106 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
33827129 ATTTAGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGATAAT
33827152 ATTTAG
1 ATTTAG
33827158 GAAAGTCTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:33827110 original size:13 final size:12
Alignment explanation
Indices: 33827092--33827156 Score: 57
Period size: 13 Copynumber: 5.5 Consensus size: 12
33827082 AATTTTGAAT
33827092 TATTTACTGATAA
1 TATTTA-TGATAA
*
33827105 TATTTA-GA-AT
1 TATTTATGATAA
33827115 TATTTAGTGATAA
1 TATTTA-TGATAA
*
33827128 TATTTA-GA-AT
1 TATTTATGATAA
33827138 TATTTAATGATAA
1 TATTT-ATGATAA
33827151 TATTTA
1 TATTTA
33827157 GGAAAGTCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
10 13 0.31
11 5 0.12
12 5 0.12
13 19 0.45
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (12 bp):
TATTTATGATAA
Found at i:33830374 original size:23 final size:23
Alignment explanation
Indices: 33830330--33830375 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
33830320 AAAGGACAAG
*
33830330 ATGAGGGATGTGGACAATTTTCT
1 ATGAGGGATGTGAACAATTTTCT
*
33830353 ATGAGGGATG-GAACGATATTTCT
1 ATGAGGGATGTGAACAAT-TTTCT
33830376 GTGTGATGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (23 bp):
ATGAGGGATGTGAACAATTTTCT
Found at i:33836272 original size:51 final size:51
Alignment explanation
Indices: 33836216--33836316 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
33836206 ACCTCATTCA
* * *
33836216 TTTCAACATAATACAATTATATAATATGTAAAA-ATAATTAAAACGTAACAC
1 TTTCAACATAATACAATTACAAAATATGTAAAAGA-AATTAAAACATAACAC
* * *
33836267 TTTCAACCTAATATAATTACAAAATATGTAAAAGAAATTACAACATAACA
1 TTTCAACATAATACAATTACAAAATATGTAAAAGAAATTAAAACATAACA
33836317 TAAAAGAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.30
Consensus pattern (51 bp):
TTTCAACATAATACAATTACAAAATATGTAAAAGAAATTAAAACATAACAC
Found at i:33838465 original size:31 final size:31
Alignment explanation
Indices: 33838430--33838500 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
33838420 GTATAAATTC
*
33838430 TTGGACAAGTTCATGTACCAACTAAGTACTT
1 TTGGACAAGTTCAAGTACCAACTAAGTACTT
**
33838461 TTGGATTAGTTCAAGTACCAACTAAGTACTT
1 TTGGACAAGTTCAAGTACCAACTAAGTACTT
*
33838492 CTGGACAAG
1 TTGGACAAG
33838501 CTAAAAGGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (31 bp):
TTGGACAAGTTCAAGTACCAACTAAGTACTT
Found at i:33844706 original size:2 final size:2
Alignment explanation
Indices: 33844699--33844723 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33844689 CTATTCTTAA
33844699 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
33844724 AACACTCAAC
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:33845384 original size:2 final size:2
Alignment explanation
Indices: 33845379--33845404 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33845369 GGTTTGAAAC
33845379 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
33845405 GCGCCTAAGT
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:33855768 original size:11 final size:11
Alignment explanation
Indices: 33855752--33855777 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33855742 ATTAAATATT
33855752 ATATTTTGGAA
1 ATATTTTGGAA
33855763 ATATTTTGGAA
1 ATATTTTGGAA
33855774 ATAT
1 ATAT
33855778 CCCCAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (11 bp):
ATATTTTGGAA
Found at i:33856001 original size:18 final size:19
Alignment explanation
Indices: 33855978--33856017 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
33855968 TCCTTTGCTG
33855978 TGTTTTTAT-TGTCGCCGT
1 TGTTTTTATGTGTCGCCGT
*
33855996 TGTTTTTGTGGTGTCGCCGT
1 TGTTTTTAT-GTGTCGCCGT
33856016 TG
1 TG
33856018 CTATTGTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.03, C:0.15, G:0.30, T:0.53
Consensus pattern (19 bp):
TGTTTTTATGTGTCGCCGT
Found at i:33856024 original size:20 final size:20
Alignment explanation
Indices: 33855987--33856025 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33855977 GTGTTTTTAT
* *
33855987 TGTCGCCGTTGTTTTTGTGG
1 TGTCGCCGTTGCTATTGTGG
33856007 TGTCGCCGTTGCTATTGTG
1 TGTCGCCGTTGCTATTGTG
33856026 CCCTCTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.18, G:0.33, T:0.46
Consensus pattern (20 bp):
TGTCGCCGTTGCTATTGTGG
Found at i:33859699 original size:21 final size:21
Alignment explanation
Indices: 33859673--33859722 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
33859663 TCCAAATATG
33859673 GAATATTCGTAAGATTGTTGT
1 GAATATTCGTAAGATTGTTGT
33859694 GAATATTCGTAAGATTGTTGT
1 GAATATTCGTAAGATTGTTGT
*
33859715 AAATATTC
1 GAATATTC
33859723 ATCAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (21 bp):
GAATATTCGTAAGATTGTTGT
Found at i:33860503 original size:23 final size:24
Alignment explanation
Indices: 33860458--33860504 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
33860448 TTTTTTTTTC
**
33860458 TTCCAATTAAACTTTATTTTTAGTT
1 TTCCAATTAAAC-TTATGATTAGTT
33860483 TTCCAATTAAA-TTATGATTAGT
1 TTCCAATTAAACTTATGATTAGT
33860505 GCAGATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (24 bp):
TTCCAATTAAACTTATGATTAGTT
Found at i:33864390 original size:19 final size:19
Alignment explanation
Indices: 33864366--33864403 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
33864356 TAGTATAATA
33864366 ATATGTTTTCCTAAAATGT
1 ATATGTTTTCCTAAAATGT
33864385 ATATGTTTTCCTAAAATGT
1 ATATGTTTTCCTAAAATGT
33864404 GGGCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (19 bp):
ATATGTTTTCCTAAAATGT
Found at i:33868745 original size:23 final size:23
Alignment explanation
Indices: 33868717--33868767 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
33868707 CCACCTATTA
*
33868717 AAATAAAATTGGACCTATAGTTT
1 AAATAAAATTAGACCTATAGTTT
33868740 AAATAAAATTAGACCTATAGTTT
1 AAATAAAATTAGACCTATAGTTT
33868763 AAATA
1 AAATA
33868768 CTTTACAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (23 bp):
AAATAAAATTAGACCTATAGTTT
Found at i:33869954 original size:17 final size:19
Alignment explanation
Indices: 33869932--33869974 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
33869922 ATGGAAATAT
33869932 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
33869949 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
33869968 AATCTTA
1 AATCTTA
33869975 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:33869964 original size:19 final size:19
Alignment explanation
Indices: 33869940--33869976 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
33869930 ATAATCTTCA
33869940 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
33869959 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
33869977 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:33870002 original size:22 final size:22
Alignment explanation
Indices: 33869940--33869999 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
33869930 ATAATCTTCA
33869940 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
33869959 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
33869981 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
33870000 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:33870290 original size:17 final size:17
Alignment explanation
Indices: 33870266--33870300 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33870256 TGTTTCCCTG
*
33870266 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
33870284 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
33870301 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:33877612 original size:12 final size:12
Alignment explanation
Indices: 33877591--33877621 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
33877581 TTTCAATTCA
33877591 TTAT-ATTCAAT
1 TTATCATTCAAT
33877602 TTATCATTCAAT
1 TTATCATTCAAT
33877614 TTATCATT
1 TTATCATT
33877622 TATTTATGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (12 bp):
TTATCATTCAAT
Found at i:33883056 original size:25 final size:25
Alignment explanation
Indices: 33883022--33883075 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
33883012 TTACAAGTGA
33883022 ATAATCTCTCCAATGAATACCTAGG
1 ATAATCTCTCCAATGAATACCTAGG
33883047 ATAATCTCTCCAATGAATACCTAGG
1 ATAATCTCTCCAATGAATACCTAGG
33883072 ATAA
1 ATAA
33883076 CAAAGAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (25 bp):
ATAATCTCTCCAATGAATACCTAGG
Found at i:33903494 original size:7 final size:7
Alignment explanation
Indices: 33903482--33903516 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
33903472 TATTTTTAAA
33903482 AAAATTT
1 AAAATTT
33903489 AAAATTT
1 AAAATTT
33903496 AAAATTT
1 AAAATTT
33903503 AAAATTT
1 AAAATTT
33903510 AATAATT
1 AA-AATT
33903517 AATAATTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 23 0.85
8 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:33905024 original size:13 final size:14
Alignment explanation
Indices: 33905003--33905058 Score: 57
Period size: 13 Copynumber: 4.3 Consensus size: 14
33904993 TCCAGGTTAG
33905003 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
33905017 AT-AAATAACTAAA
1 ATAAAATAATTAAA
*
33905030 GTAAAATAA-T-AA
1 ATAAAATAATTAAA
*
33905042 ATGAAAT-ATTAAA
1 ATAAAATAATTAAA
33905055 ATAA
1 ATAA
33905059 TAAGGAAGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
11 1 0.03
12 8 0.24
13 17 0.50
14 8 0.24
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:33905268 original size:26 final size:26
Alignment explanation
Indices: 33905239--33905288 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
33905229 AAAAATTGTT
*
33905239 AAAACTCTTCT-AAAAGAAACTCAAGA
1 AAAACTCTT-TAAAAAAAAACTCAAGA
*
33905265 AAAATTCTTTAAAAAAAAACTCAA
1 AAAACTCTTTAAAAAAAAACTCAA
33905289 AGAGAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.58, C:0.16, G:0.04, T:0.22
Consensus pattern (26 bp):
AAAACTCTTTAAAAAAAAACTCAAGA
Found at i:33909457 original size:170 final size:170
Alignment explanation
Indices: 33909169--33909511 Score: 650
Period size: 170 Copynumber: 2.0 Consensus size: 170
33909159 TTGTTACTTT
*
33909169 AGGGTTGTATTTAGAGCTATTTTGAAACTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
1 AGGGTAGTATTTAGAGCTATTTTGAAACTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
33909234 TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATATTTATTTTAAAGATTGTATTGGAGCATTAG
66 TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATATTTATTTTAAAGATTGTATTGGAGCATTAG
33909299 ATGGAACTCATGTTTGTGCATCCGTTCCACTTAGCATTCA
131 ATGGAACTCATGTTTGTGCATCCGTTCCACTTAGCATTCA
* *
33909339 AGGGTAGTATTTAGAGCTATTTTGAAATTGTATAAGCTAGTTATTAGATTACCTGATGAGTCAAC
1 AGGGTAGTATTTAGAGCTATTTTGAAACTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
*
33909404 TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATCTTTATTTTAAAGATTGTATTGGAGCATTAG
66 TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATATTTATTTTAAAGATTGTATTGGAGCATTAG
33909469 ATGGAACTCATGTTTGTGCATCCGTTCCACTTAGCATTCA
131 ATGGAACTCATGTTTGTGCATCCGTTCCACTTAGCATTCA
33909509 AGG
1 AGG
33909512 AGGATTTCGT
Statistics
Matches: 169, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
170 169 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (170 bp):
AGGGTAGTATTTAGAGCTATTTTGAAACTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATATTTATTTTAAAGATTGTATTGGAGCATTAG
ATGGAACTCATGTTTGTGCATCCGTTCCACTTAGCATTCA
Found at i:33912087 original size:26 final size:25
Alignment explanation
Indices: 33912023--33912087 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
33912013 CAGGCGCGAC
* *
33912023 TATTTTTTTTATATTAAAAAATATAT
1 TATTTTTTTT-TTTTAAAAAAGATAT
* *
33912049 TTTTTTGTTTTTTTTAAATAAGATAT
1 TATTTT-TTTTTTTTAAAAAAGATAT
*
33912075 TATTTTTTATTTT
1 TATTTTTTTTTTT
33912088 CAGATCAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 6 0.19
26 22 0.69
27 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (25 bp):
TATTTTTTTTTTTTAAAAAAGATAT
Found at i:33912157 original size:27 final size:27
Alignment explanation
Indices: 33912127--33912224 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
33912117 AATACGTTGC
* * *
33912127 GCCTATCTCTGAGGCACGACTAGTTGA
1 GCCTATCTCAGAGGCACGACTAATTGT
* **
33912154 GCCTTTCTCAGAGGCGTGACTAATTGT
1 GCCTATCTCAGAGGCACGACTAATTGT
*
33912181 GCCTATCTCAGAGGCGCGACTAATTGT
1 GCCTATCTCAGAGGCACGACTAATTGT
*
33912208 GCCTATCTCGGAGGCAC
1 GCCTATCTCAGAGGCAC
33912225 AAATGGTGGG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (27 bp):
GCCTATCTCAGAGGCACGACTAATTGT
Found at i:33912625 original size:19 final size:20
Alignment explanation
Indices: 33912601--33912646 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
33912591 CATCCAAACA
33912601 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
33912620 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
33912640 CCAGAAA
1 CCAGAAA
33912647 TGTGGGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:33912874 original size:30 final size:30
Alignment explanation
Indices: 33912840--33912932 Score: 77
Period size: 30 Copynumber: 3.1 Consensus size: 30
33912830 AATTACTAAT
*
33912840 AAATTAATTTTAAAATAATTACAAACACAA
1 AAATTAATTTTAAAATAATTACAAAAACAA
* *
33912870 AAATTAA---TAACATAATT-CTAAATTACTAA
1 AAATTAATTTTAAAATAATTAC-AAA-AAC-AA
* *
33912899 CAAATTAATTTTAAAATTATTATAAAAACAA
1 -AAATTAATTTTAAAATAATTACAAAAACAA
33912930 AAA
1 AAA
33912933 AAAACTACAT
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
26 1 0.02
27 12 0.24
28 2 0.04
29 2 0.04
30 17 0.35
31 2 0.04
32 2 0.04
33 11 0.22
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (30 bp):
AAATTAATTTTAAAATAATTACAAAAACAA
Found at i:33912895 original size:60 final size:60
Alignment explanation
Indices: 33912802--33912932 Score: 181
Period size: 60 Copynumber: 2.2 Consensus size: 60
33912792 ATACTAAACT
* * * * *
33912802 AAACGCAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* * *
33912862 AAACACAAAAATTAATAACATAATTCTAAATTACTAACAAATTAATTTTAAAATTATTAT
1 AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
33912922 AAAAACAAAAA
1 AAACACAAAAA
33912933 AAAACTACAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:33913718 original size:25 final size:25
Alignment explanation
Indices: 33913688--33913737 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
33913678 AATAAAAATA
* *
33913688 AAAAAATAATATTTTATTTAAAAAACC
1 AAAAAA-AAT-TTTAATATAAAAAACC
33913715 AAAAAAAATTTTAATATAAAAAA
1 AAAAAAAATTTTAATATAAAAAA
33913738 AGTCGCGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 3 0.14
27 6 0.29
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAAAAAATTTTAATATAAAAAACC
Found at i:33915902 original size:16 final size:16
Alignment explanation
Indices: 33915882--33915950 Score: 111
Period size: 16 Copynumber: 4.3 Consensus size: 16
33915872 TTGGTTCGCT
* *
33915882 GTAATAGAATAGAGGT
1 GTAATGGAATAGAGGC
33915898 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
33915914 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
33915930 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
33915946 GTAAT
1 GTAAT
33915951 AGGTAATTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.39, C:0.04, G:0.33, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:33916019 original size:44 final size:46
Alignment explanation
Indices: 33915930--33916020 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
33915920 GAATAGATGC
*
33915930 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
33915976 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
33916020 G
1 G
33916021 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:33916021 original size:39 final size:44
Alignment explanation
Indices: 33915930--33916036 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 44
33915920 GAATAGATGC
*
33915930 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
33915976 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
33916016 G-AATGGAATAGAGGTGTAATA
1 GTAATGGAATAGAGGCGTAATA
33916037 ACATAAGGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 2 0.03
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:33916189 original size:16 final size:15
Alignment explanation
Indices: 33916179--33916334 Score: 61
Period size: 17 Copynumber: 10.5 Consensus size: 15
33916169 CATAATTGTT
33916179 ATAAAATATAATTTA
1 ATAAAATATAATTTA
33916194 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
33916211 ATAAAAT-T--TTTA
1 ATAAAATATAATTTA
33916223 AT-AAATAT--TCTT-
1 ATAAAATATAAT-TTA
* * *
33916235 ATATGAAT-TTA-CTA
1 ATA-AAATATAATTTA
33916249 ATAAAATCATAATATATGA
1 ATAAAAT-ATAAT-T-T-A
33916268 TACTAAAATATAATTTA
1 -A-TAAAATATAATTTA
33916285 A-AATAAT-T-A-TT-
1 ATAA-AATATAATTTA
*
33916296 ATTAAATATAATTTA
1 ATAAAATATAATTTA
33916311 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
33916328 ATAAAAT
1 ATAAAAT
33916335 TGTTAATAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 50
0.66 0.04 0.30
Matches are distributed among these distances:
11 8 0.07
12 14 0.13
13 9 0.08
14 12 0.11
15 13 0.12
16 12 0.11
17 25 0.23
18 2 0.02
19 2 0.02
20 6 0.06
21 6 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:33916224 original size:17 final size:17
Alignment explanation
Indices: 33916184--33916217 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33916174 TTGTTATAAA
33916184 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
33916201 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
33916218 TTTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:33916341 original size:17 final size:17
Alignment explanation
Indices: 33916301--33916334 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33916291 TTATTATTAA
33916301 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
33916318 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
33916335 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:33916370 original size:117 final size:117
Alignment explanation
Indices: 33916164--33916653 Score: 795
Period size: 117 Copynumber: 4.3 Consensus size: 117
33916154 TTAATCATAT
* * * *
33916164 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
33916229 ATTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
33916281 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
33916346 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* * *
33916398 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
33916463 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
33916515 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAA---TT-CT---
1 TTTAAAATAATTATTATTAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAA
33916573 TATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
33916625 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
33916654 TAATCTACTT
Statistics
Matches: 358, Mismatches: 12, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
108 21 0.06
109 26 0.07
110 13 0.04
111 19 0.05
114 1 0.00
115 2 0.01
117 257 0.72
118 19 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:33916433 original size:15 final size:15
Alignment explanation
Indices: 33916413--33916451 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
33916403 CATAATTGTT
33916413 ATAAAATATAATTTA
1 ATAAAATATAATTTA
33916428 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
33916445 ATAAAAT
1 ATAAAAT
33916452 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:33916458 original size:17 final size:17
Alignment explanation
Indices: 33916418--33916451 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33916408 TTGTTATAAA
33916418 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
33916435 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
33916452 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:33916523 original size:20 final size:21
Alignment explanation
Indices: 33916484--33916523 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
33916474 AATTTACTAA
*
33916484 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
33916505 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
33916524 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:33916536 original size:26 final size:28
Alignment explanation
Indices: 33916491--33916570 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
33916481 TAATAAAATC
33916491 ATAATATATAATACTAAAATATAATTTAA-A
1 ATAATATATAAT--T-AAATATAATTTAATA
*
33916521 ATAAT-TATTATTAAATATAATTTAATA
1 ATAATATATAATTAAATATAATTTAATA
* *
33916548 ATAATATATAATTTAATAAAATT
1 ATAATATATAATTAAATATAATT
33916571 CTTATTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 13 0.30
27 7 0.16
28 14 0.32
29 5 0.11
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAATATATAATTAAATATAATTTAATA
Found at i:33916603 original size:44 final size:41
Alignment explanation
Indices: 33916268--33916603 Score: 137
Period size: 43 Copynumber: 8.3 Consensus size: 41
33916258 TAATATATGA
33916268 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * *
33916309 TAATAAAATATATAATTTAATAA-AATTGTTAATAAATAT--TCT
1 TACT-AAA-ATATAATTTAA-AATAATTATTATTAAATATAAT-T
* * * *
33916351 TA-T---AT-GAATTTACTAATAA-AATCA-TAATATATAA--
1 TACTAAAATATAATTTA-AAATAATTATTATTAA-ATATAATT
* * *
33916385 TACTAAAATATAATTTAACATAATTGTTATAAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * *
33916426 TAATAAAATATATAATTTAATAA-AATTGTTAATAAATAT--TCT
1 TACT-AAA-ATATAATTTAA-AATAATTATTATTAAATATAAT-T
* * * *
33916468 TA-T---AT-GAATTTACTAATAA-AATCA-TAATATATAA--
1 TACTAAAATATAATTTA-AAATAATTATTATTAA-ATATAATT
33916502 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * **
33916543 TAATAATAATATATAATTTAATAA-AATTCTTATTCTTATATGAATT
1 TACT-A-AA-ATATAATTTAA-AATAATTATTATT-AAATAT-AATT
33916589 TACTAAAATCATAAT
1 TACTAAAAT-ATAAT
33916604 ATATAATACT
Statistics
Matches: 219, Mismatches: 33, Indels: 83
0.65 0.10 0.25
Matches are distributed among these distances:
34 10 0.05
35 30 0.14
36 8 0.04
38 13 0.06
39 29 0.13
40 5 0.02
41 13 0.06
42 13 0.06
43 54 0.25
44 30 0.14
45 7 0.03
46 7 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (41 bp):
TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
Found at i:33916649 original size:32 final size:32
Alignment explanation
Indices: 33916613--33916676 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
33916603 TATATAATAC
*
33916613 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
33916645 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
33916677 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:33920169 original size:54 final size:54
Alignment explanation
Indices: 33920057--33920205 Score: 165
Period size: 54 Copynumber: 2.8 Consensus size: 54
33920047 TGGTTTGTTG
* * * * *
33920057 ATTTACAATCACAACCTTGCACTTCCATGATTATTAGAATCTTGAGGTTCGCCG
1 ATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATCTTGAGGTTCACCA
* * * * *
33920111 ATTTACAATTGCAACCTTGCACTTCTAAGTTTTTTAGAATCTTTTA-GTTCACTA
1 ATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATC-TTGAGGTTCACCA
* * *
33920165 ATTTACGATCGTAACCTTGCTCTTCCAAGATTTTTAGAATC
1 ATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATC
33920206 CTATGATTTG
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
54 75 0.96
55 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (54 bp):
ATTTACAATCGCAACCTTGCACTTCCAAGATTTTTAGAATCTTGAGGTTCACCA
Found at i:33921995 original size:10 final size:10
Alignment explanation
Indices: 33921982--33922028 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
33921972 TTATTTTCAT
33921982 TTATCTTTAA
1 TTATCTTTAA
33921992 TTATCTTTAA
1 TTATCTTTAA
*
33922002 TTATCTTTAT
1 TTATCTTTAA
*
33922012 TTAT-TTATAT
1 TTATCTT-TAA
33922022 TTATCTT
1 TTATCTT
33922029 ATAGAATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:33922789 original size:39 final size:39
Alignment explanation
Indices: 33922730--33922822 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
33922720 ACTTTATTTA
*
33922730 TTTTTATTAT-TTTTAATTTTAGCAATTCCA-ATCAAAAC
1 TTTTTATTATGTTTTTATTTTA-CAATTCCAGATCAAAAC
* ***
33922768 TTTTAATTATGTTTTTATTTTATTTTTCCAGATCAAAAC
1 TTTTTATTATGTTTTTATTTTACAATTCCAGATCAAAAC
*
33922807 TTTTTATTCTGTTTTT
1 TTTTTATTATGTTTTT
33922823 TTTATTTCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 14 0.30
39 32 0.70
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (39 bp):
TTTTTATTATGTTTTTATTTTACAATTCCAGATCAAAAC
Found at i:33922838 original size:40 final size:39
Alignment explanation
Indices: 33922755--33922829 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
33922745 ATTTTAGCAA
33922755 TTCCA-ATCAAAACTTTTAATTATGTTTTTATTTTATTT
1 TTCCAGATCAAAACTTTTAATTATGTTTTTATTTTATTT
* *
33922793 TTCCAGATCAAAACTTTTTATTCTG-TTTT-TTTTATTT
1 TTCCAGATCAAAACTTTTAATTATGTTTTTATTTTATTT
33922830 CTTTTCCAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 8 0.24
38 9 0.26
39 17 0.50
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.59
Consensus pattern (39 bp):
TTCCAGATCAAAACTTTTAATTATGTTTTTATTTTATTT
Found at i:33927605 original size:119 final size:120
Alignment explanation
Indices: 33927006--33927599 Score: 908
Period size: 120 Copynumber: 5.0 Consensus size: 120
33926996 CTTTGAGTCC
* * * * * * *
33927006 GTTTGAGAACATCTGAGAGTCAAATCTACTATTTCCTTAATTTGTTTTTTGTAAACATAAGATTG
1 GTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATA
*
33927071 TCAAATCATCTTGGATCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTGCCAT
66 TCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCAT
* *
33927126 GTCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTT-TTTCCTTGTAAACATAAGAAT
1 GTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTT-CTTGTAAACACAAGAAT
* * *
33927190 GTCAAATCATCTTGGATCTTGCTTCAGTATAAACCTCTGAAGGCTAGATCTACCAT
65 ATCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCAT
* *
33927246 GTCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATA
1 GTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATA
33927311 TCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCAT
66 TCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCAT
* *
33927366 GTTTGAGAACATCTGAGAGTCAAATCTGCTATGTTCTCGATTTG-TTCTTGTAAACACAAGAATA
1 GTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATA
* * *
33927430 CCAAATCATCTTGGATC-TGCTTCAGTGTAAACATCTGAAGGCTAGATCTGCTAT
66 TCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCAT
* * * * *
33927484 ATTTGAGAACATCTAAGAGTCAAGTCTGCTATGTCCTCGATTTGTTTCTTATAAACACAAGAATA
1 GTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATA
* *
33927549 CCAAATCATCTTGGATC-TGCTTCAGTGTAAACATCTGAAGGCTAGATCTGC
66 TCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGC
33927600 TATATTGCGA
Statistics
Matches: 447, Mismatches: 24, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
118 75 0.17
119 108 0.24
120 262 0.59
121 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (120 bp):
GTTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAATA
TCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCAT
Found at i:33936237 original size:93 final size:93
Alignment explanation
Indices: 33936078--33936267 Score: 364
Period size: 93 Copynumber: 2.1 Consensus size: 93
33936068 GGATCTTCCA
33936078 AGCTCAATCACCTTAGTATTTAATCCTTTATTCTCTTCCTCTAATGCCAAATTCTGCACTTGCAT
1 AGCTCAATCACCTTAGTATTTAATCCTTTATTCTCTTCCTCTAATGCCAAATTCTGCACTTGCAT
33936143 CTCTTGGAACTTCCTCTCCTAATACTCG
66 CTCTTGGAACTTCCTCTCCTAATACTCG
*
33936171 AGCTCCATCACCTTAGTATTTAATCCTTTATTCTCTTCCTCTAATGCCAAATTCTGCACTTGCAT
1 AGCTCAATCACCTTAGTATTTAATCCTTTATTCTCTTCCTCTAATGCCAAATTCTGCACTTGCAT
33936236 CTCTTGGAACTTCCTCTCCTAATACTCG
66 CTCTTGGAACTTCCTCTCCTAATACTCG
33936264 -GCTC
1 AGCTC
33936268 TAACCTTTTC
Statistics
Matches: 96, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
92 4 0.04
93 92 0.96
ACGTcount: A:0.22, C:0.31, G:0.09, T:0.38
Consensus pattern (93 bp):
AGCTCAATCACCTTAGTATTTAATCCTTTATTCTCTTCCTCTAATGCCAAATTCTGCACTTGCAT
CTCTTGGAACTTCCTCTCCTAATACTCG
Found at i:33937950 original size:13 final size:13
Alignment explanation
Indices: 33937932--33937957 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33937922 AGATAGTCAG
33937932 TATCACATGATAT
1 TATCACATGATAT
33937945 TATCACATGATAT
1 TATCACATGATAT
33937958 CAATAAATAA
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:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TATCACATGATAT
Found at i:33939759 original size:36 final size:36
Alignment explanation
Indices: 33939717--33939795 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
33939707 AAATTTTAAA
* **
33939717 TAATATAT-ATGATATA-AACATAAATAATATAATTGG
1 TAATATATGA-GATACATAACATAAAT-ATATAAAAGG
*
33939753 TAATATATGAGATACATAACATATATATATAAAAGG
1 TAATATATGAGATACATAACATAAATATATAAAAGG
33939789 TAATATA
1 TAATATA
33939796 GAATAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 28 0.76
37 9 0.24
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.34
Consensus pattern (36 bp):
TAATATATGAGATACATAACATAAATATATAAAAGG
Found at i:33945875 original size:7 final size:7
Alignment explanation
Indices: 33945862--33945923 Score: 74
Period size: 7 Copynumber: 8.6 Consensus size: 7
33945852 ATTTTTTTCT
33945862 TTTATTA
1 TTTATTA
33945869 TTTATTA
1 TTTATTA
33945876 TATTA-TA
1 T-TTATTA
33945883 TTATATTA
1 TT-TATTA
33945891 TATTA-TA
1 T-TTATTA
33945898 TTATATTA
1 TT-TATTA
33945906 TTTATTA
1 TTTATTA
33945913 TTTATTA
1 TTTATTA
33945920 TTTA
1 TTTA
33945924 CTCTTTTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
6 2 0.04
7 34 0.69
8 12 0.24
9 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (7 bp):
TTTATTA
Found at i:33945879 original size:5 final size:5
Alignment explanation
Indices: 33945867--33945920 Score: 78
Period size: 5 Copynumber: 11.2 Consensus size: 5
33945857 TTTCTTTTAT
33945867 TATT- TATTA TATTA TATTA TATTA TATTA TATTA TATTA T-TTA TTATT-
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
33945915 TATTA T
1 TATTA T
33945921 TTACTCTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
4 11 0.24
5 33 0.72
6 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATTA
Found at i:33947984 original size:96 final size:96
Alignment explanation
Indices: 33947820--33948017 Score: 308
Period size: 96 Copynumber: 2.1 Consensus size: 96
33947810 TTTTTAAGAA
* * *
33947820 TGTGTTGGGTTGAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCGCTTCAAAAGGTTCG
1 TGTGTTGGGCTAAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCACTTCAAAAGGTTCG
*
33947885 ATATGTTCTTAAGAAAAATAAAAATTAGGAG
66 ATATGTTCTCAAGAAAAATAAAAATTAGGAG
* * * *
33947916 TGTGTTGGGCTAAGTAACTGGGGTGGGGTTCTTGGCTGTCAT-TTTTCTTCATTTCAAAAGGTTC
1 TGTGTTGGGCTAAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTT-TTCACTTCAAAAGGTTC
33947980 GATATGTTCTCAAGAAAAATAAAAATTAGGAG
65 GATATGTTCTCAAGAAAAATAAAAATTAGGAG
33948012 TGTGTT
1 TGTGTT
33948018 CGATATATTC
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 3 0.03
96 90 0.97
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (96 bp):
TGTGTTGGGCTAAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTTTTCACTTCAAAAGGTTCG
ATATGTTCTCAAGAAAAATAAAAATTAGGAG
Found at i:33948689 original size:10 final size:10
Alignment explanation
Indices: 33948674--33948722 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
33948664 TAATTTTAAG
33948674 ATTTAT-TTT
1 ATTTATCTTT
33948683 CATTTATCTTT
1 -ATTTATCTTT
*
33948694 AATTATCTTT
1 ATTTATCTTT
33948704 ATTTAT-TTGT
1 ATTTATCTT-T
33948714 ATTTATCTT
1 ATTTATCTT
33948723 ATAGAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:33953652 original size:594 final size:593
Alignment explanation
Indices: 33952524--33954308 Score: 2991
Period size: 595 Copynumber: 3.0 Consensus size: 593
33952514 TGGCCTAACC
* *
33952524 ACGGCCTCTCGAAAGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGACTTGCATCTTGTCGGA
1 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
33952589 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
66 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
* *
33952654 TCCAACACTCGCCCTGATGGCGTCTACCACAGTCAGTACACGGCGGCTGTCCAGCAGCAGCTATA
131 TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTATA
* * *
33952719 TGA-CCCTTAACTTTGATCGGCCTATCCGCTCTGGCCTTTTTTTTAAGCCTCTAAATAGAACTCG
196 GGAGCCC-TAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCG
* * * * *
33952783 AGGGCTCTGAATCCCTCTTGCTCTTACCTCTTTCCCAGTTTTGGAGCTCAGCGCACTTTACTTCC
260 AGGGCTCCGAATCCCTCTTGCTCTTACCTCTTTCCGA-TTCTGGAGCTCAGCGCGCTTCACTTCC
* * *
33952848 TCGGTGATCTTCATCCTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTATGGAGCCATCAAAAC
324 TCGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAAC
*
33952913 CCTCAGATTATCCTTGAGGCCATCCTCGAAGTTAACACATCGCTCGTACTCAGTCGCCATCATAC
389 CCTCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATAC
* **
33952978 TTCGCATATAGCGGCT-AAGTCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTG
454 CTCGCGCATAGCGGCTCAA-TCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTG
*
33953042 GGTCAAATTTAGAAACTCTCTCCTACGAGCATCCACATAATTGGCCCCCCATACTTCCCCTGGAA
518 GGTCAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCCCATACTTCCCCTGGAA
33953107 AGCAATCTTAA
583 AGCAATCTTAA
33953118 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
1 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
*
33953183 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTC
66 CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
* * *
33953248 TCCAACACTCCCCCTGATGGCATCTACCACAGTCAGTACACAACGGCTATCCAGCAGCAGCTATA
131 TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTATA
33953313 GGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCGA
196 GGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCGA
* *
33953378 GGGCTCCGAATCCCTTTTGCTCTTACCTCTTTTTCGATTCTGGAGCTCAGCGCGCTTCACTTCCT
261 GGGCTCCGAATCCCTCTTGCTCTTACCTC-TTTCCGATTCTGGAGCTCAGCGCGCTTCACTTCCT
*
33953443 CGGTGATCTTCATCTTATCAACCAGTCCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAACC
325 CGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAACC
* *
33953508 CTCAGATTATCCTTGAGGCTATCCTCGAAGTGAACACATCACTCGTACTCAGTCGCCATCATACC
390 CTCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATACC
* *
33953573 TCGCGCATAGCGGCTCAATCTTAGAAATTTAGCCTCATTCTCGACCACTGATCTATCACCCTAGG
455 TCGCGCATAGCGGCTCAATCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGGG
* * *
33953638 TCAAATTTAGAAACTCTCTCCTATGGGAATCCACATAATTGGCTCCCACATACTTCCCCTGGAAA
520 TCAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGC-CCCCCATACTTCCCCTGGAAA
33953703 GCAATCTTAA
584 GCAATCTTAA
* * *
33953713 ATGGCCTCTCGAAGGCTGCTCAGTGGTGGTACAATACCAGTACCC-GAGGCTTGCATCTTATCGG
1 ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAG-GGCTTGCATCTTGTCGG
* *
33953777 ACCTCCGTGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACAAACCCTAGTTCTT
65 ACCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTT
33953842 TTCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTAT
130 TTCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTAT
* *
33953907 AGGAGCCCTAACTCTGATTGGCCTATCCGCTCCGGCCTTTTTCTTAAGCCTCTAAATAGAACTCG
195 AGGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCG
* *
33953972 AGGGCTTCGAATCCCTCTTGCTCTTACCTCTTTCCTGGTTCTGGAGCTCAGCGCGCTTCACTTCC
260 AGGGCTCCGAATCCCTCTTGCTCTTACCTCTTTCC-GATTCTGGAGCTCAGCGCGCTTCACTTCC
* * * *
33954037 TCGGTAATCTTCATCTTATCAACCAATGCAGTAAAGTCTCGCTTCCTCTGTGGAGTTATCAAAAC
324 TCGGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAAC
* *
33954102 CCTCAGAATATCCTTGAGGCCATCCTCGAAGTGAACGCATCGCTCGTACTCAGTCGCCATCATAC
389 CCTCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATAC
* *
33954167 CTCGCGCATAGCGGCTCAGTCTCAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGG
454 CTCGCGCATAGCGGCTCAATCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGG
*
33954232 GTTAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCCACATACTTCCCCTGGAA
519 GTCAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCC-CATACTTCCCCTGGAA
* *
33954297 AGTAATATTAA
583 AGCAATCTTAA
33954308 A
1 A
33954309 GAACTCTCAG
Statistics
Matches: 1116, Mismatches: 68, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
594 525 0.47
595 591 0.53
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.27
Consensus pattern (593 bp):
ACGGCCTCTCGAAGGCTGCTCAGTGGTGGTGCAATACCAGTACCCAGGGCTTGCATCTTGTCGGA
CCTCCGCGGATAATCCCTAATACGGTGCCCTAATGAACCGCACTTCAAACCAACCCTAGTTCTTT
TCCAACACTCGCCCTGATGGCATCTACCACAGTCAGTACACAGCGGCTGTCCAGCAGCAGCTATA
GGAGCCCTAACTCTGATCGGCCTATCCGCTCTGGCCTTTTTCTTAAGCCTCTAAATAGAACTCGA
GGGCTCCGAATCCCTCTTGCTCTTACCTCTTTCCGATTCTGGAGCTCAGCGCGCTTCACTTCCTC
GGTGATCTTCATCTTATCAACCAGTGCAGTAAAGTCTCGCTCCCTCTGTGGAGCTATCAAAACCC
TCAGATTATCCTTGAGGCCATCCTCGAAGTGAACACATCGCTCGTACTCAGTCGCCATCATACCT
CGCGCATAGCGGCTCAATCTTAGAAATTCAGCCTCATTCTCGACCACTGATCTATCACCCTGGGT
CAAATTTAGAAACTCTCTCCTACGGGCATCCACATAATTGGCCCCCCATACTTCCCCTGGAAAGC
AATCTTAA
Found at i:33974367 original size:19 final size:19
Alignment explanation
Indices: 33974343--33974386 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
33974333 TTTATAGTTT
*
33974343 TAAAAAA-CATTGGTTATTG
1 TAAAAAATCATTAG-TATTG
*
33974362 TAAAAAATTATTAGTATTG
1 TAAAAAATCATTAGTATTG
33974381 TAAAAA
1 TAAAAA
33974387 TAATTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAAAAATCATTAGTATTG
Found at i:33975152 original size:3 final size:3
Alignment explanation
Indices: 33975144--33975182 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
33975134 TTGTCTAAAA
33975144 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
33975183 CATAACTACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Done.