Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 109 of 175
Found at i:34614572 original size:12 final size:12
Alignment explanation
Indices: 34614555--34614580 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34614545 CTTTCTATGT
34614555 AGTAAAACTTAA
1 AGTAAAACTTAA
34614567 AGTAAAACTTAA
1 AGTAAAACTTAA
34614579 AG
1 AG
34614581 AAAGGTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.23
Consensus pattern (12 bp):
AGTAAAACTTAA
Found at i:34616707 original size:298 final size:302
Alignment explanation
Indices: 34616258--34616863 Score: 893
Period size: 298 Copynumber: 2.0 Consensus size: 302
34616248 AGCTCTTTAG
* * * *
34616258 GTATCAAAAGAACTTATTTTGACGTATAGAAATACGACAGATCAATTTTCCCCAGTGTGCTCCCA
1 GTATCAAAAGAACTTAATTTGACGTATAGAAATACGACAAATCAATTGTCCCCAATGTGCTCCCA
* * **
34616323 ATGTAAAGCTAAGAGTTTAGAACTCCCCCATTTTTCTTGCAGCAACACGAGGTAGATTTTAGTAG
66 ATGTAAAGCTAAAAGTTTAGAACTCCCCCATTTTTCTTGAAGCAACACGAGGTAGATTGAAGTAG
* * *
34616388 TCCTCCTCTTTATTAAAGCTCGAAAGTGTAGTACAATCCTTGAATGGGTGGCCTACATAGAAAAG
131 TCCTCCTCTCTATTAAAGCTCGAAAGTATAGTACAATCCTTGAATGGGTGACCTACATAGAAAAG
* *
34616453 AAAACAAACACAAAAAAATAAAA-ACATATGAAAAT-AAT-AAATAAAAA-TAAAAGAAAAAG-A
196 AAAA-AAACACAAAAAAATAAAAGA-ATACGAAAATAAATAAAATAAAAAGAAAAAGAAAAAGAA
34616513 AAG-AAGAACCAAATCCAAAATAATCATAGTATCTTTCAGTTAA
259 AAGAAAGAACCAAATCCAAAATAATCATAGTATCTTTCAGTTAA
*
34616556 GTATCAAAAGAACTTAATTTGACGTATAGAAATACGACAAATCAATTGTCCCTAATGTGCTCCCA
1 GTATCAAAAGAACTTAATTTGACGTATAGAAATACGACAAATCAATTGTCCCCAATGTGCTCCCA
*
34616621 ATGTAAAGCTAAAAGTTTCA-AACTCCCCCATTTTTCTTGAAGCAACATGAGGTAGATTGAAGTA
66 ATGTAAAGCTAAAAGTTT-AGAACTCCCCCATTTTTCTTGAAGCAACACGAGGTAGATTGAAGTA
* * *
34616685 GTCCTCCTCTCTGTTAAAGCTCGAAAGTATAGTACAATCCTTGAGTGGGTGACCTACATAGACAA
130 GTCCTCCTCTCTATTAAAGCTCGAAAGTATAGTACAATCCTTGAATGGGTGACCTACATAGAAAA
* *
34616750 GAAAAAAACATACAAAAATAAAAGAATACGAAAATAAAAATAAAAATAAAAAGAAAAAGAAAAAG
195 GAAAAAAACACAAAAAAATAAAAGAATACGAAAAT--AAAT-AAAATAAAAAGAAAAAGAAAAAG
34616815 AAAAAGAAACAAGAACCAAATCCAAAATAATCATAGTATCTTTCAGTTA
257 -AAAAG--A-AAGAACCAAATCCAAAATAATCATAGTATCTTTCAGTTA
34616864 CATTCCCAAA
Statistics
Matches: 274, Mismatches: 20, Indels: 17
0.88 0.06 0.05
Matches are distributed among these distances:
297 25 0.09
298 182 0.66
299 1 0.00
300 3 0.01
302 9 0.03
303 11 0.04
305 4 0.01
309 39 0.14
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (302 bp):
GTATCAAAAGAACTTAATTTGACGTATAGAAATACGACAAATCAATTGTCCCCAATGTGCTCCCA
ATGTAAAGCTAAAAGTTTAGAACTCCCCCATTTTTCTTGAAGCAACACGAGGTAGATTGAAGTAG
TCCTCCTCTCTATTAAAGCTCGAAAGTATAGTACAATCCTTGAATGGGTGACCTACATAGAAAAG
AAAAAAACACAAAAAAATAAAAGAATACGAAAATAAATAAAATAAAAAGAAAAAGAAAAAGAAAA
GAAAGAACCAAATCCAAAATAATCATAGTATCTTTCAGTTAA
Found at i:34616807 original size:7 final size:6
Alignment explanation
Indices: 34616780--34616829 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
34616770 AAAGAATACG
* * *
34616780 AAAATA AAAATA AAAATA AAAAGA AAAAGA AAAAGA AAAAGA AACAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA-AAGA
34616829 A
1 A
34616830 CCAAATCCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.82, C:0.02, G:0.10, T:0.06
Consensus pattern (6 bp):
AAAAGA
Found at i:34625310 original size:50 final size:50
Alignment explanation
Indices: 34625205--34625445 Score: 196
Period size: 50 Copynumber: 4.7 Consensus size: 50
34625195 AGAATGAGAC
* * *
34625205 CCCATGTAAGACCATGTATGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGC---ACTGA-G--ATGAGAGGT
*
34625261 CCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT
* * * * * **
34625311 CCCCCGTAACACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT
* * * * * * * * * **
34625361 CCCACGTAATACCATATCTGGGATATGACATTGGTAGT-ACAGGAAACAT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT
* * *
34625410 CCCATGTAATACCATGTCTGGGACATGGCTTTGGCA
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
34625446 TGTTATTCTC
Statistics
Matches: 153, Mismatches: 32, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
49 36 0.24
50 80 0.52
52 1 0.01
53 4 0.03
56 32 0.21
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (50 bp):
CCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT
Found at i:34627891 original size:498 final size:498
Alignment explanation
Indices: 34626915--34628221 Score: 2195
Period size: 498 Copynumber: 2.6 Consensus size: 498
34626905 GACATTGAGT
* * *
34626915 TTATTTATTCATGTTTTCTATTTTATTATGC-AAAAAAAATTCTAACTAAGAAATAAAAATAAAC
1 TTATTTATTCATGCTTGCTATTTTATTATGCGAAAAAAAATTCTAACTAGGAAATAAAAATAAAC
* *
34626979 ACCTAAAAAGAAATAAAAACTAAAGACAAGAAATTCCCCCATTTTATCTATTTGATTTATCCTCC
66 ACCTAAAAAGAAATAAAAACTAAAGACAAGAAATTCCCCCATTTTATTTATTTGACTTATCCTCC
** *
34627044 TCGTCTTCCTCCTTTGATGTTTCATCCTTTCTTGTATTCTCATGTTTCTTCCATGACTCGAAGAC
131 TCGTCTTCCTCCTTTGATGTTTCATCCTCGCTTGTATTCTCATCTTTCTTCCATGACTCGAAGAC
*
34627109 ATAATCTGAGAACTCAGGAACAAAATTGTTAAAGATATTTTTAAAACG-ATTTCTTACAGAATTA
196 ATAATCTGGGAACTCAGGAACAAAATTGTTAAAGATATTTTTAAAA-GTATTTCTTACAGAATTA
* *
34627173 TCTCTAATCTTCGCATATTTCTAGTAAGCCTATTGTTGGTTATGCATAAATTTATTAATATGTCC
260 TCTCTAATCTTCGCATATTTCCAATAAGCCTATTGTTGGTTATGCATAAATTTATTAATATGTCC
** * * * * *
34627238 TCATTGCGAAAATGAAGTAATGAATGAAAACTAAACACCATGTAGGGTTTCAAGAAAAGAGAGGT
325 TCATTGCGAAAACAAAGTAATGAATGAAAACTAAACACAAGGTAAGGTTGCAAGAAAAGAGAGGA
*
34627303 GAGTCATAAAAACTGCTTAAGTACCAAGTCTTTCTCAACAATCCAATCCTAGACATGTTCATTCC
390 GAGTCATAAAAACAGCTTAAGTACCAAGTCTTTCTCAACAATCCAATCCTAGACATGTTCATTCC
*
34627368 CATTACCACATCACTTTAGTTTTTCTATTGAAGAGGCATTGAAC
455 CATTACCACATCACTGTAGTTTTTCTATTGAAGAGGCATTGAAC
*
34627412 TTATTTATTCATGCTTGCTATTTTATTATGCGAAAAACAATTCTAACTAGGAAATAAAAATAAAC
1 TTATTTATTCATGCTTGCTATTTTATTATGCGAAAAAAAATTCTAACTAGGAAATAAAAATAAAC
*
34627477 ACCTAAAAAGAAATAAAAACTAAAGACAAGAAATTCCCCCATTTTATTTATTTGACTTATCATCC
66 ACCTAAAAAGAAATAAAAACTAAAGACAAGAAATTCCCCCATTTTATTTATTTGACTTATCCTCC
* * * *
34627542 TCATCTTCCTCCTTTGACGTTTCATCCTCGCTTGTATTTTTATCTTTCTTCCATGACTCGAAGAC
131 TCGTCTTCCTCCTTTGATGTTTCATCCTCGCTTGTATTCTCATCTTTCTTCCATGACTCGAAGAC
* *
34627607 ATAATCTGGGAACTCAGGAATAAAATTGTTAAGGATATTTTTAAAAGTATTTCTTACAGAATTAT
196 ATAATCTGGGAACTCAGGAACAAAATTGTTAAAGATATTTTTAAAAGTATTTCTTACAGAATTAT
*
34627672 CTCTAACCTTCGCATATTTCCAATAAGCCTATTGTTGGTTATGCATAAATTTATTAATATGTCCT
261 CTCTAATCTTCGCATATTTCCAATAAGCCTATTGTTGGTTATGCATAAATTTATTAATATGTCCT
*
34627737 CATTGCGAAAACAAAGTAATGAATGAAAATTAAACACAAGGTAAGGTTGCAAGAAAAGAGAGGAG
326 CATTGCGAAAACAAAGTAATGAATGAAAACTAAACACAAGGTAAGGTTGCAAGAAAAGAGAGGAG
34627802 AGTCATAAAAACAGCTTAAGTACCAAGTCTTTCTCAACAATCCAATCCTAGACATGTTCATTCCC
391 AGTCATAAAAACAGCTTAAGTACCAAGTCTTTCTCAACAATCCAATCCTAGACATGTTCATTCCC
* *
34627867 ATTACCACATCACTGTATTTTTTCTATTGAAGAGGCATTGAGC
456 ATTACCACATCACTGTAGTTTTTCTATTGAAGAGGCATTGAAC
34627910 TTATTTATTCATGCTTGCTATTTTATTATGCGAAAAAAAATTCTAACTAGGAAATAAAAATAAAC
1 TTATTTATTCATGCTTGCTATTTTATTATGCGAAAAAAAATTCTAACTAGGAAATAAAAATAAAC
* * * *
34627975 ACCTAAAAATAAATAAAAACTAAAGATAGGAAATTTCCCCATTTTATTTATTTGACTTATCCTCC
66 ACCTAAAAAGAAATAAAAACTAAAGACAAGAAATTCCCCCATTTTATTTATTTGACTTATCCTCC
* *
34628040 TTGTCTTCCTCCTTTGATGTTTCATCCTCGCTTGTATTCTCATCTTTCTTCCATGACTTGAAGAC
131 TCGTCTTCCTCCTTTGATGTTTCATCCTCGCTTGTATTCTCATCTTTCTTCCATGACTCGAAGAC
*
34628105 ATAATCTGGGAACTCAGGAACAAAATTGTTAAAGATATTTTGAAAAGTATTTCTTACAGAATTAT
196 ATAATCTGGGAACTCAGGAACAAAATTGTTAAAGATATTTTTAAAAGTATTTCTTACAGAATTAT
* * * * *
34628170 CGCTAATCTCCACATATTTCCAATAAGCCTATTGTTGGTTACGCGTAAATTT
261 CTCTAATCTTCGCATATTTCCAATAAGCCTATTGTTGGTTATGCATAAATTT
34628222 CATCATATCC
Statistics
Matches: 755, Mismatches: 53, Indels: 3
0.93 0.07 0.00
Matches are distributed among these distances:
497 30 0.04
498 725 0.96
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (498 bp):
TTATTTATTCATGCTTGCTATTTTATTATGCGAAAAAAAATTCTAACTAGGAAATAAAAATAAAC
ACCTAAAAAGAAATAAAAACTAAAGACAAGAAATTCCCCCATTTTATTTATTTGACTTATCCTCC
TCGTCTTCCTCCTTTGATGTTTCATCCTCGCTTGTATTCTCATCTTTCTTCCATGACTCGAAGAC
ATAATCTGGGAACTCAGGAACAAAATTGTTAAAGATATTTTTAAAAGTATTTCTTACAGAATTAT
CTCTAATCTTCGCATATTTCCAATAAGCCTATTGTTGGTTATGCATAAATTTATTAATATGTCCT
CATTGCGAAAACAAAGTAATGAATGAAAACTAAACACAAGGTAAGGTTGCAAGAAAAGAGAGGAG
AGTCATAAAAACAGCTTAAGTACCAAGTCTTTCTCAACAATCCAATCCTAGACATGTTCATTCCC
ATTACCACATCACTGTAGTTTTTCTATTGAAGAGGCATTGAAC
Found at i:34637294 original size:50 final size:50
Alignment explanation
Indices: 34637186--34637366 Score: 263
Period size: 50 Copynumber: 3.6 Consensus size: 50
34637176 AACAACCACA
* ** * * *
34637186 GCCATGTCCCAGACATGGTCTTACATGGTATGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAC
* **
34637237 GCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
34637287 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
34637337 GCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
34637367 TATCTTTACC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 91 0.78
51 26 0.22
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:34639083 original size:23 final size:23
Alignment explanation
Indices: 34639057--34639103 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
34639047 TCATACACTG
*
34639057 AATGATAACACCATAAAAAATCA
1 AATGATAACACCACAAAAAATCA
34639080 AATGATAACACCACAAAAAATCA
1 AATGATAACACCACAAAAAATCA
34639103 A
1 A
34639104 CCAACTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (23 bp):
AATGATAACACCACAAAAAATCA
Found at i:34651502 original size:9 final size:9
Alignment explanation
Indices: 34651488--34651516 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
34651478 CGAAAACAAT
34651488 AACTTACAC
1 AACTTACAC
34651497 AACTTACAC
1 AACTTACAC
34651506 AACTTACAC
1 AACTTACAC
34651515 AA
1 AA
34651517 GCTAGGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (9 bp):
AACTTACAC
Found at i:34655889 original size:85 final size:85
Alignment explanation
Indices: 34655746--34655924 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
34655736 GGCCGGCCAT
34655746 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
34655811 ATAAGGATTAATAAAATAAA
66 ATAAGGATTAATAAAATAAA
34655831 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
34655896 GTAAGGATTAATAAAATAAA
66 ATAAGGATTAATAAAATAAA
*
34655916 GGGCATGGG
1 GAGCATGGG
34655925 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
ATAAGGATTAATAAAATAAA
Found at i:34657247 original size:47 final size:47
Alignment explanation
Indices: 34657193--34657646 Score: 626
Period size: 47 Copynumber: 9.6 Consensus size: 47
34657183 TATTTGAATA
* * *
34657193 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
34657240 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
34657287 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
34657336 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
34657383 AATCTGAATGTGTATATATATGTGACAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
34657432 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
34657479 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
** *
34657526 AATGTGAACA-TGCGTATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
34657573 AATGTGAAAGTGTATATATGTGATAAGGTCGAATAGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
34657620 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
34657647 TCCCGAAGGG
Statistics
Matches: 377, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 288 0.76
49 88 0.23
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:34657319 original size:96 final size:94
Alignment explanation
Indices: 34657193--34657646 Score: 626
Period size: 96 Copynumber: 4.8 Consensus size: 94
34657183 TATTTGAATA
* * *
34657193 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
34657258 TGTGATAAGGCCTAATAGCCAATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
* *
34657287 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
34657352 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
34657383 AATCTGAATGTGTATATATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
34657447 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * **
34657479 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCGTA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
34657542 TATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * * * *
34657573 AATGTGAAAGTGTATATATGTGATAAGGTCGAATAGCCAATGTGATGGATGTGGAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
34657638 TGTGATAAG
66 TGTGATAAG
34657647 TCCCGAAGGG
Statistics
Matches: 326, Mismatches: 28, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
93 2 0.01
94 148 0.45
96 175 0.54
97 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:34660143 original size:38 final size:38
Alignment explanation
Indices: 34660074--34660148 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
34660064 AATCCGAGTT
* *
34660074 TAAAGACCCGCTGACTATATGAAGAGGTTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
34660112 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
34660149 ATTAAAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:34660265 original size:40 final size:40
Alignment explanation
Indices: 34660208--34660478 Score: 373
Period size: 40 Copynumber: 6.8 Consensus size: 40
34660198 CGAGATGATC
34660208 GGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
** * *
34660247 GATTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
34660287 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
34660327 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
* * *
34660367 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
* ** * * * *
34660407 TGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
* * * *
34660447 GGTTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
34660479 CGTGTATTCA
Statistics
Matches: 207, Mismatches: 24, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
39 6 0.03
40 201 0.97
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
Found at i:34661873 original size:84 final size:85
Alignment explanation
Indices: 34661732--34661909 Score: 340
Period size: 84 Copynumber: 2.1 Consensus size: 85
34661722 GGCCGGCCAT
34661732 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
34661797 -TAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
34661816 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
34661881 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
34661901 GGGCATGGG
1 GAGCATGGG
34661910 CAATAAAATA
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 65 0.71
85 27 0.29
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:34663224 original size:47 final size:47
Alignment explanation
Indices: 34663173--34663626 Score: 653
Period size: 47 Copynumber: 9.6 Consensus size: 47
34663163 TATTTGAATA
* * * *
34663173 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
34663220 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
34663267 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
34663316 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
34663363 AATGTGAAAGTATATATATATGTGACAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
34663412 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
34663459 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
34663506 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
34663553 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
34663600 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
34663627 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 21, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 290 0.76
49 88 0.23
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:34663299 original size:96 final size:94
Alignment explanation
Indices: 34663173--34663626 Score: 653
Period size: 96 Copynumber: 4.8 Consensus size: 94
34663163 TATTTGAATA
* * * *
34663173 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATAAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
34663238 TGTGATAAGGCCTAATAGCCAATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
* *
34663267 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
34663332 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
34663363 AATGTGAAAGTATATATATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
34663427 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
34663459 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
34663522 TATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
34663553 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
34663618 TGTGATAAG
66 TGTGATAAG
34663627 TCCCGAAGGG
Statistics
Matches: 327, Mismatches: 25, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
93 2 0.01
94 151 0.46
96 171 0.52
97 2 0.01
98 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:34663504 original size:22 final size:22
Alignment explanation
Indices: 34663477--34663598 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
34663467 CATGTGTATG
34663477 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
34663499 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
34663524 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
34663546 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
34663571 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
34663593 TGTGAT
1 TGTGAT
34663599 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:34666436 original size:41 final size:41
Alignment explanation
Indices: 34666378--34666646 Score: 174
Period size: 41 Copynumber: 6.8 Consensus size: 41
34666368 TATCTTTCGA
*
34666378 GGCTTTAGCGGCGTTTTTTATAAAGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCAG
* * *
34666419 GGCTTTAGCGGCATTTTTCATGAA------C---T-CT-A-
1 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCAG
*
34666448 GGCTTTAGCGGCGTTTTTGGA-AAAGCGTCGCTAATGCTCCA-
1 GGCTTTAGCGGCGTTTTT-GATAAAGCGCCGCTAATGCT-CAG
34666489 GGCTTTAGCGGCGTTTTTGA-AAATGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGATAAA-GCGCCGCTAATGCTCAG
* * * * * * *
34666530 TGTTTTAGCTGCATTTTTGAGAAAGTGCTGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCAG
* * * * * * *
34666571 TGTTTTAGCGGCCTTTTTTAATAAAGCGTCACTAATGCTCAT
1 GGCTTTAGCGG-CGTTTTTGATAAAGCGCCGCTAATGCTCAG
* * * *
34666613 TGTTTTAGTGGTGTTTTTGGAT-AAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTT-GATAAAGCGCCGCTAA
34666647 AAACTTTTTA
Statistics
Matches: 182, Mismatches: 28, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
29 19 0.10
30 2 0.01
31 2 0.01
32 1 0.01
35 2 0.01
38 1 0.01
39 2 0.01
40 7 0.04
41 109 0.60
42 37 0.20
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.35
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCAG
Found at i:34666607 original size:42 final size:41
Alignment explanation
Indices: 34666451--34666620 Score: 182
Period size: 41 Copynumber: 4.1 Consensus size: 41
34666441 AACTCTAGGC
* * *
34666451 TTTAGCGGCGTTTTTGGAAAAGCGTCGCTAATGCTCCAG-GC
1 TTTAGCGGCCTTTTTGAAAAAGCGTCGCTAATGCT-CAGTGT
* * *
34666492 TTTAGCGGCGTTTTTGAAAATGCGCCGCTAATGCTCAGTGT
1 TTTAGCGGCCTTTTTGAAAAAGCGTCGCTAATGCTCAGTGT
* * * *
34666533 TTTAGCTGCATTTTTGAGAAAGTG-CTGCTAATGCTCAGTGT
1 TTTAGCGGCCTTTTTGAAAAAGCGTC-GCTAATGCTCAGTGT
* * *
34666574 TTTAGCGGCCTTTTTTAATAAAGCGTCACTAATGCTCATTGT
1 TTTAGCGGCCTTTTTGAA-AAAGCGTCGCTAATGCTCAGTGT
34666616 TTTAG
1 TTTAG
34666621 TGGTGTTTTT
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
40 4 0.04
41 81 0.74
42 23 0.21
43 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (41 bp):
TTTAGCGGCCTTTTTGAAAAAGCGTCGCTAATGCTCAGTGT
Found at i:34666646 original size:83 final size:81
Alignment explanation
Indices: 34666451--34666646 Score: 207
Period size: 82 Copynumber: 2.4 Consensus size: 81
34666441 AACTCTAGGC
* * * *
34666451 TTTAGCGGCGTTTTTGGAAAAGCGTCGCTAATGCTCCAGGCTTTAGCGGCGTTTTTGAAAATGCG
1 TTTAGTGGCGTTTTTGG-AAAGCGCCGCTAATGCTCCAGGCTTTAGCGGCCTTTTTGAAAAAGCG
*
34666516 CCGCTAATGCTCAGTGT
65 CCACTAATGCTCAGTGT
* * * * *
34666533 TTTAGCT-GCATTTTTGAGAAAGTGCTGCTAATGCT-CAGTGTTTTAGCGGCCTTTTTTAATAAA
1 TTTAG-TGGCGTTTTTG-GAAAGCGCCGCTAATGCTCCAG-GCTTTAGCGGCCTTTTTGAA-AAA
* *
34666596 GCGTCACTAATGCTCATTGT
62 GCGCCACTAATGCTCAGTGT
*
34666616 TTTAGTGGTGTTTTTGGATAAGCGCCGCTAA
1 TTTAGTGGCGTTTTTGGA-AAGCGCCGCTAA
34666647 AAACTTTTTA
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
81 3 0.03
82 47 0.51
83 42 0.46
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (81 bp):
TTTAGTGGCGTTTTTGGAAAGCGCCGCTAATGCTCCAGGCTTTAGCGGCCTTTTTGAAAAAGCGC
CACTAATGCTCAGTGT
Found at i:34667062 original size:21 final size:20
Alignment explanation
Indices: 34667028--34667068 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
34667018 TTATGGATTA
*
34667028 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
34667048 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
34667069 ACGAGTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:34667411 original size:29 final size:28
Alignment explanation
Indices: 34667339--34667411 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
34667329 TTAAGGGTTG
* *
34667339 GGATTTAAGGTTTAGGGGTTAAGGATTTT
1 GGATTT-AGGTTTAAGGGTTAAGGATTAT
* *
34667368 GGAGTTAGATATTAAGGGTTAA-GAGTTAT
1 GGATTTAGGT-TTAAGGGTTAAGGA-TTAT
34667397 GGATTTAGGGTTTAA
1 GGATTTA-GGTTTAA
34667412 AGATTCAAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
28 5 0.14
29 28 0.80
30 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (28 bp):
GGATTTAGGTTTAAGGGTTAAGGATTAT
Found at i:34670915 original size:43 final size:42
Alignment explanation
Indices: 34670855--34670944 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 42
34670845 CTTTGAGTTC
* *
34670855 ATTACAAGATTTCCTTGATTAA-ATAAATGTATTATATCTTTT
1 ATTACAAGATTTACTTGATTAAGA-AAATGCATTATATCTTTT
* *
34670897 ATTACTAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTAC-AAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
34670940 ATTAC
1 ATTAC
34670945 CTTGCATATG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 36 0.86
44 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.46
Consensus pattern (42 bp):
ATTACAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:34671468 original size:42 final size:42
Alignment explanation
Indices: 34671209--34671559 Score: 352
Period size: 43 Copynumber: 8.2 Consensus size: 42
34671199 AATATATGTT
* *
34671209 TTTAGCGGCGTTTGTGTTAAAAGCGCCACTAAAGGTC-TG-TCC
1 TTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGAT-C
* * ** * *
34671251 TATAGCGGCATTTGTACAAAAAGCGCCGCTAAAGGCCTTGATC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGATC
* * * *
34671294 TATAGTGGCGTTTGTGAGAAAAGCGCCGCTAACGGTCTTGATC
1 TTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGATC
* *
34671337 TATAGCGGCGTTTGTGGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGG--AAAAGCGCCGCTAAAGGTCATGATC
* *
34671381 TTTAGCGGTGTTTGTAGGAAAAGTGCCGCTAAAGGTCAT-AGTC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGA-TC
* * *
34671424 TTTAGCGGCGTTTGTGGGAAAGCGTCGCTAAAAGTCATGATC
1 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGATC
*
34671466 TTTAGCGGCGATTGTAGG-AAAGCGCCGCTAAAGGTCAT-AGTC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGA-TC
* * * *
34671508 TTTAGCGGTGTTTGTGGGAAAAGCACTGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGATC
34671551 TTTAGCGGC
1 TTTAGCGGC
34671560 ATTTATTTCT
Statistics
Matches: 261, Mismatches: 35, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.00
42 101 0.39
43 120 0.46
44 37 0.14
45 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGATC
Found at i:34676435 original size:15 final size:15
Alignment explanation
Indices: 34676415--34676444 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34676405 AACCACCTTA
34676415 TAATCAATGATACGG
1 TAATCAATGATACGG
*
34676430 TAATCAATGGTACGG
1 TAATCAATGATACGG
34676445 GGAATCAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (15 bp):
TAATCAATGATACGG
Found at i:34676519 original size:42 final size:42
Alignment explanation
Indices: 34676430--34676553 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 42
34676420 AATGATACGG
* *
34676430 TAATCAATGG-TACGGGGAATCAACACATAGCAACCCCTTTCA
1 TAATCAA-GGATACGGGGAATCAGCACATAACAACCCCTTTCA
* *
34676472 CAATCAAGGATACGGTGGAATCAGCACTTAACAACCACC-TT-A
1 TAATCAAGGATACGG-GGAATCAGCACATAACAACC-CCTTTCA
* **
34676514 TAATCAATGATACGGGGAATCAGCACATAGGAACCCCTTT
1 TAATCAAGGATACGGGGAATCAGCACATAACAACCCCTTT
34676554 TTGATCAATG
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
40 2 0.03
41 21 0.30
42 25 0.36
43 19 0.28
44 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (42 bp):
TAATCAAGGATACGGGGAATCAGCACATAACAACCCCTTTCA
Found at i:34676561 original size:41 final size:41
Alignment explanation
Indices: 34676430--34676593 Score: 168
Period size: 41 Copynumber: 4.0 Consensus size: 41
34676420 AATGATACGG
* *
34676430 TAATCAATGGTACGGGGAATCAACACATAGCAACCCCTTTCA
1 TAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTT-A
* * * *
34676472 CAATCAAGGATACGGTGGAATCAGCACTTAACAACCACC-TTA
1 TAATCAATGATACGG-GGAATCAGCACATAGCAACC-CCTTTA
* *
34676514 TAATCAATGATACGGGGAATCAGCACATAGGAACCCCTTTT
1 TAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTTA
* * * * * *
34676555 TGATCAATGATTCGCGGAATCTGCACTTAGCAACTCCTT
1 TAATCAATGATACGGGGAATCAGCACATAGCAACCCCTT
34676594 ACATTCAAAG
Statistics
Matches: 100, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
40 2 0.02
41 51 0.51
42 26 0.26
43 19 0.19
44 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (41 bp):
TAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTTA
Found at i:34681643 original size:28 final size:27
Alignment explanation
Indices: 34681592--34681644 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
34681582 CAATATTTCA
*
34681592 TCTTTTTATTTTCTATTTTTCTTTTAT
1 TCTTTTTATTTTCTATTTTGCTTTTAT
34681619 TCTTCTTTATTTT-TATTTTAGCTTTT
1 TCTT-TTTATTTTCTATTTT-GCTTTT
34681645 CTTGTGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (27 bp):
TCTTTTTATTTTCTATTTTGCTTTTAT
Found at i:34690539 original size:39 final size:39
Alignment explanation
Indices: 34690506--34690983 Score: 669
Period size: 39 Copynumber: 12.3 Consensus size: 39
34690496 TATTGCAATT
34690506 TATGCTTAAATGTTATGTGATTATATGTATATTGTGATA
1 TATGCTTAAATGTTATGTGATTATATGTATATTGTGATA
* * *
34690545 TATGTTTAAATGTTATCTGGTTATATG-AGTATTGTGATA
1 TATGCTTAAATGTTATGTGATTATATGTA-TATTGTGATA
34690584 TATGCTTAAATGTTATGTGATTATATGTATATTGTGATA
1 TATGCTTAAATGTTATGTGATTATATGTATATTGTGATA
* ** *
34690623 TATGCTTGAATGTTATGTGATTATA-CAAGTATTATGATA
1 TATGCTTAAATGTTATGTGATTATATGTA-TATTGTGATA
* *
34690662 TATGTTTAAATATTATGTGATTATATGTATATTGTGATA
1 TATGCTTAAATGTTATGTGATTATATGTATATTGTGATA
*
34690701 TATGCTTAAATGTTATGTGATTATACG-AGTATTGTGATA
1 TATGCTTAAATGTTATGTGATTATATGTA-TATTGTGATA
* *
34690740 TATGTTTAAATATTATGTGATTATATGTATATTGTGATA
1 TATGCTTAAATGTTATGTGATTATATGTATATTGTGATA
*
34690779 TATGCTTAAATGTTATGTGATTATATG-AGTATTGTGACA
1 TATGCTTAAATGTTATGTGATTATATGTA-TATTGTGATA
* *
34690818 TATGCTTAAATGTTATGTGATTATATGTATATTTTGAGA
1 TATGCTTAAATGTTATGTGATTATATGTATATTGTGATA
*
34690857 TATGCTTAAATGTTATGTGATTATATGTATATTGTTATA
1 TATGCTTAAATGTTATGTGATTATATGTATATTGTGATA
*
34690896 TATGCTTAAATGTTATGTGATTATACG-AGTATTGTGATA
1 TATGCTTAAATGTTATGTGATTATATGTA-TATTGTGATA
* * * * * *
34690935 TATGCTTGAATGTTAGGCGATTATATGTGTAATATGATA
1 TATGCTTAAATGTTATGTGATTATATGTATATTGTGATA
34690974 TATGCTTAAA
1 TATGCTTAAA
34690984 AATGAATACG
Statistics
Matches: 389, Mismatches: 40, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
38 5 0.01
39 380 0.98
40 4 0.01
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.47
Consensus pattern (39 bp):
TATGCTTAAATGTTATGTGATTATATGTATATTGTGATA
Found at i:34694097 original size:20 final size:20
Alignment explanation
Indices: 34694054--34694102 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
34694044 TTTACAAACA
*
34694054 AAAATAT-AATATTAAACAT
1 AAAATATAAATATTAAAAAT
* *
34694073 TAAATCTAAATATTAAAAAT
1 AAAATATAAATATTAAAAAT
34694093 AAAATATAAA
1 AAAATATAAA
34694103 CATATAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATATAAATATTAAAAAT
Found at i:34695768 original size:16 final size:16
Alignment explanation
Indices: 34695733--34695782 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
34695723 AATTATATTC
* * *
34695733 TTTTTCTTTTTCTTTT
1 TTTTCCTTTTTATTTA
34695749 TTTTCCTTTTTATTTA
1 TTTTCCTTTTTATTTA
**
34695765 TTTTGATTTTTATTTA
1 TTTTCCTTTTTATTTA
34695781 TT
1 TT
34695783 ATTTATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTCCTTTTTATTTA
Found at i:34697124 original size:13 final size:13
Alignment explanation
Indices: 34697106--34697173 Score: 54
Period size: 13 Copynumber: 5.2 Consensus size: 13
34697096 AATAAGTAAT
34697106 AAATAATAAAATA
1 AAATAATAAAATA
*
34697119 AAATAA-AGTAAT-
1 AAATAATA-AAATA
34697131 AAATAA-AGTAAATA
1 AAATAATA--AAATA
34697145 AAATAAT-AAATA
1 AAATAATAAAATA
*
34697157 ATAATAATAAAACA
1 A-AATAATAAAATA
34697171 AAA
1 AAA
34697174 ATAAAAATTG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
12 14 0.31
13 20 0.44
14 11 0.24
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:34697125 original size:17 final size:17
Alignment explanation
Indices: 34697103--34697179 Score: 69
Period size: 17 Copynumber: 4.8 Consensus size: 17
34697093 CCAAATAAGT
34697103 AATAAATAATAAAATAA
1 AATAAATAATAAAATAA
34697120 AATAAAGTAAT-AAATAA
1 AATAAA-TAATAAAATAA
*
34697137 AGT--A-AATAAAAT--
1 AATAAATAATAAAATAA
34697149 AATAAATAATAATAATAA
1 AATAAATAATAA-AATAA
*
34697167 AACAAA-AATAAAA
1 AATAAATAATAAAA
34697180 ATTGGGTTGC
Statistics
Matches: 49, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
12 2 0.04
13 3 0.06
14 5 0.10
15 6 0.12
16 5 0.10
17 19 0.39
18 9 0.18
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (17 bp):
AATAAATAATAAAATAA
Found at i:34697133 original size:25 final size:25
Alignment explanation
Indices: 34697095--34697168 Score: 86
Period size: 21 Copynumber: 3.1 Consensus size: 25
34697085 ATTAATATCC
34697095 AAAT-AAGTAATAAATAATAAAATA
1 AAATAAAGTAATAAATAATAAAATA
*
34697119 AAATAAAGTAAT--A-AATAAAGT-
1 AAATAAAGTAATAAATAATAAAATA
*
34697140 AAATAAAATAATAAATAATAATAATA
1 AAATAAAGTAATAAATAATAA-AATA
34697166 AAA
1 AAA
34697169 CAAAAATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
21 11 0.27
22 7 0.17
23 2 0.05
24 9 0.22
25 9 0.22
26 3 0.07
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (25 bp):
AAATAAAGTAATAAATAATAAAATA
Found at i:34697143 original size:21 final size:22
Alignment explanation
Indices: 34697110--34697179 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 22
34697100 AGTAATAAAT
*
34697110 AATAAAATAAAATAAAGTAATA
1 AATAAAATAAAATAAAATAATA
*
34697132 AATAAAGT-AAATAAAATAATA
1 AATAAAATAAAATAAAATAATA
*
34697153 AAT--AATAATAATAAAACAA-A
1 AATAAAATAA-AATAAAATAATA
34697173 AATAAAA
1 AATAAAA
34697180 ATTGGGTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.05
20 5 0.12
21 24 0.60
22 9 0.22
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.21
Consensus pattern (22 bp):
AATAAAATAAAATAAAATAATA
Found at i:34700380 original size:20 final size:20
Alignment explanation
Indices: 34700355--34700395 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
34700345 TCGAACGTCG
34700355 ATTTTAGTACTAGCTGTACT
1 ATTTTAGTACTAGCTGTACT
*
34700375 ATTTTAGTACTAGTTGTACT
1 ATTTTAGTACTAGCTGTACT
34700395 A
1 A
34700396 AGGAACGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (20 bp):
ATTTTAGTACTAGCTGTACT
Found at i:34704905 original size:27 final size:27
Alignment explanation
Indices: 34704875--34704944 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
34704865 AAAAATAAAA
*
34704875 ATTTACCAAAATAT-TACAATTTTTTTT
1 ATTTACCAAAATATATA-AACTTTTTTT
34704902 ATTTACCAAAATATATAAACTTTTTTT
1 ATTTACCAAAATATATAAACTTTTTTT
34704929 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
34704945 CAAAAAAATC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTTACCAAAATATATAAACTTTTTTT
Found at i:34704962 original size:22 final size:22
Alignment explanation
Indices: 34704936--34704977 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
34704926 TTTATTTACC
*
34704936 AAAATATATCAAAAAAATCAAA
1 AAAATATATAAAAAAAATCAAA
* *
34704958 AAAATCTGTAAAAAAAATCA
1 AAAATATATAAAAAAAATCA
34704978 GACCGATGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAATATATAAAAAAAATCAAA
Found at i:34705076 original size:4 final size:4
Alignment explanation
Indices: 34705067--34705227 Score: 125
Period size: 4 Copynumber: 38.2 Consensus size: 4
34705057 CAGAAGGAGG
*
34705067 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GGAGAG GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA
* *
34705117 GAAA GAAA GAAA GGAGAG GAAA GAAAA GGAAA GGAAA G-GA GAAGA GAAA
1 GAAA GAAA GAAA -GA-AA GAAA G-AAA -GAAA -GAAA GAAA GAA-A GAAA
34705166 -AAA GGAAA GAAA G-AA G-AA GAAAA GGAGAA GAGAA GAAA -AAA GAAA
1 GAAA -GAAA GAAA GAAA GAAA G-AAA -GA-AA GA-AA GAAA GAAA GAAA
* *
34705211 AAAA GAAG GAAA GAAA G
1 GAAA GAAA GAAA GAAA G
34705228 GGAAAGGAGA
Statistics
Matches: 132, Mismatches: 10, Indels: 30
0.77 0.06 0.17
Matches are distributed among these distances:
3 14 0.11
4 76 0.58
5 36 0.27
6 6 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:34705105 original size:34 final size:34
Alignment explanation
Indices: 34705060--34705228 Score: 169
Period size: 34 Copynumber: 5.1 Consensus size: 34
34705050 GTGAGGGCAG
34705060 AAGGAG-GGAAAGAAAGAAAGAAAGAAAGAAAGA
1 AAGGAGAGGAAAGAAAGAAAGAAAGAAAGAAAGA
34705093 AAGGAGAGGAAAGAAAGAAAGAAAGAAAGAAAGA
1 AAGGAGAGGAAAGAAAGAAAGAAAGAAAGAAAGA
*
34705127 AAGGAGAGGAAAGAAAAGGAAAGGAAAG-GAGAAGAGA
1 AAGGAGAGGAAAG-AAA-GAAA-GAAAGAAAGAA-AGA
* *
34705164 AA--AAAGGAAAGAAAG-AAG-AAG-AA-AAGGA
1 AAGGAGAGGAAAGAAAGAAAGAAAGAAAGAAAGA
* * *
34705192 GAA-GAGAAGAAA-AAAGAAAAAAAGAAGGAAAGA
1 -AAGGAGAGGAAAGAAAGAAAGAAAGAAAGAAAGA
34705225 AAGG
1 AAGG
34705229 GAAAGGAGAA
Statistics
Matches: 115, Mismatches: 9, Indels: 24
0.78 0.06 0.16
Matches are distributed among these distances:
28 2 0.02
29 8 0.07
30 12 0.10
31 4 0.03
32 5 0.04
33 12 0.10
34 43 0.37
35 11 0.10
36 8 0.07
37 10 0.09
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (34 bp):
AAGGAGAGGAAAGAAAGAAAGAAAGAAAGAAAGA
Found at i:34705177 original size:35 final size:36
Alignment explanation
Indices: 34705133--34705223 Score: 109
Period size: 35 Copynumber: 2.6 Consensus size: 36
34705123 AAGAAAGGAG
* *
34705133 AGGAAAGAAAAGGA-AAGGAAAGGAGAAGAGAAAAA
1 AGGAAAGAAAAGAAGAAGAAAAGGAGAAGAGAAAAA
*
34705168 AGGAAAG-AAAGAAGAAGAAAAGGAGAAGAGAAGAA
1 AGGAAAGAAAAGAAGAAGAAAAGGAGAAGAGAAAAA
* *
34705203 A--AAAGAAAAAAAGAAGGAAAG
1 AGGAAAGAAAAGAAGAAGAAAAG
34705224 AAAGGGAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
33 4 0.08
34 18 0.37
35 27 0.55
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (36 bp):
AGGAAAGAAAAGAAGAAGAAAAGGAGAAGAGAAAAA
Found at i:34705655 original size:28 final size:28
Alignment explanation
Indices: 34705624--34705698 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
34705614 AAAAATAAAA
34705624 ATTTACCAAAATAT-TACAACTTTTTTTT
1 ATTTACCAAAATATATA-AACTTTTTTTT
34705652 ATTTACCAAAATATATAAACTTTTTTTT
1 ATTTACCAAAATATATAAACTTTTTTTT
*
34705680 GTTTACCAAAATATATAAA
1 ATTTACCAAAATATATAAA
34705699 AAAACCAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 43 0.96
29 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.01, T:0.45
Consensus pattern (28 bp):
ATTTACCAAAATATATAAACTTTTTTTT
Found at i:34705825 original size:4 final size:4
Alignment explanation
Indices: 34705816--34705974 Score: 103
Period size: 4 Copynumber: 37.2 Consensus size: 4
34705806 CAGAAGGAGG
* *
34705816 GAAA GAAA GAAA GGAGA GAAAA GAAA GAAA GGAGA GAAAA GAAA GAAA
1 GAAA GAAA GAAA -GAAA G-AAA GAAA GAAA -GAAA G-AAA GAAA GAAA
* *
34705864 GAAA GAAA GAAA GGAGAG GAAA GAAAA GGAAA GGAAA G-GA GAAGA GAAA
1 GAAA GAAA GAAA -GA-AA GAAA G-AAA -GAAA -GAAA GAAA GAA-A GAAA
34705913 -AAA GGAAA GAAA G-AA G-AA GAAAA GGAGAA GAGAA GAAA -AAA GAAA
1 GAAA -GAAA GAAA GAAA GAAA G-AAA -GA-AA GA-AA GAAA GAAA GAAA
*
34705958 GAAA GAAG GAAA GAAA G
1 GAAA GAAA GAAA GAAA G
34705975 GGAAAGGAGA
Statistics
Matches: 128, Mismatches: 10, Indels: 34
0.74 0.06 0.20
Matches are distributed among these distances:
3 14 0.11
4 65 0.51
5 44 0.34
6 5 0.04
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:34705840 original size:18 final size:19
Alignment explanation
Indices: 34705817--34705984 Score: 131
Period size: 18 Copynumber: 8.9 Consensus size: 19
34705807 AGAAGGAGGG
34705817 AAAGAAA-GAAAGGAGAGA
1 AAAGAAAGGAAAGGAGAGA
34705835 AAAGAAA-GAAAGGAGAGA
1 AAAGAAAGGAAAGGAGAGA
*
34705853 AAAGAAA-GAAA-GAAAG-
1 AAAGAAAGGAAAGGAGAGA
* *
34705869 AAAGAAAGGAGAGGAAAGA
1 AAAGAAAGGAAAGGAGAGA
34705888 AAAGGAAAGGAAAGGAGAAGA
1 AAA-GAAAGGAAAGGAG-AGA
*
34705909 GAAA-AAAGGAAA-GAAAGA
1 -AAAGAAAGGAAAGGAGAGA
*
34705927 AGAAGAAAAGGAGAAGAGAAGAAA
1 A-AAG-AAAGGA-AAG-G-AGAGA
*
34705951 AAAGAAA-GAAA-GA-AGG
1 AAAGAAAGGAAAGGAGAGA
34705967 AAAGAAAGGGAAAGGAGA
1 AAAGAAA-GGAAAGGAGA
34705985 AGAGAAAAAA
Statistics
Matches: 124, Mismatches: 9, Indels: 32
0.75 0.05 0.19
Matches are distributed among these distances:
16 15 0.12
17 9 0.07
18 44 0.35
19 7 0.06
20 28 0.23
21 7 0.06
22 6 0.05
23 4 0.03
24 4 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
AAAGAAAGGAAAGGAGAGA
Found at i:34705841 original size:22 final size:22
Alignment explanation
Indices: 34705816--34706024 Score: 95
Period size: 22 Copynumber: 9.5 Consensus size: 22
34705806 CAGAAGGAGG
34705816 GAAAGAAAGAAAGGAGAG---A
1 GAAAGAAAGAAAGGAGAGAAAA
34705835 -AAAGAAAGAAAGGAGAGAAAA
1 GAAAGAAAGAAAGGAGAGAAAA
* *
34705856 GAAAGAAAGAAA-GAAAGAAAG
1 GAAAGAAAGAAAGGAGAGAAAA
* *
34705877 GAGAGGAAAGAAAAGGAAAGGAAAGGA
1 GA-AAGAAAG-AAAGGAGA-GAAA--A
*
34705904 GAAGAGAAA-AAAGGAAAG-AAA
1 GAA-AGAAAGAAAGGAGAGAAAA
*
34705925 G-AAG-AAGAAAAGGAGAAGAGAA
1 GAAAGAAAG-AAAGGAG-AGAAAA
* *
34705947 GAAA-AAAGAAA-GAAAG-AAG
1 GAAAGAAAGAAAGGAGAGAAAA
34705966 GAAAGAAAGGGAAAGGAGAAGAGAAA
1 GAAAGAAA--GAAAGGAG-AGA-AAA
* **
34705992 AAAAG-AAG-AAGGAAGAGGGAA
1 GAAAGAAAGAAAGG-AGAGAAAA
*
34706013 GAAAGGAAGAAA
1 GAAAGAAAGAAA
34706025 AGGGGAAAAA
Statistics
Matches: 147, Mismatches: 16, Indels: 50
0.69 0.08 0.23
Matches are distributed among these distances:
18 19 0.13
19 7 0.05
20 12 0.08
21 22 0.15
22 36 0.24
23 17 0.12
24 7 0.05
25 14 0.10
26 7 0.05
27 6 0.04
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (22 bp):
GAAAGAAAGAAAGGAGAGAAAA
Found at i:34705886 original size:40 final size:39
Alignment explanation
Indices: 34705816--34706024 Score: 137
Period size: 40 Copynumber: 5.3 Consensus size: 39
34705806 CAGAAGGAGG
* * *
34705816 GAAAGAAAGAAAGGAGAGAAAAGAAAGAAAGGAGAGAAAA
1 GAAAGAAAGAAA-GAAAGAAAGGAAAGAAAGAAGAGAAAA
* * *
34705856 GAAAGAAAGAAAGAAAGAAAGGAGAGGAAAGAAAAGGAAAG
1 GAAAGAAAGAAAGAAAGAAAGGA-AAGAAAGAAGA-GAAAA
*
34705897 GAAAG-GAGAAGAGAAA-AAAGGAAAGAAAGAAGAAGAAAA
1 GAAAGAAAGAA-AGAAAGAAAGGAAAGAAAGAAG-AGAAAA
* *
34705936 GGAGAAGAGAAGAAA-AAAGAAA-GAAAGAAGGAA-AGAAAGG
1 -GA-AAGA-AAGAAAGAAAGAAAGGAAAGAAAGAAGAGAAA-A
* * * **
34705976 GAAAG-GAGAAGAGAAA-AAAAG-AAGAAGGAAGAGGGAA
1 GAAAGAAAGAA-AGAAAGAAAGGAAAGAAAGAAGAGAAAA
*
34706013 GAAAGGAAGAAA
1 GAAAGAAAGAAA
34706025 AGGGGAAAAA
Statistics
Matches: 136, Mismatches: 18, Indels: 33
0.73 0.10 0.18
Matches are distributed among these distances:
36 4 0.03
37 19 0.14
38 14 0.10
39 28 0.21
40 33 0.24
41 30 0.22
42 4 0.03
43 4 0.03
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (39 bp):
GAAAGAAAGAAAGAAAGAAAGGAAAGAAAGAAGAGAAAA
Found at i:34705980 original size:79 final size:79
Alignment explanation
Indices: 34705829--34706024 Score: 210
Period size: 79 Copynumber: 2.5 Consensus size: 79
34705819 AGAAAGAAAG
* * *
34705829 GAGAGAAAAGAAAGAAAGGAG-AGAAAAGAAAGAAAGAAAGAAAGAAAGGAGAGGAAAGAAAAGG
1 GAGAAAAAAGAAAGAAAGAAGAAGAAAAGAAAGAAAGAAAGAAAGAAAGGAGAAGAAAGAAAAGG
34705893 AAAGGAAAGGAGAA
66 AAAGGAAAGGAGAA
*
34705907 GAGAAAAAAGGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAA-AAAGAAA-GA-AAG-AAGGA
1 GAGAAAAAA-GAAAGAAAGAAGAAGAAAA-GA-AAGA-AAGAAAGAAAGAAAGGAGAAGAAAGAA
34705968 AA-GAAAGGGAAAGGAGAA
62 AAGGAAA-GGAAAGGAGAA
* ** *
34705986 GAGAAAAAA-AGAAGAAGGAAG-AGGGAAGAAAGGAAGAAA
1 GAGAAAAAAGA-AAGAAAGAAGAAGAAAAGAAAGAAAGAAA
34706025 AGGGGAAAAA
Statistics
Matches: 103, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
74 6 0.06
75 3 0.03
76 2 0.02
77 5 0.05
78 21 0.20
79 37 0.36
80 8 0.08
81 4 0.04
82 11 0.11
83 6 0.06
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (79 bp):
GAGAAAAAAGAAAGAAAGAAGAAGAAAAGAAAGAAAGAAAGAAAGAAAGGAGAAGAAAGAAAAGG
AAAGGAAAGGAGAA
Found at i:34706001 original size:37 final size:37
Alignment explanation
Indices: 34705897--34706005 Score: 123
Period size: 39 Copynumber: 2.8 Consensus size: 37
34705887 AAAAGGAAAG
* *
34705897 GAAAGGAGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAAAG
1 GAAAGGAGAAGAGAAAAAAAGAAAG-AAGGA-AAG-AAAG
*
34705937 GAGAA-GAGAAGAAAAAAGAAAGAAAGAAGGAAAGAAAGG
1 GA-AAGGAGAAGAGAAAA-AAAGAAAGAAGGAAAGAAA-G
34705976 GAAAGGAGAAGAGAAAAAAAG-AAGAAGGAA
1 GAAAGGAGAAGAGAAAAAAAGAAAGAAGGAA
34706006 GAGGGAAGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
37 9 0.15
38 9 0.15
39 17 0.28
40 17 0.28
41 9 0.15
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (37 bp):
GAAAGGAGAAGAGAAAAAAAGAAAGAAGGAAAGAAAG
Found at i:34706001 original size:45 final size:45
Alignment explanation
Indices: 34705854--34706018 Score: 131
Period size: 49 Copynumber: 3.5 Consensus size: 45
34705844 AAGGAGAGAA
* * * *
34705854 AAGAAAGAAAGAAAGAAAGAAA-GGAGAGGAAAGAAAAGGAAAGGAAAG
1 AAGAAAGAAAGAAGGAAAGAAAGGGAAAGG--AGAAGA-GAAA-AAAAG
* * *
34705902 GAGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAAA-
1 AAGAA-AGAAAGAAGGAAAGAAAG--G--G-AAAGGAGAAGAGAAAAAAAG
34705952 AAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAG
1 AAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAG
* *
34705997 AAG-AAGGAAG-AGGGAAGAAAGG
1 AAGAAAGAAAGAAGGAAAGAAAGG
34706019 AAGAAAAGGG
Statistics
Matches: 97, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
43 11 0.11
44 24 0.25
45 4 0.04
47 1 0.01
48 4 0.04
49 32 0.33
50 4 0.04
51 3 0.03
52 4 0.04
53 5 0.05
54 1 0.01
55 4 0.04
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (45 bp):
AAGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAG
Found at i:34706017 original size:37 final size:36
Alignment explanation
Indices: 34705897--34706019 Score: 97
Period size: 35 Copynumber: 3.2 Consensus size: 36
34705887 AAAAGGAAAG
* * *
34705897 GAAAGGAGAAGAG-AAAAAAGGA-AAGAAAGAAGAA
1 GAAAGGAGAAGAGAAAAAAAGAAGAAGGAAGAGGAA
* *
34705931 GAAAAGGAGAAGAGAAGAAAAAAGAAAGAAAGAAGGAAAGAAA
1 G-AAAGGAGAAGAG-A-AAAAAAG-AAGAAGGAA-G--AGGAA
34705974 GGGAAAGGAGAAGAGAAAAAAAGAAGAAGGAAGAGGGAA
1 --GAAAGGAGAAGAGAAAAAAAGAAGAAGGAAGA-GGAA
34706013 GAAAGGA
1 GAAAGGA
34706020 AGAAAAGGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 21
0.71 0.07 0.21
Matches are distributed among these distances:
34 1 0.01
35 12 0.17
37 7 0.10
38 8 0.11
39 4 0.06
40 5 0.07
41 9 0.13
42 7 0.10
43 4 0.06
44 12 0.17
45 1 0.01
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (36 bp):
GAAAGGAGAAGAGAAAAAAAGAAGAAGGAAGAGGAA
Found at i:34709472 original size:16 final size:16
Alignment explanation
Indices: 34709451--34709486 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
34709441 GCCCCTCCAT
34709451 GTCACTCTCAAGTCGG
1 GTCACTCTCAAGTCGG
34709467 GTCACTCTCAAGTCGG
1 GTCACTCTCAAGTCGG
34709483 GTCA
1 GTCA
34709487 TTCTTTGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.25
Consensus pattern (16 bp):
GTCACTCTCAAGTCGG
Found at i:34711463 original size:15 final size:12
Alignment explanation
Indices: 34711426--34711456 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
34711416 AAAAAAATTT
*
34711426 ATACTCAAAATA
1 ATACACAAAATA
34711438 ATACACAAAATA
1 ATACACAAAATA
34711450 ATACACA
1 ATACACA
34711457 CTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (12 bp):
ATACACAAAATA
Found at i:34711511 original size:26 final size:26
Alignment explanation
Indices: 34711462--34711514 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
34711452 ACACACTAAA
* *
34711462 ATTATTAATTTTATACTACGAATAAT
1 ATTAATAATTTTATACTACAAATAAT
34711488 ATTAATAATTTTATACT-CAAAATAAT
1 ATTAATAATTTTATACTAC-AAATAAT
34711514 A
1 A
34711515 CACACTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTAATAATTTTATACTACAAATAAT
Found at i:34711706 original size:3 final size:3
Alignment explanation
Indices: 34711698--34711723 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34711688 TCTTCATACT
34711698 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
34711724 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:34711820 original size:19 final size:21
Alignment explanation
Indices: 34711796--34711834 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
34711786 ACTAAAACAA
*
34711796 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
34711815 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
34711835 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:34711992 original size:27 final size:28
Alignment explanation
Indices: 34711954--34712029 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
34711944 ATAATACGAG
* *
34711954 TGGTGCCACCAATTAGTA-TGGCACCAT
1 TGGTGCCGCCAATTAGCATTGGCACCAT
* *
34711981 TGGTGCCGCCAA-TGGCATTGGCACCTT
1 TGGTGCCGCCAATTAGCATTGGCACCAT
*
34712008 TGGTGCCGCCAATT-CCATTGGC
1 TGGTGCCGCCAATTAGCATTGGC
34712030 GTGACCAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.07
27 38 0.90
28 1 0.02
ACGTcount: A:0.18, C:0.29, G:0.26, T:0.26
Consensus pattern (28 bp):
TGGTGCCGCCAATTAGCATTGGCACCAT
Found at i:34712111 original size:28 final size:28
Alignment explanation
Indices: 34712071--34712145 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
34712061 TTTTTGTTTT
34712071 TTTATATATTTTGGTAAATAAAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
34712099 TTTATATATTTTGGTAAATAAAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
34712127 TTGTA-ATATTTTGGTAAAT
1 TT-TATATATTTTGGTAAAT
34712146 TTTTTTTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 44 0.96
29 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (28 bp):
TTTATATATTTTGGTAAATAAAAAAAAG
Found at i:34712819 original size:3 final size:3
Alignment explanation
Indices: 34712813--34712859 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
34712803 GAACATCATC
* *
34712813 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT AGT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
34712860 CTGTCTTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:34713411 original size:29 final size:31
Alignment explanation
Indices: 34713379--34713439 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
34713369 AAAATGCCAT
**
34713379 TAAACTATTTAAAAG-TTTT-TATAAGTCAC
1 TAAACTATGCAAAAGCTTTTATATAAGTCAC
*
34713408 TAAACTATGCAAAAGCTTTTATTTAAGTCAC
1 TAAACTATGCAAAAGCTTTTATATAAGTCAC
34713439 T
1 T
34713440 GGGTTGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 13 0.48
30 4 0.15
31 10 0.37
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (31 bp):
TAAACTATGCAAAAGCTTTTATATAAGTCAC
Found at i:34721080 original size:53 final size:54
Alignment explanation
Indices: 34721021--34721132 Score: 156
Period size: 53 Copynumber: 2.1 Consensus size: 54
34721011 TTAAAAACAA
*
34721021 CAAAACTTAATTAATTTAACAACTACATTTAAT-AATAATT-AAAATTTAAAATT
1 CAAAACTTAATGAATTTAACAACTACATTTAATCAA-AATTAAAAATTTAAAATT
* * *
34721074 CAAAACTTAATGAATTTAATAACTACATTTAATCAAGATTAAAAATTTTAAATT
1 CAAAACTTAATGAATTTAACAACTACATTTAATCAAAATTAAAAATTTAAAATT
*
34721128 AAAAA
1 CAAAA
34721133 AATCATAAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
53 34 0.65
54 18 0.35
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.36
Consensus pattern (54 bp):
CAAAACTTAATGAATTTAACAACTACATTTAATCAAAATTAAAAATTTAAAATT
Found at i:34723115 original size:74 final size:74
Alignment explanation
Indices: 34722987--34723130 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 74
34722977 CTCGGATTTG
* **
34722987 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCTTGAGATCGTTTAAAAC
1 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAAC
34723052 TTGAGAAAA
66 TTGAGAAAA
* *** *
34723061 AAAAAGGGATCATGTCCAGTAAGTTAGGACATGGTCTCTTCTTGATTCCCGAGATCGTTTAAAAC
1 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAAC
34723126 TTGAG
66 TTGAG
34723131 TTTGAAAAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (74 bp):
AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAAC
TTGAGAAAA
Found at i:34723470 original size:13 final size:13
Alignment explanation
Indices: 34723425--34723475 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
34723415 ACATTCTCTC
*
34723425 AAAAT-AATAATG
1 AAAATGAATAAAG
34723437 AAAATGTAAATAAA-
1 AAAATG--AATAAAG
*
34723451 TAAATGAATAAAG
1 AAAATGAATAAAG
34723464 AAAATGAATAAA
1 AAAATGAATAAA
34723476 AATATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 11 0.34
13 11 0.34
14 5 0.16
15 5 0.16
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.22
Consensus pattern (13 bp):
AAAATGAATAAAG
Found at i:34723478 original size:27 final size:26
Alignment explanation
Indices: 34723426--34723507 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 26
34723416 CATTCTCTCA
* *
34723426 AAATAATAATGAAAATGTAAATAAAT
1 AAATAATAAAGAAAATGTAAAAAAAT
34723452 AAATGAATAAAGAAAATG-AATAAAAAT
1 AAAT-AATAAAGAAAATGTAA-AAAAAT
* * * *
34723479 ATAAAAATATA-AAAATATAAAAATAT
1 A-AATAATAAAGAAAATGTAAAAAAAT
34723505 AAA
1 AAA
34723508 AAGATATATG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
25 2 0.04
26 17 0.37
27 25 0.54
28 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (26 bp):
AAATAATAAAGAAAATGTAAAAAAAT
Found at i:34723484 original size:8 final size:8
Alignment explanation
Indices: 34723471--34723509 Score: 78
Period size: 8 Copynumber: 4.9 Consensus size: 8
34723461 AAGAAAATGA
34723471 ATAAAAAT
1 ATAAAAAT
34723479 ATAAAAAT
1 ATAAAAAT
34723487 ATAAAAAT
1 ATAAAAAT
34723495 ATAAAAAT
1 ATAAAAAT
34723503 ATAAAAA
1 ATAAAAA
34723510 GATATATGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
ATAAAAAT
Found at i:34723780 original size:21 final size:22
Alignment explanation
Indices: 34723738--34723797 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
34723728 AGCCCTGCCC
34723738 ATTT-TTTTAATAAATATAAAAA
1 ATTTATTTTAA-AAATATAAAAA
34723760 ATTTATTTTAAAAAT-TAAAAA
1 ATTTATTTTAAAAATATAAAAA
**
34723781 ACGTATTTTAAAAATAT
1 ATTTATTTTAAAAATAT
34723798 TTTAAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 19 0.56
22 9 0.26
23 6 0.18
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTATTTTAAAAATATAAAAA
Found at i:34723800 original size:11 final size:11
Alignment explanation
Indices: 34723784--34723844 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
34723774 TTAAAAAACG
34723784 TATTTTAAAAA
1 TATTTTAAAAA
34723795 TATTTT--AAA
1 TATTTTAAAAA
*
34723804 -A--TTAAAAT
1 TATTTTAAAAA
*
34723812 TTTTTTAAAAA
1 TATTTTAAAAA
34723823 GTATTTTAAAAA
1 -TATTTTAAAAA
34723835 TATTTTAAAA
1 TATTTTAAAA
34723845 TTAAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
6 2 0.05
8 3 0.08
9 3 0.08
11 22 0.55
12 10 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:34724105 original size:37 final size:35
Alignment explanation
Indices: 34724026--34724105 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 35
34724016 CGGCACCTCT
* *
34724026 AATATATATATGTATACGAATTGTAAAATATACGAA
1 AATATATACATGTATACGAATTATAAAATATAC-AA
34724062 AA-ATATACATGTATATGCGAATTATAAAATATA-AA
1 AATATATACATGTATA--CGAATTATAAAATATACAA
34724097 AACTATATA
1 AA-TATATA
34724106 TATAAAAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
35 16 0.42
36 2 0.05
37 20 0.53
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.33
Consensus pattern (35 bp):
AATATATACATGTATACGAATTATAAAATATACAA
Found at i:34724332 original size:26 final size:26
Alignment explanation
Indices: 34724284--34724334 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
34724274 CGTATATGTA
*
34724284 TATATATATTATAAAATGTAAGTATG
1 TATATATATTATAAAATATAAGTATG
*
34724310 TATATATA-TATAAATTATAAAGTAT
1 TATATATATTATAAAATAT-AAGTAT
34724335 ATAAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (26 bp):
TATATATATTATAAAATATAAGTATG
Found at i:34724347 original size:41 final size:38
Alignment explanation
Indices: 34724293--34724368 Score: 98
Period size: 41 Copynumber: 1.9 Consensus size: 38
34724283 ATATATATAT
** *
34724293 TATAAAATGTAAGTATGTATATATATATAAATTATAAAGTA
1 TATAAAAAATAAGTAAGTATAT-TATA-AAA-TATAAAGTA
34724334 TATAAAAAATAAGTAAGTATATTATAAAATATAAA
1 TATAAAAAATAAGTAAGTATATTATAAAATATAAA
34724369 ATTATAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 6 0.19
39 3 0.09
40 4 0.12
41 19 0.59
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (38 bp):
TATAAAAAATAAGTAAGTATATTATAAAATATAAAGTA
Found at i:34726956 original size:2 final size:2
Alignment explanation
Indices: 34726949--34727029 Score: 135
Period size: 2 Copynumber: 40.5 Consensus size: 2
34726939 ATGATGATGA
* *
34726949 TG TG TG TG TG TG TG TG CG TG TG TG TG TT TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
34726991 TG TG TG TG TG TG TG TG TG TG TT TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
34727030 ATTAATGATT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.00, C:0.01, G:0.47, T:0.52
Consensus pattern (2 bp):
TG
Found at i:34730387 original size:17 final size:17
Alignment explanation
Indices: 34730365--34730398 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34730355 TAGTATTCAA
34730365 TTACTATGAAGGATTAC
1 TTACTATGAAGGATTAC
34730382 TTACTATGAAGGATTAC
1 TTACTATGAAGGATTAC
34730399 CACTAAGTGA
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:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
TTACTATGAAGGATTAC
Found at i:34734555 original size:17 final size:18
Alignment explanation
Indices: 34734533--34734603 Score: 85
Period size: 17 Copynumber: 4.1 Consensus size: 18
34734523 TTTTTATGTT
*
34734533 TTATA-TATATTATTTTA
1 TTATATTATATTATTATA
* *
34734550 TTATATAATA-TAATATA
1 TTATATTATATTATTATA
34734567 TTATATTATATTAATTATA
1 TTATATTATATT-ATTATA
34734586 TTA-ATTATATTATTATA
1 TTATATTATATTATTATA
34734603 T
1 T
34734604 ATTAAATAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
17 26 0.57
18 12 0.26
19 8 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATATTATATTATTATA
Found at i:34734577 original size:5 final size:5
Alignment explanation
Indices: 34734533--34734607 Score: 72
Period size: 5 Copynumber: 15.6 Consensus size: 5
34734523 TTTTTATGTT
*
34734533 TTATA -TATA TTAT- TT-TA TTATA TAATATA ATATA TTATA TTATA TTA-A
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
34734581 TTATA TTA-A TTATA TTAT- TATATA TTA
1 TTATA TTATA TTATA TTATA T-TATA TTA
34734608 AATAAACTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 18
0.75 0.03 0.23
Matches are distributed among these distances:
3 1 0.02
4 17 0.29
5 36 0.61
6 1 0.02
7 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TTATA
Found at i:34734581 original size:23 final size:25
Alignment explanation
Indices: 34734533--34734611 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 25
34734523 TTTTTATGTT
*
34734533 TTAT-ATATATTATTTTATTATATAA
1 TTATAATATATTATATTA-TATATAA
34734558 -TATAATATATTATATTATAT-TAA
1 TTATAATATATTATATTATATATAA
*
34734581 TTATATTA-ATTATATTAT-TATATA
1 TTATAATATATTATATTATATATA-A
34734605 TTA-AATA
1 TTATAATA
34734612 AACTAAATAG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 1 0.02
23 18 0.38
24 16 0.34
25 12 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATAATATATTATATTATATATAA
Found at i:34755596 original size:31 final size:30
Alignment explanation
Indices: 34755561--34755633 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
34755551 AACTATATAA
* *
34755561 TTAATCATTTAACTGTAAACATATTTT-TATT
1 TTAATCATTTAACTATAAA-A-ATTTTCAATT
* *
34755592 TTAATCATTAAATTATAAAAATTTTCAATT
1 TTAATCATTTAACTATAAAAATTTTCAATT
34755622 TT-ATCATTTAAC
1 TTAATCATTTAAC
34755634 ATTATCATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 13 0.37
30 6 0.17
31 16 0.46
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (30 bp):
TTAATCATTTAACTATAAAAATTTTCAATT
Found at i:34761921 original size:33 final size:33
Alignment explanation
Indices: 34761883--34761946 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
34761873 AATTAATCCT
34761883 TTCTCAATTTCCTTTC-AATTTCCTCTCAAATTG
1 TTCTCAATTTCCTTTCAAATTT-CTCTCAAATTG
34761916 TTCTCAATTTCCTTTCAAATTTCTCTCAAAT
1 TTCTCAATTTCCTTTCAAATTTCTCTCAAAT
34761947 CCATATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (33 bp):
TTCTCAATTTCCTTTCAAATTTCTCTCAAATTG
Found at i:34761922 original size:22 final size:22
Alignment explanation
Indices: 34761884--34761944 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
34761874 ATTAATCCTT
*
34761884 TCTC-AATTTCCTTTCAATTTCC
1 TCTCAAATTT-CTCTCAATTTCC
34761906 TCTCAAATTGT-TCTCAATTTCC
1 TCTCAAATT-TCTCTCAATTTCC
*
34761928 TTTCAAATTTCTCTCAA
1 TCTCAAATTTCTCTCAA
34761945 ATCCATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 1 0.03
22 28 0.82
23 4 0.12
24 1 0.03
ACGTcount: A:0.23, C:0.28, G:0.02, T:0.48
Consensus pattern (22 bp):
TCTCAAATTTCTCTCAATTTCC
Found at i:34761944 original size:11 final size:12
Alignment explanation
Indices: 34761884--34761946 Score: 57
Period size: 11 Copynumber: 5.7 Consensus size: 12
34761874 ATTAATCCTT
34761884 TCTC-AATTTCC
1 TCTCAAATTTCC
*
34761895 TTTC-AATTTCC
1 TCTCAAATTTCC
34761906 TCTCAAATTGT--
1 TCTCAAATT-TCC
34761917 TCTC-AATTTCC
1 TCTCAAATTTCC
*
34761928 TTTCAAATTT-C
1 TCTCAAATTTCC
34761939 TCTCAAAT
1 TCTCAAAT
34761947 CCATATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 1 0.02
10 4 0.09
11 28 0.65
12 9 0.21
13 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.48
Consensus pattern (12 bp):
TCTCAAATTTCC
Found at i:34763825 original size:18 final size:18
Alignment explanation
Indices: 34763802--34763844 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
34763792 TGCCAAGTGC
* *
34763802 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
34763820 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
34763838 GTTTCCT
1 GTATCCT
34763845 TTTTTTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:34764124 original size:21 final size:21
Alignment explanation
Indices: 34764085--34764142 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
34764075 CCAACATTGA
*
34764085 CAACCAG-ATCCCCTACCGGATG
1 CAACCAGAATCCCC-GCCGGA-G
34764107 -AACCAGAATCCCCGCCGGAG
1 CAACCAGAATCCCCGCCGGAG
* *
34764127 CAACCACAACCCCCGC
1 CAACCAGAATCCCCGC
34764143 TGGAAGTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 24 0.77
22 6 0.19
ACGTcount: A:0.29, C:0.47, G:0.17, T:0.07
Consensus pattern (21 bp):
CAACCAGAATCCCCGCCGGAG
Found at i:34764318 original size:49 final size:49
Alignment explanation
Indices: 34764265--34764382 Score: 227
Period size: 49 Copynumber: 2.4 Consensus size: 49
34764255 GTTTATATTA
34764265 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
*
34764314 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
34764363 ATGTAATAAAATACAAAATA
1 ATGTAATAAAATACAAAATA
34764383 ATTAATATTC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 68 1.00
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGATATTATTTG
Found at i:34765501 original size:125 final size:125
Alignment explanation
Indices: 34765338--34765750 Score: 655
Period size: 125 Copynumber: 3.3 Consensus size: 125
34765328 CCCAAACATG
* * * *
34765338 CTACTGTAGCAAAAGCACGTCCACGTGAGAGTGATTTCAAAAATTCTTCTGATAAAGCACCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
* * *
34765403 TTGAAGCGTTTTTTATACTATTTTCTCAAAAACGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
*
34765463 CTACTGTAGCAAAATCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
* *
34765528 TTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTTAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * * *
34765588 CTACTGTAGCAAAAGCGCGTCCACATGGGAGCGATTTCAGAAATTCTTCTTATAAAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
* *
34765653 TTGAAGCGTTTTTTATACTCTTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * *
34765713 CTACTGTATCAAAAACGAGTCCACGTGGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
34765751 CTTAATAAAT
Statistics
Matches: 265, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 265 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:34767290 original size:21 final size:23
Alignment explanation
Indices: 34767252--34767293 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
34767242 TGAGTGTCTA
34767252 ATTTGTGTAGTATACATTTATTT
1 ATTTGTGTAGTATACATTTATTT
*
34767275 ATTTGT-T-GTATCCATTTAT
1 ATTTGTGTAGTATACATTTAT
34767294 ACCGATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.57
Consensus pattern (23 bp):
ATTTGTGTAGTATACATTTATTT
Found at i:34767850 original size:21 final size:21
Alignment explanation
Indices: 34767813--34767875 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
34767803 ATTATAGCAT
* *
34767813 AATTAATTTTTTATTATTTTA
1 AATTAATTTATTATTATTATA
34767834 AATTAATTTCATT-TTATTATA
1 AATTAATTT-ATTATTATTATA
34767855 AA-T-A--TATTATTATTATA
1 AATTAATTTATTATTATTATA
34767872 AATT
1 AATT
34767876 GGATATCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 3 0.08
17 11 0.30
18 1 0.03
19 1 0.03
20 1 0.03
21 18 0.49
22 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
AATTAATTTATTATTATTATA
Found at i:34776157 original size:13 final size:13
Alignment explanation
Indices: 34776139--34776165 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34776129 TTAATTTGTG
34776139 TGTGTGAAAATTT
1 TGTGTGAAAATTT
34776152 TGTGTGAAAATTT
1 TGTGTGAAAATTT
34776165 T
1 T
34776166 ATAGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:34776841 original size:44 final size:43
Alignment explanation
Indices: 34776772--34776938 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 43
34776762 GATTCTGATA
**
34776772 TATGATTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGATT
1 TATGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATT
* * * * *
34776815 TAAGATTTAGGTGTAAGACCATGTCTGGGACATTGGCATCG-TA
1 TATGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATT
** *
34776858 TATGATTACGTGTAAGACCTTGTTTGGGACAG-TGGCATC-ATT
1 TATGATTACGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATT
* * *
34776900 ATTTGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 -TATGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
34776939 TGTACAAACT
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 31 0.30
43 41 0.40
44 31 0.30
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
TATGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATT
Found at i:34778379 original size:51 final size:51
Alignment explanation
Indices: 34778324--34778438 Score: 212
Period size: 51 Copynumber: 2.3 Consensus size: 51
34778314 AATCACATTA
*
34778324 ATCACTTGTCACTTGTCCCTGATCAGATAAGTATAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTACCACTT
*
34778375 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTACCACTT
34778426 ATCACTTGTCACT
1 ATCACTTGTCACT
34778439 GATCAGAAGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTATAGCTAAAGCTACCACTT
Found at i:34782954 original size:14 final size:15
Alignment explanation
Indices: 34782929--34782957 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34782919 GGTGGGTGGG
34782929 GGGAAGAGAAGGAGA
1 GGGAAGAGAAGGAGA
34782944 GGGAA-AGAAGGAGA
1 GGGAAGAGAAGGAGA
34782958 AAGAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAAGGAGA
Found at i:34782963 original size:14 final size:14
Alignment explanation
Indices: 34782935--34782980 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
34782925 TGGGGGGAAG
**
34782935 AGAAGGAGAGGGAA
1 AGAAGGAGAAAGAA
34782949 AGAAGGAGAAAGAA
1 AGAAGGAGAAAGAA
* *
34782963 AGAAAGAAAAAGAA
1 AGAAGGAGAAAGAA
34782977 AGAA
1 AGAA
34782981 AAGGAGAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (14 bp):
AGAAGGAGAAAGAA
Found at i:34783031 original size:21 final size:21
Alignment explanation
Indices: 34782996--34783045 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
34782986 GAGGAGAGGA
* * *
34782996 AAGAAGGAAAGAAAAGGAAAG
1 AAGAAGAAAAAAAAAAGAAAG
*
34783017 GAGAAGAAAAAAAAAAGAAAG
1 AAGAAGAAAAAAAAAAGAAAG
34783038 AAGAAGAA
1 AAGAAGAA
34783046 GAAGAGGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AAGAAGAAAAAAAAAAGAAAG
Found at i:34783044 original size:10 final size:10
Alignment explanation
Indices: 34782946--34783050 Score: 62
Period size: 10 Copynumber: 10.9 Consensus size: 10
34782936 GAAGGAGAGG
*
34782946 GAAAGAAGGA
1 GAAAGAAGAA
34782956 GAAAG-A-AA
1 GAAAGAAGAA
*
34782964 GAAAGAAAAA
1 GAAAGAAGAA
34782974 GAAAGAA-AA
1 GAAAGAAGAA
* * *
34782983 GGAGAGGAGAG
1 -GAAAGAAGAA
34782994 GAAAGAAG--
1 GAAAGAAGAA
34783002 GAAAGAA-AA
1 GAAAGAAGAA
*
34783011 GGAAAGGAGAA
1 -GAAAGAAGAA
* *
34783022 GAAAAAAAAAA
1 G-AAAGAAGAA
34783033 GAAAGAAGAA
1 GAAAGAAGAA
34783043 G-AAGAAGA
1 GAAAGAAGA
34783051 GGGAAGGAAG
Statistics
Matches: 74, Mismatches: 12, Indels: 19
0.70 0.11 0.18
Matches are distributed among these distances:
8 13 0.18
9 11 0.15
10 40 0.54
11 10 0.14
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:34783079 original size:8 final size:9
Alignment explanation
Indices: 34782955--34783080 Score: 50
Period size: 10 Copynumber: 13.8 Consensus size: 9
34782945 GGAAAGAAGG
34782955 AGAAAG-AA
1 AGAAAGAAA
34782963 AGAAAGAAAA
1 AGAAAG-AAA
34782973 AGAAAGAAA
1 AGAAAGAAA
* *
34782982 AGGAGAGGAGA
1 A-GA-AAGAAA
*
34782993 GGAAAG-AA
1 AGAAAGAAA
*
34783001 GGAAAGAAA
1 AGAAAGAAA
*
34783010 AGGAAAGGAGA
1 A-GAAA-GAAA
34783021 AGAAA-AAA
1 AGAAAGAAA
34783029 A-AAAG-AA
1 AGAAAGAAA
34783036 AG-AAGAAGA
1 AGAAAGAA-A
*
34783045 AGAAGAGGGAA
1 AGAA-A-GAAA
* *
34783056 GGAAGGAAAA
1 AGAAAG-AAA
34783066 AGAAAGAAA
1 AGAAAGAAA
34783075 A-AAAGA
1 AGAAAGA
34783081 TAAGTTTTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 30
0.67 0.11 0.23
Matches are distributed among these distances:
7 9 0.10
8 22 0.25
9 16 0.18
10 27 0.30
11 13 0.15
12 2 0.02
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (9 bp):
AGAAAGAAA
Found at i:34783691 original size:159 final size:153
Alignment explanation
Indices: 34783326--34783801 Score: 513
Period size: 159 Copynumber: 3.1 Consensus size: 153
34783316 AAAAATGGTA
* *
34783326 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACAAAATGTACTGAAATAATGTAAAATAATA
** * *
34783391 AAATTAGAAATTATGATATTTTTTAAAGTAATAAACGT-G-GAAAAAAATACGAACTAATGGCCG
66 AAATTAGAAATTATGATATTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCG
34783454 AAGTAAGAGTGTTTTACTAAAGT
131 AAGTAAGAGTGTTTTACTAAAGT
* * * *
34783477 T-TTTAAAAATTCAGA-AATAATTAATACAAATATTTCAAA-AAAATGTACTGAAATAATATAAA
1 TATTTAAAAA-ACACACTA-AATTAAT---AA-ATTTCAAACAAAATGTACTGAAATAATGTAAA
* * * * *
34783539 ATAATAAAATACAAAAATAAT-ATATTTTTATTGAAAGTAATAAAATTCGAGAAAATAATACGAG
60 ATAATAAAAT-TAGAAATTATGATA-TTTT-TT-AAAGTAATAAAATTCGAGAAAAAAATACGAA
* * *
34783603 CAAAGGGCAGGAA-TAAGGGTTTTTTTACACTAAA-T
121 CAAAGGGC-CGAAGTAAGAG-TGTTTT--ACTAAAGT
* * *
34783638 TAATTTAAAAAACACACTAAATTAATAAATTTCAAACACAATGCACTGAAATAATGTAAAATTAT
1 T-ATTTAAAAAACACACTAAATTAATAAATTTCAAACAAAATGTACTGAAATAATGTAAAATAAT
*
34783703 AAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAAATACGAACAAAGGGC
65 AAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATTCG-AGAAAAAAATACGAACAAAGGGC
*
34783768 CGAAGTAA-AGGTCTTTTACTAAA-T
129 CGAAGTAAGA-GTGTTTTACTAAAGT
*
34783792 TTTTTAAAAA
1 TATTTAAAAA
34783802 TTCAAAAATA
Statistics
Matches: 266, Mismatches: 35, Indels: 46
0.77 0.10 0.13
Matches are distributed among these distances:
150 9 0.03
151 11 0.04
153 8 0.03
154 43 0.16
155 19 0.07
156 25 0.09
157 39 0.15
158 20 0.08
159 57 0.21
160 8 0.03
161 2 0.01
162 16 0.06
163 9 0.03
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (153 bp):
TATTTAAAAAACACACTAAATTAATAAATTTCAAACAAAATGTACTGAAATAATGTAAAATAATA
AAATTAGAAATTATGATATTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAAGGGCCG
AAGTAAGAGTGTTTTACTAAAGT
Found at i:34783906 original size:95 final size:95
Alignment explanation
Indices: 34783728--34783908 Score: 235
Period size: 95 Copynumber: 1.9 Consensus size: 95
34783718 GATATTTTTT
*
34783728 AAAGTAATAAAATGCGAAGAAAAAAATACGAACAAAGGGCCGAAGTAAAGGTCTTTTACTAAATT
1 AAAGTAATAAAATGCGAAG-AAAAAATACGAACAAAGGGCCGAAATAAAGGTCTTTTACTAAATT
34783793 TTTTAAAAATTCAAAAATAATATATTTTTATTG
65 TTTTAAAAA-T-AAAAATAATATATTTTTATTG
* * *
34783826 AAAGTAATAAAATTCG-AG-AAAAATACGAACAAATGGCCGAAAT-AAGAGTTTTTTACTAAATT
1 AAAGTAATAAAATGCGAAGAAAAAATACGAACAAAGGGCCGAAATAAAG-GTCTTTTACTAAA-T
34783888 TTTTTAGAAAA-AAGAAATAAT
64 TTTTTA-AAAATAA-AAATAAT
34783909 TAATACACTT
Statistics
Matches: 75, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
94 5 0.07
95 42 0.56
96 7 0.09
97 6 0.08
98 15 0.20
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (95 bp):
AAAGTAATAAAATGCGAAGAAAAAATACGAACAAAGGGCCGAAATAAAGGTCTTTTACTAAATTT
TTTAAAAATAAAAATAATATATTTTTATTG
Found at i:34786515 original size:39 final size:37
Alignment explanation
Indices: 34786471--34786595 Score: 133
Period size: 39 Copynumber: 3.1 Consensus size: 37
34786461 ACTAACACAA
34786471 TAACAATAATAATAGTTTTATACTCAAAATAATACTAAC
1 TAACAATAATAATAGTTTT-TACT-AAAATAATACTAAC
*
34786510 TAACAATAATAATTAGGGTTTTACTAAAATAATAACTAACC
1 TAACAATAATAA-TA-GTTTTTACTAAAATAAT-ACTAA-C
* * *
34786551 ATAATAATAATATTAGTTTTTTACTAACAATAATACTAAG
1 -TAACAATAATAATAG-TTTTTACTAA-AATAATACTAAC
34786591 TAACA
1 TAACA
34786596 TCTAAACCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 14
0.78 0.06 0.15
Matches are distributed among these distances:
39 24 0.33
40 12 0.16
41 21 0.29
42 16 0.22
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (37 bp):
TAACAATAATAATAGTTTTTACTAAAATAATACTAAC
Found at i:34786544 original size:42 final size:43
Alignment explanation
Indices: 34786456--34786585 Score: 107
Period size: 42 Copynumber: 3.1 Consensus size: 43
34786446 CCACTAATCT
* *
34786456 TAAT-AACTAACACAATAACAATAATAATA--GTTTTA-TACTCAA
1 TAATAAACTAAC-C-ATAACAATAATATTAGGGTTTTACTA-ACAA
34786498 -AATAATACTAA-C-TAACAATAATAATTAGGGTTTTACTAA-AA
1 TAATAA-ACTAACCATAACAATAAT-ATTAGGGTTTTACTAACAA
* **
34786539 TAAT-AACTAACCATAATAATAATATTAGTTTTTTACTAACAA
1 TAATAAACTAACCATAACAATAATATTAGGGTTTTACTAACAA
34786581 TAATA
1 TAATA
34786586 CTAAGTAACA
Statistics
Matches: 72, Mismatches: 5, Indels: 21
0.73 0.05 0.21
Matches are distributed among these distances:
39 10 0.14
40 8 0.11
41 22 0.31
42 25 0.35
43 7 0.10
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.34
Consensus pattern (43 bp):
TAATAAACTAACCATAACAATAATATTAGGGTTTTACTAACAA
Found at i:34786777 original size:10 final size:10
Alignment explanation
Indices: 34786749--34786786 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
34786739 AAAATAAATT
34786749 TTTTTCTCTTC
1 TTTTTCTC-TC
*
34786760 TCTTTCTCTC
1 TTTTTCTCTC
34786770 TTTTTCTCTC
1 TTTTTCTCTC
34786780 TTTTTCT
1 TTTTTCT
34786787 GGCAGCAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:34789724 original size:27 final size:27
Alignment explanation
Indices: 34789692--34789750 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
34789682 ATAGAGAAAA
*
34789692 AAAGCCTTTGTGACGTAAT-ATGAAATG
1 AAAGCCTTTGTGAC-AAATCATGAAATG
*
34789719 AAAGCCTTTGTGGCAAATCATGAAATG
1 AAAGCCTTTGTGACAAATCATGAAATG
34789746 AAAGC
1 AAAGC
34789751 ATTTATGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (27 bp):
AAAGCCTTTGTGACAAATCATGAAATG
Found at i:34793950 original size:46 final size:46
Alignment explanation
Indices: 34793897--34793986 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
34793887 TTGTGTGGCA
34793897 TTCATCATATACCAAGGTTCCTATCA-TCCTTGATAGTGGGTCGAGG
1 TTCATCATATACCAAGGTTCCTATCATTCC-TGATAGTGGGTCGAGG
34793943 TTCATCATATACCAAGGTTCCTATCATTCCTGATAGTGGGTCGA
1 TTCATCATATACCAAGGTTCCTATCATTCCTGATAGTGGGTCGA
34793987 TGTCTTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 40 0.93
47 3 0.07
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (46 bp):
TTCATCATATACCAAGGTTCCTATCATTCCTGATAGTGGGTCGAGG
Found at i:34817421 original size:3 final size:3
Alignment explanation
Indices: 34817413--34817458 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
34817403 TATTTTAGTG
* *
34817413 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTAA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
34817459 GTTTCATCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 36 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:34822106 original size:23 final size:23
Alignment explanation
Indices: 34822051--34822107 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
34822041 AAGCAAAAAA
* * *
34822051 AAAAAAGAAAAATGATCCAAGTC
1 AAAAATGAAAAATCATCCAAATC
34822074 -AAAAT-AAAAAGTCATCCAAATC
1 AAAAATGAAAAA-TCATCCAAATC
34822096 AAAAATGAAAAA
1 AAAAATGAAAAA
34822108 AGAAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.18
22 13 0.46
23 5 0.18
24 5 0.18
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.14
Consensus pattern (23 bp):
AAAAATGAAAAATCATCCAAATC
Found at i:34824445 original size:129 final size:129
Alignment explanation
Indices: 34824205--34825440 Score: 1932
Period size: 129 Copynumber: 9.6 Consensus size: 129
34824195 GTGAATATAG
*
34824205 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAATA-CGGCGAATCTTATCTTCAAGTGT
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAA-AGCGGCAAATCTTATCTTCAAGTGT
* **
34824269 AAGGAAGCATATTTAAGCCACAAG-CTCTATATCCCTGGTCAAAAGTGGAATAGGTTGGGAAATT
65 AAGGAAGCAGATTTAAGCCACAAGTC-CTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATT
34824333 A
129 A
* * *
34824334 CAGATCTTGTCTCCTTAAGCAGTAGCGGAGTAGATCGAAAGCGACAAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* * *
34824399 AGGAAACAGATTTAAGCCACAAGTCCTATATCCCTAGTCAGCAGTGGAATAGGTTGTGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* * **
34824463 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGGAAATCGAAAGCGGTGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* *
34824528 AGGAAGCAGATTTAAACCACAAGTCCTATATCCCTGGTCAGCAGTGAAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* *
34824592 CAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCG-AAGACGGCGAATCTTATCTTCAAGTGT
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAG-CGGCAAATCTTATCTTCAAGTGT
* * *
34824656 AAGGAAGCAGATTTAAGCCACAAGCCCTATATCACTGGTCAGCAGTGGAATAAGTTGGGAAATTA
65 AAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* * *
34824721 CAGATCTTATCTCCCTAAGCAGTAGCAGAGTAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
34824786 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* *
34824850 CAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCG-AAGACGGGAAATCTTATCTTCAAGTGT
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAG-CGGCAAATCTTATCTTCAAGTGT
* *
34824914 AAGGAAGAAGATTTAAGCCACAAGTCCTATATCACTGGTCAGCAGTGGAATAGGTTGGGAAATTA
65 AAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
*
34824979 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTCTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
*
34825044 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCACTGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* *
34825108 CAGAACTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
* * **
34825173 AGGAAGCAGATTTAAGCCACAAGTCCTATCTCCCTGGTTAATAGTGGAATAGGTT-GGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
* * * * *
34825236 TAGAT-TTGGTCTCCCTAAGCAGTAGCGGAGCATATCG-GAGACAGCGAATCTTATCTTCAAGTG
1 CAGATCTT-GTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAG-CGGCAAATCTTATCTTCAAGTG
* * *
34825299 TAAGGAATCAGATTTAAGCCACAAGTCCTATGTCCCTGGTTAGCAGTGGAATAGGTT-GGAAATT
64 TAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATT
34825363 A
129 A
* *
34825364 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCACATC-AAAGACGGCGAATCTTATCTTCAAGTGT
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAG-CGGCAAATCTTATCTTCAAGTGT
34825428 AAGGAAGCAGATT
65 AAGGAAGCAGATT
34825441 GAAGTCGATA
Statistics
Matches: 1022, Mismatches: 75, Indels: 21
0.91 0.07 0.02
Matches are distributed among these distances:
127 4 0.00
128 194 0.19
129 817 0.80
130 7 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (129 bp):
CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAAGCGGCAAATCTTATCTTCAAGTGTA
AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTA
Found at i:34827257 original size:3 final size:3
Alignment explanation
Indices: 34827249--34827282 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
34827239 TATTTTAGTG
*
34827249 TTA TTA TTA TTA TTA TTA CTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
34827283 GTTTCATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:34828993 original size:6 final size:6
Alignment explanation
Indices: 34828982--34829093 Score: 87
Period size: 6 Copynumber: 19.7 Consensus size: 6
34828972 TTCAATAAAA
* * * *
34828982 AAAATC AAAATC AAAATC AAAAAGC AAAA-- AACAA-A AAAATA AAAATA
1 AAAATC AAAATC AAAATC -AAAATC AAAATC AA-AATC AAAATC AAAATC
* * *
34829029 AAAATC AAAGTC AAAAGC AAAAGC -AAA-- AAAATC AAAATC --AATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
34829072 AAAATC AAAATC AAAATC AAAA
1 AAAATC AAAATC AAAATC AAAA
34829094 AGGAGAAAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
4 9 0.10
5 7 0.08
6 71 0.77
7 5 0.05
ACGTcount: A:0.71, C:0.13, G:0.04, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:34829074 original size:31 final size:33
Alignment explanation
Indices: 34829022--34829087 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 33
34829012 ACAAAAAAAT
34829022 AAAAATAAAAATCAAAGTCAAAAGCAAAAGCAA
1 AAAAATAAAAATCAAAGTCAAAAGCAAAAGCAA
* * *
34829055 AAAAATCAAAATC-AA-TCAAAATCAAAATCAA
1 AAAAATAAAAATCAAAGTCAAAAGCAAAAGCAA
34829086 AA
1 AA
34829088 TCAAAAAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 16 0.53
32 2 0.07
33 12 0.40
ACGTcount: A:0.70, C:0.14, G:0.05, T:0.12
Consensus pattern (33 bp):
AAAAATAAAAATCAAAGTCAAAAGCAAAAGCAA
Found at i:34831319 original size:44 final size:44
Alignment explanation
Indices: 34831216--34831350 Score: 166
Period size: 44 Copynumber: 3.1 Consensus size: 44
34831206 CGGTGAAACC
34831216 ACAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATT
1 ACAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATT
* *
34831260 GCAAAACTTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATT
1 ACAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATT
** * * * *
34831304 ACAAGTCCTATCTCCCT-AGTCAGCAATGGAGTAGGTTGGAA-ATT
1 ACAAAACCTAGCTCCCTGA-CCAGCAGTGGAATAGGTT-GAAGATT
34831348 ACA
1 ACA
34831351 GATCTTGCCT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.01
44 75 0.95
45 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (44 bp):
ACAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTTGAAGATT
Found at i:34831532 original size:128 final size:128
Alignment explanation
Indices: 34831304--34833069 Score: 2615
Period size: 128 Copynumber: 13.8 Consensus size: 128
34831294 GTTGAAGATT
* * * *
34831304 ACAAGTCCTATCTCCCTAGTCAGCAATGGAGTAGGTTGGAAATTACAGATCTTGCCTCCCTAAGT
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
*
34831369 AGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
*
34831432 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAAATTACAGATCTTGTCTCCCTAAGC
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
* *
34831497 AGTAGCGGAGCAGATC-AAAAGCGGCAAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGA-CGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* *
34831560 ACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAG
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAG
** * * *
34831625 CAGTAGTAGAGCAGATTGAAGATGGCGAATCTTATCTTCAAGTGTAAGGAAGCAAATTTAAGCC
65 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* * * * *
34831689 ACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTGGATATTATAGATCTTGTCTCTCTAAGC
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
34831754 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* * * *
34831817 ACAAGTCCTATATCCCTAGTCAGTAGTGGAATAGGTTTGAAATTAGAGATCTTGTCTCCCTAAGC
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
* *
34831882 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAATTGTAAGGAAGCAAATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* * *
34831945 ACAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAAC
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
* * * * *
34832010 AGTAGCGGAGCAGATTGAAGACGGCGAATGTTATTTTCAAATGTAAGGAAGCAGATTCAAGCC
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* * * * *
34832073 ACAAGTCCTATGTCCCTAGTCAGTAGTGGAATAGGTTGAAAATTATAGATCTTGTCTCCCTAACC
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
* * *
34832138 AGTAGCGGAGCAGATC-AAAAGCGGCAAATCTTATCTTCAAGTGTAAGGAAACAGATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGA-CGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* * * * * * * * *
34832201 ACAAATCCTATATCCCTAGCCAGTAGTGGAGTAAGTTGAAAATTACAGATATTGTCTCCCTAAGT
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
* * *
34832266 AGTAGCAGAGCAGATTGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAAATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* * * * *
34832329 ACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTGGATATTATAGATCTTGTCTCTCTAAGC
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
* *
34832394 AGTAGCGGAACAGATCTAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* * * *
34832457 ACAAGTCCTATCTCCCTGGTCAGCGGTGGAGTAGGTTGGAAATTACAGATCTTGTCTTCCTAAGC
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
*
34832522 AGTAGCGGAGTAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* * *
34832585 ACAAGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAAC
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
* * * *
34832650 AATAGCGGAGCAGATTGAAGACGGCGAATCTTATCTTCAAATGTAAGGAAGCAGATTCAAGCC
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* * *
34832713 ACAAGTCCTA-CGTCCCTAGTCAGTAGTGGAATAGGTTGAAAATTACAAATCTTGTCTCCCTAAG
1 ACAAGTCCTATC-TCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * * **
34832777 CAGTAGCGGAGCAGATTGAA-AGCGTCAAATCTTATCTTCAAGTGTAAGGAAATAGATTTAAGCC
65 CAGTAGCGGAGCAGATCGAAGA-CGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* * * *
34832841 ACAAGTCCAATATCCCTAGCCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
1 ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
*
34832906 AGTAGCGGAGCAGATCGAAGATGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
66 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
* * * *
34832969 ACAAGTCCTATATCCCT-GCTCAGCAGTGGAATAGGTTGGAAATTATAGCTCTTGTCTCCCTAAA
1 ACAAGTCCTATCTCCCTAG-TCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* *
34833033 CAGTAGCGGAGCAGATCGAAGAGGGCAAATCTTATCT
65 CAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCT
34833070 CCTTGAAGTT
Statistics
Matches: 1479, Mismatches: 149, Indels: 20
0.90 0.09 0.01
Matches are distributed among these distances:
127 9 0.01
128 1348 0.91
129 119 0.08
130 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (128 bp):
ACAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGC
AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCC
Found at i:34833157 original size:44 final size:44
Alignment explanation
Indices: 34833060--34833181 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
34833050 GAAGAGGGCA
* * *
34833060 AATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAATCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCAAT
* * *
34833104 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATT-AAAGT-AAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TCAAT
* * *
34833147 AGATCTTATCTCTCTGATGTTGCAGTAGAGCAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
34833182 CGCATCAAGT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 6 0.09
44 58 0.91
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCAAT
Found at i:34838069 original size:18 final size:19
Alignment explanation
Indices: 34838039--34838079 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
34838029 TAAAATTCTT
34838039 CTAA-TCAACTAGGGT-TC
1 CTAAGTCAACTAGGGTATC
* *
34838056 CTAAGTCAAGTAGGTTATC
1 CTAAGTCAACTAGGGTATC
34838075 CTAAG
1 CTAAG
34838080 AATACTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (19 bp):
CTAAGTCAACTAGGGTATC
Found at i:34843740 original size:37 final size:37
Alignment explanation
Indices: 34843698--34843783 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
34843688 TTACTTTGTG
* *
34843698 AAAGCATGTTGTATGGTTATTTTTATTACTAATTTGA
1 AAAGCATGTTGTATGGCTATGTTTATTACTAATTTGA
*
34843735 AAAGCATGTTGTATGGCTATGTTTATTACTGATTTGA
1 AAAGCATGTTGTATGGCTATGTTTATTACTAATTTGA
34843772 AAAGCATGTTGT
1 AAAGCATGTTGT
34843784 TCTCATTCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (37 bp):
AAAGCATGTTGTATGGCTATGTTTATTACTAATTTGA
Found at i:34844125 original size:20 final size:20
Alignment explanation
Indices: 34844102--34844184 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 20
34844092 GAATTTTATA
*
34844102 TACAATACTGGCAGCTTGTC
1 TACATTACTGGCAGCTTGTC
* * * *
34844122 TACACTACTAGCAGTTTATC
1 TACATTACTGGCAGCTTGTC
* ** * *
34844142 TGCATTACTGGTGGCTCGAC
1 TACATTACTGGCAGCTTGTC
*
34844162 CACATTACTGGCAGCTTGTC
1 TACATTACTGGCAGCTTGTC
34844182 TAC
1 TAC
34844185 TTTATTGGTG
Statistics
Matches: 43, Mismatches: 20, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (20 bp):
TACATTACTGGCAGCTTGTC
Found at i:34844151 original size:40 final size:40
Alignment explanation
Indices: 34844027--34844152 Score: 108
Period size: 40 Copynumber: 3.1 Consensus size: 40
34844017 AAGGAGGAAG
* * * *
34844027 TACTGGCAGCTTGTTTGCACTTCTGGCAGTTTATCTGTAT
1 TACTGGCAGCTTGTCTACACTACTGGCAGTTTATCTGCAT
** * * * * * * * * *
34844067 TACTGGTTGCTTGACCATATTACTGGAATTTTATATACAA
1 TACTGGCAGCTTGTCTACACTACTGGCAGTTTATCTGCAT
*
34844107 TACTGGCAGCTTGTCTACACTACTAGCAGTTTATCTGCAT
1 TACTGGCAGCTTGTCTACACTACTGGCAGTTTATCTGCAT
34844147 TACTGG
1 TACTGG
34844153 TGGCTCGACC
Statistics
Matches: 59, Mismatches: 27, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (40 bp):
TACTGGCAGCTTGTCTACACTACTGGCAGTTTATCTGCAT
Found at i:34844201 original size:80 final size:80
Alignment explanation
Indices: 34844027--34844178 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
34844017 AAGGAGGAAG
* * * * * * * *
34844027 TACTGGCAGCTTGTTTGCACTTCTGGCAGTTTATCTGTATTACTGGTTGCTTGACCATATTACTG
1 TACTGGCAGCTTGTCTACACTACTAGCAGTTTATCTGCATTACTGGTGGCTCGACCACATTACTG
**
34844092 GAATTTTATATACAA
66 GAAGCTTATATACAA
34844107 TACTGGCAGCTTGTCTACACTACTAGCAGTTTATCTGCATTACTGGTGGCTCGACCACATTACTG
1 TACTGGCAGCTTGTCTACACTACTAGCAGTTTATCTGCATTACTGGTGGCTCGACCACATTACTG
*
34844172 GCAGCTT
66 GAAGCTT
34844179 GTCTACTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (80 bp):
TACTGGCAGCTTGTCTACACTACTAGCAGTTTATCTGCATTACTGGTGGCTCGACCACATTACTG
GAAGCTTATATACAA
Found at i:34848351 original size:23 final size:23
Alignment explanation
Indices: 34848302--34848352 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
34848292 AAGCCCATGG
*
34848302 CCATGGCACCATATCATGTAAGG
1 CCATGGCACCATATCATGTAAGA
* * *
34848325 CCATGGCACTATATCCTTTAAGA
1 CCATGGCACCATATCATGTAAGA
34848348 CCATG
1 CCATG
34848353 ACTGGTGGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (23 bp):
CCATGGCACCATATCATGTAAGA
Found at i:34848553 original size:27 final size:26
Alignment explanation
Indices: 34848502--34848589 Score: 99
Period size: 26 Copynumber: 3.3 Consensus size: 26
34848492 GAAATAAAAG
34848502 CCTTTGTAGCATATTTGAAATGGAAA
1 CCTTTGTAGCATATTTGAAATGGAAA
*
34848528 CCTTTGTAGCCAT-TTATGAAATGGAAG
1 CCTTTGTAG-CATATT-TGAAATGGAAA
** *
34848555 CCTTTGTAGTGTATTTAAAAT-GAAA
1 CCTTTGTAGCATATTTGAAATGGAAA
34848580 GCCTTTGTAG
1 -CCTTTGTAG
34848590 GGATCTCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.06
26 26 0.49
27 24 0.45
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (26 bp):
CCTTTGTAGCATATTTGAAATGGAAA
Found at i:34848600 original size:26 final size:26
Alignment explanation
Indices: 34848546--34848600 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
34848536 GCCATTTATG
* * *
34848546 AAATGGAAGCCTTTGTAGTGTATTTA
1 AAATGAAAGCCTTTGTAGTGGATTCA
34848572 AAATGAAAGCCTTTGTAG-GGATCTCA
1 AAATGAAAGCCTTTGTAGTGGAT-TCA
34848598 AAA
1 AAA
34848601 ATGGAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (26 bp):
AAATGAAAGCCTTTGTAGTGGATTCA
Found at i:34848641 original size:27 final size:26
Alignment explanation
Indices: 34848611--34848674 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
34848601 ATGGAATTAT
*
34848611 TTGTGGCAATCTAAAAAATAGAAGCCC
1 TTGTGGCAAACTAAAAAATAGAAG-CC
* * *
34848638 TTGTGGCAAACTAAGAGATGGAAGCC
1 TTGTGGCAAACTAAAAAATAGAAGCC
34848664 TTCGTGGCAAA
1 TT-GTGGCAAA
34848675 TTTGGTAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (26 bp):
TTGTGGCAAACTAAAAAATAGAAGCC
Found at i:34852177 original size:22 final size:22
Alignment explanation
Indices: 34852134--34852178 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
34852124 TTTTTGAATC
*
34852134 TATTAAAAATTTTAGAAGTTTT
1 TATTAAAAATCTTAGAAGTTTT
*
34852156 TATTAATAAATCTT-GAATTTTT
1 TATTAA-AAATCTTAGAAGTTTT
34852178 T
1 T
34852179 TATGATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (22 bp):
TATTAAAAATCTTAGAAGTTTT
Found at i:34852882 original size:37 final size:37
Alignment explanation
Indices: 34852826--34852897 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
34852816 TATCTTGATC
*
34852826 TGGCATGTTATCGGATGGATTAGCTCTTATGAGCATT
1 TGGCATGTTATCGGATGGATTAGCCCTTATGAGCATT
* *
34852863 TGGCGTGTTATCGGGTGGATTAGCCCTTATGAGCA
1 TGGCATGTTATCGGATGGATTAGCCCTTATGAGCA
34852898 ACTAGCGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.19, C:0.15, G:0.31, T:0.35
Consensus pattern (37 bp):
TGGCATGTTATCGGATGGATTAGCCCTTATGAGCATT
Found at i:34852906 original size:37 final size:37
Alignment explanation
Indices: 34852831--34852918 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
34852821 TGATCTGGCA
* ** *
34852831 TGTTATCGGATGGATTAGCTCTTATGAGCATTTGGCG
1 TGTTATCGGATGGATTAGCCCTTATGAGCAACTAGCG
*
34852868 TGTTATCGGGTGGATTAGCCCTTATGAGCAACTAGCG
1 TGTTATCGGATGGATTAGCCCTTATGAGCAACTAGCG
*
34852905 TGTT-TCGGTTGGAT
1 TGTTATCGGATGGAT
34852919 AACTTGTGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
36 9 0.20
37 36 0.80
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (37 bp):
TGTTATCGGATGGATTAGCCCTTATGAGCAACTAGCG
Done.