Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 301 of 345
Found at i:102138889 original size:45 final size:45
Alignment explanation
Indices: 102138610--102139591 Score: 298
Period size: 45 Copynumber: 21.6 Consensus size: 45
102138600 TATAATGGTG
* * * * * **
102138610 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCCA-CTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC-A
* * ** *
102138655 AATCCTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTA--A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * * * *
102138698 AGTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACT-AGAGTTAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-AGATAGCA
* * * * * *
102138743 AATCTCATTTCTCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--A--GCA
* ** * * *
102138794 GATCTTATCTCTTTGAAGTTGTAGTAGAGCAGA-T---CATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * * * *
102138835 AACCTTATTTCCCTGAAGTTGTAGTGGAGTAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * * ** * *
102138880 AATCTTATTTCCTTAAAGTTGCAGTGGAATAGATTGAAGCTATA-AA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--ATAGCA
* * *
102138926 TTACAGTTCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCAA-A-A-CA
1 --A-A--TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * * * **
102138972 AACCTTATCTCCCTGAAATTGCAATGGAGCAAACTGAAGATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * ** *
102139017 AATCTCATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT-AG---CA
** * * *
102139068 GCTCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TTAA-A-A-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * * * ** *
102139109 AACCTTATCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAG-TCA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-AGCA
* * * **
102139153 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * * * **
102139198 AATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--A-GCA
* * * *
102139248 TAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCA
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * * **
102139291 AAACTTATCTCCTTGAAGTTGCAGTGGAGCTGGTTGAA-ATTA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCA
* * * * * * * *
102139335 AGTCTTATCACCTTGAGGTTGCAGTGAAGCAAACTGAAGAAAGCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * * * *
102139380 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGA-TTAA-A-ACGACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-G-CA
* * * * * ** * *
102139424 AGTCCTATAC-CTCTGAAGTTGCAGTAGGTCAAATCAAATCT-ACCATGGAA
1 AATCTTAT-CTCCCTGAAGTTGCAGT-GG----AGCAGA-CTGAAGATAGCA
* * * **
102139474 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTTAAGCCA-CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * * * *
102139518 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
* * *
102139563 AATCCTATCTCCCTAAAGTTGTAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
102139592 AAGATTAAGG
Statistics
Matches: 675, Mismatches: 196, Indels: 132
0.67 0.20 0.13
Matches are distributed among these distances:
41 104 0.15
42 11 0.02
43 40 0.06
44 131 0.19
45 227 0.34
46 5 0.01
47 10 0.01
48 3 0.00
49 9 0.01
50 28 0.04
51 81 0.12
52 26 0.04
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCA
Found at i:102139181 original size:181 final size:182
Alignment explanation
Indices: 102138975--102139407 Score: 550
Period size: 182 Copynumber: 2.4 Consensus size: 182
102138965 CAAAACAAAC
*
102138975 CTTATCTCCCTGAAATTGCAATGGAGCAAACTGAAGATAGTGAATCTCATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAATGGAGCAAACTGAAGATAGTGAATCTCATTTCCCTGAAGTTGCA
* * * * * *
102139040 GTGGAATAGATTGAAGCTATAAGT-TACAGCTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTA
66 GTGGAACAAATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
* * * *
102139104 AAACAAACCTTATCTCCCTAAAGTTGTAGTGGAG-TAGGTTGAAGTCACTAGT
131 AAACAAAACTTATCTCCCTAAAGTTGCAGTGGAGCT-GGTTGAAATCACAAGT
* * *
102139156 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGATAGTGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAATGGAGCAAACTGAAGATAGTGAATCTCATTTCCCTGAAGTTGCA
* *
102139221 GTGGAACAAATTGAAGCTATAAATAAATAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
66 GTGGAACAAATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
* * * * *
102139286 TAGCAAAACTTATCTCCTTGAAGTTGCAGTGGAGCTGGTTGAAATTACAAGT
131 AAACAAAACTTATCTCCCTAAAGTTGCAGTGGAGCTGGTTGAAATCACAAGT
* * * * * * *
102139338 CTTATCACCTTGAGGTTGCAGTGAAGCAAACTGAAGAAAGCT-AATC-CTATCTCCCTGAAGTTG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAAACTGAAGATAG-TGAATCTC-ATTTCCCTGAAGTTG
*
102139401 TAGTGGA
64 CAGTGGA
102139408 GCGGATTAAA
Statistics
Matches: 216, Mismatches: 32, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
181 82 0.38
182 132 0.61
183 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (182 bp):
CTTATCTCCCTGAAGTTGCAATGGAGCAAACTGAAGATAGTGAATCTCATTTCCCTGAAGTTGCA
GTGGAACAAATTGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA
AAACAAAACTTATCTCCCTAAAGTTGCAGTGGAGCTGGTTGAAATCACAAGT
Found at i:102139521 original size:183 final size:182
Alignment explanation
Indices: 102139290--102139635 Score: 478
Period size: 183 Copynumber: 1.9 Consensus size: 182
102139280 AGATCATAGC
* * * * ** * *
102139290 AAAACTTATCTCCTTGAAGTTGCAGTGGAGCTGGTTGAAATTACAAGTCTTATCACCTTGAGGTT
1 AAAACTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAACCACAAGTCTTATCACCCTGAAGTT
* * **
102139355 GCAGTGAAGCAAACTGAAGA-AAGCTAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAA
66 GCAGCGAAGCAAACTGAAGACAA-CTAATCCTATCTCCCTAAAGTTGTAGTGGAGAAGATTAAAA
* *
102139419 CGACGAGTCCTATACCTCTGAAGTTGCAGTAGGTCAAATCAAATCTACCATGG
130 CAACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCAAATCAAATCTACCATGG
* * *
102139472 AAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTTAAGCCACAAGTCTTATCTCCCTGAAGT
1 AAAA-CTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAACCACAAGTCTTATCACCCTGAAGT
* * **
102139537 TGCAGCGGAGCAGACTGAAGACAACTAATCCTATCTCCCTAAAGTTGTAGTGGAGAAGATTAAGG
65 TGCAGCGAAGCAAACTGAAGACAACTAATCCTATCTCCCTAAAGTTGTAGTGGAGAAGATTAAAA
102139602 CAACAAGTCCTATACCTCTGAAGTTGCAGTAGGT
130 CAACAAGTCCTATACCTCTGAAGTTGCAGTAGGT
102139636 AGGATTAAAC
Statistics
Matches: 141, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
182 4 0.03
183 135 0.96
184 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (182 bp):
AAAACTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAACCACAAGTCTTATCACCCTGAAGTT
GCAGCGAAGCAAACTGAAGACAACTAATCCTATCTCCCTAAAGTTGTAGTGGAGAAGATTAAAAC
AACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCAAATCAAATCTACCATGG
Found at i:102139539 original size:44 final size:43
Alignment explanation
Indices: 102139479--102139631 Score: 150
Period size: 44 Copynumber: 3.5 Consensus size: 43
102139469 TGGAAAATCT
* *
102139479 TATCTCCCTGAAGTTGCAGTGGAACAGATTTAAGCCACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAACAGA-TTAAGCAACAAGTCC
* * *
102139523 TATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAACTAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAACAGA-TTAAG-CAAC-AAGTCC
* *
102139568 TATCTCCCTAAAGTTGTAGTGGAGA-AGATTAAGGCAACAAGTCC
1 TATCTCCCTGAAGTTGCAGTGGA-ACAGATTAA-GCAACAAGTCC
*
102139612 TATAC-CTCTGAAGTTGCAGT
1 TAT-CTCCCTGAAGTTGCAGT
102139632 AGGTAGGATT
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
43 2 0.02
44 55 0.62
45 30 0.34
46 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAACAGATTAAGCAACAAGTCC
Found at i:102139671 original size:183 final size:183
Alignment explanation
Indices: 102139332--102139681 Score: 445
Period size: 183 Copynumber: 1.9 Consensus size: 183
102139322 GGTTGAAATT
* * * *
102139332 ACAAGTCTTATCACCTTGAGGTTGCAGTGAAGCAAACTGAAGAAAGCTAATCCTATCTCCCTGAA
1 ACAAGTCTTATCACCCTGAAGTTGCAGCGAAGCAAACTGAAGAAAGCTAATCCTATCTCCCTAAA
** * *
102139397 GTTGTAGTGGAGCGGATTAAAACGACGAGTCCTATACCTCTGAAGTTGCAGTAGGTCAAATCAAA
66 GTTGTAGTGGAGAAGATTAAAACAACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCAAATCAAA
* * *** * *
102139462 TCTACCATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTTAAGCC
131 CCTACAAACCAAAATCTCACCTCCCTGAAGTTGCAGTGGAACAGATTTAAGCC
* * *
102139515 ACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAA-CTAATCCTATCTCCCTAA
1 ACAAGTCTTATCACCCTGAAGTTGCAGCGAAGCAAACTGAAGA-AAGCTAATCCTATCTCCCTAA
** * *
102139579 AGTTGTAGTGGAGAAGATTAAGGCAACAAGTCCTATACCTCTGAAGTTGCAGTAGGT-AGGATTA
65 AGTTGTAGTGGAGAAGATTAAAACAACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCA-AATCA
*
102139643 AACCTA-AAACCACAAATCTCACCTCCCTGAATTTGCAGT
129 AACCTACAAACCA-AAATCTCACCTCCCTGAAGTTGCAGT
102139682 AGAGTAGCTC
Statistics
Matches: 141, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
182 3 0.02
183 136 0.96
184 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (183 bp):
ACAAGTCTTATCACCCTGAAGTTGCAGCGAAGCAAACTGAAGAAAGCTAATCCTATCTCCCTAAA
GTTGTAGTGGAGAAGATTAAAACAACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCAAATCAAA
CCTACAAACCAAAATCTCACCTCCCTGAAGTTGCAGTGGAACAGATTTAAGCC
Found at i:102139720 original size:183 final size:183
Alignment explanation
Indices: 102139332--102139722 Score: 403
Period size: 183 Copynumber: 2.1 Consensus size: 183
102139322 GGTTGAAATT
* * * * *
102139332 ACAAGTCTTATCACCTTGAGGTTGCAGTGAAGCAAACTGAAGAAAGCTAATCCTATCTCCCTGAA
1 ACAAATCTTATCTCCTTGAAGTTGCAGCGAAGCAAACTGAAGAAAGCTAATCCTATCTCCCTAAA
** * *
102139397 GTTGTAGTGGAGCGGATTAAAACGACGAGTCCTATACCTCTGAAGTTGCAGTAGGTCAAATCAAA
66 GTTGTAGTGGAGAAGATTAAAACAACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCAAATCAAA
* * *** * * * ** *
102139462 TCTACCATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTTAAGCC
131 CCTACAAACCAAAATCTCACCTCCCTGAAGTTGCAGTAGAACAGATCAAAACC
* * * *
102139515 ACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAA-CTAATCCTATCTCCCTAA
1 ACAAATCTTATCTCCTTGAAGTTGCAGCGAAGCAAACTGAAGA-AAGCTAATCCTATCTCCCTAA
** * *
102139579 AGTTGTAGTGGAGAAGATTAAGGCAACAAGTCCTATACCTCTGAAGTTGCAGTAGGT-AGGATTA
65 AGTTGTAGTGGAGAAGATTAAAACAACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCA-AATCA
* ** * *
102139643 AACCTA-AAACCACAAATCTCACCTCCCTGAATTTGCAGTAGAGTAGCTCAAAACT
129 AACCTACAAACCA-AAATCTCACCTCCCTGAAGTTGCAGTAGAACAGATCAAAACC
* *
102139698 ACAAATC-TATTTTCTTTGAAGTTGC
1 ACAAATCTTA-TCTCCTTGAAGTTGC
102139723 GGTGGAGTGG
Statistics
Matches: 169, Mismatches: 35, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
182 5 0.03
183 162 0.96
184 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (183 bp):
ACAAATCTTATCTCCTTGAAGTTGCAGCGAAGCAAACTGAAGAAAGCTAATCCTATCTCCCTAAA
GTTGTAGTGGAGAAGATTAAAACAACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCAAATCAAA
CCTACAAACCAAAATCTCACCTCCCTGAAGTTGCAGTAGAACAGATCAAAACC
Found at i:102141035 original size:3 final size:3
Alignment explanation
Indices: 102141021--102141132 Score: 91
Period size: 3 Copynumber: 37.0 Consensus size: 3
102141011 TTTTCCTTAC
* * *
102141021 TAT TAT TTT TAT TAT CAT TAAT TAT TAT TAT AAT TACT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * ** * *
102141067 TAT TAC TAT TAT TAT TAG TAT TAT TAT TAC TGC CAT TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
102141115 TAC TAT TAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
102141133 ATATCTCTTT
Statistics
Matches: 84, Mismatches: 22, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
2 2 0.02
3 77 0.92
4 5 0.06
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:102143554 original size:50 final size:50
Alignment explanation
Indices: 102143420--102143595 Score: 248
Period size: 49 Copynumber: 3.5 Consensus size: 50
102143410 CCATGGAAAC
102143420 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
102143470 AAGTGAT-AGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
102143519 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
102143569 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
102143596 CTGATAAGTG
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
49 45 0.41
50 42 0.38
51 24 0.22
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:102143611 original size:31 final size:31
Alignment explanation
Indices: 102143573--102143836 Score: 402
Period size: 31 Copynumber: 8.5 Consensus size: 31
102143563 AAATGACAAC
*
102143573 TGAAAAGTGGTAGCTTCAGCTACCTGATAAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
102143604 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
102143635 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
102143666 CGAAAAGTGGTAGCTTCTGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
102143697 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
102143728 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
102143759 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* ** *
102143790 TGAAAAATGGTAGCACCAACTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
102143821 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
102143837 TGGCTACAAG
Statistics
Matches: 217, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 217 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:102146622 original size:28 final size:28
Alignment explanation
Indices: 102146570--102146684 Score: 153
Period size: 28 Copynumber: 4.1 Consensus size: 28
102146560 CATGACTATT
102146570 AATGTGATTGGG-CTGATGGGCCATATG
1 AATGTGATTGGGCCTGATGGGCCATATG
102146597 AATGTGATTGGGCCTGATGGGCCATATG
1 AATGTGATTGGGCCTGATGGGCCATATG
* *
102146625 AATATGATTAGGGTC-GATGGGCCATATG
1 AATGTGATT-GGGCCTGATGGGCCATATG
* * *
102146653 AATGAGATTGGGCCTAAATGGGCCAAATG
1 AATGTGATTGGGCCT-GATGGGCCATATG
102146682 AAT
1 AAT
102146685 AAGTATCGAT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
27 16 0.21
28 43 0.56
29 18 0.23
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTGATGGGCCATATG
Found at i:102147013 original size:27 final size:27
Alignment explanation
Indices: 102146983--102147351 Score: 192
Period size: 27 Copynumber: 13.6 Consensus size: 27
102146973 TAATAAAGAG
**
102146983 AAATTACTGAAATACCCCCGATTTACA
1 AAATTACTGAAATACCCCCGATTTGTA
* *
102147010 AAATTACCGAAATACCCCTGATTTGTA
1 AAATTACTGAAATACCCCCGATTTGTA
* * ** * *
102147037 AAATTACCGAAATTCCTTCTATATGTA
1 AAATTACTGAAATACCCCCGATTTGTA
* ** *
102147064 AAATTACTAAAATA-CCCTTATAGTGTA
1 AAATTACTGAAATACCCCCGAT-TTGTA
* **
102147091 AAATTA-TCGAAATACACCCGATTTACA
1 AAATTACT-GAAATACCCCCGATTTGTA
** * * **
102147118 AAATTACCAAAATACCCTCAATTTACA
1 AAATTACTGAAATACCCCCGATTTGTA
* *
102147145 AAATTATTGAAATACCCCCAATTTGTA
1 AAATTACTGAAATACCCCCGATTTGTA
** ** *
102147172 AAATTACCAAAATA-CCCTTATAGTGTA
1 AAATTACTGAAATACCCCCGAT-TTGTA
* ** *
102147199 AAATTACTAAAATA-CCCTTATAGTGTA
1 AAATTACTGAAATACCCCCGAT-TTGTA
* * *
102147226 AAATTACTAAAATACCCTCGATTTCTA
1 AAATTACTGAAATACCCCCGATTTGTA
* * *
102147253 AAATTAC-CATAATACCCTCGATTTATA
1 AAATTACTGA-AATACCCCCGATTTGTA
* ** *
102147280 AAATTACTGAAATACCTCTAATTTTTAA
1 AAATTACTGAAATACCCCCGATTTGT-A
* ** *
102147308 AAATTATTGAAATACCCTTG-TAGTGTA
1 AAATTACTGAAATACCCCCGAT-TTGTA
*
102147335 AAATTACTAAAATACCC
1 AAATTACTGAAATACCC
102147352 TTGTAGTGTA
Statistics
Matches: 269, Mismatches: 63, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
26 11 0.04
27 230 0.86
28 28 0.10
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCCCGATTTGTA
Found at i:102147172 original size:108 final size:108
Alignment explanation
Indices: 102146983--102147213 Score: 304
Period size: 108 Copynumber: 2.1 Consensus size: 108
102146973 TAATAAAGAG
* * * **
102146983 AAATTACTGAAATACCCCCGATTTACAAAATTACCGAAATACCCCTGATTTGTAAAATTACCGAA
1 AAATTACTGAAATACACCCGATTTACAAAATTACCAAAATACCCCTAATTTACAAAATTACCGAA
* ** * *
102147048 ATTCCTTCTATATGTAAAATTACTAAAATACCCTTATAGTGTA
66 ATACCCCCAATATGTAAAATTACCAAAATACCCTTATAGTGTA
**
102147091 AAATTA-TCGAAATACACCCGATTTACAAAATTACCAAAATA-CCCTCAATTTACAAAATTATTG
1 AAATTACT-GAAATACACCCGATTTACAAAATTACCAAAATACCCCT-AATTTACAAAATTACCG
*
102147154 AAATACCCCCAATTTGTAAAATTACCAAAATACCCTTATAGTGTA
64 AAATACCCCCAATATGTAAAATTACCAAAATACCCTTATAGTGTA
*
102147199 AAATTACTAAAATAC
1 AAATTACTGAAATAC
102147214 CCTTATAGTG
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
107 5 0.05
108 100 0.94
109 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.30
Consensus pattern (108 bp):
AAATTACTGAAATACACCCGATTTACAAAATTACCAAAATACCCCTAATTTACAAAATTACCGAA
ATACCCCCAATATGTAAAATTACCAAAATACCCTTATAGTGTA
Found at i:102147212 original size:54 final size:54
Alignment explanation
Indices: 102146983--102147378 Score: 252
Period size: 54 Copynumber: 7.3 Consensus size: 54
102146973 TAATAAAGAG
** * * *
102146983 AAATTACTGAAATACCCCCGATTTACAAAATTACCGAAATACCCCTGAT-TTGTA
1 AAATTACTGAAATACCCCCGATTTGTAAAATTACCAAAATA-CCCTTATAGTGTA
* * ** * * *
102147037 AAATTACCGAAATTCCTTCTATATGTAAAATTACTAAAATACCCTTATAGTGTA
1 AAATTACTGAAATACCCCCGATTTGTAAAATTACCAAAATACCCTTATAGTGTA
* ** * *
102147091 AAATTA-TCGAAATACACCCGATTTACAAAATTACCAAAATACCCTCA-A-TTTACA
1 AAATTACT-GAAATACCCCCGATTTGTAAAATTACCAAAATACCCTTATAGTGT--A
* *
102147145 AAATTATTGAAATACCCCCAATTTGTAAAATTACCAAAATACCCTTATAGTGTA
1 AAATTACTGAAATACCCCCGATTTGTAAAATTACCAAAATACCCTTATAGTGTA
* ** * * * * *
102147199 AAATTACTAAAATA-CCCTTATAGTGTAAAATTACTAAAATACCCTCGAT-TTCTA
1 AAATTACTGAAATACCCCCGAT-TTGTAAAATTACCAAAATACCCT-TATAGTGTA
* * * ** * * *
102147253 AAATTAC-CATAATACCCTCGATTTATAAAATTACTGAAATACCTCTAAT-TTTTAA
1 AAATTACTGA-AATACCCCCGATTTGTAAAATTACCAAAATACC-CTTATAGTGT-A
* ** * * *
102147308 AAATTATTGAAATACCCTTG-TAGTGTAAAATTACTAAAATACCCTTGTAGTGTA
1 AAATTACTGAAATACCCCCGAT-TTGTAAAATTACCAAAATACCCTTATAGTGTA
* *
102147362 AAATGACTGACATACCC
1 AAATTACTGAAATACCC
102147379 TTGTAGGGTA
Statistics
Matches: 265, Mismatches: 61, Indels: 32
0.74 0.17 0.09
Matches are distributed among these distances:
52 2 0.01
53 13 0.05
54 201 0.76
55 46 0.17
56 3 0.01
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (54 bp):
AAATTACTGAAATACCCCCGATTTGTAAAATTACCAAAATACCCTTATAGTGTA
Found at i:102147225 original size:135 final size:135
Alignment explanation
Indices: 102146983--102147379 Score: 514
Period size: 135 Copynumber: 2.9 Consensus size: 135
102146973 TAATAAAGAG
** * * *
102146983 AAATTACTGAAATACCCCCGATTTACAAAATTACCGAAATACCCCTGATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCTCGATTTACAAAATTACTGAAATACCCCTAATTTGTAAAATTACCGAA
* * *
102147048 ATTCCTTCTATA-TGTAAAATTACTAAAATACCCTTATAGTGTAAAATTA-TCGAAATACACC-C
66 ATACCCT-TATAGTGTAAAATTACTAAAATACCCTTATAGTGTAAAATTACT-AAAATAC-CCTC
102147110 GATTTAC-A
128 GATTT-CTA
* * * *
102147118 AAATTACCAAAATACCCTCAATTTACAAAATTATTGAAATACCCCCAATTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTTACAAAATTACTGAAATACCCCTAATTTGTAAAATTACCGAA
102147183 ATACCCTTATAGTGTAAAATTACTAAAATACCCTTATAGTGTAAAATTACTAAAATACCCTCGAT
66 ATACCCTTATAGTGTAAAATTACTAAAATACCCTTATAGTGTAAAATTACTAAAATACCCTCGAT
102147248 TTCTA
131 TTCTA
* * * * **
102147253 AAATTACCATAATACCCTCGATTTATAAAATTACTGAAATACCTCTAATTTTTAAAAATTATTGA
1 AAATTACCAAAATACCCTCGATTTACAAAATTACTGAAATACCCCTAATTTGT-AAAATTACCGA
* * * * *
102147318 AATACCCTTGTAGTGTAAAATTACTAAAATACCCTTGTAGTGTAAAATGACTGACATACCCT
65 AATACCCTTATAGTGTAAAATTACTAAAATACCCTTATAGTGTAAAATTACTAAAATACCCT
102147380 TGTAGGGTAA
Statistics
Matches: 230, Mismatches: 27, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
134 7 0.03
135 157 0.68
136 66 0.29
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (135 bp):
AAATTACCAAAATACCCTCGATTTACAAAATTACTGAAATACCCCTAATTTGTAAAATTACCGAA
ATACCCTTATAGTGTAAAATTACTAAAATACCCTTATAGTGTAAAATTACTAAAATACCCTCGAT
TTCTA
Found at i:102147229 original size:108 final size:107
Alignment explanation
Indices: 102147060--102147352 Score: 315
Period size: 108 Copynumber: 2.7 Consensus size: 107
102147050 TCCTTCTATA
** * **
102147060 TGTAAAATTACTAAAATACCCTTATAGTGTAAAATTATCGAAATACACCCGAT-TTACAAAATTA
1 TGTAAAATTACTAAAATACCCTTATAGTGTAAAATTAT-GAAATAC-CCTTATAGTGTAAAATTA
* **
102147124 CCAAAATACCCTCAATTTAC-AAAATTATTGA-AATACCCCCAATT
64 CTAAAATACCCTCAATTT-CTAAAATTA-CCATAATACCCCCAATT
* *
102147168 TGTAAAATTACCAAAATACCCTTATAGTGTAAAATTACTAAAATACCCTTATAGTGTAAAATTAC
1 TGTAAAATTACTAAAATACCCTTATAGTGTAAAATTA-TGAAATACCCTTATAGTGTAAAATTAC
* * *
102147233 TAAAATACCCTCGATTTCTAAAATTACCATAATACCCTCGATT
65 TAAAATACCCTCAATTTCTAAAATTACCATAATACCCCCAATT
* * * * * *
102147276 TATAAAATTACTGAAATACCTCTAAT-TTTTAAAAATTATTGAAATACCCTTGTAGTGTAAAATT
1 TGTAAAATTACTAAAATACC-CTTATAGTGT-AAAATTA-TGAAATACCCTTATAGTGTAAAATT
102147340 ACTAAAATACCCT
63 ACTAAAATACCCT
102147353 TGTAGTGTAA
Statistics
Matches: 157, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
107 6 0.04
108 103 0.66
109 48 0.31
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.32
Consensus pattern (107 bp):
TGTAAAATTACTAAAATACCCTTATAGTGTAAAATTATGAAATACCCTTATAGTGTAAAATTACT
AAAATACCCTCAATTTCTAAAATTACCATAATACCCCCAATT
Found at i:102147352 original size:27 final size:27
Alignment explanation
Indices: 102147168--102147392 Score: 195
Period size: 27 Copynumber: 8.3 Consensus size: 27
102147158 ACCCCCAATT
* *
102147168 TGTAAAATTACCAAAATACCCTTATAG
1 TGTAAAATTACTAAAATACCCTTGTAG
*
102147195 TGTAAAATTACTAAAATACCCTTATAG
1 TGTAAAATTACTAAAATACCCTTGTAG
* *
102147222 TGTAAAATTACTAAAATACCCTCG-ATT
1 TGTAAAATTACTAAAATACCCTTGTA-G
* * * * *
102147249 TCTAAAATTACCATAATACCCTCG-ATT
1 TGTAAAATTACTAAAATACCCTTGTA-G
* * ** *
102147276 TATAAAATTACTGAAATACCTCTAAT-T
1 TGTAAAATTACTAAAATACC-CTTGTAG
* * *
102147303 TTTAAAAATTATTGAAATACCCTTGTAG
1 TGT-AAAATTACTAAAATACCCTTGTAG
102147331 TGTAAAATTACTAAAATACCCTTGTAG
1 TGTAAAATTACTAAAATACCCTTGTAG
* * *
102147358 TGTAAAATGACTGACATACCCTTGTAG
1 TGTAAAATTACTAAAATACCCTTGTAG
*
102147385 GGTAAAAT
1 TGTAAAAT
102147393 GGTTGTTTTG
Statistics
Matches: 168, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 147 0.88
28 20 0.12
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.33
Consensus pattern (27 bp):
TGTAAAATTACTAAAATACCCTTGTAG
Found at i:102150429 original size:29 final size:28
Alignment explanation
Indices: 102150336--102150432 Score: 126
Period size: 28 Copynumber: 3.4 Consensus size: 28
102150326 GGGTAGATGA
*
102150336 GCCATATGAATATGATTGGGCCTAATGG
1 GCCATATGAATATGATTGGGCCGAATGG
*
102150364 GCCATATAAATATGATTAGGGCCG-ATGG
1 GCCATATGAATATGATT-GGGCCGAATGG
102150392 GCCATATGAATGA-GATTGGGCCGAAATGG
1 GCCATATGAAT-ATGATTGGGCCG-AATGG
*
102150421 GCCAAATGAATA
1 GCCATATGAATA
102150433 AGTGTGGATC
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.10
28 35 0.57
29 20 0.33
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (28 bp):
GCCATATGAATATGATTGGGCCGAATGG
Found at i:102150760 original size:27 final size:27
Alignment explanation
Indices: 102150730--102150964 Score: 215
Period size: 27 Copynumber: 8.7 Consensus size: 27
102150720 TAATAAAGAG
* * *
102150730 AAATTACCAAAATACCCCCAATTTGTA
1 AAATTACCGAAATACCCTCTATTTGTA
* * *
102150757 AAATTATCGAAATACCTTCGATTTGTA
1 AAATTACCGAAATACCCTCTATTTGTA
*
102150784 AAATTACTGAAATACCCTCTATTTGTA
1 AAATTACCGAAATACCCTCTATTTGTA
* * *
102150811 AAATTACCAAAATA-CCTTTATAGTGTA
1 AAATTACCGAAATACCCTCTAT-TTGTA
** * *
102150838 AAATTACTAAAATACTCT-TATAGTGTA
1 AAATTACCGAAATACCCTCTAT-TTGTA
* *
102150865 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCTATTTGTA
* *
102150892 AAATTACCGAAATACCCCCAATTTGTAA
1 AAATTACCGAAATACCCTCTATTTGT-A
* * *
102150920 AAATTATCGAAATACCCT-TGTAGTGTA
1 AAATTACCGAAATACCCTCTAT-TTGTA
*
102150947 AAATTACCTAAATACCCT
1 AAATTACCGAAATACCCT
102150965 TGTAGTGTAA
Statistics
Matches: 172, Mismatches: 31, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
26 6 0.03
27 142 0.83
28 24 0.14
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCTATTTGTA
Found at i:102150812 original size:54 final size:54
Alignment explanation
Indices: 102150730--102150964 Score: 237
Period size: 54 Copynumber: 4.3 Consensus size: 54
102150720 TAATAAAGAG
* * *
102150730 AAATTACCAAAATACCCCCAATTTGTAAAATTATCGAAATACCTTCGAT-TTGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTATCGAAATACCTT-GATAGTGTA
* * * * *
102150784 AAATTACTGAAATACCCTCTATTTGTAAAATTACCAAAATACCTTTATAGTGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTATCGAAATACCTTGATAGTGTA
* * * * *
102150838 AAATTACTAAAATACTCT-TATAGTGTAAAATTATCGAAATACCCTCGAT-TTGTA
1 AAATTACTAAAATACCCTCAAT-TTGTAAAATTATCGAAATA-CCTTGATAGTGTA
** *
102150892 AAATTACCGAAATACCCCCAATTTGTAAAAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACTAAAATACCCTCAATTTGT-AAAATTATCGAAATA-CCTTGATAGTGTA
102150947 AAATTACCT-AAATACCCT
1 AAATTA-CTAAAATACCCT
102150965 TGTAGTGTAA
Statistics
Matches: 148, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
53 5 0.03
54 97 0.66
55 45 0.30
56 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCAATTTGTAAAATTATCGAAATACCTTGATAGTGTA
Found at i:102150919 original size:81 final size:79
Alignment explanation
Indices: 102150730--102150964 Score: 269
Period size: 81 Copynumber: 2.9 Consensus size: 79
102150720 TAATAAAGAG
*
102150730 AAATTACCAAAATACCCCCAATTTGTAAAATTATCGAAATACCTTCGAT-TTGTAAAATTACTGA
1 AAATTACCAAAATACCCCCAATTTGTAAAATTATCGAAATACCTT--ATAGTGTAAAATTAC-GA
*
102150794 AATACCCTCTATTTGTA
63 AATACCCTCGATTTGTA
*** * *
102150811 AAATTACCAAAATA-CCTTTATAGTGTAAAATTA-CTAAAATACTCTTATAGTGTAAAATTATCG
1 AAATTACCAAAATACCCCCAAT-TTGTAAAATTATC-GAAATAC-CTTATAGTGTAAAATTA-CG
102150874 AAATACCCTCGATTTGTA
62 AAATACCCTCGATTTGTA
* * *
102150892 AAATTACCGAAATACCCCCAATTTGTAAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCTA
1 AAATTACCAAAATACCCCCAATTTGT-AAAATTATCGAAATA-CCTTATAGTGTAAAATTA-CGA
102150957 AATACCCT
63 AATACCCT
102150965 TGTAGTGTAA
Statistics
Matches: 129, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
80 7 0.05
81 74 0.57
82 46 0.36
83 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (79 bp):
AAATTACCAAAATACCCCCAATTTGTAAAATTATCGAAATACCTTATAGTGTAAAATTACGAAAT
ACCCTCGATTTGTA
Found at i:102150989 original size:109 final size:108
Alignment explanation
Indices: 102150753--102150979 Score: 321
Period size: 108 Copynumber: 2.1 Consensus size: 108
102150743 ACCCCCAATT
* * * * *
102150753 TGTAAAATTATCGAAATACCTTCGATTTGTAAAATTACTGAAATACCCTCTATTTGTAAAATTAC
1 TGTAAAATGATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTAC
* *
102150818 CAAAATACCTTTATAGTGTAAAATTACTAAAATACTCTTATAG
66 CAAAATACCCTTATAGTGTAAAATTACTAAAATACCCTTATAG
*
102150861 TGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTGTAAAAATTA
1 TGTAAAATGATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTGT-AAAATTA
* * * *
102150926 TCGAAATACCCTTGTAGTGTAAAATTACCT-AAATACCCTTGTAG
65 CCAAAATACCCTTATAGTGTAAAATTA-CTAAAATACCCTTATAG
102150970 TGTAAAATGA
1 TGTAAAATGA
102150980 CTGACATACC
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
108 53 0.50
109 51 0.48
110 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.33
Consensus pattern (108 bp):
TGTAAAATGATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTAC
CAAAATACCCTTATAGTGTAAAATTACTAAAATACCCTTATAG
Found at i:102150995 original size:27 final size:27
Alignment explanation
Indices: 102150929--102150980 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
102150919 AAAATTATCG
*
102150929 AAATACCCTTGTAGTGTAAAATTACCT
1 AAATACCCTTGTAGTGTAAAATGACCT
102150956 AAATACCCTTGTAGTGTAAAATGAC
1 AAATACCCTTGTAGTGTAAAATGAC
102150981 TGACATACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGTAGTGTAAAATGACCT
Found at i:102152384 original size:13 final size:14
Alignment explanation
Indices: 102152366--102152396 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
102152356 TTAGCCTAAC
102152366 ACAAATATG-TTTA
1 ACAAATATGCTTTA
102152379 ACAAATATGCTTTA
1 ACAAATATGCTTTA
102152393 ACAA
1 ACAA
102152397 TTGTTCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (14 bp):
ACAAATATGCTTTA
Found at i:102156269 original size:43 final size:43
Alignment explanation
Indices: 102156208--102156335 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
102156198 TATGATTTCT
** *
102156208 GATATGTGTTCTTGTGTAAGACCACATCTAGGACATTGGCATC
1 GATATGTGTTCTCATGTAAGACCACGTCTAGGACATTGGCATC
*
102156251 GATATGTGTTCTCATGTAAGACC-CTGTCTAGGACAGTGGCATC
1 GATATGTGTTCTCATGTAAGACCAC-GTCTAGGACATTGGCATC
* * * *
102156294 GATATGTGATT-ACATGTAAGACCATGTCTGGGACGTTGGCAT
1 GATATGTG-TTCTCATGTAAGACCACGTCTAGGACATTGGCAT
102156336 TGTATGATAT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.01
43 70 0.96
44 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
GATATGTGTTCTCATGTAAGACCACGTCTAGGACATTGGCATC
Found at i:102160652 original size:43 final size:43
Alignment explanation
Indices: 102160523--102160669 Score: 172
Period size: 43 Copynumber: 3.4 Consensus size: 43
102160513 TGTCATGCTG
* *
102160523 TGATTTCGTGTAAGACCATGTTTGGGATGTTGGCATCGACT-TA
1 TGATTTCGTGTAAGACCATGTCTGGGATGTTGGCATCGA-TATT
* ** *
102160566 TGATTTATGTGTAAGACCATGTCTGGGACATTAGCATCG-TATT
1 TGATTT-CGTGTAAGACCATGTCTGGGATGTTGGCATCGATATT
* *
102160609 TGATTTCGTGTAAGACCCTGTCTGGGATGGTGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGATGTTGGCATCGATATT
* *
102160652 TGATTACATGTAAGACCA
1 TGATTTCGTGTAAGACCA
102160670 CGCCTAGGAC
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 27 0.31
43 32 0.37
44 27 0.31
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATGTCTGGGATGTTGGCATCGATATT
Found at i:102164100 original size:19 final size:19
Alignment explanation
Indices: 102164066--102164104 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
102164056 GATTTCATAC
*
102164066 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
102164086 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
102164104 T
1 T
102164105 CTTTTGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:102183076 original size:47 final size:47
Alignment explanation
Indices: 102182887--102183350 Score: 748
Period size: 47 Copynumber: 9.7 Consensus size: 47
102182877 TTAGGATTCT
* * **
102182887 ATGTGATGGATGTGAACATGTATATATATGTGATAAGGCCTAATGGCTA
1 ATGTGATGAATGTGAA-A-GTGTATATATGTGATAAGGCCTAATGGCCG
*
102182936 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
102182985 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
102183034 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
102183081 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
102183128 ATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
102183175 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
102183222 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
102183269 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
102183316 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
102183351 TCCCGAAGGG
Statistics
Matches: 395, Mismatches: 18, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
47 287 0.73
49 108 0.27
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:102185163 original size:40 final size:40
Alignment explanation
Indices: 102184801--102185145 Score: 557
Period size: 40 Copynumber: 8.7 Consensus size: 40
102184791 GAGAATTGAG
102184801 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
102184841 AGTGATATATCCGGGCTAAGTCCCGA-GAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
102184880 AGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
102184920 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
102184960 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
102185000 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
102185040 AGTGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** * *
102185080 AGTGATATATCCGTGCTAAACCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
102185120 GGTGTTATATCCAGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
102185146 AGAGTAATCA
Statistics
Matches: 283, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 38 0.13
40 245 0.87
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:102189048 original size:47 final size:47
Alignment explanation
Indices: 102188859--102189228 Score: 596
Period size: 47 Copynumber: 7.7 Consensus size: 47
102188849 TTAGGATTCT
* *
102188859 ATGTGATGGATGTGAACATGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-A-GTGTATATATGTGATAAGGCCTAATGGCCG
102188908 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
102188957 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
102189006 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
102189053 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
102189100 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
102189147 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
102189194 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
102189229 TCCCGAAGGG
Statistics
Matches: 307, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 195 0.64
48 1 0.00
49 111 0.36
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:102197514 original size:40 final size:40
Alignment explanation
Indices: 102197459--102197539 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
102197449 GTCTAGGGAG
102197459 TAAGTGGCGTCTTACCTATGATAGAGGACTAAGATTTGAA
1 TAAGTGGCGTCTTACCTATGATAGAGGACTAAGATTTGAA
102197499 TAAGTGGCGTCTTACCTATGATAGAGGACTAAGATTTGAA
1 TAAGTGGCGTCTTACCTATGATAGAGGACTAAGATTTGAA
102197539 T
1 T
102197540 CCTGGTGGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (40 bp):
TAAGTGGCGTCTTACCTATGATAGAGGACTAAGATTTGAA
Found at i:102199382 original size:34 final size:33
Alignment explanation
Indices: 102199338--102199404 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
102199328 CTAACATTGA
*
102199338 AATGGACTAAGG-CCTACACTGATACTGATACTGT
1 AATGGACTAAGGCCCTA-ACTGAAACTGA-ACTGT
*
102199372 AATGGGCTAAGGCCCTAACTGAAACTGAACTGT
1 AATGGACTAAGGCCCTAACTGAAACTGAACTGT
102199405 TATTGATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 5 0.17
34 21 0.70
35 4 0.13
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (33 bp):
AATGGACTAAGGCCCTAACTGAAACTGAACTGT
Found at i:102207033 original size:13 final size:13
Alignment explanation
Indices: 102207011--102207043 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
102207001 AAGGGTTTGT
102207011 TTAT-TAAACTAA
1 TTATCTAAACTAA
102207023 TTATCTAAACTAA
1 TTATCTAAACTAA
*
102207036 TTAACTAA
1 TTATCTAA
102207044 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:102210095 original size:21 final size:21
Alignment explanation
Indices: 102210050--102210101 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
102210040 ACATGCAGAG
* * *
102210050 TTTTCAAAAATCAATGCGAAG
1 TTTTAAAAAATCAATGCAAAA
*
102210071 TTTTAAAAAATCAATGTAAAA
1 TTTTAAAAAATCAATGCAAAA
*
102210092 TTTTTAAAAA
1 TTTTAAAAAA
102210102 GTTCCTACCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (21 bp):
TTTTAAAAAATCAATGCAAAA
Found at i:102212850 original size:134 final size:132
Alignment explanation
Indices: 102212593--102213137 Score: 436
Period size: 133 Copynumber: 4.1 Consensus size: 132
102212583 GGGTGTTTCA
* * * * * ** * ** *
102212593 TCATTGTTTTAAGATCACAAACAATTCATTAAGAATTTACCGA-TTCATAATCGCAACTTTATCT
1 TCATTGATTTACGATCATAAACAATTCATTAAGAGTTT-CTGATTTC-CGATCACAACTCCATTT
* * * * * *
102212657 AAACAGTTCA-TGATTTGAGATCACAACTGTAATTTTTAAAGTTCACTGATTTATGATCACAGCT
64 AAACAGTTCACTGATTT-AGATCACAACTGTCACTTTTAAAGCTCGCTGATTTACGATCACAACT
102212721 TCAGT
128 TCAGT
* * * * * * *
102212726 TCATTTATTTAGGATAATAAACAATTCAGTAAGAGTTTGCTGACTTCCGATTACAACTCTATTTA
1 TCATTGATTTACGATCATAAACAATTCATTAAGAGTTT-CTGATTTCCGATCACAACTCCATTTA
* *
102212791 AACAGTTCACTGATTTATGATCACAACTGTCACTTTTAAAACTCGCTAATTTACGATCACAACTT
65 AACAGTTCACTGATTTA-GATCACAACTGTCACTTTTAAAGCTCGCTGATTTACGATCACAACTT
*
102212856 GAGT
129 CAGT
* * *
102212860 TCATTGATTTACGATCATGAACAATTCATTAAGA-ATTCATCGATTTACTG-TCACAACTCCA-T
1 TCATTGATTTACGATCATAAACAATTCATTAAGAGTTTC-T-GATTT-CCGATCACAACTCCATT
* * * * * * * * * * **
102212922 TAAGCAGTTCATTGATATAAGATCATAATTGTCATTTTTAAAGTTTGTTGGTTTACGATCACAGT
63 TAAACAGTTCACTGAT-TTAGATCACAACTGTCACTTTTAAAGCTCGCTGATTTACGATCACAAC
102212987 TTCAGT
127 TTCAGT
* * * * * *
102212993 TCATTGATTTACGATCATAAGCAATTCATTAA-ATGTTCACCGATTTACAATCGCAACTCCATTT
1 TCATTGATTTACGATCATAAACAATTCATTAAGA-GTT-TCTGATTTCCGATCACAACTCCATTT
* * * * * * *
102213057 AAACAGTTCGCTGATTTACAATCACAACAGGCACTTTTAAAGCTTGCTTATTTACTATCACAACT
64 AAACAGTTCACTGATTTA-GATCACAACTGTCACTTTTAAAGCTCGCTGATTTACGATCACAACT
102213122 TCAGT
128 TCAGT
*
102213127 TTATTGATTTA
1 TCATTGATTTA
102213138 TGATTGCATC
Statistics
Matches: 323, Mismatches: 76, Indels: 25
0.76 0.18 0.06
Matches are distributed among these distances:
132 2 0.01
133 160 0.50
134 158 0.49
135 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (132 bp):
TCATTGATTTACGATCATAAACAATTCATTAAGAGTTTCTGATTTCCGATCACAACTCCATTTAA
ACAGTTCACTGATTTAGATCACAACTGTCACTTTTAAAGCTCGCTGATTTACGATCACAACTTCA
GT
Found at i:102213094 original size:267 final size:267
Alignment explanation
Indices: 102212593--102213137 Score: 610
Period size: 267 Copynumber: 2.0 Consensus size: 267
102212583 GGGTGTTTCA
* * * **
102212593 TCATTGTTTTAAGATCACAAACAATTCATTAAGAATTTACCGATTCATAATCGCAACTTTATCTA
1 TCATTGATTTAAGATCACAAACAATTCATTAAGAATTCACCGATTCATAATCACAACTCCATCTA
* * *
102212658 AACAGTTCATGATTTGAGATCACAACTGTAATTTTTAAAGTTCACTGATTTATGATCACAGCTTC
66 AACAGTTCATGATATAAGATCACAACTGTAATTTTTAAAGTTCACTGATTTACGATCACAGCTTC
* * ** * * * * *
102212723 AGTTCATTTATTTAGGATAATAAACAATTCAGTAAGAGTTTGCTGACTTCCGATTACAACTCTAT
131 AGTTCATTGATTTACGATAATAAACAATTCAGTAAGAGTTCACCGACTTACAATCACAACTCCAT
** * *
102212788 TTAAACAGTTCACTGATTTATGATCACAACTGTCACTTTTAAAACTCGCTAATTTACGATCACAA
196 TTAAACAGTTCACTGATTTACAATCACAACAGGCACTTTTAAAACTCGCTAATTTACGATCACAA
*
102212853 CTTGAGT
261 CTTCAGT
* ** * * *
102212860 TCATTGATTTACGATCATGAACAATTCATTAAGAATTCATCGATTTACT-GTCACAACTCCAT-T
1 TCATTGATTTAAGATCACAAACAATTCATTAAGAATTCACCGATTCA-TAATCACAACTCCATCT
* * * * *** * *
102212923 AAGCAGTTCATTGATATAAGATCATAATTGTCATTTTTAAAGTTTGTTGGTTTACGATCACAGTT
65 AAACAGTTCA-TGATATAAGATCACAACTGTAATTTTTAAAGTTCACTGATTTACGATCACAGCT
* * * * *
102212988 TCAGTTCATTGATTTACGATCATAAGCAATTCATTAA-ATGTTCACCGATTTACAATCGCAACTC
129 TCAGTTCATTGATTTACGATAATAAACAATTCAGTAAGA-GTTCACCGACTTACAATCACAACTC
* * * * *
102213052 CATTTAAACAGTTCGCTGATTTACAATCACAACAGGCACTTTTAAAGCTTGCTTATTTACTATCA
193 CATTTAAACAGTTCACTGATTTACAATCACAACAGGCACTTTTAAAACTCGCTAATTTACGATCA
102213117 CAACTTCAGT
258 CAACTTCAGT
*
102213127 TTATTGATTTA
1 TCATTGATTTA
102213138 TGATTGCATC
Statistics
Matches: 227, Mismatches: 48, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
266 11 0.05
267 215 0.95
268 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (267 bp):
TCATTGATTTAAGATCACAAACAATTCATTAAGAATTCACCGATTCATAATCACAACTCCATCTA
AACAGTTCATGATATAAGATCACAACTGTAATTTTTAAAGTTCACTGATTTACGATCACAGCTTC
AGTTCATTGATTTACGATAATAAACAATTCAGTAAGAGTTCACCGACTTACAATCACAACTCCAT
TTAAACAGTTCACTGATTTACAATCACAACAGGCACTTTTAAAACTCGCTAATTTACGATCACAA
CTTCAGT
Found at i:102213169 original size:98 final size:98
Alignment explanation
Indices: 102213049--102213235 Score: 295
Period size: 98 Copynumber: 1.9 Consensus size: 98
102213039 ACAATCGCAA
* * * *
102213049 CTCCATTTAAACAGTTCGCTGATTTACAATCACAAC-AGGCACTTTTAAAGCTTGCTTATTTACT
1 CTCCATTTAAACAGTTCACTGATTTACAATCACAACTA-GCACTTTTAAAGCTCGCTGATTTACG
102213113 ATCACAACTTCAGTTTATTGATTTATGATTGCAT
65 ATCACAACTTCAGTTTATTGATTTATGATTGCAT
** *
102213147 CTCCATTTAAACAGTTCACTGATTTATGATCACAACTATCACTTTTAAAGCTCGCTGATTTACGA
1 CTCCATTTAAACAGTTCACTGATTTACAATCACAACTAGCACTTTTAAAGCTCGCTGATTTACGA
102213212 TCACAACTTCAGTTTATTGATTTA
66 TCACAACTTCAGTTTATTGATTTA
102213236 CGATCATGAA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 80 0.99
99 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.39
Consensus pattern (98 bp):
CTCCATTTAAACAGTTCACTGATTTACAATCACAACTAGCACTTTTAAAGCTCGCTGATTTACGA
TCACAACTTCAGTTTATTGATTTATGATTGCAT
Found at i:102213440 original size:134 final size:134
Alignment explanation
Indices: 102213147--102213416 Score: 398
Period size: 134 Copynumber: 2.0 Consensus size: 134
102213137 ATGATTGCAT
* * * *
102213147 CTCCATTTAAACAG-TTCACTGATTTATGATCACAACTATCACTTTTAAAGCTCGCTGATTTACG
1 CTCCATTTAAAAAGCTT-GCTGATTTACGATCACAAATATCACTTTTAAAGCTCGCTGATTTACG
* *
102213211 ATCACAACTTCAGTTTATTGATTTACGATCATGAACAATTCATTAAGAGTTTGCCAATTTACAAT
65 ATCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTCGCCAATTTACAAT
*
102213276 CGCAA
130 CACAA
* * * *
102213281 CTCCATTTAAAAAGCTTGTTGATTTACGATCACAAATGTCACTTTTAAAGCTCGTTGTTTTACGA
1 CTCCATTTAAAAAGCTTGCTGATTTACGATCACAAATATCACTTTTAAAGCTCGCTGATTTACGA
* * *
102213346 TCACAGCTTCAGTTCATTGATTTATGATCATGAACAATTCATTAAGAGTTCGCCGATTTACAATC
66 TCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTCGCCAATTTACAATC
102213411 ACAA
131 ACAA
102213415 CT
1 CT
102213417 TTATTCTCAT
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
134 119 0.98
135 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (134 bp):
CTCCATTTAAAAAGCTTGCTGATTTACGATCACAAATATCACTTTTAAAGCTCGCTGATTTACGA
TCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTCGCCAATTTACAATC
ACAA
Found at i:102214931 original size:25 final size:26
Alignment explanation
Indices: 102214886--102214938 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
102214876 AAAAAATAAA
102214886 TTAATTATTAAAATAACTAACTT-TT
1 TTAATTATTAAAATAACTAACTTATT
102214911 TTAATTATGTATAAA-AA-TAACTTATT
1 TTAATTAT-TA-AAATAACTAACTTATT
102214937 TT
1 TT
102214939 CTACAGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 14 0.56
26 8 0.32
27 3 0.12
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (26 bp):
TTAATTATTAAAATAACTAACTTATT
Found at i:102215184 original size:10 final size:10
Alignment explanation
Indices: 102215171--102215215 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
102215161 GGTTCTTATA
102215171 TTTTCTTTT-C
1 TTTT-TTTTAC
102215181 TTTTTTTTAC
1 TTTTTTTTAC
102215191 TTTTTTTTAC
1 TTTTTTTTAC
102215201 --TTTTTTAC
1 TTTTTTTTAC
102215209 TTTTTTT
1 TTTTTTT
102215216 CTTATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.25
9 4 0.12
10 20 0.62
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTAC
Found at i:102215279 original size:18 final size:17
Alignment explanation
Indices: 102215258--102215303 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
102215248 TTTTTTAAGT
*
102215258 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
102215276 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
102215294 TTTATATTAT
1 TTTATATTAT
102215304 CAATTTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.83
19 3 0.12
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:102215300 original size:36 final size:36
Alignment explanation
Indices: 102215231--102215303 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
102215221 ATTTTGTATC
*
102215231 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
102215268 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
102215304 CAATTTTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
36 14 0.42
37 11 0.33
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.68
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:102215357 original size:22 final size:21
Alignment explanation
Indices: 102215321--102215379 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
102215311 GAAAAATTTG
*
102215321 TAATATATATTTAAAATGTTTTA
1 TAATAT-TTTTTAAAAT-TTTTA
102215344 TAATATTTTTTAAAATTTTTA
1 TAATATTTTTTAAAATTTTTA
*
102215365 -ATTATTATTTTAAAA
1 TAATATT-TTTTAAAA
102215380 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.15
21 13 0.39
22 9 0.27
23 6 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TAATATTTTTTAAAATTTTTA
Found at i:102215380 original size:22 final size:21
Alignment explanation
Indices: 102215306--102215386 Score: 62
Period size: 22 Copynumber: 3.7 Consensus size: 21
102215296 TATATTATCA
102215306 ATTTTGAAAA-ATTTGTAATA-T
1 ATTTT-AAAATATTT-TAATATT
*
102215327 ATATTTAAAATGTTTTATAATATT
1 AT-TTTAAAAT-ATTT-TAATATT
102215351 -TTTTAAAAT-TTTTAATTATT
1 ATTTTAAAATATTTTAA-TATT
102215371 ATTTTAAAAATATTTT
1 ATTTT-AAAATATTTT
102215387 TTAACTTTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
19 3 0.06
20 7 0.14
21 10 0.20
22 16 0.32
23 13 0.26
24 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
ATTTTAAAATATTTTAATATT
Found at i:102215443 original size:37 final size:36
Alignment explanation
Indices: 102215402--102215472 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
102215392 TTTATATATA
*
102215402 TATTTGTGAAATTAATTATTTATAAATTTTAAAAATG
1 TATTTGTCAAATTAATTATTTA-AAATTTTAAAAATG
* *
102215439 TATTTTTCAAATTAATTTTTTAAAATTTTAAAAA
1 TATTTGTCAAATTAATTATTTAAAATTTTAAAAA
102215473 AATAATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 12 0.39
37 19 0.61
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
TATTTGTCAAATTAATTATTTAAAATTTTAAAAATG
Found at i:102215530 original size:17 final size:17
Alignment explanation
Indices: 102215510--102215556 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
102215500 TTTTAAAGTC
102215510 TATTTTTTT-TCCTATTT
1 TATTTTTTTAT-CTATTT
102215527 TATTTTGTTTATCTATTT
1 TATTTT-TTTATCTATTT
102215545 TATTTATTTTAT
1 TATTT-TTTTAT
102215557 TATACATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.22
18 19 0.70
19 2 0.07
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (17 bp):
TATTTTTTTATCTATTT
Found at i:102215753 original size:9 final size:9
Alignment explanation
Indices: 102215732--102215781 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
102215722 TTAAATTAAG
*
102215732 ATTTTATTA
1 ATTTTATTT
*
102215741 ATTTTTTTT
1 ATTTTATTT
102215750 ATTTTATTTT
1 ATTTTA-TTT
*
102215760 AGTTTATTT
1 ATTTTATTT
*
102215769 AATTTATTT
1 ATTTTATTT
102215778 ATTT
1 ATTT
102215782 CTTATTATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (9 bp):
ATTTTATTT
Found at i:102216153 original size:10 final size:9
Alignment explanation
Indices: 102216134--102216241 Score: 67
Period size: 10 Copynumber: 11.6 Consensus size: 9
102216124 AAATTCTATG
102216134 TAAAAT-TT
1 TAAAATATT
*
102216142 AAAAATATT
1 TAAAATATT
102216151 TAAAATCATT
1 TAAAAT-ATT
102216161 TAAAATATT
1 TAAAATATT
*
102216170 AAAAAATATT
1 -TAAAATATT
*
102216180 TTAAATCATT
1 TAAAAT-ATT
*
102216190 TTAAATCATT
1 TAAAAT-ATT
* *
102216200 TTAAATGTTT
1 TAAAAT-ATT
*
102216210 TATAATATT
1 TAAAATATT
*
102216219 AAAAATATAT
1 TAAAATAT-T
*
102216229 T-TAATATT
1 TAAAATATT
102216237 TAAAA
1 TAAAA
102216242 AATAATTTGA
Statistics
Matches: 79, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
8 7 0.09
9 29 0.37
10 43 0.54
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (9 bp):
TAAAATATT
Found at i:102216205 original size:29 final size:29
Alignment explanation
Indices: 102216134--102216195 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
102216124 AAATTCTATG
*
102216134 TAAAAT-TT-AAAAATATTTAAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
102216161 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
*
102216190 TTAAAT
1 TAAAAT
102216196 CATTTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 6 0.19
28 2 0.06
29 23 0.74
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
TAAAATATTAAAAAATATTTTAAATCATT
Found at i:102220043 original size:105 final size:103
Alignment explanation
Indices: 102219845--102220088 Score: 386
Period size: 105 Copynumber: 2.4 Consensus size: 103
102219835 TCAATATATA
102219845 CACCAATG-ACCGGGGAATCAGCACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCTT
1 CACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTT
*
102219908 TCACATTTCAAAGATATGGTGGATATCGCACTTAGCAC
66 TCACATTTCAAAGATATGGTGGATATCGCACATAGCAC
102219946 CACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCT
1 CACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCC-
102220011 TTTCACATTTCAAAGATATGGTGGATCA-CGCACATAGCAC
64 TTTCACATTTCAAAGATATGGTGGAT-ATCGCACATAGCAC
* * **
102220051 CACCCAATAAATCGGGGAATCAGCACACAGCAACCCCT
1 CA-CCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
102220089 TTTATATAAA
Statistics
Matches: 132, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
101 8 0.06
102 23 0.17
103 26 0.20
104 4 0.03
105 39 0.30
106 32 0.24
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.18
Consensus pattern (103 bp):
CACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTT
TCACATTTCAAAGATATGGTGGATATCGCACATAGCAC
Found at i:102223804 original size:26 final size:26
Alignment explanation
Indices: 102223774--102223825 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
102223764 ACCAATGAAC
*
102223774 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
102223800 CGGGGAATCAGCACATAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
102223826 TTCACATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:102223857 original size:102 final size:101
Alignment explanation
Indices: 102223546--102223900 Score: 532
Period size: 102 Copynumber: 3.6 Consensus size: 101
102223536 TAACCGTTAT
*
102223546 TGGTGGATCTCGCACTTAGCACCACC-TGAATCGGGAATCAGCACTTAGCAACCCCTCGGGGAAT
1 TGGTGGATATCGCACTTAGCACCACCATGAATCGGGAATCAGCACTTAGCAACCCCTCGGGGAAT
*
102223610 CAGCACATAGCAACCCCCTTT-TCATTTCAAAG--A
66 CAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
102223643 TGGTGGATATCGCACTTAGCACCACC---AATCGGGAATC-GCACTTAGCAACCCCTCGGGGGAA
1 TGGTGGATATCGCACTTAGCACCACCATGAATCGGGAATCAGCACTTAGCAACCCCTC-GGGGAA
102223704 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
102223741 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACC-ATGAATC-GGGAATCAGCACTTAGCAACCCCTCGGGGA
102223806 ATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATA
64 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
102223843 TGGTGGATCA-CGCACATAGCACCACCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCATGAATC-GGGAATCAGCACTTAGCAACCCCT
102223901 TTATATACAA
Statistics
Matches: 239, Mismatches: 8, Indels: 18
0.90 0.03 0.07
Matches are distributed among these distances:
94 17 0.07
95 39 0.16
96 10 0.04
97 25 0.10
98 27 0.11
101 28 0.12
102 48 0.20
103 28 0.12
104 17 0.07
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (101 bp):
TGGTGGATATCGCACTTAGCACCACCATGAATCGGGAATCAGCACTTAGCAACCCCTCGGGGAAT
CAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:102224258 original size:29 final size:29
Alignment explanation
Indices: 102224225--102224288 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
102224215 TAATCCACCA
102224225 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
102224254 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
102224284 CCCAA
1 CCCAA
102224289 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:102224262 original size:30 final size:30
Alignment explanation
Indices: 102224232--102224288 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
102224222 CCACCCAACT
102224232 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
102224261 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
102224289 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:102231266 original size:26 final size:26
Alignment explanation
Indices: 102231236--102231286 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
102231226 CACCAATGAA
*
102231236 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
102231262 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
102231287 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:102231368 original size:26 final size:26
Alignment explanation
Indices: 102231338--102231389 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
102231328 CACCAATGAA
*
102231338 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
102231364 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
102231390 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:102231368 original size:103 final size:103
Alignment explanation
Indices: 102231104--102231466 Score: 605
Period size: 103 Copynumber: 3.6 Consensus size: 103
102231094 TAACCGTTAT
* *
102231104 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
102231169 AATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
102231206 TGGTGG--ATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
102231268 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
102231306 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
102231371 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
102231409 TGGTGGATCA-CGCACATAGCACCACC-ATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
102231467 TTTATATACA
Statistics
Matches: 249, Mismatches: 6, Indels: 12
0.93 0.02 0.04
Matches are distributed among these distances:
98 28 0.11
99 27 0.11
100 41 0.16
102 59 0.24
103 93 0.37
104 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:102231826 original size:29 final size:29
Alignment explanation
Indices: 102231793--102231856 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
102231783 TAATCCACCA
102231793 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
102231822 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
102231852 CCCAA
1 CCCAA
102231857 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:102231830 original size:30 final size:30
Alignment explanation
Indices: 102231800--102231856 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
102231790 CCACCCAACT
102231800 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
102231829 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
102231857 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:102233868 original size:30 final size:30
Alignment explanation
Indices: 102233816--102233938 Score: 174
Period size: 30 Copynumber: 4.1 Consensus size: 30
102233806 GGTCAAATGG
* * *
102233816 ACTCGAACCGCCTATATCCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
*
102233846 ACTCAAACCACCCATGTCCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
*
102233876 ACTCGAACCACCCATGTCCAGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
* * *
102233906 ACTCGAACCACCTATGTCCGGTTTATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
102233936 ACT
1 ACT
102233939 GCTCTGGGAC
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (30 bp):
ACTCGAACCACCCATGTCCGGGTGATATGA
Found at i:102237108 original size:21 final size:24
Alignment explanation
Indices: 102237078--102237123 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
102237068 AAAAGAATTT
102237078 AAAATAATATT-TAAA-ATTGTAA
1 AAAATAATATTATAAACATTGTAA
*
102237100 AAAAT-ATATTATAAACATTTTAA
1 AAAATAATATTATAAACATTGTAA
102237123 A
1 A
102237124 TATACATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
AAAATAATATTATAAACATTGTAA
Found at i:102237218 original size:12 final size:12
Alignment explanation
Indices: 102237201--102237225 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102237191 AAAATTTCAA
102237201 AAAAGGAAAAAG
1 AAAAGGAAAAAG
102237213 AAAAGGAAAAAG
1 AAAAGGAAAAAG
102237225 A
1 A
102237226 CAAAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAGGAAAAAG
Found at i:102237287 original size:25 final size:26
Alignment explanation
Indices: 102237246--102237306 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
102237236 AAAAAAATAT
* *
102237246 TTAAAATATTATGATTTCTTATAT-TA
1 TTAAAA-ATTATAATTTCTTAAATGTA
*
102237272 TTAAAAATTATAATTTTTTAAATGTA
1 TTAAAAATTATAATTTCTTAAATGTA
*
102237298 TTTAAAATT
1 TTAAAAATT
102237307 TTATTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TTAAAAATTATAATTTCTTAAATGTA
Found at i:102237302 original size:27 final size:27
Alignment explanation
Indices: 102237243--102237310 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 27
102237233 TTTAAAAAAA
* *
102237243 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAATATTATAATTTCTTAAAT
*
102237270 TA-TTAAAA-ATTATAATTTTTTAAAT
1 TATTTAAAATATTATAATTTCTTAAAT
*
102237295 GTATTTAAAATTTTAT
1 -TATTTAAAATATTAT
102237311 TTAAAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
25 14 0.41
26 8 0.24
27 8 0.24
28 4 0.12
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (27 bp):
TATTTAAAATATTATAATTTCTTAAAT
Found at i:102237459 original size:21 final size:22
Alignment explanation
Indices: 102237435--102237477 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
102237425 AAAAAAAGAA
*
102237435 AAAAAT-ATATTTAATATTTAT
1 AAAAATAATATTTAATATATAT
102237456 -AAAATAATATTTAATATATAT
1 AAAAATAATATTTAATATATAT
102237477 A
1 A
102237478 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAAATAATATTTAATATATAT
Found at i:102237482 original size:14 final size:14
Alignment explanation
Indices: 102237448--102237493 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
102237438 AATATATTTA
102237448 ATATTTATAAAATA-
1 ATATTT-TAAAATAT
*
102237462 ATA-TTTAATATAT
1 ATATTTTAAAATAT
*
102237475 ATATTTTAAAATTT
1 ATATTTTAAAATAT
102237489 ATATT
1 ATATT
102237494 GATATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 6 0.22
13 5 0.19
14 16 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTTTAAAATAT
Found at i:102237506 original size:26 final size:27
Alignment explanation
Indices: 102237441--102237508 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 27
102237431 AGAAAAAAAT
102237441 ATATTTAATATTTATAAAATAATATTTA
1 ATATTTAA-ATTTATAAAATAATATTTA
* * * *
102237469 ATATATATATTT-TAAAAT-TTATATTG
1 ATATTTAAATTTATAAAATAATAT-TTA
102237495 ATATTTAAATTTAT
1 ATATTTAAATTTAT
102237509 TAATAGTCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
25 3 0.09
26 18 0.56
27 5 0.16
28 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
ATATTTAAATTTATAAAATAATATTTA
Found at i:102237776 original size:23 final size:22
Alignment explanation
Indices: 102237750--102237838 Score: 58
Period size: 22 Copynumber: 4.0 Consensus size: 22
102237740 AAATATATAT
102237750 ATAAAGTTAAAAAAATTTTAAAA
1 ATAAA-TTAAAAAAATTTTAAAA
*
102237773 AT-AA-TAATTAAAATTTTTAAAA
1 ATAAATTAA--AAAAATTTTAAAA
* *
102237795 A-AAATTATAAAACATTTTAAAT
1 ATAAATTA-AAAAAATTTTAAAA
* * **
102237817 ATATATTACAAATTTTTTAAAA
1 ATAAATTAAAAAAATTTTAAAA
102237839 TTAATAATAT
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
20 3 0.06
22 38 0.75
23 9 0.18
24 1 0.02
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (22 bp):
ATAAATTAAAAAAATTTTAAAA
Found at i:102237852 original size:23 final size:23
Alignment explanation
Indices: 102237765--102237853 Score: 76
Period size: 22 Copynumber: 4.0 Consensus size: 23
102237755 GTTAAAAAAA
*
102237765 TTTTAAAAATAATAAT-TAAAAT
1 TTTTAAAAATAATAATATAAATT
* * **
102237787 TTTTAAAAAAAATTATA-AAACA
1 TTTTAAAAATAATAATATAAATT
* * *
102237809 TTTTAAATAT-ATATTACAAATT
1 TTTTAAAAATAATAATATAAATT
*
102237831 TTTTAAAATTAATAATATAAATT
1 TTTTAAAAATAATAATATAAATT
102237854 AAATAAGTAA
Statistics
Matches: 50, Mismatches: 14, Indels: 5
0.72 0.20 0.07
Matches are distributed among these distances:
21 4 0.08
22 36 0.72
23 10 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTTAAAAATAATAATATAAATT
Found at i:102237881 original size:36 final size:37
Alignment explanation
Indices: 102237841--102237914 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
102237831 TTTTAAAATT
*
102237841 AATAATAT-AAA-TTAAATAAGTAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATCTAAGAA
102237877 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
102237914 A
1 A
102237915 GAGACAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
Found at i:102237886 original size:18 final size:18
Alignment explanation
Indices: 102237836--102237887 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
102237826 AAATTTTTTA
*
102237836 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
102237854 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
102237872 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
102237888 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:102237943 original size:10 final size:10
Alignment explanation
Indices: 102237930--102237973 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
102237920 AAAATATAAG
102237930 AAAAAAAGTT
1 AAAAAAAGTT
102237940 AAAAAAA--T
1 AAAAAAAGTT
*
102237948 AAAAAAAGTA
1 AAAAAAAGTT
*
102237958 AAAAAAAGAT
1 AAAAAAAGTT
102237968 AAAAAA
1 AAAAAA
102237974 TATAAAAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 8 0.28
10 21 0.72
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (10 bp):
AAAAAAAGTT
Found at i:102237953 original size:17 final size:17
Alignment explanation
Indices: 102237930--102237963 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
102237920 AAAATATAAG
102237930 AAAAAAAGTTAAAAAAAT
1 AAAAAAAG-TAAAAAAAT
102237948 AAAAAAAGTAAAAAAA
1 AAAAAAAGTAAAAAAA
102237964 AGATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAAAGTAAAAAAAT
Found at i:102237971 original size:18 final size:18
Alignment explanation
Indices: 102237927--102237973 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
102237917 GACAAAATAT
*
102237927 AAGAAAAAAAGTTAAAAA
1 AAGAAAAAAAGTAAAAAA
*
102237945 AATAAAAAAAGTAAAAAA
1 AAGAAAAAAAGTAAAAAA
102237963 AAGATAAAAAA
1 AAGA-AAAAAA
102237974 TATAAAAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.11
Consensus pattern (18 bp):
AAGAAAAAAAGTAAAAAA
Found at i:102237980 original size:18 final size:17
Alignment explanation
Indices: 102237891--102237981 Score: 62
Period size: 18 Copynumber: 5.4 Consensus size: 17
102237881 ATATAAAACT
*
102237891 TAAAAAAGAAAAAAATC
1 TAAAAAAGAAAAAAATA
* *
102237908 TAAGAAAGAGACAAAATA
1 TAAAAAAGA-AAAAAATA
* **
102237926 T-AAGAA-AAAAAGTTA
1 TAAAAAAGAAAAAAATA
*
102237941 -AAAAAATAAAAAAAGTA
1 TAAAAAAGAAAAAAA-TA
*
102237958 AAAAAAAGATAAAAAATA
1 TAAAAAAGA-AAAAAATA
102237976 TAAAAA
1 TAAAAA
102237982 CCTAACAAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
15 9 0.16
16 6 0.11
17 13 0.24
18 21 0.38
19 6 0.11
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (17 bp):
TAAAAAAGAAAAAAATA
Found at i:102238083 original size:11 final size:11
Alignment explanation
Indices: 102238069--102238093 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
102238059 TTTTTCTAGA
102238069 TTTTTTAGTAT
1 TTTTTTAGTAT
102238080 TTTTTTAGTAT
1 TTTTTTAGTAT
102238091 TTT
1 TTT
102238094 ATATTAGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTTAGTAT
Found at i:102238620 original size:17 final size:17
Alignment explanation
Indices: 102238600--102238636 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
102238590 TTATTTTAAA
102238600 AAAAATGAAAC-TATAT
1 AAAAATGAAACATATAT
*
102238616 GAAAATGAAACATATAT
1 AAAAATGAAACATATAT
102238633 AAAA
1 AAAA
102238637 CATCTGAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.22
Consensus pattern (17 bp):
AAAAATGAAACATATAT
Found at i:102244546 original size:29 final size:29
Alignment explanation
Indices: 102244504--102244563 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
102244494 AAAAAAAGAT
102244504 TGAGAAAAAAGTAACCAATTATGTCTATA
1 TGAGAAAAAAGTAACCAATTATGTCTATA
102244533 TGAGAAAAAAGTAACCAATTATGTCTATA
1 TGAGAAAAAAGTAACCAATTATGTCTATA
102244562 TG
1 TG
102244564 TGACTGTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (29 bp):
TGAGAAAAAAGTAACCAATTATGTCTATA
Found at i:102245912 original size:46 final size:46
Alignment explanation
Indices: 102245862--102246032 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
102245852 TGGTTGAGCA
102245862 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
102245908 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
102245953 CATCCGAACTCGTTGAG-T-AGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
102245999 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
102246033 GGGGCGAGTT
Statistics
Matches: 102, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 13 0.13
45 15 0.15
46 48 0.47
47 15 0.15
48 3 0.03
49 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:102246016 original size:91 final size:93
Alignment explanation
Indices: 102245859--102246027 Score: 288
Period size: 91 Copynumber: 1.8 Consensus size: 93
102245849 GGATGGTTGA
* *
102245859 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
102245924 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
102245952 GCATCCGAACTCGTTGAG-T-AGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
102246015 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
102246028 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 53 0.74
92 1 0.01
93 18 0.25
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:102250002 original size:23 final size:23
Alignment explanation
Indices: 102249976--102250019 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
102249966 TGTACTCCGA
*
102249976 TACTCTTATTACTTGCACTTCGG
1 TACTCTTATTACTAGCACTTCGG
* *
102249999 TACTCTTGTTCCTAGCACTTC
1 TACTCTTATTACTAGCACTTC
102250020 AATCTGATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.43
Consensus pattern (23 bp):
TACTCTTATTACTAGCACTTCGG
Found at i:102251119 original size:32 final size:32
Alignment explanation
Indices: 102251078--102251141 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
102251068 AGATAACTTG
102251078 TATTAGTAGATGAACCTAATTATGTTCTTAGT
1 TATTAGTAGATGAACCTAATTATGTTCTTAGT
*
102251110 TATTAGTAGATGAACCTAATTATGTTTTTAGT
1 TATTAGTAGATGAACCTAATTATGTTCTTAGT
102251142 CTAATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (32 bp):
TATTAGTAGATGAACCTAATTATGTTCTTAGT
Found at i:102264046 original size:46 final size:46
Alignment explanation
Indices: 102263996--102264168 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
102263986 TGGTTGAGCA
*
102263996 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
102264042 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
102264089 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
102264135 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
102264169 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:102264152 original size:93 final size:93
Alignment explanation
Indices: 102263993--102264163 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
102263983 GGATGGTTGA
* *
102263993 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
102264058 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
102264086 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
102264151 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
102264164 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:102271680 original size:47 final size:46
Alignment explanation
Indices: 102271563--102271735 Score: 187
Period size: 45 Copynumber: 3.8 Consensus size: 46
102271553 GGATGGTTGA
*
102271563 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAT
* *
102271610 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA-T
* * *
102271653 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AAT
*
102271703 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
102271736 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 30 0.28
46 29 0.27
47 30 0.28
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAT
Found at i:102271731 original size:46 final size:45
Alignment explanation
Indices: 102271567--102271737 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 45
102271557 GGTTGAGCAT
* *
102271567 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * *
102271612 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
*
102271657 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
102271705 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
102271738 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
42 6 0.06
44 2 0.02
45 29 0.27
46 31 0.29
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:102271998 original size:19 final size:20
Alignment explanation
Indices: 102271961--102271998 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
102271951 ATAAGGTGGT
102271961 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
102271981 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
102271999 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:102273454 original size:40 final size:41
Alignment explanation
Indices: 102273410--102273503 Score: 129
Period size: 40 Copynumber: 2.3 Consensus size: 41
102273400 CAATGGAATT
* *
102273410 TGGCACTAAGTGTGCGATTTAATATAGCTTCGGCTACA-AA
1 TGGCACTAAGTGTGCGAGTTAACATAGCTTCGGCTACATAA
** *
102273450 TGGCACTAAGTGTGCGAGTTGGCATAGCTTCGGCTATATAA
1 TGGCACTAAGTGTGCGAGTTAACATAGCTTCGGCTACATAA
102273491 -GGCACTAAGTGTG
1 TGGCACTAAGTGTG
102273504 TGATATCGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTAACATAGCTTCGGCTACATAA
Found at i:102278953 original size:55 final size:54
Alignment explanation
Indices: 102278870--102279028 Score: 196
Period size: 55 Copynumber: 2.9 Consensus size: 54
102278860 TACGTGGTAT
*
102278870 CCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-GGA
1 CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGA
* * * * ***
102278922 CCTTTGCCTTATAGTAACTCATGAATGCCATGTCTTGACATGGACTTACATGATTT
1 CC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGA
* *
102278978 CCTTACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGA
1 CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA
102279029 TATCCTTATC
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 9 0.10
54 34 0.38
55 42 0.47
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (54 bp):
CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGA
Found at i:102279024 original size:54 final size:54
Alignment explanation
Indices: 102278847--102279041 Score: 214
Period size: 54 Copynumber: 3.6 Consensus size: 54
102278837 ATTGTCATAT
* * * * * *
102278847 CTTGACATGGTGTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGC
1 CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
** * * *
102278900 CTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATGAATGCCATGT
1 CTTGGCATGGTCTTACATGATATCC-TTACCTTATAG-AACTCATCAATGCCATGC
* * * *
102278955 CTTGACATGGACTTACATGATTTCCTTACCTTATAGAACTTATCAATGCCATGC
1 CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
*
102279009 CTTGGCATGGTCTTACATGATATCCTTATCTTA
1 CTTGGCATGGTCTTACATGATATCCTTACCTTA
102279042 CCAAATGCCA
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 27 0.23
54 45 0.38
55 42 0.36
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTCATCAATGCCATGC
Found at i:102282220 original size:27 final size:27
Alignment explanation
Indices: 102282182--102282234 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
102282172 AGTTATACAT
**
102282182 CTCATAAGGGCATAGTAGTCATTTTAC
1 CTCATAAGGGCATAACAGTCATTTTAC
*
102282209 CTCATAGGGGCATAACAGTCATTTTA
1 CTCATAAGGGCATAACAGTCATTTTA
102282235 TTAATTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (27 bp):
CTCATAAGGGCATAACAGTCATTTTAC
Found at i:102284912 original size:22 final size:22
Alignment explanation
Indices: 102284884--102284931 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
102284874 TATAAGCATA
*
102284884 CATCACATAGAGGCAAAACAGT
1 CATCACATAGAGGCAAAACAAT
*
102284906 CATCACATAGGGGCAAAACAAT
1 CATCACATAGAGGCAAAACAAT
102284928 CATC
1 CATC
102284932 TTACCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.25, G:0.17, T:0.15
Consensus pattern (22 bp):
CATCACATAGAGGCAAAACAAT
Found at i:102284988 original size:52 final size:54
Alignment explanation
Indices: 102284909--102285046 Score: 181
Period size: 52 Copynumber: 2.6 Consensus size: 54
102284899 AAACAGTCAT
* * *
102284909 CACATAGGGGCAAAACAATCATCTTACCATATAAGGGCAAAATAGTCA-TTTAC
1 CACATAGGGGCAAAACAATTATTTTACCATATAAGGGCAAAACAGTCATTTTAC
* * *
102284962 GACATAAGGG-AAAACAATTATTTTACCACATAAGGGCAAAACAGTCATTTTAC
1 CACATAGGGGCAAAACAATTATTTTACCATATAAGGGCAAAACAGTCATTTTAC
* * *
102285015 CACATAGGGGCAAAATAGTTATTTTATCATAT
1 CACATAGGGGCAAAACAATTATTTTACCATAT
102285047 TGGGTTTTAG
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 33 0.46
53 21 0.30
54 17 0.24
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (54 bp):
CACATAGGGGCAAAACAATTATTTTACCATATAAGGGCAAAACAGTCATTTTAC
Found at i:102285038 original size:27 final size:27
Alignment explanation
Indices: 102284909--102285040 Score: 151
Period size: 27 Copynumber: 5.0 Consensus size: 27
102284899 AAACAGTCAT
* * *
102284909 CACATAGGGGCAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
102284936 CATATAAGGGCAAAATAGTCA-TTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
102284962 GACATAAGGG-AAAACAATTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
102284988 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
102285015 CACATAGGGGCAAAATAGTTATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
102285041 TCATATTGGG
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
25 7 0.08
26 26 0.30
27 54 0.62
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:102287540 original size:18 final size:19
Alignment explanation
Indices: 102287517--102287553 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
102287507 CGAATATACA
102287517 TTTCATATACA-CATATAT
1 TTTCATATACATCATATAT
*
102287535 TTTCATTTACATCATATAT
1 TTTCATATACATCATATAT
102287554 AATTAGTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTCATATACATCATATAT
Found at i:102293955 original size:41 final size:41
Alignment explanation
Indices: 102293898--102294154 Score: 372
Period size: 41 Copynumber: 6.2 Consensus size: 41
102293888 GCTTGGCATA
* *
102293898 AAGCCT-AGTATAATACACTGGCACAGAGCCTGCTAGGCAAT
1 AAGCCTGA-TATAATACACCGGCACAAAGCCTGCTAGGCAAT
*
102293939 AAGCCTGATATAATACACCGGCATATAAAGCCTGCTAGGCAAT
1 AAGCCTGATATAATACACCGGC--ACAAAGCCTGCTAGGCAAT
102293982 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
* *
102294023 AAGCCTGATTTAAAACACCGGCACAAAGCCTGCTAGGCAAT
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
* * *
102294064 AAGCCTAATTTAAAACACCGGCACAAAGCCTGCTAGGCAAT
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
* * *
102294105 AAGCCTGATATAATACGCCGGCGCAAAGCCTACTAGGCAAT
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
102294146 AAAGCCTGA
1 -AAGCCTGA
102294155 ATATCACTGA
Statistics
Matches: 199, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
41 151 0.76
42 9 0.05
43 39 0.20
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.18
Consensus pattern (41 bp):
AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
Found at i:102300725 original size:41 final size:41
Alignment explanation
Indices: 102300679--102300957 Score: 414
Period size: 41 Copynumber: 6.8 Consensus size: 41
102300669 AGCCTAGTAT
*
102300679 ATACACCGGCACAGAGCCTGCTAGGCAATAAGCCTGATATA
1 ATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATA
*
102300720 ATACACCGGCATATAAAGCCTGCTAGGCAATAAGCCTGATATA
1 ATACACCGGC--ACAAAGCCTGCTAGGCAATAAGCCTGATATA
** * *
102300763 ATACACTAGCACAAAGCCTGCTAGGCAATAAGCTTGATTTA
1 ATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATA
* *
102300804 ATACACCGGCACAAAGCCTACTAGGCAATAAGCCTGATTTA
1 ATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATA
* * *
102300845 ATACACTGGCACAAAGCCTGCTAGGCAATAAGTCTGATTTA
1 ATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATA
* *
102300886 AAACACTGGCACAAAGCCTGCTAGGCAATAAGCCTGATATA
1 ATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATA
*
102300927 ATACACCGACACAAAGCCTGCTAGGCAATAA
1 ATACACCGGCACAAAGCCTGCTAGGCAATAA
102300958 AGCCCGAATA
Statistics
Matches: 216, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
41 179 0.83
43 37 0.17
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (41 bp):
ATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATA
Found at i:102305804 original size:19 final size:18
Alignment explanation
Indices: 102305764--102305807 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
102305754 CTTTGGCCGA
*
102305764 ATATACTTTTCATATGCAC
1 ATATA-TTTTCATATACAC
*
102305783 ATATATTTTCATTTACATC
1 ATATATTTTCATATACA-C
102305802 ATATAT
1 ATATAT
102305808 AATTAGTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (18 bp):
ATATATTTTCATATACAC
Found at i:102306032 original size:43 final size:43
Alignment explanation
Indices: 102305977--102306131 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 43
102305967 ATATCGTACA
*
102305977 ATGCCAACGTCCCAGACGTGGTTTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
** *
102306020 ATGCC-ACTGTCCCAGACAG-GGTCTTACA-CAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
* * * * ** *
102306061 ATGTCGATGTCCCAAACAAGGTCTTACATGTAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
*
102306104 ATGCCAACATCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
102306132 CGAGAACACA
Statistics
Matches: 87, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
41 23 0.26
42 19 0.22
43 44 0.51
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:102307914 original size:3 final size:3
Alignment explanation
Indices: 102307906--102307932 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
102307896 TGTTTATGAA
102307906 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
102307933 TAGTATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:102310251 original size:60 final size:59
Alignment explanation
Indices: 102310175--102310311 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 59
102310165 AACTATGTTA
* *
102310175 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
102310235 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
102310295 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
102310312 GTTAACACTA
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 1 0.01
60 52 0.76
61 15 0.22
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:102311726 original size:19 final size:19
Alignment explanation
Indices: 102311699--102311741 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
102311689 GCAAATTCGA
*
102311699 CCAATGGTAGATATTTCTC
1 CCAACGGTAGATATTTCTC
102311718 CCAACGGTAGATATTTCTC
1 CCAACGGTAGATATTTCTC
102311737 CCAAC
1 CCAAC
102311742 TACCTTCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (19 bp):
CCAACGGTAGATATTTCTC
Found at i:102317200 original size:22 final size:21
Alignment explanation
Indices: 102317175--102317223 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
102317165 TTTGTACTTA
*
102317175 AATTATTAACATAATTAATTTT
1 AATTATT-ACATAATAAATTTT
**
102317197 AATTAATTTTATAATAAATTTT
1 AATT-ATTACATAATAAATTTT
102317219 AATTA
1 AATTA
102317224 ATTTTGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.83
23 3 0.13
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTATTACATAATAAATTTT
Found at i:102317201 original size:10 final size:10
Alignment explanation
Indices: 102317186--102317237 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
102317176 ATTATTAACA
102317186 TAATTAATTT
1 TAATTAATTT
102317196 TAATTAATTTT
1 TAATTAA-TTT
*
102317207 ATAATAAATTT
1 -TAATTAATTT
102317218 TAATTAATTT
1 TAATTAATTT
*
102317228 TGATT-ATTT
1 TAATTAATTT
102317237 T
1 T
102317238 CGACAGAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 5 0.14
10 20 0.54
11 6 0.16
12 6 0.16
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TAATTAATTT
Found at i:102317224 original size:22 final size:22
Alignment explanation
Indices: 102317185--102317228 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
102317175 AATTATTAAC
*
102317185 ATAATTAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
102317207 ATAATAAATTTTAATTAATTTT
1 ATAATAAATTTTAATTAATTTT
102317229 GATTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:102317498 original size:10 final size:10
Alignment explanation
Indices: 102317480--102317531 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
102317470 ATTATTAACA
*
102317480 TAATGAATTT
1 TAATTAATTT
102317490 TAATTAATTT
1 TAATTAATTT
*
102317500 TATAGTAAATTT
1 TA-A-TTAATTT
102317512 TAATTAATTT
1 TAATTAATTT
*
102317522 TGATT-ATTT
1 TAATTAATTT
102317531 T
1 T
102317532 CGACAGAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 5 0.14
10 21 0.58
11 2 0.06
12 8 0.22
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (10 bp):
TAATTAATTT
Found at i:102317676 original size:294 final size:294
Alignment explanation
Indices: 102317135--102317715 Score: 1011
Period size: 294 Copynumber: 2.0 Consensus size: 294
102317125 ATTATTGTCA
* *
102317135 AAAATTATATAAATATTATAAAATAATTATTTTGTACTTAAATTATTAACATAATTAATTTTAAT
1 AAAACTATATAAATATTATAAAATAATTATTTTGTACTTAAATTATTAACATAATGAATTTTAAT
*
102317200 TAATTTTATAATAAATTTTAATTAATTTTGATTATTTTCGACAGAATTGCACAAAGGGCAAGAAT
66 TAATTTTATAATAAATTTTAATTAATTTTGATTATTTTCGACAGAATTACACAAAGGGCAAGAAT
* ** * *
102317265 TGGCTCGACAGACACTGCTAGAAGCGTAAAACTGAGAAGCGATTTTTGAGGCATCGAGACAAGTG
131 TGGCTCGACAGACACTGCTAAAAGCACAAAACCGAGAAGCGATTTTTGAGGCATCGAAACAAGTG
*
102317330 AATTTTTCAGCTAAAGATGGTCCAAATTATGTGTATTAATTCATAATATAATAAATTTTAATTTT
196 AATTTTTCAGCTAAAGACGGTCCAAATTATGTGTATTAATTCATAATATAATAAATTTTAATTTT
102317395 AATCCAATTTAATTTGGGTTAAATAAAATTAATT
261 AATCCAATTTAATTTGGGTTAAATAAAATTAATT
102317429 AAAACTATATAAATATTATAAAATAATTATTTTGTACTTAAATTATTAACATAATGAATTTTAAT
1 AAAACTATATAAATATTATAAAATAATTATTTTGTACTTAAATTATTAACATAATGAATTTTAAT
* *
102317494 TAATTTTATAGTAAATTTTAATTAATTTTGATTATTTTCGACAGAATTACACAAAGGGCGAGAAT
66 TAATTTTATAATAAATTTTAATTAATTTTGATTATTTTCGACAGAATTACACAAAGGGCAAGAAT
* * *
102317559 TGGCTCGGCAGACACTGGTAAAAGCACAAAACCGTGAAGCGATTTTTGAGGCATCGAAACGAA-T
131 TGGCTCGACAGACACTGCTAAAAGCACAAAACCGAGAAGCGATTTTTGAGGCATCGAAAC-AAGT
*
102317623 GAATTTTTCAGCTAAAGACGGTCCAAATTATGTGTATTAATTCATAGTATAATAAATTTTAATTT
195 GAATTTTTCAGCTAAAGACGGTCCAAATTATGTGTATTAATTCATAATATAATAAATTTTAATTT
102317688 TAATCCAATTTAATTTGGGTTAAATAAA
260 TAATCCAATTTAATTTGGGTTAAATAAA
102317716 TTATTATTAA
Statistics
Matches: 271, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
294 269 0.99
295 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.37
Consensus pattern (294 bp):
AAAACTATATAAATATTATAAAATAATTATTTTGTACTTAAATTATTAACATAATGAATTTTAAT
TAATTTTATAATAAATTTTAATTAATTTTGATTATTTTCGACAGAATTACACAAAGGGCAAGAAT
TGGCTCGACAGACACTGCTAAAAGCACAAAACCGAGAAGCGATTTTTGAGGCATCGAAACAAGTG
AATTTTTCAGCTAAAGACGGTCCAAATTATGTGTATTAATTCATAATATAATAAATTTTAATTTT
AATCCAATTTAATTTGGGTTAAATAAAATTAATT
Found at i:102319103 original size:27 final size:27
Alignment explanation
Indices: 102319071--102319412 Score: 149
Period size: 27 Copynumber: 12.7 Consensus size: 27
102319061 TTAGTTTACC
*
102319071 AAATTACTAAAGTACCCTCGATTTATA
1 AAATTACTAAATTACCCTCGATTTATA
* ***
102319098 GAATTA-TCGTTCTACCCTCGATTTATA
1 AAATTACTAAAT-TACCCTCGATTTATA
* * ** *
102319125 GAATTACCATTTTACCCTTGATTTATA
1 AAATTACTAAATTACCCTCGATTTATA
* * ** *
102319152 GAATTACCATTTTACACTCGATTTATA
1 AAATTACTAAATTACCCTCGATTTATA
* ** * *
102319179 AAATTACCATTTTACCCTCAATTTACA
1 AAATTACTAAATTACCCTCGATTTATA
* * *
102319206 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACTAAATTACCCTC-GATTTATA
* * * *
102319233 AAATTACTAAAATACCCCCTAATTTCTA
1 AAATTACTAAATTACCCTC-GATTTATA
102319261 AAATTACTGAAA-TACCCTCGACTTGTA-A
1 AAATTACT-AAATTACCCTCGA-TT-TATA
* *
102319289 AAATTACCAAAGTACCCTC-AGTTTATA
1 AAATTACTAAATTACCCTCGA-TTTATA
*** * *
102319316 AAATTACTGCTTTACCCTTGATTTACA
1 AAATTACTAAATTACCCTCGATTTATA
* ** ** *
102319343 GAATTACTATTTTACCCTTAATTTA-C
1 AAATTACTAAATTACCCTCGATTTATA
* ** * * *
102319369 AAATTACCATTTTACCCT-TAATTATG
1 AAATTACTAAATTACCCTCGATTTATA
*
102319395 AAATTACTAAAATACCCT
1 AAATTACTAAATTACCCT
102319413 TATAGGGTAG
Statistics
Matches: 252, Mismatches: 52, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
25 4 0.02
26 34 0.13
27 169 0.67
28 41 0.16
29 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.37
Consensus pattern (27 bp):
AAATTACTAAATTACCCTCGATTTATA
Found at i:102319154 original size:54 final size:54
Alignment explanation
Indices: 102319083--102319212 Score: 179
Period size: 54 Copynumber: 2.4 Consensus size: 54
102319073 ATTACTAAAG
* * * *
102319083 TACCCTCGATTTATAGAATTATCGTTCTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTCTACACTCGATTTATAAAATTACCATTT
* *
102319137 TACCCTTGATTTATAGAATTACCATTTTACACTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTCTACACTCGATTTATAAAATTACCATTT
* * *
102319191 TACCCTCAATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
102319213 TAAAATACCC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTCTACACTCGATTTATAAAATTACCATTT
Found at i:102319262 original size:28 final size:28
Alignment explanation
Indices: 102319205--102319277 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
102319195 CTCAATTTAC
** *
102319205 AAAATTACTAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTAATTTCT
102319232 AAAATTACTAAAATACCCCCTAATTTCT
1 AAAATTACTAAAATACCCCCTAATTTCT
*
102319260 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
102319278 TCGACTTGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 15 0.37
28 26 0.63
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTAATTTCT
Found at i:102319287 original size:55 final size:55
Alignment explanation
Indices: 102319191--102319324 Score: 146
Period size: 55 Copynumber: 2.4 Consensus size: 55
102319181 ATTACCATTT
* * * ** *
102319191 TACCCTCAATTTACAAAATTACTAAAATACCCCTGGTTTGT-AAAATTACTAAAA
1 TACCCCCAATTTATAAAATTACTGAAATACCCCTGACTTGTAAAAATTACCAAAA
* *
102319245 TACCCCCTAATTTCTAAAATTACTGAAATA-CCCTCGACTTGTAAAAATTACCAAAG
1 TACCCCC-AATTTATAAAATTACTGAAATACCCCT-GACTTGTAAAAATTACCAAAA
* *
102319301 TACCCTCAGTTTATAAAATTACTG
1 TACCCCCAATTTATAAAATTACTG
102319325 CTTTACCCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
54 10 0.15
55 39 0.59
56 17 0.26
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (55 bp):
TACCCCCAATTTATAAAATTACTGAAATACCCCTGACTTGTAAAAATTACCAAAA
Found at i:102319380 original size:26 final size:27
Alignment explanation
Indices: 102319326--102319391 Score: 107
Period size: 26 Copynumber: 2.5 Consensus size: 27
102319316 AAATTACTGC
* *
102319326 TTTACCCTTGATTTACAGAATTACTAT
1 TTTACCCTTAATTTACAGAATTACCAT
102319353 TTTACCCTTAATTTACA-AATTACCAT
1 TTTACCCTTAATTTACAGAATTACCAT
102319379 TTTACCCTTAATT
1 TTTACCCTTAATT
102319392 ATGAAATTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
26 21 0.57
27 16 0.43
ACGTcount: A:0.30, C:0.21, G:0.03, T:0.45
Consensus pattern (27 bp):
TTTACCCTTAATTTACAGAATTACCAT
Found at i:102319526 original size:27 final size:27
Alignment explanation
Indices: 102319205--102319573 Score: 119
Period size: 27 Copynumber: 13.7 Consensus size: 27
102319195 CTCAATTTAC
* *
102319205 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
102319232 AAAATTACTAAAATACCCCCTAATTTCT
1 AAAATTACCAAAATA-CCCCTGATTTGT
** *
102319260 AAAATTACTGAAATA-CCCTCGACTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * *
102319287 AAAAATTACCAAAGTA-CCCTCAGTTTAT
1 -AAAATTACCAAAATACCCCTGA-TTTGT
***** * **
102319315 AAAATTACTGCTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
* * *** * *
102319342 AGAATTACTATTTTA-CCCTTAATT-T
1 AAAATTACCAAAATACCCCTGATTTGT
*** * *
102319367 ACAAATTACCATTTTACCCTTAATTATG-
1 A-AAATTACCAAAATACCCCTGATT-TGT
* * **
102319395 -AAATTACTAAAATA-CCCTTATAGGGT
1 AAAATTACCAAAATACCCCTGAT-TTGT
* *
102319421 AGAATTACCAAAACACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* ** *
102319448 AAAATTATCAAAATACCAGTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
102319475 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
**
102319502 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
* *
102319529 AAAATTA-TAGAAATACCCTTGATTTGT
1 AAAATTACCA-AAATACCCCTGATTTGT
* * *
102319556 AGATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
102319574 TTATAGGATG
Statistics
Matches: 251, Mismatches: 72, Indels: 38
0.70 0.20 0.11
Matches are distributed among these distances:
25 7 0.03
26 35 0.14
27 152 0.61
28 57 0.23
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:102319534 original size:54 final size:54
Alignment explanation
Indices: 102319443--102319573 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
102319433 ACACCCCTAG
* ** * *** *
102319443 TTTGTAAAATTATCAAAATACCAGTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTCAA
* **
102319497 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGA
1 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTCAA
* * *
102319551 TTTGTAGATTTACCAAAACACCC
1 TTTGTAAAATTACCAAAATACCC
102319574 TTATAGGATG
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTCAA
Found at i:102319564 original size:81 final size:81
Alignment explanation
Indices: 102319423--102319574 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
102319413 TATAGGGTAG
** * *
102319423 AATTACCAAAACACCCCTAGTTTGTAAAATTATCAAAATACCAGTGGTTTGTGAAATTACCGAAA
1 AATTACCAAAACACCCCTAGTTTACAAAATTATCAAAATACCAGTGATTTGTGAAATTACCAAAA
*
102319488 TACCCTCAATTTGTAA
66 CACCCTCAATTTGTAA
* ** *
102319504 AATTACCAAAATACCCCT-GATTTACAAAATTAT-AGAAATACCCTTGATTTGT-AGATTTACCA
1 AATTACCAAAACACCCCTAG-TTTACAAAATTATCA-AAATACCAGTGATTTGTGA-AATTACCA
102319566 AAACACCCT
63 AAACACCCT
102319575 TATAGGATGA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
80 3 0.05
81 56 0.95
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AATTACCAAAACACCCCTAGTTTACAAAATTATCAAAATACCAGTGATTTGTGAAATTACCAAAA
CACCCTCAATTTGTAA
Found at i:102320403 original size:20 final size:20
Alignment explanation
Indices: 102320378--102320464 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
102320368 GATATGATAT
*
102320378 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
102320398 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
*
102320418 ATATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
102320438 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
102320458 ACATGAT
1 ACATGAT
102320465 GTATTCATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:102320592 original size:52 final size:51
Alignment explanation
Indices: 102320514--102320649 Score: 206
Period size: 52 Copynumber: 2.7 Consensus size: 51
102320504 GAGGAAGTGC
102320514 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
* *
102320566 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCTCAGTTTCCCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
*
102320617 AAAAAGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
102320650 AGGCCTCCAG
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 22 0.28
52 36 0.45
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:102320611 original size:25 final size:26
Alignment explanation
Indices: 102320514--102320649 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
102320504 GAGGAAGTGC
102320514 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
102320540 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
102320566 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* ***
102320592 AAAAGGGCTT-TGCCTCAGTTTCCCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
102320617 AAAAAGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
102320640 AAAAGAGGCT
1 AAAAG-GGCT
102320650 AGGCCTCCAG
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.04
24 6 0.06
25 27 0.28
26 58 0.61
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:102320841 original size:42 final size:42
Alignment explanation
Indices: 102320782--102320869 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
102320772 TAGTCTCCCC
* ** *
102320782 AAATAGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
*
102320824 AAATAGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
102320866 AAAT
1 AAAT
102320870 GGGCCTATGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (42 bp):
AAATAGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:102320932 original size:31 final size:31
Alignment explanation
Indices: 102320897--102320975 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
102320887 CGTTTACAGT
102320897 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
102320928 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
102320959 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
102320976 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:102322693 original size:13 final size:13
Alignment explanation
Indices: 102322675--102322704 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
102322665 ATCTTGATTA
102322675 AAATCGTATTTTG
1 AAATCGTATTTTG
102322688 AAATCGTATTTTG
1 AAATCGTATTTTG
102322701 AAAT
1 AAAT
102322705 TGTACATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (13 bp):
AAATCGTATTTTG
Done.