Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 57 of 136
Found at i:18823447 original size:792 final size:788
Alignment explanation
Indices: 18821909--18824273 Score: 3017
Period size: 792 Copynumber: 3.0 Consensus size: 788
18821899 CATCCACTTG
* * * *
18821909 AAAGGAGCATTCTTATACAATAACTTCATCAAAGGAGATGCGATCAACTAGAACCCTTCTAAAAA
1 AAAGAAGCATTCTTATACAATAACTTCGTCAAATGAGATGCGATCAAC-AGAA-CCTTCTACAAA
* * * * *
18821974 TATCTGATAATACCCTTCCA-ACCCAAGGAAACTCCAAATCTGTGAGAGAGTTTTAGGCTGTTTC
64 TCTCTGATAATACCCTTCCAGA-CCAATGAAACTCAAAATCTGTGAGACACTTTTAGGCTGTTTC
* * * * *
18822038 CATTTAAGAATAGTTTGGATCCATATTGATTCCCTCAGCAGATACCATATGTCCCAAAAACATAA
128 CACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGT-CCAAAAACATGA
* * * * *
18822103 TTTCCCTCAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCTCAGACAATCTAC
192 CTTCCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCTCGGAGAATCTAT
* * *
18822168 AAAACTACCCTTACATGCTCATCATGCTCAGCCTCAGTCTTAGAGTATACAAAAATATCGTCGAT
257 AGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGAT
* * *
18822233 GAACACACTATCACGAACTAATCCAGAAATGGTTGAGACACTCTATTCATAAGATCCATGAATGC
322 GAACA-A-TATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCATGAATGC
* * ** *
18822298 GGTCGAAACATTGGCCAAACCGAAAGGCATAACTAATAACTT-GTAATAACCATAACAAGACCTA
385 GGTCGAAACATTGGTCAAATCGAAAGGCATAACTAGGAA-TTCGTAATAACCATAACGAGACCTA
* * * * ** *
18822362 AATGTAGTCTTAGGCACGTCAGATCCTTTCAGTCCCAACTAATGGTACATAGGTCTCAAATTGAT
449 AATGCAGTCTTAGGCAC-TTAGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGAT
* * * *
18822427 CTTATAAAATACTGACGTCCCTCAAAACTGATCAAACAAATTGTCGATCCCTGGCAATGAATATT
513 CTTAGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGCAATGAATATT
* * * * **
18822492 TATTATTTATCATTAACTTATTCAGTTGCCTATAGTTGATCTACTATAATACGGTGTAACAAATT
578 TATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTAC-ATAATTCGGTGTAGTAAATT
* ** * *
18822557 AAACTAGTTTTTGCGCTTAAGGAGCTT--A-ACAAGCATTGTCGTTATGTTTTAGTTAAGTTTTC
642 AAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTAAGATTTC
* * *
18822619 TTATTTTTAATTACATTCAATAAAATGTGTAAATTGAGTCTTTTATTGACCTTAGGGGTCGGATA
707 TTAGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATA
*
18822684 AGGCCTAAGGATGAGCT
772 AGGCCTAAGGGTGAGCT
* *
18822701 AAATG-AGTATTCTTATTCAATAACTTCGTCAAATGAGATGCGATCAACGAGAAACCTTCTACAA
1 AAA-GAAGCATTCTTATACAATAACTTCGTCAAATGAGATGCGATCAAC-AG-AACCTTCTACAA
* * * * * *
18822765 ATCTCTAATAATACCCTTCTAGACCAATGAAACTCGAAATCCGTGAGACACTTTTACGTTGTTTC
63 ATCTCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGCTGTTTC
*
18822830 CACTTAAGAATAGTTTGGATCCACACGGATACCCTCAGCAGATACCATATGTCCAAAAAACATGA
128 CACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGTCC-AAAAACATGA
** *
18822895 CTTCCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGATTTTCTTCTCTTGGAGAATCTAT
192 CTTCCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCTCGGAGAATCTAT
* * * * * *
18822960 AGAACCACCCTTAGATGCTCATCATGCCCAACCTTAGTCTTAGAGTTTACAAAAATATCGTTAAT
257 AGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGAT
* * *
18823025 GAACAATATGACGAACTAATCTAGAAACGGTTGAAACACTCTATTCATAAGATCCAGGAATGCAG
322 GAACAATATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCATGAATGCGG
* * * *
18823090 TC-AGAACATTGGTCAAATCAAAAGGCATAACTAGGAATTCGTAATGACCATTACGATACCTAAA
387 TCGA-AACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAATAACCATAACGAGACCTAAA
* *
18823154 TGCAGTCTTAGGCACTTAGATCCTTTCACTTTCAACTGATGGTACCCAGATCTCAAATTGATCTT
451 TGCAGTCTTAGGCACTTAGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGATCTT
* * **
18823219 AGAAAACACTGACGTCCCTTAAAATTGATCAAACAAATCACCGATCCTTGGCAATGAATATTTAT
516 AGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGCAATGAATATTTAT
* * *
18823284 TATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTGACGTAATTTGGTGTAGTAGATTAAA
581 TATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCT-ACATAATTCGGTGTAGTAAATTAAA
18823349 CTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTAAGATTTCTTA
645 CTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTAAGATTTCTTA
* *
18823414 GTTTTAATTGCATTCAATAAAATGTGCAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAGG
710 GTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAGG
18823479 CCTAAGGGTGAGCT
775 CCTAAGGGTGAGCT
** *
18823493 AAAGAAGCATTCTTACGCAATAACTTCGTCAAAT--GA---GAT--AC----CCTTCCACAAATC
1 AAAGAAGCATTCTTATACAATAACTTCGTCAAATGAGATGCGATCAACAGAACCTTCTACAAATC
* *
18823547 TCTGATGATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGCTATTTCCAC
66 TCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGCTGTTTCCAC
* * * * *
18823612 TTAAGAATAGTTTGGATCCACACTGATAACCTCGGCAGATACCATATGACCCAAAACATGACTTT
131 TTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGTCCAAAAACATGACTTC
* * * *
18823677 CCTTAACCAAAACTCACACTTGCTTAATTTAGCATAGGGCTTGTTCTCTCGGAGAATCTATAGAA
196 CCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCTCGGAGAATCTATAGAA
* * * *
18823742 CTACCCTTACATGCTCATCATGGTCAGCCTTAGTCTTAGAGTATAGAAAAATATTGTTGATGAAT
261 CTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGATGAAC
* ** * * ** *
18823807 ACTATGACGAACTGGTCCAGAAACGATTGAAACACTCTATTCATAGGATCCATGAATATGGTCGC
326 AATATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCATGAATGCGGTCGA
* * * * *
18823872 AGCATTGATCAAATTGAAAGGCATAACTAGGAACTCGTAATAACCATAACGAGACCTAACTGCAG
391 AACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAATAACCATAACGAGACCTAAATGCAG
* * * * * * *
18823937 TCTTAGGCA-TGTCAAATACTTTTACTTCCAACTTATGGCATCCAAATCTCAAATTGATCTTAGA
456 TCTTAGGCACT-T-AGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGATCTTAGA
* * ** * **
18824001 AAACACTGACATCACTCAAAACTGATTGAATAAATCGTCGATCCTT-AAAAGTGAATATTTATTA
519 AAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGCAA-TGAATATTTATTA
* * * * * * ** * *
18824065 TTTACTGATAACTTATTTAGTTTCTTGTAGTTGATTTTTTATAATTCAGTGTAGTAAAATAAACT
583 TTTACCGTTAACTTATTCAGTTGCCTGTAGTTGA-TCTACATAATTCGGTGTAGTAAATTAAACT
* * * *
18824130 AGTTTTCACATTGAAGGAGCCTGAATACAAGCATTTTTGTTATGTTTTAGTTAA-ATTTTCTTAG
647 AGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTAAGA-TTTCTTAG
* *
18824194 TTTTTATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGAATAAGGC
711 TTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAGGC
*
18824259 TTAAGGGTGAGCT
776 CTAAGGGTGAGCT
18824272 AA
1 AA
18824274 TGCACTTTGT
Statistics
Matches: 1370, Mismatches: 186, Indels: 47
0.85 0.12 0.03
Matches are distributed among these distances:
777 1 0.00
778 247 0.18
779 391 0.29
780 2 0.00
785 2 0.00
787 3 0.00
789 176 0.13
790 121 0.09
791 5 0.00
792 418 0.31
793 4 0.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (788 bp):
AAAGAAGCATTCTTATACAATAACTTCGTCAAATGAGATGCGATCAACAGAACCTTCTACAAATC
TCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACTTTTAGGCTGTTTCCAC
TTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGTCCAAAAACATGACTTC
CCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCTCGGAGAATCTATAGAA
CTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAAAATATCGTTGATGAAC
AATATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGATCCATGAATGCGGTCGA
AACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAATAACCATAACGAGACCTAAATGCAG
TCTTAGGCACTTAGATCCTTTCACTTCCAACTAATGGTACCCAGATCTCAAATTGATCTTAGAAA
ACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGCAATGAATATTTATTATTT
ACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTACATAATTCGGTGTAGTAAATTAAACTAGTT
TTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTAAGATTTCTTAGTTTTA
ATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGGCCGGATAAGGCCTAAG
GGTGAGCT
Found at i:18823850 original size:778 final size:780
Alignment explanation
Indices: 18821960--18824273 Score: 2946
Period size: 779 Copynumber: 3.0 Consensus size: 780
18821950 GATCAACTAG
* * * * * *
18821960 AACCCTTCTAAAAATATCTGATAATACCCTTCCA-ACCCAAGGAAACTCCAAATCTGTGAGAGAG
1 AACCCTTCTACAAATCTCTGATAATACCCTTCCAGA-CCAATGAAACTCAAAATCTGTGAGACAC
* * * *
18822024 TTTTAGGCTGTTTCCATTTAAGAATAGTTTGGATCCATATTGATTCCCTCAGCAGATACCATATG
65 TTTTAGGCTGTTTCCACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATG
* *
18822089 TCCCAAAAACAT-AATTTCCCTCAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTC
130 TCCC-AAAACATGACTTT-CCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTC
* * * * *
18822153 TCTCAGACAATCTACAAAACTACCCTTACATGCTCATCATGCTCAGCCTCAGTCTTAGAGTATAC
193 TCTCGGAGAATCTATAGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATAC
* * * *
18822218 AAAAATATCGTCGATGAACACACTATCACGAACTAATCCAGAAATGGTTGAGACACTCTATTCAT
258 AAAAATATCGTTGATG-A-ACACTATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCAT
* * **
18822283 AAGATCCATGAATGCGGTCGAAACATTGGCCAAACCGAAAGGCATAACTAATAACTT-GTAATAA
321 AAGATCCATGAATGCGGTCGAAACATTGGTCAAATCGAAAGGCATAACTAGGAA-TTCGTAATAA
* * * * * **
18822347 CCATAACAAGACCTAAATGTAGTCTTAGGCACGTCAGATCCTTTCAGTCCCAACTAATGGTACAT
385 CCATAACGAGACCTAAATGCAGTCTTAGGCAC-TTAGATCCTTTCACTTCCAACTAATGGTACCC
* * * *
18822412 AGGTCTCAAATTGATCTTATAAAATACTGACGTCCCTCAAAACTGATCAAACAAATTGTCGATCC
449 AGATCTCAAATTGATCTTAGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCC
* * * *
18822477 CTGGCAATGAATATTTATTATTTATCATTAACTTATTCAGTTGCCTATAGTTGATCTACTATAAT
514 TTGGCAATGAATATTTATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTAC-ATAAT
* ** * ** *
18822542 ACGGTGTAACAAATTAAACTAGTTTTTGCGCTTAAGGAGCTT--A-ACAAGCATTGTCGTTATGT
578 TCGGTGTAGTAAATTAAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGT
* * *
18822604 TTTAGTTAAGTTTTCTTATTTTTAATTACATTCAATAAAATGTGTAAATTGAGTCTTTTATTGAC
643 TTTAGTTAAGATTTCTTAGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGAC
* * * **
18822669 CTTAGGGGTCGGATAAGGCCTAAGGATGAGCTAAATGAGTATTCTTATTCAATAACTTCGTCAAA
708 CTTAGGGGCCGGATAAGGCCTAAGGGTGAGCTAAATGAGCATTCTTACGCAATAACTTCGTCAAA
18822734 TGAGATGCGAT
773 T-AGA--CGAT
* * * *
18822745 CAACGAGAAACCTTCTACAAATCTCTAATAATACCCTTCTAGACCAATGAAACTCGAAATCCGTG
1 -AAC------CCTTCTACAAATCTCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTG
* * *
18822810 AGACACTTTTACGTTGTTTCCACTTAAGAATAGTTTGGATCCACACGGATACCCTCAGCAGATAC
59 AGACACTTTTAGGCTGTTTCCACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATAC
* * **
18822875 CATATGTCCAAAAAACATGACTTCCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGATTT
124 CATATGTCC-CAAAACATGACTTTCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCT
* * * * *
18822940 TCTTCTCTTGGAGAATCTATAGAACCACCCTTAGATGCTCATCATGCCCAACCTTAGTCTTAGAG
188 TCTTCTCTCGGAGAATCTATAGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAG
* * * *
18823005 TTTACAAAAATATCGTTAATGAACAATATGACGAACTAATCTAGAAACGGTTGAAACACTCTATT
253 TATACAAAAATATCGTTGATGAACACTATGACGAACTAATCCAGAAACGGTTGAAACACTCTATT
* * *
18823070 CATAAGATCCAGGAATGCAGTC-AGAACATTGGTCAAATCAAAAGGCATAACTAGGAATTCGTAA
318 CATAAGATCCATGAATGCGGTCGA-AACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAA
* * * * *
18823134 TGACCATTACGATACCTAAATGCAGTCTTAGGCACTTAGATCCTTTCACTTTCAACTGATGGTAC
382 TAACCATAACGAGACCTAAATGCAGTCTTAGGCACTTAGATCCTTTCACTTCCAACTAATGGTAC
* * **
18823199 CCAGATCTCAAATTGATCTTAGAAAACACTGACGTCCCTTAAAATTGATCAAACAAATCACCGAT
447 CCAGATCTCAAATTGATCTTAGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGAT
*
18823264 CCTTGGCAATGAATATTTATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTGACGTA
512 CCTTGGCAATGAATATTTATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCT-ACATA
* *
18823329 ATTTGGTGTAGTAGATTAAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTAT
576 ATTCGGTGTAGTAAATTAAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTAT
* *
18823394 GTTTTAGTTAAGATTTCTTAGTTTTAATTGCATTCAATAAAATGTGCAAATTGAGTCTTTTATTG
641 GTTTTAGTTAAGATTTCTTAGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTG
18823459 ACCTTAGGGGCCGGATAAGGCCTAAGGGTGAGCTAAA-GAAGCATTCTTACGCAATAACTTCGTC
706 ACCTTAGGGGCCGGATAAGGCCTAAGGGTGAGCTAAATG-AGCATTCTTACGCAATAACTTCGTC
18823523 AAAT-GA-GAT
770 AAATAGACGAT
* *
18823532 -ACCCTTCCACAAATCTCTGATGATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACT
1 AACCCTTCTACAAATCTCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACT
* * * *
18823596 TTTAGGCTATTTCCACTTAAGAATAGTTTGGATCCACACTGATAACCTCGGCAGATACCATATGA
66 TTTAGGCTGTTTCCACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGT
* * * *
18823661 CCCAAAACATGACTTTCCTTAACCAAAACTCACACTTGCTTAATTTAGCATAGGGCTTGTTCTCT
131 CCCAAAACATGACTTTCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCT
* *
18823726 CGGAGAATCTATAGAACTACCCTTACATGCTCATCATGGTCAGCCTTAGTCTTAGAGTATAGAAA
196 CGGAGAATCTATAGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAA
* * ** * *
18823791 AATATTGTTGATGAATACTATGACGAACTGGTCCAGAAACGATTGAAACACTCTATTCATAGGAT
261 AATATCGTTGATGAACACTATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGAT
** * * * * *
18823856 CCATGAATATGGTCGCAGCATTGATCAAATTGAAAGGCATAACTAGGAACTCGTAATAACCATAA
326 CCATGAATGCGGTCGAAACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAATAACCATAA
* * * * * * * *
18823921 CGAGACCTAACTGCAGTCTTAGGCA-TGTCAAATACTTTTACTTCCAACTTATGGCATCCAAATC
391 CGAGACCTAAATGCAGTCTTAGGCACT-T-AGATCCTTTCACTTCCAACTAATGGTACCCAGATC
* * ** * **
18823985 TCAAATTGATCTTAGAAAACACTGACATCACTCAAAACTGATTGAATAAATCGTCGATCCTT-AA
454 TCAAATTGATCTTAGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGC
* * * * * * ** *
18824049 AAGTGAATATTTATTATTTACTGATAACTTATTTAGTTTCTTGTAGTTGATTTTTTATAATTCAG
519 AA-TGAATATTTATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGA-TCTACATAATTCGG
* * * * *
18824114 TGTAGTAAAATAAACTAGTTTTCACATTGAAGGAGCCTGAATACAAGCATTTTTGTTATGTTTTA
582 TGTAGTAAATTAAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTA
*
18824179 GTTAA-ATTTTCTTAGTTTTTATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTT
647 GTTAAGA-TTTCTTAGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTT
* *
18824243 AGGGGCCGAATAAGGCTTAAGGGTGAGCTAA
711 AGGGGCCGGATAAGGCCTAAGGGTGAGCTAA
18824274 TGCACTTTGT
Statistics
Matches: 1323, Mismatches: 183, Indels: 51
0.85 0.12 0.03
Matches are distributed among these distances:
777 1 0.00
778 247 0.19
779 391 0.30
780 2 0.00
785 2 0.00
786 3 0.00
787 3 0.00
789 176 0.13
790 124 0.09
791 3 0.00
792 367 0.28
793 4 0.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (780 bp):
AACCCTTCTACAAATCTCTGATAATACCCTTCCAGACCAATGAAACTCAAAATCTGTGAGACACT
TTTAGGCTGTTTCCACTTAAGAATAGTTTGGATCCACACTGATACCCTCAGCAGATACCATATGT
CCCAAAACATGACTTTCCTTAACCAGAACTCACACTTGCTCAATTTAGCATAGAGCTTCTTCTCT
CGGAGAATCTATAGAACTACCCTTACATGCTCATCATGCTCAGCCTTAGTCTTAGAGTATACAAA
AATATCGTTGATGAACACTATGACGAACTAATCCAGAAACGGTTGAAACACTCTATTCATAAGAT
CCATGAATGCGGTCGAAACATTGGTCAAATCGAAAGGCATAACTAGGAATTCGTAATAACCATAA
CGAGACCTAAATGCAGTCTTAGGCACTTAGATCCTTTCACTTCCAACTAATGGTACCCAGATCTC
AAATTGATCTTAGAAAACACTGACGTCCCTCAAAACTGATCAAACAAATCGTCGATCCTTGGCAA
TGAATATTTATTATTTACCGTTAACTTATTCAGTTGCCTGTAGTTGATCTACATAATTCGGTGTA
GTAAATTAAACTAGTTTTCGCATTTAAGGAGCTTGAATACAAGCATTTTCGTTATGTTTTAGTTA
AGATTTCTTAGTTTTAATTACATTCAATAAAATGTGAAAATTGAGTCTTTTATTGACCTTAGGGG
CCGGATAAGGCCTAAGGGTGAGCTAAATGAGCATTCTTACGCAATAACTTCGTCAAATAGACGAT
Found at i:18840678 original size:141 final size:142
Alignment explanation
Indices: 18840479--18840762 Score: 561
Period size: 141 Copynumber: 2.0 Consensus size: 142
18840469 TTGAGGAAAC
18840479 ATGATATGAGGAAAGTTGATAATGATAAATGTGGTTTTCATGTAGGGCAGCCTGAAGGAAAACTT
1 ATGATATGAGGAAAGTTGATAATGATAAATGTGGTTTTCATGTAGGGCAGCCTGAAGGAAAACTT
18840544 AAATGGTTAGTATTCTTTATTAAAATTTTTAAAAAATTATTAAAATATAATAAAAATATAAATTT
66 AAATGGTTAGTATTCTTTATTAAAATTTTTAAAAAATTATTAAAATATAATAAAAATATAAATTT
18840609 ATATAAATTATT
131 ATATAAATTATT
18840621 ATGATATGAGG-AAGTTGATAATGATAAATGTGGTTTTCATGTAGGGCAGCCTGAAGGAAAACTT
1 ATGATATGAGGAAAGTTGATAATGATAAATGTGGTTTTCATGTAGGGCAGCCTGAAGGAAAACTT
18840685 AAATGGTTAGTATTCTTTATTAAAATTTTTAAAAAATTATTAAAATATAATAAAAATATAAATTT
66 AAATGGTTAGTATTCTTTATTAAAATTTTTAAAAAATTATTAAAATATAATAAAAATATAAATTT
18840750 ATATAAATTATT
131 ATATAAATTATT
18840762 A
1 A
18840763 AATATTATAA
Statistics
Matches: 142, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
141 131 0.92
142 11 0.08
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (142 bp):
ATGATATGAGGAAAGTTGATAATGATAAATGTGGTTTTCATGTAGGGCAGCCTGAAGGAAAACTT
AAATGGTTAGTATTCTTTATTAAAATTTTTAAAAAATTATTAAAATATAATAAAAATATAAATTT
ATATAAATTATT
Found at i:18840729 original size:9 final size:9
Alignment explanation
Indices: 18840701--18840782 Score: 55
Period size: 9 Copynumber: 9.0 Consensus size: 9
18840691 TTAGTATTCT
18840701 TTATTAAAA
1 TTATTAAAA
*
18840710 TTTTTAAAAAA
1 TTATT--AAAA
18840721 TTATTAAAA
1 TTATTAAAA
*
18840730 TATAATAAAA
1 T-TATTAAAA
* *
18840740 ATA-TAAAT
1 TTATTAAAA
18840748 TTA-TATAAA
1 TTATTA-AAA
18840757 TTATTAAATA
1 TTATTAAA-A
18840767 TTA-TAAAA
1 TTATTAAAA
18840775 TT-TTAAAA
1 TTATTAAAA
18840783 ATACTACTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
8 16 0.27
9 22 0.37
10 13 0.22
11 8 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TTATTAAAA
Found at i:18840780 original size:17 final size:18
Alignment explanation
Indices: 18840717--18840781 Score: 73
Period size: 17 Copynumber: 3.7 Consensus size: 18
18840707 AAATTTTTAA
*
18840717 AAAATTATTAAAATATAAT
1 AAAATTATT-AAATATTAT
*
18840736 AAAAATA-TAAAT-TTAT
1 AAAATTATTAAATATTAT
18840752 ATAAATTATTAAATATTAT
1 A-AAATTATTAAATATTAT
18840771 AAAATT-TTAAA
1 AAAATTATTAAA
18840782 AATACTACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 4 0.10
17 14 0.35
18 11 0.28
19 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTATTAAATATTAT
Found at i:18846148 original size:9 final size:9
Alignment explanation
Indices: 18846120--18846201 Score: 55
Period size: 9 Copynumber: 9.0 Consensus size: 9
18846110 TTAGTATTCT
18846120 TTATTAAAA
1 TTATTAAAA
*
18846129 TTTTTAAAAAA
1 TTATT--AAAA
18846140 TTATTAAAA
1 TTATTAAAA
*
18846149 TATAATAAAA
1 T-TATTAAAA
* *
18846159 ATA-TAAAT
1 TTATTAAAA
18846167 TTA-TATAAA
1 TTATTA-AAA
18846176 TTATTAAATA
1 TTATTAAA-A
18846186 TTA-TAAAA
1 TTATTAAAA
18846194 TT-TTAAAA
1 TTATTAAAA
18846202 ATACTACTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
8 16 0.27
9 22 0.37
10 13 0.22
11 8 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TTATTAAAA
Found at i:18846199 original size:17 final size:18
Alignment explanation
Indices: 18846136--18846200 Score: 73
Period size: 17 Copynumber: 3.7 Consensus size: 18
18846126 AAATTTTTAA
*
18846136 AAAATTATTAAAATATAAT
1 AAAATTATT-AAATATTAT
*
18846155 AAAAATA-TAAAT-TTAT
1 AAAATTATTAAATATTAT
18846171 ATAAATTATTAAATATTAT
1 A-AAATTATTAAATATTAT
18846190 AAAATT-TTAAA
1 AAAATTATTAAA
18846201 AATACTACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 4 0.10
17 14 0.35
18 11 0.28
19 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTATTAAATATTAT
Found at i:18853874 original size:19 final size:20
Alignment explanation
Indices: 18853840--18853880 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
18853830 CTATAGATGA
*
18853840 TAATTAGTTCAATTTAATCT
1 TAATTAATTCAATTTAATCT
18853860 TAATTAATT-AATTTAATCT
1 TAATTAATTCAATTTAATCT
18853879 TA
1 TA
18853881 GTTTACCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.51
Consensus pattern (20 bp):
TAATTAATTCAATTTAATCT
Found at i:18857784 original size:26 final size:27
Alignment explanation
Indices: 18857738--18857790 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
18857728 AAAGGAAATC
* * *
18857738 CTTTCATATTCCTCCATAAAGG-TTTT
1 CTTTCATATTACACCACAAAGGCTTTT
18857764 CTTTCATATTACACCACAAAGGCTTTT
1 CTTTCATATTACACCACAAAGGCTTTT
18857791 TTCGCTGACG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.42
Consensus pattern (27 bp):
CTTTCATATTACACCACAAAGGCTTTT
Found at i:18859901 original size:50 final size:48
Alignment explanation
Indices: 18859777--18859923 Score: 141
Period size: 50 Copynumber: 2.9 Consensus size: 48
18859767 GAGATCCCAT
* *
18859777 GTAAGACCATGTCTGGGACATGGTATTGGCACTATTGAGGTTATGAGAGGTCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCAC---CGA-G--ATGAGAGGTCCC
* * *
18859831 ATAAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
1 GT-AAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGT--CCC
* * *
18859882 GTAAGACCATGTCTGGGACATGGCATCGGCGCCGATATGAGA
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
18859924 ACTGTCATTT
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
49 9 0.11
50 35 0.44
51 5 0.06
52 2 0.03
54 1 0.01
55 27 0.34
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.22
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
Found at i:18860238 original size:20 final size:20
Alignment explanation
Indices: 18860213--18860251 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18860203 TGAGTTATTT
18860213 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
18860233 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
18860252 GAAGAGAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:18865778 original size:56 final size:51
Alignment explanation
Indices: 18865706--18865954 Score: 190
Period size: 50 Copynumber: 4.9 Consensus size: 51
18865696 ACATTAAGGG
* **
18865706 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGTCATTGGCATTATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCGA
18865757 GGTTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC-ACCGA
1 -G--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAACCGA
** * *
18865810 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGC-ACACAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAAC-CGA
* * * * * * *
18865861 TATGAGA-CTCCCATGTAAGACCATATTTAGGATATGGCATTGG-TA--GTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAACCG-A
* * * ** * *
18865909 TAGGAAACATCCCATGTAAGACCATGTCTGGGAGATGGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
18865955 TGTTATTATC
Statistics
Matches: 162, Mismatches: 26, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
48 6 0.04
49 30 0.19
50 72 0.44
51 8 0.05
52 2 0.01
53 3 0.02
54 6 0.04
56 35 0.22
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (51 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAACCGA
Found at i:18866182 original size:20 final size:20
Alignment explanation
Indices: 18866157--18866205 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
18866147 TGAGTTATTT
18866157 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
18866177 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
18866197 AAG-AAGCAA
1 AAGTAAGCAA
18866206 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:18872707 original size:40 final size:40
Alignment explanation
Indices: 18872661--18872754 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
18872651 GTAAGGAGGA
* * *
18872661 AATACTGGCA-TCTTGTCTACAATACTAGCAATTTATTTGT
1 AATACTGGCAGT-TTGTCCACAATACTAGCAACTTATTTGC
* *
18872701 ATTACTGGTAGTTTGTCCACAATACTAGCAACTTATTTGC
1 AATACTGGCAGTTTGTCCACAATACTAGCAACTTATTTGC
18872741 AATACTGGCAGTTT
1 AATACTGGCAGTTT
18872755 ATCTACATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 45 0.98
41 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (40 bp):
AATACTGGCAGTTTGTCCACAATACTAGCAACTTATTTGC
Found at i:18872813 original size:59 final size:60
Alignment explanation
Indices: 18872701--18872839 Score: 167
Period size: 59 Copynumber: 2.3 Consensus size: 60
18872691 ATTTATTTGT
* *
18872701 ATTACTGGTAGTTTGTCCACAATACTAGCAACTTATTTGCAATACTGGCAGTTTATCTAC
1 ATTACTGGTGGTTTGTCCACAATACTAGCAACTTATCTGCAATACTGGCAGTTTATCTAC
* * * *
18872761 ATTACTGGTGGTTTGT-CACAATATTGGCAGC-TAGTCTGCAATACTGGTAGTTTATCTAC
1 ATTACTGGTGGTTTGTCCACAATACTAGCAACTTA-TCTGCAATACTGGCAGTTTATCTAC
* *
18872820 AATAGTGGTGGCTTT-TCCAC
1 ATTACTGGTGG-TTTGTCCAC
18872840 TAACTCGCGT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
58 2 0.03
59 45 0.66
60 21 0.31
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (60 bp):
ATTACTGGTGGTTTGTCCACAATACTAGCAACTTATCTGCAATACTGGCAGTTTATCTAC
Found at i:18872822 original size:20 final size:20
Alignment explanation
Indices: 18872703--18872828 Score: 76
Period size: 20 Copynumber: 6.3 Consensus size: 20
18872693 TTATTTGTAT
* *
18872703 TACTGGTAGTTTGTCCACAA
1 TACTGGTAGTTTATCTACAA
* * ** * *
18872723 TACTAGCAACTTATTTGCAA
1 TACTGGTAGTTTATCTACAA
* *
18872743 TACTGGCAGTTTATCTACAT
1 TACTGGTAGTTTATCTACAA
* *
18872763 TACTGGTGGTTTGTC-ACAA
1 TACTGGTAGTTTATCTACAA
* * * *
18872782 TATTGGCAG-CTAGTCTGCAA
1 TACTGGTAGTTTA-TCTACAA
18872802 TACTGGTAGTTTATCTACAA
1 TACTGGTAGTTTATCTACAA
*
18872822 TAGTGGT
1 TACTGGT
18872829 GGCTTTTCCA
Statistics
Matches: 74, Mismatches: 29, Indels: 6
0.68 0.27 0.06
Matches are distributed among these distances:
18 1 0.01
19 11 0.15
20 60 0.81
21 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (20 bp):
TACTGGTAGTTTATCTACAA
Found at i:18876798 original size:23 final size:23
Alignment explanation
Indices: 18876771--18876830 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
18876761 CAAACAGACG
* *
18876771 CTTTGTGGCGTATTCTGTGAAGC
1 CTTTGTGGCGTATTCTATAAAGC
** *
18876794 CTTTGTGGTATAATCTATAAAGC
1 CTTTGTGGCGTATTCTATAAAGC
*
18876817 CTTTGTCGCGTATT
1 CTTTGTGGCGTATT
18876831 GGGTAACGCC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (23 bp):
CTTTGTGGCGTATTCTATAAAGC
Found at i:18881725 original size:14 final size:14
Alignment explanation
Indices: 18881706--18881744 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
18881696 TTGTTTCAAT
*
18881706 GAAAATGGCTTCCG
1 GAAAATGACTTCCG
* *
18881720 GAAAATGATTTCTG
1 GAAAATGACTTCCG
18881734 GAAAATGACTT
1 GAAAATGACTT
18881745 ACTTGCTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:18886861 original size:49 final size:49
Alignment explanation
Indices: 18886808--18886926 Score: 175
Period size: 49 Copynumber: 2.4 Consensus size: 49
18886798 CTGCAAAATT
* * *
18886808 TGGTGGCTTGACCATAATATTCTGTATCTGGCAACTTGTTTACATTATC
1 TGGTGGCTTGACCACAATATTCTGTATCTGGCAACTTGTCTACACTATC
* *
18886857 TGGTGGCTTGACCACAATATTCTGTATCTGGTAGCTTGTCTACACTATC
1 TGGTGGCTTGACCACAATATTCTGTATCTGGCAACTTGTCTACACTATC
* *
18886906 GGGTGGCTTGACCACATTATT
1 TGGTGGCTTGACCACAATATT
18886927 GGTGTGATAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 63 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (49 bp):
TGGTGGCTTGACCACAATATTCTGTATCTGGCAACTTGTCTACACTATC
Found at i:18887139 original size:11 final size:12
Alignment explanation
Indices: 18887123--18887155 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
18887113 ATTTCACGAA
18887123 AAAATTTCTT-G
1 AAAATTTCTTCG
18887134 AAAATTTCATTCG
1 AAAATTTC-TTCG
18887147 AAAATTTCT
1 AAAATTTCT
18887156 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 3 0.15
13 9 0.45
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (12 bp):
AAAATTTCTTCG
Found at i:18888065 original size:102 final size:101
Alignment explanation
Indices: 18887888--18888231 Score: 426
Period size: 102 Copynumber: 3.4 Consensus size: 101
18887878 TATTGATGAA
* * *
18887888 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCAATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
18887953 TAAGTGAAGGCTACAAAGCGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTAAGTGTACCGA-AAGCTTTGGT
* * * *
18887990 TACGTGTGTAGTACTGTGTGAAGGCTACTACGTAAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
18888055 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTGGGT
66 TAAGTGAAGGCTACTAAGTGTACCG-AAAGCTTTGGT
* * * *
18888092 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTA
* * * * *
18888155 CTATGTGAAGGCTACTACGTGAACCGTAAAAC-TTGAT
65 CTAAGTGAAGGCTACTAAGTGTACCG-AAAGCTTTGGT
*
18888192 CACGTGTGTAGTACTATGTGAAGGCT-CTTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTAC-TACGTGAATCGA
18888232 ATGATAAAAG
Statistics
Matches: 212, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
99 1 0.00
100 38 0.18
101 46 0.22
102 126 0.59
103 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTAAGTGTACCGAAAGCTTTGGT
Found at i:18888158 original size:50 final size:50
Alignment explanation
Indices: 18887888--18888225 Score: 351
Period size: 51 Copynumber: 6.7 Consensus size: 50
18887878 TATTGATGAA
* * ** *
18887888 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCAATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACCGTAAA-ACTTGGT
* * * * * * *
18887939 CACATGTGTAGTACTAAGTGAAGGCTACAAAGCGTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGT
* * * * ***
18887990 TACGTGTGTAGTACTGTGTGAAGGCTACTACGTAAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * *
18888041 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTGGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-CTT-GGT
*
18888092 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
*
18888142 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
18888192 CACGTGTGTAGTACTATGTGAAGGCT-CTTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTAC-TACGTG
18888226 TATCGAATGA
Statistics
Matches: 237, Mismatches: 41, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
49 5 0.02
50 88 0.37
51 137 0.58
52 6 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:18900649 original size:91 final size:91
Alignment explanation
Indices: 18900520--18900693 Score: 244
Period size: 91 Copynumber: 1.9 Consensus size: 91
18900510 TACGTTATAA
* *
18900520 TTGAAAATATCCAATGTGGTATTGAAACTATCAATTTGTGTAATATTTGGAACATGTACTTT-CA
1 TTGAAAATATCCAAAGTGGTACTGAAACTATCAATTTGTGTAATATTTGGAACATGTA-TTTCCA
*
18900584 TAAAATGTCGAATGTGGTATATGTACT
65 TAAAATGTCCAATGTGGTATATGTACT
* * * * *
18900611 TTGAAAATGTCCAAAGTGGTACCT-AAACTATTAATTTGTGTATTATTTGGTACCTGTATTTCCA
1 TTGAAAATATCCAAAGTGGTA-CTGAAACTATCAATTTGTGTAATATTTGGAACATGTATTTCCA
18900675 TAAAATGTCCAATGTGGTA
65 TAAAATGTCCAATGTGGTA
18900694 CATGAACTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 3 0.04
91 69 0.95
92 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (91 bp):
TTGAAAATATCCAAAGTGGTACTGAAACTATCAATTTGTGTAATATTTGGAACATGTATTTCCAT
AAAATGTCCAATGTGGTATATGTACT
Found at i:18901320 original size:26 final size:26
Alignment explanation
Indices: 18901291--18901356 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
18901281 TTATGAAATG
*
18901291 GCTCACACAAGCTTCAGATC-AAGGTT
1 GCTCACACAAGCTT-AGATCGAAGATT
* *
18901317 GCTCACACAAGCTTAGTTCGATGATT
1 GCTCACACAAGCTTAGATCGAAGATT
*
18901343 GCTCACATAAGCTT
1 GCTCACACAAGCTT
18901357 TAGAGAATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 4 0.11
26 31 0.89
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (26 bp):
GCTCACACAAGCTTAGATCGAAGATT
Found at i:18903247 original size:19 final size:19
Alignment explanation
Indices: 18903225--18903261 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18903215 TCGAAAACTT
18903225 AGTCCAAAAAAAAATTAAA
1 AGTCCAAAAAAAAATTAAA
*
18903244 AGTCCAAAAAAAACTTAA
1 AGTCCAAAAAAAAATTAA
18903262 TTAATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.14, G:0.05, T:0.16
Consensus pattern (19 bp):
AGTCCAAAAAAAAATTAAA
Found at i:18906283 original size:23 final size:23
Alignment explanation
Indices: 18906257--18906310 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
18906247 CTAGATATTT
18906257 TTCTAAATATTACCACTAAATAA
1 TTCTAAATATTACCACTAAATAA
*
18906280 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTACCACTAAATAA
18906303 TTCTAAAT
1 TTCTAAAT
18906311 TTAAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (23 bp):
TTCTAAATATTACCACTAAATAA
Found at i:18911055 original size:34 final size:34
Alignment explanation
Indices: 18911017--18911084 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
18911007 AATATTCAAC
18911017 ATTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
1 ATTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
18911051 ATTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
1 ATTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
18911085 TAAATTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (34 bp):
ATTGTGTTGGGTTGGCCCATTGCCTCATAAACAT
Found at i:18915766 original size:26 final size:26
Alignment explanation
Indices: 18915735--18915845 Score: 68
Period size: 26 Copynumber: 4.2 Consensus size: 26
18915725 AGTAAATAAT
18915735 TATCATTTAGTTTTTATTTTAAATAG
1 TATCATTTAGTTTTTATTTTAAATAG
* *
18915761 TATCATATAATTATATTAATTATTAAAT--
1 TATCATTTAGTT-T-TT-ATT-TTAAATAG
* * * *** *
18915789 CAT-GTTTAGTTCTTAAAGT-AATAAT
1 TATCATTTAGTTTTTATTTTAAAT-AG
18915814 TATCATTTAGTTTTTATTTTAAATAG
1 TATCATTTAGTTTTTATTTTAAATAG
18915840 TATCAT
1 TATCAT
18915846 ATAATTATAT
Statistics
Matches: 59, Mismatches: 17, Indels: 18
0.63 0.18 0.19
Matches are distributed among these distances:
22 3 0.05
23 1 0.02
24 1 0.02
25 4 0.07
26 28 0.47
27 9 0.15
28 4 0.07
29 3 0.05
30 6 0.10
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.52
Consensus pattern (26 bp):
TATCATTTAGTTTTTATTTTAAATAG
Found at i:18915772 original size:37 final size:37
Alignment explanation
Indices: 18915730--18915853 Score: 101
Period size: 37 Copynumber: 3.2 Consensus size: 37
18915720 CTTAAAGTAA
18915730 ATAATTATCATTTAGTTTTTATTTTAAATAGTATCAT
1 ATAATTATCATTTAGTTTTTATTTTAAATAGTATCAT
* ** ** *
18915767 ATAATTAT-A-TTAATTATTAAATCATGTTTAGTTCTTA-AAGT
1 ATAATTATCATTTAGTT-TT---T-AT-TTTAAATAGTATCA-T
18915808 AATAATTATCATTTAGTTTTTATTTTAAATAGTATCAT
1 -ATAATTATCATTTAGTTTTTATTTTAAATAGTATCAT
18915846 ATAATTAT
1 ATAATTAT
18915854 ATTAATTATT
Statistics
Matches: 64, Mismatches: 12, Indels: 22
0.65 0.12 0.22
Matches are distributed among these distances:
35 5 0.08
36 3 0.05
37 16 0.25
38 8 0.12
39 4 0.06
40 4 0.06
41 8 0.12
42 8 0.12
43 3 0.05
44 5 0.08
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.52
Consensus pattern (37 bp):
ATAATTATCATTTAGTTTTTATTTTAAATAGTATCAT
Found at i:18915819 original size:79 final size:79
Alignment explanation
Indices: 18915718--18915887 Score: 313
Period size: 79 Copynumber: 2.1 Consensus size: 79
18915708 TAAATATATT
18915718 TTCTTAAAGTAAATAATTATCATTTAGTTTTTATTTTAAATAGTATCATATAATTATATTAATTA
1 TTCTTAAAGT-AATAATTATCATTTAGTTTTTATTTTAAATAGTATCATATAATTATATTAATTA
18915783 TTAAATCATGTTTAG
65 TTAAATCATGTTTAG
18915798 TTCTTAAAGTAATAATTATCATTTAGTTTTTATTTTAAATAGTATCATATAATTATATTAATTAT
1 TTCTTAAAGTAATAATTATCATTTAGTTTTTATTTTAAATAGTATCATATAATTATATTAATTAT
18915863 TAAATCATGTTTAG
66 TAAATCATGTTTAG
* *
18915877 TTATTGAAGTA
1 TTCTTAAAGTA
18915888 TAAGTTGGAG
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
79 78 0.89
80 10 0.11
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (79 bp):
TTCTTAAAGTAATAATTATCATTTAGTTTTTATTTTAAATAGTATCATATAATTATATTAATTAT
TAAATCATGTTTAG
Found at i:18917466 original size:3 final size:3
Alignment explanation
Indices: 18917458--18917504 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
18917448 NNNNNNNTAA
18917458 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18917505 GTTACTTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18919850 original size:29 final size:30
Alignment explanation
Indices: 18919798--18919858 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
18919788 AGTCTATATC
*
18919798 TTTATAATTTTTAAAGAATTAAATCA-AATT
1 TTTATAATTTTTAAAGAATAAAAT-ATAATT
18919828 TTTAT-ATTTTTAAA-AACTAAAATATAATT
1 TTTATAATTTTTAAAGAA-TAAAATATAATT
18919857 TT
1 TT
18919859 ATCATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 3 0.11
29 20 0.71
30 5 0.18
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTATAATTTTTAAAGAATAAAATATAATT
Found at i:18920317 original size:19 final size:19
Alignment explanation
Indices: 18920282--18920318 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18920272 CAATTAAAAT
**
18920282 AATATTTTATATTTTTATC
1 AATATTTTATAAATTTATC
18920301 AATATTTTATAAATTTAT
1 AATATTTTATAAATTTAT
18920319 TACATAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
AATATTTTATAAATTTATC
Found at i:18923681 original size:47 final size:49
Alignment explanation
Indices: 18923600--18923737 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 49
18923590 GTGGAAGTAT
* ** *
18923600 GTGGCAATTTATCTATAAATCAGTGGTGGCTTGTCCACAAAGTGTT-TTA
1 GTGGCAATATATCTGCAAAT-AGTGGTGGCTTGTCCACAAAGTGTTATCA
*
18923649 GTGGCAATATATCTGCATAT-GTGGTGGCTTGTCCACAAAGTGTTATCA
1 GTGGCAATATATCTGCAAATAGTGGTGGCTTGTCCACAAAGTGTTATCA
* * *
18923697 GTGGTAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAA
1 GTGGCAATATATCTGCAAAT-AGTGGTGGCTTGTCCACAAA
18923738 TGGTGTTTCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
47 24 0.31
48 18 0.23
49 16 0.21
50 19 0.25
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (49 bp):
GTGGCAATATATCTGCAAATAGTGGTGGCTTGTCCACAAAGTGTTATCA
Found at i:18923835 original size:17 final size:18
Alignment explanation
Indices: 18923804--18923838 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18923794 GGTAGGAAAT
*
18923804 TTTATAAAATGTGCATCG
1 TTTATAAAATATGCATCG
18923822 TTTA-AAAATATGCATCG
1 TTTATAAAATATGCATCG
18923839 GCATGTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (18 bp):
TTTATAAAATATGCATCG
Found at i:18934778 original size:111 final size:112
Alignment explanation
Indices: 18934647--18934869 Score: 421
Period size: 111 Copynumber: 2.0 Consensus size: 112
18934637 AAATCCTCTT
18934647 TTCGCTTTTCTCTATTTTTTGGAGTTCTATCGTTCATTCTTAGTGTAGGAATAAAAG-AAATAAC
1 TTCGCTTTTCTCTATTTTTTGGAGTTCTATCGTTCATTCTTAGTGTAGGAATAAAAGAAAATAAC
*
18934711 ACTAGAAGGTGAGGAGATTACCTGGAGGTCGGATCTTTGTTCTCTCC
66 ACTAGAAGGTGAGGAGATTACATGGAGGTCGGATCTTTGTTCTCTCC
*
18934758 TTCGCTTTTCTCTATTTTTTGGAGTTCTATCGTTCATTCTTAGTGTAGGAATAAAAGAAAATAAG
1 TTCGCTTTTCTCTATTTTTTGGAGTTCTATCGTTCATTCTTAGTGTAGGAATAAAAGAAAATAAC
18934823 ACTAGAAGGTGAGGAGATTACATGGAGGTCGGATCTTTGTTCTCTCC
66 ACTAGAAGGTGAGGAGATTACATGGAGGTCGGATCTTTGTTCTCTCC
18934870 GTCGTAATCA
Statistics
Matches: 109, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
111 57 0.52
112 52 0.48
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (112 bp):
TTCGCTTTTCTCTATTTTTTGGAGTTCTATCGTTCATTCTTAGTGTAGGAATAAAAGAAAATAAC
ACTAGAAGGTGAGGAGATTACATGGAGGTCGGATCTTTGTTCTCTCC
Found at i:18942784 original size:35 final size:35
Alignment explanation
Indices: 18942726--18942801 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 35
18942716 CAGATTTTAA
18942726 AAAAAAGAAGAAAAAAATCAAAATCAAAATCAAAGT
1 AAAAAAGAAGAAAAAAA-CAAAATCAAAATCAAAGT
*
18942762 AAAAAAGAAGAAATAGAA-AAAATCAAAATCAAAGT
1 AAAAAAGAAGAAA-AAAACAAAATCAAAATCAAAGT
*
18942797 CAAAA
1 AAAAA
18942802 TGAAAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 21 0.57
36 13 0.35
37 3 0.08
ACGTcount: A:0.72, C:0.08, G:0.09, T:0.11
Consensus pattern (35 bp):
AAAAAAGAAGAAAAAAACAAAATCAAAATCAAAGT
Found at i:18942790 original size:47 final size:45
Alignment explanation
Indices: 18942739--18942827 Score: 124
Period size: 47 Copynumber: 1.9 Consensus size: 45
18942729 AAAGAAGAAA
*
18942739 AAAATCAAAATCAAAATCAAAGTAAAAAAGAAGAAATAGAAAAAATC
1 AAAATCAAAATCAAAATCAAAATAAAAAAG-AGAAA-AGAAAAAATC
* * *
18942786 AAAATCAAAGTCAAAATGAAAATGAAAAAGAGAAAAGAAAAA
1 AAAATCAAAATCAAAATCAAAATAAAAAAGAGAAAAGAAAAA
18942828 GAAAAAGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 7 0.18
46 5 0.13
47 26 0.68
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (45 bp):
AAAATCAAAATCAAAATCAAAATAAAAAAGAGAAAAGAAAAAATC
Found at i:18942831 original size:19 final size:19
Alignment explanation
Indices: 18942798--18942845 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
18942788 AATCAAAGTC
* *
18942798 AAAATGAAAATGAAAAA-G
1 AAAAAGAAAAAGAAAAAGG
18942816 AGAAAAGAAAAAGAAAAAGG
1 A-AAAAGAAAAAGAAAAAGG
18942836 AAAAAGAAAA
1 AAAAAGAAAA
18942846 GGAGAGGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 1 0.04
19 23 0.88
20 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAAGG
Found at i:18942846 original size:5 final size:6
Alignment explanation
Indices: 18942798--18942845 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
18942788 AATCAAAGTC
* *
18942798 AAAATG AAAATG AAAAAG AGAAAAG AAAAAG AAAAAGG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG AAAAA-G AAAAAG AAAA
18942846 GGAGAGGCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 27 0.69
7 12 0.31
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:18945241 original size:44 final size:44
Alignment explanation
Indices: 18945191--18945567 Score: 217
Period size: 44 Copynumber: 8.1 Consensus size: 44
18945181 GTAAGGAAGT
*
18945191 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
1 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
* * * * * *
18945235 AGATTGAATCTAGTAGTCCTATCTCCCTGAGATTACAGTGGAGT
1 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
* ** * *
18945279 GGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGAATC
1 AGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G---C
*
18945333 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
1 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
* * * * * *
18945377 AGATTGAATCTAGTAGTCCTATCTCCCTGAGATTACAGTGGAGT
1 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
* ** * *
18945421 GGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATTGCATC
1 AGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G---C
18945475 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
1 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
* * * *
18945519 AGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
1 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
*
18945563 GGATT
1 AGATT
18945568 AAAATAAAGG
Statistics
Matches: 253, Mismatches: 48, Indels: 64
0.69 0.13 0.18
Matches are distributed among these distances:
42 2 0.01
43 10 0.04
44 160 0.63
47 8 0.03
49 8 0.03
51 8 0.03
54 44 0.17
55 9 0.04
56 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGC
Found at i:18945447 original size:142 final size:142
Alignment explanation
Indices: 18945191--18945616 Score: 759
Period size: 142 Copynumber: 3.0 Consensus size: 142
18945181 GTAAGGAAGT
18945191 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATCTAGTAGTCCTA
1 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATCTAGTAGTCCTA
18945256 TCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
66 TCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
*
18945321 GTAGATCGAATC
131 GTAGATCGCATC
18945333 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATCTAGTAGTCCTA
1 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATCTAGTAGTCCTA
18945398 TCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
66 TCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
*
18945463 GTAGATTGCATC
131 GTAGATCGCATC
* * * *
18945475 AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTA
1 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATCTAGTAGTCCTA
*
18945540 TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTA--TCTCTGAAAGTTACAGTA-
66 TCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTG-AAGTTACAGTAG
18945602 AGTAGATCGCATC
130 AGTAGATCGCATC
18945615 AG
1 AG
18945617 GTCTTATCTC
Statistics
Matches: 275, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
140 20 0.07
141 11 0.04
142 244 0.89
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (142 bp):
AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATCTAGTAGTCCTA
TCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
GTAGATCGCATC
Found at i:18945555 original size:98 final size:97
Alignment explanation
Indices: 18945376--18945557 Score: 215
Period size: 98 Copynumber: 1.9 Consensus size: 97
18945366 TACAGCGGAG
* * * * ** * *
18945376 CAGATTGAATCTAGTAGTCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCT
*
18945441 ATCTCTCTGAAGTTACAGTAGAGTAGATTGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATTGCAT
* *
18945474 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCT-AGTAATCC
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAA-ATAAG-AATCC
18945538 TATCTCCCTG-AGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
18945558 GGAGCGGATT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
97 4 0.06
98 65 0.93
99 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (97 bp):
CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATTGCAT
Found at i:18947572 original size:26 final size:28
Alignment explanation
Indices: 18947543--18947606 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 28
18947533 GTATACATAT
18947543 ATATATAATATTTTT-TAT-ATATGTAC
1 ATATATAATATTTTTATATAATATGTAC
*
18947569 --ATATAATATTTTTAGTATACATATGTAT
1 ATATATAATATTTTTA-TATA-ATATGTAC
18947597 ATATATAATA
1 ATATATAATA
18947607 ATATATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
24 13 0.42
26 3 0.10
28 7 0.23
30 8 0.26
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (28 bp):
ATATATAATATTTTTATATAATATGTAC
Found at i:18955941 original size:42 final size:42
Alignment explanation
Indices: 18955882--18955982 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
18955872 AGCACATGGT
* *
18955882 CTGGCACACGAGCGTGTATGGCAACTCAGAAAGTTACACGGC
1 CTGGCACACGGGCGTGTAGGGCAACTCAGAAAGTTACACGGC
* ** *
18955924 CTGGCACACGGGCGTGTAGGGCTACTCAGTGAGTTACACGGG
1 CTGGCACACGGGCGTGTAGGGCAACTCAGAAAGTTACACGGC
*
18955966 CTAGG-ACACGGTCGTGT
1 CT-GGCACACGGGCGTGT
18955983 GTCCTTTGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 49 0.96
43 2 0.04
ACGTcount: A:0.23, C:0.25, G:0.34, T:0.19
Consensus pattern (42 bp):
CTGGCACACGGGCGTGTAGGGCAACTCAGAAAGTTACACGGC
Found at i:18957872 original size:18 final size:18
Alignment explanation
Indices: 18957851--18957886 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18957841 TAATAGCAAT
18957851 ATTAATTCATTTTTGACA
1 ATTAATTCATTTTTGACA
*
18957869 ATTAATTCTTTTTTGACA
1 ATTAATTCATTTTTGACA
18957887 CTTTTACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.53
Consensus pattern (18 bp):
ATTAATTCATTTTTGACA
Found at i:18964032 original size:9 final size:9
Alignment explanation
Indices: 18964017--18964051 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
18964007 AAATTTCGAG
18964017 TTCGAATAA
1 TTCGAATAA
*
18964026 CTCGAATAA
1 TTCGAATAA
18964035 TTCGAATAA
1 TTCGAATAA
18964044 TTCGAATA
1 TTCGAATA
18964052 TCAAACTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (9 bp):
TTCGAATAA
Found at i:18964299 original size:30 final size:31
Alignment explanation
Indices: 18964265--18964324 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
18964255 AAACCTTTTA
*
18964265 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
18964295 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
18964325 TCNNNNNNNN
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:18966056 original size:45 final size:44
Alignment explanation
Indices: 18966004--18966130 Score: 146
Period size: 45 Copynumber: 2.8 Consensus size: 44
18965994 CTACTAGGCT
* * *
18966004 ACCATAGCATCTTTCAGCTATGGTTTTATTCATGTTTACCATGAT
1 ACCATAGCATCTTTCAGCTATGGTCTTACTCAT-TTTACCATGAC
* * * * * *
18966049 TCCATAGCGTCTTTCAACCATGGTCTTACTAATTTATATCATGAC
1 ACCATAGCATCTTTCAGCTATGGTCTTACTCATTT-TACCATGAC
*
18966094 ACCATATCATCTTTCAGCTATGGTCTTACTCATTTTA
1 ACCATAGCATCTTTCAGCTATGGTCTTACTCATTTTA
18966131 GGTGTATAAT
Statistics
Matches: 66, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
44 4 0.06
45 62 0.94
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (44 bp):
ACCATAGCATCTTTCAGCTATGGTCTTACTCATTTTACCATGAC
Found at i:18970077 original size:21 final size:22
Alignment explanation
Indices: 18970048--18970088 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
18970038 TCTTCCTTGG
*
18970048 AAGATGGATATCGTGATACCCA
1 AAGATGGATATCGCGATACCCA
18970070 AAGA-GGATATCGCGATACC
1 AAGATGGATATCGCGATACC
18970089 ACTGAAGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (22 bp):
AAGATGGATATCGCGATACCCA
Found at i:18970543 original size:10 final size:10
Alignment explanation
Indices: 18970528--18970561 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18970518 CAATCTCTTA
*
18970528 TTTTAATTTG
1 TTTTAATCTG
18970538 TTTTAATCTG
1 TTTTAATCTG
*
18970548 TTTTAATCTA
1 TTTTAATCTG
18970558 TTTT
1 TTTT
18970562 TGCGGGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (10 bp):
TTTTAATCTG
Found at i:18983358 original size:30 final size:32
Alignment explanation
Indices: 18983297--18983361 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
18983287 ACTTAACAAG
18983297 CAAATGCCTCTAAAATAATAAAAAGAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAGAAATTAA
* *
18983329 CAAATGCCTTTAAAATAAT-AACA-AAATTAA
1 CAAATGCCTCTAAAATAATAAAAAGAAATTAA
18983359 CAA
1 CAA
18983362 TAAAACAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 10 0.32
31 3 0.10
32 18 0.58
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.23
Consensus pattern (32 bp):
CAAATGCCTCTAAAATAATAAAAAGAAATTAA
Found at i:18990268 original size:103 final size:103
Alignment explanation
Indices: 18990089--18990297 Score: 366
Period size: 103 Copynumber: 2.0 Consensus size: 103
18990079 GAAATTCAGT
* *
18990089 GACCATGCAATCTTGAGTCTAATACTCTTGGACTCTTTAGATCCATTTATCTGAAATTTGAAGAA
1 GACCATGCAATCTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTATCTGAAATTTGAAGAA
18990154 ACGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
66 ACGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
*
18990192 GACCATGCCAA-CTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTGTCTGAAATTTGAAGA
1 GACCATG-CAATCTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTATCTGAAATTTGAAGA
*
18990256 AATGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
65 AACGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
18990295 GAC
1 GAC
18990298 TTCAGCTTGC
Statistics
Matches: 101, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
103 98 0.97
104 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (103 bp):
GACCATGCAATCTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTATCTGAAATTTGAAGAA
ACGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
Found at i:18991729 original size:15 final size:15
Alignment explanation
Indices: 18991709--18991755 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
18991699 GTTTGAAATG
18991709 TTACGTTTTAGTCAC
1 TTACGTTTTAGTCAC
*
18991724 TTACGTTATTATGTTA-
1 TTACGTT-TTA-GTCAC
*
18991740 TTACATTTTAGTCAC
1 TTACGTTTTAGTCAC
18991755 T
1 T
18991756 GAACTGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.12
15 11 0.42
16 9 0.35
17 3 0.12
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.51
Consensus pattern (15 bp):
TTACGTTTTAGTCAC
Found at i:18992186 original size:23 final size:23
Alignment explanation
Indices: 18992160--18992208 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
18992150 TGAAAAAAAG
18992160 AAAAAAGAAAAAAAAG-AAAAGTT
1 AAAAAA-AAAAAAAAGAAAAAGTT
* *
18992183 AAAAAAACATAAAAGAAAAAGTT
1 AAAAAAAAAAAAAAGAAAAAGTT
18992206 AAA
1 AAA
18992209 TTGCTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (23 bp):
AAAAAAAAAAAAAAGAAAAAGTT
Found at i:18992202 original size:16 final size:14
Alignment explanation
Indices: 18992151--18992202 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
18992141 AGAAGAGAAT
18992151 GAAAAAAAGAAAAAA
1 GAAAAAAA-AAAAAA
*
18992166 GAAAAAAAAGAAAA
1 GAAAAAAAAAAAAA
*
18992180 GTTAAAAAAACATAAAA
1 G--AAAAAAA-AAAAAA
18992197 GAAAAA
1 GAAAAA
18992203 GTTAAATTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 6 0.19
15 13 0.41
16 7 0.22
17 6 0.19
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.06
Consensus pattern (14 bp):
GAAAAAAAAAAAAA
Found at i:18994341 original size:24 final size:24
Alignment explanation
Indices: 18994314--18994361 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18994304 AAATTAGTAA
18994314 GTCAAATAAACTACACTAATAAAT
1 GTCAAATAAACTACACTAATAAAT
* * *
18994338 GTCAAATATATTATACTAATAAAT
1 GTCAAATAAACTACACTAATAAAT
18994362 ACTAAATCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.31
Consensus pattern (24 bp):
GTCAAATAAACTACACTAATAAAT
Found at i:18995650 original size:2 final size:2
Alignment explanation
Indices: 18995643--18995670 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18995633 TCCTTTTATC
18995643 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18995671 TTGCTTTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18995700 original size:19 final size:20
Alignment explanation
Indices: 18995678--18995730 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
18995668 TATTTGCTTT
* *
18995678 CAGAATATTTTT-TCTGTTG
1 CAGAATATTTTTGACTATTG
*
18995697 CAGAAAATCTTTTGACTATTG
1 CAGAATAT-TTTTGACTATTG
*
18995718 TAGAATATTTTTG
1 CAGAATATTTTTG
18995731 GTTGAGGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 7 0.26
20 9 0.33
21 11 0.41
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (20 bp):
CAGAATATTTTTGACTATTG
Found at i:19007821 original size:2 final size:2
Alignment explanation
Indices: 19007814--19007844 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19007804 ATTCACTATC
19007814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19007845 CACTAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19009141 original size:43 final size:41
Alignment explanation
Indices: 19009046--19009147 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 41
19009036 TTTAGTAGAG
* *
19009046 AAAAGAAGAGAAAAGGAATTTGGAAGACGAAAAGTCACATGGA
1 AAAAGAAGAGAAAA--AATTGGGAAGAAGAAAAGTCACATGGA
*
19009089 AAAAGAAGAGAAGAAAATTGGGAAGAAGAAAAGTGACCA-GGA
1 AAAAGAAGAGAA-AAAATTGGGAAGAAGAAAAGTCA-CATGGA
19009131 AAAAGAAAGAGAAAAAA
1 AAAAG-AAGAGAAAAAA
19009148 AAGAAGATTA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
42 30 0.57
43 21 0.40
44 2 0.04
ACGTcount: A:0.60, C:0.05, G:0.27, T:0.08
Consensus pattern (41 bp):
AAAAGAAGAGAAAAAATTGGGAAGAAGAAAAGTCACATGGA
Found at i:19021915 original size:22 final size:19
Alignment explanation
Indices: 19021890--19021931 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
19021880 TGATAATAAC
19021890 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
19021912 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
19021931 T
1 T
19021932 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:19021922 original size:16 final size:15
Alignment explanation
Indices: 19021890--19021928 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
19021880 TGATAATAAC
19021890 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
19021906 TTATTATAATATATAT
1 TAATTATAAT-TATAT
19021922 TAATTAT
1 TAATTAT
19021929 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:19023560 original size:3 final size:3
Alignment explanation
Indices: 19023552--19023577 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19023542 CAAGGATCTC
19023552 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
19023578 TCTCATGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19033789 original size:3 final size:3
Alignment explanation
Indices: 19033781--19033806 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19033771 CAAGGATCTC
19033781 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
19033807 TCTCATGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19039258 original size:2 final size:2
Alignment explanation
Indices: 19039247--19039279 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
19039237 TTGTGTTGTA
*
19039247 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19039280 GTTGTATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19041267 original size:14 final size:14
Alignment explanation
Indices: 19041248--19041285 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
19041238 GTCTTCTTTT
19041248 GAGTCCGCA-TATAA
1 GAGTCCGCATTA-AA
19041262 GAGTCCGCATTAAA
1 GAGTCCGCATTAAA
*
19041276 GAGTTCGCAT
1 GAGTCCGCAT
19041286 GATTATCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 20 0.91
15 2 0.09
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (14 bp):
GAGTCCGCATTAAA
Found at i:19042903 original size:27 final size:27
Alignment explanation
Indices: 19042871--19043190 Score: 376
Period size: 27 Copynumber: 11.9 Consensus size: 27
19042861 CACAAATTAT
*
19042871 CGAAATACCCCCGAAGGGTAAAATGAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
* * *
19042898 CAAAATACCCTCGAAGGTTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
*
19042925 CGAAATACCCCCAAAGGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
* *
19042952 CAAAATACGCCCGAAGGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
* * *
19042979 CGAAATAACCTCGAAGGGTAAAATGAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
* *
19043006 CGAAATACCCCTGAAAGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
**
19043033 TAAAATACCCCCG-AGGGTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
* * * * *
19043059 TGAAATACCCTCGAAGGCTAAAATAAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
*
19043086 CAAAATACCCCC-ATAGGGTAAAATGAC
1 CGAAATACCCCCGA-AGGGTAAAATGAC
* * *
19043113 CGAAATACCCTCGAGGGGTAAAATGAT
1 CGAAATACCCCCGAAGGGTAAAATGAC
* *
19043140 CGAAATACCCTCGAAGGTTAAAATGAC
1 CGAAATACCCCCGAAGGGTAAAATGAC
19043167 CGAAATACCCCCAGAA-GGTAAAAT
1 CGAAATACCCCC-GAAGGGTAAAAT
19043191 TACTATTATA
Statistics
Matches: 244, Mismatches: 45, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
26 24 0.10
27 216 0.89
28 4 0.02
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (27 bp):
CGAAATACCCCCGAAGGGTAAAATGAC
Found at i:19043010 original size:81 final size:80
Alignment explanation
Indices: 19042873--19043190 Score: 431
Period size: 81 Copynumber: 3.9 Consensus size: 80
19042863 CAAATTATCG
* *
19042873 AAATACCCCCGAAGGGTAAAATGATCAAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
1 AAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
19042938 AAGGGTAAAATGACCA
66 AA-GGTAAAATGACCA
* * * * *
19042954 AAATACGCCCGAAGGGTAAAATGACCGAAATAACCTCGAAGGGTAAAATGATCGAAATACCCCTG
1 AAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCC-C
*
19043019 AAAGGTAAAATGACTA
65 AAAGGTAAAATGACCA
* * * * *
19043035 AAATACCCCCG-AGGGTAAAATGACTGAAATACCCTCGAAGGCTAAAATAATCAAAATACCCCCA
1 AAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
* *
19043099 TAGGGTAAAATGACCG
66 -AAGGTAAAATGACCA
* * *
19043115 AAATACCCTCGAGGGGTAAAATGATCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
1 AAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
19043180 GAAGGTAAAAT
66 -AAGGTAAAAT
19043191 TACTATTATA
Statistics
Matches: 206, Mismatches: 28, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
79 1 0.00
80 68 0.33
81 134 0.65
82 3 0.01
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (80 bp):
AAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGACCGAAATACCCCCA
AAGGTAAAATGACCA
Found at i:19043421 original size:26 final size:26
Alignment explanation
Indices: 19043374--19043442 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
19043364 TTGCCACAAA
* * * *
19043374 TACTATTACTGGAAACTATGTTGCAT
1 TACTGTTACTGGCAGCTCTGTTGCAT
* *
19043400 TATTGTTACTGGCAGCTCTGTTGCGT
1 TACTGTTACTGGCAGCTCTGTTGCAT
*
19043426 TACTGTTATTGGCAGCT
1 TACTGTTACTGGCAGCT
19043443 ATGCCACGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTCTGTTGCAT
Found at i:19043629 original size:28 final size:28
Alignment explanation
Indices: 19043589--19043642 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
19043579 TTGTACTAAT
*
19043589 TACTGTATTGGGCTAAGGCCCACACTGC
1 TACTGAATTGGGCTAAGGCCCACACTGC
*
19043617 TACTGAATTGGGCTAAGGCCCTCACT
1 TACTGAATTGGGCTAAGGCCCACACT
19043643 ACACTATCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (28 bp):
TACTGAATTGGGCTAAGGCCCACACTGC
Found at i:19048140 original size:20 final size:20
Alignment explanation
Indices: 19048103--19048140 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19048093 TAGAAAAAAA
*
19048103 AAACATATCATATTAATAGC
1 AAACATATCATATCAATAGC
19048123 AAACATATC-TAATCAATA
1 AAACATATCAT-ATCAATA
19048141 ATTATGTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.29
Consensus pattern (20 bp):
AAACATATCATATCAATAGC
Found at i:19050226 original size:25 final size:26
Alignment explanation
Indices: 19050179--19050238 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
19050169 ATGTTTTAAT
*
19050179 AGGGGTAAAATCGTCATAATTTTACC
1 AGGGGTAAAATCATCATAATTTTACC
* *
19050205 AGGGGTAAAAT-ATCATATTTTTATC
1 AGGGGTAAAATCATCATAATTTTACC
*
19050230 GGGGGTAAA
1 AGGGGTAAA
19050239 TTTGGGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 19 0.63
26 11 0.37
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (26 bp):
AGGGGTAAAATCATCATAATTTTACC
Found at i:19056356 original size:31 final size:29
Alignment explanation
Indices: 19056321--19056397 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
19056311 CTAACGGCTC
* *
19056321 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAAC-ACGTCA-AACATA
* **
19056352 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACGTCAAACATA
19056381 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
19056398 CTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACGTCAAACATA
Found at i:19063870 original size:31 final size:31
Alignment explanation
Indices: 19063835--19063912 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
19063825 AAATGTGTTT
* *
19063835 TATACATTGTCGAATTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTCGTATATAGA
*
19063866 TATACATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTCGTATATAGA
* *
19063897 TATATATTACCGAATT
1 TATACATTGCCGAATT
19063913 AATTTGAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTCGTATATAGA
Found at i:19065501 original size:65 final size:67
Alignment explanation
Indices: 19065425--19065553 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 67
19065415 AATCTGACTT
* *
19065425 AGACATGTAATAATGTTGTA-CAAACTAAGACATAATTAATA-GACTTGAAACAACTAAA-AACA
1 AGACATGTAATAATGTTGCATCAAACTAAAACATAATTAATATGA-TTGAAACAACTAAAGAACA
19065487 ATC
65 ATC
** * *
19065490 AGACATGTAATAATGTTGCATGGAATTAAAACATAATTAATATGATTGAAATAACTAAAGAACA
1 AGACATGTAATAATGTTGCATCAAACTAAAACATAATTAATATGATTGAAACAACTAAAGAACA
19065554 TTTAAGTCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 19 0.35
66 30 0.55
67 6 0.11
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.26
Consensus pattern (67 bp):
AGACATGTAATAATGTTGCATCAAACTAAAACATAATTAATATGATTGAAACAACTAAAGAACAA
TC
Found at i:19079742 original size:76 final size:77
Alignment explanation
Indices: 19079615--19079773 Score: 302
Period size: 76 Copynumber: 2.1 Consensus size: 77
19079605 GCTATGAAAA
19079615 TTTCTTTGATTTCTAAGTGAAAATGTTGAATTTTAGGTGAGAGGACCAAATTGTAAAGAAAGCAA
1 TTTCTTTGATTTCTAAGTGAAAATGTTGAATTTTAGGTGAGAGGACCAAATTGTAAAGAAAGCAA
19079680 AACTTTCTTTCT
66 AACTTTCTTTCT
19079692 TTTCTTTGA-TTCTAAGTGAAAATGTTGAATTTTAGGTGAGAGGACCAAATTGTAAAGAAAGCAA
1 TTTCTTTGATTTCTAAGTGAAAATGTTGAATTTTAGGTGAGAGGACCAAATTGTAAAGAAAGCAA
19079756 AACTTTCTTTCT
66 AACTTTCTTTCT
*
19079768 TCTCTT
1 TTTCTT
19079774 CTCTTCTAAC
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
76 72 0.89
77 9 0.11
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (77 bp):
TTTCTTTGATTTCTAAGTGAAAATGTTGAATTTTAGGTGAGAGGACCAAATTGTAAAGAAAGCAA
AACTTTCTTTCT
Found at i:19084062 original size:20 final size:20
Alignment explanation
Indices: 19084039--19084145 Score: 81
Period size: 20 Copynumber: 5.3 Consensus size: 20
19084029 ATGTGAATTT
* *
19084039 AGGGGTACCGAAGTACAAGC
1 AGGGGTACCGAAGTGCAATC
* ** * *
19084059 AGGGGCACATATGTGCATTC
1 AGGGGTACCGAAGTGCAATC
19084079 AGGGGTACCGAAGTGCAATC
1 AGGGGTACCGAAGTGCAATC
* * *
19084099 AGGGGCA-CGTATGTGCATTC
1 AGGGGTACCG-AAGTGCAATC
* * *
19084119 AAGGGTACCGAAGTACAAAC
1 AGGGGTACCGAAGTGCAATC
19084139 AGGGGTA
1 AGGGGTA
19084146 TGAATGTGCA
Statistics
Matches: 63, Mismatches: 22, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
19 2 0.03
20 59 0.94
21 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.34, T:0.17
Consensus pattern (20 bp):
AGGGGTACCGAAGTGCAATC
Found at i:19084073 original size:40 final size:40
Alignment explanation
Indices: 19084010--19084278 Score: 259
Period size: 40 Copynumber: 6.7 Consensus size: 40
19084000 GAGTTATTGG
* * * *
19084010 AGTATAAACAGGGGCATGTATGTGAATTTAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* *
19084050 AGTACAAGCAGGGGCACATATGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * *
19084090 AGTGCAATCAGGGGCACGTATGTGCATTCAAGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * * * ***
19084130 AGTACAAACAGGGGTATGAATGTGCATTCAAGGGTATTAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * * * *
19084170 AGTACAACCAAGGGCACGAATGAGCATTCAGGGGTACTGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * * * * * *
19084210 AGTATAAACAGGGGTAGGAATGTGCATTTAGTGGTACCAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* **
19084250 AGTACAAACAGGGACACAAATGTGCATTC
1 AGTACAAACAGGGGCACGTATGTGCATTC
19084279 TTCAATAATT
Statistics
Matches: 187, Mismatches: 42, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 187 1.00
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.21
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
Found at i:19084128 original size:80 final size:80
Alignment explanation
Indices: 19084010--19084278 Score: 288
Period size: 80 Copynumber: 3.4 Consensus size: 80
19084000 GAGTTATTGG
* * * * * * * *
19084010 AGTATAAACAGGGGCATGTATGTGAATTTAGGGGTACCGAAGTACAAGCAGGGGCA-CATATGTG
1 AGTACAAACAGGGGCACGAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGTAGGA-ATGTG
*
19084074 CATTCAGGGGTACCGA
65 CATTCAGGGGTACCAA
* * * * *
19084090 AGTGCAATCAGGGGCACGTATGTGCATTCAAGGGTACCGAAGTACAAACAGGGGTATGAATGTGC
1 AGTACAAACAGGGGCACGAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGTAGGAATGTGC
* **
19084155 ATTCAAGGGTATTAA
66 ATTCAGGGGTACCAA
* * * * *
19084170 AGTACAACCAAGGGCACGAATGAGCATTCAGGGGTACTGAAGTATAAACAGGGGTAGGAATGTGC
1 AGTACAAACAGGGGCACGAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGTAGGAATGTGC
* *
19084235 ATTTAGTGGTACCAA
66 ATTCAGGGGTACCAA
* *
19084250 AGTACAAACAGGGACACAAATGTGCATTC
1 AGTACAAACAGGGGCACGAATGTGCATTC
19084279 TTCAATAATT
Statistics
Matches: 155, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
80 154 0.99
81 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.21
Consensus pattern (80 bp):
AGTACAAACAGGGGCACGAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGTAGGAATGTGC
ATTCAGGGGTACCAA
Found at i:19084164 original size:20 final size:20
Alignment explanation
Indices: 19084069--19084237 Score: 83
Period size: 20 Copynumber: 8.4 Consensus size: 20
19084059 AGGGGCACAT
19084069 ATGTGCATTCAGGGGTACCGA
1 ATGTGCATTCAGGGGTA-CGA
* * *
19084090 A-GTGCAATCAGGGGCACGT
1 ATGTGCATTCAGGGGTACGA
*
19084109 ATGTGCATTCAAGGGTACCGA
1 ATGTGCATTCAGGGGTA-CGA
* ** *
19084130 A-GTACAAACAGGGGTATGA
1 ATGTGCATTCAGGGGTACGA
* **
19084149 ATGTGCATTCAAGGGTATTA
1 ATGTGCATTCAGGGGTACGA
* * ** * *
19084169 AAGTACAACCAAGGGCACGA
1 ATGTGCATTCAGGGGTACGA
*
19084189 ATGAGCATTCAGGGGTACTGA
1 ATGTGCATTCAGGGGTAC-GA
** ** *
19084210 A-GTATAAACAGGGGTAGGA
1 ATGTGCATTCAGGGGTACGA
19084229 ATGTGCATT
1 ATGTGCATT
19084238 TAGTGGTACC
Statistics
Matches: 102, Mismatches: 41, Indels: 11
0.66 0.27 0.07
Matches are distributed among these distances:
19 9 0.09
20 86 0.84
21 7 0.07
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (20 bp):
ATGTGCATTCAGGGGTACGA
Found at i:19084680 original size:39 final size:39
Alignment explanation
Indices: 19084631--19084713 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
19084621 GAATCAAATT
19084631 ACATCCGATTATTCTAGGCCCTTTAACAGTCCCTATTAC
1 ACATCCGATTATTCTAGGCCCTTTAACAGTCCCTATTAC
*
19084670 ACATCCGATTATTCTAGGCCCTTTAACAGTCTCTATTAC
1 ACATCCGATTATTCTAGGCCCTTTAACAGTCCCTATTAC
19084709 ACATC
1 ACATC
19084714 GAATTCACTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.34
Consensus pattern (39 bp):
ACATCCGATTATTCTAGGCCCTTTAACAGTCCCTATTAC
Found at i:19088694 original size:2 final size:2
Alignment explanation
Indices: 19088687--19088713 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19088677 AAAAGAATCA
19088687 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
19088714 AAGATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19095624 original size:129 final size:130
Alignment explanation
Indices: 19095468--19095728 Score: 515
Period size: 129 Copynumber: 2.0 Consensus size: 130
19095458 ATAATTATAA
19095468 ATGTTTATTAAAAATCTAATTAAATTTTAACTTAATTACTTTCAATTTTCGCTCATAATTAAATA
1 ATGTTTATTAAAAATCTAATTAAATTTTAACTTAATTACTTTCAATTTTCGCTCATAATTAAATA
19095533 TTAAATTATTTATACTTTATAACTCTTAATGTGTAATAACAAAAAAAAAACACTCGTTAATAATG
66 TTAAATTATTTATACTTTATAACTCTTAATGTGTAATAACAAAAAAAAAACACTCGTTAATAATG
19095598 ATGTTTATT-AAAATCTAATTAAATTTTAACTTAATTACTTTCAATTTTCGCTCATAATTAAATA
1 ATGTTTATTAAAAATCTAATTAAATTTTAACTTAATTACTTTCAATTTTCGCTCATAATTAAATA
19095662 TTAAATTATTTATACTTTATAACTCTTAATGTGTAATAACAAAAAAAAAACACTCGTTAATAATG
66 TTAAATTATTTATACTTTATAACTCTTAATGTGTAATAACAAAAAAAAAACACTCGTTAATAATG
19095727 AT
1 AT
19095729 AACTAAAACA
Statistics
Matches: 131, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
129 122 0.93
130 9 0.07
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.42
Consensus pattern (130 bp):
ATGTTTATTAAAAATCTAATTAAATTTTAACTTAATTACTTTCAATTTTCGCTCATAATTAAATA
TTAAATTATTTATACTTTATAACTCTTAATGTGTAATAACAAAAAAAAAACACTCGTTAATAATG
Found at i:19107555 original size:21 final size:20
Alignment explanation
Indices: 19107529--19107584 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
19107519 GTACTATGCA
19107529 AATGAAACGGGTAAGAAAAGG
1 AATGAAAC-GGTAAGAAAAGG
* *
19107550 AATGAAACATGCAAGAAAAGG
1 AATGAAAC-GGTAAGAAAAGG
*
19107571 AATGGAACGGTAAG
1 AATGAAACGGTAAG
19107585 TGACTAACTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.52, C:0.07, G:0.30, T:0.11
Consensus pattern (20 bp):
AATGAAACGGTAAGAAAAGG
Found at i:19109454 original size:37 final size:37
Alignment explanation
Indices: 19109368--19109457 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 37
19109358 TATAATAAAG
* *
19109368 GTTAGCTGATTTAAGATCACAACCTAAAGTTTTTTGA
1 GTTAGCTGATTTAAGAACACAACCTAAAGTTTCTTGA
* *
19109405 CTTAACTGATTTAAGAACACAACCTAAA-TTTCCTTGA
1 GTTAGCTGATTTAAGAACACAACCTAAAGTTT-CTTGA
*
19109442 GTTAGCTAATTTAAGA
1 GTTAGCTGATTTAAGA
19109458 TCGCAACTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 3 0.07
37 42 0.93
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (37 bp):
GTTAGCTGATTTAAGAACACAACCTAAAGTTTCTTGA
Found at i:19111386 original size:50 final size:50
Alignment explanation
Indices: 19111328--19111472 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 50
19111318 GGACATGATT
* *
19111328 ATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCGTTGGCACCCAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCCAG
** * * *
19111378 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCCAG
** * * *
19111428 ATGAGAACTCGCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19111473 GTACAGAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCCAG
Found at i:19113378 original size:34 final size:34
Alignment explanation
Indices: 19113340--19113570 Score: 284
Period size: 34 Copynumber: 6.8 Consensus size: 34
19113330 TTTTAAACAT
* * * *
19113340 ATTTGGCCATCATTGTAACATGCATAAA-AGCCAC
1 ATTTGGACAACATTATAACATGCA-AAACAACCAC
* * * *
19113374 ATTTGGACATCATTATAACATACAAAACAGCCGC
1 ATTTGGACAACATTATAACATGCAAAACAACCAC
* *
19113408 ATTTGGACAACATTTTAATATGCAAAACAACCAC
1 ATTTGGACAACATTATAACATGCAAAACAACCAC
* * *
19113442 ATTTGAAGAACATTAAAACATGCAAAACAACCAC
1 ATTTGGACAACATTATAACATGCAAAACAACCAC
* *
19113476 ATTTGGACACCATTAAAACATGCAAAACAACCAC
1 ATTTGGACAACATTATAACATGCAAAACAACCAC
* *
19113510 ATTTGGACAGCATTATAATATGCAAAACAACCAC
1 ATTTGGACAACATTATAACATGCAAAACAACCAC
*
19113544 ATTTGGACAACATTATAACATGAAAAA
1 ATTTGGACAACATTATAACATGCAAAA
19113571 ATTCAGCAGC
Statistics
Matches: 172, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
33 3 0.02
34 169 0.98
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (34 bp):
ATTTGGACAACATTATAACATGCAAAACAACCAC
Found at i:19118307 original size:23 final size:23
Alignment explanation
Indices: 19118250--19118307 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
19118240 GGTTATATTG
19118250 GTGAAATTGATTGAATGTTCAATA
1 GTGAAA-TGATTGAATGTTCAATA
* *
19118274 G-GAGAAGGATTGAATGTTTACA-A
1 GTGA-AATGATTGAATGTTCA-ATA
19118297 GTGAAATGATT
1 GTGAAATGATT
19118308 ACTTAGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (23 bp):
GTGAAATGATTGAATGTTCAATA
Found at i:19120503 original size:26 final size:27
Alignment explanation
Indices: 19120474--19120527 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
19120464 TTGTTAAAAC
* * *
19120474 TCTTCTAAAAGAAACTC-AAGAGAATT
1 TCTTCAAAAAAAAACTCAAAAAGAATT
*
19120500 TCTTGAAAAAAAAACTCAAAAAGAATT
1 TCTTCAAAAAAAAACTCAAAAAGAATT
19120527 T
1 T
19120528 ATTAACTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (27 bp):
TCTTCAAAAAAAAACTCAAAAAGAATT
Found at i:19121282 original size:23 final size:23
Alignment explanation
Indices: 19121256--19121302 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
19121246 CTTTTAATAG
*
19121256 ATTGGAGTAATATGTATTTTCTC
1 ATTGGAGTAATATATATTTTCTC
19121279 ATTGGAGTAATATATATTTTCTC
1 ATTGGAGTAATATATATTTTCTC
19121302 A
1 A
19121303 GTTTAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (23 bp):
ATTGGAGTAATATATATTTTCTC
Found at i:19128995 original size:24 final size:20
Alignment explanation
Indices: 19128941--19128987 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
19128931 ATGAAGAATC
*
19128941 TTCAAGTTCTTTAATAAATA
1 TTCATGTTCTTTAATAAATA
19128961 TTCATGTTCTTTAATAAATA
1 TTCATGTTCTTTAATAAATA
19128981 TTCATGT
1 TTCATGT
19128988 AAATTCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (20 bp):
TTCATGTTCTTTAATAAATA
Found at i:19129208 original size:43 final size:43
Alignment explanation
Indices: 19129147--19129238 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
19129137 TTTAACCATA
* **
19129147 CTAATATATGCATAGTACAAACTAGATGAAAGATTATAATTTT
1 CTAATATATGCATAGTACAAACTAGAGGAAAGACGATAATTTT
*
19129190 CTAATATATGCATAGTACAAACTAGAGGGAAGACGATAATTTT
1 CTAATATATGCATAGTACAAACTAGAGGAAAGACGATAATTTT
19129233 CTAATA
1 CTAATA
19129239 CAAAATTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (43 bp):
CTAATATATGCATAGTACAAACTAGAGGAAAGACGATAATTTT
Found at i:19130364 original size:12 final size:13
Alignment explanation
Indices: 19130342--19130370 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19130332 ATGATACCCA
19130342 CTTTAGTGAATAT
1 CTTTAGTGAATAT
19130355 CTTT-GTGAATAT
1 CTTTAGTGAATAT
19130367 CTTT
1 CTTT
19130371 TAAAACTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (13 bp):
CTTTAGTGAATAT
Found at i:19131283 original size:15 final size:15
Alignment explanation
Indices: 19131253--19131286 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19131243 AAAAAAATCA
**
19131253 TAATTAATTATGAAT
1 TAATTAATTAAAAAT
19131268 TAATTAATTAAAAAT
1 TAATTAATTAAAAAT
19131283 TAAT
1 TAAT
19131287 AAAATATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TAATTAATTAAAAAT
Found at i:19131472 original size:14 final size:14
Alignment explanation
Indices: 19131453--19131492 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
19131443 TTGATAGCCA
19131453 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
19131467 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
19131481 GGAAAATGTTTT
1 GTAAAATGTTTT
19131493 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:19131501 original size:20 final size:20
Alignment explanation
Indices: 19131476--19131515 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19131466 CGTAAAATGA
*
19131476 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
19131496 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
19131516 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:19131505 original size:34 final size:35
Alignment explanation
Indices: 19131461--19131527 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
19131451 CAGTAAAATG
*
19131461 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
19131495 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
19131528 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:19131531 original size:14 final size:15
Alignment explanation
Indices: 19131455--19131531 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
19131445 GATAGCCAGT
* *
19131455 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
19131469 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
19131483 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
19131503 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
19131518 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
19131532 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:19142294 original size:5 final size:5
Alignment explanation
Indices: 19142284--19142309 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
19142274 TGAGCATTCG
19142284 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
19142310 AATTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:19143107 original size:9 final size:9
Alignment explanation
Indices: 19143093--19143129 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
19143083 TATAGTTTGA
19143093 TATTCGAAT
1 TATTCGAAT
19143102 TATTCGAAT
1 TATTCGAAT
*
19143111 TATTCGAGT
1 TATTCGAAT
19143120 TATTCGAAT
1 TATTCGAAT
19143129 T
1 T
19143130 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19143200 original size:9 final size:9
Alignment explanation
Indices: 19143183--19143213 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19143173 TCGAGTTGAT
19143183 TCGAATAAC
1 TCGAATAAC
*
19143192 TCGATTAAC
1 TCGAATAAC
19143201 TCGAATAAC
1 TCGAATAAC
19143210 TCGA
1 TCGA
19143214 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:19144327 original size:82 final size:82
Alignment explanation
Indices: 19144190--19144354 Score: 296
Period size: 82 Copynumber: 2.0 Consensus size: 82
19144180 ATTTGGATTG
*
19144190 AATTGAATAGATTAATGATTAAATGAGTTAAATTTGTTAAATTTGATCAAGAAAAACAACGTACA
1 AATTGAATAGATTAATGATTAAATGAGTTAAATTTGTTAAATTAGATCAAGAAAAACAACGTACA
19144255 GAATTAAATCAGGGAAA
66 GAATTAAATCAGGGAAA
*
19144272 AATTGAATAGATTAATGATTAAATGAGTTAAATTTGGTTATA-TAGATCAAGAAAAACAACGTAC
1 AATTGAATAGATTAATGATTAAATGAGTTAAATTT-GTTAAATTAGATCAAGAAAAACAACGTAC
19144336 AGAATTAAATCAGGGAAA
65 AGAATTAAATCAGGGAAA
19144354 A
1 A
19144355 GATAAAGTTT
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
82 75 0.94
83 5 0.06
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.28
Consensus pattern (82 bp):
AATTGAATAGATTAATGATTAAATGAGTTAAATTTGTTAAATTAGATCAAGAAAAACAACGTACA
GAATTAAATCAGGGAAA
Found at i:19147700 original size:18 final size:17
Alignment explanation
Indices: 19147672--19147705 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19147662 CATATTCATA
19147672 TGTCTGTAAGAATTTAG
1 TGTCTGTAAGAATTTAG
*
19147689 TGTCTAGTAAGAGTTTA
1 TGTCT-GTAAGAATTTA
19147706 CCGGTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (17 bp):
TGTCTGTAAGAATTTAG
Found at i:19154309 original size:25 final size:25
Alignment explanation
Indices: 19154281--19154402 Score: 70
Period size: 25 Copynumber: 4.8 Consensus size: 25
19154271 TTGTATATTG
19154281 GGAAGCTCATAAGAGCCATAAATCA
1 GGAAGCTCATAAGAGCCATAAATCA
** * *
19154306 GGAAGCTCATGCGAGCCA-ATTATCG
1 GGAAGCTCATAAGAGCCATA-AATCA
* *
19154331 GGAATG-TCA-AGAGAGCCATTAATCG
1 GGAA-GCTCATA-AGAGCCATAAATCA
** * *
19154356 GGAAGCTCATGAAAGAGCTTTTAATTA
1 GGAAGCTCAT--AAGAGCCATAAATCA
* *
19154383 GGAAACTCGTAAGAGCCATA
1 GGAAGCTCATAAGAGCCATA
19154403 TGTTGGGATG
Statistics
Matches: 72, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
24 2 0.03
25 50 0.69
26 1 0.01
27 18 0.25
28 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (25 bp):
GGAAGCTCATAAGAGCCATAAATCA
Found at i:19154447 original size:25 final size:25
Alignment explanation
Indices: 19154419--19154513 Score: 77
Period size: 24 Copynumber: 3.9 Consensus size: 25
19154409 GATGGTCCTT
19154419 AGAGCTAAATAACGGGAAGCTCATG
1 AGAGCTAAATAACGGGAAGCTCATG
* * * * *
19154444 AGAGCCAAATATCAGAAAGCTCAAG
1 AGAGCTAAATAACGGGAAGCTCATG
* ** * *
19154469 AGAGC-CAATGTCGAGATGCTCATG
1 AGAGCTAAATAACGGGAAGCTCATG
*
19154493 AGAGCT-AATAACGGGACGCTC
1 AGAGCTAAATAACGGGAAGCTC
19154514 TTGTGAGTTG
Statistics
Matches: 53, Mismatches: 16, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
24 28 0.53
25 25 0.47
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (25 bp):
AGAGCTAAATAACGGGAAGCTCATG
Found at i:19163358 original size:116 final size:116
Alignment explanation
Indices: 19163154--19163389 Score: 454
Period size: 116 Copynumber: 2.0 Consensus size: 116
19163144 TTTAAAAGGG
*
19163154 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGTATGAAT
1 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGCATGAAT
19163219 CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
66 CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
19163270 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGCATGAAT
1 AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGCATGAAT
*
19163335 CTGCAAATCTCATACAACTAAATGTAATACTAGTCATTATGTGGGGGTGGA
66 CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
19163386 AATT
1 AATT
19163390 CTTTTCTCGG
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (116 bp):
AATTATATTTGAATTGATTAGAAGATTACTTATTTGAAAATTAAAACTAATACTTAAGCATGAAT
CTGCAAATCTCATACAACTAAATGTAATACTAGTCACTATGTGGGGGTGGA
Found at i:19165173 original size:31 final size:31
Alignment explanation
Indices: 19165132--19165191 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
19165122 TACCCGTTAT
*
19165132 AGAGAGAATATGTTCAAAAATAGAAAGAAGG
1 AGAGAGAATATGTTCAAAAATAAAAAGAAGG
*
19165163 AGAGATAATATGTTCAAAAATAAAAAGAA
1 AGAGAGAATATGTTCAAAAATAAAAAGAA
19165192 AGAAAGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.58, C:0.03, G:0.20, T:0.18
Consensus pattern (31 bp):
AGAGAGAATATGTTCAAAAATAAAAAGAAGG
Found at i:19165370 original size:32 final size:31
Alignment explanation
Indices: 19165318--19165392 Score: 105
Period size: 32 Copynumber: 2.4 Consensus size: 31
19165308 TAACAAGTTC
* * *
19165318 AATTAATTTATATGAGTTATTTAATTTAATT
1 AATTAATTTATATGAGTTATTAAATTCAAGT
19165349 AATTAATTTATCATGAGTTATTAAATTCAAGT
1 AATTAATTTAT-ATGAGTTATTAAATTCAAGT
*
19165381 AATCAATTTATA
1 AATTAATTTATA
19165393 AATTTATGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 12 0.31
32 27 0.69
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (31 bp):
AATTAATTTATATGAGTTATTAAATTCAAGT
Found at i:19165371 original size:18 final size:17
Alignment explanation
Indices: 19165319--19165372 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
19165309 AACAAGTTCA
19165319 ATTAATTTATATGAGTT
1 ATTAATTTATATGAGTT
*
19165336 ATTTAATTTA-AT---TA
1 A-TTAATTTATATGAGTT
19165350 ATTAATTTATCATGAGTT
1 ATTAATTTAT-ATGAGTT
19165368 ATTAA
1 ATTAA
19165373 ATTCAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
13 8 0.28
14 2 0.07
15 2 0.07
17 3 0.10
18 14 0.48
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (17 bp):
ATTAATTTATATGAGTT
Found at i:19169308 original size:49 final size:47
Alignment explanation
Indices: 19169229--19169371 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 47
19169219 AAAAAGTGAT
* * * * * *
19169229 ATGGGCCACTGGTAAGGCATGTCAGCTGCTAACAATAATGGCGGATGA
1 ATGGACCACTAGTAGGGCATGTTAGTTGCTAACAAGAATGGCGGAT-A
* * *
19169277 GATGGACCACTAGTAGGGCATGTTAGTTGCTAACCAGACTGACGGATA
1 -ATGGACCACTAGTAGGGCATGTTAGTTGCTAACAAGAATGGCGGATA
* * *
19169325 AGGGATCACTAATAGGGCATGTTAGTTGCTAA-ACAGAATGGCGGATA
1 ATGGACCACTAGTAGGGCATGTTAGTTGCTAACA-AGAATGGCGGATA
19169372 TGTCGGGTCA
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
47 40 0.51
48 1 0.01
49 37 0.47
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (47 bp):
ATGGACCACTAGTAGGGCATGTTAGTTGCTAACAAGAATGGCGGATA
Found at i:19170635 original size:27 final size:26
Alignment explanation
Indices: 19170596--19170656 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
19170586 TCTTTGTATT
* *
19170596 TTTGAAAACATTTTATTTTTCTCAATA
1 TTTGAAAACA-TTTAGTTTTCTCAACA
* *
19170623 TTTGAGAATATTTAGTTTTCTCAACA
1 TTTGAAAACATTTAGTTTTCTCAACA
19170649 TTTGAAAA
1 TTTGAAAA
19170657 TTAGAGAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (26 bp):
TTTGAAAACATTTAGTTTTCTCAACA
Found at i:19172503 original size:25 final size:25
Alignment explanation
Indices: 19172475--19172557 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
19172465 GGACACACCA
* * *
19172475 CAGCTAGTATGAGCTTACCGATT-T
1 CAGCTCGTATGAGTTTACTGATTCT
19172499 GCAGCTCGTGA-GAGTTTACTGATTCT
1 -CAGCTCGT-ATGAGTTTACTGATTCT
*
19172525 CAGCTCGTATGAGTTTACTGATTCA
1 CAGCTCGTATGAGTTTACTGATTCT
*
19172550 CAACTCGT
1 CAGCTCGT
19172558 GAGAGCATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.02
25 47 0.94
26 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (25 bp):
CAGCTCGTATGAGTTTACTGATTCT
Found at i:19172573 original size:50 final size:51
Alignment explanation
Indices: 19172475--19172588 Score: 117
Period size: 50 Copynumber: 2.3 Consensus size: 51
19172465 GGACACACCA
** * **
19172475 CAGCTAGTATGAGCTTACCGATTTGCAGCTCGTGAGAGTTTACTGATTC-T
1 CAGCTAGTATGAGCTTACCGATTCACAACTCGTGAGAGCATACTGATTCAT
* * *
19172525 CAGCTCGTATGAGTTTACTGATTCACAACTCGTGAGAGCATA-TCGATTCAT
1 CAGCTAGTATGAGCTTACCGATTCACAACTCGTGAGAGCATACT-GATTCAT
*
19172576 -AGCTTGTATGAGC
1 CAGCTAGTATGAGC
19172589 ATACATGTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.02
50 50 0.96
51 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (51 bp):
CAGCTAGTATGAGCTTACCGATTCACAACTCGTGAGAGCATACTGATTCAT
Found at i:19172779 original size:30 final size:30
Alignment explanation
Indices: 19172740--19172801 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
19172730 TACATGGAAT
19172740 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
19172771 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
19172800 AC
1 AC
19172802 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:19173968 original size:112 final size:113
Alignment explanation
Indices: 19173834--19174059 Score: 420
Period size: 112 Copynumber: 2.0 Consensus size: 113
19173824 TTAATCAGAA
19173834 GTGTTTTTGAAAAGCGCTTTTGAACCCAAAAGCAAAACCTTTTTTTTTTAGCTTATGTTTTTGGC
1 GTGTTTTTG-AAAGCGCTTTTGAACCCAAAAGCAAAACCTTTTTTTTTTAGCTTATGTTTTTGGC
19173899 AAAACCGCTTTTAGAAACAATGATAATAT-TATATATTTAAAATTTTTAT
65 AAAACCGCTTTTAGAAACAATGATAATATAT-TATATTTAAAATTTTTAT
19173948 GTGTTTTTG-AAGCGCTTTTGAACCCAAAAGCAAAACCTTTTTTTTTTAGCTTATGTTTTTGGCA
1 GTGTTTTTGAAAGCGCTTTTGAACCCAAAAGCAAAACCTTTTTTTTTTAGCTTATGTTTTTGGCA
19174012 AAACCGCTTTTAGAAACAATGATAATATATTATATTTAAAATTTTTAT
66 AAACCGCTTTTAGAAACAATGATAATATATTATATTTAAAATTTTTAT
19174060 TAGTTATATT
Statistics
Matches: 111, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
112 101 0.91
113 1 0.01
114 9 0.08
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (113 bp):
GTGTTTTTGAAAGCGCTTTTGAACCCAAAAGCAAAACCTTTTTTTTTTAGCTTATGTTTTTGGCA
AAACCGCTTTTAGAAACAATGATAATATATTATATTTAAAATTTTTAT
Found at i:19178620 original size:27 final size:26
Alignment explanation
Indices: 19178581--19178641 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
19178571 TCTTTGTATT
* *
19178581 TTTGAAAACATTTTATTTTTCTCAATA
1 TTTGAAAACA-TTTAGTTTTCTCAACA
* *
19178608 TTTGAGAATATTTAGTTTTCTCAACA
1 TTTGAAAACATTTAGTTTTCTCAACA
19178634 TTTGAAAA
1 TTTGAAAA
19178642 TTAGAGAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (26 bp):
TTTGAAAACATTTAGTTTTCTCAACA
Found at i:19180488 original size:25 final size:25
Alignment explanation
Indices: 19180460--19180542 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
19180450 GGACACACCA
* * *
19180460 CAGCTAGTATGAGCTTACCGATT-T
1 CAGCTCGTATGAGTTTACTGATTCT
19180484 GCAGCTCGTGA-GAGTTTACTGATTCT
1 -CAGCTCGT-ATGAGTTTACTGATTCT
*
19180510 CAGCTCGTATGAGTTTACTGATTCA
1 CAGCTCGTATGAGTTTACTGATTCT
*
19180535 CAACTCGT
1 CAGCTCGT
19180543 GAGAGCATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.02
25 47 0.94
26 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (25 bp):
CAGCTCGTATGAGTTTACTGATTCT
Found at i:19180558 original size:50 final size:51
Alignment explanation
Indices: 19180460--19180573 Score: 117
Period size: 50 Copynumber: 2.3 Consensus size: 51
19180450 GGACACACCA
** * **
19180460 CAGCTAGTATGAGCTTACCGATTTGCAGCTCGTGAGAGTTTACTGATTC-T
1 CAGCTAGTATGAGCTTACCGATTCACAACTCGTGAGAGCATACTGATTCAT
* * *
19180510 CAGCTCGTATGAGTTTACTGATTCACAACTCGTGAGAGCATA-TCGATTCAT
1 CAGCTAGTATGAGCTTACCGATTCACAACTCGTGAGAGCATACT-GATTCAT
*
19180561 -AGCTTGTATGAGC
1 CAGCTAGTATGAGC
19180574 ATACATGTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.02
50 50 0.96
51 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (51 bp):
CAGCTAGTATGAGCTTACCGATTCACAACTCGTGAGAGCATACTGATTCAT
Found at i:19180764 original size:30 final size:30
Alignment explanation
Indices: 19180725--19180786 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
19180715 TACATGGAAT
19180725 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
19180756 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
19180785 AC
1 AC
19180787 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Done.