Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 103 of 135
Found at i:38239502 original size:19 final size:19
Alignment explanation
Indices: 38239462--38239507 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
38239452 CTTATATTGC
* *
38239462 TATAATATATAAATATATA
1 TATAATATATAAATAAACA
38239481 TATAAT-TACTAAATAAACA
1 TATAATATA-TAAATAAACA
38239500 TAT-ATATA
1 TATAATATA
38239508 CCCTATATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
TATAATATATAAATAAACA
Found at i:38245450 original size:44 final size:44
Alignment explanation
Indices: 38245368--38245456 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
38245358 TATCTTGGAC
* * *
38245368 AGATAAGATTTGCCGTCTTCAATCTGCTCTACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAACCTACTCTACTACTGCTCAGGG
* *
38245412 AGATAAGATTTGCCGTCTTCAACCTACATC-GCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAACCTAC-TCTACTACTGCTCAGGG
38245456 A
1 A
38245457 CACAAGGCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 37 0.95
45 2 0.05
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCAACCTACTCTACTACTGCTCAGGG
Found at i:38245477 original size:132 final size:132
Alignment explanation
Indices: 38245317--38245643 Score: 485
Period size: 132 Copynumber: 2.5 Consensus size: 132
38245307 CCACTACAAC
* ** *
38245317 CTCAGGGAGACAAGGTTTGGTGGCTTAAATCTGCTTTGCACTATCTTGGACAGATAAGATTTGCC
1 CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
* * * * *
38245382 GTCTTCAATCTGCTCTACTACTGCTTAGGGAGATAAGATTTGCCGTCTTCAACCTAC-ATCGCTG
66 GTCTTCAATCTGCTCCACTACTGCTCAAGGAGATAAGATCTGCCATCTTCAACCTACTA-CGCTG
38245446 CTG
130 CTG
* * * *
38245449 CTCAGGGACACAAGGCTTGGTGGTTTAAATCTGCTTCCCACTATCTTGGAAATATAAGATTTGTC
1 CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
* * *
38245514 GTCTTCGATCTGCTCCACTACTGCTCAAGGAGATAAGATCTGCTATCTTCAACCTGCTACGCTGC
66 GTCTTCAATCTGCTCCACTACTGCTCAAGGAGATAAGATCTGCCATCTTCAACCTACTACGCTGC
38245579 TG
131 TG
*
38245581 CTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTG
1 CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTG
38245644 NNNNNNNNNN
Statistics
Matches: 174, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
132 173 0.99
133 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (132 bp):
CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
GTCTTCAATCTGCTCCACTACTGCTCAAGGAGATAAGATCTGCCATCTTCAACCTACTACGCTGC
TG
Found at i:38246052 original size:132 final size:132
Alignment explanation
Indices: 38245815--38249117 Score: 4957
Period size: 132 Copynumber: 25.1 Consensus size: 132
38245805 NNNNNNNNNN
* *
38245815 ATCTTCAACCTGCTTCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
*
38245880 ATCTTGGAAAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38245945 CT
131 CT
* * * *
38245947 ATCTTCAACCTCCTCCACTCCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCAGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * *
38246012 ATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38246077 CT
131 CT
* * *
38246079 ATCTTCAACCTATTCCGCTGCTGCTGAGGGAGACAAGGCTTGGTGGTTTAAATCTGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * *
38246144 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTCAGGCAGATAAGATCTA
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38246209 CT
131 CT
* * *
38246211 ATCTCCAACCTGCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCTCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * *
38246276 ATCTTGAAAAGATAAGATTTGCCGTCTTCGATCGGCTCCACTACTGCTCAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38246341 CT
131 CT
* * *
38246343 ATCTTCAACATGCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAAACTGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* *
38246408 ATCTTGGAAAGATAAGATTTGCCCTCTTCGATCTGCTCCACTACTGCTAAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38246473 CT
131 CT
* * * * * * * *
38246475 ATCTTCAACATACTCCGTTGCTGTTCAGGGAGAGAAGGCTTGATGGTTTAAATCTGTTTCCCATT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
38246540 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38246605 CT
131 CT
* *
38246607 ATCTCCAACCTGCTCTC-CTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCAC
1 ATCTTCAACCTACTC-CGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCAC
* * * *
38246671 TATCTAGGAAAGATAAGATTTGCCATCTTCGATCTGCTCCAGTACTGCTTAGGGAGATAAGATTT
65 TATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
38246736 GCT
130 GCT
* *
38246739 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTAGGTGGCTTAAATATGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * * *
38246804 ATCTTGGAAAGATAAGATTTACCGTTTTTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
*
38246869 TT
131 CT
* * * * *
38246871 ATCTTTAACCTACTCTC-CTGCTGCTCAGGGAGAAAATGCTTGGTGGTTTAAATCTGCTTCCAAC
1 ATCTTCAACCTACTC-CGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCAC
* ** * *
38246935 TATCTTGGAAAGATAAGATTTACCGTCTTTTATGTGCTCCACTACTGCTCAGGGAGATAAGATCT
65 TATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
38247000 GCT
130 GCT
* *
38247003 ATCTTCAACCTGCTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * *
38247068 ATCTTGGAAAGATGAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTCAGGGAGACAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38247133 CT
131 CT
* ** *
38247135 ATCTCCAACCTGTTCCGCTGCTGCTCTGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * * *
38247200 ATCTTGGAAAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGTTTAAGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38247265 CT
131 CT
* * * * *
38247267 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGTTTAAATATACTTCCAACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * * ** * *
38247332 ATATTGGAAAGATAAGATTTACTGTCTTTTATGTGCTCCACTACTGCTCAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38247397 CT
131 CT
* * * * * *
38247399 ATCCTAAACCTGCTCCGCTGCTGCTCAAGAAGACAAAGCTTGGTGGCTTAAATCTGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * *
38247464 ATCTTGGAAAGATAAGATTTGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38247529 CT
131 CT
* * * * * *
38247531 ATCTTCATCTTACTCCGCTGTTGCTCAGGGGGACAAGGCTTGGTGGCTTAAATCTACTTTCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * * * *
38247596 ATCTTGGAAAGATAAGATTTGCAGTCTTTGATCTGCTCTACTACTACTTAGGGAGATAAGATCTA
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38247661 CT
131 CT
* * *
38247663 ATCTTCAACCTACTCTGCTGCTGCTCAGGGAGACAAGGCTTGGTGGTTTAAATCTGCTTCTCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
*
38247728 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATGTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38247793 CT
131 CT
* * *
38247795 ATCTCCAACCTGCTCCGCTGCTGCTCAGGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* *
38247860 ATCTTGGAAAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38247925 CT
131 CT
** * * *
38247927 ATCTTCAACCTACTCATCTGTTGCTCAGGGAGACAGGGCTTGGTGGCTTAAATCTACTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
*
38247992 ATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38248057 CT
131 CT
* * *
38248059 ATCTTCAACCTACTCTGCTGCTGCTCAGGGAGACAAGGCTTGGTGGTTTAAATCTGCTTCTCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * * * *
38248124 ATATTTGAAAGATAAGATTTGCCGTCATCGATTTGCTCCACTACTTCTTAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38248189 CT
131 CT
* * * * *
38248191 ATCTTCAACTTGCTCCACTGCTGCTCAGGGAGACAAGGCTTGGGGGCTTAAATCTGGTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* *
38248256 ATCTTAGG-AAGATAAGATTTGCCGTCTTCGACCTGCTCCACTACTGATTAGGGAGATAAGATCT
66 ATCTT-GGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
38248320 GCT
130 GCT
* * *
38248323 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTTGTTTAAATTTGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * * *
38248388 ATCTTGGAAAGATAAGATTTGCCGTCTT-TATCTGCTTCACTACT-ATTAGGGAGATGAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38248451 CT
131 CT
* * * * *
38248453 ATCTTCAACTTGCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGTTTAAATCTGCTTCTCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * * * *
38248518 ATATTTGAAAGATAAGATTTGCCGTCATCGATTTGCTCCACTACTTCTTAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38248583 CT
131 CT
* *
38248585 ATCTTCAACCTACTCCACTGCTGGTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* *
38248650 ATCTTAGG-AAGATAAGATTTGCCGTCTTCGACCTGCTCCACTACTGATTAGGGAGATAAGATCT
66 ATCTT-GGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
38248714 GCT
130 GCT
* * *
38248717 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTTGTTTAAATTTGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * * *
38248782 ATCTTGGAAAGATAAGATTTGCCGTCTT-TATCTGCTTCACTACT-ATTAGGGAGATAAGATCTA
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38248845 CT
131 CT
* * *
38248847 ATCTTCAACTTGCTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * * *
38248912 ATCTTGGAAAGATAAGATTTGCCATATCCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38248977 CT
131 CT
* *
38248979 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTTCCAAT
1 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* * *
38249044 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATTTGCCCCACTACTGCTTAGGGAGATAAGATATG
66 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
38249109 CT
131 CT
38249111 ATCTTCA
1 ATCTTCA
38249118 CTGATCTATT
Statistics
Matches: 2857, Mismatches: 302, Indels: 24
0.90 0.09 0.01
Matches are distributed among these distances:
130 208 0.07
131 59 0.02
132 2586 0.91
133 4 0.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (132 bp):
ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
CT
Found at i:38261338 original size:10 final size:10
Alignment explanation
Indices: 38261323--38261349 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38261313 ATTTGTATAT
38261323 AAATAAAATG
1 AAATAAAATG
38261333 AAATAAAATG
1 AAATAAAATG
38261343 AAATAAA
1 AAATAAA
38261350 TGTGAATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (10 bp):
AAATAAAATG
Found at i:38262328 original size:10 final size:10
Alignment explanation
Indices: 38262313--38262339 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
38262303 AAGCGTATAT
38262313 AAATAAAATG
1 AAATAAAATG
38262323 AAATAAAATG
1 AAATAAAATG
38262333 AAATAAA
1 AAATAAA
38262340 TGTGAATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (10 bp):
AAATAAAATG
Found at i:38263236 original size:990 final size:990
Alignment explanation
Indices: 38261317--38263296 Score: 3960
Period size: 990 Copynumber: 2.0 Consensus size: 990
38261307 TGAAAGATTT
38261317 GTATATAAATAAAATGAAATAAAATGAAATAAATGTGAATAACTTAAAAGTGATACCTACATTTT
1 GTATATAAATAAAATGAAATAAAATGAAATAAATGTGAATAACTTAAAAGTGATACCTACATTTT
38261382 GATTTTCATAATTAAAATCTAGTATAAATAATAGTATATACATAATAGTAATATATAAAAGTTAA
66 GATTTTCATAATTAAAATCTAGTATAAATAATAGTATATACATAATAGTAATATATAAAAGTTAA
38261447 ATGAATAGAATAAGATAACAAATTTAAAAGGAATAAAGTTTTCATTCATAAAAAATATCATTTGA
131 ATGAATAGAATAAGATAACAAATTTAAAAGGAATAAAGTTTTCATTCATAAAAAATATCATTTGA
38261512 AAAATAATAATATATTATTATATATATGTACGGATAATAAGAAAAATCTATATTATATACATATA
196 AAAATAATAATATATTATTATATATATGTACGGATAATAAGAAAAATCTATATTATATACATATA
38261577 TATATTAGTATAAAGTCTTTATTATTAGAAATTACCTTTCTATAAAATATAAAGTTGATTATATA
261 TATATTAGTATAAAGTCTTTATTATTAGAAATTACCTTTCTATAAAATATAAAGTTGATTATATA
38261642 TATAGAACAAATATATAAAAAAATACAATAATATGAATAAGTATAATAAAATAATAATAATAGAT
326 TATAGAACAAATATATAAAAAAATACAATAATATGAATAAGTATAATAAAATAATAATAATAGAT
38261707 TTCTTAAATAATAAAAAAACTAAATAACAAAAAAGGGATTAAATCACAAACAAAGTCGAATTAAC
391 TTCTTAAATAATAAAAAAACTAAATAACAAAAAAGGGATTAAATCACAAACAAAGTCGAATTAAC
38261772 AGCGAACAACTAATATTAAAGAAAGGTGAGGGACCATGCTGCAACGCGCGCATTACATGAGGGGT
456 AGCGAACAACTAATATTAAAGAAAGGTGAGGGACCATGCTGCAACGCGCGCATTACATGAGGGGT
38261837 CCGATTGGGAAATATCCCGCTTCCCCAAAATGCAATGTTGCAAGCTGGGCCGAAATGCAACTAAA
521 CCGATTGGGAAATATCCCGCTTCCCCAAAATGCAATGTTGCAAGCTGGGCCGAAATGCAACTAAA
38261902 GCAAAATATGGGGCTAAATCAGAAAAGAAAAAGGCTCTTGATTCAAAAGTACCAGAAAAATGGAA
586 GCAAAATATGGGGCTAAATCAGAAAAGAAAAAGGCTCTTGATTCAAAAGTACCAGAAAAATGGAA
38261967 GGACTGGTCGCGCAAATATCCCTCCCTACGCCAGAACACGCGGATGTAGCCGCGCCTGGGTTTGG
651 GGACTGGTCGCGCAAATATCCCTCCCTACGCCAGAACACGCGGATGTAGCCGCGCCTGGGTTTGG
38262032 TCATCGGGTCGCGGCCTAAACGACACTGTTTCAGAGCCATTGAATCCGGCTCCAACGGTGTCGTT
716 TCATCGGGTCGCGGCCTAAACGACACTGTTTCAGAGCCATTGAATCCGGCTCCAACGGTGTCGTT
38262097 TCGCAATTCCCTTTAAGCCCCCCTTTTAAACCGTCATTTACCCTAAACAAAAAAATAAAGAAACC
781 TCGCAATTCCCTTTAAGCCCCCCTTTTAAACCGTCATTTACCCTAAACAAAAAAATAAAGAAACC
38262162 CTAAAATCTATTTCATCTAACACACACAAAAAACTAAACTAAAAAAAGGCTTTGCACCGTTCGCC
846 CTAAAATCTATTTCATCTAACACACACAAAAAACTAAACTAAAAAAAGGCTTTGCACCGTTCGCC
38262227 GAATCGACCTCGAAGACCTTCGATCTTCGCCCCAACCCCGATGGCTGTAGAGTGAGCAAAAATCT
911 GAATCGACCTCGAAGACCTTCGATCTTCGCCCCAACCCCGATGGCTGTAGAGTGAGCAAAAATCT
38262292 GGCCTTCAGGTAAGC
976 GGCCTTCAGGTAAGC
38262307 GTATATAAATAAAATGAAATAAAATGAAATAAATGTGAATAACTTAAAAGTGATACCTACATTTT
1 GTATATAAATAAAATGAAATAAAATGAAATAAATGTGAATAACTTAAAAGTGATACCTACATTTT
38262372 GATTTTCATAATTAAAATCTAGTATAAATAATAGTATATACATAATAGTAATATATAAAAGTTAA
66 GATTTTCATAATTAAAATCTAGTATAAATAATAGTATATACATAATAGTAATATATAAAAGTTAA
38262437 ATGAATAGAATAAGATAACAAATTTAAAAGGAATAAAGTTTTCATTCATAAAAAATATCATTTGA
131 ATGAATAGAATAAGATAACAAATTTAAAAGGAATAAAGTTTTCATTCATAAAAAATATCATTTGA
38262502 AAAATAATAATATATTATTATATATATGTACGGATAATAAGAAAAATCTATATTATATACATATA
196 AAAATAATAATATATTATTATATATATGTACGGATAATAAGAAAAATCTATATTATATACATATA
38262567 TATATTAGTATAAAGTCTTTATTATTAGAAATTACCTTTCTATAAAATATAAAGTTGATTATATA
261 TATATTAGTATAAAGTCTTTATTATTAGAAATTACCTTTCTATAAAATATAAAGTTGATTATATA
38262632 TATAGAACAAATATATAAAAAAATACAATAATATGAATAAGTATAATAAAATAATAATAATAGAT
326 TATAGAACAAATATATAAAAAAATACAATAATATGAATAAGTATAATAAAATAATAATAATAGAT
38262697 TTCTTAAATAATAAAAAAACTAAATAACAAAAAAGGGATTAAATCACAAACAAAGTCGAATTAAC
391 TTCTTAAATAATAAAAAAACTAAATAACAAAAAAGGGATTAAATCACAAACAAAGTCGAATTAAC
38262762 AGCGAACAACTAATATTAAAGAAAGGTGAGGGACCATGCTGCAACGCGCGCATTACATGAGGGGT
456 AGCGAACAACTAATATTAAAGAAAGGTGAGGGACCATGCTGCAACGCGCGCATTACATGAGGGGT
38262827 CCGATTGGGAAATATCCCGCTTCCCCAAAATGCAATGTTGCAAGCTGGGCCGAAATGCAACTAAA
521 CCGATTGGGAAATATCCCGCTTCCCCAAAATGCAATGTTGCAAGCTGGGCCGAAATGCAACTAAA
38262892 GCAAAATATGGGGCTAAATCAGAAAAGAAAAAGGCTCTTGATTCAAAAGTACCAGAAAAATGGAA
586 GCAAAATATGGGGCTAAATCAGAAAAGAAAAAGGCTCTTGATTCAAAAGTACCAGAAAAATGGAA
38262957 GGACTGGTCGCGCAAATATCCCTCCCTACGCCAGAACACGCGGATGTAGCCGCGCCTGGGTTTGG
651 GGACTGGTCGCGCAAATATCCCTCCCTACGCCAGAACACGCGGATGTAGCCGCGCCTGGGTTTGG
38263022 TCATCGGGTCGCGGCCTAAACGACACTGTTTCAGAGCCATTGAATCCGGCTCCAACGGTGTCGTT
716 TCATCGGGTCGCGGCCTAAACGACACTGTTTCAGAGCCATTGAATCCGGCTCCAACGGTGTCGTT
38263087 TCGCAATTCCCTTTAAGCCCCCCTTTTAAACCGTCATTTACCCTAAACAAAAAAATAAAGAAACC
781 TCGCAATTCCCTTTAAGCCCCCCTTTTAAACCGTCATTTACCCTAAACAAAAAAATAAAGAAACC
38263152 CTAAAATCTATTTCATCTAACACACACAAAAAACTAAACTAAAAAAAGGCTTTGCACCGTTCGCC
846 CTAAAATCTATTTCATCTAACACACACAAAAAACTAAACTAAAAAAAGGCTTTGCACCGTTCGCC
38263217 GAATCGACCTCGAAGACCTTCGATCTTCGCCCCAACCCCGATGGCTGTAGAGTGAGCAAAAATCT
911 GAATCGACCTCGAAGACCTTCGATCTTCGCCCCAACCCCGATGGCTGTAGAGTGAGCAAAAATCT
38263282 GGCCTTCAGGTAAGC
976 GGCCTTCAGGTAAGC
38263297 TCTTTTCCCT
Statistics
Matches: 990, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
990 990 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (990 bp):
GTATATAAATAAAATGAAATAAAATGAAATAAATGTGAATAACTTAAAAGTGATACCTACATTTT
GATTTTCATAATTAAAATCTAGTATAAATAATAGTATATACATAATAGTAATATATAAAAGTTAA
ATGAATAGAATAAGATAACAAATTTAAAAGGAATAAAGTTTTCATTCATAAAAAATATCATTTGA
AAAATAATAATATATTATTATATATATGTACGGATAATAAGAAAAATCTATATTATATACATATA
TATATTAGTATAAAGTCTTTATTATTAGAAATTACCTTTCTATAAAATATAAAGTTGATTATATA
TATAGAACAAATATATAAAAAAATACAATAATATGAATAAGTATAATAAAATAATAATAATAGAT
TTCTTAAATAATAAAAAAACTAAATAACAAAAAAGGGATTAAATCACAAACAAAGTCGAATTAAC
AGCGAACAACTAATATTAAAGAAAGGTGAGGGACCATGCTGCAACGCGCGCATTACATGAGGGGT
CCGATTGGGAAATATCCCGCTTCCCCAAAATGCAATGTTGCAAGCTGGGCCGAAATGCAACTAAA
GCAAAATATGGGGCTAAATCAGAAAAGAAAAAGGCTCTTGATTCAAAAGTACCAGAAAAATGGAA
GGACTGGTCGCGCAAATATCCCTCCCTACGCCAGAACACGCGGATGTAGCCGCGCCTGGGTTTGG
TCATCGGGTCGCGGCCTAAACGACACTGTTTCAGAGCCATTGAATCCGGCTCCAACGGTGTCGTT
TCGCAATTCCCTTTAAGCCCCCCTTTTAAACCGTCATTTACCCTAAACAAAAAAATAAAGAAACC
CTAAAATCTATTTCATCTAACACACACAAAAAACTAAACTAAAAAAAGGCTTTGCACCGTTCGCC
GAATCGACCTCGAAGACCTTCGATCTTCGCCCCAACCCCGATGGCTGTAGAGTGAGCAAAAATCT
GGCCTTCAGGTAAGC
Found at i:38268317 original size:14 final size:16
Alignment explanation
Indices: 38268288--38268319 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
38268278 TTTTTTTTAA
38268288 ATAAATGTTATATATT
1 ATAAATGTTATATATT
38268304 ATAAAT-TT-TATATT
1 ATAAATGTTATATATT
38268318 AT
1 AT
38268320 TTATGACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAAATGTTATATATT
Found at i:38271431 original size:29 final size:29
Alignment explanation
Indices: 38271398--38271455 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
38271388 CGAAGCTTCT
38271398 GTAATTTACATATGTTCTTTGTAGTTATC
1 GTAATTTACATATGTTCTTTGTAGTTATC
* *
38271427 GTAATTTACATATGTTTTTTGTGGTTATC
1 GTAATTTACATATGTTCTTTGTAGTTATC
38271456 TTTATTGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (29 bp):
GTAATTTACATATGTTCTTTGTAGTTATC
Found at i:38280256 original size:15 final size:16
Alignment explanation
Indices: 38280236--38280265 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38280226 TAATAACTAA
38280236 TATATAAT-TATATTT
1 TATATAATATATATTT
38280251 TATATAATATATATT
1 TATATAATATATATT
38280266 AATTATCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:38292900 original size:45 final size:45
Alignment explanation
Indices: 38292851--38293059 Score: 274
Period size: 45 Copynumber: 4.6 Consensus size: 45
38292841 GATGTCATAG
* * ** *
38292851 TATCTTTCAACCATGGTCTTTTTCTTTTCGAGCATAATGCCGTGA
1 TATCTTTCAATCATGGTCTTTTCCTTTTCGATTATAATGCCATGA
* *
38292896 TATCTTTCAATCATGGTCTTTTCCTTTTCAATTATAATGCCTTGA
1 TATCTTTCAATCATGGTCTTTTCCTTTTCGATTATAATGCCATGA
* *
38292941 TATCTTTCAATCACGGTCTTTTCCTTTTAGATTATAATGCCATGA
1 TATCTTTCAATCATGGTCTTTTCCTTTTCGATTATAATGCCATGA
* *
38292986 TATCTTTCAATCATGGTATTTTCCTTTTCGATTATAATGCAATGA
1 TATCTTTCAATCATGGTCTTTTCCTTTTCGATTATAATGCCATGA
* * ** *
38293031 TATATTTCAATAATCATTTTTTCCTTTTC
1 TATCTTTCAATCATGGTCTTTTCCTTTTC
38293060 TTCAAATCAA
Statistics
Matches: 145, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 145 1.00
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.47
Consensus pattern (45 bp):
TATCTTTCAATCATGGTCTTTTCCTTTTCGATTATAATGCCATGA
Found at i:38313260 original size:21 final size:22
Alignment explanation
Indices: 38313225--38313271 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
38313215 GTGTAATTAT
*
38313225 ATTGAATATATATGT-TTTT-A
1 ATTGAATATACATGTATTTTGA
38313245 ATTGAATTATACATGTATTTTGA
1 ATTGAA-TATACATGTATTTTGA
38313268 ATTG
1 ATTG
38313272 TCATATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 8 0.35
22 4 0.17
23 5 0.22
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (22 bp):
ATTGAATATACATGTATTTTGA
Found at i:38313372 original size:21 final size:22
Alignment explanation
Indices: 38313337--38313383 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
38313327 CGTGAATTAT
*
38313337 ATTGAATATATATGT-TTTT-A
1 ATTGAATATACATGTATTTTGA
38313357 ATTGAATTATACATGTATTTTGA
1 ATTGAA-TATACATGTATTTTGA
38313380 ATTG
1 ATTG
38313384 TCATATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 8 0.35
22 4 0.17
23 5 0.22
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (22 bp):
ATTGAATATACATGTATTTTGA
Found at i:38313383 original size:112 final size:112
Alignment explanation
Indices: 38313186--38313409 Score: 432
Period size: 112 Copynumber: 2.0 Consensus size: 112
38313176 GTCGCCTCCA
38313186 TATCTACGTTTAATCGTCGAGGTAAGTTCGTGTAATTATATTGAATATATATGTTTTTAATTGAA
1 TATCTACGTTTAATCGTCGAGGTAAGTTCGTGTAATTATATTGAATATATATGTTTTTAATTGAA
38313251 TTATACATGTATTTTGAATTGTCATATTTATATACAAAACACATATC
66 TTATACATGTATTTTGAATTGTCATATTTATATACAAAACACATATC
38313298 TATCTACGTTTAATCGTCGAGGTTAAGTTCGTG-AATTATATTGAATATATATGTTTTTAATTGA
1 TATCTACGTTTAATCGTCGAGG-TAAGTTCGTGTAATTATATTGAATATATATGTTTTTAATTGA
38313362 ATTATACATGTATTTTGAATTGTCATATTTATATACAAAACACATATC
65 ATTATACATGTATTTTGAATTGTCATATTTATATACAAAACACATATC
38313410 CAACGATGTT
Statistics
Matches: 111, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
112 101 0.91
113 10 0.09
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (112 bp):
TATCTACGTTTAATCGTCGAGGTAAGTTCGTGTAATTATATTGAATATATATGTTTTTAATTGAA
TTATACATGTATTTTGAATTGTCATATTTATATACAAAACACATATC
Found at i:38323594 original size:45 final size:45
Alignment explanation
Indices: 38323543--38323642 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
38323533 TTCCAAAGTG
* * * * *
38323543 ATGCCATAGTCTCTTTAAACTGTAGTCTTATTCATTGCCGATGTA
1 ATGCCATAGTATATTTAAACTATAGTCTTATACATTGCCGATATA
* * * *
38323588 TTGCCATAGTATATTTCAACTATGGTCTTATACATTTCCGATATA
1 ATGCCATAGTATATTTAAACTATAGTCTTATACATTGCCGATATA
38323633 ATGCCATAGT
1 ATGCCATAGT
38323643 TGCCTTCAAC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (45 bp):
ATGCCATAGTATATTTAAACTATAGTCTTATACATTGCCGATATA
Found at i:38323651 original size:45 final size:45
Alignment explanation
Indices: 38323567--38323706 Score: 133
Period size: 45 Copynumber: 3.1 Consensus size: 45
38323557 TTAAACTGTA
* * * *
38323567 GTCTTATTCATTGCCGATGTATTGCCATAGTATATTTCAACTATG
1 GTCTTATTCATTTCCGATATAATGCCATAGTATACTTCAACTATG
* *
38323612 GTCTTATACATTTCCGATATAATGCCATAGT-TGCCTTCAACTATG
1 GTCTTATTCATTTCCGATATAATGCCATAGTAT-ACTTCAACTATG
* * * * *
38323657 GTCTT-TCTCATTTCGGGTATAATGCCATGGTAT-CTTTCAACCATA
1 GTCTTAT-TCATTTCCGATATAATGCCATAGTATAC-TTCAACTATG
38323702 GTCTT
1 GTCTT
38323707 TCTCGTTTCG
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
44 3 0.04
45 75 0.95
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.41
Consensus pattern (45 bp):
GTCTTATTCATTTCCGATATAATGCCATAGTATACTTCAACTATG
Found at i:38323707 original size:45 final size:45
Alignment explanation
Indices: 38323589--38323760 Score: 177
Period size: 45 Copynumber: 3.8 Consensus size: 45
38323579 GCCGATGTAT
* * * * *
38323589 TGCCATAGTATATTTCAACTATGGTCTTAT-ACATTTCCGATATAA
1 TGCCATAGTATCTTTCAACCATGGTCTT-TCTCATTTCGGGTATAA
* *
38323634 TGCCATAGT-TGCCTTCAACTATGGTCTTTCTCATTTCGGGTATAA
1 TGCCATAGTAT-CTTTCAACCATGGTCTTTCTCATTTCGGGTATAA
* * *
38323679 TGCCATGGTATCTTTCAACCATAGTCTTTCTCGTTTCGGGTATAA
1 TGCCATAGTATCTTTCAACCATGGTCTTTCTCATTTCGGGTATAA
* * * * *
38323724 TGTCATGGCATCTTTCAACCATCGTCTTTCTTATTTC
1 TGCCATAGTATCTTTCAACCATGGTCTTTCTCATTTC
38323761 TCAATCCAAA
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
44 2 0.02
45 106 0.97
46 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (45 bp):
TGCCATAGTATCTTTCAACCATGGTCTTTCTCATTTCGGGTATAA
Found at i:38328293 original size:22 final size:22
Alignment explanation
Indices: 38328262--38328304 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38328252 TTGACGCATC
38328262 AATTATATCATCAAT-TTTAAA
1 AATTATATCATCAATATTTAAA
*
38328283 AATTACTATCATCCATATTTAA
1 AATTA-TATCATCAATATTTAA
38328305 TATCTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTATATCATCAATATTTAAA
Found at i:38329489 original size:32 final size:32
Alignment explanation
Indices: 38329447--38329508 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
38329437 TAAAAATTGA
*
38329447 GGGTTGAATTTATTATTATAATAATTTTTTGT
1 GGGTTAAATTTATTATTATAATAATTTTTTGT
*
38329479 GGGTTAAATTTATTATTATAATGATTTTTT
1 GGGTTAAATTTATTATTATAATAATTTTTT
38329509 TAACTGTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (32 bp):
GGGTTAAATTTATTATTATAATAATTTTTTGT
Found at i:38329653 original size:16 final size:16
Alignment explanation
Indices: 38329628--38329666 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
38329618 TTGGTTCGCT
* *
38329628 GTAATGGAATAGAGGC
1 GTAATAGAATAGAGAC
38329644 GTAATAGAATAGAGAC
1 GTAATAGAATAGAGAC
38329660 GTAATAG
1 GTAATAG
38329667 CAAATCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.31, T:0.21
Consensus pattern (16 bp):
GTAATAGAATAGAGAC
Found at i:38333867 original size:6 final size:6
Alignment explanation
Indices: 38333856--38333889 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
38333846 TAGTTTGAAC
38333856 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT
38333890 CATTTTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:38335100 original size:119 final size:120
Alignment explanation
Indices: 38334879--38335118 Score: 473
Period size: 119 Copynumber: 2.0 Consensus size: 120
38334869 ACAACTGCAC
38334879 TGTACCAAAAGTAAAAAGAAGAGTTTAATTATCTACACTTTGGAGTCTTCCAGGTCTCAGCCATA
1 TGTACCAAAAGTAAAAAGAAGAGTTTAATTATCTACACTTTGGAGTCTTCCAGGTCTCAGCCATA
38334944 AAATTGAGAAATACTTGCCTAATTTCAAAGAAAAAAAATGCCAGCATTTTTTCCA
66 AAATTGAGAAATACTTGCCTAATTTCAAAGAAAAAAAATGCCAGCATTTTTTCCA
38334999 TGTACCAAAA-TAAAAAGAAGAGTTTAATTATCTACACTTTGGAGTCTTCCAGGTCTCAGCCATA
1 TGTACCAAAAGTAAAAAGAAGAGTTTAATTATCTACACTTTGGAGTCTTCCAGGTCTCAGCCATA
38335063 AAATTGAGAAATACTTGCCTAATTTCAAAGAAAAAAAATGCCAGCATTTTTTCCA
66 AAATTGAGAAATACTTGCCTAATTTCAAAGAAAAAAAATGCCAGCATTTTTTCCA
38335118 T
1 T
38335119 TAAAATGTAC
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 110 0.92
120 10 0.08
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (120 bp):
TGTACCAAAAGTAAAAAGAAGAGTTTAATTATCTACACTTTGGAGTCTTCCAGGTCTCAGCCATA
AAATTGAGAAATACTTGCCTAATTTCAAAGAAAAAAAATGCCAGCATTTTTTCCA
Found at i:38337135 original size:51 final size:51
Alignment explanation
Indices: 38337074--38337173 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
38337064 TTCAATTTCC
38337074 TCTCAATTTGCTCTCAATTTCCT-TCAAAATTTCTCTCAAATCCCTATTTAA
1 TCTCAATTTGCTCTCAATTTCCTCTC-AAATTTCTCTCAAATCCCTATTTAA
* *
38337125 TCTCATTTTGCTCTCAATTTCCTCTCAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCCTATTT
38337174 TTTTAATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 44 0.96
52 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCCTATTTAA
Found at i:38337155 original size:12 final size:11
Alignment explanation
Indices: 38337065--38337157 Score: 63
Period size: 11 Copynumber: 8.7 Consensus size: 11
38337055 TATTATTCTT
38337065 TCAATTTCCTC
1 TCAATTTCCTC
*
38337076 TCAATTTGCTC
1 TCAATTTCCTC
38337087 TCAATTTCCT-
1 TCAATTTCCTC
38337097 TCAAAATTT-CTC
1 TC--AATTTCCTC
*
38337109 TCAA-ATCC-C
1 TCAATTTCCTC
**
38337118 T--ATTTAATC
1 TCAATTTCCTC
* *
38337127 TCATTTTGCTC
1 TCAATTTCCTC
38337138 TCAATTTCCTC
1 TCAATTTCCTC
38337149 TCAAATTTC
1 TC-AATTTC
38337158 TCTTAAATCC
Statistics
Matches: 62, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 5 0.08
10 5 0.08
11 37 0.60
12 13 0.21
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.45
Consensus pattern (11 bp):
TCAATTTCCTC
Found at i:38342600 original size:17 final size:17
Alignment explanation
Indices: 38342578--38342639 Score: 124
Period size: 17 Copynumber: 3.6 Consensus size: 17
38342568 TCACTAGGTG
38342578 ATTTTTATATGCCCATT
1 ATTTTTATATGCCCATT
38342595 ATTTTTATATGCCCATT
1 ATTTTTATATGCCCATT
38342612 ATTTTTATATGCCCATT
1 ATTTTTATATGCCCATT
38342629 ATTTTTATATG
1 ATTTTTATATG
38342640 AAAGTAGACT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTTTTATATGCCCATT
Found at i:38342690 original size:42 final size:43
Alignment explanation
Indices: 38342626--38342711 Score: 165
Period size: 42 Copynumber: 2.0 Consensus size: 43
38342616 TTATATGCCC
38342626 ATTATTTTTATATGAAAGTAGACTCAATAAGATTTAATTCTAT
1 ATTATTTTTATATGAAAGTAGACTCAATAAGATTTAATTCTAT
38342669 ATTATTTTTAT-TGAAAGTAGACTCAATAAGATTTAATTCTAT
1 ATTATTTTTATATGAAAGTAGACTCAATAAGATTTAATTCTAT
38342711 A
1 A
38342712 GATCATTCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 32 0.74
43 11 0.26
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (43 bp):
ATTATTTTTATATGAAAGTAGACTCAATAAGATTTAATTCTAT
Found at i:38343246 original size:51 final size:51
Alignment explanation
Indices: 38343089--38343262 Score: 278
Period size: 51 Copynumber: 3.4 Consensus size: 51
38343079 ATGCCAAAGT
38343089 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGC
1 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGC
** ** * * *
38343140 CATGTCCCAGACATGGTCTTACGGGGGA-CCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGC
38343190 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGC
1 CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGC
38343241 CATGTCCCAGACATGGTCTTAC
1 CATGTCCCAGACATGGTCTTAC
38343263 GGGGGACCTA
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 43 0.40
51 65 0.60
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.27
Consensus pattern (51 bp):
CATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGC
Found at i:38343255 original size:101 final size:101
Alignment explanation
Indices: 38343080--38343271 Score: 366
Period size: 101 Copynumber: 1.9 Consensus size: 101
38343070 GATAATAACA
*
38343080 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGT
38343145 CCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
66 CCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
*
38343181 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGT
38343246 CCCAGACATGGTCTTACGGGGGACCT
66 CCCAGACATGGTCTTACGGGGGACCT
38343272 ATAGCCAAAT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 89 1.00
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (101 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
Found at i:38345606 original size:93 final size:93
Alignment explanation
Indices: 38345498--38345696 Score: 398
Period size: 93 Copynumber: 2.1 Consensus size: 93
38345488 AAATTTACTT
38345498 TTGTTTTGAATAAAGTAATTGTAATTTACTTTAATATTTTTAATAAAATAGATTTTCTTTTAAAT
1 TTGTTTTGAATAAAGTAATTGTAATTTACTTTAATATTTTTAATAAAATAGATTTTCTTTTAAAT
38345563 AAGTCAATATTTTTAATAAAATAAAACG
66 AAGTCAATATTTTTAATAAAATAAAACG
38345591 TTGTTTTGAATAAAGTAATTGTAATTTACTTTAATATTTTTAATAAAATAGATTTTCTTTTAAAT
1 TTGTTTTGAATAAAGTAATTGTAATTTACTTTAATATTTTTAATAAAATAGATTTTCTTTTAAAT
38345656 AAGTCAATATTTTTAATAAAATAAAACG
66 AAGTCAATATTTTTAATAAAATAAAACG
38345684 TTGTTTTGAATAA
1 TTGTTTTGAATAA
38345697 TGTTGCTTTG
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 106 1.00
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (93 bp):
TTGTTTTGAATAAAGTAATTGTAATTTACTTTAATATTTTTAATAAAATAGATTTTCTTTTAAAT
AAGTCAATATTTTTAATAAAATAAAACG
Found at i:38347183 original size:6 final size:6
Alignment explanation
Indices: 38347172--38347211 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
38347162 CACCAAAACT
*
38347172 CTAACC CTAACC CTAACC CTAACC CTAACT CTAACC CTAA
1 CTAACC CTAACC CTAACC CTAACC CTAACC CTAACC CTAA
38347212 TCCAATTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.20
Consensus pattern (6 bp):
CTAACC
Found at i:38347474 original size:37 final size:39
Alignment explanation
Indices: 38347423--38347497 Score: 111
Period size: 37 Copynumber: 2.0 Consensus size: 39
38347413 TATAATAAAT
38347423 AAATATTTTTTATTC-TTTGA-TTTTAAAAT-ATTTTTA
1 AAATATTTTTTATTCTTTTGATTTTTAAAATAATTTTTA
*
38347459 AAATACTTTTTTATTCTTTTTATTTTTAAAATAATTTTT
1 AAATA-TTTTTTATTCTTTTGATTTTTAAAATAATTTTT
38347498 TTGGTGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
36 5 0.15
37 10 0.29
38 4 0.12
39 9 0.26
40 6 0.18
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (39 bp):
AAATATTTTTTATTCTTTTGATTTTTAAAATAATTTTTA
Found at i:38347507 original size:27 final size:28
Alignment explanation
Indices: 38347451--38347509 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
38347441 GATTTTAAAA
* * *
38347451 TATTTTTAAAATACTTTTTTATTCTTTT
1 TATTTTTAAAATAATTTTTTATGCTGTT
*
38347479 TATTTTTAAAATAATTTTTT-TGGTGTT
1 TATTTTTAAAATAATTTTTTATGCTGTT
38347506 TATT
1 TATT
38347510 AAAAAATGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.66
Consensus pattern (28 bp):
TATTTTTAAAATAATTTTTTATGCTGTT
Found at i:38347660 original size:7 final size:7
Alignment explanation
Indices: 38347650--38347694 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
38347640 TTTAATTTTT
38347650 AACCCTA
1 AACCCTA
*
38347657 AACCCCA
1 AACCCTA
**
38347664 AACTTTAA
1 AACCCT-A
38347672 AACCCTA
1 AACCCTA
38347679 AACCCTA
1 AACCCTA
38347686 AACCCTA
1 AACCCTA
38347693 AA
1 AA
38347695 ACCCAAAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 26 0.84
8 5 0.16
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:38347676 original size:22 final size:22
Alignment explanation
Indices: 38347650--38347698 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
38347640 TTTAATTTTT
**
38347650 AACCCTAAACCCCAAACTTTAA
1 AACCCTAAACCCCAAACCCTAA
*
38347672 AACCCTAAACCCTAAACCCTAA
1 AACCCTAAACCCCAAACCCTAA
38347694 AACCC
1 AACCC
38347699 AAAAACAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14
Consensus pattern (22 bp):
AACCCTAAACCCCAAACCCTAA
Found at i:38354942 original size:20 final size:20
Alignment explanation
Indices: 38354917--38354957 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
38354907 GTCATGATGT
38354917 TTTATTACCATATTTTGTTA
1 TTTATTACCATATTTTGTTA
*
38354937 TTTATTACTATATTTTGTTA
1 TTTATTACCATATTTTGTTA
38354957 T
1 T
38354958 CTTACCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTATTACCATATTTTGTTA
Found at i:38356265 original size:34 final size:33
Alignment explanation
Indices: 38356165--38356270 Score: 140
Period size: 34 Copynumber: 3.2 Consensus size: 33
38356155 TGAATTTTAA
* * *
38356165 AAAAAATTAATTAAATTAGGTTTTAGGGGTTTT
1 AAAAAATTAATTAAATTAGGGTTTAGAGTTTTT
*
38356198 AAATAAATTAATTAAATTAAGGTTTAGAGTTTTT
1 AAA-AAATTAATTAAATTAGGGTTTAGAGTTTTT
**
38356232 AAGAAAATTAATTAAATTAGGGTTTAGTTTTTTT
1 AA-AAAATTAATTAAATTAGGGTTTAGAGTTTTT
38356266 AAAAA
1 AAAAA
38356271 TAATTTTGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
33 6 0.09
34 57 0.89
35 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.42
Consensus pattern (33 bp):
AAAAAATTAATTAAATTAGGGTTTAGAGTTTTT
Found at i:38356521 original size:125 final size:126
Alignment explanation
Indices: 38356329--38356725 Score: 477
Period size: 126 Copynumber: 3.2 Consensus size: 126
38356319 AGAATTTTGT
* * * *
38356329 TTTTCTTTCTACAGTAGTT-TTAGAAAAGTTAATTTTGAGAAGACGGTTCTG-AAAAGATAATGT
1 TTTT-TTTCTACAGTAGTTCTT-GAAAA-ATAATTTTGAGAAGAAGGTTCTGAAAAAAATAGTGT
* * *
38356392 CAAAAACACTTCAAACATGATGCACTGTCAGCAAAATTACT--AAAAAGACTCCTACGTGGACGC
63 CAAAAACACTTCAAGCAGGATGCACTGTCAGAAAAATTACTGAAAAAAG-CTCCTACGTGGACGC
* *
38356455 TCTTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAGAAGAAGGTTCTGAAAAAAATAGTTTCAA
1 TTTTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAGAAGAAGGTTCTGAAAAAAATAGTGTCAA
* * * *
38356520 AAA-AGCTTCAAGCAGGATGCACTGACAGTAAAATTACTGAAAAAAGCTCCCATGTGGACGC
66 AAACA-CTTCAAGCAGGATGCACTGTCAGAAAAATTACTGAAAAAAGCTCCTACGTGGACGC
* * *
38356581 TTTTTTTCTACAGTAGTTCCTAAAGAAATAATTTTGAGAAGACA-ATTCT-AAAAAAATAGTGTC
1 TTTTTTTCTACAGTAGTTCTTGAA-AAATAATTTTGAGAAGA-AGGTTCTGAAAAAAATAGTGTC
* * * * *
38356644 AAAAACGCGTCAAGCAGGATGCACTGTCAAAAAAATTACTGAAAAAAGCT-CTCACGTGAACGT
64 AAAAACACTTCAAGCAGGATGCACTGTCAGAAAAATTACTGAAAAAAGCTCCT-ACGTGGACGC
38356707 TTTTTTTCTACAGTAGTTC
1 TTTTTTTCTACAGTAGTTC
38356726 CTGTTTGGCC
Statistics
Matches: 236, Mismatches: 26, Indels: 18
0.84 0.09 0.06
Matches are distributed among these distances:
124 22 0.09
125 64 0.27
126 122 0.52
127 27 0.11
128 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAGAAGAAGGTTCTGAAAAAAATAGTGTCAA
AAACACTTCAAGCAGGATGCACTGTCAGAAAAATTACTGAAAAAAGCTCCTACGTGGACGC
Found at i:38360911 original size:27 final size:27
Alignment explanation
Indices: 38360873--38360927 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
38360863 CTAAATACTA
38360873 AATATGAAATGACTATATTATGTATAT
1 AATATGAAATGACTATATTATGTATAT
38360900 AATATGAAATGACTATATTATGTATAT
1 AATATGAAATGACTATATTATGTATAT
38360927 A
1 A
38360928 TATTTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (27 bp):
AATATGAAATGACTATATTATGTATAT
Found at i:38360921 original size:16 final size:16
Alignment explanation
Indices: 38360875--38360921 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
38360865 AAATACTAAA
38360875 TATGAAATGACTATAT
1 TATGAAATGACTATAT
*
38360891 TATG---T-A-TATAA
1 TATGAAATGACTATAT
38360902 TATGAAATGACTATAT
1 TATGAAATGACTATAT
38360918 TATG
1 TATG
38360922 TATATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
11 8 0.33
12 1 0.04
13 1 0.04
14 1 0.04
15 1 0.04
16 12 0.50
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (16 bp):
TATGAAATGACTATAT
Found at i:38361866 original size:26 final size:24
Alignment explanation
Indices: 38361812--38361865 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 24
38361802 ACTGTTATAA
*
38361812 AAAATTATAAAATAAAAATTAATT
1 AAAATTATAAAATAAAAATAAATT
*
38361836 AAAATTATATAAATGAAAAAAAATATT
1 AAAATTATA-AAAT-AAAAATAA-ATT
38361863 AAA
1 AAA
38361866 TAAAGGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 6 0.24
27 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAATTATAAAATAAAAATAAATT
Found at i:38362887 original size:48 final size:48
Alignment explanation
Indices: 38362829--38362925 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
38362819 AAAAGATGAA
38362829 TTGTTAGGTTTCTCAGCTTTGATACATGGGTAGGGTGAATTGGCCGTT
1 TTGTTAGGTTTCTCAGCTTTGATACATGGGTAGGGTGAATTGGCCGTT
38362877 TTGTTAGGTTTCTCAGCTTTGATACATGGGTAGGGTGAATTGGCCGTT
1 TTGTTAGGTTTCTCAGCTTTGATACATGGGTAGGGTGAATTGGCCGTT
38362925 T
1 T
38362926 CTCATACTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.16, C:0.12, G:0.31, T:0.40
Consensus pattern (48 bp):
TTGTTAGGTTTCTCAGCTTTGATACATGGGTAGGGTGAATTGGCCGTT
Found at i:38369338 original size:25 final size:22
Alignment explanation
Indices: 38369293--38369346 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
38369283 TATAAGTCCA
38369293 AATTTTTTTCTCCTTGTAATTCG
1 AATTTTTTTCTCCTTGTAATT-G
*
38369316 ACATTTTTTTGTCAC-TGTAAATTG
1 A-ATTTTTTTCTC-CTTGT-AATTG
38369340 AATTTTT
1 AATTTTT
38369347 GTCCCTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 7 0.26
24 15 0.56
25 5 0.19
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.56
Consensus pattern (22 bp):
AATTTTTTTCTCCTTGTAATTG
Found at i:38369465 original size:24 final size:22
Alignment explanation
Indices: 38369403--38369522 Score: 89
Period size: 24 Copynumber: 5.2 Consensus size: 22
38369393 TGTAAGTCGA
38369403 TTTTT-TCCCTATAATTCAACCTT
1 TTTTTGTCCCTATAATTCAA--TT
* * * *
38369426 TTTATGTCCTTGTAATTTAACGTT
1 TTTTTGTCCCTATAATTCAA--TT
**
38369450 TTTTTGTCCCTATAATTTGATT
1 TTTTTGTCCCTATAATTCAATT
* * *
38369472 TGTTTATCCCTATAAATCAATT
1 TTTTTGTCCCTATAATTCAATT
*
38369494 TTTTTGTCCCTGTAATTCAAAATT
1 TTTTTGTCCCTATAATTC--AATT
38369518 TTTTT
1 TTTTT
38369523 TGATTATTTT
Statistics
Matches: 76, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
22 33 0.43
23 4 0.05
24 39 0.51
ACGTcount: A:0.23, C:0.17, G:0.07, T:0.54
Consensus pattern (22 bp):
TTTTTGTCCCTATAATTCAATT
Found at i:38381807 original size:27 final size:27
Alignment explanation
Indices: 38381769--38381825 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
38381759 TAGTATTGGC
*
38381769 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTACCTGGGAGGCGCCAATGGTGGT
38381796 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTACCTGGGAGGCGCCAATGGTGGT
38381823 GCC
1 GCC
38381826 ATTCTTAGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.19
Consensus pattern (27 bp):
GCCTACCTGGGAGGCGCCAATGGTGGT
Found at i:38381836 original size:27 final size:27
Alignment explanation
Indices: 38381769--38381845 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
38381759 TAGTATTGGC
* *
38381769 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTACCTGAGAGGCGCCAATGGTGGT
*
38381796 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTACCTGAGAGGCGCCAATGGTGGT
* *
38381823 GCC-ATTCTTAGAGGCGCCAATGG
1 GCCTA-CCTGAGAGGCGCCAATGG
38381846 GCCGGGCTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.17, C:0.25, G:0.38, T:0.21
Consensus pattern (27 bp):
GCCTACCTGAGAGGCGCCAATGGTGGT
Found at i:38382088 original size:19 final size:19
Alignment explanation
Indices: 38382066--38382103 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38382056 AATTTAATTT
*
38382066 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
38382085 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
38382104 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:38382254 original size:22 final size:22
Alignment explanation
Indices: 38382199--38382285 Score: 129
Period size: 22 Copynumber: 3.7 Consensus size: 22
38382189 ATATACCGAC
38382199 ATTACAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
38382225 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
38382248 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
38382270 ATTACAATATTCATAC
1 ATTACAATATTCATAC
38382286 TAAATATAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
22 38 0.63
23 2 0.03
24 1 0.02
26 3 0.05
27 16 0.27
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:38390040 original size:21 final size:20
Alignment explanation
Indices: 38390005--38390046 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
38389995 ACTAGTTAAT
*
38390005 CTAAATCCTAAACCATAAAC
1 CTAAACCCTAAACCATAAAC
38390025 CTAAACCCTAAAACCATAAAC
1 CTAAACCCT-AAACCATAAAC
38390046 C
1 C
38390047 CTTAACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (20 bp):
CTAAACCCTAAACCATAAAC
Found at i:38390046 original size:15 final size:14
Alignment explanation
Indices: 38390005--38390048 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
38389995 ACTAGTTAAT
*
38390005 CTAAATCCTAAACC
1 CTAAAACCTAAACC
*
38390019 AT-AAACCTAAACC
1 CTAAAACCTAAACC
38390032 CTAAAACCATAAACC
1 CTAAAACC-TAAACC
38390047 CT
1 CT
38390049 TAACATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 11 0.44
14 6 0.24
15 8 0.32
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (14 bp):
CTAAAACCTAAACC
Found at i:38391289 original size:87 final size:88
Alignment explanation
Indices: 38391176--38391344 Score: 234
Period size: 87 Copynumber: 1.9 Consensus size: 88
38391166 TTTTCAACTC
*
38391176 CAAATTAAGTACAAGTTCGAAGTTCAACTGAAAAAAAAA-AACTAATTTCAATTATAAAGGGGAA
1 CAAATTAAGTACAAGTTCGAAGTTCAACTGAAAAAAAAATAACTAATTTCAAGTATAAAGGGGAA
*
38391240 AAGGAAAATAACCATTTGAATTT
66 AAGAAAAATAACCATTTGAATTT
* * * * * *
38391263 CAAATTAAGTACAAGTTC-AGCGTTCAATTGAAAAAAAAATTACTGATTTTAAGTATAAAGGTGA
1 CAAATTAAGTACAAGTTCGA-AGTTCAACTGAAAAAAAAATAACTAATTTCAAGTATAAAGGGGA
*
38391327 AAAGAAAAATTACCATTT
65 AAAGAAAAATAACCATTT
38391345 CAACTCTAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
86 1 0.01
87 35 0.49
88 35 0.49
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (88 bp):
CAAATTAAGTACAAGTTCGAAGTTCAACTGAAAAAAAAATAACTAATTTCAAGTATAAAGGGGAA
AAGAAAAATAACCATTTGAATTT
Found at i:38391342 original size:88 final size:91
Alignment explanation
Indices: 38391091--38391346 Score: 297
Period size: 88 Copynumber: 2.8 Consensus size: 91
38391081 CAATAAATTT
* *
38391091 AAGTTCAGAGTTCAATTGAAAAAAAAAATGTATTGATTTCAAGTGTAAAGGTGAAAAAGGAAAAT
1 AAGTTCAGAGTTCAATTG-AAAAAAAAAT-TACTGATTTCAAGTATAAAGGTG-AAAAGGAAAAT
*
38391156 TACCATTTCATTTTCAACTCCAAATTAAGTAC
63 TACCATTTCATATT--A-TCCAAATTAAGTAC
* * * * * *
38391188 AAGTTC-GAAGTTCAACTGAAAAAAAAA-AACTAATTTCAATTATAAAGGGGAAAAGGAAAATAA
1 AAGTTCAG-AGTTCAATTGAAAAAAAAATTACTGATTTCAAGTATAAAGGTGAAAAGGAAAATTA
*
38391251 CCATTTGA-ATT-T-CAAATTAAGTAC
65 CCATTTCATATTATCCAAATTAAGTAC
* * *
38391275 AAGTTCAGCGTTCAATTGAAAAAAAAATTACTGATTTTAAGTATAAAGGTGAAAAGAAAAATTAC
1 AAGTTCAGAGTTCAATTGAAAAAAAAATTACTGATTTCAAGTATAAAGGTGAAAAGGAAAATTAC
38391340 CATTTCA
66 CATTTCA
38391347 ACTCTAAATT
Statistics
Matches: 136, Mismatches: 20, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
87 35 0.26
88 38 0.28
92 2 0.01
93 19 0.14
94 17 0.12
96 10 0.07
97 15 0.11
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (91 bp):
AAGTTCAGAGTTCAATTGAAAAAAAAATTACTGATTTCAAGTATAAAGGTGAAAAGGAAAATTAC
CATTTCATATTATCCAAATTAAGTAC
Found at i:38391844 original size:95 final size:97
Alignment explanation
Indices: 38391679--38391870 Score: 370
Period size: 95 Copynumber: 2.0 Consensus size: 97
38391669 TTCATTACTA
38391679 TGCAGGGAATATATAACTATTTTAGAAAAAAAATCATATCTAAAGTTAAATTAATTAATAAACAA
1 TGCAGGGAATATATAACTATTTTAGAAAAAAAATCATATCTAAAGTTAAATTAATTAATAAACAA
38391744 AGTAAATTAATTTAAAGTTGGAAAATATATCT
66 AGTAAATTAATTTAAAGTTGGAAAATATATCT
38391776 TGCAGGG-A-ATATAACTATTTTAGAAAAAAAATCATATCTAAAGTTAAATTAATTAATAAACAA
1 TGCAGGGAATATATAACTATTTTAGAAAAAAAATCATATCTAAAGTTAAATTAATTAATAAACAA
38391839 AGTAAATTAATTTAAAGTTGGAAAATATATCT
66 AGTAAATTAATTTAAAGTTGGAAAATATATCT
38391871 ATAAGATATG
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
95 87 0.92
96 1 0.01
97 7 0.07
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (97 bp):
TGCAGGGAATATATAACTATTTTAGAAAAAAAATCATATCTAAAGTTAAATTAATTAATAAACAA
AGTAAATTAATTTAAAGTTGGAAAATATATCT
Found at i:38392241 original size:31 final size:33
Alignment explanation
Indices: 38392192--38392270 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
38392182 AACATTTTAA
* *
38392192 TAAATAAAAAT-ATATAAATTTA-TTAAATA-T
1 TAAATAAAAATAATATAAATATATTTAAAAATT
38392222 TAAATAAAAATAATATAAATATATTTAAAAATT
1 TAAATAAAAATAATATAAATATATTTAAAAATT
*
38392255 TTAATAAAAATAATAT
1 TAAATAAAAATAATAT
38392271 GGGCAGACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 11 0.26
31 10 0.23
32 6 0.14
33 16 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (33 bp):
TAAATAAAAATAATATAAATATATTTAAAAATT
Found at i:38410498 original size:23 final size:23
Alignment explanation
Indices: 38410454--38410499 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
38410444 ATTGATTCAC
*
38410454 CGGGACGAGGAGCATCGACTCGT
1 CGGGACGAGGAGCATAGACTCGT
*
38410477 CGGGATGAGGAGCATTAG-CTCGT
1 CGGGACGAGGAGCA-TAGACTCGT
38410500 TAGGATGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.17
Consensus pattern (23 bp):
CGGGACGAGGAGCATAGACTCGT
Found at i:38421011 original size:15 final size:16
Alignment explanation
Indices: 38420991--38421021 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38420981 TGAACTATTA
38420991 ACTGCA-GATTTGTTT
1 ACTGCACGATTTGTTT
38421006 ACTGCACGATTTGTTT
1 ACTGCACGATTTGTTT
38421022 CTTGTCACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (16 bp):
ACTGCACGATTTGTTT
Found at i:38421652 original size:28 final size:28
Alignment explanation
Indices: 38421612--38421685 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
38421602 TGTGTTTTAT
38421612 TTTAATACATGTCTTTAATTTGTCATAG
1 TTTAATACATGTCTTTAATTTGTCATAG
* * *
38421640 TTTAGTACATGTCATTAATTTGTCCTAG
1 TTTAATACATGTCTTTAATTTGTCATAG
* *
38421668 TCTAATACCTGT-TTTAAT
1 TTTAATACATGTCTTTAAT
38421686 ATGCCTTAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 5 0.13
28 34 0.87
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.49
Consensus pattern (28 bp):
TTTAATACATGTCTTTAATTTGTCATAG
Found at i:38426755 original size:90 final size:91
Alignment explanation
Indices: 38426588--38426776 Score: 344
Period size: 90 Copynumber: 2.1 Consensus size: 91
38426578 CAATTAGGCA
38426588 TTCACACATTTAACTATCAAATTTTCATTTTACGCGATTAAGCCATTTTCTTTAATCGGTCATTC
1 TTCACACATTTAACTATCAAATTTTCATTTTACGCGATTAAGCCATTTTCTTTAATCGGTCATTC
* *
38426653 AAACGATAAAATTTAAATACGAAAAT
66 AAACGATAAAATTTAAACACAAAAAT
*
38426679 TTTACACATTTAA-TATCAAATTTTCATTTTACGCGATTAAGCCATTTTCTTTAATCGGTCATTC
1 TTCACACATTTAACTATCAAATTTTCATTTTACGCGATTAAGCCATTTTCTTTAATCGGTCATTC
38426743 AAACGATAAAATTTAAACACAAAAAT
66 AAACGATAAAATTTAAACACAAAAAT
38426769 TTCACACA
1 TTCACACA
38426777 ATCAAATTCA
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
90 82 0.87
91 12 0.13
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (91 bp):
TTCACACATTTAACTATCAAATTTTCATTTTACGCGATTAAGCCATTTTCTTTAATCGGTCATTC
AAACGATAAAATTTAAACACAAAAAT
Found at i:38436372 original size:20 final size:20
Alignment explanation
Indices: 38436344--38436382 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38436334 CAATTTATAA
38436344 CATTAAAAT-TAATCTATCAT
1 CATTAAAATATAATC-ATCAT
*
38436364 CATTCAAATATAATCATCA
1 CATTAAAATATAATCATCA
38436383 AGCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
CATTAAAATATAATCATCAT
Found at i:38442374 original size:42 final size:42
Alignment explanation
Indices: 38442326--38442426 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
38442316 AGAGAGAAAG
* *
38442326 GAAAATGTGTTCTACAAGGCACATT-TTCAGTATTGTGTCAGT
1 GAAAATGTGTTCTACAAGGCACATTGTT-ACTATCGTGTCAGT
** * * ** *
38442368 GAAAATGCATCCTACAATGCATGTTGTTACTCTCGTGTCAGT
1 GAAAATGTGTTCTACAAGGCACATTGTTACTATCGTGTCAGT
38442410 GAAAATGTGTTCTACAA
1 GAAAATGTGTTCTACAA
38442427 AGTGCTCTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 44 0.96
43 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (42 bp):
GAAAATGTGTTCTACAAGGCACATTGTTACTATCGTGTCAGT
Found at i:38446986 original size:28 final size:28
Alignment explanation
Indices: 38446930--38447034 Score: 142
Period size: 28 Copynumber: 3.8 Consensus size: 28
38446920 AAATGATGCT
* *
38446930 TTTGTGGCAAA-TCATGAAATGAA-AGCC
1 TTTGTGGCAAAGT-ATGAAAAGAATAACC
* *
38446957 TTTGTGGCGAAGTATGAAAATAATAACC
1 TTTGTGGCAAAGTATGAAAAGAATAACC
*
38446985 TTTGTGGCAAAGTATGAAAAGAATAGCC
1 TTTGTGGCAAAGTATGAAAAGAATAACC
38447013 TTTGTGGCAAAGTATGAAAAGA
1 TTTGTGGCAAAGTATGAAAAGA
38447035 TCAGCCTCTG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
27 18 0.26
28 51 0.74
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (28 bp):
TTTGTGGCAAAGTATGAAAAGAATAACC
Found at i:38447040 original size:28 final size:27
Alignment explanation
Indices: 38446930--38447048 Score: 141
Period size: 28 Copynumber: 4.3 Consensus size: 27
38446920 AAATGATGCT
* *
38446930 TTTGTGGCAAA-TCATGAAATGAAAGCC
1 TTTGTGGCAAAGT-ATGAAAAGATAGCC
* * *
38446957 TTTGTGGCGAAGTATGAAAATAATAACC
1 TTTGTGGCAAAGTATGAAAA-GATAGCC
38446985 TTTGTGGCAAAGTATGAAAAGAATAGCC
1 TTTGTGGCAAAGTATGAAAAG-ATAGCC
38447013 TTTGTGGCAAAGTATGAAAAGATCAGCC
1 TTTGTGGCAAAGTATGAAAAGAT-AGCC
*
38447041 TCTGTGGC
1 TTTGTGGC
38447049 GATATTTGAA
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
27 18 0.23
28 61 0.77
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.27
Consensus pattern (27 bp):
TTTGTGGCAAAGTATGAAAAGATAGCC
Found at i:38449657 original size:3 final size:3
Alignment explanation
Indices: 38449649--38449674 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
38449639 AGCCCACGAG
38449649 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
38449675 GGTTACCTTT
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:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:38450678 original size:25 final size:26
Alignment explanation
Indices: 38450631--38450680 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
38450621 GGCCCGGCCC
* * *
38450631 ATTTTTAAAATAAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAATT
38450657 ATTTTAAAAATAAAAAATAAAAAA
1 ATTTTAAAAATAAAAAATAAAAAA
38450681 ATTAACTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
ATTTTAAAAATAAAAAATAAAAAATT
Found at i:38456147 original size:127 final size:122
Alignment explanation
Indices: 38455934--38456193 Score: 387
Period size: 127 Copynumber: 2.1 Consensus size: 122
38455924 GTTTTCACAT
* * * * * * * *
38455934 GATTAAGAGGTTTCTAAACTTTGAATTTTTGTTAAAATTTTCTTGAGGTTTTAATGAGTTTTTAG
1 GATTAAGAGGTTTCTAAACGTTGAATTTTCGTTAAAAATTTCTTAAGGTTTCAATGAATTTTAAA
38455999 AAAATAGCCATAAAACATGTCAAAAAGTCGATACTATGAATTGAGTATTATATTGTA
66 AAAATAGCCATAAAACATGTCAAAAAGTCGATACTATGAATTGAGTATTATATTGTA
38456056 GATTAAGAGGTTTCTGAACTTACGTTGAATTTTCGTTAAAAATTTCTTAAGGTTTCAATGAATTT
1 GATTAAGAGGTTTCT-AA---ACGTTGAATTTTCGTTAAAAATTTCTTAAGGTTTCAATGAATTT
*
38456121 TCAAAAAAATAGCTATAAAACATGTCAAAAAGTCGATACTATGAATTGAGTATTATATTGTA
62 T-AAAAAAATAGCCATAAAACATGTCAAAAAGTCGATACTATGAATTGAGTATTATATTGTA
38456183 GATTAA-AGGTT
1 GATTAAGAGGTT
38456194 GGGAATTAGT
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
122 15 0.12
123 2 0.02
126 44 0.35
127 63 0.51
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (122 bp):
GATTAAGAGGTTTCTAAACGTTGAATTTTCGTTAAAAATTTCTTAAGGTTTCAATGAATTTTAAA
AAAATAGCCATAAAACATGTCAAAAAGTCGATACTATGAATTGAGTATTATATTGTA
Found at i:38456237 original size:127 final size:127
Alignment explanation
Indices: 38455999--38456230 Score: 292
Period size: 127 Copynumber: 1.8 Consensus size: 127
38455989 GAGTTTTTAG
38455999 AAAATAGCCATAAAACATGTCAAAAAGTCGATACTATGAATTGAGTATTATATTGTAGATTAAGA
1 AAAATAGCCATAAAACATGTCAAAAAGTCGATACTATGAATTGAGTATTATATTGTAGATTAAGA
* * ** *** ** **
38456064 GGTTTCTGAACTTACGTTGAATTTTCGTTAAAAATTTCTTAAGGTTTCAATGAATTTTCAAA
66 GGTTTCGGAACTTACGTCGAAGGTGAATTAAAAATAACAGAAGGTTTCAATGAATTTTCAAA
*
38456126 AAAATAGCTATAAAACATGTCAAAAAGTCGATACTATGAATTGAGTATTATATTGTAGATTAA-A
1 AAAATAGCCATAAAACATGTCAAAAAGTCGATACTATGAATTGAGTATTATATTGTAGATTAAGA
* *
38456190 GG-TTGGGAA-TTA-GTCGTAGGTGAATTACAAAATGAACAGAA
66 GGTTTCGGAACTTACGTCGAAGGTGAATTA-AAAAT-AACAGAA
38456231 TTGGTTTTAA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
123 8 0.09
124 8 0.09
125 8 0.09
126 3 0.03
127 62 0.70
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (127 bp):
AAAATAGCCATAAAACATGTCAAAAAGTCGATACTATGAATTGAGTATTATATTGTAGATTAAGA
GGTTTCGGAACTTACGTCGAAGGTGAATTAAAAATAACAGAAGGTTTCAATGAATTTTCAAA
Found at i:38457313 original size:21 final size:21
Alignment explanation
Indices: 38457271--38457313 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
38457261 ATTAGTTACA
*
38457271 CATTTTGTTCACATTAATATT
1 CATTTTGTTCACACTAATATT
*
38457292 CATTTTGTTTACCACTAA-ATT
1 CATTTTGTTCA-CACTAATATT
38457313 C
1 C
38457314 TTAATATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.28, C:0.19, G:0.05, T:0.49
Consensus pattern (21 bp):
CATTTTGTTCACACTAATATT
Found at i:38459002 original size:104 final size:105
Alignment explanation
Indices: 38458867--38459072 Score: 360
Period size: 104 Copynumber: 2.0 Consensus size: 105
38458857 GAGTCAAGCT
* * *
38458867 GCTTCCCTTTAAGCTCTTGAGAATTAAGTGGGGCAGATAGCAAATGCTTTGAATTCAAGGCTACA
1 GCTTCCCTTTAAGCTCTTAAGAATCAAGTGGGGCAGATAACAAATGCTTTGAATTCAAGGCTACA
*
38458932 AGGAGCTTTGCCAAGTGATACTGAGAATTTGAGATCACAA
66 AGGAGCTTTGCCAAGTGATACTGAGAATTCGAGATCACAA
38458972 GCTTCCCTTT-AGCTCTTAAGAATCAAGTGGGGCAGATAACAAATGCTTTGAATTCAAGGCTACA
1 GCTTCCCTTTAAGCTCTTAAGAATCAAGTGGGGCAGATAACAAATGCTTTGAATTCAAGGCTACA
*
38459036 AGGAGCTTTGCCAAGTGATATTGAGAATTCGAGATCA
66 AGGAGCTTTGCCAAGTGATACTGAGAATTCGAGATCA
38459073 TAAGGGAAAG
Statistics
Matches: 96, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
104 86 0.90
105 10 0.10
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (105 bp):
GCTTCCCTTTAAGCTCTTAAGAATCAAGTGGGGCAGATAACAAATGCTTTGAATTCAAGGCTACA
AGGAGCTTTGCCAAGTGATACTGAGAATTCGAGATCACAA
Found at i:38463498 original size:39 final size:39
Alignment explanation
Indices: 38463416--38463490 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
38463406 ACATATATGT
* * *
38463416 TTAAATGTTATGTGATTATATGAGTATTGTGATATACAC
1 TTAAATGTTATGTAATTATATGAGTAATGTGATACACAC
38463455 TTAAATGTTATGTAATTATAT-ATGTAATGTGATACA
1 TTAAATGTTATGTAATTATATGA-GTAATGTGATACA
38463491 TGCTTAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (39 bp):
TTAAATGTTATGTAATTATATGAGTAATGTGATACACAC
Found at i:38467215 original size:39 final size:39
Alignment explanation
Indices: 38467171--38467661 Score: 741
Period size: 39 Copynumber: 12.6 Consensus size: 39
38467161 AATATGTTTT
* * *
38467171 TGAGTATTGTGATATATGTTTTAATGTTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
** *
38467210 TGAGTATTGTGATATATGCTTAAACATTTTGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
38467249 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
38467288 TGAGTATTGTGATATATACTTCAACGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * **
38467327 TGAGCAATGTGATATATGCTTAAACATTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
38467366 TGAGTACT-AGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
38467404 TGAGTACTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
38467443 TGAGTATTGTGAAATATGCTTAAACGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
38467482 TGAGTATTGTGATATATGTTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
38467521 TGAGTACTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
38467560 TGAGTATTGTGAAATATGCTTAAACGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
38467599 TGAGTATTGTGATATATGTTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* **
38467638 TGTGTAAAGTGATATATGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
38467662 AGTGAATATG
Statistics
Matches: 410, Mismatches: 41, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
38 35 0.09
39 375 0.91
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:38471799 original size:50 final size:51
Alignment explanation
Indices: 38471729--38471880 Score: 173
Period size: 51 Copynumber: 3.0 Consensus size: 51
38471719 ATGTGAAAGT
* * * *
38471729 GAAAGTGATGGTCACGTGTGTACTACTATGTGCAGGCTACTACGTGTACCA
1 GAAAGTGATGATCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCA
* * * *
38471780 GAAA--GATAGATCGCATGTGTAGTACTATGTGTAGGCTACTACTTGTATCG
1 GAAAGTGAT-GATCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCA
* * * *
38471830 GATAGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGAACCA
1 GAAAGTGATGATCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCA
38471881 ATATCATTAA
Statistics
Matches: 82, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
49 3 0.04
50 37 0.45
51 39 0.48
52 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (51 bp):
GAAAGTGATGATCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCA
Found at i:38471860 original size:51 final size:50
Alignment explanation
Indices: 38471731--38471880 Score: 176
Period size: 50 Copynumber: 3.0 Consensus size: 50
38471721 GTGAAAGTGA
* * *
38471731 AAGTGATGGTCACGTGTGTACTACTATGTGCAGGCTACTACGTGTACCAG
1 AAGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCAG
* * * * * *
38471781 AA-AGATAGATCGCATGTGTAGTACTATGTGTAGGCTACTACTTGTATCGG
1 AAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCAG
* *
38471831 ATAGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGAACCA
1 A-AGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCA
38471881 ATATCATTAA
Statistics
Matches: 80, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
49 3 0.04
50 38 0.47
51 36 0.45
52 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
AAGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCAG
Found at i:38472120 original size:16 final size:16
Alignment explanation
Indices: 38472099--38472130 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38472089 TGATTAAAAG
*
38472099 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
38472115 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
38472131 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:38472164 original size:25 final size:26
Alignment explanation
Indices: 38472120--38472170 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
38472110 AATTATGAAA
38472120 AAGTAAAATTAGCAACAAAACAGTTT
1 AAGTAAAATTAGCAACAAAACAGTTT
*
38472146 AAGTAGAATT-GCAACAAAACAGTTT
1 AAGTAAAATTAGCAACAAAACAGTTT
38472171 TGGACAGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.24
Consensus pattern (26 bp):
AAGTAAAATTAGCAACAAAACAGTTT
Found at i:38473865 original size:70 final size:70
Alignment explanation
Indices: 38473747--38474451 Score: 594
Period size: 70 Copynumber: 10.1 Consensus size: 70
38473737 ACGTAAGCTT
* * * * *
38473747 TAACTATTTTAGAAGG-TGGAGTTTTTGAGCCTGCGAGCCTTAAGATCACAGCTGGGAGTTTGAG
1 TAACTATTTTAG-AGGCTGCAG-TGTTGAACCTGCGAGCCTTAAGATCACAGTTGGGAGCTTGAG
38473811 CTCTAGC
64 CTCTAGC
* ** * * * *
38473818 TAACTATTTAAGAGGCTGCAGTGTTGAAATTGTGAGCCTTAAGATCACAGTTGAGAGTTTGACCT
1 TAACTATTTTAGAGGCTGCAGTGTTGAACCTGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCT
** *
38473883 CGCGT
66 CTAGC
* * ** * *
38473888 TAACTATTTTGGAGGCTGCAGTGTTGAACTTATGAGCATTAAGATCACAGCTGGGAGCTTGAGCT
1 TAACTATTTTAGAGGCTGCAGTGTTGAACCTGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCT
*
38473953 -TGCGC
66 CT-AGC
* * * * *
38473958 TAA-T-TGTTTAGGAGGTTGC-GATGTTAAACCTGCAAGCCTTAAGATCACAATTGGGAGTTTGA
1 TAACTAT-TTTA-GAGGCTGCAG-TGTTGAACCTGCGAGCCTTAAGATCACAGTTGGGAGCTTGA
38474020 GCTC-ATGC
63 GCTCTA-GC
* * * *
38474028 TAACTGTTTTAGAGGTTG-TGATGTTGAACCTACGAGCCTTAAGATCACAGTTGGGAGCTTGAGC
1 TAACTATTTTAGAGGCTGCAG-TGTTGAACCTGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGC
38474092 TC-ATGC
65 TCTA-GC
* * * * *
38474098 TAGCTATTTTAGAGGCTACAATGTTGAACCTGTGAGCTTTAAGATCACAGTTGGGAGCTTGAGCT
1 TAACTATTTTAGAGGCTGCAGTGTTGAACCTGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCT
**
38474163 CGCGC
66 CTAGC
* * * * * * *
38474168 TAACTATTTTGGAGGCTACGGTGGTGAACCTGCGAGCCTTAATATCACAGTTAGGAGCTCGAGCT
1 TAACTATTTTAGAGGCTGCAGTGTTGAACCTGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCT
38474233 CGT-GC
66 C-TAGC
* * * ** *
38474238 TAACTATTTTAGAGGCTAC-GATGTTGAACCTACGAGCCTTAAAATCACAACTAGGAGCTTGAGC
1 TAACTATTTTAGAGGCTGCAG-TGTTGAACCTGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGC
38474302 TAAC-A-C
65 T--CTAGC
* * * *
38474308 TAACTATTTTAGAGGTTGCAGTGTTGAACCTGCGAGCCTTAAGACCATAGTTGGAAGCTTGAGCT
1 TAACTATTTTAGAGGCTGCAGTGTTGAACCTGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCT
38474373 CGT-GC
66 C-TAGC
* ** * * * * **
38474378 TAACTATTTTGGAGGCTGC-GCATTGAAACTGTGAGCCTTAAAATCACAGCTAAGAGCTTGAGCT
1 TAACTATTTTAGAGGCTGCAGTGTTGAACCTGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCT
38474442 CGTA-C
66 C-TAGC
38474447 TAACT
1 TAACT
38474452 GCTTTGAAGG
Statistics
Matches: 520, Mismatches: 92, Indels: 46
0.79 0.14 0.07
Matches are distributed among these distances:
68 2 0.00
69 49 0.09
70 446 0.86
71 21 0.04
72 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (70 bp):
TAACTATTTTAGAGGCTGCAGTGTTGAACCTGCGAGCCTTAAGATCACAGTTGGGAGCTTGAGCT
CTAGC
Found at i:38474144 original size:210 final size:208
Alignment explanation
Indices: 38473776--38474426 Score: 712
Period size: 210 Copynumber: 3.1 Consensus size: 208
38473766 AGTTTTTGAG
* * *
38473776 CCTGCGAGCCTTAAGATCACAGCTGGGAGTTTGAGCTCTAGCTAACTATTTAAGAGGCTGCAGTG
1 CCTGCGAGCCTTAAGATCACAGTTGGGAGTTTGAGCTCT-GCTAACTATTTTAGAGGCTGGA-TG
** ** * * * * * *
38473841 TTGAAATTGTGAGCCTTAAGATCACAGTTGAGAGTTTGACCTCGCGTTAACTATTTTGGAGGCTG
64 TTGAACCTACGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCACGCTAACTATTTTAGAGGCTG
* * * * * *
38473906 CAGTGTTGAACTTATGAGCATTAAGATCACAGCTGGGAGCTTGAGCTTGCGCTAATTGTTTAGGA
129 CAGTGTTGAACCTGTGAGCATTAAGATCACAGTTGGGAGCTTGAGCTCGCGCTAACTATTTAGGA
* * *
38473971 GGTTGCGATGTTAAA
194 GGCTACGATGGTAAA
* * * *
38473986 CCTGCAAGCCTTAAGATCACAATTGGGAGTTTGAGCTCATGCTAACTGTTTTAGAGGTTGTGATG
1 CCTGCGAGCCTTAAGATCACAGTTGGGAGTTTGAGCTC-TGCTAACTATTTTAGAGGCTG-GATG
* * *
38474051 TTGAACCTACGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCATGCTAGCTATTTTAGAGGCTA
64 TTGAACCTACGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCACGCTAACTATTTTAGAGGCTG
* * *
38474116 CAATGTTGAACCTGTGAGCTTTAAGATCACAGTTGGGAGCTTGAGCTCGCGCTAACTATTTTGGA
129 CAGTGTTGAACCTGTGAGCATTAAGATCACAGTTGGGAGCTTGAGCTCGCGCTAACTATTTAGGA
* *
38474181 GGCTACGGTGGTGAA
194 GGCTACGATGGTAAA
* * * * *
38474196 CCTGCGAGCCTTAATATCACAGTTAGGAGCTCGAGCTCGTGCTAACTATTTTAGAGGCTACGATG
1 CCTGCGAGCCTTAAGATCACAGTTGGGAGTTTGAGCTC-TGCTAACTATTTTAGAGGCT-GGATG
* ** * * * *
38474261 TTGAACCTACGAGCCTTAAAATCACAACTAGGAGCTTGAGCTAACACTAACTATTTTAGAGGTTG
64 TTGAACCTACGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCACGCTAACTATTTTAGAGGCTG
* * * * * * *
38474326 CAGTGTTGAACCTGCGAGCCTTAAGACCATAGTTGGAAGCTTGAGCTCGTGCTAACTATTTTGGA
129 CAGTGTTGAACCTGTGAGCATTAAGATCACAGTTGGGAGCTTGAGCTCGCGCTAACTATTTAGGA
* *
38474391 GGCTGCGCATTG-AAA
194 GGCTACG-ATGGTAAA
* *
38474406 -CTGTGAGCCTTAAAATCACAG
1 CCTGCGAGCCTTAAGATCACAG
38474427 CTAAGAGCTT
Statistics
Matches: 370, Mismatches: 67, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
209 19 0.05
210 347 0.94
211 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (208 bp):
CCTGCGAGCCTTAAGATCACAGTTGGGAGTTTGAGCTCTGCTAACTATTTTAGAGGCTGGATGTT
GAACCTACGAGCCTTAAGATCACAGTTGGGAGCTTGAGCTCACGCTAACTATTTTAGAGGCTGCA
GTGTTGAACCTGTGAGCATTAAGATCACAGTTGGGAGCTTGAGCTCGCGCTAACTATTTAGGAGG
CTACGATGGTAAA
Found at i:38479919 original size:25 final size:26
Alignment explanation
Indices: 38479891--38479940 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
38479881 GTGGCTATGC
38479891 AAGGGAAAGAAAAAGGAG-AATGAAA
1 AAGGGAAAGAAAAAGGAGAAATGAAA
* * *
38479916 AAGGGAATGAGAAATGAGAAATGAA
1 AAGGGAAAGAAAAAGGAGAAATGAA
38479941 TGATGAGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (26 bp):
AAGGGAAAGAAAAAGGAGAAATGAAA
Found at i:38488981 original size:37 final size:37
Alignment explanation
Indices: 38488931--38489004 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
38488921 AGAGATTGTG
38488931 ATTGTTATTGTAATTGAAGATGTGATTGAAGACTAAT
1 ATTGTTATTGTAATTGAAGATGTGATTGAAGACTAAT
*
38488968 ATTGTTATTGTAATTGAGGATGTGATTGAAGACTAAT
1 ATTGTTATTGTAATTGAAGATGTGATTGAAGACTAAT
38489005 CATGACAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.41
Consensus pattern (37 bp):
ATTGTTATTGTAATTGAAGATGTGATTGAAGACTAAT
Found at i:38493741 original size:92 final size:93
Alignment explanation
Indices: 38493574--38493758 Score: 363
Period size: 92 Copynumber: 2.0 Consensus size: 93
38493564 CATGAACTTG
38493574 GCGAAACCCTTTAGCAACTAATCACCGTTTGTACATTACCATCCATGTCGATTTCTTTTTGAAAA
1 GCGAAACCCTTTAGCAACTAATCACCGTTTGTACATTACCATCCATGTCGATTTCTTTTTGAAAA
38493639 CCCACTTGTACCCTATGGGCTTAACCCC
66 CCCACTTGTACCCTATGGGCTTAACCCC
38493667 GCGAAACCC-TTAGCAACTAATCACCGTTTGTACATTACCATCCATGTCGATTTCTTTTTGAAAA
1 GCGAAACCCTTTAGCAACTAATCACCGTTTGTACATTACCATCCATGTCGATTTCTTTTTGAAAA
38493731 CCCACTTGTACCCTATGGGCTTAACCCC
66 CCCACTTGTACCCTATGGGCTTAACCCC
38493759 TTCGGGTGGG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 83 0.90
93 9 0.10
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (93 bp):
GCGAAACCCTTTAGCAACTAATCACCGTTTGTACATTACCATCCATGTCGATTTCTTTTTGAAAA
CCCACTTGTACCCTATGGGCTTAACCCC
Found at i:38508358 original size:50 final size:54
Alignment explanation
Indices: 38508236--38508380 Score: 192
Period size: 56 Copynumber: 2.7 Consensus size: 54
38508226 ACATTTGGGT
* *
38508236 AAAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATC
1 AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCC-TAAGATC
*
38508291 ATAAGAGGTTCCC-TGTAAGACCATGTCTGGGACATGGCATGGGCA-CC-GAGA-C
1 A-AAGAGG-TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCTAAGATC
*
38508343 -GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT
1 AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT
38508381 TGGTGCAGCA
Statistics
Matches: 83, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
49 4 0.05
50 32 0.39
52 1 0.01
53 3 0.04
55 3 0.04
56 36 0.43
57 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (54 bp):
AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCCTAAGATC
Found at i:38511981 original size:18 final size:18
Alignment explanation
Indices: 38511950--38511999 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
38511940 ATAAAAAAAC
*
38511950 ATTTTGAAATTGAATAATG
1 ATTTGGAAA-TGAATAATG
*
38511969 ATTTGTAAATGAATAATG
1 ATTTGGAAATGAATAATG
*
38511987 TTTTGGAAATGAA
1 ATTTGGAAATGAA
38512000 CGACACGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (18 bp):
ATTTGGAAATGAATAATG
Found at i:38519595 original size:19 final size:19
Alignment explanation
Indices: 38519562--38519605 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38519552 NNNNNNNNNN
*
38519562 ATTATAA-AGATAAATACT
1 ATTATAATAAATAAATACT
*
38519580 ATTATAATAAATAAATATT
1 ATTATAATAAATAAATACT
38519599 ATT-TAAT
1 ATTATAAT
38519606 TACCATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
ATTATAATAAATAAATACT
Found at i:38519843 original size:27 final size:28
Alignment explanation
Indices: 38519810--38519871 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
38519800 AAGTAGGCTT
**
38519810 TAAAATATTATTA-AATGATATTGAATTA
1 TAAAATATTA-TACAAAAATATTGAATTA
38519838 -AAAATA-TATACAAAAATATTGAATTA
1 TAAAATATTATACAAAAATATTGAATTA
38519864 TAAAATAT
1 TAAAATAT
38519872 AAATAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
25 2 0.07
26 15 0.52
27 12 0.41
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (28 bp):
TAAAATATTATACAAAAATATTGAATTA
Found at i:38520801 original size:20 final size:20
Alignment explanation
Indices: 38520768--38520805 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38520758 ATATATATGG
38520768 GTTAAATTTGATGTATTAAA
1 GTTAAATTTGATGTATTAAA
38520788 GTTACAATTT-ATGTATTA
1 GTTA-AATTTGATGTATTA
38520806 TCAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (20 bp):
GTTAAATTTGATGTATTAAA
Found at i:38521301 original size:31 final size:31
Alignment explanation
Indices: 38521263--38521359 Score: 78
Period size: 31 Copynumber: 3.3 Consensus size: 31
38521253 ATTTTTTTTT
38521263 TTTTAAAATCTATCGATGTAGGAAGTCTTTG
1 TTTTAAAATCTATCGATGTAGGAAGTCTTTG
* * **** * *
38521294 TTTTAAAAGCTA---A--AAGCTTTTTTTTT
1 TTTTAAAATCTATCGATGTAGGAAGTCTTTG
38521320 TTTTACAAATCTATCGATGTAGGAAGTCTTTG
1 TTTTA-AAATCTATCGATGTAGGAAGTCTTTG
38521352 TTTTAAAA
1 TTTTAAAA
38521360 GCTAAAAGCT
Statistics
Matches: 44, Mismatches: 16, Indels: 12
0.61 0.22 0.17
Matches are distributed among these distances:
26 11 0.25
27 6 0.14
28 1 0.02
30 1 0.02
31 14 0.32
32 11 0.25
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.45
Consensus pattern (31 bp):
TTTTAAAATCTATCGATGTAGGAAGTCTTTG
Found at i:38521331 original size:58 final size:57
Alignment explanation
Indices: 38521254--38521372 Score: 229
Period size: 58 Copynumber: 2.1 Consensus size: 57
38521244 TACCAGAGAA
38521254 TTTTTTTTTTTTTAAAATCTATCGATGTAGGAAGTCTTTGTTTTAAAAGCTAAAAGC
1 TTTTTTTTTTTTTAAAATCTATCGATGTAGGAAGTCTTTGTTTTAAAAGCTAAAAGC
38521311 TTTTTTTTTTTTTACAAATCTATCGATGTAGGAAGTCTTTGTTTTAAAAGCTAAAAGC
1 TTTTTTTTTTTTTA-AAATCTATCGATGTAGGAAGTCTTTGTTTTAAAAGCTAAAAGC
38521369 TTTT
1 TTTT
38521373 GTTAGAAAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 14 0.23
58 47 0.77
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (57 bp):
TTTTTTTTTTTTTAAAATCTATCGATGTAGGAAGTCTTTGTTTTAAAAGCTAAAAGC
Found at i:38522512 original size:13 final size:13
Alignment explanation
Indices: 38522494--38522525 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
38522484 TTTTTATTTA
38522494 GAGTTTAATCTAT
1 GAGTTTAATCTAT
38522507 GAGTTTAATCTAT
1 GAGTTTAATCTAT
38522520 GAGTTT
1 GAGTTT
38522526 CGAGTAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.47
Consensus pattern (13 bp):
GAGTTTAATCTAT
Found at i:38524742 original size:6 final size:6
Alignment explanation
Indices: 38524731--38524772 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
38524721 GGAAATTAGA
* * *
38524731 TTTGGG TTTGGG TTTGGA TTTGGA TTTGGA TTTGGG TTTGGG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG
38524773 GTTGAAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (6 bp):
TTTGGG
Found at i:38524746 original size:12 final size:12
Alignment explanation
Indices: 38524731--38524771 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
38524721 GGAAATTAGA
*
38524731 TTTGGGTTTGGG
1 TTTGGATTTGGG
*
38524743 TTTGGATTTGGA
1 TTTGGATTTGGG
38524755 TTTGGATTTGGG
1 TTTGGATTTGGG
38524767 TTTGG
1 TTTGG
38524772 GGTTGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.51
Consensus pattern (12 bp):
TTTGGATTTGGG
Found at i:38527943 original size:3 final size:3
Alignment explanation
Indices: 38527935--38527960 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
38527925 ACAAATACCA
38527935 TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TA
38527961 ATAATAATAA
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:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:38529782 original size:3 final size:3
Alignment explanation
Indices: 38529774--38529799 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
38529764 TGATGAAAAT
38529774 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
38529800 TCCATGATTC
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:38533205 original size:18 final size:17
Alignment explanation
Indices: 38533172--38533210 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
38533162 TTTTATAAAT
38533172 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
38533190 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
38533207 TGTG
1 TGTG
38533211 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:38533449 original size:23 final size:23
Alignment explanation
Indices: 38533422--38533544 Score: 156
Period size: 23 Copynumber: 5.3 Consensus size: 23
38533412 AGTGTTATTG
38533422 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
38533445 TTCAGTGGTAGCTACGGCTCCAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
38533468 ATCAGTGGTAGCTTCGGCTCCAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
38533491 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
38533514 ATCTAGTGGTAGCATCGGCTACAT
1 ATC-AGTGGTAGCTTCGGCTACAT
*
38533538 ATTAGTG
1 ATCAGTG
38533545 TGGCACTTAT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
23 66 0.78
24 19 0.22
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:38533474 original size:46 final size:46
Alignment explanation
Indices: 38533422--38533537 Score: 187
Period size: 46 Copynumber: 2.5 Consensus size: 46
38533412 AGTGTTATTG
*
38533422 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTCCAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* *
38533468 ATCAGTGGTAGCTTCGGCTCCATTTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
*
38533514 ATCTAGTGGTAGCATCGGCTACAT
1 ATC-AGTGGTAGCTTCGGCTACAT
38533538 ATTAGTGTGG
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
46 46 0.72
47 18 0.28
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:38537649 original size:47 final size:48
Alignment explanation
Indices: 38537558--38537650 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 48
38537548 CATGGCAACA
* * *
38537558 TGTGATATGTGATTTCTGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGACTACTGTATAAGACCATAGCCGGGATATGGCATCGG
* * *
38537606 TGTGATATGTG-CTACTGTGTAAGACCATAGCTGGGCTATGGCATC
1 TGTGATATGTGACTACTGTATAAGACCATAGCCGGGATATGGCATC
38537651 AATATGTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 28 0.72
48 11 0.28
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (48 bp):
TGTGATATGTGACTACTGTATAAGACCATAGCCGGGATATGGCATCGG
Found at i:38538856 original size:11 final size:11
Alignment explanation
Indices: 38538842--38538866 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38538832 CAAAATTCTA
38538842 AAACTAAAACT
1 AAACTAAAACT
38538853 AAACTAAAACT
1 AAACTAAAACT
38538864 AAA
1 AAA
38538867 GTCTAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (11 bp):
AAACTAAAACT
Found at i:38538969 original size:9 final size:9
Alignment explanation
Indices: 38538906--38538972 Score: 73
Period size: 9 Copynumber: 7.4 Consensus size: 9
38538896 GTAGTGATTC
*
38538906 AATTCGGTC
1 AATTCGGTT
38538915 AATTCGGTT
1 AATTCGGTT
38538924 AATTCGAG-T
1 AATTCG-GTT
* *
38538933 AATTTGGGT
1 AATTCGGTT
*
38538942 AATTCGATT
1 AATTCGGTT
*
38538951 AATTCAGTT
1 AATTCGGTT
38538960 AATTCGGTT
1 AATTCGGTT
38538969 AATT
1 AATT
38538973 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 1 0.02
9 46 0.96
10 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:38540819 original size:30 final size:30
Alignment explanation
Indices: 38540785--38540846 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
38540775 ATTTACGAGC
*
38540785 TTTGGGGTAAAAGTGTAAATATGCAAAAGT
1 TTTGGGGAAAAAGTGTAAATATGCAAAAGT
* * * *
38540815 TTTGGGGAAAAATTGTAATTTTGCCAAAGT
1 TTTGGGGAAAAAGTGTAAATATGCAAAAGT
38540845 TT
1 TT
38540847 GAGTAAATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTGGGGAAAAAGTGTAAATATGCAAAAGT
Found at i:38541065 original size:18 final size:17
Alignment explanation
Indices: 38541032--38541070 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
38541022 TTTTATAAAT
38541032 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
38541050 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
38541067 TGTG
1 TGTG
38541071 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:38541368 original size:23 final size:23
Alignment explanation
Indices: 38541298--38541370 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
38541288 GTTATTGATC
38541298 AGTGGTAGCTTCGGCTACAT-TT
1 AGTGGTAGCTTCGGCTACATATT
* * * *
38541320 CAATGGTAGCTACAGCTACGTATT
1 -AGTGGTAGCTTCGGCTACATATT
*
38541344 AGTGGTAGCTTTGGCTACATATT
1 AGTGGTAGCTTCGGCTACATATT
38541367 AGTG
1 AGTG
38541371 TGGCACTTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
23 38 0.95
24 2 0.05
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (23 bp):
AGTGGTAGCTTCGGCTACATATT
Found at i:38545565 original size:75 final size:76
Alignment explanation
Indices: 38545462--38545626 Score: 309
Period size: 75 Copynumber: 2.2 Consensus size: 76
38545452 ATAAATAATA
38545462 TTTTAAAGTAAATATAATAAGTTATTATAATTTAAAGTAATTAACAATAATTAAAAGCAAAAAAA
1 TTTTAAAGTAAATATAATAAGTTATTATAATTTAAAGTAATTAACAATAATTAAAAGCAAAAAAA
38545527 TTATTTTTATT
66 TTATTTTTATT
38545538 TTTTAAAGTAAATA-AATAAGTTATTATAATTTAAAGTAATTAACAATAATTAAAAGCAAAAAAA
1 TTTTAAAGTAAATATAATAAGTTATTATAATTTAAAGTAATTAACAATAATTAAAAGCAAAAAAA
38545602 TTATTTTTATT
66 TTATTTTTATT
38545613 TTTTAAA--AAATATA
1 TTTTAAAGTAAATATA
38545627 CTTAATTTAA
Statistics
Matches: 88, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
73 5 0.06
74 1 0.01
75 68 0.77
76 14 0.16
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (76 bp):
TTTTAAAGTAAATATAATAAGTTATTATAATTTAAAGTAATTAACAATAATTAAAAGCAAAAAAA
TTATTTTTATT
Found at i:38558194 original size:33 final size:33
Alignment explanation
Indices: 38558157--38558265 Score: 112
Period size: 33 Copynumber: 3.3 Consensus size: 33
38558147 CCGTAGGGAT
* *
38558157 AGTAAACATAGAACAAAGATAGTCTGTTGGAAA
1 AGTAAACACAGAACAAAGAAAGTCTGTTGGAAA
* * * * * *
38558190 AGTAAACACAGAATAGAGAAAGTGTGCTGGGAT
1 AGTAAACACAGAACAAAGAAAGTCTGTTGGAAA
* *
38558223 AGTAAACACAGAACAAAGAAAGTTTGTTGCG-AT
1 AGTAAACACAGAACAAAGAAAGTCTGTTG-GAAA
38558256 AGTAAACACA
1 AGTAAACACA
38558266 AAATATAGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
33 62 0.98
34 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.23, T:0.19
Consensus pattern (33 bp):
AGTAAACACAGAACAAAGAAAGTCTGTTGGAAA
Found at i:38561270 original size:20 final size:20
Alignment explanation
Indices: 38561245--38561282 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38561235 CCTCTGTAGC
*
38561245 GAAACACACACATGATTAGT
1 GAAACACACACATAATTAGT
38561265 GAAACACACACATAATTA
1 GAAACACACACATAATTA
38561283 TTGGTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.21, G:0.11, T:0.18
Consensus pattern (20 bp):
GAAACACACACATAATTAGT
Found at i:38561612 original size:72 final size:72
Alignment explanation
Indices: 38561530--38561692 Score: 191
Period size: 72 Copynumber: 2.3 Consensus size: 72
38561520 GAAAATCACC
* * * * *
38561530 TTCTCGTTACCAAACTTCTCATAGTAATAAAAAAACCTACAAAAGTGAAACAAACAATGCAACAC
1 TTCTCATTACCACACTTCTCACAATAATAAAAAAACCTACAAAAGTGAAACAAACAATACAACAC
38561595 ATGTATT
66 ATGTATT
** * * ** *** *
38561602 TTCTCATTACCACACTTCTCACAATAATCGAATAACCTATACGAGTGAATGGAACGATACAACAC
1 TTCTCATTACCACACTTCTCACAATAATAAAAAAACCTACAAAAGTGAAACAAACAATACAACAC
38561667 ATGTATT
66 ATGTATT
38561674 TTCTCATTACCACACTTCT
1 TTCTCATTACCACACTTCT
38561693 TATCTTTAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (72 bp):
TTCTCATTACCACACTTCTCACAATAATAAAAAAACCTACAAAAGTGAAACAAACAATACAACAC
ATGTATT
Found at i:38577487 original size:18 final size:18
Alignment explanation
Indices: 38577464--38577500 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
38577454 ATTAAAAAAA
38577464 TCCCGATTTGAAAACGGT
1 TCCCGATTTGAAAACGGT
38577482 TCCCGATTTGAAAACGGT
1 TCCCGATTTGAAAACGGT
38577500 T
1 T
38577501 TTCTTACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (18 bp):
TCCCGATTTGAAAACGGT
Found at i:38579662 original size:27 final size:27
Alignment explanation
Indices: 38579609--38579662 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
38579599 TACAATTTTT
* * *
38579609 TAAGTATTTAAAGGTTAATTAAGTAAA
1 TAAGTAATTAAAGATTAATTAAATAAA
38579636 TAAGTAATTAAA-ATTAATTAAAATAAA
1 TAAGTAATTAAAGATTAATT-AAATAAA
38579663 ACCCAAGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (27 bp):
TAAGTAATTAAAGATTAATTAAATAAA
Found at i:38580553 original size:25 final size:25
Alignment explanation
Indices: 38580503--38580555 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
38580493 AGCTCAAGAT
*
38580503 AGCTTACCGATATTCAGTTAGCATG
1 AGCTTACCGATATTCAGCTAGCATG
* * *
38580528 AGCTTACTGATATTCAGCTCGTATG
1 AGCTTACCGATATTCAGCTAGCATG
38580553 AGC
1 AGC
38580556 ATACATGTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (25 bp):
AGCTTACCGATATTCAGCTAGCATG
Found at i:38590204 original size:5 final size:6
Alignment explanation
Indices: 38590174--38590204 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
38590164 TGGGTGGGAA
38590174 ATTTGC ATTTGC ATTTGC ATTTGC A-TTGC AT
1 ATTTGC ATTTGC ATTTGC ATTTGC ATTTGC AT
38590205 CATAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTTGC
Found at i:38591132 original size:19 final size:19
Alignment explanation
Indices: 38591108--38591144 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
38591098 AACAAATAAT
38591108 TTTAAAATTATAAAAAATA
1 TTTAAAATTATAAAAAATA
38591127 TTTAAAATTATAAAAAAT
1 TTTAAAATTATAAAAAAT
38591145 TCAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTAAAATTATAAAAAATA
Found at i:38591152 original size:19 final size:19
Alignment explanation
Indices: 38591111--38591164 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
38591101 AAATAATTTT
**
38591111 AAAATTATAAAAAATATTT
1 AAAATTATAAAAAATATAA
38591130 AAAATTATAAAAAAT-TCAA
1 AAAATTATAAAAAATAT-AA
38591149 AAAATTCA-AAAAAATA
1 AAAATT-ATAAAAAATA
38591165 GCTTGAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 28 0.93
20 1 0.03
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATTATAAAAAATATAA
Found at i:38591284 original size:31 final size:32
Alignment explanation
Indices: 38591249--38591319 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 32
38591239 AAAAACTAAC
38591249 AATTTAGCTTTTGCTGAAA-GGTTG-GTGGTCA
1 AATTTAGCTTTTGCTGAAACGGTTGAGT-GTCA
* ** *
38591280 AATTT-GATTTTTTTTAAACGGTTGAGTGTCA
1 AATTTAGCTTTTGCTGAAACGGTTGAGTGTCA
38591311 AATTTAGCT
1 AATTTAGCT
38591320 ATAAAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
30 9 0.28
31 19 0.59
32 4 0.12
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (32 bp):
AATTTAGCTTTTGCTGAAACGGTTGAGTGTCA
Found at i:38595866 original size:159 final size:159
Alignment explanation
Indices: 38595615--38595933 Score: 638
Period size: 159 Copynumber: 2.0 Consensus size: 159
38595605 ATTTAGGTAG
38595615 AGTACTATTTCACTAATGTTCCTATTCTAAAACATTGTTTCCTTAACTATTCATGTAGTTCATAG
1 AGTACTATTTCACTAATGTTCCTATTCTAAAACATTGTTTCCTTAACTATTCATGTAGTTCATAG
38595680 ACACTCATGGATCTTTCATTCCTTACCTTTCAGAACATTTCCCTTACTAGACTTAGTCCTTCAAG
66 ACACTCATGGATCTTTCATTCCTTACCTTTCAGAACATTTCCCTTACTAGACTTAGTCCTTCAAG
38595745 CTTAATTGACTCATTCTTTTGTGTCTGCC
131 CTTAATTGACTCATTCTTTTGTGTCTGCC
38595774 AGTACTATTTCACTAATGTTCCTATTCTAAAACATTGTTTCCTTAACTATTCATGTAGTTCATAG
1 AGTACTATTTCACTAATGTTCCTATTCTAAAACATTGTTTCCTTAACTATTCATGTAGTTCATAG
38595839 ACACTCATGGATCTTTCATTCCTTACCTTTCAGAACATTTCCCTTACTAGACTTAGTCCTTCAAG
66 ACACTCATGGATCTTTCATTCCTTACCTTTCAGAACATTTCCCTTACTAGACTTAGTCCTTCAAG
38595904 CTTAATTGACTCATTCTTTTGTGTCTGCC
131 CTTAATTGACTCATTCTTTTGTGTCTGCC
38595933 A
1 A
38595934 CATATTCTGG
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 160 1.00
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (159 bp):
AGTACTATTTCACTAATGTTCCTATTCTAAAACATTGTTTCCTTAACTATTCATGTAGTTCATAG
ACACTCATGGATCTTTCATTCCTTACCTTTCAGAACATTTCCCTTACTAGACTTAGTCCTTCAAG
CTTAATTGACTCATTCTTTTGTGTCTGCC
Found at i:38596612 original size:30 final size:30
Alignment explanation
Indices: 38596577--38596864 Score: 192
Period size: 30 Copynumber: 10.0 Consensus size: 30
38596567 AATGGGCTTT
* **
38596577 CTTTACAAAGGTTCACCACAAAGGTTTTTC
1 CTTTACAGAGGTTTGCCACAAAGGTTTTTC
* * *
38596607 CTTTAC-GGGGATTTGCCATAAAGGCTTTT-
1 CTTTACAGAGG-TTTGCCACAAAGGTTTTTC
* * *
38596636 CTATACAGAGGTTTTCCAGAAAGGTTTTT-
1 CTTTACAGAGGTTTGCCACAAAGGTTTTTC
* * *
38596665 CTTT-TAGA--TATGCCACAAAGGCTTTTC
1 CTTTACAGAGGTTTGCCACAAAGGTTTTTC
* * *
38596692 CTTAACAAAGATTTGCCACAAAGGTTTTT-
1 CTTTACAGAGGTTTGCCACAAAGGTTTTTC
* * *
38596721 CTGTACAGAGGTTTGCCTCAAAGGCTTTT-
1 CTTTACAGAGGTTTGCCACAAAGGTTTTTC
* *
38596750 CTTT-TAGA--TATT-CCACAAAGG-CTTT-
1 CTTTACAGAGGT-TTGCCACAAAGGTTTTTC
* * *
38596775 CTATT-CAAAGGTTCGCCATAAAGGTTTTTC
1 CT-TTACAGAGGTTTGCCACAAAGGTTTTTC
* * *
38596805 CTTTACAGAGATTTGCCACAAAGGCTCTTC
1 CTTTACAGAGGTTTGCCACAAAGGTTTTTC
*
38596835 TTTATACAGAGGTTTGCCACAAAGGTTTTT
1 CTT-TACAGAGGTTTGCCACAAAGGTTTTT
38596865 ACGTTTTTTG
Statistics
Matches: 196, Mismatches: 47, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
25 5 0.03
26 27 0.14
27 6 0.03
28 17 0.09
29 56 0.29
30 62 0.32
31 23 0.12
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (30 bp):
CTTTACAGAGGTTTGCCACAAAGGTTTTTC
Found at i:38596744 original size:85 final size:85
Alignment explanation
Indices: 38596592--38596837 Score: 282
Period size: 85 Copynumber: 2.9 Consensus size: 85
38596582 CAAAGGTTCA
* * *** * * *
38596592 CCACAAAGGTTTTTCCTTTACGGGGATTTGCCATAAAGGCTTTTCTATACAGAGGTTTTCCAGAA
1 CCACAAAGGCTTTTCCTTAACAAAGATTTGCCATAAAGGTTTTTCTATACAGAGGTTTGCCACAA
*
38596657 AGGTTTTTCTTTTAGATATG
66 AGGCTTTTCTTTTAGATATG
* * *
38596677 CCACAAAGGCTTTTCCTTAACAAAGATTTGCCACAAAGGTTTTTCTGTACAGAGGTTTGCCTCAA
1 CCACAAAGGCTTTTCCTTAACAAAGATTTGCCATAAAGGTTTTTCTATACAGAGGTTTGCCACAA
*
38596742 AGGCTTTTCTTTTAGATATT
66 AGGCTTTTCTTTTAGATATG
* * * * *
38596762 CCACAAAGGC-TTT-C-TATTCAAAGGTTCGCCATAAAGGTTTTTCCTTTACAGAGATTTGCCAC
1 CCACAAAGGCTTTTCCTTA-ACAAAGATTTGCCATAAAGGTTTTT-CTATACAGAGGTTTGCCAC
*
38596824 AAAGGCTCTTCTTT
64 AAAGGCTTTTCTTT
38596838 ATACAGAGGT
Statistics
Matches: 138, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
82 2 0.01
83 22 0.16
84 32 0.23
85 82 0.59
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (85 bp):
CCACAAAGGCTTTTCCTTAACAAAGATTTGCCATAAAGGTTTTTCTATACAGAGGTTTGCCACAA
AGGCTTTTCTTTTAGATATG
Found at i:38599718 original size:20 final size:21
Alignment explanation
Indices: 38599668--38599718 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
38599658 GGAGATTTCA
* *
38599668 AAAATTTAAATAAATTAATTG
1 AAAATTTAACTAAATAAATTG
**
38599689 AAAACATAACTAAATAAATT-
1 AAAATTTAACTAAATAAATTG
38599709 AAAATTTAAC
1 AAAATTTAAC
38599719 AAAACTTAAC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATTTAACTAAATAAATTG
Found at i:38603919 original size:14 final size:16
Alignment explanation
Indices: 38603900--38603931 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38603890 CCCAGTTCAA
38603900 AAATTT-CA-TCCTCG
1 AAATTTCCATTCCTCG
38603914 AAATTTCCATTCCTCG
1 AAATTTCCATTCCTCG
38603930 AA
1 AA
38603932 GAATTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (16 bp):
AAATTTCCATTCCTCG
Found at i:38605991 original size:40 final size:40
Alignment explanation
Indices: 38605891--38606109 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
38605881 AATTATTGTG
*
38605891 TGAATGCACATACGTGCCCCTATTTGTAC-TTGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTTGATACCCC
* * * *
38605930 TAAATTCACATACTTGCCCCTATTTGTACTTTGATACTCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTTGATACCCC
*
38605970 TGAATGCACATACGTGCCCCTATTTGTACTTCGATA-CCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTTGATACCCC
* *
38606009 TGAATGCACATATGTGTCCCTATTTGTACTTT-AGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTTGA-TACCCC
* * * **
38606049 TGAATGCACATACATGCCCCTATTTGTACTTCGGTACCTT
1 TGAATGCACATACGTGCCCCTATTTGTACTTTGATACCCC
* *
38606089 TGAATGAACATATGTGCCCCT
1 TGAATGCACATACGTGCCCCT
38606110 GATTGTATTA
Statistics
Matches: 153, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
38 1 0.01
39 59 0.39
40 93 0.61
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTTGATACCCC
Found at i:38606030 original size:79 final size:79
Alignment explanation
Indices: 38605891--38606109 Score: 309
Period size: 79 Copynumber: 2.8 Consensus size: 79
38605881 AATTATTGTG
* *
38605891 TGAATGCACATACGTGCCCCTATTTGTACTT-GGTACCCCTAAATTCACATACT-TGCCCCTATT
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTA-CCCTGAATGCACATA-TGTGCCCCTATT
*
38605954 TGTACTTT-GATACTCC
64 TGTACTTTAG-TACCCC
* *
38605970 TGAATGCACATACGTGCCCCTATTTGTACTTCGATACCCTGAATGCACATATGTGTCCCTATTTG
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCTGAATGCACATATGTGCCCCTATTTG
38606035 TACTTTAGTACCCC
66 TACTTTAGTACCCC
* * *
38606049 TGAATGCACATACATGCCCCTATTTGTACTTCGGTACCTTTGAATGAACATATGTGCCCCT
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACC-CTGAATGCACATATGTGCCCCT
38606110 GATTGTATTA
Statistics
Matches: 126, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
78 1 0.01
79 102 0.81
80 23 0.18
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (79 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCTGAATGCACATATGTGCCCCTATTTG
TACTTTAGTACCCC
Found at i:38606671 original size:16 final size:16
Alignment explanation
Indices: 38606652--38606707 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
38606642 TATTGGTTAG
*
38606652 ATGACATAAATGCATA
1 ATGACATAAATGCGTA
* * *
38606668 ATGATATTATTGCGTA
1 ATGACATAAATGCGTA
38606684 ATGACATAAATGCGTA
1 ATGACATAAATGCGTA
38606700 ATGACATA
1 ATGACATA
38606708 TTGGTTAGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (16 bp):
ATGACATAAATGCGTA
Found at i:38607787 original size:26 final size:26
Alignment explanation
Indices: 38607758--38607808 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
38607748 ACATAGTTAT
38607758 GAGAGCTTCGAATTGATTTGCCTAAC
1 GAGAGCTTCGAATTGATTTGCCTAAC
*
38607784 GAGAGCTTTGAATTGATTTGCCTAA
1 GAGAGCTTCGAATTGATTTGCCTAA
38607809 GTATATACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (26 bp):
GAGAGCTTCGAATTGATTTGCCTAAC
Found at i:38612355 original size:29 final size:28
Alignment explanation
Indices: 38612313--38612382 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 28
38612303 CCAGAAGTCA
*
38612313 CCACAAAGGTTTTCTCTAAAGAGGTTTG
1 CCACAAAGGTTTTCTATAAAGAGGTTTG
*
38612341 CCACAAAGGCTTTTCTATACAGAGGTTTG
1 CCACAAAGG-TTTTCTATAAAGAGGTTTG
*
38612370 CCATAAAGGTTTT
1 CCACAAAGGTTTT
38612383 TCTTTTATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 13 0.34
29 25 0.66
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (28 bp):
CCACAAAGGTTTTCTATAAAGAGGTTTG
Done.