Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 128 of 202
Found at i:39543123 original size:169 final size:169
Alignment explanation
Indices: 39542786--39548115 Score: 6780
Period size: 169 Copynumber: 31.6 Consensus size: 169
39542776 TAAAGCTAAA
* * *
39542786 GAGAT-AGATTCG-TAGCCCTCTA-CTATAATCTGCTCTGTTGCAAT-CTAGGGAAACAAGATTC
1 GAGATAAGATTCGCT-GCCCTC-AGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
* *
39542847 GCTACCTTTAGCTTTAATCTGATCCACTATAATGCCAAAGAGATAGGATTCGTTGCCCACAGCTT
64 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTT
*
39542912 TAATCCGCTCCACTTCAGCTATTTCAAGTATTAACGCCAGG
129 TAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * **
39542953 GAGATAAGATTCCCTGCCCTCAGCTTTAATCTGCTCCGCTGAAACGCTAGGGGTACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* *
39543018 TACCTTTAGCTTTAATATGTTCCACTATAATGCCAAAGAGATTGGATTCGCTGCCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* * ** *
39543083 ATTCGTTCCACTTTTGCTATTTCAAGTCTTAACACCAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * * * * *
39543122 GAGACAAGATTCACTGTCGTCTGCATTAATCTGCTCCGCTGCAATACTAGGGAAACAACATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * * * * *
39543187 TACCTTTAGCTTTAATATGTTCCACTCTGATGCCAAAGAGATAGGTTTCGTTGCCCAGAG-TATT
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCT-TT
* * * *
39543251 AATCCG-TATCACATAAGCTATTTCAAGTCTTAAAGCCAGG
130 AATCCGCT-CCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * * * * * *
39543291 GAGAAAAGAGTCACTACCCTCAGCTTTAATCTGTTTCGATGCAATGCTAGGGAAACCATATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * * * *
39543356 TACCTTTAGCTTTAATCTATTTCACTATAATGTCAAAGAGATA-GATGTCGCTACCCATAGCTTT
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGAT-TCGCTGCCCACAGCTTT
* *
39543420 AATCCGCTCCACATCAGCTATTTCAAGTCTTAACGCTAGG
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * * *
39543460 GAGACT-AGATTCAG-TACCCTCTGCATTAATTTGCTTCGCTGCAATGTTAGGGAAACAAGATTC
1 GAGA-TAAGATTC-GCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
* * * * *
39543523 GCTACCTTTAGCTTTAATCCGTTCCGCTATAAAGCCAAAGAGATAGGATTCACTTCCCACAGCTT
64 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTT
* * * * *
39543588 TAATCCACTCCATTTCAGCTATTTTAAGTCTTAATGCAAGG
129 TAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * ** *
39543629 GAGATAAGATTCGCTGCCCTCTGCTTTAATCTACTCCGCTATAATGCTAGGGAAACGAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * **
39543694 TACCTTTAGCTTTAATCTGTTCCCCTATAATGCCAAAGAGATAAGATTCGCTGCCCGTAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
*
39543759 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAGCGCCAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * ** * * * * *
39543798 GAGACAAGATTCACAACCCTCTA-CTATAATCTGCTCGGCTGCAA-ACTAGGGAAACAAAATTCA
1 GAGATAAGATTCGCTGCCCTC-AGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCG
*
39543861 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGGCCACAGCTTT
65 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
* * *
39543926 AATCCACTCCACTTCAGCTATTTCAAGTCTTAACACCAAG
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * *
39543966 GAGATAAGATTCGCTGTCCTAAGCTGTAATTTGCTCCGCTGCGATGCTAGGGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * *
39544031 TACCTTTAGCTTTAATCTCTTCCACTATAAAGCCAAAGAGATAGGATTCGTTGCCCACCA-CTTT
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCA-CAGCTTT
* *
39544095 AATCCACTCCACTTCAGGTATTT-AAGGTCTTAACGCCAGG
130 AATCCGCTCCACTTCAGCTATTTCAA-GTCTTAACGCCAGG
* * *
39544135 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGATCCGCTGTAACGCTAGGGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* *
39544200 TACCGTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATTGGATTCGCTGCCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* *
39544265 ATCCGCTCCACTTTAGCTATTTCAAGTCTTAACACCAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * *
39544304 GAGACAAGATTCGCTGCCCTTTA-CTATAATCTACTCCGTTGCAATGCTAGGGAAACAAGATTCG
1 GAGATAAGATTCGCTGCCC-TCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC-
* * * * *
39544368 GC-ACCTTTAGCTTTAATCTATTCCACTATAGA-GCCAAATAGATAGGATTCACTTCCCATAGCT
64 GCTACCTTTAGCTTTAATCTGTTCCACTATA-ATGCCAAAGAGATAGGATTCGCTGCCCACAGCT
* * * *
39544431 TTAATCCACTGCACTTCAACTATTTCAAGTCTTAACGCCAGT
128 TTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * * * *
39544473 AAGATAAGATTCGCTGCCCCCAGCTTTAATCTGCTCCACTACAACGCTAGGGAGACAAGATTTGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * *
39544538 TACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAAGAGATAGGATTCGCTGCCCACAGC-ATG
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* * *
39544602 ATCTGCTACACTTCAGCTATTTCAAGTCTTAGCGCCAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * *
39544641 GAGACAAGATTCGCAGCCCTCTA-CTATAATCT-CTCTGTTGCAATGCTAGGGAAACAAGATTCG
1 GAGATAAGATTCGCTGCCCTC-AGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCG
* * *
39544704 CTACCTTTAGCTTTAATCTGATGCACTATAATGCCAAAGAGATAGGATTTGCTGCCCACAGCTTT
65 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
*
39544769 AATCCGCTCCACTTCAGCTATTTCAAGTATTAACGCCAGG
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * **
39544809 GAGATAAGATTCGCTGCCCTCAGCTTTGATCTGCTCCGCTGTAACCCTAGGGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * *
39544874 TACCTTTAGCTTTAATATGTTCCACTATAATGCCAAAGAGATTGGATTCGCTTCCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
** * *
39544939 ATCCGCTCCACTTTTGCTTTTTCAAGTCTTAACACCAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * ** * *
39544978 GAGACAAGATTCGCTGTCGTCTGCACTAATCTGCTCCGCTGCAATACTAGGGAAACAACATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* ** * * * *
39545043 TACCTTTAGCTTTAATATGTTCCACTCCAATGCCAACGAGATAGGATTCGTTGCCCAGAGCATTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* * * * *
39545108 ATCCG-TATCACATAAGCTATTTCAAGTCTTAGCACCAGG
131 ATCCGCT-CCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * **
39545147 GAGACAAGATTCGCAGCCCTCTA-CTATAATCTGCTCCGTTGCAATGCTAGGGCGACAAGATTCG
1 GAGATAAGATTCGCTGCCCTC-AGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCG
* * *
39545211 CTACCTTTAGCTTTAATATGTTCCACTATAAAGCCAAAGAGATA-GATTCGCTGCCCACAACTTT
65 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
*
39545275 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCAGG
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * *
39545315 GAGATAAGATTTGCTGCCCTCTA-CTTTAATCTGCTCCGCTGCAATGCAAGGGAAACAAGATTTG
1 GAGATAAGATTCGCTGCCCTC-AGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCG
* * * *
39545379 CTACCTTTAGCTTTAATCTGTTCCACCATAATGCCAAAGAGATAGGACTCACTGCCCGCAGCTTT
65 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
*** * * *
39545444 AATTTTCTCCTCTTCAGCTACTTCAAGTCTCAACGCCAGG
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * ** * *
39545484 GAAATAAGATTTGCTGCCCTCAGGATTAATCTGCTCCGCTGTAATGCTAGGGAAACAAGATTCGA
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * *
39545549 TACCTTTAGCTTTAATCTGATCCACTATAACGCCAAAGAGATAGGATTCGCTGCCCATAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* **
39545614 ATCAGCTCCACTTCAGCTATTTCAAGTCTTAACAACAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* *
39545653 GAGATAAGATTCGCTGCCCTCAGCTTTCATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCCC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
*
39545718 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* * *
39545783 ATCCGCTCCACTTCAGCTATTTTAAGTTTTAGCGCCAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * * *
39545822 GAGACAAGATTCGCAGCCCTCTA-CTATAATCTACTCCGTTGCAATGCTAGGGAAACTAGATTCG
1 GAGATAAGATTCGCTGCCCTC-AGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCG
*
39545886 CTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
65 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
* * * **
39545951 AATCCACTCCACTTCAACTATTTCAAGTCTTAGCGCCACA
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * *
39545991 GAGACAAGATTCGCTGCCCTCTGCTTTAATCTGCTCTGCTGCAATGCTAGGGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * * *
39546056 TACTTTTAGCTTTAATCTGTTCCACTATAAAGCCAAAGAGATAGGATTCGGTTCCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* * *
39546121 ACCCGCTCCACTTCAGCTATTTCAAGTCATAACGCCAGA
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* ** *
39546160 GAGATAAGATCCGCAACCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGCGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * * * *
39546225 TACCATTAGCTTTAATCTGTTCCACTATAATACAAAAGAGATAGGATTCAG-TGCCTAAAGCTTT
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTC-GCTGCCCACAGCTTT
* * *
39546289 AATCCGTTCCACTTCAGCTATTTCATGTCTTAACGCTAGG
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * * * * *
39546329 GAGACAAGATTCGCTGCCTTCTGCATTATTCTACTCCGCTGTAATGCTACGG-AACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * * * * *
39546393 TACCTATAGTTTTAATCTGTTCCACTATAAAGCCAAATAGATAGGATTCACTTCCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
*
39546458 ATCCGCTCCACTTCAACTATTTCAAGTCTTAACGCCAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * * * * * *
39546497 GAGATAAGAATCGCTGCCCTCAACTTTAAACTTCTCCACTACAACGCTAGGGAGACAAGATTTGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
** *
39546562 TACCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGGATTCGCTACCCGACAGCTTT
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCC-ACAGCTTT
* * *
39546627 AATCCACTCCACTTCAACTATTTCAAGTCTTAGCGCCAGG
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * *
39546667 GAGATAAGATTCGCAGCCCTCTA-CTATAATCTGCTCTGTTGCAATGCTAGGGAAACAATATTCG
1 GAGATAAGATTCGCTGCCCTC-AGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCG
* * * *
39546731 CTACCTTTAGCTTTAATCTGTTCCACTATAAAGACAAAGAGATAGGATTCGTTGCCCACTGCTTT
65 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
*
39546796 AATCCACTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * * *
39546836 GAGATACGATTCGCTACCCTCAGCTTTAATCTGCTCCGTTGTAACGCTAGGGAAACAAGATTTGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * *
39546901 TACCTTTAGCTTTAATCTGTTCCGCTATAATGCCAAAGAGATTGGATTTGCTGCCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* * *
39546966 ATCCGCTCCACTTTAGCTATTTAAAGTCTTAACACCAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * * * *
39547005 GAGACAAGATTCGCTGCCCTTTA-CTATAATCTGATTCGTTGCAATGCTAGGGACACAAGATTCG
1 GAGATAAGATTCGCTGCCC-TCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCG
* * * *
39547069 CCACCTTTAGCTTTAATCTGTTCCACTATAATGCCAATGAGATAGGATTCACTTCCCACAGCTTT
65 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
* * *
39547134 AATCTGCTCCACTTCAGGTATTTCAAGTCTTAACACCAGG
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * *
39547174 TAGATAAGATTCGCTGCCCTCTGCTTTAATTTGCTCCGCAGCAAAGCTAGGGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * * * * *
39547239 TACCTTTAGCTTTAATTTGTTCCACTATAAAGCCAAAAAGATAGGATTCACCT-TCCACTGCTTT
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTC-GCTGCCCACAGCTTT
* * * *
39547303 AATCCGCTCCACTTCAGCTACTTCAAGTGTTAATGCCAGA
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * * ** * *
39547343 GACATAAGATTCGCTACCCTCAGCTTTCATCTGTTCGGCTGCAACACTAGGGAAAGAAGATTCGA
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * * *
39547408 TACCTTTAGGTTTAATCTGTTCCACTATAATACCAAAGAGATAGGATTCGCTACCCATAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* *
39547473 ATCCCCTCCACATCAGCTATTTCAAGTCTTAACGCCAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* *
39547512 GAGACAAGATTCGCTGCCCTCTGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
* * ** * *
39547577 TACCTTTAGCTTTAATCTCTTCCACTATAAAGCCAAAGAGATAGGATTCATTGCCGACAACTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
* * * *
39547642 ATCCACTCCACTTCAGGTATTTCAGGTCTTAACGCTAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* *
39547681 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGTAACGCTAGGGAAACAAGATTCGC
1 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
*
39547746 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATTGGATTCGCTGCCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
*
39547811 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACCAGG
131 ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * *
39547850 GAGAAAAGATTCGCTTCCCTCTA-CTATAATCTACTCCGTTGCAATGCTAGGGAAACAAGATTCG
1 GAGATAAGATTCGCTGCCCTC-AGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCG
* * * *
39547914 CCACCTTTAGCTTTAATCTGTTCCACTATAATGCCAATGAGATAGGATTCACTTCCCACAGCTTT
65 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
* *
39547979 AATCTGCTCCACTTCAGGTATTTCAAGTCTTAACGCCAGG
130 AATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
* * * * **
39548019 GAGATAAGATTCTCAGCCCTTTA-CTATAATCTGCTCCATTGCAATGCTAGGGAAACAAGATTCG
1 GAGATAAGATTCGCTGCCC-TCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCG
*
39548083 TTACCTTTTAGCTTTTAATCTGTTCCACTATAA
65 CTACC-TTTAGC-TTTAATCTGTTCCACTATAA
39548116 AGCNNNNNNN
Statistics
Matches: 4444, Mismatches: 667, Indels: 100
0.85 0.13 0.02
Matches are distributed among these distances:
167 90 0.02
168 597 0.13
169 3561 0.80
170 175 0.04
171 21 0.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (169 bp):
GAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGC
TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTA
ATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGG
Found at i:39543231 original size:944 final size:944
Alignment explanation
Indices: 39541880--39543743 Score: 2460
Period size: 944 Copynumber: 2.0 Consensus size: 944
39541870 TGTGCTCCGC
*
39541880 TGCAATACTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATATGATCCACTCTAATGCCAAAGA
1 TGCAATACTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATATGATCCACTATAATGCCAAAGA
* *
39541945 GATAGGATTCGTTCCCACAACATTAATACGCATCACATCAGCTATTTCAAGTCTTAAAGTCAGGG
66 GATAGGATTCGTTCCCACAACATTAATACGCATCACATCAGCTATTTCAAGTATTAAAGCCAGGG
* * * * * *
39542010 AGAAAAGATTCGCTACCCTCAGCTTTAATCTGCTTCGATGCAATGCTAGGGAAACCATATTCGCT
131 AGAAAAGATTCCCTACCCTCAGCTTTAATCTGCTCCGATGAAACGCTAGGGAAACAAGATTCGCT
* * *
39542075 ACCTTTAGCTTTAATCTATTTCACTATAATGCCAAAGAGATAGATGTCGCTACCCATAGCTTTAA
196 ACCTTTAGCTTTAATATATTCCACTATAATGCCAAAGAGATAGATGTCGCTACCCACAGCTTTAA
* * * * *
39542140 TCCGCTCCACAACAGCTATTTCAAGTCTTAACGCTAAGGAGACTAGATTCAGTACCCTCTGCTTT
261 TCCGCTCCACAACAGCTATTTCAAGTCTTAACACCAAGGAGACAAGATTCACTACCCTCTGCATT
* * * * *
39542205 AATTTGCTCCGCTGCAATGCTAGCGAAAGAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTA
326 AATCTGCTCCGCTGCAATACTAGCGAAACAACATTCGCTACCTTTAGCTTTAATATGTTCCACTA
* *
39542270 TAAAGCCAAAGAGATAGGATTCGCTT-CCCACAGCT-TTAATCC-ACTC-CATTTCAGCTATTTT
391 TAAAGCCAAAGAGATAGGATTCG-TTGCCCACAG-TATTAATCCGA-TCACA--TAAGCTATTTC
* * * ** * * *
39542331 AAGTCTTAACGCAAGGGAGATAAGATTTGCTGCCCTCTGCTTTAATCTGCTCTGCTAT-AACGCT
451 AAGTCTTAAAGCAAGGGAGAAAAGAGTCACTACCCTCAGCTTTAATCTG-T-TGCGATCAACGCT
* *
39542395 AGGGAAACGAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAAGAT-
514 AGGGAAACCAGATTCGCTACCTTTAGCTTTAATCTATTCCACTATAATGCCAAAGAGAT-AGATG
* * * * * **
39542459 TCGCTGCCCACAGCTTTAATCCGCTTCACTTCCGCTATTTCAGGTCTTAGTGCCAGGGAGACAAG
578 TCGCTACCCACAGCTTTAATCCGCTCCACATCAGCTATTTCAAGTCTTAACGCCAGGGAGACAAG
* *
39542524 ATTC-GCAGCCCTCTACCA-TAATCTGCGCCGTTGCAATGCTAGGGAGACAAGATTCGCTACCTT
643 ATTCAGCA-CCCTCT-CCATTAATCTGCGCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTT
* *
39542587 TAGCTTTAATATGTTCCACTATAAAGCCAAAGAGATA-GATCCGCTGCCCACAGCTTTAATCCAC
706 TAGCTTTAATACGTTCCACTATAAAGCCAAAGAGATAGGATCCACTGCCCACAGCTTTAATCCAC
* *
39542651 TCCACTTCAGCTATTTCAAGTCTTAGCT-CCAGGGAGACAAGATTCGCAGCCCTCTACTATAATC
771 TCCACTTCAGCTATTTCAAGTCTTA-ATGCAAGGGAGACAAGATTCGCAGCCCTCTACTATAATC
* * *
39542715 TACTACATTGCAATGCGAGGGAGACAAGATTCGCTACCTTTAGCTTTAATATGTTCCACTATAAA
835 TACTACACTACAATGCGAGGGAAACAAGATTCGCTACCTTTAGCTTTAATATGTTCCACTATAAA
*
39542780 GCTAAAGAGAT-AGATTCGTAGCCCTCTACTATAATCTGCTCTGT
900 GCCAAAGAGATAAGATTCGTAGCCCTCTACTATAATCTGCTCTGT
*
39542824 TGCAAT-CTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGATCCACTATAATGCCAAAGA
1 TGCAATACTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATATGATCCACTATAATGCCAAAGA
* * * * *
39542888 GATAGGATTCGTTGCCCACAGCTTTAATCCGC-TCCACTTCAGCTATTTCAAGTATTAACGCCAG
66 GATAGGATTCGTT-CCCACAACATTAATACGCAT-CACATCAGCTATTTCAAGTATTAAAGCCAG
* * * **
39542952 GGAGATAAGATTCCCTGCCCTCAGCTTTAATCTGCTCCGCTGAAACGCTAGGGGTACAAGATTCG
129 GGAGAAAAGATTCCCTACCCTCAGCTTTAATCTGCTCCGATGAAACGCTAGGGAAACAAGATTCG
* * *
39543017 CTACCTTTAGCTTTAATATGTTCCACTATAATGCCAAAGAGATTGGAT-TCGCTGCCCACAGCTT
194 CTACCTTTAGCTTTAATATATTCCACTATAATGCCAAAGAGA-TAGATGTCGCTACCCACAGCTT
* * **** * ** *
39543081 TAATTCGTTCCACTTTTGCTATTTCAAGTCTTAACACCAGGGAGACAAGATTCACTGTCGTCTGC
258 TAATCCGCTCCACAACAGCTATTTCAAGTCTTAACACCAAGGAGACAAGATTCACTACCCTCTGC
*
39543146 ATTAATCTGCTCCGCTGCAATACTAGGGAAACAACATTCGCTACCTTTAGCTTTAATATGTTCCA
323 ATTAATCTGCTCCGCTGCAATACTAGCGAAACAACATTCGCTACCTTTAGCTTTAATATGTTCCA
* * * * *
39543211 CTCTGATGCCAAAGAGATAGGTTTCGTTGCCCAGAGTATTAATCCGTATCACATAAGCTATTTCA
388 CTATAAAGCCAAAGAGATAGGATTCGTTGCCCACAGTATTAATCCG-ATCACATAAGCTATTTCA
* * *
39543276 AGTCTTAAAGCCAGGGAGAAAAGAGTCACTACCCTCAGCTTTAATCTGTTTCGATGCAATGCTAG
452 AGTCTTAAAGCAAGGGAGAAAAGAGTCACTACCCTCAGCTTTAATCTGTTGCGAT-CAACGCTAG
* * *
39543341 GGAAACCATATTCGCTACCTTTAGCTTTAATCTATTTCACTATAATGTCAAAGAGATAGATGTCG
516 GGAAACCAGATTCGCTACCTTTAGCTTTAATCTATTCCACTATAATGCCAAAGAGATAGATGTCG
* * *
39543406 CTACCCATAGCTTTAATCCGCTCCACATCAGCTATTTCAAGTCTTAACGCTAGGGAGACTAGATT
581 CTACCCACAGCTTTAATCCGCTCCACATCAGCTATTTCAAGTCTTAACGCCAGGGAGACAAGATT
* * * ** *
39543471 CAGTACCCTCTGCATTAATTTGCTTCGCTGCAATGTTAGGGAAACAAGATTCGCTACCTTTAGCT
646 CAGCACCCTCTCCATTAATCTGCGCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCT
* * * * *
39543536 TTAATCCGTTCCGCTATAAAGCCAAAGAGATAGGATTCACTTCCCACAGCTTTAATCCACTCCAT
711 TTAATACGTTCCACTATAAAGCCAAAGAGATAGGATCCACTGCCCACAGCTTTAATCCACTCCAC
* * * * * *
39543601 TTCAGCTATTTTAAGTCTTAATGCAAGGGAGATAAGATTCGCTGCCCTCTGCTTTAATCTACTCC
776 TTCAGCTATTTCAAGTCTTAATGCAAGGGAGACAAGATTCGCAGCCCTCTACTATAATCTACTAC
* * * * * * *
39543666 GCTATAATGCTAGGGAAACGAGATTCGCTACCTTTAGCTTTAATCTGTTCCCCTATAATGCCAAA
841 ACTACAATGCGAGGGAAACAAGATTCGCTACCTTTAGCTTTAATATGTTCCACTATAAAGCCAAA
39543731 GAGATAAGATTCG
906 GAGATAAGATTCG
39543744 CTGCCCGTAG
Statistics
Matches: 790, Mismatches: 114, Indels: 30
0.85 0.12 0.03
Matches are distributed among these distances:
942 4 0.01
943 80 0.10
944 546 0.69
945 150 0.19
946 10 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (944 bp):
TGCAATACTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATATGATCCACTATAATGCCAAAGA
GATAGGATTCGTTCCCACAACATTAATACGCATCACATCAGCTATTTCAAGTATTAAAGCCAGGG
AGAAAAGATTCCCTACCCTCAGCTTTAATCTGCTCCGATGAAACGCTAGGGAAACAAGATTCGCT
ACCTTTAGCTTTAATATATTCCACTATAATGCCAAAGAGATAGATGTCGCTACCCACAGCTTTAA
TCCGCTCCACAACAGCTATTTCAAGTCTTAACACCAAGGAGACAAGATTCACTACCCTCTGCATT
AATCTGCTCCGCTGCAATACTAGCGAAACAACATTCGCTACCTTTAGCTTTAATATGTTCCACTA
TAAAGCCAAAGAGATAGGATTCGTTGCCCACAGTATTAATCCGATCACATAAGCTATTTCAAGTC
TTAAAGCAAGGGAGAAAAGAGTCACTACCCTCAGCTTTAATCTGTTGCGATCAACGCTAGGGAAA
CCAGATTCGCTACCTTTAGCTTTAATCTATTCCACTATAATGCCAAAGAGATAGATGTCGCTACC
CACAGCTTTAATCCGCTCCACATCAGCTATTTCAAGTCTTAACGCCAGGGAGACAAGATTCAGCA
CCCTCTCCATTAATCTGCGCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
ACGTTCCACTATAAAGCCAAAGAGATAGGATCCACTGCCCACAGCTTTAATCCACTCCACTTCAG
CTATTTCAAGTCTTAATGCAAGGGAGACAAGATTCGCAGCCCTCTACTATAATCTACTACACTAC
AATGCGAGGGAAACAAGATTCGCTACCTTTAGCTTTAATATGTTCCACTATAAAGCCAAAGAGAT
AAGATTCGTAGCCCTCTACTATAATCTGCTCTGT
Found at i:39546888 original size:51 final size:51
Alignment explanation
Indices: 39546826--39546924 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
39546816 TTTCAAGTCT
* * *
39546826 TAACGCCAGGGAGATACGATTCGCTACCCTCAGCTTTAATCTGCTCCGTTG
1 TAACGCCAGGGAAACAAGATTCGCTACCCTCAGCTTTAATCTGCTCCGTTG
* * * * *
39546877 TAACGCTAGGGAAACAAGATTTGCTACCTTTAGCTTTAATCTGTTCCG
1 TAACGCCAGGGAAACAAGATTCGCTACCCTCAGCTTTAATCTGCTCCG
39546925 CTATAATGCC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (51 bp):
TAACGCCAGGGAAACAAGATTCGCTACCCTCAGCTTTAATCTGCTCCGTTG
Found at i:39549657 original size:169 final size:169
Alignment explanation
Indices: 39549369--39550926 Score: 1948
Period size: 169 Copynumber: 9.2 Consensus size: 169
39549359 NNNNNNNNNN
* * * * *
39549369 CCACTGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTGTTAATGCCAGTGACATAAGATTCGCT
1 CCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCT
* * * * * * *
39549434 ACCCTCAGCTTTCATCTGCTCGGCTGCAACACTAGGGAAACAAGATTTGCTACCTTTAGGTTTAA
66 GCCCTCTGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAA
* *
39549499 TCTATTCCACTATAATGCCAAAGAGATAGGATTCACTGC
131 TCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGC
* * * *
39549538 CCACAGCTTTAATCCGTTCCACTTCAGCTATGTCAAGTCTTAATGCCGGGGAGACT-AGATTCAG
1 CCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGA-TAAGATTC-G
* ** * *
39549602 -TACCCTCTGCTTTAATCTGCTCAACTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGGTTT
64 CTGCCCTCTGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
* *
39549666 AATCTATTCCACTATAATGCCAAAGAGATAGGATTTGCTGC
129 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGC
* * ** *
39549707 CCACATCTTTAATCTGCTCCACTTCAGCTATTTCAAGTCTTAGTGCC-GGGAGATAAGATTCGCA
1 CCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCT
* * * *
39549771 GCCCTCTACTATAATCTGCTCCGTTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAA
66 GCCCTCTGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAA
* * *
39549836 TCTCTTCCACTATAAAGCCAAAGAGATAGGATTCGTTGC
131 TCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGC
* * *
39549875 CCACCA-CTTTAATCCACTCCACTTCAGGTATTTCAGGTCTTAACGCCAGGGAGATAAGATTCGC
1 CCA-CAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGC
* ** * *
39549939 TGCCCTCAGCTTTAATCTAATCCGCTGTAACGCTAGGGAAACAAGATTTGCTACCTTTAGCTTTA
65 TGCCCTCTGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTA
* * *
39550004 ATCTGTTCCGCTATAATGCCAAAGAGATTGGATTTGCTGC
130 ATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGC
* * *
39550044 CCACAGCTTTAATCCGCTCCACTTTAGCTATTTCAAGTCTTAACACCAGGGAGACAAGATTCGCT
1 CCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCT
* * * * * *
39550109 GCCCTTTACTATAATCTACTCCGTTGCAATGCTAGGGAAACAAGATTCGGC-ACCTTTAGCTTTA
66 GCCCTCTGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTC-GCTACCTTTAGCTTTA
* *
39550173 ATCTGTTCCACTATAATGCCAATGAGATAGGATTCGCTTC
130 ATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGC
* *
39550213 CCACAGCTTTAATCTGCTCCACTTCAGGTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCT
1 CCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCT
* * * ** * *
39550278 GCCCTCTACTTTAATTTGCTGCGCTGCAAAACTAAGGAAAGAAGATTCGCTACCTTTAGCTTTAA
66 GCCCTCTGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAA
* * * *
39550343 TTTGTTCCACTATAAAGCCAAAGAGATAGGATTCACCT-T
131 TCTGTTCCACTATAATGCCAAAGAGATAGGATTC-GCTGC
* * * * *
39550382 CCACTGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTGTTAATGCCCAGTGACATAAGATTCGC
1 CCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACG-CCAGGGAGATAAGATTCGC
* * * * * ** *
39550447 TACCCTCAGCTTTCATCTGCTCGGCTGCAACACTAGGGAAACAAGATTCAATACCTTTAGGTTTA
65 TGCCCTCTGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTA
* * *
39550512 ATCTGCTCCACTATAATACCAAAGAGATAGGATTCGCTAC
130 ATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGC
* * * * * *
39550552 CCATAGCTTTAATCCCCTCCACATCAACTA-TTCAAGTCTTAACGCCAGGGAGACAAGATACGCT
1 CCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCT
* * *
39550616 GCCCTCTGCTTTAATCTGCTCCGCTGCAAAGCTAGGGAAAAAAG-TGTCGCTACCTTTCGCTTTA
66 GCCCTCTGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGAT-TCGCTACCTTTAGCTTTA
* * **
39550680 ATCTCTTCCACTATAAAGCCAAAGAGATAGGATTCATTGC
130 ATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGC
* * * * * * * *
39550720 CCACAAG-TTTAATCCACTCCACTTCAGGTATTTTAGGTCTTAACACAAGGGAGATGAGATCCGC
1 CCAC-AGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGC
*
39550784 TGCCCTCAGCTTTAATCTGCTCCGCT-CTAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
65 TGCCCTCTGCTTTAATCTGCTCCGCTGC-AACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTT
* *
39550848 AATCTGTTCCACTATAATGCCAAAGAGATTGTATTCGCTGC
129 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGC
*
39550889 CCACAGCTTTAATCCGCTCCACTTTAGCTATTTCAAGT
1 CCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
39550927 NNNNNNNNNN
Statistics
Matches: 1194, Mismatches: 177, Indels: 36
0.85 0.13 0.03
Matches are distributed among these distances:
167 3 0.00
168 272 0.23
169 787 0.66
170 132 0.11
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (169 bp):
CCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCT
GCCCTCTGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAA
TCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGC
Found at i:39556641 original size:169 final size:169
Alignment explanation
Indices: 39556313--39557050 Score: 862
Period size: 169 Copynumber: 4.4 Consensus size: 169
39556303 CGGCTCCAAA
* * * * * * *
39556313 CTAGGGAAACAAGATTCGCT-CCCTTAGATATAATAT-ATCCACGATAATG-CAAAGAGATAAGA
1 CTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGA
* * *
39556375 TTCGCTGCCCACAGCTTTAATCTGCTCCACTTCAGCTATTTCAAGTCTTAGCGCCAGAGAGATAA
66 TTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAA
* *
39556440 GATTCACAGCCCTCAGCTTTAATCTGCTCCGCTGTAATG
131 GATTCACTGCCCTCAGCTTTAATCTGCTCCGCTGCAATG
*
39556479 CTAGCGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGA
1 CTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGA
* * * *
39556544 TTCGCTGCCCAGAGCTTTAATCCACTCCACTTCAGCTATTTCATGTCTTAACACCAGGGAGATAA
66 TTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAA
* * *
39556609 GATTCGCTGCCCTCAGGTTTAATTTGCTCCGCTGCAATG
131 GATTCACTGCCCTCAGCTTTAATCTGCTCCGCTGCAATG
* ** **** *
39556648 CTAGGGAAACAAGATCCGGGACCTTTAGCTTTAATCTGTT-CAGGGGGAATGCCAAAGAGACAGG
1 CTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCA-CTATAATGCCAAAGAGATAGG
* * *
39556712 ATTCACTGCCCACAGCTTTAATCCGTTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGACA
65 ATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATA
* * * * *
39556777 AGATTCACTGTCGTCTGCATTAATCTGCTCCGCTACAATG
130 AGATTCACTGCCCTCAGCTTTAATCTGCTCCGCTGCAATG
* * * * *
39556817 CTAGGGAAACAAGATTTGCTAACTTTAAG-TTTAATATGTTCCACTCTAATGCCAAAAGAGATTG
1 CTAGGGAAACAAGATTCGCTACCTTT-AGCTTTAATCTGTTCCACTATAATGCC-AAAGAGATAG
* * * ** *
39556881 GATTCCCTACCCACAGCATTAATCCGCAT-CAAATCAGCTATTTCAAGTCTTAACGCCAAGGAGA
64 GATTCGCTGCCCACAGCTTTAATCCGC-TCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGA
* * * * * *
39556945 AAATATT-AGCTACCCTCAGCTTTTAATCCGCTTCGATGCAATG
128 TAAGATTCA-CTGCCCTCAGC-TTTAATCTGCTCCGCTGCAATG
* *
39556988 CTAGGGAAACCAGATTCGCTACCTTTAGCTTTAATCTGTTTCACTATAAATGCC-AAGAGATAG
1 CTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTAT-AATGCCAAAGAGATAG
39557051 AAGTCACTAC
Statistics
Matches: 479, Mismatches: 81, Indels: 20
0.83 0.14 0.03
Matches are distributed among these distances:
166 19 0.04
167 12 0.03
168 13 0.03
169 284 0.59
170 89 0.19
171 56 0.12
172 6 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (169 bp):
CTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGA
TTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAA
GATTCACTGCCCTCAGCTTTAATCTGCTCCGCTGCAATG
Found at i:39558163 original size:169 final size:169
Alignment explanation
Indices: 39557627--39558655 Score: 1244
Period size: 169 Copynumber: 6.1 Consensus size: 169
39557617 TTCACTGTCG
* * * * *
39557627 TCTGCATTAATCTGCTCCGCTACAATGCTAGGGAAACAAGATTTGCTAACTTTAAG-TTTAATAT
1 TCTGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTT-AGCTTTAATCT
* * * * **
39557691 GTTCCACTCTAATGCCAAAGAGATTGGATTCCCTACCCACAGCATTAATCCGCAT-CAAATCAGC
65 GTTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGC-TCCACTTCAGC
* * * * *
39557755 TATTTCAAGTCTTAACGCCAAGGAGAAAATATTAGCTACCC
129 TATTTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCCC
* * * * *
39557796 TCAGCTTTAATCCGCTTCGATGCAATGCTAGGGAAACCAGATTCGCTACCTTTAGCTTTAATCTG
1 TCTGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTG
* * * * * * *
39557861 TTTCACTATAATGCCAAAGAGATAGAAGTCACTACCCACAAC-TT--GCCGCTCCACATCAGCTA
66 TTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGCTA
* * ** * *
39557923 TTTCAAGTCTTAACGCCATGGAGACTAGATTCATTACCT
131 TTTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCCC
* **
39557962 TCTGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCCA
1 TCTGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTG
* * *
39558027 TTCCACTATAATACCAAAGAGATAGAATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTA
66 TTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGCTA
* *
39558092 TTTCAAGTCTTAACACTAGGGAGACAAGATTCGCTGCCC
131 TTTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCCC
* *
39558131 TCTGCTTTAATATGCCCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTG
1 TCTGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTG
* * * * *
39558196 TTCTAATATAAAGCCAAAGAGATAGGATTCGCTTCCCACAGCTTTAATCCGCTCCATTTCAGCTA
66 TTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGCTA
* * *
39558261 TTTCAAGTCTTAATGCAAGGGAGATAAGATTCGCTGCCC
131 TTTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCCC
* * * * * *
39558300 TCAGCTTTAATCTGCTCCGCTGTAACGCTAGGGAAGCGAGATTCGCTACCTTTAGCATTAATCTG
1 TCTGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTG
* *
39558365 TTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCTC-CTCCACCTCAGCT
66 TTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATC-CGCTCCACTTCAGCT
** *
39558429 ATTTCAAGTCTTAGTGCCAGGGAGACAAGATTCGCAGCCC
130 ATTTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCCC
* * *
39558469 TCTACTATAATCTGCTCCGTTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTG
1 TCTGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTG
* * * * * *
39558534 TTCCACTATAGA-GCCAAATAGATACGATTCACTTCCCACAGCTTTAATCCGCTCCACTTTAACT
66 TTCCACTATA-ATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGCT
* * * * *
39558598 ATTTGAAGTCTTAACGCCAGGTAGATAGGATCCGCTGCCC
130 ATTTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCCC
* * * *
39558638 ACAGATTTAATCCGCTCC
1 TCTGCTTTAATCTGCTCC
39558656 CCTTCAACTA
Statistics
Matches: 737, Mismatches: 115, Indels: 16
0.85 0.13 0.02
Matches are distributed among these distances:
165 1 0.00
166 138 0.19
167 2 0.00
168 5 0.01
169 589 0.80
170 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (169 bp):
TCTGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTG
TTCCACTATAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTTAATCCGCTCCACTTCAGCTA
TTTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCCC
Found at i:39558701 original size:67 final size:67
Alignment explanation
Indices: 39558559--39558701 Score: 196
Period size: 67 Copynumber: 2.1 Consensus size: 67
39558549 AAATAGATAC
* * * * * *
39558559 GATTCACTTCCCACAGCTTTAATCCGCTCCACTTTAACTATTTGAAGTCTTAACGCCAGGTAGAT
1 GATTCGCTGCCCACAGATTTAATCCGCTCCACTTCAACTATTTGAAGTCTTAACGCCAGGGAGAC
*
39558624 AG
66 AA
* * *
39558626 GATCCGCTGCCCACAGATTTAATCCGCTCCCCTTCAACTATTTGAAGTCTTAGCGCCAGGGAGAC
1 GATTCGCTGCCCACAGATTTAATCCGCTCCACTTCAACTATTTGAAGTCTTAACGCCAGGGAGAC
39558691 AA
66 AA
39558693 GATTCGCTG
1 GATTCGCTG
39558702 TCCTTTACAA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (67 bp):
GATTCGCTGCCCACAGATTTAATCCGCTCCACTTCAACTATTTGAAGTCTTAACGCCAGGGAGAC
AA
Found at i:39558872 original size:236 final size:236
Alignment explanation
Indices: 39558391--39558886 Score: 701
Period size: 236 Copynumber: 2.1 Consensus size: 236
39558381 AAGAGATAGG
* *
39558391 ATTCGCTGCCCACAGCTTTAATCTCCTCCACCTCAGCTATTTCAAGTCTTAGTGCCAGGGAGACA
1 ATTCGCTGCCCACAGCTTTAATCTCCTCCACCTCAACTATTTCAAGTCTTAGCGCCAGGGAGACA
* *
39558456 AGATTCGCAGCCCTCTACTATAATCTGCTCCGTTGCAATGCTAGGGAAACAAGATTCGCTACCTT
66 AGATTCGCAGCCCTCTACAATAATCTACTCCGTTGCAATGCTAGGGAAACAAGATTCGCTACCTT
* * *
39558521 TAGCTTTAATCTGTTCCACTATAGAGCCAAATAGATACGATTCACTTCCCACAGCTTTAATCCGC
131 TAGCTTTAATCTGCTCCACTATAAAGCCAAATAGATACGATTCACTGCCCACAGCTTTAATCCGC
* * * **
39558586 TCCACTTTAACTATTTGAAGTCTTAACGCCAGGTAGATAGG
196 TCCACTTTAACTATTTCAAGTCTTAACGCAAGGGAGATAAC
* * *
39558627 ATCCGCTGCCCACAGATTTAATC-CGCTCC-CCTTCAACTATTTGAAGTCTTAGCGCCAGGGAGA
1 ATTCGCTGCCCACAGCTTTAATCTC-CTCCACC-TCAACTATTTCAAGTCTTAGCGCCAGGGAGA
* * * * *
39558690 CAAGATTCGCTGTCCTTTACAATAATCTACTCCGTTGTAATGCTAGGGAAATAAGATTCGCTACC
64 CAAGATTCGCAGCCCTCTACAATAATCTACTCCGTTGCAATGCTAGGGAAACAAGATTCGCTACC
* * *
39558755 TTTAGCTTTAATCTGCTCCACTATAAAGCCCAATAGATATGATTCACTGCCCGCAGCTTTAATCC
129 TTTAGCTTTAATCTGCTCCACTATAAAGCCAAATAGATACGATTCACTGCCCACAGCTTTAATCC
* * *
39558820 GCTTCATTTTAGCTATTTCAAGTCTTAA-GACAAGGGAGATAAC
194 GCTCCACTTTAACTATTTCAAGTCTTAACG-CAAGGGAGATAAC
*
39558863 ATTCGCTGCCCTCAGCTTTAATCT
1 ATTCGCTGCCCACAGCTTTAATCT
39558887 AGTCCGCTGC
Statistics
Matches: 227, Mismatches: 29, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
235 4 0.02
236 223 0.98
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (236 bp):
ATTCGCTGCCCACAGCTTTAATCTCCTCCACCTCAACTATTTCAAGTCTTAGCGCCAGGGAGACA
AGATTCGCAGCCCTCTACAATAATCTACTCCGTTGCAATGCTAGGGAAACAAGATTCGCTACCTT
TAGCTTTAATCTGCTCCACTATAAAGCCAAATAGATACGATTCACTGCCCACAGCTTTAATCCGC
TCCACTTTAACTATTTCAAGTCTTAACGCAAGGGAGATAAC
Found at i:39558922 original size:169 final size:169
Alignment explanation
Indices: 39558620--39561189 Score: 3071
Period size: 169 Copynumber: 15.2 Consensus size: 169
39558610 AACGCCAGGT
* * * * * *
39558620 AGATAGGATCCGCTGCCCACAGATTTAATCCGCTCCCCTTCAACTATTTGAAGTCTT-AGCGCCA
1 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAG-ACCA
* * * ** * * * *
39558684 GGGAGACAAGATTCGCTGTCCTTTA-CAATAATCTACTCCGTTGTAATGCTAGGGAAATAAGATT
65 GGGAGATAAGATTCGCTG-CCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATT
* * * *
39558748 CGCTACCTTTAGCTTTAATCTGCTCCACTATAAAGCCCAAT
129 CGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * * * * * *
39558789 AGATATGATTCACTGCCCGCAGCTTTAATCCGCTTCATTTTAGCTATTTCAAGTCTTAAGACAAG
1 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAGACCAG
* *
39558854 GGAGATAACATTCGCTGCCCTCAGCTTTAATCTAG-TCCGCTGCAATGCTAGGAAAACAAGATTC
66 GGAGATAAGATTCGCTGCCCTCAGCTTTAATCT-GCTCCGCTGCAATGCTAGGGAAACAAGATTC
* *
39558918 GCTACCTGTAGCTTTAATCTGTCCCACTATAATGCCAAAG
130 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * * * * *
39558958 AGATAGGATTCGTTGCCCATAGCTGTAATCCACTCCACTTTAGCTATTTCAAGTCTTAACACCAG
1 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAGACCAG
* * * *
39559023 GGAGATAAGATTCGCTGCCCTTATCTTTAATCTGTTCCGCTGCAATGCTAGGGAAACATGATTCG
66 GGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCG
*
39559088 CTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAAG
131 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * * *
39559127 AGATAGGATTCGCTTCCCACTA-CTTTAATCCGCTCCACTTCAACTATTTCAAATGTTAATG-CC
1 AGATAGGATTCGCTGCCCAC-AGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAA-GACC
* * * * * * **
39559190 AGAGACATAAGATTCGCTACCCTAAGCTTTCATCTGCTCGGCTGCAACACTAGGGAAACAAGATT
64 AGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATT
* *
39559255 CACTACCTTTAGGTTTAATCTGTTCCACTATAATGCCAAAG
129 CGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * *
39559296 AGATAGGATTCGCTGCCCATAGCTTTAATCCGCTCCACCTCAGCTATTTTAAGTCTTAACGA-CA
1 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAA-GACCA
* *
39559360 GGGGGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACTGCAATGCTAGGGAAACAAGATTC
65 GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
* *
39559425 GCAACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAAG
130 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * * * *
39559465 AGATAGGATTCGCTTCCCACTGCTTTAATCCACTCCACTTCAGCTATTTCAAGTATTAATG-CTA
1 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAA-GACCA
* * * * * **
39559529 GAGG-CATAAGATTCGCTACCCTCATCTTTCATCTGCTCGGCTGCAACACTAGGGAAACAAGATT
65 G-GGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATT
*
39559593 CGCTACCTTTAGATTTAATCTGTTCCACTATAATGCCAAAG
129 CGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * * * * *
39559634 AGATATGATTCACTGCCCAGAGCTTTAATCCACTCCACTTCAGCTATTTCAAGTCGTAACACCAG
1 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAGACCAG
* * * * *
39559699 TGAGATAAGATTCGCCAG-CCTCAGCTTTAATTTGCTCCGCTGTAATGCTAGGGAAACAAGATTT
66 GGAGATAAGATTCG-CTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
* *
39559763 GCTATCTTTAGCTTTAATCTGTTCCACTATAATGCCCAAG
130 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * * * * * *
39559803 AGATATGATTCCCTACCCACAGCTTTAATCTGCTTCA-TTTATGCTATTTCAAGTCTTAACACCA
1 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCA-GCTATTTCAAGTCTTAAGACCA
* * * * *
39559867 GAGAGATAAGATTCACTGCCCTCAGCTTTAATCTGCTCCGCTGTAATTCTAGGAAAACAAGATTC
65 GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
* * * *
39559932 GCAACCTTTAGCTTTAATTTGTTCCACTACAATGCCAATG
130 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * * *
39559972 ATATAGGATTCGCAT-CCCACAGCTGTAATCCACTCCACTTCAGCTATTTCAAGTCTTAACACCA
1 AGATAGGATTCGC-TGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAGACCA
** * * *
39560036 AAGAGATAAGATTCGCTGCCGTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGAAAACAAGATTC
65 GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
* * *
39560101 ACTACCTGTAGCTTTAATCTGTTCCACTATAATGCCTAAG
130 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * *
39560141 AGATAGGATTCCGTTG-CCACA-CTTTAATCCGCTTCACTTCAGCTATTTCAAGTCTTAACG-CT
1 AGATAGGATT-CGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAA-GACC
* * * ** * * *
39560203 AGGGAGACAAGATTCGCTGCCCTCTA-CTTTATTCTACGT-CGAGGTAATGCTAGAGACACAAGA
64 AGGGAGATAAGATTCGCTGCCCTC-AGCTTTAATCTGC-TCCGCTGCAATGCTAGGGAAACAAGA
* * *
39560266 TTCGCTACCATTAGCTTTAATCTGTACCACTATAATACCAAAG
127 TTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
** * * * * *
39560309 AGATATTATTCGCTACCCACAGCTTTGATCTGCTCCACTTTAGCTATTTCAAGTCTTCACG-CCA
1 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTT-AAGACCA
* * * * * *
39560373 GGGAGATAAGATTCGATGCCCTCTGCTTTAATCTGGTCTGCTGCAAAGCTAGGGAAATAAGATTC
65 GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
*
39560438 GCTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAAG
130 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * * * * * * *
39560478 ATATAAGATTCACTTCTCACTA-CATTAATCCGCTCCACTTTC-GCTATTTCAAGTGTTCATG-C
1 AGATAGGATTCGCTGCCCAC-AGCTTTAATCCGCTCCAC-TTCAGCTATTTCAAGTCTT-AAGAC
* * * * * * **
39560540 CAAGGACATAAGATTCACTACCCTCAGCTTTCATCTGCTCGGCTGCAACACTAGGGAAACAAGAT
63 CAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGAT
* * **
39560605 TCGCTACCTTTAGGTTTACTCTGTTGAACTATAATGCCAAAG
128 TCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * *
39560647 TGATAGGATTCGCTGCCCACAGCCTTAATCCGCTCCACTTCAGCTATTTTAAGTCTTAATG-CCA
1 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAA-GACCA
* *
39560711 GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTTCTCCGCTGCAATGCTAAGGAAACAAGATTC
65 GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
* * *
39560776 GCTATCTTTAGCTTTAATCTGTTCCACTAGAAAGCCAAAG
130 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * * *
39560816 AGATAGGATTCGCTTCCCACAGCTTTAATCCGCTCTACTTCAGGTATTTCAACTCTTAACG-CCA
1 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAA-GACCA
* * *
39560880 GGGAGAGAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGGAACGCTAGGGAAACAAGATTC
65 GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
*
39560945 GCTACCTTTAGATTTAATCTGTTCCACTATAATGCC-AAG
130 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * * *
39560984 AAGATAGGATTCGCTGCCCACAGCTTTAATCCTCTCCACTTCAGGTATTGCAAGTCTTAACACCA
1 -AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAGACCA
* * *
39561049 GGGAGATAAGATTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGAGTC
65 GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
39561114 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
130 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
* * *
39561154 AGATAGGATTCACTACCCACAGCTTTAATCTGCTCC
1 AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCC
39561190 GCTGCAATGC
Statistics
Matches: 2043, Mismatches: 323, Indels: 70
0.84 0.13 0.03
Matches are distributed among these distances:
167 3 0.00
168 152 0.07
169 1869 0.91
170 19 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (169 bp):
AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAGACCAG
GGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCG
CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAG
Found at i:39559054 original size:405 final size:405
Alignment explanation
Indices: 39558214--39559042 Score: 1060
Period size: 405 Copynumber: 2.0 Consensus size: 405
39558204 TAAAGCCAAA
* * * *
39558214 GAGATAGGATTCGCTTCCCACAGCTTTAATCCGCTCCATTTCAGCTATTTCAAGTCTTAATGCAA
1 GAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAACTATTTCAAGTCTTAACGCAA
* ** * * *
39558279 GGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGTAACGCTAGGGAAGCGAGATTC
66 GGGAGACAAGATTCGCTGCCCTCAGCAATAATCTACTCCGCTGTAACGCTAGGGAAACAAGATTC
* * *
39558344 GCTACCTTTAGCATTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTT
131 GCTACCTTTAGCATTAATCTGCTCCACTATAAAGCCAAAGAGATAGGATTCACTGCCCACAGCTT
* * *
39558409 TAATCTCCTCCACCTCAGCTATTTCAAGTCTTAGTGCCAGGGAGACAAGATTCGCAGCCCTCTAC
196 TAATCTCCTCCACCTCAGCTATTTCAAGTCTTAGTACAAGGGAGACAACATTCGCAGCCCTCTAC
* * * *
39558474 TATAATCTGCTCCGTTGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCA
261 TATAATCTGCTCCGCTGCAATGCTAGGAAAACAAGATTCGCTACCTGTAGCTTTAATCTGTCCCA
* * * *
39558539 CTATAGAGCCAAATAGATACGATTCACTTCCCACAGCTTTAATCCGCTCCACTTTAACTATTTGA
326 CTATAGAGCCAAAGAGATACGATTCACTTCCCACAGCTGTAATCCACTCCACTTTAACTATTTCA
*
39558604 AGTCTTAACGCCAGG
391 AGTCTTAACACCAGG
* * * * * * *
39558619 TAGATAGGATCCGCTGCCCACAGATTTAATCCGCTCCCCTTCAACTATTTGAAGTCTTAGCGCCA
1 GAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAACTATTTCAAGTCTTAACGCAA
* * * * *
39558684 GGGAGACAAGATTCGCTGTCCTTTA-CAATAATCTACTCCGTTGTAATGCTAGGGAAATAAGATT
66 GGGAGACAAGATTCGCTG-CCCTCAGCAATAATCTACTCCGCTGTAACGCTAGGGAAACAAGATT
* * * * *
39558748 CGCTACCTTTAGCTTTAATCTGCTCCACTATAAAGCCCAATAGATATGATTCACTGCCCGCAGCT
130 CGCTACCTTTAGCATTAATCTGCTCCACTATAAAGCCAAAGAGATAGGATTCACTGCCCACAGCT
* ** * * *
39558813 TTAATC-CGCTTCATTTTAGCTATTTCAAGTCTTAAG-ACAAGGGAGATAACATTCGCTGCCCTC
195 TTAATCTC-CTCCACCTCAGCTATTTCAAGTCTT-AGTACAAGGGAGACAACATTCGCAGCCCTC
*
39558876 -AGCTTTAATCTAG-TCCGCTGCAATGCTAGGAAAACAAGATTCGCTACCTGTAGCTTTAATCTG
258 TA-CTATAATCT-GCTCCGCTGCAATGCTAGGAAAACAAGATTCGCTACCTGTAGCTTTAATCTG
* * * *
39558939 TCCCACTATA-ATGCCAAAGAGATAGGATTC-GTTGCCCATAGCTGTAATCCACTCCACTTTAGC
321 TCCCACTATAGA-GCCAAAGAGATACGATTCACTT-CCCACAGCTGTAATCCACTCCACTTTAAC
39559002 TATTTCAAGTCTTAACACCAGG
384 TATTTCAAGTCTTAACACCAGG
*
39559024 GAGATAAGATTCGCTGCCC
1 GAGATAGGATTCGCTGCCC
39559043 TTATCTTTAA
Statistics
Matches: 361, Mismatches: 56, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
404 5 0.01
405 349 0.97
406 7 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (405 bp):
GAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAACTATTTCAAGTCTTAACGCAA
GGGAGACAAGATTCGCTGCCCTCAGCAATAATCTACTCCGCTGTAACGCTAGGGAAACAAGATTC
GCTACCTTTAGCATTAATCTGCTCCACTATAAAGCCAAAGAGATAGGATTCACTGCCCACAGCTT
TAATCTCCTCCACCTCAGCTATTTCAAGTCTTAGTACAAGGGAGACAACATTCGCAGCCCTCTAC
TATAATCTGCTCCGCTGCAATGCTAGGAAAACAAGATTCGCTACCTGTAGCTTTAATCTGTCCCA
CTATAGAGCCAAAGAGATACGATTCACTTCCCACAGCTGTAATCCACTCCACTTTAACTATTTCA
AGTCTTAACACCAGG
Found at i:39559145 original size:574 final size:574
Alignment explanation
Indices: 39558046--39559175 Score: 1649
Period size: 574 Copynumber: 2.0 Consensus size: 574
39558036 AATACCAAAG
* * * *
39558046 AGATAGAATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACACTAG
1 AGATAGAATCCGCTGCCCACAGATTTAATCCGCTCCACTTCAACTATTTCAAGTCTTAACACCAG
* ** *
39558111 GGAGACAAGATTCGCTGCCCTCTGCTTTAATATGCCCCGCTGCAATGCTAGGGAAACAAGATTCG
66 GGAGACAAGATTCGCTGCCCTCTACAATAATATACCCCGCTGCAATGCTAGGGAAACAAGATTCG
* * * *
39558176 CTACCTTTAGCTTTAATCTGTTCTAATATAAAGCCAAAGAGATAGGATTCGCTTCCCACAGCTTT
131 CTACCTTTAGCTTTAATCTGCTCCAATATAAAGCCAAAGAGATAGGATTCACTGCCCACAGCTTT
*
39558241 AATCCGCTCCATTTCAGCTATTTCAAGTCTTAATGCAAGGGAGATAAGATTCGCTGCCCTCAGCT
196 AATCCGCTCCATTTCAGCTATTTCAAGTCTTAATGCAAGGGAGATAACATTCGCTGCCCTCAGCT
* * * * * *
39558306 TTAATCTGCTCCGCTGTAACGCTAGGGAAGCGAGATTCGCTACCTTTAGCATTAATCTGTTCCAC
261 TTAATCTGCTCCGCTGCAACGCTAGGAAAACAAGATTCGCTACCTGTAGCATTAATCTGTCCCAC
*
39558371 TATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCTCCTCCACCTCAGCTATTTCAA
326 TATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTGTAATCTCCTCCACCTCAGCTATTTCAA
*** *
39558436 GTCTTAGTGCCAGGGAGACAAGATTCGCAGCCCTCTACTATAATCTGCTCCGTTGCAATGCTAGG
391 GTCTTAACACCAGGGAGACAAGATTCGCAGCCCTCTACTATAATCTGCTCCGCTGCAATGCTAGG
* *
39558501 GAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAGAGCCAAATAGATACGATTCAC
456 GAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAAGAGATACGATTCAC
*
39558566 TTCCCAC-AGCTTTAATCCGCTCCACTTTAACTATTTGAAGTCTTAACGCCAGGT
521 TTCCCACTA-CTTTAATCCGCTCCACTTCAACTATTTGAAGTCTTAACGCCAGGT
* * * * *
39558620 AGATAGGATCCGCTGCCCACAGATTTAATCCGCTCCCCTTCAACTATTTGAAGTCTTAGCGCCAG
1 AGATAGAATCCGCTGCCCACAGATTTAATCCGCTCCACTTCAACTATTTCAAGTCTTAACACCAG
* * * * * * *
39558685 GGAGACAAGATTCGCTGTCCTTTACAATAATCTACTCCGTTGTAATGCTAGGGAAATAAGATTCG
66 GGAGACAAGATTCGCTGCCCTCTACAATAATATACCCCGCTGCAATGCTAGGGAAACAAGATTCG
* * * * *
39558750 CTACCTTTAGCTTTAATCTGCTCCACTATAAAGCCCAATAGATATGATTCACTGCCCGCAGCTTT
131 CTACCTTTAGCTTTAATCTGCTCCAATATAAAGCCAAAGAGATAGGATTCACTGCCCACAGCTTT
* *
39558815 AATCCGCTTCATTTTAGCTATTTCAAGTCTTAA-GACAAGGGAGATAACATTCGCTGCCCTCAGC
196 AATCCGCTCCATTTCAGCTATTTCAAGTCTTAATG-CAAGGGAGATAACATTCGCTGCCCTCAGC
* *
39558879 TTTAATCTAG-TCCGCTGCAATGCTAGGAAAACAAGATTCGCTACCTGTAGCTTTAATCTGTCCC
260 TTTAATCT-GCTCCGCTGCAACGCTAGGAAAACAAGATTCGCTACCTGTAGCATTAATCTGTCCC
* * * *
39558943 ACTATAATGCCAAAGAGATAGGATTCGTTGCCCATAGCTGTAATC-CACTCCACTTTAGCTATTT
324 ACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTGTAATCTC-CTCCACCTCAGCTATTT
* * * *
39559007 CAAGTCTTAACACCAGGGAGATAAGATTCGCTGCCCT-TATCTTTAATCTGTTCCGCTGCAATGC
388 CAAGTCTTAACACCAGGGAGACAAGATTCGCAGCCCTCTA-CTATAATCTGCTCCGCTGCAATGC
* *
39559071 TAGGGAAACATGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAAGAGATAGGAT
452 TAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAAGAGATACGAT
*
39559136 TCGCTTCCCACTACTTTAATCCGCTCCACTTCAACTATTT
517 TCACTTCCCACTACTTTAATCCGCTCCACTTCAACTATTT
39559176 CAAATGTTAA
Statistics
Matches: 492, Mismatches: 59, Indels: 10
0.88 0.11 0.02
Matches are distributed among these distances:
573 4 0.01
574 486 0.99
575 2 0.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (574 bp):
AGATAGAATCCGCTGCCCACAGATTTAATCCGCTCCACTTCAACTATTTCAAGTCTTAACACCAG
GGAGACAAGATTCGCTGCCCTCTACAATAATATACCCCGCTGCAATGCTAGGGAAACAAGATTCG
CTACCTTTAGCTTTAATCTGCTCCAATATAAAGCCAAAGAGATAGGATTCACTGCCCACAGCTTT
AATCCGCTCCATTTCAGCTATTTCAAGTCTTAATGCAAGGGAGATAACATTCGCTGCCCTCAGCT
TTAATCTGCTCCGCTGCAACGCTAGGAAAACAAGATTCGCTACCTGTAGCATTAATCTGTCCCAC
TATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTGTAATCTCCTCCACCTCAGCTATTTCAA
GTCTTAACACCAGGGAGACAAGATTCGCAGCCCTCTACTATAATCTGCTCCGCTGCAATGCTAGG
GAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAAGAGATACGATTCAC
TTCCCACTACTTTAATCCGCTCCACTTCAACTATTTGAAGTCTTAACGCCAGGT
Found at i:39559331 original size:743 final size:743
Alignment explanation
Indices: 39557969--39559398 Score: 2009
Period size: 743 Copynumber: 1.9 Consensus size: 743
39557959 CCTTCTGCTT
* *
39557969 TAATCTGCTCCGCTGCAATGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCCATTCCACT
1 TAATCTACTCCGCTGCAATGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCCACTCCACT
*
39558034 ATAATACCAAAGAGATAGAATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAG
66 ATAATACCAAAGAGATAGAATTCACTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAG
* * * *
39558099 TCTTAACACTAGGGAGACAAGATTCGCTGCCCTCTGCTTTAATATGCCCCGCTGCAATGCTAGGG
131 TCTTAACACAAGGGAGACAACATTCGCTGCCCTCAGCTTTAATATGCCCCGCTGCAATGCTAGGA
* * *
39558164 AAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCTAATATAAAGCCAAAGAGATAGGATTCGCT
196 AAACAAGATTCGCTACCTGTAGCTTTAATCTGTCCCAATATAAAGCCAAAGAGATAGGATTCGCT
* * **
39558229 TCCCACAGCTTTAATCCGCTCCATTTCAGCTATTTCAAGTCTTAATGCAAGGGAGATAAGATTCG
261 TCCCACAGCTGTAATCCACTCCATTTCAGCTATTTCAAGTCTTAACACAAGGGAGATAAGATTCG
* *
39558294 CTGCCCTCAGCTTTAATCTGCTCCGCTGTAACGCTAGGGAAGCGAGATTCGCTACCTTTAGCATT
326 CTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACGAGATTCGCTACCTTTAGCATT
*
39558359 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCTCCTCCACCT
391 AATCTGTTCCACTATAAAGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCTCCTCCACCT
* * * * * * *
39558424 CAGCTATTTCAAGTCTTAGTGCCAGGGAGACAAGATTCGCAGCCCTCTACTATAATCTGCTCCGT
456 CAACTATTTCAAATCTTAATGCCAGAGACACAAGATTCGCAGCCCTCAACTATAATCTGCTCCGC
** * *
39558489 TGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAGAGCCAAATA
521 TGCAACACTAGGGAAACAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTATAGAGCCAAAGA
* * * *
39558554 GATACGATTCACTTCCCACAGCTTTAATCCGCTCCACTTTAACTATTTGAAGTCTTAACGCCAGG
586 GATACGATTCACTGCCCACAGCTTTAATCCGCTCCACCTCAACTATTTGAAGTCTTAACGACAGG
* *
39558619 TAGATAGGATCCGCTGCCCACAGATTTAATCCGCTCCCCTTCAACTATTTGAAGTCTTAGCGCCA
651 GAGATAAGATCCGCTGCCCACAGATTTAATCCGCTCCCCTTCAACTATTTGAAGTCTTAGCGCCA
39558684 GGGAGACAAGATTCGCTGTCCTTTACAA
716 GGGAGACAAGATTCGCTGTCCTTTACAA
* * **
39558712 TAATCTACTCCGTTGTAATGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCACT
1 TAATCTACTCCGCTGCAATGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCCACTCCACT
* * * * * *
39558777 ATAA-AGCCCAATAGATATG-ATTCACTGCCCGCAGCTTTAATCCGCTTCATTTTAGCTATTTCA
66 ATAATA-CCAAAGAGATA-GAATTCACTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCA
* * * *
39558840 AGTCTTAAGACAAGGGAGATAACATTCGCTGCCCTCAGCTTTAATCTAG-TCCGCTGCAATGCTA
129 AGTCTTAACACAAGGGAGACAACATTCGCTGCCCTCAGCTTTAATAT-GCCCCGCTGCAATGCTA
* *
39558904 GGAAAACAAGATTCGCTACCTGTAGCTTTAATCTGTCCCACTATAATGCCAAAGAGATAGGATTC
193 GGAAAACAAGATTCGCTACCTGTAGCTTTAATCTGTCCCAATATAAAGCCAAAGAGATAGGATTC
* *
39558969 G-TTGCCCATAGCTGTAATCCACTCCACTTT-AGCTATTTCAAGTCTTAACACCAGGGAGATAAG
258 GCTT-CCCACAGCTGTAATCCACTCCA-TTTCAGCTATTTCAAGTCTTAACACAAGGGAGATAAG
* * * *
39559032 ATTCGCTGCCCTTATCTTTAATCTGTTCCGCTGCAATGCTAGGGAAAC-ATGATTCGCTACCTTT
321 ATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACGA-GATTCGCTACCTTT
* *
39559096 AGCTTTAATCTGTTCCACTATAAAGCCAAAGAGATAGGATTCGCTTCCCACTA-CTTTAATC-CG
385 AGCATTAATCTGTTCCACTATAAAGCCAAAGAGATAGGATTCGCTGCCCAC-AGCTTTAATCTC-
* * * * *
39559159 CTCCACTTCAACTATTTCAAATGTTAATGCCAGAGACATAAGATTCGCTA-CCCT-AAGCTTTCA
448 CTCCACCTCAACTATTTCAAATCTTAATGCCAGAGACACAAGATTCGC-AGCCCTCAA-CTATAA
* *
39559222 TCTGCTCGGCTGCAACACTAGGGAAACAAGATTCACTACCTTTAGGTTTAATCTGTTCCACTATA
511 TCTGCTCCGCTGCAACACTAGGGAAACAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTATA
* * * * *
39559287 -ATGCCAAAGAGATAGGATTCGCTGCCCATAGCTTTAATCCGCTCCACCTCAGCTATTTTAAGTC
576 GA-GCCAAAGAGATACGATTCACTGCCCACAGCTTTAATCCGCTCCACCTCAACTATTTGAAGTC
* * * * *
39559351 TTAACGACAGGGGGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCC
640 TTAACGACAGGGAGATAAGATCCGCTGCCCACAGATTTAATCCGCTCC
39559399 ACTGCAATGC
Statistics
Matches: 601, Mismatches: 75, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
742 7 0.01
743 587 0.98
744 7 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (743 bp):
TAATCTACTCCGCTGCAATGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCCACTCCACT
ATAATACCAAAGAGATAGAATTCACTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAG
TCTTAACACAAGGGAGACAACATTCGCTGCCCTCAGCTTTAATATGCCCCGCTGCAATGCTAGGA
AAACAAGATTCGCTACCTGTAGCTTTAATCTGTCCCAATATAAAGCCAAAGAGATAGGATTCGCT
TCCCACAGCTGTAATCCACTCCATTTCAGCTATTTCAAGTCTTAACACAAGGGAGATAAGATTCG
CTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACGAGATTCGCTACCTTTAGCATT
AATCTGTTCCACTATAAAGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCTCCTCCACCT
CAACTATTTCAAATCTTAATGCCAGAGACACAAGATTCGCAGCCCTCAACTATAATCTGCTCCGC
TGCAACACTAGGGAAACAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTATAGAGCCAAAGA
GATACGATTCACTGCCCACAGCTTTAATCCGCTCCACCTCAACTATTTGAAGTCTTAACGACAGG
GAGATAAGATCCGCTGCCCACAGATTTAATCCGCTCCCCTTCAACTATTTGAAGTCTTAGCGCCA
GGGAGACAAGATTCGCTGTCCTTTACAA
Found at i:39561127 original size:51 final size:51
Alignment explanation
Indices: 39561056--39561236 Score: 191
Period size: 51 Copynumber: 3.5 Consensus size: 51
39561046 CCAGGGAGAT
* * *
39561056 AAGATTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAAC
1 AAGAGTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAAC
* * * * ** * * * *
39561107 AAGAGTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGAT
1 AAGAGTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAAC
* * * *
39561158 AGGATTCACTACCCACAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAAC
1 AAGAGTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAAC
* *
39561209 AAGAGTCGCTACCTTTAGCTTTAATCTG
1 AAGAGTCGCTACCCTCAGCTTTAATCTG
39561237 TTCCACTATA
Statistics
Matches: 97, Mismatches: 33, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
51 97 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (51 bp):
AAGAGTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAAC
Found at i:39561227 original size:102 final size:102
Alignment explanation
Indices: 39561051--39561285 Score: 425
Period size: 102 Copynumber: 2.3 Consensus size: 102
39561041 TAACACCAGG
* * * *
39561051 GAGATAAGATTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGAGTCGC
1 GAGATAGGATTCACTACCCACAGCTTTAATCTGCTCCGCTGCAACGCTAAGGAAACAAGAGTCGC
39561116 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAA
*
39561153 GAGATAGGATTCACTACCCACAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAACAAGAGTCGC
1 GAGATAGGATTCACTACCCACAGCTTTAATCTGCTCCGCTGCAACGCTAAGGAAACAAGAGTCGC
39561218 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAA
39561255 GAGATAGGATTCACTACCCACAGCTTTAATC
1 GAGATAGGATTCACTACCCACAGCTTTAATC
39561286 CGCTTTATTT
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 128 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (102 bp):
GAGATAGGATTCACTACCCACAGCTTTAATCTGCTCCGCTGCAACGCTAAGGAAACAAGAGTCGC
TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAA
Found at i:39561237 original size:271 final size:271
Alignment explanation
Indices: 39560902--39561460 Score: 859
Period size: 271 Copynumber: 2.1 Consensus size: 271
39560892 TCGCTGCCCT
* * *
39560902 CAGCTTTAATCTGCTCCGCTGGAACGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGT
1 CAGCTTTAATCTGCTCCGCTGCAACGCTAAGGAAACAAGAGTCGCTACCTTTAGATTTAATCTGT
* * * *
39560967 TCCACTATAATGCC-AAGAAGATAGGATTCGCTGCCCACAGCTTTAATCCTCTCCACTTCAGGTA
66 TCCACTATAATGCCAAAG-AGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTA
* * **
39561031 TTGCAAGTCTTAACACCAGGGAGATAAGATTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCAAC
130 TTGCAAGTCTTAACACCAGGGAGACAAGATTCGCTACCCTCAGCTTTAATCTGATCCGAGGCAAC
*
39561096 GCTAGGGAAACAAGAGTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGG
195 GCTAGGGAAACAAGAGTCGCTACCTTTAGATTTAATCTGTTCCACTATAATGCCAAAGAGATAGG
39561161 ATTCACTACCCA
260 ATTCACTACCCA
* *
39561173 CAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAACAAGAGTCGCTACCTTTAGCTTTAATCTGT
1 CAGCTTTAATCTGCTCCGCTGCAACGCTAAGGAAACAAGAGTCGCTACCTTTAGATTTAATCTGT
** *
39561238 TCCACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTTTATTTCAGCTAT
66 TCCACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTAT
* * * * * * *
39561303 TTCAAGTCTTAACGCTAGGGAGACAAGATTCGCTGCCCTCTGCTTTAATCTGATTCGAGGCAATG
131 TGCAAGTCTTAACACCAGGGAGACAAGATTCGCTACCCTCAGCTTTAATCTGATCCGAGGCAACG
* *
39561368 CTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACTATAATGCCAAAGAGATAGGG
196 CTAGGGAAACAAGAGTCGCTACCTTTAGATTTAATCTGTTCCACTATAATGCCAAAGAGATAGGA
39561433 TTCACTACCCA
261 TTCACTACCCA
*
39561444 CAGCTTTAATCCGCTCC
1 CAGCTTTAATCTGCTCC
39561461 ACTTCAGCTA
Statistics
Matches: 260, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
271 257 0.99
272 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (271 bp):
CAGCTTTAATCTGCTCCGCTGCAACGCTAAGGAAACAAGAGTCGCTACCTTTAGATTTAATCTGT
TCCACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTAT
TGCAAGTCTTAACACCAGGGAGACAAGATTCGCTACCCTCAGCTTTAATCTGATCCGAGGCAACG
CTAGGGAAACAAGAGTCGCTACCTTTAGATTTAATCTGTTCCACTATAATGCCAAAGAGATAGGA
TTCACTACCCA
Found at i:39561280 original size:51 final size:51
Alignment explanation
Indices: 39561123--39561285 Score: 200
Period size: 51 Copynumber: 3.2 Consensus size: 51
39561113 CGCTACCTTT
39561123 AGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTACCCAC
1 AGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTACCCAC
* * ** * * * * * * * ***
39561174 AGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAACAAGAGTCGCTACCTTT
1 AGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTACCCAC
39561225 AGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTACCCAC
1 AGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTACCCAC
39561276 AGCTTTAATC
1 AGCTTTAATC
39561286 CGCTTTATTT
Statistics
Matches: 84, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
51 84 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (51 bp):
AGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTACCCAC
Found at i:39561341 original size:609 final size:609
Alignment explanation
Indices: 39560536--39561893 Score: 1977
Period size: 609 Copynumber: 2.2 Consensus size: 609
39560526 TCAAGTGTTC
* * * * **
39560536 ATGCCAAGGACATAAGATTCACTACCCTCAGCTTTCATCTGCTCGGCTGCAACACTAGGGAAACA
1 ATGCCAAGGAGATAGGATTCACTACCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACA
* * ** *
39560601 AGATTCGCTACCTTTAGGTTTACTCTGTTGAACTATAATGCCAAAGTGATAGGATTCGCTGCCCA
66 AGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCA
* * * *
39560666 CAGCCTTAATCCGCTCCACTTCAGCTATTTTAAGTCTTAATGCCAGGGAGATAAGATTCGCTGCC
131 CAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCC
** ** * *
39560731 CTCAGCTTTAATCTTCTCCGCTGCAATGCTAAGGAAACAAGATTCGCTATCTTTAGCTTTAATCT
196 CTCAGCTTTAATCTGATCCGAGGCAATGCTAAGGAAACAAGATTCGCTACCTTTAGATTTAATCT
* * * *
39560796 GTTCCACTAGAAAGCCAAAGAGATAGGATTCGCTTCCCACAGCTTTAATCCGCTCTACTTCAGGT
261 GTTCCACTAGAAAGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCT
* * * *
39560861 ATTTCAACTCTTAACGCCAGGGAGAGAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGGAA
326 ATTTCAACTCTTAACGCCAGGGAGACAAGATTCGCTGCCCTCAGCCTTAATCTGCTCAGCTGCAA
* *
39560926 CGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACTATAATGCC-AAGAAGATA
391 AGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACTATAAAGCCAAAG-AGATA
* * * *
39560990 GGATTCGCTGCCCACAGCTTTAATCCTCTCCACTTCAGGT-ATTGCAAGTCTTAACACCAGGGAG
455 GGATTCACTGCCCACAACTTTAATCCACTCCACTTCAGCTAATT-CAAGTCTTAACACCAGGGAG
* *
39561054 ATAAGATTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGAGTCGCTAC
519 ATAAGATTCGCTACCCTCAGCTTGAATCTGCTCCGCTGCAACGCTAGGGAAACAAGAGTCACTAC
39561119 CTTTAGCTTTAATCTGTTCCACTA-TA
584 CTTTAGCTTTAATCTGTTCCAC-AGTA
* * *
39561145 ATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAACA
1 ATGCCAAGGAGATAGGATTCACTACCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACA
* * *
39561210 AGAGTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTACCCA
66 AGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCA
** * *
39561275 CAGCTTTAATCCGCTTTATTTCAGCTATTTCAAGTCTTAACGCTAGGGAGACAAGATTCGCTGCC
131 CAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCC
* * *
39561340 CTCTGCTTTAATCTGATTCGAGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCT
196 CTCAGCTTTAATCTGATCCGAGGCAATGCTAAGGAAACAAGATTCGCTACCTTTAGATTTAATCT
* * *
39561405 GTTCCACTATAATGCCAAAGAGATAGGGTTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCT
261 GTTCCACTAGAAAGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCT
** * *
39561470 ATTTCATGTCTTAACGCTAGGGAGACAAGATTCGCTGCCCTCTGCCTTAATCTGCTCAGCTGCAA
326 ATTTCAACTCTTAACGCCAGGGAGACAAGATTCGCTGCCCTCAGCCTTAATCTGCTCAGCTGCAA
* *
39561535 AGCTAGGGAAACAAGATTTGCTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAAGAGATAG
391 AGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACTATAAAGCCAAAGAGATAG
* *
39561600 GATTCACTTCCCACAACTTTAATCCACTCCACTTCAGCTAATTCAAGTCTTAACGCCAGGGAGAT
456 GATTCACTGCCCACAACTTTAATCCACTCCACTTCAGCTAATTCAAGTCTTAACACCAGGGAGAT
* * * *
39561665 AAGATTCGCTGCCCTCAGCTTGAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCACTAGCT
521 AAGATTCGCTACCCTCAGCTTGAATCTGCTCCGCTGCAACGCTAGGGAAACAAGAGTCACTACCT
39561730 TTAGCTTTAATCTGTTCCACAGTA
586 TTAGCTTTAATCTGTTCCACAGTA
* * * **
39561754 ATGCCAAGGAGATAGGATTCGCTGCCCTCAGCTTGAATCTGCTATGCTGCAATGCTAGGGAAACA
1 ATGCCAAGGAGATAGGATTCACTACCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACA
* * **
39561819 AGATTCACTAGCTTTAGCTTTAATCTGTTCCAC-AGTAATGCCAGGGAGATAGGATTCGCTGCCC
66 AGATTCGCTACCTTTAGCTTTAATCTGTTCCACTA-TAATGCCAAAGAGATAGGATTCGCTGCCC
*
39561883 TCAGCTTTAAT
130 ACAGCTTTAAT
39561894 TTGCTCGGCT
Statistics
Matches: 664, Mismatches: 81, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
608 2 0.00
609 656 0.99
610 6 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (609 bp):
ATGCCAAGGAGATAGGATTCACTACCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACA
AGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCA
CAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCC
CTCAGCTTTAATCTGATCCGAGGCAATGCTAAGGAAACAAGATTCGCTACCTTTAGATTTAATCT
GTTCCACTAGAAAGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCT
ATTTCAACTCTTAACGCCAGGGAGACAAGATTCGCTGCCCTCAGCCTTAATCTGCTCAGCTGCAA
AGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACTATAAAGCCAAAGAGATAG
GATTCACTGCCCACAACTTTAATCCACTCCACTTCAGCTAATTCAAGTCTTAACACCAGGGAGAT
AAGATTCGCTACCCTCAGCTTGAATCTGCTCCGCTGCAACGCTAGGGAAACAAGAGTCACTACCT
TTAGCTTTAATCTGTTCCACAGTA
Found at i:39561373 original size:440 final size:439
Alignment explanation
Indices: 39560713--39562405 Score: 1642
Period size: 440 Copynumber: 3.8 Consensus size: 439
39560703 TAATGCCAGG
* * *
39560713 GAGATAAGATTCGCTGCCCTCAGCTTTAATCTTCTCCGCTGCAATGCTAAGGAAACAAGATTCGC
1 GAGATAAGATTCACTGCCCACAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAACAAGATTCGC
* * * *
39560778 TATCTTTAGCTTTAATCTGTTCCACTAGAAAGCCAAAGAGATAGGATTCGCTTCCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCAC-TCCCACAGCTTTA
* * *
39560843 ATCCGCTCTACTTCAGGTATTTCAACTCTTAACGCCAGGGAGAGAAGATTCGCTGCCCTCAGCTT
130 ATCCGCTCTACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTT
*
39560908 TAATCTGCTCCGCTGG-AACGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCAC
195 TAATCTGCTCCGC-GGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCAC
* *
39560972 TATAATGCC-AAGAAGATAGGATTCGCTGCCCACAGCTTTAATCCTCTCCACTTCAGGTATTGCA
259 TATAATGCCAAAG-AGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTGCA
* * *
39561036 AGTCTTAACACCAGGGAGATAAGATTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAG
323 AGTCTTAACACCAGGGAGACAAGATTCGCTACCCTCAGCTTTAATCTGCTCAGCTGCAAAGCTAG
* *
39561101 GGAAACAAGAGTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAA
388 GGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAA
* * *
39561153 GAGATAGGATTCACTACCCACAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAACAAGAGTCGC
1 GAGATAAGATTCACTGCCCACAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAACAAGATTCGC
39561218 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTA
66 TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACT-CCCACAGCTTTA
* * * * *
39561283 ATCCGCTTTATTTCAGCTATTTCAAGTCTTAACGCTAGGGAGACAAGATTCGCTGCCCTCTGCTT
130 ATCCGCTCTACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTT
* * *
39561348 TAATCTGATTCGAGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACT
195 TAATCTGCTCCGCGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACT
* * * * *
39561413 ATAATGCCAAAGAGATAGGGTTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCATG
260 ATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTGCAAG
* * * * *
39561478 TCTTAACGCTAGGGAGACAAGATTCGCTGCCCTCTGCCTTAATCTGCTCAGCTGCAAAGCTAGGG
325 TCTTAACACCAGGGAGACAAGATTCGCTACCCTCAGCTTTAATCTGCTCAGCTGCAAAGCTAGGG
*
39561543 AAACAAGATTTGCTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAA
390 AAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAA
* * * ** *
39561593 GAGATAGGATTCACTTCCCACAACTTTAATCCACTCCACTTCAGCTAATTCAAGTCTTAACGCCA
1 GAGATAAGATTCACTGCCCACAGCTTTAATCTGCTCCGC-T--GC-AA-T---G-C-T-A----A
* * * * * * * * ** * ** * * *
39561658 GGGAGATAAGATTCGCTGCCCTCAGCTTGAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
51 -GGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTC
* * * * * * *
39561723 ACT-----AGCTTT-A---G--CT--TTAATCTGTTCCACAG---TAATGCCAAGGAGATAGGAT
115 ACTCCCACAGCTTTAATCCGCTCTACTTCAGCTATTTCA-AGTCTTAACGCCAGGGAGATAAGAT
* ** * * * *
39561772 TCGCTGCCCTCAGCTTGAATCTGCTATGCTGCAATGCTAGGGAAACAAGATTCACTAGCTTTAGC
179 TCGCTGCCCTCAGCTTTAATCTGCTCCGCGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGA
** *
39561837 TTTAATCTGTTCCAC-AGTAATGCCAGGGAGATAGGATTCGCTGCCCTCAGCTTTAA-----T--
244 TTTAATCTGTTCCACTA-TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCC
** * ** * * * * *
39561894 --TT--GCT-CGGCTA--C--AACACGGGGGACACAAGATTCGCTATCTTTAGCTTTAATCTGTT
308 ACTTCAGCTATTGCAAGTCTTAACACCAGGGAGACAAGATTCGCTACCCTCAGCTTTAATCTGCT
** * * ** * * * * *** * *
39561950 CTA-CTATAATGCCAAAGAGATAGGATTCGCTGCCCAGAGCTTTAATCCGCTCCACTTCAGCTAT
373 C-AGCTGCAAAGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCAC-T-A--TA-
39562014 TTCAAGTCCTAACTCTA
432 ---AAG-CC-AA----A
* ** *
39562031 GGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTC
1 --GAGATAAGATTCACTGCCCACAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAACAAGATTC
* *
39562096 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCAGAGCTT
64 GCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACT-CCCACAGCTT
* * * * *
39562161 TAATCCACTCCACTTCAGCTATTTCATGTCTTAACACCAGGGAGATAAGATTCGCTGCCCTCAGG
128 TAATCCGCTCTACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGC
* * * *
39562226 TTTAATTTGCTCCGCTGCAATGCTAGGGAAACAAGATCCGCTACCTTTAGCTTTAATCTGTTCCA
193 TTTAATCTGCTCCGCGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCA
* *
39562291 CTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTTCACTTCAGCTATTTCA
258 CTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTGCA
* * *
39562356 AGTCTTAACGCCAGGGAGACAAGATTCGCTGCCCTCTAG-TTTATTCTGCT
323 AGTCTTAACACCAGGGAGACAAGATTCGCTACCCTC-AGCTTTAATCTGCT
39562406 TTGAGGCTTC
Statistics
Matches: 998, Mismatches: 182, Indels: 130
0.76 0.14 0.10
Matches are distributed among these distances:
424 120 0.12
425 2 0.00
426 2 0.00
428 3 0.00
429 4 0.00
430 7 0.01
431 4 0.00
432 4 0.00
433 2 0.00
434 2 0.00
435 2 0.00
436 3 0.00
437 3 0.00
438 10 0.01
439 5 0.01
440 698 0.70
441 5 0.01
442 9 0.01
443 4 0.00
444 3 0.00
445 2 0.00
446 1 0.00
448 1 0.00
449 4 0.00
450 7 0.01
451 4 0.00
452 2 0.00
454 1 0.00
455 1 0.00
456 81 0.08
457 2 0.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (439 bp):
GAGATAAGATTCACTGCCCACAGCTTTAATCTGCTCCGCTGCAATGCTAAGGAAACAAGATTCGC
TACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTCCCACAGCTTTAA
TCCGCTCTACTTCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTT
AATCTGCTCCGCGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACTA
TAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTATTGCAAGT
CTTAACACCAGGGAGACAAGATTCGCTACCCTCAGCTTTAATCTGCTCAGCTGCAAAGCTAGGGA
AACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAAAGCCAAA
Found at i:39561454 original size:169 final size:169
Alignment explanation
Indices: 39561175--39561792 Score: 896
Period size: 169 Copynumber: 3.7 Consensus size: 169
39561165 ACTACCCACA
** * *
39561175 GCTTTAATCTGCTCCGCTGCAATGCTAAGGAAACAAGAGTCGCTACCTTTAGCTTTAATCTGTTC
1 GCTTTAATCTGCTCCGAGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTC
** *
39561240 CACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTTTATTTCAGCTATTT
66 CACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTT
39561305 CAAGTCTTAACGCTAGGGAGACAAGATTCGCTGCCCTCT
131 CAAGTCTTAACGCTAGGGAGACAAGATTCGCTGCCCTCT
* * *
39561344 GCTTTAATCTGATTCGAGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGATTTAATCTGTTC
1 GCTTTAATCTGCTCCGAGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTC
*
39561409 CACTATAATGCCAAAGAGATAGGGTTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTT
66 CACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTT
*
39561474 CATGTCTTAACGCTAGGGAGACAAGATTCGCTGCCCTCT
131 CAAGTCTTAACGCTAGGGAGACAAGATTCGCTGCCCTCT
* * ** * *
39561513 GCCTTAATCTGCTCAGCTGCAAAGCTAGGGAAACAAGATTTGCTACCTTTAGCTTTAATCTGTTC
1 GCTTTAATCTGCTCCGAGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTC
* * * * *
39561578 CACTATAAAGCCAAAGAGATAGGATTCACTTCCCACAACTTTAATCCACTCCACTTCAGCTAATT
66 CACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTT
* * *
39561643 CAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCA
131 CAAGTCTTAACGCTAGGGAGACAAGATTCGCTGCCCTCT
* ** * *
39561682 GCTTGAATCTGCTCCGCTGCAATGCTAGGGAAACAAGATTCACTAGCTTTAGCTTTAATCTGTTC
1 GCTTTAATCTGCTCCGAGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTC
* * * * *
39561747 CAC-AGTAATGCCAAGGAGATAGGATTCGCTGCCCTCAGCTTGAATC
66 CACTA-TAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATC
39561793 TGCTATGCTG
Statistics
Matches: 403, Mismatches: 45, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
168 1 0.00
169 402 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (169 bp):
GCTTTAATCTGCTCCGAGGCAATGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTC
CACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTT
CAAGTCTTAACGCTAGGGAGACAAGATTCGCTGCCCTCT
Found at i:39561720 original size:51 final size:51
Alignment explanation
Indices: 39561654--39561899 Score: 190
Period size: 51 Copynumber: 4.8 Consensus size: 51
39561644 AAGTCTTAAC
* * * * *
39561654 GCCAGGGAGATAAGATTCGCTGCCCTCAGCTTGAATCTGCTCCGCTGCAAT
1 GCCAGGGAAACAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACAGCAAT
* * * * * *
39561705 GCTAGGGAAACAAGATTCACTAG-CTTTAGCTTTAATCTGTTCCACAGTAAT
1 GCCAGGGAAACAAGATTCGCT-GCCCTCAGCTTTAATCTGCTCCACAGCAAT
* * * * * *** *
39561756 GCCAAGGAGATAGGATTCGCTGCCCTCAGCTTGAATCTGCTATGCTGCAAT
1 GCCAGGGAAACAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACAGCAAT
* * * * * *
39561807 GCTAGGGAAACAAGATTCACTAG-CTTTAGCTTTAATCTGTTCCACAGTAAT
1 GCCAGGGAAACAAGATTCGCT-GCCCTCAGCTTTAATCTGCTCCACAGCAAT
* * * *
39561858 GCCAGGGAGATAGGATTCGCTGCCCTCAGCTTTAATTTGCTC
1 GCCAGGGAAACAAGATTCGCTGCCCTCAGCTTTAATCTGCTC
39561900 GGCTACAACA
Statistics
Matches: 141, Mismatches: 50, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
50 2 0.01
51 137 0.97
52 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (51 bp):
GCCAGGGAAACAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCACAGCAAT
Found at i:39561835 original size:102 final size:102
Alignment explanation
Indices: 39561654--39562002 Score: 484
Period size: 102 Copynumber: 3.4 Consensus size: 102
39561644 AAGTCTTAAC
* *
39561654 GCCAGGGAGATAAGATTCGCTGCCCTCAGCTTGAATCTGCTCCGCTGCAATGCTAGGGAAACAAG
1 GCCAAGGAGATAGGATTCGCTGCCCTCAGCTTGAATCTGCTCCGCTGCAATGCTAGGGAAACAAG
39561719 ATTCACTAGCTTTAGCTTTAATCTGTTCCACAGTAAT
66 ATTCACTAGCTTTAGCTTTAATCTGTTCCACAGTAAT
**
39561756 GCCAAGGAGATAGGATTCGCTGCCCTCAGCTTGAATCTGCTATGCTGCAATGCTAGGGAAACAAG
1 GCCAAGGAGATAGGATTCGCTGCCCTCAGCTTGAATCTGCTCCGCTGCAATGCTAGGGAAACAAG
39561821 ATTCACTAGCTTTAGCTTTAATCTGTTCCACAGTAAT
66 ATTCACTAGCTTTAGCTTTAATCTGTTCCACAGTAAT
* * * * * ** ** *
39561858 GCCAGGGAGATAGGATTCGCTGCCCTCAGCTTTAATTTGCTCGGCTACAACACGGGGGACACAAG
1 GCCAAGGAGATAGGATTCGCTGCCCTCAGCTTGAATCTGCTCCGCTGCAATGCTAGGGAAACAAG
* * *
39561923 ATTCGCTATCTTTAGCTTTAATCTGTTCTACTA-TAAT
66 ATTCACTAGCTTTAGCTTTAATCTGTTCCAC-AGTAAT
* ** * *
39561960 GCCAAAGAGATAGGATTCGCTGCCCAGAGCTTTAATCCGCTCC
1 GCCAAGGAGATAGGATTCGCTGCCCTCAGCTTGAATCTGCTCC
39562003 ACTTCAGCTA
Statistics
Matches: 221, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
102 220 1.00
103 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (102 bp):
GCCAAGGAGATAGGATTCGCTGCCCTCAGCTTGAATCTGCTCCGCTGCAATGCTAGGGAAACAAG
ATTCACTAGCTTTAGCTTTAATCTGTTCCACAGTAAT
Found at i:39561958 original size:711 final size:711
Alignment explanation
Indices: 39561050--39562391 Score: 2074
Period size: 711 Copynumber: 1.9 Consensus size: 711
39561040 TTAACACCAG
* * *
39561050 GGAGATAAGATTCGCTACCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAGAGTCG
1 GGAGATAAGATTCGCTACCCTCAGCTTGAATCTGCTACGCTGCAACGCTAGGGAAACAAGAGTCA
39561115 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTT
66 CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTT
* ** *
39561180 AATCTGCTCCGCTGCAATGCTAAGGAAACAAGAGTCGCTACCTTTAGCTTTAATCTGTTCCACTA
131 AATCTGCTCCGCTACAACACGAAGGAAACAAGAGTCGCTACCTTTAGCTTTAATCTGTTCCACTA
** *
39561245 TAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTTTATTTCAGCTATTTCAAGT
196 TAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
* * *
39561310 CTTAACGCTAGGGAGACAAGATTCGCTGCCCTCTGCTTTAATCTGATTCGAGGCAATGCTAGGGA
261 CCTAACGCTAGGGAGACAAGATTCGCTGCCCTCAGCTTTAATCTGATCCGAGGCAATGCTAGGGA
*
39561375 AACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACTATAATGCCAAAGAGATAGGGTTCACTA
326 AACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTA
* * *
39561440 CCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCATGTCTTAACGCTAGGGAGACAAGATTCGC
391 CCCACAGCTTTAATCCACTCCACTTCAGCTATTTCATGTCTTAACACCAGGGAGACAAGATTCGC
* **
39561505 TGCCCTCTGCCTTAATCTGCTCAGCTGCAAAGCTAGGGAAACAAGATTTGCTACCTTTAGCTTTA
456 TGCCCTCAGCCTTAATCTGCTCAGCTGCAAAGCTAGGGAAACAAGATCCGCTACCTTTAGCTTTA
*
39561570 ATCTGTTCCACTATAAAGCCAAAGAGATAGGATTCACTTCCCACAACTTTAATCCACTCCACTTC
521 ATCTGTTCCACTATAAAGCCAAAGAGATAGGATTCACTGCCCACAACTTTAATCCACTCCACTTC
*
39561635 AGCTAATTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTGAATCTGCTCCGCT
586 AGCTAATTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCCCTCAGCTTGAATCTGCTCCGCT
39561700 GCAATGCTAGGGAAACAAGATTCACTAGCTTTAGCTTTAATCTGTTCCACAGTAATGCCAA
651 GCAATGCTAGGGAAACAAGATTCACTAGCTTTAGCTTTAATCTGTTCCACAGTAATGCCAA
* * * * *
39561761 GGAGATAGGATTCGCTGCCCTCAGCTTGAATCTGCTATGCTGCAATGCTAGGGAAACAAGATTCA
1 GGAGATAAGATTCGCTACCCTCAGCTTGAATCTGCTACGCTGCAACGCTAGGGAAACAAGAGTCA
* ** * * *
39561826 CTAGCTTTAGCTTTAATCTGTTCCAC-AGTAATGCCAGGGAGATAGGATTCGCTGCCCTCAGCTT
66 CTACCTTTAGCTTTAATCTGTTCCACTA-TAATGCCAAAGAGATAGGATTCACTACCCACAGCTT
* * ** * * * *
39561890 TAATTTGCTCGGCTACAACACGGGGGACACAAGATTCGCTATCTTTAGCTTTAATCTGTTCTACT
130 TAATCTGCTCCGCTACAACACGAAGGAAACAAGAGTCGCTACCTTTAGCTTTAATCTGTTCCACT
* * *
39561955 ATAATGCCAAAGAGATAGGATTCGCTGCCCAGAGCTTTAATCCGCTCCACTTCAGCTATTTCAAG
195 ATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAG
* * * * **
39562020 TCCTAACTCTAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGG
260 TCCTAACGCTAGGGAGACAAGATTCGCTGCCCTCAGCTTTAATCTGATCCGAGGCAATGCTAGGG
* *
39562085 AAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCT
325 AAACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACT
* * *
39562150 GCCCAGAGCTTTAATCCACTCCACTTCAGCTATTTCATGTCTTAACACCAGGGAGATAAGATTCG
390 ACCCACAGCTTTAATCCACTCCACTTCAGCTATTTCATGTCTTAACACCAGGGAGACAAGATTCG
** * * *
39562215 CTGCCCTCAGGTTTAATTTGCTCCGCTGCAATGCTAGGGAAACAAGATCCGCTACCTTTAGCTTT
455 CTGCCCTCAGCCTTAATCTGCTCAGCTGCAAAGCTAGGGAAACAAGATCCGCTACCTTTAGCTTT
* * * * *
39562280 AATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCGCTTCACTT
520 AATCTGTTCCACTATAAAGCCAAAGAGATAGGATTCACTGCCCACAACTTTAATCCACTCCACTT
*
39562345 CAGCTATTTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCCCTC
585 CAGCTAATTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCCCTC
39562392 TAGTTTATTC
Statistics
Matches: 564, Mismatches: 66, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
710 1 0.00
711 563 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (711 bp):
GGAGATAAGATTCGCTACCCTCAGCTTGAATCTGCTACGCTGCAACGCTAGGGAAACAAGAGTCA
CTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTACCCACAGCTTT
AATCTGCTCCGCTACAACACGAAGGAAACAAGAGTCGCTACCTTTAGCTTTAATCTGTTCCACTA
TAATGCCAAAGAGATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTATTTCAAGT
CCTAACGCTAGGGAGACAAGATTCGCTGCCCTCAGCTTTAATCTGATCCGAGGCAATGCTAGGGA
AACAAGATTCGCTACCTTTAGATTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTA
CCCACAGCTTTAATCCACTCCACTTCAGCTATTTCATGTCTTAACACCAGGGAGACAAGATTCGC
TGCCCTCAGCCTTAATCTGCTCAGCTGCAAAGCTAGGGAAACAAGATCCGCTACCTTTAGCTTTA
ATCTGTTCCACTATAAAGCCAAAGAGATAGGATTCACTGCCCACAACTTTAATCCACTCCACTTC
AGCTAATTCAAGTCTTAACGCCAGGGAGACAAGATTCGCTGCCCTCAGCTTGAATCTGCTCCGCT
GCAATGCTAGGGAAACAAGATTCACTAGCTTTAGCTTTAATCTGTTCCACAGTAATGCCAA
Found at i:39562130 original size:51 final size:51
Alignment explanation
Indices: 39562028--39562130 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 51
39562018 AGTCCTAACT
* * * * *
39562028 CTAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAATG
1 CTAGGGAAACAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTACAATG
* * *
39562079 CTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATG
1 CTAGGGAAACAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTACAATG
39562130 C
1 C
39562131 CAAAGAGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (51 bp):
CTAGGGAAACAAGATTCGCTACCTTCAGCTTTAATCTGCTCCACTACAATG
Found at i:39562140 original size:169 final size:169
Alignment explanation
Indices: 39561859--39562405 Score: 853
Period size: 169 Copynumber: 3.2 Consensus size: 169
39561849 CACAGTAATG
* * * * ** ** *
39561859 CCAGGGAGATAGGATTCGCTGCCCTCAGCTTTAATTTGCTCGGCTACAACACGGGGGACACAAGA
1 CCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGA
* *
39561924 TTCGCTATCTTTAGCTTTAATCTGTTCTACTATAATGCCAAAGAGATAGGATTCGCTGCCCAGAG
66 TTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCAGAG
* *
39561989 CTTTAATCCGCTCCACTTCAGCTATTTCAAGTCCTAACT
131 CTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACA
* *
39562028 CTAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGA
1 CCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGA
39562093 TTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCAGAG
66 TTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCAGAG
* *
39562158 CTTTAATCCACTCCACTTCAGCTATTTCATGTCTTAACA
131 CTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACA
* *
39562197 CCAGGGAGATAAGATTCGCTGCCCTCAGGTTTAATTTGCTCCGCTGCAATGCTAGGGAAACAAGA
1 CCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGA
* *
39562262 TCCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAG
66 TTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCAGAG
* *
39562327 CTTTAATCCGCTTCACTTCAGCTATTTCAAGTCTTAACG
131 CTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACA
* *
39562366 CCAGGGAGACAAGATTCGCTGCCCTCTAG-TTTATTCTGCT
1 CCAGGGAGATAAGATTCGCTGCCCTC-AGCTTTAATCTGCT
39562406 TTGAGGCTTC
Statistics
Matches: 347, Mismatches: 30, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
169 345 0.99
170 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (169 bp):
CCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAATGCTAGGGAAACAAGA
TTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCAGAG
CTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAACA
Found at i:39562869 original size:16 final size:16
Alignment explanation
Indices: 39562848--39562879 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39562838 CTGTTGTTAC
*
39562848 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
39562864 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
39562880 CTTTCAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:39592361 original size:17 final size:18
Alignment explanation
Indices: 39592334--39592369 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
39592324 AGGCAGCAAT
39592334 AGAAGAAAAACATGGAGA
1 AGAAGAAAAACATGGAGA
*
39592352 AGAA-AAAAACATTGAGA
1 AGAAGAAAAACATGGAGA
39592369 A
1 A
39592370 AATGAGTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.64, C:0.06, G:0.22, T:0.08
Consensus pattern (18 bp):
AGAAGAAAAACATGGAGA
Found at i:39605387 original size:8 final size:8
Alignment explanation
Indices: 39605374--39605404 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
39605364 GTTTAAGTAA
39605374 ATTTTGGC
1 ATTTTGGC
39605382 ATTTTGGC
1 ATTTTGGC
39605390 ATTTTGGC
1 ATTTTGGC
*
39605398 ATATTGG
1 ATTTTGG
39605405 TTGAGTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.10, G:0.26, T:0.48
Consensus pattern (8 bp):
ATTTTGGC
Found at i:39622618 original size:407 final size:408
Alignment explanation
Indices: 39621841--39622656 Score: 1028
Period size: 407 Copynumber: 2.0 Consensus size: 408
39621831 AGGTAGGAAT
* * *
39621841 CTATTTTTCTCATCTAATCCCGAACTTGTGCCGTTGAGCTGGGGTAGTGATGGAGACCACCAAGA
1 CTATTTTCCTCATCTAATCACGAACTTCTGCCGTTGAGCTGGGGTAGTGATGGAGACCACCAAGA
* ** * *
39621906 AATCTCATCTTCTGGTTATGAGCATTATTTGAGATACTCTACTCCACCAATTCCAAGAGCTCACA
66 AATCTCATCGTCTGACTACGAGCATTATTAGAGATACTCTACTCCACCAATTCCAAGAGCTCACA
** * * *** *
39621971 AGAAGCAAATATAAGAATGGAACCGGCGGTGGAAGCACAAAATGGGAGTTCCTCCAATAGTCAAG
131 AGAAAAAAATATAAAAATGGAACCAGCAACGGAAGCACAAAATGGAAGTTCCTCCAATAGTCAAG
* *
39622036 AAGAAAACCGCAAAGAAGAAGGATGGTGAACCTACACAATGGCAACGTAGGTTAGGAAAAGATGT
196 AAGAAAACCACAAAGAAGAAGGATGATGAACCTACACAATGGCAACGTAGGTTAGGAAAAGATGT
* * *
39622101 GTATTACAACACGAGACTATTGGAGTCGATCAAGTCATTTAAGAAACATTTATGGCGAGCCAGGC
261 GCATTACAACACGAGACTACTAGAGTCGATCAAGTCATTTAAGAAACATTTATGGCGAGCCAGGC
* * * * * *
39622166 GGTAGAGGGCACAAAGTGGCCCAAGAGAGCGAGCAATTTATCCAAGGCCAGTGCGACTGGAAAGG
326 GGCAAAGGGCACAAAGTGGCCCAAGAGAGCGAGCAATTCATCCAAGGCCAATGCGACCGAAAAGG
*
39622231 ATGAGGAA-AAAAAGCAC
391 AAGAGGAAGAAAAAGCAC
* * * * **
39622248 CTATTTTCCTCATCTAATCATGAACTTCTGCTGTCT-AGTTGGGTTAGTGATGGAGACCACTGAG
1 CTATTTTCCTCATCTAATCACGAACTTCTGCCGT-TGAGCTGGGGTAGTGATGGAGACCACCAAG
* * * * * * * * *
39622312 CAATTTCATCGTCTGACTACGAGCATTATTAGAGATACTTTACTCCTCTAGTTCCAGGAGTTGTA
65 AAATCTCATCGTCTGACTACGAGCATTATTAGAGATACTCTACTCCACCAATTCCAAGAGCT-CA
*
39622377 CAGGAAAAAAATATAAAAATGGAACCAGCAACGGAAGCACAAAATGGAAGTTCCTCCAATAGTCA
129 CAAGAAAAAAATATAAAAATGGAACCAGCAACGGAAGCACAAAATGGAAGTTCCTCCAATAGTCA
** * * *
39622442 AGAAGAAAACCATGAAGAAGAAGGATGATGAACCTACACAAT-GCAACGTAGGTTGGGACAATAT
194 AGAAGAAAACCACAAAGAAGAAGGATGATGAACCTACACAATGGCAACGTAGGTTAGGAAAAGAT
* * *
39622506 GTGCATTACAACACGAGACTACTAGATTCGATGAAGTCGTTTATAGAAACA-TTATGGCGAGCCA
259 GTGCATTACAACACGAGACTACTAGAGTCGATCAAGTCATTTA-AGAAACATTTATGGCGAGCCA
* * * * ** * *
39622570 GGGGGCAAAGGGCATAAAGTGGCCCAAGATATCGAGTGATTCATCCAAGGGCAATGCGGCCGAAA
323 GGCGGCAAAGGGCACAAAGTGGCCCAAGAGAGCGAGCAATTCATCCAAGGCCAATGCGACCGAAA
*
39622635 AGGAAGAGGAAGAAGAAGCAC
388 AGGAAGAGGAAGAAAAAGCAC
39622656 C
1 C
39622657 CGAAGAAGAG
Statistics
Matches: 344, Mismatches: 61, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
407 232 0.67
408 112 0.33
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (408 bp):
CTATTTTCCTCATCTAATCACGAACTTCTGCCGTTGAGCTGGGGTAGTGATGGAGACCACCAAGA
AATCTCATCGTCTGACTACGAGCATTATTAGAGATACTCTACTCCACCAATTCCAAGAGCTCACA
AGAAAAAAATATAAAAATGGAACCAGCAACGGAAGCACAAAATGGAAGTTCCTCCAATAGTCAAG
AAGAAAACCACAAAGAAGAAGGATGATGAACCTACACAATGGCAACGTAGGTTAGGAAAAGATGT
GCATTACAACACGAGACTACTAGAGTCGATCAAGTCATTTAAGAAACATTTATGGCGAGCCAGGC
GGCAAAGGGCACAAAGTGGCCCAAGAGAGCGAGCAATTCATCCAAGGCCAATGCGACCGAAAAGG
AAGAGGAAGAAAAAGCAC
Found at i:39636024 original size:27 final size:27
Alignment explanation
Indices: 39635965--39636018 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
39635955 TAAATAACCA
39635965 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
39635992 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
39636019 TTATACGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACTG
Found at i:39636212 original size:26 final size:26
Alignment explanation
Indices: 39636179--39636255 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
39636169 TGGAGGAAAT
*
39636179 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGAAGCTTTGCTGCG
* * *
39636205 ATGCTGTTACT-GATAGGTTTGATGCG
1 ATACTGTTACTGGA-AGCTTTGCTGCG
* *
39636231 ATACTATTACTAGAAGCTTTGCTGC
1 ATACTGTTACTGGAAGCTTTGCTGC
39636256 AATATTAGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.02
26 38 0.93
27 2 0.05
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGAAGCTTTGCTGCG
Found at i:39643763 original size:26 final size:27
Alignment explanation
Indices: 39643732--39643815 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
39643722 AGAGGTCAGT
* *
39643732 AAATGACCAAAATACCCCTATA-GGTA
1 AAATGACCGAAATACCCCAATAGGGTA
* * *
39643758 AAATGATCGAAATACCCCCATAGGGTG
1 AAATGACCGAAATACCCCAATAGGGTA
*
39643785 AAATGACTGAAATACCCCAATAGGGTA
1 AAATGACCGAAATACCCCAATAGGGTA
39643812 AAAT
1 AAAT
39643816 AACTGTTATA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 19 0.39
27 30 0.61
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCAATAGGGTA
Found at i:39643820 original size:27 final size:27
Alignment explanation
Indices: 39643732--39643829 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
39643722 AGAGGTCAGT
** *
39643732 AAATGACCAAAATACCCCTATA-GGTA
1 AAATGACTGAAATACCCCAATAGGGTA
* *
39643758 AAATGA-TCGAAATACCCCCATAGGGTG
1 AAATGACT-GAAATACCCCAATAGGGTA
39643785 AAATGACTGAAATACCCCAATAGGGTA
1 AAATGACTGAAATACCCCAATAGGGTA
* **
39643812 AAATAACTGTTATACCCC
1 AAATGACTGAAATACCCC
39643830 TAGGAGATGA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 18 0.30
27 41 0.68
28 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.15, T:0.20
Consensus pattern (27 bp):
AAATGACTGAAATACCCCAATAGGGTA
Found at i:39645555 original size:12 final size:12
Alignment explanation
Indices: 39645532--39645566 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
39645522 TTTCCATTTT
*
39645532 TTTAAGTCAATA
1 TTTAATTCAATA
*
39645544 TTTCATTCAATA
1 TTTAATTCAATA
39645556 TTTAATTCAAT
1 TTTAATTCAAT
39645567 TCCACACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (12 bp):
TTTAATTCAATA
Found at i:39651541 original size:15 final size:16
Alignment explanation
Indices: 39651521--39651554 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
39651511 TTACTAAGCA
39651521 TTCGA-TAGTTAGAAG
1 TTCGATTAGTTAGAAG
*
39651536 TTCGATTGGTTAGAAG
1 TTCGATTAGTTAGAAG
39651552 TTC
1 TTC
39651555 ATCGGAGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.38
Consensus pattern (16 bp):
TTCGATTAGTTAGAAG
Found at i:39664743 original size:17 final size:17
Alignment explanation
Indices: 39664717--39664750 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
39664707 AGGGTCAATT
*
39664717 TACCATATAAGGCCTTC
1 TACCACATAAGGCCTTC
39664734 TACCACATAAGGCCTTC
1 TACCACATAAGGCCTTC
39664751 CAACCATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (17 bp):
TACCACATAAGGCCTTC
Found at i:39666822 original size:23 final size:23
Alignment explanation
Indices: 39666796--39666885 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
39666786 ATTAATCACT
*
39666796 TTAATATTTAAGCATAATTCAAA
1 TTAATATTTAAGCATAAATCAAA
** *
39666819 TTAATATTTTGGCATAAATCACA
1 TTAATATTTAAGCATAAATCAAA
* * * *
39666842 TTGATAATTAAGCATAAAGCACA
1 TTAATATTTAAGCATAAATCAAA
*
39666865 TTAACT-TTTAAGAATAAATCA
1 TTAA-TATTTAAGCATAAATCA
39666886 CTTTAACTTT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 52 0.98
24 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.36
Consensus pattern (23 bp):
TTAATATTTAAGCATAAATCAAA
Found at i:39666891 original size:23 final size:23
Alignment explanation
Indices: 39666849--39666898 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
39666839 ACATTGATAA
*
39666849 TTAAGCATAAAGCACATTAACTT
1 TTAAGAATAAAGCACATTAACTT
* *
39666872 TTAAGAATAAATCACTTTAACTT
1 TTAAGAATAAAGCACATTAACTT
39666895 TTAA
1 TTAA
39666899 AACATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (23 bp):
TTAAGAATAAAGCACATTAACTT
Found at i:39678854 original size:50 final size:50
Alignment explanation
Indices: 39678744--39678915 Score: 161
Period size: 50 Copynumber: 3.5 Consensus size: 50
39678734 GGGAATGAGA
* **
39678744 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
** * * *
39678794 TCCCCCGTAAGACCGTGTCTGGGACATGGCATGGGTACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* ** * * * *
39678844 TCCCATGTAAGACCATATCTGAAATATGGCATTGGCA--GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCG-AGATGAGAAC
*
39678892 ATCCCATGTAAGACTATGTCTGGG
1 -TCCCATGTAAGACCATGTCTGGG
39678916 CATAGCTTTG
Statistics
Matches: 97, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
48 4 0.04
49 23 0.24
50 70 0.72
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:39679178 original size:20 final size:20
Alignment explanation
Indices: 39679140--39679178 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39679130 TAAGCAAGCA
*
39679140 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
39679160 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
39679179 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:39685839 original size:56 final size:52
Alignment explanation
Indices: 39685761--39685953 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 52
39685751 GGGAATGAGA
*
39685761 TCCCACGTAAAACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATC---GAGA-TATGAGAGG
* * *
39685817 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG--ATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATATGAGAGG
* * * * **
39685867 TCCCCCGCAAGACCACGTCTGGGACATGGCATGGGCATC--GATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATATGAGAGG
* * *
39685917 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
39685954 GTATAGGAAA
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
50 76 0.66
53 3 0.03
56 35 0.30
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.22
Consensus pattern (52 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATATGAGAGG
Found at i:39685864 original size:50 final size:50
Alignment explanation
Indices: 39685761--39686002 Score: 200
Period size: 50 Copynumber: 4.7 Consensus size: 50
39685751 GGGAATGAGA
* * *
39685761 TCCCACGTAAAACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
*
39685817 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * * * **
39685867 TCCCCCGCAAGACCACGTCTGGGACATGGCATGGGCATCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * **
39685917 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTATAGGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
* * *
39685966 TCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
39686003 TGTTATATTC
Statistics
Matches: 155, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 78 0.50
53 3 0.02
55 1 0.01
56 34 0.22
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:39699636 original size:23 final size:23
Alignment explanation
Indices: 39699529--39699631 Score: 120
Period size: 23 Copynumber: 4.5 Consensus size: 23
39699519 GAATAACATT
* * *
39699529 AATCACTTTAATATTTAAGAACA
1 AATCACATTAATATTTAAGCATA
*
39699552 AATCACATTAATATTTAAGAATA
1 AATCACATTAATATTTAAGCATA
39699575 AATC-CAATTAATATTTAAGCATA
1 AATCAC-ATTAATATTTAAGCATA
* *
39699598 AAGCACATTAACT-TTTCAGCATA
1 AATCACATTAA-TATTTAAGCATA
39699621 AATCACATTAA
1 AATCACATTAA
39699632 CTTTTAACAC
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.01
23 68 0.96
24 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.33
Consensus pattern (23 bp):
AATCACATTAATATTTAAGCATA
Found at i:39703519 original size:154 final size:154
Alignment explanation
Indices: 39703296--39703589 Score: 471
Period size: 154 Copynumber: 1.9 Consensus size: 154
39703286 TGTGACAAAT
*
39703296 CACCCTACGCTGTTGATCGTTTGCAGGTCTACTATTAGGAGTTGGTTCTAGAACCATCTTCGTAG
1 CACCCTACGCTGTTGATCGTTTGCAGGTCTACTATTAAGAGTTGGTTCTAGAACCATCTTCGTAG
* *
39703361 GGTTTTATATATTTCCTGAAATTTCATCGAGTACTTCTTTACTCCGACGTTGGAAGTTATTCATG
66 GGTTTTATATATTTCCTGAAAGTTCATCGAGTACTTCTTTACTCCGACGTTGGAAGTCATTCATG
39703426 TAATTTCCTCTCACTGTGAAAGAG
131 TAATTTCCTCTCACTGTGAAAGAG
* * * * * *
39703450 CACCCTACGTTGTTGATTGTTTGCAGGTCTACTATTAAGAGTTGGTTTTAGAAGCATTTTCGTAT
1 CACCCTACGCTGTTGATCGTTTGCAGGTCTACTATTAAGAGTTGGTTCTAGAACCATCTTCGTAG
* * * *
39703515 GGTTTTATATATTTCCTGAAAGTTCCTCGAGTACTTCTTTACTCTGAGGTTTGAAGTCATTCATG
66 GGTTTTATATATTTCCTGAAAGTTCATCGAGTACTTCTTTACTCCGACGTTGGAAGTCATTCATG
39703580 TAATTTCCTC
131 TAATTTCCTC
39703590 AAATAAAGTA
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
154 127 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (154 bp):
CACCCTACGCTGTTGATCGTTTGCAGGTCTACTATTAAGAGTTGGTTCTAGAACCATCTTCGTAG
GGTTTTATATATTTCCTGAAAGTTCATCGAGTACTTCTTTACTCCGACGTTGGAAGTCATTCATG
TAATTTCCTCTCACTGTGAAAGAG
Found at i:39708778 original size:48 final size:48
Alignment explanation
Indices: 39708707--39708805 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
39708697 TTTTCATGTT
39708707 CTAAGCTTAAAATCTATCAATTTCAAGTCTAATTCTTCAAGAAATTAA
1 CTAAGCTTAAAATCTATCAATTTCAAGTCTAATTCTTCAAGAAATTAA
39708755 CTAAGCTTAAAATCTATCAATTTCAAGTCTAATTCTTCAAGAAATTAA
1 CTAAGCTTAAAATCTATCAATTTCAAGTCTAATTCTTCAAGAAATTAA
39708803 CTA
1 CTA
39708806 TGGCAACTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.35
Consensus pattern (48 bp):
CTAAGCTTAAAATCTATCAATTTCAAGTCTAATTCTTCAAGAAATTAA
Found at i:39710637 original size:10 final size:10
Alignment explanation
Indices: 39710617--39710679 Score: 53
Period size: 9 Copynumber: 6.6 Consensus size: 10
39710607 TTTTGATGTA
39710617 TTTTATA-AT
1 TTTTATATAT
39710626 TTTTATATAT
1 TTTTATATAT
39710636 TTTTATAT-T
1 TTTTATATAT
* *
39710645 TTTAATA-AA
1 TTTTATATAT
* *
39710654 TTTTAAATGCT
1 TTTTATAT-AT
39710665 TTTT-TATAT
1 TTTTATATAT
39710674 TTTTAT
1 TTTTAT
39710680 TAAAGTTTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
9 24 0.59
10 13 0.32
11 4 0.10
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTATATAT
Found at i:39710639 original size:19 final size:19
Alignment explanation
Indices: 39710617--39710679 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 19
39710607 TTTTGATGTA
39710617 TTTTATAATTTTTATATAT
1 TTTTATAATTTTTATATAT
*
39710636 TTTTAT-ATTTTTA-ATAAA
1 TTTTATAATTTTTATAT-AT
*
39710654 TTTTA-AATGCTTTTTTATAT
1 TTTTATAAT--TTTTATATAT
39710674 TTTTAT
1 TTTTAT
39710680 TAAAGTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 2 0.06
18 15 0.43
19 6 0.17
20 10 0.29
21 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTATATAT
Found at i:39710755 original size:32 final size:32
Alignment explanation
Indices: 39710719--39710784 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
39710709 TGATTTTTAT
39710719 TTTTTAATTTTTTGTCACATGTCACATCGTGA
1 TTTTTAATTTTTTGTCACATGTCACATCGTGA
*
39710751 TTTTTAATTTTTTGTCATATGTCACATCGTGA
1 TTTTTAATTTTTTGTCACATGTCACATCGTGA
39710783 TT
1 TT
39710785 GTGACACGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (32 bp):
TTTTTAATTTTTTGTCACATGTCACATCGTGA
Found at i:39717051 original size:14 final size:14
Alignment explanation
Indices: 39717032--39717068 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
39717022 CCCTAGCAAA
39717032 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
*
39717046 AAAAAACAAAAAAC
1 AAAAAAAAAAAAAC
39717060 AAAAGAAAA
1 AAAA-AAAA
39717069 GAAAGAAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:39718387 original size:18 final size:17
Alignment explanation
Indices: 39718361--39718396 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
39718351 TTTGGTTATA
39718361 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
39718379 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
39718396 T
1 T
39718397 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:39720560 original size:165 final size:165
Alignment explanation
Indices: 39720279--39720610 Score: 601
Period size: 165 Copynumber: 2.0 Consensus size: 165
39720269 TCCAAGGGAT
39720279 GTCATGACATGTTTTGATAAATGAATAGTATTTAACTCGTAATAACAAAAAAATTATTTGGTAAA
1 GTCATGACATGTTTTGATAAATGAATAGTATTTAACTCGTAATAACAAAAAAATTATTTGGTAAA
* *
39720344 ATTTGGTAATGTTTCATAACCTATTTCGACGACGAATACGGGTAGGGGGTATTACATTTGTTGGT
66 ATTTGGTAATGTTTCATAACCTATTTCGACGACGAATACGGATAAGGGGTATTACATTTGTTGGT
* *
39720409 ATCAGAGCTTTGATTTAGTCGGTTCTCGGATCGAC
131 ATCAGAGCTTCGATTTAGCCGGTTCTCGGATCGAC
* *
39720444 GTCATGACATGTTTTGATAAATGAATAGTATTTAACTCGTAATAACAAAATATTTATTTGGTAAA
1 GTCATGACATGTTTTGATAAATGAATAGTATTTAACTCGTAATAACAAAAAAATTATTTGGTAAA
39720509 ATTTGGTAATGTTTCATAACCTATTTCGACGACGAATACGGATAAGGGGTATTACATTTGTTGGT
66 ATTTGGTAATGTTTCATAACCTATTTCGACGACGAATACGGATAAGGGGTATTACATTTGTTGGT
*
39720574 ATCAGAGCTTCGATTTAGCCGGTTCTCTGATCGAC
131 ATCAGAGCTTCGATTTAGCCGGTTCTCGGATCGAC
39720609 GT
1 GT
39720611 AGCAAATACG
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 160 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (165 bp):
GTCATGACATGTTTTGATAAATGAATAGTATTTAACTCGTAATAACAAAAAAATTATTTGGTAAA
ATTTGGTAATGTTTCATAACCTATTTCGACGACGAATACGGATAAGGGGTATTACATTTGTTGGT
ATCAGAGCTTCGATTTAGCCGGTTCTCGGATCGAC
Found at i:39728663 original size:50 final size:49
Alignment explanation
Indices: 39728494--39728684 Score: 190
Period size: 50 Copynumber: 3.8 Consensus size: 49
39728484 CCGGTTAACA
* * *
39728494 TAGTAGCTTGCACATAGTACTACACATGTGACCATCACTATCCGATGCACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA-TATCCGGT-CATG
* * * *
39728545 TAGTAGCCTGCACATATAGTACTACACACGTGATCGAAGC-TATCTGGT-ATG
1 TAGTAGCCTGCAC--ATAGTACTACACATGTGA-C-CATCATATCCGGTCATG
*
39728596 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCAT-TCCGGTACATG
1 --TAGTAGCCTGCACATAGTACTACACATGTGACC-ATCATATCCGGT-CATG
*
39728648 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATCA
39728685 CTTTCACTTT
Statistics
Matches: 116, Mismatches: 14, Indels: 22
0.76 0.09 0.14
Matches are distributed among these distances:
49 4 0.03
50 39 0.34
51 31 0.27
52 3 0.03
53 36 0.31
54 1 0.01
55 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATCATATCCGGTCATG
Found at i:39748744 original size:38 final size:39
Alignment explanation
Indices: 39748696--39748811 Score: 164
Period size: 38 Copynumber: 3.0 Consensus size: 39
39748686 TATTATAGTT
*
39748696 TGAGTCTTTAATTATGTCATAATTTGAACATTATTAATA
1 TGAGTATTTAATTATGTCATAATTTGAACATTATTAATA
*
39748735 TGAGT-TTTAATTATATCATAATTTGAACATTATTAATA
1 TGAGTATTTAATTATGTCATAATTTGAACATTATTAATA
* * *
39748773 TGGGTATTTAATTATGTCATAGTTCGAACATGT-TTAATA
1 TGAGTATTTAATTATGTCATAATTTGAACAT-TATTAATA
39748812 CTTGTTTTCA
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
38 36 0.51
39 33 0.47
40 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (39 bp):
TGAGTATTTAATTATGTCATAATTTGAACATTATTAATA
Found at i:39756425 original size:24 final size:24
Alignment explanation
Indices: 39756398--39756445 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
39756388 ACTCTGTCAG
39756398 TTGTCATGGTCGAGTTATAGTCTT
1 TTGTCATGGTCGAGTTATAGTCTT
* *
39756422 TTGTCATTGTTGAGTTATAGTCTT
1 TTGTCATGGTCGAGTTATAGTCTT
39756446 ACACCCTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.10, G:0.23, T:0.50
Consensus pattern (24 bp):
TTGTCATGGTCGAGTTATAGTCTT
Found at i:39762943 original size:25 final size:25
Alignment explanation
Indices: 39762909--39762993 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
39762899 TCCTATACAT
39762909 GTATGCTCATACTAGCTCTGAATCG
1 GTATGCTCATACTAGCTCTGAATCG
*
39762934 GTATGCTCATATTAGCTCTGAATCG
1 GTATGCTCATACTAGCTCTGAATCG
* * * *
39762959 GTATGCTCTTACGAGCTAT-AAACG
1 GTATGCTCATACTAGCTCTGAATCG
*
39762983 GTAAGCTCATA
1 GTATGCTCATA
39762994 TGATCTGAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 13 0.25
25 39 0.75
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (25 bp):
GTATGCTCATACTAGCTCTGAATCG
Found at i:39764721 original size:30 final size:31
Alignment explanation
Indices: 39764682--39764741 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
39764672 GGAGGTGGGA
*
39764682 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
39764713 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
39764742 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:39764876 original size:30 final size:31
Alignment explanation
Indices: 39764816--39764876 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
39764806 GGGTTGGGAG
*
39764816 GGGAGAGGAGTAAAAGTTTTAGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTAGGGGAAAAGT
39764847 GGGA-AGGAGTAAAAGTTTT-GAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTAG-GGGAAAAGT
39764877 AAAAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 1 0.04
30 23 0.82
31 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTAGGGGAAAAGT
Found at i:39764939 original size:9 final size:9
Alignment explanation
Indices: 39764925--39764961 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
39764915 TATAGTTTGA
39764925 TATTCGAAT
1 TATTCGAAT
39764934 TATTCGAAT
1 TATTCGAAT
*
39764943 TATTCGAGT
1 TATTCGAAT
39764952 TATTCGAAT
1 TATTCGAAT
39764961 T
1 T
39764962 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:39765032 original size:9 final size:9
Alignment explanation
Indices: 39765015--39765045 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
39765005 TCGAGTTGAT
39765015 TCGAATAAC
1 TCGAATAAC
*
39765024 TCGATTAAC
1 TCGAATAAC
39765033 TCGAATAAC
1 TCGAATAAC
39765042 TCGA
1 TCGA
39765046 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:39773180 original size:28 final size:28
Alignment explanation
Indices: 39773148--39773294 Score: 154
Period size: 28 Copynumber: 5.3 Consensus size: 28
39773138 AGGAAAAAAA
* *
39773148 AAGCCTTTGTAGCGATCTAAGAAAAAGG
1 AAGCCTTTGTGGCGATCTATGAAAAAGG
*
39773176 GAGCCTTTGTGGCGATCTATGAAAAATGG
1 AAGCCTTTGTGGCGATCTATGAAAAA-GG
* * *
39773205 --GCCTTTGTGGTGACCTATAAAAAAGG
1 AAGCCTTTGTGGCGATCTATGAAAAAGG
* * * *
39773231 AAGCGTTTGTGGCAACCTATGAAAACGG
1 AAGCCTTTGTGGCGATCTATGAAAAAGG
* * *
39773259 AAGCCTTTGTGGCAATCTATGAAAACGA
1 AAGCCTTTGTGGCGATCTATGAAAAAGG
39773287 AAGCCTTT
1 AAGCCTTT
39773295 TATGGTGATT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.02
27 21 0.21
28 77 0.75
29 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (28 bp):
AAGCCTTTGTGGCGATCTATGAAAAAGG
Found at i:39778995 original size:22 final size:22
Alignment explanation
Indices: 39778967--39779051 Score: 125
Period size: 22 Copynumber: 3.9 Consensus size: 22
39778957 ATTTTTTTCG
39778967 ATGAGAGCTTAGTACGTTAGCC
1 ATGAGAGCTTAGTACGTTAGCC
39778989 ATGAGAGCTTAGTACGTTAGCC
1 ATGAGAGCTTAGTACGTTAGCC
* * * **
39779011 ATGAGGGTTTAGTTCGTTAAAC
1 ATGAGAGCTTAGTACGTTAGCC
39779033 ATGAGAGCTTAGTACGTTA
1 ATGAGAGCTTAGTACGTTA
39779052 AACCTCGTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (22 bp):
ATGAGAGCTTAGTACGTTAGCC
Found at i:39780168 original size:29 final size:29
Alignment explanation
Indices: 39780135--39780519 Score: 276
Period size: 29 Copynumber: 13.2 Consensus size: 29
39780125 GCACCGATTA
* *
39780135 ATGAAAAAGGATGGTGACGACCATTGAAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
* * *** * *
39780164 ATGAAAATGAATGGTTTTGACTATCGACT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
*
39780193 ATGAAAAGGGATGGTGACGGCCATC-AACT
1 ATGAAAAGGGATGGTGACGACCATCGAA-T
*
39780222 ATGAAAAGGGATGGTGATGACCGA-CGAAT
1 ATGAAAAGGGATGGTGACGACC-ATCGAAT
* *** * *
39780251 ATGAAAAGGGATAGTTTTGACTATCGACT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
*
39780280 ATGAAAAGGGATGGTGACGACCATTGAAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
* *** * *
39780309 ATGAAAAGGGATAGTTTTGACTATCGACT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
* * *
39780338 ATGAAAAGGGATAGTGATGACCATCAAAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
* ** * *
39780367 AT-AAAATGGGATAGCT-TTGACTATCGACT
1 ATGAAAA-GGGAT-GGTGACGACCATCGAAT
* *
39780396 ATGAAAAGGGATGGCGATGACCATC-AACT
1 ATGAAAAGGGATGGTGACGACCATCGAA-T
* * * *
39780425 ATGAAAACGGATTGTGATGACCATCGATT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
* ** **
39780454 AATGAAAAGGGCTGGTTTCGATTATCGAAT
1 -ATGAAAAGGGATGGTGACGACCATCGAAT
* *
39780484 ATGAAAAGGGATGGTGACGAACAACGAAT
1 ATGAAAAGGGATGGTGACGACCATCGAAT
39780513 ATGAAAA
1 ATGAAAA
39780520 TGAATGGTTT
Statistics
Matches: 273, Mismatches: 72, Indels: 22
0.74 0.20 0.06
Matches are distributed among these distances:
28 8 0.03
29 236 0.86
30 29 0.11
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCGAAT
Found at i:39780236 original size:58 final size:58
Alignment explanation
Indices: 39780135--39780519 Score: 321
Period size: 58 Copynumber: 6.6 Consensus size: 58
39780125 GCACCGATTA
* * * * * * ** * *
39780135 ATGAAAAAGGATGGTGACGACCATTGAATATGAAAATGAATGGTTTTGACTATCGACT
1 ATGAAAAGGGATGGTGATGACCATCGACTATGAAAAGGGATGGTGATGACCATCGAAT
* * *
39780193 ATGAAAAGGGATGGTGACGGCCATCAACTATGAAAAGGGATGGTGATGACCGA-CGAAT
1 ATGAAAAGGGATGGTGATGACCATCGACTATGAAAAGGGATGGTGATGACC-ATCGAAT
* ** * * *
39780251 ATGAAAAGGGATAGTTTTGACTATCGACTATGAAAAGGGATGGTGACGACCATTGAAT
1 ATGAAAAGGGATGGTGATGACCATCGACTATGAAAAGGGATGGTGATGACCATCGAAT
* ** * * *
39780309 ATGAAAAGGGATAGTTTTGACTATCGACTATGAAAAGGGATAGTGATGACCATCAAAT
1 ATGAAAAGGGATGGTGATGACCATCGACTATGAAAAGGGATGGTGATGACCATCGAAT
* * * *
39780367 AT-AAAATGGGATAGCT-TTGACTATCGACTATGAAAAGGGATGGCGATGACCATC-AACT
1 ATGAAAA-GGGAT-GGTGATGACCATCGACTATGAAAAGGGATGGTGATGACCATCGAA-T
* * * * * **
39780425 ATGAAAACGGATTGTGATGACCATCGATTAATGAAAAGGGCTGGT-TTCGATTATCGAAT
1 ATGAAAAGGGATGGTGATGACCATCGACT-ATGAAAAGGGATGGTGAT-GACCATCGAAT
* * * *
39780484 ATGAAAAGGGATGGTGACGAACAACGAATATGAAAA
1 ATGAAAAGGGATGGTGATGACCATCGACTATGAAAA
39780520 TGAATGGTTT
Statistics
Matches: 272, Mismatches: 45, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
57 8 0.03
58 214 0.79
59 48 0.18
60 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (58 bp):
ATGAAAAGGGATGGTGATGACCATCGACTATGAAAAGGGATGGTGATGACCATCGAAT
Found at i:39780281 original size:87 final size:86
Alignment explanation
Indices: 39780135--39780519 Score: 319
Period size: 87 Copynumber: 4.4 Consensus size: 86
39780125 GCACCGATTA
* * * * * * ** *
39780135 ATGAAAAAGGATGGTGACGACCATTGAATATGAAAATGAATGGTTTTGACTATCGACTATGAAAA
1 ATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGGGATAGTGATGACCATCGACTATGAAAA
*
39780200 GGGATGGTGACGGCCATCAACT
66 GGGATGGTGACGACCATCAA-T
** *
39780222 ATGAAAAGGGATGGTGATGACCGA-CGAATATGAAAAGGGATAGTTTTGACTATCGACTATGAAA
1 ATGAAAAGGGATGGTGATGACC-ATCGAATATGAAAAGGGATAGTGATGACCATCGACTATGAAA
*
39780286 AGGGATGGTGACGACCATTGAAT
65 AGGGATGGTGACGACCA-TCAAT
* ** * * * *
39780309 ATGAAAAGGGATAGTTTTGACTATCGACTATGAAAAGGGATAGTGATGACCATCAAATAT-AAAA
1 ATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGGGATAGTGATGACCATCGACTATGAAAA
* ** * *
39780373 TGGGATAGCT-TTGACTATCGACT
66 -GGGAT-GGTGACGACCATC-AAT
* * * *
39780396 ATGAAAAGGGATGGCGATGACCATC-AACTATGAAAACGGATTGTGATGACCATCGATTAATGAA
1 ATGAAAAGGGATGGTGATGACCATCGAA-TATGAAAAGGGATAGTGATGACCATCGACT-ATGAA
* ** **
39780460 AAGGGCTGGTTTCGATTATCGAAT
64 AAGGGATGGTGACGACCATC-AAT
* * *
39780484 ATGAAAAGGGATGGTGACGAACAACGAATATGAAAA
1 ATGAAAAGGGATGGTGATGACCATCGAATATGAAAA
39780520 TGAATGGTTT
Statistics
Matches: 244, Mismatches: 43, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
86 7 0.03
87 180 0.74
88 51 0.21
89 6 0.02
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (86 bp):
ATGAAAAGGGATGGTGATGACCATCGAATATGAAAAGGGATAGTGATGACCATCGACTATGAAAA
GGGATGGTGACGACCATCAAT
Found at i:39784561 original size:17 final size:18
Alignment explanation
Indices: 39784531--39784564 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
39784521 AGCAACTCAT
39784531 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
39784549 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
39784565 ACTCAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:39787953 original size:29 final size:28
Alignment explanation
Indices: 39787920--39788031 Score: 134
Period size: 29 Copynumber: 3.9 Consensus size: 28
39787910 CCATAGATTA
39787920 ATGAAAAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCAA-T
* *
39787949 ATGAAAAGGGATGGCGACGACCATCGATT
1 ATGAAAAGGGATGGTGACGACCATC-AAT
***
39787978 AATGAAAAGGGATGGTTTTGACCATCGAAT
1 -ATGAAAAGGGATGGTGACGACCATC-AAT
*
39788008 ATGAAAAGGGATGGTGATGACCAT
1 ATGAAAAGGGATGGTGACGACCAT
39788032 TGTTTAGTAC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
29 47 0.65
30 25 0.35
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (28 bp):
ATGAAAAGGGATGGTGACGACCATCAAT
Found at i:39788001 original size:59 final size:59
Alignment explanation
Indices: 39787909--39788031 Score: 176
Period size: 59 Copynumber: 2.1 Consensus size: 59
39787899 AATAACATTA
39787909 ACCATAGATTAATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAGGGATGGCGACG
1 ACCATAGATTAATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGGCGACG
* *** * *
39787968 ACCATCGATTAATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAGGGATGGTGATG
1 ACCATAGATTAATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGCGACG
39788027 ACCAT
1 ACCAT
39788032 TGTTTAGTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 55 0.96
60 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (59 bp):
ACCATAGATTAATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGCGACG
Found at i:39793493 original size:40 final size:40
Alignment explanation
Indices: 39793404--39793516 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
39793394 AATTCATGAT
* * * * *
39793404 TACCAAAGTACAAATAGGGGCATGTACGTGCTTTTAGGGA
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGA
* * *
39793444 TGCCAAAGTACAAACAGGGGCACATATGTGCATTCAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGA
* *
39793484 TACCGAAGTACAAACAGGGGCACGTATCTGCAT
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAT
39793517 CCATTGAATA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.20
Consensus pattern (40 bp):
TACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGA
Found at i:39796839 original size:16 final size:18
Alignment explanation
Indices: 39796805--39796859 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 18
39796795 CAAAAGAAGA
39796805 TTTAGAGGTTTTAAGGAT
1 TTTAGAGGTTTTAAGGAT
39796823 TTTAG-GGTTTT-AGGAT
1 TTTAGAGGTTTTAAGGAT
39796839 TTTA-AGAG-TTTAGAGGAT
1 TTTAGAG-GTTTTA-AGGAT
39796857 TTT
1 TTT
39796860 GAAAGAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 13 0.39
17 7 0.21
18 13 0.39
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (18 bp):
TTTAGAGGTTTTAAGGAT
Found at i:39807570 original size:44 final size:44
Alignment explanation
Indices: 39807507--39807595 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
39807497 CTTGTAACGC
*
39807507 ATAGGTTTTGGCAAGTGTACACAGTCGTTATCAAGTAATAAGTA
1 ATAGGTTTTGGCAAGTGTACACAGTCGTTATCAACTAATAAGTA
39807551 ATAGG-TTTGTGCAAGTGTACACAGTCGTTATCAACTAATAAGTA
1 ATAGGTTTTG-GCAAGTGTACACAGTCGTTATCAACTAATAAGTA
39807595 A
1 A
39807596 GTATCGAGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 4 0.09
44 39 0.91
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (44 bp):
ATAGGTTTTGGCAAGTGTACACAGTCGTTATCAACTAATAAGTA
Found at i:39813322 original size:27 final size:27
Alignment explanation
Indices: 39813305--39813423 Score: 161
Period size: 27 Copynumber: 4.4 Consensus size: 27
39813295 GGGTATAACA
*
39813305 ATCATTTTACCCAATAGGGGTATTTCG
1 ATCATTTTACCCTATAGGGGTATTTCG
* *
39813332 GTCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATAGGGGTATTTCG
39813359 ATCATTTTACCCTATAGGGGTA-TTCTG
1 ATCATTTTACCCTATAGGGGTATTTC-G
*
39813386 GTCATTTTACCCTAT-GCGGGTATTTCG
1 ATCATTTTACCCTATAG-GGGTATTTCG
*
39813413 GTCATTTTACC
1 ATCATTTTACC
39813424 TATTTTAGGG
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
26 4 0.05
27 76 0.92
28 3 0.04
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.40
Consensus pattern (27 bp):
ATCATTTTACCCTATAGGGGTATTTCG
Found at i:39813409 original size:54 final size:54
Alignment explanation
Indices: 39813305--39813423 Score: 195
Period size: 54 Copynumber: 2.2 Consensus size: 54
39813295 GGGTATAACA
*
39813305 ATCATTTTACCCAATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCAATAGGGGTATTTCGGTCATTTTACCCTATGCGGGTATTTCG
*
39813359 ATCATTTTACCCTATAGGGGTA-TTCTGGTCATTTTACCCTATGCGGGTATTTCG
1 ATCATTTTACCCAATAGGGGTATTTC-GGTCATTTTACCCTATGCGGGTATTTCG
*
39813413 GTCATTTTACC
1 ATCATTTTACC
39813424 TATTTTAGGG
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 3 0.05
54 58 0.95
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.40
Consensus pattern (54 bp):
ATCATTTTACCCAATAGGGGTATTTCGGTCATTTTACCCTATGCGGGTATTTCG
Found at i:39827522 original size:38 final size:39
Alignment explanation
Indices: 39827417--39827562 Score: 131
Period size: 38 Copynumber: 3.8 Consensus size: 39
39827407 TAAACACATG
* * * **
39827417 TATTAAAGATG-TCTAAACTAGGACAT-ATTTAAAACATA
1 TATTAAAGATGTTC-AAATTATGACATAATTAAAAACCCA
* * *
39827455 TATTTAAA-ATGTCCTAAACTATGACATAATTAAAAACCCT
1 TA-TTAAAGATGTTC-AAATTATGACATAATTAAAAACCCA
* *
39827495 TATTAAAGATG-TCAGATTATGACATAATT-AAAACTCA
1 TATTAAAGATGTTCAAATTATGACATAATTAAAAACCCA
*
39827532 TATTAATGATGTTCAAATTATGACATAATTA
1 TATTAAAGATGTTCAAATTATGACATAATTA
39827563 TAGATTTAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
37 16 0.18
38 36 0.40
39 24 0.27
40 13 0.15
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (39 bp):
TATTAAAGATGTTCAAATTATGACATAATTAAAAACCCA
Found at i:39830107 original size:112 final size:112
Alignment explanation
Indices: 39829910--39830138 Score: 386
Period size: 112 Copynumber: 2.0 Consensus size: 112
39829900 GCATAACCAA
* * *
39829910 CCACTCGTACAAACCGTGCTTTGTCTTAAATTTCATTTTCCACTAATCTCCTTCTCGCATTCATA
1 CCACTCGTACAAACCGTGCTTTGTATTAAATGTCATTTTCCACTAATCTCCTTCTCGCATTCAGA
* *
39829975 TCTGGTGATAACCACTTTTGAGATCTATTTTGGAGAAGAGTTGGGCT
66 CCTGGTGATAACCACTTTTGAGATCTATTTCGGAGAAGAGTTGGGCT
* * *
39830022 CCACTCGTACAAACTGTGCTTTGTATTAAATGTCGTTTTCCACTAATCTCCTTCTCGCATTCGGA
1 CCACTCGTACAAACCGTGCTTTGTATTAAATGTCATTTTCCACTAATCTCCTTCTCGCATTCAGA
39830087 CCTGGTGATAACCACTTTTGAGATCTATTTCGGAGAAGAGTTGGGCT
66 CCTGGTGATAACCACTTTTGAGATCTATTTCGGAGAAGAGTTGGGCT
39830134 CCACT
1 CCACT
39830139 TAGTTTATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 109 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (112 bp):
CCACTCGTACAAACCGTGCTTTGTATTAAATGTCATTTTCCACTAATCTCCTTCTCGCATTCAGA
CCTGGTGATAACCACTTTTGAGATCTATTTCGGAGAAGAGTTGGGCT
Found at i:39833963 original size:38 final size:39
Alignment explanation
Indices: 39833916--39834004 Score: 121
Period size: 38 Copynumber: 2.3 Consensus size: 39
39833906 TGTCCTAAAC
* *
39833916 TATGACATAATTAAAAACCCTTATTAAA-GATG-TCATAT
1 TATGACATAATTAAAAACCCATA-TAAATGATGTTCAAAT
*
39833954 TATGACATAATT-AAAACTCATATAAATGATGTTCAAAT
1 TATGACATAATTAAAAACCCATATAAATGATGTTCAAAT
39833992 TATGACATAATTA
1 TATGACATAATTA
39834005 TAGACTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
36 4 0.09
37 12 0.27
38 29 0.64
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (39 bp):
TATGACATAATTAAAAACCCATATAAATGATGTTCAAAT
Found at i:39837735 original size:17 final size:17
Alignment explanation
Indices: 39837713--39837745 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
39837703 GAATGTCTAT
39837713 TTTTGT-TGTGAAGCCTG
1 TTTTGTATGTG-AGCCTG
39837730 TTTTGTATGTGAGCCT
1 TTTTGTATGTGAGCCT
39837746 ATGATTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.12, C:0.12, G:0.27, T:0.48
Consensus pattern (17 bp):
TTTTGTATGTGAGCCTG
Found at i:39841469 original size:17 final size:17
Alignment explanation
Indices: 39841449--39841483 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
39841439 TGATTCAATA
*
39841449 TCTAGCGTTTCTTGGTT
1 TCTAGAGTTTCTTGGTT
*
39841466 TCTAGAGTTTCTTTGTT
1 TCTAGAGTTTCTTGGTT
39841483 T
1 T
39841484 AGGCCTAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.14, G:0.20, T:0.57
Consensus pattern (17 bp):
TCTAGAGTTTCTTGGTT
Found at i:39851365 original size:21 final size:21
Alignment explanation
Indices: 39851280--39851368 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 21
39851270 TAGCCACACG
39851280 ACGCTGGTTCCCTCTGCTGCT
1 ACGCTGGTTCCCTCTGCTGCT
* * *
39851301 ACACTGCTCTCTGCTCTTTGCT-CT
1 ACGCTGGT-TC--C-CTCTGCTGCT
** * *
39851325 TTGCTGGTTCCCTATTCTGCT
1 ACGCTGGTTCCCTCTGCTGCT
*
39851346 ACGCTGGTTCTCTCTGCTGCT
1 ACGCTGGTTCCCTCTGCTGCT
39851367 AC
1 AC
39851369 ACTACTCTCT
Statistics
Matches: 49, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
20 5 0.10
21 27 0.55
22 2 0.04
23 2 0.04
24 7 0.14
25 6 0.12
ACGTcount: A:0.07, C:0.35, G:0.19, T:0.39
Consensus pattern (21 bp):
ACGCTGGTTCCCTCTGCTGCT
Found at i:39853804 original size:72 final size:72
Alignment explanation
Indices: 39853687--39853850 Score: 240
Period size: 72 Copynumber: 2.3 Consensus size: 72
39853677 CGAAGTATGT
* * * * *
39853687 TTTTATCAATAGTTATTTATGTTTAGTTTTTAGATATTGAATTTATGTTCTACTTATTTATGT-G
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTT-TGTAC
39853751 TAAACTAG
65 TAAACTAG
* *
39853759 TTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCCACTTATTTTTTACT
1 TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTTTGTACT
*
39853824 AAATTAG
66 AAACTAG
39853831 TTTTATTAATAGTTGTTTAT
1 TTTTATTAATAGTTGTTTAT
39853851 ATGTGATTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
71 2 0.02
72 81 0.98
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.56
Consensus pattern (72 bp):
TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTTTGTACT
AAACTAG
Found at i:39855938 original size:13 final size:13
Alignment explanation
Indices: 39855923--39855983 Score: 79
Period size: 13 Copynumber: 4.7 Consensus size: 13
39855913 CTCAAAATTC
*
39855923 TCAAAAGCACTTC
1 TCAAAAGCACTTT
*
39855936 TCAAAAACACTTT
1 TCAAAAGCACTTT
*
39855949 TCCACAA-CACTTT
1 T-CAAAAGCACTTT
39855962 TCAAAAGCACTTT
1 TCAAAAGCACTTT
39855975 TCAAAAGCA
1 TCAAAAGCA
39855984 ATGAAGAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
12 4 0.10
13 34 0.81
14 4 0.10
ACGTcount: A:0.41, C:0.28, G:0.05, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTT
Found at i:39858620 original size:35 final size:35
Alignment explanation
Indices: 39858568--39858741 Score: 242
Period size: 35 Copynumber: 5.0 Consensus size: 35
39858558 CATTACAAAT
*
39858568 TTGCCTTAGATGAGTCTATCCCAACCTTTTTAAGG
1 TTGCCTTAGATGAGTCTATCCCAACCCTTTTAAGG
* *
39858603 TTGCCTTAGACGTGTCTATCCCAACCCTTTTAAGG
1 TTGCCTTAGATGAGTCTATCCCAACCCTTTTAAGG
* *
39858638 TTGACTTAGATGAGTCTATCCCAACCCTTTTCAGG
1 TTGCCTTAGATGAGTCTATCCCAACCCTTTTAAGG
* *
39858673 TTGACTTAGATGAGTCTATCCCAACCCTTCTAAGG
1 TTGCCTTAGATGAGTCTATCCCAACCCTTTTAAGG
* * *
39858708 TTGCCTTAGACG-GGCTTATCCCAACACTTTTAAG
1 TTGCCTTAGATGAGTC-TATCCCAACCCTTTTAAG
39858742 ATCACTTTTG
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
34 2 0.02
35 122 0.98
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (35 bp):
TTGCCTTAGATGAGTCTATCCCAACCCTTTTAAGG
Found at i:39859469 original size:35 final size:36
Alignment explanation
Indices: 39859375--39859475 Score: 163
Period size: 35 Copynumber: 2.9 Consensus size: 36
39859365 TGCCTTAAAT
* *
39859375 GGGTCAATCCCAACCTTTTTAAGGGT-ACCTTAGAC
1 GGGTCTATCCCAACCTTTTTAAGGTTGACCTTAGAC
39859410 GGGTCTATCCCAACCTTTTTAAGGTTGA-CTTAGAC
1 GGGTCTATCCCAACCTTTTTAAGGTTGACCTTAGAC
39859445 GGGTCTATCCCAACCTTTTTAAGGTTG-CCTT
1 GGGTCTATCCCAACCTTTTTAAGGTTGACCTT
39859476 TGATTGGGGC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
35 61 0.98
36 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (36 bp):
GGGTCTATCCCAACCTTTTTAAGGTTGACCTTAGAC
Found at i:39861282 original size:21 final size:21
Alignment explanation
Indices: 39861224--39861283 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
39861214 TAATGATAAA
*
39861224 TTTAGTAGTTAATATTTATATT
1 TTTATTAGTTAA-ATTTATATT
* * ** *
39861246 TTTATCAATTTGATTTTTATT
1 TTTATTAGTTAAATTTATATT
39861267 TTTATTAGTTAAATTTA
1 TTTATTAGTTAAATTTA
39861284 GTTGTTACTC
Statistics
Matches: 27, Mismatches: 11, Indels: 1
0.69 0.28 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.62
Consensus pattern (21 bp):
TTTATTAGTTAAATTTATATT
Found at i:39862745 original size:28 final size:30
Alignment explanation
Indices: 39862680--39862746 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
39862670 TGTGTGTTTT
* * **
39862680 TATTATTAAATCTTAATTTCTAAATAATGG
1 TATTATTTATTCTTAATTTCTAAATAATAA
39862710 TATT-TTTATTCTT-ATTTCTAAA-AATAA
1 TATTATTTATTCTTAATTTCTAAATAATAA
39862737 TATTATTTAT
1 TATTATTTAT
39862747 CAAGAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 7 0.22
28 14 0.44
29 7 0.22
30 4 0.12
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (30 bp):
TATTATTTATTCTTAATTTCTAAATAATAA
Found at i:39866689 original size:11 final size:12
Alignment explanation
Indices: 39866673--39866705 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
39866663 AATCCAAAAT
39866673 TTTTCAAATA-A
1 TTTTCAAATATA
39866684 TTTTCAAA-ATA
1 TTTTCAAATATA
39866695 TTTTCAAATAT
1 TTTTCAAATAT
39866706 CCTTGTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 17 0.85
12 2 0.10
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTTCAAATATA
Found at i:39866724 original size:2 final size:2
Alignment explanation
Indices: 39866717--39866754 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
39866707 CTTGTTTGAA
39866717 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39866755 GAGTTCAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39867527 original size:13 final size:13
Alignment explanation
Indices: 39867509--39867534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39867499 CTGTCAATGA
39867509 ATAAATGAACCAG
1 ATAAATGAACCAG
39867522 ATAAATGAACCAG
1 ATAAATGAACCAG
39867535 CAATCTATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (13 bp):
ATAAATGAACCAG
Found at i:39873622 original size:50 final size:50
Alignment explanation
Indices: 39873546--39873730 Score: 289
Period size: 50 Copynumber: 3.7 Consensus size: 50
39873536 ATTTGGGTAA
* * *
39873546 AGAGGTCCCATGTAAGACCATTTCTGGGACATGGCGTTGGCACCAAAATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
39873596 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
39873646 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
**
39873696 AGAACATCCCATGTAAGACCATGTCTGGGACATGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
39873731 ATTTGGCATG
Statistics
Matches: 124, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 94 0.76
51 30 0.24
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:39882571 original size:22 final size:22
Alignment explanation
Indices: 39882546--39882590 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
39882536 AGTCTTGAAA
39882546 ACAAATGCTAAACGATGAATCC
1 ACAAATGCTAAACGATGAATCC
*
39882568 ACAAATGCTAAATGATGAATCC
1 ACAAATGCTAAACGATGAATCC
39882590 A
1 A
39882591 ACTCACTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (22 bp):
ACAAATGCTAAACGATGAATCC
Found at i:39888196 original size:59 final size:54
Alignment explanation
Indices: 39888065--39888197 Score: 142
Period size: 54 Copynumber: 2.4 Consensus size: 54
39888055 ATACAGCGGG
* * * *
39888065 ATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCAAAGAGTATTGTCGGG
1 ATTACCAGTCCAGGCTAAATCCCCTGCAATACAAACTCAAAGAGTATGGTCGGA
* * *
39888119 ATTACCAATCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCT-TGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGCAAT-ACAA--ACTC-AAAGAG-TATGG-TCGGA
39888178 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
39888198 TCAAACCTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
54 28 0.43
55 3 0.05
57 4 0.06
58 7 0.11
59 23 0.35
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (54 bp):
ATTACCAGTCCAGGCTAAATCCCCTGCAATACAAACTCAAAGAGTATGGTCGGA
Found at i:39895760 original size:2 final size:2
Alignment explanation
Indices: 39895755--39895782 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
39895745 AATGCATTAA
39895755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39895783 CTAAAATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39896919 original size:29 final size:28
Alignment explanation
Indices: 39896876--39896942 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
39896866 TGTGTGTTTT
* * * *
39896876 TATTATTAAATCTTAATTTGTAAATAATGA
1 TATTATTTATTCTT-ATTTCTAAA-AATAA
39896906 TATT-TTTATTCTTATTTCTAAAAATAA
1 TATTATTTATTCTTATTTCTAAAAATAA
39896933 TATTATTTAT
1 TATTATTTAT
39896943 CAAGAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 8 0.25
28 13 0.41
29 7 0.22
30 4 0.12
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (28 bp):
TATTATTTATTCTTATTTCTAAAAATAA
Found at i:39898852 original size:28 final size:28
Alignment explanation
Indices: 39898821--39898907 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 28
39898811 AGTAATCCTA
*
39898821 AACCCTTAAACCTTAAACCTAAACCTCG
1 AACCCTTAAACCTTAAACCTAAAACTCG
** * * *
39898849 AACCCTTGGACCTTGAACCCAAAACTTG
1 AACCCTTAAACCTTAAACCTAAAACTCG
*
39898877 AACCC--AAACCTTAAACCTTAAA-TCCG
1 AACCCTTAAACCTTAAACCTAAAACT-CG
39898903 AACCC
1 AACCC
39898908 AAACCCTGAA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
25 1 0.02
26 18 0.39
28 27 0.59
ACGTcount: A:0.38, C:0.36, G:0.07, T:0.20
Consensus pattern (28 bp):
AACCCTTAAACCTTAAACCTAAAACTCG
Found at i:39898893 original size:13 final size:13
Alignment explanation
Indices: 39898858--39898919 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
39898848 GAACCCTTGG
39898858 ACCTTGAACCCAA
1 ACCTTGAACCCAA
*
39898871 AACTTGAACCCAA
1 ACCTTGAACCCAA
* *
39898884 ACCTTAAACCTTAA
1 ACCTTGAACC-CAA
39898898 ATCC--GAACCCAA
1 A-CCTTGAACCCAA
*
39898910 ACCCTGAACC
1 ACCTTGAACC
39898920 TCAGAGTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 2 0.05
12 3 0.08
13 29 0.74
14 3 0.08
15 2 0.05
ACGTcount: A:0.40, C:0.37, G:0.06, T:0.16
Consensus pattern (13 bp):
ACCTTGAACCCAA
Found at i:39900373 original size:17 final size:17
Alignment explanation
Indices: 39900331--39900373 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 17
39900321 TAGGAAAGGG
39900331 GTTACAAGAAGATGAAAT
1 GTTA-AAGAAGATGAAAT
39900349 GTTTAAAGAAGATGAAAT
1 G-TTAAAGAAGATGAAAT
39900367 GTTAAAG
1 GTTAAAG
39900374 GTTAAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 15 0.62
19 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.26
Consensus pattern (17 bp):
GTTAAAGAAGATGAAAT
Found at i:39900378 original size:24 final size:24
Alignment explanation
Indices: 39900351--39900400 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
39900341 GATGAAATGT
* *
39900351 TTAAAGAAGATGAAATGTTAAAGG
1 TTAAAGAAGATGAAAGGTGAAAGG
*
39900375 TTAAATAAGATGAAAGGTGAAAGG
1 TTAAAGAAGATGAAAGGTGAAAGG
39900399 TT
1 TT
39900401 GAACATCCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (24 bp):
TTAAAGAAGATGAAAGGTGAAAGG
Found at i:39912334 original size:33 final size:34
Alignment explanation
Indices: 39912282--39912357 Score: 100
Period size: 33 Copynumber: 2.2 Consensus size: 34
39912272 AAATTTAATA
* * *
39912282 TAAATATAAGTAGTTCCTTAAC-AAACTTTCAAG
1 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
39912315 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
1 TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
*
39912349 CATAACATA
1 TA-AACATA
39912358 TTAGGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 19 0.51
34 12 0.32
35 6 0.16
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (34 bp):
TAAACATAAGTAATCCCTTAACAAAACTTTCAAG
Found at i:39912809 original size:24 final size:24
Alignment explanation
Indices: 39912775--39912829 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
39912765 AAGAACATGA
39912775 AAGGTTTAAGGAAGATGAAAGGTGG
1 AAGG-TTAAGGAAGATGAAAGGTGG
* *
39912800 AAGGTTAAGGGAGATTAAAGGTGG
1 AAGGTTAAGGAAGATGAAAGGTGG
39912824 AAGGTT
1 AAGGTT
39912830 GAACATCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (24 bp):
AAGGTTAAGGAAGATGAAAGGTGG
Found at i:39914781 original size:14 final size:14
Alignment explanation
Indices: 39914760--39914798 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
39914750 GAAAATGTAG
39914760 ATTT-CAAAATGGT
1 ATTTCCAAAATGGT
39914773 ATTTCCAAAATGGT
1 ATTTCCAAAATGGT
39914787 ATTTCCAAAATG
1 ATTTCCAAAATG
39914799 ATGATTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (14 bp):
ATTTCCAAAATGGT
Found at i:39919703 original size:12 final size:12
Alignment explanation
Indices: 39919686--39919717 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
39919676 AAATAATCTA
*
39919686 AAAATTATAAAT
1 AAAATTAAAAAT
39919698 AAAATTAAAAAT
1 AAAATTAAAAAT
39919710 AAAATTAA
1 AAAATTAA
39919718 TGTTCATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAATTAAAAAT
Found at i:39919752 original size:2 final size:2
Alignment explanation
Indices: 39919747--39919780 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
39919737 GTAGTATGAA
39919747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39919781 GAATTGCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39925063 original size:98 final size:98
Alignment explanation
Indices: 39924884--39925080 Score: 324
Period size: 98 Copynumber: 2.0 Consensus size: 98
39924874 ATACAATAAA
* *
39924884 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACTCAATACGTTAGGGCACTATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
39924949 CCTTTAGAATCTCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
*
39924982 ACTTTAAAAGAA-AGTCCGCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAAT
1 ACTTTAAAAGAACA-TCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAAT
*
39925046 TTCTTTAAAATCCCAAACTCGGAATATTTCCTTT
65 TCCTTTAAAATCCCAAACTCGGAATATTTCCTTT
39925080 A
1 A
39925081 TGATTTTTAA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
97 1 0.01
98 91 0.99
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:39927717 original size:14 final size:14
Alignment explanation
Indices: 39927698--39927727 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39927688 TGGATGTGTT
39927698 ATAATCTAATATAA
1 ATAATCTAATATAA
*
39927712 ATAATCTAGTATAA
1 ATAATCTAATATAA
39927726 AT
1 AT
39927728 TAGTTCAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (14 bp):
ATAATCTAATATAA
Found at i:39928549 original size:37 final size:36
Alignment explanation
Indices: 39928508--39928578 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 36
39928498 CACTTTAATA
*
39928508 TTAATTTAATA-AAATACTATTAAGATAAGTATTAAAT
1 TTAATTTAATATAAA-ACTATTAAAATAA-TATTAAAT
39928545 TTAATTTAATATTAAAACTATTAAAATAATATTA
1 TTAATTTAATA-TAAAACTATTAAAATAATATTA
39928579 TTGTTGGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 16 0.52
38 12 0.39
39 3 0.10
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (36 bp):
TTAATTTAATATAAAACTATTAAAATAATATTAAAT
Found at i:39935674 original size:44 final size:44
Alignment explanation
Indices: 39935623--39936602 Score: 503
Period size: 44 Copynumber: 22.5 Consensus size: 44
39935613 CCACTCTATG
* *
39935623 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
* * * ** * *
39935667 ACAACTTCAAGGAGATAGGAT-TATGGGCTTCAATCTACTCCACT
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
* * * * *
39935711 GGAACTTCAGAGAGATAAGATCTATTTCTTTAACCCGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
* * * * *
39935755 ACAACTTCAGGGAGATAGGAT-TATCGACTTCAATCTACTCCACT
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
* * * ** *
39935799 GCAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCTGCCCCACT
1 GCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT
** * *
39935843 GTGACTTCAAGGG-GATAAGA-CT-TGT-TTTCTCAGTCTGCTCCACT
1 GCAACTTC-AGGGAGATAAGATCTAT-TACTT-T-AATCTGCTCCACT
* * * * ** * *
39935887 GCAACCTCAGGGAGATAAGACCTGA-TGC---GATCCACTCTACG
1 GCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT
* * *
39935928 GCAAGTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
* * ** * *
39935972 ACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTACTCCACT
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
* * *
39936016 GCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
* * * * *
39936060 ACAACTTCAGGGAGAT-AGTAT-TATCGACTTCAATCTACTCCACC
1 GCAACTTCAGGGAGATAAG-ATCTAT-TACTTTAATCTGCTCCACT
* * * * * * ** *
39936104 GTAACCTCAGTGAGATAAGATTTGCTT-TTTTGGTCTGCCCCACT
1 GCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT
** * *
39936148 GTGACTTCAAGGG-GATAAGA-CTTGTTA-TCTCAATCTGCTCCACT
1 GCAACTTC-AGGGAGATAAGATC-TATTACT-TTAATCTGCTCCACT
* * * ** *
39936192 GCAACCTCAGGGAGATAAGA-CT-TGA-TGCT-ATCCACTCTACT
1 GCAACTTCAGGGAGATAAGATCTATTACT-TTAATCTGCTCCACT
*
39936233 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCT-CTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAAT-CTGCTCCACT
* * ** *
39936277 ACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
* * * * *
39936321 GCAACTTCAGAGAGATAAGATTTATTACTTTAACCCGCTCTACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
* * * * * *
39936365 ACAACTTCAGGGAGATAGGAT-TATCGACTTCAATCTACTCCACC
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
* * * ** *
39936409 GCAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCTGTTCCACT
1 GCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT
* * * * * ** *
39936453 GCAACCTCAGGGTGATAAGACCTGA-TGC---GATCCACTCTACT
1 GCAACTTCAGGGAGATAAGATCT-ATTACTTTAATCTGCTCCACT
** *
39936494 GCAACTTCAAAGAGATATGATCTATTACTTTAAT-TCGCTCCACT
1 GCAACTTCAGGGAGATAAGATCTATTACTTTAATCT-GCTCCACT
* * * ** * *
39936538 ACAACTTTAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCGACT
1 GCAACTTCAGGGAGATAAGATCTAT-TACTTTAATCTGCTCCACT
39936582 GCAACTTCAGGGAGATAAGAT
1 GCAACTTCAGGGAGATAAGAT
39936603 TTGCCATCTT
Statistics
Matches: 690, Mismatches: 197, Indels: 98
0.70 0.20 0.10
Matches are distributed among these distances:
40 2 0.00
41 83 0.12
42 8 0.01
43 43 0.06
44 525 0.76
45 26 0.04
46 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
GCAACTTCAGGGAGATAAGATCTATTACTTTAATCTGCTCCACT
Found at i:39935727 original size:88 final size:87
Alignment explanation
Indices: 39935623--39936602 Score: 575
Period size: 88 Copynumber: 11.2 Consensus size: 87
39935613 CCACTCTATG
* * *
39935623 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGAT
1 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
*
39935688 TATGGGCTTCAATCTACTCCACT
66 TAT-GGCTTCAATCTGCTCCACT
* * * * *
39935711 GGAACTTCAGAGAGATAAGATCTATTTCTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGAT
1 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
* *
39935776 TATCGACTTCAATCTACTCCACT
66 TAT-GGCTTCAATCTGCTCCACT
* * * * ** * * **
39935799 GCAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCTGCCCCACTGTGACTTCAAGGG-GATAAG
1 GCAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTCCACTGCAACTTC-AGGGAGATAAG
* ** *
39935862 ACT-TGTTTTCTCAGTCTGCTCCACT
64 ATTATG-GCT-TCAATCTGCTCCACT
* * * * * * * * * *
39935887 GCAACCTCAGGGAGATAAGACCTGA-TGC---GATCCACTCTACGGCAAGTTCAGAGAGATAAGA
1 GCAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA
** * *
39935948 TCTATTACTTTAATCCGCTCCACT
65 T-TATGGCTTCAATCTGCTCCACT
* * * ** * ** *
39935972 ACAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGA
1 GCAACTTCAGAGAGATAAGATCTAT-TACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA
** * *
39936036 TCTATTTCTTTAACCTGCTCCACT
65 T-TATGGCTTCAATCTGCTCCACT
* * * * ** * * * *
39936060 ACAACTTCAGGGAGAT-AGTAT-TATCGACTTCAATCTACTCCACCGTAACCTCAGTGAGATAAG
1 GCAACTTCAGAGAGATAAG-ATCTAT-TACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG
*** *
39936123 ATT-T-GCTTTTTTGGTCTGCCCCACT
64 ATTATGGC---TTCAATCTGCTCCACT
** * * * * *
39936148 GTGACTTCA-AGGGGATAAGA-CTTGTTA-TCTCAATCTGCTCCACTGCAACCTCAGGGAGATAA
1 GCAACTTCAGA-GAGATAAGATC-TATTACT-TTAATCCGCTCCACTGCAACTTCAGGGAGATAA
*
39936210 GACTTGAT-GCTATCCA-CT-CT--ACT
63 GA-TT-ATGGCT-TCAATCTGCTCCACT
* * *
39936233 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTCCACTACAACTTCAGGGAGATAGGAT
1 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
39936298 TATCGGCTTCAATCTGCTCCACT
66 TAT-GGCTTCAATCTGCTCCACT
* * * * *
39936321 GCAACTTCAGAGAGATAAGATTTATTACTTTAACCCGCTCTACTACAACTTCAGGGAGATAGGAT
1 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
* * *
39936386 TATCGACTTCAATCTACTCCACC
66 TAT-GGCTTCAATCTGCTCCACT
* * * * ** * * * *
39936409 GCAACCTCAGGGAGATAAGATTTGCTT-CTTTGGTCTGTTCCACTGCAACCTCAGGGTGATAAGA
1 GCAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA
** * * * ** *
39936473 -CCT-GATGCGATCCACTCTACT
65 TTATGGCTTCAATCTGCTCCACT
* * * * * *
39936494 GCAACTTCAAAGAGATATGATCTATTACTTTAATTCGCTCCACTACAACTTTAGGGAGATAGGAT
1 GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
*
39936559 TATCGGCTTCAATCTGCTCGACT
66 TAT-GGCTTCAATCTGCTCCACT
*
39936582 GCAACTTCAGGGAGATAAGAT
1 GCAACTTCAGAGAGATAAGAT
39936603 TTGCCATCTT
Statistics
Matches: 701, Mismatches: 151, Indels: 80
0.75 0.16 0.09
Matches are distributed among these distances:
83 3 0.00
84 11 0.02
85 163 0.23
86 10 0.01
87 9 0.01
88 487 0.69
89 15 0.02
91 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (87 bp):
GCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGAT
TATGGCTTCAATCTGCTCCACT
Found at i:39935798 original size:217 final size:217
Alignment explanation
Indices: 39935407--39935814 Score: 516
Period size: 217 Copynumber: 1.9 Consensus size: 217
39935397 TGTTCTACTA
*
39935407 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAAGGAGATAGGATT
* * * *** *
39935472 ATCAAATTCAATCTACTCCACAACAACCTCAGGGAGATAAGATTTGCTTTTTTGGTCTGCCCCAC
66 ATCAAATTCAATCTACTCCACAACAACCTCAGAGAGATAAGATCTGATTTTTTAACCCGCCCCAC
*** * *** * *
39935537 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATGAGA
131 TACAACTTCAAGGGGATAAGACTTATCGACTCAATCTACTCCACTGCAACCTCAGGGAGATGAGA
39935602 CCTGATGCGATCCACTCTATGG
196 CCTGATGCGATCCACTCTATGG
*
39935624 CAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAAGGAGATAGGATT
**** *** * *
39935689 ATGGGCTTCAATCTACTCCACTGGAACTTCAGAGAGATAAGATCT-ATTTCTTTAACCCGCTCCA
66 ATCAAATTCAATCTACTCCACAACAACCTCAGAGAGATAAGATCTGATTT-TTTAACCCGCCCCA
*
39935753 CTACAACTTC-AGGGAGATAGGA-TTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGAT
130 CTACAACTTCAAGGG-GATAAGACTTATCGAC-TCAATCTACTCCACTGCAACCTCAGGGAGAT
39935815 AAGATTTGCT
Statistics
Matches: 160, Mismatches: 28, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
216 11 0.07
217 149 0.93
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (217 bp):
CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAAGGAGATAGGATT
ATCAAATTCAATCTACTCCACAACAACCTCAGAGAGATAAGATCTGATTTTTTAACCCGCCCCAC
TACAACTTCAAGGGGATAAGACTTATCGACTCAATCTACTCCACTGCAACCTCAGGGAGATGAGA
CCTGATGCGATCCACTCTATGG
Found at i:39935959 original size:305 final size:305
Alignment explanation
Indices: 39935407--39936445 Score: 1826
Period size: 305 Copynumber: 3.4 Consensus size: 305
39935397 TGTTCTACTA
39935407 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
* * ** *
39935472 ATCAAATTCAATCTACTCCACAACAACCTCAGGGAGATAAGATTTGCTTTTTTGGTCTGCCCCAC
66 ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCAC
*
39935537 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATGAGA
131 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
*
39935602 CCTGATGCGATCCACTCTATGGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
196 CCTGATGCGATCCACTCTACGGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
* *
39935667 ACAACTTCAAGGAGATAGGATTATGGGCTTCAATCTACTCCACTG
261 ACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTG
* *
39935712 GAACTTCAGAGAGATAAGATCTATTTCTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
*
39935777 ATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCAC
66 ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCAC
39935842 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
131 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
*
39935907 CCTGATGCGATCCACTCTACGGCAAGTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
196 CCTGATGCGATCCACTCTACGGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
39935972 ACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTG
261 ACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTG
* * *
39936017 CAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACTACAACTTCAGGGAGATAGTATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
* * *
39936082 ATCGACTTCAATCTACTCCACCGTAACCTCAGTGAGATAAGATTTGCTTTTTTGGTCTGCCCCAC
66 ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCAC
* *
39936147 TGTGACTTCAAGGGGATAAGACTTGTTATCTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGA
131 TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
* * * *
39936212 CTTGATGCTATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCTCTCCACT
196 CCTGATGCGATCCACTCTACGGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
*
39936277 ACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTG
261 ACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTG
* *
39936322 CAACTTCAGAGAGATAAGATTTATTACTTTAACCCGCTCTACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
39936387 ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTG
66 ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTG
39936446 TTCCACTGCA
Statistics
Matches: 699, Mismatches: 35, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
305 699 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (305 bp):
CAACTTCAGAGAGATAAGATCTATTACTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATT
ATCGACTTCAATCTACTCCACCGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCAC
TGTGACTTCAAGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGA
CCTGATGCGATCCACTCTACGGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACT
ACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTG
Found at i:39936112 original size:217 final size:217
Alignment explanation
Indices: 39935713--39936341 Score: 598
Period size: 217 Copynumber: 2.9 Consensus size: 217
39935703 ACTCCACTGG
* *
39935713 AACTTCAGAGAGATAAGATCTATTTCTTTAACCCGCTCCACTACAACTTCAGGGAGATAGGATTA
1 AACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA
* * * * ** *** *
39935778 TCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCTTTGGTCTGCCCCACT
66 TCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACT
*** * *** * *
39935843 GTGACTTCAAGGG-GATAAGACTTGTTTTC-TCAGTCTGCTCCACTGCAACCTCAGGGAGATAAG
131 ACAACTTC-AGGGAGAT-AGA-TTATCGACTTCAATCTGCTCCACTGCAACCTCAGAGAGATAAG
* *
39935906 A-CCTGATGCGATCCACTCTACGGC
193 ATCCTGATGCGATCCACCCCACGGC
*
39935930 AAGTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA
1 AACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA
39935995 TCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACT
66 TCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACT
* * * *
39936060 ACAACTTCAGGGAGATAGTATTATCGACTTCAATCTACTCCACCGTAACCTCAGTGAGATAAGAT
131 ACAACTTCAGGGAGATAG-ATTATCGACTTCAATCTGCTCCACTGCAACCTCAGAGAGATAAGA-
* ** ** * ** * *
39936125 TTGCTTTTTTGGTCTGCCCCACTGT
194 -TCCTGATGCGATCCACCCCACGGC
* * * * * * * *
39936150 GACTTCA-AGGGGATAAGA-CTTGTTA-TCTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGA
1 AACTTCAGA-GAGATAAGATC-TATTACT-TTAATCCGCTCCACTACAACTTCAGGGAGATAGGA
* * *
39936212 CTTGAT--GC-T--ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCT-C
63 -TT-ATCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAA-CCTGC
* *
39936271 TCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGA
125 TCCACTACAACTTCAGGGAGATA-GATTATCGACTTCAATCTGCTCCACTGCAACCTCAGAGAGA
39936336 TAAGAT
189 TAAGAT
39936342 TTATTACTTT
Statistics
Matches: 344, Mismatches: 55, Indels: 28
0.81 0.13 0.07
Matches are distributed among these distances:
215 1 0.00
216 10 0.03
217 261 0.76
218 4 0.01
219 4 0.01
220 60 0.17
221 2 0.01
222 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (217 bp):
AACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA
TCGGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACT
ACAACTTCAGGGAGATAGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGAGAGATAAGATC
CTGATGCGATCCACCCCACGGC
Found at i:39936400 original size:217 final size:217
Alignment explanation
Indices: 39936008--39936428 Score: 537
Period size: 217 Copynumber: 1.9 Consensus size: 217
39935998 GCTTCAATCT
*
39936008 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTTCTTTAACCTGCTCCACTACAACTTCAGGGA
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCTGCTCCACTACAACTTCAGGGA
* * * * * ***
39936073 GATAGTATTATCGACTTCAATCTACTCCACCGTAACCTCAGTGAGATAAGATTTGCTTTTTTGGT
66 GATAGGATTATCGACTTCAATCTACTCCACCGCAACCTCAGAGAGATAAGATTTGATTCTTTAAC
* *** * * * *
39936138 CTGCCCCACTGTGACTTCAAGGGGATAAGACTTGTTATCTCAATCTGCTCCACTGCAACCTCAGG
131 CCGCCCCACTACAACTTCAAGGGGATAAGACTTATGATCTCAATCTACTCCACCGCAACCTCAGG
39936203 GAGATAAGACTTGATGCTATCC
196 GAGATAAGACTTGATGCTATCC
*
39936225 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCT-CTCCACTACAACTTCAGGG
1 ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAA-CCTGCTCCACTACAACTTCAGGG
* * * *
39936289 AGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT-ATTACTTTA
65 AGATAGGATTATCGACTTCAATCTACTCCACCGCAACCTCAGAGAGATAAGATTTGATT-CTTTA
* * *
39936353 ACCCGCTCTACTACAACTTC-AGGGAGATAGGA-TTATCGA-CTTCAATCTACTCCACCGCAACC
129 ACCCGCCCCACTACAACTTCAAGGG-GATAAGACTTAT-GATC-TCAATCTACTCCACCGCAACC
39936415 TCAGGGAGATAAGA
191 TCAGGGAGATAAGA
39936429 TTTGCTTCTT
Statistics
Matches: 174, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
216 10 0.06
217 161 0.93
218 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (217 bp):
ACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCTGCTCCACTACAACTTCAGGGA
GATAGGATTATCGACTTCAATCTACTCCACCGCAACCTCAGAGAGATAAGATTTGATTCTTTAAC
CCGCCCCACTACAACTTCAAGGGGATAAGACTTATGATCTCAATCTACTCCACCGCAACCTCAGG
GAGATAAGACTTGATGCTATCC
Found at i:39936760 original size:128 final size:128
Alignment explanation
Indices: 39936594--39936928 Score: 508
Period size: 128 Copynumber: 2.6 Consensus size: 128
39936584 AACTTCAGGG
** * * *
39936594 AGATAAGATTTGCCATCTTCGATCTACTCCGCTACTGCTAAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
*
39936659 ACCTATTCCACTGTTGACCAGTGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
66 ACCTATTCCACTGTTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * * *
39936722 AGATAAGATTCACCGTCTTCAATCTGCTCTGCTACTGCTTAGGGAGAAAAGATCTGTAATTTCCC
1 AGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * * *
39936787 ACCTATTCCACTATTGACCAGGGATATAGGTCTTGTGGCTTAAATCTGCTTTCTTACACTTGA
66 ACCTATTCCACTGTTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * *
39936850 ATATAAGATTCACCGTCTTTGATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGTAATTTCCC
1 AGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTT-CC
39936915 AACCTATTCCACTG
65 AACCTATTCCACTG
39936929 CTAGTCAGGG
Statistics
Matches: 184, Mismatches: 22, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
128 170 0.92
129 14 0.08
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (128 bp):
AGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
ACCTATTCCACTGTTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
Found at i:39938202 original size:14 final size:15
Alignment explanation
Indices: 39938183--39938223 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
39938173 AGCCTCTCCA
*
39938183 TTTTCATTTTTTA-T
1 TTTTCATTTTTCATT
*
39938197 TTTTCA-TATTCATT
1 TTTTCATTTTTCATT
39938211 TTTTCATTTTTCA
1 TTTTCATTTTTCA
39938224 CACATTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 4 0.18
14 13 0.59
15 5 0.23
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTCATTTTTCATT
Found at i:39938210 original size:20 final size:21
Alignment explanation
Indices: 39938185--39938223 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
39938175 CCTCTCCATT
39938185 TTCATTTTTT-ATTTTTCATA
1 TTCATTTTTTCATTTTTCATA
39938205 TTCATTTTTTCATTTTTCA
1 TTCATTTTTTCATTTTTCA
39938224 CACATTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (21 bp):
TTCATTTTTTCATTTTTCATA
Found at i:39939171 original size:26 final size:26
Alignment explanation
Indices: 39939111--39939171 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
39939101 CCTTTTTATT
* *
39939111 TTTTCATTTTCATTTTTTGTTTCGAC
1 TTTTCTTTTTCATTTTTTGTTTCGAA
** *
39939137 TTTGATTTTTC-TTTTTTGCTTTTGAA
1 TTTTCTTTTTCATTTTTTG-TTTCGAA
39939163 TTTTCTTTT
1 TTTTCTTTT
39939172 GAATTTCCTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.10, C:0.11, G:0.08, T:0.70
Consensus pattern (26 bp):
TTTTCTTTTTCATTTTTTGTTTCGAA
Found at i:39939172 original size:12 final size:12
Alignment explanation
Indices: 39939150--39939183 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
39939140 GATTTTTCTT
39939150 TTTTGCTTTTGAA
1 TTTT-CTTTTGAA
39939163 TTTTCTTTTGAA
1 TTTTCTTTTGAA
*
39939175 TTTCCTTTT
1 TTTTCTTTT
39939184 CTTTTTCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.68
Consensus pattern (12 bp):
TTTTCTTTTGAA
Found at i:39947583 original size:47 final size:47
Alignment explanation
Indices: 39947526--39947713 Score: 281
Period size: 47 Copynumber: 4.0 Consensus size: 47
39947516 GACAAGTGGG
*
39947526 AAGTGATAAGTAATAGCTTTCGGCTATACTTATCTGATCAAGTGATA
1 AAGTGATAAGTAATAGCTTTCGGCTATACTTATCTGATCAAGTGACA
* *
39947573 AAGTGATAAGTGATAGCTTTCGGCTATACTTATCAGATCAAGTGACA
1 AAGTGATAAGTAATAGCTTTCGGCTATACTTATCTGATCAAGTGACA
*
39947620 AAGTGATAAGTGAAT-GCTTTCGGCTATACTTATCTAATCAAGTGACA
1 AAGTGATAAGT-AATAGCTTTCGGCTATACTTATCTGATCAAGTGACA
* * * *
39947667 AAGTGATAAGTGATAGC-TTCAGCTACACTTATCTGATCAAGTTACA
1 AAGTGATAAGTAATAGCTTTCGGCTATACTTATCTGATCAAGTGACA
39947713 A
1 A
39947714 GTGGAAAGTN
Statistics
Matches: 128, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
46 28 0.22
47 98 0.77
48 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (47 bp):
AAGTGATAAGTAATAGCTTTCGGCTATACTTATCTGATCAAGTGACA
Found at i:39947670 original size:94 final size:94
Alignment explanation
Indices: 39947462--39947713 Score: 348
Period size: 94 Copynumber: 2.6 Consensus size: 94
39947452 AGTACTTCTG
*
39947462 ATCAAGTGACAAAGTGATAAGTGGGTAGCTTT-AGCTACACTTATCTGATCAAGTGACAAGTGGG
1 ATCAAGTGACAAAGTGATAAGT-GATAGCTTTCAGCTACACTTATCTGATCAAGTGAC-A-----
*
39947526 AAGTGATAAGTAATAGCTTTCGGCTATACTTATCTG
59 AAGTGATAAGTAATAGCTTTCGGCTATACTTATCTA
* * * *
39947562 ATCAAGTGATAAAGTGATAAGTGATAGCTTTCGGCTATACTTATCAGATCAAGTGACAAAGTGAT
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTTCAGCTACACTTATCTGATCAAGTGACAAAGTGAT
39947627 AAGTGAAT-GCTTTCGGCTATACTTATCTA
66 AAGT-AATAGCTTTCGGCTATACTTATCTA
*
39947656 ATCAAGTGACAAAGTGATAAGTGATAGC-TTCAGCTACACTTATCTGATCAAGTTACAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTTCAGCTACACTTATCTGATCAAGTGACAA
39947714 GTGGAAAGTN
Statistics
Matches: 139, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
93 26 0.19
94 58 0.42
95 3 0.02
99 9 0.06
100 43 0.31
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (94 bp):
ATCAAGTGACAAAGTGATAAGTGATAGCTTTCAGCTACACTTATCTGATCAAGTGACAAAGTGAT
AAGTAATAGCTTTCGGCTATACTTATCTA
Found at i:39952388 original size:52 final size:46
Alignment explanation
Indices: 39952370--39952715 Score: 453
Period size: 46 Copynumber: 7.3 Consensus size: 46
39952360 GACAAGTGGG
* *
39952370 AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
*
39952416 AAGTGATAAGTGATAGCTTCGGCTATC-CTTATCTGATCATGTGACA
1 AAGTGATAAGTGATAGCTTCGGCTA-CACTTATCTGATCAAGTGACA
*
39952462 AAGTGATAAGTGA-ATGCTTCGGCTATACTTATCTGATCAAGTGACA
1 AAGTGATAAGTGATA-GCTTCGGCTACACTTATCTGATCAAGTGACA
**
39952508 AAGTGATAAGTGATAGCTTCAACTACACTTATCTGATCAAGTGACAAGTGGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC------A
39952560 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC------A
* *
39952612 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
** *
39952658 AAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
39952704 AAGTGATAAGTG
1 AAGTGATAAGTG
39952716 GCTACACTTA
Statistics
Matches: 274, Mismatches: 16, Indels: 20
0.88 0.05 0.06
Matches are distributed among these distances:
45 1 0.00
46 179 0.65
47 1 0.00
52 93 0.34
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (46 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA
Found at i:39952723 original size:37 final size:37
Alignment explanation
Indices: 39952679--39952824 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
39952669 GATAGCTTTA
*
39952679 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
39952716 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
39952753 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
39952790 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
39952825 ATCATACGTA
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
35 12 0.11
36 4 0.04
37 90 0.85
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:39962857 original size:21 final size:20
Alignment explanation
Indices: 39962833--39962871 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
39962823 ATCAAGATAA
39962833 AAATAAATTAAATTTAATATT
1 AAATAAATTAAA-TTAATATT
*
39962854 AAATATATTAAATTAATA
1 AAATAAATTAAATTAATA
39962872 GAATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAAATTAAATTAATATT
Found at i:39969855 original size:22 final size:20
Alignment explanation
Indices: 39969810--39969856 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
39969800 TAAGATTAAT
39969810 CAAAATAAAATAAATGAATA
1 CAAAATAAAATAAATGAATA
39969830 -AAAATAAAAATAAAAATGAA-A
1 CAAAAT-AAAAT--AAATGAATA
39969851 CAAAAT
1 CAAAAT
39969857 TTAAAATAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.22
20 5 0.22
21 1 0.04
22 12 0.52
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (20 bp):
CAAAATAAAATAAATGAATA
Done.