Locus 162

Sequence ID 4_DroMel_CAF1
Location 1,053,108 – 1,053,264
Length 156
Max. P 0.988106
window261 window262

overview

Window 1

Location 1,053,108 – 1,053,224
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 66.82
Mean single sequence MFE -35.40
Consensus MFE -13.47
Energy contribution -13.28
Covariance contribution -0.19
Combinations/Pair 1.56
Mean z-score -2.50
Structure conservation index 0.38
SVM decision value 2.11
SVM RNA-class probability 0.988106
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1053108 116 + 1281640
AUUUGAAUA-CAUUUUUUAAAACUUACUAAGCAACUGCUCCGUUUUCAGCUCGUAGCCAUGCUGCCAAGG---CUGCAAAGGCUGCAGCUGCCGCAAAUGGAAAGAUUGUGGCCGUAAUU
.((((((..-.....))))))..((((...((((((..(((((((.(((((.((((((.(((.((....)---).)))..)))))))))))....))))))).)).))))....)))).. ( -36.20)
>DroVir_CAF1 2475 106 + 1
AUUCAUACA-CAUA-UUUGAAC-CGAUUAU-----------GUUUGCAGCUCGCGGUCAUGCUGCCAAGGCAGCCGCUAAGGCGGCCGCUGUAGCAAAUGGCAAAAUUGUAGCCGUAAUU
.((((....-....-..)))).-.((((((-----------((((((.((..((((((..(((((....))))).((....)))))))).)).))))))(((.........))))))))) ( -35.50)
>DroGri_CAF1 7076 105 + 1
AUUGACACA-GAUA-----AAC-UGAUUUU--------CUUUUUUGCAGCUCGCGGUCAUGCCGCCAAGGCAGCUGCUAAGGCGGCUGCUGGAGCCAAUGGCAAGAUUGUGGCUGUAAUU
.......((-(...-----..)-)).....--------.....(((((((.(((((((.((((((...(((((((((....)))))))))...))....)))).)))))))))))))).. ( -44.80)
>DroEre_CAF1 1124 116 + 1
ACUUAGAUG-CAUUUUGUAAAACUGAUCAAGCAACUGCUGCUUUUUCAGCUCGUAGCCAUGCUGCUAAGG---CUGCAAAGGCUGCGGCUGCCGCAAAUGGUAAGAUUGUGGCCGUAAUU
.......((-(.....)))...((((..(((((.....)))))..))))..(((((((.(((.((....)---).)))..)))))))((.(((((((.........))))))).)).... ( -37.30)
>DroMoj_CAF1 2108 105 + 1
--UCAAACUGAAUU-UUUUUAA-UGACUUA-----------UUUUCCAGCUCGCGGUCAUGCUGCCAAAGCUGCUGUUAAGGCGGCCGCUGGAGGAAAUGGAAAAAUUGUGGCCGUCAUU
--............-.....((-((((...-----------(((((((((..((((.....))))....((((((.....)))))).)))))))))...((..(.....)..)))))))) ( -31.70)
>DroPer_CAF1 522 99 + 1
AUUU-------AAUUUUUGAAAC--------------CAUCUUUUUUAGCUCGCAGCCAUGCCGCUAAGGCAGCUGUCAAGGCAGCCUCAGUUGCUAACGGAAAGAUUGUUGCGGUAAUU
....-------((((.(((.(((--------------.((((((((......(((((..((((.....))))(((((....)))))....)))))....)))))))).))).))).)))) ( -26.90)
>consensus
AUUUAAACA_CAUU_UUUAAAA_UGAUUAA__________CUUUUUCAGCUCGCAGCCAUGCUGCCAAGGCAGCUGCUAAGGCGGCCGCUGCAGCAAAUGGAAAGAUUGUGGCCGUAAUU
..............................................((((..(((((...))))).......(((((....))))).))))......((((...........)))).... (-13.47 = -13.28 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,053,147 – 1,053,264
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.43
Mean single sequence MFE -45.00
Consensus MFE -25.57
Energy contribution -24.72
Covariance contribution -0.86
Combinations/Pair 1.55
Mean z-score -2.03
Structure conservation index 0.57
SVM decision value 0.76
SVM RNA-class probability 0.842259
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1053147 117 + 1281640
CGUUUUCAGCUCGUAGCCAUGCUGCCAAGG---CUGCAAAGGCUGCAGCUGCCGCAAAUGGAAAGAUUGUGGCCGUAAUUGGUGCAGUCGUCGAUGUCCAGUUUGAUGAUAACUUACCGC
.......((((.((((((.(((.((....)---).)))..))))))))))(((((((.(....)..))))))).......((((..((((((((........))))))))....)))).. ( -41.50)
>DroVir_CAF1 2502 119 + 1
-GUUUGCAGCUCGCGGUCAUGCUGCCAAGGCAGCCGCUAAGGCGGCCGCUGUAGCAAAUGGCAAAAUUGUAGCCGUAAUUGGUGCCGUCGUGGACGUGCAAUUUGAUGAUAACUUGCCGC
-((((((.((..((((((..(((((....))))).((....)))))))).)).))))))(((((.......((((....))))((((((...)))).))..............))))).. ( -46.10)
>DroPse_CAF1 1 119 + 1
-UUUUUUAGCUCGCAGCCAUGCCGCUAAGGCAGCUGUCAAGGCAGCCUCAGUUGCUAACGGAAAGAUUGUUGCGGUAAUUGGUGCUGUCGUUGAUGUUCAGUUCGAUGAUGACUUGCCAC
-....(((((..(((....))).)))))(((((..((((.((((((.((((((((((((((.....)))))..))))))))).))))))(((((........)))))..))))))))).. ( -40.40)
>DroGri_CAF1 7101 120 + 1
UUUUUGCAGCUCGCGGUCAUGCCGCCAAGGCAGCUGCUAAGGCGGCUGCUGGAGCCAAUGGCAAGAUUGUGGCUGUAAUUGGUGCCGUCGUUGACGUGCAAUUCGAUGAUAACUUGCCAC
...(((((((.(((((((.((((((...(((((((((....)))))))))...))....)))).)))))))))))))).(((((..((((((((........))))))))....))))). ( -53.20)
>DroWil_CAF1 1 113 + 1
-------AGCUCGAGGACAUGCCGCUAAGGCAGCUGCCAAGGCUGUCGCUGGAGGCAACGGCAAAAUUGUCGCUGUCAUUGGUGCUGUCGUCGAUGUACAGUUUGACGAUAAUUUGCCUC
-------..(((.((((((.(((.....(((....)))..))))))).)).))).....((((((((((((((((((((((..(....)..))))).)))))..))))))..)))))).. ( -44.70)
>DroMoj_CAF1 2134 119 + 1
-UUUUCCAGCUCGCGGUCAUGCUGCCAAAGCUGCUGUUAAGGCGGCCGCUGGAGGAAAUGGAAAAAUUGUGGCCGUCAUUGGUGCCGUCGUUGAUGUGCAGUUCGACGACAAUCUGCCAC
-(((((((((..((((.....))))....((((((.....)))))).)))))))))............(((((.......(....)((((((((........)))))))).....))))) ( -44.10)
>consensus
_UUUUGCAGCUCGCGGUCAUGCCGCCAAGGCAGCUGCUAAGGCGGCCGCUGGAGCAAAUGGAAAAAUUGUGGCCGUAAUUGGUGCCGUCGUUGAUGUGCAGUUCGAUGAUAACUUGCCAC
............(((((..((((.....)))))))))...((((((.((((.......)))).........((((....)))))))((((((((........)))))))).....))).. (-25.57 = -24.72 +  -0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:45 2006