Locus 2191

Sequence ID 3L_DroMel_CAF1
Location 5,999,334 – 5,999,440
Length 106
Max. P 0.925786
window3395 window3396

overview

Window 5

Location 5,999,334 – 5,999,440
Length 106
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 75.25
Mean single sequence MFE -30.98
Consensus MFE -22.77
Energy contribution -22.88
Covariance contribution 0.11
Combinations/Pair 1.20
Mean z-score -1.28
Structure conservation index 0.73
SVM decision value 0.97
SVM RNA-class probability 0.891949
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5999334 106 + 23771897
-UCAAACUGGAAUUCUUCGGCGUAUU------UCCAGGGUUUCCGCAAGGAGUUCUCCAGCCUGAAGGCCCUGAUCACCCACCAUUCGGUGAUGCCCGAACUGCUGCCCGUCC
-....((.((.....(((((.((...------..((((((((((....))).(((........))))))))))((((((........)))))))))))))......)).)).. ( -32.60)
>DroVir_CAF1 75885 93 + 1
GUUCGGCCG-----------UUGUU---------UAGGGCUUUCGCAAGGAGUUCUCCAGCCUGAAGGCUCUGAUAACCCACCAUUCCGUAAUGCCGGAACUGCUGCCUGUGC
....(((.(-----------(((((---------.(((((((((((..(((....))).))..)))))))))))))))......(((((......))))).....)))..... ( -29.00)
>DroSim_CAF1 58660 106 + 1
-UCAACCUGGAAUUCUUUGGCGUUUU------UUCAGGGCUUUCGCAAGGAGUUCUCCAGCCUGAAGGCCCUGAUCACCCACCACUCGGUGAUGCCCGAACUGCUGCCCGUCC
-.......((.....(((((.((...------.(((((((((((((..(((....))).))..)))))))))))(((((........))))).)))))))......))..... ( -33.60)
>DroYak_CAF1 58179 106 + 1
-UCGAUGUGGAUUUCUUUUGUGCAUU------UUCAGGGCUUUCGCAAGGAGUUCUCCAGCCUGAAAGCACUGAUCACCCAUCACUCGGUGAUGCCCGAACUGCUGCCCGUCC
-..((((.((......((((.(((..------.((((.((((((((..(((....))).))..)))))).))))(((((........)))))))).))))......)))))). ( -32.60)
>DroAna_CAF1 54317 99 + 1
--------------CUUAUUUGUAUUUAUCGCUUCAGGGCUUUCGCAAGGAGUUCUCCAGCCUGAAGGCCCUGAUCACCCACCACUCGGUGAUGCCCGAACUGCUGCCCGUCC
--------------.......(((.((...((.(((((((((((((..(((....))).))..)))))))))))(((((........))))).))...)).)))......... ( -30.40)
>DroPer_CAF1 69415 95 + 1
-AGAAACAA-----------UCACCC------UUCAGGGCUUUCGCAAGGAAUUCUCCAGCCUCAAGGCUUUGAUCACCCAUCAUUCGGUGAUGCCCGAGCUGCUGCCCGUGC
-........-----------......------....((((((((....)))).....((((.((..(((....((((((........))))))))).))))))..)))).... ( -27.70)
>consensus
_UCAAACUG_____CUU__GUGUAUU______UUCAGGGCUUUCGCAAGGAGUUCUCCAGCCUGAAGGCCCUGAUCACCCACCACUCGGUGAUGCCCGAACUGCUGCCCGUCC
....................................((((.(((....)))((((....(((....)))....((((((........))))))....))))....)))).... (-22.77 = -22.88 +   0.11)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 6

Location 5,999,334 – 5,999,440
Length 106
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 75.25
Mean single sequence MFE -35.15
Consensus MFE -25.09
Energy contribution -24.87
Covariance contribution -0.22
Combinations/Pair 1.22
Mean z-score -1.47
Structure conservation index 0.71
SVM decision value 1.17
SVM RNA-class probability 0.925786
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5999334 106 - 23771897
GGACGGGCAGCAGUUCGGGCAUCACCGAAUGGUGGGUGAUCAGGGCCUUCAGGCUGGAGAACUCCUUGCGGAAACCCUGGA------AAUACGCCGAAGAAUUCCAGUUUGA-
((((((((....)))))(((.(((((........)))))((((((..(((..((.(((....)))..)).))).)))))).------.....))).......))).......- ( -36.20)
>DroVir_CAF1 75885 93 - 1
GCACAGGCAGCAGUUCCGGCAUUACGGAAUGGUGGGUUAUCAGAGCCUUCAGGCUGGAGAACUCCUUGCGAAAGCCCUA---------AACAA-----------CGGCCGAAC
.....(((.((.((((((......)))))).))(((((.((..((((....))))(((....)))....)).)))))..---------.....-----------..))).... ( -32.00)
>DroSim_CAF1 58660 106 - 1
GGACGGGCAGCAGUUCGGGCAUCACCGAGUGGUGGGUGAUCAGGGCCUUCAGGCUGGAGAACUCCUUGCGAAAGCCCUGAA------AAAACGCCAAAGAAUUCCAGGUUGA-
((((((((....)))))(((.(((((........)))))(((((((.(((..((.(((....)))..))))).))))))).------.....))).......))).......- ( -39.90)
>DroYak_CAF1 58179 106 - 1
GGACGGGCAGCAGUUCGGGCAUCACCGAGUGAUGGGUGAUCAGUGCUUUCAGGCUGGAGAACUCCUUGCGAAAGCCCUGAA------AAUGCACAAAAGAAAUCCACAUCGA-
((((((((....))))).(.((((((.(....).))))))).(((((((((((..(((....)))..((....))))))))------)..))))........))).......- ( -37.10)
>DroAna_CAF1 54317 99 - 1
GGACGGGCAGCAGUUCGGGCAUCACCGAGUGGUGGGUGAUCAGGGCCUUCAGGCUGGAGAACUCCUUGCGAAAGCCCUGAAGCGAUAAAUACAAAUAAG--------------
...(((((....))))).((.(((((........)))))(((((((.(((..((.(((....)))..))))).))))))).))................-------------- ( -33.50)
>DroPer_CAF1 69415 95 - 1
GCACGGGCAGCAGCUCGGGCAUCACCGAAUGAUGGGUGAUCAAAGCCUUGAGGCUGGAGAAUUCCUUGCGAAAGCCCUGAA------GGGUGA-----------UUGUUUCU-
((.(((((....))))).)).(((((........)))))(((...((((.(((..((......))..((....))))).))------)).)))-----------........- ( -32.20)
>consensus
GGACGGGCAGCAGUUCGGGCAUCACCGAAUGGUGGGUGAUCAGGGCCUUCAGGCUGGAGAACUCCUUGCGAAAGCCCUGAA______AAUACAC__AAG_____CAGUUUGA_
....((((.(((((((((......)))))....((((..((..((((....)))).))..)))).))))....)))).................................... (-25.09 = -24.87 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:27 2006