Locus 8985

Sequence ID 3R_DroMel_CAF1
Location 24,097,233 – 24,097,326
Length 93
Max. P 0.753444
window14404 window14405

overview

Window 4

Location 24,097,233 – 24,097,326
Length 93
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 81.62
Mean single sequence MFE -27.92
Consensus MFE -23.13
Energy contribution -23.27
Covariance contribution 0.14
Combinations/Pair 1.12
Mean z-score -1.57
Structure conservation index 0.83
SVM decision value 0.48
SVM RNA-class probability 0.753444
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24097233 93 + 27905053
GCUGUUGCAUUUUGUACGCAUCAUUGGGGCCCAAUGGAGUGUGCACACACUGAUACAAAAUGUCGGCGUGUCGUCCUCUCCUUGUGUGUGUUU
((....))......(((((((.(((((...)))))((((.(..(((((.((((((.....)))))).)))).)..).))))..)))))))... ( -29.00)
>DroVir_CAF1 305649 80 + 1
GCCGUUGCAUUUUGCACGCAUCAUUGAUGCUCAAUGGAGUGUGCACACACUGAUACAAAAUGGCGGCAGGACAUG---------CGAGU----
(((((..((((((((((((..(((((.....)))))..)))))).(.....)....)))))))))))........---------.....---- ( -26.10)
>DroGri_CAF1 263402 80 + 1
GCCGUUGCAUUUUGCACGCAUCAUUGAUGCUCAAUGGAGUGUGCACACACUGAUACAAAAUGGCGGCAGGCCAUA---------UGAGA----
(((((((((((((((((((..(((((.....)))))..)))))).(.....)....))))).))))).)))....---------.....---- ( -26.20)
>DroSec_CAF1 284495 93 + 1
GCUGUUGCAUUUUGUACGCAUCAUUGGGGCCCAAUGGAGUGUGCACACACUGAUACAAAAUGUAGGCGUGUCGUCCUCUCCAUGUGUGUGUUU
((....)).....((((((..((((((...))))))..))))))((((((...(((.....))).(((((..(....)..))))))))))).. ( -28.40)
>DroSim_CAF1 284406 93 + 1
GCUGUUGCAUUUUGUACGCAUCAUUGGGGCCCAAUGGAGUGUGCACACACUGAUACAAAAUGUCGGCGUGUCGUCCUCUCCAUGUGUGUGUUU
((....))......(((((((...(((...)))((((((.(..(((((.((((((.....)))))).)))).)..).)))))))))))))... ( -29.50)
>DroAna_CAF1 293533 93 + 1
GCUGUUGCAUUUUGUACGCAUCAUUGGGGCUCAAUGGAGUGUGCACACACUGAUACAAAAUGUCGGCAUGUCUUUCGCUUCGUGUAUGCGACG
...(((((((...((((((..(((((.....)))))..))))))((((.((((((.....))))))...((.....))...))))))))))). ( -28.30)
>consensus
GCUGUUGCAUUUUGUACGCAUCAUUGGGGCCCAAUGGAGUGUGCACACACUGAUACAAAAUGUCGGCAUGUCGUCCUCUCC_UGUGUGUGUUU
((((..((((((((((....(((((((...)))))))(((((....)))))..)))))))))))))).......................... (-23.13 = -23.27 +   0.14)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 24,097,233 – 24,097,326
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 81.62
Mean single sequence MFE -22.97
Consensus MFE -17.75
Energy contribution -17.53
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.32
Structure conservation index 0.77
SVM decision value 0.12
SVM RNA-class probability 0.595186
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24097233 93 - 27905053
AAACACACACAAGGAGAGGACGACACGCCGACAUUUUGUAUCAGUGUGUGCACACUCCAUUGGGCCCCAAUGAUGCGUACAAAAUGCAACAGC
............((.(.(.....).).))(.((((((((((.(((((....))))).((((((...))))))....)))))))))))...... ( -20.80)
>DroVir_CAF1 305649 80 - 1
----ACUCG---------CAUGUCCUGCCGCCAUUUUGUAUCAGUGUGUGCACACUCCAUUGAGCAUCAAUGAUGCGUGCAAAAUGCAACGGC
----.....---------........((((.(((((((((((((((.((....))..))))))(((((...))))).)))))))))...)))) ( -24.10)
>DroGri_CAF1 263402 80 - 1
----UCUCA---------UAUGGCCUGCCGCCAUUUUGUAUCAGUGUGUGCACACUCCAUUGAGCAUCAAUGAUGCGUGCAAAAUGCAACGGC
----.....---------........((((.(((((((((((((((.((....))..))))))(((((...))))).)))))))))...)))) ( -24.10)
>DroSec_CAF1 284495 93 - 1
AAACACACACAUGGAGAGGACGACACGCCUACAUUUUGUAUCAGUGUGUGCACACUCCAUUGGGCCCCAAUGAUGCGUACAAAAUGCAACAGC
.......((.((((((.(..(.((((((.(((.....)))...)))))))..).))))))))........((.(((((.....))))).)).. ( -22.20)
>DroSim_CAF1 284406 93 - 1
AAACACACACAUGGAGAGGACGACACGCCGACAUUUUGUAUCAGUGUGUGCACACUCCAUUGGGCCCCAAUGAUGCGUACAAAAUGCAACAGC
.......((.((((((.(..(.((((((..((.....))....)))))))..).))))))))........((.(((((.....))))).)).. ( -21.70)
>DroAna_CAF1 293533 93 - 1
CGUCGCAUACACGAAGCGAAAGACAUGCCGACAUUUUGUAUCAGUGUGUGCACACUCCAUUGAGCCCCAAUGAUGCGUACAAAAUGCAACAGC
.((.((((((((((.((((((............)))))).)).))))))))))....(((((.....))))).(((((.....)))))..... ( -24.90)
>consensus
AAACACACACA_GGAGAGGACGACACGCCGACAUUUUGUAUCAGUGUGUGCACACUCCAUUGAGCCCCAAUGAUGCGUACAAAAUGCAACAGC
...............................((((((((((.(((((....))))).(((((.....)))))....))))))))))....... (-17.75 = -17.53 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:24:15 2006