Locus 5044

Sequence ID 2L_DroMel_CAF1
Location 14,469,621 – 14,469,750
Length 129
Max. P 0.852086
window8016 window8017 window8018

overview

Window 6

Location 14,469,621 – 14,469,728
Length 107
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 85.19
Mean single sequence MFE -32.20
Consensus MFE -23.81
Energy contribution -23.88
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -2.00
Structure conservation index 0.74
SVM decision value 0.79
SVM RNA-class probability 0.852086
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14469621 107 + 22407834
--ACUGAUAAGGGAAAUUGGAGGGAGUGGUAAGAAGCUGCAGCUAACUGACAUUUGACUGUCAGAUGCUGUUGGCUCUCAUUCGUUAAUGUCAGGGCCAAGAGUUAAUC
--.((((((.(..((((.(.((..(((.(((......))).)))..))..)))))..)))))))..(((.((((((((((((....))))..)))))))).)))..... ( -29.50)
>DroSec_CAF1 56789 107 + 1
--ACAGAUAAGGGAAAUUGGAGGGAGUGGUAAGAAGCUGCAGCUAACUGACAUUUGACUGUCAGAUGCUGUUGGCUCUCAUUCGUUAAUGUCAGGGCCAAGAGUUAAUC
--..............((((..(.(((........))).)..))))((((((......))))))..(((.((((((((((((....))))..)))))))).)))..... ( -28.60)
>DroWil_CAF1 180234 109 + 1
AGAAAGAGCGAGUCAGAUAGAGAAAGAGCCAAAGAACAGCAGCUAACUGACAUUUGACUGUCAGAUGCUGUUGGCUCUCAUUCGUUAAUGUCAGAGGCAAGAGUUAAUC
.....((..((.((.....(((..(((((((....((((((.....((((((......)))))).)))))))))))))..))).....(((.....))).)).))..)) ( -31.30)
>DroAna_CAF1 47477 107 + 1
--ACAGACUGGGGCAAGGGCAGAAAGCGGUAAAGAGCUGCAGCUAACUGACAUUUGACUGUCAGACGCUGUUGGCUCUCAUUCGUUAAUGUCAGAGCCAAGAGUUAAUC
--...((((..(((...((((...(((((...(((((((((((...((((((......))))))..)))).)))))))...)))))..))))...)))...)))).... ( -39.40)
>consensus
__ACAGAUAAGGGAAAUUGGAGAAAGUGGUAAAAAGCUGCAGCUAACUGACAUUUGACUGUCAGAUGCUGUUGGCUCUCAUUCGUUAAUGUCAGAGCCAAGAGUUAAUC
..................................(((((((((...((((((......))))))..)))))(((((((((((....))))..)))))))..)))).... (-23.81 = -23.88 +   0.06)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,469,621 – 14,469,728
Length 107
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 85.19
Mean single sequence MFE -25.00
Consensus MFE -21.30
Energy contribution -22.05
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.85
SVM decision value 0.59
SVM RNA-class probability 0.793030
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14469621 107 - 22407834
GAUUAACUCUUGGCCCUGACAUUAACGAAUGAGAGCCAACAGCAUCUGACAGUCAAAUGUCAGUUAGCUGCAGCUUCUUACCACUCCCUCCAAUUUCCCUUAUCAGU--
(((......(((((.((..((((....)))))).)))))((((..((((((......))))))...))))...............................)))...-- ( -21.30)
>DroSec_CAF1 56789 107 - 1
GAUUAACUCUUGGCCCUGACAUUAACGAAUGAGAGCCAACAGCAUCUGACAGUCAAAUGUCAGUUAGCUGCAGCUUCUUACCACUCCCUCCAAUUUCCCUUAUCUGU--
.........(((((.((..((((....)))))).)))))((((..((((((......))))))...)))).....................................-- ( -20.90)
>DroWil_CAF1 180234 109 - 1
GAUUAACUCUUGCCUCUGACAUUAACGAAUGAGAGCCAACAGCAUCUGACAGUCAAAUGUCAGUUAGCUGCUGUUCUUUGGCUCUUUCUCUAUCUGACUCGCUCUUUCU
..........................((..((((((((((((((.((((((......)))))).....))))))....))))))))..))................... ( -28.70)
>DroAna_CAF1 47477 107 - 1
GAUUAACUCUUGGCUCUGACAUUAACGAAUGAGAGCCAACAGCGUCUGACAGUCAAAUGUCAGUUAGCUGCAGCUCUUUACCGCUUUCUGCCCUUGCCCCAGUCUGU--
.....(((...(((...(.((..((((...((((((...((((..((((((......))))))...))))..))))))...)).))..)).)...)))..)))....-- ( -29.10)
>consensus
GAUUAACUCUUGGCCCUGACAUUAACGAAUGAGAGCCAACAGCAUCUGACAGUCAAAUGUCAGUUAGCUGCAGCUCCUUACCACUCCCUCCAAUUGCCCCUAUCUGU__
.........((((((((..((((....))))))))))))((((..((((((......))))))...))))....................................... (-21.30 = -22.05 +   0.75)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,469,657 – 14,469,750
Length 93
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 94.43
Mean single sequence MFE -27.78
Consensus MFE -23.17
Energy contribution -23.17
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.83
SVM decision value 0.70
SVM RNA-class probability 0.827181
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14469657 93 + 22407834
GCAGCUAACUGACAUU-UGACUGUCAGAUGCUGUUGGCUCUCAUUCGUUAAUGUCAGGGCCAAGAGUUAAUCUCGCGUGCAUUUCGAAAGAGCC
(((((...((((((..-....))))))..))))).((((((..((((..(((((..(.((...(((.....))))).)))))).)))))))))) ( -31.50)
>DroPse_CAF1 76518 93 + 1
GCAGCUAACUGACAUU-UGACUGUCAGAUGCUGUUGGCUCUCAUUCGUUAAUGUCAGAGGCAAGAGUUAAUCUCGCGUGCAUUUCAAAACAACA
(((((...((((((..-....))))))..(((.(((.((((((((....))))..)))).))).))).......)).))).............. ( -24.90)
>DroSec_CAF1 56825 93 + 1
GCAGCUAACUGACAUU-UGACUGUCAGAUGCUGUUGGCUCUCAUUCGUUAAUGUCAGGGCCAAGAGUUAAUCUCGCGUGCAUUUCGAAAGAGCC
(((((...((((((..-....))))))..))))).((((((..((((..(((((..(.((...(((.....))))).)))))).)))))))))) ( -31.50)
>DroWil_CAF1 180272 93 + 1
GCAGCUAACUGACAUU-UGACUGUCAGAUGCUGUUGGCUCUCAUUCGUUAAUGUCAGAGGCAAGAGUUAAUCUCGCGUGCAUUUCACAACAGUC
........((((((..-....))))))..(((((((.((((((((....))))..))))(((.(((.....)))...)))......))))))). ( -26.00)
>DroAna_CAF1 47513 93 + 1
GCAGCUAACUGACAUU-UGACUGUCAGACGCUGUUGGCUCUCAUUCGUUAAUGUCAGAGCCAAGAGUUAAUCUCGCGUGCAUUUCAAAACAACG
(((((...((((((..-....))))))..(((.((((((((((((....))))..)))))))).))).......)).))).............. ( -29.60)
>DroPer_CAF1 62361 94 + 1
GCAGCUAACUGACAUUUUGACUGUCAGAUGCUGUUGGCUCUCAUUCGUUAAUGUCAGAAGCAAGAGUUAAUCUCGCGUGCAUUUCAAAACAACA
(((((...((((((((.(((.((..(((.((.....))))))).)))..))))))))......(((.....))))).))).............. ( -23.20)
>consensus
GCAGCUAACUGACAUU_UGACUGUCAGAUGCUGUUGGCUCUCAUUCGUUAAUGUCAGAGCCAAGAGUUAAUCUCGCGUGCAUUUCAAAACAACC
(((((...((((((((.(((..(((((......)))))..)))......))))))))......(((.....))))).))).............. (-23.17 = -23.17 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:24 2006