Locus 8353

Sequence ID 3L_DroMel_CAF1
Location 21,922,345 – 21,922,457
Length 112
Max. P 0.767466
window13666 window13667 window13668

overview

Window 6

Location 21,922,345 – 21,922,440
Length 95
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 79.37
Mean single sequence MFE -26.68
Consensus MFE -15.47
Energy contribution -14.37
Covariance contribution -1.10
Combinations/Pair 1.54
Mean z-score -1.86
Structure conservation index 0.58
SVM decision value 0.38
SVM RNA-class probability 0.712865
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21922345 95 + 23771897
GUU-UGUUUGUAUGUCGGUUUCAGUUUGCGGAAAUGGUUUUGCAUUUUGCAUUUGCUGCCAUUGCAACUGCAACUGCAACACCGAGCUGCAAGUUC
...-..((((((..((((((((((((.((((.((((((...(((.........))).))))))....))))))))).)).)))))..))))))... ( -29.60)
>DroSec_CAF1 43159 95 + 1
GUU-UGUUUGUCUGUCGGUUUCAGCUUGCGGAAAUUGUUUUGCAUUUUGCAUUUGCUGGCAUUGCAACUGCAACUGCAACACCGAGCUGCAAGUUC
...-..................(((((((((.....((.(((((..(((((.((((.......)))).))))).))))).))....))))))))). ( -27.80)
>DroSim_CAF1 43481 95 + 1
GUU-UGUUUGUCUGUCGGUUUCAGCUUGCGGAAAUUGUUUUGCAUUUUGCAUUUGCUGGCAUUGCAACUGCAACUGCAACACCGAGCUGCAAGUUC
...-..................(((((((((.....((.(((((..(((((.((((.......)))).))))).))))).))....))))))))). ( -27.80)
>DroEre_CAF1 44183 94 + 1
GUU-UGUUUGUCUGUCGGCUUCAGCUUGCGGAAAUUGUUUUGCAUUUUGCAUUG-CUGCCAUUGCAAUUGCAACUGCAACACCGAGCUGCAAGUUC
...-.....(((....)))...(((((((((.....((.(((((..((((((((-(.......)))).))))).))))).))....))))))))). ( -27.80)
>DroYak_CAF1 51347 95 + 1
GUU-UGUCUGUCUGUCGGCUUCAGCUUGCGGAAAUUGUUUUGCAUUUUGCAUUGGUUGCCAUCGCAACUGCGACUGCAAUAUCGAGCUGCAAGUUC
...-.....(((....)))...(((((((((...(((..(((((..(((((...(((((....)))))))))).)))))...))).))))))))). ( -29.10)
>DroMoj_CAF1 61033 77 + 1
GUUCUGCUUGUUUGCCAUGCCCAUUUUGCGAGAAUUGUUUUGUAUUUUGCAACUGUU------------------AUAGAAGCGGGUGGCAAUU-U
...........(((((..((((...((((((((((......)).))))))))..(((------------------.....))))))))))))..-. ( -18.00)
>consensus
GUU_UGUUUGUCUGUCGGUUUCAGCUUGCGGAAAUUGUUUUGCAUUUUGCAUUUGCUGCCAUUGCAACUGCAACUGCAACACCGAGCUGCAAGUUC
..........(((((.(((....))).)))))......((((((.((((...((((.....((((....))))..))))...)))).))))))... (-15.47 = -14.37 +  -1.10)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,922,345 – 21,922,440
Length 95
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 79.37
Mean single sequence MFE -23.14
Consensus MFE -11.24
Energy contribution -12.70
Covariance contribution 1.46
Combinations/Pair 1.32
Mean z-score -2.38
Structure conservation index 0.49
SVM decision value 0.52
SVM RNA-class probability 0.767466
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21922345 95 - 23771897
GAACUUGCAGCUCGGUGUUGCAGUUGCAGUUGCAAUGGCAGCAAAUGCAAAAUGCAAAACCAUUUCCGCAAACUGAAACCGACAUACAAACA-AAC
....(((....(((((....(((((((.(((((....)))))...(((.....)))...........)).)))))..)))))....)))...-... ( -24.20)
>DroSec_CAF1 43159 95 - 1
GAACUUGCAGCUCGGUGUUGCAGUUGCAGUUGCAAUGCCAGCAAAUGCAAAAUGCAAAACAAUUUCCGCAAGCUGAAACCGACAGACAAACA-AAC
...(((((.(((.((((((((((......)))))))))))))...(((.....)))...........)))))(((.......))).......-... ( -26.50)
>DroSim_CAF1 43481 95 - 1
GAACUUGCAGCUCGGUGUUGCAGUUGCAGUUGCAAUGCCAGCAAAUGCAAAAUGCAAAACAAUUUCCGCAAGCUGAAACCGACAGACAAACA-AAC
...(((((.(((.((((((((((......)))))))))))))...(((.....)))...........)))))(((.......))).......-... ( -26.50)
>DroEre_CAF1 44183 94 - 1
GAACUUGCAGCUCGGUGUUGCAGUUGCAAUUGCAAUGGCAG-CAAUGCAAAAUGCAAAACAAUUUCCGCAAGCUGAAGCCGACAGACAAACA-AAC
...(((.((((((((((((((.(((((....))))).))))-)).(((.....))).........)))..))))))))..............-... ( -27.10)
>DroYak_CAF1 51347 95 - 1
GAACUUGCAGCUCGAUAUUGCAGUCGCAGUUGCGAUGGCAACCAAUGCAAAAUGCAAAACAAUUUCCGCAAGCUGAAGCCGACAGACAGACA-AAC
....((((((((((((......)))).))))))))((((......(((.....))).......((((....)..)))))))...........-... ( -22.40)
>DroMoj_CAF1 61033 77 - 1
A-AAUUGCCACCCGCUUCUAU------------------AACAGUUGCAAAAUACAAAACAAUUCUCGCAAAAUGGGCAUGGCAAACAAGCAGAAC
.-..((((((((((((.....------------------...)))(((...................)))....)))..))))))........... ( -12.11)
>consensus
GAACUUGCAGCUCGGUGUUGCAGUUGCAGUUGCAAUGGCAGCAAAUGCAAAAUGCAAAACAAUUUCCGCAAGCUGAAACCGACAGACAAACA_AAC
....(((....(((((....(((((((.((((......))))...(((.....)))...........)).)))))..)))))....)))....... (-11.24 = -12.70 +   1.46)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,922,362 – 21,922,457
Length 95
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 79.85
Mean single sequence MFE -27.06
Consensus MFE -16.20
Energy contribution -16.47
Covariance contribution 0.27
Combinations/Pair 1.35
Mean z-score -1.92
Structure conservation index 0.60
SVM decision value 0.49
SVM RNA-class probability 0.756300
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21922362 95 + 23771897
UUUCAGUUUGCGGAAAUGGUUUUGCAUUUUGCAUUUGCUGCCAUUGCAACUGCAACUGCAACACCGAGCUGCAAGUUCUGUGCAAGUUCUGUUUA
...((((((((((...((((.(((((..(((((.((((.......)))).))))).))))).))))..)))))))..)))............... ( -29.50)
>DroSec_CAF1 43176 95 + 1
UUUCAGCUUGCGGAAAUUGUUUUGCAUUUUGCAUUUGCUGGCAUUGCAACUGCAACUGCAACACCGAGCUGCAAGUUCUGUGUGCGCCCUGUUUA
....(((((((((.....((.(((((..(((((.((((.......)))).))))).))))).))....))))))))).................. ( -27.80)
>DroSim_CAF1 43498 95 + 1
UUUCAGCUUGCGGAAAUUGUUUUGCAUUUUGCAUUUGCUGGCAUUGCAACUGCAACUGCAACACCGAGCUGCAAGUUCUGUGUGCGCCCUGUUUA
....(((((((((.....((.(((((..(((((.((((.......)))).))))).))))).))....))))))))).................. ( -27.80)
>DroEre_CAF1 44200 92 + 1
CUUCAGCUUGCGGAAAUUGUUUUGCAUUUUGCAUUG-CUGCCAUUGCAAUUGCAACUGCAACACCGAGCUGCAAGUUCU--GUGCGCCCUGUUUA
....(((((((((.....((.(((((..((((((((-(.......)))).))))).))))).))....)))))))))..--.............. ( -26.80)
>DroYak_CAF1 51364 95 + 1
CUUCAGCUUGCGGAAAUUGUUUUGCAUUUUGCAUUGGUUGCCAUCGCAACUGCGACUGCAAUAUCGAGCUGCAAGUUCCGUGUGAGCCCUGUUUA
.....((((((((((.....((((((.((((.....(((((..((((....))))..)))))..)))).))))))))))))..))))........ ( -28.30)
>DroAna_CAF1 50578 87 + 1
UCUUAGUUAGUUGAAAUU-UGCUGGAU-UUGCUGUAGCUGUUGUUGCAACAGAAAGCGGAA-----AGUGGCAAGGGCG-GGGGCGGAUUGUUUA
.......((((.......-.))))(((-(((((.(.(((.((((..(..............-----.)..)))).))).-).))))))))..... ( -22.16)
>consensus
UUUCAGCUUGCGGAAAUUGUUUUGCAUUUUGCAUUUGCUGCCAUUGCAACUGCAACUGCAACACCGAGCUGCAAGUUCUGUGUGCGCCCUGUUUA
....(((((((((.....((.(((((..(((((...((.......))...))))).))))).))....))))))))).................. (-16.20 = -16.47 +   0.27)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:13:19 2006