Locus 3396

Sequence ID 2R_DroMel_CAF1
Location 11,477,522 – 11,477,682
Length 160
Max. P 0.934129
window5549 window5550

overview

Window 9

Location 11,477,522 – 11,477,642
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.83
Mean single sequence MFE -38.13
Consensus MFE -21.39
Energy contribution -21.65
Covariance contribution 0.26
Combinations/Pair 1.46
Mean z-score -1.63
Structure conservation index 0.56
SVM decision value 0.30
SVM RNA-class probability 0.676612
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11477522 120 - 20766785
CUGGCAGUCCAAAGCCACAUAUUUACUGGCAGAGGGAUAAUACCCUACUGCCCAUCGAGGGCACCAAGUACCAGUAUGAGGAGCAAAGCGACGGAAUAAAACUCCUAACCAUUAACAACU
.((((........))))((((((((((((.((((((......)))).))((((.....)))).)).))))..))))))(((((..................))))).............. ( -30.27)
>DroVir_CAF1 33816 120 - 1
CGGGCAGCCCCAAGCCGCAUAUCUCCUGGCAGCGGGACAAUACCCUGCUGCCCCUCGAAACAGCUAAGUACGAGUACGCGGAGCACAGCGAUGGCAUCAAGCAGCUGAGCAUCACAUCCU
.(((....)))...((((.........(((((((((.......))))))))).((((..((......)).))))...)))).((.((((....((.....)).)))).)).......... ( -42.60)
>DroPse_CAF1 17257 120 - 1
CGGGAAGCCCAAAGCCACACAUCUACUGGCAGCGGGACAACACCUUGCUGCCGCUGGAGAGCAAAAAGUACCAGUAUGCCGAGCAGAGUGACGGCGUAAAGCUCCUGACCAUAGCGAACU
(((((.((.....(((.(((.(((.(((((((((((.......)))))))))(((((...((.....)).)))))......)).))))))..))).....)))))))............. ( -40.30)
>DroGri_CAF1 27999 120 - 1
CGGGCAGCCCCAAGCCAAACAUCUACUGGCAACGGGAUAAUAGCCUGUUGCCCGUCGAUACCGCCAAGUAUCAAUAUGCCGAGCAAAGCGAUGGUGUCAAACAGCUGACCAUAACAUCCU
.((.((((................((.(((((((((.......))))))))).)).(((((((.(..((((....))))...((...))).))))))).....)))).)).......... ( -34.20)
>DroAna_CAF1 18192 120 - 1
CGGGCAGUCCCAAGCCCAAAAUCUACUGGCAGAGGGAUAACACUCUUCUGCCGCUGGAGAGUCCCAAGUACCAGUUCUCCGAGCAGGCUGACGGCACGAAGCUCCUGACCAUUGCCCAGU
.((((((((...((((...........(((((((((.......)))))))))(((((((((.............)))))).))).)))))))((((.(.....).)).))..)))))... ( -44.42)
>DroPer_CAF1 17268 120 - 1
CGGGAAGCCCAAAGCCACACAUCUACUGGCAGCGGGACAACACCUUGCUGCCGCUGGAGAGCAAAAAGUACCAGUAUGCCGAGCAGAGUGACGGCGUAAAUCUCCUGACCAUAGCGAACU
(((((........(((.(((.(((.(((((((((((.......)))))))))(((((...((.....)).)))))......)).))))))..))).......)))))............. ( -36.96)
>consensus
CGGGCAGCCCAAAGCCACACAUCUACUGGCAGCGGGACAACACCCUGCUGCCCCUCGAGAGCACCAAGUACCAGUAUGCCGAGCAGAGCGACGGCAUAAAGCUCCUGACCAUAACAAACU
((((.(((.....(((...........(((((((((.......))))))))).....................((.(((........)))))))).....)))))))............. (-21.39 = -21.65 +   0.26)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 11,477,562 – 11,477,682
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.28
Mean single sequence MFE -37.30
Consensus MFE -23.41
Energy contribution -23.00
Covariance contribution -0.41
Combinations/Pair 1.50
Mean z-score -1.80
Structure conservation index 0.63
SVM decision value 1.23
SVM RNA-class probability 0.934129
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11477562 120 - 20766785
CAUUCCCAGGGUAACCAGCUCACAUUGGAGUGCAAGGUAUCUGGCAGUCCAAAGCCACAUAUUUACUGGCAGAGGGAUAAUACCCUACUGCCCAUCGAGGGCACCAAGUACCAGUAUGAG
........((....))..((((.(((((.((((.((((((.((((........)))).))))))...(((((((((......)))).)))))........))))......))))).)))) ( -37.70)
>DroVir_CAF1 33856 120 - 1
CAUUCCCAAGAAAAUCGACUUGUACUCGAGUGCAAGGUCUCGGGCAGCCCCAAGCCGCAUAUCUCCUGGCAGCGGGACAAUACCCUGCUGCCCCUCGAAACAGCUAAGUACGAGUACGCG
...............((((((((((((((((((..((.((.(((....))).)))))))........(((((((((.......))))))))).))))).........)))))))).)).. ( -40.60)
>DroGri_CAF1 28039 120 - 1
CAUUCCCAAGACAAUCAAUUAACACUUGAAUGCAAGGUCUCGGGCAGCCCCAAGCCAAACAUCUACUGGCAACGGGAUAAUAGCCUGUUGCCCGUCGAUACCGCCAAGUAUCAAUAUGCC
.......................(((((...((..((.((.(((....))).))))....(((.((.(((((((((.......))))))))).)).)))...)))))))........... ( -31.70)
>DroMoj_CAF1 26660 120 - 1
CAUUCCCAAGACAAUCGCCUUACGCUCGAGUGCAAAGUGUCCGGCAGUCCCAAGCCAAGCAUUUACUGGCAGCGAGAUAACACACUGCUGCCCCUGGAUACGGCCAAAUAUGAAUAUGCC
................(((....((......))...(((((((((........)))...........((((((.((........))))))))...)))))))))................ ( -31.60)
>DroAna_CAF1 18232 120 - 1
CAUUCCCAGGCCAAUCAGCUGGCUUUAGAGUGCAAGGUUUCGGGCAGUCCCAAGCCCAAAAUCUACUGGCAGAGGGAUAACACUCUUCUGCCGCUGGAGAGUCCCAAGUACCAGUUCUCC
(((((..((((((......))))))..)))))..((((((.((((........)))).))))))...(((((((((.......)))))))))...((((((.............)))))) ( -41.92)
>DroPer_CAF1 17308 120 - 1
CAUUCACAGGGCAAUAGCCUCACGCUGGAGUGCAAGGUAUCGGGAAGCCCAAAGCCACACAUCUACUGGCAGCGGGACAACACCUUGCUGCCGCUGGAGAGCAAAAAGUACCAGUAUGCC
........((((....))))((..((((.(((...(((...(((...)))...))).)))...(((((((((((((.......)))))))))(((....)))....))))))))..)).. ( -40.30)
>consensus
CAUUCCCAAGACAAUCAACUCACACUCGAGUGCAAGGUAUCGGGCAGCCCCAAGCCAAACAUCUACUGGCAGCGGGAUAACACCCUGCUGCCCCUCGAGACCGCCAAGUACCAGUAUGCC
.............................((((.((((((..(((........)))..))))))...(((((((((.......)))))))))...............))))......... (-23.41 = -23.00 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:32 2006