Locus 6937

Sequence ID 2L_DroMel_CAF1
Location 19,307,463 – 19,307,561
Length 98
Max. P 0.898179
window11055 window11056

overview

Window 5

Location 19,307,463 – 19,307,561
Length 98
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.58
Mean single sequence MFE -39.83
Consensus MFE -32.52
Energy contribution -31.88
Covariance contribution -0.64
Combinations/Pair 1.14
Mean z-score -2.12
Structure conservation index 0.82
SVM decision value 1.00
SVM RNA-class probability 0.898179
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19307463 98 + 22407834
----------------------AGGCGUCCACUUGACAUCGCUCGAGUGUUCCGCUGGCGUGUUUAAGAUUAAAGCGCAGCGCCUUGCAACAAAAGUUGCAGUGACAAUGGGCGGCCAGC
----------------------.((....(((((((......)))))))..))((((((((((((.......))))))..(((((((((((....))))))........))))))))))) ( -38.30)
>DroVir_CAF1 873 111 + 1
--GG-------CAGCUGGUAGCUGACAGCCACUUGACAAUGCUCAAGUGUUCCGGUGGCAUGUUUAAGAUUAAAGCAUUGCGCCUUGCAACAAAAGUUGCACUGACAAUGGGCGGCCAGG
--((-------(.(((.....((((((((((((.((..((((....)))))).)))))).))))..)).....)))....(((((((((((....))))))........))))))))... ( -38.00)
>DroGri_CAF1 1204 120 + 1
CAGGCAGUUGGCAGUUGGCAGCUGGCAGCCACUUGACAAUGCUCAAGUGUUCCGCUGGCAUGUUUAAGAUUAAAGCAAUGCGCCUUGCAACAAAAGUUGCACUGACAAUGGGCGGCCGGG
..(.((((((.(....).)))))).)...(((((((......))))))).....(((((.(((((.......)))))...(((((((((((....))))))........)))))))))). ( -42.90)
>DroSec_CAF1 126 98 + 1
----------------------AGGCGACCACUUGACAUCGCUCGAGUGUUCCGCUGGCGUGUUUAAGAUUAAAGCGCUGCGCCUUGCAACAAAAGUUGCAAUGACAAUGGGCGGCCAGC
----------------------.((.(((.((((((......)))))))))))((((((((((((.......))))))..(((((((((((....))))))........))))))))))) ( -38.20)
>DroYak_CAF1 171 98 + 1
----------------------AGGCGGCCACUUGACAUCGCUCGAGUGUUCCGCUGGCGUGUUUAAGAUUAAAGCGCUGCGCCUUGCAACAAAAGUUGCAGUGACAAUGGGCGGCCAGC
----------------------.(((((.(((((((......)))))))..)))))(((((((((.......))))))..(((((((((((....))))))........))))))))... ( -38.90)
>DroMoj_CAF1 17830 118 + 1
--GGCAGUUGGCAGCUGGCAGCUGACAGCCACUUGACAAUGCUCAAGUGUUCCGCUGGCAUGUUUAAGAUUAAAGCAUUGCGCCUUGCAACAAAAGUUGCACUGACAAUGGGCGGCCAGG
--((..((((.((((.....)))).))))(((((((......)))))))..)).(((((((((((.......))))))..(((((((((((....))))))........)))))))))). ( -42.70)
>consensus
______________________AGGCAGCCACUUGACAACGCUCAAGUGUUCCGCUGGCAUGUUUAAGAUUAAAGCACUGCGCCUUGCAACAAAAGUUGCACUGACAAUGGGCGGCCAGC
.............................(((((((......))))))).....(((((((((((.......))))))..(((((((((((....))))))........)))))))))). (-32.52 = -31.88 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 19,307,463 – 19,307,561
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.58
Mean single sequence MFE -33.79
Consensus MFE -26.05
Energy contribution -24.88
Covariance contribution -1.17
Combinations/Pair 1.18
Mean z-score -1.22
Structure conservation index 0.77
SVM decision value 0.01
SVM RNA-class probability 0.540960
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19307463 98 - 22407834
GCUGGCCGCCCAUUGUCACUGCAACUUUUGUUGCAAGGCGCUGCGCUUUAAUCUUAAACACGCCAGCGGAACACUCGAGCGAUGUCAAGUGGACGCCU----------------------
((((((.((.((.((((..((((((....)))))).)))).)).))((((....))))...))))))((..((((.((......)).))))....)).---------------------- ( -31.20)
>DroVir_CAF1 873 111 - 1
CCUGGCCGCCCAUUGUCAGUGCAACUUUUGUUGCAAGGCGCAAUGCUUUAAUCUUAAACAUGCCACCGGAACACUUGAGCAUUGUCAAGUGGCUGUCAGCUACCAGCUG-------CC--
...((((((.....(((..((((((....)))))).)))(((((((((...(((.............)))......)))))))))...))))))..((((.....))))-------..-- ( -32.72)
>DroGri_CAF1 1204 120 - 1
CCCGGCCGCCCAUUGUCAGUGCAACUUUUGUUGCAAGGCGCAUUGCUUUAAUCUUAAACAUGCCAGCGGAACACUUGAGCAUUGUCAAGUGGCUGCCAGCUGCCAACUGCCAACUGCCUG
...(((.(....(((.(((((((((....)))))..(((((((.(.((((....))))))))).(((((..(((((((......)))))))....)).)))))).)))).)))).))).. ( -36.90)
>DroSec_CAF1 126 98 - 1
GCUGGCCGCCCAUUGUCAUUGCAACUUUUGUUGCAAGGCGCAGCGCUUUAAUCUUAAACACGCCAGCGGAACACUCGAGCGAUGUCAAGUGGUCGCCU----------------------
(((((((((....((((.(((((((....)))))))))))..))).((((....))))...))))))((..((((.((......)).))))....)).---------------------- ( -31.40)
>DroYak_CAF1 171 98 - 1
GCUGGCCGCCCAUUGUCACUGCAACUUUUGUUGCAAGGCGCAGCGCUUUAAUCUUAAACACGCCAGCGGAACACUCGAGCGAUGUCAAGUGGCCGCCU----------------------
((.((((((.(((((((..((((((....))))))...(((.(((.((((....))))..)))..)))........)).)))))....))))))))..---------------------- ( -30.80)
>DroMoj_CAF1 17830 118 - 1
CCUGGCCGCCCAUUGUCAGUGCAACUUUUGUUGCAAGGCGCAAUGCUUUAAUCUUAAACAUGCCAGCGGAACACUUGAGCAUUGUCAAGUGGCUGUCAGCUGCCAGCUGCCAACUGCC--
..((((.((.(((((((..((((((....))))))..).))))))...............((.((((.((.(((((((......)))))))....)).)))).)))).))))......-- ( -39.70)
>consensus
CCUGGCCGCCCAUUGUCAGUGCAACUUUUGUUGCAAGGCGCAGCGCUUUAAUCUUAAACACGCCAGCGGAACACUCGAGCAAUGUCAAGUGGCCGCCA______________________
...(((.(((..(((.((..(((((....)))))((((((...))))))...........(((...(((.....))).))).)).)))..))).)))....................... (-26.05 = -24.88 +  -1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:18 2006