Locus 3908

Sequence ID 2L_DroMel_CAF1
Location 11,419,108 – 11,419,208
Length 100
Max. P 0.947979
window6160 window6161

overview

Window 0

Location 11,419,108 – 11,419,208
Length 100
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 77.18
Mean single sequence MFE -30.47
Consensus MFE -14.62
Energy contribution -16.54
Covariance contribution 1.92
Combinations/Pair 1.15
Mean z-score -2.44
Structure conservation index 0.48
SVM decision value 1.22
SVM RNA-class probability 0.931870
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11419108 100 + 22407834
---GUGGUACAGCAAGUGC-AUGUGUGUGU-----G--------UACACACUGCCUUUCUGGACAUUUGCUUUAUGUCUUGUCACAUUUUUAUGGCCAUGGUCCAGAGUCGCCUUAU
---..(((((...(((.((-(.((((((..-----.--------.))))))))))))(((((((....(((..((((......))))......)))....))))))))).))).... ( -30.40)
>DroSec_CAF1 136696 99 + 1
----UGGUACAGCAAGUGC-AUGUGUGUGU-----A--------UACACACUACCUUUCUGGACAUUUGCUUUAUGUUUUGUCACAUUUUUAUGGUCAUGGCCAAGAGUCGCCUUAU
----.(((((((((((((.-..((((((..-----.--------.))))))..((.....)).)))))))).....................((((....))))...)).))).... ( -25.00)
>DroSim_CAF1 143494 99 + 1
----UGGUACAGCAAGUGC-AUGUGUGUGU-----A--------UACACACUACCUUUCUGGACAUUUGCUUUAUGUCUUGUCACAUUUUUAUGGCCAUGGCCCAGAGUCGCCUUAU
----.((((..((....))-..((((((..-----.--------.)))))))))).(((((((((...((.....))..))))..........(((....))))))))......... ( -25.20)
>DroEre_CAF1 144435 105 + 1
---UUGGUAGAGCAAGUGC-AUGUGUAUAUAUGGUA--------UACACACUACCUUUCUGGACAUUUGCUUUAUGUGUUGUCACAUUUUUAUGGCCGUGGCCCAGGGCCGCCUUAU
---..(((((((((((((.-.(((((((((...)))--------))))))...((.....)).))))))))))(((((....))))).......)))((((((...))))))..... ( -36.30)
>DroYak_CAF1 141296 113 + 1
---AGGGUAGAGCAAGUGC-AUGUGUGUAUAAGCUGUAUACUCGUACACACUACCUUUCCGGGCAUUUGCUUUAUGUCGUGUCACAUUUUUAUGGCCAUGGCCCAGAGCCGCCUUAU
---.(((((((((((((((-..(((((((..((.......))..)))))))..((.....)))))))))))))))((((((.(.(((....)))).))))))))............. ( -39.30)
>DroPer_CAF1 165705 83 + 1
CCUGUCCCACAGCAAGUGCCGUGUGUCUGU-----G-------------------UGUUUAGACAUUUGCUUUAUGUCUUGUCACAUUU-UAUGGCCU---------GUGGCCGUAU
......((((((.....((((((.....((-----(-------------------((...((((((.......))))))...)))))..-))))))))---------))))...... ( -26.60)
>consensus
____UGGUACAGCAAGUGC_AUGUGUGUGU_____A________UACACACUACCUUUCUGGACAUUUGCUUUAUGUCUUGUCACAUUUUUAUGGCCAUGGCCCAGAGUCGCCUUAU
......(((.((((((((....(((((((...............)))))))..((.....)).)))))))).)))..................(((...(((.....)))))).... (-14.62 = -16.54 +   1.92)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,419,108 – 11,419,208
Length 100
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 77.18
Mean single sequence MFE -27.02
Consensus MFE -12.45
Energy contribution -13.70
Covariance contribution 1.25
Combinations/Pair 1.09
Mean z-score -2.59
Structure conservation index 0.46
SVM decision value 1.38
SVM RNA-class probability 0.947979
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11419108 100 - 22407834
AUAAGGCGACUCUGGACCAUGGCCAUAAAAAUGUGACAAGACAUAAAGCAAAUGUCCAGAAAGGCAGUGUGUA--------C-----ACACACACAU-GCACUUGCUGUACCAC---
....(((...(((((((....((.......((((......))))...))....)))))))((((((((((((.--------.-----..)))))).)-)).)))))).......--- ( -28.00)
>DroSec_CAF1 136696 99 - 1
AUAAGGCGACUCUUGGCCAUGACCAUAAAAAUGUGACAAAACAUAAAGCAAAUGUCCAGAAAGGUAGUGUGUA--------U-----ACACACACAU-GCACUUGCUGUACCA----
....(((........)))............((((......)))).........((.(((.((((((((((((.--------.-----..)))))).)-)).))).))).))..---- ( -21.30)
>DroSim_CAF1 143494 99 - 1
AUAAGGCGACUCUGGGCCAUGGCCAUAAAAAUGUGACAAGACAUAAAGCAAAUGUCCAGAAAGGUAGUGUGUA--------U-----ACACACACAU-GCACUUGCUGUACCA----
....(((...(((((((....)))...............(((((.......)))))))))((((((((((((.--------.-----..)))))).)-)).))))))......---- ( -26.50)
>DroEre_CAF1 144435 105 - 1
AUAAGGCGGCCCUGGGCCACGGCCAUAAAAAUGUGACAACACAUAAAGCAAAUGUCCAGAAAGGUAGUGUGUA--------UACCAUAUAUACACAU-GCACUUGCUCUACCAA---
....(((((((...))))...)))......(((((....)))))..(((((.(((((.....))..(((((((--------((.....)))))))))-))).))))).......--- ( -28.30)
>DroYak_CAF1 141296 113 - 1
AUAAGGCGGCUCUGGGCCAUGGCCAUAAAAAUGUGACACGACAUAAAGCAAAUGCCCGGAAAGGUAGUGUGUACGAGUAUACAGCUUAUACACACAU-GCACUUGCUCUACCCU---
...(((.((((((((((....((.......((((......))))...))....)))))))(((((((((((((..(((.....)))..))))))).)-)).))))))....)))--- ( -34.00)
>DroPer_CAF1 165705 83 - 1
AUACGGCCAC---------AGGCCAUA-AAAUGUGACAAGACAUAAAGCAAAUGUCUAAACA-------------------C-----ACAGACACACGGCACUUGCUGUGGGACAGG
....((((..---------.))))...-...((((...((((((.......))))))...))-------------------)-----)......((((((....))))))....... ( -24.00)
>consensus
AUAAGGCGACUCUGGGCCAUGGCCAUAAAAAUGUGACAAGACAUAAAGCAAAUGUCCAGAAAGGUAGUGUGUA________C_____ACACACACAU_GCACUUGCUGUACCA____
....(((..............)))......((((......))))..(((((.(((((.....))..((((((.................))))))...))).))))).......... (-12.45 = -13.70 +   1.25)

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 11:04:28 2006