Locus 3601

Sequence ID 2L_DroMel_CAF1
Location 10,480,624 – 10,480,766
Length 142
Max. P 0.998997
window5686 window5687 window5688

overview

Window 6

Location 10,480,624 – 10,480,728
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.15
Mean single sequence MFE -31.96
Consensus MFE -27.00
Energy contribution -27.56
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -3.05
Structure conservation index 0.84
SVM decision value 3.32
SVM RNA-class probability 0.998997
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10480624 104 + 22407834
----------------CCUGUUUUAUUAUGGACUUUUGUCUAUGUUUGCUUCCUGGCUAGAACAUAUUGGCUGGUAGACCAGUAACCAACAAAAUACUACUGGUUCGCAGCCAAUUUUGU
----------------..(((((((.(((((((....)))))))...(((....)))))))))).(((((((.(..((((((((.............))))))))..))))))))..... ( -33.32)
>DroSec_CAF1 8767 118 + 1
-CAUGGCACCU-CCUACCUGUUUUAUUAUGGACUUUUGUCCAUGUUUGCUUCCUGGCUAGAACAUAUUGCCUGGUAGACCAGUAAUUAACAAAAUACUGCUGGUUCGAAGCCAAUUUUGU
-..((((....-.((((((((((((.(((((((....)))))))...(((....))))))))))........)))))(((((((.............))))))).....))))....... ( -33.42)
>DroSim_CAF1 9095 119 + 1
-CAUGGCACCUUCUUACCUGUUUUAUUAUGGACUUUUGUCUAUGUUUGCUUCCUGGCUAGAACAUAUUGGCUGGUAGACCAGUAAUUAACAAAAUACUGCUGGUUCGAAGCCAAUUUUGU
-..(((((((..((....(((((((.(((((((....)))))))...(((....))))))))))....))..))).((((((((.............))))))))....))))....... ( -32.02)
>DroEre_CAF1 12636 117 + 1
ACAUGUUACCU-CCUACCUGUUUUAUUA--GACUUUUGUCUAUGUUUGCUUUCUGGCUAGAACAUAUUGGCUGGUAGACCAGUAACUAACAGAAUUCUGCUGGUUCGAAGCCAAUUUUGU
..(((((....-((.....((.....((--(((....))))).....)).....))....)))))(((((((....((((((((.............))))))))...)))))))..... ( -29.42)
>DroYak_CAF1 9477 119 + 1
ACAUAGCACCU-CCUACCUGUUUAAUUAUGGACUUUUGUCUAUGUUUGCUUCCUGGCUAAAACCUAUUGGCUGUUGGACCAGUAACUAACACAAUUCUGCUGGUUCAAAGCCAAUUUUGU
...........-.......((((...(((((((....)))))))...(((....)))..))))..(((((((.(((((((((((.............))))))))))))))))))..... ( -31.62)
>consensus
_CAUGGCACCU_CCUACCUGUUUUAUUAUGGACUUUUGUCUAUGUUUGCUUCCUGGCUAGAACAUAUUGGCUGGUAGACCAGUAACUAACAAAAUACUGCUGGUUCGAAGCCAAUUUUGU
..................(((((((.(((((((....)))))))...(((....)))))))))).(((((((....((((((((.............))))))))...)))))))..... (-27.00 = -27.56 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 10,480,648 – 10,480,766
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.52
Mean single sequence MFE -30.77
Consensus MFE -23.74
Energy contribution -24.22
Covariance contribution 0.48
Combinations/Pair 1.06
Mean z-score -2.09
Structure conservation index 0.77
SVM decision value 0.97
SVM RNA-class probability 0.892844
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10480648 118 + 22407834
UAUGUUUGCUUCCUGGCUAGAACAUAUUGGCUGGUAGACCAGUAACCAACAAAAUACUACUGGUUCGCAGCCAAUUUUGUAGUUUUU--GUUUUCCUUUUAGUGUGCAACAAGGAAAAAA
((((((((((....)))..)))))))((((((.(..((((((((.............))))))))..))))))).............--.((((((((...((.....)))))))))).. ( -32.82)
>DroSec_CAF1 8805 120 + 1
CAUGUUUGCUUCCUGGCUAGAACAUAUUGCCUGGUAGACCAGUAAUUAACAAAAUACUGCUGGUUCGAAGCCAAUUUUGUAGUUUUUGUGUUUUCCUUUUCGUGUGCAACAAGGAAAAAC
.(((((((((....)))..))))))(((((.(((....))))))))..((((((.(((((((((.....)))).....))))))))))).((((((((...((.....)))))))))).. ( -27.80)
>DroSim_CAF1 9134 119 + 1
UAUGUUUGCUUCCUGGCUAGAACAUAUUGGCUGGUAGACCAGUAAUUAACAAAAUACUGCUGGUUCGAAGCCAAUUUUGUAGUUUUUGUGUUUUCCUUUUCGUGUGCAACAAGGAA-AAC
((((((((((....)))..)))))))...(((((....))))).....((((((.(((((((((.....)))).....)))))))))))(((((((((...((.....))))))))-))) ( -32.00)
>DroEre_CAF1 12673 117 + 1
UAUGUUUGCUUUCUGGCUAGAACAUAUUGGCUGGUAGACCAGUAACUAACAGAAUUCUGCUGGUUCGAAGCCAAUUUUGUAAUUUUU--GUUUUCCUUUUCAUGUGCAACAAGGAA-AAC
((((((((((....)))..)))))))((((((....((((((((.............))))))))...)))))).............--(((((((((............))))))-))) ( -30.82)
>DroYak_CAF1 9516 117 + 1
UAUGUUUGCUUCCUGGCUAAAACCUAUUGGCUGUUGGACCAGUAACUAACACAAUUCUGCUGGUUCAAAGCCAAUUUUGUAGUUUUU--GUUUUCCUUUUCGUGUGCAACAAGGAU-AAC
..............(((((......(((((((.(((((((((((.............))))))))))))))))))....)))))...--(((.(((((...((.....))))))).-))) ( -30.42)
>consensus
UAUGUUUGCUUCCUGGCUAGAACAUAUUGGCUGGUAGACCAGUAACUAACAAAAUACUGCUGGUUCGAAGCCAAUUUUGUAGUUUUU__GUUUUCCUUUUCGUGUGCAACAAGGAA_AAC
.(((((((((....)))..))))))(((((((....((((((((.............))))))))...))))))).................((((((...((.....)))))))).... (-23.74 = -24.22 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,480,648 – 10,480,766
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.52
Mean single sequence MFE -28.90
Consensus MFE -20.26
Energy contribution -20.46
Covariance contribution 0.20
Combinations/Pair 1.14
Mean z-score -2.61
Structure conservation index 0.70
SVM decision value 0.36
SVM RNA-class probability 0.702985
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10480648 118 - 22407834
UUUUUUCCUUGUUGCACACUAAAAGGAAAAC--AAAAACUACAAAAUUGGCUGCGAACCAGUAGUAUUUUGUUGGUUACUGGUCUACCAGCCAAUAUGUUCUAGCCAGGAAGCAAACAUA
..((((((((............)))))))).--............((((((((...((((((((...........))))))))....))))))))(((((...((......)).))))). ( -28.30)
>DroSec_CAF1 8805 120 - 1
GUUUUUCCUUGUUGCACACGAAAAGGAAAACACAAAAACUACAAAAUUGGCUUCGAACCAGCAGUAUUUUGUUAAUUACUGGUCUACCAGGCAAUAUGUUCUAGCCAGGAAGCAAACAUG
((((((((((.(((....))).)))))))).)).............((((((..((((.(((((....))))).....((((....)))).......)))).))))))............ ( -27.60)
>DroSim_CAF1 9134 119 - 1
GUU-UUCCUUGUUGCACACGAAAAGGAAAACACAAAAACUACAAAAUUGGCUUCGAACCAGCAGUAUUUUGUUAAUUACUGGUCUACCAGCCAAUAUGUUCUAGCCAGGAAGCAAACAUA
(((-((((((.(((....))).)))))))))...............((((((..((((.(((((....))))).....((((....)))).......)))).))))))............ ( -29.60)
>DroEre_CAF1 12673 117 - 1
GUU-UUCCUUGUUGCACAUGAAAAGGAAAAC--AAAAAUUACAAAAUUGGCUUCGAACCAGCAGAAUUCUGUUAGUUACUGGUCUACCAGCCAAUAUGUUCUAGCCAGAAAGCAAACAUA
(((-((((((.((......)).)))))))))--.............((((((..((((.(((((....))))).....((((....)))).......)))).))))))............ ( -30.50)
>DroYak_CAF1 9516 117 - 1
GUU-AUCCUUGUUGCACACGAAAAGGAAAAC--AAAAACUACAAAAUUGGCUUUGAACCAGCAGAAUUGUGUUAGUUACUGGUCCAACAGCCAAUAGGUUUUAGCCAGGAAGCAAACAUA
(((-.(((((.(((....))).))))).)))--............((((((((((.(((((...(((((...))))).))))).))).))))))).(((....))).............. ( -28.50)
>consensus
GUU_UUCCUUGUUGCACACGAAAAGGAAAAC__AAAAACUACAAAAUUGGCUUCGAACCAGCAGUAUUUUGUUAGUUACUGGUCUACCAGCCAAUAUGUUCUAGCCAGGAAGCAAACAUA
....((((((.(((....))).))))))..................((((((..((((.(((((....))))).....((((....)))).......)))).))))))............ (-20.26 = -20.46 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:38 2006