Locus 7085

Sequence ID 3L_DroMel_CAF1
Location 19,144,490 – 19,144,603
Length 113
Max. P 0.890883
window11493 window11494

overview

Window 3

Location 19,144,490 – 19,144,603
Length 113
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.34
Mean single sequence MFE -28.85
Consensus MFE -26.03
Energy contribution -26.95
Covariance contribution 0.92
Combinations/Pair 1.06
Mean z-score -1.50
Structure conservation index 0.90
SVM decision value 0.96
SVM RNA-class probability 0.890883
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19144490 113 + 23771897
----GUUUCUGUCUGGCAGCUGUGAAAAUCCAAUUUCCAGCACGCCUAAGCGGAUGUAGUCCUGGCAUUUUCUC---AAAAGGACACAAAAGAAAGCAAAGGACACACAUGCACCAGAAC
----..(((((...(((.((((.((((......))))))))..)))...(((..(((.(((((.((..(((((.---.............)))))))..))))))))..)))..))))). ( -31.14)
>DroSec_CAF1 7383 113 + 1
----GUUUCUGUCUGGCAGCUGUGAAAAUCCAAUUUCCAGCACGCCUAAGCGGAUGUAGUCCUGGCAUUUUCUC---AAAAGGACACAAAAGAAAGCAAAGGACACACAUGCAUCAGAAU
----..(((((...(((.((((.((((......))))))))..)))...(((..(((.(((((.((..(((((.---.............)))))))..))))))))..)))..))))). ( -31.04)
>DroAna_CAF1 691 117 + 1
CUCUGUCUCUGUCUGGCAGCUGUGAAAAUCCAAUUUCCAGCACGCCUAAGCGGAUGUAGUCCUGGCAUUUUCUCGAAAAAAGGACACAAAAGAAACCAAAGGACACACAUGCACCGG---
...(((((((((..(((.((((.((((......))))))))..)))...)))))(((.(((((....((((....)))).)))))))).............))))............--- ( -28.30)
>DroSim_CAF1 7001 113 + 1
----GUUUCUGUCUGGCAGCUGUGAAAAUCCAAUUUCCAGCACGCCUAAGCGGAUGUAGUCCUGGCAUUUUCUC---AAAAGGACACAAAAGAAAGCAAAGGACACACAUGCACCAGAAC
----..(((((...(((.((((.((((......))))))))..)))...(((..(((.(((((.((..(((((.---.............)))))))..))))))))..)))..))))). ( -31.14)
>DroEre_CAF1 7888 113 + 1
----GUUUCUGUCUGGCAGCUGUGAAAAUCCAAUUUCCAGCACGCCUAAGCGGAUGUAGUCCUGCCGUUUUCUC---AAAAGGACACAAAAGAAACCAAACGACACACAUGCACCAGAAC
----..(((((....(((((((.((((......)))))))).(((....)))..(((.(((((...........---...)))))))).....................)))..))))). ( -25.74)
>DroYak_CAF1 7900 108 + 1
----GUUUCUGUCUGGCAGCUGUGAAAAUCCAAUUUCCAGCACGCCUAAGCGGAUGUAGUCCUGGCAUUUUCUC---AAAAGGACACAAAAGAAACCAAAGGACACGCAUGCACC-----
----...(((((..(((.((((.((((......))))))))..)))...))))).((.(((((.....(((((.---.............)))))....))))))).........----- ( -25.74)
>consensus
____GUUUCUGUCUGGCAGCUGUGAAAAUCCAAUUUCCAGCACGCCUAAGCGGAUGUAGUCCUGGCAUUUUCUC___AAAAGGACACAAAAGAAACCAAAGGACACACAUGCACCAGAAC
......(((((...(((.((((.((((......))))))))..)))...(((..(((.(((((.....(((((.................)))))....))))))))..)))..))))). (-26.03 = -26.95 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,144,490 – 19,144,603
Length 113
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 93.34
Mean single sequence MFE -35.57
Consensus MFE -29.48
Energy contribution -31.15
Covariance contribution 1.67
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.83
SVM decision value 0.02
SVM RNA-class probability 0.546041
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19144490 113 - 23771897
GUUCUGGUGCAUGUGUGUCCUUUGCUUUCUUUUGUGUCCUUUU---GAGAAAAUGCCAGGACUACAUCCGCUUAGGCGUGCUGGAAAUUGGAUUUUCACAGCUGCCAGACAGAAAC----
.((((((((.(((((.(((((..((((((((..(......)..---))))))..)).)))))))))).)))...((((.((((((((......)))).))))))))...)))))..---- ( -38.50)
>DroSec_CAF1 7383 113 - 1
AUUCUGAUGCAUGUGUGUCCUUUGCUUUCUUUUGUGUCCUUUU---GAGAAAAUGCCAGGACUACAUCCGCUUAGGCGUGCUGGAAAUUGGAUUUUCACAGCUGCCAGACAGAAAC----
.(((((..((..(((((((((..((((((((..(......)..---))))))..)).))))).))))..))...((((.((((((((......)))).))))))))...)))))..---- ( -36.20)
>DroAna_CAF1 691 117 - 1
---CCGGUGCAUGUGUGUCCUUUGGUUUCUUUUGUGUCCUUUUUUCGAGAAAAUGCCAGGACUACAUCCGCUUAGGCGUGCUGGAAAUUGGAUUUUCACAGCUGCCAGACAGAGACAGAG
---..((((.(((((.(((((..(((...(((((...........)))))....))))))))))))).))))..((((.((((((((......)))).)))))))).............. ( -33.40)
>DroSim_CAF1 7001 113 - 1
GUUCUGGUGCAUGUGUGUCCUUUGCUUUCUUUUGUGUCCUUUU---GAGAAAAUGCCAGGACUACAUCCGCUUAGGCGUGCUGGAAAUUGGAUUUUCACAGCUGCCAGACAGAAAC----
.((((((((.(((((.(((((..((((((((..(......)..---))))))..)).)))))))))).)))...((((.((((((((......)))).))))))))...)))))..---- ( -38.50)
>DroEre_CAF1 7888 113 - 1
GUUCUGGUGCAUGUGUGUCGUUUGGUUUCUUUUGUGUCCUUUU---GAGAAAACGGCAGGACUACAUCCGCUUAGGCGUGCUGGAAAUUGGAUUUUCACAGCUGCCAGACAGAAAC----
..((((((((.((((....(((..((((((..((((((((.((---(......))).))))).)))..(((....)))....))))))..)))...)))))).)))))).......---- ( -35.80)
>DroYak_CAF1 7900 108 - 1
-----GGUGCAUGCGUGUCCUUUGGUUUCUUUUGUGUCCUUUU---GAGAAAAUGCCAGGACUACAUCCGCUUAGGCGUGCUGGAAAUUGGAUUUUCACAGCUGCCAGACAGAAAC----
-----((((.(((...(((((..((((((((..(......)..---)))))...))))))))..))).))))..((((.((((((((......)))).))))))))..........---- ( -31.00)
>consensus
GUUCUGGUGCAUGUGUGUCCUUUGCUUUCUUUUGUGUCCUUUU___GAGAAAAUGCCAGGACUACAUCCGCUUAGGCGUGCUGGAAAUUGGAUUUUCACAGCUGCCAGACAGAAAC____
.((((((((.(((((.(((((....((((((..(........)...)))))).....)))))))))).)))...((((.((((((((......)))).))))))))...)))))...... (-29.48 = -31.15 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:26 2006