Locus 5049

Sequence ID	2L_DroMel_CAF1
Location	14,480,735 – 14,480,852
Length	117
Max. P	0.701103

overview

Window 9

Location	14,480,735 – 14,480,852
Length	117
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.81
Mean single sequence MFE	-41.54
Consensus MFE	-35.58
Energy contribution	-35.45
Covariance contribution	-0.13
Combinations/Pair	1.06
Mean z-score	-1.63
Structure conservation index	0.86
SVM decision value	0.35
SVM RNA-class probability	0.701103
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14480735 117 + 22407834
---UUUGGCUCCGGCGAUUGCCAUUCCACAAUGCCCACAAAAUGGGUGCCCACUAAAAACUAAGCCACUGGCCAGCGGACGGAAAAAGUGGGUGUGGAUGUCCAUGGGGGUUGUGGAGAU
---.....(((((.(((((.(((((((((...(((((.....)))))(((((((.....((...((.((....)).))..))....)))))))))))).....)))).)))))))))).. ( -43.40)
>DroSec_CAF1 5311 115 + 1
---UUUGGCUCCGGCGAUUGCCAUUCCACAAUGCCCACAAAAUGGGUGCCCACUAAAAACUAAGCUACUGGCCAGCGGACGGAAAAAGUGGGC--UGAUGUCCAUGGGGGUUGUGGAGAU
---..((((..........))))(((((((((.((((.....((((.(((((((.........(((.......)))..........)))))))--.....)))))))).))))))))).. ( -40.81)
>DroEre_CAF1 6797 120 + 1
UUGUUUGGCUCCGGCGAUUGCCAUUCCACAGUGCCCACAAAAUGGGUGCCCACUAAAAACUAAGCCACUGGCCAACGGGCGGAAAAAGUGGGUUUUGCUGUCCAUGGGGGUUGUGGAGAU
........(((((.(((((.((((...((((((((((.....)))))(((((((.........(((.(........))))......)))))))...)))))..)))).)))))))))).. ( -41.66)
>DroYak_CAF1 1147 115 + 1
---UUUGGCUCCGGCGAUUGCCAUUCCACAGUGCCCACAAAAUGGGUGCCCACUAAAAACUAAACCACUGGCCAUCGGACGGAAAAAGUGGGC--UGGUGUCCAUGGGGGAUGUGGAGAU
---.....(((((((....)))(((((...(..((((.....))))..)(((......((((..(((((..((.......))....)))))..--)))).....))))))))..)))).. ( -40.30)
>consensus
___UUUGGCUCCGGCGAUUGCCAUUCCACAAUGCCCACAAAAUGGGUGCCCACUAAAAACUAAGCCACUGGCCAGCGGACGGAAAAAGUGGGC__UGAUGUCCAUGGGGGUUGUGGAGAU
.....((((..........))))(((((((((.((((.....((((.(((((((.....(((......)))((.......))....))))))).......)))))))).))))))))).. (-35.58 = -35.45 +  -0.13)

alignment

secondary structure

dotplot

Window 0

Location	14,480,735 – 14,480,852
Length	117
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	92.81
Mean single sequence MFE	-36.93
Consensus MFE	-33.74
Energy contribution	-35.12
Covariance contribution	1.37
Combinations/Pair	1.03
Mean z-score	-1.42
Structure conservation index	0.91
SVM decision value	0.20
SVM RNA-class probability	0.631805
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14480735 117 - 22407834
AUCUCCACAACCCCCAUGGACAUCCACACCCACUUUUUCCGUCCGCUGGCCAGUGGCUUAGUUUUUAGUGGGCACCCAUUUUGUGGGCAUUGUGGAAUGGCAAUCGCCGGAGCCAAA---
...(((((((..((((..((........((((((........(((((....)))))..........)))))).......))..))))..))))))).((((....))))........--- ( -38.53)
>DroSec_CAF1 5311 115 - 1
AUCUCCACAACCCCCAUGGACAUCA--GCCCACUUUUUCCGUCCGCUGGCCAGUAGCUUAGUUUUUAGUGGGCACCCAUUUUGUGGGCAUUGUGGAAUGGCAAUCGCCGGAGCCAAA---
...(((((((..((((..((.....--(((((((..........((((.....)))).........)))))))......))..))))..))))))).((((....))))........--- ( -39.01)
>DroEre_CAF1 6797 120 - 1
AUCUCCACAACCCCCAUGGACAGCAAAACCCACUUUUUCCGCCCGUUGGCCAGUGGCUUAGUUUUUAGUGGGCACCCAUUUUGUGGGCACUGUGGAAUGGCAAUCGCCGGAGCCAAACAA
...((((((...((((..((........((((((......((((........).))).........)))))).......))..))))...)))))).((((....))))........... ( -34.12)
>DroYak_CAF1 1147 115 - 1
AUCUCCACAUCCCCCAUGGACACCA--GCCCACUUUUUCCGUCCGAUGGCCAGUGGUUUAGUUUUUAGUGGGCACCCAUUUUGUGGGCACUGUGGAAUGGCAAUCGCCGGAGCCAAA---
..((((.......((((((......--(((((((........(((........)))..........))))))).(((((...)))))..))))))...(((....))))))).....--- ( -36.07)
>consensus
AUCUCCACAACCCCCAUGGACAUCA__ACCCACUUUUUCCGUCCGCUGGCCAGUGGCUUAGUUUUUAGUGGGCACCCAUUUUGUGGGCACUGUGGAAUGGCAAUCGCCGGAGCCAAA___
...(((((((..((((..((.......(((((((........(((((....)))))..........)))))))......))..))))..))))))).((((....))))........... (-33.74 = -35.12 +   1.37)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:35 2006