Locus 5373

Sequence ID	2L_DroMel_CAF1
Location	15,283,771 – 15,283,887
Length	116
Max. P	0.999124

overview

Window 8

Location	15,283,771 – 15,283,887
Length	116
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	96.06
Mean single sequence MFE	-32.18
Consensus MFE	-28.88
Energy contribution	-28.52
Covariance contribution	-0.36
Combinations/Pair	1.06
Mean z-score	-2.16
Structure conservation index	0.90
SVM decision value	2.31
SVM RNA-class probability	0.992086
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15283771 116 + 22407834
UUUUUGUCUUCUCUCCUCACGUUGGCGCUAAUGCAAAUGUGAAAAGGCAUUUUGUGAGCCAAAAUGAGGU----UGUUGUCGUGCCACUGACAAUCUAAUUAGAAUACAAAAUGCUUUUA
................(((((((.(((....))).)))))))((((((((((((((((((.......)))----)(((((((......)))))))..........)))))))))))))). ( -32.30)
>DroPse_CAF1 32493 120 + 1
UUUUUGUCUUCUCUCUUCACGUUGGCGCUAAUGCAAAUGUGGAAAGGCAUUUUGUGAGGCAAAAUGAGGUUGGUUGUUGUCGUGCCGCUGACAAUCUAAUUAGAAUACAAAAUGCUUUUA
................(((((((.(((....))).)))))))((((((((((((((.((((..(..(.(.....).)..)..)))).((((........))))..)))))))))))))). ( -32.10)
>DroSec_CAF1 31063 116 + 1
UUUUUGUCUUCUCUCCUCACGUUGGCGCUAAUGCAAAUGUGAAAAGGCAUUUUGUGAGCCAAAAUGAGGU----UGUUGUCGUGCCACUGACAAUCUAAUUAGAAUACGAAAUGCUUUUA
................(((((((.(((....))).)))))))((((((((((((((((((.......)))----)(((((((......)))))))..........)))))))))))))). ( -32.00)
>DroYak_CAF1 32701 116 + 1
UUUUUGUCUUCUCUCCUCACGUUGGCGCUAAUGCAAAUGUGAAAAGGCAUUUUGUGAGCCAAAAUGAGGU----UGUUGUCGUGCCACUGACAAUCUAAUUAGAAUACAAAAUGCUUUUA
................(((((((.(((....))).)))))))((((((((((((((((((.......)))----)(((((((......)))))))..........)))))))))))))). ( -32.30)
>DroAna_CAF1 32831 116 + 1
UUUUUGUCUUCUCUCCUCACGUUGGCGCUAAUGCAAAUGUGAAAAGGCAUUUUGUGAGCCAAAAUGAGGU----UGUUGUCGUGCCGCUGACAAUCUAAUUAGAAUACAAAAUGCUUUUA
................(((((((.(((....))).)))))))((((((((((((((((((.......)))----)(((((((......)))))))..........)))))))))))))). ( -32.30)
>DroPer_CAF1 32868 120 + 1
UUUUUGUCUUCUCUCUUCACGUUGGCGCUAAUGCAAAUGUGGAAAGGCAUUUUGUGAGGCAAAAUGAGGUUGGUUGUUGUCGUGCCGCUGACAAUCUAAUUAGAAUACAAAAUGCUUUUA
................(((((((.(((....))).)))))))((((((((((((((.((((..(..(.(.....).)..)..)))).((((........))))..)))))))))))))). ( -32.10)
>consensus
UUUUUGUCUUCUCUCCUCACGUUGGCGCUAAUGCAAAUGUGAAAAGGCAUUUUGUGAGCCAAAAUGAGGU____UGUUGUCGUGCCACUGACAAUCUAAUUAGAAUACAAAAUGCUUUUA
................(((((((.(((....))).)))))))((((((((((((((....................((((((......))))))(((....))).)))))))))))))). (-28.88 = -28.52 +  -0.36)

alignment

secondary structure

dotplot

Window 9

Location	15,283,771 – 15,283,887
Length	116
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	96.06
Mean single sequence MFE	-27.20
Consensus MFE	-25.53
Energy contribution	-26.37
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.19
Structure conservation index	0.94
SVM decision value	3.39
SVM RNA-class probability	0.999124
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15283771 116 - 22407834
UAAAAGCAUUUUGUAUUCUAAUUAGAUUGUCAGUGGCACGACAACA----ACCUCAUUUUGGCUCACAAAAUGCCUUUUCACAUUUGCAUUAGCGCCAACGUGAGGAGAGAAGACAAAAA
........((((((.((((.......(((((........)))))..----.((((((.(((((.....(((((........)))))((....))))))).))))))..)))).)))))). ( -30.90)
>DroPse_CAF1 32493 120 - 1
UAAAAGCAUUUUGUAUUCUAAUUAGAUUGUCAGCGGCACGACAACAACCAACCUCAUUUUGCCUCACAAAAUGCCUUUCCACAUUUGCAUUAGCGCCAACGUGAAGAGAGAAGACAAAAA
.....(((((((((..(((....)))(((((........))))).....................)))))))))((((((((.((.((......)).)).)))..))))).......... ( -21.50)
>DroSec_CAF1 31063 116 - 1
UAAAAGCAUUUCGUAUUCUAAUUAGAUUGUCAGUGGCACGACAACA----ACCUCAUUUUGGCUCACAAAAUGCCUUUUCACAUUUGCAUUAGCGCCAACGUGAGGAGAGAAGACAAAAA
............((.((((.......(((((........)))))..----.((((((.(((((.....(((((........)))))((....))))))).))))))..)))).))..... ( -27.50)
>DroYak_CAF1 32701 116 - 1
UAAAAGCAUUUUGUAUUCUAAUUAGAUUGUCAGUGGCACGACAACA----ACCUCAUUUUGGCUCACAAAAUGCCUUUUCACAUUUGCAUUAGCGCCAACGUGAGGAGAGAAGACAAAAA
........((((((.((((.......(((((........)))))..----.((((((.(((((.....(((((........)))))((....))))))).))))))..)))).)))))). ( -30.90)
>DroAna_CAF1 32831 116 - 1
UAAAAGCAUUUUGUAUUCUAAUUAGAUUGUCAGCGGCACGACAACA----ACCUCAUUUUGGCUCACAAAAUGCCUUUUCACAUUUGCAUUAGCGCCAACGUGAGGAGAGAAGACAAAAA
........((((((.((((.......(((((........)))))..----.((((((.(((((.....(((((........)))))((....))))))).))))))..)))).)))))). ( -30.90)
>DroPer_CAF1 32868 120 - 1
UAAAAGCAUUUUGUAUUCUAAUUAGAUUGUCAGCGGCACGACAACAACCAACCUCAUUUUGCCUCACAAAAUGCCUUUCCACAUUUGCAUUAGCGCCAACGUGAAGAGAGAAGACAAAAA
.....(((((((((..(((....)))(((((........))))).....................)))))))))((((((((.((.((......)).)).)))..))))).......... ( -21.50)
>consensus
UAAAAGCAUUUUGUAUUCUAAUUAGAUUGUCAGCGGCACGACAACA____ACCUCAUUUUGGCUCACAAAAUGCCUUUUCACAUUUGCAUUAGCGCCAACGUGAGGAGAGAAGACAAAAA
........((((((.((((.......(((((........))))).......((((((.(((((.....(((((........)))))((....))))))).))))))..)))).)))))). (-25.53 = -26.37 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:31 2006