Locus 3981

Sequence ID	2L_DroMel_CAF1
Location	11,599,438 – 11,599,580
Length	142
Max. P	0.803641

overview

Window 8

Location	11,599,438 – 11,599,556
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	93.72
Mean single sequence MFE	-27.30
Consensus MFE	-21.69
Energy contribution	-22.53
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.32
Structure conservation index	0.79
SVM decision value	-0.02
SVM RNA-class probability	0.523413
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11599438 118 + 22407834
GCGAUGGCAACGCCCACU-UUAUUUGCUACAAAACAAUUUCCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUGCACAA-AAUGUGUGGCAAUUUGGGCAAACAGUUGCCA
....((((((((((((..-....((((((((.........................((((......))))(((((((....)).))))-)...))))))))..))))).....))))))) ( -34.00)
>DroPse_CAF1 51429 119 + 1
GUCAUGCCAACGCCCAUUUUUAUUUGCUACAAAACAAUUUUCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUACACAA-AAUGUGUGGCAAUUUCGACAAACAGUUGCCA
....((.((((............((((((((............((((.(((....(((((......))))).))).))))........-....))))))))............)))).)) ( -20.70)
>DroSim_CAF1 56287 118 + 1
GCGAUAGCAACCCCCUUU-UUAUUUGCUACAAAACAAUUUCCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUGCACAA-AAUGUGUGGCAAUUUGGGCAAACAGUUGCCA
((....))..........-....((((((((.........................((((......))))(((((((....)).))))-)...))))))))....(((((....))))). ( -25.20)
>DroYak_CAF1 55295 118 + 1
GCGAUGGCAACGCCCAUU-UUAUUUGCUACAAAACAAUUUCCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUGCACAA-AAUGUGUGGCAAUUUGGGCAAACAGUUGCCA
....((((((((((((..-....((((((((.........................((((......))))(((((((....)).))))-)...))))))))..))))).....))))))) ( -34.70)
>DroAna_CAF1 67147 118 + 1
GCAAUGGCUACGCCCAUU-UUAUUUCCUACAAAACAAUUUCGAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUGCGCAA-AAUGUGUGGCAAUUUGGGCAAACAGUUGCCA
(((((......(((((..-((.((((...............))))(((((((.((.((((((.((.(((....))).)).))).))).-)).)))))))))..))))).....))))).. ( -28.76)
>DroPer_CAF1 53792 120 + 1
GUCAUGCCAACGCCCAUUUUUAUUUGCUACAAAACAAUUUUCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUACACAAAAAUGUGUGGCAAUUUCGACAAACAGUUGCCA
....((.((((............((((((((........................(((((......)))))....(((((........)))))))))))))............)))).)) ( -20.45)
>consensus
GCGAUGGCAACGCCCAUU_UUAUUUGCUACAAAACAAUUUCCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUGCACAA_AAUGUGUGGCAAUUUGGGCAAACAGUUGCCA
....(((((((............((((((((............((((.(((....(((((......))))).))).)))).............))))))))............))))))) (-21.69 = -22.53 +   0.83)

alignment

secondary structure

dotplot

Window 9

Location	11,599,477 – 11,599,580
Length	103
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.11
Mean single sequence MFE	-23.28
Consensus MFE	-18.09
Energy contribution	-17.73
Covariance contribution	-0.36
Combinations/Pair	1.08
Mean z-score	-1.70
Structure conservation index	0.78
SVM decision value	0.62
SVM RNA-class probability	0.803641
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11599477 103 + 22407834
CCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUGCACAA-AAUGUGUGGCAAUUUGGGCAAACAGUUGCCAAAACAGA--------------ACUAUGUAGUUU--AGAGC
.(((((((((((....((((......))))(((((((....)).))))-)..)))))))..))))(((((....)))))......((--------------(((....)))))--..... ( -22.70)
>DroPse_CAF1 51469 88 + 1
UCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUACACAA-AAUGUGUGGCAAUUUCGACAAACAGUUGCCACAAGGAA--------------AC-----------------
...((((.(((....(((((......))))).))).))))........-....((((((((((.........)))))))))).....--------------..----------------- ( -19.10)
>DroEre_CAF1 84582 103 + 1
CCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUGCACAA-AAUGUGUGGCAAUUUGGGCAAACAGUUGCCAAAACAGA--------------ACUGUGUAGUUU--AGAGC
...((((.(((....(((((......))))).))).)))).((((((.-..(((.((((((((.(......)))))))))..)))..--------------..))))))....--..... ( -24.50)
>DroYak_CAF1 55334 103 + 1
CCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUGCACAA-AAUGUGUGGCAAUUUGGGCAAACAGUUGCCAAAACAGA--------------ACUAUGUAGUUU--GGAGC
(((((.(((((.....((((......))))(((((.......((((..-...))))(((((((.(......))))))))...)))))--------------..)))).).)))--))... ( -26.90)
>DroAna_CAF1 67186 119 + 1
CGAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUGCGCAA-AAUGUGUGGCAAUUUGGGCAAACAGUUGCCAAAACAGAGCCUUACCAGGAAAACGUUGUAGUUCAUGGGAC
.....(((................(((((.(((((.......((((..-...))))(((((((.(......))))))))...)))))))))).(((....(((......)))..)))))) ( -27.40)
>DroPer_CAF1 53832 88 + 1
UCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUACACAAAAAUGUGUGGCAAUUUCGACAAACAGUUGCCACAAGGA---------------AC-----------------
...((((.(((....(((((......))))).))).)))).............((((((((((.........))))))))))....---------------..----------------- ( -19.10)
>consensus
CCAAAGUCAUAUUUUAUGCCAUCAAAGGCAUUUGUCAUUUAUGCACAA_AAUGUGUGGCAAUUUGGGCAAACAGUUGCCAAAACAGA______________ACU_UGUAGUUU___GAGC
...((((.(((....(((((......))))).))).))))..(((((....)))))(((((((.........)))))))......................................... (-18.09 = -17.73 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:23 2006