Locus 3782

Sequence ID	2L_DroMel_CAF1
Location	11,051,630 – 11,051,732
Length	102
Max. P	0.842161

overview

Window 9

Location	11,051,630 – 11,051,732
Length	102
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.65
Mean single sequence MFE	-26.82
Consensus MFE	-14.63
Energy contribution	-14.43
Covariance contribution	-0.19
Combinations/Pair	1.09
Mean z-score	-1.62
Structure conservation index	0.55
SVM decision value	0.03
SVM RNA-class probability	0.548111
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11051630 102 + 22407834
-------------UUUUUUAUUUGCUUUGGGCUGUGACCGCGACGCGUAUAAUUUACACGUUUUGCUCAUUUGCGAUUCU--AGACUCGCAAGCUGCGACCGAAACAGAAACAAA--AC-
-------------.......((((.(((((((.((((.((.((((.(((.....))).)))).)).))))..))......--....((((.....))))))))).))))......--..- ( -25.00)
>DroVir_CAF1 56487 87 + 1
----------------UUUAUUUGCGUU-GGCUGUGACCGCGACGCGUAUAAUUUACACGUUUUGCUCAUUUGCGAUUCU--GGGCGCGCAGC-UG------------AAACAAAACAC-
----------------....((((..(.-.((((((..(((((((.(((.....))).))))((((......))))....--..)))))))))-..------------)..))))....- ( -27.20)
>DroGri_CAF1 50043 90 + 1
----------------UUUAUUUGCGUU-GGCUGUGACCGCGACGCGUAUAAUUUACACGUUUUGCUCAUUUGCGAUUCUAUGGGCGCGCAGCCUG------------AAACAAAACAC-
----------------....((((..((-(((((((..(((((((.(((.....))).))))((((......))))........)))))))))).)------------)..))))....- ( -25.90)
>DroWil_CAF1 37343 100 + 1
----------------UUUAUUUGCUUUUGGCUGUGACCGCGACGCGUAUAAUUUACACGUUUUGCUCAUUUGCGAUUCU--AGGCUCGCAAAAUGCUGCAGCAAAACGAAAAAA--ACG
----------------....((((.(((((.((((((.((.((((.(((.....))).)))).)).)).(((((((....--....))))))).....)))))))))))))....--... ( -24.90)
>DroMoj_CAF1 52126 83 + 1
--------------------UUUGCGUU-GGCUGUGACCGCGACGCGUAUAAUUUACACGUUUUGCUCAUUUGCGAUUCU--GGGCGCGCAGC-UG------------AAACAAAACAC-
--------------------((((..(.-.((((((..(((((((.(((.....))).))))((((......))))....--..)))))))))-..------------)..))))....- ( -26.90)
>DroAna_CAF1 45965 115 + 1
UUUGUAUUUUUUUUUUGUUAUUUGCUUUGGGCUGUGACCGCGACGCGUAUAAUUUACACGUUUUGUUCAUUUACGAUUCU--AGGCUCGCAGGCUGCGGCCGAAAAAGAAAGAAA--AA-
......((((((((((((.....))(((.((((((..((((((.(((((.....)))..(..((((......))))..).--..)))))).))..)))))).)))))))))))))--..- ( -31.00)
>consensus
________________UUUAUUUGCGUU_GGCUGUGACCGCGACGCGUAUAAUUUACACGUUUUGCUCAUUUGCGAUUCU__AGGCGCGCAGCCUG____________AAACAAA__AC_
.......................((.....)).((((.((.((((.(((.....))).)))).)).))))(((((..((....))..)))))............................ (-14.63 = -14.43 +  -0.19)

alignment

secondary structure

dotplot

Window 0

Location	11,051,630 – 11,051,732
Length	102
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.65
Mean single sequence MFE	-25.57
Consensus MFE	-14.53
Energy contribution	-14.03
Covariance contribution	-0.50
Combinations/Pair	1.12
Mean z-score	-1.86
Structure conservation index	0.57
SVM decision value	0.75
SVM RNA-class probability	0.842161
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11051630 102 - 22407834
-GU--UUUGUUUCUGUUUCGGUCGCAGCUUGCGAGUCU--AGAAUCGCAAAUGAGCAAAACGUGUAAAUUAUACGCGUCGCGGUCACAGCCCAAAGCAAAUAAAAAA-------------
-((--((((...((((...(..(((.((((((((....--....)))))....)))...(((((((.....))))))).)))..)))))..))))))..........------------- ( -31.60)
>DroVir_CAF1 56487 87 - 1
-GUGUUUUGUUU------------CA-GCUGCGCGCCC--AGAAUCGCAAAUGAGCAAAACGUGUAAAUUAUACGCGUCGCGGUCACAGCC-AACGCAAAUAAA----------------
-(((((..(((.------------..-(((((((((..--......((......)).....(((((...)))))))).))))))...))).-))))).......---------------- ( -22.30)
>DroGri_CAF1 50043 90 - 1
-GUGUUUUGUUU------------CAGGCUGCGCGCCCAUAGAAUCGCAAAUGAGCAAAACGUGUAAAUUAUACGCGUCGCGGUCACAGCC-AACGCAAAUAAA----------------
-(((((..(((.------------..((((((((((..........((......)).....(((((...)))))))).)))))))..))).-))))).......---------------- ( -24.20)
>DroWil_CAF1 37343 100 - 1
CGU--UUUUUUCGUUUUGCUGCAGCAUUUUGCGAGCCU--AGAAUCGCAAAUGAGCAAAACGUGUAAAUUAUACGCGUCGCGGUCACAGCCAAAAGCAAAUAAA----------------
.((--((((...(((.((((((.((..(((((((....--....)))))))...))...(((((((.....))))))).)))).)).))).)))))).......---------------- ( -29.00)
>DroMoj_CAF1 52126 83 - 1
-GUGUUUUGUUU------------CA-GCUGCGCGCCC--AGAAUCGCAAAUGAGCAAAACGUGUAAAUUAUACGCGUCGCGGUCACAGCC-AACGCAAA--------------------
-(((((..(((.------------..-(((((((((..--......((......)).....(((((...)))))))).))))))...))).-)))))...-------------------- ( -22.30)
>DroAna_CAF1 45965 115 - 1
-UU--UUUCUUUCUUUUUCGGCCGCAGCCUGCGAGCCU--AGAAUCGUAAAUGAACAAAACGUGUAAAUUAUACGCGUCGCGGUCACAGCCCAAAGCAAAUAACAAAAAAAAAAUACAAA
-..--..............((((((....(((((....--....)))))..........(((((((.....))))))).))))))...((.....))....................... ( -24.00)
>consensus
_GU__UUUGUUU____________CAGGCUGCGAGCCC__AGAAUCGCAAAUGAGCAAAACGUGUAAAUUAUACGCGUCGCGGUCACAGCC_AAAGCAAAUAAA________________
............................(((((.............((......))...(((((((.....)))))))))))).....((.....))....................... (-14.53 = -14.03 +  -0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:05 2006