Locus 988

Sequence ID	2L_DroMel_CAF1
Location	2,851,562 – 2,851,652
Length	90
Max. P	0.734944

overview

Window 4

Location	2,851,562 – 2,851,652
Length	90
Sequences	6
Columns	90
Reading direction	forward
Mean pairwise identity	82.15
Mean single sequence MFE	-26.45
Consensus MFE	-17.39
Energy contribution	-18.14
Covariance contribution	0.75
Combinations/Pair	1.11
Mean z-score	-2.15
Structure conservation index	0.66
SVM decision value	0.43
SVM RNA-class probability	0.734944
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2851562 90 + 22407834
ACACAUAGAAACACAAUGGCACACUGCCCCCGCAGCCCACUUUCCUUUUAGUUGGACUUGAGUCCAUGCUCCACUGAAUGGGCAGCGAAA
.................(((.....)))..(((.(((((..(((.....((((((((....))))).))).....)))))))).)))... ( -25.70)
>DroSec_CAF1 1828 90 + 1
ACACAUAGAAACACAAUGGCACACUGCCCCCGCAGCCCACUUUCCUUUCAGUUGGACUUGAGUCCAUGCUCCACUGAGUGGGCAGCGAAA
.................(((.....)))..(((.((((((((.......((((((((....))))).))).....)))))))).)))... ( -30.60)
>DroSim_CAF1 1843 90 + 1
ACACAUAGAAACACAAUGGCACACUGCCCCCGCAGCCCACUUUCCUUUCAGUUGAACUUGAGUCCAUGCUCCACUGAGUGGGCAGCGAAA
.................(((.....)))..(((.((((((.......(((((.((.(.((....)).).)).))))))))))).)))... ( -24.91)
>DroEre_CAF1 2056 90 + 1
AUAUAUAGAAAUACAAUGGCACACUGCCCCCGCUGCCCACUUUCCUUUCAGUUGGACUUGAGUCCAUGCUUCGCUGAGUGGCCAGCGAAA
.................(((.....)))..(((((.((((((.......((((((((....))))).))).....)))))).)))))... ( -28.80)
>DroYak_CAF1 2040 90 + 1
AUAUAUAGAAACACAAUGGCACACUGCCCCCGCAGCCCACUUUCCUUUCAGUUGGACUUGAGUCCAUGCUUCGCUGAGUGGCCAGCGAAA
.................(((.....)))..(((.(.((((((.......((((((((....))))).))).....)))))).).)))... ( -23.50)
>DroAna_CAF1 1348 80 + 1
GUCUGUCCGUAUACACUGG-----UGCCCCCACGACCCACUCUAGUU-----UGGUCAGGGGUCCACGCUUCGGUGAGCGUCAAGUGAAA
.............((((((-----.(((((...((((.((....)).-----.)))).)))))))((((((....))))))..))))... ( -25.20)
>consensus
ACACAUAGAAACACAAUGGCACACUGCCCCCGCAGCCCACUUUCCUUUCAGUUGGACUUGAGUCCAUGCUCCACUGAGUGGCCAGCGAAA
.................(((.....)))..(((.(.((((((..........(((((....))))).........)))))).).)))... (-17.39 = -18.14 +   0.75)

alignment

secondary structure

dotplot

Window 5

Location	2,851,562 – 2,851,652
Length	90
Sequences	6
Columns	90
Reading direction	reverse
Mean pairwise identity	82.15
Mean single sequence MFE	-30.17
Consensus MFE	-19.89
Energy contribution	-20.20
Covariance contribution	0.31
Combinations/Pair	1.19
Mean z-score	-1.55
Structure conservation index	0.66
SVM decision value	-0.01
SVM RNA-class probability	0.526759
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2851562 90 - 22407834
UUUCGCUGCCCAUUCAGUGGAGCAUGGACUCAAGUCCAACUAAAAGGAAAGUGGGCUGCGGGGGCAGUGUGCCAUUGUGUUUCUAUGUGU
(..(((.((((((((..(..((..(((((....))))).))..)..))..)))))).)))..)((((((...))))))............ ( -29.70)
>DroSec_CAF1 1828 90 - 1
UUUCGCUGCCCACUCAGUGGAGCAUGGACUCAAGUCCAACUGAAAGGAAAGUGGGCUGCGGGGGCAGUGUGCCAUUGUGUUUCUAUGUGU
(..(((.(((((((..........(((((....))))).((....))..))))))).)))..)((((((...))))))............ ( -32.10)
>DroSim_CAF1 1843 90 - 1
UUUCGCUGCCCACUCAGUGGAGCAUGGACUCAAGUUCAACUGAAAGGAAAGUGGGCUGCGGGGGCAGUGUGCCAUUGUGUUUCUAUGUGU
(..(((.(((((((((((.((((.((....)).)))).))))).......)))))).)))..)((((((...))))))............ ( -31.81)
>DroEre_CAF1 2056 90 - 1
UUUCGCUGGCCACUCAGCGAAGCAUGGACUCAAGUCCAACUGAAAGGAAAGUGGGCAGCGGGGGCAGUGUGCCAUUGUAUUUCUAUAUAU
(..(((((.(((((..........(((((....))))).((....))..))))).)))))..)((((((...))))))............ ( -32.10)
>DroYak_CAF1 2040 90 - 1
UUUCGCUGGCCACUCAGCGAAGCAUGGACUCAAGUCCAACUGAAAGGAAAGUGGGCUGCGGGGGCAGUGUGCCAUUGUGUUUCUAUAUAU
....(((((....)))))((((((..(.(((.((((((.((....))....))))))..)))(((.....))).)..))))))....... ( -30.70)
>DroAna_CAF1 1348 80 - 1
UUUCACUUGACGCUCACCGAAGCGUGGACCCCUGACCA-----AACUAGAGUGGGUCGUGGGGGCA-----CCAGUGUAUACGGACAGAC
...((((..(((((......)))))((.(((((((((.-----.((....)).))))).))))...-----))))))............. ( -24.60)
>consensus
UUUCGCUGCCCACUCAGCGAAGCAUGGACUCAAGUCCAACUGAAAGGAAAGUGGGCUGCGGGGGCAGUGUGCCAUUGUGUUUCUAUAUAU
(..(((.(.(((((..........(((((....)))))...........))))).).)))..)((((((...))))))............ (-19.89 = -20.20 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:23 2006