Locus 7815

Sequence ID	3L_DroMel_CAF1
Location	20,899,647 – 20,899,778
Length	131
Max. P	0.972589

overview

Window 7

Location	20,899,647 – 20,899,760
Length	113
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	83.42
Mean single sequence MFE	-31.32
Consensus MFE	-19.38
Energy contribution	-21.66
Covariance contribution	2.28
Combinations/Pair	1.13
Mean z-score	-2.91
Structure conservation index	0.62
SVM decision value	0.38
SVM RNA-class probability	0.713986
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20899647 113 + 23771897
AACUUCAAGUAAUUGAAACGAAUGGGUACAUCCUGUAGUCCCCAUAUCUCCAGGUCAAAGUUGCUGCAUUUAUAGCAGUAGCAUGACAAGAUACU------AUCCUUGUUCCUACGAGA
...(((((....)))))....(((((.((........)).))))).((((.(((.....((((((((.......))))))))..((((((.....------...)))))))))..)))) ( -32.20)
>DroSec_CAF1 156127 113 + 1
AACUUCAAGUAAUUGAAACGAAUGGGUACAUCCUGCAGUCCCCAUAUCUCCAGUUCAAAGCUGCUGCAUUUAUAGCAGUAGCAUGACAAGAUACU------AUCCUUGUUCCUACGAGA
...(((((....)))))....(((((.((........)).))))).((((.........((((((((.......))))))))..((((((.....------...)))))).....)))) ( -32.60)
>DroSim_CAF1 152623 113 + 1
AACUUCAAGUAAUUGAAACGAAUGGGUACAUCCUGCAGUCCCCAUAUCUCCAGUUCAAAGUUGCUGCAUUUAUAGCAGUAGCAUGACAAGAUACU------AUCCUUGUUUCUACGAGA
...(((((....)))))....(((((.((........)).))))).((((.........((((((((.......))))))))..((((((.....------...)))))).....)))) ( -30.20)
>DroEre_CAF1 155940 113 + 1
UACUUUAAAUAAUUGAAACGAAUGGGUACAUCCUGCAGUCCCCAUAUCUCCAGGUCAAAGUUGCUGCACUUAUAGCAGUAGCAUGACAAGAUACA------AUCCUUGUUCCUACGAGA
.....................(((((.((........)).))))).((((.(((.....((((((((.......))))))))..((((((.....------...)))))))))..)))) ( -28.50)
>DroYak_CAF1 157072 113 + 1
UACUUCAAGUAAUUGAAUCGAAUGGGUACAUCCUGCAGUCCCCAUAUCUCCAGAUCGAAGUUGCUGCAAUUAUAGCAGUAACUUGACAAGAUACU------GUCCUUGUUUCUACGAGA
...(((((....)))))....(((((.((........)).))))).((((.(((...((((((((((.......))))))))))((((((.....------...)))))))))..)))) ( -32.40)
>DroPer_CAF1 165634 119 + 1
UACUCCAAAAACUGGAAGCGUAUGGGAACAUCUUGCAGACACCAUACCUGAAAGUUGAAUUUGCUGCCCUUGUAGCAAUAGUUGGCCAAGAUGCAUCCAAUAUUUCUGUUUUUAGAUGC
...((.((((((.(((((..(.((((..((((((((((.........)))...((..(..(((((((....)))))))...)..)))))))))..)))))..))))))))))).))... ( -32.00)
>consensus
AACUUCAAGUAAUUGAAACGAAUGGGUACAUCCUGCAGUCCCCAUAUCUCCAGGUCAAAGUUGCUGCAUUUAUAGCAGUAGCAUGACAAGAUACU______AUCCUUGUUCCUACGAGA
...(((((....)))))....(((((.((........)).))))).((((.........((((((((.......))))))))..((((((..............)))))).....)))) (-19.38 = -21.66 +   2.28)

alignment

secondary structure

dotplot

Window 8

Location	20,899,687 – 20,899,778
Length	91
Sequences	6
Columns	92
Reading direction	forward
Mean pairwise identity	77.13
Mean single sequence MFE	-23.51
Consensus MFE	-15.07
Energy contribution	-15.38
Covariance contribution	0.31
Combinations/Pair	1.33
Mean z-score	-2.27
Structure conservation index	0.64
SVM decision value	1.70
SVM RNA-class probability	0.972589
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20899687 91 + 23771897
CCCAUAUCUCCAGGUCA-AAGUUGCUGCAUUUAUAGCAGUAGCAUGACAAGAUACUAUCCUUGUUCCUACGAGAAAUAUGCAAGGUCAUCGA
....(((((....((((-..((((((((.......)))))))).)))).)))))....((((((...............))))))....... ( -23.06)
>DroSec_CAF1 156167 90 + 1
CCCAUAUCUCCAGUUCA-AAGCUGCUGCAUUUAUAGCAGUAGCAUGACAAGAUACUAUCCUUGUUCCUACGAGAAAGGUGCAAGG-AAUCGA
....(((((...(((..-..((((((((.......))))))))..))).)))))...(((((((.(((.......))).))))))-)..... ( -28.60)
>DroSim_CAF1 152663 90 + 1
CCCAUAUCUCCAGUUCA-AAGUUGCUGCAUUUAUAGCAGUAGCAUGACAAGAUACUAUCCUUGUUUCUACGAGAAAGGUGCAAGG-AAUCGA
....(((((...(((..-..((((((((.......))))))))..))).)))))...(((((((.(((.......))).))))))-)..... ( -23.80)
>DroEre_CAF1 155980 90 + 1
CCCAUAUCUCCAGGUCA-AAGUUGCUGCACUUAUAGCAGUAGCAUGACAAGAUACAAUCCUUGUUCCUACGAGAUAGUUGCAAAG-UUUCGA
....((((((.(((...-..((((((((.......))))))))..((((((........)))))))))..)))))).........-...... ( -24.40)
>DroWil_CAF1 204390 91 + 1
ACCAUAUUUGAAAGUUGUAAUCUACCGC-CUUGUAACAAUAGACAGCCACUGUGCAAUCGUUAUAACUAAGGCAAAGGGGUUUCUCUUUUGU
.........(((((....(((((...((-((((((((.((.(((((...)))).).)).))))))....))))....)))))...))))).. ( -16.40)
>DroYak_CAF1 157112 90 + 1
CCCAUAUCUCCAGAUCG-AAGUUGCUGCAAUUAUAGCAGUAACUUGACAAGAUACUGUCCUUGUUUCUACGAGAUAAGUGCAAAG-UUUCGA
....((((((.(((...-((((((((((.......))))))))))((((((........)))))))))..)))))).........-...... ( -24.80)
>consensus
CCCAUAUCUCCAGGUCA_AAGUUGCUGCAUUUAUAGCAGUAGCAUGACAAGAUACUAUCCUUGUUCCUACGAGAAAGGUGCAAGG_UAUCGA
......((((..........((((((((.......))))))))..((((((........)))))).....)))).................. (-15.07 = -15.38 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:39 2006