Locus 7536

Sequence ID X_DroMel_CAF1
Location 18,810,799 – 18,810,904
Length 105
Max. P 0.944226
window12367 window12368

overview

Window 7

Location 18,810,799 – 18,810,904
Length 105
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 89.79
Mean single sequence MFE -26.10
Consensus MFE -23.44
Energy contribution -23.44
Covariance contribution -0.00
Combinations/Pair 1.08
Mean z-score -1.58
Structure conservation index 0.90
SVM decision value 1.16
SVM RNA-class probability 0.923607
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18810799 105 + 22224390
UACUGGGUGCCGGUUGCAUUUAAGCGAUAAUUGAACGCUCUUUACCGGCAAAGAAAUUAUCAACUCUGAUUGCGCGAUGCGCAAUGCUUAUUUUCUUUCCUUAUU--------
....((((((((((.((.(((((.......))))).)).....)))))))((((((.(((((....)))((((((...))))))....)).))))))))).....-------- ( -26.80)
>DroSec_CAF1 48242 101 + 1
UACUGGGCGCCGGUUGCAUUUAAGCGAUAAUUGAACGCUCUUUACCGGCAAAGAAAUUAUCAACUCUGAUUGCACGAUGCGCAAUGCUUAUUU----UCCUUAUU--------
...(((((((((((.((.(((((.......))))).)).....))))))...................(((((.......))))))))))...----........-------- ( -22.90)
>DroSim_CAF1 32204 101 + 1
UACUGGGCGCCGGUUGCAUUUAAGCGAUAAUUGAACGCUCUUUACCGGCAAAGAAAUUAUCAACUCUGAUUGCGCGAUGCGCAAUGCUUAUUU----UCCUUAUU--------
...(((((((((((.((.(((((.......))))).)).....))))))...................(((((((...))))))))))))...----........-------- ( -27.40)
>DroEre_CAF1 46457 109 + 1
UACUGGUUGCCGGUUGCAUUUAAGCGAUAAUUGAACGCUCUUUACCGGCAAGGAAAUUAUCAACUCUGAUUGCGCGAUGCGCAAUGCUUAUUU----GUCUUAUUUUCCUUUU
......((((((((.((.(((((.......))))).)).....))))))))(((((.((.(((....((((((((...))))))).)....))----)...)).))))).... ( -30.30)
>DroYak_CAF1 46974 93 + 1
UACUGGGUGCCGGUUGCAUUUAAGCGAUAAUUGAACGCUCUUUACCGGCAAAGAAAUUAUCAACUCUGAUUGUGCGAUGCGCAAUGCUUAUUU--------------------
..((...(((((((.((.(((((.......))))).)).....))))))).))...............(((((((...)))))))........-------------------- ( -23.10)
>consensus
UACUGGGUGCCGGUUGCAUUUAAGCGAUAAUUGAACGCUCUUUACCGGCAAAGAAAUUAUCAACUCUGAUUGCGCGAUGCGCAAUGCUUAUUU____UCCUUAUU________
...(((((((((((.((.(((((.......))))).)).....))))))...................(((((((...))))))))))))....................... (-23.44 = -23.44 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,810,799 – 18,810,904
Length 105
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 89.79
Mean single sequence MFE -25.20
Consensus MFE -21.84
Energy contribution -21.64
Covariance contribution -0.20
Combinations/Pair 1.10
Mean z-score -1.74
Structure conservation index 0.87
SVM decision value 1.34
SVM RNA-class probability 0.944226
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18810799 105 - 22224390
--------AAUAAGGAAAGAAAAUAAGCAUUGCGCAUCGCGCAAUCAGAGUUGAUAAUUUCUUUGCCGGUAAAGAGCGUUCAAUUAUCGCUUAAAUGCAACCGGCACCCAGUA
--------.....(((((((((...((((((((((...)))))))....))).....)))))))((((((...(((((.........))))).......))))))..)).... ( -28.40)
>DroSec_CAF1 48242 101 - 1
--------AAUAAGGA----AAAUAAGCAUUGCGCAUCGUGCAAUCAGAGUUGAUAAUUUCUUUGCCGGUAAAGAGCGUUCAAUUAUCGCUUAAAUGCAACCGGCGCCCAGUA
--------...(((((----((...((((((((((...)))))))....))).....)))))))((((((...(((((.........))))).......))))))........ ( -24.00)
>DroSim_CAF1 32204 101 - 1
--------AAUAAGGA----AAAUAAGCAUUGCGCAUCGCGCAAUCAGAGUUGAUAAUUUCUUUGCCGGUAAAGAGCGUUCAAUUAUCGCUUAAAUGCAACCGGCGCCCAGUA
--------...(((((----((...((((((((((...)))))))....))).....)))))))((((((...(((((.........))))).......))))))........ ( -25.90)
>DroEre_CAF1 46457 109 - 1
AAAAGGAAAAUAAGAC----AAAUAAGCAUUGCGCAUCGCGCAAUCAGAGUUGAUAAUUUCCUUGCCGGUAAAGAGCGUUCAAUUAUCGCUUAAAUGCAACCGGCAACCAGUA
..(((((((.((...(----((....(.(((((((...))))))))....))).)).)))))))((((((...(((((.........))))).......))))))........ ( -29.20)
>DroYak_CAF1 46974 93 - 1
--------------------AAAUAAGCAUUGCGCAUCGCACAAUCAGAGUUGAUAAUUUCUUUGCCGGUAAAGAGCGUUCAAUUAUCGCUUAAAUGCAACCGGCACCCAGUA
--------------------......(.((((.((...)).)))))((((........)))).(((((((...(((((.........))))).......)))))))....... ( -18.50)
>consensus
________AAUAAGGA____AAAUAAGCAUUGCGCAUCGCGCAAUCAGAGUUGAUAAUUUCUUUGCCGGUAAAGAGCGUUCAAUUAUCGCUUAAAUGCAACCGGCACCCAGUA
..........................(.(((((((...)))))))).................(((((((...(((((.........))))).......)))))))....... (-21.84 = -21.64 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:24 2006