Locus 6223

Sequence ID 2L_DroMel_CAF1
Location 17,312,146 – 17,312,306
Length 160
Max. P 0.952224
window9943 window9944

overview

Window 3

Location 17,312,146 – 17,312,266
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.00
Mean single sequence MFE -35.22
Consensus MFE -28.48
Energy contribution -28.95
Covariance contribution 0.47
Combinations/Pair 1.13
Mean z-score -3.19
Structure conservation index 0.81
SVM decision value 1.42
SVM RNA-class probability 0.952224
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17312146 120 + 22407834
CCGAAAAGUGCGUCUGUCAUAUGGGUCAUAAAAGACACUUUUUAUUGCUCAUUCGACAAUAUGGCUGCACCCAGGACUCUCCUUUUUUGAUGCCAAAUCUAAAUAAUUUGGCAAUUUCGU
.(((((.(((((((((((..((((((.(((((((....))))))).))))))..))))....))).))))..(((.....))).......((((((((.......)))))))).))))). ( -34.20)
>DroSec_CAF1 9786 120 + 1
CCGAAAAGUGCGUCUGUCAUAUGGGUCAUAAAAGACACUUUUUAUUGCUCAUUCGACAAUAUGGCUGCACCCAGGGCUCGCCUUUUUUGAUGUCAAAUCUAAAUAAUUUGGCAAUUUCGU
.(((((.(((((((((((..((((((.(((((((....))))))).))))))..))))....))).))))..((((....))))......((((((((.......)))))))).))))). ( -32.40)
>DroSim_CAF1 11272 120 + 1
CCGAAAAGUGCGUCUUUCAUAUGGGUCAUAAAAGACACUUUUUAUUGCUCAUUCGACAAUAUGGGUGCACCCAGGGCUCGCCUUUUUUGAUGCCAAAUCUAAAUAAUUUGGCAAUUUCGU
.(((((.(((.((((.((..((((((.(((((((....))))))).))))))..)).....((((....)))))))).))).........((((((((.......)))))))).))))). ( -33.40)
>DroEre_CAF1 12138 120 + 1
CCGAAAAGUGCGUCUGUCAUAUGGGUCAUAAAAGACACUUUUUAUUGCUCAUUCGACAAUAUGGCUGCACCCUGGGCCCGCCCUUUUUGAUGCCAAAUCUAAAUAAUUUGGCAAUUUCGU
.(((((((.(((..((((..((((((.(((((((....))))))).))))))..))))....((((........))))))).))))))).((((((((.......))))))))....... ( -37.30)
>DroYak_CAF1 4603 120 + 1
CCGAAAAGUGCGUCUGUCAUAUGGGUCAUAAAAGACACUUUUUAUUGCUCAUUCGACAAUAUGGCUGCACCCAGGGCUCGCCUUUUUUGAUGCCAAAUCUAAAUAAUUUGGCAAUUUCGU
.(((((.(((((((((((..((((((.(((((((....))))))).))))))..))))....))).))))..((((....))))......((((((((.......)))))))).))))). ( -35.10)
>DroAna_CAF1 20356 114 + 1
CCGGGAAG--CGUCUGUCAUAUGGGUCAUAAAAGCCAGUUUUUAUUGCUCAUCUGACAAUAUGG----ACGCAGAGCCCGUCGCUUUUGAUGCCAAAUCUAAAUAAUUUGGCAAUUUCGU
.((((..(--(((((((((.((((((.(((((((....))))))).)))))).)))).....))----))))....))))..........((((((((.......))))))))....... ( -38.90)
>consensus
CCGAAAAGUGCGUCUGUCAUAUGGGUCAUAAAAGACACUUUUUAUUGCUCAUUCGACAAUAUGGCUGCACCCAGGGCUCGCCUUUUUUGAUGCCAAAUCUAAAUAAUUUGGCAAUUUCGU
.(((((.(((.(((((((..((((((.(((((((....))))))).))))))..)))....(((......))))))).))).........((((((((.......)))))))).))))). (-28.48 = -28.95 +   0.47)

alignment

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secondary structure

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dotplot

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Window 4

Location 17,312,186 – 17,312,306
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.39
Mean single sequence MFE -30.90
Consensus MFE -26.05
Energy contribution -26.97
Covariance contribution 0.92
Combinations/Pair 1.12
Mean z-score -1.96
Structure conservation index 0.84
SVM decision value 0.60
SVM RNA-class probability 0.795483
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17312186 120 - 22407834
AUUUAAUGUCUGCCCUUUUGUGGCUUGUAAUAAAAUCAGCACGAAAUUGCCAAAUUAUUUAGAUUUGGCAUCAAAAAAGGAGAGUCCUGGGUGCAGCCAUAUUGUCGAAUGAGCAAUAAA
......((.(((((((((((((.((.((......)).))))))))..(((((((((.....))))))))).......(((.....)))))).)))).))((((((.......)))))).. ( -29.80)
>DroSec_CAF1 9826 120 - 1
UUUUAAUGUCUGCCCUUUUGUGGCCUGUAAUAAAAUCAGCACGAAAUUGCCAAAUUAUUUAGAUUUGACAUCAAAAAAGGCGAGCCCUGGGUGCAGCCAUAUUGUCGAAUGAGCAAUAAA
......((.(((((((...((.((((............(((......)))((((((.....))))))..........))))..))...))).)))).))((((((.......)))))).. ( -24.90)
>DroSim_CAF1 11312 120 - 1
UUUUAAUGUCUGCCCUUUUGUGGCUUGUAAUAAAAUCAGCACGAAAUUGCCAAAUUAUUUAGAUUUGGCAUCAAAAAAGGCGAGCCCUGGGUGCACCCAUAUUGUCGAAUGAGCAAUAAA
......((..((((((...(.(((((((.......((.....))...(((((((((.....))))))))).........)))))))).))).)))..))((((((.......)))))).. ( -31.80)
>DroEre_CAF1 12178 120 - 1
UUUUAAUGUCUGCCCUUUUGUGGCUUGUAAUAAAAUCAGCACGAAAUUGCCAAAUUAUUUAGAUUUGGCAUCAAAAAGGGCGGGCCCAGGGUGCAGCCAUAUUGUCGAAUGAGCAAUAAA
.......(((((((((((((((.((.((......)).))))).....(((((((((.....)))))))))...))))))))))))....((.....)).((((((.......)))))).. ( -36.20)
>DroYak_CAF1 4643 120 - 1
UUUUAAUGUCUGCCCUUUUGUGGCUUGUAAUAAAAUCAGCACGAAAUUGCCAAAUUAUUUAGAUUUGGCAUCAAAAAAGGCGAGCCCUGGGUGCAGCCAUAUUGUCGAAUGAGCAAUAAA
......((.(((((((...(.(((((((.......((.....))...(((((((((.....))))))))).........)))))))).))).)))).))((((((.......)))))).. ( -34.10)
>DroAna_CAF1 20394 116 - 1
UUUUAAUGUCUGCCCUUUUGUGGCUUGUAAUAAAAUCAGCACGAAAUUGCCAAAUUAUUUAGAUUUGGCAUCAAAAGCGACGGGCUCUGCGU----CCAUAUUGUCAGAUGAGCAAUAAA
.....((((..(((((((((((.((.((......)).))))))))).(((((((((.....)))))))))...........))))...))))----...(((((((....)).))))).. ( -28.60)
>consensus
UUUUAAUGUCUGCCCUUUUGUGGCUUGUAAUAAAAUCAGCACGAAAUUGCCAAAUUAUUUAGAUUUGGCAUCAAAAAAGGCGAGCCCUGGGUGCAGCCAUAUUGUCGAAUGAGCAAUAAA
......((.(((((((...(.(((((((.......((.....))...(((((((((.....))))))))).........)))))))).))).)))).))((((((.......)))))).. (-26.05 = -26.97 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:39 2006