Locus 5574

Sequence ID 3L_DroMel_CAF1
Location 15,285,774 – 15,285,893
Length 119
Max. P 0.999899
window8815 window8816

overview

Window 5

Location 15,285,774 – 15,285,893
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.56
Mean single sequence MFE -42.10
Consensus MFE -38.24
Energy contribution -38.24
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.00
Structure conservation index 0.91
SVM decision value 4.44
SVM RNA-class probability 0.999899
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15285774 119 + 23771897
UAACAUUUAUUU-UGUUUAGUGCACUUAGCUAACCCAAACCAAACUAGGAGUCCCGCUGCGCCGAAGGAGAUGAUCCUUGGAACACUCGUUGCUUGAGGCAGCUGGCGCUAAGUGCUCUA
.((((.......-))))(((.(((((((((.........((......)).(.((.(((((.((.(((((.....)))))))....((((.....))))))))).)))))))))))).))) ( -41.80)
>DroSec_CAF1 17550 120 + 1
UAAUAUUUAUUUUUUUCCAGUGCACUUAGCUAGCCCAAUCCAAACUAGGAGUCCCGCUGCGCCGAAGGAGAUGAUCCUUGGAACACUCGUUGCUUGAGGCAGCUGGCGCUAAGUGCUCUA
..................((.(((((((((..(((...(((......))).....(((((.((.(((((.....)))))))....((((.....))))))))).)))))))))))).)). ( -42.80)
>DroSim_CAF1 17635 119 + 1
UAACAUUUAUUU-UGUCCAGUGCACUUAGCUAGCCCAAACCAAACUAGGAGUCCCGCUGCGCCGAAGGAGAUGAUCCUUGGAACACUCGUUGCUUGAGGCAGCUGGCGCUAAGUGCUCUA
............-.....((.(((((((((..(((............((....))(((((.((.(((((.....)))))))....((((.....))))))))).)))))))))))).)). ( -41.50)
>DroEre_CAF1 17547 113 + 1
UAACAUUCCUUU-U-CUCAGUGCACUUAGCUAACCC-----AAACUGGGAAUCCCGCUGCGCCGAAGGAGCUGGUCCUUGGAAUACUCGAUGCUUGAGGCAGCUGGCGCUAAGUGCUCUA
............-.-...((.(((((((((...(((-----.....)))...((.(((((.((.(((((.....)))))))....(((((...)))))))))).)).))))))))).)). ( -42.20)
>DroYak_CAF1 14606 113 + 1
UUAUACUUAUUC-U-UUCAGUGCACUUAGCUAACCC-----AAACUGGGAAUCCCGCUGCGCCGAAGGAGAUGGUCCUUGGAAUACUCGAUGCUUGAGGCAGCUGGCGCUAAGUGCUCUA
............-.-...((.(((((((((...(((-----.....)))...((.(((((.((.(((((.....)))))))....(((((...)))))))))).)).))))))))).)). ( -42.20)
>consensus
UAACAUUUAUUU_U_UUCAGUGCACUUAGCUAACCCAA_CCAAACUAGGAGUCCCGCUGCGCCGAAGGAGAUGAUCCUUGGAACACUCGUUGCUUGAGGCAGCUGGCGCUAAGUGCUCUA
..................((.(((((((((...((............))...((.(((((.((.(((((.....)))))))....((((.....))))))))).)).))))))))).)). (-38.24 = -38.24 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,285,774 – 15,285,893
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.56
Mean single sequence MFE -39.66
Consensus MFE -38.50
Energy contribution -37.86
Covariance contribution -0.64
Combinations/Pair 1.09
Mean z-score -2.22
Structure conservation index 0.97
SVM decision value 3.67
SVM RNA-class probability 0.999513
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15285774 119 - 23771897
UAGAGCACUUAGCGCCAGCUGCCUCAAGCAACGAGUGUUCCAAGGAUCAUCUCCUUCGGCGCAGCGGGACUCCUAGUUUGGUUUGGGUUAGCUAAGUGCACUAAACA-AAAUAAAUGUUA
(((.(((((((((.((.(((((((.(((....(((((.((....)).)).)))))).)).))))).))...(((((......)))))...))))))))).)))((((-.......)))). ( -39.80)
>DroSec_CAF1 17550 120 - 1
UAGAGCACUUAGCGCCAGCUGCCUCAAGCAACGAGUGUUCCAAGGAUCAUCUCCUUCGGCGCAGCGGGACUCCUAGUUUGGAUUGGGCUAGCUAAGUGCACUGGAAAAAAAUAAAUAUUA
(((.((((((((((((.(((((((.(((....(((((.((....)).)).)))))).)).))))).....(((......)))...)))..))))))))).)))................. ( -39.90)
>DroSim_CAF1 17635 119 - 1
UAGAGCACUUAGCGCCAGCUGCCUCAAGCAACGAGUGUUCCAAGGAUCAUCUCCUUCGGCGCAGCGGGACUCCUAGUUUGGUUUGGGCUAGCUAAGUGCACUGGACA-AAAUAAAUGUUA
(((.(((((((((.((.(((((((.(((....(((((.((....)).)).)))))).)).))))).))...(((((......)))))...))))))))).)))((((-.......)))). ( -39.80)
>DroEre_CAF1 17547 113 - 1
UAGAGCACUUAGCGCCAGCUGCCUCAAGCAUCGAGUAUUCCAAGGACCAGCUCCUUCGGCGCAGCGGGAUUCCCAGUUU-----GGGUUAGCUAAGUGCACUGAG-A-AAAGGAAUGUUA
(((.(((((((((.((.((((((((.......)))....(((((((.....))))).)).))))).))...(((.....-----)))...))))))))).)))..-.-............ ( -39.40)
>DroYak_CAF1 14606 113 - 1
UAGAGCACUUAGCGCCAGCUGCCUCAAGCAUCGAGUAUUCCAAGGACCAUCUCCUUCGGCGCAGCGGGAUUCCCAGUUU-----GGGUUAGCUAAGUGCACUGAA-A-GAAUAAGUAUAA
(((.(((((((((.((.((((((((.......)))....(((((((.....))))).)).))))).))...(((.....-----)))...))))))))).)))..-.-............ ( -39.40)
>consensus
UAGAGCACUUAGCGCCAGCUGCCUCAAGCAACGAGUGUUCCAAGGAUCAUCUCCUUCGGCGCAGCGGGACUCCUAGUUUGG_UUGGGUUAGCUAAGUGCACUGAA_A_AAAUAAAUGUUA
(((.((((((((((((.((((((((.......)))....(((((((.....))))).)).)))))(((...)))...........)))..))))))))).)))................. (-38.50 = -37.86 +  -0.64)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:45 2006