Locus 5211

Sequence ID 3R_DroMel_CAF1
Location 13,646,829 – 13,646,944
Length 115
Max. P 0.898226
window8500 window8501

overview

Window 0

Location 13,646,829 – 13,646,944
Length 115
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 70.24
Mean single sequence MFE -30.10
Consensus MFE -8.57
Energy contribution -9.70
Covariance contribution 1.13
Combinations/Pair 1.22
Mean z-score -2.36
Structure conservation index 0.28
SVM decision value 1.00
SVM RNA-class probability 0.898226
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13646829 115 + 27905053
G--AAUGCAAUCAACAUAUUUAGCAGAUAGUU-AAUAUUCAAUUUGGUUGCAGUGCAGCCUGAAUGGCAUCGCAGUGACAUUUGUCAACUGGCUGGCGACCAGAACAAAAACGCUGAG-
.--................(((((.((((...-..))))...(((((((((...((.(((.....)))....(((((((....))).))))))..)))))))))........))))).- ( -33.00)
>DroSec_CAF1 11917 102 + 1
G--AAUGCAAUCAACUUAUUUAGCAGUUAGUU-AAUAUUCAAUUUGGUUGCAGUGCAGCC-------------AGUGACAUUUGUCAACUGGCUGGCGACCAGAACAAAAACGCUGAG-
.--................(((((.(((.(..-......)..(((((((((....(((((-------------((((((....))).))))))))))))))))).....)))))))).- ( -32.70)
>DroSim_CAF1 11555 102 + 1
G--AAUGCAAUCAACAUAUUUAGCAGUUAGUU-AAUAUUCAAUUUGUUUGCAGUGCAGCC-------------AGUGACAUUUGUCAACUGGCUGGCGACCAGAACAAAAACGCUGAG-
.--................(((((.(((.(..-......)..(((((((....(((((((-------------((((((....))).))))))).)))....))))))))))))))).- ( -28.50)
>DroEre_CAF1 11621 105 + 1
GUAAAUUGAAUCAACAUCUUCAGU------------AUUCAAUUUGGUUGCAGUGCAGC-UGGAUGUCAUCGCAGUGACAUUUGUCAACUGGAUGGCGACCAGAACAAAAACGCUGAG-
.((((((((((..((.......))------------))))))))))....(((((...(-(((.(((((((.(((((((....))).))))))))))).))))........)))))..- ( -33.60)
>DroYak_CAF1 11561 117 + 1
GUAAAGUGCAUCAAUAUCUUUAGCAGCUAGUUGAAAAUUUAAUUUGGUUGCAGUGCAGC-GGGAUGUUAUCGCAGUGACAUUUGUCAACUGGAUGGCGACUAGAACAGAAACGCUGAG-
.(((((...........)))))((((((((((((....)))).))))))))....((((-(...(((((((.(((((((....))).))))))))))).((.....))...)))))..- ( -31.70)
>DroAna_CAF1 8464 91 + 1
--------------CAUGUUUUGAAAUUAUUU-AAGCUUCAGUGUGAC------------UGAAUGUCAUUCCUGUGACAUUUUUCAACUGGAUUGUGACGA-AACAAAAGGAAUAAGG
--------------..(((((((...((((..-....((((((.(((.------------.(((((((((....))))))))).)))))))))..)))))))-))))............ ( -21.10)
>consensus
G__AAUGCAAUCAACAUAUUUAGCAGUUAGUU_AAUAUUCAAUUUGGUUGCAGUGCAGC_UG_AUGUCAUCGCAGUGACAUUUGUCAACUGGAUGGCGACCAGAACAAAAACGCUGAG_
...................(((((......................(((((...)))))................((((....)))).((((.......)))).........))))).. ( -8.57 =  -9.70 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 13,646,829 – 13,646,944
Length 115
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 70.24
Mean single sequence MFE -25.41
Consensus MFE -6.30
Energy contribution -7.63
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.25
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13646829 115 - 27905053
-CUCAGCGUUUUUGUUCUGGUCGCCAGCCAGUUGACAAAUGUCACUGCGAUGCCAUUCAGGCUGCACUGCAACCAAAUUGAAUAUU-AACUAUCUGCUAAAUAUGUUGAUUGCAUU--C
-....(((((..(((((((((.((((((((((.(((....))))))..((......)).)))))....)).))))....)))))..-))).(((.((.......)).))).))...--. ( -27.10)
>DroSec_CAF1 11917 102 - 1
-CUCAGCGUUUUUGUUCUGGUCGCCAGCCAGUUGACAAAUGUCACU-------------GGCUGCACUGCAACCAAAUUGAAUAUU-AACUAACUGCUAAAUAAGUUGAUUGCAUU--C
-....(((((..(((((((((.((((((((((.(((....))))))-------------)))))....)).))))....)))))..-)))(((((........)))))...))...--. ( -32.90)
>DroSim_CAF1 11555 102 - 1
-CUCAGCGUUUUUGUUCUGGUCGCCAGCCAGUUGACAAAUGUCACU-------------GGCUGCACUGCAAACAAAUUGAAUAUU-AACUAACUGCUAAAUAUGUUGAUUGCAUU--C
-.(((((((.((((....(((.((.(((((((.(((....))))))-------------)))))))))(((...............-.......))))))).))))))).......--. ( -26.35)
>DroEre_CAF1 11621 105 - 1
-CUCAGCGUUUUUGUUCUGGUCGCCAUCCAGUUGACAAAUGUCACUGCGAUGACAUCCA-GCUGCACUGCAACCAAAUUGAAU------------ACUGAAGAUGUUGAUUCAAUUUAC
-.((((((((((((((((((..(.((((((((.(((....))))))).)))).)..)))-((......)).........))))------------...))))))))))).......... ( -29.70)
>DroYak_CAF1 11561 117 - 1
-CUCAGCGUUUCUGUUCUAGUCGCCAUCCAGUUGACAAAUGUCACUGCGAUAACAUCCC-GCUGCACUGCAACCAAAUUAAAUUUUCAACUAGCUGCUAAAGAUAUUGAUGCACUUUAC
-....(((((..((((.((((.((.(((((((.(((....))))))).)))........-((......))......................)).))))..))))..)))))....... ( -23.30)
>DroAna_CAF1 8464 91 - 1
CCUUAUUCCUUUUGUU-UCGUCACAAUCCAGUUGAAAAAUGUCACAGGAAUGACAUUCA------------GUCACACUGAAGCUU-AAAUAAUUUCAAAACAUG--------------
............((((-(.((((...(((.((.((......)))).))).)))).((((------------(.....)))))....-...........)))))..-------------- ( -13.10)
>consensus
_CUCAGCGUUUUUGUUCUGGUCGCCAGCCAGUUGACAAAUGUCACUGCGAUGACAU_CA_GCUGCACUGCAACCAAAUUGAAUAUU_AACUAACUGCUAAAUAUGUUGAUUGCAUU__C
...((((.........((((.......)))).((((....))))................))))....................................................... ( -6.30 =  -7.63 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:08 2006