Locus 5185

Sequence ID X_DroMel_CAF1
Location 13,532,684 – 13,532,789
Length 105
Max. P 0.877802
window8407 window8408

overview

Window 7

Location 13,532,684 – 13,532,789
Length 105
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 69.75
Mean single sequence MFE -22.06
Consensus MFE -11.92
Energy contribution -12.80
Covariance contribution 0.88
Combinations/Pair 1.11
Mean z-score -1.78
Structure conservation index 0.54
SVM decision value 0.90
SVM RNA-class probability 0.877802
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13532684 105 + 22224390
UCAAGAUCAUUGCUGUUGCUUCUAUCGUUGCUGCAGCUUUUUCUUUCAACAAUACUCUUGUGCGGGUUAUUAUUGCACUUUGCAAAG-----AACCUG---UAUCUAAU--U-GA---U
..((((.....(((((.((..........)).)))))....))))....((((......(((((((((....((((.....))))..-----))))))---)))...))--)-).---. ( -25.50)
>DroSec_CAF1 14774 83 + 1
UCAAGAUCAUUGCUGUUGCUUUUAUCGUUGCUGCAGCUUUUUCUUUCAACAAUACUCUUGUGCGGGGUAU------GUAUCAA------------------------AU--U-GA---U
..((((.....(((((.((..........)).)))))....))))...(((.((((((.....)))))))------)).....------------------------..--.-..---. ( -16.80)
>DroSim_CAF1 15563 88 + 1
UCAAGAUCAUUGCUGUUGCUUUUAUCGUUGCUGCAGCUUUUUCUUUC-ACAAUACUCUUGUGCGGGGUAUUGUUGCAUUUUAC------------------------AU--A-GA---U
..((((.....(((((.((..........)).)))))....))))..-((((((((((.....))))))))))..........------------------------..--.-..---. ( -20.90)
>DroEre_CAF1 15057 115 + 1
UCAAGAUCAUUGCUGUUGCUUUUAUCGCUGCUGCAGCUUUUUCUUUCAAAAAUACUCUUCUGUGGGAUAUUAUUGCAUUUUAUAGCGCGAUGAUCUUAGGCUUUGUAAAGGA-AU---U
..((((((((((((((.((..........)).)))(((........(((.(((((((......))).)))).)))........))))))))))))))...............-..---. ( -25.99)
>DroYak_CAF1 16822 103 + 1
UCAAGAUCAUUGCUGUUGCUUUUAUCGCU---GCAGCGUUUUUUUUCAAAAAUGCUCUUCUGUGUGGUAUUAUUGUAUUUUUUAGAGAGAUGAA-------------AAGCUAAUCUGU
...((((....(((((.((.......)).---)))))(((((((..........((((.(((...(((((....)))))...)))))))..)))-------------))))..)))).. ( -21.10)
>consensus
UCAAGAUCAUUGCUGUUGCUUUUAUCGUUGCUGCAGCUUUUUCUUUCAACAAUACUCUUGUGCGGGGUAUUAUUGCAUUUUACA__G_____A______________AU__U_GA___U
..((((.....(((((.((..........)).)))))....)))).....((((((((.....))))))))................................................ (-11.92 = -12.80 +   0.88)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 13,532,684 – 13,532,789
Length 105
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 69.75
Mean single sequence MFE -18.16
Consensus MFE -7.58
Energy contribution -8.42
Covariance contribution 0.84
Combinations/Pair 1.06
Mean z-score -1.76
Structure conservation index 0.42
SVM decision value 0.27
SVM RNA-class probability 0.661252
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13532684 105 - 22224390
A---UC-A--AUUAGAUA---CAGGUU-----CUUUGCAAAGUGCAAUAAUAACCCGCACAAGAGUAUUGUUGAAAGAAAAAGCUGCAGCAACGAUAGAAGCAACAGCAAUGAUCUUGA
.---..-.--........---((((.(-----(.((((...((((...........)))).....((((((((..((......))....)))))))).........)))).)).)))). ( -22.20)
>DroSec_CAF1 14774 83 - 1
A---UC-A--AU------------------------UUGAUAC------AUACCCCGCACAAGAGUAUUGUUGAAAGAAAAAGCUGCAGCAACGAUAAAAGCAACAGCAAUGAUCUUGA
.---..-.--..------------------------.......------..........(((((.((((((((..((......))....))))))))...((....)).....))))). ( -13.60)
>DroSim_CAF1 15563 88 - 1
A---UC-U--AU------------------------GUAAAAUGCAACAAUACCCCGCACAAGAGUAUUGU-GAAAGAAAAAGCUGCAGCAACGAUAAAAGCAACAGCAAUGAUCUUGA
.---((-(--.(------------------------((.....)))(((((((..(......).)))))))-...)))....((((..((..........))..))))........... ( -13.30)
>DroEre_CAF1 15057 115 - 1
A---AU-UCCUUUACAAAGCCUAAGAUCAUCGCGCUAUAAAAUGCAAUAAUAUCCCACAGAAGAGUAUUUUUGAAAGAAAAAGCUGCAGCAGCGAUAAAAGCAACAGCAAUGAUCUUGA
.---..-..............(((((((((.((((........)).....((((.........(((.(((((....))))).)))((....)))))).........)).))))))))). ( -22.50)
>DroYak_CAF1 16822 103 - 1
ACAGAUUAGCUU-------------UUCAUCUCUCUAAAAAAUACAAUAAUACCACACAGAAGAGCAUUUUUGAAAAAAAACGCUGC---AGCGAUAAAAGCAACAGCAAUGAUCUUGA
..((((((((((-------------(((...............................))))))).(((((....))))).((((.---.((.......))..))))..))))))... ( -19.18)
>consensus
A___UC_A__AU______________U_____C__UAUAAAAUGCAAUAAUACCCCGCACAAGAGUAUUGUUGAAAGAAAAAGCUGCAGCAACGAUAAAAGCAACAGCAAUGAUCUUGA
...........................................................(((((.((((((((.........(((..............)))..)))))))).))))). ( -7.58 =  -8.42 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:48 2006