Locus 7621

Sequence ID 3R_DroMel_CAF1
Location 20,425,879 – 20,426,014
Length 135
Max. P 0.999926
window12298 window12299

overview

Window 8

Location 20,425,879 – 20,425,980
Length 101
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 74.19
Mean single sequence MFE -24.78
Consensus MFE -15.16
Energy contribution -15.78
Covariance contribution 0.63
Combinations/Pair 1.17
Mean z-score -1.78
Structure conservation index 0.61
SVM decision value 0.68
SVM RNA-class probability 0.821188
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20425879 101 + 27905053
UGUCUGCAUAUGCGAUUUGCCACGCUUGUACG--------UACA---UGCGAUUGUAUUCGAGUAUUGAAGUAUUCAAGUAUUCGAAUACUGAAGUAUUCAAGCAUUCGAGU--
.(((.((((.((((((..((...))..)).))--------)).)---))))))...((((((((.(((((...((((.((((....))))))))...)))))..))))))))-- ( -27.30)
>DroSec_CAF1 8931 93 + 1
UGUCUGCAUUUGCGAUUUGCCA----------------CAUACAUGCUGCAAUUGUAUUCGAAUAUU--AUUAUUC-AGUAUUCAAGUAUUCAAGUAUUCAAGUAUUCGAGU--
....((((.(((((...((...----------------....))...))))).))))((((((((((--..((((.-(((((....)))))..))))....)))))))))).-- ( -16.10)
>DroSim_CAF1 8500 112 + 1
UGUCUGCAUUUGCGAUUUGCCACGCUUGUACAUACGUACAUACAUGCUGCGAUUGUAUUCGAAUAUUGAAGUAUUCAAGUAUUCGAAUACUCAAGUAUUCAAGUAUUCGAGU--
....((((.(((((....((...(..(((((....)))))..)..))))))).))))((((((((((..((((((..(((((....)))))..))))))..)))))))))).-- ( -29.00)
>DroYak_CAF1 8928 92 + 1
UGUCUGCAUUUG-------CCGCGCUCG------------UACA---UGCGAUUGUAUUCGGGCAUUGAAGUAUUCAAGUAUAUGAGUAUUUGAGUAUUUGAGCAUUCGAGUAU
.(((.((((.((-------(.......)------------)).)---)))))).(((((((((..((.((((((((((((((....)))))))))))))).))..))))))))) ( -26.70)
>consensus
UGUCUGCAUUUGCGAUUUGCCACGCUUG____________UACA___UGCGAUUGUAUUCGAAUAUUGAAGUAUUCAAGUAUUCGAAUACUCAAGUAUUCAAGCAUUCGAGU__
.....(((.(((((.................................))))).)))(((((((((((..((((((..(((((....)))))..))))))..))))))))))).. (-15.16 = -15.78 +   0.63)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,425,911 – 20,426,014
Length 103
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.96
Mean single sequence MFE -31.88
Consensus MFE -18.02
Energy contribution -18.02
Covariance contribution -0.00
Combinations/Pair 1.26
Mean z-score -3.92
Structure conservation index 0.57
SVM decision value 4.59
SVM RNA-class probability 0.999926
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20425911 103 + 27905053
------UACA---UGCGAUUGUAUUCGAGUAUUGAAGUAUUCAAGUAUUCGAAUACUGAAGUAUUCAAGCAUUCGAGU--------UGUUCGAGUAUCUGCGUAUUCGAGUGGAAAAACA
------...(---(((((......))(((((((..(((((((........)))))))..)))))))..)))).....(--------..(((((((((....)))))))))..)....... ( -28.80)
>DroSec_CAF1 8953 105 + 1
----CAUACAUGCUGCAAUUGUAUUCGAAUAUU--AUUAUUC-AGUAUUCAAGUAUUCAAGUAUUCAAGUAUUCGAGU--------UGUUCGAGUAUCUGCGUAUUCGAGUGGAAAAACA
----(((.(((((.(((...(((((((((((..--...((((-((((((..(((((....)))))..)))))).))))--------))))))))))).)))))))..).)))........ ( -21.00)
>DroSim_CAF1 8534 112 + 1
CGUACAUACAUGCUGCGAUUGUAUUCGAAUAUUGAAGUAUUCAAGUAUUCGAAUACUCAAGUAUUCAAGUAUUCGAGU--------UGUUCGAGUAUCUGCGUAUUCGAGUGGAAAAACA
((((((....)).)))).((.((((((((((((((.....))).((((((((((((((.(((((....))))).))).--------)))))))))))....))))))))))).))..... ( -30.60)
>DroEre_CAF1 8465 87 + 1
----------------GAUUGUAUUCGGGUAUUCAAGUAUUCGAGUAUUCAAGUAUUCCAGUAUUU-----------------GAGUAUUCGAGUAUCUGAGUACUCGAGUGGAAAAGCA
----------------..((.((((((((((((((..(((((((((((((((((((....))))))-----------------)))))))))))))..)))))))))))))).))..... ( -44.00)
>DroYak_CAF1 8949 111 + 1
------UACA---UGCGAUUGUAUUCGGGCAUUGAAGUAUUCAAGUAUAUGAGUAUUUGAGUAUUUGAGCAUUCGAGUAUCUUGAGUAUUCGAGUAUCUGAGUAUUCGAGUGGAAAAGCC
------..((---(.(((..((((((((((..(.((((((((((((((....)))))))))))))).)))((((((((((.....))))))))))..))))))))))).)))........ ( -35.00)
>consensus
______UACA___UGCGAUUGUAUUCGAGUAUUGAAGUAUUCAAGUAUUCGAGUAUUCAAGUAUUCAAGCAUUCGAGU________UGUUCGAGUAUCUGCGUAUUCGAGUGGAAAAACA
.............(((....(((((((((((((..........)))))))))))))....))).......................(((((((((((....)))))))))))........ (-18.02 = -18.02 +  -0.00)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:24 2006