Locus 9340

Sequence ID 3R_DroMel_CAF1
Location 24,812,569 – 24,812,682
Length 113
Max. P 0.990575
window14948 window14949

overview

Window 8

Location 24,812,569 – 24,812,682
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.02
Mean single sequence MFE -28.03
Consensus MFE -22.28
Energy contribution -22.48
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.80
Structure conservation index 0.79
SVM decision value 2.22
SVM RNA-class probability 0.990575
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24812569 113 + 27905053
GUACGCUUGCGAUUAAAAACCAGUUAACCAAAAAAUCAUCAUGAUCAUAUGGUU-----UUUU--UUUAACCAGGUUUGUGCGAGUGCAUAUUUGUUUAUCUGAUUGAAGAAAAACAAAG
...((((((((.....(((((.(((((..((((((((((.((....))))))))-----))))--.)))))..))))).))))))))....(((((((.(((......))).))))))). ( -30.10)
>DroSec_CAF1 28735 111 + 1
GUACGCUUGCGAUUAAAAACCAGUUAACCAAAAAAUCAUCAUGAUCAUAUGGUU-----U--U--UUUAACCAGGUUUGUGCGAGUGCAUAUUUGUUUAUCUGAUUGAAGAAAAACAAAG
...((((((((.....(((((.(((((...(((((((((.((....))))))))-----)--)--))))))..))))).))))))))....(((((((.(((......))).))))))). ( -28.70)
>DroSim_CAF1 30655 111 + 1
GUACGCUUGCGAUUAAAAACCAGUUAACCCAAAAAUCAUCAUGAUCAUAUGGUU-----U--U--UUUAACCAGGUUUGUGCGAGUGCAUAUUUGUUUAUCUGAUUGAAGAAAAACAAAG
...((((((((.....(((((.(((((...(((((((((.((....))))))))-----)--)--))))))..))))).))))))))....(((((((.(((......))).))))))). ( -28.70)
>DroEre_CAF1 23613 111 + 1
GUACGCUUGCGAUUAAAAACCAGCUAACCAAAAAAUCAUCAUGACCAAGUGGUU-----U--U--UUUAACCACGUUUAUGCGAGUGCAUAUUUGUUUAUCUGAUUGAAGAAAAACAAAG
...(((((((((((...................))))...........((((((-----.--.--...))))))......)))))))....(((((((.(((......))).))))))). ( -24.91)
>DroYak_CAF1 24274 118 + 1
GUACGCUUGCGAUUAAAAACCAGCUAACCAAAAAAUCAUCAUGACCAAAUGGUUGAUUUU--UUUUGAAACCAGGUUUAUGCGAGUGCAUAUUUGUUUAUCUGAUUGAAGAAAAACAAAG
...((((((((.....(((((........(((((((((((((......)))).)))))))--)).........))))).))))))))....(((((((.(((......))).))))))). ( -27.73)
>consensus
GUACGCUUGCGAUUAAAAACCAGUUAACCAAAAAAUCAUCAUGAUCAUAUGGUU_____U__U__UUUAACCAGGUUUGUGCGAGUGCAUAUUUGUUUAUCUGAUUGAAGAAAAACAAAG
...((((((((.....(((((..............((.....)).....(((((..............)))))))))).))))))))....(((((((.(((......))).))))))). (-22.28 = -22.48 +   0.20)

alignment

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secondary structure

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dotplot

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Window 9

Location 24,812,569 – 24,812,682
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.02
Mean single sequence MFE -24.46
Consensus MFE -19.95
Energy contribution -19.87
Covariance contribution -0.08
Combinations/Pair 1.06
Mean z-score -2.09
Structure conservation index 0.82
SVM decision value 1.61
SVM RNA-class probability 0.967545
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24812569 113 - 27905053
CUUUGUUUUUCUUCAAUCAGAUAAACAAAUAUGCACUCGCACAAACCUGGUUAAA--AAAA-----AACCAUAUGAUCAUGAUGAUUUUUUGGUUAACUGGUUUUUAAUCGCAAGCGUAC
.(((((((.(((......))).)))))))(((((...((...(((((.(((((..--....-----.((((...((((.....))))...)))))))))))))).....))...))))). ( -22.41)
>DroSec_CAF1 28735 111 - 1
CUUUGUUUUUCUUCAAUCAGAUAAACAAAUAUGCACUCGCACAAACCUGGUUAAA--A--A-----AACCAUAUGAUCAUGAUGAUUUUUUGGUUAACUGGUUUUUAAUCGCAAGCGUAC
.(((((((.(((......))).)))))))(((((...((...(((((.(((((..--.--.-----.((((...((((.....))))...)))))))))))))).....))...))))). ( -23.00)
>DroSim_CAF1 30655 111 - 1
CUUUGUUUUUCUUCAAUCAGAUAAACAAAUAUGCACUCGCACAAACCUGGUUAAA--A--A-----AACCAUAUGAUCAUGAUGAUUUUUGGGUUAACUGGUUUUUAAUCGCAAGCGUAC
.(((((((.(((......))).)))))))(((((...((...(((((.((((((.--.--.-----..(((...((((.....))))..))).))))))))))).....))...))))). ( -23.90)
>DroEre_CAF1 23613 111 - 1
CUUUGUUUUUCUUCAAUCAGAUAAACAAAUAUGCACUCGCAUAAACGUGGUUAAA--A--A-----AACCACUUGGUCAUGAUGAUUUUUUGGUUAGCUGGUUUUUAAUCGCAAGCGUAC
.(((((((.(((......))).)))))))(((((....)))))...(((((((((--(--.-----.((((.(((..((.((.....)).))..))).))))))))))))))........ ( -26.90)
>DroYak_CAF1 24274 118 - 1
CUUUGUUUUUCUUCAAUCAGAUAAACAAAUAUGCACUCGCAUAAACCUGGUUUCAAAA--AAAAUCAACCAUUUGGUCAUGAUGAUUUUUUGGUUAGCUGGUUUUUAAUCGCAAGCGUAC
.(((((((.(((......))).)))))))(((((...((...(((((.((((((((((--((.(((((((....)))..))))..))))))))..))))))))).....))...))))). ( -26.10)
>consensus
CUUUGUUUUUCUUCAAUCAGAUAAACAAAUAUGCACUCGCACAAACCUGGUUAAA__A__A_____AACCAUAUGAUCAUGAUGAUUUUUUGGUUAACUGGUUUUUAAUCGCAAGCGUAC
.(((((((.(((......))).)))))))(((((...((...(((((.((((..............(((((...((((.....))))...)))))))))))))).....))...))))). (-19.95 = -19.87 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:32:12 2006