Locus 6119

Sequence ID 2L_DroMel_CAF1
Location 17,118,742 – 17,118,862
Length 120
Max. P 0.999959
window9755 window9756

overview

Window 5

Location 17,118,742 – 17,118,862
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.83
Mean single sequence MFE -29.26
Consensus MFE -28.50
Energy contribution -28.70
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.97
SVM decision value 1.71
SVM RNA-class probability 0.973417
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17118742 120 + 22407834
UUUCGUAGUUUUGUUGUAGGGCCCAGAAACUAAGAUAUAUGGCAGCUGCCAAAAGAUGCAAAACAUGGCUUUACCUUACAUAUGUUUUAUACAGUGCUCCACAAAACUUUCUAAGCCCCA
..................((((..(((((.((((((((((((((.((......)).))).......((.....))...)))))))))))....(((...))).....)))))..)))).. ( -25.10)
>DroSec_CAF1 82597 120 + 1
UUUCGUAGUUUUGUUGUAGGGCCCAGAAACUAAGAUAUAUGGCAGCUGCCAAAAGAUGCAAAACAUGGCUUUGCCUUACAUAUGUUUUAUACAGUGCUUCACAAAACUUUCUGAGCCCCA
..................((((.((((((.((((((((((((((.((......)).))).......(((...)))...)))))))))))....(((...))).....)))))).)))).. ( -31.00)
>DroSim_CAF1 98660 120 + 1
UUUCGUAGUUUUGUUGUAGGGCCCAGAAACUAAGAUAUAUGGCAGCUGCCAAAAGAUGCAAAACAUGGCUUUGCCUUACAUAUGUUUUAUACAGUGCUUCACAAAACUUUCUGAGCCCCA
..................((((.((((((.((((((((((((((.((......)).))).......(((...)))...)))))))))))....(((...))).....)))))).)))).. ( -31.00)
>DroEre_CAF1 84627 120 + 1
UUUCGUAGUUUUGUUGCAGGGCCCAGAAACUAAGAUAUAUGGCAGCUGCCAAAAGAUGCAAAACAUGGCUUUACCUUACAUAUGUUUUAUACAGUGCUUCACAAAACUUUCUGAGCCCCA
....((((.....)))).((((.((((((.((((((((((((((.((......)).))).......((.....))...)))))))))))....(((...))).....)))))).)))).. ( -29.70)
>DroYak_CAF1 84520 120 + 1
UUUCGUAGGUUUGUUGUUGGGCCCAGAAACUAAGAUAUAUGGCAGCUGCCAGAAGAUGCAAAACAUGGCUGUACCUUACAUAUGUUUUAUACAGUGCUUCACAAAACUUUCUGAGCCCCG
..................((((.((((((..........((((....))))((((.((.((((((((..((((...))))))))))))...))...)))).......)))))).)))).. ( -29.50)
>consensus
UUUCGUAGUUUUGUUGUAGGGCCCAGAAACUAAGAUAUAUGGCAGCUGCCAAAAGAUGCAAAACAUGGCUUUACCUUACAUAUGUUUUAUACAGUGCUUCACAAAACUUUCUGAGCCCCA
..................((((.((((((.((((((((((((((.((......)).))).......((.....))...)))))))))))....(((...))).....)))))).)))).. (-28.50 = -28.70 +   0.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,118,742 – 17,118,862
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.83
Mean single sequence MFE -38.02
Consensus MFE -36.14
Energy contribution -36.22
Covariance contribution 0.08
Combinations/Pair 1.08
Mean z-score -3.59
Structure conservation index 0.95
SVM decision value 4.89
SVM RNA-class probability 0.999959
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17118742 120 - 22407834
UGGGGCUUAGAAAGUUUUGUGGAGCACUGUAUAAAACAUAUGUAAGGUAAAGCCAUGUUUUGCAUCUUUUGGCAGCUGCCAUAUAUCUUAGUUUCUGGGCCCUACAACAAAACUACGAAA
(((((((((((((((((((((.(....).)))))))).....(((((((((((...)))))))......((((....)))).....)))).)))))))))))))................ ( -36.40)
>DroSec_CAF1 82597 120 - 1
UGGGGCUCAGAAAGUUUUGUGAAGCACUGUAUAAAACAUAUGUAAGGCAAAGCCAUGUUUUGCAUCUUUUGGCAGCUGCCAUAUAUCUUAGUUUCUGGGCCCUACAACAAAACUACGAAA
(((((((((((((((((((((........)))))))).....(((((((((((...)))))))......((((....)))).....)))).)))))))))))))................ ( -39.20)
>DroSim_CAF1 98660 120 - 1
UGGGGCUCAGAAAGUUUUGUGAAGCACUGUAUAAAACAUAUGUAAGGCAAAGCCAUGUUUUGCAUCUUUUGGCAGCUGCCAUAUAUCUUAGUUUCUGGGCCCUACAACAAAACUACGAAA
(((((((((((((((((((((........)))))))).....(((((((((((...)))))))......((((....)))).....)))).)))))))))))))................ ( -39.20)
>DroEre_CAF1 84627 120 - 1
UGGGGCUCAGAAAGUUUUGUGAAGCACUGUAUAAAACAUAUGUAAGGUAAAGCCAUGUUUUGCAUCUUUUGGCAGCUGCCAUAUAUCUUAGUUUCUGGGCCCUGCAACAAAACUACGAAA
.((((((((((((((((((((........)))))))).....(((((((((((...)))))))......((((....)))).....)))).))))))))))))................. ( -36.60)
>DroYak_CAF1 84520 120 - 1
CGGGGCUCAGAAAGUUUUGUGAAGCACUGUAUAAAACAUAUGUAAGGUACAGCCAUGUUUUGCAUCUUCUGGCAGCUGCCAUAUAUCUUAGUUUCUGGGCCCAACAACAAACCUACGAAA
..(((((((((((....((..(((((((((((...((....))...))))))...)))))..)).....((((....))))..........))))))))))).................. ( -38.70)
>consensus
UGGGGCUCAGAAAGUUUUGUGAAGCACUGUAUAAAACAUAUGUAAGGUAAAGCCAUGUUUUGCAUCUUUUGGCAGCUGCCAUAUAUCUUAGUUUCUGGGCCCUACAACAAAACUACGAAA
(((((((((((((((((((((........)))))))).....(((((((((((...)))))))......((((....)))).....)))).)))))))))))))................ (-36.14 = -36.22 +   0.08)

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 12:02:32 2006