Locus 1767

Sequence ID 2L_DroMel_CAF1
Location 4,826,614 – 4,826,759
Length 145
Max. P 0.930415
window2840 window2841

overview

Window 0

Location 4,826,614 – 4,826,719
Length 105
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 81.91
Mean single sequence MFE -30.60
Consensus MFE -27.83
Energy contribution -28.67
Covariance contribution 0.83
Combinations/Pair 1.03
Mean z-score -2.00
Structure conservation index 0.91
SVM decision value 1.21
SVM RNA-class probability 0.930415
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4826614 105 - 22407834
UCUAUAAGUACAUCUUCGGUGCGCAGCAUAUCGACAUGCUCGAUGUGUGCGGAUGGACAAAAUAUGCCUAGCGUUUGGUAUAUAUUGUUGUGCGGCUA-------AAAGA----UA-
.......(((((...((.((.((((.((((((((.....)))))))))))).)).))(((.(((((((........))))))).))).))))).....-------.....----..- ( -34.20)
>DroPse_CAF1 2 94 - 1
UCUAUAAGUACAUCUUCGGUGCGCAUCAUAUCUACAUGCUCGAUGUGUGCGGAUGGACAAAAUAUCCCCAGGGUUUGGUAAAUAUUGUUGUGCG-----------------------
.......(((((...((.((.((((.((((((.........)))))))))).)).))((((....((....))))))...........))))).----------------------- ( -22.90)
>DroGri_CAF1 1521 113 - 1
UUUAUAAGUACAUCUUCGGUGCGCAUCAGAUCGACAUGUUCGACUUGUGCGGAUGGACAAAAUAUGCCAAAUGUUUGGUAUAUAUUGUUGUGCGGCUAACAAAUACAAUU----AAG
.......(((((...((.((.(((((.((.((((.....)))))).))))).)).))(((.(((((((((....))))))))).))).))))).................----... ( -31.70)
>DroWil_CAF1 11764 110 - 1
UCGAUAAGUACAUCUUCGGUGCGCAUCAGAUCGACAUGCUCGAUUUGUGCGGAUGGACAAAAUAUGCCAAAUGUCUGGUAUAUAUUGUUGUGGGGCUG-------CAAAGGUCCAAA
........((((...((.((.((((.((((((((.....)))))))))))).)).))(((.((((((((......)))))))).))).))))(((((.-------....)))))... ( -36.90)
>DroMoj_CAF1 1277 106 - 1
UCUAUAAGUACAUCUUCGGUGCGCAUCAGAUCGACGUACUCGAUUUGUGCGGAUGGACAAAAUAUGCCAAAAGUUUGGUAUAUAUUGUUGUGCGGCUG-------CAAUC----AAA
.......(((((...((.((.((((.((((((((.....)))))))))))).)).))(((.(((((((((....))))))))).))).))))).....-------.....----... ( -35.00)
>DroPer_CAF1 2 94 - 1
UCUAUAAGUACAUCUUCGGUGCGCAUCAUAUCUACAUGCUCGAUGUGUGCGGAUGGACAAAAUAUCCCCAGGGUUUGGUAAAUAUUGUUGUGCG-----------------------
.......(((((...((.((.((((.((((((.........)))))))))).)).))((((....((....))))))...........))))).----------------------- ( -22.90)
>consensus
UCUAUAAGUACAUCUUCGGUGCGCAUCAGAUCGACAUGCUCGAUGUGUGCGGAUGGACAAAAUAUGCCAAAGGUUUGGUAUAUAUUGUUGUGCGGCU________CAA______AA_
.......(((((...((.((.((((.((((((((.....)))))))))))).)).))(((.(((((((........))))))).))).)))))........................ (-27.83 = -28.67 +   0.83)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 4,826,639 – 4,826,759
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 87.04
Mean single sequence MFE -36.68
Consensus MFE -32.68
Energy contribution -32.52
Covariance contribution -0.17
Combinations/Pair 1.03
Mean z-score -2.02
Structure conservation index 0.89
SVM decision value 1.20
SVM RNA-class probability 0.930014
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4826639 120 - 22407834
GGCGAUGUGCGUAAAGUUCAGGUACAUAGGCUUCUGCCAAUCUAUAAGUACAUCUUCGGUGCGCAGCAUAUCGACAUGCUCGAUGUGUGCGGAUGGACAAAAUAUGCCUAGCGUUUGGUA
((((((((((.....((......))...(((....))).........))))))).((.((.((((.((((((((.....)))))))))))).)).))........)))............ ( -39.30)
>DroGri_CAF1 1554 120 - 1
AGCGAUGUGCGUAAAGUUCAGGUACAAUGGCUUCUGCCAAUUUAUAAGUACAUCUUCGGUGCGCAUCAGAUCGACAUGUUCGACUUGUGCGGAUGGACAAAAUAUGCCAAAUGUUUGGUA
...(((((((.....((......))..((((....))))........))))))).((.((.(((((.((.((((.....)))))).))))).)).)).......((((((....)))))) ( -35.60)
>DroEre_CAF1 3 110 - 1
GGCGAUGUGCGUAAAGUUCAGGUACAUAGGCUUCUGCCAAUCUAUAAGUACAUCUUCGGUGCGCAGCAUAUCGACAUGCUCGAUGUGUGCGGAUGGACAAAAUAUGCCUA----------
((((((((((.....((......))...(((....))).........))))))).((.((.((((.((((((((.....)))))))))))).)).))........)))..---------- ( -39.30)
>DroWil_CAF1 11794 120 - 1
AGCGAUGUGGGUAAAAUUCAGGUACAAAGGCUUCUGCCAAUCGAUAAGUACAUCUUCGGUGCGCAUCAGAUCGACAUGCUCGAUUUGUGCGGAUGGACAAAAUAUGCCAAAUGUCUGGUA
...((((((.(((.........)))...(((....)))..........)))))).((.((.((((.((((((((.....)))))))))))).)).)).......(((((......))))) ( -33.30)
>DroYak_CAF1 2 104 - 1
GGCGAUGUGCGUAAAGUUCAGGUACAUAGGCUUCUGCCAAUCUAUAAGUACAUCUUCGGUGCGCAGCAUAUCGACAUGCUCGAUGUGUGCGGAUGGACAAAAUA----------------
...(((((((.....((......))...(((....))).........))))))).((.((.((((.((((((((.....)))))))))))).)).)).......---------------- ( -34.30)
>DroMoj_CAF1 1303 120 - 1
UGCGAUGUGCGUAAAGUUCAGGUACAAUGGCUUUCGCCAAUCUAUAAGUACAUCUUCGGUGCGCAUCAGAUCGACGUACUCGAUUUGUGCGGAUGGACAAAAUAUGCCAAAAGUUUGGUA
...(((((((.....((......))..((((....))))........))))))).((.((.((((.((((((((.....)))))))))))).)).)).......((((((....)))))) ( -38.30)
>consensus
GGCGAUGUGCGUAAAGUUCAGGUACAAAGGCUUCUGCCAAUCUAUAAGUACAUCUUCGGUGCGCAGCAGAUCGACAUGCUCGAUGUGUGCGGAUGGACAAAAUAUGCCAAA_GUUUGGUA
...((((((((((.........)))...(((....))).........))))))).((.((.((((.((((((((.....)))))))))))).)).))....................... (-32.68 = -32.52 +  -0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:41 2006