Locus 3262

Sequence ID X_DroMel_CAF1
Location 8,653,707 – 8,653,801
Length 94
Max. P 0.947548
window5349 window5350

overview

Window 9

Location 8,653,707 – 8,653,801
Length 94
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 82.24
Mean single sequence MFE -38.27
Consensus MFE -27.83
Energy contribution -28.30
Covariance contribution 0.47
Combinations/Pair 1.15
Mean z-score -3.68
Structure conservation index 0.73
SVM decision value 1.37
SVM RNA-class probability 0.947548
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8653707 94 + 22224390
UAACUGCCACGCCCAC-ACUGCAGAAACA---GCACCGCCCACCUAAAUGGGGCGGCA-------G-UGGGGGUGGCAGGUCGAUGGCCACAACAAAAUCAACAAU
...(((((((.(((((-..(((.......---)))((((((.........))))))..-------)-)))).)))))))((.(((............))).))... ( -40.70)
>DroPse_CAF1 119970 99 + 1
-AAGUGCCACGCCCACUGUCUCAGUAU--UUGGGAG----CGGCGAGAUGGGGUACAAGGUGUUGUUAGGGGUUAGGGGGUCGAUGGCCACAAUAGCAACAAAAAC
-..(((((.(((.(.(((((((((...--)))))).----))).).).)).)))))....((((((((..(((((.........)))))....))))))))..... ( -27.80)
>DroSec_CAF1 90847 94 + 1
UAACUGCCACGCCCAC-ACGGCAGAAACA---GCACCGCCCACCUAAAUGGGGCGGCA-------G-UGGGGGUGGCAGGUCGAUGGCCACAACAAAAUCAACAAU
...(((((((.(((((-...((.......---)).((((((.........))))))..-------)-)))).)))))))((.(((............))).))... ( -40.20)
>DroSim_CAF1 54763 94 + 1
UAACUGCCACGCCCAC-ACGGCAGAAACA---GCACCGCCCACCUAAAUGGGGCGGCA-------G-UGGGGGUGGCAGGUCGAUGGCCACAACAAAAUCAACAAU
...(((((((.(((((-...((.......---)).((((((.........))))))..-------)-)))).)))))))((.(((............))).))... ( -40.20)
>DroEre_CAF1 102830 94 + 1
UAACUGCCACGCCCAC-AUGGCAGAAACA---GCACCGCCCAUCUAAAUGGGGCGGCA-------G-UGGGGGUGGCAGGUCGAUGGCCACAACAAAAUCAACAGU
...(((((((.(((((-.((((.......---)).((((((.........))))))))-------)-)))).)))))))((.(((............))).))... ( -40.20)
>DroYak_CAF1 93671 94 + 1
UAACUGCCACGCCCAC-ACGGCAGAAACA---GCACCGCCCACCUAAAUGGGGCGGCA-------G-UGGGGGUGGCAGGUCGAUGGCCACAACAAAAUCAGCAAU
...(((((((.(((((-...((.......---)).((((((.........))))))..-------)-)))).)))))))((.(((............))).))... ( -40.50)
>consensus
UAACUGCCACGCCCAC_ACGGCAGAAACA___GCACCGCCCACCUAAAUGGGGCGGCA_______G_UGGGGGUGGCAGGUCGAUGGCCACAACAAAAUCAACAAU
....((((((.(((......((..........)).((((((.........))))))............))).))))))(((.....)))................. (-27.83 = -28.30 +   0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 0

Location 8,653,707 – 8,653,801
Length 94
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 82.24
Mean single sequence MFE -37.53
Consensus MFE -23.72
Energy contribution -25.30
Covariance contribution 1.58
Combinations/Pair 1.09
Mean z-score -2.63
Structure conservation index 0.63
SVM decision value 0.64
SVM RNA-class probability 0.809274
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8653707 94 - 22224390
AUUGUUGAUUUUGUUGUGGCCAUCGACCUGCCACCCCCA-C-------UGCCGCCCCAUUUAGGUGGGCGGUGC---UGUUUCUGCAGU-GUGGGCGUGGCAGUUA
...((((((...((....)).))))))(((((((.((((-(-------.((((((((......).)))))))((---(((....)))))-))))).)))))))... ( -45.30)
>DroPse_CAF1 119970 99 - 1
GUUUUUGUUGCUAUUGUGGCCAUCGACCCCCUAACCCCUAACAACACCUUGUACCCCAUCUCGCCG----CUCCCAA--AUACUGAGACAGUGGGCGUGGCACUU-
(((..(((..(....)..).))..))).............((((....))))..........((((----(.(((..--..((((...))))))).)))))....- ( -19.80)
>DroSec_CAF1 90847 94 - 1
AUUGUUGAUUUUGUUGUGGCCAUCGACCUGCCACCCCCA-C-------UGCCGCCCCAUUUAGGUGGGCGGUGC---UGUUUCUGCCGU-GUGGGCGUGGCAGUUA
...((((((...((....)).))))))(((((((.((((-(-------.((((((((......).)))))))((---.......))...-))))).)))))))... ( -40.80)
>DroSim_CAF1 54763 94 - 1
AUUGUUGAUUUUGUUGUGGCCAUCGACCUGCCACCCCCA-C-------UGCCGCCCCAUUUAGGUGGGCGGUGC---UGUUUCUGCCGU-GUGGGCGUGGCAGUUA
...((((((...((....)).))))))(((((((.((((-(-------.((((((((......).)))))))((---.......))...-))))).)))))))... ( -40.80)
>DroEre_CAF1 102830 94 - 1
ACUGUUGAUUUUGUUGUGGCCAUCGACCUGCCACCCCCA-C-------UGCCGCCCCAUUUAGAUGGGCGGUGC---UGUUUCUGCCAU-GUGGGCGUGGCAGUUA
...((((((...((....)).))))))(((((((.((((-(-------.(((((((.........)))))))((---.......))...-))))).)))))))... ( -39.70)
>DroYak_CAF1 93671 94 - 1
AUUGCUGAUUUUGUUGUGGCCAUCGACCUGCCACCCCCA-C-------UGCCGCCCCAUUUAGGUGGGCGGUGC---UGUUUCUGCCGU-GUGGGCGUGGCAGUUA
............((((.......))))(((((((.((((-(-------.((((((((......).)))))))((---.......))...-))))).)))))))... ( -38.80)
>consensus
AUUGUUGAUUUUGUUGUGGCCAUCGACCUGCCACCCCCA_C_______UGCCGCCCCAUUUAGGUGGGCGGUGC___UGUUUCUGCCGU_GUGGGCGUGGCAGUUA
............((((.......))))(((((((.(((...........(((((((.........)))))))......((....))......))).)))))))... (-23.72 = -25.30 +   1.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:08 2006