Locus 2305

Sequence ID 2L_DroMel_CAF1
Location 6,250,156 – 6,250,250
Length 94
Max. P 0.745385
window3703 window3704

overview

Window 3

Location 6,250,156 – 6,250,250
Length 94
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 80.86
Mean single sequence MFE -22.10
Consensus MFE -15.38
Energy contribution -14.97
Covariance contribution -0.42
Combinations/Pair 1.20
Mean z-score -1.66
Structure conservation index 0.70
SVM decision value 0.46
SVM RNA-class probability 0.744561
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6250156 94 + 22407834
CGCUGCGAGUUCCUUCGACCUUUUCAAUCGACUUUCAACAGCUUAUGACA---CCCAGCCUUAUUAUGACCGUCAUGGCUGUCAAGAUG--GGAACCCG-
.....((.((((((((((.........))))(((...((((((.(((((.---..((.........))...))))))))))).)))..)--))))).))- ( -21.70)
>DroPse_CAF1 153196 94 + 1
-----CUUUUGUCUUCGACCUUUUCAAUCGACUCUCAACAGCUUAUGACAGGCCCCUGCCUUAUUAUGACUGUCAUGGCUGUCAGAGAAGAGAUACCCU-
-----....(((((((((.........))))((((..((((((.(((((((..................))))))))))))).))))...)))))....- ( -24.47)
>DroEre_CAF1 85056 94 + 1
CGCUGCGAGUUCCUUCGACCUUUUCCAUCGACUUUCAACAGCUUAUGACA---CCCUGCCUUAUUAUGACCGUCAUGGCUGUCAAAAUG--GGAACCCU-
......(.((((((((((.........)))).(((..((((((.(((((.---..................)))))))))))..))).)--))))).).- ( -19.71)
>DroYak_CAF1 98620 94 + 1
CGCUCCGAGUUCCUUCGACCUUUUCAAUCGACUUUCAACAGCUUAUGACA---CCCUGCCUUAUUAUGACCGUCAUGGCUGUCAAAAUG--GGAACCCU-
......(.((((((((((.........)))).(((..((((((.(((((.---..................)))))))))))..))).)--))))).).- ( -19.71)
>DroAna_CAF1 49009 89 + 1
-----GUCUUUCCAUCGACCUUUUCAAUCGACUACCAACAGCUUAUGGCA---GGCUGC-UUAUUAUGACUGUCAUGGCUGUCAAAAGG--AGCAACGUU
-----((..((((.((((.........))))......((((((.((((((---(.....-.........))))))))))))).....))--))..))... ( -22.64)
>DroPer_CAF1 152437 92 + 1
-----CUUUUGUCUUCGACCUUUUCAAUCGACUCUCAACAGCUUAUGACAGGCCCCUGCCUUAUUAUGACUGUCAUGGCUGUCAGAGAA--GAUACCCU-
-----....(((((((((.........))))((((..((((((.(((((((..................))))))))))))).)))).)--))))....- ( -24.37)
>consensus
_____CGAGUUCCUUCGACCUUUUCAAUCGACUUUCAACAGCUUAUGACA___CCCUGCCUUAUUAUGACCGUCAUGGCUGUCAAAAUG__GGAACCCU_
........(((((.((((.........))))......((((((.(((((......................))))))))))).........))))).... (-15.38 = -14.97 +  -0.42)

alignment

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secondary structure

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dotplot

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Window 4

Location 6,250,156 – 6,250,250
Length 94
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 80.86
Mean single sequence MFE -28.80
Consensus MFE -16.17
Energy contribution -15.48
Covariance contribution -0.69
Combinations/Pair 1.22
Mean z-score -2.29
Structure conservation index 0.56
SVM decision value 0.46
SVM RNA-class probability 0.745385
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6250156 94 - 22407834
-CGGGUUCC--CAUCUUGACAGCCAUGACGGUCAUAAUAAGGCUGGG---UGUCAUAAGCUGUUGAAAGUCGAUUGAAAAGGUCGAAGGAACUCGCAGCG
-((((((((--....(..(((((.((((((.(((.........))).---))))))..)))))..)...((((((.....)))))).))))))))..... ( -33.50)
>DroPse_CAF1 153196 94 - 1
-AGGGUAUCUCUUCUCUGACAGCCAUGACAGUCAUAAUAAGGCAGGGGCCUGUCAUAAGCUGUUGAGAGUCGAUUGAAAAGGUCGAAGACAAAAG-----
-......(((.(((((.((((((.(((.....))).....(((((....)))))....)))))))))))((((((.....)))))))))......----- ( -25.30)
>DroEre_CAF1 85056 94 - 1
-AGGGUUCC--CAUUUUGACAGCCAUGACGGUCAUAAUAAGGCAGGG---UGUCAUAAGCUGUUGAAAGUCGAUGGAAAAGGUCGAAGGAACUCGCAGCG
-.(((((((--..(((..(((((.((((((.((...........)).---))))))..)))))..))).(((((.......))))).)))))))...... ( -32.20)
>DroYak_CAF1 98620 94 - 1
-AGGGUUCC--CAUUUUGACAGCCAUGACGGUCAUAAUAAGGCAGGG---UGUCAUAAGCUGUUGAAAGUCGAUUGAAAAGGUCGAAGGAACUCGGAGCG
-.(((((((--..(((..(((((.((((((.((...........)).---))))))..)))))..))).((((((.....)))))).)))))))...... ( -33.50)
>DroAna_CAF1 49009 89 - 1
AACGUUGCU--CCUUUUGACAGCCAUGACAGUCAUAAUAA-GCAGCC---UGCCAUAAGCUGUUGGUAGUCGAUUGAAAAGGUCGAUGGAAAGAC-----
...((((((--..((.((((..........)))).))..)-)))))(---(((((........))))))((.(((((.....))))).)).....----- ( -23.10)
>DroPer_CAF1 152437 92 - 1
-AGGGUAUC--UUCUCUGACAGCCAUGACAGUCAUAAUAAGGCAGGGGCCUGUCAUAAGCUGUUGAGAGUCGAUUGAAAAGGUCGAAGACAAAAG-----
-........--(((((.((((((.(((.....))).....(((((....)))))....)))))))))))((((((.....)))))).........----- ( -25.20)
>consensus
_AGGGUUCC__CAUUUUGACAGCCAUGACAGUCAUAAUAAGGCAGGG___UGUCAUAAGCUGUUGAAAGUCGAUUGAAAAGGUCGAAGGAAAUAG_____
.......((....((((((((((.(((((((((.......))).......))))))..)))))).))))((((((.....)))))).))........... (-16.17 = -15.48 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:36 2006