Locus 1961

Sequence ID 2R_DroMel_CAF1
Location 7,409,019 – 7,409,115
Length 96
Max. P 0.872616
window3241 window3242

overview

Window 1

Location 7,409,019 – 7,409,115
Length 96
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 82.38
Mean single sequence MFE -21.18
Consensus MFE -14.34
Energy contribution -14.70
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -2.87
Structure conservation index 0.68
SVM decision value 0.88
SVM RNA-class probability 0.872616
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7409019 96 + 20766785
---CUCUUCGAUUUAACAUGAUGAUGAUUUUUCAGUUCUGCUACUGAAGACAGUUGACGAAAGCAAAAAUACCAAAAUCACUGAAACAAAAUCGAG---U-UU
---...((((((((..((((((..((..((((((((......))))))))...(((.(....))))......))..)))).)).....))))))))---.-.. ( -18.60)
>DroVir_CAF1 23241 95 + 1
AGU--UCUCGAUUUAAAAUGAUGAUAUUUAUUCAGUUCUGCUACUGAAGAAUUUUGACGAAAGCAAAAAUACCAAAAUCACUGA---AAAAUCGAG---UGUA
...--.((((((((..(.((((........((((((......))))))...(((((.(....))))))........)))).)..---.))))))))---.... ( -20.40)
>DroPse_CAF1 24638 94 + 1
-AGCAACUCGAUUUACCAUGAUGAUUAUU-UUCAGUUCUGCUACUGAAGAACUUUGACGAUAGCAUAAAUACCAA-ACCACUGAA--AAAAUCGAG---U-UU
-...((((((((((......(((.(((((-.((((((((........)))))..))).))))))))......((.-.....))..--.))))))))---)-). ( -19.40)
>DroGri_CAF1 23353 96 + 1
AAUUAUCUCGAUUUUAUAUGAUGAUAUCUAUUCAGUUCUGCUACUGAAGAAUUUUGACGAAAGCAAAAAUACCAAAAUCACUGA---AAAAUCGAG---A-AA
.....((((((((((.((((((........((((((......))))))...(((((.(....))))))........)))).)).---)))))))))---)-.. ( -24.50)
>DroAna_CAF1 23895 97 + 1
---GUUCUCGAUUUUCCAUGAUGAUUACCUUUCAGUUCUGCUACUGAAGAUUUUUGACGAUAGCAAAAAUACCAA-ACCACUGAA-AAAAAUCGAGAACU-UU
---((((((((((((..............(((((((......)))))))(((((((.(....)))))))).....-.........-.)))))))))))).-.. ( -24.80)
>DroPer_CAF1 24592 94 + 1
-AGCAACUCGAUUUACCAUGAUGAUUAUU-UUCAGUUCUGCUACUGAAGAACUUUGACGAUAGCAUAAAUACCAA-ACCACUGAA--AAAAUCGAG---U-UU
-...((((((((((......(((.(((((-.((((((((........)))))..))).))))))))......((.-.....))..--.))))))))---)-). ( -19.40)
>consensus
_A_CAUCUCGAUUUAACAUGAUGAUUAUU_UUCAGUUCUGCUACUGAAGAAUUUUGACGAAAGCAAAAAUACCAA_ACCACUGAA__AAAAUCGAG___U_UU
......((((((((................((((((......))))))....((((.(....))))).....................))))))))....... (-14.34 = -14.70 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 7,409,019 – 7,409,115
Length 96
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 82.38
Mean single sequence MFE -23.08
Consensus MFE -16.12
Energy contribution -16.04
Covariance contribution -0.08
Combinations/Pair 1.04
Mean z-score -2.52
Structure conservation index 0.70
SVM decision value 0.74
SVM RNA-class probability 0.839395
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7409019 96 - 20766785
AA-A---CUCGAUUUUGUUUCAGUGAUUUUGGUAUUUUUGCUUUCGUCAACUGUCUUCAGUAGCAGAACUGAAAAAUCAUCAUCAUGUUAAAUCGAAGAG---
..-.---.(((((((.......((((((((..((.(((((((.......((((....))))))))))).)).)))))))).........)))))))....--- ( -20.00)
>DroVir_CAF1 23241 95 - 1
UACA---CUCGAUUUU---UCAGUGAUUUUGGUAUUUUUGCUUUCGUCAAAAUUCUUCAGUAGCAGAACUGAAUAAAUAUCAUCAUUUUAAAUCGAGA--ACU
....---((((((((.---..(((((...((((((((((((....).))))....((((((......))))))..))))))))))))..)))))))).--... ( -21.50)
>DroPse_CAF1 24638 94 - 1
AA-A---CUCGAUUUU--UUCAGUGGU-UUGGUAUUUAUGCUAUCGUCAAAGUUCUUCAGUAGCAGAACUGAA-AAUAAUCAUCAUGGUAAAUCGAGUUGCU-
.(-(---((((((((.--.((((((((-((((((....)))))............((((((......))))))-...))))))..))).))))))))))...- ( -22.20)
>DroGri_CAF1 23353 96 - 1
UU-U---CUCGAUUUU---UCAGUGAUUUUGGUAUUUUUGCUUUCGUCAAAAUUCUUCAGUAGCAGAACUGAAUAGAUAUCAUCAUAUAAAAUCGAGAUAAUU
..-(---(((((((((---...((((...((((((((((((....).))))....((((((......))))))..)))))))))))..))))))))))..... ( -23.30)
>DroAna_CAF1 23895 97 - 1
AA-AGUUCUCGAUUUUU-UUCAGUGGU-UUGGUAUUUUUGCUAUCGUCAAAAAUCUUCAGUAGCAGAACUGAAAGGUAAUCAUCAUGGAAAAUCGAGAAC---
..-.(((((((((((((-(...(((((-((((((....))))).........(((((((((......)))).)))))))))))...))))))))))))))--- ( -29.30)
>DroPer_CAF1 24592 94 - 1
AA-A---CUCGAUUUU--UUCAGUGGU-UUGGUAUUUAUGCUAUCGUCAAAGUUCUUCAGUAGCAGAACUGAA-AAUAAUCAUCAUGGUAAAUCGAGUUGCU-
.(-(---((((((((.--.((((((((-((((((....)))))............((((((......))))))-...))))))..))).))))))))))...- ( -22.20)
>consensus
AA_A___CUCGAUUUU__UUCAGUGAU_UUGGUAUUUUUGCUAUCGUCAAAAUUCUUCAGUAGCAGAACUGAA_AAUAAUCAUCAUGGUAAAUCGAGAUG_U_
.......((((((((.......(((((...((((....)))).............((((((......)))))).....)))))......))))))))...... (-16.12 = -16.04 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:26 2006