Locus 5712

Sequence ID X_DroMel_CAF1
Location 14,792,450 – 14,792,609
Length 159
Max. P 0.781595
window9269 window9270 window9271

overview

Window 9

Location 14,792,450 – 14,792,547
Length 97
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 74.23
Mean single sequence MFE -26.91
Consensus MFE -19.61
Energy contribution -21.18
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -1.39
Structure conservation index 0.73
SVM decision value 0.29
SVM RNA-class probability 0.671328
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14792450 97 + 22224390
CGUCGCUUCCGUUUCCGGAUGCUGCUGCACUUCCCCUGCGCACC------CUGCUCUUCAAC--------UAACUGCAUUAUCGCUUAUCUACACUGAGCGGAAAUGCGGU
....((.((((....)))).))(((.(((.......))))))..------............--------..((((((((.(((((((.......))))))).)))))))) ( -28.70)
>DroSec_CAF1 27263 105 + 1
CGUCGCUUCCGUUUCCGGAUGGUGCUGCACUUCCCCUGCGCACC------CUGCUCCCCUACUCUUCUCAUAACUGCAUUAUCGCUUAUCAACACUGAGCGGAAAUACGGU
....((.((((....)))).(((((.(((.......))))))))------..))..................((((.(((.(((((((.......))))))).))).)))) ( -26.30)
>DroEre_CAF1 22525 111 + 1
CGUGGCUUCCGUUUCCGGAUGGUGCUGCAUUACAGCCACCCACCUCGCCCCUGGCCCACUGCUAUUCUGCUAACUGCAUUAUCGCUUAUCUACACUGAGCGGAAAGGCGCU
.((((..((((....)))).(((((((.....))).))))......(((...))))))).(((.((((((.....)))....((((((.......))))))))).)))... ( -31.90)
>DroYak_CAF1 22201 88 + 1
CGUGGCUUCCGUUUCCGGAUGACGUUGCAUUU-----------------------CCCCUGCUCUUUUACUAACUGCAUUAUCGCUUAUCUACACUGAGCGGAAAGGCGCU
.(((.(((((((((..((((((((.((((...-----------------------...................))))....)).)))))).....)))))).))).))). ( -20.75)
>consensus
CGUCGCUUCCGUUUCCGGAUGGUGCUGCACUUCCCCUGCGCACC______CUGCUCCCCUACUCUUCU_CUAACUGCAUUAUCGCUUAUCUACACUGAGCGGAAAGGCGCU
.(((((.((((....))))....)))))............................................((((((((.(((((((.......))))))).)))))))) (-19.61 = -21.18 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 14,792,481 – 14,792,579
Length 98
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 68.24
Mean single sequence MFE -22.67
Consensus MFE -13.62
Energy contribution -13.73
Covariance contribution 0.11
Combinations/Pair 1.15
Mean z-score -1.37
Structure conservation index 0.60
SVM decision value 0.56
SVM RNA-class probability 0.781595
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14792481 98 + 22224390
UCCCCUGCGCACC------CUGCUCUUCAAC--------UAACUGCAUUAUCGCUUAUCUACACUGAGCGGAAAUGCGGUAAUUCAUAAAUGAUUUGCUGCUUC----GAUUG-GCU
.............------..(((..((...--------.....(((((.(((((((.......))))))).)))))(((((.(((....))).))))).....----))..)-)). ( -23.70)
>DroSec_CAF1 27294 106 + 1
UCCCCUGCGCACC------CUGCUCCCCUACUCUUCUCAUAACUGCAUUAUCGCUUAUCAACACUGAGCGGAAAUACGGUCAUUCAUAAAUGAUUUGUUGUUUC----UUUUG-GCU
........((...------..)).....................((.....((((((.......))))))((((((((((((((....))))).))).))))))----.....-)). ( -15.60)
>DroEre_CAF1 22556 110 + 1
ACAGCCACCCACCUCGCCCCUGGCCCACUGCUAUUCUGCUAACUGCAUUAUCGCUUAUCUACACUGAGCGGAAAGGCGCUCAUUCAUCAU------GCAGUUUGCAGUGAUUUA-CU
...((((.............)))).((((((....((((.....((......))..........((((((......))))))........------))))...)))))).....-.. ( -28.72)
>consensus
UCCCCUGCGCACC______CUGCUCCACUACU_UUCU__UAACUGCAUUAUCGCUUAUCUACACUGAGCGGAAAUGCGGUCAUUCAUAAAUGAUUUGCUGUUUC____GAUUG_GCU
......(((((.........)))..................((((((((.(((((((.......))))))).))))))))...................))................ (-13.62 = -13.73 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 14,792,507 – 14,792,609
Length 102
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 71.08
Mean single sequence MFE -22.81
Consensus MFE -11.27
Energy contribution -12.53
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -1.84
Structure conservation index 0.49
SVM decision value 0.20
SVM RNA-class probability 0.629240
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14792507 102 + 22224390
AACUGCAUUAUCGCUUAUCUACACUGAGCGGAAAUGCGGUAAUUCAUAAAUGAUUUGCUGCUUC----GAUUG--GCUCAUUUAU----------UUUUCGAAGCAAAUCAUAUUUCA
.((((((((.(((((((.......))))))).)))))))).........((((((((((...((----((..(--(........)----------)..))))))))))))))...... ( -31.90)
>DroSec_CAF1 27328 102 + 1
AACUGCAUUAUCGCUUAUCAACACUGAGCGGAAAUACGGUCAUUCAUAAAUGAUUUGUUGUUUC----UUUUG--GCUCAUUUAU----------UUUUCGAAGCAAAUCAUAUUUGA
.((((.(((.(((((((.......))))))).))).))))...(((...((((((((((.....----.....--..........----------.......))))))))))...))) ( -19.93)
>DroEre_CAF1 22596 108 + 1
AACUGCAUUAUCGCUUAUCUACACUGAGCGGAAAGGCGCUCAUUCAUCAU------GCAGUUUGCAGUGAUUUA--CUCAUUUUUCUGGCCCCGCUAUUAGCACUCAAUUA--UUUUU
((((((((....(........)..((((((......))))))......))------))))))((((((((....--.)))))....((((...))))...)))........--..... ( -20.00)
>DroYak_CAF1 22249 102 + 1
AACUGCAUUAUCGCUUAUCUACACUGAGCGGAAAGGCGCUUAUUCAUCAU------GCAGUUUUAUGUGAUUUAUAAUCAUUUAG----------UUUUCAAAGUAAACUAGGUUUUA
((((((((.(((((((.((..(.....)..)).))))).......)).))------))))))....(((((.....)))))((((----------(((.......)))))))...... ( -19.41)
>consensus
AACUGCAUUAUCGCUUAUCUACACUGAGCGGAAAGGCGCUCAUUCAUAAA______GCAGUUUC____GAUUG__GCUCAUUUAU__________UUUUCGAAGCAAAUCAUAUUUUA
.((((((((.(((((((.......))))))).)))))))).............................................................................. (-11.27 = -12.53 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:35 2006