Locus 446

Sequence ID 2R_DroMel_CAF1
Location 2,565,068 – 2,565,276
Length 208
Max. P 0.965530
window854 window855

overview

Window 4

Location 2,565,068 – 2,565,166
Length 98
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 74.23
Mean single sequence MFE -19.57
Consensus MFE -11.50
Energy contribution -11.25
Covariance contribution -0.25
Combinations/Pair 1.23
Mean z-score -1.74
Structure conservation index 0.59
SVM decision value 0.97
SVM RNA-class probability 0.891866
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2565068 98 + 20766785
GAUACAUCAACUAAAUUCACAUAAUAUUUAUAUGUCCUCCGGUAGUAUGUGAUCUGCCUGCUGAUCCUGCUGUGCCUGCAGAUUUAUAUUAUCGCGGC
..................(((((.......)))))((..((((((((((.(((((((..((............))..))))))))))))))))).)). ( -21.30)
>DroPse_CAF1 1936 91 + 1
AA----UGAUCACAUCUGACAUUAUCUUUC---CCUUCCUCCCAGUAUGUGAUCUGCCUCUUGAUCCUGCUCUGCCUGCAGAUCUACAUCAUUGCUGC
..----.(((((((((((............---.........))).)))))))).((....((((...(.((((....)))).)...))))..))... ( -19.10)
>DroSec_CAF1 2179 95 + 1
GAUACAUCAACUAAAUUCACAUAAUAUUUA---AUCCUCCGGUAGUAUGUGAUCUGCCUGCUGAUCCUGCUGUGCCUGCAGAUCUACAUUAUCGCGGC
..............................---..((..(((((..(((((((((((..((............))..))))))).))))))))).)). ( -19.20)
>DroEre_CAF1 2154 93 + 1
AGUAUUUAGUAAUAUGCAA--UAAUCUUUA---AUUCUCUGCUAGUAUGUGAUCUGCCUGCUGAUUUUGCUGUGCCUGCAGAUUUACAUAAUCGCCGC
.((((........))))..--.........---.......((...((((((((((((..((............))..))))).)))))))...))... ( -17.90)
>DroYak_CAF1 2314 95 + 1
GAUAUGUAAUCAAAAUCAAAUUAAUAUUAA---AUACUCUGGUAGUAUGUGAUCUGCCUGCUAAUCCUGCUGUGCCUGCAGAUCUACAUAAUCGCCGC
(((.....)))...................---.......(((..((((((((((((..((............))..))))))).)))))...))).. ( -20.80)
>DroPer_CAF1 1936 91 + 1
AA----UGAUCACAUCUGACAUUAUCUUUC---CCUUCCUCCCAGUAUGUGAUCUGCCUCUUGAUCCUGCUCUGCCUGCAGAUCUACAUCAUUGCUGC
..----.(((((((((((............---.........))).)))))))).((....((((...(.((((....)))).)...))))..))... ( -19.10)
>consensus
AAUA__UAAUCAAAAUUAACAUAAUAUUUA___AUUCUCUGCUAGUAUGUGAUCUGCCUGCUGAUCCUGCUGUGCCUGCAGAUCUACAUAAUCGCCGC
..............................................(((((((((((..((............))..))))))).))))......... (-11.50 = -11.25 +  -0.25) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 2,565,166 – 2,565,276
Length 110
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 75.97
Mean single sequence MFE -44.32
Consensus MFE -21.23
Energy contribution -21.87
Covariance contribution 0.64
Combinations/Pair 1.32
Mean z-score -2.48
Structure conservation index 0.48
SVM decision value 1.58
SVM RNA-class probability 0.965530
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2565166 110 - 20766785
------GACUUACCUUUUGCUCAAGGAGCGAUAUGCGCUCCACAUUGGUCCUUUGAUCAGCCCAGGUGGCCAGGAAAUCCUUCUUGGAUCGCUCCACGUAGUCCGUGGAGUGGGCU
------...((((((...((....((((((.....))))))....(((((....)))))))..))))))(((((((....))))))).((((((((((.....))))))))))... ( -44.20)
>DroPse_CAF1 2027 116 - 1
UCUCCCCACUCACCUUCUGCUCGAUGAGGGAGAGGCGCUCGACAUUGGUUCUGGGAUCUGACCAGAGGGCCAGGAACUCGCUCCGCGACCUCUCCACAUAGUUCGUUGAGUGGGCU
....((((((((.(....(((..(((..((((((((((.......(((((((((.......)))))..))))(((......)))))).))))))).))))))..).)))))))).. ( -48.60)
>DroSec_CAF1 2274 107 - 1
---------UUACCUUUUGCUCGAGGAGCGAUAUGCGUUCCACAUUGGCCCUUUGAUCAGCCCAGGUGGCCAGGAAGUCCUUCUUGGAUCGCUCCACGUAGUCCGUGGAGUGGGCU
---------...............((((((.....)))))).....(((((...((((.(((.....)))((((((....))))))))))((((((((.....))))))))))))) ( -43.00)
>DroEre_CAF1 2247 108 - 1
--------CUUACCCUUUGCUCGAGGAGCGCUAUCCGCUCCACACUGUCCCUUUGAUCAGCCCAGCUGGCCAGGAAGUCCUUCCUGGAGCGCUCUACGUAGUCCGUAGAGUGGGCU
--------................((((((.....)))))).................(((((.(((..(((((((....))))))))))((((((((.....))))))))))))) ( -44.30)
>DroAna_CAF1 2835 110 - 1
------CCAUUACCUUUUGUUCAAUGAAGGAGAUGCGCUCUGCAUUAGCCUUUUGAUCGGCCCAGAGCCCGAGGAAAUCCCUCUUCGAGCGCUCCACAUAGUCCGUGGAAUGGGCA
------(((((.((...((..(.(((..((((.(((((((((.....(((........))).)))))).((((((......)))))).))))))).))).)..)).)))))))... ( -37.20)
>DroPer_CAF1 2027 116 - 1
UCUCCCCACUCACCUUCUGCUCGAUGAGGGAGAGGCGCUCGACAUUGGUUCUGGGAUCUGACCAGAGGGCCAGGAACUCGCUCCGCGACCUCUCCACAUAGUUCGUUGAGUGGGCU
....((((((((.(....(((..(((..((((((((((.......(((((((((.......)))))..))))(((......)))))).))))))).))))))..).)))))))).. ( -48.60)
>consensus
______CACUUACCUUUUGCUCGAGGAGCGAGAUGCGCUCCACAUUGGCCCUUUGAUCAGCCCAGAGGGCCAGGAAAUCCCUCCUCGACCGCUCCACAUAGUCCGUGGAGUGGGCU
........................((((.(.....).))))..................(((((..(((((((((......)))))).)))((((((.......))))))))))). (-21.23 = -21.87 +   0.64) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:46 2006