Locus 2652

Sequence ID	3L_DroMel_CAF1
Location	7,350,258 – 7,350,375
Length	117
Max. P	0.944746

overview

Window 7

Location	7,350,258 – 7,350,375
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.63
Mean single sequence MFE	-22.06
Consensus MFE	-17.66
Energy contribution	-17.30
Covariance contribution	-0.36
Combinations/Pair	1.12
Mean z-score	-1.64
Structure conservation index	0.80
SVM decision value	0.53
SVM RNA-class probability	0.769543
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7350258 117 + 23771897
CUUUCAGCAGCUUUAUCUGCC--AAAAUGUAGACU-UAUCUAUUGAAAUGGCCAUGACAAUAGAAAAACAAGCAUAGUCUGUAAUGAUAAAUGCAUUAUCGAAAUAAAAAGCCACUGAUA
...((((..(((((.(((((.--.....)))))..-..(((((((..((....))..))))))).......((((.(((......)))..)))).............)))))..)))).. ( -23.50)
>DroSec_CAF1 1123 118 + 1
UAUUCAGCAGCUUUAUCUGCC--AAAAUGUAGGCUUUAUCUAUUGAAAUGGCCAUGACAAUAGAAAAACAAGCAUAGUCUGUAAUGAUAAAUGCAUUAUCGAAAUAAAAAGCCACUGAUA
...(((((((......)))).--........((((((.(((((((..((....))..))))))).......((((.(((......)))..)))).............))))))..))).. ( -23.80)
>DroSim_CAF1 1116 117 + 1
UAUUCAGCAGCUUUAUCUGCC--AAAAUGUAGGCU-UAUCUAUUGAAAUGGCCAUGACAAAAGAAAAACAAGCAUAGUCUGUAAUGAUAAAUGCAUUAUCGAAAUAAAAAGCCACUGAUA
...((((..(((((.......--....(((.((((-..((....))...))))...)))............((((.(((......)))..)))).............)))))..)))).. ( -21.30)
>DroEre_CAF1 2183 116 + 1
CUUUUAGCGGCUUUAUCUGCC--AAAAUGUAGACU-UAUCUAUUGAACUGGCCAUGACAAAAGAA-AACAAGCACAGCCUGUAAUGAUAAAUGCAUUAUCGAAAUAAAAAGCGACUGAUA
......(((((.......)))--..((((((...(-((((.((((....(((..((.(.......-.....)))..)))..))))))))).)))))).............))........ ( -19.10)
>DroYak_CAF1 1128 118 + 1
CUUUCAGUAGCUUUAUCUGCCCAAAAAUAUAGACU-UAUCUAUUGAAGUGGCCAUGACAAAAGAA-AACAAACCCAGUCUGUAAUGAUAAAUGCAUUAUCGAAAUAAAAAGCCACUGAUA
...(((((.(((((.((((.(((.....(((((..-..))))).....))).)).))........-...........((.((((((.......)))))).)).....))))).))))).. ( -22.60)
>consensus
CUUUCAGCAGCUUUAUCUGCC__AAAAUGUAGACU_UAUCUAUUGAAAUGGCCAUGACAAAAGAAAAACAAGCAUAGUCUGUAAUGAUAAAUGCAUUAUCGAAAUAAAAAGCCACUGAUA
...((((..(((((....(((.......(((((.....)))))......))).........................((.((((((.......)))))).)).....)))))..)))).. (-17.66 = -17.30 +  -0.36)

alignment

secondary structure

dotplot

Window 8

Location	7,350,258 – 7,350,375
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.63
Mean single sequence MFE	-27.88
Consensus MFE	-21.76
Energy contribution	-21.64
Covariance contribution	-0.12
Combinations/Pair	1.13
Mean z-score	-2.30
Structure conservation index	0.78
SVM decision value	1.35
SVM RNA-class probability	0.944746
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7350258 117 - 23771897
UAUCAGUGGCUUUUUAUUUCGAUAAUGCAUUUAUCAUUACAGACUAUGCUUGUUUUUCUAUUGUCAUGGCCAUUUCAAUAGAUA-AGUCUACAUUUU--GGCAGAUAAAGCUGCUGAAAG
..((((..(((.........(((((.((((...((......))..)))))))))......(((((...((((......((((..-..)))).....)--))).))))))))..))))... ( -27.80)
>DroSec_CAF1 1123 118 - 1
UAUCAGUGGCUUUUUAUUUCGAUAAUGCAUUUAUCAUUACAGACUAUGCUUGUUUUUCUAUUGUCAUGGCCAUUUCAAUAGAUAAAGCCUACAUUUU--GGCAGAUAAAGCUGCUGAAUA
..((((..(((((.....(((((((.((((...((......))..)))))))))..(((((((..((....))..)))))))....(((........--))).)).)))))..))))... ( -29.90)
>DroSim_CAF1 1116 117 - 1
UAUCAGUGGCUUUUUAUUUCGAUAAUGCAUUUAUCAUUACAGACUAUGCUUGUUUUUCUUUUGUCAUGGCCAUUUCAAUAGAUA-AGCCUACAUUUU--GGCAGAUAAAGCUGCUGAAUA
..((((..(((((.......(((((.((((...((......))..))))))))).....(((((((.(((....((....))..-.))).......)--)))))).)))))..))))... ( -27.10)
>DroEre_CAF1 2183 116 - 1
UAUCAGUCGCUUUUUAUUUCGAUAAUGCAUUUAUCAUUACAGGCUGUGCUUGUU-UUCUUUUGUCAUGGCCAGUUCAAUAGAUA-AGUCUACAUUUU--GGCAGAUAAAGCCGCUAAAAG
....(((.((..........(((((.....)))))...((((((...)))))).-....((((((...(((((.....((((..-..))))....))--))).)))))))).)))..... ( -23.60)
>DroYak_CAF1 1128 118 - 1
UAUCAGUGGCUUUUUAUUUCGAUAAUGCAUUUAUCAUUACAGACUGGGUUUGUU-UUCUUUUGUCAUGGCCACUUCAAUAGAUA-AGUCUAUAUUUUUGGGCAGAUAAAGCUACUGAAAG
..((((((((..........(((((.....)))))...((((((...)))))).-....((((((.((.(((.....(((((..-..))))).....))).))))))))))))))))... ( -31.00)
>consensus
UAUCAGUGGCUUUUUAUUUCGAUAAUGCAUUUAUCAUUACAGACUAUGCUUGUUUUUCUUUUGUCAUGGCCAUUUCAAUAGAUA_AGUCUACAUUUU__GGCAGAUAAAGCUGCUGAAAG
..(((((((((.........(((((.((((...((......))..)))))))))......(((((...(((.......(((.......)))........))).))))))))))))))... (-21.76 = -21.64 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:33 2006