Locus 943

Sequence ID	3R_DroMel_CAF1
Location	3,124,515 – 3,124,634
Length	119
Max. P	0.999102

overview

Window 5

Location	3,124,515 – 3,124,634
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.32
Mean single sequence MFE	-38.34
Consensus MFE	-34.84
Energy contribution	-35.28
Covariance contribution	0.44
Combinations/Pair	1.07
Mean z-score	-1.95
Structure conservation index	0.91
SVM decision value	2.63
SVM RNA-class probability	0.995903
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3124515 119 + 27905053
AGCUCCCUUACCAACUUGGCACCGCUUGUCUCGGCCAACUAAUUUCGCUAAUGCAAGUGACAACGGCAGCAAAAAAUGCCGUGAUUGUUGACGCAGCCAGUUGGCAAAGGGCAGAAGGA-
..(((((((.((((((.(((..(((((((.(..((.((.....)).))..).)))))))...((((((........)))))).............)))))))))..))))).)).....- ( -41.10)
>DroSec_CAF1 203 120 + 1
AGAUCCCCUACCAACUUGGCACCGCUUGUCUCGGCCAUCUAAUUUCGCUAAUGCAAGUGACAACGGCAGCAAAAAAUGCUGUGAUUGUUGACGCAGCCAGUUGGCAAAGGGCAGAUGGAU
..(((((((.((((((.(((..(((((((.(..((...........))..).))))))).(((((((((((.....))))))...))))).....)))))))))...))))..))).... ( -40.40)
>DroSim_CAF1 287 119 + 1
AGCUCCCCUACCAACUUGGCACCGCUUGUCUCGGCCAACUAAUUUCGCUAAUGCAAGUGACAACGGCAGCAAAAAAUGCCGUGAUUGUAGACGCAGCCAGU-GGCAAAGGGCAGAUGGAU
..((.((((.(((...((((..(((((((.(..((.((.....)).))..).)))))))(((((((((........))))))...))).......)))).)-))...)))).))...... ( -35.80)
>DroEre_CAF1 305 119 + 1
AGCUUCCUUACCAACUUGGCACCGCUUGUCUCGGCCAACUAAUUUCGCUAAUGCAAGUGACAACGGCAGCAAAAAAUGCCGUGAUUGUUGACGCAGCCAGUUGGCAAAGGGCAGAUGAA-
.((..((((.((((((.(((..(((((((.(..((.((.....)).))..).)))))))...((((((........)))))).............)))))))))..)))))).......- ( -38.30)
>DroYak_CAF1 431 119 + 1
AGCUUCCUUACCAACUUGGCACCGCUUGUCUCGGCCAACUAAUUUCGCUAAUGCAAGUGACAACAGCAGCAAAAAAUGCCGUGAUUGUUGACGCAGCCAGUUGGCAAAGGGCACAUGAA-
.((..((((.((((((.(((..(((((((.(..((.((.....)).))..).))))))).(((((((((((.....)))..)).)))))).....)))))))))..)))))).......- ( -36.10)
>consensus
AGCUCCCUUACCAACUUGGCACCGCUUGUCUCGGCCAACUAAUUUCGCUAAUGCAAGUGACAACGGCAGCAAAAAAUGCCGUGAUUGUUGACGCAGCCAGUUGGCAAAGGGCAGAUGGA_
....(((((.((((((.(((..(((((((.(..((...........))..).)))))))...((((((........)))))).............)))))))))..)))))......... (-34.84 = -35.28 +   0.44)

alignment

secondary structure

dotplot

Window 6

Location	3,124,515 – 3,124,634
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.32
Mean single sequence MFE	-41.74
Consensus MFE	-38.86
Energy contribution	-39.26
Covariance contribution	0.40
Combinations/Pair	1.06
Mean z-score	-2.12
Structure conservation index	0.93
SVM decision value	3.37
SVM RNA-class probability	0.999102
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3124515 119 - 27905053
-UCCUUCUGCCCUUUGCCAACUGGCUGCGUCAACAAUCACGGCAUUUUUUGCUGCCGUUGUCACUUGCAUUAGCGAAAUUAGUUGGCCGAGACAAGCGGUGCCAAGUUGGUAAGGGAGCU
-.......(((((((((((((((((.....((((....((((((........))))))......((((....)))).....))))((((.......))))))).)))))))))))).)). ( -45.20)
>DroSec_CAF1 203 120 - 1
AUCCAUCUGCCCUUUGCCAACUGGCUGCGUCAACAAUCACAGCAUUUUUUGCUGCCGUUGUCACUUGCAUUAGCGAAAUUAGAUGGCCGAGACAAGCGGUGCCAAGUUGGUAGGGGAUCU
..........(((((((((((((((..((((.(((((..(((((.....)))))..)))))...((((....)))).....))))((((.......))))))).)))))))))))).... ( -44.00)
>DroSim_CAF1 287 119 - 1
AUCCAUCUGCCCUUUGCC-ACUGGCUGCGUCUACAAUCACGGCAUUUUUUGCUGCCGUUGUCACUUGCAUUAGCGAAAUUAGUUGGCCGAGACAAGCGGUGCCAAGUUGGUAGGGGAGCU
........((((((((((-((((((((((...(((((..(((((.....)))))..)))))....)))).((((.......))))((((.......))))))).)).))))))))).)). ( -39.20)
>DroEre_CAF1 305 119 - 1
-UUCAUCUGCCCUUUGCCAACUGGCUGCGUCAACAAUCACGGCAUUUUUUGCUGCCGUUGUCACUUGCAUUAGCGAAAUUAGUUGGCCGAGACAAGCGGUGCCAAGUUGGUAAGGAAGCU
-.......((.((((((((((((((.....((((....((((((........))))))......((((....)))).....))))((((.......))))))).)))))))))))..)). ( -40.10)
>DroYak_CAF1 431 119 - 1
-UUCAUGUGCCCUUUGCCAACUGGCUGCGUCAACAAUCACGGCAUUUUUUGCUGCUGUUGUCACUUGCAUUAGCGAAAUUAGUUGGCCGAGACAAGCGGUGCCAAGUUGGUAAGGAAGCU
-.......((.((((((((((((((..(((......((.((((...((((((((.(((........))).)))))))).......)))).))...)))..))).)))))))))))..)). ( -40.20)
>consensus
_UCCAUCUGCCCUUUGCCAACUGGCUGCGUCAACAAUCACGGCAUUUUUUGCUGCCGUUGUCACUUGCAUUAGCGAAAUUAGUUGGCCGAGACAAGCGGUGCCAAGUUGGUAAGGGAGCU
........(((((((((((((((((((((...(((((..(((((.....)))))..)))))....))))................((((.......))))))).)))))))))))).)). (-38.86 = -39.26 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:10 2006