Locus 614

Sequence ID	X_DroMel_CAF1
Location	1,688,710 – 1,688,812
Length	102
Max. P	0.999537

overview

Window 4

Location	1,688,710 – 1,688,812
Length	102
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	93.85
Mean single sequence MFE	-24.44
Consensus MFE	-22.32
Energy contribution	-22.72
Covariance contribution	0.40
Combinations/Pair	1.07
Mean z-score	-2.31
Structure conservation index	0.91
SVM decision value	3.70
SVM RNA-class probability	0.999537
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1688710 102 + 22224390
UACACUUCUCGAAACUGGAAUCUAGAUU-----UCUAGAACUCAACCUAAUCCACUUUCGGCUGAGAAAUAGAACAGCAUUGGCAUUUCCAAAAAAGUCUCGGCUCU
.........(((((.((((.(((((...-----.)))))...........)))).)))))(((((((....(((..((....))..)))........)))))))... ( -22.30)
>DroSec_CAF1 28914 102 + 1
UACACUUCUCGAAACUGGAAUCUAGAUU-----UCUAGAACUCAACCUAAUCUACUUUCGGCUGAGAAAUGGAGCAGCAUUGGCAUUUCCAAAAAAGUCUCGGCUCU
.........(((((.((((.(((((...-----.)))))...........)))).)))))(((((((..(((((..((....))..)))))......)))))))... ( -24.80)
>DroSim_CAF1 22987 102 + 1
UACACUUCUCGAAACUGGAAUCUAGAUU-----UCUAGAACUCAACCUAAUCUACUUUCGGCUGAGAAAUGGAGCAGCAUUGGCAUUUCCAAAAAAGUCUCGGCUCU
.........(((((.((((.(((((...-----.)))))...........)))).)))))(((((((..(((((..((....))..)))))......)))))))... ( -24.80)
>DroEre_CAF1 24688 101 + 1
UACACUUCUCGAAACUGUUAUCUAGAUU-----UCUAGAACUCAACCUAAUCCACUUUCGGCUGAGAAAUGGAGCAGCAUUGGCAUUUCCAAAAUAGUCUCGGCUC-
........((((.((((((.(((((...-----.))))).((((.((.((......)).)).))))...(((((..((....))..))))).)))))).))))...- ( -24.60)
>DroYak_CAF1 22639 107 + 1
UACACUUCUCGAAACUGGAAUCUAGAUCUAGAAUCUAGAACUCAACCUAAUCCACUUUCGGCUGAGAAAUGGAGCAGCAUUGGCAUUUCCAAAAUAUUCUCGCCUCU
..........((((.((((.(((((((.....)))))))...........)))).))))(((.(((((.(((((..((....))..))))).....))))))))... ( -25.70)
>consensus
UACACUUCUCGAAACUGGAAUCUAGAUU_____UCUAGAACUCAACCUAAUCCACUUUCGGCUGAGAAAUGGAGCAGCAUUGGCAUUUCCAAAAAAGUCUCGGCUCU
.........(((((.((((.((((((.......))))))...........)))).)))))(((((((..(((((..((....))..)))))......)))))))... (-22.32 = -22.72 +   0.40)

alignment

secondary structure

dotplot

Window 5

Location	1,688,710 – 1,688,812
Length	102
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	93.85
Mean single sequence MFE	-26.90
Consensus MFE	-24.82
Energy contribution	-24.86
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.24
Structure conservation index	0.92
SVM decision value	0.59
SVM RNA-class probability	0.792296
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1688710 102 - 22224390
AGAGCCGAGACUUUUUUGGAAAUGCCAAUGCUGUUCUAUUUCUCAGCCGAAAGUGGAUUAGGUUGAGUUCUAGA-----AAUCUAGAUUCCAGUUUCGAGAAGUGUA
.....(((((((..((((((...((....))..(((((...(((((((............)))))))...))))-----).))))))....)))))))......... ( -25.60)
>DroSec_CAF1 28914 102 - 1
AGAGCCGAGACUUUUUUGGAAAUGCCAAUGCUGCUCCAUUUCUCAGCCGAAAGUAGAUUAGGUUGAGUUCUAGA-----AAUCUAGAUUCCAGUUUCGAGAAGUGUA
.....(((((((....((((...((....))...))))...(((((((............))))))).(((((.-----...)))))....)))))))......... ( -25.90)
>DroSim_CAF1 22987 102 - 1
AGAGCCGAGACUUUUUUGGAAAUGCCAAUGCUGCUCCAUUUCUCAGCCGAAAGUAGAUUAGGUUGAGUUCUAGA-----AAUCUAGAUUCCAGUUUCGAGAAGUGUA
.....(((((((....((((...((....))...))))...(((((((............))))))).(((((.-----...)))))....)))))))......... ( -25.90)
>DroEre_CAF1 24688 101 - 1
-GAGCCGAGACUAUUUUGGAAAUGCCAAUGCUGCUCCAUUUCUCAGCCGAAAGUGGAUUAGGUUGAGUUCUAGA-----AAUCUAGAUAACAGUUUCGAGAAGUGUA
-....(((((((....((((...((....))...))))...(((((((............))))))).(((((.-----...)))))....)))))))......... ( -26.50)
>DroYak_CAF1 22639 107 - 1
AGAGGCGAGAAUAUUUUGGAAAUGCCAAUGCUGCUCCAUUUCUCAGCCGAAAGUGGAUUAGGUUGAGUUCUAGAUUCUAGAUCUAGAUUCCAGUUUCGAGAAGUGUA
...((((((((.....((((...((....))...)))).))))).)))((((.((((...........((((((((...)))))))).)))).)))).......... ( -30.60)
>consensus
AGAGCCGAGACUUUUUUGGAAAUGCCAAUGCUGCUCCAUUUCUCAGCCGAAAGUGGAUUAGGUUGAGUUCUAGA_____AAUCUAGAUUCCAGUUUCGAGAAGUGUA
.....(((((((....((((...((....))...))))...(((((((............))))))).((((((.......))))))....)))))))......... (-24.82 = -24.86 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:28 2006