Locus 8626

Sequence ID	X_DroMel_CAF1
Location	21,684,735 – 21,684,839
Length	104
Max. P	0.983681

overview

Window 1

Location	21,684,735 – 21,684,839
Length	104
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	85.94
Mean single sequence MFE	-19.34
Consensus MFE	-14.54
Energy contribution	-15.54
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.80
Structure conservation index	0.75
SVM decision value	1.95
SVM RNA-class probability	0.983681
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21684735 104 + 22224390
AU------AAUAAUAAGAACGGAGCCAAACACUAACGCCCAACUGAGCAGCAACAACAGCAACUACAGCCAUACAA-AACGUAAAAAACACC-AAGUUGUUUGGCCUUCGAU
..------...........((((((((((((((.........(((((..((.......))..)).)))...(((..-...))).........-.)).))))))).))))).. ( -20.10)
>DroSec_CAF1 6395 95 + 1
AU------AAUAAUAAGAACGGAGCCAAACACUAACGCCCAACUGAGCAGCAACAACAG---------CCACACAAAAACGUAUAAAA-AGC-AAGUUGUUUGGCCUUCGAU
..------...........((((((((((((((...((.(....).)).((.......)---------)...................-...-.)).))))))).))))).. ( -17.70)
>DroSim_CAF1 6508 95 + 1
AU------AAUAAUAAGAACGGAGCCAAACACUAACGCCCAACUGAGCAGCAACAACAG---------CCACACAAAAACGUAUAAAA-AGC-AAGUUGUUUGGCCUUCGAU
..------...........((((((((((((((...((.(....).)).((.......)---------)...................-...-.)).))))))).))))).. ( -17.70)
>DroEre_CAF1 6446 105 + 1
AU---AAUAAUAACAAAAACGGAGCCAAAAACUAACGCCCCACAGAGCAGCAACAACAA---CUAGAGCUAUACAAAAACGUAUAAAA-AGCUAAGUUGUUUGGCCUUCGAU
..---..............(((((((((........((........)).......((((---((..((((((((......))))....-)))).)))))))))).))))).. ( -21.50)
>DroYak_CAF1 6465 108 + 1
AUAAUAAUAAUAACAAAAACGGAGCCAAAAACUAACGCCCAACAGAGCAGCAACAACAA---CUAGAGCUAUACAAAAACGUAUAAAA-AGCAAAGUUGUUUGGCCUUCGAU
...................(((((((((........((.(....).)).......((((---((...(((((((......))))....-)))..)))))))))).))))).. ( -19.70)
>consensus
AU______AAUAAUAAGAACGGAGCCAAACACUAACGCCCAACUGAGCAGCAACAACAG___CUA_AGCCAUACAAAAACGUAUAAAA_AGC_AAGUUGUUUGGCCUUCGAU
...................((((((((((((((...((.(....).))......................((((......))))..........)).))))))).))))).. (-14.54 = -15.54 +   1.00)

alignment

secondary structure

dotplot

Window 2

Location	21,684,735 – 21,684,839
Length	104
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	85.94
Mean single sequence MFE	-24.48
Consensus MFE	-19.59
Energy contribution	-19.31
Covariance contribution	-0.28
Combinations/Pair	1.08
Mean z-score	-1.74
Structure conservation index	0.80
SVM decision value	0.53
SVM RNA-class probability	0.770395
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21684735 104 - 22224390
AUCGAAGGCCAAACAACUU-GGUGUUUUUUACGUU-UUGUAUGGCUGUAGUUGCUGUUGUUGCUGCUCAGUUGGGCGUUAGUGUUUGGCUCCGUUCUUAUUAUU------AU
...((((((((((((....-.(((.....)))...-..((.((((((.(((.((.......)).))))))))).)).....)))))))))...)))........------.. ( -24.90)
>DroSec_CAF1 6395 95 - 1
AUCGAAGGCCAAACAACUU-GCU-UUUUAUACGUUUUUGUGUGG---------CUGUUGUUGCUGCUCAGUUGGGCGUUAGUGUUUGGCUCCGUUCUUAUUAUU------AU
...((((((((((((.((.-((.-................(..(---------(....))..).((((....)))))).)))))))))))...)))........------.. ( -24.70)
>DroSim_CAF1 6508 95 - 1
AUCGAAGGCCAAACAACUU-GCU-UUUUAUACGUUUUUGUGUGG---------CUGUUGUUGCUGCUCAGUUGGGCGUUAGUGUUUGGCUCCGUUCUUAUUAUU------AU
...((((((((((((.((.-((.-................(..(---------(....))..).((((....)))))).)))))))))))...)))........------.. ( -24.70)
>DroEre_CAF1 6446 105 - 1
AUCGAAGGCCAAACAACUUAGCU-UUUUAUACGUUUUUGUAUAGCUCUAG---UUGUUGUUGCUGCUCUGUGGGGCGUUAGUUUUUGGCUCCGUUUUUGUUAUUAUU---AU
...((.(((..(((((((.((((-....(((((....)))))))))..))---)))))...)))..))...(((((...........)))))...............---.. ( -24.50)
>DroYak_CAF1 6465 108 - 1
AUCGAAGGCCAAACAACUUUGCU-UUUUAUACGUUUUUGUAUAGCUCUAG---UUGUUGUUGCUGCUCUGUUGGGCGUUAGUUUUUGGCUCCGUUUUUGUUAUUAUUAUUAU
..((..((((((((((((..(((-....(((((....))))))))...))---)))))......((((....)))).........))))).))................... ( -23.60)
>consensus
AUCGAAGGCCAAACAACUU_GCU_UUUUAUACGUUUUUGUAUGGCU_UAG___CUGUUGUUGCUGCUCAGUUGGGCGUUAGUGUUUGGCUCCGUUCUUAUUAUU______AU
..((..(((((((((((.........(((((((....)))))))...........))))))...((((....)))).........))))).))................... (-19.59 = -19.31 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:52 2006