Locus 6883

Sequence ID	X_DroMel_CAF1
Location	17,206,346 – 17,206,456
Length	110
Max. P	0.789171

overview

Window 8

Location	17,206,346 – 17,206,438
Length	92
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	90.42
Mean single sequence MFE	-24.07
Consensus MFE	-20.52
Energy contribution	-20.80
Covariance contribution	0.28
Combinations/Pair	1.10
Mean z-score	-1.49
Structure conservation index	0.85
SVM decision value	-0.04
SVM RNA-class probability	0.512203
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17206346 92 + 22224390
CCGAUAUCAGUGUA--------UAUACACGUAGAUCUACUUGGGCCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUU
((((.....((((.--------...))))(((....)))))))..(((((.........((((((((((.(((...)))))))))))))..))))).... ( -24.50)
>DroSec_CAF1 51922 92 + 1
CCGAUAUCAGUGUA--------UAUACACGUAGAUCUACUUGGGCCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUU
((((.....((((.--------...))))(((....)))))))..(((((.........((((((((((.(((...)))))))))))))..))))).... ( -24.50)
>DroSim_CAF1 56923 92 + 1
CCGAUAUCAGUGUA--------UAUACACGUAGAUCUACUUGGGCCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUU
((((.....((((.--------...))))(((....)))))))..(((((.........((((((((((.(((...)))))))))))))..))))).... ( -24.50)
>DroEre_CAF1 58816 92 + 1
CCGAUAUCAGAGUA--------UAUACACGUAGAUCUACUUGGGCCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUU
((((....(((...--------(((....)))..)))..))))..(((((.........((((((((((.(((...)))))))))))))..))))).... ( -21.00)
>DroYak_CAF1 58717 100 + 1
CCGAUAUCAGUGUAUAAAAUCAUAUACACGUACAUCUGCUUGGGCCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUU
((((.....(((((((......)))))))(((....)))))))..(((((.........((((((((((.(((...)))))))))))))..))))).... ( -27.20)
>DroAna_CAF1 80801 84 + 1
CAGAUAUCAGGG--------------CACUUGAAUCUGCUGUGG--CUGCUAAUUAUUCAUCGGGUUCAUCACGUCGUGUGAACUCGGUUUGUAGGUUUU
.((...(((.((--------------((........)))).)))--...))..((((..((((((((((.(((...)))))))))))))..))))..... ( -22.70)
>consensus
CCGAUAUCAGUGUA________UAUACACGUAGAUCUACUUGGGCCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUU
.........(((((..........)))))..((((((((...(((...)))........((((((((((.(((...)))))))))))))..)))))))). (-20.52 = -20.80 +   0.28)

alignment

secondary structure

dotplot

Window 9

Location	17,206,361 – 17,206,456
Length	95
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	78.20
Mean single sequence MFE	-22.77
Consensus MFE	-16.72
Energy contribution	-16.88
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-1.30
Structure conservation index	0.73
SVM decision value	0.58
SVM RNA-class probability	0.789171
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17206361 95 + 22224390
AUACACGUAGAUCUACUUGGGCCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUUUGUUAUAAGUUGUUCGUU----------------------
....(((.((((((((...(((...)))........((((((((((.(((...)))))))))))))..)))))))).)))...............---------------------- ( -22.60)
>DroPse_CAF1 76523 85 + 1
--------ACAUC----UAGGGCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUUUGUUAUAAGA-GUAUGCUGUU-------------------
--------.....----.(((((((((.........((((((((((.(((...)))))))))))))..)))))))))..........-..........------------------- ( -20.70)
>DroEre_CAF1 58831 95 + 1
AUACACGUAGAUCUACUUGGGCCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUUUGUUAUAAGUUGUUCGUU----------------------
....(((.((((((((...(((...)))........((((((((((.(((...)))))))))))))..)))))))).)))...............---------------------- ( -22.60)
>DroYak_CAF1 58740 95 + 1
AUACACGUACAUCUGCUUGGGCCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUUUGUUAUAAGUUGUUCGUU----------------------
....(((.(((.((((..(((((.(((.........((((((((((.(((...)))))))))))))..))))))))..))....)).))).))).---------------------- ( -22.90)
>DroAna_CAF1 80813 112 + 1
---CACUUGAAUCUGCUGUGG--CUGCUAAUUAUUCAUCGGGUUCAUCACGUCGUGUGAACUCGGUUUGUAGGUUUUUGUUAUAAGCAGUUUUUUACUUACUACUUUUUUGCACGUU
---....((((.(((((((((--(......((((..((((((((((.(((...)))))))))))))..))))......))))).)))))...))))..................... ( -27.00)
>DroPer_CAF1 71357 85 + 1
--------ACAUC----UGGGGCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUUUGUUAUAAGA-GUAUGCUGUU-------------------
--------....(----..((((((((.........((((((((((.(((...)))))))))))))..))))))))..)........-..........------------------- ( -20.80)
>consensus
___CACGUACAUCU_CUUGGGCCCUGCUAAUUAUUCAUCGGGUUCAUCACAUCGUGUGAACUCGGUUUGUAGGUUUUUGUUAUAAGUUGUUCGUU______________________
......................(((((.........((((((((((.(((...)))))))))))))..)))))............................................ (-16.72 = -16.88 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:06 2006