Locus 1158

Sequence ID	2L_DroMel_CAF1
Location	3,169,576 – 3,169,683
Length	107
Max. P	0.992262

overview

Window 5

Location	3,169,576 – 3,169,683
Length	107
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	85.94
Mean single sequence MFE	-36.92
Consensus MFE	-34.74
Energy contribution	-34.30
Covariance contribution	-0.44
Combinations/Pair	1.03
Mean z-score	-1.40
Structure conservation index	0.94
SVM decision value	0.51
SVM RNA-class probability	0.764311
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3169576 107 + 22407834
CAAGAGCAGUCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGACUGCGAUGACAAG--AGUUAC-------UUUUUU
.....((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......))))))))))))..((((...--.)))).-------...... ( -33.60)
>DroVir_CAF1 8805 107 + 1
CACAAGCAGCCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGAAACAAGG--UGUUUC-------UUUUUU
.....((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......))))))))))))(((((....--.)))))-------...... ( -39.10)
>DroPse_CAF1 21154 114 + 1
AACAAGCAGCCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGUUCCGUUGGAUGUUUUUU--UUCCGUUUU
........((....)).((((((..((((((((..((.......((((.....))))(((((((((..(((........))))))))))))))..))))))))..--..)))))). ( -39.40)
>DroEre_CAF1 6057 107 + 1
CAAGAGCAGUCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGACUGCGAUGAAUUG--AGUUUC-------UUUUUU
.....((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......))))))))))))...(((...--...)))-------...... ( -33.10)
>DroMoj_CAF1 5037 107 + 1
CAGAAGCAGCCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGAGAGAUUU--GAAUUC-------AUUUUU
((((....(((.(((((....))))).))).))))....(((.((((((...((((.(.((((((((.......)))))..))).).))))))))--)).)))-------...... ( -38.30)
>DroPer_CAF1 17738 116 + 1
AACAAGCAGCCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGUUUCGUCGGAUGUUUUUCAUUCCUUUUUU
.....((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......))))))))))))........(((((.....)))))....... ( -38.00)
>consensus
CACAAGCAGCCGUGGCCGAGCGGUUAAGGCGUCUGACUAGAAAUCAGAUUCCCUCUGGGAGCGUAGGUUCGAAUCCUACCGGCUGCGAUACAUUG__UGUUUC_______UUUUUU
.....((((((((((((....)))))..((((((((.......))))))((((...))))))(((((.......)))))))))))).............................. (-34.74 = -34.30 +  -0.44)

alignment

secondary structure

dotplot

Window 6

Location	3,169,576 – 3,169,683
Length	107
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	85.94
Mean single sequence MFE	-35.00
Consensus MFE	-33.86
Energy contribution	-33.42
Covariance contribution	-0.44
Combinations/Pair	1.04
Mean z-score	-2.18
Structure conservation index	0.97
SVM decision value	2.32
SVM RNA-class probability	0.992262
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3169576 107 - 22407834
AAAAAA-------GUAACU--CUUGUCAUCGCAGUCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGACUGCUCUUG
......-------......--.........((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... ( -32.02)
>DroVir_CAF1 8805 107 - 1
AAAAAA-------GAAACA--CCUUGUUUCGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGGCUGCUUGUG
......-------(((((.--....)))))((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... ( -38.62)
>DroPse_CAF1 21154 114 - 1
AAAACGGAA--AAAAAACAUCCAACGGAACGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGGCUGCUUGUU
.....(((.--........)))........((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... ( -35.72)
>DroEre_CAF1 6057 107 - 1
AAAAAA-------GAAACU--CAAUUCAUCGCAGUCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGACUGCUCUUG
......-------(((...--...)))...((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... ( -32.12)
>DroMoj_CAF1 5037 107 - 1
AAAAAU-------GAAUUC--AAAUCUCUCGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGGCUGCUUCUG
......-------......--.........((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... ( -34.12)
>DroPer_CAF1 17738 116 - 1
AAAAAAGGAAUGAAAAACAUCCGACGAAACGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGGCUGCUUGUU
......(((.((.....)))))(((((...((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))))))) ( -37.42)
>consensus
AAAAAA_______GAAACA__CAAUGCAUCGCAGCCGGUAGGAUUCGAACCUACGCUCCCAGAGGGAAUCUGAUUUCUAGUCAGACGCCUUAACCGCUCGGCCACGGCUGCUUGUG
..............................((((((((((((.......)))))(((.....((((..((((((.....))))))..))))........)))..)))))))..... (-33.86 = -33.42 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:02 2006