Locus 3395

Sequence ID	2L_DroMel_CAF1
Location	9,829,119 – 9,829,226
Length	107
Max. P	0.866063

overview

Window 0

Location	9,829,119 – 9,829,226
Length	107
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.55
Mean single sequence MFE	-32.74
Consensus MFE	-20.95
Energy contribution	-20.40
Covariance contribution	-0.55
Combinations/Pair	1.20
Mean z-score	-1.83
Structure conservation index	0.64
SVM decision value	0.85
SVM RNA-class probability	0.866063
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9829119 107 + 22407834
----C-ACC----AC--CUUUUCUCCCAGUGCAUGCA-GCAUUUCGCGACUUAAUUGCAAUGUGUG-GGCCACGCUCGGCCUUUGCAUUAUGCAUGAACUGAAACACACGGCUCGUUAUU
----.-...----..--.........((((.((((((-.......((((.....))))((((((.(-((((......))))).)))))).)))))).))))................... ( -29.40)
>DroPse_CAF1 39647 116 + 1
GCAACAUCCAAGUGG--CUUUUCCCUCAGUGUAUCCAUGCUUUUUGCAACUUAAUUGCAACGCGUGAGGCCUGGCUCGGCCUUUGCAUUAUGCAUGAGCCGACAU--ACGGCUCGUUAUU
(((........(.((--......)).)((((((..(((((...((((((.....)))))).)))))(((((......))))).)))))).)))((((((((....--.)))))))).... ( -37.90)
>DroEre_CAF1 40161 103 + 1
----C-UCC----GC--U--UUCUGCCAGUGCAUGCA-GCUCCUCGCGACUUAAUUGCAAUGUGUG-GGCCGCGCUCGGCCUUUGCAUUAUGCAUGAACUGAAAC--ACGGCUCGUUAUU
----.-...----((--(--......((((.((((((-.......((((.....))))((((((.(-(((((....)))))).)))))).)))))).))))....--..)))........ ( -32.80)
>DroYak_CAF1 38601 103 + 1
----A-UAG----AC--U--UUCUCCCAGUGCAUGCA-GCACUUCGCGACUUAAUUGCAAUGUGUG-GGCCACGCUCGGCCUUUGCAUUAUGCAUGAAGUGAAAC--ACGGCUCGUUAUU
----.-...----..--.--........(.((.....-.((((((((((.....))))((((((.(-((((......))))).))))))......))))))....--...)).)...... ( -27.22)
>DroAna_CAF1 38190 106 + 1
----U-AGC----AUAUUUUUUCU-GCAGUGCAGCCU-GCUUUUUGCAACUUAAUUGCAAUGUGUG-AGCCAGGCUCGGCUUUUGCAUUAUGCAUGAACCGACAC--ACGGCUCGUUAUU
----.-.((----(((.......(-((((.(((((((-((((.((((((.....)))))).....)-)).))))))..))..))))).)))))((((.(((....--.))).)))).... ( -31.20)
>DroPer_CAF1 40225 116 + 1
GCAACAUCCAAGUGG--CUUUUCCCUCAGUGUAUCCAUGCUUUUUGCAACUUAAUUGCAACGCGUGAGGCCUGGCUCGGCCUUUGCAUUAUGCAUGAGCCGACAU--ACGGCUCGUUAUU
(((........(.((--......)).)((((((..(((((...((((((.....)))))).)))))(((((......))))).)))))).)))((((((((....--.)))))))).... ( -37.90)
>consensus
____C_UCC____AC__CUUUUCUCCCAGUGCAUCCA_GCUUUUCGCAACUUAAUUGCAAUGUGUG_GGCCACGCUCGGCCUUUGCAUUAUGCAUGAACCGAAAC__ACGGCUCGUUAUU
............................((((((...........((((.....))))((((((...((((......))))..))))))))))))((.(((.......))).))...... (-20.95 = -20.40 +  -0.55)

alignment

secondary structure

dotplot

Window 1

Location	9,829,119 – 9,829,226
Length	107
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	78.55
Mean single sequence MFE	-34.20
Consensus MFE	-16.32
Energy contribution	-16.23
Covariance contribution	-0.08
Combinations/Pair	1.16
Mean z-score	-2.03
Structure conservation index	0.48
SVM decision value	0.00
SVM RNA-class probability	0.535244
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9829119 107 - 22407834
AAUAACGAGCCGUGUGUUUCAGUUCAUGCAUAAUGCAAAGGCCGAGCGUGGCC-CACACAUUGCAAUUAAGUCGCGAAAUGC-UGCAUGCACUGGGAGAAAAG--GU----GGU-G----
....((..(((...(.(..((((.((((((....(((..(((((....)))))-......((((.........))))..)))-)))))).))))..).)...)--))----.))-.---- ( -32.70)
>DroPse_CAF1 39647 116 - 1
AAUAACGAGCCGU--AUGUCGGCUCAUGCAUAAUGCAAAGGCCGAGCCAGGCCUCACGCGUUGCAAUUAAGUUGCAAAAAGCAUGGAUACACUGAGGGAAAAG--CCACUUGGAUGUUGC
..((((((((((.--....))))))((((..(((((..(((((......)))))...)))))(((((...))))).....)))).......(..((((.....--)).))..)..)))). ( -39.40)
>DroEre_CAF1 40161 103 - 1
AAUAACGAGCCGU--GUUUCAGUUCAUGCAUAAUGCAAAGGCCGAGCGCGGCC-CACACAUUGCAAUUAAGUCGCGAGGAGC-UGCAUGCACUGGCAGAA--A--GC----GGA-G----
........(((((--((..((((((.((((..(((....(((((....)))))-....))))))).......(....)))))-))...)))).)))....--.--..----...-.---- ( -32.40)
>DroYak_CAF1 38601 103 - 1
AAUAACGAGCCGU--GUUUCACUUCAUGCAUAAUGCAAAGGCCGAGCGUGGCC-CACACAUUGCAAUUAAGUCGCGAAGUGC-UGCAUGCACUGGGAGAA--A--GU----CUA-U----
.....(.((.(((--((..((((((.(((.((((((((.(((((....)))))-......)))).)))).).)).)))))).-.)))))..)).).....--.--..----...-.---- ( -26.20)
>DroAna_CAF1 38190 106 - 1
AAUAACGAGCCGU--GUGUCGGUUCAUGCAUAAUGCAAAAGCCGAGCCUGGCU-CACACAUUGCAAUUAAGUUGCAAAAAGC-AGGCUGCACUGC-AGAAAAAAUAU----GCU-A----
......((((((.--((.((((((..(((.....)))..)))))))).)))))-).....(((((((...)))))))...((-((......))))-...........----...-.---- ( -35.10)
>DroPer_CAF1 40225 116 - 1
AAUAACGAGCCGU--AUGUCGGCUCAUGCAUAAUGCAAAGGCCGAGCCAGGCCUCACGCGUUGCAAUUAAGUUGCAAAAAGCAUGGAUACACUGAGGGAAAAG--CCACUUGGAUGUUGC
..((((((((((.--....))))))((((..(((((..(((((......)))))...)))))(((((...))))).....)))).......(..((((.....--)).))..)..)))). ( -39.40)
>consensus
AAUAACGAGCCGU__GUGUCAGUUCAUGCAUAAUGCAAAGGCCGAGCCUGGCC_CACACAUUGCAAUUAAGUCGCAAAAAGC_UGCAUGCACUGGGAGAAAAA__GC____GGA_G____
......((((...........)))).(((((...((...((((......)))).......((((.........))))...))....)))))............................. (-16.32 = -16.23 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:24 2006