Locus 2097

Sequence ID	2R_DroMel_CAF1
Location	7,852,595 – 7,852,751
Length	156
Max. P	0.993505

overview

Window 4

Location	7,852,595 – 7,852,712
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	85.85
Mean single sequence MFE	-44.48
Consensus MFE	-29.88
Energy contribution	-32.96
Covariance contribution	3.08
Combinations/Pair	1.11
Mean z-score	-1.72
Structure conservation index	0.67
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7852595 117 - 20766785
UUGCCGUGACCAGGAUUCGAACCUGGGUGUGGUAACCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUACAUUGGAUUGC---GCCCAGCAAUUCCAAGAUCCCACCACGUCAC
.((.((((.(((((.......))))).(((((....)))))..((((((((........(((.((....)).)))..(((((((((---.....)))).))))))))))))))))).)). ( -42.70)
>DroSec_CAF1 10196 119 - 1
UUGCCGUGACCAGGAUUCGAACCUGGGUUACCACGGCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUGCAUUGGGUUGCUGGGCGCGGC-UUUCCAAGAUCCCACCACGUCAC
..((((((((((((.......)))))(((.(((((.......)))))(((....)))....)))..)))))))....(((((..((((....))))-..)))))(((........))).. ( -42.90)
>DroSim_CAF1 10646 119 - 1
UUGCCGUGACCAGGAUUCGAACCUGGGUUACCACGGCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUGCAUUGGGUUGCUGGGCGCGGC-UUUCCAAGAUCCCACCAGGUCAC
..((((((((((((.......)))))(((.(((((.......)))))(((....)))....)))..)))))))....(((((..((((....))))-..)))))((((......)))).. ( -45.50)
>DroEre_CAF1 10030 119 - 1
UUGCCGUGACCAGGAUUCGAACCUGGGUUACCACGGCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUACGUCGGGUCGUCGGACGCGCU-CUUCCAAGAUCCCACCAGGUCAC
..((((((.(((((.......))))).....)))))).((...((((((((..........(((((((.((((...)))))))))))(((......-..)))..))))))))...))... ( -47.80)
>DroAna_CAF1 10450 119 - 1
UUGCCGUGACCAGGAUUCGAACCUGGGUUACCACGGCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUACGUCCGACUGUUGGACGAGGC-CGCCUCCGAACCCAGCUGCUCAC
.....((((.(((.........(((((((.(((((.......)))))(((....)))......((....(((((.(((((((...))))))).)))-))....)))))))))))).)))) ( -43.50)
>consensus
UUGCCGUGACCAGGAUUCGAACCUGGGUUACCACGGCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUACAUUGGGUUGCUGGGCGCGGC_CUUCCAAGAUCCCACCAGGUCAC
..((((((((((((.......)))))(((.(((((.......)))))(((....)))....)))..)))))))....(((((..((((....))))...)))))((((......)))).. (-29.88 = -32.96 +   3.08)

alignment

secondary structure

dotplot

Window 5

Location	7,852,632 – 7,852,751
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.69
Mean single sequence MFE	-40.76
Consensus MFE	-37.14
Energy contribution	-36.74
Covariance contribution	-0.40
Combinations/Pair	1.21
Mean z-score	-1.66
Structure conservation index	0.91
SVM decision value	1.29
SVM RNA-class probability	0.938560
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7852632 119 + 20766785
CAAUGUAGCCGUGAUCGUCUAGUGGUUAGGACCCCACGUUGUGGGUUACCACACCCAGGUUCGAAUCCUGGUCACGGCAAUGUUCAAAUAAACAUUGUCACGGAGUUGGGUU-AUUUUUU
....((((((((((.......(((((...((((((.....).))))))))))..(((((.......)))))))))(((((((((......))))))))).........))))-))..... ( -41.10)
>DroSec_CAF1 10235 119 + 1
CAAUGCAGCCGUGAUCGUCUAGUGGUUAGGACCCCACGUUGUGGCCGUGGUAACCCAGGUUCGAAUCCUGGUCACGGCAAUGUUGAAUUAAACAUUGUUACGGAGUUGGGUU-AUAUUUU
....((.((((..((......((((........))))))..)))).)).(((((((((.((((......(....)(((((((((......))))))))).)))).)))))))-))..... ( -38.20)
>DroSim_CAF1 10685 119 + 1
CAAUGCAGCCGUGAUCGUCUAGUGGUUAGGACCCCACGUUGUGGCCGUGGUAACCCAGGUUCGAAUCCUGGUCACGGCAAUGUUGAAUUAAACAUUGUCACGGAGUUGGGUU-AUAUUUU
....((.((((..((......((((........))))))..)))).)).(((((((((.((((......(....)(((((((((......))))))))).)))).)))))))-))..... ( -40.70)
>DroEre_CAF1 10069 116 + 1
CGACGUAGCCGUGAUCGUCUAGUGGUUAGGACCCCACGUUGUGGCCGUGGUAACCCAGGUUCGAAUCCUGGUCACGGCAAUGCUGCGAUAUGCAUUGUCACGGAGUUGGGUU-AA---UU
((((....(((((((......((((........))))......(((((((....(((((.......))))))))))))(((((........)))))))))))).))))....-..---.. ( -41.90)
>DroAna_CAF1 10489 120 + 1
GGACGUAGCCGUGAUCGUCUAGUGGUUAGGACCCCACGUUGUGGCCGUGGUAACCCAGGUUCGAAUCCUGGUCACGGCAAUGUUGAAACAAACAUUGUCACGGAGUCUGGCUUUCUUUUU
((((....(((((((......((((........))))......(((((((....(((((.......))))))))))))((((((......))))))))))))).))))............ ( -41.90)
>consensus
CAAUGUAGCCGUGAUCGUCUAGUGGUUAGGACCCCACGUUGUGGCCGUGGUAACCCAGGUUCGAAUCCUGGUCACGGCAAUGUUGAAAUAAACAUUGUCACGGAGUUGGGUU_AUAUUUU
((((....(((((((......((((........))))......(((((((....(((((.......))))))))))))((((((......))))))))))))).))))............ (-37.14 = -36.74 +  -0.40)

alignment

secondary structure

dotplot

Window 6

Location	7,852,632 – 7,852,751
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.69
Mean single sequence MFE	-36.82
Consensus MFE	-31.00
Energy contribution	-31.68
Covariance contribution	0.68
Combinations/Pair	1.09
Mean z-score	-2.39
Structure conservation index	0.84
SVM decision value	2.40
SVM RNA-class probability	0.993505
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7852632 119 - 20766785
AAAAAAU-AACCCAACUCCGUGACAAUGUUUAUUUGAACAUUGCCGUGACCAGGAUUCGAACCUGGGUGUGGUAACCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUACAUUG
.......-...........(((..(((((((....)))))))((((((((((((.......)))))..(((((..(((((...)))))......))))).......)))))))))).... ( -37.70)
>DroSec_CAF1 10235 119 - 1
AAAAUAU-AACCCAACUCCGUAACAAUGUUUAAUUCAACAUUGCCGUGACCAGGAUUCGAACCUGGGUUACCACGGCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUGCAUUG
.......-...........(((..((((((......))))))((((((((((((.......)))))(((.(((((.......)))))(((....)))....)))..)))))))))).... ( -35.40)
>DroSim_CAF1 10685 119 - 1
AAAAUAU-AACCCAACUCCGUGACAAUGUUUAAUUCAACAUUGCCGUGACCAGGAUUCGAACCUGGGUUACCACGGCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUGCAUUG
.......-.........((((((...((((((..........((((((.(((((.......))))).....))))))......((((........)))))))))).))))))........ ( -34.60)
>DroEre_CAF1 10069 116 - 1
AA---UU-AACCCAACUCCGUGACAAUGCAUAUCGCAGCAUUGCCGUGACCAGGAUUCGAACCUGGGUUACCACGGCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUACGUCG
..---..-.............((((((((........)))))((((((((((((.......)))))(((.(((((.......)))))(((....)))....)))..)))))))...))). ( -39.30)
>DroAna_CAF1 10489 120 - 1
AAAAAGAAAGCCAGACUCCGUGACAAUGUUUGUUUCAACAUUGCCGUGACCAGGAUUCGAACCUGGGUUACCACGGCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUACGUCC
........((((.(((((((((..((((((......))))))((((((.(((((.......))))).....)))))).....)))))))))(((.....)))........))))...... ( -37.10)
>consensus
AAAAAAU_AACCCAACUCCGUGACAAUGUUUAUUUCAACAUUGCCGUGACCAGGAUUCGAACCUGGGUUACCACGGCCACAACGUGGGGUCCUAACCACUAGACGAUCACGGCUACAUUG
...................(((..((((((......))))))((((((((((((.......)))))(((.(((((.......)))))(((....)))....)))..)))))))))).... (-31.00 = -31.68 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:12 2006