Locus 1091

Sequence ID	2R_DroMel_CAF1
Location	4,394,116 – 4,394,263
Length	147
Max. P	0.953633

overview

Window 0

Location	4,394,116 – 4,394,236
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	93.11
Mean single sequence MFE	-33.30
Consensus MFE	-28.75
Energy contribution	-28.20
Covariance contribution	-0.55
Combinations/Pair	1.14
Mean z-score	-1.56
Structure conservation index	0.86
SVM decision value	0.32
SVM RNA-class probability	0.689147
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4394116 120 + 20766785
AUCGACCAUCCACAACAGCAGAGCAAGAAUGUCUACAGGAGCGUUGUGUCGAUCCAAAGGAAGCGUGCCGUAAUCGCAUGCUUCCGUCAGACAUCGCUGCAUUCUCUACCCAGGUUAUUA
...((((..........((((.....((.(((((((.(((.((......)).)))...((((((((((.......)))))))))))).))))))).))))............)))).... ( -36.65)
>DroVir_CAF1 3668 120 + 1
AUCGACCAUCCACAACAGCAGAGCAAAAAUGUCUACAGGAGCGUUGUAUCGAUCCAAAGGAAACGUGCCGUCAUUGCAUGUUUCCGUCAGACAUCGCUACAUUCUCUACCCAGGUUAUUA
...((((..............(((....((((((((.(((.((......)).)))...((((((((((.......)))))))))))).)))))).)))..............)))).... ( -32.39)
>DroPse_CAF1 3688 120 + 1
AUCGACCAUCCGCAACAGCAGAGCAAGAAUGUGUACAGGAGCGUUGUGUCGAUCCAAAGGAAGCGUGCCGUAAUCGCAUGUUUCCGUCAGACAUCGCUACACUCUCUACCCAGGUUAAUG
...((((.((.((....)).))...(((..((((.....((((..((((((((.....((((((((((.......))))))))))))).)))))))))))))..))).....)))).... ( -35.60)
>DroWil_CAF1 3744 120 + 1
AUCGACCAUCCACAACAGCAGAGCAAAAAUGUCUACAGGAGCGUUGUAUCGAUACAAAGGAAACGUGCAGUUAUCGCAUGUUUCCGCCAAACAUCGUUACAUUCUCUACCCAGGUUAUUA
...((((..........(.(((.((....))))).).((((...((((.((((.....((((((((((.......)))))))))).......)))).))))..)))).....)))).... ( -30.70)
>DroMoj_CAF1 3702 120 + 1
AUCGACCAUCCACAACAGCAGAGCAAAAAUGUCUACAGGAGCGUUGUGUCAAUACAAAGGAAGCGUGCCGUUAUCGCAUGUUUCCGUCAGACAUCGCUACAUUCUCUACCCAGGUUAUUA
...((((..............(((....((((((((.......(((((....))))).((((((((((.......)))))))))))).)))))).)))..............)))).... ( -28.89)
>DroPer_CAF1 3690 120 + 1
AUCGACCAUCCGCAACAGCAGAGCAAGAAUGUGUACAGGAGCGUUGUGUCGAUCCAAAGGAAGCGUGCCGUAAUCGCAUGUUUCCGUCAGACAUCGCUACACUCUCUACCCAGGUUAAUG
...((((.((.((....)).))...(((..((((.....((((..((((((((.....((((((((((.......))))))))))))).)))))))))))))..))).....)))).... ( -35.60)
>consensus
AUCGACCAUCCACAACAGCAGAGCAAAAAUGUCUACAGGAGCGUUGUGUCGAUCCAAAGGAAGCGUGCCGUAAUCGCAUGUUUCCGUCAGACAUCGCUACAUUCUCUACCCAGGUUAUUA
...((((..........((...)).............((((...((((.((((.....((((((((((.......)))))))))).......)))).))))..)))).....)))).... (-28.75 = -28.20 +  -0.55)

alignment

secondary structure

dotplot

Window 1

Location	4,394,156 – 4,394,263
Length	107
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	79.45
Mean single sequence MFE	-26.87
Consensus MFE	-23.80
Energy contribution	-23.13
Covariance contribution	-0.67
Combinations/Pair	1.19
Mean z-score	-2.16
Structure conservation index	0.89
SVM decision value	1.43
SVM RNA-class probability	0.953633
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4394156 107 + 20766785
GCGUUGUGUCGAUCCAAAGGAAGCGUGCCGUAAUCGCAUGCUUCCGUCAGACAUCGCUGCAUUCUCUACCCAGGUUAUUACCG-AUUGCAGUUAACA--GAUUGCAUCUU
((((.((((((((.....((((((((((.......))))))))))))).))))).)).))............(((....)))(-((.((((((....--))))))))).. ( -35.50)
>DroVir_CAF1 3708 99 + 1
GCGUUGUAUCGAUCCAAAGGAAACGUGCCGUCAUUGCAUGUUUCCGUCAGACAUCGCUACAUUCUCUACCCAGGUUAUUACCA-ACU--------UAUUAACUACUGC--
((..((((.((((.....((((((((((.......)))))))))).......)))).))))...........(((....))).-...--------...........))-- ( -23.40)
>DroGri_CAF1 3967 105 + 1
GUGUUGUGUCGAUCCAAAGGAAGCGUGCCGUAAUCGCAUGCUUCCGUCAGACAUCGUUACAUUCUCUGCCCAGGUUAUUACCACAAU-----UAAUAUCAACUGCAUUUU
(((((((((((((.....((((((((((.......))))))))))))).))))...................(((....))).....-----......)))).))..... ( -26.00)
>DroWil_CAF1 3784 99 + 1
GCGUUGUAUCGAUACAAAGGAAACGUGCAGUUAUCGCAUGUUUCCGCCAAACAUCGUUACAUUCUCUACCCAGGUUAUUACCA-ACAGAA----AUA--GAUUACU----
..((((((.((((.....((((((((((.......)))))))))).......)))).)))............(((....))))-))....----...--.......---- ( -24.00)
>DroMoj_CAF1 3742 99 + 1
GCGUUGUGUCAAUACAAAGGAAGCGUGCCGUUAUCGCAUGUUUCCGUCAGACAUCGCUACAUUCUCUACCCAGGUUAUUACCG-AUA--------UAUUCACUGCAUU--
((((.(((((........((((((((((.......))))))))))....))))).))...............(((....))).-...--------........))...-- ( -24.60)
>DroAna_CAF1 5039 85 + 1
GCGUUGUGUCGAUCCAAAGGAAGCGUGCCGUAAUCGCAUGCUUCCGUCAGACAUCGCUACAUUCUCUACCCAGGUUAUUACCG-AU------------------------
(((..((((((((.....((((((((((.......))))))))))))).))))))))...............(((....))).-..------------------------ ( -27.70)
>consensus
GCGUUGUGUCGAUCCAAAGGAAGCGUGCCGUAAUCGCAUGCUUCCGUCAGACAUCGCUACAUUCUCUACCCAGGUUAUUACCA_AUU________UA__AACUGCAU___
....((((.((((.....((((((((((.......)))))))))).......)))).))))...........(((....)))............................ (-23.80 = -23.13 +  -0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:17 2006