Locus 4679

Sequence ID	2R_DroMel_CAF1
Location	15,314,614 – 15,314,730
Length	116
Max. P	0.769713

overview

Window 4

Location	15,314,614 – 15,314,715
Length	101
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.95
Mean single sequence MFE	-31.22
Consensus MFE	-19.19
Energy contribution	-19.67
Covariance contribution	0.47
Combinations/Pair	1.09
Mean z-score	-2.42
Structure conservation index	0.61
SVM decision value	0.53
SVM RNA-class probability	0.769713
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15314614 101 + 20766785
-------------AAUUGGAACUGGA-ACGCGUGCCGGGACAUGUGGCUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGUG--CUGAUAAUCAGACAAUCGUACAA---UAUAUUUUAU
-------------..((((.((((((-((.((.((((.......)))).)).)))))))).))))..((((.(((((((((.--(((.....)))))))))))).))---))........ ( -31.20)
>DroVir_CAF1 147432 102 + 1
-------------AAGGGGAACGGGAUGCGCGUGCCGUGGCAUGUGGUUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCU--CUGAUAAUCAGACAAUCGUACAA---UACAUUUUAU
-------------....(((((..((..(((((((....)))))))..))..))))).....((((.(((..((((((((.(--(((.....))))))))))))...---.))).)))). ( -29.60)
>DroGri_CAF1 119552 111 + 1
AACGGG-------AAGAGGCACGGUAUGCGCGUGCCGUGGCAUGUGGUUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCU--CUGAUAAUCAGACAAUCGUACAAUCGUAUAUUUUAU
.((((.-------....(.((((((((....)))))))).)..(..((((((.........))))))..)..((((((((.(--(((.....))))))))))))...))))......... ( -31.70)
>DroWil_CAF1 237523 113 + 1
-AUGAGAUGAGAUGGUUAACUCUGGG-ACGCGUGCCAGAGCAUGUGGUUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCC--CUGAUAAUCAGACAAUCGUACAA---UAUAUUUCAU
-((((((((.((((.(.(((((....-.(((((((....)))))))....)))))..).))))....((((.((((((((..--(((.....))).)))))))).))---)))))))))) ( -32.60)
>DroAna_CAF1 93311 100 + 1
----------------UGGAACAGAA-ACGCGUGCCGGGGCAUGUGGCUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCUCUCUGAUAAUCAGACAAUCGUAGAA---UAUAUUUUAU
----------------((((((.((.-.(((((((....)))))))..))..))))))....((((.(((((((((((((...((((.....)))))))))))))))---))...)))). ( -32.90)
>DroPer_CAF1 104978 101 + 1
-------------AAAAAGAACUGGG-ACGCGUGCCAGGGCAUGUGGUUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCU--CUGUUAAUCAGACACUCGUACAA---UACAUUUUAU
-------------....((((((.((-((((((((....)))))).)))).)))))).....((((.(((..((((..((.(--(((.....))))))..))))...---.))).)))). ( -29.30)
>consensus
_____________AAGUGGAACUGGA_ACGCGUGCCGGGGCAUGUGGUUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCU__CUGAUAAUCAGACAAUCGUACAA___UAUAUUUUAU
.................(((((......(((((((....)))))))......)))))...............((((((((....(((.....))).))))))))................ (-19.19 = -19.67 +   0.47)

alignment

secondary structure

dotplot

Window 5

Location	15,314,640 – 15,314,730
Length	90
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.86
Mean single sequence MFE	-24.94
Consensus MFE	-11.09
Energy contribution	-12.03
Covariance contribution	0.95
Combinations/Pair	1.08
Mean z-score	-2.35
Structure conservation index	0.44
SVM decision value	0.29
SVM RNA-class probability	0.672194
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15314640 90 + 20766785
CAUGUGGCUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGUG--CUGAUAAUCAGACAAUCGUACAA---UAUAUUUUAUUGGAGUGGC---------UU-----CCC----A-------
...((.((((.(((...(((((...(((((...((((((((.--(((.....)))))))))))))))---))))))..))).)))).))---------..-----...----.------- ( -24.60)
>DroGri_CAF1 119585 104 + 1
CAUGUGGUUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCU--CUGAUAAUCAGACAAUCGUACAAUCGUAUAUUUUAUUGAAGUGCC---------CA-----ACUGCCCACUCCUAU
...((((.(((((((((((((.((.((.(((.((((((((.(--(((.....)))))))))))).))).)).))...)))))))..)))---------))-----)....))))...... ( -30.10)
>DroWil_CAF1 237561 106 + 1
CAUGUGGUUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCC--CUGAUAAUCAGACAAUCGUACAA---UAUAUUUCAUUGGACUGGAGUGGUUUUCUU-----CCC----AUUCGUUU
.....((((..(.....(((((...(((((...(((((((..--(((.....))).)))))))))))---))))))...)..)))).((((((.......-----.))----)))).... ( -25.00)
>DroMoj_CAF1 146994 84 + 1
CAUGUGGUUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCU--CUGAUAAUCAGACAAUCGUACAA---UAUAUUUUAUUGC--UGCC---------UC--------------------
..........((((...((((.((((.((((.((((((((.(--(((.....)))))))))))).))---))...)))).)))--))))---------).-------------------- ( -23.20)
>DroAna_CAF1 93334 92 + 1
CAUGUGGCUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCUCUCUGAUAAUCAGACAAUCGUAGAA---UAUAUUUUAUUGGAGUGGA---------CU-----CGA----G-------
.......(((((((((......((((.(((((((((((((...((((.....)))))))))))))))---))...)))).......)))---------))-----)))----)------- ( -26.12)
>DroPer_CAF1 105004 95 + 1
CAUGUGGUUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCU--CUGUUAAUCAGACACUCGUACAA---UACAUUUUAUUGGAGUGGC---------UCUGCCUCUG----A-------
((.(.(((..(((((.......((((.(((..((((..((.(--(((.....))))))..))))...---.))).)))).......)))---------)).))).)))----.------- ( -20.64)
>consensus
CAUGUGGUUUGGGUUUUAGUAUUAAAUUGUUUUGCGGUUGCU__CUGAUAAUCAGACAAUCGUACAA___UAUAUUUUAUUGGAGUGGC_________UU_____CCC____A_______
......((((.(((...(((((....((((...(((((((....(((.....))).)))))))))))....)))))..))).)))).................................. (-11.09 = -12.03 +   0.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:31 2006