Locus 6493

Sequence ID	2L_DroMel_CAF1
Location	18,243,459 – 18,243,628
Length	169
Max. P	0.735935

overview

Window 5

Location	18,243,459 – 18,243,562
Length	103
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.66
Mean single sequence MFE	-32.32
Consensus MFE	-17.13
Energy contribution	-17.02
Covariance contribution	-0.11
Combinations/Pair	1.13
Mean z-score	-1.85
Structure conservation index	0.53
SVM decision value	0.44
SVM RNA-class probability	0.735935
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18243459 103 - 22407834
UUUUGUUUUGGCCUGCGGCUCUGGCUGCAGGUAUUUAUAUUUAAAUGCGGCUUGCGGUUCGCCAUUGCGCCUAUUGUUAUGCAAUGAAAGUUU--GUUCGCG--------------AAC-
...(((...((((((((((....)))))).(((((((....))))))))))).)))(((((((((((((..........)))))))...(...--...))))--------------)))- ( -33.10)
>DroVir_CAF1 142333 105 - 1
---UUUUCUGGC--------CGAGCUGCAGGUAUUUAUAUUUAAAUGCUGCUUGUGGCACGCCAUUGCGCCUAUUGUUAUGCAAUGAAAGUUU-UGUGUUCGCAUUGUUCUUG---CACG
---.....((((--------.(.((..((((((((((....))))))))...))..)).)))))...............(((((.(((.....-(((....)))...))))))---)).. ( -25.90)
>DroPse_CAF1 98218 106 - 1
-----UUUCAGCCUGUG-----GGCUGCAGGUAUUUACAUUUAAAUGCUGCUUGCGGUUCGCCAGUGCGCCUAUUGUUAUGCAAUGAAAGUUUUUGUACGCGCAUUGUUCGCC---ACC-
-----.....((..(((-----(((((((((((((((....))))))))...))))))))))((((((((.(((((.....)))))...((......))))))))))...)).---...- ( -33.70)
>DroWil_CAF1 123959 108 - 1
GGUUUUUCUGGCC--------GAGCUGCAGGUAUUUAUAUUUAAAUGCUGUUUGUGGUACGCCAUUGCGCCUAUUGUUAUGCAAUGAAACUUU--GUUCUCGCAUUGUUUUCA-GCAUC-
(((.....((((.--------(.((..((((((((((....))))))))...))..)).)))))....))).......((((...(((((..(--((....)))..)))))..-)))).- ( -26.80)
>DroAna_CAF1 81115 117 - 1
GCAUGUUUUGGCCUGCGGCUCUGGCUGCAGGUAUUUACAUUUAAAUGCGGCCUGUGGUUCGCCAUUGCGCCUAUUGUUAUGCAAUGAAAGUUU--GUCCGCGCAUUGUUCACAAGGACC-
..((((....(((((((((....)))))))))....))))...(((((((((.((((....)))).).)))(((((.....))))).......--......)))))((((....)))).- ( -39.10)
>DroPer_CAF1 99608 106 - 1
-----UUUCAGCCUGUG-----GGCUGCAGGUAUUUACAUUUAAAUGCUGCUUGCGGCUCGCCAGUGCGCCUAUUGUUAUGCAAUGAAAGUUUUUGUACGCGCAUUGUUCACC---ACC-
-----.........(((-----(((((((((((((((....))))))))...))))))))))((((((((.(((((.....)))))...((......))))))))))......---...- ( -35.30)
>consensus
___U_UUUUGGCCUG_G_____GGCUGCAGGUAUUUACAUUUAAAUGCUGCUUGCGGUUCGCCAUUGCGCCUAUUGUUAUGCAAUGAAAGUUU__GUACGCGCAUUGUUCACA___ACC_
..........((...........((((((((((((((....)))))))...)))))))....(((((((..........)))))))...............))................. (-17.13 = -17.02 +  -0.11)

alignment

secondary structure

dotplot

Window 6

Location	18,243,522 – 18,243,628
Length	106
Sequences	6
Columns	116
Reading direction	reverse
Mean pairwise identity	88.48
Mean single sequence MFE	-31.13
Consensus MFE	-23.70
Energy contribution	-23.90
Covariance contribution	0.20
Combinations/Pair	1.08
Mean z-score	-3.01
Structure conservation index	0.76
SVM decision value	0.37
SVM RNA-class probability	0.709669
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18243522 106 - 22407834
GGCCAGAAAACGCUGAAAACUUUUCACUUGUUCUCCCAUUUUUCUUUUUAU-UUGUGGUUUCGGU---------GUUUUUGUUUUGGCCUGCGGCUCUGGCUGCAGGUAUUUAUAU
((((((((((((((((((.....((((..((..................))-..)))))))))))---------))))))....)))))((((((....))))))........... ( -31.07)
>DroSec_CAF1 86744 106 - 1
GGCCAGAAAACGCAGAAAACUUUUCACUUGUUCUCCCAUUUUUCUUUUUAU-UUGCGGUUUCGGU---------GUUUUUGUUUUGGCCUGCGGCUCUGGCUGCAGGUAUUUAUAU
.(((.((((.((((((............((......))............)-))))).)))))))---------.....(((....(((((((((....)))))))))....))). ( -28.75)
>DroSim_CAF1 90886 106 - 1
GGCCAGAAAACGCAGAAAACUUUUCACUUGUUCUCCCAUUUUUCUUUUUAU-UUGCGGUUUCGGU---------GUUUUUGUUUUGGCCUGCGGCUCUGGCUGCAGGUAUUUAUAU
.(((.((((.((((((............((......))............)-))))).)))))))---------.....(((....(((((((((....)))))))))....))). ( -28.75)
>DroEre_CAF1 88334 106 - 1
GGCCAGAAAACGCAGAAAACUUUUCACUUGUUCUCCCAUUUUUCUUUUUAU-UUGUGGCUUCUGU---------GUUUUUGUUUUGGCCUGCGGCUCUGGCUGCAGGUAUUUAUAU
((((((((((((((((((((.........)))...((((............-..)))).))))))---------))))))....)))))((((((....))))))........... ( -31.14)
>DroYak_CAF1 92212 106 - 1
GGCCAGAAAACGCAGAAAACUUUUCACUUGUUCUCCCAUUUUUCUUUUUAU-UUGUGGUUUCGGU---------GUUUUUGUUUUGGCCUGCGGCUCUGGCUGCAGGUAUUUAUAU
(((((((((((((.((((.....((((..((..................))-..)))))))).))---------))))))....)))))((((((....))))))........... ( -27.17)
>DroAna_CAF1 81192 104 - 1
GGCCAGAAAACGCAGAAAAGUUUUCAGC-----GCG-------CUUUUUAUUUUGCGUUUUCGGUUGCUGGCUUGGGCAUGUUUUGGCCUGCGGCUCUGGCUGCAGGUAUUUACAU
((((.((((((((((((((((.......-----..)-------))))))....)))))))))))))(((......)))((((....(((((((((....)))))))))....)))) ( -39.90)
>consensus
GGCCAGAAAACGCAGAAAACUUUUCACUUGUUCUCCCAUUUUUCUUUUUAU_UUGCGGUUUCGGU_________GUUUUUGUUUUGGCCUGCGGCUCUGGCUGCAGGUAUUUAUAU
.(((.((((.(((((.............((......))..............))))).)))))))..............(((....(((((((((....)))))))))....))). (-23.70 = -23.90 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:34 2006