Locus 348

Sequence ID	3L_DroMel_CAF1
Location	1,008,977 – 1,009,079
Length	102
Max. P	0.925765

overview

Window 5

Location	1,008,977 – 1,009,079
Length	102
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	79.74
Mean single sequence MFE	-38.77
Consensus MFE	-22.83
Energy contribution	-23.63
Covariance contribution	0.81
Combinations/Pair	1.23
Mean z-score	-2.52
Structure conservation index	0.59
SVM decision value	1.17
SVM RNA-class probability	0.925765
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1008977 102 + 23771897
UGUUUCCAUCGGAG------CCCAGAAGUAACUGCUGCUGG---GACAUGCCCAAAGACUUCUCCAACUGCUCGCAGUAGCUGUCCAUGCGGUUGCUGAAGUCCUUGUACC
..........((..------(((((.(((....))).))))---).....))(((.((((((..(((((((..((((...))))....)))))))..)))))).))).... ( -34.70)
>DroVir_CAF1 40594 111 + 1
UAUUUGCAUCCCCAUCCGGCUGCAGGAGCAACUGCUGCUGGGCGGACAUGCCCAGCGAUUUCUCCAGCUGCUCACAGUAGCUGUCCAUGCGAUUGCUGAAAUCCUUGUAGC
..................(((((((((((....)))((((((((....))))))))((((((..(((((((.....))))))).....((....)).)))))))))))))) ( -44.20)
>DroPse_CAF1 38296 105 + 1
UGUUGGCAUCGGAGGAA---UCCAGAAGCAGCUGCUGCUGG---GACAUGCCCAGCGACUUUUCCAGCUGCUCGCAGUAGCUGUCCAUGCGAUUGCUGAAGUCCUUGUACC
....(((.((((...((---((((...((((((((((((((---(.....))))(((.((.....)).)))..)))))))))))...)).)))).)))).)))........ ( -37.70)
>DroWil_CAF1 36643 105 + 1
UAUUGGCAUCGGAUGAU---CCGAGCAGCAGUUGCUGCUGA---CUCAUACCCAAAGAUUUCUCCAGCUGCUCACAGUAGCUGUCCAUGCGAUUACUGAAAUCUUUGUAUC
....((.(((....)))---))(((((((((...)))))).---))).....((((((((((..(((((((.....)))))))((.....)).....)))))))))).... ( -34.20)
>DroMoj_CAF1 36387 105 + 1
UAUUCGCAUCCGAUUCGGGCU---GGAGCAGCUGCUGCUGG---GACAUGCCCAGCGAUUUCUCCAGCUGCUCGCAGUAGCUGUCCAUGCGGUUGCUGAAGUCCUUAUAGC
...(((....)))...(((((---.(((((((((..(((((---(.....))))))((....))))))))))).((((((((((....)))))))))).)))))....... ( -46.80)
>DroAna_CAF1 32549 102 + 1
UAUUGGCGUCCGAG------CCCAAAAGUAAUUGCUGCUGG---GACAUUCCCAGUGACUUCUCCAGCUGCUCGCAGUAGCUGUCCAUGCGGUUGCUAAAGUCCUUGUACC
....(((......)------))....(((((((((.(((((---(.....))))))........(((((((.....))))))).....))))))))).............. ( -35.00)
>consensus
UAUUGGCAUCCGAG______CCCAGAAGCAACUGCUGCUGG___GACAUGCCCAGCGACUUCUCCAGCUGCUCGCAGUAGCUGUCCAUGCGAUUGCUGAAGUCCUUGUACC
..........................(((((((((((((((..........)))))).......(((((((.....))))))).....))))))))).............. (-22.83 = -23.63 +   0.81)

alignment

secondary structure

dotplot

Window 6

Location	1,008,977 – 1,009,079
Length	102
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	79.74
Mean single sequence MFE	-38.95
Consensus MFE	-16.85
Energy contribution	-17.27
Covariance contribution	0.42
Combinations/Pair	1.30
Mean z-score	-2.38
Structure conservation index	0.43
SVM decision value	-0.02
SVM RNA-class probability	0.521814
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1008977 102 - 23771897
GGUACAAGGACUUCAGCAACCGCAUGGACAGCUACUGCGAGCAGUUGGAGAAGUCUUUGGGCAUGUC---CCAGCAGCAGUUACUUCUGGG------CUCCGAUGGAAACA
.(..((((((((((..(((((((((((....))).))))....))))..))))))))))..)..(.(---((((.((......)).)))))------).....((....)) ( -33.90)
>DroVir_CAF1 40594 111 - 1
GCUACAAGGAUUUCAGCAAUCGCAUGGACAGCUACUGUGAGCAGCUGGAGAAAUCGCUGGGCAUGUCCGCCCAGCAGCAGUUGCUCCUGCAGCCGGAUGGGGAUGCAAAUA
...............(((.((.(((...(.(((.(.(.(((((((((((....))(((((((......)))))))..)))))))))).).))).).))).)).)))..... ( -44.40)
>DroPse_CAF1 38296 105 - 1
GGUACAAGGACUUCAGCAAUCGCAUGGACAGCUACUGCGAGCAGCUGGAAAAGUCGCUGGGCAUGUC---CCAGCAGCAGCUGCUUCUGGA---UUCCUCCGAUGCCAACA
(((((.((((.(((((...((((((((....))).)))))(((((((((....))((((((.....)---)))))..)))))))..)))))---.))))..).)))).... ( -43.80)
>DroWil_CAF1 36643 105 - 1
GAUACAAAGAUUUCAGUAAUCGCAUGGACAGCUACUGUGAGCAGCUGGAGAAAUCUUUGGGUAUGAG---UCAGCAGCAACUGCUGCUCGG---AUCAUCCGAUGCCAAUA
....(((((((((((((..((((((((....))).)))))...))))))...)))))))((((((((---.((((((...)))))))))((---.....)).))))).... ( -37.80)
>DroMoj_CAF1 36387 105 - 1
GCUAUAAGGACUUCAGCAACCGCAUGGACAGCUACUGCGAGCAGCUGGAGAAAUCGCUGGGCAUGUC---CCAGCAGCAGCUGCUCC---AGCCCGAAUCGGAUGCGAAUA
...........(((.(((.(((..(((.(.((....))(((((((((((....))((((((.....)---)))))..))))))))).---.).)))...))).)))))).. ( -42.90)
>DroAna_CAF1 32549 102 - 1
GGUACAAGGACUUUAGCAACCGCAUGGACAGCUACUGCGAGCAGCUGGAGAAGUCACUGGGAAUGUC---CCAGCAGCAAUUACUUUUGGG------CUCGGACGCCAAUA
(((.((..(((((((((..((((((((....))).)))).)..)))...))))))..)).....(((---(.(((..(((......))).)------)).))))))).... ( -30.90)
>consensus
GGUACAAGGACUUCAGCAACCGCAUGGACAGCUACUGCGAGCAGCUGGAGAAAUCGCUGGGCAUGUC___CCAGCAGCAGCUGCUUCUGGA______CUCCGAUGCCAAUA
....((..((((((.((....)).....(((((.(.....).)))))..))))))..))...........((((.(((....))).))))..................... (-16.85 = -17.27 +   0.42)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:46 2006