Locus 2255

Sequence ID	X_DroMel_CAF1
Location	6,100,532 – 6,100,633
Length	101
Max. P	0.703091

overview

Window 8

Location	6,100,532 – 6,100,633
Length	101
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	76.72
Mean single sequence MFE	-25.54
Consensus MFE	-16.46
Energy contribution	-16.27
Covariance contribution	-0.19
Combinations/Pair	1.21
Mean z-score	-1.36
Structure conservation index	0.64
SVM decision value	0.36
SVM RNA-class probability	0.703091
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6100532 101 + 22224390
AGCACCGGUCGCCUGCAUUGCAAGCGCCGCUCAAAAUCUGAUGACAAUUCAUAAUUUACACAC-------AGUUGAUUAUCACAUCACAGCGCACGGAU---------AUUGG---GGUC
.....(((.(((.(((...))).))))))(((((.(((((((((....))))...........-------.((((............))))...)))))---------.))))---)... ( -23.20)
>DroVir_CAF1 5856 99 + 1
AGCACCGGUCACCCGCAUUGCAGGCACCGCUCAAUAUUUGAUGACAAUUCAUUAUUU-GUUAC-------AAUUGGAUAUCACAUCACAGCGCACAAA--CUAAU---AU--------UC
.((...(((..((.((...)).)).)))(((.((((..((((((....))))))..)-)))..-------.....(((.....)))..))))).....--.....---..--------.. ( -16.20)
>DroPse_CAF1 3786 109 + 1
AGCACCGGUCACCUGCAUUGCAGGCACCGCUCAAUAUCUGAUGACAAUUCAUAAUUC-UUUAC-------AAUUGAUUAUCACAUCACAGCGCACAAAUUGUAGUGUUGUUGG---UUCU
((.((((((..(((((...))))).)))..........(((((((((((..(((...-.))).-------))))).))))))....(((((((((.....)).))))))).))---).)) ( -25.70)
>DroWil_CAF1 6226 103 + 1
AGCACCGGUCACCUGCAUUGCAGGCACCGCUUAAUAUUUGAUGACAAUUCAUUAUAG-UUAACAACUUUGGAUUGGUUAUCACAUCACAGCGCACAAA----------AUUG------UC
.((...(((..(((((...))))).)))(((.......(((((((((((((....((-(.....))).)))))).)))))))......))))).....----------....------.. ( -26.22)
>DroAna_CAF1 3311 101 + 1
AGCACCGGUCGCCUGCAUUGCAGGCGCCGCUCAGUAUCUGGUGACAGUUCAUGGUUC-CUGGC-------GAUUGGCUAUCACAUCACAGCGCACAA-----------AUUGGUGUGUUC
....((((((((((((...))))))((((.(((....(((....)))....)))...-.))))-------))))))............(((((((..-----------....))))))). ( -36.90)
>DroPer_CAF1 5526 109 + 1
AGCACCGGUCACCUGCAUUGCAGGCACCGCUCAAUAUCUGAUGACAAUUCAUAAUUC-UUUAC-------AAUUGAUUAUCACAUCACAGCGCACGAAUUGUAGUGUUGUUGG---UUCU
((.((((((..(((((...))))).)))..........(((((((((((..(((...-.))).-------))))).))))))....(((((((((.....)).))))))).))---).)) ( -25.00)
>consensus
AGCACCGGUCACCUGCAUUGCAGGCACCGCUCAAUAUCUGAUGACAAUUCAUAAUUC_UUUAC_______AAUUGAUUAUCACAUCACAGCGCACAAA__________AUUGG____UUC
.((...(((..(((((...))))).)))(((.......(((((((((((.....................))))).))))))......)))))........................... (-16.46 = -16.27 +  -0.19)

alignment

secondary structure

dotplot

Window 9

Location	6,100,532 – 6,100,633
Length	101
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.72
Mean single sequence MFE	-27.07
Consensus MFE	-22.30
Energy contribution	-21.38
Covariance contribution	-0.91
Combinations/Pair	1.29
Mean z-score	-0.67
Structure conservation index	0.82
SVM decision value	-0.01
SVM RNA-class probability	0.526665
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6100532 101 - 22224390
GACC---CCAAU---------AUCCGUGCGCUGUGAUGUGAUAAUCAACU-------GUGUGUAAAUUAUGAAUUGUCAUCAGAUUUUGAGCGGCGCUUGCAAUGCAGGCGACCGGUGCU
.(((---.(((.---------(((.(..(((..((((......))))...-------)))..).....((((....))))..))).)))...(((((((((...))))))).)))))... ( -27.00)
>DroVir_CAF1 5856 99 - 1
GA--------AU---AUUAG--UUUGUGCGCUGUGAUGUGAUAUCCAAUU-------GUAAC-AAAUAAUGAAUUGUCAUCAAAUAUUGAGCGGUGCCUGCAAUGCGGGUGACCGGUGCU
..--------..---.....--.....(((((((...((((((....(((-------((...-..)))))....))))))...))).....((((((((((...)))))).)))))))). ( -24.70)
>DroPse_CAF1 3786 109 - 1
AGAA---CCAACAACACUACAAUUUGUGCGCUGUGAUGUGAUAAUCAAUU-------GUAAA-GAAUUAUGAAUUGUCAUCAGAUAUUGAGCGGUGCCUGCAAUGCAGGUGACCGGUGCU
...(---((.....(((........))).(((...((.((((...(((((-------((((.-...)))).)))))..)))).))....)))(((((((((...)))))).))))))... ( -26.80)
>DroWil_CAF1 6226 103 - 1
GA------CAAU----------UUUGUGCGCUGUGAUGUGAUAACCAAUCCAAAGUUGUUAA-CUAUAAUGAAUUGUCAUCAAAUAUUAAGCGGUGCCUGCAAUGCAGGUGACCGGUGCU
((------((((----------((.((.(((......)))...)).........(((((...-..))))))))))))).............((((((((((...)))))).))))..... ( -24.80)
>DroAna_CAF1 3311 101 - 1
GAACACACCAAU-----------UUGUGCGCUGUGAUGUGAUAGCCAAUC-------GCCAG-GAACCAUGAACUGUCACCAGAUACUGAGCGGCGCCUGCAAUGCAGGCGACCGGUGCU
.....((((...-----------......(((((((.(((((.....)))-------))(((-..........)))))))(((...))))))(((((((((...))))))).)))))).. ( -32.50)
>DroPer_CAF1 5526 109 - 1
AGAA---CCAACAACACUACAAUUCGUGCGCUGUGAUGUGAUAAUCAAUU-------GUAAA-GAAUUAUGAAUUGUCAUCAGAUAUUGAGCGGUGCCUGCAAUGCAGGUGACCGGUGCU
....---.......(((.((((((((((..((.((((......))))...-------....)-)...))))))))))..............((((((((((...)))))).))))))).. ( -26.60)
>consensus
GAA____CCAAU__________UUUGUGCGCUGUGAUGUGAUAACCAAUU_______GUAAA_GAAUUAUGAAUUGUCAUCAGAUAUUGAGCGGUGCCUGCAAUGCAGGUGACCGGUGCU
...........................((((......(((((((.............................)))))))...........((((((((((...))))))).))))))). (-22.30 = -21.38 +  -0.91)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:50 2006