Locus 2286

Sequence ID	2L_DroMel_CAF1
Location	6,178,516 – 6,178,625
Length	109
Max. P	0.746037

overview

Window 1

Location	6,178,516 – 6,178,625
Length	109
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	75.96
Mean single sequence MFE	-35.85
Consensus MFE	-21.46
Energy contribution	-23.30
Covariance contribution	1.84
Combinations/Pair	1.20
Mean z-score	-1.45
Structure conservation index	0.60
SVM decision value	0.21
SVM RNA-class probability	0.636626
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6178516 109 + 22407834
---UGCGA-UUU-CGGCUUAAUGCCGGCGUCAAUCAUUGGAAAUUCAUCAGAGGCCGCGAUUGGCGGCGGUCCGCCAUUUC------CAAUUUGGACUGCAAGGCGGAUUCGCCGGAAAA
---.....-(((-((((......(((.((((((((..(((...(((....))).))).)))))))).)))((((((...((------(.....)))......))))))...))))))).. ( -43.60)
>DroPse_CAF1 36743 105 + 1
G--UGUGAAUAUCUUGAUUAAUGCGAGCGGCAAUUAUUGGAAAUUCAUCAGCGUCGUC------CGCAGGGCAGACAACUCAACCAAAAAUUUGGAC---AAAAUGUAUUCGCUUG----
.--.((((((((.(((.....((((..((((......(((....))).....))))..------))))(((.......)))..((((....)))).)---))...))))))))...---- ( -23.10)
>DroSec_CAF1 14842 109 + 1
---UGCGA-UUA-UGGUUUAAUGCCGGCGUCAAUCAUUGGAAAUUCAUCAGAGUCCGCGAUUGGCGGCGGUCCGCCAUUUC------CAAUUUGGACUGCAAGGCGGAUUCGCCGGGAAG
---.((((-...-..........(((.((((((((..((((...((....)).)))).)))))))).)))((((((...((------(.....)))......)))))).))))....... ( -38.00)
>DroSim_CAF1 24313 98 + 1
---UGCGA-UU------------UCAGCUUCAAUCAUUGGAAAUUCAUCAGAGUCCGCGAUUGGCGGCGGUCCGCCAUUUC------CAAUUUGGACUGCAAGGCGGAUUCGCCGGGAAG
---.....-((------------((....((((((..((((...((....)).)))).))))))((((((((((((...((------(.....)))......)))))).)))))))))). ( -33.20)
>DroEre_CAF1 14612 109 + 1
---UGCGA-UUUCUGGCUCAAUGCCGGCGUCAAUUAUUCGAAAUUCAUCGGAGU-CGCGAUUGGCGGCGGUCCGCCAUUUC------CAAUUUGGACUGUAAGGCGGAUUCGCCGGGAAA
---.....-((((((((......(((.((((((((.(((((......)))))..-...)))))))).)))((((((...((------(.....)))......))))))...)))))))). ( -42.40)
>DroYak_CAF1 25639 113 + 1
AUGUGCCA-UUUCUAGCUCAAUGCAGGCGUCAAUUAUUCGAAAUUAUUCAGACUCCGCGAUUGGCGGCAGUCCGCCAUUUC------CAAUUUGGACUGCAAGGCGGAUUCGCCGGGAAA
........-(((((.((.((((((.((.(((...................))).)))).))))))(((((((((((...((------(.....)))......)))))))).)))))))). ( -34.81)
>consensus
___UGCGA_UUU_UGGCUUAAUGCCGGCGUCAAUCAUUGGAAAUUCAUCAGAGUCCGCGAUUGGCGGCGGUCCGCCAUUUC______CAAUUUGGACUGCAAGGCGGAUUCGCCGGGAAA
.......................(((((...........((......)).((((((((...((((((....)))))).............((((.....))))))))))))))))).... (-21.46 = -23.30 +   1.84)

alignment

secondary structure

dotplot

Window 2

Location	6,178,516 – 6,178,625
Length	109
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	75.96
Mean single sequence MFE	-34.01
Consensus MFE	-16.99
Energy contribution	-18.10
Covariance contribution	1.12
Combinations/Pair	1.31
Mean z-score	-1.92
Structure conservation index	0.50
SVM decision value	0.46
SVM RNA-class probability	0.746037
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6178516 109 - 22407834
UUUUCCGGCGAAUCCGCCUUGCAGUCCAAAUUG------GAAAUGGCGGACCGCCGCCAAUCGCGGCCUCUGAUGAAUUUCCAAUGAUUGACGCCGGCAUUAAGCCG-AAA-UCGCA---
......((((....)))).(((.(((...((((------(((((..((((..(((((.....))))).))))....)))))))))....)))..((((.....))))-...-..)))--- ( -41.30)
>DroPse_CAF1 36743 105 - 1
----CAAGCGAAUACAUUUU---GUCCAAAUUUUUGGUUGAGUUGUCUGCCCUGCG------GACGACGCUGAUGAAUUUCCAAUAAUUGCCGCUCGCAUUAAUCAAGAUAUUCACA--C
----..(((...........---..((((....))))....(((((((((...)))------)))))))))..(((((.((.......(((.....)))........)).)))))..--. ( -22.76)
>DroSec_CAF1 14842 109 - 1
CUUCCCGGCGAAUCCGCCUUGCAGUCCAAAUUG------GAAAUGGCGGACCGCCGCCAAUCGCGGACUCUGAUGAAUUUCCAAUGAUUGACGCCGGCAUUAAACCA-UAA-UCGCA---
....(((((......((...)).(((...((((------(((((..((((...((((.....))))..))))....)))))))))....))))))))..........-...-.....--- ( -34.00)
>DroSim_CAF1 24313 98 - 1
CUUCCCGGCGAAUCCGCCUUGCAGUCCAAAUUG------GAAAUGGCGGACCGCCGCCAAUCGCGGACUCUGAUGAAUUUCCAAUGAUUGAAGCUGA------------AA-UCGCA---
.......((((.((.((....(((((...((((------(((((..((((...((((.....))))..))))....))))))))))))))..)).))------------..-)))).--- ( -31.90)
>DroEre_CAF1 14612 109 - 1
UUUCCCGGCGAAUCCGCCUUACAGUCCAAAUUG------GAAAUGGCGGACCGCCGCCAAUCGCG-ACUCCGAUGAAUUUCGAAUAAUUGACGCCGGCAUUGAGCCAGAAA-UCGCA---
.....(((((..((((((......(((.....)------))...)))))).)))))......(((-(...(((......))).............(((.....))).....-)))).--- ( -35.40)
>DroYak_CAF1 25639 113 - 1
UUUCCCGGCGAAUCCGCCUUGCAGUCCAAAUUG------GAAAUGGCGGACUGCCGCCAAUCGCGGAGUCUGAAUAAUUUCGAAUAAUUGACGCCUGCAUUGAGCUAGAAA-UGGCACAU
......((((....)))).(((((..((((((.------(((((..((((((.((((.....))))))))))....))))).)))..)))....))))).((.((((....-)))).)). ( -38.70)
>consensus
UUUCCCGGCGAAUCCGCCUUGCAGUCCAAAUUG______GAAAUGGCGGACCGCCGCCAAUCGCGGACUCUGAUGAAUUUCCAAUAAUUGACGCCGGCAUUAAGCCA_AAA_UCGCA___
....((((((..((((((..........................))))))((((........)))).........................))))))....................... (-16.99 = -18.10 +   1.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:06 2006