Locus 3315

Sequence ID	X_DroMel_CAF1
Location	8,860,341 – 8,860,442
Length	101
Max. P	0.861168

overview

Window 1

Location	8,860,341 – 8,860,442
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	75.94
Mean single sequence MFE	-22.15
Consensus MFE	-13.32
Energy contribution	-14.28
Covariance contribution	0.96
Combinations/Pair	1.14
Mean z-score	-1.85
Structure conservation index	0.60
SVM decision value	0.80
SVM RNA-class probability	0.854816
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8860341 101 + 22224390
UACAUACAUGUGAGCGUAAUUUAUUUAUUGCGUGUCCAUCCAACAUUCACGCAAUACAGGCGAAAAAAAAAAUGCUAGGGUUUUUACCAUCUCUUUUGUUU
.....(((...((((((........(((((((((.............)))))))))...)))................(((....)))..)))...))).. ( -16.62)
>DroSec_CAF1 100312 93 + 1
U----GCAUGUGAGCGUAAUUUAUUUAUUGCGUGUCUGUCCAACAUUCACGCAAUAAAGGCGAAA----AAAUGCUAGGGUUUUUACCAUCCCCUUUGUUU
.----((((.....(((......(((((((((((..((.....))..))))))))))).)))...----..)))).((((..(.....)..))))...... ( -25.90)
>DroSim_CAF1 92173 93 + 1
U----GCAUGUGAGCGUAAUUUAUUUAUUGCGUGUCUGUCCAACAUUCACGCAAUAAAGGCGAAA----AAAUGCUAGGGUUUUUACCAUCUCCUUUGUUU
.----((((.....(((......(((((((((((..((.....))..))))))))))).)))...----..))))...(((....)))............. ( -25.10)
>DroEre_CAF1 94888 85 + 1
G----ACAUGUGAGCGUAAUUUAUUUAUUGCGUGUCUGUCCAACAUUCACGCAAUAAAGGCGAA------AAUGCUAGGGUUCUUUCCUUCUUUU------
.----.......(((((......(((((((((((..((.....))..)))))))))))......------.)))))((((.....))))......------ ( -22.42)
>DroAna_CAF1 83211 77 + 1
-----UCAUGUGAGUGUAAUUUACUUAUUGCGUGCUUGUCCGACAUUCACGCAAUAAAAUCCGGA----UAAGGCCAGGCCAUGUG---------------
-----.((((((.((.(.......((((((((((..((.....))..)))))))))).....((.----.....))).))))))))--------------- ( -20.70)
>consensus
U____ACAUGUGAGCGUAAUUUAUUUAUUGCGUGUCUGUCCAACAUUCACGCAAUAAAGGCGAAA____AAAUGCUAGGGUUUUUACCAUCUCCUUUGUUU
...........((((........(((((((((((..((.....))..)))))))))))((((..........))))...)))).................. (-13.32 = -14.28 +   0.96)

alignment

secondary structure

dotplot

Window 2

Location	8,860,341 – 8,860,442
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	75.94
Mean single sequence MFE	-20.03
Consensus MFE	-14.12
Energy contribution	-13.84
Covariance contribution	-0.28
Combinations/Pair	1.23
Mean z-score	-1.60
Structure conservation index	0.70
SVM decision value	0.83
SVM RNA-class probability	0.861168
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8860341 101 - 22224390
AAACAAAAGAGAUGGUAAAAACCCUAGCAUUUUUUUUUUCGCCUGUAUUGCGUGAAUGUUGGAUGGACACGCAAUAAAUAAAUUACGCUCACAUGUAUGUA
....((((((((((.((.......)).))))))))))........(((((((((.............)))))))))......................... ( -16.82)
>DroSec_CAF1 100312 93 - 1
AAACAAAGGGGAUGGUAAAAACCCUAGCAUUU----UUUCGCCUUUAUUGCGUGAAUGUUGGACAGACACGCAAUAAAUAAAUUACGCUCACAUGC----A
......((((...........)))).((....----....)).(((((((((((..((.....))..)))))))))))........((......))----. ( -22.30)
>DroSim_CAF1 92173 93 - 1
AAACAAAGGAGAUGGUAAAAACCCUAGCAUUU----UUUCGCCUUUAUUGCGUGAAUGUUGGACAGACACGCAAUAAAUAAAUUACGCUCACAUGC----A
......((((((((.((.......)).)))))----)))....(((((((((((..((.....))..)))))))))))........((......))----. ( -21.30)
>DroEre_CAF1 94888 85 - 1
------AAAAGAAGGAAAGAACCCUAGCAUU------UUCGCCUUUAUUGCGUGAAUGUUGGACAGACACGCAAUAAAUAAAUUACGCUCACAUGU----C
------......(((.......)))(((...------......(((((((((((..((.....))..)))))))))))........))).......----. ( -17.33)
>DroAna_CAF1 83211 77 - 1
---------------CACAUGGCCUGGCCUUA----UCCGGAUUUUAUUGCGUGAAUGUCGGACAAGCACGCAAUAAGUAAAUUACACUCACAUGA-----
---------------..((((..((((.....----.))))..(((((((((((..((.....))..))))))))))).............)))).----- ( -22.40)
>consensus
AAACAAAAGAGAUGGUAAAAACCCUAGCAUUU____UUUCGCCUUUAUUGCGUGAAUGUUGGACAGACACGCAAUAAAUAAAUUACGCUCACAUGC____A
...........................................(((((((((((..((.....))..)))))))))))....................... (-14.12 = -13.84 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:13 2006