Locus 3525

Sequence ID	2L_DroMel_CAF1
Location	10,287,854 – 10,287,956
Length	102
Max. P	0.933264

overview

Window 6

Location	10,287,854 – 10,287,956
Length	102
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	78.51
Mean single sequence MFE	-22.94
Consensus MFE	-18.09
Energy contribution	-18.09
Covariance contribution	0.00
Combinations/Pair	1.24
Mean z-score	-1.80
Structure conservation index	0.79
SVM decision value	1.23
SVM RNA-class probability	0.933264
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10287854 102 + 22407834
CAAAAUGGGCUGUGAUACAACUCCUGCAAUCACGCAGGACCGAGCACGCAUCAGUUUCUCAAGAAACUCGCCCCGAUUUUCUAAAAA-----------CAAACAGAAAAUUUA
......((((.(((.......((((((......)))))).....))).....((((((....)))))).)))).((((((((.....-----------.....)))))))).. ( -27.60)
>DroSec_CAF1 502 101 + 1
CAAAAUGGGCUGUGAUACAACUCCUGCAAUCACGCAGGAACGAGCACGCAUCAGUUUCUCAAGAAACUCGCCCCGAUUUUCUAAAAA-----------UUAAUUAA-UGUUUA
......((((.(((.......((((((......)))))).....))).....((((((....)))))).))))..............-----------........-...... ( -24.30)
>DroSim_CAF1 2215 101 + 1
CAAAAUGGGCUGAGAUACAACUCCAGCAAUCACGCAGGAACGAGCCCGCAUCAGUUUCUCAAGAAACUCGCCCCGAUUUUCUAAAAU-----------UUAAUUCA-UGUUUU
......((((((((......)))..((......)).......)))))((((.((((.....(((((.(((...))).))))).....-----------..)))).)-)))... ( -18.30)
>DroEre_CAF1 5550 112 + 1
CAAGAUGGGCUGUGAUACAACUCCUGCAAUCACGCAGGAUCGAGCACGCAUUAGUUUCUCAAGAAACUCACCACGAUUUUCUAAAAAAAACAUAAAAAUCAAUAAU-UGCUUU
.....(((((.(((.......((((((......)))))).....)))))...((((((....))))))..))).((((((..............))))))......-...... ( -22.94)
>DroYak_CAF1 5503 112 + 1
CAAAAUUGGCUGUGAUACAACUCCUGCAAUCACGCAGGAUCGAGCACGCAUUAGUUUCUCAAGAAACUCGCCACGAUUUUCUGAAAAGAAGAGACAAAUCAAUAAA-UGCUCU
.....................((((((......))))))..(((((.((...((((((....)))))).)).....((((((....))))))..............-))))). ( -27.70)
>DroAna_CAF1 5963 108 + 1
CAGAAUGGGCUGUGACACAAUUCCGGUUAUUACACAGGAUCGAGCACGCAUUAGUUUUUCCAGAAACUCUCCUCGAUUUUCUGCAACGACAAAGAGUAUGAAUAAA-AA----
(((......))).....((((((..((..((.((.(((((((((........((((((....))))))...))))))))).)).))..))...)))).))......-..---- ( -16.80)
>consensus
CAAAAUGGGCUGUGAUACAACUCCUGCAAUCACGCAGGAUCGAGCACGCAUCAGUUUCUCAAGAAACUCGCCCCGAUUUUCUAAAAA___________UCAAUAAA_UGUUUU
.(((((((((((((.......((((((......)))))).......))))..((((((....)))))).))))..)))))................................. (-18.09 = -18.09 +   0.00)

alignment

secondary structure

dotplot

Window 7

Location	10,287,854 – 10,287,956
Length	102
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	78.51
Mean single sequence MFE	-28.22
Consensus MFE	-21.23
Energy contribution	-21.82
Covariance contribution	0.59
Combinations/Pair	1.22
Mean z-score	-1.35
Structure conservation index	0.75
SVM decision value	0.65
SVM RNA-class probability	0.812501
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10287854 102 - 22407834
UAAAUUUUCUGUUUG-----------UUUUUAGAAAAUCGGGGCGAGUUUCUUGAGAAACUGAUGCGUGCUCGGUCCUGCGUGAUUGCAGGAGUUGUAUCACAGCCCAUUUUG
...((((((((....-----------....))))))))..((((.((((((....))))))((((((.....(.(((((((....))))))).)))))))...))))...... ( -34.60)
>DroSec_CAF1 502 101 - 1
UAAACA-UUAAUUAA-----------UUUUUAGAAAAUCGGGGCGAGUUUCUUGAGAAACUGAUGCGUGCUCGUUCCUGCGUGAUUGCAGGAGUUGUAUCACAGCCCAUUUUG
......-........-----------..............((((.((((((....))))))((((((......((((((((....)))))))).))))))...))))...... ( -29.70)
>DroSim_CAF1 2215 101 - 1
AAAACA-UGAAUUAA-----------AUUUUAGAAAAUCGGGGCGAGUUUCUUGAGAAACUGAUGCGGGCUCGUUCCUGCGUGAUUGCUGGAGUUGUAUCUCAGCCCAUUUUG
......-........-----------..............((((.((((((....))))))(((((((.....((((.(((....))).)))))))))))...))))...... ( -25.50)
>DroEre_CAF1 5550 112 - 1
AAAGCA-AUUAUUGAUUUUUAUGUUUUUUUUAGAAAAUCGUGGUGAGUUUCUUGAGAAACUAAUGCGUGCUCGAUCCUGCGUGAUUGCAGGAGUUGUAUCACAGCCCAUCUUG
...(((-(((((.(((((((............)))))))))))).((((((....))))))..)))(((..((((((((((....))))))).)))...)))........... ( -27.20)
>DroYak_CAF1 5503 112 - 1
AGAGCA-UUUAUUGAUUUGUCUCUUCUUUUCAGAAAAUCGUGGCGAGUUUCUUGAGAAACUAAUGCGUGCUCGAUCCUGCGUGAUUGCAGGAGUUGUAUCACAGCCAAUUUUG
.(((((-(.(((((..(((((.(((((....))))....).)))))(((((....)))))))))).))))))..(((((((....)))))))((((.....))))........ ( -31.90)
>DroAna_CAF1 5963 108 - 1
----UU-UUUAUUCAUACUCUUUGUCGUUGCAGAAAAUCGAGGAGAGUUUCUGGAAAAACUAAUGCGUGCUCGAUCCUGUGUAAUAACCGGAAUUGUGUCACAGCCCAUUCUG
----..-................((..((.((((((.((.....)).)))))).))..))....((((((.((((((.((......)).)).)))).).))).))........ ( -20.40)
>consensus
AAAACA_UUUAUUAA___________UUUUUAGAAAAUCGGGGCGAGUUUCUUGAGAAACUAAUGCGUGCUCGAUCCUGCGUGAUUGCAGGAGUUGUAUCACAGCCCAUUUUG
........................................((((.((((((....)))))).....(((..((((((((((....))))))).)))...))).))))...... (-21.23 = -21.82 +   0.59)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:36 2006