Locus 8486

Sequence ID X_DroMel_CAF1
Location 21,048,635 – 21,048,827
Length 192
Max. P 0.999895
window13962 window13963 window13964

overview

Window 2

Location 21,048,635 – 21,048,755
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.32
Mean single sequence MFE -32.14
Consensus MFE -31.62
Energy contribution -31.30
Covariance contribution -0.32
Combinations/Pair 1.04
Mean z-score -1.94
Structure conservation index 0.98
SVM decision value 3.32
SVM RNA-class probability 0.999004
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21048635 120 + 22224390
AAAAAUAGGAUAUAGCCACUAAAAAGUAAUAUGAAAAGGCGGCCAAGAAAACAUUUCUAAGUACGCAUCUGCUGGCGCUUUUGCCAUGUUUGUUGGCCUAAUUAGUGGCAGUGCAUUUUU
..............((((((((...((....(....).))((((((..((((((..........((....)).((((....)))))))))).))))))...))))))))........... ( -32.60)
>DroSec_CAF1 19011 118 + 1
--AAAUAGGAUAUGGCCACUAAAAAGUAAUAUCAAAAGGCGGCCAAGGAAACAUUUCUAAGUACGCAUCUGCUGGCGCUUCUGCCAUGUUUGUUGGCCUAAUUAGUGGCAGUGCAUUUUU
--.....(.((...((((((((...((...........))((((((.(((.(((..........((....)).((((....)))))))))).))))))...)))))))).)).)...... ( -31.20)
>DroSim_CAF1 19578 118 + 1
--AAAUAGGAUAUAGCCACUAAAAAGUAAUAUCAAAAGGCGGCCAAGGAAACAUUUCUAAGUACGCAUCUGCUGGCGCUUCUGCCAUGUUUGUUGGCCUAAUUAGUGGCAGUGCAUUUUU
--............((((((((...((...........))((((((.(((.(((..........((....)).((((....)))))))))).))))))...))))))))........... ( -31.10)
>DroEre_CAF1 19759 119 + 1
-AAAAUAGGAUAUAGCCACUAAAAAGUAAUACCAAAAGGCGGCCAAGAAAACAUUUCUAAGUACGCAUCUGCCGGCGCUUUUGCCGUGUUUGUUGGCCUAAUUAGUGGCAGUGCAUUUUU
-.............((((((((.........((....)).((((((..(((((...........((....))(((((....)))))))))).))))))...))))))))........... ( -34.00)
>DroYak_CAF1 21633 120 + 1
AAAAAUAGGAUAUAGCCACUAAAAAGUAAUAUCAAAAGGCGGCCAAGAAAACAUUUCUAAGUACGCAUCUGCUGGCGCUUUUGCCAUGUUUGUUGGCCUAAUUAGUGGCAGUGCAUUUUU
..............((((((((...((...........))((((((..((((((..........((....)).((((....)))))))))).))))))...))))))))........... ( -31.80)
>consensus
_AAAAUAGGAUAUAGCCACUAAAAAGUAAUAUCAAAAGGCGGCCAAGAAAACAUUUCUAAGUACGCAUCUGCUGGCGCUUUUGCCAUGUUUGUUGGCCUAAUUAGUGGCAGUGCAUUUUU
..............((((((((...((...........))((((((..(((((...........((....))(((((....)))))))))).))))))...))))))))........... (-31.62 = -31.30 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 21,048,635 – 21,048,755
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.32
Mean single sequence MFE -31.66
Consensus MFE -30.04
Energy contribution -29.72
Covariance contribution -0.32
Combinations/Pair 1.04
Mean z-score -2.62
Structure conservation index 0.95
SVM decision value 4.43
SVM RNA-class probability 0.999895
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21048635 120 - 22224390
AAAAAUGCACUGCCACUAAUUAGGCCAACAAACAUGGCAAAAGCGCCAGCAGAUGCGUACUUAGAAAUGUUUUCUUGGCCGCCUUUUCAUAUUACUUUUUAGUGGCUAUAUCCUAUUUUU
...........((((((((...((((((.(((((((((......))).((....))..........))))))..))))))..................)))))))).............. ( -30.00)
>DroSec_CAF1 19011 118 - 1
AAAAAUGCACUGCCACUAAUUAGGCCAACAAACAUGGCAGAAGCGCCAGCAGAUGCGUACUUAGAAAUGUUUCCUUGGCCGCCUUUUGAUAUUACUUUUUAGUGGCCAUAUCCUAUUU--
...........((((((((..((((((.......))))(((((((((((..((.((((........)))).)).)))).)).))))).......))..))))))))............-- ( -30.40)
>DroSim_CAF1 19578 118 - 1
AAAAAUGCACUGCCACUAAUUAGGCCAACAAACAUGGCAGAAGCGCCAGCAGAUGCGUACUUAGAAAUGUUUCCUUGGCCGCCUUUUGAUAUUACUUUUUAGUGGCUAUAUCCUAUUU--
...........((((((((..((((((.......))))(((((((((((..((.((((........)))).)).)))).)).))))).......))..))))))))............-- ( -30.80)
>DroEre_CAF1 19759 119 - 1
AAAAAUGCACUGCCACUAAUUAGGCCAACAAACACGGCAAAAGCGCCGGCAGAUGCGUACUUAGAAAUGUUUUCUUGGCCGCCUUUUGGUAUUACUUUUUAGUGGCUAUAUCCUAUUUU-
...........((((((((...((((((.(((((((((......))))((....))...........)))))..))))))(((....)))........)))))))).............- ( -36.50)
>DroYak_CAF1 21633 120 - 1
AAAAAUGCACUGCCACUAAUUAGGCCAACAAACAUGGCAAAAGCGCCAGCAGAUGCGUACUUAGAAAUGUUUUCUUGGCCGCCUUUUGAUAUUACUUUUUAGUGGCUAUAUCCUAUUUUU
...........((((((((...((((((.(((((((((......))).((....))..........))))))..))))))..(....)..........)))))))).............. ( -30.60)
>consensus
AAAAAUGCACUGCCACUAAUUAGGCCAACAAACAUGGCAAAAGCGCCAGCAGAUGCGUACUUAGAAAUGUUUUCUUGGCCGCCUUUUGAUAUUACUUUUUAGUGGCUAUAUCCUAUUUU_
...........((((((((...((((((.(((((((((......))))((....))...........)))))..))))))..................)))))))).............. (-30.04 = -29.72 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 21,048,715 – 21,048,827
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.76
Mean single sequence MFE -30.92
Consensus MFE -23.48
Energy contribution -23.48
Covariance contribution 0.00
Combinations/Pair 1.07
Mean z-score -1.81
Structure conservation index 0.76
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21048715 112 - 22224390
UUUCCAUGUUGUACAAUUUGGUUGGCGUG-------GU-GGGGGACGAAAAAACGCUUACAACGCCGAAAAUUAUGCUAUAAAAAUGCACUGCCACUAAUUAGGCCAACAAACAUGGCAA
...((((((((((.(((((..(((((((.-------((-(((.(.........).))))).)))))))))))).)))..............(((........))).....)))))))... ( -29.60)
>DroSec_CAF1 19089 111 - 1
UUUCCAUGUUGUACAAUUUGGUUGGCGGG-------GU-GGGGGACGAA-AAACGCUUACAACGCCGAAAAUUAUGCUAUAAAAAUGCACUGCCACUAAUUAGGCCAACAAACAUGGCAG
...((((((((((.(((((..((((((..-------((-(((.(.....-...).)))))..))))))))))).)))..............(((........))).....)))))))... ( -30.90)
>DroSim_CAF1 19656 111 - 1
UUUCCAUGUUGUACAAUUUGGUUGGCGGG-------GU-GGGGGACGAA-AAACGCUUACAACGCCGAAAAUUAUGCUAUAAAAAUGCACUGCCACUAAUUAGGCCAACAAACAUGGCAG
...((((((((((.(((((..((((((..-------((-(((.(.....-...).)))))..))))))))))).)))..............(((........))).....)))))))... ( -30.90)
>DroEre_CAF1 19838 111 - 1
UUUCCAUGUUGUACAAUUUGGCUGGCGGG-------GU-GGGAGACGAA-AAACGCUUACAACGCCGAAAAUUAUGCUAUAAAAAUGCACUGCCACUAAUUAGGCCAACAAACACGGCAA
......((((((.....((((((((((((-------((-(.(((.((..-...)))))....))))........(((.........)))))))))((....))))))).....)))))). ( -29.50)
>DroYak_CAF1 21713 119 - 1
UUUCCAUGUUGUACAAUUUGGUUGGCGGGCGAGACGGUGGGGAGACGAA-AAACGCUUACAACGCCGAAAAUUAUGCUAUAAAAAUGCACUGCCACUAAUUAGGCCAACAAACAUGGCAA
...(((((((..........((((((.(((.((.(((((..(((.((..-...)))))....))))).......(((.........)))))))).((....)))))))).)))))))... ( -33.70)
>consensus
UUUCCAUGUUGUACAAUUUGGUUGGCGGG_______GU_GGGGGACGAA_AAACGCUUACAACGCCGAAAAUUAUGCUAUAAAAAUGCACUGCCACUAAUUAGGCCAACAAACAUGGCAA
...(((((((.......(((((((((((........((.(..((.((......))))..).))...........(((.........)))))))))((....)))))))..)))))))... (-23.48 = -23.48 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:31 2006