Locus 6735

Sequence ID	3R_DroMel_CAF1
Location	17,745,394 – 17,745,489
Length	95
Max. P	0.927232

overview

Window 7

Location	17,745,394 – 17,745,489
Length	95
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	79.58
Mean single sequence MFE	-23.15
Consensus MFE	-12.31
Energy contribution	-12.20
Covariance contribution	-0.11
Combinations/Pair	1.11
Mean z-score	-2.18
Structure conservation index	0.53
SVM decision value	0.47
SVM RNA-class probability	0.749296
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17745394 95 + 27905053
UUUUAGCCAAGACACCUUGG-CAGUCAUUAGCCACAUUUAGUUGCCUGAUGAUCAUGGCUCUUACUGUAGUUGUACCUCGUUCCUCUGUGUCUUUU
........(((((((...((-(........)))(((..((((.(((((.....)).)))....))))....))).............))))))).. ( -20.40)
>DroPse_CAF1 37200 91 + 1
UU-UAGCCAAGACACCUUGG-CAGUCAUUAGCCACAUUUAGUUGCCUGCUGAUCAUGGCUUUUACUGCUUCUGCUGCUGC---UUCUGUUGAUGAU
..-..((((((....)))))-).(((((((((((...(((((.....)))))...)))).......((....((....))---....))))))))) ( -25.40)
>DroEre_CAF1 36706 93 + 1
UUUGAGCCAAGACACCUUGG-CAGUCAUUAGCCACUUUUAGUUGCCUGAUGAUCAUGGCUCUUACUGCAGUUGUACCUCGUUCCUCUGAGCUUU--
.....((((((....)))))-).(((((((((.((.....)).).))))))))...(((((.....((((......)).))......)))))..-- ( -23.60)
>DroWil_CAF1 43059 81 + 1
U-UUAGUCAAGACACCUUGGCCAGUCAUUAGCCACAUUUAGUCG-CUGAUGAUCAUGGCUUUUGCUAUUUUG----CUA----UUCU-----UGUU
.-.....(((((......((((((((((((((.((.....)).)-))))))))..)))))...((......)----)..----.)))-----)).. ( -23.70)
>DroYak_CAF1 36611 95 + 1
UUUUAGCCAAGACACCUUGG-CAGUCAUUAGCCACAUUUAGUUGCCUGAUGAUCAUGGCUCUUACUGUUGUUAUACCUCGUUCCUCCGUGCUUUUU
.....((((((....)))))-).(((((((((.((.....)).).))))))))(((((.....((.((......))...))....)))))...... ( -20.40)
>DroPer_CAF1 37157 91 + 1
UU-UAGCCAAGACACCUUGG-CAGUCAUUAGCCACAUUUAGUUGCCUGCUGAUCAUGGCUUUUACUGCUUCUGCUGCUGC---UUCUGUUGAUGAU
..-..((((((....)))))-).(((((((((((...(((((.....)))))...)))).......((....((....))---....))))))))) ( -25.40)
>consensus
UUUUAGCCAAGACACCUUGG_CAGUCAUUAGCCACAUUUAGUUGCCUGAUGAUCAUGGCUCUUACUGCUGUUGUACCUCG___CUCUGUGCAUGUU
......(((((....))))).((((.(..(((((...(((.........)))...)))))..)))))............................. (-12.31 = -12.20 +  -0.11)

alignment

secondary structure

dotplot

Window 8

Location	17,745,394 – 17,745,489
Length	95
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	79.58
Mean single sequence MFE	-23.75
Consensus MFE	-14.62
Energy contribution	-14.82
Covariance contribution	0.19
Combinations/Pair	1.06
Mean z-score	-2.39
Structure conservation index	0.62
SVM decision value	1.18
SVM RNA-class probability	0.927232
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17745394 95 - 27905053
AAAAGACACAGAGGAACGAGGUACAACUACAGUAAGAGCCAUGAUCAUCAGGCAACUAAAUGUGGCUAAUGACUG-CCAAGGUGUCUUGGCUAAAA
..(((((((...((....((......)).((((...((((((.......((....))....))))))....))))-))...)))))))........ ( -24.80)
>DroPse_CAF1 37200 91 - 1
AUCAUCAACAGAA---GCAGCAGCAGAAGCAGUAAAAGCCAUGAUCAGCAGGCAACUAAAUGUGGCUAAUGACUG-CCAAGGUGUCUUGGCUA-AA
........((..(---((.(((((....)).......(((.((.....))))).......))).)))..))...(-(((((....))))))..-.. ( -21.70)
>DroEre_CAF1 36706 93 - 1
--AAAGCUCAGAGGAACGAGGUACAACUGCAGUAAGAGCCAUGAUCAUCAGGCAACUAAAAGUGGCUAAUGACUG-CCAAGGUGUCUUGGCUCAAA
--........(((...((((..((....(((((...((((((.......((....))....))))))....))))-)....))..)))).)))... ( -30.00)
>DroWil_CAF1 43059 81 - 1
AACA-----AGAA----UAG----CAAAAUAGCAAAAGCCAUGAUCAUCAG-CGACUAAAUGUGGCUAAUGACUGGCCAAGGUGUCUUGACUAA-A
..((-----(((.----..(----(......))....((((.(.((((.((-(.((.....)).))).))))))))).......))))).....-. ( -21.90)
>DroYak_CAF1 36611 95 - 1
AAAAAGCACGGAGGAACGAGGUAUAACAACAGUAAGAGCCAUGAUCAUCAGGCAACUAAAUGUGGCUAAUGACUG-CCAAGGUGUCUUGGCUAAAA
.....((.((......))..))..............(((((.((.((((((....)).....((((........)-))).)))))).))))).... ( -22.40)
>DroPer_CAF1 37157 91 - 1
AUCAUCAACAGAA---GCAGCAGCAGAAGCAGUAAAAGCCAUGAUCAGCAGGCAACUAAAUGUGGCUAAUGACUG-CCAAGGUGUCUUGGCUA-AA
........((..(---((.(((((....)).......(((.((.....))))).......))).)))..))...(-(((((....))))))..-.. ( -21.70)
>consensus
AAAAACCACAGAA___CGAGGUACAAAAACAGUAAAAGCCAUGAUCAUCAGGCAACUAAAUGUGGCUAAUGACUG_CCAAGGUGUCUUGGCUAAAA
.............................((((...((((((.......((....))....))))))....)))).(((((....)))))...... (-14.62 = -14.82 +   0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:39 2006