Locus 3646

Sequence ID 3L_DroMel_CAF1
Location 10,699,431 – 10,699,574
Length 143
Max. P 0.947437
window5684 window5685 window5686

overview

Window 4

Location 10,699,431 – 10,699,539
Length 108
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 93.83
Mean single sequence MFE -25.21
Consensus MFE -22.32
Energy contribution -23.10
Covariance contribution 0.78
Combinations/Pair 1.04
Mean z-score -2.91
Structure conservation index 0.89
SVM decision value 1.37
SVM RNA-class probability 0.947437
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10699431 108 + 23771897
UUGCUGCUGUUGCUUCUUUUUUUUUUCUUUUUAGCCAGCAAACGAGAUCCUUUAUUCCUUCAGCUUCUUUUGCCUUUCGUUUUGAAAGGCUGCAAAUGGCUAAAGGAU
(((((((((......................))).))))))..............(((((.((((......(((((((.....))))))).......)))).))))). ( -28.17)
>DroSec_CAF1 33842 104 + 1
UUGCUGCUGUUGCUUCUCUUUUUUUUCUUUUUA----GCAAACGAGAUCCUUUAUUCCUUCAGCUUCUUUCGCCUUUCGUUUUGAAAGGCUGCCAAUGGUUAAAGGAU
....(((((......................))----)))......((((((((..((....((.......(((((((.....))))))).))....)).)))))))) ( -21.65)
>DroSim_CAF1 35463 107 + 1
UUGCUGCUGUUGCUUCUCUUUU-UUUCUUUUUAGCCAGCAAACGAGAUCCUAUAUUCCUUCAGCUUCUUUUGCCUUUCGUUUUGAAAGGCUGCAAAUGGUUAAAGGAU
(((((((((.............-........))).))))))..............(((((.((((......(((((((.....))))))).......)))).))))). ( -25.82)
>consensus
UUGCUGCUGUUGCUUCUCUUUUUUUUCUUUUUAGCCAGCAAACGAGAUCCUUUAUUCCUUCAGCUUCUUUUGCCUUUCGUUUUGAAAGGCUGCAAAUGGUUAAAGGAU
(((((((((......................))).))))))..............(((((.((((......(((((((.....))))))).......)))).))))). (-22.32 = -23.10 +   0.78)

alignment

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secondary structure

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dotplot

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Window 5

Location 10,699,431 – 10,699,539
Length 108
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 93.83
Mean single sequence MFE -27.17
Consensus MFE -21.30
Energy contribution -22.30
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -4.00
Structure conservation index 0.78
SVM decision value 0.78
SVM RNA-class probability 0.849430
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10699431 108 - 23771897
AUCCUUUAGCCAUUUGCAGCCUUUCAAAACGAAAGGCAAAAGAAGCUGAAGGAAUAAAGGAUCUCGUUUGCUGGCUAAAAAGAAAAAAAAAAGAAGCAACAGCAGCAA
.(((((((((..(((...(((((((.....)))))))..)))..)))))))))............(((.(((((((..................)))..))))))).. ( -30.77)
>DroSec_CAF1 33842 104 - 1
AUCCUUUAACCAUUGGCAGCCUUUCAAAACGAAAGGCGAAAGAAGCUGAAGGAAUAAAGGAUCUCGUUUGC----UAAAAAGAAAAAAAAGAGAAGCAACAGCAGCAA
.(((((((.((.(..((.(((((((.....))))))).......))..).))..)))))))((((.(((.(----(....))....))).)))).((....))..... ( -26.50)
>DroSim_CAF1 35463 107 - 1
AUCCUUUAACCAUUUGCAGCCUUUCAAAACGAAAGGCAAAAGAAGCUGAAGGAAUAUAGGAUCUCGUUUGCUGGCUAAAAAGAAA-AAAAGAGAAGCAACAGCAGCAA
.(((((((.(..(((...(((((((.....)))))))..)))..).)))))))............(((.(((((((.........-........)))..))))))).. ( -24.23)
>consensus
AUCCUUUAACCAUUUGCAGCCUUUCAAAACGAAAGGCAAAAGAAGCUGAAGGAAUAAAGGAUCUCGUUUGCUGGCUAAAAAGAAAAAAAAGAGAAGCAACAGCAGCAA
((((((((.((.(..((.(((((((.....))))))).......))..).))..))))))))...(((.((((..........................))))))).. (-21.30 = -22.30 +   1.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,699,465 – 10,699,574
Length 109
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 91.98
Mean single sequence MFE -32.98
Consensus MFE -28.40
Energy contribution -28.56
Covariance contribution 0.16
Combinations/Pair 1.06
Mean z-score -1.43
Structure conservation index 0.86
SVM decision value 0.63
SVM RNA-class probability 0.803800
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10699465 109 + 23771897
CCAGCAAACGAGAUCCUUUAUUCCUUCAGCUUCUUUUGCCUUUCGUUUUGAAAGGCUGCAAAUGGCUAAAGGAUG-----GAGCGGGGAUAGUUGAAGGUGGCAUUGUAGGUAU
(((.(.(((...((((((...(((((.((((......(((((((.....))))))).......)))).)))))..-----....)))))).)))...).)))............ ( -31.72)
>DroSec_CAF1 33875 106 + 1
---GCAAACGAGAUCCUUUAUUCCUUCAGCUUCUUUCGCCUUUCGUUUUGAAAGGCUGCCAAUGGUUAAAGGAUG-----GAGAGGGGAUAGUUGAAGGUGGCAUUGUAGGUAU
---((..((((...((......((((((((((((((((((((((.....)))))))..(((............))-----).))))))..))))))))).))..))))..)).. ( -31.60)
>DroSim_CAF1 35496 109 + 1
CCAGCAAACGAGAUCCUAUAUUCCUUCAGCUUCUUUUGCCUUUCGUUUUGAAAGGCUGCAAAUGGUUAAAGGAUG-----GAGAGGGGAUAGUUGAAGGUGGCAUUGUAGGUAU
..............((((((..((((((((((((((((((((((.....)))))))......(.(((....))).-----)..)))))).)))))))))......))))))... ( -29.80)
>DroEre_CAF1 37422 114 + 1
CCAGCAAACGAGAUCCUUUAUUCCUUCAGCUUCUUUUGCCUUUCGUUUUGAAAGGCUGCAAAUGGUAACAGGGGAGCGGUGAGAGGGGAUAGUUGAAGGUGGCAUUGUGGGUAU
...((..(((((..(((((((((((((.((((((((.(((((((.....)))))))(((.....)))..)))))))).....))))))))....)))))...).))))..)).. ( -34.30)
>DroYak_CAF1 46915 109 + 1
CCAGCAAACGAGAUCCUUUAUUCCUUCAGCUUCUUUUGCCUUUCGUUUCGAAAGGCUGCAAAUGGUUGCAGGAUG-----GAGGGGGGAUAGUUGAAGGUGGCAUUGUAGGUAU
...((..((((...((......(((((((((...(((.(((((((((((....))((((((....))))))))))-----))))).))).))))))))).))..))))..)).. ( -37.50)
>consensus
CCAGCAAACGAGAUCCUUUAUUCCUUCAGCUUCUUUUGCCUUUCGUUUUGAAAGGCUGCAAAUGGUUAAAGGAUG_____GAGAGGGGAUAGUUGAAGGUGGCAUUGUAGGUAU
...((..((((...((......((((((((((((((((((((((.....))))))).((.....)).................)))))).))))))))).))..))))..)).. (-28.40 = -28.56 +   0.16)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:08 2006