Locus 5798

Sequence ID 2L_DroMel_CAF1
Location 16,437,657 – 16,437,754
Length 97
Max. P 0.765488
window9196 window9197

overview

Window 6

Location 16,437,657 – 16,437,754
Length 97
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 76.94
Mean single sequence MFE -25.47
Consensus MFE -13.20
Energy contribution -13.53
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.95
Structure conservation index 0.52
SVM decision value 0.51
SVM RNA-class probability 0.765488
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16437657 97 + 22407834
CAGGCCAAUAAGCAAGUCAGUUAGCUGCAACUGGUAACUCGAGCCCAC--AAAAAGGGAA-ACGUCAGG-CUGGUAAGGGGGA---AGAAGUUGGCCAAAUCGA
..(((((((..(((.((......))))).((..((....((..(((..--.....)))..-.))....)-)..))........---....)))))))....... ( -26.80)
>DroSec_CAF1 62065 98 + 1
CAGGCCAAUAAGCAAGUCAGUUAGCUGCAACUGGUAACUCGAGCCCAC--AAAAAGGGAA-ACGUCAGGGAAGGGAAGGGGGA---AGAAGUUGGCCAAAUCGA
..(((((((.......((((((......))))))...(((...(((.(--....(.(...-.).)...)...)))..)))...---....)))))))....... ( -25.00)
>DroSim_CAF1 62413 98 + 1
CAGGCCAAUAAGCAAGUCAGUUAGCUGCAACUGGUAACUCGAGCCCAC--AAAAAGGGAA-ACGUCGGGGAAGGGAAGGGGGA---AGAAGUUGGCCAAAUCGA
..(((((((.......((((((......))))))...(((((.(((..--.....)))..-...)))))..............---....)))))))....... ( -25.00)
>DroEre_CAF1 59783 80 + 1
CAGGCCAAUAAGCCAGUCAGUAAGCUGCAACUGGUAACUUGAGCCCACACAAAAGGGAA--ACAGCAGG----------------------CUGGCCAAUUCGA
..(((((....(((((((((....)))..))))))..((((..(((........)))..--....))))----------------------.)))))....... ( -26.10)
>DroYak_CAF1 63294 79 + 1
CAGGCCAAUAAGCCAGUCAGUUAGCUGCAACUGGUAACUCGAGCCCAC--AAAAGGGAAC-ACAUCAGG----------------------CUGGCCAAAUCGA
..(((((....(((((((((....)))..)))))).....(..(((..--....)))..)-........----------------------.)))))....... ( -24.60)
>DroAna_CAF1 56450 101 + 1
CGGGCCAAUAAGC-ACUCAGUUAGCUGCAACUGGUAACUUGAACCCUG--AAAUGGGAAAAAUACCAGGAACCAGAAGGGGGGCGAAUAUCUUGGCAAAAUCGA
...(((((...((-.(((......(((...((((((..((...(((..--....))).))..))))))....)))....))))).......)))))........ ( -25.30)
>consensus
CAGGCCAAUAAGCAAGUCAGUUAGCUGCAACUGGUAACUCGAGCCCAC__AAAAAGGAAA_ACAUCAGG_A_GGGAAGGGGGA___AGAAGUUGGCCAAAUCGA
..(((((.........(((((((.(.......).))))).)).((..........))...................................)))))....... (-13.20 = -13.53 +   0.33)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,437,657 – 16,437,754
Length 97
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 76.94
Mean single sequence MFE -22.14
Consensus MFE -17.48
Energy contribution -17.12
Covariance contribution -0.36
Combinations/Pair 1.16
Mean z-score -0.87
Structure conservation index 0.79
SVM decision value 0.25
SVM RNA-class probability 0.651747
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16437657 97 - 22407834
UCGAUUUGGCCAACUUCU---UCCCCCUUACCAG-CCUGACGU-UUCCCUUUUU--GUGGGCUCGAGUUACCAGUUGCAGCUAACUGACUUGCUUAUUGGCCUG
.......((((((.....---...........((-(((.(((.-.........)--)))))))(((((...((((((....)))))))))))....)))))).. ( -22.80)
>DroSec_CAF1 62065 98 - 1
UCGAUUUGGCCAACUUCU---UCCCCCUUCCCUUCCCUGACGU-UUCCCUUUUU--GUGGGCUCGAGUUACCAGUUGCAGCUAACUGACUUGCUUAUUGGCCUG
.......((((((.....---......................-..(((.....--..)))..(((((...((((((....)))))))))))....)))))).. ( -19.80)
>DroSim_CAF1 62413 98 - 1
UCGAUUUGGCCAACUUCU---UCCCCCUUCCCUUCCCCGACGU-UUCCCUUUUU--GUGGGCUCGAGUUACCAGUUGCAGCUAACUGACUUGCUUAUUGGCCUG
.......((((((.....---..............(((.(((.-.........)--)))))..(((((...((((((....)))))))))))....)))))).. ( -20.40)
>DroEre_CAF1 59783 80 - 1
UCGAAUUGGCCAG----------------------CCUGCUGU--UUCCCUUUUGUGUGGGCUCAAGUUACCAGUUGCAGCUUACUGACUGGCUUAUUGGCCUG
.......((((((----------------------((..(...--...........)..)))........(((((..(((....)))))))).....))))).. ( -23.84)
>DroYak_CAF1 63294 79 - 1
UCGAUUUGGCCAG----------------------CCUGAUGU-GUUCCCUUUU--GUGGGCUCGAGUUACCAGUUGCAGCUAACUGACUGGCUUAUUGGCCUG
.......((((((----------------------((((((.(-(..(((....--..)))..)).)))).((((((....))))))...)))....))))).. ( -23.20)
>DroAna_CAF1 56450 101 - 1
UCGAUUUUGCCAAGAUAUUCGCCCCCCUUCUGGUUCCUGGUAUUUUUCCCAUUU--CAGGGUUCAAGUUACCAGUUGCAGCUAACUGAGU-GCUUAUUGGCCCG
........(((((..(((((............((..((((((.(((.(((....--..)))...))).))))))..))((....))))))-)....)))))... ( -22.80)
>consensus
UCGAUUUGGCCAACUUCU___UCCCCCUUCCC_U_CCUGACGU_UUCCCCUUUU__GUGGGCUCGAGUUACCAGUUGCAGCUAACUGACUUGCUUAUUGGCCUG
.......((((((..................................(((........)))...((((...((((((....))))))....)))).)))))).. (-17.48 = -17.12 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:12 2006