Locus 3831

Sequence ID	3R_DroMel_CAF1
Location	10,446,650 – 10,446,758
Length	108
Max. P	0.907206

overview

Window 6

Location	10,446,650 – 10,446,758
Length	108
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	81.45
Mean single sequence MFE	-31.43
Consensus MFE	-23.39
Energy contribution	-22.75
Covariance contribution	-0.64
Combinations/Pair	1.29
Mean z-score	-2.45
Structure conservation index	0.74
SVM decision value	1.05
SVM RNA-class probability	0.907206
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10446650 108 + 27905053
UCUUACGACCUCGACGAUCAACUAUCCACUACGAAGCAAAAAGCU-UCAACUGAUUUUUUUGCAGAGCCACAGAUCCGCUGGCUGGUCUGUGGCUUAGUACCGCUUCUA
.....((....))...................(((((.(((((..-((....))..)))))((.((((((((((((.(....).)))))))))))).))...))))).. ( -31.30)
>DroSec_CAF1 11451 104 + 1
UCUUACGACCUCGACGAUCAACUAUCCACUACGAAGCUAAAAGCU-UCAACUGAUUU-GUUGCAGAGCCACAGAUCCGCUGGCUGGUCUGUGGCUUAGUACCGCUU---
.....((....))...................(((((.....)))-)).........-(.(((.((((((((((((.(....).)))))))))))).))).)....--- ( -30.70)
>DroSim_CAF1 11734 104 + 1
UCUUACGACCUCGACGAUCAACUAUCCACUACGAAGCUAAAAGCU-UCAACUGAUUU-GUUGCAGAGCCACAGAUCCACUGGCUGGUCUGUGGCUUAGUACCGCUU---
.....((....))...................(((((.....)))-)).........-(.(((.((((((((((.(((.....))))))))))))).))).)....--- ( -29.80)
>DroEre_CAF1 5029 102 + 1
UCUUACGACC--AACGUUCAACUUUCCACUAGCAAGCGAAAAGCU-UCAGCUGAUUU-GUUGCAGAGCCACAGAGCCGCUGGCUGUUCUGUGGCUUAGUACCGCUU---
...(((....--...................((((.((((.(((.-...)))..)))-))))).((((((((((((.(....).)))))))))))).)))......--- ( -31.40)
>DroYak_CAF1 12090 104 + 1
UCUUACGACAACGCCGAUCAAUUGUCCACUACUAAGCUAAAAGCU-UCAACUGAUUU-CUUCCAGAGCCACAGAGCCGUUGACUGGUCUGUGGCUUAGUACCGCUU---
............((.(((((.(((.........((((.....)))-)))).))))).-......((((((((((.(((.....)))))))))))))......))..--- ( -26.00)
>DroPer_CAF1 4857 105 + 1
ACUUAAUUAUCCAACUAUCAACUAACGACUGCUGAGCAAAAGGCUUUCGAUUGAUUG-GUUGGCAAGUCACAGCCCUGCCCUUGGGGCUGUGACUUAGUACCGCUU---
..........(((((((((((....(((..(((........)))..))).)))).))-))))).(((((((((((((......)))))))))))))..........--- ( -39.40)
>consensus
UCUUACGACCUCGACGAUCAACUAUCCACUACGAAGCUAAAAGCU_UCAACUGAUUU_GUUGCAGAGCCACAGAUCCGCUGGCUGGUCUGUGGCUUAGUACCGCUU___
.................................((((.........((....))......(((.((((((((((((........)))))))))))).)))..))))... (-23.39 = -22.75 +  -0.64)

alignment

secondary structure

dotplot

Window 7

Location	10,446,650 – 10,446,758
Length	108
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	81.45
Mean single sequence MFE	-34.83
Consensus MFE	-20.95
Energy contribution	-21.23
Covariance contribution	0.28
Combinations/Pair	1.27
Mean z-score	-2.26
Structure conservation index	0.60
SVM decision value	0.48
SVM RNA-class probability	0.752846
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10446650 108 - 27905053
UAGAAGCGGUACUAAGCCACAGACCAGCCAGCGGAUCUGUGGCUCUGCAAAAAAAUCAGUUGA-AGCUUUUUGCUUCGUAGUGGAUAGUUGAUCGUCGAGGUCGUAAGA
.....((((.....(((((((((((.......)).))))))))))))).......(((.((((-(((.....)))))).).)))......((((.....))))...... ( -33.60)
>DroSec_CAF1 11451 104 - 1
---AAGCGGUACUAAGCCACAGACCAGCCAGCGGAUCUGUGGCUCUGCAAC-AAAUCAGUUGA-AGCUUUUAGCUUCGUAGUGGAUAGUUGAUCGUCGAGGUCGUAAGA
---..((((.....(((((((((((.......)).)))))))))))))(((-...(((.((((-(((.....)))))).).)))...)))((((.....))))...... ( -33.60)
>DroSim_CAF1 11734 104 - 1
---AAGCGGUACUAAGCCACAGACCAGCCAGUGGAUCUGUGGCUCUGCAAC-AAAUCAGUUGA-AGCUUUUAGCUUCGUAGUGGAUAGUUGAUCGUCGAGGUCGUAAGA
---..((((.....((((((((((((.....))).)))))))))))))(((-...(((.((((-(((.....)))))).).)))...)))((((.....))))...... ( -34.70)
>DroEre_CAF1 5029 102 - 1
---AAGCGGUACUAAGCCACAGAACAGCCAGCGGCUCUGUGGCUCUGCAAC-AAAUCAGCUGA-AGCUUUUCGCUUGCUAGUGGAAAGUUGAACGUU--GGUCGUAAGA
---..((((.....(((((((((...(((...))))))))))))))))...-..((((((...-(((((((((((....)))))))))))....)))--)))....... ( -38.00)
>DroYak_CAF1 12090 104 - 1
---AAGCGGUACUAAGCCACAGACCAGUCAACGGCUCUGUGGCUCUGGAAG-AAAUCAGUUGA-AGCUUUUAGCUUAGUAGUGGACAAUUGAUCGGCGUUGUCGUAAGA
---...((.((((((((((((((((.......)).)))))))).(((((((-...((....))-..))))))).)))))).))((((((........))))))...... ( -33.50)
>DroPer_CAF1 4857 105 - 1
---AAGCGGUACUAAGUCACAGCCCCAAGGGCAGGGCUGUGACUUGCCAAC-CAAUCAAUCGAAAGCCUUUUGCUCAGCAGUCGUUAGUUGAUAGUUGGAUAAUUAAGU
---.........(((((((((((((........)))))))))))))(((((-..(((((((((..((..........))..)))...)))))).))))).......... ( -35.60)
>consensus
___AAGCGGUACUAAGCCACAGACCAGCCAGCGGAUCUGUGGCUCUGCAAC_AAAUCAGUUGA_AGCUUUUAGCUUCGUAGUGGAUAGUUGAUCGUCGAGGUCGUAAGA
.....((((.....(((((((((((.......)).)))))))))))))......((((((((...(((...........)))...))))))))................ (-20.95 = -21.23 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:07 2006