Locus 4124

Sequence ID 3R_DroMel_CAF1
Location 11,243,453 – 11,243,562
Length 109
Max. P 0.827927
window6609 window6610

overview

Window 9

Location 11,243,453 – 11,243,562
Length 109
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 83.07
Mean single sequence MFE -26.60
Consensus MFE -20.13
Energy contribution -20.02
Covariance contribution -0.11
Combinations/Pair 1.04
Mean z-score -2.27
Structure conservation index 0.76
SVM decision value 0.64
SVM RNA-class probability 0.807796
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11243453 109 + 27905053
C-AC-------A-UUUUGC-UAUCGCUGCUCAUUGCAAUGCCCAUCAAAGCUGGCUGUGAUACGAUUCAAAUGCAGAAAUAUCUUUCUUCAGCCCUUUUUGAUGACAUUGAAAGUAAGA
.-..-------.-((((((-(.((((........))((((..((((((((..((((((((......))).....(((((....))))).)))))..)))))))).)))))).))))))) ( -27.60)
>DroVir_CAF1 2585 108 + 1
U-AC-------UUUUCUGC-UA-CGUUGCCCUUUGCAAUGCCCAUCAAAGCUGGCUGUGAUACGAUUCAAUUGCAGAUAUAUCAUUC-UCAGCCCUUUUUGAUGACAUUGAAAGUAAGA
(-((-------((((....-..-((((((.....))))))..((((((((..(((((.((...(((..............)))..))-.)))))..)))))))).....)))))))... ( -27.94)
>DroGri_CAF1 2726 109 + 1
U-AC------UCUUUUUGC-UA-CAUUGCCCUUUGCAAUGCCCAUCAAAGCUGGCUGUGAUACGAUUCAAUUGCAGAUAUAUCAUUC-UCAGCCCUUUUUGAUGACAUUGAAAGUAAGA
.-..------...((((((-(.-((((((.....))))))..((((((((..(((((.((...(((..............)))..))-.)))))..))))))))........))))))) ( -28.14)
>DroWil_CAF1 2895 110 + 1
GGAA-------A-AA-UGCAAAACGAUGCUCAUUGCAAUGCCCAUCAAAGCUGGCUGUGAUACGCUUCAAAUGCAAAAAUAUCUUUCUUCAGCCCUUUUUGAUGACAUUGAAAGUAAGA
....-------.-..-(((....((((....))))(((((..((((((((..(((((.((((.((.......)).....))))......)))))..)))))))).)))))...)))... ( -23.00)
>DroMoj_CAF1 2613 115 + 1
U-ACUGUUAAUGUUACUGU-UA-CUUCGCCCUUCGCAGUGCCCAUCAAAGCUGGCUGUGAUACAAUUCAAUUACAGAAAUAUCAUUC-UCAGCCCUUUUUGAUGACACUGAAAGUAAGA
.-................(-((-(((.........(((((..((((((((..((((((((((...(((.......))).)))))...-.)))))..)))))))).))))).)))))).. ( -26.40)
>DroAna_CAF1 2700 106 + 1
U-UC-------A-AU-CGG-AAUCUAGGCUUAUUGCAAUGCCCAUCAAAGCUGGCUGUGAUACACUUCAAAUGCAGAAAUAUC--UCUUCAGCCCUUUUUGAUGACAUUGAAAGUAAGA
.-..-------.-..-...-........((((((.(((((..((((((((..(((((.((((...(((.......))).))))--....)))))..)))))))).)))))..)))))). ( -26.50)
>consensus
U_AC_______A_UU_UGC_UA_CGUUGCCCAUUGCAAUGCCCAUCAAAGCUGGCUGUGAUACGAUUCAAAUGCAGAAAUAUCAUUC_UCAGCCCUUUUUGAUGACAUUGAAAGUAAGA
...................................(((((..((((((((..((((((((......)))......((....))......)))))..)))))))).)))))......... (-20.13 = -20.02 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,243,453 – 11,243,562
Length 109
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 83.07
Mean single sequence MFE -29.85
Consensus MFE -22.65
Energy contribution -22.18
Covariance contribution -0.47
Combinations/Pair 1.14
Mean z-score -2.36
Structure conservation index 0.76
SVM decision value 0.70
SVM RNA-class probability 0.827927
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11243453 109 - 27905053
UCUUACUUUCAAUGUCAUCAAAAAGGGCUGAAGAAAGAUAUUUCUGCAUUUGAAUCGUAUCACAGCCAGCUUUGAUGGGCAUUGCAAUGAGCAGCGAUA-GCAAAA-U-------GU-G
.((((.((.(((((((((((((...(((((.(((((....))))).....(((......))))))))...)))))).))))))).))))))..((....-))....-.-------..-. ( -28.00)
>DroVir_CAF1 2585 108 - 1
UCUUACUUUCAAUGUCAUCAAAAAGGGCUGA-GAAUGAUAUAUCUGCAAUUGAAUCGUAUCACAGCCAGCUUUGAUGGGCAUUGCAAAGGGCAACG-UA-GCAGAAAA-------GU-A
(((..(((((((((((((((((...(((((.-(((((((.((........)).))))).)).)))))...)))))).))))))).)))).((....-..-)))))...-------..-. ( -31.00)
>DroGri_CAF1 2726 109 - 1
UCUUACUUUCAAUGUCAUCAAAAAGGGCUGA-GAAUGAUAUAUCUGCAAUUGAAUCGUAUCACAGCCAGCUUUGAUGGGCAUUGCAAAGGGCAAUG-UA-GCAAAAAGA------GU-A
...((((((...((((((((((...(((((.-(((((((.((........)).))))).)).)))))...))))))).(((((((.....))))))-).-)))...)))------))-) ( -32.60)
>DroWil_CAF1 2895 110 - 1
UCUUACUUUCAAUGUCAUCAAAAAGGGCUGAAGAAAGAUAUUUUUGCAUUUGAAGCGUAUCACAGCCAGCUUUGAUGGGCAUUGCAAUGAGCAUCGUUUUGCA-UU-U-------UUCC
.........(((((((((((((...(((((.(((((....)))))((.......))......)))))...)))))).)))))))......(((......))).-..-.-------.... ( -26.20)
>DroMoj_CAF1 2613 115 - 1
UCUUACUUUCAGUGUCAUCAAAAAGGGCUGA-GAAUGAUAUUUCUGUAAUUGAAUUGUAUCACAGCCAGCUUUGAUGGGCACUGCGAAGGGCGAAG-UA-ACAGUAACAUUAACAGU-A
..((((((((((((((((((((...(((((.-...(((((((((.......)))..)))))))))))...)))))).)))))))(....)..))))-))-)................-. ( -31.90)
>DroAna_CAF1 2700 106 - 1
UCUUACUUUCAAUGUCAUCAAAAAGGGCUGAAGA--GAUAUUUCUGCAUUUGAAGUGUAUCACAGCCAGCUUUGAUGGGCAUUGCAAUAAGCCUAGAUU-CCG-AU-U-------GA-A
(((..(((.(((((((((((((...(((((..((--.(((((((.......))))))).)).)))))...)))))).)))))))....)))...)))..-...-..-.-------..-. ( -29.40)
>consensus
UCUUACUUUCAAUGUCAUCAAAAAGGGCUGA_GAAUGAUAUUUCUGCAAUUGAAUCGUAUCACAGCCAGCUUUGAUGGGCAUUGCAAAGAGCAACG_UA_GCA_AA_U_______GU_A
.....(((.(((((((((((((...(((((......((((((((.......)))..))))).)))))...)))))).)))))))....)))............................ (-22.65 = -22.18 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:50 2006