Locus 4417

Sequence ID 2R_DroMel_CAF1
Location 14,522,427 – 14,522,582
Length 155
Max. P 0.730944
window7061 window7062

overview

Window 1

Location 14,522,427 – 14,522,542
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.11
Mean single sequence MFE -33.75
Consensus MFE -26.28
Energy contribution -26.33
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -1.70
Structure conservation index 0.78
SVM decision value 0.10
SVM RNA-class probability 0.583210
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14522427 115 + 20766785
UGUUCUU-----ACUUUUCGCUUGCAGAUACAAUCAUCGCAUACAAGUGCUCGAUCCGCAAGGACGAUUCCUGCGCGCCUUCGGUUCGCAGGGCACCGCAGAUGGCAAAUUCAAUUAUCC
.......-----.......((((((.(((......)))........(((((((.(((....))))))..((((((.(((...))).)))))))))).)))...))).............. ( -34.20)
>DroVir_CAF1 198307 115 + 1
UCAAC-----UGUCUACUAUGUUGCAGAUACAAUCAUCGCAUACAAGUGCUCGAUCCACAAGGACGGUUCCUGCGCGCCUUCGGCUCGCAGGGCAUCGCAGAUGGCAAAUUCAAUUAUCC
....(-----((((((((.((((((.(((......)))))).))))))((..(.(((....))))((((((((((.(((...))).))))))).)))))))))))............... ( -32.40)
>DroGri_CAF1 176675 116 + 1
UCAA-AU---UGUCUACUAUGUUGCAGAUAUAAUCAUCGCAUACAAGUGCUCGAUCCACAAGGACGCUUCCUACGUGCCUUCGGUUCGCAGGGCAUCGCGGAUGGCAAAUUCAAUUAUCC
....-.(---((((((((.((((((.(((......)))))).)))))))....((((.(.((((....))))..(((((((((...)).))))))).).)))))))))............ ( -26.80)
>DroWil_CAF1 234637 120 + 1
UGUUAUUUGCUCUCUGUUUCUUACCAGAUACAAUCAUCGCAUACAAGUGCUUGAUCCGCAAGGACGUUUCCUGCGCGCCUUCGGUUCGCAGGGCACCGCAGAUGGCAAAUUCAAUUAUCC
((((((((((..((((........))))..................((((....(((....))).....((((((.(((...))).)))))))))).))))))))))............. ( -38.60)
>DroMoj_CAF1 246426 117 + 1
UCACCUU---UGUUUGCCACAUUGCAGAUACAAUCAUCGCAUUCAGGUGCUCGAUCCGCAAGGACGUUUCCUGCGCGCCUUCGGUUCGCAGGGCAUCGCAGAUGGCAAAUUCAAUUAUCC
.......---.((((((((..((((.(((......))).......(((((.((.(((....)))))...((((((.(((...))).))))))))))))))).)))))))).......... ( -41.50)
>DroPer_CAF1 153633 113 + 1
--UUACU-----ACUCUUUACUUCCAGAUAUAAUCACCGCAUACAAGUGCUCGAUCCGCAAGGACGGUUCCUGCGCGCAUUUGGUUCGCAGGGGACCGCAGAUGGCAAAUUCAAUUAUCC
--.....-----...........(((............((((....))))((..(((....)))(((((((((((.((.....)).)))).)))))))..)))))............... ( -29.00)
>consensus
UCAUCUU___UGUCUACUACCUUGCAGAUACAAUCAUCGCAUACAAGUGCUCGAUCCGCAAGGACGGUUCCUGCGCGCCUUCGGUUCGCAGGGCACCGCAGAUGGCAAAUUCAAUUAUCC
..........................((.....(((((((((....)))).((.(((....)))))..(((((((.((.....)).))))))).......))))).....))........ (-26.28 = -26.33 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,522,462 – 14,522,582
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.06
Mean single sequence MFE -39.14
Consensus MFE -36.88
Energy contribution -36.66
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -1.00
Structure conservation index 0.94
SVM decision value 0.42
SVM RNA-class probability 0.730944
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14522462 120 - 20766785
CACGUAAAUGAAGCCGAGUGCAUCGGUUGUUACGCCCCAAGGAUAAUUGAAUUUGCCAUCUGCGGUGCCCUGCGAACCGAAGGCGCGCAGGAAUCGUCCUUGCGGAUCGAGCACUUGUAU
..............(((((((.(((((.......((.((((((..(((......(((......)))..((((((..((...))..)))))))))..)))))).))))))))))))))... ( -40.71)
>DroVir_CAF1 198342 120 - 1
AACGUAAAUGAAGCCGAGUGCAUCGGUUGUUACGCCCCAAGGAUAAUUGAAUUUGCCAUCUGCGAUGCCCUGCGAGCCGAAGGCGCGCAGGAACCGUCCUUGUGGAUCGAGCACUUGUAU
..............(((((((.(((((.......((.(((((((........((((.....))))...((((((.(((...))).))))))....))))))).))))))))))))))... ( -42.61)
>DroPse_CAF1 151459 120 - 1
CACGUAAAUGAAGCCGAGUGCAUCGGUUGUUACUCCCCAAGGAUAAUUGAAUUUGCCAUCUGCGGUCCCCUGCGAACCAAAUGCGCGCAGGAACCGUCCUUGCGGAUCGAGCACUUGUAU
..............(((((((.((((.......(((.(((((((..........((.....))(((..((((((..(.....)..)))))).)))))))))).))))))))))))))... ( -39.61)
>DroGri_CAF1 176711 120 - 1
AACGUAAAUGAAGCCGAGUGCAUCGGUUGUUACGCCCCAAGGAUAAUUGAAUUUGCCAUCCGCGAUGCCCUGCGAACCGAAGGCACGUAGGAAGCGUCCUUGUGGAUCGAGCACUUGUAU
..(((((....((((((.....)))))).)))))...(((((((......)))(((((((((((((((((((((..((...))..))))))..)))))...)))))).).)))))))... ( -37.10)
>DroMoj_CAF1 246463 120 - 1
UACGUAAAUGAAGCCGAGUGCAUCGGUUGUAACGCCCCAAGGAUAAUUGAAUUUGCCAUCUGCGAUGCCCUGCGAACCGAAGGCGCGCAGGAAACGUCCUUGCGGAUCGAGCACCUGAAU
..............((.((((.(((((.......((.(((((((........((((.....))))...((((((..((...))..))))))....))))))).))))))))))).))... ( -35.21)
>DroPer_CAF1 153666 120 - 1
CACGUAAAUGAAGCCGAGUGCAUCGGUUGUUACUCCCCAAGGAUAAUUGAAUUUGCCAUCUGCGGUCCCCUGCGAACCAAAUGCGCGCAGGAACCGUCCUUGCGGAUCGAGCACUUGUAU
..............(((((((.((((.......(((.(((((((..........((.....))(((..((((((..(.....)..)))))).)))))))))).))))))))))))))... ( -39.61)
>consensus
CACGUAAAUGAAGCCGAGUGCAUCGGUUGUUACGCCCCAAGGAUAAUUGAAUUUGCCAUCUGCGAUGCCCUGCGAACCGAAGGCGCGCAGGAACCGUCCUUGCGGAUCGAGCACUUGUAU
..............(((((((.(((((.......((.(((((((........((((.....))))...((((((...(....)..))))))....))))))).))))))))))))))... (-36.88 = -36.66 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:08 2006