Locus 5156

Sequence ID	2R_DroMel_CAF1
Location	16,780,301 – 16,780,400
Length	99
Max. P	0.929369

overview

Window 4

Location	16,780,301 – 16,780,400
Length	99
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	83.21
Mean single sequence MFE	-24.82
Consensus MFE	-18.19
Energy contribution	-19.02
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-3.58
Structure conservation index	0.73
SVM decision value	1.20
SVM RNA-class probability	0.929369
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16780301 99 + 20766785
UGUUUUUUUCCU---------CCCUUUAUAUUCUACAUUUGUGUCACGUUAUUGUUACACAUACGCACUGUGUG-CCAUCGCAACCCACUUACAGUGCGAUUCGGAACU
.......((((.---------..................(((((.(((....))).)))))..(((((((((((-(....))).......)))))))))....)))).. ( -24.31)
>DroPse_CAF1 86783 107 + 1
--UGUUUUUCCUUUUUGCAUGCCUUUUGUAUUCUAUAUUUGUGUCACGUUGUUGUUACACAUACGCACUGUGGCAGGAUAGCGCUCUAUCUACAGGGCCUAACGAAAGU
--....................(((((((.........((.(((((((.(((.((.......))))).))))))).))(((.(((((......))))))))))))))). ( -24.50)
>DroSec_CAF1 92325 97 + 1
--UUUUUUUCCU---------CCCUUUAUAUUCUACAUUUGUGUCACGUUAUUGUUACACAUACGCACUGUGUG-CCAUCGCAACCCACUUACAGUGCGACUCGGAACU
--.....((((.---------..................(((((.(((....))).)))))..(((((((((((-(....))).......)))))))))....)))).. ( -24.31)
>DroSim_CAF1 91256 97 + 1
--UUUUUUUCCU---------CCCUAUAUAUUCUACAUUUGUGUCACGUUAUUGUUACACAUACGCACUGUGUG-CCAUCGCAACCCACUUACAGUGCGUCUCAAAACU
--..........---------..................(((((.(((....))).))))).((((((((((((-(....))).......))))))))))......... ( -21.01)
>DroEre_CAF1 90159 95 + 1
--U-UUUUUCCU---------UCCUUUAUAUUCUACAUUUGUGUCACGUUAUUGUUACACAUACGCACUGUGGG-CCAUCCCAACCA-CUUACAGUGCGACGCGGAACU
--.-...((((.---------..................(((((.(((....))).)))))..(((((((((((-............-)))))))))))....)))).. ( -26.10)
>DroYak_CAF1 96464 95 + 1
--U-UUUUUCCU---------CCCUUUAUGUUCGACAUUUGUGUCACGUUAUUGUUACACAUACGCACUGUGUG-CCAUCUCAACCC-ACUACAGUGCGAGUCGGAACU
--.-........---------.........((((((...(((((.(((....))).)))))..(((((((((((-...........)-)).)))))))).))))))... ( -28.70)
>consensus
__UUUUUUUCCU_________CCCUUUAUAUUCUACAUUUGUGUCACGUUAUUGUUACACAUACGCACUGUGUG_CCAUCGCAACCCACUUACAGUGCGACUCGGAACU
.......((((............................(((((.(((....))).)))))..(((((((((..................)))))))))....)))).. (-18.19 = -19.02 +   0.83)

alignment

secondary structure

dotplot

Window 5

Location	16,780,301 – 16,780,400
Length	99
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	83.21
Mean single sequence MFE	-23.72
Consensus MFE	-17.84
Energy contribution	-17.82
Covariance contribution	-0.03
Combinations/Pair	1.11
Mean z-score	-2.00
Structure conservation index	0.75
SVM decision value	0.41
SVM RNA-class probability	0.726820
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16780301 99 - 20766785
AGUUCCGAAUCGCACUGUAAGUGGGUUGCGAUGG-CACACAGUGCGUAUGUGUAACAAUAACGUGACACAAAUGUAGAAUAUAAAGGG---------AGGAAAAAAACA
..((((....((((((((..((.(.......).)-)..))))))))..(((((.((......)).)))))..................---------.))))....... ( -23.30)
>DroPse_CAF1 86783 107 - 1
ACUUUCGUUAGGCCCUGUAGAUAGAGCGCUAUCCUGCCACAGUGCGUAUGUGUAACAACAACGUGACACAAAUAUAGAAUACAAAAGGCAUGCAAAAAGGAAAAACA--
.((((.((...(((.((((......(((((..........)))))...(((((.((......)).))))).........))))...)))..))..))))........-- ( -19.70)
>DroSec_CAF1 92325 97 - 1
AGUUCCGAGUCGCACUGUAAGUGGGUUGCGAUGG-CACACAGUGCGUAUGUGUAACAAUAACGUGACACAAAUGUAGAAUAUAAAGGG---------AGGAAAAAAA--
..((((....((((((((..((.(.......).)-)..))))))))..(((((.((......)).)))))..................---------.)))).....-- ( -23.30)
>DroSim_CAF1 91256 97 - 1
AGUUUUGAGACGCACUGUAAGUGGGUUGCGAUGG-CACACAGUGCGUAUGUGUAACAAUAACGUGACACAAAUGUAGAAUAUAUAGGG---------AGGAAAAAAA--
.((((((..(((((((((..((.(.......).)-)..))))))))).(((((.((......)).)))))....))))))........---------..........-- ( -22.60)
>DroEre_CAF1 90159 95 - 1
AGUUCCGCGUCGCACUGUAAG-UGGUUGGGAUGG-CCCACAGUGCGUAUGUGUAACAAUAACGUGACACAAAUGUAGAAUAUAAAGGA---------AGGAAAAA-A--
.((((..(((((((((((..(-.((((.....))-)))))))))))..(((((.((......)).))))).)))..))))........---------........-.-- ( -25.80)
>DroYak_CAF1 96464 95 - 1
AGUUCCGACUCGCACUGUAGU-GGGUUGAGAUGG-CACACAGUGCGUAUGUGUAACAAUAACGUGACACAAAUGUCGAACAUAAAGGG---------AGGAAAAA-A--
.((((.(((.((((((((.((-(...........-)))))))))))..(((((.((......)).)))))...)))))))........---------........-.-- ( -27.60)
>consensus
AGUUCCGAGUCGCACUGUAAGUGGGUUGCGAUGG_CACACAGUGCGUAUGUGUAACAAUAACGUGACACAAAUGUAGAAUAUAAAGGG_________AGGAAAAAAA__
..((((....((((((((....................))))))))..(((((.((......)).)))))............................))))....... (-17.84 = -17.82 +  -0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:57 2006