Locus 4529

Sequence ID	2R_DroMel_CAF1
Location	14,821,669 – 14,821,829
Length	160
Max. P	0.990662

overview

Window 4

Location	14,821,669 – 14,821,789
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.75
Mean single sequence MFE	-30.82
Consensus MFE	-27.24
Energy contribution	-26.88
Covariance contribution	-0.36
Combinations/Pair	1.10
Mean z-score	-1.91
Structure conservation index	0.88
SVM decision value	2.22
SVM RNA-class probability	0.990662
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14821669 120 + 20766785
AAACAUAGUUAACGAACAAAUUUUGCUAACACGACUGGCAAAUGCAGCCAUUGAUAUUUAUGCAAUGGUUGUGACGCAAUCGCGAUCAUCCCGUGCAGUCAAUCUGAAUCUGCCAACUGC
.......((((.((((.....)))).)))).....(((((.((.(((..((((((...((((..((((((((((.....))))))))))..))))..))))))))).)).)))))..... ( -30.10)
>DroSec_CAF1 23598 120 + 1
AAACAUAGUUAACGAACAAAUUUUGCUAACACGACUGGCAAAUGCAGCCAUUGAUAUUUAUGCAAUGGUUGUGACGCAAUCACGAUCAUCCCGUGCAGUCACUCUGAAUCUGCCAACUGC
.......((((.((((.....)))).)))).....(((((...((((((((((.........))))))))))(((.....((((.......))))..)))..........)))))..... ( -29.00)
>DroSim_CAF1 17808 120 + 1
AAACAUAGUUGACGAACAAAUUUUGCUAACACGACUGGCAAAUGCAGCCAUUGAUAUUUAUGCAAUGGUUGUGACGCAAUCACGAUCAUCCCGUGCAGUCACUCUGAAUCUGCCAACUGC
.....((((((..........(((((((.......))))))).((((((((((.........))))))..(((((.....((((.......))))..))))).......)))))))))). ( -30.00)
>DroEre_CAF1 16458 120 + 1
AAAUAUAGUUAACGAACAAAUUUUGCUAACACGACUGGCCAAUGCAGCCAUUGAUAUAUACGCGAUGGUUGUGACGCAAUCGCGAUCAUCUCGUGCAGUCAGUCUAAAUCUGCCAACUGC
.......((((.((((.....)))).))))..((((((((((((....))))).....((((.(((((((((((.....))))))))))).))))..)))))))................ ( -34.70)
>DroYak_CAF1 17643 120 + 1
AAAUAUAGUUAACGAACAAAUUUUGCUAACACGACUGGCCAAUGCAGCCAUUGAUAUAUACGCGAUGGUUGUGACGCAAUCCCGAUCAUCUCGUGCAGUCAGUCUCAAUCUGCCAACUGC
.......((((.((((.....)))).))))..((((((((((((....))))).....((((.((((((((.((.....)).)))))))).))))..)))))))................ ( -30.30)
>consensus
AAACAUAGUUAACGAACAAAUUUUGCUAACACGACUGGCAAAUGCAGCCAUUGAUAUUUAUGCAAUGGUUGUGACGCAAUCACGAUCAUCCCGUGCAGUCACUCUGAAUCUGCCAACUGC
.......((((.((((.....)))).)))).....((((....((((((((((.........))))))))))(((.....((((.......))))..)))...........))))..... (-27.24 = -26.88 +  -0.36)

alignment

secondary structure

dotplot

Window 5

Location	14,821,709 – 14,821,829
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.17
Mean single sequence MFE	-28.80
Consensus MFE	-25.41
Energy contribution	-25.45
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.17
Structure conservation index	0.88
SVM decision value	-0.04
SVM RNA-class probability	0.514379
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14821709 120 + 20766785
AAUGCAGCCAUUGAUAUUUAUGCAAUGGUUGUGACGCAAUCGCGAUCAUCCCGUGCAGUCAAUCUGAAUCUGCCAACUGCACAACACGAGCUCAACAUGACCAAGGCACUCACUAUUCAG
...((((((((((.........))))))))))(((((....))).)).....((((.((((...(((.(((((.....)))......))..)))...))))....))))........... ( -27.60)
>DroSec_CAF1 23638 120 + 1
AAUGCAGCCAUUGAUAUUUAUGCAAUGGUUGUGACGCAAUCACGAUCAUCCCGUGCAGUCACUCUGAAUCUGCCAACUGCACAACACGAGCUCAACAUGACCAAGGCACUCACUAUUCAG
......(((.(((....(((((..((((((((((.....))))))))))...(((((((................))))))).............))))).))))))............. ( -26.89)
>DroSim_CAF1 17848 120 + 1
AAUGCAGCCAUUGAUAUUUAUGCAAUGGUUGUGACGCAAUCACGAUCAUCCCGUGCAGUCACUCUGAAUCUGCCAACUGCACAACACGAGCUCAACAUGACCAAGGCACUCACUAUUCAG
......(((.(((....(((((..((((((((((.....))))))))))...(((((((................))))))).............))))).))))))............. ( -26.89)
>DroEre_CAF1 16498 120 + 1
AAUGCAGCCAUUGAUAUAUACGCGAUGGUUGUGACGCAAUCGCGAUCAUCUCGUGCAGUCAGUCUAAAUCUGCCAACUGCACAACACGAGCUCAACAUGACCAAGGCGCUCACUAUUCAG
...((.(((.(((........(((((((((((((.....)))))))))))..((((((((((.......)))...))))))).......))((.....)).))))))))........... ( -34.60)
>DroYak_CAF1 17683 120 + 1
AAUGCAGCCAUUGAUAUAUACGCGAUGGUUGUGACGCAAUCCCGAUCAUCUCGUGCAGUCAGUCUCAAUCUGCCAACUGCACAACACGAGCUCAACAUGACCAAGGCCCUCACAAUUCAG
......(((.(((........((((((((((.((.....)).))))))))..((((((((((.......)))...))))))).......))((.....)).))))))............. ( -28.00)
>consensus
AAUGCAGCCAUUGAUAUUUAUGCAAUGGUUGUGACGCAAUCACGAUCAUCCCGUGCAGUCACUCUGAAUCUGCCAACUGCACAACACGAGCUCAACAUGACCAAGGCACUCACUAUUCAG
......(((.(((........((.((((((((((.....))))))))))...(((((((................))))))).......))((.....)).))))))............. (-25.41 = -25.45 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:23 2006