Locus 7743

Sequence ID	X_DroMel_CAF1
Location	19,259,388 – 19,259,524
Length	136
Max. P	0.931921

overview

Window 8

Location	19,259,388 – 19,259,494
Length	106
Sequences	4
Columns	112
Reading direction	reverse
Mean pairwise identity	91.74
Mean single sequence MFE	-37.72
Consensus MFE	-29.69
Energy contribution	-30.75
Covariance contribution	1.06
Combinations/Pair	1.03
Mean z-score	-2.85
Structure conservation index	0.79
SVM decision value	1.22
SVM RNA-class probability	0.931921
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19259388 106 - 22224390
GUUCCUUUGUGGGCCGAAAUAUCGGACAAGCACUUGUCACUUUUCACUGCAGUUGGCAACAGCAUCAGCAUCAGCAGC------UGAAACAGGCAACAGACGAAAGGAGCGA
(((((((((((((.(((....)))(((((....)))))....)))))(((.((((....)))).(((((.......))------))).....))).......)))))))).. ( -35.10)
>DroSec_CAF1 46322 106 - 1
GCUCCUUUGUGGGCCGAAAUAUCGGACAAGCACUUGUCACUUUUCACUGCAGUUGGCAACAGCAUCAGCAUCAGCAGC------UGAAACAGGCAACAGACGAAAGGAGCGA
(((((((((((((.(((....)))(((((....)))))....)))))(((.((((....)))).(((((.......))------))).....))).......)))))))).. ( -37.50)
>DroSim_CAF1 47618 106 - 1
GCUCCUUUGUGGGCCGAAAUAUCGGACAAGCACUUGUCACUUUUCACUGCAGUUGGCAACAGCAUCAGCAUCAGCAGC------UGAAACAGGCAACAGACGAAAGGAGCGA
(((((((((((((.(((....)))(((((....)))))....)))))(((.((((....)))).(((((.......))------))).....))).......)))))))).. ( -37.50)
>DroEre_CAF1 43257 104 - 1
GCUCCUUUGUGGGCCGAAAUAUCGGACAAGCACUUGUCACUUUUCACUGCAGUUGGCAACAGCAUCAGCAUCAGCAGCUGCAGCUGA--------ACAGAGGACAGGAGCGG
(((((..(((..(((((....)))).)..)))..((((.((.(((((((((((((.(....((....))....)))))))))).)))--------).))..))))))))).. ( -40.80)
>consensus
GCUCCUUUGUGGGCCGAAAUAUCGGACAAGCACUUGUCACUUUUCACUGCAGUUGGCAACAGCAUCAGCAUCAGCAGC______UGAAACAGGCAACAGACGAAAGGAGCGA
((((((((((..(((((....)))).)..))).(((((...(((((..((.((((....))))....((....)).))......)))))..(....).)))))))))))).. (-29.69 = -30.75 +   1.06)

alignment

secondary structure

dotplot

Window 9

Location	19,259,420 – 19,259,524
Length	104
Sequences	4
Columns	107
Reading direction	reverse
Mean pairwise identity	88.46
Mean single sequence MFE	-26.05
Consensus MFE	-24.04
Energy contribution	-24.10
Covariance contribution	0.06
Combinations/Pair	1.03
Mean z-score	-1.49
Structure conservation index	0.92
SVM decision value	0.48
SVM RNA-class probability	0.752592
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19259420 104 - 22224390
CAUCGCAAU---GCCCAUGCCCAUGCUCAUCCAGUUCCUUUGUGGGCCGAAAUAUCGGACAAGCACUUGUCACUUUUCACUGCAGUUGGCAACAGCAUCAGCAUCAG
....(((..---((((((......(((.....)))......)))))).((((.....(((((....)))))...))))..))).((((....))))........... ( -26.90)
>DroSec_CAF1 46354 92 - 1
---------------CAUGCCCAUGCUCACCCAGCUCCUUUGUGGGCCGAAAUAUCGGACAAGCACUUGUCACUUUUCACUGCAGUUGGCAACAGCAUCAGCAUCAG
---------------.((((..(((((...((((((.(...(((((.(((....)))(((((....)))))....))))).).))))))....)))))..))))... ( -26.00)
>DroSim_CAF1 47650 104 - 1
CAAGCCCAA---GCCCAUGCCCAUGCUCAUCCAGCUCCUUUGUGGGCCGAAAUAUCGGACAAGCACUUGUCACUUUUCACUGCAGUUGGCAACAGCAUCAGCAUCAG
...((....---((((((......(((.....)))......)))))).((((.....(((((....)))))...))))...)).((((....))))........... ( -26.90)
>DroEre_CAF1 43287 98 - 1
---------CAUCACCAUGCCCAUGCCCAUCCAGCUCCUUUGUGGGCCGAAAUAUCGGACAAGCACUUGUCACUUUUCACUGCAGUUGGCAACAGCAUCAGCAUCAG
---------.......((((..((((....((((((.(...(((((.(((....)))(((((....)))))....))))).).)))))).....))))..))))... ( -24.40)
>consensus
____________GCCCAUGCCCAUGCUCAUCCAGCUCCUUUGUGGGCCGAAAUAUCGGACAAGCACUUGUCACUUUUCACUGCAGUUGGCAACAGCAUCAGCAUCAG
................((((..(((((...((((((.(...(((((.(((....)))(((((....)))))....))))).).))))))....)))))..))))... (-24.04 = -24.10 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:32 2006