Locus 1221

Sequence ID	2L_DroMel_CAF1
Location	3,260,416 – 3,260,575
Length	159
Max. P	0.985118

overview

Window 1

Location	3,260,416 – 3,260,535
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.65
Mean single sequence MFE	-37.34
Consensus MFE	-28.14
Energy contribution	-29.02
Covariance contribution	0.88
Combinations/Pair	1.04
Mean z-score	-1.87
Structure conservation index	0.75
SVM decision value	0.39
SVM RNA-class probability	0.715703
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3260416 119 + 22407834
UUCGCAGAUA-AGGGGCGCGGCCAGGCCGGAGGGCCGAAAAAGCCGGAAAAGCUGGAAAAGCGUAUUCGGUCGAAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCACAGUCAGU
...(((.(((-...(((.(((((.........))))).....)))......((((...(((((..(((((((....)......))))))..)))))..))))..))).)))......... ( -37.20)
>DroSec_CAF1 87007 119 + 1
UUCGCAGAUA-AGGGGCGCGGCCAGGCCGGAGGGCCGGAAAAGCCGGAAAAGCUGGAAAAGCGUAUUCGGUCGGAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCACAGUCAGU
...(((.(((-...(((....((.((((....))))))....)))......((((...(((((..(((((((....)......))))))..)))))..))))..))).)))......... ( -39.40)
>DroSim_CAF1 90125 119 + 1
UUCGCAGAUA-AGGGGCGCGGCCAGGCCGGAGGGCCGGAAAAGCCGGAAAAGCUGGAAAAGCGUAUUCGGUCGGAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCACAGUCAGU
...(((.(((-...(((....((.((((....))))))....)))......((((...(((((..(((((((....)......))))))..)))))..))))..))).)))......... ( -39.40)
>DroEre_CAF1 83852 111 + 1
UUCCCAGAUA-AGGGGCGUGGCCAGGCC--------GGAAAAGCCGGAAAAGCUGGAAAAGCGUACUCGGUCGGAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCGCAGGCAGU
((((..(((.-.((..(((..((((.((--------((.....)))).....))))....)))..))..)))))))(((..(((((....).))))....(((.....)))...)))... ( -34.90)
>DroYak_CAF1 83267 112 + 1
UUUGCAGAUACAGGGGCGGGGCCUGGGC--------GGAAAAGCCGGAAAAGCUGGAAAAGCGUAUUCGGUCGGAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCGCAGGCAGU
(((((..........)))))(((((.((--------((.....))......((((...(((((..(((((((....)......))))))..)))))..)))).......)).)))))... ( -35.80)
>consensus
UUCGCAGAUA_AGGGGCGCGGCCAGGCCGGAGGGCCGGAAAAGCCGGAAAAGCUGGAAAAGCGUAUUCGGUCGGAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCACAGUCAGU
.............(.(((((((....((((....))))....)))).....((((...(((((..(((((((....)......))))))..)))))..))))......))).)....... (-28.14 = -29.02 +   0.88)

alignment

secondary structure

dotplot

Window 2

Location	3,260,455 – 3,260,575
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.75
Mean single sequence MFE	-36.82
Consensus MFE	-33.44
Energy contribution	-34.04
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.91
Structure conservation index	0.91
SVM decision value	2.00
SVM RNA-class probability	0.985118
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3260455 120 + 22407834
AAGCCGGAAAAGCUGGAAAAGCGUAUUCGGUCGAAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCACAGUCAGUGCGAGUACUUAGUGCCGCCCAUGACUGAAAUUAUGUCCGC
....((((...((((...(((((..(((((((....)......))))))..)))))..))))..........((((((..(((.((((...)))))))...))))))........)))). ( -39.60)
>DroSec_CAF1 87046 120 + 1
AAGCCGGAAAAGCUGGAAAAGCGUAUUCGGUCGGAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCACAGUCAGUGCGAGUACUUAGUGCAGCCCAUGACUGAAAUUAUGUCCGC
....((((...((((...(((((..(((((((....)......))))))..)))))..))))..........((((((..((..((((...)))).))...))))))........)))). ( -36.70)
>DroSim_CAF1 90164 120 + 1
AAGCCGGAAAAGCUGGAAAAGCGUAUUCGGUCGGAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCACAGUCAGUGCGAGUACUUAGUGCAGCCCAUGACUGAAAUUAUGUCCGC
....((((...((((...(((((..(((((((....)......))))))..)))))..))))..........((((((..((..((((...)))).))...))))))........)))). ( -36.70)
>DroEre_CAF1 83883 120 + 1
AAGCCGGAAAAGCUGGAAAAGCGUACUCGGUCGGAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCGCAGGCAGUGCGAGUACUUAGUGCAGCCCAUGACUGAAAUUAUGUCCGC
....((((...((((.(.....((((((((.(....)))....(((....)((((((...(((.....))).))))))..))))))))....).)))).(((((......))))))))). ( -35.00)
>DroYak_CAF1 83299 120 + 1
AAGCCGGAAAAGCUGGAAAAGCGUAUUCGGUCGGAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCGCAGGCAGUGCGAGUACUUAGUGCGGCCCAUGACUGAAAUUAUGUCCGC
....((((...(((.....)))...((((((((...(((..(((((....).))))....(((.(((.(((((.....))))).))).....))))))...))))))))......)))). ( -36.10)
>consensus
AAGCCGGAAAAGCUGGAAAAGCGUAUUCGGUCGGAAGCCAAAAGCCGAAAGUGUUUGACAGCAAUAUAUGCACAGUCAGUGCGAGUACUUAGUGCAGCCCAUGACUGAAAUUAUGUCCGC
....((((...((((...(((((..(((((((....)......))))))..)))))..))))..((((....((((((..((..((((...)))).))...))))))....)))))))). (-33.44 = -34.04 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:02 2006