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The reads around indels were realigned by GATK RealignerTargetCreator and IndelRealigner package (release 3.2-2 48.
About 92.5% of the unigenes were realigned by more than 10 reads, 56.2% were remapped by more than 100 reads, and almost 10% were realigned by more than 1000 reads.
About 91.0% of the unigenes were realigned by more than 10 reads and 45.4% were remapped by more than 100 reads.
Default settings were used, except in HHpred, which was set to eight iterations, and where query-template alignments were realigned by a Maximum Accuracy algorithm.
Sequencing reads were realigned to the unigenes using Trinity [ 35], allowing up to 2 bp mismatches: about 58.82, 18.16 or 2.01% of the unigenes were realigned by more than 10, 100 or 1000 reads, respectively (Additional file 1: Figure S1).
About 86.73% of the unigenes were realigned by more than 10 reads, 31.60% were supported by more than 100 reads, and 7.73% were supported by more than 1,000 reads (Additional file 1).
Similar(53)
Palin was elected governor just as Alaska's political establishment was being realigned by the Veco bribery scandal.
Then, the extracted features are realigned by cycle-shifting all the features around the PO.
To prevent the ray and arm making contact, the ray was realigned by several degrees.
It was realigned by 1926 to continue north from Whitehall toward the Canadian border.
It was realigned by 1954 to follow only NY 5 through downtown.
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