Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I1 R1 521 238.2 12299412 96.0% 11807435 93.0

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
AGACCTATCACTGCAT‑AAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTT‑‑‑‑‑‑‑‑CC‑‑GCATC‑TTATAGCGAT‑‑CAGATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCG  >  NC_000913/4474808‑4474948
                                                                                |                                                                                
AGACCTATCACTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGAC                                                            >  SRR4302532.4100447/1‑94 (MQ=23)
AGACCTATCACTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGAC                                                            >  SRR4302532.4014645/1‑94 (MQ=23)
 GACCTATCACTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACC                                                           >  SRR4302532.1953496/1‑94 (MQ=23)
   CCTATCACTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCAT                                                         >  SRR4302532.426031/1‑94 (MQ=23)
    CTATCACTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATC                                                        >  SRR4302532.3245698/1‑94 (MQ=23)
    CTATCACTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATC                                                        >  SRR4302532.3976516/1‑94 (MQ=23)
     TATCACTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCA                                                       >  SRR4302532.4011337/1‑94 (MQ=23)
      ATCACTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCAC                                                      >  SRR4302532.6137062/1‑94 (MQ=23)
        CACTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCG                                                    >  SRR4302532.6123896/1‑94 (MQ=23)
         actgcaaaAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGGATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACtgt                                                   >  SRR4302532.4496907/9‑91 (MQ=19)
         ACTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGC                                                   >  SRR4302532.3064407/1‑94 (MQ=23)
          CTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGTGTCGCGACCATCACCGCT                                                  >  SRR4302532.5224326/1‑94 (MQ=16)
          CTGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCT                                                  >  SRR4302532.1660139/1‑94 (MQ=25)
           TGCATAAAATAATGTGATGCCGGGATGGGTTGTATTT‑‑‑‑‑‑‑‑CCCGGCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTT                                                 >  SRR4302532.2794607/1‑94 (MQ=25)
           TGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTT                                                 >  SRR4302532.682850/1‑94 (MQ=26)
           TGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTT                                                 >  SRR4302532.5114521/1‑94 (MQ=26)
           TGCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTT                                                 >  SRR4302532.2794608/1‑94 (MQ=26)
            GCATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑AATATTTACTGAGCGTCGCGACCATCACCGCTTT                                                <  SRR4302532.4430193/94‑1 (MQ=19)
             CATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTG                                               >  SRR4302532.1398693/1‑94 (MQ=30)
             CATAAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTG                                               <  SRR4302532.4235256/94‑1 (MQ=30)
              ataAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGA                                              >  SRR4302532.5896239/4‑94 (MQ=33)
              ataAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGA                                              >  SRR4302532.5490290/4‑94 (MQ=33)
              ataAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGA                                              >  SRR4302532.1944579/4‑94 (MQ=33)
               taAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGAT                                             <  SRR4302532.4030567/92‑1 (MQ=34)
               taAAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGAT                                             <  SRR4302532.4030566/92‑1 (MQ=34)
                  AATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGT                                          >  SRR4302532.1677806/1‑94 (MQ=38)
                  AATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGT                                          >  SRR4302532.1497675/1‑94 (MQ=38)
                   ATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTA                                         >  SRR4302532.4814104/1‑94 (MQ=38)
                    TAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTAT                                        <  SRR4302532.3229607/94‑1 (MQ=38)
                    TAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTAT                                        <  SRR4302532.5677428/94‑1 (MQ=38)
                    TAATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTAT                                        <  SRR4302532.6304083/94‑1 (MQ=38)
                     AATGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATG                                       <  SRR4302532.4696822/94‑1 (MQ=40)
                       TGTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCA                                     <  SRR4302532.585247/94‑1 (MQ=44)
                        GTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCAT                                    >  SRR4302532.4656036/1‑94 (MQ=46)
                        GTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCAT                                    <  SRR4302532.2635176/94‑1 (MQ=46)
                        GTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCAT                                    >  SRR4302532.4390147/1‑94 (MQ=46)
                        GTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCAT                                    >  SRR4302532.575249/1‑94 (MQ=46)
                        GTGATGCCGGGATGG‑‑‑‑‑‑TTTGTATTTCCCG‑‑GCATCTTTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGCATGCAT                                    >  SRR4302532.4794177/1‑94 (MQ=36)
                                                                  TTATAGCGATAGCA‑ATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCG  <  SRR4302532.3238073/94‑1 (MQ=60)
                                                                  TTATAGCGATAGCA‑ATTATTTACTGAGCATCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTCCCGCCTGATCAAAAACAATGCTGGCG  <  SRR4302532.5981810/94‑1 (MQ=60)
                                                                                |                                                                                
AGACCTATCACTGCAT‑AAATAATGTGATGCCGGGATGG‑‑‑‑‑‑TTT‑‑‑‑‑‑‑‑CC‑‑GCATC‑TTATAGCGAT‑‑CAGATTATTTACTGAGCGTCGCGACCATCACCGCTTTGATAGTATGCATACGGTTTTCCGCCTGATCAAAAACAATGCTGGCG  >  NC_000913/4474808‑4474948

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑