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
A3 F50 I2 R1 193 39.9 1341687 91.8% 1231668 149.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,110,993 T→C L9L (TTA→TTG)  rfbA ← glucose‑1‑phosphate thymidylyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,110,9930TC100.0% 96.0 / NA 27L9L (TTA→TTG) rfbAglucose‑1‑phosphate thymidylyltransferase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (12/15);  total (12/15)

GAGGTGTACTGATAATCAAAATATCGCGAATACCCGCCAACATCAGTGTAGAGAGCGGGTAATAGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCTAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTAAATTGCTGTAGTCGTAAATAATTCATTGAGCATTCGTTTCACGCCAACCTGCCAGTCAGGC  >  NC_000913/2110845‑2111140
                                                                                                                                                    |                                                                                                                                                   
gAGGTGTACTGATAATCAAAATATCGCGAATACCCGCCAACATCAGTGTAGAGAGCGGGTAATAGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCaa                                                                                                                                                   <  1:272663/151‑1 (MQ=255)
                      atCGCGAATACCCGCCAACATCAGTGTAGAGAGCGGGTAATAGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATtttc                                                                                                                             <  2:296136/151‑1 (MQ=255)
                                  cGCCAACATCAGTGTAGAGAGCGGGTAATAGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTc                                                                                                                 >  2:537966/1‑151 (MQ=255)
                                   gCCAACATCAGTGTAGAGAGCGGGTAATAGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTcc                                                                                                                >  1:45685/1‑151 (MQ=255)
                                        cATCAGTGTAGAGAGCGGGTAATAGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCtttt                                                                                                            >  1:502258/1‑150 (MQ=255)
                                        cATCAGTGTAGAGAGCGGGTAATAGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTa                                                                                                           <  1:282097/151‑1 (MQ=255)
                                              tgtAGAGAGCGGGTAATAGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCa                                                                                                      <  1:476931/150‑1 (MQ=255)
                                                    gagCGGGTAATAGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCt                                                                                               >  2:516537/1‑151 (MQ=255)
                                                        gggTAATAGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTccac                                                                                           <  2:245813/151‑1 (MQ=255)
                                                               aGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCAc                                                                                     <  2:363354/150‑1 (MQ=255)
                                                                gATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACg                                                                                    >  2:179920/1‑150 (MQ=255)
                                                                      cGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGa                                                                             <  1:551363/151‑1 (MQ=255)
                                                                            aTCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCaa                                                                        >  1:445884/1‑150 (MQ=255)
                                                                                 aaaTAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTa                                                                  <  2:237978/151‑1 (MQ=255)
                                                                                  aaTAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTAt                                                                 >  2:273128/1‑151 (MQ=255)
                                                                                   aTAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTAtt                                                                >  1:648129/1‑151 (MQ=255)
                                                                                     aGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTa                                                               >  1:597412/1‑150 (MQ=255)
                                                                                         aaTAGCTGTTTACTGACAGCCATATTCACAGGATAAAGACGTTTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTAAAt                                                            <  1:7549/149‑1 (MQ=255)
                                                                                         aaTAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTAAATTg                                                          <  1:548975/151‑1 (MQ=255)
                                                                                                 tttACTGACAGCCATAGTCACAGTATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTAAATTGCTGTAGt                                                   <  1:258891/150‑1 (MQ=255)
                                                                                                  ttACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTAAATTGCTGTAGTc                                                  <  1:506292/150‑1 (MQ=255)
                                                                                                          atccATAGTCACAGGATAAAGACGTGTACCCGAACCACCCGCCCAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTAAATTGCTGTAGTCGTAaataat                                         >  2:504989/3‑151 (MQ=255)
                                                                                                                    acaGGATAAAGACGTGTACCAGAACCACCCGCCAAAATAATGCCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTAAATTGCTGTAGTCGTAAATAATTCATTGAGc                                <  1:297134/150‑1 (MQ=255)
                                                                                                                      aGGATAAATGCTTGTACCAGCTCAACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCTCCATCACGAACAAGATGCAAAACCTATTAAATTGCTGTAGTCGTAAATAATTCATTGAg                                 <  1:285028/147‑1 (MQ=255)
                                                                                                                                   gtACCAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTAAATTGCTGTAGTCGTAAATAATTCATTGAGCATTCGTTTCACGCCa                 >  1:13867/1‑150 (MQ=255)
                                                                                                                                      ccAGAACCACCCGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTAAATCGCTGTAGTCGTAAATAATTCATTGAGCATTCGTTTCACGCCAACCt             <  1:537345/151‑1 (MQ=255)
                                                                                                                                                 cGCCAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTAAATTGCTGTAGTCGTAAATAATTCATTGAGCATTCGTTTCACGCCAACCTGCCAGTCAGGc  >  2:517518/1‑151 (MQ=255)
                                                                                                                                                    |                                                                                                                                                   
GAGGTGTACTGATAATCAAAATATCGCGAATACCCGCCAACATCAGTGTAGAGAGCGGGTAATAGATCATCGGTTTATCATAAATAGGTAATAGCTGTTTACTGACAGCCATAGTCACAGGATAAAGACGTGTACCAGAACCACCCGCTAAAATAATACCTTTACGCATTTTCATTTCATCATTCCTTTTAATTCATCTTGCTCCACCATCACGAACAAGATGCAAAAACTATTAAATTGCTGTAGTCGTAAATAATTCATTGAGCATTCGTTTCACGCCAACCTGCCAGTCAGGC  >  NC_000913/2110845‑2111140

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A