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
A5 F1 I2 R1 772 77.0 3769570 91.6% 3452926 105.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,441,436 T→C N103S (AAC→AGC)  hslJ ← heat‑inducible lipoprotein involved in novobiocin resistance

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,441,4360TC100.0% 236.1 / NA 66N103S (AAC→AGC) hslJheat‑inducible lipoprotein involved in novobiocin resistance
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (32/34);  total (32/34)

GGGAGCTGTGGCAGCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGTTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCGGAAATCATC  >  NC_000913/1441304‑1441564
                                                                                                                                    |                                                                                                                                
gggAGCTGTGGCAGCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGa                                                                                                                            >  2:359428/1‑139 (MQ=255)
gggAGCTGTGGCAGCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGa                                                                                                                            <  1:1594139/139‑1 (MQ=255)
             gCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTg                                                                                                               <  2:354715/139‑1 (MQ=255)
               tATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCg                                                                                                             >  1:1871082/1‑139 (MQ=255)
                  tAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGt                                                                                                          <  2:702450/139‑1 (MQ=255)
                      tCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAgc                                                                                                      <  1:1624054/139‑1 (MQ=255)
                         ttAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                                   >  2:1525658/1‑139 (MQ=255)
                           aaaTCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGcaca                                                                                                 <  1:1178075/139‑1 (MQ=255)
                             aTCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCAcatc                                                                                               >  1:881329/1‑139 (MQ=255)
                                                aaTGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGcc                                                                            >  2:270974/1‑139 (MQ=255)
                                                  tGTCTGTTTTGTGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCt                                                                          >  2:685307/1‑139 (MQ=255)
                                                      tGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAgcg                                                                                                     <  2:452681/108‑1 (MQ=255)
                                                      tGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAgcg                                                                                                     >  1:452681/1‑108 (MQ=255)
                                                      tGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTgg                                                                      >  2:227324/1‑139 (MQ=255)
                                                        ttttGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGtt                                                                                                         >  2:427882/1‑102 (MQ=255)
                                                        ttttGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGtt                                                                                                         <  1:427882/102‑1 (MQ=255)
                                                        ttttGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                                   >  1:722461/1‑108 (MQ=255)
                                                        ttttGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGca                                                                                                   <  2:722461/108‑1 (MQ=255)
                                                               gTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  2:1871082/139‑1 (MQ=255)
                                                               gTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  1:685307/139‑1 (MQ=255)
                                                               gTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  2:594669/139‑1 (MQ=255)
                                                                tCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGt                                                                                                          <  2:158453/93‑1 (MQ=255)
                                                                tCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGt                                                                                                          >  1:158453/1‑93 (MQ=255)
                                                                     aGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAgcg                                                                                                     <  1:1238286/93‑1 (MQ=255)
                                                                     aGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAgcg                                                                                                     >  2:1238286/1‑93 (MQ=255)
                                                                                 ttCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGa                                                                                                                            <  1:247009/58‑1 (MQ=255)
                                                                                 ttCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGa                                                                                                                            >  2:247009/1‑58 (MQ=255)
                                                                                    gcgGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCtt                                        <  2:881329/139‑1 (MQ=255)
                                                                                    gcgGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCtt                                        <  2:1413649/139‑1 (MQ=255)
                                                                                       gTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCAc                                     <  1:1525658/139‑1 (MQ=255)
                                                                                              ccACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTaaa                              <  1:227324/139‑1 (MQ=255)
                                                                                               cACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             <  1:359428/139‑1 (MQ=255)
                                                                                                    gtgCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCtt                                        >  1:1308130/1‑123 (MQ=255)
                                                                                                    gtgCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCtt                                        <  2:1308130/123‑1 (MQ=255)
                                                                                                    gtgCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGtt                        >  2:495894/1‑139 (MQ=255)
                                                                                                      gCATCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCGCCGCTaa                               >  2:1278251/1‑130 (MQ=255)
                                                                                                      gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGcc                                                                                >  1:1676448/1‑81 (MQ=255)
                                                                                                      gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGcc                                                                                <  2:1676448/81‑1 (MQ=255)
                                                                                                      gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             >  2:420218/1‑100 (MQ=255)
                                                                                                      gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  1:420218/100‑1 (MQ=255)
                                                                                                      gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTaa                               <  1:1278251/130‑1 (MQ=255)
                                                                                                      gCACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTac                      >  1:968532/1‑139 (MQ=255)
                                                                                                       cACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             >  2:1277039/1‑131 (MQ=255)
                                                                                                       cACCTTCTTTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             <  1:1277039/131‑1 (MQ=255)
                                                                                                          cttcttTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             >  2:386482/1‑128 (MQ=255)
                                                                                                          cttcttTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             <  1:386482/128‑1 (MQ=255)
                                                                                                            tcttTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACAtgc                >  1:147963/1‑139 (MQ=255)
                                                                                                            tcttTCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACAtgc                >  2:394263/1‑139 (MQ=255)
                                                                                                               ttCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGt                                               >  1:385602/1‑105 (MQ=255)
                                                                                                               ttCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGt                                               <  2:385602/105‑1 (MQ=255)
                                                                                                               ttCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACAtg                 <  2:1206445/135‑1 (MQ=255)
                                                                                                               ttCAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACAtg                 >  1:1206445/1‑135 (MQ=255)
                                                                                                                 cAGCATTTCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCg           >  1:830995/1‑139 (MQ=255)
                                                                                                                    cATTTCGCTAATGGTGCGATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             >  1:1077020/1‑86 (MQ=255)
                                                                                                                    cATTTCGCTAATGGTGCCATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  2:1077020/86‑1 (MQ=255)
                                                                                                                      tttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAg                                                >  1:1405375/1‑97 (MQ=255)
                                                                                                                      tttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAg                                                <  2:1405375/97‑1 (MQ=255)
                                                                                                                       ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             <  2:884403/83‑1 (MQ=255)
                                                                                                                       ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGtt                                                             >  1:884403/1‑83 (MQ=255)
                                                                                                                       ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             <  2:549348/115‑1 (MQ=255)
                                                                                                                       ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAg                             >  1:549348/1‑115 (MQ=255)
                                                                                                                       ttCGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCGGAAatc     >  1:1053896/1‑139 (MQ=255)
                                                                                                                         cGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATAc                                                                                           >  2:1055721/1‑51 (MQ=255)
                                                                                                                         cGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATAc                                                                                           <  1:1055721/51‑1 (MQ=255)
                                                                                                                         cGCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCGGAAatcat   <  1:270974/139‑1 (MQ=255)
                                                                                                                          gCTAATGGTGCTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCGGAAatcatc  <  1:495894/139‑1 (MQ=255)
                                                                                                                                    |                                                                                                                                
GGGAGCTGTGGCAGCTATTAATTCATTAAATCCGCCAGCTTATAAGTTAATGTCTGTTTTGCGGTCGCCAGCGTTAACTGGTTCGCGGTCAGATCCACTTGTGCACCTTCTTTCAGCATTTCGCTAATGGTGTTATCGAGTTCATTAAGCTGCGGGTTAGCGCACATCATACGGGTCATTGCCAGCCCTTTGGCTGTCAGTTCACCATTAGACAGTTTGCCTTCACCGCTAAAGCGGTTACACATGCTGCCGGAAATCATC  >  NC_000913/1441304‑1441564

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A