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
A2 F1 I1 R1 748 32.0 1685426 92.6% 1560704 103.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,911,417 C→T *745* (TAG→TAA)  relA ← (p)ppGpp synthetase I/GTP pyrophosphokinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,911,4170CT100.0% 209.9 / NA 64*745* (TAG→TAA) relA(p)ppGpp synthetase I/GTP pyrophosphokinase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (39/25);  total (39/25)

CATAACCCTTTCCTCAAACCGCTATCATATGTAGATACAGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCCTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGTCGCCAGTTGCTGTTTGGTGTCGCT  >  NC_000913/2911337‑2911551
                                                                                |                                                                                                                                      
cATAACCCTTTCCTCAAACCGCTATCATATATAGATACAGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCa                                                                              >  2:269060/1‑139 (MQ=255)
  tAACCCTTTCCTCAAACCGCTATCATATGTAGATACAGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGa                                                                                                            <  1:660840/107‑1 (MQ=255)
  tAACCCTTTCCTCAAACCGCTATCATATGTAGATACAGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGa                                                                                                            >  2:660840/1‑107 (MQ=255)
  tAACCCTTTCCTCAAACCGCTATCATATGTAGATACAGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGc                                                                            >  2:764743/1‑139 (MQ=255)
          tCCTCAAACCGCTATCATATGTAGATACAGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCAcg                                                                         >  2:300257/1‑134 (MQ=255)
          tCCTCAAACCGCTATCATATGTAGATACAGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCAcg                                                                         <  1:300257/134‑1 (MQ=255)
                                  aTACAGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCaa                                                                                                                          <  2:572852/61‑1 (MQ=255)
                                  aTACAGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCaa                                                                                                                          >  1:572852/1‑61 (MQ=255)
                                     cAGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAAt                                         >  1:667139/1‑139 (MQ=255)
                                      aGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTg                                                                                                                             >  2:575291/1‑54 (MQ=255)
                                      aGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTg                                                                                                                             <  1:575291/54‑1 (MQ=255)
                                      aGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGa                                                                                                                      <  1:232776/61‑1 (MQ=255)
                                      aGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGa                                                                                                                      >  2:232776/1‑61 (MQ=255)
                                      aGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATg                                        >  1:458356/1‑139 (MQ=255)
                                       gTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATgg                                       >  2:57234/1‑139 (MQ=255)
                                        tatataTCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTAcc                                                                                <  1:248239/97‑1 (MQ=255)
                                        tatataTCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTAcc                                                                                >  2:248239/1‑97 (MQ=255)
                                         atatatCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCg                                                                                                   >  1:322648/1‑77 (MQ=255)
                                         atatatCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCg                                                                                                   <  2:322648/77‑1 (MQ=255)
                                             atCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATg                                        <  1:771292/132‑1 (MQ=255)
                                             atCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATg                                        >  2:771292/1‑132 (MQ=255)
                                             atCAATCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGt                                 >  1:139628/1‑139 (MQ=255)
                                                aaTCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGAcg                                                                                                                    >  1:222997/1‑53 (MQ=255)
                                                aaTCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGAcg                                                                                                                    <  2:222997/53‑1 (MQ=255)
                                                aaTCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCg                                                                                                   >  2:514912/1‑70 (MQ=255)
                                                aaTCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGa                              >  2:73428/1‑139 (MQ=255)
                                                aaTCTACATTGTAGATACGAGCAAATTTAGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATcct                                                                                                   <  1:514912/70‑2 (MQ=255)
                                                  tCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATc                                                                                                     >  1:701999/1‑66 (MQ=255)
                                                  tCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATc                                                                                                     <  2:701999/66‑1 (MQ=255)
                                                  tCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCCCGCGCCCCAGCACTTGCAGGTTGTAAATCTCAAAGGTCATGTCGATg                            >  2:740709/1‑139 (MQ=255)
                                                  tCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCa                                                                  >  1:531903/1‑101 (MQ=255)
                                                  tCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCa                                                                  <  2:531903/101‑1 (MQ=255)
                                                  tCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAg                                                                 >  1:105953/1‑102 (MQ=255)
                                                  tCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAg                                                                 <  2:105953/102‑1 (MQ=255)
                                                  tCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCa                                           >  2:183706/1‑124 (MQ=255)
                                                  tCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCa                                           <  1:183706/124‑1 (MQ=255)
                                                  tCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATg                            >  2:76407/1‑139 (MQ=255)
                                                  tCTACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATg                            >  1:338678/1‑139 (MQ=255)
                                                    tACATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGt                          >  2:612496/1‑139 (MQ=255)
                                                      cATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGcc                                                                     >  1:20303/1‑94 (MQ=255)
                                                      cATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGcc                                                                     <  2:20303/94‑1 (MQ=255)
                                                      cATTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGTCg                        >  2:567850/1‑139 (MQ=255)
                                                      cATTGTAGATACGAACAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGTCg                        >  2:106665/1‑139 (MQ=255)
                                                       aTTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCAcg                                                                         >  2:416871/1‑89 (MQ=255)
                                                       aTTGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCAcg                                                                         <  1:416871/89‑1 (MQ=255)
                                                         tGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGt                                                                                          <  2:797349/70‑1 (MQ=255)
                                                         tGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGt                                                                                          >  1:797349/1‑70 (MQ=255)
                                                         tGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCa                                                         >  2:119427/1‑103 (MQ=255)
                                                         tGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCa                                                         <  1:119427/103‑1 (MQ=255)
                                                         tGTAGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGTCGCCa                     >  2:285129/1‑139 (MQ=255)
                                                           tAGATACGAACAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGTCGCCAGt                   <  1:106665/139‑1 (MQ=255)
                                                            aGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCa                                                         <  1:572044/100‑1 (MQ=255)
                                                            aGATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGCTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCa                                                         >  2:572044/1‑100 (MQ=255)
                                                             gATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGt                                                                                          >  2:418486/1‑66 (MQ=255)
                                                             gATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGt                                                                                          <  1:418486/66‑1 (MQ=255)
                                                             gATACGAGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGTCGCCAGTTg                 <  2:139628/139‑1 (MQ=255)
                                                                   aGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGTCGCCAGTTGCTGttt           >  2:665681/1‑139 (MQ=255)
                                                                   aGCAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGTCGCCAGTTGCTGttt           >  2:832094/1‑139 (MQ=255)
                                                                     cAAATTTCGGCTTAACTCCCGTGCAACCGAcgcgc                                                                                                                 >  1:824725/1‑35 (MQ=255)
                                                                     cAAATTTCGGCTTAACTCCCGTGCAACCGAcgcgc                                                                                                                 <  2:824725/35‑1 (MQ=255)
                                                                     cAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGAt                                                                                                           >  2:497142/1‑41 (MQ=255)
                                                                     cAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGAt                                                                                                           <  1:497142/41‑1 (MQ=255)
                                                                     cAAATTTCGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGTCGCCAGTTGCTGTTTgg         >  2:367013/1‑139 (MQ=255)
                                                                            cGGCTTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGTCGCCAGTTGCTGTTTGGTGTCGCt  <  1:367013/139‑1 (MQ=255)
                                                                                |                                                                                                                                      
CATAACCCTTTCCTCAAACCGCTATCATATGTAGATACAGTATATATCAATCTACATTGTAGATACGAGCAAATTTCGGCCTAACTCCCGTGCAACCGACGCGCGTCGATAACATCCGGCACCTGGTTGAGTTTACCCAGCACGCGCCCCAGCACTTGCAGGTTGTAAATCTCAATGGTCATGTCGATGGTCGCCAGTTGCTGTTTGGTGTCGCT  >  NC_000913/2911337‑2911551

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A