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 F104 I1 R1 18 60.0 1998682 96.3% 1924730 144.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913_3_bme_pgi 3,441,387 G→T R97S (CGT→AGT)  rpsD ← 30S ribosomal subunit protein S4

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_bme_pgi3,441,3870GT100.0% 150.6 / NA 44R97S (CGT→AGT) rpsD30S ribosomal subunit protein S4
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (15/29);  total (15/29)

TGCTTACAACGTCATTCGGACTAACCTGATAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTCA  >  NC_000913_3_bme_pgi/3441243‑3441529
                                                                                                                                                |                                                                                                                                              
tGCTTACAACGTCATTCGGACTAACCTGATAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCtt                                                                                                                                           <  2:457727/150‑1 (MQ=255)
   ttACAACGTCATTCGGACTAACCTGATAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCca                                                                                                                                        >  1:295203/1‑150 (MQ=255)
   ttACAACGTCATTCGGACTAACCTGATAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCca                                                                                                                                        <  1:523563/150‑1 (MQ=255)
        gcGTCATGCGGACTAACCTGATAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCaga                                                                                                                                   <  4:113675/149‑1 (MQ=255)
         cGTCATTCGGACTAACCTGATAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCagag                                                                                                                                  <  1:166084/150‑1 (MQ=255)
               tCGGACTAACCTGATAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACa                                                                                                                            <  3:327352/150‑1 (MQ=255)
                   aCTAACCTGATAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGtt                                                                                                                        <  2:562941/150‑1 (MQ=255)
                     tAACCTGATAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGtttt                                                                                                                      <  2:562605/150‑1 (MQ=255)
                       aCCTGATAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCa                                                                                                                    <  1:547409/150‑1 (MQ=255)
                             tAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGgtg                                                                                                              <  3:140822/150‑1 (MQ=255)
                             tAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGgtg                                                                                                              >  2:449650/1‑150 (MQ=255)
                                gaagCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCACCTACGGCAACCACAGTTGCACAGACTACCTTCCAGCACAGCAAACCGGTTTTAACCGGTGTTg                                                                                                           >  1:55123/1‑150 (MQ=255)
                                 aagCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGc                                                                                                          <  3:389534/150‑1 (MQ=255)
                                   gCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCt                                                                                                        <  4:114370/150‑1 (MQ=255)
                                       tGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCa                                                                                                    <  3:234557/150‑1 (MQ=255)
                                          tAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGAc                                                                                                 >  4:172231/1‑150 (MQ=255)
                                               acacGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGtgct                                                                                            >  1:459926/1‑150 (MQ=255)
                                                     ccGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGcttct                                                                                      <  3:60562/150‑1 (MQ=255)
                                                     ccGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGcttct                                                                                      <  3:119951/150‑1 (MQ=255)
                                                       gTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCttt                                                                                    <  3:179617/150‑1 (MQ=255)
                                                       gTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGGTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCttt                                                                                    <  1:279101/150‑1 (MQ=255)
                                                        tttACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTg                                                                                   <  3:318368/150‑1 (MQ=255)
                                                         ttACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTgt                                                                                  <  3:20252/150‑1 (MQ=255)
                                                             cATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTgtagta                                                                              >  2:300499/1‑150 (MQ=255)
                                                                     cTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGa                                                                      >  2:361527/1‑150 (MQ=255)
                                                                      tttATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGaa                                                                     <  2:295203/150‑1 (MQ=255)
                                                                       tgaTGGCTAAGCAGCTGACGTGCCTCTGCACGAGTGGCACCGAAGCCCAGACGGTATACAACGTTGTCCAGACTACCTTGCAGCAGAGCCAACAGGCTTTCACCGGTGTTGCCTTTCAGAAGTGCTGCTTCTTTGTAGTAGTTACGGAAc                                                                    <  4:262752/148‑1 (MQ=255)
                                                                           ggCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGAc                                                                <  2:499741/150‑1 (MQ=255)
                                                                                aCCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTCTACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTcc                                                           >  4:218093/1‑150 (MQ=255)
                                                                                 ccAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCa                                                          >  3:210642/1‑150 (MQ=255)
                                                                                  cAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAg                                                         <  2:493701/150‑1 (MQ=255)
                                                                                      tGACGTGCTTCTGCACCAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGCTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCcaccacc                                                     >  2:311915/1‑149 (MQ=255)
                                                                                              ttCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGAt                                             >  1:255776/1‑150 (MQ=255)
                                                                                              ttCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGAt                                             <  1:449650/150‑1 (MQ=255)
                                                                                                 tGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCa                                                                                                    <  2:579240/92‑1 (MQ=255)
                                                                                                 tGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCa                                                                                                    >  1:579240/1‑92 (MQ=255)
                                                                                                  gCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACgg                                         <  2:153299/150‑1 (MQ=255)
                                                                                                                      cATACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTATTAGTTACGGAACTGACGCTTCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACg                     >  2:135371/1‑150 (MQ=255)
                                                                                                                       aTACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCttt                                                                                    <  3:186702/86‑1 (MQ=255)
                                                                                                                       aTACGGTATACAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCttt                                                                                    >  4:186702/1‑86 (MQ=255)
                                                                                                                                 cAACGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCacac          >  3:143584/1‑150 (MQ=255)
                                                                                                                                    cGTTGTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCAt       <  1:452812/150‑1 (MQ=255)
                                                                                                                                        gTCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTc   <  4:97944/150‑1 (MQ=255)
                                                                                                                                         tCCAGACTACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTca  <  1:574034/150‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                              
TGCTTACAACGTCATTCGGACTAACCTGATAAGAAGCGATGTTAACAACACGACCGTTTACCATAATTGCTTTATGGCTAACCAGCTGACGTGCTTCTGCACGAGTGGCACCGAAGCCCATACGGTATACAACGTTGTCCAGACGACCTTCCAGCAGAGCCAACAGGTTTTCACCGGTGTTGCCTTTCAGACGTGCTGCTTCTTTGTAGTAGTTACGGAACTGACGCTCCAGCACACCATAGATACGGCGAACTTTTTGCTTTTCACGCAACTGCACACCATAGTCA  >  NC_000913_3_bme_pgi/3441243‑3441529

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A