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
A10 F28 I1 R1 126 72.5 2472046 99.4% 2457213 138.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,558,827 T→C intergenic (‑148/‑31) eutB ← / → intZ ethanolamine ammonia‑lyase subunit alpha/CPZ‑55 prophage; putative phage integrase IntZ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,558,8270TC100.0% 221.6 / NA 61intergenic (‑148/‑31)eutB/intZethanolamine ammonia‑lyase subunit alpha/CPZ‑55 prophage; putative phage integrase IntZ
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (28/33);  total (28/33)

TCGATGATTGGCATTTTTCACAGCATTCTAACAATCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGTTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGACGCCGGGGCTGTTTTTGCTG  >  NC_000913/2558701‑2558959
                                                                                                                              |                                                                                                                                    
tCGATGATTGGCATTTTTCACAGCATTCTAACAATCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCg                                                                                                                            >  1:326731/1‑137 (MQ=255)
tCGATGATTGGCATTTTTCACAGCATTCTAACAATCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCg                                                                                                                            <  2:326731/137‑1 (MQ=255)
  gatgatTGGCATTTTTCACAGCATTCTAACAATCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTaaa                                                                                                                       >  2:86267/1‑140 (MQ=255)
                 tCACAGCATTCTAACAATCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGtt                                                                                                        <  1:44130/140‑1 (MQ=255)
                 tCACAGCATTCTAACAATCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGtt                                                                                                        <  1:813589/140‑1 (MQ=255)
                   acaGCATTCTAACAATCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGtttt                                                                                                      <  1:1198086/140‑1 (MQ=255)
                             aaCAATCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGaca                                                                                            <  2:258033/140‑1 (MQ=255)
                               cAATCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGAcacc                                                                                          <  2:145566/140‑1 (MQ=255)
                                 aTCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGAcaccac                                                                                        >  1:1213101/1‑140 (MQ=255)
                                 aTCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGAcaccac                                                                                        >  2:134271/1‑140 (MQ=255)
                                   cACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGaca                                                                                            <  2:469288/134‑1 (MQ=255)
                                   cACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGaca                                                                                            >  1:469288/1‑134 (MQ=255)
                                    aCGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTca                                                                                     >  2:1175604/1‑140 (MQ=255)
                                    aCGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTca                                                                                     <  2:972234/140‑1 (MQ=255)
                                      gTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTcaca                                                                                   >  2:840864/1‑140 (MQ=255)
                                          cATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCaa                                                                               <  1:512224/140‑1 (MQ=255)
                                          cATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCaa                                                                               >  2:335478/1‑140 (MQ=255)
                                          cATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCaa                                                                               <  1:335478/140‑1 (MQ=255)
                                          cATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCaa                                                                               <  1:941846/140‑1 (MQ=255)
                                                 aGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCAt                                                                        <  1:820947/140‑1 (MQ=255)
                                                    ccTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGa                                                                     <  2:892393/140‑1 (MQ=255)
                                                           gtgtAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGca                                                              <  1:86267/140‑1 (MQ=255)
                                                            tgtAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGcac                                                             <  1:134271/140‑1 (MQ=255)
                                                              tAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAg                                                           >  2:123283/1‑140 (MQ=255)
                                                                 ggtggtTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCg                                                        <  1:689876/140‑1 (MQ=255)
                                                                 ggtggtTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCg                                                        <  1:840864/140‑1 (MQ=255)
                                                                 ggtggtTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCg                                                        >  2:1142191/1‑140 (MQ=255)
                                                                     gtTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAgg                                                    >  2:977373/1‑140 (MQ=255)
                                                                      ttGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCg                                                        >  1:316953/1‑135 (MQ=255)
                                                                      ttGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCg                                                        <  2:316953/135‑1 (MQ=255)
                                                                      ttGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGa                                                   >  1:962917/1‑140 (MQ=255)
                                                                      ttGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGa                                                   <  1:1142191/140‑1 (MQ=255)
                                                                      ttGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGa                                                   >  2:689933/1‑140 (MQ=255)
                                                                       tGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGAc                                                  <  2:518487/140‑1 (MQ=255)
                                                                       tGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGAc                                                  >  2:460512/1‑140 (MQ=255)
                                                                         ccTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACaa                                                <  2:767534/140‑1 (MQ=255)
                                                                         ccTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACaa                                                <  1:689933/140‑1 (MQ=255)
                                                                                  gCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATaa                                       >  2:196900/1‑140 (MQ=255)
                                                                                   cccGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGAc                                                  >  2:408144/1‑128 (MQ=255)
                                                                                   cccGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGAc                                                  <  1:408144/128‑1 (MQ=255)
                                                                                   cccGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATaaa                                      >  2:762085/1‑140 (MQ=255)
                                                                                    ccGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGAc                                                  >  2:686695/1‑127 (MQ=255)
                                                                                    ccGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGAc                                                  <  1:686695/127‑1 (MQ=255)
                                                                                       ttATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCa                                  >  2:780928/1‑140 (MQ=255)
                                                                                        tATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATaaa                                      >  1:444524/1‑135 (MQ=255)
                                                                                        tATTCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATaaa                                      <  2:444524/135‑1 (MQ=255)
                                                                                          ttCATCACGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCg                               <  1:460512/140‑1 (MQ=255)
                                                                                            catcaCGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGAt                             >  2:593308/1‑140 (MQ=255)
                                                                                              tcaCGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTc                           >  2:181405/1‑140 (MQ=255)
                                                                                               caCGCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCa                          <  1:196900/140‑1 (MQ=255)
                                                                                                  gCCGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTg                       >  2:585711/1‑140 (MQ=255)
                                                                                                    cGAACGCGCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGAc                     >  2:249709/1‑140 (MQ=255)
                                                                                                        cgcgCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGACGCCg                 >  2:359580/1‑140 (MQ=255)
                                                                                                        cgcgCCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGACGCCg                 >  2:843672/1‑140 (MQ=255)
                                                                                                           gcCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGACGCCgggg              <  1:843672/140‑1 (MQ=255)
                                                                                                           gcCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGACGCCgggg              <  1:359580/140‑1 (MQ=255)
                                                                                                           gcCGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGACGCCgggg              <  2:962917/140‑1 (MQ=255)
                                                                                                           gcCGGATACATGATCGGGGCTATCCAGTAGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGACGCCgggg              <  1:908920/140‑1 (MQ=255)
                                                                                                             cGGATACATGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGACGCCGGGGCt            <  1:388365/140‑1 (MQ=255)
                                                                                                                     tGATCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGACGCCGGGGCTGTTTTTGc    >  1:913959/1‑140 (MQ=255)
                                                                                                                       aTCGGGGCTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGACGCCGGGGCTGTTTTTGCTg  <  1:762085/140‑1 (MQ=255)
                                                                                                                              |                                                                                                                                    
TCGATGATTGGCATTTTTCACAGCATTCTAACAATCACGTTTCATCGTCAGCCCTTGTCGTGTAAGGTGGTTGCCTAAACACGCCCGTTATTCATCACGCCGAACGCGCCGGATACATGATCGGGGTTATCCAGTCGTTAAATCAAGGTATCCGGTTTTGAGCAAGACACCACTCACAGCAAAGGCCATAGACGCCGCACAGCCGCAGGACAAGCCCTATAAACTCACCGATTCACTGACGCCGGGGCTGTTTTTGCTG  >  NC_000913/2558701‑2558959

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A