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 I1 R1 770 51.4 2439994 93.8% 2288714 110.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,347,069 G→A *164* (TAG→TAA)  ptsN → sugar‑specific enzyme IIA component of PTS

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,347,0690GA100.0% 205.0 / NA 63*164* (TAG→TAA) ptsNsugar‑specific enzyme IIA component of PTS
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (28/35);  total (28/35)

GCACCTGCATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAGTTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACT  >  NC_000913/3346934‑3347196
                                                                                                                                       |                                                                                                                               
gCACCTGCATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTa                                                                                                                              <  2:452048/139‑1 (MQ=255)
 cACCTGCATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTAt                                                                                                                             <  1:193509/139‑1 (MQ=255)
   ccTGCATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTc                                                                                                                           >  1:291974/1‑139 (MQ=255)
       cATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTa                                                                                                                       <  2:176798/139‑1 (MQ=255)
       cATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTa                                                                                                                       <  1:186360/139‑1 (MQ=255)
              tGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAAtt                                                                                                                               >  1:878233/1‑124 (MQ=255)
              tGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGtctc                                                                                                                >  2:394276/1‑139 (MQ=255)
              tGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGtctc                                                                                                                >  1:692059/1‑139 (MQ=255)
              tGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGtctc                                                                                                                >  1:447162/1‑139 (MQ=255)
              tGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGtc                                                                                                                  <  2:990848/137‑1 (MQ=255)
              tGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGtc                                                                                                                  >  1:990848/1‑137 (MQ=255)
                tCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCtt                                                                                                              >  2:722171/1‑139 (MQ=255)
                tCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCtt                                                                                                              >  2:593914/1‑139 (MQ=255)
                 cGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCttt                                                                                                             >  1:960617/1‑139 (MQ=255)
                      gtggCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTAt                                                                                                                             >  1:554620/1‑118 (MQ=255)
                      gtggCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTAt                                                                                                                             <  2:554620/118‑1 (MQ=255)
                      gtggCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGAc                                                                                                        >  1:388677/1‑139 (MQ=255)
                      gtggCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGAc                                                                                                        <  2:45581/139‑1 (MQ=255)
                               cGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTgagg                                                                                               <  1:722171/139‑1 (MQ=255)
                               cGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTgagg                                                                                               <  1:593914/139‑1 (MQ=255)
                                 tCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTtg                                                                                                    >  2:914736/1‑132 (MQ=255)
                                 tCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTtg                                                                                                    <  1:914736/132‑1 (MQ=255)
                                 tCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTgaggag                                                                                             <  1:151535/139‑1 (MQ=255)
                                  cTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGTATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGgaga                                                                                            <  2:1066972/139‑1 (MQ=255)
                                      cGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACa                                                                                        <  1:504863/139‑1 (MQ=255)
                                           aaaaCCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTATTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                   <  1:567374/139‑1 (MQ=255)
                                           aaaaCCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                   <  1:1210028/139‑1 (MQ=255)
                                             aaCCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTAACAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATg                                                                                 <  1:11155/139‑1 (MQ=255)
                                                   cTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACa                                                                                        >  1:900685/1‑126 (MQ=255)
                                                   cTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACa                                                                                        <  2:900685/126‑1 (MQ=255)
                                                       cgccgTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGt                                                                                                                   <  1:1151389/95‑1 (MQ=255)
                                                       cgccgTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGt                                                                                                                   >  2:1151389/1‑95 (MQ=255)
                                                         ccgTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATc                                                                     <  2:291974/139‑1 (MQ=255)
                                                                 gcgcAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCgg                                                             <  1:394276/139‑1 (MQ=255)
                                                                    cAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACg                                                          >  1:772629/1‑139 (MQ=255)
                                                                      gCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGtct                                                                                                                 >  2:964178/1‑82 (MQ=255)
                                                                      gCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGtct                                                                                                                 <  1:964178/82‑1 (MQ=255)
                                                                      gCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACgtt                                                        <  2:960617/139‑1 (MQ=255)
                                                                      gCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACgtt                                                        <  2:683541/139‑1 (MQ=255)
                                                                                 tGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTTTTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTtcaggttcaggt                                             >  1:1010328/1‑139 (MQ=255)
                                                                                 tGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGt                                                                                                                   <  1:76346/69‑1 (MQ=255)
                                                                                 tGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGt                                                                                                                   >  2:76346/1‑69 (MQ=255)
                                                                                   aaGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTaa                                           <  2:948430/139‑1 (MQ=255)
                                                                                      agCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACa                                                                                        <  2:552686/91‑1 (MQ=255)
                                                                                      agCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACa                                                                                        >  1:552686/1‑91 (MQ=255)
                                                                                           tATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATg                                                                                 >  2:836848/1‑93 (MQ=255)
                                                                                           tATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATg                                                                                 <  1:836848/93‑1 (MQ=255)
                                                                                                     ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTtgtg                                                                                                  <  2:129034/66‑1 (MQ=255)
                                                                                                     ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTtgtg                                                                                                  >  1:129034/1‑66 (MQ=255)
                                                                                                         ggATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTg                     <  2:822778/139‑1 (MQ=255)
                                                                                                             aCCGAAGGTACTCCGGATGAAGCGTAATTATTCgg                                                                                                                         >  1:484257/1‑35 (MQ=255)
                                                                                                             aCCGAAGGTACTCCGGATGAAGCGTAATTATTCgg                                                                                                                         <  2:484257/35‑1 (MQ=255)
                                                                                                             aCCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTa                                                                                     >  1:438217/1‑71 (MQ=255)
                                                                                                             aCCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTa                                                                                     <  2:438217/71‑1 (MQ=255)
                                                                                                             aCCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAg                 >  2:579/1‑139 (MQ=255)
                                                                                                             aCCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAg                 >  2:437876/1‑139 (MQ=255)
                                                                                                               cGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                   <  2:652361/71‑1 (MQ=255)
                                                                                                               cGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                   >  1:652361/1‑71 (MQ=255)
                                                                                                                 aaGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAAt                                         <  1:105755/111‑1 (MQ=255)
                                                                                                                 aaGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAAt                                         >  2:105755/1‑111 (MQ=255)
                                                                                                                         ccGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGgaga                                                                                            >  2:717703/1‑52 (MQ=255)
                                                                                                                         ccGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGgaga                                                                                            <  1:717703/52‑1 (MQ=255)
                                                                                                                            gATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACt  <  2:447162/139‑1 (MQ=255)
                                                                                                                                       |                                                                                                                               
GCACCTGCATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAGTTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACT  >  NC_000913/3346934‑3347196

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ 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