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 F8 I0 R2 296 77.6 4260404 88.1% 3753415 61.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,874,329 A→G 37.5% I191T (ATT→ACT)  ygcF ← conserved hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,874,3290AG37.5% 108.7 / 145.1 128I191T (ATT→ACT) ygcFconserved hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (41/39);  new base G (20/28);  total (61/67)
Fisher's exact test for biased strand distribution p-value = 3.61e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 135 total aligned reads displayed.

CATCGACAAACGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGTGCTTCAAT  >  minE/1874259‑1874399
                                                                      |                                                                      
cATCGACAAACGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTaa                                                                        <  1:2487214/71‑1 (MQ=255)
cATCGACAAACGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTaa                                                                        <  1:152509/71‑1 (MQ=255)
   cGACAAACGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCg                                                                     >  1:4133389/1‑71 (MQ=255)
   cGACAAACGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCg                                                                     >  1:1339678/1‑71 (MQ=255)
   cGACAAACGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCg                                                                     >  1:1663316/1‑71 (MQ=255)
   cGACAAACGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCg                                                                     >  1:2862599/1‑71 (MQ=255)
   cGACAAACGCCAATTACGCACAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCg                                                                     >  1:3227708/1‑71 (MQ=255)
    gACAAACGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCg                                                                     >  1:2682664/1‑70 (MQ=255)
    gACAAACGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCgg                                                                    >  1:2859655/1‑71 (MQ=255)
       aaaCGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTg                                                                 <  1:3751137/71‑1 (MQ=255)
       aaaCGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTg                                                                 <  1:3063180/71‑1 (MQ=255)
          cGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTg                                                                 >  1:452303/1‑68 (MQ=255)
           gCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGt                                                             <  1:1031981/71‑1 (MQ=255)
           gCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGt                                                             <  1:117905/71‑1 (MQ=255)
                ttACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATc                                                                      <  1:1423260/57‑1 (MQ=255)
                ttACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATc                                                                      <  1:2817833/57‑1 (MQ=255)
                ttACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATc                                                                      <  1:2947907/57‑1 (MQ=255)
                ttACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAAt                                                        <  1:1507644/71‑1 (MQ=255)
                ttACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAAt                                                        <  1:2823113/71‑1 (MQ=255)
                ttACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAAt                                                        <  1:1392191/71‑1 (MQ=255)
                ttACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAAt                                                        <  1:1113753/71‑1 (MQ=255)
                 tACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGCAAt                                                        >  1:1854182/1‑70 (MQ=255)
                  aCGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGa                                                      >  1:2310221/1‑71 (MQ=255)
                       cAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGCAATGACTcgc                                                 <  1:2835280/71‑1 (MQ=255)
                       cAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGCAATGACTcgc                                                 <  1:3951989/71‑1 (MQ=255)
                          tGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTg                                                                 <  1:104336/52‑1 (MQ=255)
                          tGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTg                                                                 <  1:4212606/52‑1 (MQ=255)
                          tGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGCAATGACTCGCGGt                                              >  1:306649/1‑71 (MQ=255)
                           gCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGtt                                             >  1:1363130/1‑71 (MQ=255)
                            cAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGtt                                             >  1:2791406/1‑70 (MQ=255)
                            aaGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGtt                                             >  1:2231279/2‑70 (MQ=255)
                             aGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTa                                           <  1:158802/71‑1 (MQ=255)
                               gTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGTCTGc                                                                <  1:4103864/48‑1 (MQ=255)
                               gTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGc                                                                <  1:2703830/48‑1 (MQ=255)
                               gTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGc                                                                <  1:777997/48‑1 (MQ=255)
                               gTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGc                                                                <  1:2059170/48‑1 (MQ=255)
                               gTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGc                                                           <  1:627334/53‑1 (MQ=255)
                               gTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGc                                                           <  1:1317096/53‑1 (MQ=255)
                               gTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGc                                                           <  1:3763788/53‑1 (MQ=255)
                               gTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGc                                                           <  1:1221580/53‑1 (MQ=255)
                               gTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTat                                          >  1:2324323/1‑70 (MQ=255)
                               gTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTat                                          >  1:2902771/1‑70 (MQ=255)
                                 ttCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGCaa                                                         >  1:1516802/1‑53 (MQ=255)
                                  tCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTatcatc                                      >  1:1656579/1‑71 (MQ=255)
                                  tCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTatcatc                                      >  1:1176646/1‑71 (MQ=255)
                                  tCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTa                                           <  1:348051/66‑1 (MQ=255)
                                   cAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCg                                     >  1:817458/1‑71 (MQ=255)
                                   cAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGAAATGACTCGCGGTTTATCATCg                                     >  1:1766842/1‑71 (MQ=255)
                                        cacaAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCa                                 <  1:3393693/70‑1 (MQ=255)
                                        cacaAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCa                                 <  1:1228515/70‑1 (MQ=255)
                                        cacaAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAg                                >  1:250733/1‑71 (MQ=255)
                                        cacaAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAg                                >  1:1993338/1‑71 (MQ=255)
                                        cacaAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAg                                >  1:4178050/1‑71 (MQ=255)
                                         acaAACGTGTGGCATCATCCTTTTGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGc                               <  1:499104/71‑1 (MQ=255)
                                         acaAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGc                               <  1:347374/71‑1 (MQ=255)
                                         acaAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGc                               <  1:1584363/71‑1 (MQ=255)
                                            aaCGTGTGGCATCATCCTTTTGGCTAATCGGCTGCATTGCAATGACt                                                    <  1:859080/47‑1 (MQ=255)
                                            aaCGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACt                                                    <  1:2899773/47‑1 (MQ=255)
                                            aaCGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACt                                                    <  1:649950/47‑1 (MQ=255)
                                            aaCGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACt                                                    <  1:29835/47‑1 (MQ=255)
                                               gtgtGGCAGCATCCTTTTGGCTAGTCGGGTGCAGt                                                             <  1:545055/35‑1 (MQ=25)
                                                  tgGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCagt                      <  1:4115170/71‑1 (MQ=255)
                                                  tgGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCagt                      <  1:1961646/71‑1 (MQ=255)
                                                  tgGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCagt                      <  1:1480577/71‑1 (MQ=255)
                                                  tgGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCagt                      <  1:2939795/71‑1 (MQ=255)
                                                  tgGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCagt                      <  1:2768870/71‑1 (MQ=255)
                                                  tgGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCagt                      <  1:3033939/71‑1 (MQ=255)
                                                    gCATCATGCTTTTGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGc                          >  1:3137657/1‑65 (MQ=255)
                                                    gCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCagtag                    >  1:1924474/1‑71 (MQ=255)
                                                    gCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCagtag                    >  1:4234502/1‑71 (MQ=255)
                                                        gatcCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCa                                 <  1:2001263/53‑1 (MQ=255)
                                                        catcCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCa                >  1:1767239/1‑71 (MQ=255)
                                                         atcCTTTTGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCAt               >  1:5952/1‑71 (MQ=255)
                                                         atcCTTTTGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCAt               >  1:2626114/1‑71 (MQ=255)
                                                         atcCTTTTGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCAt               >  1:3312219/1‑71 (MQ=255)
                                                         atcCTTTTGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCAt               >  1:1906246/1‑71 (MQ=255)
                                                          tcCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATc              <  1:2912709/71‑1 (MQ=255)
                                                          tcCTTTTCGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAg                                <  1:4240920/53‑1 (MQ=255)
                                                            cTTTTGGCTAATCGGCTGCAGTGCAGTGACTCGCGGTTTATCATCGGTCAGCGTTGCCa                        >  1:2759690/1‑59 (MQ=255)
                                                            cTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCa                        >  1:3579433/1‑59 (MQ=255)
                                                            cTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCa                        >  1:481038/1‑59 (MQ=255)
                                                             ttttGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGcc                         <  1:2710178/57‑1 (MQ=255)
                                                               ttGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTATCATTGGTCAGCGTTGCCAGTAGTTCATCCAGt          <  1:1168037/70‑1 (MQ=255)
                                                               ttGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGt          <  1:376056/70‑1 (MQ=255)
                                                               ttGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGt          <  1:1669542/70‑1 (MQ=255)
                                                               ttGGCTAGTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTAAGCGTTGCCAGTAGTTCATCCAGt          <  1:1988341/70‑1 (MQ=255)
                                                               ttGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGTg         >  1:2033887/1‑71 (MQ=255)
                                                                  gCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGTGCtt      <  1:3919291/71‑1 (MQ=255)
                                                                    tAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGc                               <  1:935282/44‑1 (MQ=255)
                                                                    tAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGc                               <  1:418814/44‑1 (MQ=255)
                                                                    tAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGc                               <  1:2254817/44‑1 (MQ=255)
                                                                    tAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCagtag                    >  1:3379610/1‑55 (MQ=255)
                                                                    tAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCagtag                    >  1:1983806/1‑55 (MQ=255)
                                                                    tAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGTGCTTc     >  1:3396477/1‑70 (MQ=255)
                                                                    tAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGTGCTTc     >  1:3353297/1‑70 (MQ=255)
                                                                    tAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGTGCTTc     >  1:1379914/1‑70 (MQ=255)
                                                                      aTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGTGCTTCa    <  1:917845/69‑1 (MQ=255)
                                                                      aTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGTGCTTCAat  <  1:3023129/71‑1 (MQ=255)
                                                                      aTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGTGCTTCAat  <  1:2950460/71‑1 (MQ=255)
                                                                      aTCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGTGCTTCAat  <  1:2258845/71‑1 (MQ=255)
                                                                      |                                                                      
CATCGACAAACGCCAATTACGCGCAATGCAGGTTTCAATGCACAAACGTGTGGCATCATCCTTTTGGCTAATCGGCTGCAGTGCAATGACTCGCGGTTTATCATCGGTCAGCGTTGCCAGTAGTTCATCCAGTGCTTCAAT  >  minE/1874259‑1874399

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A