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
A118 F1 I1 R1 15 203.6 13305188 92.8% 12347214 75.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA REL606 4,164,822 T→G F1323V (TTC→GTC)  rpoB → DNA‑directed RNA polymerase subunit beta

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*REL6064,164,8220TG97.9% 850.4 / 3.1 194F1323V (TTC→GTC) rpoBDNA‑directed RNA polymerase subunit beta
Reads supporting (aligned to +/- strand):  ref base T (2/2);  new base G (96/94);  total (98/96)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01

Only 100 of 197 total aligned reads displayed.

AACGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCA  >  REL606/4164750‑4164894
                                                                        |                                                                        
aaCGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCa                                                                       <  2:3261376/76‑1 (MQ=255)
aaCGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCa                                                                       >  1:1148141/1‑76 (MQ=255)
aaCGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCa                                                                       <  1:712842/76‑1 (MQ=255)
aaCGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCa                                                                       >  2:2364732/1‑76 (MQ=255)
 aCGGTCTCACCAAGATGTATAAAAACATCTTGGCCGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCaa                                                                      <  2:602247/76‑1 (MQ=255)
   ggTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACg                                                                    <  2:5370995/76‑1 (MQ=255)
     tCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTa                                                                  <  1:219689/76‑1 (MQ=255)
     tCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTa                                                                  <  1:2413580/76‑1 (MQ=255)
      cGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAt                                                                 >  2:2419373/1‑76 (MQ=255)
      cGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAt                                                                 >  1:2657762/1‑76 (MQ=255)
       gTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAtt                                                                >  2:6129255/1‑76 (MQ=255)
       gTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAtt                                                                <  1:5725733/76‑1 (MQ=255)
       gTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAtt                                                                >  1:2296930/1‑76 (MQ=255)
        tACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAttg                                                               <  2:6396248/76‑1 (MQ=255)
        tACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAttg                                                               >  1:6575114/1‑76 (MQ=255)
        tACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAttg                                                               >  2:5724668/1‑76 (MQ=255)
         aCCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAttgt                                                              >  1:5778921/1‑76 (MQ=255)
         aCCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAttgt                                                              >  1:50350/1‑76 (MQ=255)
         aCCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAttgt                                                              >  2:4814553/1‑76 (MQ=255)
          ccAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAttgtt                                                             >  1:4461904/1‑76 (MQ=255)
           cAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTAttgttg                                                            <  2:5256077/76‑1 (MQ=255)
            aaGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGa                                                           >  2:4466498/1‑76 (MQ=255)
             aGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGaa                                                          >  2:211795/1‑76 (MQ=255)
             aGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGaa                                                          <  1:1479953/76‑1 (MQ=255)
              gATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGaaa                                                         <  2:6370030/76‑1 (MQ=255)
               aTGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAag                                                        <  2:36777/76‑1 (MQ=255)
               aTGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAag                                                        >  1:2347945/1‑76 (MQ=255)
                tGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAaga                                                       >  1:3244598/1‑76 (MQ=255)
                  tataAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAgaga                                                     <  1:5256079/76‑1 (MQ=255)
                  tataAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAgaga                                                     >  2:3788542/1‑76 (MQ=255)
                   ataAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCTAGAATCCGTCAACGTATTGTTGAAAGAGAt                                                    >  1:6524973/1‑76 (MQ=255)
                   ataAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAt                                                    >  1:6314980/1‑76 (MQ=255)
                    taAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAtt                                                   >  2:2326752/1‑76 (MQ=255)
                    taAAAACATCGGGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAtt                                                   <  1:582524/76‑1 (MQ=255)
                     aaaaaCAGCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAttc                                                  <  2:2177112/76‑1 (MQ=255)
                      aaaaCATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAttcg                                                 >  1:477823/1‑76 (MQ=255)
                      aaaaCATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAttcg                                                 >  1:5225096/1‑76 (MQ=255)
                        aaCATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAttcgtt                                               <  2:2509921/76‑1 (MQ=255)
                         aCATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAttcgttc                                              <  2:1100057/76‑1 (MQ=255)
                         aCATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAttcgttc                                              <  2:566885/76‑1 (MQ=255)
                          cATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAttcgttcg                                             >  2:1765619/1‑76 (MQ=255)
                          cATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGAttcgttcg                                             <  1:2525168/76‑1 (MQ=255)
                            tCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCt                                           <  2:5106016/76‑1 (MQ=255)
                            tCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCt                                           <  2:4146335/76‑1 (MQ=255)
                              gTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTgg                                         >  1:3301531/1‑76 (MQ=255)
                               tGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTggg                                        >  2:3545609/1‑76 (MQ=255)
                                 gACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTa                                      <  1:1021835/76‑1 (MQ=255)
                                  acagCAACAATCAGATGCAGCCGGGCATGCCAGAATCAGCAAACATATTGATGAAAAAGATTCATTCGCTGGGTAt                                     <  2:314503/73‑1 (MQ=255)
                                  aCGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTAt                                     <  1:3266738/76‑1 (MQ=255)
                                    ggCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCa                                   <  1:1904374/76‑1 (MQ=255)
                                    ggCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCa                                   <  2:3928393/76‑1 (MQ=255)
                                     gCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCaa                                  <  2:350257/76‑1 (MQ=255)
                                     gCAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCaa                                  >  2:1907947/1‑76 (MQ=255)
                                      cAACCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAAc                                 <  1:2792173/76‑1 (MQ=255)
                                       aaCCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACTTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACa                                >  1:2163546/1‑76 (MQ=255)
                                       aaCCATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACa                                <  2:3381212/76‑1 (MQ=255)
                                         ccATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATc                              <  1:4813672/76‑1 (MQ=255)
                                          cATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCg                             >  1:3390219/1‑76 (MQ=255)
                                          cATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCg                             <  1:3939217/76‑1 (MQ=255)
                                          cATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCg                             <  1:1755805/76‑1 (MQ=255)
                                          cATCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCg                             <  1:3985660/76‑1 (MQ=255)
                                           aTCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGa                            >  1:3562688/1‑76 (MQ=255)
                                           aTCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGa                            <  2:4635381/76‑1 (MQ=255)
                                            tCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGaa                           <  2:3637092/76‑1 (MQ=255)
                                            tCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGaa                           <  2:1004226/76‑1 (MQ=255)
                                            tCAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGaa                           >  1:5600268/1‑76 (MQ=255)
                                             cAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGTTTCGCTCGCTGGGTATCAACATCGAAc                          >  1:4678712/1‑76 (MQ=255)
                                             cAGATGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAAc                          <  2:4245977/76‑1 (MQ=255)
                                                 tGGAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGa                      <  2:857838/76‑1 (MQ=255)
                                                  ggAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGaa                     <  2:6533183/76‑1 (MQ=255)
                                                  ggAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGaa                     <  2:6599627/76‑1 (MQ=255)
                                                  ggAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGaa                     >  1:1074388/1‑76 (MQ=255)
                                                  ggAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGaa                     <  1:1584455/76‑1 (MQ=255)
                                                  ggAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGaa                     <  2:1924711/76‑1 (MQ=255)
                                                  ggAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGaa                     >  1:4181189/1‑76 (MQ=255)
                                                   gAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAg                    >  1:1642767/1‑76 (MQ=255)
                                                   gAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAg                    >  1:1850246/1‑76 (MQ=255)
                                                   gAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAg                    <  1:2597655/76‑1 (MQ=255)
                                                   gAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAg                    <  1:4576814/76‑1 (MQ=255)
                                                   gAGCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAg                    <  2:514331/76‑1 (MQ=255)
                                                    ggCCGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGa                   <  1:5455150/75‑1 (MQ=255)
                                                      ccGGGCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACg                 <  1:5325187/76‑1 (MQ=255)
                                                         ggCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGt              <  2:4027670/76‑1 (MQ=255)
                                                          gCATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTa             <  1:345557/76‑1 (MQ=255)
                                                           cATGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTaa            >  2:4581795/1‑76 (MQ=255)
                                                            aTGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAAt           >  2:2934604/1‑76 (MQ=255)
                                                            aTGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAAt           >  2:1527304/1‑76 (MQ=255)
                                                            aTGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAAt           >  2:2314002/1‑76 (MQ=255)
                                                             tGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAAtt          >  1:5157873/1‑76 (MQ=255)
                                                             tGCCAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAAtt          <  1:4310065/76‑1 (MQ=255)
                                                               ccAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATtct        <  2:2226660/76‑1 (MQ=255)
                                                               ccAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATtct        <  2:5937934/76‑1 (MQ=255)
                                                               ccAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATtct        >  2:1255708/1‑76 (MQ=255)
                                                                cAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATtctc       >  2:1880123/1‑76 (MQ=255)
                                                                cAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATtctc       >  2:1619473/1‑76 (MQ=255)
                                                                cAGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATtctc       >  2:3095776/1‑76 (MQ=255)
                                                                 aGAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCg      >  2:4944092/1‑76 (MQ=255)
                                                                  gAATCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGc     >  2:6287731/1‑76 (MQ=255)
                                                                     tCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCa  <  1:2902649/76‑1 (MQ=255)
                                                                     tCCGTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCa  >  2:75107/1‑76 (MQ=255)
                                                                        |                                                                        
AACGGTCGTACCAAGATGTATAAAAACATCGTGGACGGCAACCATCAGATGGAGCCGGGCATGCCAGAATCCTTCAACGTATTGTTGAAAGAGATTCGTTCGCTGGGTATCAACATCGAACTGGAAGACGAGTAATTCTCGCTCA  >  REL606/4164750‑4164894

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A