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 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,183,279 T→G 37.6% L1185L (CTT→CTG)  gltB → glutamate synthase, large subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,183,2790TG37.6% 59.0 / 101.0 109L1185L (CTT→CTG) gltBglutamate synthase, large subunit
Reads supporting (aligned to +/- strand):  ref base T (30/38);  new base G (22/19);  total (52/57)
Fisher's exact test for biased strand distribution p-value = 4.29e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 109 total aligned reads displayed.

CAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGT  >  minE/2183219‑2183339
                                                            |                                                            
cAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTaa                                                       >  1:2095017/1‑68 (MQ=255)
cAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAac                                                      >  1:1817550/1‑69 (MQ=255)
cAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAac                                                      >  1:858721/1‑69 (MQ=255)
cAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAac                                                      >  1:2616827/1‑69 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCTGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:2700259/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:2607554/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:1624871/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:623867/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:531840/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:2272949/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:2407961/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:2568197/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:1062326/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:2763931/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:3302912/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:2874393/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:3169364/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:777590/69‑1 (MQ=255)
          aaTTACTTTGAATTTATCGCCCGTAAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:2114303/69‑1 (MQ=255)
           aTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:610816/68‑1 (MQ=255)
           aTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:213027/68‑1 (MQ=255)
           aTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg                                            <  1:3205149/68‑1 (MQ=255)
                tttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCt                                       <  1:1568929/68‑1 (MQ=255)
                tttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCt                                       <  1:82702/68‑1 (MQ=255)
                tttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCt                                       <  1:2027774/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:2504694/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:886269/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:2882245/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:78273/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:2125916/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:2417586/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:3114333/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:1917901/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:231637/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:1818415/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:695210/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:28719/68‑1 (MQ=255)
                 ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGa                                     >  1:1962934/1‑69 (MQ=255)
                        tATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCg                              >  1:1270347/1‑69 (MQ=255)
                        tATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCg                              >  1:34455/1‑69 (MQ=255)
                            gCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCAcc                          <  1:1880692/69‑1 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:3037244/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCg                              >  1:1344317/1‑58 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGCCctg                    >  1:2546973/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:2891946/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:2946027/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:1379220/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:3304952/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:2951862/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:1629009/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:1390856/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:1445935/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:2562333/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:2444062/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:2426963/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:410982/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:428147/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:835703/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:1964370/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:507666/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACctg                    >  1:2041087/1‑68 (MQ=255)
                                   aaaCCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACct                     >  1:2439002/1‑67 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:3067951/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:682152/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:555313/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:915540/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:552195/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:3294078/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:466670/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:819884/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:300162/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:305508/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:1181210/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:2629457/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:1579182/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:2389088/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:2040432/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:2217772/69‑1 (MQ=255)
                                      cccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCCCACCGACCTGCTGa                <  1:290726/69‑1 (MQ=255)
                                       ccGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                <  1:3335586/68‑1 (MQ=255)
                                                  tGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg                                      <  1:2376953/35‑1 (MQ=255)
                                                    gCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGt  >  1:1147860/1‑69 (MQ=255)
                                                    gCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGt  >  1:1492226/1‑69 (MQ=255)
                                                    gCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGt  >  1:1536263/1‑69 (MQ=255)
                                                    gCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGt  >  1:2769139/1‑69 (MQ=255)
                                                    gCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGt  >  1:2941543/1‑69 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:2224714/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:20743/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:224252/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:1827544/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:1689045/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:2562038/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:1552567/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:712748/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:1549944/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:3370767/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:150812/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:1485287/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:138027/1‑53 (MQ=255)
                                                      acaGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGa                >  1:289097/1‑53 (MQ=255)
                                                            |                                                            
CAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGATTGGTCGCACCGACCTGCTGAAAGAGCTGGACGGT  >  minE/2183219‑2183339

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