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 1,375,750 C→A 33.6% intergenic (+221/+22) yeiA → / ← mglC predicted oxidoreductase/methyl‑galactoside transporter subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,375,7500CA33.6% 126.5 / 74.5 110intergenic (+221/+22)yeiA/mglCpredicted oxidoreductase/methyl‑galactoside transporter subunit
Reads supporting (aligned to +/- strand):  ref base C (41/32);  new base A (20/17);  total (61/49)
Fisher's exact test for biased strand distribution p-value = 8.42e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01

Only 100 of 115 total aligned reads displayed.

ATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACGGCGAAG  >  minE/1375684‑1375817
                                                                  |                                                                   
aTGCGGCGTGAACGCCTTATCCGGCCTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCg                                                                   <  1:343047/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:351429/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:2799569/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:2195530/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:2126034/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:2846518/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:2774420/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:2035749/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:1904888/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:3062321/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:537557/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:1579321/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:730671/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:1126776/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:1433477/69‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGACTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGAACg                                                                   <  1:1163243/69‑1 (MQ=255)
          aaCGCCTTATCCGGCCTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGAc                                                          >  1:940425/1‑68 (MQ=255)
          aaCGCCTTATCCGGCCTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGAc                                                          >  1:1014234/1‑68 (MQ=255)
          aaCGCCTTATCCGGCCTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGAc                                                          >  1:3412550/1‑68 (MQ=255)
          aaCGCCTTATCCGGCCTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGAc                                                          >  1:1207639/1‑68 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAAt                                                                >  1:1437779/1‑44 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:119310/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:2891553/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:1194347/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:2120885/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:2835795/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:2187673/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:2995102/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:924996/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:256451/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:1788557/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:900718/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:521073/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:608686/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:1542293/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:1532049/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCtt                                       >  1:73476/1‑69 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCt                                        >  1:2251718/1‑68 (MQ=255)
                            cAAAACCACACAGATCATGATGTTATGTGCGTTTATGACAGAATGCGGACCACATTCACATCATTTCtt                                       >  1:1677642/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATg                                                               >  1:2155637/1‑43 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATg                                                               >  1:2444144/1‑43 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTa                                      >  1:1322432/1‑68 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:2619884/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:2479612/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:2402579/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:2340857/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:2978294/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:3081857/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:3093537/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:3325996/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:3370155/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:827501/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:834772/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:1327009/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:1641670/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:1684868/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATCACTTCTTAc                                     >  1:1822577/1‑69 (MQ=255)
                              aaaCCACACAGATCATGATGTTATGTGCGTTTATGAACGAATGCGGACCACAATCACATAACTTCTTAc                                     >  1:2694138/1‑69 (MQ=255)
                               aaCCACACAGATCATGATGTTATGTGCGTTTATGACCg                                                                   <  1:2535344/38‑1 (MQ=255)
                                   acacaGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:157491/69‑1 (MQ=255)
                                   acacaGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:2705779/69‑1 (MQ=255)
                                   acacaGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:2112830/69‑1 (MQ=255)
                                   acacaGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:281077/69‑1 (MQ=255)
                                    cacaGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:2385355/68‑1 (MQ=255)
                                        gATCATGATGTTATGTGGGGTTATGACCGAATGCGGACCACAtt                                                    >  1:392289/1‑44 (MQ=255)
                                           cATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCa                         >  1:1056298/1‑68 (MQ=255)
                                                       tgCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAgcgc            <  1:2261607/69‑1 (MQ=255)
                                                       tgCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAgcgc            <  1:865866/69‑1 (MQ=255)
                                                       tgCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAgcgc            <  1:1396443/69‑1 (MQ=255)
                                                        gCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAgcgc            <  1:312446/68‑1 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTa                                      <  1:2171915/37‑1 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTa                                      <  1:239386/37‑1 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTa                                      <  1:1401151/37‑1 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTa                                      <  1:575308/37‑1 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTa                                      <  1:2327763/37‑1 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTa                                      <  1:1779623/37‑1 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACgg       >  1:1825376/1‑68 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACgg       >  1:2939065/1‑68 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACgg       >  1:2333685/1‑68 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACgg       >  1:1597953/1‑68 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACgg       >  1:3024555/1‑68 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACgg       >  1:3043097/1‑68 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACgg       >  1:2641500/1‑68 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACgg       >  1:319761/1‑68 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACgg       >  1:1720591/1‑68 (MQ=255)
                                                             tATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACg        >  1:2110928/1‑67 (MQ=255)
                                                                 aCCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:655581/39‑1 (MQ=255)
                                                                 aCCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:2120340/39‑1 (MQ=255)
                                                                 aCCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:2272764/39‑1 (MQ=255)
                                                                 aCCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:1464746/39‑1 (MQ=255)
                                                                 aCCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:1944700/39‑1 (MQ=255)
                                                                 aCCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:1748704/39‑1 (MQ=255)
                                                                 aCCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:1654707/39‑1 (MQ=255)
                                                                 aCCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:2298971/39‑1 (MQ=255)
                                                                 aCCGAATGCGGACCACATTCACATCATTTCTTAcgcgcg                                <  1:3422909/39‑1 (MQ=255)
                                                                 aCCGAATGCGGACCACATTCAAATCATTTCTTAcgcgcg                                <  1:2921965/39‑1 (MQ=255)
                                                                  ccGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACGGCGAAg  >  1:1898474/1‑68 (MQ=255)
                                                                  ccGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACGGCGAAg  >  1:3386581/1‑68 (MQ=255)
                                                                  ccGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACGGCGAAg  >  1:1329209/1‑68 (MQ=255)
                                                                  ccGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACGGCGAAg  >  1:1715961/1‑68 (MQ=255)
                                                                  |                                                                   
ATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCACACAGATCATGATGTTATGTGCGTTTATGACCGAATGCGGACCACATTCACATCATTTCTTACGCGCGTATTTCAGTGAATCCAGCGCTACGGCGAAG  >  minE/1375684‑1375817

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A