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
A14 F56 I20 R2 1958 92.1 3575798 91.1% 3257551 126.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA CP006881 2,198,075 C→T V21V (GTG→GTA)  U712_11010 ← Chorismate synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068812,198,0750CT100.0% 110.4 / NA 36V21V (GTG→GTA) U712_11010Chorismate synthase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (6/30);  total (6/30)

CGTGCATGACGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGGCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGCACACCTTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAAACTACTATAACATATTTTTCAGCAAAAAGT  >  CP006881/2197941‑2198207
                                                                                                                                      |                                                                                                                                    
cGTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCTTGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTATAGCCCGGCAGGtaca                                                                                                                                   <  3:77790/138‑1 (MQ=255)
 gTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCTGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACAcc                                                                                                                                 <  8:62843/139‑1 (MQ=255)
 gTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACAcc                                                                                                                                 <  5:177948/139‑1 (MQ=255)
 gTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACAcc                                                                                                                                 <  7:399963/139‑1 (MQ=255)
 gTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACAcc                                                                                                                                 <  7:309277/139‑1 (MQ=255)
 gTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACAcc                                                                                                                                 <  4:43522/139‑1 (MQ=255)
 gTGCATGGCGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACAcc                                                                                                                                 <  4:26423/139‑1 (MQ=255)
 gTGCATGGCGCACCCCGCTCATAATTTTGGCCAGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACAcc                                                                                                                                 <  5:79071/139‑1 (MQ=255)
 aggCATGGCGCACCCCGCTCTTAATTTTGGCCTGGTCTTTTTCGATGTGCTTGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACAcc                                                                                                                                 <  1:405834/137‑1 (MQ=255)
               ccGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTg                                                                                                                   <  3:35275/139‑1 (MQ=255)
                cGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGt                                                                                                                  <  1:207619/139‑1 (MQ=255)
                cGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGt                                                                                                                  <  5:387914/139‑1 (MQ=255)
                cGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGt                                                                                                                  <  7:301247/139‑1 (MQ=255)
                        aTTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTgg                                                                                                           <  7:239831/138‑1 (MQ=255)
                           ttGGCCTGGTCTTTTTCGATCTGCCTGCGGCGGCCGCGGCCGTGGCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCATCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTggggg                                                                                                        <  2:147105/138‑1 (MQ=255)
                                           cGATCTGCATGCGGCGGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCgg                                                                                        <  1:127216/138‑1 (MQ=255)
                                           cGATCTGCATGCGGCAGCCGCGGCCGTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCgg                                                                                        <  5:121913/138‑1 (MQ=255)
                                                          ggccgcggccgTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCAt                                                                        <  6:419096/139‑1 (MQ=255)
                                                            ccgcggccgTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGa                                                                      <  4:278188/139‑1 (MQ=255)
                                                            ccgcggccgTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGa                                                                      <  1:49567/139‑1 (MQ=255)
                                                            ccgcggccgTGTCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGa                                                                      <  3:223792/139‑1 (MQ=255)
                                                                  ccgTGTCCTTTTCGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTTTGTAAAGCGCGGCTGGTACACCCTCAATAATGGATGTCAGTAGGGGGCCGTGTTATTCTCCGGCTGTTTAATCTCTCATGActtctt                                                                <  7:206304/139‑1 (MQ=255)
                                                                                 cGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATTACTTCTTCTCCCTTCATCGCa                                                  >  8:439534/1‑138 (MQ=255)
                                                                                         aaGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCtt                                         <  5:378589/139‑1 (MQ=255)
                                                                                               aaaaTTGATATCTTACTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGt                                   <  3:118760/139‑1 (MQ=255)
                                                                                                 aaTTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTaa                                 <  2:302659/139‑1 (MQ=255)
                                                                                                   ttGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTaaga                               <  5:219354/139‑3 (MQ=255)
                                                                                                   ttGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTaaga                               <  7:439534/139‑3 (MQ=255)
                                                                                                     gATATCTTCCTCCGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGTCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGac                              <  5:174228/138‑1 (MQ=255)
                                                                                                              ctccGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCgg                                                                                        >  2:223514/1‑71 (MQ=255)
                                                                                                              ctccGTTATGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCgg                                                                                        <  1:223514/71‑1 (MQ=255)
                                                                                                                      tGTAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCGTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATAttttt             >  3:379362/1‑138 (MQ=255)
                                                                                                                        tAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGt                                   <  5:312593/114‑1 (MQ=255)
                                                                                                                        tAAAGCCCGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGt                                   >  6:312593/1‑114 (MQ=255)
                                                                                                                             cccGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTaaa                                                                                >  6:225973/1‑64 (MQ=255)
                                                                                                                             cccGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTaaa                                                                                <  5:225973/64‑1 (MQ=255)
                                                                                                                             cccGGCAGGTACACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATATCATGACTTGTTCTCCCTTCATACCAATAACGCTTTTAATTAAGACTACTATAACATATTTTTCAGCaaa      >  7:357518/1‑138 (MQ=255)
                                                                                                                                ggcaggtaCACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTTAATTTCTCATGACTTATTGTACCTTGATAGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAagt  >  4:168790/1‑139 (MQ=255)
                                                                                                                                ggcaggtaCACCCTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAGACTACTATAACATATTTTTCAGCAAAAagt  >  8:243000/1‑139 (MQ=255)
                                                                                                                                      |                                                                                                                                    
CGTGCATGACGCACCCCGCTCATAATTTTGGCCTGGTCTTTTTCGATCTGCATGCGGCGGCCGCGGCCGTGGCCTTTTTGGCGTCTGGCAAGCTCAAAATTGATATCTTCCTCCGTTATGTAAAGCCCGGCAGGCACACCTTCAATAATGGTTGTCAGTTGGGGGCCGTGTGATTCTCCGGCTGTTAAATATCTCATGACTTCTTCTCCCTTCATCGCATTAACGCTTTTAAGTAAAACTACTATAACATATTTTTCAGCAAAAAGT  >  CP006881/2197941‑2198207

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A