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
A10 F1 I2 R1 757 38.1 1607544 96.5% 1551279 117.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,525,930 C→T *309* (TAG→TAA)  yfeR ← transcriptional regulator of yefH

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,525,9300CT100.0% 181.1 / NA 56*309* (TAG→TAA) yfeRtranscriptional regulator of yefH
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (33/23);  total (33/23)

ACATTACTACGGGGATTCAGTATCGATATGCGGATGACAAACTGGGCGAAGATTTTTACCAGGATGCGATAATCTACTCCATCAAATTTAACTTCTGATTGATTACTGCCGGGGCTCCCGGCAGTATGAATTCACTCTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCACCAGCAT  >  NC_000913/2525794‑2526052
                                                                                                                                        |                                                                                                                          
caacatcacacattactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTta                                                                                                                          >  1:710710‑M2/133‑139 (MQ=255)
caacatcacacattactacggggatccagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTta                                                                                                                          >  1:187748‑M2/133‑139 (MQ=255)
    atcacacattactacggggattcagtatcgatatgcggatgacaaactgggcgaatatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATc                                                                                                                      <  1:401299‑M2/11‑1 (MQ=255)
      cacacattactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTg                                                                                                                    >  2:307963‑M2/127‑139 (MQ=255)
      cacacattactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatccactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTg                                                                                                                    >  2:657568‑M2/127‑139 (MQ=255)
       acacattactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGa                                                                                                                   <  2:285162‑M2/14‑1 (MQ=255)
        cacattactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGAt                                                                                                                  >  1:490632‑M2/125‑139 (MQ=255)
             tactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATAc                                                                                                                <  2:144186‑M2/17‑1 (MQ=255)
             tactacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATAc                                                                                                                >  1:144186‑M2/120‑136 (MQ=255)
              actacggggattcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACg                                                                                                            <  2:299970‑M2/21‑1 (MQ=255)
                       attcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCtt                                                                                                   >  1:392701‑M2/110‑139 (MQ=255)
                       attcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCtt                                                                                                   >  2:130094‑M2/110‑139 (MQ=255)
                       attcagtatcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCtt                                                                                                   >  2:210212‑M2/110‑139 (MQ=255)
                         tcagtatcgatatgcggatgacaaactgggcgaagatttttaccagcatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTcc                                                                                                 >  1:751406‑M2/108‑139 (MQ=255)
                               tcgatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCa                                                                                           <  2:790113‑M2/38‑1 (MQ=255)
                                 gatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACg                                                                                                            >  1:277102‑M2/100‑120 (MQ=255)
                                 gatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACg                                                                                                            <  2:277102‑M2/21‑1 (MQ=255)
                                 gatatgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGc                                                                                         >  1:14397‑M2/100‑139 (MQ=255)
                                     tgcggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCAtt                                                                                     >  1:284603‑M2/96‑139 (MQ=255)
                                       cggatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAg                                                                                   >  1:444516‑M2/94‑139 (MQ=255)
                                         gatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGccc                                                                                            >  1:233283‑M2/92‑128 (MQ=255)
                                         gatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGccc                                                                                            <  2:233283‑M2/37‑1 (MQ=255)
                                         gatgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAgcg                                                                                 >  1:153429‑M2/92‑139 (MQ=255)
                                           tgacaaactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCa                                                                               <  2:153429‑M2/50‑1 (MQ=255)
                                                aactgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGcc                                                                          <  1:125809‑M2/55‑1 (MQ=255)
                                                 actgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGccc                                                                         >  2:81545‑M2/84‑139 (MQ=255)
                                                   tgggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTg                                                                       <  1:582516‑M2/58‑1 (MQ=255)
                                                    gggcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTgg                                                                      >  1:226267‑M2/81‑139 (MQ=255)
                                                      gcgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGtc                                                                    <  1:210212‑M2/61‑1 (MQ=255)
                                                       cgaagatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATTTGATACAACCGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGtct                                                                   >  1:191541‑M2/78‑139 (MQ=255)
                                                          agatttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGt                                                                >  2:57868‑M2/75‑139 (MQ=255)
                                                             tttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTAcc                                                             <  2:392701‑M2/68‑1 (MQ=255)
                                                             tttttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTAcc                                                             <  1:130094‑M2/68‑1 (MQ=255)
                                                                ttaccaggatgcgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACg                                                          <  1:539810‑M2/71‑1 (MQ=255)
                                                                           cgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACg                                                          <  2:529264‑M2/71‑1 (MQ=255)
                                                                           cgataatctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACg                                                          >  1:529264‑M2/58‑128 (MQ=255)
                                                                                atctactccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAg                                          <  1:81545‑M2/87‑1 (MQ=255)
                                                                                     ctccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAgcggcg                                     >  1:344184‑M2/48‑139 (MQ=255)
                                                                                     ctccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAgcg                                        <  1:136240‑M2/89‑1 (MQ=255)
                                                                                     ctccatcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAgcg                                        >  2:136240‑M2/48‑136 (MQ=255)
                                                                                        catcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGt                                                                <  2:527776‑M2/65‑1 (MQ=255)
                                                                                        catcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGt                                                                >  1:527776‑M2/45‑109 (MQ=255)
                                                                                        catcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTg                                  >  1:622723‑M2/45‑139 (MQ=255)
                                                                                         atcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCTTGGTCTCGTACCACGTCCCATAAAGATTCAGCCGCGGTgg                                 <  2:490632‑M2/96‑1 (MQ=255)
                                                                                          tcaaatttaacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGa                                >  1:71398‑M2/43‑139 (MQ=255)
                                                                                                 taacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGaa                         <  2:444516‑M2/104‑1 (MQ=255)
                                                                                                  aacttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAAc                        <  2:11763‑M2/105‑1 (MQ=255)
                                                                                                    cttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGcggcgg                                    >  1:741777‑M2/33‑125 (MQ=255)
                                                                                                    cttctgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGcggcgg                                    <  2:741777‑M2/93‑1 (MQ=255)
                                                                                                        tgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGttct                  >  1:403136‑M2/29‑139 (MQ=255)
                                                                                                        tgattgattactgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGttct                  >  1:307093‑M2/29‑139 (MQ=255)
                                                                                                                 actgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCa         <  2:226267‑M2/120‑1 (MQ=255)
                                                                                                                 actgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCa         >  1:241080‑M2/20‑139 (MQ=255)
                                                                                                                  ctgccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCAc        >  2:617215‑M2/19‑139 (MQ=255)
                                                                                                                    gccggggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCACCa      >  1:616199‑M2/17‑139 (MQ=255)
                                                                                                                        gggctcccggcaCACTTTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCACCAGCAt  >  1:754521‑M2/13‑139 (MQ=255)
                                                                                                                                        |                                                                                                                          
ACATTACTACGGGGATTCAGTATCGATATGCGGATGACAAACTGGGCGAAGATTTTTACCAGGATGCGATAATCTACTCCATCAAATTTAACTTCTGATTGATTACTGCCGGGGCTCCCGGCAGTATGAATTCACTCTATATCTGATACAACGGATCCCCTTCCCGCCCAGCCATTAGCGCATTGCCCTGGTCTCGTACCACGTCCCATAAAGCTTCAGCGGCGGTGGAAAGTGAACGGTTCTTCCTGCGCACCAGCAT  >  NC_000913/2525794‑2526052

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A