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
A29 F119 I0 R1	76	56.4	2152892	90.0%	1937602	142.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	1,440,791	C→T	100%	intergenic (‑7/‑267)	ydbK ← / → ydbJ	putative pyruvate‑flavodoxin oxidoreductase/DUF333 domain‑containing protein YdbJ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,440,791	0	C	T	100.0%	127.7 / ‑6.7	45	intergenic (‑7/‑267)	ydbK/ydbJ	putative pyruvate‑flavodoxin oxidoreductase/DUF333 domain‑containing protein YdbJ
Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (31/12); total (32/13)
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTTAAGCCGTTTCCGGCCCAGGCATCAGCCTGTTCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACACCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCACATCAGCGTAATGAATGTTTTGATCAAACA  >  NC_000913/1440651‑1440928

tttAAGCCGTTTCCGGCCCAGGCATCAGCCTGTTCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACAtcc                                                                                                                                         >  1:603043/1‑143 (MQ=255)

tttAAGCCGTTTCCGGCCCAGGCATCAGCCTGTTCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACAtcc                                                                                                                                         >  1:28365/1‑143 (MQ=255)

  tAAGCCGTTTCCGGCCCAGGCATCAGCCTGTTCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCtt                                                                                                                                       >  1:883276/1‑143 (MQ=255)

   aaGCCGTTTCCGGCCCAGGCATCAGCCTGTTCTGCCATCGTGGAACAGGGGGCAATACGGCAGATGACGATAACTTCACTGGTGCGAACTGCGACCGAACCAACCGCGCCATTACCGTCACCAGTCACACTATGACATCCtca                                                                                                                                      >  2:959500/1‑141 (MQ=255)

    aGCCGTTTCCGGCCCAGGCATCAGCCTGTTCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAACCATATGACATCCTTAc                                                                                                                                     >  2:230569/1‑143 (MQ=255)

     gCCGTTTCCGGCCCAGGCATCAGCCTGTTCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACCTCCTTACa                                                                                                                                    >  1:51339/1‑143 (MQ=255)

                   aGGCATCAGCCTGTTCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATAATATGACATCCTACCATTACGCaacaaagg                                                                                                                      >  2:674625/1‑137 (MQ=255)

                        tCAGCCTGTTCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGgcgc                                                                                                                 >  1:1068382/1‑143 (MQ=255)

                        tCAGCCTGTTCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGgcgc                                                                                                                 >  1:551196/1‑143 (MQ=255)

                                ttCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGTCAGTCTTACATTGCGCAAATGAGGGGCGCACGAAAtt                                                                                                         >  1:339119/1‑143 (MQ=255)

                                ttCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAACtt                                                                                                         >  1:341355/1‑143 (MQ=255)

                                       aTCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCCTACATTGCGCAAAAGAGGCGCGCACGAAATTGCTgggc                                                                                                  >  2:142824/1‑143 (MQ=255)

                                           tGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCACTAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAACTGGCTgcccgccc                                                                                              >  2:591714/1‑143 (MQ=255)

                                           tGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTCCGCACCTGCGGGGCGCACGAAATTGCTGCGCGccc                                                                                              >  1:484631/1‑143 (MQ=255)

                                            ggAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAACTTGCTGCGCGCCCa                                                                                             >  1:433578/1‑143 (MQ=255)

                                            ggAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCa                                                                                             <  1:909762/143‑1 (MQ=255)

                                              aaCTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCagt                                                                                           >  1:869772/1‑143 (MQ=255)

                                                        aaTCGGTTAGATGGCGATAACTTCACTGGTGCGAAATGTGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCttt                                                                                 <  2:601154/143‑1 (MQ=255)

                                                             ggTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGGCGTAATCTTTCAAtt                                                                            >  1:424397/1‑143 (MQ=255)

                                                              gTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCAGCTGACATCCTTACATTGCGCAAACGAGGGGCGCGCGAAAGTGCTGCGCGCCCAGTAGTAAACATTCAAtat                                                                           >  2:30805/1‑141 (MQ=255)

                                                                cgATGGCGATCACTTCACTGGTGCGAAATGCGACCGCAGCAACCGCGCCATTAGCGTAAATAGTACTTATATCGGGCTCTTTCGTCTTGTTGATGAGGGGCGCACGAAATTGATGCGCGCCCATTAGTAATCTTTCAATTTTa                                                                         <  2:760086/142‑1 (MQ=255)

                                                                          aaCTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCt                                                               <  2:711611/143‑1 (MQ=255)

                                                                             ttCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCCAATGGCTttc                                                            >  1:397518/1‑143 (MQ=255)

                                                                             ttCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGAGCACGAAATTGCTGCGCGCCCAGGAGTAATCTTTCAATTTTACCAAATGGCTttc                                                            >  2:644046/1‑143 (MQ=255)

                                                                                 ccgctGCCAAACGCGACCGAAGCAACCGCGCCATTAACGTCAATAGTAATCATATGACATCCTTACATTGCGCCAATGAGCGGCGCACGACATTGCTGCGCGCCCAGCAGTAATCTTTCAATTTTAGCAAATGGCTTtcttct                                                        <  2:828708/139‑1 (MQ=255)

                                                                                    gTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCa                                                     <  1:216724/143‑1 (MQ=255)

                                                                                     tGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGCGCGCACGAAATTGCCGCGCGCACAGTAGTAATCATTCAATTTTAGCAAATGGCCGTCTCCTGCAt                                                    >  2:407983/1‑143 (MQ=255)

                                                                                       cGAACTGTGACCTAAGCAACCGCGCCATTACCGTCAAGAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCAttt                                                  <  2:363584/143‑1 (MQ=255)

                                                                                         aaaTGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGAGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTc                                                >  1:764899/1‑143 (MQ=255)

                                                                                           aTGCGACCGAAGCAACCGCGCCATTACCGTCAAAAGTAGTCATATGACATCCCTACATTGCGCGAATGAGGGGCGCACGAAATTTCGGCGCGCCCCGTCGGAATCTTTCCATTTTATCAAATGGCTGTCCTCTGCCTTTTCGc                                              >  2:813586/1‑143 (MQ=255)

                                                                                                     aGCAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTcc                                    >  1:619240/1‑143 (MQ=255)

                                                                                                       cAACCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCACTTTTAGCAACTGGCTTTCTTCTGCATTTTCGCTTTTGTGTcccc                                  >  1:638081/1‑143 (MQ=255)

                                                                                                         aCCGCGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCCCACGCAATTGCTGCGCGCCCAGTAGTAATCTTTCCATTTTACCAAATAGCCTTCTTCTGCATTTTCGCTTTTGTGTcccccc                                >  2:644884/1‑142 (MQ=255)

                                                                                                          ccGTGCCATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCCGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCcac                               <  2:322489/143‑1 (MQ=255)

                                                                                                              gcCAGTACCGGCAATAGTAAGCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCACATCa                           <  1:1073545/143‑1 (MQ=255)

                                                                                                               cctttACCGTACACAGTAATCATATCACATCCTTCCATTGCGCAAATGAGTGGCGCACGAAATTGCTGCGCGACCAGTAGTAATCTTTCAATTTTAGCAAATGTCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCACATCAg                          <  2:920884/140‑1 (MQ=255)

                                                                                                                cATTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCCCagcagc                         >  1:406866/1‑143 (MQ=255)

                                                                                                                 aTTACCGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCACATCAGCg                        >  1:842052/1‑143 (MQ=255)

                                                                                                                     ccGTCAATAGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTCTTGTGTCACCCACATCAGCGGaat                    >  2:976895/1‑143 (MQ=255)

                                                                                                                             aGTAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCACATCAGCGTAATGAATGttt            <  2:603043/143‑1 (MQ=255)

                                                                                                                               tAATCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCACATCAGCGTAATGAATGttttc          >  1:81565/1‑142 (MQ=255)

                                                                                                                               tAATCATATGACATCCTTACATTGCGCAAATAAGGAGCGCACGAGATTGCTGCCCGCCCAGGAGTAATCGTTCACTTTTAGCAAATGGCTTGCTTCTGCATGTTGGCTTTTGTGTCCCCCACGTCAGCGTAATGAATGTTTTg          >  1:585773/1‑143 (MQ=255)

                                                                                                                                aaTCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCGGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTAAGCACTCTCTCTTTTGTGTCCCCCACATCAGCGTAATGAATGTTTTGa         <  1:1020183/143‑1 (MQ=255)

                                                                                                                                 aTCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCACATCAGCGTAATGAATGTTTTGAt        <  1:306994/143‑1 (MQ=255)

                                                                                                                                  tCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTCATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCACATGAGCGGAATGAATGTTTTGATc       >  1:320242/1‑143 (MQ=255)

                                                                                                                                  tCATATGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCACATCAGCGTAATGAATGTTTTGATc       >  1:161928/1‑143 (MQ=255)

                                                                                                                                       tGACATCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCACACCCGCGTAATGACTGTTTTGATCAAAcg  >  2:707518/1‑142 (MQ=255)

TTTAAGCCGTTTCCGGCCCAGGCATCAGCCTGTTCTGCCATCGTGGAACTGGGGGTAATAGGGTAGATGGCGATAACTTCACTGGTGCGAAATGCGACCGAAGCAACCGCGCCATTACCGTCAATAGTAATCATATGACACCCTTACATTGCGCAAATGAGGGGCGCACGAAATTGCTGCGCGCCCAGTAGTAATCTTTCAATTTTAGCAAATGGCTTTCTTCTGCATTTTCGCTTTTGTGTCCCCCACATCAGCGTAATGAATGTTTTGATCAAACA  >  NC_000913/1440651‑1440928

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A