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 F50 I1 R1	170	39.5	1266514	99.2%	1256381	150.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,124,614	A→G	V238A (GTG→GCG)	mdtH ←	multidrug resistance efflux transporter conferring overexpression resistance to norfloxacin and enoxacin

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,124,614	0	A	G	96.8%	90.5 / ‑3.9	31	V238A (GTG→GCG)	mdtH	multidrug resistance efflux transporter conferring overexpression resistance to norfloxacin and enoxacin
Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (14/16); total (14/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.16e-01

GCTTAATGACATTATCAACAGCCCAGCCATCAACCGGTGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACGGGCGTGCGTACGGTGGAGAGTT  >  NC_000913/1124466‑1124761

gCTTAATGACATTATCAACAGCCCAGCCATCAACCGGTGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCcgcg                                                                                                                                                   <  1:429111/151‑1 (MQ=255)

    aaTGACATTATCAACAGCCCAGCCATCAACCGGTGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGcgtcg                                                                                                                                                <  1:170824/150‑1 (MQ=255)

       gACATTATCAACAGCCCAGCCATCAACCGGTGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGa                                                                                                                                            <  1:626610/151‑1 (MQ=255)

                       cagccATCAACCGGTGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGcagcat                                                                                                                            <  2:31010/151‑1 (MQ=255)

                                   ggTGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTg                                                                                                                <  1:207336/151‑1 (MQ=255)

                                          cAGATGAAAATGCTTTTCACTCCAGCGGTCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGATGACCATAATTGGCAGCATCAGCATCACTTGTAcagcc                                                                                                         >  1:441494/1‑151 (MQ=255)

                                          cAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTAcagcc                                                                                                         >  2:119619/1‑151 (MQ=255)

                                             aCGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTAcagccagc                                                                                                      >  2:630159/1‑151 (MQ=255)

                                               gAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCAt                                                                                                    >  2:510482/1‑151 (MQ=255)

                                                 aaaTGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATgt                                                                                                  <  2:591749/151‑1 (MQ=255)

                                                  aaTGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATgta                                                                                                 <  2:176997/151‑1 (MQ=255)

                                                          tCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCg                                                                                         >  1:131287/1‑151 (MQ=255)

                                                           cACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGc                                                                                        <  2:236490/151‑1 (MQ=255)

                                                               ccAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCa                                                                                      <  1:551691/149‑1 (MQ=255)

                                                                       caaTAGGGTAGAGCAACGTTACCGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAAc                                                                            <  2:355433/149‑1 (MQ=255)

                                                                        gATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAAc                                                                            >  1:460407/1‑150 (MQ=255)

                                                                           aGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATa                                                                         <  1:501964/150‑1 (MQ=255)

                                                                             ggTAGAGCAACGTTAACGACAGACCCGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTACCCCGCCAGCGTCAGAACATAGGt                                                                      <  2:281799/151‑1 (MQ=255)

                                                                                 gagCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGAc                                                                   <  1:512182/150‑1 (MQ=255)

                                                                                                             aTGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTc                                       >  2:603449/1‑150 (MQ=255)

                                                                                                               ggCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCAt                                     <  1:107871/150‑1 (MQ=255)

                                                                                                                  aTACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCt                                 >  2:389713/1‑151 (MQ=255)

                                                                                                                   tACATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCtt                                >  2:337303/1‑151 (MQ=255)

                                                                                                                    aCATCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTc                               <  1:246984/151‑1 (MQ=255)

                                                                                                                      aTCCATTTAACGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTcgc                             >  2:211802/1‑151 (MQ=255)

                                                                                                                               aCGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACGGgcg                    >  2:369552/1‑151 (MQ=255)

                                                                                                                                cGGCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACGGgcg                    <  1:57525/150‑1 (MQ=255)

                                                                                                                                  gCAGAGGGCGCGCCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACGGgcgtgc                 >  1:531014/1‑151 (MQ=255)

                                                                                                                                       gggCGCGCGAGCCGCGTCGTTGACCATAATGGGCAGCATCAGCGTCATTTGTACAGCAAGCATGTTGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACGGGCGTGCGTAc             <  2:600559/150‑1 (MQ=255)

                                                                                                                                         gcgcgcCAGCCGCGTCGTTGAACATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACGGGCGTGCGTACGGt          <  1:609831/151‑1 (MQ=255)

                                                                                                                                           gcgcCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGAAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACCGGCGTTCGTACtgtg         >  2:135963/1‑150 (MQ=255)

                                                                                                                                            cgcCAGCCGCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACGGGCGTGCGTACGGTgg        >  2:606887/1‑150 (MQ=255)

                                                                                                                                                agccgCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACGGGCGTGCGTACGGTGGAGAGt   >  2:232622/1‑151 (MQ=255)

                                                                                                                                                agccgCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACGGGCGTGCGTACGGTGGAGAGt   >  2:441343/1‑151 (MQ=255)

                                                                                                                                                 gccaCGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACGGGCGTGCGTACGGTGGAGAGtt  >  2:577854/1‑151 (MQ=255)

GCTTAATGACATTATCAACAGCCCAGCCATCAACCGGTGTTCCAGACGAAAATGCTTTTCACTCCAGCGGGCGATAGGGTAGAGCAACGTTAACGACAGACACGCTTCAATGGCATACATCCATTTAACGGCAGAGGGCGCGCCAGCCACGTCGTTGACCATAATTGGCAGCATCAGCATCACTTGTACAGCCAGCATGTAGTAACCCGCCAGCGTCAGAACATAGGTGACAAAACGCTTGTCACGCATCACGCGGGTCATGCCTTCGCGAACGGGCGTGCGTACGGTGGAGAGTT  >  NC_000913/1124466‑1124761

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A