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 F60 I1 R1	57	32.8	3585168	30.6%	1097061	139.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,768,355	C→T	S60L (TCA→TTA)	yibG →	tetratricopeptide‑like domain‑containing protein YibG

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,768,355	0	C	T	98.1%	170.4 / ‑4.0	52	S60L (TCA→TTA)	yibG	tetratricopeptide‑like domain‑containing protein YibG
Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (23/28); total (23/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01

AATTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATCATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATGGGGTCTTTTTATCAGATACAAATC  >  NC_000913/3768223‑3768489

aaTTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGa                                                                                                                                 <  2:1700897/140‑1 (MQ=255)

aaTTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGa                                                                                                                                 <  1:1289781/140‑1 (MQ=255)

aaTTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGa                                                                                                                                 <  2:1528361/140‑1 (MQ=255)

aaTTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGa                                                                                                                                 <  1:1734919/140‑1 (MQ=255)

    gCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACtat                                                                                                                             <  1:1399319/140‑1 (MQ=255)

    gCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACtat                                                                                                                             <  1:1420916/140‑1 (MQ=255)

     cATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACtata                                                                                                                            >  1:1697816/1‑140 (MQ=255)

       tGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATc                                                                                                                          <  2:1264261/140‑1 (MQ=255)

       tGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATc                                                                                                                          <  1:1583818/140‑1 (MQ=255)

          tGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAat                                                                                                                       >  1:1285056/1‑140 (MQ=255)

            cTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAatat                                                                                                                     <  2:1668711/140‑1 (MQ=255)

            cTGATGTGAAAATAAAACAAAACGAAAGGATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAatat                                                                                                                     >  1:1656047/1‑140 (MQ=255)

              gATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTa                                                                                                                   <  2:1448458/140‑1 (MQ=255)

                    aaaaTAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCtt                                                                                                             >  2:1785991/1‑140 (MQ=255)

                    aaaaTAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCtt                                                                                                             >  1:1303379/1‑140 (MQ=255)

                    aaaaTAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCtt                                                                                                             >  1:1627904/1‑140 (MQ=255)

                    aaaaTAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCtt                                                                                                             >  1:1641245/1‑140 (MQ=255)

                    aaaaTAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCtt                                                                                                             >  2:1579462/1‑140 (MQ=255)

                    aaaaTAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCtt                                                                                                             >  1:1352837/1‑140 (MQ=255)

                           aacaaaacGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGGATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTaaa                                                                                                      >  2:1573852/1‑140 (MQ=255)

                              aaaacGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAAt                                                                                                   <  2:1682410/140‑1 (MQ=255)

                                     aaGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACAttt                                                                                            >  1:1621842/1‑140 (MQ=255)

                                                 gTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGc                                                                                <  2:1541764/140‑1 (MQ=255)

                                                    tACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGAt                                                                             <  1:1456070/140‑1 (MQ=255)

                                                           aTGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGa                                                                      >  1:1305723/1‑140 (MQ=255)

                                                            tGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGaa                                                                     >  2:1316395/1‑140 (MQ=255)

                                                                   tGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAg                                                              <  2:1697816/140‑1 (MQ=255)

                                                                          aGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCa                                                       >  1:1679593/1‑140 (MQ=255)

                                                                           gTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAg                                                      <  1:1573852/140‑1 (MQ=255)

                                                                             gaagaaAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAggg                                                    <  1:1457804/140‑1 (MQ=255)

                                                                             gaagaaAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAggg                                                    >  1:1543498/1‑140 (MQ=255)

                                                                                      ttGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTAc                                           >  1:1675096/1‑140 (MQ=255)

                                                                                        gatgaAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAg                                         <  1:1780153/140‑1 (MQ=255)

                                                                                        gatgaAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAg                                         <  2:1632902/140‑1 (MQ=255)

                                                                                         atgaAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAgc                                        <  2:1621842/140‑1 (MQ=255)

                                                                                          tgaATCTGAAGTATAAAGCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAgcg                                       <  1:1615285/140‑1 (MQ=255)

                                                                                          tgaAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAgcg                                       <  1:1579462/140‑1 (MQ=255)

                                                                                          tgaAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAgcg                                       <  2:1305723/140‑1 (MQ=255)

                                                                                          tgaAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAgcg                                       <  2:1335541/140‑1 (MQ=255)

                                                                                             aaCTGAAGTATAAATCACAACATGGTGATTCAGAGGCATCATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAg                                    <  1:1455657/140‑1 (MQ=255)

                                                                                                       taAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATg                          >  2:1367555/1‑140 (MQ=255)

                                                                                                       taAATCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATg                          <  2:1303379/140‑1 (MQ=255)

                                                                                                         aaTCACAACATGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATggg                        <  2:1352837/140‑1 (MQ=255)

                                                                                                               aacaTGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCGGTTTAATTATGGGGTCttt                  <  2:1675096/140‑1 (MQ=255)

                                                                                                                 caTGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATGGGGTCttttt                >  2:1683236/1‑140 (MQ=255)

                                                                                                                 caTGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATGGGGTCttttt                >  2:1431069/1‑140 (MQ=255)

                                                                                                                   tGGTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATGGGGTCTTTTTAt              <  2:1627904/140‑1 (MQ=255)

                                                                                                                    ggTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATGGGGTCTTTTTATc             >  2:1504117/1‑140 (MQ=255)

                                                                                                                    ggTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATGGGGTCTTTTTATc             >  1:1259876/1‑140 (MQ=255)

                                                                                                                    ggTGATTCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATGGGGTCTTTTTATc             >  2:1408106/1‑140 (MQ=255)

                                                                                                                          tCAGAGGCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATGGGGTCTTTTTATCAGATAc       <  1:1316395/140‑1 (MQ=255)

                                                                                                                               ggCATTATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATGGGGTCTTTTTATCAGATACAAATc  >  2:1509358/1‑140 (MQ=255)

AATTGCATGGTGCTGATGTGAAAATAAAACAAAACGAAAGTATGATGGGGTCTACAGCAATGACCTATGATTTAAGTGAAGAAAAGTTGATGAAACTGAAGTATAAATCACAACATGGTGATTCAGAGGCATCATTTCGACTATATCAATATTACTGCTTTACTAAAAATAACATTTACAAACAATTGCGATTCTTGGAAAGATCAGCATCTCAGGGGAATGTTACAGCGCAGTTTAATTATGGGGTCTTTTTATCAGATACAAATC  >  NC_000913/3768223‑3768489

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A