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
A1 F21 I0 R1	476	35.3	2812105	96.7%	2719305	61.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	W3110S.gb	4,099,912	C→T	86.3%	A34T (GCT→ACT)	feoB ←	fused ferrous iron transporter, protein B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	4,099,912	0	C	T	86.3%	122.9 / 13.2	51	A34T (GCT→ACT)	feoB	fused ferrous iron transporter, protein B
Reads supporting (aligned to +/- strand): ref base C (3/4); new base T (19/25); total (22/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01

TCCACCAGCGTGACCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGCCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGTCTTGCCAGAATTTGG  >  W3110S.gb/4099845‑4099978

tCCACCAGCGTGACCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGCCCa                                                                 <  1:794455/71‑1 (MQ=255)

   accaGCGTGACCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGtt                                                              <  1:1101060/71‑1 (MQ=255)

    ccaGCGTGACCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCa                                                                 <  1:757398/67‑1 (MQ=255)

    ccaGCGTGACCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTa                                                             >  1:1415160/1‑71 (MQ=255)

      aGCGTGACCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTAcc                                                           >  1:1989030/1‑71 (MQ=255)

      aGCGTGACCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGCCCAGTTAcc                                                           >  1:186259/1‑71 (MQ=255)

       gCGTGACCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCa                                                                 <  1:1096655/64‑1 (MQ=255)

       gCGTGACCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCa                                                                 <  1:1379924/64‑1 (MQ=255)

         gTGACCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGCCCAGTTACCTa                                                         >  1:2607339/1‑70 (MQ=255)

            aCCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGtt                                                              <  1:1901560/62‑1 (MQ=255)

            aCCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGtt                                                              <  1:2739042/62‑1 (MQ=255)

              cTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCt                                                   <  1:2040214/71‑1 (MQ=255)

                gatgatCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTa                                                             >  1:1918887/1‑59 (MQ=255)

                gatgatCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTa                                                             >  1:2351280/1‑59 (MQ=255)

                gatgatCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTa                                                             >  1:2704809/1‑59 (MQ=255)

                  tgatCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGtt                                                              <  1:1899641/56‑1 (MQ=255)

                  tgatCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGtt                                                              <  1:1970524/56‑1 (MQ=255)

                  tgatCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGtt                                                              <  1:1255736/56‑1 (MQ=255)

                  tgatCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACg                                               >  1:2479172/1‑71 (MQ=255)

                  tgatCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACg                                               >  1:1392223/1‑71 (MQ=255)

                        gtggtgGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGcc                                         <  1:1170856/71‑1 (MQ=255)

                        gtggtgGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGcc                                         <  1:871271/71‑1 (MQ=255)

                        gtggtgGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGcc                                         <  1:2448950/71‑1 (MQ=255)

                        gtggtgGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGCCCAGTTACCTACACGCTGACGTGAGcc                                         <  1:1339132/71‑1 (MQ=255)

                           gtggAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAg                                       <  1:2737961/70‑1 (MQ=255)

                            tggAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTg                                     <  1:952808/71‑1 (MQ=255)

                                 aaTTGCCCTTCTTTACGTTCGACGGTAACGCCAGCCCAGTTACCTACACGCt                                                   <  1:1969078/52‑1 (MQ=255)

                                     gCCCTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTa                                                         >  1:454299/1‑42 (MQ=255)

                                      cccTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTaa                           <  1:1992601/71‑1 (MQ=255)

                                      cccTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTa                            <  1:2528298/70‑1 (MQ=255)

                                      cccTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTa                            <  1:2562325/70‑1 (MQ=255)

                                      cccTTCTTTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTa                            <  1:2636774/70‑1 (MQ=255)

                                         ttcttTACGTTCGACGGTAACGCCAGTCCAGTTAc                                                            >  1:2627584/1‑35 (MQ=255)

                                           cttTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATa                        <  1:2425990/69‑1 (MQ=255)

                                           cttTACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAAc                      >  1:629531/1‑71 (MQ=255)

                                            tttACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACg                     >  1:1604730/1‑71 (MQ=255)

                                              tACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAAc                      <  1:1606154/68‑1 (MQ=255)

                                              tACGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAAc                      >  1:904746/1‑68 (MQ=255)

                                               aCGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGtt                   <  1:1544168/70‑1 (MQ=255)

                                                cGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGt                 <  1:718501/71‑1 (MQ=255)

                                                cGTTCGACGGTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGt                 <  1:894255/71‑1 (MQ=255)

                                                         gTAACGCCAGTCCAGTTACCTACACGCTGACGTGAGcc                                         <  1:379738/38‑1 (MQ=255)

                                                           aaCGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAg                                       >  1:432695/1‑38 (MQ=255)

                                                           aaCGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAg                                       >  1:1511560/1‑38 (MQ=255)

                                                           aaCGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGTCTTg             >  1:2274552/1‑64 (MQ=255)

                                                           aaCGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGTCTTGCCAGaa       >  1:998922/1‑70 (MQ=255)

                                                           aaCGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGTCTTGCCAGAAt      >  1:84403/1‑71 (MQ=255)

                                                           aaCGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGTCTTGCCAGAAt      >  1:2331052/1‑71 (MQ=255)

                                                           aaCGCCAGCCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGTCTTGCCAGAAt      >  1:1290766/1‑71 (MQ=255)

                                                            aCGCCAGTCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGTCTTGCCAGAAtt     >  1:905607/1‑71 (MQ=255)

                                                               ccagtccagtTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGTCTTGCCAGAATTTg   >  1:1556337/1‑70 (MQ=255)

                                                               ccAGCCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGTCTTGCCAGAATTTgg  <  1:35395/71‑1 (MQ=255)

TCCACCAGCGTGACCTGATGATCGGTGGTGGAGAATTGCCCTTCTTTACGTTCGACGGTAACGCCAGCCCAGTTACCTACACGCTGACGTGAGCCAGTGAGCTGGTTAAATAACGTTGTCTTGCCAGAATTTGG  >  W3110S.gb/4099845‑4099978

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A