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
A13 F1 I2 R1	92	50.6	2362856	94.3%	2228173	111.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,897,086	T→C	C105R (TGT→CGT)	yieH →	phosphoenolpyruvate and 6‑phosphogluconate phosphatase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,897,086	0	T	C	95.7%	158.0 / ‑1.7	46	C105R (TGT→CGT)	yieH	phosphoenolpyruvate and 6‑phosphogluconate phosphatase
Reads supporting (aligned to +/- strand): ref base T (1/1); new base C (20/24); total (21/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.20e-01

CTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCGGCTACGATATTCAGCGCTGGAAGCCAGACCCGGC  >  NC_000913/3896951‑3897210

cTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAAtgcgtg                                                                                                                           >  2:343315/1‑139 (MQ=255)

cTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAAtgcgtg                                                                                                                           <  1:554605/139‑1 (MQ=255)

cTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAAtgcgtg                                                                                                                           <  2:512660/139‑1 (MQ=255)

           tgtTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAAc                                                                                                                >  1:89541/1‑139 (MQ=255)

                cGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGccc                                                                                                           <  2:253682/139‑1 (MQ=255)

                   tAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCaaa                                                                                                        >  1:311751/1‑139 (MQ=255)

                    aGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAAt                                                                                                       >  2:585013/1‑139 (MQ=255)

                     gCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATa                                                                                                      >  2:946979/1‑139 (MQ=255)

                        aaaaCAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACa                                                                                                   <  1:585013/139‑1 (MQ=255)

                        aaaaCAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACa                                                                                                   <  2:596554/139‑1 (MQ=255)

                             aGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATg                                                                                              <  2:973695/139‑1 (MQ=255)

                             aGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATg                                                                                              <  1:946979/139‑1 (MQ=255)

                                 gCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATgcagc                                                                                          <  1:343315/139‑1 (MQ=255)

                                     aaCACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTc                                                                                      >  2:301211/1‑139 (MQ=255)

                                      acacGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATgcagc                                                                                          >  1:390569/1‑134 (MQ=255)

                                      acacGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATgcagc                                                                                          <  2:390569/134‑1 (MQ=255)

                                         cGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATg                                                                                  <  1:117630/139‑1 (MQ=255)

                                           tttACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAAtgcgtgtg                                                                                                                         >  1:180622/1‑98 (MQ=255)

                                           tttACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAAtgcgtgtg                                                                                                                         <  2:180622/98‑1 (MQ=255)

                                            ttACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGc                                                                               <  1:1137779/139‑1 (MQ=255)

                                               ccGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAg                                                                            <  1:261418/139‑1 (MQ=255)

                                                  tGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTg                                                                         >  1:518818/1‑139 (MQ=255)

                                                   gCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGc                                                                                                             <  1:1167880/102‑1 (MQ=255)

                                                   gCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGc                                                                                                             >  2:1167880/1‑102 (MQ=255)

                                                             cTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCa                                                              <  2:89541/139‑1 (MQ=255)

                                                                 gCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGc                                                                               <  1:1133959/118‑1 (MQ=255)

                                                                 gCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGc                                                                               <  2:930221/118‑1 (MQ=255)

                                                                 gCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGc                                                                               >  2:1133959/1‑118 (MQ=255)

                                                                 gCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGc                                                                               >  1:930221/1‑118 (MQ=255)

                                                                   tGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACtt                                                        <  2:400080/139‑1 (MQ=255)

                                                                   tGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACtt                                                        <  2:518818/139‑1 (MQ=255)

                                                                          ttCAGAACTGGAAGCCGTCGAAGGGGTTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGAt                                                 >  2:72758/1‑139 (MQ=255)

                                                                              gAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAAc                                             <  2:942401/139‑1 (MQ=255)

                                                                               aaCTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACt                                            >  2:205619/1‑139 (MQ=255)

                                                                               aaCTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACt                                            >  2:741832/1‑139 (MQ=255)

                                                                                    gAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCa                                       >  1:638204/1‑139 (MQ=255)

                                                                                        ccATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCgg                                   <  1:205619/139‑1 (MQ=255)

                                                                                        ccATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCgg                                   <  2:638204/139‑1 (MQ=255)

                                                                                         cATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCa                                       <  2:1092902/134‑1 (MQ=255)

                                                                                         cATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCa                                       >  1:1092902/1‑134 (MQ=255)

                                                                                                     tGGAGCGCTCCTGTCAGCGATCACTGGGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAGATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCGGCTACGATATTCAg                      <  1:301211/139‑1 (MQ=255)

                                                                                                            cTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCGGCTa                                >  2:55101/1‑122 (MQ=255)

                                                                                                            cTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCGGCTa                                <  1:55101/122‑1 (MQ=255)

                                                                                                            cTCCTGTCAGCGATCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCGGCTACGATATTCAGCGCTGGa               >  1:280577/1‑139 (MQ=255)

                                                                                                                         tCACTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCGGCTACGATATTCAGCGCTGGAAGCCAGACCCGGc  >  1:1162560/1‑139 (MQ=255)

                                                                                                                           aCTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCGGCTACGATATTCAGTGCTGGAAGCCAGACCCgg   >  1:469462/1‑136 (MQ=255)

                                                                                                                           aCTGCGCCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCGGCTACGATATTCAGTGCTGGAAGCCAGACCCgg   <  2:469462/136‑1 (MQ=255)

                                                                                                                                gcCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATggg                                                                                >  2:802846/1‑54 (MQ=255)

                                                                                                                                gcCAATGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATggg                                                                                <  1:802846/54‑1 (MQ=255)

                                                                                                                                    aTGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCGGCTACGATATTCAGCGCTGGAAGCCAGAcc      >  1:48617/1‑124 (MQ=255)

                                                                                                                                    aTGCGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCGGCTACGATATTCAGCGCTGGAAGCCAGAcc      <  2:48617/124‑1 (MQ=255)

CTTGAACATGGTGTTACGTTAGCGAAAACAGAAGCTGAACACGTTTACCGTGCAGAAGTCGCTCGGCTGTTCGATTCAGAACTGGAAGCCATCGAAGGGGCTGGAGCGCTCCTGTCAGCGATCACTGCGCCAATGTGTGTGGTATCTAACGGCCCAAATAACAAAATGCAGCATTCTATGGGCAAGCTGAATATGTTGCACTACTTCCCGGATAAACTGTTCAGCGGCTACGATATTCAGCGCTGGAAGCCAGACCCGGC  >  NC_000913/3896951‑3897210

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