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 F73 I1 R1	26	44.8	1518598	99.2%	1506449	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,351,070	C→A	M435I (ATG→ATT)	glpT ←	sn‑glycerol 3‑phosphate:phosphate antiporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,351,070	0	C	A	98.0%	164.0 / ‑2.5	50	M435I (ATG→ATT)	glpT	sn‑glycerol 3‑phosphate:phosphate antiporter
Reads supporting (aligned to +/- strand): ref base C (0/1); new base A (27/22); total (27/23)
Fisher's exact test for biased strand distribution p-value = 4.60e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.06e-01

TGCACTGCTTCCCATGACTATAGTGCTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATCATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTCGCCGCCACCGAACCGCCCAGGTAACCAAA  >  NC_000913/2350943‑2351204

tGCACTGCTTCCCATGACTATAGTGCTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATc                                                                                                                            <  1:365087/140‑1 (MQ=255)

       cTTCCCATGACTATAGTGCTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGa                                                                                                                     >  2:649767/1‑140 (MQ=255)

                    taGTGCTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAAt                                                                                                        >  2:471937/1‑140 (MQ=255)

                         cTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAAtgctgc                                                                                                   >  2:131794/1‑140 (MQ=255)

                         cTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAAtgctgc                                                                                                   >  2:343499/1‑140 (MQ=255)

                         cTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAAtgctgc                                                                                                   >  1:240720/1‑140 (MQ=255)

                         cTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAAtgctgc                                                                                                   >  1:225609/1‑140 (MQ=255)

                         cTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAAtgctgc                                                                                                   >  1:207129/1‑140 (MQ=255)

                         cTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAAtgctgc                                                                                                   >  1:92349/1‑140 (MQ=255)

                         cTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAAtgctgc                                                                                                   >  1:157060/1‑140 (MQ=255)

                         cTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAAtgctgc                                                                                                   >  2:210038/1‑140 (MQ=255)

                         cTCATCATGATCGCCATGCTAAGGTTTTTCAGCATCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAAtgctgc                                                                                                   >  1:709262/1‑140 (MQ=255)

                          tcatcaTGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTgcc                                                                                                  >  1:86640/1‑140 (MQ=255)

                            atcatGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTgccgc                                                                                                <  1:343499/140‑1 (MQ=255)

                            atcatGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTgccgc                                                                                                >  1:415839/1‑140 (MQ=255)

                            atcatGATCGCCATGCTAAGGTTTTTCAGCATCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTgccgc                                                                                                <  2:709262/140‑1 (MQ=255)

                             tcatGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATCATCACAACAATCAACAAGATAACCGCCAGAATGCTgccgcc                                                                                               <  1:75445/140‑1 (MQ=255)

                              catGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCa                                                                                              >  2:151361/1‑140 (MQ=255)

                              catGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCa                                                                                              <  1:32995/140‑1 (MQ=255)

                                tGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAAt                                                                                            <  1:274485/140‑1 (MQ=255)

                                 gATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATc                                                                                           >  1:723222/1‑140 (MQ=255)

                                 gATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATc                                                                                           >  1:21818/1‑140 (MQ=255)

                                  aTCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCa                                                                                          <  2:225609/140‑1 (MQ=255)

                                  aTCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCa                                                                                          <  2:723222/140‑1 (MQ=255)

                                   tCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCAt                                                                                         >  1:698952/1‑140 (MQ=255)

                                       cATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTAcc                                                                                     >  2:696091/1‑140 (MQ=255)

                                        aTGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCa                                                                                    >  2:604258/1‑140 (MQ=255)

                                        aTGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCa                                                                                    >  1:8317/1‑140 (MQ=255)

                                          gCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATa                                                                                  >  1:10248/1‑140 (MQ=255)

                                                         cGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAg                                                                   <  2:698952/140‑1 (MQ=255)

                                                          gTCAATTTCATGCCATTAGTCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGc                                                                  >  2:673332/1‑140 (MQ=255)

                                                                      ccATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCa                                                      <  1:131794/140‑1 (MQ=255)

                                                                      ccATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTCCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCa                                                      <  2:415839/140‑1 (MQ=255)

                                                                          tAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGgt                                                  >  1:187239/1‑140 (MQ=255)

                                                                           agtcTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGgtg                                                 <  1:673332/137‑1 (MQ=255)

                                                                           aGCCTCCGTTGCGTTCTTCCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGgtg                                                 <  2:157060/140‑1 (MQ=255)

                                                                                 cGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCca                                           >  1:17652/1‑140 (MQ=255)

                                                                                 cGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCca                                           >  1:374183/1‑140 (MQ=255)

                                                                                          cTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATcgcg                                  <  2:10248/140‑1 (MQ=255)

                                                                                           ttGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCgcgc                                 >  2:586791/1‑140 (MQ=255)

                                                                                               aGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAGGAAATCCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCACCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTcgc                             <  2:249148/140‑1 (MQ=255)

                                                                                               aGTAATTGTTCATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTcgc                             <  1:696091/140‑1 (MQ=255)

                                                                                                         cATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTCGCCGCCACCGaa                   <  2:92349/140‑1 (MQ=255)

                                                                                                         cATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTCGCCGCCACCGaa                   <  1:151361/140‑1 (MQ=255)

                                                                                                         cATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTCGCCGCCACCGaa                   <  1:586791/140‑1 (MQ=255)

                                                                                                         cATGGCGACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTCGCCGCCACCGaa                   <  2:21818/140‑1 (MQ=255)

                                                                                                               gACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTCGCCGCCACCGAACCGccc             >  1:501666/1‑140 (MQ=255)

                                                                                                               gACGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTCGCCGCCACCGAACCGccc             <  2:17652/140‑1 (MQ=255)

                                                                                                                aCGTTTTTCGCCAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTCGCCGCCACCGAACCGCCCa            <  1:210038/140‑1 (MQ=255)

                                                                                                                          ccAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTCGCCGCCACCGAACCGCCCAGGTAACCaaa  <  1:325997/140‑1 (MQ=255)

                                                                                                                          ccAATAATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTCGCCGCCACCGAACCGCCCAGGTAACCaaa  <  2:8317/140‑1 (MQ=255)

TGCACTGCTTCCCATGACTATAGTGCTCATCATGATCGCCATGCTAAGGTTTTTCAGCGTCAATTTCATGCCATTAGCCTCCGTTGCGTTCTTGCAGTAATTGTTCATGGCGACGTTTTTCGCCAATCATCACAACAATCAACAAGATAACCGCCAGAATGCTGCCGCCAATCATTACCATAAAGCCGCCATCCCAGCCGAAGAAGTCCACGGTGTAGCCAACAATCGCGCTCGCCGCCACCGAACCGCCCAGGTAACCAAA  >  NC_000913/2350943‑2351204

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 20 ≤` `ATCG/ATCG` `< 28 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A