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
A12 F1 I2 R1	766	55.6	2631458	94.7%	2491990	109.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,533,045	C→T	intergenic (+93/‑7)	ydcC → / → pptA	H repeat‑associated putative transposase/4‑oxalocrotonate tautomerase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,533,045	0	C	T	100.0%	147.6 / NA	47	intergenic (+93/‑7)	ydcC/pptA	H repeat‑associated putative transposase/4‑oxalocrotonate tautomerase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (21/26); total (21/26)

TACCTGGCGTCAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGCGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAACAGTAAAGACAGTTCGATAAGCATTG  >  NC_000913/1532914‑1533178

tACCTGGCGTCAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCa                                                                                                                                <  2:330127/139‑1 (MQ=255)

     ggCGTCAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCg                                                                                                                           <  2:732402/139‑1 (MQ=255)

      gCGTCAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGc                                                                                                                          >  1:113255/1‑139 (MQ=255)

      gCGTCAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGc                                                                                                                          >  1:1024645/1‑139 (MQ=255)

       cGTCAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGca                                                                                                                         >  2:1192877/1‑139 (MQ=255)

         tCAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGcaca                                                                                                                       <  2:538969/139‑1 (MQ=255)

                ttACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACAt                                                                                                                <  2:113255/139‑1 (MQ=255)

                        aGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGtt                                                                                                        >  2:1242767/1‑139 (MQ=255)

                                 tCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTg                                                                                               <  1:217142/139‑1 (MQ=255)

                                    tAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAAc                                                                                            <  1:745383/139‑1 (MQ=255)

                                           gCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGa                                                                                     >  1:336590/1‑139 (MQ=255)

                                                      tattGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAag                                                                          >  1:450422/1‑139 (MQ=255)

                                                           tCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAgcagca                                                                     >  1:924247/1‑139 (MQ=255)

                                                            cGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCAc                                                                    <  2:924247/139‑1 (MQ=255)

                                                             gTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACt                                                                   <  2:1024645/139‑1 (MQ=255)

                                                             gTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACt                                                                   <  1:690776/139‑1 (MQ=255)

                                                               ataAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTtg                                                                 <  2:54388/139‑1 (MQ=255)

                                                                taAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACAtt                                                                                                               <  1:934467/92‑1 (MQ=255)

                                                                taAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACAtt                                                                                                               >  2:934467/1‑92 (MQ=255)

                                                                taAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTtgc                                                                >  2:460290/1‑139 (MQ=255)

                                                                  aaCGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTagctg                                                              <  1:82202/139‑1 (MQ=255)

                                                                                     gACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATc                                                                                                                     <  1:448522/65‑1 (MQ=255)

                                                                                     gACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGttat                                           <  1:706901/139‑1 (MQ=255)

                                                                                     gACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGttat                                           <  1:55865/139‑1 (MQ=255)

                                                                                     gACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATAATGCCGCACATc                                                                                                                     >  2:448522/1‑65 (MQ=255)

                                                                                          tCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTc                                      <  1:460290/139‑1 (MQ=255)

                                                                                            acaATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAGAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGt                                    <  2:809967/139‑1 (MQ=255)

                                                                                             caATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTc                                   >  1:936862/1‑139 (MQ=255)

                                                                                              aaTGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCa                                  >  2:430685/1‑139 (MQ=255)

                                                                                                  tgtgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTg                              >  2:937158/1‑139 (MQ=255)

                                                                                                   gtgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGa                             <  2:336590/139‑1 (MQ=255)

                                                                                                   gtgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGa                             <  2:450422/139‑1 (MQ=255)

                                                                                                    tgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATg                                                                                                                              <  2:882737/41‑1 (MQ=255)

                                                                                                    tgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATg                                                                                                                              >  1:882737/1‑41 (MQ=255)

                                                                                                    tgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAAc                                                                                            <  2:1209415/75‑1 (MQ=255)

                                                                                                    tgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAAc                                                                                            >  1:1209415/1‑75 (MQ=255)

                                                                                                    tgtTAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGaa                            >  1:275435/1‑139 (MQ=255)

                                                                                                      ttAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCAt                                 <  2:851565/132‑1 (MQ=255)

                                                                                                      ttAATTTTACTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCAt                                 >  1:851565/1‑132 (MQ=255)

                                                                                                              aCTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGaa                                                                                    >  1:238900/1‑73 (MQ=255)

                                                                                                              aCTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGaa                                                                                    <  2:238900/73‑1 (MQ=255)

                                                                                                              aCTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAag                                                                          <  2:369786/83‑1 (MQ=255)

                                                                                                              aCTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAag                                                                          >  1:369786/1‑83 (MQ=255)

                                                                                                               cTGACATCTTTCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAACAGTAAAGACa                 <  1:1192877/139‑1 (MQ=255)

                                                                                                                         tCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAACAGTAAAGACAGTTCGATAAg       <  1:1242767/139‑1 (MQ=255)

                                                                                                                         tCAAAAGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAACAGTAAAGACAGTTCGATAAg       >  1:177683/1‑139 (MQ=255)

                                                                                                                              aGGAGTGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAACAGTAAAGACAGTTCGATAAGCATTg  >  1:129773/1‑139 (MQ=255)

TACCTGGCGTCAGTCCTTACGGGGAGCGGGCTTTCGTAATCTTGCCCTGGGCATTATTGTCGTATAAACGCTTTACCGGACACATGACATTCACAATGTGTGTTAATTTTACTGACATCTTTCAAAAGGAGCGTAATCATGCCGCACATCGACATTAAATGTTTTCCGCGTGAACTGGACGAACAACAAAAAGCAGCACTTGCTGCAGATATTACCGACGTTATTATTCGTCATCTGAACAGTAAAGACAGTTCGATAAGCATTG  >  NC_000913/1532914‑1533178

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