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
A8 F28 I1 R1	95	36.3	1231394	98.7%	1215385	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,001,023	(A)_8→7	coding (1808/2601 nt)	elfC →	putative fimbrial usher protein ElfC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,001,016	0	A	.	100.0%	179.6 / NA	43	coding (1801/2601 nt)	elfC	putative fimbrial usher protein ElfC
Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (17/26); total (17/26)

ATTAAAGATCTTTCGCTGGGGATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGGAAAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAACCTGAGCTACAGCGTGCAACAGGGATATAACAG  >  NC_000913/1000878‑1001149

aTTAAAGATCTTTCGCTGGGGATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGGaa                                                                                                                                      >  1:561589/1‑140 (MQ=255)

        tCTTTCGCTGGGGATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGGaaaaaaatta                                                                                                                              >  2:49781/1‑137 (MQ=255)

          tttCGCTGGGGATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACg                                                                                                                           <  2:561589/140‑1 (MQ=255)

          tttCGCTGGGGATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACg                                                                                                                           <  1:537346/140‑1 (MQ=255)

            tCGCTGGGGATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGcc                                                                                                                         >  2:11329/1‑140 (MQ=255)

                tGGGGATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGa                                                                                                                     <  2:291861/140‑1 (MQ=255)

                 ggggATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGAt                                                                                                                    <  1:72149/140‑1 (MQ=255)

                  gggATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATg                                                                                                                   >  2:130676/1‑140 (MQ=255)

                   ggATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGa                                                                                                                  <  2:447758/140‑1 (MQ=255)

                   ggATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGa                                                                                                                  <  2:364707/140‑1 (MQ=255)

                                 tACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGt                                                                                                    <  2:509936/140‑1 (MQ=255)

                                      tAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGa                                                                                               <  2:309264/140‑1 (MQ=255)

                                        aGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATa                                                                                             >  1:609389/1‑140 (MQ=255)

                                          tCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAAc                                                                                           >  1:489457/1‑140 (MQ=255)

                                           cccGTGGTCAACCTGATGCTGACCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACATCAGTATCGATAACg                                                                                          <  2:164795/140‑1 (MQ=255)

                                             cGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGaa                                                                                        >  1:68080/1‑140 (MQ=255)

                                                  tCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGca                                                                                   <  1:49781/140‑1 (MQ=255)

                                                  tCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGca                                                                                   <  1:141072/140‑1 (MQ=255)

                                                  tCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGca                                                                                   <  1:130676/140‑1 (MQ=255)

                                                   cAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGcac                                                                                  <  1:9990/140‑1 (MQ=255)

                                                   cAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGcac                                                                                  <  1:316231/140‑1 (MQ=255)

                                                    aaCCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGcaca                                                                                 >  1:594346/1‑140 (MQ=255)

                                                           tGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTAcaca                                                                          <  2:63888/140‑1 (MQ=255)

                                                                aTCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAAcc                                                                     >  1:614508/1‑140 (MQ=255)

                                                                 tCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCt                                                                    >  1:207989/1‑140 (MQ=255)

                                                                         ttGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACAGAAAACCTGGGTTTaa                                                            <  1:259897/140‑1 (MQ=255)

                                                                          tGCTCTAAAATTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTaa                                                            >  2:108340/1‑139 (MQ=255)

                                                                          tGCTCTAAAATTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTaa                                                            <  1:108340/139‑1 (MQ=255)

                                                                           gCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACg                                                          <  2:207989/140‑1 (MQ=255)

                                                                            ctctAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACgg                                                         >  1:361781/1‑140 (MQ=255)

                                                                               tAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGgaga                                                      >  2:16472/1‑140 (MQ=255)

                                                                               tAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGgaga                                                      >  2:392303/1‑140 (MQ=255)

                                                                                  aTTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACAt                                                   <  1:231719/140‑1 (MQ=255)

                                                                                         ccTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGa                                            <  1:392303/140‑1 (MQ=255)

                                                                                          cTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGAt                                           <  2:614508/140‑1 (MQ=255)

                                                                                                       tGTTGCTCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAACCTGa                              >  1:330183/1‑140 (MQ=255)

                                                                                                             tCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAAc                                  <  1:6798/130‑1 (MQ=255)

                                                                                                             tCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAAc                                  >  2:6798/1‑130 (MQ=255)

                                                                                                             tCCCCAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAACCTGAGCTACa                        <  2:609389/140‑1 (MQ=255)

                                                                                                                ccAGAAGTAATGATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAACCTGAGCTACAGCg                     <  2:288876/140‑1 (MQ=255)

                                                                                                                           gATAGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACATAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAACCTGAGCTACAGCGTGCAACAGGGa          <  1:450961/140‑1 (MQ=255)

                                                                                                                              aGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAACCTGAGCTACAGCGTGCaa                <  2:395940/131‑1 (MQ=255)

                                                                                                                              aGCTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAACCTGAGCTACAGCGTGCaa                >  1:395940/1‑131 (MQ=255)

                                                                                                                                cTATACCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAACCTGAGCTACAGCGTGCAACAGGGATATaa     >  2:438797/1‑140 (MQ=255)

                                                                                                                                   taCCAGG‑AAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAACCTGAGCTACAGCGTGCAACAGGGATATAACAg  >  2:34507/1‑140 (MQ=255)

ATTAAAGATCTTTCGCTGGGGATTTCCTGGAACTACAGTAAGTCCCGTGGTCAACCTGATGCTGATCAGGTGTTTGCTCTAAATTTTTCCCTGCCGCTCAATCTGTTGCTCCCCAGAAGTAATGATAGCTATACCAGGAAAAAAAATTACGCCTGGATGACCTCTAACACCAGTATCGATAACGAAGGGCACACTACACAAAACCTGGGTTTAACGGAGACATTACTCGATGACGGTAACCTGAGCTACAGCGTGCAACAGGGATATAACAG  >  NC_000913/1000878‑1001149

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