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
A7 F50 I2 R1	209	44.2	1360995	98.7%	1343302	150.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,570,650	T→C	T466A (ACC→GCC)	gadB ←	glutamate decarboxylase B, PLP‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,570,650	0	T	C	94.9%	128.7 / ‑0.8	39	T466A (ACC→GCC)	gadB	glutamate decarboxylase B, PLP‑dependent
Reads supporting (aligned to +/- strand): ref base T (0/2); new base C (20/17); total (20/19)
Fisher's exact test for biased strand distribution p-value = 2.31e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.99e-01

AACGGTATTCCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGCAAAGTCCATTTCGAAGCCGCGACGACACATAATGCGCATCACCACGATGTC  >  NC_000913/1570503‑1570797

aaCGGTATTCCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATg                                                                                                                                                  <  2:120461/151‑1 (MQ=255)

aaCGGTATTCCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATg                                                                                                                                                  <  1:66070/151‑1 (MQ=255)

   ggTATTCCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGttt                                                                                                                                               >  1:467655/1‑151 (MQ=255)

          cTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGctg                                                                                                                                        >  1:264206/1‑151 (MQ=255)

           tGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGctgt                                                                                                                                       >  2:657687/1‑151 (MQ=255)

               ggAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGctgttctg                                                                                                                                   >  2:627532/1‑151 (MQ=255)

                        ccTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAAt                                                                                                                          <  1:501930/151‑1 (MQ=255)

                                 ttCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGc                                                                                                                   >  1:262101/1‑149 (MQ=255)

                                     gAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTc                                                                                                             <  2:71418/151‑1 (MQ=255)

                                     gAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTc                                                                                                             >  1:553341/1‑151 (MQ=255)

                                        gCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCggg                                                                                                          <  1:161750/151‑1 (MQ=255)

                                           tATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTg                                                                                                        >  2:79576/1‑150 (MQ=255)

                                            aTTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGa                                                                                                       <  1:132701/150‑1 (MQ=255)

                                            aTTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGAt                                                                                                      <  2:320748/151‑1 (MQ=255)

                                                aGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCt                                                                                                  <  1:137693/151‑1 (MQ=255)

                                                 gAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTg                                                                                                 >  1:153762/1‑151 (MQ=255)

                                                   aCAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTgag                                                                                               <  2:554404/151‑1 (MQ=255)

                                                           ttCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCACGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTc                                                                                        >  2:450113/1‑150 (MQ=255)

                                                             ccGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAgg                                                                                     >  2:589623/1‑151 (MQ=255)

                                                             ccGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAgg                                                                                     <  2:581610/151‑1 (MQ=255)

                                                                        gCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGt                                                                           <  2:465079/150‑1 (MQ=255)

                                                                        gCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTa                                                                          <  1:244989/151‑1 (MQ=255)

                                                                                aCAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCa                                                                  <  2:304901/151‑1 (MQ=255)

                                                                                     cTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAAc                                                             >  1:241734/1‑151 (MQ=255)

                                                                                      tttGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAAc                                                             >  1:360262/1‑150 (MQ=255)

                                                                                      tttGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATAACCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAAc                                                             >  2:283939/1‑150 (MQ=255)

                                                                                        tGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAg                                                           <  2:390354/150‑1 (MQ=255)

                                                                                          gAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTc                                                        <  2:524183/151‑1 (MQ=255)

                                                                                              ttGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGc                                                     >  2:205721/1‑150 (MQ=255)

                                                                                                      aaaCGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGCAAAGTCCAt                                            <  1:405852/151‑1 (MQ=255)

                                                                                                       aaCGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGCAAAGTCCAtt                                           <  2:4373/151‑1 (MQ=255)

                                                                                                                       gACACCGTTACCGTTAAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGCAAAGTCCATTTCGAAGCCGCgacgac                           <  1:625737/151‑1 (MQ=255)

                                                                                                                            cgttacctttaCACGTTATCAGGCATGTTTCAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCACTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAAGAGTTCAGCAAAGTCCATTTCGAAGCCGCGACGacacct                       >  2:72815/1‑148 (MQ=14)

                                                                                                                             gttaccgttaAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGCAAAGTCCATTTCGAAGCCGCGACGACACATaa                     <  2:394753/151‑1 (MQ=255)

                                                                                                                               taccgttaAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGCAAAGTCCATTTCGAAGCCGCGACGACACATAATg                   >  2:34188/1‑151 (MQ=255)

                                                                                                                                 ccgttaAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGCAAAGTCCATTTCGAAGCCGCGACGACACATAATgcg                 >  2:226847/1‑151 (MQ=255)

                                                                                                                                     taAACGTTATCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGCAAAGTCCATTTCGAAGCCGCGACGACACATAATGCGCATc             >  2:497075/1‑151 (MQ=37)

                                                                                                                                             aTCAGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGCAAAGTCCATTTCGAAGCCGCGACGACACATAATGCGCATCACCACGAt     >  2:500842/1‑151 (MQ=18)

                                                                                                                                                aGGCATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGCAAAGTCCATTTCGAAGCCGCGACGACACATAATGCGCATCACCACGATGTc  >  1:281168/1‑151 (MQ=18)

AACGGTATTCCTGTCGGAACCGCACCTGTTTTGTTCTGAAGCGTATTCAGAACAATATTTTCCGTTGCTAATGCCAGTGAACAGACTTTGGAAATTGTCCCGAAACGGGTTCGTTTCGGGACACCGTTACCGTTAAACGTTATCAGGTATGTTTAAAGCTGTTCTGTTGGGCAATACCCTGCAGTTTCGGGTGATCGCTGAGATATTTCAGGGAGGCTTTGTAGTCTTCCAGCAACAGTTCAGCAAAGTCCATTTCGAAGCCGCGACGACACATAATGCGCATCACCACGATGTC  >  NC_000913/1570503‑1570797

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A