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
A3 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,552,089	T→C	T129A (ACT→GCT)	malP ←	maltodextrin phosphorylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,552,089	0	T	C	97.1%	120.6 / NA	35	T129A (ACT→GCT)	malP	maltodextrin phosphorylase
Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (18/16); minor base A (1/0); total (19/16)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01

TGCTTCGTTGTGGCGGAACCACGGGTAGTTACTGCGATGCCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCA  >  NC_000913/3551949‑3552235

tGCTTCGTTGTGGCGGAACCACGGGTAGTTACTGCGATGCCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTTTGACCGTAACCCGTCGCAGACTGACCGACAGATGCCAtt                                                                                                                                             >  1:245734/1‑148 (MQ=255)

 gCTTCGTTGTGGCGGAACCACGGGTAGTTACTGCGATGCCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAg                                                                                                                                          <  2:571743/150‑1 (MQ=255)

  cTTCGTTGTGGCGGAACCACGGGTAGTTACTGCGATGCCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGt                                                                                                                                         >  1:561049/1‑150 (MQ=255)

   ttCGTTGTGGCGGAACCACGGGTAGTTACTGCGATGCCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCg                                                                                                                                       >  1:334508/1‑151 (MQ=255)

    tCGTTGTGGCGGAACCACGGGTAGTTACTGCGATGCCAGTCATCCGGCGCTTCACCCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTATCCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCg                                                                                                                                       <  1:281132/150‑1 (MQ=255)

         gtgGCGGAACCACGGGTAGTTACTGCGATGCCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGaa                                                                                                                                  <  1:39904/150‑1 (MQ=255)

                    aCGGGTAGTTACTGCGATGCCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACgccgcc                                                                                                                        >  2:570891/1‑149 (MQ=255)

                      gggTAGTTACTGCGATGCCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGAc                                                                                                                    >  2:192138/1‑151 (MQ=255)

                               cTGCGATGCCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGac                                                                                                           >  1:465146/1‑151 (MQ=255)

                                          gTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTAccc                                                                                                <  1:225657/151‑1 (MQ=255)

                                             aTCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAgc                                                                                             <  2:191705/151‑1 (MQ=255)

                                               ccGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAgcg                                                                                            <  1:246753/150‑1 (MQ=255)

                                                   cgcTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCggg                                                                                       >  1:387989/1‑151 (MQ=255)

                                                   cgcTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCggg                                                                                       <  2:627261/151‑1 (MQ=255)

                                                                  gCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCttcttc                                                                         <  1:325609/150‑1 (MQ=255)

                                                                   ccATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTcc                                                                        >  2:320151/1‑150 (MQ=255)

                                                                       cGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCcagc                                                                     >  1:132675/1‑149 (MQ=255)

                                                                         aCAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGt                                                                 <  2:349325/151‑1 (MQ=255)

                                                                           aaaaGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTcc                                                               <  2:78061/151‑1 (MQ=255)

                                                                            aaaGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCg                                                              <  2:470496/151‑1 (MQ=255)

                                                                              aGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTc                                                            <  2:465150/151‑1 (MQ=255)

                                                                                 cTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTc                                                            >  2:316186/1‑148 (MQ=255)

                                                                                 cTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTc                                                            >  2:625115/1‑148 (MQ=255)

                                                                                   ggCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGAtt                                                       >  2:479145/1‑151 (MQ=255)

                                                                                      ggAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGAt                                                    >  2:319042/1‑151 (MQ=255)

                                                                                              ccATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATa                                              >  2:317628/1‑149 (MQ=255)

                                                                                                   ttGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTc                                       >  1:369244/1‑151 (MQ=255)

                                                                                                        aGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACg                                   >  2:638107/1‑150 (MQ=255)

                                                                                                        aGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACg                                   <  2:523702/150‑1 (MQ=255)

                                                                                                            cAGACCGTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATcc                              >  1:182137/1‑151 (MQ=255)

                                                                                                                  gTAACCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTAc                         >  1:279708/1‑150 (MQ=255)

                                                                                                                    aaCCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATc                      >  2:89200/1‑151 (MQ=255)

                                                                                                                     aCCCGTCGCAGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATcc                     <  2:394266/151‑1 (MQ=255)

                                                                                                                              aGACTGACCGACAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAg            <  2:393000/151‑1 (MQ=255)

                                                                                                                                        aCAGCTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCa  <  2:403361/151‑1 (MQ=255)

TGCTTCGTTGTGGCGGAACCACGGGTAGTTACTGCGATGCCAGTCATCCGGCGCTTCAACCTGTTTGCCATCGACAAAAGACTGGCGGAACAAACCATATTGATAGTTCAGACCGTAACCCGTCGCAGACTGACCGACAGTTGCCATTGAGTCGAGGAAGCACGCCGCCAGACGTCCCAGACCACCGTTACCCAGCGCCGGGTCGATCTCTTCTTCCAGCAGGTCCGTCAGATTGATGTCATAAGCCTTCAACGAATCCTGTACATCCTGATACCAGCCGAGATTCA  >  NC_000913/3551949‑3552235

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 18 ≤` `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