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
A2 F107 I1 R1	11	42.4	1464626	94.8%	1388465	142.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,184,542	C→A	P1100Q (CCG→CAG)	rpoB →	RNA polymerase, beta subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,184,542	0	C	A	100.0%	144.5 / NA	53	P1100Q (CCG→CAG)	rpoB	RNA polymerase, beta subunit
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (29/24); total (29/24)

GGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCAT  >  NC_000913/4184408‑4184677

ggTTAAACTCCGGGTCTAGACTGGAGAAAAGAGAGCAGGTCGTCACGGTAACAAGGGTGTAATTTATAAGATAAAACCGATCGAAGATATGGAGTAAGAGGAAAATGGTCAGACGGTAGACATAGTACTGAAACAGCTgggag                                                                                                                                 >  2:6733/1‑141 (MQ=255)

     aaCGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCg                                                                                                                            >  2:38875/1‑143 (MQ=255)

           gTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGt                                                                                                                      <  2:119638/143‑1 (MQ=255)

             attcAGCGTGGTGACAAGAGGGCAGGGCGGCACGGTGAGAAGGGTGTAATTTGTAAGAGCAACCCGATCGAAGATATGCCTTACGATGAATACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTAt                                                                                                                    <  1:634880/140‑1 (MQ=255)

             aTCCAGCCTGGTGACAAGAAGGCAGGTCGTCACGGGAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGAGATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTAt                                                                                                                    <  2:19997/143‑1 (MQ=255)

               ccAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGCTATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCCCGTagtg                                                                                                                  >  2:470724/1‑140 (MQ=255)

               ccAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGGACCGTCTCGTATGa                                                                                                                  >  2:114392/1‑143 (MQ=255)

                cAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCGCGTATGaa                                                                                                                 >  2:505204/1‑143 (MQ=255)

                         gACGAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCGTACGATGAAAACGGTACGCCGGTAGACATCGTACCGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCa                                                                                                        <  2:275805/143‑1 (MQ=255)

                         gACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCa                                                                                                        >  2:44881/1‑143 (MQ=255)

                          aCAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAACACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGGATGAACACCGGCCAg                                                                                                       >  2:304035/1‑143 (MQ=255)

                               attgCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCt                                                                                                  <  1:128981/140‑1 (MQ=255)

                                tgtcAGGTCGTCACGGTAACAAGGTTGTAATTGCTAAGATCAACCCGATCGAGGATATGCCTTACGATGAAAGCGGTACGCCGGTAGATATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTc                                                                                                 <  2:145529/140‑1 (MQ=255)

                                    aGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTCTGAACATCGGGCAGCTCCTCGaaa                                                                                             >  1:8720/1‑143 (MQ=255)

                                         gtcACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCAc                                                                                        >  2:311720/1‑143 (MQ=255)

                                          tcACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGACCCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCCAAACCCAcc                                                                                       >  1:307131/1‑143 (MQ=255)

                                          tcACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGCACATCGGTCAGATCCTCGAAGCCCAcc                                                                                       >  2:454305/1‑143 (MQ=255)

                                          tcACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCAcc                                                                                       >  1:522138/1‑143 (MQ=255)

                                          tcACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCAcc                                                                                       >  2:515038/1‑143 (MQ=255)

                                            aCGGCAACAAGGGTGTAACTGCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTg                                                                                     <  1:439520/143‑1 (MQ=255)

                                                 aaCAGGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTAt                                                                                <  2:485892/143‑1 (MQ=255)

                                                          gtAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGCAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTAAGATCCTCGACACCCACCTGGGTATGGCTGCGaa                                                                       >  2:362556/1‑143 (MQ=255)

                                                           tAATGTCTAAGATCACCCCGCTCGAAGATATGCCTTACGAGGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGaaa                                                                      <  1:672039/143‑1 (MQ=255)

                                                            aaTTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAg                                                                     <  1:428204/143‑1 (MQ=255)

                                                                   aaGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCgg                                                              >  1:729595/1‑143 (MQ=255)

                                                                     gATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCATCGAAACCCACCTGGGTATGGCTGCGAAAGGTAACGCCg                                                            >  2:102173/1‑143 (MQ=255)

                                                                           cccgaccgcctctctGCCTTAGGATGGCACCGTTACGCCGGTACATAGCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGACCACCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGa                                                      <  2:146631/129‑1 (MQ=255)

                                                                           cccGATCGAAGATATGCCTTACGATGAAAGCGGTACGCCGGTCGACCTCGTACTGACCCAGCAGGGCGTACCGTCCGGTATGAACATCGGGCAGATGCTCGAAACCAACCTGGGTATGGCTGCGGAAGGTTGCGGCGagacgc                                                      >  1:478086/1‑138 (MQ=255)

                                                                           cccGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGCCCAAGCTGGGCGGACCCTCTCGTACGAACAGCGCTCAGATACCCGCAACCCCCCTGGGCGTGGCGGCGACAgggcgcggcgccacta                                                      >  2:363566/1‑129 (MQ=255)

                                                                           cccGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACGGAACCAGCTGGGCGTACCGGCTCGTATGAACGTCGGGCAGATCCTCGAAACCAACCGCGGTATGGCTGCGAAAGGAATCGGCGCCAAGa                                                      >  1:158081/1‑143 (MQ=255)

                                                                             cGATCGAAGGCGTGCCGTACGATGAAAACGGTACGCCGGCAGGCATCGTACTTAACCAGCTGGGCGTACCGTCTGGGATGAACATCGGTCAGAGCCTCGAAACCCACCTGGGTATGTCTGCGAAAGGTATCGGCGACAAGATc                                                    <  2:696370/143‑1 (MQ=255)

                                                                                tCGAAGATATGCCGTACGATGAAAACGGTACGCCGGTAGGCATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAAc                                                 <  2:45122/143‑1 (MQ=255)

                                                                                  gAAGCTATGCCTTTCGATGAAAGCGGTACGCCAGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGc                                               <  2:686170/143‑1 (MQ=255)

                                                                                   aaGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACGAGATCAACGcc                                              >  1:54358/1‑143 (MQ=255)

                                                                                   aaGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGcc                                              >  1:617703/1‑143 (MQ=255)

                                                                                        atGCCCTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCt                                         <  1:508075/143‑1 (MQ=255)

                                                                                               aCGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCCACGCCATGCTGacaccg                                  >  1:439065/1‑141 (MQ=255)

                                                                                                 gacgAAAACGGGGCGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTAGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAcagca                                <  1:450050/140‑1 (MQ=255)

                                                                                                 gATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAcagca                                <  1:38875/143‑1 (MQ=255)

                                                                                                  aTGAAATCGTCACGCCGGTAGACCTCGTACTGACCCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAcagcag                               <  2:248177/143‑1 (MQ=255)

                                                                                                  aTGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAcagcag                               >  2:595608/1‑143 (MQ=255)

                                                                                                  aTGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAcagcag                               >  2:622895/1‑143 (MQ=255)

                                                                                                  aTGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCGGCGAAAGGTATCGGCGACAAGATCACCGCCATGCTGAAAcagccg                               >  1:318050/1‑141 (MQ=255)

                                                                                                      aaaCGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACCAGATCAACGCCATGCTGAAACAGCAGCaag                           >  1:545852/1‑143 (MQ=255)

                                                                                                          ggTACGCCGGTAGTCATCGCACTGAACCAGCTGGGCGTACCGTCTCGTAGGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGt                       <  1:701058/143‑1 (MQ=255)

                                                                                                            tACGCCGGTAGACATCGTACTGAACCAGCGGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTcg                     <  1:404903/143‑1 (MQ=255)

                                                                                                             aCGCCGGTGGACGTCGTACGGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTGGAGCCCCACCGGCGGATGGATGCGGTAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTcgc                    <  2:636520/143‑1 (MQ=255)

                                                                                                                     aggaaTCGTGCTGTATCAGCTGTGCGTACCGTCTCGTATGAACAGCGGTCAGATCCTCGAACCCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTgc            <  2:78512/139‑1 (MQ=255)

                                                                                                                      gACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGGCGAGATCAACGCCATGCTGCAACAGCAGCAAGGAGTCGCGAAACTgcg           >  1:685597/1‑143 (MQ=255)

                                                                                                                          tCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTCTGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCAGAAAAAGAAGCAAGAAGTCACGAAAATGCGCGaa       >  1:98625/1‑143 (MQ=255)

                                                                                                                             tccTGCACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTc    <  1:645899/141‑1 (MQ=255)

                                                                                                                               cTGGACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCAt  <  1:346300/143‑1 (MQ=255)

                                                                                                                               cTGAACCAGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACAGCGCGAATTCAt  >  2:8274/1‑143 (MQ=255)

GGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGTCTCGTATGAACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCAT  >  NC_000913/4184408‑4184677

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A