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
A4 F50 I2 R1	104	44.1	1376607	98.9%	1361464	150.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,640,125	T→C	N61S (AAC→AGC)	arcA ←	response regulator in two‑component regulatory system with ArcB or CpxA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,640,125	0	T	C	100.0%	177.8 / NA	47	N61S (AAC→AGC)	arcA	response regulator in two‑component regulatory system with ArcB or CpxA
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (22/25); total (22/25)

GTTCACGCGGGTTGAACGGTTTGGTGATGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGTTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTT  >  NC_000913/4639979‑4640265

gTTCACGCGGGTTGAACGGTTTGGTGATGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCtt                                                                                                                                          >  2:630323/1‑151 (MQ=255)

  tCACGCGGGTTGAACGGTTTGGTGATGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTa                                                                                                                                         <  2:561521/150‑1 (MQ=255)

  tCACGCGGGTTGAACGGTTTGGTGATGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTa                                                                                                                                         <  2:432902/150‑1 (MQ=255)

     cgcgGGTTGAACGGTTTGGTGATGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCg                                                                                                                                     <  1:505454/151‑1 (MQ=255)

            tGAACGGTTTGGCGATGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGAtt                                                                                                                              >  1:152521/1‑151 (MQ=255)

              aaCGGTTTGGTGATGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTg                                                                                                                             >  1:395319/1‑150 (MQ=255)

                     tGGTGATGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCAt                                                                                                                     >  1:663188/1‑151 (MQ=255)

                         gATGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATc                                                                                                                 <  1:518835/151‑1 (MQ=255)

                          aTGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCa                                                                                                                <  2:414099/151‑1 (MQ=255)

                           tGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCa                                                                                                                <  1:109470/150‑1 (MQ=255)

                                  aTCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTg                                                                                                        >  1:161638/1‑151 (MQ=255)

                                      gCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTg                                                                                                        <  2:472567/147‑1 (MQ=255)

                                      gCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGt                                                                                                    <  2:655162/151‑1 (MQ=255)

                                       cACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTc                                                                                                   >  1:3116/1‑151 (MQ=255)

                                         ccGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCat                                                                                                 >  2:117537/1‑151 (MQ=255)

                                            aTTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATAtt                                                                                              <  1:146399/151‑1 (MQ=255)

                                                 gAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCagag                                                                                         <  1:67405/151‑1 (MQ=255)

                                                 gAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCagag                                                                                         <  2:462699/151‑1 (MQ=255)

                                                      cGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGAt                                                                                    <  2:226132/151‑1 (MQ=255)

                                                                    aCTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCcg                                                                      <  2:82280/151‑1 (MQ=255)

                                                                      ttCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCcgcg                                                                    >  1:319842/1‑151 (MQ=255)

                                                                            gTCACGGCCAGTCAGTAACATCAACGCGTTATGCGGCTGCTCGCGCAGTTCACGCGCTAAGAGAAGACCGCTATTGCCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCAATcg                                                              <  1:30205/151‑2 (MQ=255)

                                                                              cACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGt                                                            <  2:108003/151‑1 (MQ=255)

                                                                                    cAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTc                                                      >  2:122340/1‑151 (MQ=255)

                                                                                     aGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCg                                                     <  1:246209/151‑1 (MQ=255)

                                                                                         aGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGaaaa                                                 <  2:332309/151‑1 (MQ=255)

                                                                                          ggAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAAc                                                >  2:660766/1‑151 (MQ=255)

                                                                                            aaCATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAAcat                                              <  2:288232/151‑1 (MQ=255)

                                                                                               aTCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAAcatcat                                           >  1:394843/1‑151 (MQ=255)

                                                                                                      cAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTc                                    >  2:239108/1‑151 (MQ=255)

                                                                                                       aaCATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTcc                                   >  2:256618/1‑151 (MQ=255)

                                                                                                        aCATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCg                                  <  1:425134/151‑1 (MQ=255)

                                                                                                             cGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCg                             >  2:383607/1‑151 (MQ=255)

                                                                                                              gCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCg                             >  1:294381/1‑150 (MQ=255)

                                                                                                               ccTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGaa                           <  1:412314/151‑1 (MQ=255)

                                                                                                                  gCTCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAAt                        >  1:414381/1‑151 (MQ=255)

                                                                                                                    tCGCGCAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATAc                      >  1:683155/1‑151 (MQ=255)

                                                                                                                        gcAGTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACtttt                  >  1:458682/1‑151 (MQ=255)

                                                                                                                           gTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCaa               <  2:531374/151‑1 (MQ=255)

                                                                                                                           gTTCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTGTCa                <  1:334962/150‑1 (MQ=255)

                                                                                                                             tCACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAAc              <  2:350588/150‑1 (MQ=255)

                                                                                                                              cACGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACgt            <  2:37201/151‑1 (MQ=255)

                                                                                                                               aCGCGCTAACAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACgtg           >  1:316732/1‑151 (MQ=255)

                                                                                                                                      aaCAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCgtg    >  1:654703/1‑151 (MQ=255)

                                                                                                                                      aaCAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCgt     <  1:294269/150‑1 (MQ=255)

                                                                                                                                        cAGAAGACCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGtt  >  2:676068/1‑151 (MQ=255)

                                                                                                                                         agaagaCCGCTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGtt  >  2:238050/1‑150 (MQ=255)

GTTCACGCGGGTTGAACGGTTTGGTGATGTAGTCATCTGCACCGATTTCGAGGCCGAGAATTTTATCGACTTCGTTGTCACGGCCAGTCAGGAACATCAACGCAACATTCGCCTGCTCGCGCAGTTCACGCGCTAACAGAAGACCGTTCTTACCCGGCAGATTGATATCCATGATCACCAGGTTGATGTCATATTCAGAGAGGATCTGATGCATTTCCGCGCCATCTGTCGCTTCGAAAACATCATAGCCTTCCGCTTCGAAAATACTTTTCAACGTGTTGCGTGTT  >  NC_000913/4639979‑4640265

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 19 ≤` `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