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
A1 F4 I96 R1	227	23.3	882352	98.0%	864704	126.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	485,143	A→G	D1051G (GAT→GGT)	mscK →	mechanosensitive channel MscK

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	485,143	0	A	G	100.0%	97.3 / NA	28	D1051G (GAT→GGT)	mscK	mechanosensitive channel MscK
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (12/16); total (12/16)

TCTCGGCGTGGCCTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGCTGTGCCGTGAAAACGACATCAACATTGCCTTTAA  >  NZ_CP009273/485009‑485257

tctcGGCGCGGCCTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCAt                                                                                                                >  2:96087/1‑139 (MQ=255)

   cGGCGTGGCCTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGTGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAg                                                                                                             <  1:205458/139‑1 (MQ=255)

     gCGTGGCCTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCt                                                                                                           <  2:431755/139‑1 (MQ=255)

               tGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTa                                                                                                  <  1:417469/138‑1 (MQ=255)

                      gATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGCACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCCTGAGCTGCGTCTGTATGTGCGt                                                                                           >  1:344463/1‑138 (MQ=255)

                       aTCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTg                                                                                          >  1:21391/1‑138 (MQ=255)

                             aaaaaGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCg                                                                                   <  1:247336/139‑1 (MQ=255)

                                    gCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCg                                                                             >  2:232256/1‑138 (MQ=255)

                                           gtgtTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTa                                                                     <  2:388245/139‑1 (MQ=255)

                                            tgtTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTAc                                                                    <  2:177208/139‑1 (MQ=255)

                                               tACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGt                                                                 >  2:139383/1‑139 (MQ=255)

                                                      ggcggcGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAg                                                          >  1:191887/1‑139 (MQ=255)

                                                      ggcggcGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCGGCGTAGGGAGGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAg                                                          <  1:1651/139‑1 (MQ=255)

                                                           cgACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGaa                                                     <  1:96087/139‑1 (MQ=255)

                                                           cgACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGaa                                                     >  2:175378/1‑139 (MQ=255)

                                                           cgACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGaa                                                     <  1:139383/139‑1 (MQ=255)

                                                                 aGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTa                                                <  2:413429/138‑1 (MQ=255)

                                                                 aGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTAc                                               <  2:191887/139‑1 (MQ=255)

                                                                 aGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTAc                                               <  1:175378/139‑1 (MQ=255)

                                                                     cccAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATc                                           >  2:146542/1‑139 (MQ=255)

                                                                        aaGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGGATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGag                                        <  1:338/139‑2 (MQ=255)

                                                                           ggTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAg                                     <  1:74556/139‑1 (MQ=255)

                                                                                tGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGCtgtg                                >  2:192227/1‑139 (MQ=255)

                                                                                    cGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGCTGTGCCGt                            >  2:120150/1‑139 (MQ=255)

                                                                                                 gAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGCTGTGCCGTGAAAACGACATc                >  2:20057/1‑138 (MQ=255)

                                                                                                 gAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGCAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGATGTGCCGTGAAAACGACAta                >  2:49158/1‑137 (MQ=255)

                                                                                                     tcttctTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGCTGTGCCGTGAAAACGACATCAACAt           <  1:257350/139‑1 (MQ=255)

                                                                                                              cGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGCTGTGCCGTGAAAACGACATCAACATTGCCTTTaa  <  2:316378/139‑1 (MQ=255)

TCTCGGCGTGGCCTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGCTGTGCCGTGAAAACGACATCAACATTGCCTTTAA  >  NZ_CP009273/485009‑485257

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `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

BRESEQ :: bam2aln output

GCGTCTGGTGATCCGTCTCGGCGTGGCCTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGCTGTGCCGTGAAAACGACATCAACATTGCCTTTAACC  >  NZ_CP009273/484994‑485259

GCGTCTGGTGATCCGTCTCGGCGTGGCCTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGT                                                                                                                     <  SRR3722119.310820/151‑1 (MQ=60)

       GTGATCCGTCTCGGCGTGGCCTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGC                                                                                                              <  SRR3722119.236529/151‑1 (MQ=60)

                 GCGGCGTGGCCTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGTGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTA                                                                                                    <  SRR3722119.207660/151‑1 (MQ=60)

                          CCTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGCACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCCTGAGCTGCGTCTGTATGTGCGTG                                                                                            >  SRR3722119.347963/1‑150 (MQ=60)

                           CTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGA                                                                                           >  SRR3722119.21590/1‑150 (MQ=60)

                             ATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAAC                                                                                         <  SRR3722119.421668/150‑1 (MQ=60)

                                           GAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTC                                                                          <  SRR3722119.249903/151‑1 (MQ=60)

                                                          GTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGC                                                           >  SRR3722119.193939/1‑151 (MQ=60)

                                                                    AGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCGGCGTAGGGAGGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGgaa                                                 <  SRR3722119.1667/151‑4 (MQ=60)

                                                                         GCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCG                                            <  SRR3722119.140832/151‑1 (MQ=60)

                                                                         GCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCG                                            <  SRR3722119.97028/151‑1 (MQ=60)

                                                                               GAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGC                                      <  SRR3722119.177177/151‑1 (MQ=60)

                                                                                      CAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGGATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGAGCAGCTGTGCCG                               <  SRR3722119.343/151‑1 (MQ=60)

                                                                                         GGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGCTGTGCCGTGA                            <  SRR3722119.75274/151‑1 (MQ=60)

                                                                                                                   GTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGGTCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGCTGTGCCGTGAAAACGACATCAACATTGCCTTTAACC  <  SRR3722119.260023/151‑1 (MQ=60)

GCGTCTGGTGATCCGTCTCGGCGTGGCCTATGGCTCCGATCTGGAAAAAGTGCGTAAAGTGTTACTGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGACCGTAGTCGTACTGTCGATGAGCTGAACCGTACTATCGATCAGCTGTGCCGTGAAAACGACATCAACATTGCCTTTAACC  >  NZ_CP009273/484994‑485259

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`