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
A13 F1 I2 R1	92	50.6	2362856	94.3%	2228173	111.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,314,992	T→C	L502P (CTG→CCG)	rcsD →	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,314,992	0	T	C	100.0%	153.2 / NA	41	L502P (CTG→CCG)	rcsD	phosphotransfer intermediate protein in two‑component regulatory system with RcsBC
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/22); total (19/22)

AAAAACCAGCAGGGGCGGATGATCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCTGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGTTGTGCCTTCAGTGTTGCCTGCCATCAAGCGTA  >  NC_000913/2314856‑2315126

aaaaaCCAGCAGGGGCGGATGATCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCgg                                                                                                                                      <  2:1121043/139‑1 (MQ=255)

aaaaaCCAGCAGGGGCGGATGATCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCgg                                                                                                                                      >  2:779591/1‑139 (MQ=255)

    aCCAGCAGGGGCGGATGATCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCg                                                                                                                                  >  1:1026581/1‑139 (MQ=255)

    aCCAGCAGGGGCGGATGATCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCg                                                                                                                                  >  2:879156/1‑139 (MQ=255)

      cagcagGGGCGGATGATCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGc                                                                                                                                <  1:1162339/139‑1 (MQ=255)

        gcagGGGCGGATGATCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTg                                                                                                                              >  2:1043686/1‑139 (MQ=255)

          agGGGCGGATGATCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGt                                                                                                                            <  1:812953/139‑1 (MQ=255)

          agGGGCGGATGATCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGt                                                                                                                            <  1:779591/139‑1 (MQ=255)

          agGGGCGGATGATCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGt                                                                                                                            <  2:156422/139‑1 (MQ=255)

                      tCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGtta                                                                                                                          <  1:175854/129‑2 (MQ=255)

                      tCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTtg                                                                                                                          >  2:175854/1‑129 (MQ=255)

                      tCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACa                                                                                                                >  2:841041/1‑139 (MQ=255)

                       cTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAg                                                                                                               >  2:957237/1‑139 (MQ=255)

                               aaaaCATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGaa                                                                                                       <  2:1009066/139‑1 (MQ=255)

                                 aaCATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACa                                                                                                     >  1:733340/1‑139 (MQ=255)

                                               gcTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGgatgat                                                                                       <  1:1160346/139‑1 (MQ=255)

                                                            gCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTg                                                                          <  1:715227/139‑1 (MQ=255)

                                                               caGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGGACATGCTTGCGGATGATAGCTGGAAAAGTgaga                                                                       <  1:1043686/139‑1 (MQ=255)

                                                               caGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTgaga                                                                       <  1:957237/139‑1 (MQ=255)

                                                               caGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTgaga                                                                       <  2:1026581/139‑1 (MQ=255)

                                                                 gTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACg                                                                     <  2:1038499/139‑1 (MQ=255)

                                                                       ggCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGgatg                                                                                         >  2:589896/1‑113 (MQ=255)

                                                                       ggCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGgatg                                                                                         <  1:589896/113‑1 (MQ=255)

                                                                            agagCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTtctc                                                          >  2:259274/1‑139 (MQ=255)

                                                                                cgcgGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGc                                                                                                  <  2:1084461/95‑1 (MQ=255)

                                                                                cgcgGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGc                                                                                                  >  1:1084461/1‑95 (MQ=255)

                                                                                cgcgGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTg                                                      <  2:912883/139‑1 (MQ=255)

                                                                                cgcgGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTg                                                      >  1:232696/1‑139 (MQ=255)

                                                                                         acacAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGACGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTa                                             <  2:948592/136‑1 (MQ=255)

                                                                                                gCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATtgatg                                      <  2:530514/139‑1 (MQ=255)

                                                                                                    cGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGt                                  >  1:235347/1‑139 (MQ=255)

                                                                                                                 acTGGCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGTTGTGCCTTCAgtg                     >  1:437109/1‑139 (MQ=255)

                                                                                                                    ggCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGTTGTGCCTTCAGTGTtg                  >  2:1000147/1‑139 (MQ=255)

                                                                                                                     gCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGTTGTGCCTTCAgtg                     >  1:258475/1‑135 (MQ=255)

                                                                                                                     gCGAATCAGGCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGTTGTGCCTTCAgtg                     <  2:258475/135‑1 (MQ=255)

                                                                                                                              gCAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGTTGTGCCTTCAGTGTTGCCTGCCATCa        <  2:235347/139‑1 (MQ=255)

                                                                                                                               cAGATGTGCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGTTGTGCCTTCAGTGTTGCCTGCCATCaa       >  1:1052843/1‑139 (MQ=255)

                                                                                                                                    gtgCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGTTGTGCCTTCAGTGTTGCCTGCCATCAAGCGTa  >  1:826142/1‑139 (MQ=255)

                                                                                                                                    gtgCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGTTGTGCCTTCAGTGTTGCCTGCCATCAAGCGTa  <  1:316233/139‑1 (MQ=255)

                                                                                                                                    gtgCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGTTGTGCCTTCAGTGTTGCCTGCCATCAAGCGTa  >  1:431891/1‑139 (MQ=255)

                                                                                                                                     tgCCGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACg                                                                     <  2:275464/71‑1 (MQ=255)

AAAAACCAGCAGGGGCGGATGATCTTTATGAAAAACATTGGCGATGCGCTGAAAGAACCCGCACAGTCCCTGGCGGAGAGCGCGGCTAAACTCAACGCCCCGGAAAGCAAACAACTGGCGAATCAGGCAGATGTGCTGGTGCGGCTGGTTGATGAAATACAGTTAGCGAACATGCTTGCGGATGATAGCTGGAAAAGTGAGACGGTGCTGTTCTCCGTGCAGGATTTAATTGATGAAGTTGTGCCTTCAGTGTTGCCTGCCATCAAGCGTA  >  NC_000913/2314856‑2315126

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A