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
A9 F77 I1 R1	25	36.2	1670822	86.2%	1440248	142.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	710,595	G→T	P18T (CCT→ACT)	fur ←	DNA‑binding transcriptional dual regulator Fur

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	710,595	0	G	T	91.7%	80.5 / NA	37	P18T (CCT→ACT)	fur	DNA‑binding transcriptional dual regulator Fur
Reads supporting (aligned to +/- strand): ref base G (1/2); new base T (19/14); total (21/16)
Fisher's exact test for biased strand distribution p-value = 5.74e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGGAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATA  >  NC_000913/710462‑710729

naCTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCATACGTTTGTATAAATCTTCCGCACTGCCGTGAGGGTTGTCCGGCTCCTAAATAACGTCCCGGTTTCTTAAACGTGTAAGCATTAc                                                                                                                               >  2:421318/2‑143 (MQ=255)

aaCTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTATTCACCCATATCGATCAGACGTTTGTATAAGTCTTCCGCACTGACGTGATGGTTGTGAGGCTCCTGAAGAAATTCCAGGATAGTTAAACGAGTAAGAGTTAc                                                                                                                               >  2:654929/1‑143 (MQ=255)

   tGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGTCGTTTGTATAAATCTTCCGCACTGTCGTGATGTTTGTCTGGCTCTTGAAGAACTTACAGAATTTTTAAACGAGTAAGCATTACttt                                                                                                                            >  1:113688/1‑143 (MQ=255)

    ggTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCCCCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTc                                                                                                                           >  1:647313/1‑143 (MQ=255)

    ggTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCTGCACTGACGTGATGGTTATCAGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGGAAGCGTTACttta                                                                                                                           >  1:106453/1‑142 (MQ=255)

     gTTCAGTACGTGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCa                                                                                                                          <  1:586991/143‑1 (MQ=255)

      ttcgtttcgctATATATCGTAGTCATACCATTTTCTTCACCCATAACGATCAGACGATTGTATAAATCTGCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAg                                                                                                                         <  1:469517/136‑1 (MQ=255)

                       cGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGATTGTATAAATCTTCCGCACTGACGTGATGGTTGTACGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCATGCAAGCTTTCTATAtgg                                                                                                        >  2:675399/1‑143 (MQ=255)

                            ccAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTa                                                                                                   >  1:32625/1‑143 (MQ=255)

                               gtccACTTTCTTCATCTATATGGATCAGTCGTTTCTATAAATCTTCCGTATTGACGTGTTGGTTGTCCGGCGCCAGAAGAACTGCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTg                                                                                                <  1:623371/141‑1 (MQ=255)

                                   aaTTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGTCGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTAt                                                                                            <  2:141443/143‑1 (MQ=255)

                                    aTTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGAAAGCGTTACTTTCAGACAAGCATTCTTTAGGGCGGTATTGTTATc                                                                                           >  1:725703/1‑143 (MQ=255)

                                     tttCTTCACCCATATCGCTCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCCCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCCGGCCAGCTTTCTTTAGGGCGGTATTGTTATCa                                                                                          <  2:438587/143‑1 (MQ=255)

                                                 tatCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGATCTTCCAGGATTTTCAAACGAGTAAGCGTTTCTTTCGGGCAAGCTTTAGTTAGGGAGGTATTGTTATCAGTCATGAGGAAt                                                                              >  1:463418/1‑143 (MQ=255)

                                                          gACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTga                                                                     >  1:399235/1‑142 (MQ=255)

                                                          gACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGGAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGt                                                                     <  1:773075/143‑1 (MQ=255)

                                                                        tCTTCCGCACTGACGGGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAATCGTTAATTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCa                                                       <  2:352942/143‑1 (MQ=255)

                                                                            ccGCAGTGACGTGATGTTTGTCCTGCTACTGAATAACTTCCATGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGTGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTc                                                   <  2:700913/143‑1 (MQ=255)

                                                                               cACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCAtt                                                <  2:32625/143‑1 (MQ=255)

                                                                                        gATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCCGGCCAGCTTTCTTTTGGCCGGTCTTCTTATCAGTCATAAGAAATATAACCAATAACTAAACGGTTCACTTCATTAGAAGAAGt                                       >  1:653954/1‑143 (MQ=255)

                                                                                        gATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGt                                       >  1:652348/1‑143 (MQ=255)

                                                                                        gATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCAAACGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGt                                       >  1:555207/1‑143 (MQ=255)

                                                                                           ggTTGTCCGGCTCCTGTAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACAAAGCGGTTCACTTCATTAGAAGAAGTGAc                                    >  2:509267/1‑143 (MQ=255)

                                                                                               gTCCGTCTCTTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGaa                                <  2:833071/143‑1 (MQ=255)

                                                                                                tCCGGCTCCTGAAGAACTTCTAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAAt                               <  1:596442/143‑1 (MQ=255)

                                                                                                    gCTCCTGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTCCTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGc                           >  2:156709/1‑143 (MQ=255)

                                                                                                      tCCTGAAGATTTTTCAGGATTTTTAAACGAGTATGCGTTACTTTCAGGCTAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGctc                         <  1:430549/143‑1 (MQ=255)

                                                                                                         tGAAGAACTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCAGTAGAAGAAGTGACAGAATTTGCTCTTg                      >  2:529717/1‑143 (MQ=255)

                                                                                                          tgagtaCTTCCAGGATTTTTTAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTga                     <  2:28760/138‑1 (MQ=255)

                                                                                                          gaataaCTTCCATGATTTTTAAACGAGTAAGCGTTACTTTCAGGTCAGCTTTCTTTAGGGCTGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTTATTAGAAGAAGTGACAGAATTTGCTCTTga                     <  2:113688/143‑1 (MQ=255)

                                                                                                          gaagaaCTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGCATTTGCTCTTga                     >  1:471632/1‑143 (MQ=255)

                                                                                                            agaaCTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCAGTAGTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTgaga                   >  1:743974/1‑143 (MQ=255)

                                                                                                             gaaCTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGAt                  >  2:602871/1‑143 (MQ=255)

                                                                                                             gaaCTTCCAGGATTTTTAAACGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGAt                  >  1:49119/1‑143 (MQ=255)

                                                                                                                     aGGATTTTTAAGCGAGTATGCTTTACTTTCAGGTCAGTTTTCTTTAGTGCGTTTTTTTTATCAGTCATTCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTa          <  1:678809/143‑1 (MQ=255)

                                                                                                                            ttAAGCGAGTAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTGTCATtat   >  2:209101/1‑143 (MQ=255)

                                                                                                                             tAAACGAGGAAGGTTTGCTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATtata  <  2:472152/143‑1 (MQ=255)

AACTGGTTCAGTACGCGATATACCGTAGCCAGACCAATTTCTTCACCCATATCGATCAGACGTTTGTATAAATCTTCCGCACTGACGTGATGGTTGTCCGGCTCCTGAAGAACTTCCAGGATTTTTAAACGAGGAAGCGTTACTTTCAGGCCAGCTTTCTTTAGGGCGGTATTGTTATCAGTCATGCGGAATCTGTCCTGTTACTAAGCGGTTCACTTCATTAGAAGAAGTGACAGAATTTGCTCTTGAGATAATGCGTATCATTATA  >  NC_000913/710462‑710729

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A