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 F20 I0 R1	91	60.0	1338914	94.3%	1262595	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,474,639	C→G	100%	A9129P (GCA→CCA)	ebh ←	extracellular matrix binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,474,639	0	C	G	98.7%	187.7 / ‑5.8	57	A9129P (GCA→CCA)	ebh	extracellular matrix binding protein
Reads supporting (aligned to +/- strand): ref base C (0/0); major base G (24/32); minor base T (0/1); total (24/33)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

ACCTTTAAATCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGCTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTCATT  >  CP000730/1474505‑1474774

cccTTTAAAACCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATc                                                                                                                                   <  1:225152/140‑1 (MQ=255)

aCCTTTAAATCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATc                                                                                                                                   >  2:54532/1‑141 (MQ=255)

 ccTTTAAATCCATCTTGTTGAGCATTGTTTAATGTATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATcc                                                                                                                                  <  1:507271/141‑1 (MQ=255)

   tttAAATCCATCTTGTTGAGCCTTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAGAATATTTTGAAGTGGTTGATCCAc                                                                                                                                <  1:286284/141‑1 (MQ=255)

    ttAAATCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACt                                                                                                                               >  1:98542/1‑141 (MQ=255)

       aaTCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACttgt                                                                                                                            <  1:233856/141‑1 (MQ=255)

         tCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACttgttg                                                                                                                          <  1:430406/141‑1 (MQ=255)

          ccATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGc                                                                                                                         >  2:103380/1‑141 (MQ=255)

               ttgttgAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTAtt                                                                                                                    <  2:84240/141‑1 (MQ=255)

               ttgttgAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTAtt                                                                                                                    <  1:70967/141‑1 (MQ=255)

               ttgttgAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTAtt                                                                                                                    <  2:230829/141‑1 (MQ=255)

               ttgttgAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTAtt                                                                                                                    <  1:659779/141‑1 (MQ=255)

                tgttgAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTc                                                                                                                   >  1:56766/1‑141 (MQ=255)

                 ttggAGCATTGTTTAATGCAGTCAATGGGTCGATGTCATGTTTACCATTTGTTTTCGTCGGCGCCACACTTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCg                                                                                                                  <  1:318553/138‑1 (MQ=255)

                  ttgAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTAGTTGATCCACTTGTTGCTTATTCGc                                                                                                                 <  1:336581/141‑1 (MQ=255)

                     ggCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTTGTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCAtt                                                                                                              <  1:186085/140‑1 (MQ=255)

                         ttGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTTGCAAGTGCTAACCGTTCATCACCATTTAATGCTTTTTTTGCATTTAAAATATGTGGAAGTGGTTGGTGCACGCGTTTGTTATGCGCAGTTTGt                                                                                                          >  2:218250/1‑141 (MQ=255)

                         ttGGTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGt                                                                                                          <  1:363214/141‑1 (MQ=255)

                          tGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGtt                                                                                                         >  1:134209/1‑141 (MQ=255)

                             ttAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCa                                                                                                      >  2:286151/1‑141 (MQ=255)

                              tAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCaa                                                                                                     >  1:604557/1‑141 (MQ=255)

                                 tGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATAc                                                                                                  <  2:545739/141‑1 (MQ=255)

                                   cATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACAt                                                                                                <  1:436715/141‑1 (MQ=255)

                                             gTCGATGTCATGTTTCCCATTTGTTTGAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtcagcatc                                                                                      <  1:66290/141‑1 (MQ=255)

                                             gTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTtcagcatc                                                                                      >  2:153394/1‑141 (MQ=255)

                                                gATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATACGCATTTTGTTTCAATACCTTTtcagcatcagc                                                                                   >  1:452967/1‑141 (MQ=255)

                                                            aCCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATCCATTTTCAGCATCAGCAATAGCTTGttt                                                                       >  2:234026/1‑141 (MQ=255)

                                                                 ttGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAg                                                                  <  1:45276/141‑1 (MQ=255)

                                                                  ttgtttAGTAATTGCTTCATGTTCATCACCATTTAATTGTTGTTTTGCATTTAAAATATTTTGAAGTGTTTGATCCCCTTGTTGCTCATCCGTATTTTCTTTCAATACATTTTCAGTATCAGCAATAGCTTGTTTATTAGc                                                                 <  2:273870/138‑1 (MQ=255)

                                                                     tttAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCAtt                                                              <  1:605394/141‑1 (MQ=255)

                                                                       tAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCAtttt                                                            <  2:592153/141‑1 (MQ=255)

                                                                            aGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGtttt                                                       >  1:185004/1‑140 (MQ=255)

                                                                              tGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTAAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTATTTCAATACATTTTCAGCATCAGCAATAGCTTAGTTATAAGCATTTTGTTTAtt                                                     >  2:232388/1‑140 (MQ=255)

                                                                                cTACACGTTCTTAACCATTTTATTCTGGTGTTGCATTTAAATTATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATATATTTTCAGCATCAGCCATAGCTAGTTTATATGCAttaagtcaatgtt                                                   <  2:6566/141‑12 (MQ=255)

                                                                                 tACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCACTAGCTTGTTTATAAGAATTTTGTTTTTTTGa                                                  >  2:509645/1‑141 (MQ=255)

                                                                                    acGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATc                                               <  1:67666/141‑1 (MQ=255)

                                                                                     cGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCt                                              <  1:427851/141‑1 (MQ=255)

                                                                                       ttCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGc                                            <  1:42041/141‑1 (MQ=255)

                                                                                       ttCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGc                                            <  1:33042/141‑1 (MQ=255)

                                                                                         catcaCCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGACTCTGCtt                                          >  2:291748/1‑141 (MQ=255)

                                                                                           tcaCCATTTAATGCTTGTTCTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTtgt                                        >  1:399428/1‑141 (MQ=255)

                                                                                              ccATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTtgtgtg                                     <  2:623483/141‑1 (MQ=255)

                                                                                               cATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAGTCTGCTTgtgtgt                                    >  1:250500/1‑141 (MQ=255)

                                                                                               cATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGACTCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATCTTGTTTATCTGAATCTGCTTgtgtgt                                    <  2:401762/141‑1 (MQ=255)

                                                                                                    aaTGCTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCt                               <  1:390644/141‑1 (MQ=255)

                                                                                                        cTTGTTTTGCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACCTTTTCCACAACATCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAg                           >  1:319197/1‑141 (MQ=255)

                                                                                                              ttGCATTTAAAATATTTTGAAGTGGTTGATCCACTTATTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCGTGTGTGTAATCTACAGTTTGCt                     >  1:462642/1‑141 (MQ=255)

                                                                                                                gCATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGGATCTGCTTGTGTGTCATCTACAGTTTGCTcc                   >  2:70476/1‑140 (MQ=255)

                                                                                                                 cATTTAAAATATTTTGAAGTGGTTGATCCACTTGTTCCCTATTCGCATTTTGTTTCAATACATTTTCAGCATCATCAATATCTTGTTTATAAGCATTTTGTTTATCTGATTTTGCTTGTGTGTCATCTACATTTTGCTCaa                  >  2:556541/1‑141 (MQ=255)

                                                                                                                        aaTATTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGc           >  2:354176/1‑141 (MQ=255)

                                                                                                                          tatTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCAt         >  1:273807/1‑141 (MQ=255)

                                                                                                                           atTTTGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATg        <  2:399428/141‑1 (MQ=255)

                                                                                                                              ttGAGGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTAGCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTc     >  2:405263/1‑141 (MQ=255)

                                                                                                                              ttGAAGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTc     <  1:103380/141‑1 (MQ=255)

                                                                                                                               tGAATTGGTTGATCCACTTGTTGCTTATTCTCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTaaccttttca    <  2:60553/141‑10 (MQ=255)

                                                                                                                               tGAAGTGGTTGATCCACTTTTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTCa    <  2:177853/141‑1 (MQ=255)

                                                                                                                                 taGTGGTTGATCCACTTGTTGCTTATTCGCATTTTGTTGCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTCAtt  <  2:483133/140‑1 (MQ=255)

ACCTTTAAATCCATCTTGTTGAGCATTGTTTAATGCATTCAATTGGTCGATGTCATGTTTACCATTTGTTTTAGCAAGTGCTACACGTTCATCACCATTTAATGCTTGTTTTGCATTTAAAATATTTTGAAGTGCTTGATCCACTTGTTGCTTATTCGCATTTTGTTTCAATACATTTTCAGCATCAGCAATAGCTTGTTTATAAGCATTTTGTTTATCTGAATCTGCTTGTGTGTAATCTACAGTTTGCTCAACGTTAGCATGTTCATT  >  CP000730/1474505‑1474774

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A