Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	3,815,859	Δ82 bp		[rph]–[rph]	[rph], [rph]

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	3815859	3815940	82	49 [0]	[0] 49	[rph]–[rph]	[rph],[rph]

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3815858	0 (0.000)	46 (0.940)	38/264	0.3	100%	pseudogene (24/48 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
	?	NC_000913	3815941 =	0 (0.000)					pseudogene (609/669 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH

CTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTC  >  NC_000913/3815721‑3815998                                                                                                                                          |                                                                                                                                             cTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCCTACTTTTCGACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCCGCcagcc                                                                                                                                         >  2:431617‑M1/1‑138 (MQ=255)   gcttgctAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCACCTCTTACACATCAACAGACAAAAAAAAAGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCCCCTTCTGCcgtcccc                                                                                                                                       >  1:632265‑M1/1‑136 (MQ=255)         tAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCGGCCTTCGGCcgtcccctgccct                                                                                                                                 >  1:594000‑M1/1‑130 (MQ=255)         tAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTAGCCTTAAAAATCAGTTTGCCAGAGCAGCCTTCTGCcgtcccatgcact                                                                                                                                 >  1:414129‑M1/1‑130 (MQ=255)          aaGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcactt                                                                                                                                <  1:763498‑M1/143‑15 (MQ=255)          aaGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcactt                                                                                                                                >  2:390152‑M1/1‑129 (MQ=255)               cAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatg                                                                                                                           <  1:74907‑M1/143‑20 (MQ=255)                aaaTTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTACAAATCAGTTTGCCAGCGCCGCCTTCTGCcgctccacgcacatcaatga                                                                                                                          >  2:95443‑M1/1‑123 (MQ=255)                 aaTTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCACCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcggcccctgcacttcaatgat                                                                                                                         <  2:118864‑M1/143‑22 (MQ=255)                    tCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCCTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcggcccctgcacttcagtgatgcg                                                                                                                      >  1:309175‑M1/1‑119 (MQ=255)                    tCAATAAACTGACGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGACGTACAAATCAAGTTGCCAGAGCACCCTTCCGCcctcccctacccttcaatgatgca                                                                                                                      >  2:9213‑M1/1‑119 (MQ=255)                        tAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGATTGCCAGCGCCGCCTTCTGCcgtcccccgcacttcaacgacgcgcccc                                                                                                                  >  2:146053‑M1/1‑115 (MQ=255)                          aaCTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtc                                                                                                                >  2:208902‑M1/1‑113 (MQ=255)                             tGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgccccctgcacttcaatgatgcgcccgtcttc                                                                                                             >  2:895059‑M1/1‑110 (MQ=255)                              ggtcctcatatcgtttcaTGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcg                                                                                                            <  1:793022‑M1/136‑35 (MQ=255)                              ggCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcacccgtcttcg                                                                                                            <  1:33669‑M1/143‑35 (MQ=255)                                cgcTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAACAAGGCGACTCATCAGTCGCCTTAAAAATCAGCTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggt                                                                                                          <  2:122189‑M1/143‑37 (MQ=255)                                       atGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGACGACTCATCAGTCGCCTTAAAAATCAGTTTGCAAGCGCCGCCTTCTGCcctcccctgcacttcaatgatgctcccgtcttcggtcataact                                                                                                   >  2:108869‑M1/1‑100 (MQ=255)                                         ggTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCATTATGTggtgctctgcacttcaatgatgcgcccgtcttcggtcctcactac                                                                                                 >  1:215140‑M1/1‑98 (MQ=255)                                           gttcATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAACCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgt                                                                                               <  2:145317‑M1/142‑48 (MQ=255)                                             tCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttc                                                                                             >  1:106794‑M1/1‑94 (MQ=255)                                                           ctcATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTAGCATTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcgggctgtgc                                                                               >  1:264629‑M1/1‑80 (MQ=255)                                                            tcATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcg                                                                              <  1:876607‑M1/143‑65 (MQ=255)                                                                 ttgctttTCTTCAGACAAAAAAAAGGCGGCTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcaga                                                                         <  2:755420‑M1/140‑70 (MQ=255)                                                                 ttACTTTGCTACAGACAAAAAAAAGGCGACTGATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcaga                                                                         <  2:208722‑M1/143‑70 (MQ=255)                                                                  tACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCagtccactgcactgcaatgctgcgcccgtcttcgatcaccactccgtccatgtcggtgtccgccgcccgg                                                                        >  2:172398‑M1/1‑73 (MQ=255)                                                                     ttttCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtct                                                                     >  1:749025‑M1/1‑70 (MQ=255)                                                                      ttttgacagacAAAAAAAAGGCGCCTCACCAGTCGCCTTAAAAGCCAGCTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtctt                                                                    <  2:761044‑M1/138‑75 (MQ=255)                                                                          tACAGACAAAAAAAAGGCGACTCATCGGTCGCCTTAAAAACCAGTGTGCCAGCGCCGCCTTCTGCcgtcccctgcccttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaac                                                                <  1:87818‑M1/143‑79 (MQ=255)                                                                             aGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcgtcactccgttcatgtcggtctctgcggcagcgtcttcaacgta                                                             >  1:83557‑M1/1‑62 (MQ=255)                                                                               aCAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacgtcaatgatgcgcccgtcttcgctcatcactccgttcatgtcggtctctccggcagcgccttcaacgtctt                                                           >  2:804120‑M1/1‑60 (MQ=255)                                                                                 aaaaaaaaGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcgccagagccttcaacgtattcc                                                         >  1:796417‑M1/1‑58 (MQ=255)                                                                                  aaaaaaaGGCGACTCATCGGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTGCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattcca                                                        <  2:392549‑M1/143‑87 (MQ=255)                                                                                   aaaaaaGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcccttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccac                                                       >  2:541096‑M1/1‑56 (MQ=255)                                                                                   aaaaaaGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatccctacgctcacgtcgctctctgcggcagagtcttcaacgtcttccac                                                       >  2:173423‑M1/1‑56 (MQ=255)                                                                                      aaaGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatc                                                    <  1:501775‑M1/143‑91 (MQ=255)                                                                                              cTCATCAGTCGCCTTAAAAATCAGTTTGCCGGCGCCGCCTTCTGCcgtcccctgcgcttcaatgatgcgcccgtctgcgggcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgccaaccg                                            >  1:524078‑M1/1‑45 (MQ=255)                                                                                                     gTCGCCTTAAAAATGGGTTTGCCAGCGCCGCCTTCTGCcggcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgcc                                     <  2:220206‑M1/143‑106 (MQ=255)                                                                                                      tCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcccttcaatgatgcgcccgtcttcggtcatcactacgttcctgtcggtctctgcggcagagtcttcaacgtattccagctcgtaagacgcttgcccg                                    >  1:845086‑M1/1‑37 (MQ=255)                                                                                                      tCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccg                                    >  1:620096‑M1/1‑37 (MQ=255)                                                                                                         ccTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttc                                 >  1:160617‑M1/1‑34 (MQ=255)                                                                                                           ttAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtctcctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcac                               >  2:314701‑M1/1‑32 (MQ=255)                                                                                                                   cgttttggcAGCGCCGCCTTCTGCcgtcccctgcacttcaatgaggcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgtcgttcacaatttcgt                       <  2:936672‑M1/140‑120 (MQ=255)                                                                                                                    aGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcgctcactgcgacagagtcttcaacgtattgcagatcgcaaaccgcgtcgccgttctcaatccagac                      >  2:827632‑M1/1‑23 (MQ=255)                                                                                                                              cgccgcCTTCTGCcggcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcg            <  1:390152‑M1/143‑131 (MQ=255)                                                                                                                               gccgccTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcacttccttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcgg           <  2:571981‑M1/143‑132 (MQ=255)                                                                                                                                   cgttctGGcgtctcctgcacttcaatgatgcgcccgtccgtgtgtagcaatacgatcatgtcggtctttgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcggctac       <  2:197967‑M1/141‑136 (MQ=255)                                                                                                                                     ttCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacggattcacaaacgcagaccgcttcgccgctcacaattccgacagaaactgcggctaccc     >  1:439123‑M1/1‑6 (MQ=255)                                                                                                                                        tGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcggctaccatcc  >  1:35580‑M1/1‑3 (MQ=255)                                                                                                                                          |                                                                                                                                             CTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTC  >  NC_000913/3815721‑3815998

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑