New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5099947 =	51 (0.800)	7 (0.140)	7/204	NT	15.6%	intergenic (+33/+120)	PP_4488/phhR	hypothetical protein/sigma‑54 dependent transcriptional regulator
	?	NC_002947	5100029 =	35 (0.680)					intergenic (+115/+38)	PP_4488/phhR	hypothetical protein/sigma‑54 dependent transcriptional regulator

GACAATTGCCAACAAGTTGAGGGATTACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGGGACTGCGTTGCAGTCCTTTCGCGACACAAGGCCGCTCCCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTGGGAGCGGCCTTGTGTCGCGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/5100118‑5099947 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctgtgggagcggccttgtgtcgcgaAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGGAAACTCCCCCATC  >  NC_002947/5100029‑5100175                                                                                                                                                                                                                                                                                                                                 GACAATTGCCAACAAGTTGAGGGATTACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGGGACTGCGTTGCAGTCCTTTCGCGACACAAGGCCGCTCCCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCT                                                                                                                                                                            >  6:76641/1‑149   CAATTGCCAACACGTTGAGGGTTTACTCGCTTAAGATGTCGGCGGATTAGTTGTTGGTCAAATAACCTGGGACTGCGTTGGAGTGCTTTCGCGACACTAGGCCGCTCCCTCAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGT                                                                                                                                                                          <  2:52316/149‑1    AATTGCCAACAAGTTGAGGGATTACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGGGACTGCGTTGCAGTCCTTTCGCGACACAAGGCCGCTCCCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTG                                                                                                                                                                         <  5:76641/149‑1     ATTGCCAACAAGTTGAGGGATTACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGGGACTGCGTTGCAGTCCTTTCGCGACACAAGGCCGCTCCCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTGG                                                                                                                                                                        <  7:388961/149‑1           AACAAGTTGAGGGATTACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGGGACTGCGTTGCAGTCCTTTCGCGACACAAGGCCGCTCCCAAAGGTAATAAGCTGTGCTCTGGCTGAGCGCATTATCTGTGGGAGCGG                                                                                                                                                                  >  5:362875/1‑149                GTTGAGGGATTACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGGGACTGCGTTGCAGTCCTTTCGCGACACAAGGCCGCTCCCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTGGGAGCGGCCTTG                                                                                                                                                             >  5:318849/1‑149                   GAGGGATTACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGGGACTGCGTTGCAGTCCTTTCGCGACACAAGGCCGCTCCCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTGGGAGCGGCCTTGTGT                                                                                                                                                          >  6:78984/1‑149                    AGGGATTACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGGGACTGCGTTGCAGTCCTTTCGCGACACAAGGCCGCTCCCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTGGGAGCGGCCTTGTGT                                                                                                                                                          <  6:318849/148‑1                    AGGGATTACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGGGACTGCGTTGCAGTCCTTTCGCGACACAAGGCCGCTCCCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTGGGAGCGGCCTTGTGT                                                                                                                                                          <  5:78984/148‑1                    AGGGATTACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGGGACTGCGGTGCAGTCCTTTCGCGACACAAGGCCGCTCCCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTGGGAGCGGCCTTGTGT                                                                                                                                                          <  5:74378/148‑1                           ACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGTGACTGCGTTGCAGTCCTTTCGCGACACAAGGCCGCTCCCACAGTTAATGCGCTCAGCCAGAGCACAGCGTATTACCTGTGGGAGCGGCCTTGTGTCGCGAAA                                                                                                                                                   <  1:109700/148‑1                                                                                                            TCCCACAGGTAATACGCTGTGCTCTCGCTGAGCGCATTATCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGA                                                                                       <  6:12895/127‑1                                                                                                            TCCCACAGGTAATACGCTGTGCTCTCGCTGAGCGCATTATCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGA                                                                                       >  5:12895/1‑127                                                                                                              CCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAAT                                                               >  8:26134/1‑149                                                                                                              CCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGA                                                                                                                      >  1:138815/1‑94                                                                                                              CCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGA                                                                                                                      <  2:138815/94‑1                                                                                                               CACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTG                                                                    >  4:203517/1‑143                                                                                                               CACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTACCTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTG                                                                    <  3:203517/143‑1                                                                                                                                                    CTGTGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTC                                                           >  6:235162/1‑115                                                                                                                                                       TGGGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCC                         <  7:26134/146‑1                                                                                                                                                         GGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTA                    >  8:202395/1‑149                                                                                                                                                         GGAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACT                     <  4:351272/148‑1                                                                                                                                                          GAGCGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTAC                   >  7:227081/1‑149                                                                                                                                                             CGGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACCACTACTCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTG                 <  7:355907/148‑1                                                                                                                                                              GGCCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGG               <  6:74378/149‑1                                                                                                                                                                CCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTAC                   <  5:199362/143‑1                                                                                                                                                                CCTTGTGTCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTAC                   >  6:199362/1‑143                                                                                                                                                                       TCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGGAAACTCCCC      >  7:219221/1‑149                                                                                                                                                                       TCGCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGGAAACTCCCC      >  3:84941/1‑149                                                                                                                                                                         GCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGGAAACTCCCCC     <  3:96844/148‑1                                                                                                                                                                         GCGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCACTCTTTTGCCCAAGGCCCGCCTAATGGGAAACTCCCCC     >  4:234058/1‑148                                                                                                                                                                          CGAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGGTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGGAAACTCCCCCA    >  7:287015/1‑148                                                                                                                                                                           GAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTG                 >  6:299997/1‑134                                                                                                                                                                           GAAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTG                 <  5:299997/134‑1                                                                                                                                                                            AAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGGAAACTCCCCCATC  >  7:324464/1‑148                                                                                                                                                                                                                                                                                                                                 GACAATTGCCAACAAGTTGAGGGATTACTCGCTTAACAAGTCGGCGGATTAGTTGTTGGTCAAAGAACCTGGGACTGCGTTGCAGTCCTTTCGCGACACAAGGCCGCTCCCACAGGTAATACGCTGTGCTCTGGCTGAGCGCATTATCTGTGGGAGCGGCCTTGTGTCGCGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/5100118‑5099947 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctgtgggagcggccttgtgtcgcgaAAGGACTGCAACGCAGTCCCAGGTTCTTTGACCAACAACTAATCCGCCGACTTGTTAAGCGAGTAATCCCTCAACTTGTTGGCAATTGTCGTGTGCGAAACACCCAGTCTTTTGCCCAAGGCCCGACTACTGGGAAACTCCCCCATC  >  NC_002947/5100029‑5100175

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.