a score=192 mismap=0.117
s KI635862   2418195 86 +  12728579 CACAGGCCGCTGCAGCCCAGAACTCCTGGCCTCAAGCGATCCACCAGCCTCAGCCTC-CGAGCAGCCGG-ATAACAGGCGCGCGCCAC
s chr1     248803921 88 - 248956422 CATAGCTCACTGCAGCCTTGACCTCCTAGGCTAAAGCAATCCTCCCACCTTAGCCTCTCCAGTAGCTGGAACTACAGGCATGCATCAC
p                                   #$$%&&'(()******************************************************************************

a score=330 mismap=0.75
s KI636063 409336 105 +    789923 AAAATATGGAACGCTTCACGAATTTGCGTGTCATCCTTGCGCAGGGGCCATGCTAATCTTCTCTGTATCGTTCCAATTTTAGTATATGTGCTGCCGAAGCGAGCA
s chr1     157784 102 + 248956422 aaaataTGGAATGCTTCACAAATTTGCATGTCATTCTTTCACAGAGGCCGTGCCAA---TCTCTCTATTGTTCCAACTTAAGTATGTGTGCTACTGAGGCAAGCA
p                                 !"""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""!

a score=203 mismap=0.0127
s KI635862   2418239 48 +  12728579 CAGCCTCAGCCTC-CGAGCAGCC-GGATAACAGGCGCGCGCCACCGCGCC
s chr1     248798136 50 - 248956422 CTGCCTCAGCCTCACAAGTAGCTGGGACTACAGGTGCTTGTCACCACACC
p                                   33333333333333333333333333333333333322211110.*)'&$

@ 7 87 chrMa 141 -
TAGTAGGTATGTTTGCTTGTAATATTGAATGTAGGAGCGATAGATAAGAG
+
?:+4>89ABBB@AB?):B=5=1@@49;;9;<9(22+/+>?060.=<4++2
@ 21 87 chrMa 80 +
TTATTATTTATCGTATT
+
B2BBABBA:1:A8A?=9
@ 95 87 chrMa 131 +
TTATTATTTATCGTATTTACGTTTAATATTATAGGTGAATATATTTATTG
+
A?6BA=*?@>>8:?0;=6>@A8?76@7<?@?;99174=9?3216;(:19#
> 7 87 chrMa 141 -
TAGTAGGTATGTTTGCTTGTAATATTGAATGTAGGAGCGATAGATAAGAG
> 21 87 chrMa 80 +
TTATTATTTATCGTATT
> 95 87 chrMa 131 +
TTATTATTTATCGTATTTACGTTTAATATTATAGGTGAATATATTTATTG
a score=1607.4 EG2=5e-147 E=2.5e-152
s UN-L1MA6_pol#LINE/L1   867 11 +  1275 GlyIleThrLeu-ProAspPheLysIleTyrTyr
s chrUn_KI270748v1     90711 31 - 93321 GGCCTCACA---ATCTGACTTCAAAACATATTAC

a score=3177.2 EG2=0 E=0
s UN-L1MA6_pol#LINE/L1   884  8 +  1275 ThrAlaTrpTyrTrpHisLysAsn
s chrUn_KI270748v1     14577 24 + 93321 ACACCATGGTACTGGCATAAACGC

a score=1559.7 EG2=3.8e-142 E=2e-147
s UN-L1MA6_pol#LINE/L1  884  8 +  1275 ThrAlaTrpTyrTrpHisLys--Asn
s chrUn_KI270748v1     3235 23 - 93321 tcagcctggtaatcaCGT---AAAAC