Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009630.1 Hibiscus syriacus cultivar Beakdansim tig00117026_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1249403
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:850424 original size:29 final size:29
Alignment explanation
Indices: 850341--850424 Score: 68
Period size: 29 Copynumber: 2.9 Consensus size: 29
850331 CCATGTGATA
* *
850341 AAGGATATTAATTGATTATTTAAAAAA-TTT
1 AAGGAT-TTCATTG-TTTTTTAAAAAAGTTT
*
850371 AAGGATTTCATTGTTTTTT-ATAAAGTTT
1 AAGGATTTCATTGTTTTTTAAAAAAGTTT
*
850399 GAAGGCA-TTGATT-TTTTTTAAAAAAG
1 -AAGG-ATTTCATTGTTTTTTAAAAAAG
850425 AAATCCTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
27 4 0.09
28 14 0.31
29 20 0.44
30 7 0.16
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.45
Consensus pattern (29 bp):
AAGGATTTCATTGTTTTTTAAAAAAGTTT
Found at i:850460 original size:17 final size:17
Alignment explanation
Indices: 850434--850467 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
850424 GAAATCCTTT
850434 AAATTTAAAATA-CAAA
1 AAATTTAAAATATCAAA
850450 AAATATTAAAATATCAAA
1 AAAT-TTAAAATATCAAA
850468 TATAAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATTTAAAATATCAAA
Found at i:850491 original size:31 final size:31
Alignment explanation
Indices: 850434--850493 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
850424 GAAATCCTTT
*
850434 AAATTTAAAATACAAAAAATATTAAAATATC
1 AAATATAAAATACAAAAAATATTAAAATATC
850465 AAATATAAAAGTA-AAATAAATA-TAAAATA
1 AAATATAAAA-TACAAA-AAATATTAAAATA
850494 AATTATTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (31 bp):
AAATATAAAATACAAAAAATATTAAAATATC
Found at i:860039 original size:31 final size:30
Alignment explanation
Indices: 860004--860062 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
859994 AAATATAATT
860004 TAAAAAAATAA-TTGAATGACTAAAATAAAAA
1 TAAAAAAATAAGTT-AATGACT-AAATAAAAA
* *
860035 TAAAATAATAAGTTAGTGACTAAATAAA
1 TAAAAAAATAAGTTAATGACTAAATAAA
860063 TAATTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 16 0.64
32 2 0.08
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.25
Consensus pattern (30 bp):
TAAAAAAATAAGTTAATGACTAAATAAAAA
Found at i:862530 original size:17 final size:17
Alignment explanation
Indices: 862499--862532 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
862489 TATCGGTCTA
*
862499 TTTTGAGTTTAGTCAAT
1 TTTTGAGTTGAGTCAAT
*
862516 TTTTGAGTTGGGTCAAT
1 TTTTGAGTTGAGTCAAT
862533 ATCATATCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.50
Consensus pattern (17 bp):
TTTTGAGTTGAGTCAAT
Found at i:866184 original size:3 final size:3
Alignment explanation
Indices: 866176--866204 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
866166 AATTAGCTGG
866176 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
866205 GTTGAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:876706 original size:19 final size:19
Alignment explanation
Indices: 876678--876721 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
876668 TCCTTTTATG
* *
876678 TTATTTCTTCCCTACTCAA
1 TTATTACTTCACTACTCAA
*
876697 TTATTACTTCAGTACTCAA
1 TTATTACTTCACTACTCAA
876716 TTATTA
1 TTATTA
876722 ATTTGGAGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.02, T:0.48
Consensus pattern (19 bp):
TTATTACTTCACTACTCAA
Found at i:892333 original size:3 final size:3
Alignment explanation
Indices: 892325--892354 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
892315 AATCTATTAA
892325 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
892355 TGGACGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:896139 original size:15 final size:17
Alignment explanation
Indices: 896109--896150 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
896099 AAATAGAAAA
896109 TATAATAAAGTTAT-AATT
1 TATAA-AAA-TTATAAATT
896127 T-TAAAAATTATAAATT
1 TATAAAAATTATAAATT
896143 TATAAAAA
1 TATAAAAA
896151 AAATTAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.18
16 8 0.36
17 9 0.41
18 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TATAAAAATTATAAATT
Found at i:903015 original size:29 final size:29
Alignment explanation
Indices: 902971--903037 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
902961 TCTCACCTAA
* *
902971 TTAAATTGATGTAAGCAATGATATCATTAC
1 TTAAA-TGACGTAAGCAATGACATCATTAC
*
903001 TTAAATGACGTAAGCAATGACATCTTTAC
1 TTAAATGACGTAAGCAATGACATCATTAC
903030 TTAAATGA
1 TTAAATGA
903038 TGTCAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 29 0.85
30 5 0.15
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (29 bp):
TTAAATGACGTAAGCAATGACATCATTAC
Found at i:903056 original size:35 final size:31
Alignment explanation
Indices: 902979--903060 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 31
902969 AATTAAATTG
*
902979 ATGTAAGCAATGATATCATTACTTAAATGAC
1 ATGTAAGCAATGACATCATTACTTAAATGAC
*
903010 --GTAAGCAATGACATCTTTACTTAAATGATGTC
1 ATGTAAGCAATGACATCATTACTTAAATGA---C
903042 AATGTAAGCAATGACATCA
1 -ATGTAAGCAATGACATCA
903061 ATTTAGTTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 26 0.62
32 1 0.02
35 15 0.36
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (31 bp):
ATGTAAGCAATGACATCATTACTTAAATGAC
Found at i:908236 original size:33 final size:33
Alignment explanation
Indices: 908193--908264 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
908183 CTGGTGCAGC
* * *
908193 AGCACCGGCTGACGCTGCAGGTGCAGCAACTTT
1 AGCAGCGGCTGACGCTGCAGGTGCAACAACTCT
** *
908226 AGCAGCGGCTGTGGCTGGAGGTGCAACAACTCT
1 AGCAGCGGCTGACGCTGCAGGTGCAACAACTCT
908259 AGCAGC
1 AGCAGC
908265 AGTTGCTGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (33 bp):
AGCAGCGGCTGACGCTGCAGGTGCAACAACTCT
Found at i:914012 original size:29 final size:29
Alignment explanation
Indices: 913979--914035 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
913969 CTAAATTAAT
913979 TTGATGTCATTGCTTACATCAATTTAGTA
1 TTGATGTCATTGCTTACATCAATTTAGTA
914008 TTGATGTCATTGCTTACATCAATTTAGT
1 TTGATGTCATTGCTTACATCAATTTAGT
914036 TAGGTGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (29 bp):
TTGATGTCATTGCTTACATCAATTTAGTA
Found at i:914777 original size:2 final size:2
Alignment explanation
Indices: 914772--914802 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
914762 TGTGTGTGTG
914772 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
914803 TTGTAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:915716 original size:313 final size:311
Alignment explanation
Indices: 915148--915770 Score: 1129
Period size: 313 Copynumber: 2.0 Consensus size: 311
915138 TCATGTGTAC
*
915148 CTAAGTGATAATGTAACACATATCAATGTTTAAAATGACGTAGCACATATCAAATATTCAAAGTG
1 CTAAGTGATAATGTAACACATATCAATGTTTAAAATGACATAGCACATATCAAATATTCAAAGTG
915213 CTAACATAATTATATCACATATACATAAGGGATGATGAGACATATACTGTATGCATCTAAATGAT
66 CTAACATAATTATATCACATATACATAAGGGATGATGAGACATATACTGTATGCATCTAAATGAT
* * *
915278 TATGTTGAATATGTCACGTGAACATATTACGTCATACTTTGGATATATGTTATCTTAATGATAAA
131 TATGTTGAATATATCACGTGAACATATTACGTCATACTTTGGACATATGTCATCTTAATGATAAA
915343 CATGGATCATTAATTAATTAATAAACTTTATCTAATCTAGAGTAATTTTATTTCAAAATAAATTA
196 CATGGATCATTAATTAATTAATAAACTTTATCTAATCTAGAGTAATTTTATTTCAAAATAAATTA
915408 TTGGGAAAAATATTTTGAAAAAAATTAAGTATTAAAAACAAATTAATTTTAGA
261 TTGGGAAAAATATTTTG-AAAAAA-TAAGTATTAAAAACAAATTAATTTTAGA
*
915461 CTAAGTGATAATGTAACACATATCAATGTTTAAAATGACATAGCTCATATCAAATATTCAAAGTG
1 CTAAGTGATAATGTAACACATATCAATGTTTAAAATGACATAGCACATATCAAATATTCAAAGTG
*
915526 CTAACATAATTATATCACATATACATAAGTGATGATGAGACATATACTGTATGCATCTAAATGAT
66 CTAACATAATTATATCACATATACATAAGGGATGATGAGACATATACTGTATGCATCTAAATGAT
*
915591 TATGTTGAATATATCACGTGAACCTATTACGTCATACTTTGGACATATGTCATCTTAATGATAAA
131 TATGTTGAATATATCACGTGAACATATTACGTCATACTTTGGACATATGTCATCTTAATGATAAA
* *
915656 CATTGATCATTAATTAATTAATAAATTTTATCTAATCTAGAGTAATTTTATTTCAAAATAAATTA
196 CATGGATCATTAATTAATTAATAAACTTTATCTAATCTAGAGTAATTTTATTTCAAAATAAATTA
* *
915721 TTGGGATAAATATTTTGAAAAAATAAGTATTAAAAACGAATTAATTTTAG
261 TTGGGAAAAATATTTTGAAAAAATAAGTATTAAAAACAAATTAATTTTAG
915771 CTATGACAAT
Statistics
Matches: 299, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
311 26 0.09
312 6 0.02
313 267 0.89
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (311 bp):
CTAAGTGATAATGTAACACATATCAATGTTTAAAATGACATAGCACATATCAAATATTCAAAGTG
CTAACATAATTATATCACATATACATAAGGGATGATGAGACATATACTGTATGCATCTAAATGAT
TATGTTGAATATATCACGTGAACATATTACGTCATACTTTGGACATATGTCATCTTAATGATAAA
CATGGATCATTAATTAATTAATAAACTTTATCTAATCTAGAGTAATTTTATTTCAAAATAAATTA
TTGGGAAAAATATTTTGAAAAAATAAGTATTAAAAACAAATTAATTTTAGA
Found at i:922980 original size:22 final size:22
Alignment explanation
Indices: 922955--922998 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
922945 TATGGGTGGC
922955 GAGAGTATTAATTTAAAAAGGT
1 GAGAGTATTAATTTAAAAAGGT
922977 GAGAGTATTAATTTAAAAAGGT
1 GAGAGTATTAATTTAAAAAGGT
922999 AAAATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
GAGAGTATTAATTTAAAAAGGT
Found at i:926748 original size:18 final size:18
Alignment explanation
Indices: 926725--926759 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
926715 CTACCGGTTC
*
926725 ACCGGTTCAACCGGTCGA
1 ACCGGTCCAACCGGTCGA
*
926743 ACCGGTCCGACCGGTCG
1 ACCGGTCCAACCGGTCG
926760 GAAGAACCGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.37, G:0.31, T:0.14
Consensus pattern (18 bp):
ACCGGTCCAACCGGTCGA
Found at i:927036 original size:14 final size:14
Alignment explanation
Indices: 927019--927060 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
927009 ATCATAACAA
927019 AATTATATAACTAT
1 AATTATATAACTAT
927033 AATTATATAACTAT
1 AATTATATAACTAT
927047 AATTATATAACTAT
1 AATTATATAACTAT
927061 TCTTTCACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:932274 original size:5 final size:5
Alignment explanation
Indices: 932264--932369 Score: 212
Period size: 5 Copynumber: 21.2 Consensus size: 5
932254 AATCAATTTC
932264 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
932314 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
932364 ATAAT A
1 ATAAT A
932370 AATTTTGGAT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 101 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:936428 original size:23 final size:24
Alignment explanation
Indices: 936395--936441 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
936385 CGTAAACTAC
936395 CAAAAGACAAAGAAAAACGTGCCA
1 CAAAAGACAAAGAAAAACGTGCCA
*
936419 CAAAA-ACAAAGATAAACGTGCCA
1 CAAAAGACAAAGAAAAACGTGCCA
936442 TAAAGATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.57, C:0.21, G:0.15, T:0.06
Consensus pattern (24 bp):
CAAAAGACAAAGAAAAACGTGCCA
Found at i:949354 original size:33 final size:33
Alignment explanation
Indices: 949314--949378 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
949304 ACATGTTCAA
949314 AATTTGGCCACCAACCAAGATAAAATTTCCAAT
1 AATTTGGCCACCAACCAAGATAAAATTTCCAAT
*
949347 AATTTGGCCACCAACCAAGATGAAATTTCCAA
1 AATTTGGCCACCAACCAAGATAAAATTTCCAA
949379 CTTGTCAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.23
Consensus pattern (33 bp):
AATTTGGCCACCAACCAAGATAAAATTTCCAAT
Found at i:949581 original size:510 final size:510
Alignment explanation
Indices: 948622--950153 Score: 3001
Period size: 510 Copynumber: 3.0 Consensus size: 510
948612 GGAATTCCCA
948622 AAGTGGGAGAATGAAGAATACAAGAGGAAGAGAGAACTTGTTTTTGGGATGATTTCTAATGGAAA
1 AAGTGGGAGAATGAAGAATACAAGAGGAAGAGAGAACTTGTTTTTGGGATGATTTCTAATGGAAA
948687 TACTTAGGCCTATTTATAGTTGAGTTTCAAGAACAATATGTTCAAAGTTTGGCCACCTACCAAAG
66 TACTTAGGCCTATTTATAGTTGAGTTTCAAGAACAATATGTTCAAAGTTTGGCCACCTACCAAAG
948752 AATTTTCCAATGTGTACAAGTTAGCCACCAAATATGAAATTCACATGTTCAAAATTTGGCCACCA
131 AATTTTCCAATGTGTACAAGTTAGCCACCAAATATGAAATTCACATGTTCAAAATTTGGCCACCA
*
948817 ACCAAGATAAAATTTCCAATAAGTTGGCCACCAACCAAGATGAAATTTCCAACTTGTCAACTTAA
196 ACCAAGATAAAATTTCCAATAATTTGGCCACCAACCAAGATGAAATTTCCAACTTGTCAACTTAA
*
948882 TTTCTAGACAAATCTAACAAATCTCCACCTTGGCTTGAAATTAACAAGCCTACTCAACTTCTTCA
261 TTTCTAGACAAATCTAACAAATCTCCACCTTGGCTTGAAATTACCAAGCCTACTCAACTTCTTCA
*
948947 ACTCCCCAAATTTGTAGTGCCTCTAATTGCGCTCACAAGCGCTACACACCCGAAGGTGTTCATAC
326 ACTCCCCAAATTTGTAGTGCCTCTAATTGCGCTCACAAGCGCCACACACCCGAAGGTGTTCATAC
949012 TTTCAGGATGTTAATCAAGTTCAAACAATGATTGAACTTGATTACTGTTACCACCTTGGTCATCA
391 TTTCAGGATGTTAATCAAGTTCAAACAATGATTGAACTTGATTACTGTTACCACCTTGGTCATCA
949077 TATCTGCAGGATTTTCTGATGTCGCAATTTTCTGAAGTAGAATCTTTCCTTCTTC
456 TATCTGCAGGATTTTCTGATGTCGCAATTTTCTGAAGTAGAATCTTTCCTTCTTC
949132 AAGTGGGAGAATGAAGAATACAAGAGGAAGAGAGAACTTGTTTTTGGGATGATTTCTAATGGAAA
1 AAGTGGGAGAATGAAGAATACAAGAGGAAGAGAGAACTTGTTTTTGGGATGATTTCTAATGGAAA
949197 TACTTAGGCCTATTTATAGTTGAGTTTCAAGAACAATATGTTCAAAGTTTGGCCACCTACCAAAG
66 TACTTAGGCCTATTTATAGTTGAGTTTCAAGAACAATATGTTCAAAGTTTGGCCACCTACCAAAG
949262 AATTTTCCAATGTGTACAAGTTAGCCACCAAATATGAAATTCACATGTTCAAAATTTGGCCACCA
131 AATTTTCCAATGTGTACAAGTTAGCCACCAAATATGAAATTCACATGTTCAAAATTTGGCCACCA
949327 ACCAAGATAAAATTTCCAATAATTTGGCCACCAACCAAGATGAAATTTCCAACTTGTCAACTTAA
196 ACCAAGATAAAATTTCCAATAATTTGGCCACCAACCAAGATGAAATTTCCAACTTGTCAACTTAA
949392 TTTCTAGACAAATCTAACAAATCTCCACCTTGGCTTGAAATTACCAAGCCTACTCAACTTCTTCA
261 TTTCTAGACAAATCTAACAAATCTCCACCTTGGCTTGAAATTACCAAGCCTACTCAACTTCTTCA
*
949457 ACTCCCTAAATTTGTAGTGCCTCTAATTGCGCTCACAAGCGCCACACACCCGAAGGTGTTCATAC
326 ACTCCCCAAATTTGTAGTGCCTCTAATTGCGCTCACAAGCGCCACACACCCGAAGGTGTTCATAC
949522 TTTCAGGATGTTAATCAAGTTCAAACAATGATTGAACTTGATTACTGTTACCACCTTGGTCATCA
391 TTTCAGGATGTTAATCAAGTTCAAACAATGATTGAACTTGATTACTGTTACCACCTTGGTCATCA
949587 TATCTGCAGGATTTTCTGATGTCGCAATTTTCTGAAGTAGAATCTTTCCTTCTTC
456 TATCTGCAGGATTTTCTGATGTCGCAATTTTCTGAAGTAGAATCTTTCCTTCTTC
949642 AAGTGGGAGAATGAAGAATACAAGAGGAAGAGAGAACTTGTTTTTGGGATGATTTCTAATGGAAA
1 AAGTGGGAGAATGAAGAATACAAGAGGAAGAGAGAACTTGTTTTTGGGATGATTTCTAATGGAAA
949707 TACTTAGGCCTATTTATAGTTGAGTTTCAAGAACAATATGTTCAAAGTTTGGCCACCTACCAAAG
66 TACTTAGGCCTATTTATAGTTGAGTTTCAAGAACAATATGTTCAAAGTTTGGCCACCTACCAAAG
949772 AATTTTCCAATGTGTACAAGTTAGCCACCAAATATGAAATTCACATGTTCAAAATTTGGCCACCA
131 AATTTTCCAATGTGTACAAGTTAGCCACCAAATATGAAATTCACATGTTCAAAATTTGGCCACCA
*
949837 ACCAAGATAAAATTTCCAATAATTTGGCCACCAACCAAGATGAAATTTCTAACTTGTCAACTTAA
196 ACCAAGATAAAATTTCCAATAATTTGGCCACCAACCAAGATGAAATTTCCAACTTGTCAACTTAA
949902 TTTCTAGACAAATCTAACAAATCTCCACCTTGGCTTGAAATTACCAAGCCTACTCAACTTCTTCA
261 TTTCTAGACAAATCTAACAAATCTCCACCTTGGCTTGAAATTACCAAGCCTACTCAACTTCTTCA
949967 ACTCCCCAAATTTGTAGTGCCTCTAATTGCGCTCACAAGCGCCACACACCCGAAGGTGTTCATAC
326 ACTCCCCAAATTTGTAGTGCCTCTAATTGCGCTCACAAGCGCCACACACCCGAAGGTGTTCATAC
950032 TTTCAGGATGTTAATCAAGTTCAAACAATGATTGAACTTGATTACTGTTACCACCTTGGTCATCA
391 TTTCAGGATGTTAATCAAGTTCAAACAATGATTGAACTTGATTACTGTTACCACCTTGGTCATCA
* *
950097 TATCTGCAGGATTTTCTAATGTCGCAATTTTTTGAAGTAGAATCTTTCCTTCTTC
456 TATCTGCAGGATTTTCTGATGTCGCAATTTTCTGAAGTAGAATCTTTCCTTCTTC
950152 AA
1 AA
950154 AGATCTCCCG
Statistics
Matches: 1014, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
510 1014 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (510 bp):
AAGTGGGAGAATGAAGAATACAAGAGGAAGAGAGAACTTGTTTTTGGGATGATTTCTAATGGAAA
TACTTAGGCCTATTTATAGTTGAGTTTCAAGAACAATATGTTCAAAGTTTGGCCACCTACCAAAG
AATTTTCCAATGTGTACAAGTTAGCCACCAAATATGAAATTCACATGTTCAAAATTTGGCCACCA
ACCAAGATAAAATTTCCAATAATTTGGCCACCAACCAAGATGAAATTTCCAACTTGTCAACTTAA
TTTCTAGACAAATCTAACAAATCTCCACCTTGGCTTGAAATTACCAAGCCTACTCAACTTCTTCA
ACTCCCCAAATTTGTAGTGCCTCTAATTGCGCTCACAAGCGCCACACACCCGAAGGTGTTCATAC
TTTCAGGATGTTAATCAAGTTCAAACAATGATTGAACTTGATTACTGTTACCACCTTGGTCATCA
TATCTGCAGGATTTTCTGATGTCGCAATTTTCTGAAGTAGAATCTTTCCTTCTTC
Found at i:956618 original size:34 final size:33
Alignment explanation
Indices: 956580--956644 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
956570 TATCTTTTAA
*
956580 TTTTTATTTATTGT-TTTCATTTATTTTACTTCAG
1 TTTTTATTT-TTATATTTCATTTA-TTTACTTCAG
956614 TTTTTATTTTTATACTTTCATTTATTTACTT
1 TTTTTATTTTTATA-TTTCATTTATTTACTT
956645 TGATATCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 3 0.11
34 16 0.57
35 9 0.32
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.69
Consensus pattern (33 bp):
TTTTTATTTTTATATTTCATTTATTTACTTCAG
Found at i:956633 original size:21 final size:21
Alignment explanation
Indices: 956592--956630 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
956582 TTTATTTATT
*
956592 GTTTTCATTTATTTTACTTCA
1 GTTTTCATTTATTATACTTCA
*
956613 GTTTTTATTT-TTATACTT
1 GTTTTCATTTATTATACTT
956631 TCATTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.18, C:0.10, G:0.05, T:0.67
Consensus pattern (21 bp):
GTTTTCATTTATTATACTTCA
Found at i:958993 original size:23 final size:24
Alignment explanation
Indices: 958967--959015 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
958957 AACGTAACAA
*
958967 TTTATTAATTAAATA-AAAAATTC
1 TTTATTAAATAAATATAAAAATTC
958990 TTTATTAAATAAATATTAAAAATTC
1 TTTATTAAATAAATA-TAAAAATTC
959015 T
1 T
959016 AATGATCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.61
25 9 0.39
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTATTAAATAAATATAAAAATTC
Found at i:961309 original size:13 final size:13
Alignment explanation
Indices: 961290--961323 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
961280 TGAGAGAAAG
961290 AAGCAAAAAACAA
1 AAGCAAAAAACAA
* *
961303 GAGCAAAATACAA
1 AAGCAAAAAACAA
961316 AAGCAAAA
1 AAGCAAAA
961324 CCCTAAAACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.71, C:0.15, G:0.12, T:0.03
Consensus pattern (13 bp):
AAGCAAAAAACAA
Found at i:961841 original size:2 final size:2
Alignment explanation
Indices: 961834--961872 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
961824 TCTTTTGTAC
961834 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
961873 TAGTAACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:962924 original size:157 final size:158
Alignment explanation
Indices: 962516--962930 Score: 520
Period size: 157 Copynumber: 2.6 Consensus size: 158
962506 AAGTAGAAAA
* * *
962516 TGAACTTACATATGTATTCTATTGTGGTATATGAGCATATGGTTCAAATTTGGTAAAAAATTAGA
1 TGAAGTTACATATGTATTCTATTATGGTATATGAGCATGTGGTTCAAATTTGGTAAAAAA-TAGA
* * * *
962581 CTTAAAATAAAGGATGAATTGAATAAATAAGAAAATTATAAAAATTTGAGGGACTAAATTGAAAA
65 CTTAAAATAAAGGAGGAATTGAATGAATAAGGAAATTATAAAAATTTAAGGGACTAAATTGAAAA
962646 ATAAAAAAATTATTATCAGAAAGAGGAAT
130 ATAAAAAAATTATTATCAGAAAGAGGAAT
* * * * * * * *
962675 TGAAGTTACATAGGAATTCTATTTTGGTATACGAGTATGCGGTTCAAATTTGAT-AAAAATTGAC
1 TGAAGTTACATATGTATTCTATTATGGTATATGAGCATGTGGTTCAAATTTGGTAAAAAATAGAC
962739 TTAAAATAAAGGATGG-ATTGAA-GAAATAAGGAAATTATGAAAAA-TTAAGGGACTAAATTGAA
66 TTAAAATAAAGGA-GGAATTGAATG-AATAAGGAAATTAT-AAAAATTTAAGGGACTAAATTGAA
962801 AAATAAAAAAA-TATTATC-GAAAAGAGGAAT
128 AAATAAAAAAATTATTATCAG-AAAGAGGAAT
* * * * * *
962831 TGAAAG-TACATATGTATTCTACTATGATTTATAAACATGTGGTTAAAATTTGGTAAAAAATAGA
1 TG-AAGTTACATATGTATTCTATTATGGTATATGAGCATGTGGTTCAAATTTGGTAAAAAATAGA
* *
962895 CTTAAAATGAAGGAGGAATTGAATGAATAATGAAAT
65 CTTAAAATAAAGGAGGAATTGAATGAATAAGGAAAT
962931 CAGGAACTAT
Statistics
Matches: 218, Mismatches: 30, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
155 1 0.00
156 56 0.26
157 104 0.48
158 12 0.06
159 45 0.21
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.30
Consensus pattern (158 bp):
TGAAGTTACATATGTATTCTATTATGGTATATGAGCATGTGGTTCAAATTTGGTAAAAAATAGAC
TTAAAATAAAGGAGGAATTGAATGAATAAGGAAATTATAAAAATTTAAGGGACTAAATTGAAAAA
TAAAAAAATTATTATCAGAAAGAGGAAT
Found at i:969055 original size:30 final size:30
Alignment explanation
Indices: 968987--969111 Score: 182
Period size: 30 Copynumber: 4.2 Consensus size: 30
968977 AACATTGGGG
* *
968987 CAAAATGCTCTAAAAGAAAAAAAAAAAAGAGA
1 CAAAATGCTCTAAAAG--AAAAGAATAAGAGA
969019 -AAAATGCTCTAAAAGAAAAGAATAAGAGA
1 CAAAATGCTCTAAAAGAAAAGAATAAGAGA
969048 CAAAATGCTCTAAAAGAAAAGAATAAGAGA
1 CAAAATGCTCTAAAAGAAAAGAATAAGAGA
* *
969078 CAAAATGCTCTAAAAGACAA-AATAAGAGT
1 CAAAATGCTCTAAAAGAAAAGAATAAGAGA
969107 CAAAA
1 CAAAA
969112 CGACTATTTA
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
29 25 0.28
30 48 0.55
31 15 0.17
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.13
Consensus pattern (30 bp):
CAAAATGCTCTAAAAGAAAAGAATAAGAGA
Found at i:969062 original size:61 final size:59
Alignment explanation
Indices: 968987--969111 Score: 180
Period size: 59 Copynumber: 2.1 Consensus size: 59
968977 AACATTGGGG
968987 CAAAATGCTCTAAAAGAAAAAAAAAAAAGAGA-AAAATGCTCTAAAAGAAAAGAATAAGAGA
1 CAAAATGCTCTAAAAG--AAAAAAAAAAGAGACAAAATGCTCTAAAAGAAAA-AATAAGAGA
* * * *
969048 CAAAATGCTCTAAAAGAAAAGAATAAGAGACAAAATGCTCTAAAAGACAAAATAAGAGT
1 CAAAATGCTCTAAAAGAAAAAAAAAAGAGACAAAATGCTCTAAAAGAAAAAATAAGAGA
969107 CAAAA
1 CAAAA
969112 CGACTATTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
59 25 0.42
60 18 0.31
61 16 0.27
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.13
Consensus pattern (59 bp):
CAAAATGCTCTAAAAGAAAAAAAAAAGAGACAAAATGCTCTAAAAGAAAAAATAAGAGA
Found at i:969097 original size:17 final size:17
Alignment explanation
Indices: 969045--969100 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
969035 AAAGAATAAG
969045 AGACAAAATGCTCTAAA
1 AGACAAAATGCTCTAAA
** *
969062 AG--AAAA-G-AATAAG
1 AGACAAAATGCTCTAAA
969075 AGACAAAATGCTCTAAA
1 AGACAAAATGCTCTAAA
969092 AGACAAAAT
1 AGACAAAAT
969101 AAGAGTCAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
13 5 0.17
14 1 0.03
15 8 0.28
16 1 0.03
17 14 0.48
ACGTcount: A:0.59, C:0.12, G:0.14, T:0.14
Consensus pattern (17 bp):
AGACAAAATGCTCTAAA
Found at i:970198 original size:259 final size:259
Alignment explanation
Indices: 969739--970254 Score: 987
Period size: 259 Copynumber: 2.0 Consensus size: 259
969729 AACATCATTT
*
969739 GTCGGATCAGAAGTATAGCATCATGCCAGACTGATGACCCTGTAATAGAGTCGAGCTAAAGTAGT
1 GTCGGATCAGAAGTATAGCATCATGCCAGACTGATGACCCTGCAATAGAGTCGAGCTAAAGTAGT
969804 TCGCCAGACGATGGAATCTTACTAAGTGGGTGTGATGCGAACGAGACATCATTCGATGTGGTCCT
66 TCGCCAGACGATGGAATCTTACTAAGTGGGTGTGATGCGAACGAGACATCATTCGATGTGGTCCT
* *
969869 CTGAGGAGGAGAAGCGTATGGGGCATTCACCAACGCTGTGCTAAAAGTGCTCACAAGGAACCGCC
131 CTGAGGAGGAGAAGCATATGGGGCATTCACCAACGCTATGCTAAAAGTGCTCACAAGGAACCGCC
*
969934 GGGGTTCTCCTCTAAATGCAGCACTTGTGCACGGAGCTCAAAAGAGATTAAAGGAGGATGGCTC
196 GGGGTTCTCCTCTAAATGCAACACTTGTGCACGGAGCTCAAAAGAGATTAAAGGAGGATGGCTC
*
969998 GTCGGATCAGAAGTATAGCATCATGCCAGACTGATGACCCTGCAATAGAGTCGAGCTGAAGTAGT
1 GTCGGATCAGAAGTATAGCATCATGCCAGACTGATGACCCTGCAATAGAGTCGAGCTAAAGTAGT
970063 TCGCCAGACGATGGAATCTTACTAAGTGGGTGTGATGCGAACGAGACATCATTCGATGTGGTCCT
66 TCGCCAGACGATGGAATCTTACTAAGTGGGTGTGATGCGAACGAGACATCATTCGATGTGGTCCT
970128 CTGAGGAGGAGAAGCATATGGGGCATTCACCAACGCTATGCTAAAAGTGCTCACAAGGAACCGCC
131 CTGAGGAGGAGAAGCATATGGGGCATTCACCAACGCTATGCTAAAAGTGCTCACAAGGAACCGCC
970193 GGGGTTCTCCTCTAAATGCAACACTTGTGCACGGAGCTCAAAAGAGATTAAAGGAGGATGGC
196 GGGGTTCTCCTCTAAATGCAACACTTGTGCACGGAGCTCAAAAGAGATTAAAGGAGGATGGC
970255 ATTGGAGTTG
Statistics
Matches: 252, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
259 252 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (259 bp):
GTCGGATCAGAAGTATAGCATCATGCCAGACTGATGACCCTGCAATAGAGTCGAGCTAAAGTAGT
TCGCCAGACGATGGAATCTTACTAAGTGGGTGTGATGCGAACGAGACATCATTCGATGTGGTCCT
CTGAGGAGGAGAAGCATATGGGGCATTCACCAACGCTATGCTAAAAGTGCTCACAAGGAACCGCC
GGGGTTCTCCTCTAAATGCAACACTTGTGCACGGAGCTCAAAAGAGATTAAAGGAGGATGGCTC
Found at i:976436 original size:23 final size:23
Alignment explanation
Indices: 976410--976465 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
976400 TTTGTTTGTT
976410 TAGCGTTCGTGAACATGTTCATC
1 TAGCGTTCGTGAACATGTTCATC
* *
976433 TAGCGTTCATGAACATGTTCATT
1 TAGCGTTCGTGAACATGTTCATC
*
976456 TAACGTTCGT
1 TAGCGTTCGT
976466 TTAATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (23 bp):
TAGCGTTCGTGAACATGTTCATC
Found at i:978045 original size:21 final size:22
Alignment explanation
Indices: 978020--978072 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
978010 ATATTTAGTT
* *
978020 TTATGTTAATT-TTTATTATAG
1 TTATGTTAATTATTGATAATAG
*
978041 TTATGTTCATTATTGATAATAG
1 TTATGTTAATTATTGATAATAG
978063 TTGATGTTAA
1 TT-ATGTTAA
978073 AAGATAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 10 0.38
22 10 0.38
23 6 0.23
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (22 bp):
TTATGTTAATTATTGATAATAG
Found at i:980479 original size:12 final size:12
Alignment explanation
Indices: 980462--980502 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
980452 TCGGATCAGG
980462 TTAAATTATTAA
1 TTAAATTATTAA
980474 TTAAATTA-T-A
1 TTAAATTATTAA
980484 -TATAATTATTAA
1 TTA-AATTATTAA
980496 TTAAATT
1 TTAAATT
980503 CGGTTTGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 2 0.08
10 6 0.24
11 2 0.08
12 13 0.52
13 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TTAAATTATTAA
Found at i:984327 original size:30 final size:30
Alignment explanation
Indices: 984278--984348 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
984268 GATTAAATTT
* * * *
984278 TAATTTGATCCTTGAATTTTAAATAAAATAG
1 TAATTT-AACCTTAAATTTTAAATAAAAAAC
*
984309 TAATTTAACCTTAAATTTTATATAAAAAAC
1 TAATTTAACCTTAAATTTTAAATAAAAAAC
984339 TAATTTAACC
1 TAATTTAACC
984349 CCTAAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 29 0.83
31 6 0.17
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (30 bp):
TAATTTAACCTTAAATTTTAAATAAAAAAC
Found at i:985485 original size:8 final size:8
Alignment explanation
Indices: 985472--987431 Score: 3259
Period size: 8 Copynumber: 247.0 Consensus size: 8
985462 TAAACACCTG
985472 CATACATA
1 CATACATA
985480 CATACATA
1 CATACATA
985488 CATACATA
1 CATACATA
985496 CATACATA
1 CATACATA
985504 CATACATA
1 CATACATA
985512 CATACATA
1 CATACATA
985520 CATACATA
1 CATACATA
985528 CATACATA
1 CATACATA
985536 CATACATA
1 CATACATA
985544 CATACATA
1 CATACATA
985552 CATACATA
1 CATACATA
985560 CATACATA
1 CATACATA
985568 CATACATA
1 CATACATA
985576 CATACATA
1 CATACATA
985584 CATACATA
1 CATACATA
985592 CATACATA
1 CATACATA
985600 CATACATA
1 CATACATA
985608 CATACATA
1 CATACATA
985616 CATACATA
1 CATACATA
985624 CATACATA
1 CATACATA
985632 CATACATA
1 CATACATA
985640 CATACATA
1 CATACATA
985648 CATACATA
1 CATACATA
985656 CATACATA
1 CATACATA
985664 CATACATA
1 CATACATA
985672 CATACATA
1 CATACATA
985680 CATACATA
1 CATACATA
985688 CATACATA
1 CATACATA
985696 CATACATA
1 CATACATA
985704 CATACATA
1 CATACATA
985712 CATACATA
1 CATACATA
985720 CATACATA
1 CATACATA
985728 CATACATA
1 CATACATA
985736 CATACATA
1 CATACATA
985744 CATACATA
1 CATACATA
985752 CATACATA
1 CATACATA
985760 CATACATA
1 CATACATA
985768 CATACATA
1 CATACATA
985776 CATACATA
1 CATACATA
985784 CATACATA
1 CATACATA
985792 CATACATA
1 CATACATA
985800 CATACATA
1 CATACATA
985808 CATACATA
1 CATACATA
985816 CATACATA
1 CATACATA
985824 CATACATA
1 CATACATA
985832 CATACATA
1 CATACATA
985840 CATACATA
1 CATACATA
985848 CATACATA
1 CATACATA
985856 CATACATA
1 CATACATA
985864 CATACATA
1 CATACATA
985872 CATACATA
1 CATACATA
985880 CATACATA
1 CATACATA
985888 CATACATA
1 CATACATA
985896 CATACATA
1 CATACATA
985904 CATACATA
1 CATACATA
985912 CATACATA
1 CATACATA
985920 CATACATA
1 CATACATA
985928 CATACATA
1 CATACATA
985936 CATACATA
1 CATACATA
985944 CATACATA
1 CATACATA
985952 CATACATA
1 CATACATA
985960 CATACATA
1 CATACATA
985968 CATACATA
1 CATACATA
985976 CATACATA
1 CATACATA
985984 CATACATA
1 CATACATA
985992 CATACATA
1 CATACATA
986000 CATACATA
1 CATACATA
986008 CATACATA
1 CATACATA
986016 CATACATA
1 CATACATA
986024 CATACATA
1 CATACATA
986032 CATACATA
1 CATACATA
986040 CATACATA
1 CATACATA
986048 CATACATA
1 CATACATA
986056 CATACATA
1 CATACATA
986064 CATACATA
1 CATACATA
986072 CATACATA
1 CATACATA
986080 CATACATA
1 CATACATA
986088 CATACATA
1 CATACATA
986096 CATACATA
1 CATACATA
986104 CATACATA
1 CATACATA
986112 CATACATA
1 CATACATA
986120 CATACATA
1 CATACATA
986128 CATACATA
1 CATACATA
986136 CATACATA
1 CATACATA
986144 CATACATA
1 CATACATA
986152 CATACATA
1 CATACATA
986160 CATACATA
1 CATACATA
986168 CATACATA
1 CATACATA
986176 CATACATA
1 CATACATA
986184 CATACATA
1 CATACATA
986192 CATACATA
1 CATACATA
986200 CATACATA
1 CATACATA
986208 CATACATA
1 CATACATA
986216 CATACATA
1 CATACATA
986224 CATACATA
1 CATACATA
986232 CATACATA
1 CATACATA
986240 C--ACATA
1 CATACATA
986246 CATACATA
1 CATACATA
986254 CATACATA
1 CATACATA
986262 CATACATA
1 CATACATA
986270 CATACATA
1 CATACATA
986278 CATACATA
1 CATACATA
986286 CATACATA
1 CATACATA
986294 CATACATA
1 CATACATA
986302 CATACATA
1 CATACATA
986310 CATACATA
1 CATACATA
986318 CATACATA
1 CATACATA
986326 CATACATA
1 CATACATA
986334 CATACATA
1 CATACATA
986342 CATACATA
1 CATACATA
986350 CATACATA
1 CATACATA
986358 CATACATA
1 CATACATA
986366 CATACATA
1 CATACATA
986374 CATACATA
1 CATACATA
986382 CATACATA
1 CATACATA
986390 CATACATA
1 CATACATA
986398 CATACATA
1 CATACATA
986406 CATACATA
1 CATACATA
986414 CATACATA
1 CATACATA
986422 CATACATA
1 CATACATA
986430 CATACATA
1 CATACATA
986438 CATACATA
1 CATACATA
986446 CATACATA
1 CATACATA
986454 CATACATA
1 CATACATA
986462 CATACATA
1 CATACATA
986470 CATACATA
1 CATACATA
986478 CATACATA
1 CATACATA
986486 CATACATA
1 CATACATA
986494 CATACATA
1 CATACATA
986502 CATACATA
1 CATACATA
986510 CATACATA
1 CATACATA
986518 CATACATA
1 CATACATA
986526 CATACATA
1 CATACATA
986534 CATACATA
1 CATACATA
986542 CATACATA
1 CATACATA
986550 CATACATA
1 CATACATA
986558 CATACATA
1 CATACATA
986566 CATACATA
1 CATACATA
986574 CATACATA
1 CATACATA
986582 CATACATA
1 CATACATA
986590 CATACATA
1 CATACATA
986598 CATACATA
1 CATACATA
986606 CATACATA
1 CATACATA
986614 CATACATA
1 CATACATA
986622 CATACATA
1 CATACATA
986630 CATACATA
1 CATACATA
986638 CATACATA
1 CATACATA
986646 CATACATA
1 CATACATA
986654 CATACATA
1 CATACATA
986662 CATACATA
1 CATACATA
986670 CATACATA
1 CATACATA
986678 CATACATA
1 CATACATA
986686 CATACATA
1 CATACATA
986694 CATACATA
1 CATACATA
986702 CATACATA
1 CATACATA
986710 CATACATA
1 CATACATA
986718 CATACATA
1 CATACATA
986726 CATACATA
1 CATACATA
986734 CATACATA
1 CATACATA
986742 CATACATA
1 CATACATA
986750 CATACATA
1 CATACATA
986758 CATACATA
1 CATACATA
986766 CATACATA
1 CATACATA
986774 CATACATA
1 CATACATA
986782 CATACATA
1 CATACATA
986790 CATACATA
1 CATACATA
986798 CATACATA
1 CATACATA
986806 CATACATA
1 CATACATA
986814 CATACATA
1 CATACATA
986822 CATACATA
1 CATACATA
986830 CATACATA
1 CATACATA
986838 CATACATA
1 CATACATA
986846 CATACATA
1 CATACATA
986854 CATACATA
1 CATACATA
986862 CATAC--A
1 CATACATA
986868 CATACATA
1 CATACATA
986876 CATAC--A
1 CATACATA
986882 CATACATA
1 CATACATA
986890 CATACATA
1 CATACATA
986898 C--ACATA
1 CATACATA
986904 CATAC--A
1 CATACATA
*
986910 CACACATA
1 CATACATA
*
986918 CATACACA
1 CATACATA
* *
986926 TACACATA
1 CATACATA
*
986934 CACACATA
1 CATACATA
* * *
986942 CACATACA
1 CATACATA
*
986950 CATACACA
1 CATACATA
*
986958 CATACACA
1 CATACATA
*
986966 CATACACA
1 CATACATA
986974 CATAC--A
1 CATACATA
*
986980 CATACACA
1 CATACATA
986988 CATAC--A
1 CATACATA
*
986994 CATACACA
1 CATACATA
*
987002 CATACACA
1 CATACATA
*
987010 CATACACA
1 CATACATA
987018 CATAC--A
1 CATACATA
*
987024 CATACACA
1 CATACATA
*
987032 CATACACA
1 CATACATA
*
987040 CATACACA
1 CATACATA
*
987048 CATACACA
1 CATACATA
*
987056 CATACACA
1 CATACATA
*
987064 CATACACA
1 CATACATA
*
987072 CATACACA
1 CATACATA
*
987080 CATACACA
1 CATACATA
*
987088 CATACACA
1 CATACATA
*
987096 CATACACA
1 CATACATA
*
987104 CATACACA
1 CATACATA
*
987112 CATACACA
1 CATACATA
*
987120 CATACACA
1 CATACATA
*
987128 CATACACA
1 CATACATA
*
987136 CATACACA
1 CATACATA
*
987144 CATACACA
1 CATACATA
*
987152 CATACACA
1 CATACATA
*
987160 CATACACA
1 CATACATA
*
987168 CATACACA
1 CATACATA
*
987176 CATACACA
1 CATACATA
*
987184 CATACACA
1 CATACATA
*
987192 CATACACA
1 CATACATA
*
987200 CATACACA
1 CATACATA
*
987208 CATACACA
1 CATACATA
*
987216 CATACACA
1 CATACATA
*
987224 CATACACA
1 CATACATA
*
987232 CATACACA
1 CATACATA
*
987240 CATACACA
1 CATACATA
*
987248 CATACACA
1 CATACATA
*
987256 CATACACA
1 CATACATA
*
987264 CATACACA
1 CATACATA
*
987272 CATACACA
1 CATACATA
*
987280 CATACACA
1 CATACATA
*
987288 CATACACA
1 CATACATA
*
987296 CATACACA
1 CATACATA
*
987304 CATACACA
1 CATACATA
*
987312 CATACACA
1 CATACATA
*
987320 CATACACA
1 CATACATA
*
987328 CATACACA
1 CATACATA
*
987336 CATACACA
1 CATACATA
987344 CATACATA
1 CATACATA
987352 CATACATA
1 CATACATA
*
987360 CAGACATA
1 CATACATA
*
987368 CACACATA
1 CATACATA
*
987376 CACACATA
1 CATACATA
*
987384 CACACATA
1 CATACATA
*
987392 CACACATA
1 CATACATA
*
987400 CACACATA
1 CATACATA
987408 CATACATA
1 CATACATA
987416 CATACATA
1 CATACATA
987424 CATACATA
1 CATACATA
987432 GTAATTTACA
Statistics
Matches: 1921, Mismatches: 15, Indels: 32
0.98 0.01 0.02
Matches are distributed among these distances:
6 47 0.02
8 1874 0.98
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (8 bp):
CATACATA
Found at i:990690 original size:3 final size:3
Alignment explanation
Indices: 990684--990718 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
990674 ACTACTACTC
990684 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
990719 CCGATTCGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:992155 original size:21 final size:20
Alignment explanation
Indices: 992128--992226 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
992118 AATCAGTTTC
992128 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
992149 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
992170 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
992190 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
992211 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
992227 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:992255 original size:20 final size:20
Alignment explanation
Indices: 992193--992386 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
992183 CGATTTTCCA
* ** *
992193 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
992213 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
992233 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
992253 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
992273 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
992293 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
992313 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
992333 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
992353 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
992374 AAATCGCAACGCG
1 AAATCGCAACGCG
992387 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:992277 original size:60 final size:60
Alignment explanation
Indices: 992193--992386 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
992183 CGATTTTCCA
* ** * *
992193 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
992253 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
992313 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
992374 AAATCGCAACGCG
1 AAATCGCAACGCG
992387 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:992809 original size:33 final size:33
Alignment explanation
Indices: 992770--992840 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
992760 TTCACTTAGA
*
992770 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
992803 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
992836 TTTCA
1 TTTCA
992841 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:992964 original size:20 final size:20
Alignment explanation
Indices: 992920--993029 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
992910 TGCAGAAGAG
*
992920 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
992941 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
992961 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
992982 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
992996 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
993015 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
993030 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:992977 original size:41 final size:38
Alignment explanation
Indices: 992913--993029 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
992903 TTCAATTTGC
* *
992913 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
992951 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
992992 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
993025 AGAAT
1 AGAAT
993030 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:992999 original size:14 final size:14
Alignment explanation
Indices: 992980--993036 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
992970 GAGAAATGAA
992980 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
992994 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
993013 AATCGCAACGAGAG
1 AATCGCAACGAGAG
993027 AATCGCAACG
1 AATCGCAACG
993037 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:993012 original size:33 final size:33
Alignment explanation
Indices: 992972--993041 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
992962 CGCAACGAGA
992972 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
993005 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
993038 GAAA
1 GAAA
993042 CCAAAATCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.47, C:0.20, G:0.24, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:993048 original size:33 final size:33
Alignment explanation
Indices: 992978--993049 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
992968 GAGAGAAATG
**
992978 AAAATCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
993011 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
993044 AAAATC
1 AAAATC
993050 TCATTGCGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.47, C:0.24, G:0.21, T:0.08
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:993089 original size:14 final size:14
Alignment explanation
Indices: 993070--993126 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
993060 TTTCATTTCG
993070 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
993084 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
993103 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
993117 CGTTGCGATT
1 CGTTGCGATT
993127 TTCTTTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:993095 original size:33 final size:33
Alignment explanation
Indices: 993048--993175 Score: 157
Period size: 33 Copynumber: 3.6 Consensus size: 33
993038 GAAACCAAAA
*
993048 TCTCATTGCGATTTTCATTTCGCGTTGCGATTC
1 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTC
993081 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTC
1 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTC
* *
993114 TCTCGTTGCGATTTTCTTTTCTCTCGTTGCGACAGTCATTC
1 TCTCGTTGCGATTTTC-ATT-TCGCGTT--G-C-G--ATTC
993155 TCTCGTTGCGATTTTCATTTC
1 TCTCGTTGCGATTTTCATTTC
993176 AACCAAAAGA
Statistics
Matches: 83, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
33 48 0.58
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 20 0.24
ACGTcount: A:0.10, C:0.25, G:0.18, T:0.47
Consensus pattern (33 bp):
TCTCGTTGCGATTTTCATTTCGCGTTGCGATTC
Found at i:993137 original size:21 final size:20
Alignment explanation
Indices: 993111--993175 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
993101 CGCGTTGCGA
993111 TTCTCTCGTTGCGATTTTCTT
1 TTCTCTCGTTGCGATTTTC-T
*** *
993132 TTCTCTCGTTGCGACAGTCA
1 TTCTCTCGTTGCGATTTTCT
993152 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTC-T
993173 TTC
1 TTC
993176 AACCAAAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.09, C:0.26, G:0.15, T:0.49
Consensus pattern (20 bp):
TTCTCTCGTTGCGATTTTCT
Found at i:995033 original size:93 final size:93
Alignment explanation
Indices: 994874--995249 Score: 691
Period size: 93 Copynumber: 4.1 Consensus size: 93
994864 TAGATTGCTT
* *
994874 AGTAAATTTATTCGGTTGTTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
994939 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
994967 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
995032 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
** *
995060 AGTAAATTTGTTATGTTGCTGCCAATTCTGCTAAACTGTGTATTCGTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
995125 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
995153 AGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
995218 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
995245 AGTAA
1 AGTAA
995250 TGCAATCCAT
Statistics
Matches: 274, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
92 6 0.02
93 268 0.98
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:995337 original size:19 final size:19
Alignment explanation
Indices: 995297--995425 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
995287 TAGTTTACTT
* *
995297 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
995317 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
995336 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
995355 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
995369 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
995388 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
995402 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
995421 TCGCA
1 TCGCA
995426 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:995376 original size:33 final size:32
Alignment explanation
Indices: 995333--995425 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
995323 CGCGAAACCA
**
995333 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
995365 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
995398 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
995426 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:995423 original size:52 final size:52
Alignment explanation
Indices: 995297--995425 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
995287 TAGTTTACTT
**
995297 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
995349 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
995402 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
995426 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:997372 original size:14 final size:14
Alignment explanation
Indices: 997353--997388 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
997343 ATTGTTTAAT
997353 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
997367 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
997381 TGATTTGT
1 TGATTTGT
997389 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:997563 original size:20 final size:19
Alignment explanation
Indices: 997495--997573 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
997485 AAAAATGACT
997495 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
997514 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
997528 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
997547 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
997567 ATCGCAA
1 ATCGCAA
997574 CGAGAGAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 20 0.38
20 16 0.31
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:997610 original size:19 final size:19
Alignment explanation
Indices: 997582--997803 Score: 241
Period size: 19 Copynumber: 12.7 Consensus size: 19
997572 AACGAGAGAA
* *
997582 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
997601 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
997617 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
997634 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
997653 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
997669 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
997686 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
997705 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
997724 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
997740 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
997757 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
997775 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
997791 TCGCATTGCGATT
1 TCGCATTGCGATT
997804 CTCTCGTTGC
Statistics
Matches: 172, Mismatches: 10, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
14 29 0.17
16 23 0.13
17 19 0.11
18 3 0.02
19 86 0.50
20 12 0.07
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:997645 original size:52 final size:52
Alignment explanation
Indices: 997582--997803 Score: 290
Period size: 52 Copynumber: 4.2 Consensus size: 52
997572 AACGAGAGAA
* *
997582 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
997634 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* * *
997686 TCGCATTGCGATTTTCATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT
* * * *
997737 CTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATT
1 -TCGCATTGCGATTTTCATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATT
997791 TCGCATTGCGATT
1 TCGCATTGCGATT
997804 CTCTCGTTGC
Statistics
Matches: 149, Mismatches: 13, Indels: 15
0.84 0.07 0.08
Matches are distributed among these distances:
50 9 0.06
51 5 0.03
52 100 0.67
53 23 0.15
54 5 0.03
55 6 0.04
56 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:997825 original size:33 final size:33
Alignment explanation
Indices: 997639--997817 Score: 261
Period size: 33 Copynumber: 5.2 Consensus size: 33
997629 TCATTTCGCA
997639 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
997672 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
997708 CATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
997743 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
997777 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
997810 TTGCGATT
1 TTGCGATT
997818 GTAATTTCCG
Statistics
Matches: 132, Mismatches: 6, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
32 1 0.01
33 62 0.47
34 29 0.22
35 8 0.06
36 7 0.05
38 25 0.19
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:997825 original size:67 final size:70
Alignment explanation
Indices: 997620--997836 Score: 325
Period size: 71 Copynumber: 3.1 Consensus size: 70
997610 GATTCTCTCG
997620 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCA-TTCG-ATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
997685 TT-CGCA
64 TTCCGCA
997691 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCA-TTCG-ATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
997756 TTCCGCA
64 TTCCGCA
* * *
997763 TTGCGATTTTCA-T-G-TTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTGTAATTT
1 TTGCGATTTTCATTCGATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT
**
997825 CCGTG
66 CCGCA
997830 TTGCGAT
1 TTGCGAT
997837 AGTCAAATGC
Statistics
Matches: 140, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
67 55 0.39
69 1 0.01
70 1 0.01
71 67 0.48
72 16 0.11
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (70 bp):
TTGCGATTTTCATTCGATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT
CCGCA
Found at i:1000329 original size:24 final size:24
Alignment explanation
Indices: 1000295--1000341 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1000285 CTGAAACATC
1000295 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1000319 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1000342 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1000925 original size:21 final size:21
Alignment explanation
Indices: 1000897--1000936 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1000887 ACCTGTTGCC
1000897 GGATTAGGAA-GGATGTCGTT
1 GGATTAGGAACGGATGTCGTT
1000917 GGATATAGGAACGGATGTCG
1 GGAT-TAGGAACGGATGTCG
1000937 CCGGAGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 8 0.44
ACGTcount: A:0.28, C:0.07, G:0.40, T:0.25
Consensus pattern (21 bp):
GGATTAGGAACGGATGTCGTT
Found at i:1001052 original size:20 final size:20
Alignment explanation
Indices: 1001024--1001253 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
1001014 AAATTTCAGT
* * *
1001024 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1001044 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1001064 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1001084 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1001104 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1001124 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
1001144 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
1001164 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1001184 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1001204 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1001224 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1001244 GTTGCGATTT
1 GTTGCGATTT
1001254 TGGAAAATCG
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1001270 original size:21 final size:21
Alignment explanation
Indices: 1001240--1001322 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1001230 ATTTTCATAT
*
1001240 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1001261 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1001282 TCGCATTGCGATTTT-TAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1001303 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1001323 CTGATTTGCG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1001313 original size:42 final size:43
Alignment explanation
Indices: 1001220--1001318 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1001210 ATTTATGTGT
*
1001220 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
** *
1001261 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-TAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGGAA-AA
*
1001303 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1001319 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
Found at i:1004871 original size:34 final size:35
Alignment explanation
Indices: 1004828--1004897 Score: 99
Period size: 34 Copynumber: 2.0 Consensus size: 35
1004818 TAAACAAAAA
*
1004828 TTAACCAAAATACATTAACAAAAAATCCAA-CAAAT
1 TTAACCAAAATAAATTAA-AAAAAATCCAACCAAAT
*
1004863 TTAA-CAAAATAAATTAAAATAAATCCAACCAAAT
1 TTAACCAAAATAAATTAAAAAAAATCCAACCAAAT
1004897 T
1 T
1004898 AATGAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
33 10 0.31
34 18 0.56
35 4 0.12
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (35 bp):
TTAACCAAAATAAATTAAAAAAAATCCAACCAAAT
Found at i:1005765 original size:16 final size:16
Alignment explanation
Indices: 1005746--1005803 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 16
1005736 AAAATTAATT
1005746 AAATTAAATATTAAAA
1 AAATTAAATATTAAAA
*
1005762 AAATTAAATATTTAAAT
1 AAATTAAATA-TTAAAA
*
1005779 AAATTAAA-AAT-AAA
1 AAATTAAATATTAAAA
*
1005793 ATATTAAATAT
1 AAATTAAATAT
1005804 AATAAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 9 0.26
15 2 0.06
16 11 0.31
17 13 0.37
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTAAATATTAAAA
Found at i:1005782 original size:17 final size:16
Alignment explanation
Indices: 1005739--1005803 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
1005729 CTGTAAAAAA
*
1005739 ATTAATTAAATTAAAT
1 ATTAAATAAATTAAAT
*
1005755 ATTAAAAAAATTAAAT
1 ATTAAATAAATTAAAT
1005771 ATTTAAATAAATTAAA-
1 A-TTAAATAAATTAAAT
* *
1005787 AATAAA-ATATTAAAT
1 ATTAAATAAATTAAAT
1005802 AT
1 AT
1005804 AATAAAATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
14 7 0.17
15 5 0.12
16 16 0.39
17 13 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:1005783 original size:33 final size:31
Alignment explanation
Indices: 1005740--1005803 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
1005730 TGTAAAAAAA
* *
1005740 TTAATTAAATTAAATATTAAAAAAATTAAATAT
1 TTAAATAAATTAAA-AAT-AAAAAATTAAATAT
*
1005773 TTAAATAAATTAAAAATAAAATATTAAATAT
1 TTAAATAAATTAAAAATAAAAAATTAAATAT
1005804 AATAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.46
32 2 0.07
33 13 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
TTAAATAAATTAAAAATAAAAAATTAAATAT
Found at i:1005792 original size:23 final size:24
Alignment explanation
Indices: 1005735--1005810 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
1005725 ATATCTGTAA
1005735 AAAAATTAATTAA-ATTAAATATTAA-
1 AAAAATTAA--AATATTAAATA-TAAT
1005760 AAAAATT-AAATATTTAAATA-AATT
1 AAAAATTAAAATA-TTAAATATAA-T
1005784 AAAAA-TAAAATATTAAATATAAT
1 AAAAATTAAAATATTAAATATAAT
1005807 AAAA
1 AAAA
1005811 TATACCTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
22 4 0.09
23 14 0.31
24 20 0.44
25 7 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAAATTAAAATATTAAATATAAT
Found at i:1005929 original size:18 final size:18
Alignment explanation
Indices: 1005892--1005930 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1005882 TAAGAGTATT
*
1005892 TATAGGTAGGGGTATAGG
1 TATAGGTAGGGGTAGAGG
*
1005910 TATAGGTAGGGGTAGGGG
1 TATAGGTAGGGGTAGAGG
1005928 TAT
1 TAT
1005931 GAACGGCCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.46, T:0.28
Consensus pattern (18 bp):
TATAGGTAGGGGTAGAGG
Found at i:1010742 original size:14 final size:14
Alignment explanation
Indices: 1010708--1010745 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
1010698 CGTTTTGAGC
*
1010708 ACTTATATTTCTGT
1 ACTTATGTTTCTGT
1010722 ACTTATGTTTCTGT
1 ACTTATGTTTCTGT
1010736 ACTTATGTTT
1 ACTTATGTTT
1010746 TCGTCACTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (14 bp):
ACTTATGTTTCTGT
Found at i:1013089 original size:32 final size:32
Alignment explanation
Indices: 1013040--1013101 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1013030 TCTTACCTGT
* *
1013040 ACTAACTAATTTCTTTTCTTTTCTTTGTGTGC
1 ACTAACTAATTTATTTTCTGTTCTTTGTGTGC
* *
1013072 ACTAACTTATTTATTTTCTGTTGTTTGTGT
1 ACTAACTAATTTATTTTCTGTTCTTTGTGT
1013102 ATTTTTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.16, C:0.15, G:0.11, T:0.58
Consensus pattern (32 bp):
ACTAACTAATTTATTTTCTGTTCTTTGTGTGC
Found at i:1017105 original size:35 final size:36
Alignment explanation
Indices: 1017059--1017155 Score: 142
Period size: 35 Copynumber: 2.7 Consensus size: 36
1017049 TTTCTTTTGT
*
1017059 AAAACAAATTTTGTCTCGCTTGAGACAGTTT-TCTA
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTA
* * *
1017094 AAAACAAATTTTGTCTCGCTTGAGATAATTTCTTTC
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTA
*
1017130 AAAACAAATTTCGTCTCGCTTGAGAC
1 AAAACAAATTTTGTCTCGCTTGAGAC
1017156 CTTTTCCCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
35 29 0.53
36 26 0.47
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTA
Found at i:1017251 original size:105 final size:104
Alignment explanation
Indices: 1017122--1017429 Score: 397
Period size: 105 Copynumber: 2.9 Consensus size: 104
1017112 CTTGAGATAA
* * * *
1017122 TTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTGGATATACAAATTTCGAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTT-GAGATACAAATTTCAAATTT
* *
1017187 GTTTCACATTAAGCAAAGTTAATATCACTTGAGATTGTTG
65 GTTTCACATTAAACAAAATTAATATCACTTGAGATTGTTG
* * *
1017227 TTTCTTTTAAAACAAACTTCGTCTCGCTTGAGATATTTTTCCTTTGAGATACAAATTTCAAATTT
1 TTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCC-TTGAGATACAAATTTCAAATTT
* * *
1017292 GCTTCACATGAAACAAAATTAATCTCACTTGAGATTGTTG
65 GTTTCACATTAAACAAAATTAATATCACTTGAGATTGTTG
* * * *
1017332 TTTATTTCGAAACAAATTTCGTTTCGCTTGAGACATTTTTTTCTCTGAGATACAAATTT-AAATT
1 TTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACA-TTTTTCCT-TGAGATACAAATTTCAAATT
1017396 TGTTGT-AC-TTGAAACAAAATTAATATCACTTGAG
64 TGTT-TCACATT-AAACAAAATTAATATCACTTGAG
1017430 TTTTTCAAAA
Statistics
Matches: 176, Mismatches: 22, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
104 1 0.01
105 152 0.86
106 23 0.13
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (104 bp):
TTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTGAGATACAAATTTCAAATTTG
TTTCACATTAAACAAAATTAATATCACTTGAGATTGTTG
Found at i:1017618 original size:29 final size:29
Alignment explanation
Indices: 1017581--1017652 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
1017571 CTCTTGAGAT
1017581 AAATCTTTGAGTCTGTTCCTTTTGAATA-A
1 AAATCTTTGAGTCTGTTCCTTTTGAA-ACA
*
1017610 AAATCTTTGAGT-TGTTTCTTTTGAAACA
1 AAATCTTTGAGTCTGTTCCTTTTGAAACA
1017638 AATATCTTTGAGTCT
1 AA-ATCTTTGAGTCT
1017653 ATTTCTGTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 1 0.03
28 15 0.38
29 22 0.56
30 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (29 bp):
AAATCTTTGAGTCTGTTCCTTTTGAAACA
Found at i:1017667 original size:30 final size:29
Alignment explanation
Indices: 1017612--1017669 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
1017602 TTGAATAAAA
* * *
1017612 ATCTTTGAGTTGTTTCTTTTGAAACAAAT
1 ATCTTTGAGTTATTTCTGTTAAAACAAAT
1017641 ATCTTTGAGTCTATTTCTGTTAAAACAAA
1 ATCTTTGAGT-TATTTCTGTTAAAACAAA
1017670 GTTTTATCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (29 bp):
ATCTTTGAGTTATTTCTGTTAAAACAAAT
Found at i:1017770 original size:61 final size:62
Alignment explanation
Indices: 1017641--1017787 Score: 226
Period size: 61 Copynumber: 2.4 Consensus size: 62
1017631 TGAAACAAAT
* *
1017641 ATCTTTGAGTCTATTTCTGTTAAAACAAAGTTTTATCTCTCTTGAGACAATTTCGTAAAAAA
1 ATCTTTGAGTCTATTTCTTTTGAAACAAAGTTTTATCTCTCTTGAGACAATTTCGTAAAAAA
* * *
1017703 ATCTTTGAGTCTATTTATTTTGAAACAAAG-TTTGTCTCTCTTGAGACAATTTCGTGAAAAA
1 ATCTTTGAGTCTATTTCTTTTGAAACAAAGTTTTATCTCTCTTGAGACAATTTCGTAAAAAA
*
1017764 ATCTTTGAGT-TGTTTCTTTTGAAA
1 ATCTTTGAGTCTATTTCTTTTGAAA
1017788 AAAAATCTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
60 12 0.15
61 39 0.50
62 27 0.35
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.43
Consensus pattern (62 bp):
ATCTTTGAGTCTATTTCTTTTGAAACAAAGTTTTATCTCTCTTGAGACAATTTCGTAAAAAA
Found at i:1017796 original size:28 final size:29
Alignment explanation
Indices: 1017759--1017826 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
1017749 CAATTTCGTG
*
1017759 AAAAAATCTTTGAGT-TGTTTCTTTTGAA
1 AAAAAATCTTTGAGTCTGTTTCTTTGGAA
1017787 AAAAAATCTTTGAGTCTGTTTCTTTGGAA
1 AAAAAATCTTTGAGTCTGTTTCTTTGGAA
*
1017816 ACAAAAT-TTTG
1 AAAAAATCTTTG
1017827 TCTCTCTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (29 bp):
AAAAAATCTTTGAGTCTGTTTCTTTGGAA
Found at i:1017881 original size:90 final size:87
Alignment explanation
Indices: 1017696--1017890 Score: 239
Period size: 89 Copynumber: 2.2 Consensus size: 87
1017686 GACAATTTCG
*
1017696 TAAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAGTTTGTCTCTCTTGAGACAATTTCGTGAA
1 TAAAAAAATCTTTGAGTCTATTTATTTGGAAACAAAGTTTGTCTCTCTTGAGACAATTTCGTGAA
*
1017761 AAAATCTTTGAGTTGTTTCTTT
66 AAAATCTTTGAGTTATTTCTTT
* * *
1017783 TGAAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTT
1 T--AAAAAAATCTTTGAGTCTATTTATTTGGAAAC-AAAGTTTGTCTCTCTTGAGACAATTTC--
* *
1017848 TTGAAAATCATCTTTGAGTATATTTCTTT
61 GTGAAAA-AATCTTTGAGT-TATTTCTTT
*
1017877 AAAAACAAAT-TTTG
1 TAAAA-AAATCTTTG
1017891 TCTCTCTTGA
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
87 1 0.01
89 29 0.32
90 26 0.28
92 14 0.15
93 14 0.15
94 8 0.09
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (87 bp):
TAAAAAAATCTTTGAGTCTATTTATTTGGAAACAAAGTTTGTCTCTCTTGAGACAATTTCGTGAA
AAAATCTTTGAGTTATTTCTTT
Found at i:1017910 original size:64 final size:66
Alignment explanation
Indices: 1017775--1017929 Score: 188
Period size: 65 Copynumber: 2.4 Consensus size: 66
1017765 TCTTTGAGTT
* * **
1017775 GTTTCTTTTGAAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGAC
1 GTTTCTTTTGAAAAAAAATCTTTGAGTATATTTCTTTAAAAACAAAATTTTGTCTCTCTTGAGAC
1017840 A
66 A
* ** *
1017841 ATTTCTTTTG-AAAATCATCTTTGAGTATATTTCTTTAAAAAC-AAATTTTGTCTCTCTTGAGAT
1 GTTTCTTTTGAAAAAAAATCTTTGAGTATATTTCTTTAAAAACAAAATTTTGTCTCTCTTGAGAC
1017904 A
66 A
** *
1017905 GTTTCTAATGAAAAAATAACCTTTG
1 GTTTCTTTTGAAAAAA-AATCTTTG
1017930 GGATTGTTTC
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
64 28 0.38
65 30 0.41
66 15 0.21
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (66 bp):
GTTTCTTTTGAAAAAAAATCTTTGAGTATATTTCTTTAAAAACAAAATTTTGTCTCTCTTGAGAC
A
Found at i:1017951 original size:66 final size:64
Alignment explanation
Indices: 1017794--1018096 Score: 170
Period size: 66 Copynumber: 4.8 Consensus size: 64
1017784 GAAAAAAAAT
* * ** * *
1017794 CTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAAATCAT
1 CTTTGAGTATGTTTCTTTAGAAAC-AAATTTTGTCTCTCTTGAGACAATTTCTAATGAAAATAAC
* * * *
1017859 CTTTGAGTATATTTCTTTAAAAACAAATTTTGTCTCTCTTGAGATAGTTTCTAATGAAAAAATAA
1 CTTTGAGTATGTTTCTTTAGAAACAAATTTTGTCTCTCTTGAGACAATTTCTAATG--AAAATAA
1017924 C
64 C
* * * * * **
1017925 CTTTG-GGATTGTTTCATTT-GAAACAAATTTCGTCTCACTTAAGAC-----GTAAT--CCAT--
1 CTTTGAGTA-TGTTTC-TTTAGAAACAAATTTTGTCTCTCTTGAGACAATTTCTAATGAAAATAA
1017979 -
64 C
* * * **
1017979 CTTTGAGCATGTTTCTTTGGAAACAAACTTTTGTCTCTC--AAGACAATTTCTTTTGAAAATACC
1 CTTTGAGTATGTTTCTTTAGAAACAAA-TTTTGTCTCTCTTGAGACAATTTCTAATGAAAATA--
1018042 CAC
63 -AC
* * *
1018045 CTTTGAG-ATCGTTTCTATTA-AAACAAATTTTGTCTCCCTTGAGGCAGTTTCT
1 CTTTGAGTAT-GTTTCT-TTAGAAACAAATTTTGTCTCTCTTGAGACAATTTCT
1018097 CTAGAAATAC
Statistics
Matches: 181, Mismatches: 33, Indels: 46
0.70 0.13 0.18
Matches are distributed among these distances:
53 8 0.04
54 19 0.10
55 11 0.06
57 2 0.01
58 2 0.01
60 2 0.01
61 4 0.02
64 28 0.15
65 34 0.19
66 57 0.31
67 14 0.08
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (64 bp):
CTTTGAGTATGTTTCTTTAGAAACAAATTTTGTCTCTCTTGAGACAATTTCTAATGAAAATAAC
Found at i:1018126 original size:31 final size:31
Alignment explanation
Indices: 1018091--1018150 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
1018081 CCTTGAGGCA
1018091 GTTTCTCTAGAAATACAA-AATCTTTGAGTTT
1 GTTTCTCTAGAAATA-AACAATCTTTGAGTTT
* *
1018122 GTTTCTCTTGAAATAAACCATCTTTGAGT
1 GTTTCTCTAGAAATAAACAATCTTTGAGT
1018151 CATTTCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (31 bp):
GTTTCTCTAGAAATAAACAATCTTTGAGTTT
Found at i:1018414 original size:39 final size:41
Alignment explanation
Indices: 1018360--1018461 Score: 127
Period size: 39 Copynumber: 2.5 Consensus size: 41
1018350 TGGCCAGCCG
*
1018360 TCCTCATCACGTAGGAACCGTGTCATCC-CAG-ACCAGACC
1 TCCTCATCACGTAGGAACCGTGTCAACCACAGAACCAGACC
* * * *
1018399 TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGTCG
1 TCCTCATCACGTAGGAACCGTGTCAACCACAG--AACCAGACC
1018442 TCCTCATCACGTAGGAACCG
1 TCCTCATCACGTAGGAACCG
1018462 AGTTATCACC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 26 0.49
40 2 0.04
43 25 0.47
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (41 bp):
TCCTCATCACGTAGGAACCGTGTCAACCACAGAACCAGACC
Found at i:1018452 original size:43 final size:41
Alignment explanation
Indices: 1018353--1018591 Score: 150
Period size: 43 Copynumber: 5.6 Consensus size: 41
1018343 CTAAAGATGG
* *
1018353 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCAG--A
1 CCAGCCGTCCTCATCACGTAGGAGCCGTGTCAACCCAGATA
*
1018392 CCAGACC-TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAGCCGTGTCAACC-CAGAT-A
* * *
1018435 CCAGTCGTCCTCATCACGTAGGAACCGAGTTATCACCACTCCTAAAGATGGA
1 CCAGCCGTCCTCATCACGTAGGAGCC--G-TGTCA--AC-CC---AGAT--A
* * *
1018487 -CAGCCGTCCTCATCACGTATGAGCCGTGTCATCTCCCG--A
1 CCAGCCGTCCTCATCACGTAGGAGCCGTGTCAAC-CCAGATA
* * * *
1018526 CCAGATC-TCTTCATCACGTATGAGCCGTGTCACCCCTAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAGCCGTGTCAACCC-AGAT-A
1018569 CCAGCCGTCCTCATCACGTAGGA
1 CCAGCCGTCCTCATCACGTAGGA
1018592 ACGAAGTTAT
Statistics
Matches: 156, Mismatches: 21, Indels: 42
0.71 0.10 0.19
Matches are distributed among these distances:
39 33 0.21
40 33 0.21
41 1 0.01
42 2 0.01
43 43 0.28
45 1 0.01
46 8 0.05
48 6 0.04
49 2 0.01
51 26 0.17
52 1 0.01
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.21
Consensus pattern (41 bp):
CCAGCCGTCCTCATCACGTAGGAGCCGTGTCAACCCAGATA
Found at i:1018581 original size:134 final size:133
Alignment explanation
Indices: 1018342--1018700 Score: 501
Period size: 134 Copynumber: 2.7 Consensus size: 133
1018332 AACCATAATC
* * * * *
1018342 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCAGACCAGACCTCCTCATC
1 CCTAAAGATGGACAGCCGTCCTCATCACGTATGAGCCGTGTCATCCCAGACCAGATCTCTTCATC
* * *
1018407 ACGTAGGAGCCGTGTCAACCATAGATAACCAGTCGTCCTCATCACGTAGGAACCG-AGTTATCAC
66 ACGTATGAGCCGTGTCACCCATAGATAACCAGCCGTCCTCATCACGTAGGAA-CGAAGTTATCAC
1018471 CAC-T
130 C-CTT
*
1018475 CCTAAAGATGGACAGCCGTCCTCATCACGTATGAGCCGTGTCATCTCCCGACCAGATCTCTTCAT
1 CCTAAAGATGGACAGCCGTCCTCATCACGTATGAGCCGTGTCATC-CCAGACCAGATCTCTTCAT
*
1018540 CACGTATGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACGAAGTTATCAC
65 CACGTATGAGCCGTGTCACCCATAGATAACCAGCCGTCCTCATCACGTAGGAACGAAGTTATCAC
1018605 CCTT
130 CCTT
* * * *
1018609 CCTAAAGAT-GACCAGAAC-TCTTCATCACGTATGAGTCGTGTCATACCCTGACCAGATCTCTTC
1 CCTAAAGATGGA-CAG-CCGTCCTCATCACGTATGAGCCGTGTCAT-CCCAGACCAGATCTCTTC
*
1018672 ATCACGTATGAGCCGTGTCACCCTTAGAT
63 ATCACGTATGAGCCGTGTCACCCATAGAT
1018701 GACCCGAACT
Statistics
Matches: 205, Mismatches: 15, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
133 47 0.23
134 156 0.76
135 2 0.01
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.23
Consensus pattern (133 bp):
CCTAAAGATGGACAGCCGTCCTCATCACGTATGAGCCGTGTCATCCCAGACCAGATCTCTTCATC
ACGTATGAGCCGTGTCACCCATAGATAACCAGCCGTCCTCATCACGTAGGAACGAAGTTATCACC
CTT
Found at i:1018718 original size:43 final size:42
Alignment explanation
Indices: 1018614--1018733 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 42
1018604 CCCTTCCTAA
*
1018614 AGATGACCAGAACTCTTCATCACGTATGAGTCGTGTCATACCC
1 AGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCA-ACCC
*
1018657 ---TGACCAGATCTCTTCATCACGTATGAGCCGTGTC-ACCC
1 AGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCC
* *
1018695 TTAGATGACCCGAACTCTTCATCACGTATGAGCAGTGTC
1 --AGATGACCAGAACTCTTCATCACGTATGAGCCGTGTC
1018734 GTCCCCAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
38 4 0.06
40 32 0.48
43 31 0.46
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (42 bp):
AGATGACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCC
Found at i:1018910 original size:3 final size:3
Alignment explanation
Indices: 1018902--1018965 Score: 62
Period size: 3 Copynumber: 21.0 Consensus size: 3
1018892 AATTTTAATT
*
1018902 TTA TTA TTA TTA TTAA GT- TTA TTA TTA TTA TTA TGT- TGT- TTA TTAA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TT-A
1018948 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
1018966 ATTACATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 2 0.04
3 46 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1033731 original size:12 final size:13
Alignment explanation
Indices: 1033714--1033744 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
1033704 ATTATAAAAT
1033714 ATAATTTCATT-A
1 ATAATTTCATTGA
1033726 ATAATTTCATTGA
1 ATAATTTCATTGA
1033739 ATAATT
1 ATAATT
1033745 ATAAACTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (13 bp):
ATAATTTCATTGA
Found at i:1040757 original size:39 final size:39
Alignment explanation
Indices: 1040602--1040757 Score: 154
Period size: 39 Copynumber: 4.0 Consensus size: 39
1040592 GTCCTAACTG
* * * *
1040602 ACCTAGAAGTATT-GTCCCTCTTCCGATCATCTCTCTCCC
1 ACCTAGAA-TATTCATCCCTATTCAGATCATCTCTCCCCC
* * * *
1040641 ACCTAGAATATTCATCCCTCTTCCGATCCTCTCTTCCCC
1 ACCTAGAATATTCATCCCTATTCAGATCATCTCTCCCCC
* * * * *
1040680 ATCTAGAGTATTCATCCTTATTCTGGTCATCT-TCCCCCC
1 ACCTAGAATATTCATCCCTATTCAGATCATCTCT-CCCCC
*
1040719 ACCTAGAATATTCATCCCTATTCAAATCATCTCTCCCCC
1 ACCTAGAATATTCATCCCTATTCAGATCATCTCTCCCCC
1040758 CATAATCTTT
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
38 5 0.05
39 90 0.94
40 1 0.01
ACGTcount: A:0.21, C:0.38, G:0.07, T:0.34
Consensus pattern (39 bp):
ACCTAGAATATTCATCCCTATTCAGATCATCTCTCCCCC
Found at i:1047191 original size:3 final size:3
Alignment explanation
Indices: 1047173--1047222 Score: 73
Period size: 3 Copynumber: 16.0 Consensus size: 3
1047163 TTTACGTCTG
*
1047173 ATT ATTT ATT ATTT ATT ATA ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1047220 ATT
1 ATT
1047223 TACATTTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 37 0.86
4 6 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1049430 original size:131 final size:130
Alignment explanation
Indices: 1049182--1049430 Score: 311
Period size: 131 Copynumber: 1.9 Consensus size: 130
1049172 CGATATTTAG
* * *
1049182 AATAGTAATATATTTTCATTTCGGTTGAAGTAATAAATGATTGCTTTAAGGCATAAGAGGTCATT
1 AATAGTAATATATCTTCATTTCGATTGAAGTAATAAATGATTGCTTTAAGGCATAAGAGGTCAAT
* * * * *
1049247 TATTATCGATTGGAAATAATTCGATATTACCGTTTTCTCTTGAATTGATATTTATTTTTAAGTCG
66 TATTATCGATTGGAAATAATTAGATATTACCATTTTCTATTAAAAT-ATATTTATTTTTAAGTCG
1049312 A
130 A
* * * * *
1049313 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATTATTGTTTTAAGGTATAAGAGGTCAAT
1 AATAGTAATATATCTTCATTTCGATTGAAGTAATAAATGATTGCTTTAAGGCATAAGAGGTCAAT
* * * *
1049378 TATTCTTGATTGTAAATAATTAGATATTATCATTTTCTATATTAAAAT-TATTT
66 TATTATCGATTGGAAATAATTAGATATTACCATTTTC--TATTAAAATATATTT
1049431 TGGGTGTTGT
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
131 93 0.94
133 6 0.06
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (130 bp):
AATAGTAATATATCTTCATTTCGATTGAAGTAATAAATGATTGCTTTAAGGCATAAGAGGTCAAT
TATTATCGATTGGAAATAATTAGATATTACCATTTTCTATTAAAATATATTTATTTTTAAGTCGA
Found at i:1050691 original size:2 final size:2
Alignment explanation
Indices: 1050684--1050720 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1050674 CTTAATTTAT
1050684 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1050721 TTAATTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1050860 original size:16 final size:16
Alignment explanation
Indices: 1050810--1050867 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 16
1050800 TTTTTACTCT
1050810 TATTTTTAATTAAAAA
1 TATTTTTAATTAAAAA
*
1050826 TATTAAATATTTTATTAAAAA
1 TA-T---T-TTTAATTAAAAA
1050847 TATTTTTAATTAAAAA
1 TATTTTTAATTAAAAA
1050863 GTATT
1 -TATT
1050868 AATAAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
16 13 0.38
17 6 0.18
20 2 0.06
21 13 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TATTTTTAATTAAAAA
Found at i:1057398 original size:22 final size:21
Alignment explanation
Indices: 1057372--1057416 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
1057362 TTTTTATATT
*
1057372 TATATAAATCTAAATTATAAAA
1 TATATAAATATAAA-TATAAAA
*
1057394 TATATAAATATTAATATAAAA
1 TATATAAATATAAATATAAAA
1057415 TA
1 TA
1057417 ATTCTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TATATAAATATAAATATAAAA
Found at i:1059075 original size:2 final size:2
Alignment explanation
Indices: 1059068--1059096 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1059058 TAAATACTTT
1059068 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1059097 TCAAATATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1059146 original size:2 final size:2
Alignment explanation
Indices: 1059139--1059164 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1059129 TGCGTAAATC
1059139 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1059165 GCGTAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1061372 original size:134 final size:134
Alignment explanation
Indices: 1061126--1062467 Score: 1543
Period size: 134 Copynumber: 10.2 Consensus size: 134
1061116 CAACTCCATA
* * * *
1061126 TGTGAT-GAATCGAGCAAGAAGTTGACGCTAATCCAACTCCTTCTACGATGGATTTGAGAGAAAA
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * * *
1061190 TAAAAATATTGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCGATGTTGATCTACCTC
66 TAAAAATGTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
1061255 CTTC
131 CTTC
* * *
1061259 TGTGATAGAATCGAGCTAAAAGTTTACGCTGATCCAACTCCTTCTGCGATAGATTTGAGCGAAAA
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * * * * *
1061324 TAAAAATGTCGATCAATCTCATTCTGTGATGGAAATCGAGCGATATGTCAATGCTAATCTGCCTC
66 TAAAAATGTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
1061389 CTTC
131 CTTC
* * *
1061393 TGTGATAGAATCGAGCTAAAAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAGCTAAAA
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * *
1061458 TAAAAATGTCGATCCAGCTCATTCTGTGAT-GAAATCGAACGAGATGTCGATGTTGATCTACCTC
66 TAAAAATGTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
1061522 CTTC
131 CTTC
* * * * *
1061526 TGTGATAAAATCGAGCAAAAAGTTGACGTTGATCCAACTTCTTCTGCGATAGATTTGAGCGAAGA
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * * ***
1061591 TAAAAATGTCGATCCACCTCCTTCTGTGATGGAAATCGAATGATATGTTGGCACTGATCTACCTC
66 TAAAAATGTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
1061656 CTTC
131 CTTC
* * * * **
1061660 TGTGATAGAATCGAGCTAAAAGTTAACGCTGATCCAACTCTTTTTATGATGGATTTGAGCGAAAA
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * * * * * * *
1061725 TAAAAATATCGATCTACCTCATTTTGTGATGGAAATCGAACGATATGTTGGTGCTAATCAATCTC
66 TAAAAATGTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
1061790 CTTC
131 CTTC
* * * *
1061794 TGTGATAGAAACGAGCAAAAAGTTGAAGCTAATCAAACTCCTTCTGCGATGGATTTGAGCGAAAA
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * * * *
1061859 T--AAATGTCGATCCATCTCCTTTTGTGATAGAAATCGAACGATATATCGATGCTGATCTACCTC
66 TAAAAATGTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
*
1061922 CTCC
131 CTTC
* * * * * *
1061926 TGTGATAGAATCGAGCTAAAAGTTGACGCTAATCCAACTCTTTCTGTGATGGATTTAACCGAAAA
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * * *
1061991 T--AAATGTCAATCCACCTCATTCTATGATGG-AATCGAGCGAAATAT-TAG-TGCTGATCTACC
66 TAAAAATGTCGATCCACCTCATTCTGTGATGGAAATCGAACG--ATATGTCGATGCTGATCTACC
1062051 TCCTTC
129 TCCTTC
* * * *
1062057 TGTGATAGAATCGAGCAAAAAGTTGATGCTAATCTAACTCCTTCTGCGATGGATTTGAGTGAAAA
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * ** * *
1062122 T--AAATGTCGATCAACCTCCTTCTGTGATGG-AATCGAGTGAAATGTCGATGCTGATCTATCTC
66 TAAAAATGTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
* *
1062184 ATTA
131 CTTC
* * *
1062188 TGTGATAGAAACGAGCAAAAAGTTGATGTTGATCCAACTCCTTCTGCGATGGATTTGAGCG---A
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
** * *
1062250 -GCAAATGTCGATCCACCTGC-TTCTGTGATGGAAA-C-AA--A-ATGTTTG-TGCTGATATACC
66 TAAAAATGTCGATCCACCT-CATTCTGTGATGGAAATCGAACGATATG-TCGATGCTGATCTACC
1062307 TCCTTC
129 TCCTTC
* ** *
1062313 TGTGATAGAAACGAGCAAAAAGTTGATACTGATCCAACTCCTTCTGCAATGGATTTGAGC---AA
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * * * * * ** *
1062375 -ACAAATGTCGATCCACCTCATTCTATGATGG-AATCGAATGAAATATTGGGGTTGATCTACCTC
66 TAAAAATGTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
1062438 CTTC
131 CTTC
*
1062442 TGTGATAGAATCGAGCAAACAGTTGA
1 TGTGATAGAATCGAGCAAAAAGTTGA
1062468 ACAATCTCTT
Statistics
Matches: 1043, Mismatches: 147, Indels: 42
0.85 0.12 0.03
Matches are distributed among these distances:
124 3 0.00
125 103 0.10
126 5 0.00
128 6 0.01
129 71 0.07
130 5 0.00
131 187 0.18
132 137 0.13
133 127 0.12
134 399 0.38
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (134 bp):
TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
TAAAAATGTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
CTTC
Found at i:1062068 original size:44 final size:44
Alignment explanation
Indices: 1061199--1062457 Score: 207
Period size: 44 Copynumber: 28.7 Consensus size: 44
1061189 ATAAAAATAT
* * *
1061199 TGATCCACCTCCTTCTGTGATGGAAATCGAACG--ATATGTCGATGT
1 TGATCCACCTCCTTCTGTGATGG-AATCGAGCGAAATAT-TAG-TGC
* * * *
1061244 TGATCTACCTCCTTCTGTGATAGAATCGAGCTAAA-AGTTTA-CGC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA--TTAGTGC
* * * * * ** *
1061288 TGATCCAACTCCTTCTGCGATAGATTTGAGCGAAAATAAAAATG-
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCG-AAATATTAGTGC
* * * * * * *
1061332 TCGATCAATCTCATTCTGTGATGGAAATCGAGCGATATGTCAATGC
1 T-GATCCACCTCCTTCTGTGATGG-AATCGAGCGAAATATTAGTGC
* ** * * **
1061378 TAATCTGCCTCCTTCTGTGATAGAATCGAGCTAAA-AGTT-GACAC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-TTAG-TGC
* * * * * ** *
1061422 TGATCCAACTCCTTCTGCGATGGATTTGAGCTAAAATAAAAATG-
1 TGATCCACCTCCTTCTGTGATGGAATCGAGC-GAAATATTAGTGC
* * * * * * * *
1061466 TCGATCCAGCTCATTCTGTGATGAAATCGAACGAGAT-GTCGATGT
1 T-GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATATTAG-TGC
* ** *
1061511 TGATCTACCTCCTTCTGTGATAAAATCGAGC-AAAAAGTTGACGT--
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-TT-A-GTGC
* * * * * * ** *
1061555 TGATCCAACTTCTTCTGCGATAGATTTGAGCGAAGATAAAAATG-
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAA-ATATTAGTGC
** * * * **
1061599 TCGATCCACCTCCTTCTGTGATGGAAATCGAATGATATGTTGGCAC
1 T-GATCCACCTCCTTCTGTGATGG-AATCGAGCGAAATATTAGTGC
* * * **
1061645 TGATCTACCTCCTTCTGTGATAGAATCGAGCTAAA-AGTTAACGC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-TTAGTGC
* * * * * * ** * *
1061689 TGATCCAACTCTTTTTATGATGGATTTGAGCGAAAATAAAAAT-A
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCG-AAATATTAGTGC
* * * * * * *
1061733 TCGATCTACCTCATTTTGTGATGGAAATCGAACGATATGTTGGTGC
1 T-GATCCACCTCCTTCTGTGATGG-AATCGAGCGAAATATTAGTGC
* * * * * * *
1061779 TAATCAATCTCCTTCTGTGATAGAAACGAGC-AAAAAGTT-GAAGC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-TTAG-TGC
* * * * * * * *
1061823 TAATCAAACTCCTTCTGCGATGGATTTGAGCGAAA-ATAAATG-
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATATTAGTGC
* * * * * *
1061865 TCGATCCATCTCCTTTTGTGATAGAAATCGAACGATATA-TCGATGC
1 T-GATCCACCTCCTTCTGTGAT-GGAATCGAGCGAAATATTAG-TGC
* * * * *
1061911 TGATCTACCTCCTCCTGTGATAGAATCGAGCTAAA-AGTT-GACGC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-TTAG-TGC
* * * * ** * * *
1061955 TAATCCAACTCTTTCTGTGATGGATTTAACCGAAA-ATAAATG-
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATATTAGTGC
* * *
1061997 TCAATCCACCTCATTCTATGATGGAATCGAGCGAAATATTAGTGC
1 T-GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATATTAGTGC
* * *
1062042 TGATCTACCTCCTTCTGTGATAGAATCGAGC-AAAAAGTT-GATGC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-TTAG-TGC
* * * * * * * * *
1062086 TAATCTAACTCCTTCTGCGATGGATTTGAGTGAAA-ATAAATG-
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATATTAGTGC
* * * *
1062128 TCGATCAACCTCCTTCTGTGATGGAATCGAGTGAAAT-GTCGATGC
1 T-GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATATTAG-TGC
* * * * * * * *
1062173 TGATCTATCTCATTATGTGATAGAAACGAGC-AAAAAGTT-GATGT
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-TTAG-TGC
* * * *
1062217 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAGCAA-A-T-GT-C
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGA--AATATTAGTGC
* * * *
1062259 -GATCCACCTGCTTCTGTGATGGAA---A-CAAAATGTTTGTGC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATATTAGTGC
** * * * *
1062298 TGATATACCTCCTTCTGTGATAGAAACGAGC-AAAAAGTT-GATAC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-TTAG-TGC
* ** * * * *
1062342 TGATCCAACTCCTTCTGCAATGGATTTGAGC-AAACA--AATG-
1 TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATATTAGTGC
* * ** * * *
1062382 TCGATCCACCTCATTCTATGATGGAATCGAATGAAATATTGGGGT
1 T-GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATATTAGTGC
* *
1062427 TGATCTACCTCCTTCTGTGATAGAATCGAGC
1 TGATCCACCTCCTTCTGTGATGGAATCGAGC
1062458 AAACAGTTGA
Statistics
Matches: 839, Mismatches: 296, Indels: 159
0.65 0.23 0.12
Matches are distributed among these distances:
35 2 0.00
37 3 0.00
38 3 0.00
39 1 0.00
40 21 0.03
41 42 0.05
42 7 0.01
43 98 0.12
44 416 0.50
45 210 0.25
46 32 0.04
47 4 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
TGATCCACCTCCTTCTGTGATGGAATCGAGCGAAATATTAGTGC
Found at i:1062146 original size:87 final size:86
Alignment explanation
Indices: 1061776--1062158 Score: 243
Period size: 87 Copynumber: 4.4 Consensus size: 86
1061766 GATATGTTGG
* * * * *
1061776 TGCTAATCAATCTCCTTCTGTGATAGAAACGAGCAAAAAGTTGAAGCTAATCAAACTCCTTCTGC
1 TGCTGATCAACCTCCTTCTGTGATAGAATCGAGCAAAAA-TTGATGCTAATCTAACTCCTTCTGC
* *
1061841 GATGGATTTGAGCGAAAATAAA
65 GATGGAATCGAGCGAAAATAAA
* * * * * * * * * *
1061863 TG-TCGATCCATCTCCTTTTGTGATAGAAATCGAACGATATATCGATGCTGATCTACCTCCTCCT
1 TGCT-GATCAACCTCCTTCTGTGATAG-AATCGAGC-AAAAATTGATGCTAATCTAACTCCTTCT
* * * **
1061927 GTGATAGAATCGAGCTAAAAGTTGA
63 GCGATGGAATCGAGCGAAAA-TAAA
* * * * * ** * * ** * * * *
1061952 CGCTAATCCAA-CTCTTTCTGTGATGGATTTAACCGAAAATAAATG-TCAATCCACCTCATTCTA
1 TGCTGAT-CAACCTCCTTCTGTGATAGAATCGAGCAAAAATTGATGCT-AATCTAACTCCTTCTG
* * *
1062015 TGATGGAATCGAGCGAAATATTAG
64 CGATGGAATCGAGCGAAA-ATAAA
*
1062039 TGCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGATGCTAATCTAACTCCTTCTGC
1 TGCTGATCAACCTCCTTCTGTGATAGAATCGAGCAAAAA-TTGATGCTAATCTAACTCCTTCTGC
* * *
1062104 GATGGATTTGAGTGAAAATAAA
65 GATGGAATCGAGCGAAAATAAA
*
1062126 TG-TCGATCAACCTCCTTCTGTGATGGAATCGAG
1 TGCT-GATCAACCTCCTTCTGTGATAGAATCGAG
1062159 TGAAATGTCG
Statistics
Matches: 216, Mismatches: 68, Indels: 24
0.70 0.22 0.08
Matches are distributed among these distances:
86 5 0.02
87 114 0.53
88 73 0.34
89 21 0.10
90 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (86 bp):
TGCTGATCAACCTCCTTCTGTGATAGAATCGAGCAAAAATTGATGCTAATCTAACTCCTTCTGCG
ATGGAATCGAGCGAAAATAAA
Found at i:1062615 original size:15 final size:15
Alignment explanation
Indices: 1062595--1062625 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1062585 GAAGGTATTA
1062595 ACCCAAAGGTCCTCG
1 ACCCAAAGGTCCTCG
1062610 ACCCAAAGGTCCTCG
1 ACCCAAAGGTCCTCG
1062625 A
1 A
1062626 ATTTTGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.39, G:0.19, T:0.13
Consensus pattern (15 bp):
ACCCAAAGGTCCTCG
Found at i:1062994 original size:66 final size:67
Alignment explanation
Indices: 1062914--1063105 Score: 246
Period size: 66 Copynumber: 2.9 Consensus size: 67
1062904 AAGTTTTTAT
* * *
1062914 TGTTTCAAGAGAAACTATCTCCAGGGAGACAAAATTCAG-TTCAAGGGAAACGATCTCAAAGA-T
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTC-GTTTCAAGGGAAACAATCTCAAAGATT
1062977 CGG
65 CGG
* *
1062980 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGAGAAACAAAT-TCAAAGATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAAC-AATCTCAAAGATT
**
1063044 TTG
65 CGG
* * * *
1063047 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACTATCTCAA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAA
1063106 GAAAAAAAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
65 1 0.01
66 54 0.50
67 54 0.50
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGATTC
GG
Found at i:1063099 original size:103 final size:106
Alignment explanation
Indices: 1062980--1063247 Score: 309
Period size: 103 Copynumber: 2.6 Consensus size: 106
1062970 CAAAGATCGG
*
1062980 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGAGAAACAAAT-TCAAAGATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATTCGTTTCAAGAGAAACAAATCTCAAAGA-T
* * *
1063044 TTGTGTTTCAAGAGAAACTGTCTCAAGCGAGACAA-A-ATT-
65 TGGTGTTTCAAGAGAAACTGCCTCAAGAGAGACAAGATATTC
* * * *
1063083 TGTTTCAAGGGAAACTATCTCAAGA-AAAAAAAATT-ATTTCAAGGGAAA-TAATCTCAAAGATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATTCGTTTCAAGAGAAACAAATCTCAAAGATT
* *
1063145 GGTGTTTCAAGGGAAACTGCCTCAAGAGAGACAAGATCTTC
66 GGTGTTTCAAGAGAAACTGCCTCAAGAGAGACAAGATATTC
* * * * *
1063186 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGAGAAAC-TATCTCAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGA-AAAA-ATTC-GTTTCAAGAGAAACAAATCTCAA
1063248 GAAAGATAAA
Statistics
Matches: 137, Mismatches: 18, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
100 35 0.26
101 19 0.14
102 10 0.07
103 48 0.35
104 2 0.01
105 4 0.03
106 2 0.01
108 17 0.12
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (106 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGAAAAAATTCGTTTCAAGAGAAACAAATCTCAAAGATT
GGTGTTTCAAGAGAAACTGCCTCAAGAGAGACAAGATATTC
Found at i:1063124 original size:34 final size:35
Alignment explanation
Indices: 1063049--1063139 Score: 96
Period size: 34 Copynumber: 2.6 Consensus size: 35
1063039 AGATTTTGTG
* * * * * *
1063049 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTG
1 TTTCAAGGGAAACTATCTCAA-CGAAAAAAAAATTA
1063085 TTTCAAGGGAAACTATCTCAA-GAAAAAAAAATTA
1 TTTCAAGGGAAACTATCTCAACGAAAAAAAAATTA
1063119 TTTCAAGGGAAA-TAATCTCAA
1 TTTCAAGGGAAACT-ATCTCAA
1063140 AGATTGGTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 1 0.02
34 28 0.58
36 19 0.40
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.25
Consensus pattern (35 bp):
TTTCAAGGGAAACTATCTCAACGAAAAAAAAATTA
Found at i:1063404 original size:39 final size:39
Alignment explanation
Indices: 1063147--1063411 Score: 332
Period size: 39 Copynumber: 6.8 Consensus size: 39
1063137 CAAAGATTGG
* ** * * *
1063147 TGTTTCAAGGGAAACTGCCTCAAGAGAGACAAGATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1063186 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* **
1063225 TGTTTCGAGAGAAACTATCTCAAGAAAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
1063264 TGTTTCGAGAGAAACTATCTCAAGCGATATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * * * * *
1063303 TGTTTCGAGAGAAAATATCTCAAACGAGACAAACTATTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* * *
1063342 TGTTTCAAAGGAAACTATCTCAACCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
* *
1063381 TGTTTCAAGGGAAACTATCTCAACCGAGATA
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATA
1063412 CAATATTTTT
Statistics
Matches: 199, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 199 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (39 bp):
TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTC
Found at i:1063468 original size:40 final size:40
Alignment explanation
Indices: 1063422--1063542 Score: 106
Period size: 40 Copynumber: 3.1 Consensus size: 40
1063412 CAATATTTTT
1063422 TAAAAACAATCTTGAGTGAAATGAAATGTATTATTTTGAG
1 TAAAAACAATCTTGAGTGAAATGAAATGTATTATTTTGAG
* ** * * * * * *
1063462 TAAAAACTATCTCAAGAGAGA-CAAA--TCTTGTTTTAAG
1 TAAAAACAATCTTGAGTGAAATGAAATGTATTATTTTGAG
* * *
1063499 -AAAAACAATCTTGAGTCAAATGAAATGTATTCTTTCGAG
1 TAAAAACAATCTTGAGTGAAATGAAATGTATTATTTTGAG
1063538 TAAAA
1 TAAAA
1063543 TAGTCTCAAG
Statistics
Matches: 57, Mismatches: 20, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
36 14 0.25
37 12 0.21
39 11 0.19
40 20 0.35
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (40 bp):
TAAAAACAATCTTGAGTGAAATGAAATGTATTATTTTGAG
Found at i:1063520 original size:76 final size:75
Alignment explanation
Indices: 1063423--1063584 Score: 238
Period size: 76 Copynumber: 2.1 Consensus size: 75
1063413 AATATTTTTT
* *
1063423 AAAAACAATCTTGAGTGAAATGAAATGTATTATTTTGAGTAAAAACTA-TCTCAAGAGAGACAAA
1 AAAAACAATCTTGAGTCAAATGAAATGTATTATTTCGAGT-AAAA-TAGTCTCAAGAGAGACAAA
*
1063487 -TCTTGTTTTAAG
64 GTC-CGTTTTAAG
* *
1063499 AAAAACAATCTTGAGTCAAATGAAATGTATTCTTTCGAGTAAAATAGTCTCAAGTGAGACAAAGT
1 AAAAACAATCTTGAGTCAAATGAAATGTATTATTTCGAGTAAAATAGTCTCAAGAGAGACAAAGT
1063564 CCGTTTTAAG
66 CCGTTTTAAG
1063574 AAAAACAATCT
1 AAAAACAATCT
1063585 CCAATGAGAT
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
74 2 0.03
75 38 0.48
76 39 0.49
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (75 bp):
AAAAACAATCTTGAGTCAAATGAAATGTATTATTTCGAGTAAAATAGTCTCAAGAGAGACAAAGT
CCGTTTTAAG
Found at i:1069089 original size:33 final size:32
Alignment explanation
Indices: 1069017--1069091 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
1069007 TTTAATAAAA
* * *
1069017 ATAATA-ATATGCGTAAATCATATATATATAT
1 ATAATATATATGCGTAAATAATAAAAATATAT
1069048 ATATATATATATGCGTAAATTAATAAAAATA-ATT
1 ATA-ATATATATGCGTAAA-TAATAAAAATATA-T
1069082 ATAATATATA
1 ATAATATATA
1069092 CATAAAGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
31 3 0.08
32 3 0.08
33 19 0.51
34 12 0.32
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (32 bp):
ATAATATATATGCGTAAATAATAAAAATATAT
Found at i:1071497 original size:20 final size:19
Alignment explanation
Indices: 1071383--1071551 Score: 110
Period size: 20 Copynumber: 8.6 Consensus size: 19
1071373 AAATGACCAA
*
1071383 CAAATTCGCAACGCGATCT
1 CAAATTCGCAACGCGATTT
*
1071402 CAAATTCGCAACGCGAATTC
1 CAAATTCGCAACGCG-ATTT
* * *
1071422 CAATTTTGCAAC-CCAGTTT
1 CAAATTCGCAACGCGA-TTT
* *
1071441 CCAATTTCGCAACGCGAATAT
1 -CAAATTCGCAACGCG-ATTT
** ***
1071462 GTAATTCGCGTTGCGATTT
1 CAAATTCGCAACGCGATTT
*
1071481 CCAAATTCGCAACGCGATAGT
1 -CAAATTCGCAACGCGAT-TT
*
1071502 CAAATTCGCAACTG-AATTT
1 CAAATTCGCAAC-GCGATTT
1071521 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCG-ATTT
*
1071541 -AATTTCGCAAC
1 CAAATTCGCAAC
1071552 AGGTTTTAGT
Statistics
Matches: 114, Mismatches: 26, Indels: 20
0.71 0.16 0.12
Matches are distributed among these distances:
18 2 0.02
19 44 0.39
20 62 0.54
21 5 0.04
22 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (19 bp):
CAAATTCGCAACGCGATTT
Found at i:1072316 original size:12 final size:12
Alignment explanation
Indices: 1072295--1072328 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1072285 ACCACATTTC
*
1072295 CAATACCAAACA
1 CAATATCAAACA
1072307 CAATATCAAACA
1 CAATATCAAACA
*
1072319 CAATCTCAAA
1 CAATATCAAA
1072329 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:1072507 original size:24 final size:24
Alignment explanation
Indices: 1072449--1072495 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1072439 AGTCAGTATT
* *
1072449 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTAAATACC
1072473 CGAACTTTGATCTTGGTAAATAC
1 CGAACTTTGATCTTGGTAAATAC
1072496 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTAAATACC
Found at i:1074776 original size:18 final size:18
Alignment explanation
Indices: 1074753--1074788 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1074743 AAGCAAAAGG
*
1074753 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
1074771 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
1074789 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:1075331 original size:61 final size:63
Alignment explanation
Indices: 1075200--1075337 Score: 156
Period size: 61 Copynumber: 2.2 Consensus size: 63
1075190 TAGAAACAAT
*
1075200 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATTAAG
1 AAATCAACTTTTACAAATCAATT--A-AAGCAAAAAAATAAATCTTATTTACAAATCAAATTAAG
1075265 C
63 C
* * * ** *
1075266 AAATCAACTTTTACAAATCAATT-AATC-AAAAAATAAATCTTTTTTCCTCATCAATTGTAA-C
1 AAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAAT-TAAGC
1075327 AAATCAACTTT
1 AAATCAACTTT
1075338 CAATATAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
61 35 0.55
62 6 0.09
66 23 0.36
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.33
Consensus pattern (63 bp):
AAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTAAGC
Found at i:1076793 original size:42 final size:42
Alignment explanation
Indices: 1076715--1076814 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
1076705 GGCGGGACCA
* * * * * * * *
1076715 CTTGAACGATGACAGTGGCCTCTTGAATGGTGGGAGGGGCTT
1 CTTGAATGATGATAGGGGCCTCTTGAACGATAGGAGGCGCCT
1076757 CTTCG-ATGATGATAGGGGCCTCTTGAACGATAGGAGGCGCCT
1 CTT-GAATGATGATAGGGGCCTCTTGAACGATAGGAGGCGCCT
1076799 CTTGAATGATGATAGG
1 CTTGAATGATGATAGG
1076815 TGCATCGGGC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 46 0.96
43 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (42 bp):
CTTGAATGATGATAGGGGCCTCTTGAACGATAGGAGGCGCCT
Found at i:1079025 original size:13 final size:13
Alignment explanation
Indices: 1079007--1079038 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1078997 AGGTTTCTTC
*
1079007 AACAAAAATACAA
1 AACAAAAAGACAA
1079020 AACAAAAAGACAA
1 AACAAAAAGACAA
1079033 AACAAA
1 AACAAA
1079039 GATAAATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.78, C:0.16, G:0.03, T:0.03
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:1079283 original size:22 final size:22
Alignment explanation
Indices: 1079252--1079309 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
1079242 GATGGAGATA
1079252 GACGGATTTCGTCGGAAATGAG
1 GACGGATTTCGTCGGAAATGAG
* * * *
1079274 GATGGATTTCGTCTGAGATGGG
1 GACGGATTTCGTCGGAAATGAG
*
1079296 GACGGATGTCGTCG
1 GACGGATTTCGTCG
1079310 TAGAGAGTGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.14, G:0.40, T:0.26
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGAG
Found at i:1079455 original size:20 final size:20
Alignment explanation
Indices: 1079430--1079494 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
1079420 GCGTAAAAAC
1079430 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
* *
1079450 ATTTGACTTTTGCGTTGAGA
1 ATTTGACTTTCGCGTTGCGA
*
1079470 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
1079490 ATTTG
1 ATTTG
1079495 GAAACTGAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.18, C:0.15, G:0.25, T:0.42
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:1079512 original size:40 final size:40
Alignment explanation
Indices: 1079430--1079532 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
1079420 GCGTAAAAAC
* *** *
1079430 ATTTGACTTTCGCGTTGCGAATTTGACTTTTGCGTTGAGA
1 ATTTGACTATCGCGTTGCGAATTTGACAACTGAGTTGAGA
*
1079470 ATTTGACTATCGCGTTGCGAATTTGGA-AACTGAGTTGCGA
1 ATTTGACTATCGCGTTGCGAATTT-GACAACTGAGTTGAGA
**
1079510 ATTTG-GGATCGCGTTGCGAATTT
1 ATTTGACTATCGCGTTGCGAATTT
1079533 ATTGGTCATT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 16 0.30
40 36 0.67
41 2 0.04
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.38
Consensus pattern (40 bp):
ATTTGACTATCGCGTTGCGAATTTGACAACTGAGTTGAGA
Found at i:1079527 original size:19 final size:19
Alignment explanation
Indices: 1079439--1079532 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 19
1079429 CATTTGACTT
*
1079439 TCGCGTTGCGAATTT-GACTT
1 TCGCGTTGCGAATTTGGA--A
* *
1079459 TTGCGTTGAGAATTT-GACTA
1 TCGCGTTGCGAATTTGGA--A
1079479 TCGCGTTGCGAATTTGGAA
1 TCGCGTTGCGAATTTGGAA
* * *
1079498 ACTGAGTTGCGAATTTGGGA
1 TC-GCGTTGCGAATTTGGAA
1079518 TCGCGTTGCGAATTT
1 TCGCGTTGCGAATTT
1079533 ATTGGTCATT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
19 14 0.23
20 46 0.74
21 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (19 bp):
TCGCGTTGCGAATTTGGAA
Found at i:1080591 original size:28 final size:30
Alignment explanation
Indices: 1080559--1080618 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
1080549 AAGAGTTTTT
*
1080559 TTTATATATAAAAATAT-AAA-TTATAAAA
1 TTTATAAATAAAAATATAAAATTTATAAAA
**
1080587 TTTATAAATATCAATATAAAATTTATAAAA
1 TTTATAAATAAAAATATAAAATTTATAAAA
1080617 TT
1 TT
1080619 AACCACTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 14 0.52
29 3 0.11
30 10 0.37
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
TTTATAAATAAAAATATAAAATTTATAAAA
Done.