Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 241 of 378
Found at i:71672262 original size:40 final size:40
Alignment explanation
Indices: 71672207--71672424 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
71672197 CGGATGATAA
* *
71672207 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
71672247 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71672287 CCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
71672327 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
71672367 CCGGGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
71672407 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
71672425 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 149 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:71679941 original size:29 final size:29
Alignment explanation
Indices: 71679899--71679998 Score: 200
Period size: 29 Copynumber: 3.4 Consensus size: 29
71679889 GACGAGATTA
71679899 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
71679928 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
71679957 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
71679986 GCACTAAGTGTGC
1 GCACTAAGTGTGC
71679999 GAGCTCGAAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:71680014 original size:29 final size:30
Alignment explanation
Indices: 71679899--71680058 Score: 188
Period size: 29 Copynumber: 5.5 Consensus size: 30
71679889 GACGAGATTA
71679899 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
71679928 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
71679957 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
* ***
71679986 GCACTAAGTGTGCGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
* * * **
71680015 GCACTATGTGTGCG-GGCT-TAAATCGCATG
1 GCACTAAGTGTGCGATGCTGGAAAT-ATATG
71680044 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
71680059 AATCGAGTAT
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
28 2 0.02
29 114 0.97
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (30 bp):
GCACTAAGTGTGCGATGCTGGAAATATATG
Found at i:71684252 original size:43 final size:43
Alignment explanation
Indices: 71684204--71684336 Score: 121
Period size: 42 Copynumber: 3.1 Consensus size: 43
71684194 GTGTAATGCC
*
71684204 GGTGAAATGATGTCGGACTTAAAGGTCTAGCAAGCTTTAAGCT
1 GGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCT
* *** * * * *
71684247 GGTG-AAT-ATTATCGGGCTCCGA-GCCTAGCAGGC-ATAATGCC
1 GGTGAAATGA-TATCGGACTTAAAGGTCTAGCAAGCTTTAA-GCT
* *
71684288 AGTGAAATGATATCAGACTTAAAGGTCTAGCAAGCTTTAAGCT
1 GGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCT
71684331 GGTGAA
1 GGTGAA
71684337 TATTATTGGG
Statistics
Matches: 64, Mismatches: 20, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
40 3 0.05
41 15 0.23
42 22 0.34
43 21 0.33
44 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (43 bp):
GGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCT
Found at i:71684276 original size:41 final size:41
Alignment explanation
Indices: 71684230--71684360 Score: 113
Period size: 41 Copynumber: 3.1 Consensus size: 41
71684220 ACTTAAAGGT
71684230 CTAGCAAGCTTTAAGCTGGTGAATATTATCGGGCTCCGAGC
1 CTAGCAAGCTTTAAGCTGGTGAATATTATCGGGCTCCGAGC
* * ** * * *** *
71684271 CTAGCAGGC-ATAATGCCAGTGAA-ATGATATCAGACTTAAAGGT
1 CTAGCAAGCTTTAA-GCTGGTGAATAT--TATCGGGCTCCGA-GC
*
71684314 CTAGCAAGCTTTAAGCTGGTGAATATTATTGGGCTCCGAGC
1 CTAGCAAGCTTTAAGCTGGTGAATATTATCGGGCTCCGAGC
71684355 CTAGCA
1 CTAGCA
71684361 GGCGTAATGC
Statistics
Matches: 63, Mismatches: 21, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
40 5 0.08
41 22 0.35
42 15 0.24
43 16 0.25
44 5 0.08
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (41 bp):
CTAGCAAGCTTTAAGCTGGTGAATATTATCGGGCTCCGAGC
Found at i:71684287 original size:84 final size:84
Alignment explanation
Indices: 71684174--71684376 Score: 325
Period size: 84 Copynumber: 2.4 Consensus size: 84
71684164 GTGATGAATT
** * * * *
71684174 TCGGGCTTTGAGCCTAGTAGGTGTAATGCCGGTGAAATGATGTCGGACTTAAAGGTCTAGCAAGC
1 TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
71684239 TTTAAGCTGGTGAATATTA
66 TTTAAGCTGGTGAATATTA
* *
71684258 TCGGGCTCCGAGCCTAGCAGGCATAATGCCAGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
1 TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
71684323 TTTAAGCTGGTGAATATTA
66 TTTAAGCTGGTGAATATTA
*
71684342 TTGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGA
1 TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGA
71684377 TGAAATCAGG
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 108 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (84 bp):
TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
TTTAAGCTGGTGAATATTA
Found at i:71684376 original size:41 final size:41
Alignment explanation
Indices: 71684247--71684376 Score: 102
Period size: 41 Copynumber: 3.1 Consensus size: 41
71684237 GCTTTAAGCT
71684247 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCATAATGCC
1 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCATAATGCC
* * * *** * * * *
71684288 AGTGAA-ATGATATCAGACTTAAAGGTCTAGCAAGCTTTAA-GCT
1 GGTGAATAT--TATCGGGCTCCGA-GCCTAGCAGGC-ATAATGCC
* *
71684331 GGTGAATATTATTGGGCTCCGAGCCTAGCAGGCGTAATGCC
1 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCATAATGCC
71684372 GGTGA
1 GGTGA
71684377 TGAAATCAGG
Statistics
Matches: 62, Mismatches: 21, Indels: 12
0.65 0.22 0.13
Matches are distributed among these distances:
40 5 0.08
41 21 0.34
42 15 0.24
43 16 0.26
44 5 0.08
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCATAATGCC
Found at i:71686898 original size:46 final size:46
Alignment explanation
Indices: 71686843--71687023 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
71686833 TAGGATGGTT
71686843 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
71686889 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
71686935 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
71686982 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71687024 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:71687004 original size:93 final size:93
Alignment explanation
Indices: 71686845--71687015 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
71686835 GGATGGTTGA
* *
71686845 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71686910 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
71686938 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71687003 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71687016 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71692197 original size:43 final size:43
Alignment explanation
Indices: 71692150--71692285 Score: 138
Period size: 43 Copynumber: 3.2 Consensus size: 43
71692140 CAGGCGTAAT
71692150 GCTGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAA
1 GCTGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAA
*** * * *
71692193 GCTGGTG-AAT-ATTATCAGG-CTCCGA-GCCTAGCAGGC-ATAA
1 GCTGGTGAAATGA-TATC-GGACTTAAAGGTCTAGCAAGCTTTAA
*
71692233 TGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAA
1 -GCTGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAA
*
71692277 GTTGGTGAA
1 GCTGGTGAA
71692286 TATTATCGGG
Statistics
Matches: 70, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
40 3 0.04
41 18 0.26
42 20 0.29
43 26 0.37
44 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (43 bp):
GCTGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAA
Found at i:71692241 original size:41 final size:40
Alignment explanation
Indices: 71692196--71692336 Score: 97
Period size: 41 Copynumber: 3.4 Consensus size: 40
71692186 GCTTTAAGCT
71692196 GGTGAATATTATCAGGCTCCGAGCCTAGCAGGCATAATGCC
1 GGTGAATATTATC-GGCTCCGAGCCTAGCAGGCATAATGCC
*** * * * **
71692237 GGTGAA-ATGATATCGGACTTAAAGGTCTAGCAAGCTTTAA-GTT
1 GGTGAATAT--TATCGG-CTCCGA-GCCTAGCAGGC-ATAATGCC
* *
71692280 GGTGAATATTATCGGGCCCCGAGCCTAGCAGGCGTAATGCC
1 GGTGAATATTATC-GGCTCCGAGCCTAGCAGGCATAATGCC
*
71692321 GGTGAAATAATATCGG
1 GGTG-AATATTATCGG
71692337 ACTTAAAGGT
Statistics
Matches: 73, Mismatches: 18, Indels: 18
0.67 0.17 0.17
Matches are distributed among these distances:
40 5 0.07
41 24 0.33
42 21 0.29
43 18 0.25
44 5 0.07
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (40 bp):
GGTGAATATTATCGGCTCCGAGCCTAGCAGGCATAATGCC
Found at i:71692242 original size:84 final size:84
Alignment explanation
Indices: 71692132--71692357 Score: 389
Period size: 84 Copynumber: 2.7 Consensus size: 84
71692122 TTCGGGCTTT
*
71692132 GAGCCTAGCAGGCGTAATGCTGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
1 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
*
71692197 GTGAATATTATCAGGCTCC
66 GTGAATATTATCAGGCCCC
* *
71692216 GAGCCTAGCAGGCATAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGTTG
1 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
*
71692281 GTGAATATTATCGGGCCCC
66 GTGAATATTATCAGGCCCC
* *
71692300 GAGCCTAGCAGGCGTAATGCCGGTGAAATAATATCGGACTTAAAGGTCTAGCAGGCTT
1 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTT
71692358 ATTGTCGATG
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 134 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (84 bp):
GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
GTGAATATTATCAGGCCCC
Found at i:71692352 original size:43 final size:43
Alignment explanation
Indices: 71692136--71692355 Score: 166
Period size: 42 Copynumber: 5.2 Consensus size: 43
71692126 GGCTTTGAGC
*
71692136 CTAGCAGGCGTAATGCTGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAGGCGTAATGCTGGTGAAATAATATCGGACTTAAAGGT
* * * *** *
71692179 CTAGCAAGCTTTAA-GCTGGTG-AATATTATCAGG-CTCCGA-GC
1 CTAGCAGGC-GTAATGCTGGTGAAATAATATC-GGACTTAAAGGT
* * *
71692220 CTAGCAGGCATAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAGGCGTAATGCTGGTGAAATAATATCGGACTTAAAGGT
* * * * * **** *
71692263 CTAGCAAGCTTTAA-GTTGGTG-AATATTATCGGGCCCCGA-GC
1 CTAGCAGGC-GTAATGCTGGTGAAATAATATCGGACTTAAAGGT
*
71692304 CTAGCAGGCGTAATGCCGGTGAAATAATATCGGACTTAAAGGT
1 CTAGCAGGCGTAATGCTGGTGAAATAATATCGGACTTAAAGGT
71692347 CTAGCAGGC
1 CTAGCAGGC
71692356 TTATTGTCGA
Statistics
Matches: 127, Mismatches: 40, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
40 6 0.05
41 31 0.24
42 43 0.34
43 41 0.32
44 6 0.05
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (43 bp):
CTAGCAGGCGTAATGCTGGTGAAATAATATCGGACTTAAAGGT
Found at i:71697187 original size:42 final size:42
Alignment explanation
Indices: 71697140--71697221 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
71697130 TTTGATTATA
* * *
71697140 AGCTTAGATATGTTTAAATATTAATTTTTTAAGTAATTTTGT
1 AGCTTAGATATGTTAAAAAATTAATTTGTTAAGTAATTTTGT
* *
71697182 AGCTTAGGTATGTTAAAAAATTAATTTGTTAAGTATTTTT
1 AGCTTAGATATGTTAAAAAATTAATTTGTTAAGTAATTTT
71697222 TTAGTTTTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.50
Consensus pattern (42 bp):
AGCTTAGATATGTTAAAAAATTAATTTGTTAAGTAATTTTGT
Found at i:71701996 original size:93 final size:93
Alignment explanation
Indices: 71701868--71702038 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
71701858 GCCCATAAGT
* * *
71701868 GAACTTGGACTCAACTCAATGAGCTCGAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
71701933 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
71701961 GAACTCGGACTCAACTCAACGAGTTC-AGATATTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
71702025 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
71702039 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:71702022 original size:46 final size:45
Alignment explanation
Indices: 71701860--71702029 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 45
71701850 TGTAACCCGC
* * **
71701860 CCATAAGTGAACTTGGACTCAACTCAATGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGA-TATTCGCAT
* * *
71701906 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCG-GATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGATATTCGC-A--T
* *** *
71701952 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGATATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTC-GATATTCGCAT
*
71701999 CCATAAGTGAACTCGGACTCAACTTAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
71702030 TTCGGATGCT
Statistics
Matches: 98, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 59 0.60
47 29 0.30
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGATATTCGCAT
Found at i:71702496 original size:31 final size:30
Alignment explanation
Indices: 71702461--71702518 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
71702451 CAAAATCATA
71702461 TTTTGGAACAATTACAATTTTTCCCCTAAAC
1 TTTT-GAACAATTACAATTTTTCCCCTAAAC
* * * *
71702492 TTTTGCATATTTACACTTTTTCCCCTA
1 TTTTGAACAATTACAATTTTTCCCCTA
71702519 GGCTCGGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (30 bp):
TTTTGAACAATTACAATTTTTCCCCTAAAC
Found at i:71714317 original size:6 final size:6
Alignment explanation
Indices: 71714306--71714371 Score: 75
Period size: 6 Copynumber: 11.5 Consensus size: 6
71714296 TCCTCCTATT
* *
71714306 TTTTTA TTTTTA TTTTTA -TTTTA -TTTTA -TTTTA TTTTGA TTTTTC
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
71714351 TTTTGA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTT
71714372 CAATTTTATT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
5 15 0.29
6 37 0.71
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:71714321 original size:5 final size:5
Alignment explanation
Indices: 71714307--71714391 Score: 66
Period size: 5 Copynumber: 15.8 Consensus size: 5
71714297 CCTCCTATTT
*
71714307 TTTTA TTTTTA TTTTTA TTTTA TTTTA TTTTA TTTTGA TTTTTC TTTTGA
1 TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA TTTT-A
*
71714357 TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
71714392 GAAAGACATA
Statistics
Matches: 67, Mismatches: 4, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
3 3 0.04
5 35 0.52
6 21 0.31
7 8 0.12
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:71717302 original size:13 final size:13
Alignment explanation
Indices: 71717286--71717318 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
71717276 TTTAATTAAA
*
71717286 TTAGTTAATTAGT
1 TTAGATAATTAGT
71717299 TTAGATAATTAGT
1 TTAGATAATTAGT
71717312 TTA-ATAA
1 TTAGATAA
71717319 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:71720627 original size:14 final size:15
Alignment explanation
Indices: 71720610--71720638 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
71720600 TCACGAAAAT
71720610 TTCACACAT-ATAAA
1 TTCACACATAATAAA
71720624 TTCACACATAATAAA
1 TTCACACATAATAAA
71720639 CGTTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:71725854 original size:40 final size:40
Alignment explanation
Indices: 71725807--71726051 Score: 343
Period size: 40 Copynumber: 6.1 Consensus size: 40
71725797 CGGGCTTTAA
* *
71725807 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* * *
71725847 CCGGATATAGT-AGTTCACACAAATGTCTTCGGGACTTAGC
1 CCGGATATAGTCA-CTCGCACAAATGCCTTCGGGACTTAGC
*
71725887 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
71725927 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
71725967 CC-GAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
71726007 CTGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
71726047 CCGGA
1 CCGGA
71726052 ATTATCATCT
Statistics
Matches: 188, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 4 0.02
40 181 0.96
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:71727419 original size:10 final size:11
Alignment explanation
Indices: 71727397--71727422 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
71727387 TCATTAACAC
71727397 AAATACAAAAA
1 AAATACAAAAA
71727408 AAATACAAAAA
1 AAATACAAAAA
71727419 AAAT
1 AAAT
71727423 CAAGAAAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.12
Consensus pattern (11 bp):
AAATACAAAAA
Found at i:71732967 original size:21 final size:20
Alignment explanation
Indices: 71732928--71732967 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
71732918 CTTTAAAAAT
*
71732928 AGGGAACACGCCCGTGTGGA
1 AGGGAACACGCCCGCGTGGA
*
71732948 AGGGTAACACGCCTGCGTGG
1 AGGG-AACACGCCCGCGTGG
71732968 TTTTTATGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.25, G:0.40, T:0.12
Consensus pattern (20 bp):
AGGGAACACGCCCGCGTGGA
Found at i:71737435 original size:2 final size:2
Alignment explanation
Indices: 71737428--71737461 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
71737418 AGTATAGTTG
* *
71737428 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71737462 TCAGCCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:71738136 original size:29 final size:29
Alignment explanation
Indices: 71738101--71738174 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
71738091 GTTGTGAGAT
*
71738101 TGGCACTAAGTGTGC-AGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGA-G-TTGAAAGTACA
*
71738130 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
71738159 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
71738175 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 5 0.12
29 35 0.85
30 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:71740808 original size:20 final size:18
Alignment explanation
Indices: 71740771--71740821 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
71740761 CTATATCAAC
71740771 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
71740788 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
71740808 TTACAACTTTACAA
1 TCACAA-TTTACAA
71740822 AATAGCACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:71742189 original size:44 final size:44
Alignment explanation
Indices: 71742111--71742281 Score: 174
Period size: 44 Copynumber: 4.0 Consensus size: 44
71742101 ACATAGGATC
* * * *
71742111 CGATATGTG-TTTTCATGTAACACCATGTCTGGGACTTTGGCAT
1 CGATATTTGATTTACATGTAAGACCATGTCTGGGACATTGGCAT
* * *
71742154 CGACT-TATGATTTACGTGTAAGACCATGTCTGGGACATCGGCAT
1 CGA-TATTTGATTTACATGTAAGACCATGTCTGGGACATTGGCAT
* * * *
71742198 C-ATATTTGATTT-CCTGTAAGACC-TGTCTAGAACAGTGGCAT
1 CGATATTTGATTTACATGTAAGACCATGTCTGGGACATTGGCAT
* *
71742239 CGATATTTGA-TTACATGTAAGACCACGTCTGGGACTTTGGCAT
1 CGATATTTGATTTACATGTAAGACCATGTCTGGGACATTGGCAT
71742282 TCTATGAGCT
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 17 0.16
42 29 0.28
43 27 0.26
44 31 0.30
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (44 bp):
CGATATTTGATTTACATGTAAGACCATGTCTGGGACATTGGCAT
Found at i:71742238 original size:41 final size:43
Alignment explanation
Indices: 71742111--71742268 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 43
71742101 ACATAGGATC
* * * * * * *
71742111 CGATATGTGTTTTCATGTAACACCATGTCTGGGACTTTGGCAT
1 CGATATTTGATTTCATGTAAGACCATGTCTAGAACATCGGCAT
* * * *
71742154 CGACT-TATGATTTACGTGTAAGACCATGTCTGGGACATCGGCAT
1 CGA-TATTTGATTT-CATGTAAGACCATGTCTAGAACATCGGCAT
*
71742198 C-ATATTTGATTTCCTGTAAGACC-TGTCTAGAACAGT-GGCAT
1 CGATATTTGATTTCATGTAAGACCATGTCTAGAACA-TCGGCAT
* *
71742239 CGATATTTGATTACATGTAAGACCACGTCT
1 CGATATTTGATTTCATGTAAGACCATGTCT
71742269 GGGACTTTGG
Statistics
Matches: 96, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
41 15 0.16
42 32 0.33
43 21 0.22
44 28 0.29
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTTCATGTAAGACCATGTCTAGAACATCGGCAT
Found at i:71744265 original size:40 final size:41
Alignment explanation
Indices: 71744213--71744312 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 41
71744203 GGAAATTATA
* *
71744213 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CATACTAT
*
71744253 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATACTAT
71744293 CCGGGCTAAGA-CCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
71744313 TTTGAGCAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
38 1 0.02
39 13 0.25
40 39 0.74
ACGTcount: A:0.25, C:0.26, G:0.30, T:0.19
Consensus pattern (41 bp):
CCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATACTAT
Found at i:71744333 original size:39 final size:40
Alignment explanation
Indices: 71744251--71744351 Score: 105
Period size: 39 Copynumber: 2.5 Consensus size: 40
71744241 TAGTGGCTAC
* * * **
71744251 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGAGCAAATCATGAT
* *
71744291 ATCCGGGCTAAGA-CCGAAGGCATTTGAGCAAATCGTGAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGAGCAAATCATGAT
* * *
71744330 ATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGCTAAGACCCGAAGGC
71744352 CTTGGTGCGG
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 30 0.60
40 20 0.40
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGAGCAAATCATGAT
Found at i:71751285 original size:40 final size:40
Alignment explanation
Indices: 71751240--71751405 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
71751230 CGGAATATAA
71751240 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
71751280 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
71751320 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
71751359 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
71751398 CCGGATAT
1 CCGGATAT
71751406 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:71751362 original size:39 final size:38
Alignment explanation
Indices: 71751256--71751367 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
71751246 ATAATCACGT
* * *
71751256 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
71751296 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
71751335 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
71751368 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:71751389 original size:79 final size:78
Alignment explanation
Indices: 71751256--71751405 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
71751246 ATAATCACGT
*
71751256 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
71751321 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
71751335 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
71751398 CCGGATAT
64 CCGGATAT
71751406 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:71752253 original size:17 final size:19
Alignment explanation
Indices: 71752230--71752275 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
71752220 AAGAAGCATG
71752230 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
71752248 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
71752266 AATCATGCTC
1 AATCATGCTC
71752276 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:71756945 original size:40 final size:38
Alignment explanation
Indices: 71756776--71756962 Score: 164
Period size: 40 Copynumber: 4.8 Consensus size: 38
71756766 TGAGAAATTG
* *
71756776 AATG-ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGAA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
71756815 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
71756852 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
71756892 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
71756932 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
71756963 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 20 0.17
40 94 0.78
41 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:71760282 original size:27 final size:28
Alignment explanation
Indices: 71760196--71760282 Score: 108
Period size: 27 Copynumber: 3.2 Consensus size: 28
71760186 TACTGAAATG
* * *
71760196 CCCTC-GATTTATAGAATTACTGTTTTA
1 CCCTCAGATTTACAAAATTACCGTTTTA
*
71760223 CCCTC-GATTTACAAAATTACCATTTTA
1 CCCTCAGATTTACAAAATTACCGTTTTA
*
71760250 CCCTCAG-TTTACAAAATTATCGTTTTA
1 CCCTCAGATTTACAAAATTACCGTTTTA
71760277 CCCTCA
1 CCCTCA
71760283 ATTGTGAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (28 bp):
CCCTCAGATTTACAAAATTACCGTTTTA
Found at i:71760307 original size:27 final size:26
Alignment explanation
Indices: 71760277--71760548 Score: 124
Period size: 27 Copynumber: 10.1 Consensus size: 26
71760267 TATCGTTTTA
*
71760277 CCCTCAATTGTGAAATTACTGAAATAC
1 CCCT-AATTGTGAAATTACCGAAATAC
* *
71760304 CCCT-ATAG-GATAGAATTACCAAAATAC
1 CCCTAATTGTG--A-AATTACCGAAATAC
* *
71760331 CCCTAGTT-TGTACAATTACCAAAATAC
1 CCCTAATTGTG-A-AATTACCGAAATAC
* *
71760358 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCTA-ATTGTGAAATTACCGAAATAC
* ** *
71760385 CACTGGTTTGTGAAATTACTGAAATAC
1 CCCT-AATTGTGAAATTACCGAAATAC
* *
71760412 CCCT-ATAG-GATAGAATTACCAAAATAC
1 CCCTAATTGTG--A-AATTACCGAAATAC
* * *
71760439 CTCC-AGTTTGTAAAATTACCAAAATAC
1 C-CCTA-ATTGTGAAATTACCGAAATAC
* *
71760466 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCTA-ATTGTGAAATTACCGAAATAC
** ** *
71760493 AACTGGTTTGTGAAATTACTGAAATAC
1 CCCT-AATTGTGAAATTACCGAAATAC
* * *
71760520 CCTTAATTTGTAAAATTACCAAAATAC
1 CCCTAA-TTGTGAAATTACCGAAATAC
71760547 CC
1 CC
71760549 TTGATTTACA
Statistics
Matches: 192, Mismatches: 35, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
24 2 0.01
25 5 0.03
26 4 0.02
27 170 0.89
28 8 0.04
29 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (26 bp):
CCCTAATTGTGAAATTACCGAAATAC
Found at i:71760358 original size:54 final size:53
Alignment explanation
Indices: 71760284--71760470 Score: 216
Period size: 54 Copynumber: 3.5 Consensus size: 53
71760274 TTACCCTCAA
**
71760284 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCCTAGT
1 TTGT-AAATTACCAAAATACCCCTATAGGATAGAATTACCAAAATACCCCTAGT
** * * * *
71760338 TTGTACAATTACCAAAATACCCCTAGTTTG-TAAAATTACCGAAATACCACTGGT
1 TTGTA-AATTACCAAAATACCCCTA-TAGGATAGAATTACCAAAATACCCCTAGT
**
71760392 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCTCC-AGT
1 TTGT-AAATTACCAAAATACCCCTATAGGATAGAATTACCAAAATACC-CCTAGT
71760446 TTGTAAAATTACCAAAATACCCCTA
1 TTGT-AAATTACCAAAATACCCCTA
71760471 GTTTGTAAAA
Statistics
Matches: 109, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
53 3 0.03
54 102 0.94
55 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.28
Consensus pattern (53 bp):
TTGTAAATTACCAAAATACCCCTATAGGATAGAATTACCAAAATACCCCTAGT
Found at i:71760429 original size:108 final size:107
Alignment explanation
Indices: 71760284--71760548 Score: 442
Period size: 108 Copynumber: 2.5 Consensus size: 107
71760274 TTACCCTCAA
*
71760284 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCCTAGTTTGTACAATTA
1 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCC-AGTTTGTAAAATTA
*
71760349 CCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
65 CCAAAATACCCCTAGTTTGTAAAATTACCGAAATACAACTGGT
71760392 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCTCCAGTTTGTAAAATTA
1 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACC-CCAGTTTGTAAAATTA
71760457 CCAAAATACCCCTAGTTTGTAAAATTACCGAAATACAACTGGT
65 CCAAAATACCCCTAGTTTGTAAAATTACCGAAATACAACTGGT
* ** *
71760500 TTGTGAAATTACTGAAATACCCTTAATTTG-TAAAATTACCAAAATACCC
1 TTGTGAAATTACTGAAATACCCCT-ATAGGATAGAATTACCAAAATACCC
71760549 TTGATTTACA
Statistics
Matches: 149, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
107 1 0.01
108 143 0.96
109 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.29
Consensus pattern (107 bp):
TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCCAGTTTGTAAAATTAC
CAAAATACCCCTAGTTTGTAAAATTACCGAAATACAACTGGT
Found at i:71760550 original size:27 final size:27
Alignment explanation
Indices: 71760317--71760548 Score: 261
Period size: 27 Copynumber: 8.6 Consensus size: 27
71760307 TATAGGATAG
*
71760317 AATTACCAAAATACCCCTAGTTTGTAC
1 AATTACCAAAATACCCCTAGTTTGTAA
71760344 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
71760371 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
** ** *
71760398 AATTACTGAAATACCCCTA-TAGGATAG
1 AATTACCAAAATACCCCTAGTTTG-TAA
71760425 AATTACCAAAATACCTCC-AGTTTGTAA
1 AATTACCAAAATACC-CCTAGTTTGTAA
71760452 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* ** * *
71760479 AATTACCGAAATACAACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
** * *
71760506 AATTACTGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
71760533 AATTACCAAAATACCC
1 AATTACCAAAATACCC
71760549 TTGATTTACA
Statistics
Matches: 170, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.02
27 162 0.95
28 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:71760555 original size:27 final size:27
Alignment explanation
Indices: 71760317--71760661 Score: 179
Period size: 27 Copynumber: 12.7 Consensus size: 27
71760307 TATAGGATAG
* *
71760317 AATTACCAAAATACCCCT-AGTTTGTAC
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
71760344 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* * *
71760371 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTGATTTGTAA
** * ** *
71760398 AATTACTGAAATACCCCT-ATAGGATAG
1 AATTACCAAAATACCCTTGATTTG-TAA
**
71760425 AATTACCAAAATA-CCTCCAGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
71760452 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* * * *
71760479 AATTACCGAAATACAAC-TGGTTTGTGA
1 AATTACCAAAATAC-CCTTGATTTGTAA
** *
71760506 AATTACTGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
**
71760533 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
71760560 AATTA-TAGAAATATCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTTGA-TTTGT-AA
* * * *
71760589 AATTA-TAGAAATACCATTGGTTTACT-A
1 AATTACCA-AAATACCCTTGATTT-GTAA
** * *
71760616 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
71760643 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
71760662 TAGGATGAAA
Statistics
Matches: 254, Mismatches: 48, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
26 8 0.03
27 212 0.83
28 13 0.05
29 21 0.08
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:71760562 original size:108 final size:108
Alignment explanation
Indices: 71760284--71760631 Score: 402
Period size: 108 Copynumber: 3.2 Consensus size: 108
71760274 TTACCCTCAA
* *
71760284 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCCTAGTTTGTAC--AAT
1 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATA-CCCTTGATT-TACAAAAT
71760347 TACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
64 TACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
** **
71760392 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATA-CCTCCAGTTTGTAAAATT
1 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCTTGA-TTTACAAAATT
*
71760456 ACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACAACTGGT
65 ACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
* ** *
71760500 TTGTGAAATTACTGAAATACCCTTAATTTG-TAAAATTACCAAAATACCCTTGATTTACAAAATT
1 TTGTGAAATTACTGAAATACCCCT-ATAGGATAGAATTACCAAAATACCCTTGATTTACAAAATT
* * * * * ** *
71760564 A-TAGAAATATCCTTGACTTTCTAAAAATTATAGAAATACCATTGGT
65 ACCA-AAATACCCCT-AGTTTGT-AAAATTACCGAAATACCACTGGT
*
71760610 TTACT-AAATTACTGAAATACCC
1 TT-GTGAAATTACTGAAATACCC
71760632 TTGGTTTGTA
Statistics
Matches: 207, Mismatches: 24, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
106 4 0.02
107 3 0.01
108 149 0.72
109 12 0.06
110 38 0.18
111 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (108 bp):
TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCTTGATTTACAAAATTA
CCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
Found at i:71760563 original size:54 final size:54
Alignment explanation
Indices: 71760289--71760661 Score: 211
Period size: 54 Copynumber: 6.9 Consensus size: 54
71760279 CTCAATTGTG
** * * * **
71760289 AAATTACTGAAATACCCCT-ATAGGATAGAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACTGAAATACCCCTAATTTG-TAAAATTACCAAAATACCCTTGGTTTACA
* ** * * ***
71760343 CAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCAC-TGGTTTGTG
1 AAATTACTGAAATACCCCTAATTTGTAAAATTACCAAAATACC-CTTGGTTTACA
** * ** **
71760397 AAATTACTGAAATACCCCT-ATAGGATAGAATTACCAAAATA-CCTCCAGTTTGTA
1 AAATTACTGAAATACCCCTAATTTG-TAAAATTACCAAAATACCCT-TGGTTTACA
** * * * ***
71760451 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACAAC-TGGTTTGTG
1 AAATTACTGAAATACCCCTAATTTGTAAAATTACCAAAATAC-CCTTGGTTTACA
* *
71760505 AAATTACTGAAATACCCTTAATTTGTAAAATTACCAAAATACCCTTGATTTACA
1 AAATTACTGAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTGGTTTACA
* * * * * * *
71760559 AAATTA-TAGAAATATCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACT
1 AAATTACT-GAAATACCCCT-AATTTGT-AAAATTACCA-AAATACCCTTGGTTTACA
* ** * * *
71760615 AAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 AAATTACTGAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTG
71760662 TAGGATGAAA
Statistics
Matches: 246, Mismatches: 58, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
52 1 0.00
53 5 0.02
54 184 0.75
55 16 0.07
56 39 0.16
57 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (54 bp):
AAATTACTGAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTGGTTTACA
Found at i:71760734 original size:27 final size:27
Alignment explanation
Indices: 71760679--71760756 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
71760669 AAATGACTAA
* * *
71760679 AATACCCCTAATA-GGTAAAAAGACTGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
*
71760706 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
71760733 AATACCCTTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
71760757 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:71761604 original size:25 final size:24
Alignment explanation
Indices: 71761566--71761635 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
71761556 AGGAAGTGCT
*
71761566 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
71761590 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
71761615 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
71761636 ATTAAAGGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:71761893 original size:31 final size:31
Alignment explanation
Indices: 71761855--71761962 Score: 180
Period size: 31 Copynumber: 3.5 Consensus size: 31
71761845 CGTTTACAGT
*
71761855 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
71761886 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
71761917 AAAGGCTTCGACCTAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
71761948 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
71761963 ATATATGTCA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:71764455 original size:20 final size:20
Alignment explanation
Indices: 71764430--71764470 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
71764420 ACCGTGTGAT
71764430 TACTCAGGCTCATTTTGAAA
1 TACTCAGGCTCATTTTGAAA
71764450 TACTCAGGCTCATTTTGAAA
1 TACTCAGGCTCATTTTGAAA
71764470 T
1 T
71764471 GACCCTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (20 bp):
TACTCAGGCTCATTTTGAAA
Found at i:71765578 original size:43 final size:41
Alignment explanation
Indices: 71765520--71765622 Score: 125
Period size: 44 Copynumber: 2.4 Consensus size: 41
71765510 TCCTAAACAG
** * *
71765520 GGTCTTACAGGAAATCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACAAAATCAAAT-CGATGCCAACGTCCCAGACAT
*
71765562 GGTCTTACACATAAATCTCAAATCGATGCCAACGTCCCAGACGT
1 GGTCTTACACA-AAA--TCAAATCGATGCCAACGTCCCAGACAT
71765606 GGTCTTACACAAAATCA
1 GGTCTTACACAAAATCA
71765623 TATATCGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
41 3 0.06
42 9 0.17
43 6 0.11
44 29 0.55
45 6 0.11
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (41 bp):
GGTCTTACACAAAATCAAATCGATGCCAACGTCCCAGACAT
Found at i:71765599 original size:44 final size:44
Alignment explanation
Indices: 71765534--71765621 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
71765524 TTACAGGAAA
* *
71765534 TCAAATACGATGCCGATGTCCCAGACATGGTCTTACACATAAATC
1 TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACA-AAATC
*
71765579 TCAAAT-CGATGCCAACGTCCCAGACGTGGTCTTACACAAAATC
1 TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACAAAATC
71765622 ATATATCGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 5 0.12
44 29 0.73
45 6 0.15
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (44 bp):
TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACAAAATC
Found at i:71767148 original size:68 final size:68
Alignment explanation
Indices: 71767000--71767157 Score: 162
Period size: 68 Copynumber: 2.3 Consensus size: 68
71766990 CTAGTCGATT
* * * *
71767000 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
71767065 TTTA
65 TTTA
* * *
71767069 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
71767131 CATTATA
63 CATT-TA
71767138 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
71767158 ACACATGATG
Statistics
Matches: 75, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
67 1 0.01
68 36 0.48
69 6 0.08
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
TTA
Found at i:71769993 original size:40 final size:44
Alignment explanation
Indices: 71769902--71769998 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 44
71769892 ACAATTTCGT
* *
71769902 ACACTTAGTGCCATCTCAATTAACCGAAGCTATCTCGGTATCGC
1 ACACTTAGTGCCATCACAATTAACCGAAGCTATCTCGGAATCGC
**
71769946 ACACTTAGTGCC-TCAC-A-TAACCGAAGCTAT-TTTGAATCGC
1 ACACTTAGTGCCATCACAATTAACCGAAGCTATCTCGGAATCGC
71769986 ACACTTAGTGCCA
1 ACACTTAGTGCCA
71769999 AATACACTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
40 19 0.40
41 13 0.27
42 1 0.02
43 3 0.06
44 12 0.25
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (44 bp):
ACACTTAGTGCCATCACAATTAACCGAAGCTATCTCGGAATCGC
Found at i:71773089 original size:22 final size:23
Alignment explanation
Indices: 71773064--71773122 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
71773054 CAACCAAATC
71773064 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
71773086 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
71773109 ACA-TCATCACATAT
1 A-ATTCAT-ACATAT
71773123 CTAAAACCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 6 0.19
23 18 0.58
24 7 0.23
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:71780830 original size:22 final size:23
Alignment explanation
Indices: 71780805--71780850 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
71780795 CAACCAAATC
71780805 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
71780827 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
71780850 A
1 A
71780851 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:71780856 original size:23 final size:23
Alignment explanation
Indices: 71780812--71780856 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71780802 ATCAATTCAA
*
71780812 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
71780835 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
71780857 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:71784410 original size:33 final size:34
Alignment explanation
Indices: 71784339--71784420 Score: 98
Period size: 33 Copynumber: 2.4 Consensus size: 34
71784329 TTAGGGCCAT
*
71784339 AGCCCATTTCAGAATTAGAAATAGTGTGGGCCTG
1 AGCCCATTTCAGAATTAGAAATAGTGTGGGCCTA
*
71784373 AGCCCATTTCAGTAA-TAG-TATCAGTG-GGGCCTA
1 AGCCCATTTCAG-AATTAGAAAT-AGTGTGGGCCTA
*
71784406 AGCCCATTACAGAAT
1 AGCCCATTTCAGAAT
71784421 CAATACAGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 2 0.05
33 19 0.45
34 19 0.45
35 2 0.05
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (34 bp):
AGCCCATTTCAGAATTAGAAATAGTGTGGGCCTA
Found at i:71796246 original size:16 final size:16
Alignment explanation
Indices: 71796227--71796258 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
71796217 AATTGTTTTA
71796227 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
71796243 TTACACAATTTCACTT
1 TTACAAAATTTCACTT
71796259 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:71796533 original size:50 final size:50
Alignment explanation
Indices: 71796467--71796587 Score: 154
Period size: 50 Copynumber: 2.4 Consensus size: 50
71796457 CTCTGGTGCG
* * * *
71796467 CATAGTAGCCTCCACTTAGTACTACACATGA-GACCTATCAATCTGGTACA
1 CATAGTAGCCTACACTTAGTACTACACA-CATGACCTAACAATCTGATACA
* * *
71796517 CGTAGTAGCCTACACTTAGTACTACACACATGACTTAACCATCTGATACA
1 CATAGTAGCCTACACTTAGTACTACACACATGACCTAACAATCTGATACA
*
71796567 CATAGTAGCCTGCACTTAGTA
1 CATAGTAGCCTACACTTAGTA
71796588 TGTGACAGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
49 1 0.02
50 60 0.98
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTACACTTAGTACTACACACATGACCTAACAATCTGATACA
Found at i:71798446 original size:40 final size:40
Alignment explanation
Indices: 71798391--71798598 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
71798381 TGAATGATAC
* * *
71798391 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
71798431 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
71798471 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
71798511 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
71798551 CCGGGCTAAGAACCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
71798591 CC-GGCTAA
1 CCGGGCTAA
71798599 ATTCCGAAGA
Statistics
Matches: 157, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 6 0.04
40 149 0.95
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:71805305 original size:40 final size:39
Alignment explanation
Indices: 71805245--71805448 Score: 178
Period size: 40 Copynumber: 5.1 Consensus size: 39
71805235 CAGAATTTAA
* ** *
71805245 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAA-TGCCTTCGGGTCTTAGC
* *** *
71805285 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGC
71805325 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGC
* * * * *
71805365 CCGAATATAATC-ACTAGGATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAGC
* * *
71805405 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAGC
71805445 CCGG
1 CCGG
71805449 GTATCATTCA
Statistics
Matches: 140, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
40 137 0.98
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGC
Found at i:71817980 original size:29 final size:29
Alignment explanation
Indices: 71817948--71818106 Score: 223
Period size: 29 Copynumber: 5.5 Consensus size: 29
71817938 TGAATCCGCA
71817948 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71817977 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71818006 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
71818035 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
* * * * *
71818063 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
71818093 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71818107 CAATCTTGTC
Statistics
Matches: 119, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
27 2 0.02
28 20 0.17
29 79 0.66
30 17 0.14
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:71825822 original size:28 final size:28
Alignment explanation
Indices: 71825755--71825826 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
71825745 ATAGTGAATC
* *
71825755 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATA-TATCAACT
71825784 CGCACACTTAGTGCTATATA-ATCAAACT
1 CGCACACTTAGTGCTATATATATC-AACT
71825812 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71825827 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATATATCAACT
Found at i:71831021 original size:25 final size:25
Alignment explanation
Indices: 71830991--71831075 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
71830981 ATATGCTCTC
*
71830991 ACGAGCTGTGAATCGGTAAGCTCAT
1 ACGAGCTGTGAATCGGGAAGCTCAT
* ** * *
71831016 AAGAGCTGCAAATTGGGAATCTCAT
1 ACGAGCTGTGAATCGGGAAGCTCAT
* * *
71831041 ACGACCTGTCAATCGGGAAGCTTAT
1 ACGAGCTGTGAATCGGGAAGCTCAT
71831066 ACGAGCTGTG
1 ACGAGCTGTG
71831076 GTGTGTCTGC
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (25 bp):
ACGAGCTGTGAATCGGGAAGCTCAT
Found at i:71832839 original size:39 final size:39
Alignment explanation
Indices: 71832774--71833029 Score: 336
Period size: 39 Copynumber: 6.6 Consensus size: 39
71832764 TTCCAACCCA
* * *
71832774 AATGCCTTCGGAACTTAGCCCAGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
71832813 AATGCCTTCGGGACTTTGCCCGGATATAATATCAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
71832852 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGTACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * * *
71832891 AATGCCTTTGGGACTTAACCCAGATACAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
71832930 AATGCATTCGGGACTTAGCCCGGATATAATATCAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
71832969 AATGCCTTCGGGACTTAGCCCGGATATAAATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATAT-AATATCAGCACG
* * *
71833007 AAGGCCTGCGGGTCTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
71833030 TTAAAATCCT
Statistics
Matches: 190, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
38 20 0.11
39 164 0.86
40 6 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:71832980 original size:117 final size:117
Alignment explanation
Indices: 71832774--71832997 Score: 385
Period size: 117 Copynumber: 1.9 Consensus size: 117
71832764 TTCCAACCCA
* * * *
71832774 AATGCCTTCGGAACTTAGCCCAGATATAACATCAGCACGAATGCCTTCGGGACTTTGCCCGGATA
1 AATGCCTTCGGAACTTAACCCAGATACAACATCAGCACGAATGCATTCGGGACTTAGCCCGGATA
71832839 TAATATCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCAGTACG
66 TAATATCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCAGTACG
* * *
71832891 AATGCCTTTGGGACTTAACCCAGATACAATATCAGCACGAATGCATTCGGGACTTAGCCCGGATA
1 AATGCCTTCGGAACTTAACCCAGATACAACATCAGCACGAATGCATTCGGGACTTAGCCCGGATA
71832956 TAATATCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
66 TAATATCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
71832998 ATCTCACACA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 100 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (117 bp):
AATGCCTTCGGAACTTAACCCAGATACAACATCAGCACGAATGCATTCGGGACTTAGCCCGGATA
TAATATCAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATACCAGTACG
Found at i:71835328 original size:27 final size:27
Alignment explanation
Indices: 71835296--71835695 Score: 502
Period size: 27 Copynumber: 14.9 Consensus size: 27
71835286 CTCCCGATTT
71835296 GAATTACCGTTTTACCCTCGATTTACA
1 GAATTACCGTTTTACCCTCGATTTACA
* * *
71835323 GAATTACCATTTTACCCTCAATTTATA
1 GAATTACCGTTTTACCCTCGATTTACA
* *
71835350 GAATTACTGTTTTACCCTCGATTTATA
1 GAATTACCGTTTTACCCTCGATTTACA
71835377 GAATTACCGTTTTACCCTC-AGTTTACA
1 GAATTACCGTTTTACCCTCGA-TTTACA
*** *
71835404 GAATTATTATTTT-CCCTCGATTTATA
1 GAATTACCGTTTTACCCTCGATTTACA
**
71835430 GAATTACCGTTTTACCCTCGATTTGTA
1 GAATTACCGTTTTACCCTCGATTTACA
* *
71835457 AAATTACCGTTTTACCCTCGACTTACA
1 GAATTACCGTTTTACCCTCGATTTACA
*
71835484 GAATTACCGTTTTACCCTC-AGTTTATA
1 GAATTACCGTTTTACCCTCGA-TTTACA
*
71835511 GAATTACCATTTTACCCTCGATTTACA
1 GAATTACCGTTTTACCCTCGATTTACA
71835538 GAATTACCGTTTTACCCTC-AGTTTACA
1 GAATTACCGTTTTACCCTCGA-TTTACA
* *
71835565 GAATTACTGTTTTGCCCTCGATTTACA
1 GAATTACCGTTTTACCCTCGATTTACA
* * **
71835592 GAATTATCATTTTACCCTCGATTTGTA
1 GAATTACCGTTTTACCCTCGATTTACA
* *
71835619 AAATTACCGTTTTACCCTTGATTTACA
1 GAATTACCGTTTTACCCTCGATTTACA
* * * *
71835646 AAATTACTGGTTTACCCTCGATTTATA
1 GAATTACCGTTTTACCCTCGATTTACA
71835673 GAATTACCGTTTTACCCTCGATT
1 GAATTACCGTTTTACCCTCGATT
71835696 GTGAAATTAC
Statistics
Matches: 319, Mismatches: 47, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.07
27 294 0.92
28 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
GAATTACCGTTTTACCCTCGATTTACA
Found at i:71835402 original size:81 final size:81
Alignment explanation
Indices: 71835296--71835695 Score: 556
Period size: 81 Copynumber: 5.0 Consensus size: 81
71835286 CTCCCGATTT
** * *
71835296 GAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACTGTT
1 GAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTT
71835361 TTACCCTCGATTTATA
66 TTACCCTCGATTTATA
* *
71835377 GAATTACCGTTTTACCCTC-AGTTTACAGAATTATTATTTT-CCCTCGATTTATAGAATTACCGT
1 GAATTACCGTTTTACCCTCGA-TTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGT
*
71835440 TTTACCCTCGATTTGTA
65 TTTACCCTCGATTTATA
* * * *
71835457 AAATTACCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACCAT
1 GAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGA-TTTATAGAATTACCGT
*
71835521 TTTACCCTCGATTTACA
65 TTTACCCTCGATTTATA
* * * *
71835538 GAATTACCGTTTTACCCTC-AGTTTACAGAATTACTGTTTTGCCCTCGATTTACAGAATTATCAT
1 GAATTACCGTTTTACCCTCGA-TTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGT
*
71835602 TTTACCCTCGATTTGTA
65 TTTACCCTCGATTTATA
* * * *
71835619 AAATTACCGTTTTACCCTTGATTTACAAAATTACTGGTTTACCCTCGATTTATAGAATTACCGTT
1 GAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTT
71835684 TTACCCTCGATT
66 TTACCCTCGATT
71835696 GTGAAATTAC
Statistics
Matches: 283, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
80 73 0.26
81 208 0.73
82 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (81 bp):
GAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTT
TTACCCTCGATTTATA
Found at i:71835768 original size:54 final size:54
Alignment explanation
Indices: 71835700--71835895 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
71835690 TCGATTGTGA
* * * *
71835700 AATTACTGAAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
71835754 AATTACTGAAATACCCTTATAGGATAGAATTACCGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
71835808 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
71835862 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
71835896 ATTTTGCCCC
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:71835895 original size:27 final size:27
Alignment explanation
Indices: 71835700--71835895 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
71835690 TCGATTGTGA
* *
71835700 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
71835727 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
71835754 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
71835781 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
71835808 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
71835835 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
71835862 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
71835889 AATTACC
1 AATTACC
71835896 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:71836132 original size:27 final size:26
Alignment explanation
Indices: 71836094--71836176 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
71836084 TGGAGGAAGC
*
71836094 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
71836121 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
71836147 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
71836174 GTT
1 GTT
71836177 GATCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:71836527 original size:27 final size:27
Alignment explanation
Indices: 71836479--71836536 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
71836469 TATTCTGTTA
* *
71836479 GGTGGGTTTGCCACATTATCTG-ATTCT
1 GGTGGCTTTGCCACAATATCTGTA-TCT
*
71836506 GGTGGCTTTGCCACAATGTCTGTATCT
1 GGTGGCTTTGCCACAATATCTGTATCT
71836533 GGTG
1 GGTG
71836537 ACTCTGTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.38
Consensus pattern (27 bp):
GGTGGCTTTGCCACAATATCTGTATCT
Found at i:71836693 original size:6 final size:6
Alignment explanation
Indices: 71836684--71836870 Score: 165
Period size: 6 Copynumber: 30.8 Consensus size: 6
71836674 TCACATTCAC
* *
71836684 ATTCTG ATTCTG ATTCT- ATCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
71836733 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
71836781 ATTCTG -TCACCTA ATTTTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
71836830 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
71836871 CATTTTGGTT
Statistics
Matches: 150, Mismatches: 13, Indels: 36
0.75 0.07 0.18
Matches are distributed among these distances:
5 13 0.09
6 122 0.81
7 10 0.07
8 5 0.03
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:71836747 original size:30 final size:29
Alignment explanation
Indices: 71836684--71836870 Score: 240
Period size: 30 Copynumber: 6.4 Consensus size: 29
71836674 TCACATTCAC
* *
71836684 ATTCTGATTCTGATTCTATCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATT-TG
71836715 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAAT-TTG
71836745 ATTCTGATTCTGATTCTGTTAC-----TG
1 ATTCTGATTCTGATTCTGTTACTAATTTG
*
71836769 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTA-CTAA-TTTG
71836800 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAAT-TTG
*
71836830 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATT-TG
71836860 ATTCTGATTCT
1 ATTCTGATTCT
71836871 CATTTTGGTT
Statistics
Matches: 141, Mismatches: 5, Indels: 21
0.84 0.03 0.13
Matches are distributed among these distances:
24 22 0.16
25 1 0.01
29 2 0.01
30 74 0.52
31 42 0.30
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (29 bp):
ATTCTGATTCTGATTCTGTTACTAATTTG
Found at i:71836824 original size:85 final size:85
Alignment explanation
Indices: 71836684--71836870 Score: 356
Period size: 85 Copynumber: 2.2 Consensus size: 85
71836674 TCACATTCAC
71836684 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
71836749 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* *
71836769 ATTCTGATTCTGATTCTGTCACCTAATTTTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
71836834 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
71836854 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
71836871 CATTTTGGTT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
TGATTCTGATTCTGTTACTG
Found at i:71836888 original size:30 final size:30
Alignment explanation
Indices: 71836684--71836891 Score: 218
Period size: 30 Copynumber: 7.1 Consensus size: 30
71836674 TCACATTCAC
* *
71836684 ATTCTGATTCTGATTCTATCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
*
71836715 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
71836745 ATTCTGATTCTGATTCTGTT----A--CTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
71836769 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
*
71836800 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
**
71836830 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
71836860 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTCT-GTTACCAATTCTG
71836890 AT
1 AT
71836892 AATGTTTCTT
Statistics
Matches: 153, Mismatches: 12, Indels: 25
0.81 0.06 0.13
Matches are distributed among these distances:
24 21 0.14
26 1 0.01
29 2 0.01
30 81 0.53
31 48 0.31
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:71839586 original size:6 final size:6
Alignment explanation
Indices: 71839577--71839636 Score: 86
Period size: 6 Copynumber: 9.8 Consensus size: 6
71839567 AATGAAAATG
*
71839577 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
71839626 AGAATC AGAAT
1 AGAATC AGAAT
71839637 GTGAATGCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
5 1 0.02
6 44 0.90
7 3 0.06
8 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:71839823 original size:26 final size:26
Alignment explanation
Indices: 71839756--71839834 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 26
71839746 CATGGCCGCC
* * *
71839756 AGAACAGATATTGTGACAGAGTCACC
1 AGAACAGATATTGTGGCAGAGCCACT
71839782 AGATACAGATATTGTGGCAGAGCCACT
1 AGA-ACAGATATTGTGGCAGAGCCACT
* *
71839809 AGAACAGATAATGTGGCAAAGCCACT
1 AGAACAGATATTGTGGCAGAGCCACT
71839835 TAACATAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 24 0.51
27 23 0.49
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAGAGCCACT
Found at i:71840020 original size:22 final size:23
Alignment explanation
Indices: 71839992--71840053 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
71839982 GCAAATACGT
*
71839992 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACAAAGCCATAATGCAGG
* *
71840014 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGCAGG
*
71840036 TTGGCGCAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
71840054 TAGAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGCAGG
Found at i:71840656 original size:54 final size:54
Alignment explanation
Indices: 71840570--71841661 Score: 707
Period size: 54 Copynumber: 20.1 Consensus size: 54
71840560 GGACAAAATG
* * * * *
71840570 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* ** * * * *
71840624 GTATTTCTACTTTATAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
*
71840678 GTAATTCTACCCTA-TAGGAGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGG-GTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* *
71840731 GATATTTCTACCCTACAAAGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-
1 G-TAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * * * *
71840785 GATAATTCTACCTTACAGGGGTATTTTGGTAATTT-TACCCTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCGGT-ATTTCTACCCTACAAGGGTATTTCA
* * *
71840840 GTATTTCTACCCTACAAGGGTAGTTCGGTATTTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * * * *
71840894 GTAATTCTACCTTATAGGGGTATTTCGGTATTTCTACCCTACTAGGGTATTT-T
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * * * *
71840947 GATATTTTTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* *
71841002 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAAGGTATTT-A
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* *** * ** ***
71841055 GGTAATTCTACCCTACAGGGGTATTTTAATAATTTTGTA-AAT-CGAA-GGTAAAACA
1 -GTAATTCTACCCTACAAGGGTATTTCGGT-A-TTTCTACCCTAC-AAGGGTATTTCA
*** ** ** *
71841110 GTAATTCTA-TAAATCGGGGGTACTTT-GGTAATTT-TACAAGT-CGAGGGTATTTCA
1 GTAATTCTACCCTA-CAAGGGTA-TTTCGGT-ATTTCTAC-CCTACAAGGGTATTTCA
** ** * * ** **
71841164 ACAATT-T-CACAAATCAGGGGTATTTTGGTAATTT-TA-CAAACTAAGGGTATTTTG
1 GTAATTCTAC-CCTA-CAAGGGTATTTCGGT-ATTTCTACCCTAC-AAGGGTATTTCA
* ** * * * ** * **
71841218 GTAATTTTA-CAAACCAGGGGTATTTTGGTATTTTTA-CAAACTAGGGGTATTTTG
1 GTAATTCTACCCTA-CAAGGGTATTTCGGTATTTCTACCCTAC-AAGGGTATTTCA
* * ** ** * *
71841272 GTGATTTGGTAAACTA-AAGTATTCTAAATAGGGGTATTTCGATATTTCTACCCTACAGGGGTAT
1 GT-AATT-CTACCCTACAAG---GGT--AT-----T-T--CGGTATTTCTACCCTACAAGGGTAT
71841336 TTCA
51 TTCA
* *
71841340 GTAATTCTACCCTATAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * ** ** * *
71841394 GTATTTTTACCCTACAACAGTATTTTAGTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
*
71841448 GTAATTCTATCCTAC-AGTGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAG-GGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
*
71841501 -T-A---T--CCTACAAGGGTATTTCTGTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
* * ** * * *
71841547 GATATTTCTACCTTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
*
71841602 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC-AGGTGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGG-GTATTTCA
*
71841656 ATAATT
1 GTAATT
71841662 TTGTAAATTG
Statistics
Matches: 838, Mismatches: 144, Indels: 112
0.77 0.13 0.10
Matches are distributed among these distances:
46 39 0.05
47 2 0.00
48 2 0.00
51 1 0.00
52 4 0.00
53 27 0.03
54 688 0.82
55 23 0.03
56 8 0.01
57 2 0.00
58 1 0.00
60 2 0.00
62 2 0.00
64 1 0.00
65 1 0.00
66 6 0.01
67 6 0.01
68 20 0.02
69 3 0.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCA
Found at i:71841087 original size:27 final size:27
Alignment explanation
Indices: 71840569--71841654 Score: 596
Period size: 27 Copynumber: 40.0 Consensus size: 27
71840559 GGGACAAAAT
* * * *
71840569 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71840596 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * ** * *
71840623 AGTATTTCTACTTTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71840650 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71840677 AGTAATTCTACCCTATAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71840704 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
71840731 GATATTTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71840758 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71840785 GATAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71840812 GGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
71840839 AGTATTTCTACCCTACAAGGGTAGTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71840866 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71840893 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71840920 GGTATTTCTACCCTACTA-GGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* * * * *
71840947 GATATTTTTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71840974 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71841001 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
71841028 GGTATTTCTACCCTACAAAGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71841055 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** ** * * ***
71841082 AATAATT-T--TGTAAATCGAAGGTAAAAC
1 GGTAATTCTACCCTACA--G-GGGTATTTC
* *** *
71841109 AGTAATTCTA-TAAATCGGGGGTACTTT-
1 GGTAATTCTACCCTA-CAGGGGTA-TTTC
* **
71841136 GGTAATTTTACAAGT-C-GAGGGTATTTC
1 GGTAATTCTAC-CCTACAG-GGGTATTTC
*** ** *
71841163 AACAATT-T-CACAAATCAGGGGTATTTT
1 GGTAATTCTAC-CCTA-CAGGGGTATTTC
* * *
71841190 GGTAATTTTACAAACTA-A-GGGTATTTT
1 GGTAATTCTAC--CCTACAGGGGTATTTC
* ** *
71841217 GGTAATTTTA-CAAACCAGGGGTATTTT
1 GGTAATTCTACCCTA-CAGGGGTATTTC
* * ** *
71841244 GGTATTTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* * ** * *** ***
71841271 GGTGATTTGGTAAACTAAAGTATTCTAAATAGG
1 GGT-AATT-CTACCCTACAG--GGGT--ATTTC
* **
71841304 GGTATTTCGATATTTCTACCCTACAGGGGTATTTC
1 GGTAATTC--TA-CCCTAC-----AGGGGTATTTC
* * *
71841339 AGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71841366 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *** *
71841393 GGTATTTTTACCCTACAACAGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71841420 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71841447 GGTAATTCTATCCTACAGTGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71841474 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71841501 --T-A---T--CCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71841520 TGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
71841547 GATATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
71841574 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71841601 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71841628 GGTAATTCTACCCTACAGGTGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71841655 AATAATTTTG
Statistics
Matches: 829, Mismatches: 184, Indels: 92
0.75 0.17 0.08
Matches are distributed among these distances:
19 16 0.02
21 2 0.00
24 4 0.00
25 4 0.00
26 10 0.01
27 742 0.90
28 10 0.01
29 7 0.01
30 3 0.00
31 1 0.00
32 7 0.01
33 9 0.01
34 3 0.00
35 8 0.01
37 1 0.00
39 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:71841445 original size:46 final size:45
Alignment explanation
Indices: 71841393--71841545 Score: 135
Period size: 46 Copynumber: 3.2 Consensus size: 45
71841383 AGGGTATTTC
* * *
71841393 GGTATTTTTACCCTACAACAGTATTTTAGTAATTCTACCCTACAAG
1 GGTATTTTTATCCTACAACGGTATTTT-GTATTTCTACCCTACAAG
** *
71841439 GGTATTTCGGTAATTCTATCCTACAGTGGTATTTCGGTATTTCTACCCTACAAG
1 GGTA--T---T--TT-TATCCTACAACGGTATTT-TGTATTTCTACCCTACAAG
* *
71841493 GGTATTTCTATCCTACAAGGGTATTTCTGTATTTCTACCCTACAAG
1 GGTATTTTTATCCTACAACGGTATTT-TGTATTTCTACCCTACAAG
71841539 GGTATTT
1 GGTATTT
71841546 CGATATTTCT
Statistics
Matches: 88, Mismatches: 10, Indels: 18
0.76 0.09 0.16
Matches are distributed among these distances:
46 46 0.52
47 1 0.01
48 1 0.01
49 1 0.01
51 1 0.01
52 1 0.01
53 2 0.02
54 35 0.40
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
GGTATTTTTATCCTACAACGGTATTTTGTATTTCTACCCTACAAG
Found at i:71841498 original size:19 final size:19
Alignment explanation
Indices: 71841474--71841520 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
71841464 GTGGTATTTC
71841474 GGTATTTCTACCCTACAAG
1 GGTATTTCTACCCTACAAG
*
71841493 GGTATTTCTATCCTACAAG
1 GGTATTTCTACCCTACAAG
71841512 GGTATTTCT
1 GGTATTTCT
71841521 GTATTTCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (19 bp):
GGTATTTCTACCCTACAAG
Found at i:71841508 original size:73 final size:73
Alignment explanation
Indices: 71841425--71841654 Score: 275
Period size: 73 Copynumber: 3.0 Consensus size: 73
71841415 ATTTTAGTAA
* * *
71841425 TTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTAC-AGTGGTATTTCGGTATTTCTACCCTA
1 TTCTATCCTACAAGGGTATTTCAGTAATTCTACCCTACAAG-GGTATTTCGGTATTTCTACCCTA
71841489 CAAGGGTAT
65 CAAGGGTAT
* * * *
71841498 TTCTATCCTACAAGGGTATTTCTGTATTTCTACCCTACAAGGGTATTTCGATATTTCTACCTTAC
1 TTCTATCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTAC
71841563 AAGGGTAT
66 AAGGGTAT
* *
71841571 TTCAATAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTC
1 TTC--T-ATCCTA--C-A-A-GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTATTTC
71841636 TACCCTAC-AGGTGTAT
58 TACCCTACAAGG-GTAT
71841652 TTC
1 TTC
71841655 AATAATTTTG
Statistics
Matches: 135, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
73 67 0.50
74 2 0.01
75 1 0.01
76 5 0.04
78 1 0.01
79 1 0.01
80 4 0.03
81 54 0.40
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (73 bp):
TTCTATCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTAC
AAGGGTAT
Found at i:71841544 original size:127 final size:127
Alignment explanation
Indices: 71841303--71841627 Score: 400
Period size: 127 Copynumber: 2.5 Consensus size: 127
71841293 TTCTAAATAG
* * *
71841303 GGGTATTTCGATATTTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCGG
1 GGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAA--G------GG
*
71841368 TATTTCTACCCTACAAGGGTATTTCGGTATTTTTACCCTACAACAGTATTTTAG-TAATTCTACC
58 TATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAACAGTA-TTTAGATAATTCTACC
71841432 CTACAA
122 CTACAA
** * * * *
71841438 GGGTATTTCGGTAATTCTATCCTACAGTGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCTA
1 GGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCTA
* * ** * * *
71841503 TCCTACAAGGGTATTTCTGTATTTCTACCCTACAAGGGTATTTCGATATTTCTACCTTACAA
66 CCCTACAAGGGTATTTCGGTATTTCTACCCTACAACAGTATTTAGATAATTCTACCCTACAA
*
71841565 GGGTATTTCAATAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
1 GGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
71841628 GGTAATTCTA
Statistics
Matches: 167, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
126 4 0.02
127 115 0.69
133 1 0.01
135 47 0.28
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (127 bp):
GGGTATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCTA
CCCTACAAGGGTATTTCGGTATTTCTACCCTACAACAGTATTTAGATAATTCTACCCTACAA
Found at i:71841546 original size:46 final size:46
Alignment explanation
Indices: 71841447--71841546 Score: 166
Period size: 46 Copynumber: 2.2 Consensus size: 46
71841437 AGGGTATTTC
*
71841447 GGTAATTCTATCCTACAGTGGTATTTCGGTATTTCTACCCTACAAG
1 GGTATTTCTATCCTACAGTGGTATTTCGGTATTTCTACCCTACAAG
*
71841493 GGTATTTCTATCCTACAAG-GGTATTTCTGTATTTCTACCCTACAAG
1 GGTATTTCTATCCTAC-AGTGGTATTTCGGTATTTCTACCCTACAAG
71841539 GGTATTTC
1 GGTATTTC
71841547 GATATTTCTA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
46 49 0.96
47 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (46 bp):
GGTATTTCTATCCTACAGTGGTATTTCGGTATTTCTACCCTACAAG
Found at i:71841685 original size:81 final size:81
Alignment explanation
Indices: 71841525--71841691 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 81
71841515 ATTTCTGTAT
* * **
71841525 TTCTACCCTACAAGGGTATTTCGATATTTCTACCTTACAAGGGTATTTCAATAATTCTACCCTAT
1 TTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAATAATTCTACCAAAT
***
71841590 AGGGGTATTTCAGTAA
66 AGGGGTAAAACAGTAA
* ***
71841606 TTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC-AGGTGTATTTCAATAATT-TTGTAAA
1 TTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGG-GTATTTCAATAATTCTACCAAA
*
71841669 TTGAGGGTAAAACAGTAA
65 TAG-GGGTAAAACAGTAA
71841687 TTCTA
1 TTCTA
71841692 TAAATCGAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
80 7 0.10
81 65 0.90
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (81 bp):
TTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAATAATTCTACCAAAT
AGGGGTAAAACAGTAA
Found at i:71841758 original size:27 final size:27
Alignment explanation
Indices: 71841706--71841904 Score: 229
Period size: 27 Copynumber: 7.4 Consensus size: 27
71841696 TCGAGGGTGC
** *
71841706 TTTGGTAATTTTACAAGTCGAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
** * * *
71841733 TTCAGTAATTTTGCAAACTAAAGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
* * ** *
71841760 TTCGGTAATTTCACAAATTAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
71841787 TTTGGTAATTTTACAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
*
71841814 TTTGGTAA-TTTACAAACCAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
**
71841840 TTTGGTAATTTTGTAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
*
71841867 TTTGGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTACAAACCAAGGGTAT
*
71841894 TTTGGTGATTT
1 TTTGGTAATTT
71841905 GGTAAACTAA
Statistics
Matches: 144, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 25 0.17
27 119 0.83
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
TTTGGTAATTTTACAAACCAAGGGTAT
Found at i:71841911 original size:54 final size:54
Alignment explanation
Indices: 71841706--71841904 Score: 258
Period size: 54 Copynumber: 3.7 Consensus size: 54
71841696 TCGAGGGTGC
** ** * *
71841706 TTTGGTAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTGCAAACTAAAGGTAT
1 TTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTGCAAACCAAGGGTAT
* * ** *
71841760 TTCGGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCAAACCAAGGGTAT
*
71841814 TTTGGTAA-TTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCAAACCAAGGGTAT
*
71841867 TTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTT
1 TTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
71841905 GGTAAACTAA
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 48 0.38
54 78 0.61
55 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (54 bp):
TTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCAAACCAAGGGTAT
Found at i:71843936 original size:25 final size:25
Alignment explanation
Indices: 71843900--71843962 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
71843890 AATGAAAATA
* * *
71843900 AGAATCAAAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGATAAC
* *
71843925 AGAATTAGAATCAGTATCAGATAAC
1 AGAATCAGAATCAGAATCAGATAAC
71843950 AGAATCAGAATCA
1 AGAATCAGAATCA
71843963 AAATGTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGATAAC
Found at i:71845905 original size:68 final size:66
Alignment explanation
Indices: 71845833--71846004 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
71845823 CATCATGTGT
* * * *
71845833 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
71845896 TGTAG
62 TGTAG
** * *
71845901 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
71845966 AG
65 AG
* * * *
71845968 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
71846005 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:71845938 original size:64 final size:64
Alignment explanation
Indices: 71845857--71846040 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
71845847 AGACATTATG
* * *
71845857 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
71845921 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
71845986 AA
63 AA
* * *
71845988 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
71846041 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:71847126 original size:2 final size:2
Alignment explanation
Indices: 71847121--71847151 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
71847111 TCATGACATG
71847121 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
71847152 GACTAGTCTC
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:71850547 original size:28 final size:28
Alignment explanation
Indices: 71850486--71850583 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
71850476 TCACAAATTG
** * *
71850486 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
71850515 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
71850543 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
71850571 GCACTAAGTGTGC
1 GCACTAAGTGTGC
71850584 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:71854797 original size:32 final size:32
Alignment explanation
Indices: 71854761--71854825 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
71854751 CTTTTACATA
71854761 TTTCATATTGCATAACACTGGGCCGAAGCCTT
1 TTTCATATTGCATAACACTGGGCCGAAGCCTT
* **
71854793 TTTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTTCATATTGCATAACACTGGGCCGAAGCCTT
71854825 T
1 T
71854826 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (32 bp):
TTTCATATTGCATAACACTGGGCCGAAGCCTT
Found at i:71856772 original size:40 final size:39
Alignment explanation
Indices: 71856706--71856855 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
71856696 AAATTGAATG
* * *
71856706 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
71856745 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
71856785 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
*
71856825 CTATCCGGGCTAAGACCCGAAGGC-ATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
71856856 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 20 0.22
40 73 0.78
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:71858381 original size:9 final size:9
Alignment explanation
Indices: 71858367--71858443 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
71858357 ACATCATGTG
71858367 CATATCATA
1 CATATCATA
*
71858376 CATATCATGTG
1 CATATCA--TA
*
71858387 CATATCGTA
1 CATATCATA
*
71858396 CATATCATGTG
1 CATATCA--TA
71858407 CATATCATA
1 CATATCATA
*
71858416 CATATCATGTG
1 CATATCA--TA
71858427 CATATCATA
1 CATATCATA
71858436 CATATCAT
1 CATATCAT
71858444 GTGCATATCA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:71858384 original size:20 final size:20
Alignment explanation
Indices: 71858359--71858455 Score: 185
Period size: 20 Copynumber: 4.8 Consensus size: 20
71858349 TTATGAATAC
71858359 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
71858379 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
71858399 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
71858419 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
71858439 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
71858456 TCAATATTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:71858462 original size:11 final size:10
Alignment explanation
Indices: 71858367--71858458 Score: 75
Period size: 11 Copynumber: 9.2 Consensus size: 10
71858357 ACATCATGTG
71858367 CATATCATA-
1 CATATCATAT
*
71858376 CATATCATGT
1 CATATCATAT
*
71858386 GCATATCGTA-
1 -CATATCATAT
*
71858396 CATATCATGT
1 CATATCATAT
71858406 GCATATCATA-
1 -CATATCATAT
*
71858416 CATATCATGT
1 CATATCATAT
71858426 GCATATCATA-
1 -CATATCATAT
*
71858436 CATATCATGT
1 CATATCATAT
71858446 GCATATCATAT
1 -CATATCATAT
71858457 CA
1 CA
71858459 ATATTTTATA
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
9 31 0.48
10 2 0.03
11 32 0.49
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (10 bp):
CATATCATAT
Found at i:71861614 original size:17 final size:17
Alignment explanation
Indices: 71861592--71861625 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71861582 ACAAGACACT
71861592 TATATGCCAACACTGGC
1 TATATGCCAACACTGGC
*
71861609 TATATGCCAACATTGGC
1 TATATGCCAACACTGGC
71861626 CAAATTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (17 bp):
TATATGCCAACACTGGC
Found at i:71863750 original size:40 final size:40
Alignment explanation
Indices: 71863705--71863834 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
71863695 CGGAATATAA
71863705 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
71863745 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
71863785 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
71863825 CCGGATATAA
1 CCGGATATAA
71863835 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:71863849 original size:40 final size:40
Alignment explanation
Indices: 71863721--71863872 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
71863711 ATAAGCATGT
* * *
71863721 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
71863761 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
71863801 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
71863841 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
71863873 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:71863855 original size:80 final size:80
Alignment explanation
Indices: 71863721--71863872 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
71863711 ATAAGCATGT
* *
71863721 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
71863786 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
71863801 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
71863864 CCCGGATAT
64 CCCGGATAT
71863873 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:71868371 original size:29 final size:29
Alignment explanation
Indices: 71868282--71868396 Score: 121
Period size: 28 Copynumber: 4.1 Consensus size: 29
71868272 AGCATGACTG
71868282 TAAATGTGATTTGGGCCTAAT-GGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
* * *
71868310 TGAAGGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
* *
71868339 TAAATGTGA-TTGGGCTTAATGGGTCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
* **
71868367 TTAAA-GAGA-TTGGGCCTGGTGGGCCATA
1 -TAAATGTGATTTGGGCCTAATGGGCCATA
71868395 TA
1 TA
71868397 TAGGTATGTA
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
27 2 0.03
28 53 0.74
29 17 0.24
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (29 bp):
TAAATGTGATTTGGGCCTAATGGGCCATA
Found at i:71868380 original size:56 final size:57
Alignment explanation
Indices: 71868282--71868392 Score: 136
Period size: 56 Copynumber: 2.0 Consensus size: 57
71868272 AGCATGACTG
* *
71868282 TAAATGTGATTTGGGCCTAATGGCCATATGAAGGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACA
* * * **
71868339 TAAATGTGA-TTGGGCTTAATGGGTCATATTAAAGAGA-TTGGGCCTGGTGGGCCA
1 TAAATGTGATTTGGGCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAATGGGCCA
71868393 TATATAGGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
56 25 0.54
57 21 0.46
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.29
Consensus pattern (57 bp):
TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCACA
Found at i:71879557 original size:16 final size:16
Alignment explanation
Indices: 71879538--71879574 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
71879528 TTTCATTAAG
71879538 TTTTTAAGACTCATTT
1 TTTTTAAGACTCATTT
*
71879554 TTTTTAAGATTCATTT
1 TTTTTAAGACTCATTT
*
71879570 GTTTT
1 TTTTT
71879575 CCTTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTTTAAGACTCATTT
Found at i:71882918 original size:47 final size:47
Alignment explanation
Indices: 71882864--71883056 Score: 246
Period size: 47 Copynumber: 4.1 Consensus size: 47
71882854 TTAGGATTTT
* * ** *
71882864 ATGTGATGAATGTGAATATGTATATATGAAATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
71882911 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
71882958 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
71883005 ATGTGATGAATATGAGATATGC--ATACGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
71883051 ATGTGA
1 ATGTGA
71883057 ATATATATAT
Statistics
Matches: 130, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
46 25 0.19
47 101 0.78
48 4 0.03
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:71882964 original size:22 final size:22
Alignment explanation
Indices: 71882936--71883011 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
71882926 ACATGCATAT
71882936 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
71882958 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
71882980 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
71883005 ATGTGAT
1 ATGTGAT
71883012 GAATATGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:71883084 original size:49 final size:46
Alignment explanation
Indices: 71882864--71883097 Score: 213
Period size: 47 Copynumber: 5.0 Consensus size: 46
71882854 TTAGGATTTT
* * * * * *
71882864 ATGTGATGAATGTGA-ATATGTATATATGAAATAAGGCCGAATAGCCA
1 ATGTGATGAATATGAGATATGCATATGTG--GTAAAGCCGAATGGCCA
* * * *
71882911 ATGTGATGAATGTGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAGATATGC--ATATGTGGTAAAGCCGAATGGCCA
* * *
71882958 ATGTGATGAATGTGAG-CATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAGATATGCATATGTG-G-TAAAGCCGAATGGCCA
* *
71883005 ATGTGATGAATATGAGATATGCATACGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATATGAGATATGCATATGTGGTAAAGCCGAATGGCCA
* *
71883051 ATGTGAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 ATGTG-AT-GA-ATATGAGATATGCATATGTGGTAAAGCCGAATGGC
71883098 TAGTGTGAAA
Statistics
Matches: 164, Mismatches: 14, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
45 7 0.04
46 19 0.12
47 89 0.54
48 11 0.07
49 38 0.23
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.27
Consensus pattern (46 bp):
ATGTGATGAATATGAGATATGCATATGTGGTAAAGCCGAATGGCCA
Found at i:71883317 original size:37 final size:37
Alignment explanation
Indices: 71883262--71883373 Score: 172
Period size: 37 Copynumber: 3.0 Consensus size: 37
71883252 AATATATTCC
71883262 GGGTAAGACCCGATGACTATGTGTGGAGATTTTGTCT
1 GGGTAAGACCCGATGACTATGTGTGGAGATTTTGTCT
* *
71883299 GGGTGAGACCCGATGACTATGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTATGTGTGGAGATTTTGTCT
* *
71883336 GGGTAAGACCCGATAACT-TCGTGTGGAGATTTCGTCT
1 GGGTAAGACCCGATGACTAT-GTGTGGAGATTTTGTCT
71883373 G
1 G
71883374 AGCTAAAGGT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 1 0.01
37 67 0.99
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTATGTGTGGAGATTTTGTCT
Found at i:71884673 original size:40 final size:40
Alignment explanation
Indices: 71884614--71884884 Score: 386
Period size: 40 Copynumber: 6.8 Consensus size: 40
71884604 GAGAATTGAG
*
71884614 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
71884654 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * *
71884694 AGTGATATATTCGGGCTAAGTCCCGAAGAGCATTCGTTCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
71884734 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
71884774 AGTGATGTATCC-GAGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGA-CTAAGTCCCGAAGAGCATTCGTGCT
* *
71884814 AGTGATATATCCGTG-CTAA-ACCCGAAGAGTATTCGTGCT
1 AGTGATATATCCG-GACTAAGTCCCGAAGAGCATTCGTGCT
* * *
71884853 AGTGTTATATCCGGGCTATGTCCCGAAGAGCA
1 AGTGATATATCCGGACTAAGTCCCGAAGAGCA
71884885 ATCATGCTGG
Statistics
Matches: 207, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.00
39 34 0.16
40 171 0.83
42 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:71884747 original size:80 final size:80
Alignment explanation
Indices: 71884614--71884884 Score: 429
Period size: 80 Copynumber: 3.4 Consensus size: 80
71884604 GAGAATTGAG
71884614 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
71884679 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* *
71884694 AGTGATATATTCGGGCTAAGTCCCGAAGAGCATTCGTTCTAGTGATGTATCCGGACTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
71884759 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* * * * *
71884774 AGTGATGTATCCGAGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAA-ACCC
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCG-GACTAAGTCCC
*
71884837 GAAGAGTATTCGTGCT
65 GAAGAGCATTCGTGCT
* *
71884853 AGTGTTATATCCGGGCTATGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
71884885 ATCATGCTGG
Statistics
Matches: 175, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
79 45 0.26
80 129 0.74
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
AAGAGCATTCGTGCT
Found at i:71884832 original size:120 final size:119
Alignment explanation
Indices: 71884614--71884884 Score: 427
Period size: 120 Copynumber: 2.3 Consensus size: 119
71884604 GAGAATTGAG
71884614 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
* * *
71884679 AAGAGCATTCGTGCTAGTGATATATTCGGGCTAAGTCCCGAAGAGCATTCGTTCT
66 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAA-ACCCGAAGAGCATTCGTGCT
* * *
71884734 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCC-GAGCTAAGTTCC
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGA-CTAAGTCCC
* *
71884798 GAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCGAAGAGTATTCGTGCT
65 GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCGAAGAGCATTCGTGCT
* *
71884853 AGTGTTATATCCGGGCTATGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
71884885 ATCATGCTGG
Statistics
Matches: 138, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
119 47 0.34
120 91 0.66
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (119 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCCGAAGAGCATTCGTGCT
Found at i:71890429 original size:15 final size:15
Alignment explanation
Indices: 71890390--71890468 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
71890380 GTATCTTGGG
*
71890390 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
71890405 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
71890420 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
71890434 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
71890449 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
71890463 TTTCTT
1 TTTCTT
71890469 GTTCCATAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:71890453 original size:29 final size:29
Alignment explanation
Indices: 71890381--71890467 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
71890371 CATAGTATCG
* * * *
71890381 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
71890411 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
71890440 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
71890468 TGTTCCATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:71897148 original size:47 final size:47
Alignment explanation
Indices: 71897094--71897286 Score: 255
Period size: 47 Copynumber: 4.1 Consensus size: 47
71897084 TTAGGATTTT
* * * *
71897094 ATGTGATGAGTGTGAATATGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
71897141 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
71897188 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
71897235 ATGTGATGAATATGAGATATGC--ATACGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
71897281 ATGTGA
1 ATGTGA
71897287 AATATATAAA
Statistics
Matches: 131, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
46 25 0.19
47 102 0.78
48 4 0.03
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:71897194 original size:22 final size:22
Alignment explanation
Indices: 71897123--71897241 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
71897113 GTATATATGA
71897123 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
71897145 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
71897170 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
71897192 GATGAATGTG-AGCAT-G-CATATGTGT
1 GAT-AA-G-GCCGAATGGCCA-A--TGT
71897217 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
71897239 GAT
1 GAT
71897242 GAATATGAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 20 0.28
23 17 0.24
24 17 0.24
25 17 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:71897317 original size:50 final size:50
Alignment explanation
Indices: 71897246--71897340 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
71897236 TGTGATGAAT
71897246 ATGAGATATGCATACGTGGTAAAGCCGAATGG-TCAATGTGAAATATATAA
1 ATGAGATATGCATACGTGGTAAAGCCGAATGGCT-AATGTGAAATATATAA
* * *
71897296 ATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
1 ATGAGATATGCATACGTGGTAAAGCCGAATGGCTAATGTGAAATA
71897341 CGTAGGCGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 40 0.98
51 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.27
Consensus pattern (50 bp):
ATGAGATATGCATACGTGGTAAAGCCGAATGGCTAATGTGAAATATATAA
Found at i:71897541 original size:37 final size:37
Alignment explanation
Indices: 71897491--71897599 Score: 184
Period size: 37 Copynumber: 2.9 Consensus size: 37
71897481 GGAAATATAT
71897491 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
*
71897528 TCCGGGTGAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
*
71897565 TCCGGGTAAGACCCGATAACT-TCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTAT-GTGTGGAGATTT
71897600 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 1 0.01
37 67 0.99
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.29
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
Found at i:71899608 original size:21 final size:20
Alignment explanation
Indices: 71899570--71899612 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
71899560 TTACTCCAAG
*
71899570 GAAGCCGATTGATCCATCTAA
1 GAAGCCGATTCATCCATC-AA
71899591 GAAGCCGGATTCAT-CATCAA
1 GAAGCC-GATTCATCCATCAA
71899611 GA
1 GA
71899613 CTAAAGATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
GAAGCCGATTCATCCATCAA
Found at i:71900797 original size:16 final size:16
Alignment explanation
Indices: 71900772--71900802 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71900762 GCAAAATCTC
71900772 GAAATACCGAAAAGCT
1 GAAATACCGAAAAGCT
*
71900788 GAAATGCCGAAAAGC
1 GAAATACCGAAAAGC
71900803 CAGAAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.23, T:0.10
Consensus pattern (16 bp):
GAAATACCGAAAAGCT
Done.