Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007909.1 Hibiscus syriacus cultivar Beakdansim tig00110303_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3382237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 17
Found at i:2256070 original size:2 final size:2
Alignment explanation
Indices: 2256063--2256088 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2256053 AATAACATTA
2256063 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2256089 CATTCATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2271026 original size:23 final size:23
Alignment explanation
Indices: 2271000--2271045 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2270990 CACCACAGCT
*
2271000 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
2271023 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
2271046 TATAAGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:2271835 original size:63 final size:63
Alignment explanation
Indices: 2271753--2271891 Score: 206
Period size: 63 Copynumber: 2.2 Consensus size: 63
2271743 CTTAAGGAGG
* * * *
2271753 TGCATTGATGCACTCCTTATGCATCGATGCACTGAGGGCATTCGATGTTCATTTAATTGAAAA
1 TGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCAATTAATTGAAAA
* * **
2271816 TGCATCGATGCAGTCCTTATGCATCGATGCACTGACGACATTCGATGTTCAATTACTTGAGGA
1 TGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCAATTAATTGAAAA
2271879 TGCATCGATGCAC
1 TGCATCGATGCAC
2271892 ATTCATGCAC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (63 bp):
TGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCAATTAATTGAAAA
Found at i:2278382 original size:17 final size:17
Alignment explanation
Indices: 2278362--2278395 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2278352 ATTATTATTA
*
2278362 TTATTAAAATATTGTCT
1 TTATTAAAACATTGTCT
*
2278379 TTATTAACACATTGTCT
1 TTATTAAAACATTGTCT
2278396 GGATTTTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.50
Consensus pattern (17 bp):
TTATTAAAACATTGTCT
Found at i:2278608 original size:38 final size:38
Alignment explanation
Indices: 2278557--2278634 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
2278547 GGTATTTACT
2278557 AGTTTGGTTAGGGTTAGGTTAAACCTATGTATGAGATC
1 AGTTTGGTTAGGGTTAGGTTAAACCTATGTATGAGATC
* *
2278595 AGTTTGGTTAGGGTTAGGTTAAATCTATGTATGATATC
1 AGTTTGGTTAGGGTTAGGTTAAACCTATGTATGAGATC
2278633 AG
1 AG
2278635 CCTCATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.27, C:0.06, G:0.28, T:0.38
Consensus pattern (38 bp):
AGTTTGGTTAGGGTTAGGTTAAACCTATGTATGAGATC
Found at i:2279353 original size:23 final size:23
Alignment explanation
Indices: 2279327--2279371 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2279317 TCAGACTTAA
2279327 CTCGATTAAAGCTCAAACTCAAC
1 CTCGATTAAAGCTCAAACTCAAC
* *
2279350 CTCGGTTCAAGCTCAAACTCAA
1 CTCGATTAAAGCTCAAACTCAA
2279372 ATTTAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.31, G:0.11, T:0.22
Consensus pattern (23 bp):
CTCGATTAAAGCTCAAACTCAAC
Found at i:2279720 original size:23 final size:23
Alignment explanation
Indices: 2279692--2279741 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
2279682 CAATGTGACC
2279692 TTTTAACTAACGGAACTATTATT
1 TTTTAACTAACGGAACTATTATT
2279715 TTTTAACTAACGGAACTATTATT
1 TTTTAACTAACGGAACTATTATT
2279738 TTTT
1 TTTT
2279742 GCTGATGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (23 bp):
TTTTAACTAACGGAACTATTATT
Found at i:2281555 original size:20 final size:19
Alignment explanation
Indices: 2281517--2281556 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2281507 AAAATGTTTT
*
2281517 TATGAATAGTATTATACTG
1 TATGAATAGTATGATACTG
2281536 TATGAATAGTATCGATACTG
1 TATGAATAGTAT-GATACTG
2281556 T
1 T
2281557 GTAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.40
Consensus pattern (19 bp):
TATGAATAGTATGATACTG
Found at i:2281563 original size:20 final size:19
Alignment explanation
Indices: 2281521--2281563 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
2281511 TGTTTTTATG
* *
2281521 AATAGTATTATACTGTATG
1 AATAGTATGATACTGTATA
*
2281540 AATAGTATCGATACTGTGTA
1 AATAGTAT-GATACTGTATA
2281560 AATA
1 AATA
2281564 TTACCGTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (19 bp):
AATAGTATGATACTGTATA
Found at i:2281635 original size:21 final size:21
Alignment explanation
Indices: 2281610--2281653 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
2281600 AATTTAAAAT
*
2281610 GTGTATCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
2281631 GTGTACCGATGCACTGCTACA
1 GTGTACCGATGCACTGCTACA
2281652 GT
1 GT
2281654 AATTTCAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (21 bp):
GTGTACCGATGCACTGCTACA
Found at i:2282221 original size:31 final size:31
Alignment explanation
Indices: 2282186--2282305 Score: 163
Period size: 31 Copynumber: 3.9 Consensus size: 31
2282176 GAATGACCAA
2282186 TCCATATGCTCCGAAGAACATAGGTAATCAG
1 TCCATATGCTCCGAAGAACATAGGTAATCAG
*
2282217 TCCATATGTCTCTG-AGAACATAGGTAATCAG
1 TCCATATG-CTCCGAAGAACATAGGTAATCAG
* * *
2282248 TCAATATG-TCCCGAAGAACATATGTAAACAG
1 TCCATATGCT-CCGAAGAACATAGGTAATCAG
*
2282279 TCCATATGTTCCGAAGAACATAGGTAA
1 TCCATATGCTCCGAAGAACATAGGTAA
2282306 CCCTCAACTC
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
29 1 0.01
30 2 0.03
31 70 0.90
32 5 0.06
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (31 bp):
TCCATATGCTCCGAAGAACATAGGTAATCAG
Found at i:2283399 original size:11 final size:11
Alignment explanation
Indices: 2283383--2283412 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
2283373 TAAAATCAAC
2283383 TAATCAACAAA
1 TAATCAACAAA
2283394 TAATCAACAAA
1 TAATCAACAAA
2283405 TAATCAAC
1 TAATCAAC
2283413 TAACAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (11 bp):
TAATCAACAAA
Found at i:2284159 original size:27 final size:27
Alignment explanation
Indices: 2284118--2284172 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
2284108 TGTATTTTGA
*
2284118 TCTTTTGCTTTGTATGAAACAAGTTGG
1 TCTTTTGCTTTGTATGAAACAAGCTGG
*
2284145 TCTTTTG-TTTAGTATGCAACAAGCTGG
1 TCTTTTGCTTT-GTATGAAACAAGCTGG
2284172 T
1 T
2284173 TGATGAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.44
Consensus pattern (27 bp):
TCTTTTGCTTTGTATGAAACAAGCTGG
Found at i:2284475 original size:28 final size:28
Alignment explanation
Indices: 2284442--2284504 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
2284432 CAAAAATGAC
*
2284442 TAAACA-AAAAACAGTAAATCTAAATGCT
1 TAAACATAAAAACA-TAAACCTAAATGCT
* **
2284470 TAAACATTAACCCATAAACCTAAATGCT
1 TAAACATAAAAACATAAACCTAAATGCT
2284498 TAAACAT
1 TAAACAT
2284505 TTAACCCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (28 bp):
TAAACATAAAAACATAAACCTAAATGCT
Found at i:2284505 original size:28 final size:29
Alignment explanation
Indices: 2284456--2284517 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 29
2284446 CAAAAAACAG
*
2284456 TAAATCTAAATGCTTAAACA-TTAACCCA
1 TAAACCTAAATGCTTAAACATTTAACCCA
2284484 TAAACCTAAATGCTTAAACATTTAACCCA
1 TAAACCTAAATGCTTAAACATTTAACCCA
2284513 TAAAC
1 TAAAC
2284518 ACCAATACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (29 bp):
TAAACCTAAATGCTTAAACATTTAACCCA
Found at i:2284844 original size:11 final size:12
Alignment explanation
Indices: 2284823--2284878 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 12
2284813 GTCTGAGTTA
2284823 TAAATATTATAT
1 TAAATATTATAT
2284835 TAAA-ATTATAT
1 TAAATATTATAT
*
2284846 T-ATTATTATTAT
1 TAAATATTA-TAT
2284858 TACAACTATTATAT
1 TA-AA-TATTATAT
2284872 TATAATA
1 TA-AATA
2284879 CATTATTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 1 0.03
11 12 0.33
12 8 0.22
13 2 0.06
14 8 0.22
15 5 0.14
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAATATTATAT
Found at i:2284851 original size:3 final size:3
Alignment explanation
Indices: 2284839--2284913 Score: 73
Period size: 3 Copynumber: 25.3 Consensus size: 3
2284829 TTATATTAAA
** * * *
2284839 ATT A-T ATT ATT ATT ATT ATT ACA ACT ATT A-T ATT ATA ATAC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
*
2284883 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2284914 ATGTTACATA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.07
3 54 0.90
4 2 0.03
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:2286249 original size:2 final size:2
Alignment explanation
Indices: 2286242--2286278 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2286232 CGTGTATTAC
2286242 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2286279 AATAGGTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2288300 original size:55 final size:55
Alignment explanation
Indices: 2288216--2288357 Score: 194
Period size: 55 Copynumber: 2.6 Consensus size: 55
2288206 ACATTCAAGT
* * * *
2288216 GATTCATGAAAAAGGACGTCCGATGAATGAAGAAATTTGAACCTAATTGAAGAAC
1 GATTCATGAAGAAGGACATCCGATGAATGAAGAAATCTGAAACTAATTGAAGAAC
* * * *
2288271 GATTCATGAAGATGGGCATCCGATGAATGAAGAAATCTGAAACTGATTGAAGACC
1 GATTCATGAAGAAGGACATCCGATGAATGAAGAAATCTGAAACTAATTGAAGAAC
* *
2288326 GATCCATGAAGAAAGACATCCGATGAATGAAG
1 GATTCATGAAGAAGGACATCCGATGAATGAAG
2288358 TTTGAAGTTG
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 75 1.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (55 bp):
GATTCATGAAGAAGGACATCCGATGAATGAAGAAATCTGAAACTAATTGAAGAAC
Found at i:2288711 original size:6 final size:6
Alignment explanation
Indices: 2288700--2288756 Score: 71
Period size: 6 Copynumber: 9.2 Consensus size: 6
2288690 ATTAACACCT
*
2288700 TTTGCA TTTGCA TTTAGCA TTTACA TTTAGCA TTTAGCA TTTGCA TTTGCA
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTT-GCA TTT-GCA TTTGCA TTTGCA
2288751 -TTGCA T
1 TTTGCA T
2288757 GTATTTATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
5 5 0.11
6 23 0.50
7 18 0.39
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (6 bp):
TTTGCA
Found at i:2288721 original size:7 final size:7
Alignment explanation
Indices: 2288703--2288752 Score: 72
Period size: 6 Copynumber: 7.7 Consensus size: 7
2288693 AACACCTTTT
2288703 GCATTT-
1 GCATTTA
2288709 GCATTTA
1 GCATTTA
2288716 GCATTTA
1 GCATTTA
2288723 -CATTTA
1 GCATTTA
2288729 GCATTTA
1 GCATTTA
2288736 GCATTT-
1 GCATTTA
2288742 GCATTT-
1 GCATTTA
2288748 GCATT
1 GCATT
2288753 GCATGTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 23 0.55
7 19 0.45
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (7 bp):
GCATTTA
Found at i:2288721 original size:13 final size:13
Alignment explanation
Indices: 2288703--2288752 Score: 75
Period size: 13 Copynumber: 3.8 Consensus size: 13
2288693 AACACCTTTT
2288703 GCATTTGCATTTA
1 GCATTTGCATTTA
*
2288716 GCATTTACATTTA
1 GCATTTGCATTTA
2288729 GCATTTAGCATTT-
1 GCATTT-GCATTTA
2288742 GCATTTGCATT
1 GCATTTGCATT
2288753 GCATGTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 5 0.15
13 24 0.71
14 5 0.15
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (13 bp):
GCATTTGCATTTA
Found at i:2293901 original size:37 final size:37
Alignment explanation
Indices: 2293859--2294121 Score: 316
Period size: 37 Copynumber: 7.1 Consensus size: 37
2293849 GATTGGAGCA
*
2293859 AAATCAATCTTAAGCCTTCATCGAAGAGTAGTGAAGC
1 AAATCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
* *
2293896 AAATCAATCTTAAGCCTTCACC-AAGGAG-ATTGGAGC
1 AAATCAATCTTAAGCCTTCACCGAA-GAGTAGTGAAGC
* *
2293932 AAAGTCAATCTTAAACCTTCACCGAAGAGTAGTAAAGC
1 AAA-TCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
* * * *
2293970 AAATAAATCTTAAGCCTTCACCAAAGAATAATGAAGC
1 AAATCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
* * *
2294007 AAGTCGATCTTAAGCCTTCACCAAAGAGTAGTGAAGC
1 AAATCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
* * * *
2294044 TAATCTATCATAAGCCTTCACCGAAGAGTAATGAAGC
1 AAATCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
** *
2294081 AAA-CCGTCTTAAGCCTTCACTGAAGAGTAGTGAAGC
1 AAATCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
2294117 AAATC
1 AAATC
2294122 CTTTTTAAGT
Statistics
Matches: 191, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
36 42 0.22
37 139 0.73
38 10 0.05
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.22
Consensus pattern (37 bp):
AAATCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC
Found at i:2294644 original size:56 final size:55
Alignment explanation
Indices: 2294529--2295467 Score: 744
Period size: 56 Copynumber: 17.1 Consensus size: 55
2294519 GTGAGGCAAA
* * * * ** *
2294529 AGAAGATTGTTCGAGTTCCATACTTCCTAAAGAAAGAGGGAGCGAACCCATAGGA
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGT
2294584 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
1 AGAAGATTATTCGAGTTCTATACTTCCTG-AAGAAAGAGGGAGCGAACCCGTTTGT
* *
2294640 AGAAGATTATTCGAGTTCTAAACTTCCTGAAAGAAAGAGGGGGCGAACCCGTTTGT
1 AGAAGATTATTCGAGTTCTATACTTCCTG-AAGAAAGAGGGAGCGAACCCGTTTGT
*
2294696 AGAAGATTATTCAAGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
1 AGAAGATTATTCGAGTTCTATACTTCCTG-AAGAAAGAGGGAGCGAACCCGTTTGT
*
2294752 AGAAGATTATTCGAGTTTTATACTTCCT-AAGAAAAGAGGGAGCGAACCCG-TT-T
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAG-AAAGAGGGAGCGAACCCGTTTGT
* * * *
2294805 -GCAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGT
* * *
2294859 AGAAGATTATTCGAGCTCTATACTTTCTGAAAGAAAGAGGGAGCGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTG-AAGAAAGAGGGAGCGAACCCGTTTGT
* * * *
2294915 AGAAGATTATTCGAGTTATATACTTCCTGAAAGAAAGAGGTAGAGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTG-AAGAAAGAGGGAGCGAACCCGTTTGT
* * *
2294971 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGAGAGTGAACCCGATTGT
1 AGAAGATTATTCGAGTTCTATACTTCCTG-AAGAAAGAGGGAGCGAACCCGTTTGT
* * * * * * *
2295027 TGAAGATTGTTCGAG-TCTTATAC-TCTCTGAAGGAATAGGGAGC-ATACACGATTAT
1 AGAAGATTATTCGAGTTC-TATACTTC-CTGAAGAAAGAGGGAGCGA-ACCCGTTTGT
* * * * * * * *
2295082 TGAAGATTGTTTGAG-TCTTATAC-TCTCTGAAGGAATAGGGAG-AAGACACGATTGT
1 AGAAGATTATTCGAGTTC-TATACTTC-CTGAAGAAAGAGGGAGCGA-ACCCGTTTGT
* * * * * *
2295137 TGAAGATTGTTCGAG-TCTTATAC-TCTCTGAATG-AATAGGGAGCAAACACGATTGT
1 AGAAGATTATTCGAGTTC-TATACTTC-CTGAA-GAAAGAGGGAGCGAACCCGTTTGT
* * * * * * *
2295192 TGAAGATTGTTTGAGTCCTATAC-TCTCTGAAGGAATAGGGAGCGAACACGTTTGT
1 AGAAGATTATTCGAGTTCTATACTTC-CTGAAGAAAGAGGGAGCGAACCCGTTTGT
* * * * * * *
2295247 TGAAG---A-TCAAGTCCTATAC-TCTCTGAAGGAATAGGGAGCGGACACGTTTGT
1 AGAAGATTATTCGAGTTCTATACTTC-CTGAAGAAAGAGGGAGCGAACCCGTTTGT
* * * * * * *
2295298 TGAAGATTTGTTCAAGTCCTATAC-TCTCTGAAGGAATAGGGAGC-AGACACGTTTGT
1 AGAAGA-TTATTCGAGTTCTATACTTC-CTGAAGAAAGAGGGAGCGA-ACCCGTTTGT
* * * **
2295354 TGAAGA-TA---GAGTCCTATAC-TCTCTGAAGAAATAGGGAATGAACCCGTTT-T
1 AGAAGATTATTCGAGTTCTATACTTC-CTGAAGAAAGAGGGAGCGAACCCGTTTGT
* * * * * * * * *
2295404 ATGAAGATTGTTTGAGTTTTACACTCCCTGAAGCAAGAAGAAGCGAACCCGTTGGT
1 A-GAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGT
*
2295460 CGAAGATT
1 AGAAGATT
2295468 GTTCAAAAAA
Statistics
Matches: 778, Mismatches: 77, Indels: 58
0.85 0.08 0.06
Matches are distributed among these distances:
50 1 0.00
51 86 0.11
52 43 0.06
53 6 0.01
54 8 0.01
55 276 0.35
56 358 0.46
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (55 bp):
AGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGT
Found at i:2295069 original size:275 final size:275
Alignment explanation
Indices: 2294532--2295050 Score: 831
Period size: 275 Copynumber: 1.9 Consensus size: 275
2294522 AGGCAAAAGA
*
2294532 AGATTGTTCGAGTTCCATACTTCCTAAAGAAAGAGGGAGCGAACCCATAGGAAGAAGATTATTCG
1 AGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCATAGGAAGAAGATTATTCG
* * *
2294597 AGTTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGTAGAAGATTATTCGAGTTCTAAA
66 AGCTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTATAAA
* * *
2294662 CTTCCTGAAAGAAAGAGGGGGCGAACCCGTTTGTAGAAGATTATTCAAGTTCTATACTTCCTGAA
131 CTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGCAGAAGATTATTCAAGTTCTATACTTCCTGAA
* * *
2294727 AGAAAGAGGGAGCGAACCCGTTTGTAGAAGATTATTCGAGTTTTATACTTCCTAAGAAAAGAGGG
196 AGAAAGAGAGAGCGAACCCGATTGTAGAAGATTATTCGAGTCTTATACTTCCTAAGAAAAGAGGG
2294792 AGCGAACCCGTTTGC
261 AGCGAACCCGTTTGC
* * * ** *
2294807 AGATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCG
1 AGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCATAGGAAGAAGATTATTCG
* *
2294872 AGCTCTATACTTTCTGAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTATATA
66 AGCTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTATAAA
* *
2294937 CTTCCTGAAAGAAAGAGGTAGAGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAA
131 CTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGCAGAAGATTATTCAAGTTCTATACTTCCTGAA
* * *
2295002 AGAAAGAGAGAGTGAACCCGATTGTTGAAGATTGTTCGAGTCTTATACT
196 AGAAAGAGAGAGCGAACCCGATTGTAGAAGATTATTCGAGTCTTATACT
2295051 CTCTGAAGGA
Statistics
Matches: 221, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
275 221 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (275 bp):
AGATTGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCATAGGAAGAAGATTATTCG
AGCTCTATACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTATAAA
CTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGCAGAAGATTATTCAAGTTCTATACTTCCTGAA
AGAAAGAGAGAGCGAACCCGATTGTAGAAGATTATTCGAGTCTTATACTTCCTAAGAAAAGAGGG
AGCGAACCCGTTTGC
Found at i:2295098 original size:55 final size:55
Alignment explanation
Indices: 2295020--2295390 Score: 499
Period size: 55 Copynumber: 6.9 Consensus size: 55
2295010 AGAGTGAACC
* *
2295020 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCATACA
1 CGATTGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
* * * *
2295075 CGATTATTGAAGATTGTTTGAGTCTTATACTCTCTGAAGGAATAGGGAGAAGACA
1 CGATTGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
* * *
2295130 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAATGAATAGGGAGCAAACA
1 CGATTGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
*
2295185 CGATTGTTGAAGATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGC-GAACA
1 CGATTGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAG-ACA
* * *
2295240 CGTTTGTTGAAGA----TCAAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGATTGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
* *
2295291 CGTTTGTTGAAGATTTGTTCAAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
1 CGATTGTTGAAGA-TTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
* * *
2295347 CGTTTGTTGAAGA----TAGAGTCCTATACTCTCTGAAGAAATAGGGA
1 CGATTGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGA
2295391 ATGAACCCGT
Statistics
Matches: 289, Mismatches: 20, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
51 75 0.26
52 1 0.00
55 163 0.56
56 50 0.17
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (55 bp):
CGATTGTTGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACA
Found at i:2295147 original size:110 final size:105
Alignment explanation
Indices: 2295087--2295390 Score: 410
Period size: 107 Copynumber: 2.8 Consensus size: 105
2295077 ATTATTGAAG
*
2295087 ATTGTTTGAGTCTTATACTCTCTGAAGGAATAGGGAGAAGACACGATTGTTGAAGATTGTTCGAG
1 ATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAG-AGACACGATTGTTGAAGA----TCGAG
* *
2295152 TCTTATACTCTCTGAATGAATAGGGAGCAAACACGATTGTTGAAG
61 TCCTATACTCTCTGAAGGAATAGGGAGCAAACACGATTGTTGAAG
* * *
2295197 ATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGAACACGTTTGTTGAAGATCAAGTCCT
1 ATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGAG-ACACGATTGTTGAAGATCGAGTCCT
** *
2295262 ATACTCTCTGAAGGAATAGGGAGCGGACACGTTTGTTGAAG
65 ATACTCTCTGAAGGAATAGGGAGCAAACACGATTGTTGAAG
** * *
2295303 ATTTGTTCAAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATAGAGTCC
1 A-TTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAG-AGACACGATTGTTGAAGATCGAGTCC
*
2295368 TATACTCTCTGAAGAAATAGGGA
64 TATACTCTCTGAAGGAATAGGGA
2295391 ATGAACCCGT
Statistics
Matches: 176, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
106 45 0.26
107 78 0.44
108 1 0.01
109 1 0.01
110 51 0.29
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (105 bp):
ATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGAGACACGATTGTTGAAGATCGAGTCCTA
TACTCTCTGAAGGAATAGGGAGCAAACACGATTGTTGAAG
Found at i:2295725 original size:3 final size:3
Alignment explanation
Indices: 2295643--2295710 Score: 75
Period size: 3 Copynumber: 22.7 Consensus size: 3
2295633 ATTAAAATCA
* * * *
2295643 TAT TAT TAT TAT TAT TAT TAT AAC TAT TA- TAT TAT AAT ACAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
*
2295688 TAT TAT TAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
2295711 ATGTTACATA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.93
4 2 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:2298449 original size:19 final size:19
Alignment explanation
Indices: 2298425--2298461 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2298415 ATTAAGCTGG
2298425 GAAACCGTTAGTCAAAGAC
1 GAAACCGTTAGTCAAAGAC
*
2298444 GAAACCGTTGGTCAAAGA
1 GAAACCGTTAGTCAAAGA
2298462 ATTATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (19 bp):
GAAACCGTTAGTCAAAGAC
Found at i:2300454 original size:78 final size:79
Alignment explanation
Indices: 2300298--2300455 Score: 194
Period size: 78 Copynumber: 2.0 Consensus size: 79
2300288 AAAAAATAAC
* * * * * *
2300298 ATTTTAGGTAGCGCCCAATATTAACATTTTCGGTAGAAAAAATAGTGTTTTAGGTAGCGCTTTAC
1 ATTTTAAGTAACGCCCAATATTAACATTTTCGGTAGAAAAAATAATATTTTAAGTAACGCTTTAC
* *
2300363 TGAAAATGTTAAAA
66 AGAAAATATTAAAA
* * *
2300377 ATTTTAAGTAACGCCTAATTTTAACATTTTCGGTA-AAAAAATAATATTTTAAGTAATGCTTTAC
1 ATTTTAAGTAACGCCCAATATTAACATTTTCGGTAGAAAAAATAATATTTTAAGTAACGCTTTA-
2300441 CAG-AAATATTAAAA
65 CAGAAAATATTAAAA
2300455 A
1 A
2300456 AATATTAACA
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
78 34 0.51
79 33 0.49
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (79 bp):
ATTTTAAGTAACGCCCAATATTAACATTTTCGGTAGAAAAAATAATATTTTAAGTAACGCTTTAC
AGAAAATATTAAAA
Found at i:2300456 original size:79 final size:79
Alignment explanation
Indices: 2300298--2300456 Score: 187
Period size: 79 Copynumber: 2.0 Consensus size: 79
2300288 AAAAAATAAC
* * * * * *
2300298 ATTTTAGGTAGCGCCCAATATTAACATTTTCGGTAGAAAAAATAGTGTTTTAGGTAGCGCTTTAC
1 ATTTTAAGTAACGCCCAATATTAACATTTTCGGTAGAAAAAATAATATTTTAAGTAACGCTTTAC
* *
2300363 TGAAAATGTTAAAA
66 AGAAAATGTAAAAA
* * *
2300377 ATTTTAAGTAACGCCTAATTTTAACATTTTCGGTA-AAAAAATAATATTTTAAGTAATGCTTTAC
1 ATTTTAAGTAACGCCCAATATTAACATTTTCGGTAGAAAAAATAATATTTTAAGTAACGCTTTA-
2300441 CAGAAATAT-TAAAAA
65 CAGAAA-ATGTAAAAA
2300456 A
1 A
2300457 ATATTAACAT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
78 23 0.34
79 42 0.63
80 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (79 bp):
ATTTTAAGTAACGCCCAATATTAACATTTTCGGTAGAAAAAATAATATTTTAAGTAACGCTTTAC
AGAAAATGTAAAAA
Found at i:2301022 original size:30 final size:30
Alignment explanation
Indices: 2300988--2301066 Score: 158
Period size: 30 Copynumber: 2.6 Consensus size: 30
2300978 AAACGACTAG
2300988 TTATTTTATGTGTAATTTTTTTCGATTAAA
1 TTATTTTATGTGTAATTTTTTTCGATTAAA
2301018 TTATTTTATGTGTAATTTTTTTCGATTAAA
1 TTATTTTATGTGTAATTTTTTTCGATTAAA
2301048 TTATTTTATGTGTAATTTT
1 TTATTTTATGTGTAATTTT
2301067 AGTTAAAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.62
Consensus pattern (30 bp):
TTATTTTATGTGTAATTTTTTTCGATTAAA
Found at i:2301064 original size:15 final size:15
Alignment explanation
Indices: 2300988--2301064 Score: 58
Period size: 15 Copynumber: 5.1 Consensus size: 15
2300978 AAACGACTAG
2300988 TTATTTTATGTGTAA
1 TTATTTTATGTGTAA
2301003 TT-TTTT-TCGAT-TAAA
1 TTATTTTAT-G-TGT-AA
2301018 TTATTTTATGTGTAA
1 TTATTTTATGTGTAA
2301033 TT-TTTT-TCGAT-TAAA
1 TTATTTTAT-G-TGT-AA
2301048 TTATTTTATGTGTAA
1 TTATTTTATGTGTAA
2301063 TT
1 TT
2301065 TTAGTTAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 24
0.68 0.00 0.32
Matches are distributed among these distances:
13 2 0.04
14 12 0.24
15 22 0.44
16 12 0.24
17 2 0.04
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (15 bp):
TTATTTTATGTGTAA
Found at i:2301363 original size:21 final size:21
Alignment explanation
Indices: 2301339--2301383 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
2301329 TAAGTAAAAA
*
2301339 TTTATTTAAAATATTATTATT
1 TTTATTTAAAATATTAATATT
2301360 TTTATTTAAAATATTAATATT
1 TTTATTTAAAATATTAATATT
2301381 TTT
1 TTT
2301384 TAATATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTTAAAATATTAATATT
Found at i:2301930 original size:2 final size:2
Alignment explanation
Indices: 2301923--2301954 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2301913 TCTAACCATA
*
2301923 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2301955 TTTTTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2304283 original size:11 final size:11
Alignment explanation
Indices: 2304267--2304293 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2304257 AAAATTAAAA
2304267 AATATATATAT
1 AATATATATAT
2304278 AATATATATAT
1 AATATATATAT
2304289 AATAT
1 AATAT
2304294 TTTATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATATATATAT
Found at i:2307181 original size:24 final size:25
Alignment explanation
Indices: 2307131--2307184 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
2307121 GTTTTATGTT
* * * *
2307131 TTATATATTTATTTTGTTTGTATTA
1 TTATATATTTACTTTGTATATAATA
2307156 TTATATA-TTACTTTGTATATAATA
1 TTATATATTTACTTTGTATATAATA
2307180 TTATA
1 TTATA
2307185 GCATGATAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (25 bp):
TTATATATTTACTTTGTATATAATA
Found at i:2319309 original size:12 final size:10
Alignment explanation
Indices: 2319286--2319327 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
2319276 TGAAAAAGTG
2319286 AAAAA-GAAA
1 AAAAATGAAA
*
2319295 AAAATAAGAAA
1 AAAA-ATGAAA
2319306 AAAAATG-AA
1 AAAAATGAAA
2319315 AAAAATGAAA
1 AAAAATGAAA
2319325 AAA
1 AAA
2319328 GGAAAAGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 13 0.45
10 8 0.28
11 8 0.28
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (10 bp):
AAAAATGAAA
Found at i:2319310 original size:21 final size:19
Alignment explanation
Indices: 2319286--2319327 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
2319276 TGAAAAAGTG
2319286 AAAAAGAAAAAAATAAGAAAA
1 AAAAAGAAAAAAAT--GAAAA
*
2319307 AAAATGAAAAAAATGAAAA
1 AAAAAGAAAAAAATGAAAA
2319326 AA
1 AA
2319328 GGAAAAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
21 13 0.65
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (19 bp):
AAAAAGAAAAAAATGAAAA
Found at i:2319322 original size:44 final size:45
Alignment explanation
Indices: 2319255--2319341 Score: 124
Period size: 44 Copynumber: 1.9 Consensus size: 45
2319245 TACTATGCTT
2319255 GAAAAAAAATGAATGGAAAAATG-AAAAAGTGAAAAAGAAAAAAATAA
1 GAAAAAAAATGAA--GAAAAATGAAAAAAG-GAAAAAGAAAAAAATAA
*
2319302 GAAAAAAAATGAA-AAAAATGAAAAAAGGAAAAGGAAAAAA
1 GAAAAAAAATGAAGAAAAATGAAAAAAGGAAAAAGAAAAAA
2319342 GAAAAAGGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
44 19 0.50
45 6 0.16
47 13 0.34
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (45 bp):
GAAAAAAAATGAAGAAAAATGAAAAAAGGAAAAAGAAAAAAATAA
Found at i:2319338 original size:14 final size:14
Alignment explanation
Indices: 2319315--2319350 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2319305 AAAAAATGAA
*
2319315 AAAAATGAAAAAAG
1 AAAAAGGAAAAAAG
*
2319329 GAAAAGGAAAAAAG
1 AAAAAGGAAAAAAG
2319343 AAAAAGGA
1 AAAAAGGA
2319351 GGGTTCGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (14 bp):
AAAAAGGAAAAAAG
Found at i:2320543 original size:104 final size:104
Alignment explanation
Indices: 2320278--2320642 Score: 631
Period size: 105 Copynumber: 3.5 Consensus size: 104
2320268 AAATCCACTG
2320278 CAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
1 CAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
*
2320343 GGTTCGTAATGAGAAGAGCATGTTCCTTTCAAATCCACC
66 GGTTCGTAATGAGAAGAGCATGTTCCTTTCAAATTCACC
* *
2320382 ACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAAAGGAGA
1 -CAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGA
*
2320447 AGGTTCGTAATGAGAAGAGCCTGTTCCTTTCAAATTCACC
65 AGGTTCGTAATGAGAAGAGCATGTTCCTTTCAAATTCACC
*
2320487 CAGAAGGAGGTGAACCGACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
1 CAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
* * *
2320552 GGTTTGTAATGAGAAGAACTTGTTCCTTTCAAATTCACAC
66 GGTTCGTAATGAGAAGAGCATGTTCCTTTCAAATTCAC-C
*
2320592 CAGAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
1 CAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
2320643 ATCCAAAAAA
Statistics
Matches: 247, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
104 97 0.39
105 150 0.61
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (104 bp):
CAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAA
GGTTCGTAATGAGAAGAGCATGTTCCTTTCAAATTCACC
Found at i:2320782 original size:140 final size:139
Alignment explanation
Indices: 2320620--2321102 Score: 531
Period size: 136 Copynumber: 3.5 Consensus size: 139
2320610 CATTTCCAGA
* * *
2320620 AGAGTTCATAATGAGAAGAACTCATCCAAAAAAAAGAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGATAAAAGGAGAAGAAGTTCATAATGAGAAGAACTTGT
*
2320685 TCAACCT-TAGCTCGATTCATCGCATATGGAGTT-GAATCAACAACACCTCACTTGAGGGATCAA
66 TCAACCTATAGCTCGATTCAT--CATAT-GAGTTCGAATCAACAACACCTCGCTTGAGGGATCAA
*
2320748 CACTTCAAATGG
128 CATTTCAAATGG
* *
2320760 AGAGTTCATAATGAGAAGAACTCATCCGATAAAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGATAAAAGGAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * *** * *
2320825 TCGACCTATCA-CTTGATTCAT--TAT-ATTTTGAATCAGTGACGCCTCGCTTGAGGGAAT-GAC
66 TCAACCTAT-AGCTCGATTCATCATATGAGTTCGAATCAACAACACCTCGCTTGAGGG-ATCAAC
*
2320885 ATTTCATATGG
129 ATTTCAAATGG
* * * * *
2320896 AGAGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGATAAAAGGAGAAGAAGTTCATAATGAGAAGAACTTGT
* * * * * *
2320961 TCGACCTATTGCTCGATTCA-CA-A-CACTTCGAATCAACAATACCTCGCTTGAAGGATCAACAT
66 TCAACCTATAGCTCGATTCATCATATGAGTTCGAATCAACAACACCTCGCTTGAGGGATCAACA-
*
2321023 TTTC-AGTGG
130 TTTCAAATGG
* * * *
2321032 AGAGTTCATAATGAGAAGAACTTATCCGATGAGAGGA-AAGAAGTTCGTAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGATAAAAGGAGAAGAAGTTCATAATGAGAAGAACTTGT
2321096 TCAACCT
66 TCAACCT
2321103 TAACTTGTTT
Statistics
Matches: 291, Mismatches: 42, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
135 36 0.12
136 169 0.58
137 9 0.03
140 66 0.23
141 10 0.03
142 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (139 bp):
AGAGTTCATAATGAGAAGAACTCATCCGATAAAAGGAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTATAGCTCGATTCATCATATGAGTTCGAATCAACAACACCTCGCTTGAGGGATCAACAT
TTCAAATGG
Found at i:2322735 original size:24 final size:25
Alignment explanation
Indices: 2322685--2322738 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
2322675 GTTTTATGTT
* * * *
2322685 TTATATATTTATTTTGTTTGTATTA
1 TTATATATTTACTTTGTATATAATA
2322710 TTATATA-TTACTTTGTATATAATA
1 TTATATATTTACTTTGTATATAATA
2322734 TTATA
1 TTATA
2322739 GCATGATAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (25 bp):
TTATATATTTACTTTGTATATAATA
Found at i:2324456 original size:22 final size:21
Alignment explanation
Indices: 2324407--2324456 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
2324397 GATTATATTT
*
2324407 ATAAAATTTTAAAAGAATAAA
1 ATAAAATTTTAAAAAAATAAA
*
2324428 ATTAAATTTATAAAAAAATATAA
1 ATAAAATTT-TAAAAAAATA-AA
2324451 A-AAAAT
1 ATAAAAT
2324457 AAAGATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 8 0.33
22 13 0.54
23 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
ATAAAATTTTAAAAAAATAAA
Found at i:2325221 original size:40 final size:40
Alignment explanation
Indices: 2325163--2325307 Score: 138
Period size: 41 Copynumber: 3.6 Consensus size: 40
2325153 TACATATAGC
*
2325163 GGCGTTTTGA-ACAAACGCCGC-AAAATATTATACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAATATTATA-TTTAGT
* * *
2325202 GGCGTTTGTATAAAAACGCCGCTAAAGA-ATCGTA-ATGTAGT
1 GGCGTTTTTATACAAACGCCGCTAAA-ATAT--TATATTTAGT
* *
2325243 GGCATTTTTATACAAACGCCGCTATAAACTAGTAT-TTTAGT
1 GGCGTTTTTATACAAACGCCGCTA-AAA-TATTATATTTAGT
*
2325284 GGCGTTTTTATACAAACGCTGCTA
1 GGCGTTTTTATACAAACGCCGCTA
2325308 TAGACACGTA
Statistics
Matches: 86, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
39 8 0.09
40 10 0.12
41 61 0.71
42 4 0.05
43 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (40 bp):
GGCGTTTTTATACAAACGCCGCTAAAATATTATATTTAGT
Found at i:2325260 original size:41 final size:41
Alignment explanation
Indices: 2325193--2325555 Score: 365
Period size: 41 Copynumber: 8.8 Consensus size: 41
2325183 CAAAATATTA
* * *
2325193 TACTTTAGTGGCGTTTGTATAAAAACGCCGCTAAAGAATCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAATCG
* * * *
2325234 TAATGTAGTGGCATTTTTATACAAACGCCGCTATA-AACTAG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAA-TCG
* *
2325275 TATTTTAGTGGCGTTTTTATACAAACGCTGCTATAGACA-CG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA-ATCG
* * * * * *
2325316 TACTTTTGTGGCATTTTAATACCAAACGACGCTATAGACTCA
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGAATCG
* * *
2325358 TACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACA-AG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA-ATCG
* * ** *
2325399 TACTTTTGTGGCGTTTTAATACCAAATACCGCTATAGATTCG
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGAATCG
*
2325441 TACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACA-CG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA-ATCG
* * *
2325482 TACTTTTGTGGCGTTTTAATAACAAACGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTAT-ACAAACGCCGCTATAGAATCG
* *
2325524 TACTTTAGTGGCGTTTTAATACCAAACACCGC
1 TACTTTAGTGGCGTTTTTATA-CAAACGCCGC
2325556 AATTGTCATA
Statistics
Matches: 263, Mismatches: 47, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
40 2 0.01
41 146 0.56
42 114 0.43
43 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (41 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGAATCG
Found at i:2325375 original size:83 final size:83
Alignment explanation
Indices: 2325192--2325555 Score: 439
Period size: 83 Copynumber: 4.4 Consensus size: 83
2325182 GCAAAATATT
* * * * * * *
2325192 ATACTTTAGTGGCGTTTGTATAAAAACGCCGCTAAAGA-ATCGTAATGTAGTGGCATTTTTATA-
1 ATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACA-CGTACTTTTGTGGCATTTTAATAC
* *
2325255 CAAACGCCGCTATAAACT-
65 CAAACGACGCTATAGACTC
* *
2325273 AGTATTTTAGTGGCGTTTTTATACAAACGCTGCTATAGACACGTACTTTTGTGGCATTTTAATAC
1 A-TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTTGTGGCATTTTAATAC
2325338 CAAACGACGCTATAGACTC
65 CAAACGACGCTATAGACTC
* * * *
2325357 ATACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACAAGTACTTTTGTGGCGTTTTAATACC
1 ATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTTGTGGCATTTTAATACC
* *
2325422 AAA-TACCGCTATAGATTC
66 AAACGA-CGCTATAGACTC
* * * *
2325440 GTACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATAAC
1 ATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTTGTGGCATTTTAATACC
*
2325505 AAACGCCGCTATAGACTC
66 AAACGACGCTATAGACTC
* * *
2325523 GTACTTTAGTGGCGTTTTAATACCAAACACCGC
1 ATACTTTAGTGGCGTTTTTATA-CAAACGCCGC
2325556 AATTGTCATA
Statistics
Matches: 247, Mismatches: 29, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
81 1 0.00
82 52 0.21
83 184 0.74
84 10 0.04
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (83 bp):
ATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACACGTACTTTTGTGGCATTTTAATACC
AAACGACGCTATAGACTC
Found at i:2330351 original size:21 final size:21
Alignment explanation
Indices: 2330309--2330367 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
2330299 TGATTTATTA
**
2330309 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
2330330 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
* *
2330351 TTATCGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
2330368 ATTGGAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:2330567 original size:43 final size:43
Alignment explanation
Indices: 2330520--2330787 Score: 335
Period size: 43 Copynumber: 6.3 Consensus size: 43
2330510 ACCAGATCTT
* * *
2330520 TTGCGGTGTTTGTGGGAAAAACGCCGCTAAATATCAAGACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
* *
2330563 TTGCGTCATTTG-TGGACAAAACGCCGCTAAATATCAACACCTA
1 TTGCGGCGTTTGTTGGA-AAAACGCCGCTAAATATCAACACCTA
* *
2330606 TTGCGGCGTTTG-TGGAAAAAACGCCGCTAAATCTCAACACATA
1 TTGCGGCGTTTGTTGG-AAAAACGCCGCTAAATATCAACACCTA
* *
2330649 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAATACATA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
* * * *
2330692 TTGCAGCGTTTGTTGGAAAAA-ACCACCAAATATCAACACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
* * ***
2330734 TTGCGGCGTTTGTTGGACAAACGCCGCTATATATCGTTACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
2330777 TTGCGGCGTTT
1 TTGCGGCGTTT
2330788 TTTGTTACCA
Statistics
Matches: 195, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
42 38 0.19
43 153 0.78
44 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (43 bp):
TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAACACCTA
Found at i:2332834 original size:112 final size:112
Alignment explanation
Indices: 2332636--2332870 Score: 362
Period size: 112 Copynumber: 2.1 Consensus size: 112
2332626 CGGTTTGTGC
* * *
2332636 CGATATTTTATAAAAATATATTGATCTATAACAATATAATAAGTAAAAAAATGACAAAATCGGTA
1 CGATATTTTATAAAAATATATCGATCCATAACAATATAATAAGTAAAAAAATGACAAAACCGGTA
2332701 TATAAATGACAAAACAAATAAAGCGCTACCAGATATATTGAAAGTGT
66 TATAAATGACAAAACAAATAAAGCGCTACCAGATATATTGAAAGTGT
* * * *
2332748 CGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGACAAAACCGGTC
1 CGATATTTTATAAAAATATATCGATCCATAACAATATAATAAGTAAAAAAATGACAAAACCGGTA
* * * * *
2332813 TATAAATGACTAAACAGATAAAGCGCTACCGGATATGTTGATAGTGT
66 TATAAATGACAAAACAAATAAAGCGCTACCAGATATATTGAAAGTGT
2332860 CGATATTTTAT
1 CGATATTTTAT
2332871 TATAAGTATC
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (112 bp):
CGATATTTTATAAAAATATATCGATCCATAACAATATAATAAGTAAAAAAATGACAAAACCGGTA
TATAAATGACAAAACAAATAAAGCGCTACCAGATATATTGAAAGTGT
Found at i:2333054 original size:182 final size:182
Alignment explanation
Indices: 2332741--2333196 Score: 711
Period size: 182 Copynumber: 2.5 Consensus size: 182
2332731 AGATATATTG
* * *
2332741 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAA
* ** * *
2332806 ACCGGTCTATAAATGACT-AAA-CAGATAAAGCGCTACCGGATATGTTGATAGTGTCGATATTTT
66 ATCGGTCTCGAAATGA-TAAAATC-GATAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTT
**
2332869 ATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAA-AAGTTATAGCGTTAAT
129 ATTATAAGTATCGACACTTTTGGAATTTAAAAGA-AAAGAAGTTATAGCGCCAAT
*
2332923 AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAA
*
2332988 ATCGGTCTCGAAATGATAAAATCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
66 ATCGGTCTCGAAATGATAAAATCGATAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
**
2333053 TATAAGTATCGTTACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
*
2333105 AAAGTGTCGATACTTTATAAAAATGTATCAATCTATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAA
* *
2333170 ATCGATCTCGAAATGACAAAATCGATA
66 ATCGGTCTCGAAATGATAAAATCGATA
2333197 GTGAAAAAAG
Statistics
Matches: 252, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
181 4 0.02
182 247 0.98
183 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAA
ATCGGTCTCGAAATGATAAAATCGATAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
Found at i:2333576 original size:23 final size:23
Alignment explanation
Indices: 2333530--2333577 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2333520 AAATAGGTCA
* *
2333530 ATATAAACGCTACTTATTACATT
1 ATATAAACGCTACCTAATACATT
*
2333553 ATATAAACGCTACCTAATATATT
1 ATATAAACGCTACCTAATACATT
2333576 AT
1 AT
2333578 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (23 bp):
ATATAAACGCTACCTAATACATT
Found at i:2345708 original size:16 final size:17
Alignment explanation
Indices: 2345687--2345719 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2345677 TTACTATTCA
2345687 CGTGAATAGT-AAATTT
1 CGTGAATAGTGAAATTT
2345703 CGTGAATAGTGAAATTT
1 CGTGAATAGTGAAATTT
2345720 TATCGGCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:2358002 original size:36 final size:36
Alignment explanation
Indices: 2357962--2358036 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
2357952 CACGCCTTTT
*
2357962 ATTGAAAATGTTAACATGCATCACATGAAAAGATAC
1 ATTGAAAATGTTAACATGCATCACATGAAAAGACAC
2357998 ATTGAAAATGTTAACATGCATCACATGAAAAGACAC
1 ATTGAAAATGTTAACATGCATCACATGAAAAGACAC
2358034 ATT
1 ATT
2358037 TCAAGGGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ATTGAAAATGTTAACATGCATCACATGAAAAGACAC
Found at i:2360222 original size:23 final size:23
Alignment explanation
Indices: 2360196--2360243 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2360186 ATAAAGTACA
*
2360196 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
2360219 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2360242 AT
1 AT
2360244 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2360745 original size:23 final size:23
Alignment explanation
Indices: 2360719--2360791 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
2360709 ATATTTTACG
*
2360719 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
2360742 ATATAAACGCTATCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2360765 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
2360788 ATAT
1 ATAT
2360792 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2361244 original size:23 final size:23
Alignment explanation
Indices: 2361209--2361281 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
2361199 ATACTTTACA
*
2361209 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2361232 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
2361255 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
2361278 ATAT
1 ATAT
2361282 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2361617 original size:489 final size:489
Alignment explanation
Indices: 2360317--2362116 Score: 3237
Period size: 489 Copynumber: 3.7 Consensus size: 489
2360307 TTATAATATG
2360317 TTGAAAGTG-TCTATACTTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATG
1 TTGAAAGTGTTC-ATAC-TTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATG
*
2360381 TTTCAA-TTTTTTAATATTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
64 TTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGC
*
2360445 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAATAATA
129 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
* *
2360510 TTAACCAAAGATAATAATAAATATGTAATAAATATGTTTATTGTTTTTAATTTAATGATAATATA
194 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
* * * *
2360575 TACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCAC
259 TACCGTAACGTAAAAAACAAATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCAC
2360640 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAATAAGTATGGACACTTTTATAAAAAG
324 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAT-AGTATGGACACTTTTATAAAAAG
* * *
2360704 GATAGATATTTTACGATATAAGCACTACCTATTACATTATATAAACGCTATCTATTACATTATAT
388 GATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATAT
2360769 AAGCGCTACCTATTACATCATATTTTTACCTATTATA
453 AAGCGCTACCTATTACATCATATTTTTACCTATTATA
2360806 TTGAAAGTGTTCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTTCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
2360871 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACTTTCAATATTAATTTAATAATTTCATTTGCA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2360936 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
2361001 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* * *
2361066 ATCGTAACGTAAAAAACAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACGTAAAAAACAAATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCACT
*
2361131 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAATAGTATGGACACTTTTATAAAAAAGA
325 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAATAGTATGGACACTTTTATAAAAAGGA
2361196 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
2361261 GCGCTACCTATTACATCATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
* *
2361296 TTGAAAGTGTACATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTTCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
2361361 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
2361426 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
2361491 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
* * *
2361556 TCGTAACGTAAAAAACAAATCATTAGATACATATAATTACTAAATTGATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAACAAATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCACTC
*
2361621 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAATAGTATGGACACTTTTATAAAAAGGAT
* *
2361686 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACACAACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
*
2361751 CGTTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
*
2361785 TTGAAAGTGTTCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTTCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
2361850 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
* *
2361915 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
*
2361980 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
* * *
2362045 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAACAAATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCACTC
2362110 AAAAGAT
326 AAAAGAT
2362117 GTACATACCT
Statistics
Matches: 1266, Mismatches: 41, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
488 53 0.04
489 743 0.59
490 466 0.37
491 4 0.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (489 bp):
TTGAAAGTGTTCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGTAACGTAAAAAACAAATCATTAGACACATATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAATAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
CGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:2361758 original size:23 final size:23
Alignment explanation
Indices: 2361698--2361770 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2361688 ATACTTTACA
2361698 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
* *
2361721 ATATAAACACAACCTATTACATT
1 ATATAAGCACTACCTATTACATT
** *
2361744 ATATAAGCGTTACCTATTACATC
1 ATATAAGCACTACCTATTACATT
2361767 ATAT
1 ATAT
2361771 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATT
Found at i:2362144 original size:25 final size:25
Alignment explanation
Indices: 2362116--2362180 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
2362106 ACTCAAAAGA
*
2362116 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAATTAT
2362141 TGTACATACCTAAATATGTAATTAT
1 TGTACATACCTAAATATGTAATTAT
2362166 TGTACATACCTAAAT
1 TGTACATACCTAAAT
2362181 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAATTAT
Found at i:2364946 original size:183 final size:183
Alignment explanation
Indices: 2364638--2366126 Score: 2692
Period size: 183 Copynumber: 8.1 Consensus size: 183
2364628 TACTTAAAAT
2364638 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
2364703 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
* *
2364768 CGACACTTTTTGACAAGGTATAGACACATTTTTCTTCTAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
2364821 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* *
2364886 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATTT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
2364951 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
2365004 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
2365069 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
*
2365134 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATATGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
2365187 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACTTATTCGCTCATAAAACCGTTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * *
2365252 TTTACACCTGTTATATTATAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
2365317 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
2365370 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
2365435 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTAGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
* * *
2365500 CAACACTTTTTGACAATGTATCGACATATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
2365553 TAGCC-ACACAATATTAAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGATA
1 TA-CCGACACAATATT-AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTA
*
2365617 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGCTTCCGATGTGTAAAT
64 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAAT
*
2365682 GTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTAGACATAAAG
129 GTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
2365737 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
2365802 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTAGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
*
2365867 CAACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* * * *
2365920 TACCGACACAATATTAAAAAGTGTTGATATATGTTATAGACCTATTCGATCATAAAACCGGTATA
1 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
2365985 TTTATACCGGTTATATTACAAAATTATCTATTATATTATAATTCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
*
2366050 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAG
131 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
2366103 TACCGATACAATATTAAAAAGTGT
1 TACCGACACAATATTAAAAAGTGT
2366127 AAAAACTTTG
Statistics
Matches: 1257, Mismatches: 46, Indels: 6
0.96 0.04 0.00
Matches are distributed among these distances:
183 1082 0.86
184 175 0.14
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (183 bp):
TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGT
CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:2367351 original size:12 final size:12
Alignment explanation
Indices: 2367334--2367372 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
2367324 GTTTGGATCA
2367334 TCATCATCATCG
1 TCATCATCATCG
*
2367346 TCATCATCATTG
1 TCATCATCATCG
*
2367358 TCATCTTCATCG
1 TCATCATCATCG
2367370 TCA
1 TCA
2367373 GCTTCATCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (12 bp):
TCATCATCATCG
Found at i:2367377 original size:12 final size:12
Alignment explanation
Indices: 2367334--2367385 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
2367324 GTTTGGATCA
*
2367334 TCATCATCATCG
1 TCATCTTCATCG
* *
2367346 TCATCATCATTG
1 TCATCTTCATCG
2367358 TCATCTTCATCG
1 TCATCTTCATCG
* *
2367370 TCAGCTTCATCT
1 TCATCTTCATCG
2367382 TCAT
1 TCAT
2367386 TGACCGCTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.21, C:0.31, G:0.08, T:0.40
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:2369503 original size:199 final size:200
Alignment explanation
Indices: 2368881--2369844 Score: 1716
Period size: 200 Copynumber: 4.8 Consensus size: 200
2368871 AACATTAAAC
* * *
2368881 AGTGTCGATACA-TATTATATACCAATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
1 AGTGTCGACACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
*
2368945 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
65 AAAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
2369010 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
130 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
2369075 TAAAAAA
195 T-ACAAA
2369082 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* * *
2369147 AAAATTACCTATTACATTATAGTTATGGGTTTCGATGTTTATGGGATCAACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
2369212 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGTACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
2369277 ACAAA
196 ACAAA
2369282 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
2369347 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTAT-GGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
2369411 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
2369476 ACAAA
196 ACAAA
2369481 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* * * * *
2369546 AAAATTACATATTACATTATACTTTTAGGTTTCGATGTTTGTGGGATCGATAATTTTTATATATG
66 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
2369611 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
2369676 ACAAA
196 ACAAA
* * *
2369681 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
2369746 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
2369811 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCAT
2369845 ATTGTAAATT
Statistics
Matches: 734, Mismatches: 27, Indels: 5
0.96 0.04 0.01
Matches are distributed among these distances:
199 194 0.26
200 352 0.48
201 184 0.25
202 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:2369621 original size:399 final size:401
Alignment explanation
Indices: 2368881--2369844 Score: 1736
Period size: 399 Copynumber: 2.4 Consensus size: 401
2368871 AACATTAAAC
* *
2368881 AGTGTCGATACA-TATTATATACCAATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
1 AGTGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
*
2368945 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
65 AAAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
*
2369010 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
130 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
2369075 TAAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTT
195 TAAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTT
* * * *
2369140 AGATTGAAAAATTACCTATTACATTATAGTTATGGGTTTCGATGTTTATGGGATCAACACTTTTT
260 AGATTGAAAAATTACATATTACATTATACTTATAGGTTTCGATGTTTATGGGATCAACAATTTTT
*
2369205 ATATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGTACCAAAAATATCGAC
325 ATATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGAC
2369270 ACAAACTACAAA
390 ACAAACTACAAA
*
2369282 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
2369347 AAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTAT-GGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
2369411 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
*
2369476 -ACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
196 AAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
* * * *
2369540 GATTGAAAAATTACATATTACATTATACTTTTAGGTTTCGATGTTTGTGGGATCGATAATTTTTA
261 GATTGAAAAATTACATATTACATTATACTTATAGGTTTCGATGTTTATGGGATCAACAATTTTTA
2369605 TATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACA
326 TATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACA
2369670 CAAACTACAAA
391 CAAACTACAAA
* *
2369681 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
2369746 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
2369811 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
2369845 ATTGTAAATT
Statistics
Matches: 541, Mismatches: 20, Indels: 5
0.96 0.04 0.01
Matches are distributed among these distances:
399 298 0.55
400 142 0.26
401 97 0.18
402 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (401 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
AAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTATAGGTTTCGATGTTTATGGGATCAACAATTTTTA
TATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACA
CAAACTACAAA
Found at i:2371022 original size:18 final size:19
Alignment explanation
Indices: 2370999--2371040 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
2370989 ATATCTTATC
*
2370999 TTAAATTCACATATTAA-A
1 TTAAATTAACATATTAACA
2371017 TTAAATTAACATATTAACA
1 TTAAATTAACATATTAACA
2371036 TTAAA
1 TTAAA
2371041 AATATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAATTAACATATTAACA
Found at i:2371071 original size:31 final size:31
Alignment explanation
Indices: 2371030--2371176 Score: 123
Period size: 28 Copynumber: 5.0 Consensus size: 31
2371020 AATTAACATA
2371030 TTAACATTAAAAATATATATTTTATTCTTATT
1 TTAAC-TTAAAAATATATATTTTATTCTTATT
*
2371062 TTAACTT-AAAAT-TAT-TTTTATTGTT-TT
1 TTAACTTAAAAATATATATTTTATTCTTATT
* * *
2371089 TTAACTTAAAGA-ATATATTTTAGTCATT-TA
1 TTAACTTAAAAATATATATTTTATTC-TTATT
* * *
2371119 TTAAATTTAAAA-ATA-A-TTTATTCTTATC
1 TTAACTTAAAAATATATATTTTATTCTTATT
* * *
2371147 TTAAGTTAAATATTTATATTTTATTCTTAT
1 TTAACTTAAAAATATATATTTTATTCTTAT
2371177 AATATTTTAA
Statistics
Matches: 93, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
27 11 0.12
28 31 0.33
29 12 0.13
30 21 0.23
31 13 0.14
32 5 0.05
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.54
Consensus pattern (31 bp):
TTAACTTAAAAATATATATTTTATTCTTATT
Found at i:2371211 original size:29 final size:29
Alignment explanation
Indices: 2371178--2371505 Score: 98
Period size: 30 Copynumber: 11.8 Consensus size: 29
2371168 TATTCTTATA
2371178 ATATTTTAAAATTAAGATAAAAATAAAAT
1 ATATTTTAAAATTAAGATAAAAATAAAAT
* *
2371207 ATATTTTTAAATTAA-A-AATAATAAAAT
1 ATATTTTAAAATTAAGATAAAAATAAAAT
**
2371234 ATACATTTT-AAA-T---A-AAAAAT-ATGT
1 AT--ATTTTAAAATTAAGATAAAAATAAAAT
* *
2371258 TTATGTTAAAA-TAAGGAT--AAAT----T
1 ATATTTTAAAATTAA-GATAAAAATAAAAT
* * * *
2371281 ATA-TTTAATAATTTAAGGTAAGACTATAAT
1 ATATTTTAA-AA-TTAAGATAAAAATAAAAT
* * *
2371311 ATA-TTTAATAATTTAAGTTAATAATATAAT
1 ATATTTTAA-AA-TTAAGATAAAAATAAAAT
* * * *
2371341 ATA-TGTAATAAGTAAAAATAAAAATAAGAT
1 ATATTTTAA-AA-TTAAGATAAAAATAAAAT
2371371 ATATTTTTAAAAGTTAAGAT-AAAATAAAAT
1 ATA-TTTTAAAA-TTAAGATAAAAATAAAAT
* * * *
2371401 ATATTTTTAACTTATGATAAAATTAAAAT
1 ATATTTTAAAATTAAGATAAAAATAAAAT
*
2371430 ATA-TTT----TTAAG-TTAAAATAAAAT
1 ATATTTTAAAATTAAGATAAAAATAAAAT
* * * *
2371453 ATATTTTTATATTAAGACAATAATAAAAT
1 ATATTTTAAAATTAAGATAAAAATAAAAT
* *
2371482 AGA-TTTAATAATTTAAAATAAAAA
1 ATATTTTAA-AA-TTAAGATAAAAA
2371506 AATATTCTTA
Statistics
Matches: 228, Mismatches: 43, Indels: 55
0.70 0.13 0.17
Matches are distributed among these distances:
22 8 0.04
23 22 0.10
24 12 0.05
25 9 0.04
26 6 0.03
27 14 0.06
28 22 0.10
29 49 0.21
30 74 0.32
31 8 0.04
32 4 0.02
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (29 bp):
ATATTTTAAAATTAAGATAAAAATAAAAT
Found at i:2371229 original size:27 final size:27
Alignment explanation
Indices: 2371178--2371254 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 27
2371168 TATTCTTATA
* *
2371178 ATATTTTAAAATTAAGATAAAAATAAAAT
1 ATATTTTTAAATTAA-A-AATAATAAAAT
2371207 ATATTTTTAAATTAAAAATAATAAAAT
1 ATATTTTTAAATTAAAAATAATAAAAT
* *
2371234 ATACATTTTAAATAAAAAATA
1 ATA-TTTTTAAATTAAAAATA
2371255 TGTTTATGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 13 0.30
28 16 0.37
29 14 0.33
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (27 bp):
ATATTTTTAAATTAAAAATAATAAAAT
Found at i:2371395 original size:30 final size:28
Alignment explanation
Indices: 2371243--2371453 Score: 125
Period size: 30 Copynumber: 7.2 Consensus size: 28
2371233 TATACATTTT
* * * *
2371243 AAATAAAAAATATGTTTATGTTAAAATA
1 AAATAAAATATATTTTTAAGTTAAGATA
* * * * *
2371271 AGGATAAATTATATTTAATAATTTAAGGTA
1 A-AATAAAATATATTT-TTAAGTTAAGATA
* * * * *
2371301 AGACTATAATATATTTAATAATTTAAGTTA
1 A-AATAAAATATATTT-TTAAGTTAAGATA
* ** * *
2371331 ATAATATAATATATGTAATAAGTAAAAATAA
1 A-AATAAAATATAT-TTTTAAGTTAAGAT-A
*
2371362 AAATAAGATATATTTTTAAAAGTTAAGATA
1 AAATAAAATATATTTTT--AAGTTAAGATA
* *
2371392 AAATAAAATATATTTTTAACTTATGATA
1 AAATAAAATATATTTTTAAGTTAAGATA
*
2371420 AAATTAAAATATATTTTTAAGTTAAAATA
1 AAA-TAAAATATATTTTTAAGTTAAGATA
2371449 AAATA
1 AAATA
2371454 TATTTTTATA
Statistics
Matches: 143, Mismatches: 33, Indels: 14
0.75 0.17 0.07
Matches are distributed among these distances:
28 15 0.10
29 37 0.26
30 80 0.56
31 11 0.08
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (28 bp):
AAATAAAATATATTTTTAAGTTAAGATA
Found at i:2371452 original size:23 final size:23
Alignment explanation
Indices: 2371384--2371461 Score: 93
Period size: 23 Copynumber: 3.1 Consensus size: 23
2371374 TTTTTAAAAG
2371384 TTAAGATAAAATAAAATATATTT
1 TTAAGATAAAATAAAATATATTT
2371407 TTAACTTATGATAAAATTAAAATATATTT
1 TT-A---A-GATAAAA-TAAAATATATTT
*
2371436 TTAAGTTAAAATAAAATATATTT
1 TTAAGATAAAATAAAATATATTT
2371459 TTA
1 TTA
2371462 TATTAAGACA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
23 17 0.35
24 7 0.15
25 1 0.02
27 1 0.02
28 8 0.17
29 14 0.29
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (23 bp):
TTAAGATAAAATAAAATATATTT
Found at i:2371480 original size:52 final size:53
Alignment explanation
Indices: 2371384--2371531 Score: 151
Period size: 52 Copynumber: 2.8 Consensus size: 53
2371374 TTTTTAAAAG
* * * *
2371384 TTAAGATAAAATAAAATATATTTTTA-ACTTATGATAAAATTAAAATATATTT-
1 TTAAGTTAAAATAAAATATATTTTTATA-TTAAGACAAAATTAAAATAGATTTA
2371436 TTAAGTTAAAATAAAATATATTTTTATATTAAGACAATAA-TAAAATAGATTTA
1 TTAAGTTAAAATAAAATATATTTTTATATTAAGACAA-AATTAAAATAGATTTA
* * * * *
2371489 ATAATTTAAAATAAAAAAATATTCTTAATATTAATA-AAAATTA
1 TTAAGTTAAAAT-AAAATATATT-TTTATATTAAGACAAAATTA
2371532 GTTGACCCTA
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
52 43 0.53
53 15 0.19
54 13 0.16
55 10 0.12
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (53 bp):
TTAAGTTAAAATAAAATATATTTTTATATTAAGACAAAATTAAAATAGATTTA
Found at i:2372894 original size:23 final size:23
Alignment explanation
Indices: 2372858--2372912 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
2372848 AGAGAATAAG
* * *
2372858 ATTTAATTTTATTTTAATT-TTT
1 ATTTAAATTAATTTAAATTATTT
*
2372880 AGTTTGAATTAATTTAAATTATTT
1 A-TTTAAATTAATTTAAATTATTT
2372904 ATTTAAATT
1 ATTTAAATT
2372913 TTAAATAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 1 0.04
23 21 0.81
24 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
ATTTAAATTAATTTAAATTATTT
Found at i:2375452 original size:2 final size:2
Alignment explanation
Indices: 2375447--2375476 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2375437 AAAAAGAAGA
2375447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2375477 TCAAAGGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2378159 original size:2 final size:2
Alignment explanation
Indices: 2378152--2378195 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2378142 ATAATTTTAG
2378152 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2378194 AT
1 AT
2378196 TGAATTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2380407 original size:13 final size:13
Alignment explanation
Indices: 2380389--2380417 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2380379 CCCGGTGTAA
2380389 CTCCTCACATCTC
1 CTCCTCACATCTC
2380402 CTCCTCACATCTC
1 CTCCTCACATCTC
2380415 CTC
1 CTC
2380418 TCTATTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.55, G:0.00, T:0.31
Consensus pattern (13 bp):
CTCCTCACATCTC
Found at i:2385373 original size:17 final size:17
Alignment explanation
Indices: 2385312--2385383 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
2385302 ATATAGAAAT
* *
2385312 ATAAGTTCAAACTATCC
1 ATAAATTCAAACAATCC
* *
2385329 ATAAATCCAAACAAATTC
1 ATAAATTCAAAC-AATCC
*
2385347 --AAAGTCAAACAATCC
1 ATAAATTCAAACAATCC
*
2385362 ATAAATTCAAACATTCC
1 ATAAATTCAAACAATCC
2385379 A-AAAT
1 ATAAAT
2385384 ATCCAAAATG
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
15 4 0.09
16 12 0.28
17 24 0.56
18 3 0.07
ACGTcount: A:0.51, C:0.22, G:0.03, T:0.24
Consensus pattern (17 bp):
ATAAATTCAAACAATCC
Found at i:2385669 original size:18 final size:18
Alignment explanation
Indices: 2385648--2385686 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2385638 GCATTTGATA
*
2385648 CTCTGGACGAGGTTGTTC
1 CTCTGGACGAGCTTGTTC
* *
2385666 CTCTGGAGGTGCTTGTTC
1 CTCTGGACGAGCTTGTTC
2385684 CTC
1 CTC
2385687 GTACTACTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.26, G:0.31, T:0.36
Consensus pattern (18 bp):
CTCTGGACGAGCTTGTTC
Found at i:2387329 original size:22 final size:23
Alignment explanation
Indices: 2387256--2387347 Score: 89
Period size: 23 Copynumber: 4.0 Consensus size: 23
2387246 ACAAAACCCC
* * *
2387256 AGGGGGGTATCGATTCCTCTAC-
1 AGGGGGGAATCGATTCCCCTTCA
* *
2387278 AGAGGAGAATC-AGTTCCCCTTCA
1 AGGGGGGAATCGA-TTCCCCTTCA
*
2387301 AAGGGGGAATCGATTCCCCTTCA
1 AGGGGGGAATCGATTCCCCTTCA
*
2387324 AGGGGGGTATCGATTCCCTCTTCA
1 AGGGGGGAATCGATTCCC-CTTCA
2387348 CCAAAACTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.02
22 15 0.27
23 34 0.61
24 6 0.11
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (23 bp):
AGGGGGGAATCGATTCCCCTTCA
Found at i:2393513 original size:14 final size:14
Alignment explanation
Indices: 2393494--2393526 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2393484 TTAAATGATA
2393494 AATAAAAAAAGTAT
1 AATAAAAAAAGTAT
*
2393508 AAT-AAAAAAGTCT
1 AATAAAAAAAGTAT
2393521 AATAAA
1 AATAAA
2393527 CAACTACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (14 bp):
AATAAAAAAAGTAT
Found at i:2393516 original size:13 final size:13
Alignment explanation
Indices: 2393498--2393567 Score: 56
Period size: 13 Copynumber: 5.5 Consensus size: 13
2393488 ATGATAAATA
2393498 AAAAAAGTATAAT
1 AAAAAAGTATAAT
*
2393511 AAAAAAGTCTAAT
1 AAAAAAGTATAAT
* * *
2393524 AAACAACTACAAT
1 AAAAAAGTATAAT
2393537 -AAAAAGTACTAA-
1 AAAAAAGTA-TAAT
*
2393549 ATACAAA-TATAAT
1 A-AAAAAGTATAAT
2393562 AAAAAA
1 AAAAAA
2393568 ACAAAATCTA
Statistics
Matches: 43, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
12 13 0.30
13 26 0.60
14 4 0.09
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.20
Consensus pattern (13 bp):
AAAAAAGTATAAT
Found at i:2393539 original size:26 final size:26
Alignment explanation
Indices: 2393508--2393567 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
2393498 AAAAAAGTAT
*
2393508 AATAAAAAAGT-CTAATAAACAACTAC
1 AATAAAAAAGTACTAA-AAACAAATAC
* *
2393534 AAT-AAAAAGTACTAAATACAAATAT
1 AATAAAAAAGTACTAAAAACAAATAC
2393559 AATAAAAAA
1 AATAAAAAA
2393568 ACAAAATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.20
Consensus pattern (26 bp):
AATAAAAAAGTACTAAAAACAAATAC
Found at i:2393554 original size:25 final size:25
Alignment explanation
Indices: 2393494--2393566 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
2393484 TTAAATGATA
* *
2393494 AATAAAAAAAGTATAATAAAAAAGTCT
1 AATAAACAAA-TACAAT-AAAAAGTCT
*
2393521 AATAAACAACTACAATAAAAAGTACT
1 AATAAACAAATACAATAAAAAGT-CT
* *
2393547 AA-ATACAAATATAATAAAAA
1 AATAAACAAATACAATAAAAA
2393567 AACAAAATCT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 22 0.56
26 9 0.23
27 8 0.21
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.21
Consensus pattern (25 bp):
AATAAACAAATACAATAAAAAGTCT
Found at i:2395676 original size:16 final size:16
Alignment explanation
Indices: 2395651--2395683 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2395641 CTGCAAAAAA
*
2395651 ATTAATTAAATTAAAT
1 ATTAAATAAATTAAAT
2395667 ATTAAATAAATTAAAT
1 ATTAAATAAATTAAAT
2395683 A
1 A
2395684 CAAAATACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:2395689 original size:16 final size:16
Alignment explanation
Indices: 2395657--2395690 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2395647 AAAAATTAAT
**
2395657 TAAATTAAATATTAAA
1 TAAATTAAATACAAAA
2395673 TAAATTAAATACAAAA
1 TAAATTAAATACAAAA
2395689 TA
1 TA
2395691 CTAAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAATTAAATACAAAA
Found at i:2413103 original size:21 final size:21
Alignment explanation
Indices: 2413077--2413116 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2413067 CCCCCTTTGA
*
2413077 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
2413098 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
2413117 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:2417266 original size:27 final size:27
Alignment explanation
Indices: 2417214--2417268 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
2417204 ATATTTTTAG
* *
2417214 ATAATTAATATAAAAATTATATTATTT
1 ATAATTAAAATAAAAATGATATTATTT
*
2417241 ATAATTAAAATAATACATGATA-TATTT
1 ATAATTAAAATAA-AAATGATATTATTT
2417268 A
1 A
2417269 CTATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
ATAATTAAAATAAAAATGATATTATTT
Found at i:2417576 original size:18 final size:19
Alignment explanation
Indices: 2417553--2417595 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
2417543 CCAGTAACAT
2417553 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
* *
2417571 ATTCCCACTGTTAATCTTAT
1 ATT-CCACTGGTAATCTTAC
2417591 ATTCC
1 ATTCC
2417596 GTGAACCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 4 0.19
20 14 0.67
ACGTcount: A:0.23, C:0.28, G:0.07, T:0.42
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:2424212 original size:65 final size:65
Alignment explanation
Indices: 2424080--2424239 Score: 236
Period size: 65 Copynumber: 2.5 Consensus size: 65
2424070 TGCACTAAGA
* *
2424080 GTGCACCGATGCATGAAGTGCATTCGATG-TTTCAAACAAGCCCGAGTGCATCGATGCATGGTCT
1 GTGCACCGATGCATGAAATGCATTCGATGTTTTCAAACAAGCCCGAGTGCATCGATGCATGGTAT
*
2424144 GTGCATCGATGCATGAAATGCATTCGATGTTTTCATAA-AA-CCCTGAGTGCATCGATGCATGGT
1 GTGCACCGATGCATGAAATGCATTCGATGTTTTCA-AACAAGCCC-GAGTGCATCGATGCATGGT
2424207 AT
64 AT
* *
2424209 GTGCACCGATGCATAAAATACATTCGATGTT
1 GTGCACCGATGCATGAAATGCATTCGATGTT
2424240 CAATTTATTC
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
64 30 0.34
65 55 0.63
66 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (65 bp):
GTGCACCGATGCATGAAATGCATTCGATGTTTTCAAACAAGCCCGAGTGCATCGATGCATGGTAT
Found at i:2426857 original size:21 final size:22
Alignment explanation
Indices: 2426795--2426876 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 22
2426785 GCATGGCCTT
2426795 GTGCATCGATGCACATTCAATGA
1 GTGCATCGATGCACATTC-ATGA
* *
2426818 GTGCATC-AGTGTACCTTCATG-
1 GTGCATCGA-TGCACATTCATGA
* * *
2426839 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-ATGA
2426862 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
2426877 TATTAAGTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
21 13 0.28
22 7 0.15
23 15 0.32
24 12 0.26
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACATTCATGA
Found at i:2432462 original size:10 final size:10
Alignment explanation
Indices: 2432447--2432471 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2432437 CACTTGATTC
2432447 TTGTTTCTTG
1 TTGTTTCTTG
2432457 TTGTTTCTTG
1 TTGTTTCTTG
2432467 TTGTT
1 TTGTT
2432472 GATCAATGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.20, T:0.72
Consensus pattern (10 bp):
TTGTTTCTTG
Found at i:2432792 original size:44 final size:45
Alignment explanation
Indices: 2432687--2432792 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
2432677 GGTGCACTAA
* * *
2432687 GAGTGCACCGATGCATGAAGTGCATTCGATGTTTCAAACAAGCCC
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAACAAGCCC
2432732 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA-CCC
1 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AACAAGCCC
*
2432777 -TGTGCATCGATGCATA
1 GAGTGCATCGATGCATA
2432793 GTATGTGCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
44 15 0.27
45 31 0.56
46 7 0.13
47 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (45 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAACAAGCCC
Found at i:2442627 original size:29 final size:29
Alignment explanation
Indices: 2442593--2442651 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
2442583 CCTAAATTAA
2442593 TTTGATATCATTGCTTACATCAATTTAGT
1 TTTGATATCATTGCTTACATCAATTTAGT
*
2442622 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATATCATTGCTTACATCAATTTAGT
2442651 T
1 T
2442652 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (29 bp):
TTTGATATCATTGCTTACATCAATTTAGT
Found at i:2443633 original size:17 final size:17
Alignment explanation
Indices: 2443611--2443668 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
2443601 AAAGGAACAT
2443611 AAGCAAAACCAATAACC
1 AAGCAAAACCAATAACC
** *
2443628 AAGCAAAA--AGGAACAT
1 AAGCAAAACCAATAAC-C
2443644 AAGCAAAACCAATAACC
1 AAGCAAAACCAATAACC
*
2443661 AGGCAAAA
1 AAGCAAAA
2443669 AAGTCGAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
15 4 0.13
16 8 0.26
17 15 0.48
18 4 0.13
ACGTcount: A:0.60, C:0.22, G:0.12, T:0.05
Consensus pattern (17 bp):
AAGCAAAACCAATAACC
Found at i:2443643 original size:33 final size:33
Alignment explanation
Indices: 2443601--2443669 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
2443591 TATTATCCCC
2443601 AAAGGAACATAAGCAAAACCAATAACCAAGCAA
1 AAAGGAACATAAGCAAAACCAATAACCAAGCAA
*
2443634 AAAGGAACATAAGCAAAACCAATAACCAGGCAA
1 AAAGGAACATAAGCAAAACCAATAACCAAGCAA
2443667 AAA
1 AAA
2443670 AGTCGAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.61, C:0.20, G:0.13, T:0.06
Consensus pattern (33 bp):
AAAGGAACATAAGCAAAACCAATAACCAAGCAA
Found at i:2443649 original size:16 final size:16
Alignment explanation
Indices: 2443601--2443651 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
2443591 TATTATCCCC
2443601 AAAGGAACATAAGCAA
1 AAAGGAACATAAGCAA
** *
2443617 AACCAATAAC-CAAGCAA
1 AA--AGGAACATAAGCAA
2443634 AAAGGAACATAAGCAA
1 AAAGGAACATAAGCAA
2443650 AA
1 AA
2443652 CCAATAACCA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
15 4 0.15
16 10 0.38
17 8 0.31
18 4 0.15
ACGTcount: A:0.63, C:0.18, G:0.14, T:0.06
Consensus pattern (16 bp):
AAAGGAACATAAGCAA
Found at i:2446224 original size:6 final size:6
Alignment explanation
Indices: 2446215--2446240 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2446205 ACACATTACA
2446215 CAAAAT CAAAAT CAAAAT CAAAAT CA
1 CAAAAT CAAAAT CAAAAT CAAAAT CA
2446241 TGTAATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.15
Consensus pattern (6 bp):
CAAAAT
Found at i:2451583 original size:2 final size:2
Alignment explanation
Indices: 2451576--2451612 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2451566 GTAAATTACA
2451576 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2451613 ATTATGGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2454491 original size:2 final size:2
Alignment explanation
Indices: 2454484--2454570 Score: 167
Period size: 2 Copynumber: 44.0 Consensus size: 2
2454474 TTTTAATTTG
2454484 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2454526 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2454567 AT AT
1 AT AT
2454571 GTACGAAGAA
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 83 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2454692 original size:24 final size:22
Alignment explanation
Indices: 2454654--2454715 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 22
2454644 ATAATATAGT
*
2454654 TATATATA-TAATATATTTATG
1 TATATATATTATTATATTTATG
2454675 CATATATATATTATTATATTTATG
1 --TATATATATTATTATATTTATG
2454699 TATATATATTATATATA
1 TATATATATTAT-TATA
2454716 AATATATACA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 12 0.33
23 12 0.33
24 12 0.33
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (22 bp):
TATATATATTATTATATTTATG
Found at i:2454721 original size:19 final size:19
Alignment explanation
Indices: 2454484--2454723 Score: 166
Period size: 18 Copynumber: 12.7 Consensus size: 19
2454474 TTTTAATTTG
2454484 ATATATATATATATA-TAT
1 ATATATATATATATATTAT
2454502 ATATATATATATATA-TAT
1 ATATATATATATATATTAT
2454520 ATATATATATATATA-TAT
1 ATATATATATATATATTAT
2454538 ATA-ATATATATATA-TAT
1 ATATATATATATATATTAT
*
2454555 ATATATATATATATATGTACG
1 ATATATATATATATAT-TA-T
* * *
2454576 A-AGA-ATGT-TATGTTAAAT
1 ATATATATATATATATT--AT
* *
2454594 GTATATATAATATACATTAT
1 ATATATAT-ATATATATTAT
2454614 ACT-TATGA-ATCCATAATACTTAT
1 A-TATAT-ATAT--AT-ATA-TTAT
2454637 CATATATATA-ATATAGTTAT
1 -ATATATATATATATA-TTAT
2454657 ATATATA-ATATAT-TTAT
1 ATATATATATATATATTAT
**
2454674 GCATATATATAT-TATTAT
1 ATATATATATATATATTAT
* *
2454692 ATTTATGTATATATATTAT
1 ATATATATATATATATTAT
*
2454711 ATATAAATATATA
1 ATATATATATATA
2454724 CACATATATA
Statistics
Matches: 177, Mismatches: 22, Indels: 45
0.73 0.09 0.18
Matches are distributed among these distances:
17 28 0.16
18 71 0.40
19 35 0.20
20 18 0.10
21 8 0.05
22 6 0.03
23 6 0.03
24 5 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (19 bp):
ATATATATATATATATTAT
Found at i:2454748 original size:2 final size:2
Alignment explanation
Indices: 2454638--2454733 Score: 69
Period size: 2 Copynumber: 50.5 Consensus size: 2
2454628 AATACTTATC
* **
2454638 AT AT AT AT A- AT AT AGT -T AT AT AT AT A- AT AT AT TT AT GC AT
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
2454678 AT AT AT AT -T AT -T AT AT TT AT GT AT AT AT AT -T AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
2454717 AT AT AT AC AC AT AT AT A
1 AT AT AT AT AT AT AT AT A
2454734 AGTGTGTGCA
Statistics
Matches: 73, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
1 6 0.08
2 66 0.90
3 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2454790 original size:22 final size:22
Alignment explanation
Indices: 2454760--2454805 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
2454750 TAAGTTTATG
2454760 GTGTATGTATATAAATATATAT
1 GTGTATGTATATAAATATATAT
* *
2454782 GTGTGTGTATATATATATATAT
1 GTGTATGTATATAAATATATAT
2454804 GT
1 GT
2454806 AAGTAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (22 bp):
GTGTATGTATATAAATATATAT
Found at i:2454912 original size:10 final size:10
Alignment explanation
Indices: 2454893--2454932 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
2454883 ATAAGTATTA
*
2454893 ATATAAATAT
1 ATATACATAT
*
2454903 ATATGCATAT
1 ATATACATAT
*
2454913 ATATATATAT
1 ATATACATAT
2454923 ATATACATAT
1 ATATACATAT
2454933 GATGTATGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (10 bp):
ATATACATAT
Found at i:2454954 original size:15 final size:14
Alignment explanation
Indices: 2454934--2454978 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
2454924 TATACATATG
2454934 ATGTATGTATTATAC
1 ATGTATGTA-TATAC
* *
2454949 ATGTATATATGTAC
1 ATGTATGTATATAC
2454963 AT-TATGTATATAC
1 ATGTATGTATATAC
2454976 ATG
1 ATG
2454979 GATTGTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
13 11 0.44
14 6 0.24
15 8 0.32
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (14 bp):
ATGTATGTATATAC
Found at i:2455436 original size:12 final size:12
Alignment explanation
Indices: 2455421--2455455 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
2455411 CAATTCTCGG
2455421 CCCAATACCCGA
1 CCCAATACCCGA
2455433 CCCAATACCCGA
1 CCCAATACCCGA
*
2455445 CCTAATACCCG
1 CCCAATACCCG
2455456 TTTAAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.49, G:0.09, T:0.11
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:2455898 original size:18 final size:18
Alignment explanation
Indices: 2455872--2455906 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2455862 TATAAATGCA
2455872 AAATATCATAACTTCATT
1 AAATATCATAACTTCATT
*
2455890 AAATTTCATAACTTCAT
1 AAATATCATAACTTCAT
2455907 CGATTATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATCATAACTTCATT
Found at i:2455946 original size:41 final size:41
Alignment explanation
Indices: 2455901--2455982 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
2455891 AATTTCATAA
2455901 CTTCATC-GATTATAACTTATAAGTCAGGTAAATATCAAGTC
1 CTTCATCAG-TTATAACTTATAAGTCAGGTAAATATCAAGTC
*
2455942 CTTCATCAGTTATAACTTATAAGTCAGGTAAATATTAAGTC
1 CTTCATCAGTTATAACTTATAAGTCAGGTAAATATCAAGTC
2455983 AGTTAAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 38 0.97
42 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (41 bp):
CTTCATCAGTTATAACTTATAAGTCAGGTAAATATCAAGTC
Found at i:2455982 original size:16 final size:16
Alignment explanation
Indices: 2455960--2455998 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
2455950 GTTATAACTT
2455960 ATAAGTCAGGTAAATA
1 ATAAGTCAGGTAAATA
* *
2455976 TTAAGTCAGTTAAATA
1 ATAAGTCAGGTAAATA
2455992 ATAAGTC
1 ATAAGTC
2455999 GACTTATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (16 bp):
ATAAGTCAGGTAAATA
Found at i:2456043 original size:16 final size:16
Alignment explanation
Indices: 2456024--2456058 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2456014 TGAGTCAATT
2456024 ACATGTCAGGTTCATA
1 ACATGTCAGGTTCATA
* *
2456040 ACATGTCAGTTTGATA
1 ACATGTCAGGTTCATA
2456056 ACA
1 ACA
2456059 AGTAGGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (16 bp):
ACATGTCAGGTTCATA
Found at i:2458512 original size:37 final size:36
Alignment explanation
Indices: 2458453--2458606 Score: 183
Period size: 35 Copynumber: 4.3 Consensus size: 36
2458443 ATCCCATTAT
* *
2458453 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
2458489 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
2458525 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
****
2458560 CATTTTTTCAAAG--TTGGTTACCAAAC-TTGAAAAC
1 CA-TTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
2458594 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
2458607 TTGGTTACCA
Statistics
Matches: 107, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
34 21 0.20
35 44 0.41
36 13 0.12
37 29 0.27
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:2458528 original size:21 final size:21
Alignment explanation
Indices: 2458504--2458564 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
2458494 TTCAAAGAAA
2458504 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
2458525 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
2458539 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
2458560 CATTT
1 CATTT
2458565 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:2458595 original size:34 final size:34
Alignment explanation
Indices: 2458542--2458633 Score: 175
Period size: 34 Copynumber: 2.7 Consensus size: 34
2458532 AAAGAAACAT
2458542 TTACCAAACTTTGAAAACCATTTTTTCAAAGTTGG
1 TTACCAAAC-TTGAAAACCATTTTTTCAAAGTTGG
2458577 TTACCAAACTTGAAAACCATTTTTTCAAAGTTGG
1 TTACCAAACTTGAAAACCATTTTTTCAAAGTTGG
2458611 TTACCAAACTTGAAAACCATTTT
1 TTACCAAACTTGAAAACCATTTT
2458634 AATACTTTCA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 48 0.84
35 9 0.16
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (34 bp):
TTACCAAACTTGAAAACCATTTTTTCAAAGTTGG
Found at i:2463177 original size:21 final size:21
Alignment explanation
Indices: 2463153--2463213 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
2463143 TTCAAAGAAA
2463153 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
2463174 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
2463188 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
2463209 CATTT
1 CATTT
2463214 TTTTCAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:2463187 original size:35 final size:35
Alignment explanation
Indices: 2463105--2463214 Score: 168
Period size: 35 Copynumber: 3.1 Consensus size: 35
2463095 CCATTATCAT
* * *
2463105 TTTTC-AACAAACATATACCAAACTTTGAAAAACTA
1 TTTTCAAAGAAACATTTACCAAACTTTG-AAAACCA
2463140 TTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
2463176 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
2463211 TTTT
1 TTTT
2463215 TTTCAAAGTT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 39 0.56
36 11 0.16
37 20 0.29
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.32
Consensus pattern (35 bp):
TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
Found at i:2469182 original size:3 final size:3
Alignment explanation
Indices: 2469174--2469226 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
2469164 CAGATTCCAG
2469174 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2469222 ATA AT
1 ATA AT
2469227 TACCATTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2473048 original size:14 final size:14
Alignment explanation
Indices: 2473029--2473057 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2473019 GATATTTCTT
2473029 CATTTATAGGAAAA
1 CATTTATAGGAAAA
2473043 CATTTATAGGAAAA
1 CATTTATAGGAAAA
2473057 C
1 C
2473058 GAGTCAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (14 bp):
CATTTATAGGAAAA
Found at i:2475144 original size:12 final size:13
Alignment explanation
Indices: 2475127--2475155 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2475117 CTTAATTGCA
2475127 AAAATTAAAA-TT
1 AAAATTAAAATTT
2475139 AAAATTAAAATTT
1 AAAATTAAAATTT
2475152 AAAA
1 AAAA
2475156 ATTCGATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:2486239 original size:13 final size:13
Alignment explanation
Indices: 2486238--2486311 Score: 85
Period size: 13 Copynumber: 5.3 Consensus size: 13
2486228 CCGTTGACCC
*
2486238 GACCCGACCCATT
1 GACCCGACCCGTT
*
2486251 TACCCGACCCGTT
1 GACCCGACCCGTT
2486264 GACCCGACCCGTT
1 GACCCGACCCGTT
2486277 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
2486295 GACCCGACCCGTT
1 GACCCGACCCGTT
2486308 GACC
1 GACC
2486312 GTTGACCGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
13 40 0.75
18 13 0.25
ACGTcount: A:0.18, C:0.47, G:0.20, T:0.15
Consensus pattern (13 bp):
GACCCGACCCGTT
Done.