Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 269 of 378
Found at i:80731576 original size:45 final size:44
Alignment explanation
Indices: 80731464--80731576 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 44
80731454 TACGTCTAAG
* * * *
80731464 AATGAGTAAGACCATAGTTGAAAGATGCTATGGCGTCATGATAA
1 AATGAGTAAGAACATAGTTGAAAGATGCTAAGGCATCATGACAA
* * *
80731508 AATTGAGTAAGAACATAGCTGAAAGATGGTAAGGCATTATGACAGA
1 AA-TGAGTAAGAACATAGTTGAAAGATGCTAAGGCATCATGACA-A
* * *
80731554 AATGACTAAGATCATCGTTGAAA
1 AATGAGTAAGAACATAGTTGAAA
80731577 AACACCATGA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 2 0.04
45 51 0.91
46 3 0.05
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (44 bp):
AATGAGTAAGAACATAGTTGAAAGATGCTAAGGCATCATGACAA
Found at i:80732810 original size:27 final size:28
Alignment explanation
Indices: 80732765--80732834 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
80732755 TTTAGAGTAC
* **
80732765 ACCATAAAGGTTTTTTTTTCA-TAGATA
1 ACCATAAAGGCTTCATTTTCAGTAGATA
* *
80732792 ACCATAAAGGCTTCATTTTTAGTAGATC
1 ACCATAAAGGCTTCATTTTCAGTAGATA
* *
80732820 CCCACAAAGGCTTCA
1 ACCATAAAGGCTTCA
80732835 CCATAAAGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
27 17 0.49
28 18 0.51
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (28 bp):
ACCATAAAGGCTTCATTTTCAGTAGATA
Found at i:80738139 original size:27 final size:26
Alignment explanation
Indices: 80738104--80738215 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
80738094 AGCATGGCTG
* *
80738104 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
80738130 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
80738158 CCAGAACAGAAATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
80738185 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
80738212 CCAG
1 CCAG
80738216 GACACTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:80739658 original size:24 final size:24
Alignment explanation
Indices: 80739631--80739701 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
80739621 CTAGATTTCC
**
80739631 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
80739655 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
80739679 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
80739702 CTCCTGAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:80743703 original size:40 final size:39
Alignment explanation
Indices: 80743620--80743811 Score: 154
Period size: 40 Copynumber: 4.8 Consensus size: 39
80743610 TTGAATGATG
* * * * *
80743620 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
80743660 TCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
80743700 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
80743739 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGGTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
** * *
80743780 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
80743812 CGTTATATCC
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 33 0.26
40 84 0.67
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:80743765 original size:79 final size:81
Alignment explanation
Indices: 80743620--80743811 Score: 223
Period size: 79 Copynumber: 2.4 Consensus size: 81
80743610 TTGAATGATG
* * * *
80743620 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
80743684 CGTGCGAGTTAATA-AA
65 CGTGCGAGGTAATATAA
* **
80743700 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
80743763 CGTGCGAGGTACTATAA
65 CGTGCGAGGTAATATAA
** *
80743780 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
80743812 CGTTATATCC
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.57
80 40 0.42
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGGTAATATAA
Found at i:80748201 original size:93 final size:93
Alignment explanation
Indices: 80748089--80748259 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
80748079 GCCCATAAGT
* *
80748089 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
80748154 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
80748182 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
80748247 CGAGTTCGGATGC
66 CGAGTTCGGATGC
80748260 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:80748256 original size:46 final size:46
Alignment explanation
Indices: 80748081--80748256 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
80748071 TGTAACCCGC
* * *
80748081 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
80748127 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
80748177 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
80748220 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
80748257 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:80750976 original size:27 final size:26
Alignment explanation
Indices: 80750939--80751047 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
80750929 AGCATGGCTG
* *
80750939 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
80750965 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
80750993 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
80751020 TCAGATCAGATAATTATGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
80751047 C
1 C
80751048 TAGGACGCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
26 6 0.09
27 47 0.67
28 17 0.24
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:80751030 original size:54 final size:54
Alignment explanation
Indices: 80750939--80751047 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
80750929 AGCATGGCTG
* * *
80750939 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
* * * *
80750993 CCAGAACAGAAATATGTGGCAGAGCCATCAGAT-CAGATAATTATGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
80751047 C
1 C
80751048 TAGGACGCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
Found at i:80752494 original size:24 final size:24
Alignment explanation
Indices: 80752467--80752513 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
80752457 CTAGATTTCC
**
80752467 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
80752491 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
80752514 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:80761088 original size:43 final size:42
Alignment explanation
Indices: 80761000--80761104 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 42
80760990 AAGTACACGG
* * ** * *
80761000 GTAAGACCACGTCTAGGACGTTGGCATCGTATTTGATTTCGT
1 GTAAGACTACGTCTGGGACAATGACATCGTATTTGATTTCAT
*
80761042 GTAAGACCT-TGTCTGGGACAATGACATCGATATTTGATTAT-AT
1 GTAAGA-CTACGTCTGGGACAATGACATCG-TATTTGATT-TCAT
80761085 GTAAGACTACGTCTGGGACA
1 GTAAGACTACGTCTGGGACA
80761105 TTGGCATTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
42 23 0.45
43 27 0.53
44 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (42 bp):
GTAAGACTACGTCTGGGACAATGACATCGTATTTGATTTCAT
Found at i:80763616 original size:24 final size:24
Alignment explanation
Indices: 80763589--80763651 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
80763579 CTTATTATGT
*
80763589 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
80763613 TCGCACAGATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
80763637 TTGCACACATAGTGC
1 TCGCACACATAGTGC
80763652 ATTTGAGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:80770473 original size:46 final size:46
Alignment explanation
Indices: 80770389--80770548 Score: 154
Period size: 46 Copynumber: 3.5 Consensus size: 46
80770379 CCGATCCGTG
* * *
80770389 TCCCAGACATGGTCTTACACTAAC--ACATCTCGTAGCCGATGCATT
1 TCCCAGACATGGTCTTACACTGACTTACGTCTCG-AGCCGATGCATA
*
80770434 TCCCATACAT-GTCTTACACTGACTTACGTCTCGAGGCCGATGCATA
1 TCCCAGACATGGTCTTACACTGACTTACGTCTCGA-GCCGATGCATA
* *
80770480 TCCCAGACAT-GTCTTACACTAGCACTT--GTCTCAATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACT-G-ACTTACGTCTCGA-GCCGATG-CATA
80770527 TCCCTA-ACATGGTCTTACACTG
1 TCCC-AGACATGGTCTTACACTG
80770549 GCTCTCATTA
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
44 12 0.12
45 10 0.10
46 49 0.49
47 13 0.13
48 15 0.15
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGGTCTTACACTGACTTACGTCTCGAGCCGATGCATA
Found at i:80775420 original size:40 final size:40
Alignment explanation
Indices: 80775361--80775440 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
80775351 TCTGCTAAGA
*
80775361 TTGACCCATCATCAGACAATGCTAACCCCATTGTGACACC
1 TTGACCCATCATCAAACAATGCTAACCCCATTGTGACACC
80775401 TTGACCCATCATCAAACAATGCTAACCCCATTGTGACACC
1 TTGACCCATCATCAAACAATGCTAACCCCATTGTGACACC
80775441 CCTAATGTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.31, C:0.35, G:0.11, T:0.23
Consensus pattern (40 bp):
TTGACCCATCATCAAACAATGCTAACCCCATTGTGACACC
Found at i:80777805 original size:49 final size:49
Alignment explanation
Indices: 80777750--80778209 Score: 821
Period size: 49 Copynumber: 9.4 Consensus size: 49
80777740 TATTAAAATT
*
80777750 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
80777799 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
80777848 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
80777897 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
80777946 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
80777995 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
80778044 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
80778093 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
80778142 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
80778191 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTATATATAT
80778210 ATGTGGTAAA
Statistics
Matches: 395, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 395 1.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:80779824 original size:28 final size:29
Alignment explanation
Indices: 80779765--80779830 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
80779755 TTATCATTTA
* * *
80779765 TTTCACAACTTAACCCCTCAATTTACATT
1 TTTCTCAAATTAACCCCTCAATTGACATT
* *
80779794 TTTCTCAAATTAATCCCT-AATTGACTTT
1 TTTCTCAAATTAACCCCTCAATTGACATT
*
80779822 TTTGTCAAA
1 TTTCTCAAA
80779831 AATCACTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.30, C:0.24, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTCTCAAATTAACCCCTCAATTGACATT
Found at i:80781693 original size:36 final size:35
Alignment explanation
Indices: 80781606--80781700 Score: 118
Period size: 36 Copynumber: 2.7 Consensus size: 35
80781596 AATATTTTGG
* * * *
80781606 TTCGCATGTTAAGCATGCTATTAATTTGATTTTGA
1 TTCGCATGTTAAGCATGCAATTATTTTCATTCTGA
* *
80781641 CTCGCATGTTAAGCATGCCATTATTTCTCATTCTGA
1 TTCGCATGTTAAGCATGCAATTATTT-TCATTCTGA
*
80781677 TTCGCATGTTAGGCATGCAATTAT
1 TTCGCATGTTAAGCATGCAATTAT
80781701 GTTAAATCGA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 23 0.45
36 28 0.55
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (35 bp):
TTCGCATGTTAAGCATGCAATTATTTTCATTCTGA
Found at i:80784235 original size:30 final size:30
Alignment explanation
Indices: 80784199--80784299 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
80784189 GACAAGATTG
* * *
80784199 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
80784229 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
80784257 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
80784286 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
80784300 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:80784311 original size:29 final size:28
Alignment explanation
Indices: 80784228--80784303 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
80784218 AAAATTGTAC
* *
80784228 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
80784256 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
80784285 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
80784304 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:80791689 original size:30 final size:30
Alignment explanation
Indices: 80791653--80791753 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
80791643 GACAAGATTG
* * *
80791653 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
80791683 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
80791711 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
80791740 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
80791754 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:80791765 original size:29 final size:28
Alignment explanation
Indices: 80791682--80791757 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
80791672 AAAATTGTAC
* *
80791682 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
80791710 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
80791739 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
80791758 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:80797584 original size:46 final size:45
Alignment explanation
Indices: 80797514--80797684 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 45
80797504 GGGGTCAGGT
* *
80797514 GCCGATGCATGTCCCAAACATGTCTTCCACTGGCTTACGTCTTAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTTAAG
* * * *
80797560 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTTAAG
* * ** *
80797606 GCCGATGCCATGGT-CTAGACATGGTCTTACACTGGCTCTCATGATATG
1 GCCGATG-CAT-GTCCCAGACAT-GTCTTACACTGGCT-TCGTCTTAAG
80797654 GCCGATGCATG-CCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCC-AGACATGTCTTACACT
80797685 AGCTCACACA
Statistics
Matches: 102, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
46 56 0.55
47 20 0.20
48 26 0.25
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTTAAG
Found at i:80800574 original size:29 final size:29
Alignment explanation
Indices: 80800542--80800619 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
80800532 ATACCCTCCG
** *
80800542 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
80800571 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
80800600 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
80800620 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:80803839 original size:64 final size:64
Alignment explanation
Indices: 80803758--80803938 Score: 192
Period size: 64 Copynumber: 2.8 Consensus size: 64
80803748 AGACATTATG
* * *
80803758 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
80803822 ATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTAGA-AA-AGAGCTACGAGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGATA
80803885 A
64 A
* * *
80803886 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
80803939 CAACTATATG
Statistics
Matches: 95, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
60 1 0.01
61 10 0.11
62 3 0.03
63 24 0.25
64 40 0.42
65 4 0.04
66 13 0.14
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:80808190 original size:68 final size:66
Alignment explanation
Indices: 80808118--80808288 Score: 177
Period size: 66 Copynumber: 2.6 Consensus size: 66
80808108 CATCATGTGT
* * * *
80808118 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
80808181 TGTAG
62 TGTAG
** * *
80808186 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTA
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
80808251 G
66 G
* * * *
80808252 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
80808289 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
64 24 0.27
65 18 0.20
66 34 0.38
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:80808223 original size:64 final size:64
Alignment explanation
Indices: 80808142--80808324 Score: 210
Period size: 66 Copynumber: 2.8 Consensus size: 64
80808132 AGACATTATG
* * *
80808142 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
80808206 ATGTAGCTAGGTCGCATGCGTGGTTCCAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGATA
80808271 A
64 A
* * *
80808272 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
80808325 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
65 21 0.21
66 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:80812555 original size:68 final size:66
Alignment explanation
Indices: 80812483--80812654 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
80812473 CATCATGTGT
* * * *
80812483 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
80812546 TGTAG
62 TGTAG
** * *
80812551 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
80812616 AG
65 AG
* * * *
80812618 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
80812655 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:80812588 original size:64 final size:64
Alignment explanation
Indices: 80812507--80812690 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
80812497 AGACATTATG
* * *
80812507 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
80812571 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
80812636 AA
63 AA
* * *
80812638 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
80812691 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:80815668 original size:2 final size:2
Alignment explanation
Indices: 80815661--80815694 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
80815651 ATGTAAGCCG
80815661 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
80815695 GGCATTGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:80817258 original size:32 final size:32
Alignment explanation
Indices: 80817217--80817282 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
80817207 TACCTCATGC
80817217 TTAGCATATTGTTGGAAGAATTATCCTTAGAT
1 TTAGCATATTGTTGGAAGAATTATCCTTAGAT
*
80817249 TTAGCATATTTTTGGAAGAATTATCCTTAGAT
1 TTAGCATATTGTTGGAAGAATTATCCTTAGAT
80817281 TT
1 TT
80817283 GTGAATTCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (32 bp):
TTAGCATATTGTTGGAAGAATTATCCTTAGAT
Found at i:80818882 original size:49 final size:49
Alignment explanation
Indices: 80818710--80818901 Score: 224
Period size: 49 Copynumber: 3.9 Consensus size: 49
80818700 TTGTAAGGTC
* * * * *
80818710 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGAT
1 GCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTGGTT
* * ** *
80818760 -CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTC
1 GCA--TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTT
* *
80818811 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTT
1 GCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTT
*
80818860 GCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 GCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
80818902 GCTTTGGCTA
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
49 44 0.37
50 40 0.34
51 34 0.29
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTT
Found at i:80826273 original size:25 final size:26
Alignment explanation
Indices: 80826237--80826294 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
80826227 CCCTTTTATA
80826237 TTTA-TTTATCTTC-TTTAAGTACT-T
1 TTTATTTTATCTTCATTTAA-TACTAT
80826261 TTTATTTTATCTTCATTTAATACTAT
1 TTTATTTTATCTTCATTTAATACTAT
*
80826287 TTCATTTT
1 TTTATTTT
80826295 TAGGTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 13 0.43
26 13 0.43
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTATTTTATCTTCATTTAATACTAT
Found at i:80841425 original size:22 final size:22
Alignment explanation
Indices: 80841399--80841442 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
80841389 TTTAGTCCCT
80841399 AAACCCGAAACTTTCAAATCTA
1 AAACCCGAAACTTTCAAATCTA
*
80841421 AAACCTGAAACTTTCAAATCTA
1 AAACCCGAAACTTTCAAATCTA
80841443 TCACAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (22 bp):
AAACCCGAAACTTTCAAATCTA
Found at i:80843758 original size:40 final size:39
Alignment explanation
Indices: 80843702--80843873 Score: 236
Period size: 40 Copynumber: 4.3 Consensus size: 39
80843692 ACTGCATTTG
80843702 GCACTAAGTGTGCGATTCAAAATAATTTCGGCTATAAGTA
1 GCACTAAGTGTGCGATTCAAAATAATTT-GGCTATAAGTA
* *
80843742 ACACTAAGTGTGCGATTCAAAATAATTTTTGCTATAAGTA
1 GCACTAAGTGTGCGATTCAAAATAA-TTTGGCTATAAGTA
*
80843782 GCACTAAGTGTGCGATTCAAAATAGATTTGGCTATAAATA
1 GCACTAAGTGTGCGATTCAAAATA-ATTTGGCTATAAGTA
* * * *
80843822 GCACTAAGTGTGCAATTCAAAATATCTTTGTCTATAAATA
1 GCACTAAGTGTGCGATTCAAAATA-ATTTGGCTATAAGTA
*
80843862 GCATTAAGTGTG
1 GCACTAAGTGTG
80843874 TGAAATGGTA
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 116 0.97
41 4 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (39 bp):
GCACTAAGTGTGCGATTCAAAATAATTTGGCTATAAGTA
Found at i:80852258 original size:39 final size:40
Alignment explanation
Indices: 80852204--80852380 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
80852194 AAACCAAGTA
* * * *
80852204 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
80852243 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
80852283 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
80852323 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
80852362 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
80852381 TTATCATCCG
Statistics
Matches: 126, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 48 0.38
40 77 0.61
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:80852357 original size:79 final size:80
Alignment explanation
Indices: 80852204--80852380 Score: 245
Period size: 79 Copynumber: 2.2 Consensus size: 80
80852194 AAACCAAGTA
* * * * *
80852204 CCTTCGGAATTTAG-CCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
80852268 TAACTCGCACAAATG
66 TAACTAGCACAAATG
80852283 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
80852345 AGTCACTAGCACAAATG
64 AGTAACTAGCACAAATG
80852362 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
80852381 TTATCATCCG
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 58 0.66
80 29 0.33
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:80855456 original size:195 final size:196
Alignment explanation
Indices: 80855124--80855579 Score: 517
Period size: 195 Copynumber: 2.3 Consensus size: 196
80855114 AAAGAACAAT
* * *
80855124 ATTATAATTTATTTAATTTATGGGATTCAAATATAAATTATTGT-GTTCATTCATTCATACGCAA
1 ATTATAATTTATTTAATTTATGAGATTCAAATATAAATTATTGTCG-TCATTCATTCATACGTAG
* * ** * * *
80855188 TTCTTTACATTACACATACTTGTAAAGATTGATTGGATAATTGATTTGATTTTTAGTGTTAAAAT
65 TTATTAACATTACACATACTTGTAAAGATCCATCGGATAATTGATTTAATTTTTAGAGTTAAAAT
** * * * *
80855253 ACAAACCATAGGCTTTATTTATTTTTATGCAGTTCTTAATATTGCACGTGTTTTGCCAAGATGGA
130 ACAAACCATAGGCTTTATTTATAATTATGCAGTTCTCAATATTACACATGTTTTGCCAAGATCGA
80855318 -A
195 TA
* * *
80855319 ATTATAATTTATTTAATTTATGAGATTCAAATATAAATTACTATCGTCA-TCTATTCATATGTAG
1 ATTATAATTTATTTAATTTATGAGATTCAAATATAAATTATTGTCGTCATTC-ATTCATACGTAG
* * * ** * * *
80855383 TTATTAATATTACTCGTGTTTGTGAAGATCCATCGTATAATTGATTTAATTTTTAGAGTTCAAAT
65 TTATTAACATTACACATACTTGTAAAGATCCATCGGATAATTGATTTAATTTTTAGAGTTAAAAT
* * * * * *
80855448 ACAAACCATCGTCTTTGTTTATAATTATGCAGTTCTCAATATTACACATGTTTTGTCAATATCTA
130 ACAAACCATAGGCTTTATTTATAATTATGCAGTTCTCAATATTACACATGTTTTGCCAAGATCGA
*
80855513 TC
195 TA
* * *
80855515 A-TATAGTTTATTTAATTTAT-AGGATTCAAATAGAAATTATTGTCATCATTCATTCATACGTAG
1 ATTATAATTTATTTAATTTATGA-GATTCAAATATAAATTATTGTCGTCATTCATTCATACGTAG
80855578 TT
65 TT
80855580 CTTTAAATTA
Statistics
Matches: 216, Mismatches: 40, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
194 3 0.01
195 209 0.97
196 4 0.02
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (196 bp):
ATTATAATTTATTTAATTTATGAGATTCAAATATAAATTATTGTCGTCATTCATTCATACGTAGT
TATTAACATTACACATACTTGTAAAGATCCATCGGATAATTGATTTAATTTTTAGAGTTAAAATA
CAAACCATAGGCTTTATTTATAATTATGCAGTTCTCAATATTACACATGTTTTGCCAAGATCGAT
A
Found at i:80855940 original size:14 final size:14
Alignment explanation
Indices: 80855923--80855953 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
80855913 TAAATCTCGA
80855923 AACCTAAATTAAAT
1 AACCTAAATTAAAT
80855937 AACCTAAATTAAAT
1 AACCTAAATTAAAT
80855951 AAC
1 AAC
80855954 ATCCATCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCTAAATTAAAT
Found at i:80856621 original size:26 final size:26
Alignment explanation
Indices: 80856592--80856644 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
80856582 AGCTGAGTTG
*
80856592 TCCAAAATCACATATATGGTTATAAA
1 TCCAAAATCAAATATATGGTTATAAA
* *
80856618 TCCAAAATTAAATATTTGGTTATAAA
1 TCCAAAATCAAATATATGGTTATAAA
80856644 T
1 T
80856645 ATGTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (26 bp):
TCCAAAATCAAATATATGGTTATAAA
Found at i:80857611 original size:6 final size:6
Alignment explanation
Indices: 80857600--80857627 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
80857590 TTTTTTTTAA
80857600 AATTTT AATTTT AATTTT AATTTT AATT
1 AATTTT AATTTT AATTTT AATTTT AATT
80857628 AATAGGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:80863581 original size:97 final size:95
Alignment explanation
Indices: 80863312--80863603 Score: 277
Period size: 97 Copynumber: 3.0 Consensus size: 95
80863302 TTACACGTAC
* ** * * * *
80863312 TTGTGAAGATTGATCGGATGATTGATTT-GATTTTTGTGTTAAAATACAAACCATAGTCTTCAAT
1 TTGTGAAGATCGATCATATAATTGATTTAG-TTTTTGAGTTCAAATACAAACCAT-GTCTTCATT
* * *
80863376 TATTCTTATGTAGTTCTTAATATTATACATGT
64 TATTATTATGTAGTTCTCAATATTATACGTGT
* * * * * ** * *
80863408 TTGGTGAAGATGGAT-ATTATAATTTATTTAATTTATGAGATTCAAATATAAATTATTATCGTCA
1 TT-GTGAAGATCGATCA-TATAATTGATTTAGTTTTTGAG-TTCAAATACAAACCA-TGTCTTCA
* *
80863472 TGTATTCA-TATGTAGTTATCAATATTACT-CGTGT
62 TTTATT-ATTATGTAGTTCTCAATATTA-TACGTGT
80863506 TTGTGAAGATCGATCATATAATTGATTTAGTTTTTAGAGTTCAAATACAAACCAGTGTCTTCATT
1 TTGTGAAGATCGATCATATAATTGATTTAGTTTTT-GAGTTCAAATACAAACCA-TGTCTTCATT
80863571 TATTATTATGTAGTTCTCAATATTATACGTGT
64 TATTATTATGTAGTTCTCAATATTATACGTGT
80863603 T
1 T
80863604 CATCTATCAT
Statistics
Matches: 153, Mismatches: 32, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
96 4 0.03
97 100 0.65
98 47 0.31
99 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (95 bp):
TTGTGAAGATCGATCATATAATTGATTTAGTTTTTGAGTTCAAATACAAACCATGTCTTCATTTA
TTATTATGTAGTTCTCAATATTATACGTGT
Found at i:80864717 original size:26 final size:26
Alignment explanation
Indices: 80864688--80864737 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
80864678 TGAGTTGTCA
* *
80864688 AAAATCACATATATGGTTATGAATCC
1 AAAATCAAATATATGATTATGAATCC
*
80864714 AAAATCAAATATTTGATTATGAAT
1 AAAATCAAATATATGATTATGAAT
80864738 ATGTCAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (26 bp):
AAAATCAAATATATGATTATGAATCC
Found at i:80872365 original size:6 final size:6
Alignment explanation
Indices: 80872356--80872397 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
80872346 TTATTATTAC
* *
80872356 TATTTT TA-TTT TATTTT TATTTT TATTTT TCTATT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
80872398 GAAGACTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:80872365 original size:23 final size:23
Alignment explanation
Indices: 80872335--80872385 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
80872325 CCTTTGAGTC
80872335 TTTTTATTTCATTATTATTACTA
1 TTTTTATTTCATTATTATTACTA
* * **
80872358 TTTTTATTTTATTTTTATTTTTA
1 TTTTTATTTCATTATTATTACTA
80872381 TTTTT
1 TTTTT
80872386 CTATTTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTATTTCATTATTATTACTA
Found at i:80872369 original size:17 final size:17
Alignment explanation
Indices: 80872349--80872384 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
80872339 TATTTCATTA
80872349 TTATTACTATTTTTATT
1 TTATTACTATTTTTATT
**
80872366 TTATTTTTATTTTTATT
1 TTATTACTATTTTTATT
80872383 TT
1 TT
80872385 TCTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (17 bp):
TTATTACTATTTTTATT
Found at i:80874364 original size:13 final size:13
Alignment explanation
Indices: 80874329--80874366 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
80874319 TGAGGACCTT
* *
80874329 CACACGGGCATGG
1 CACACGGCCGTGG
80874342 CACACGGCCGTGG
1 CACACGGCCGTGG
80874355 CACACGGCCGTG
1 CACACGGCCGTG
80874367 CCCCTGTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.18, C:0.37, G:0.37, T:0.08
Consensus pattern (13 bp):
CACACGGCCGTGG
Found at i:80875975 original size:11 final size:11
Alignment explanation
Indices: 80875959--80875986 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
80875949 CTTGTAATTG
80875959 TAAGTCTCCAT
1 TAAGTCTCCAT
80875970 TAAGTCTCCAT
1 TAAGTCTCCAT
80875981 TAAGTC
1 TAAGTC
80875987 CTAAGCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.36
Consensus pattern (11 bp):
TAAGTCTCCAT
Found at i:80887041 original size:22 final size:23
Alignment explanation
Indices: 80887003--80887066 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
80886993 TACCGATATA
80887003 TCAGCTC-ATAAGAGCTTACTG-T
1 TCAGCTCAAT-AGAGCTTACTGTT
* *
80887025 TCATCTCGATAGAGCTTACTGTT
1 TCAGCTCAATAGAGCTTACTGTT
*
80887048 TCAGCTCAATGGAGCTTAC
1 TCAGCTCAATAGAGCTTAC
80887067 CGATCATGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 17 0.47
23 19 0.53
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (23 bp):
TCAGCTCAATAGAGCTTACTGTT
Found at i:80887224 original size:23 final size:20
Alignment explanation
Indices: 80887198--80887252 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
80887188 TACCGATCAT
*
80887198 ATGAATAAGCTATGTTGAAATGG
1 ATGAATAA-CTA--TTGAAATGA
*
80887221 ATGAATTACTATTGAAATGA
1 ATGAATAACTATTGAAATGA
*
80887241 ATGAATTACTAT
1 ATGAATAACTAT
80887253 AGATATGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 20 0.67
22 3 0.10
23 7 0.23
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (20 bp):
ATGAATAACTATTGAAATGA
Found at i:80887237 original size:20 final size:20
Alignment explanation
Indices: 80887212--80887268 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
80887202 ATAAGCTATG
80887212 TTGAAATGGATGAATTACTA
1 TTGAAATGGATGAATTACTA
*
80887232 TTGAAATGAATGAATTACTA
1 TTGAAATGGATGAATTACTA
* * *
80887252 TAGATATGGATAAATTA
1 TTGAAATGGATGAATTA
80887269 TTGTTGTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.35
Consensus pattern (20 bp):
TTGAAATGGATGAATTACTA
Found at i:80887304 original size:20 final size:20
Alignment explanation
Indices: 80887280--80887329 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
80887270 TGTTGTTATT
* *
80887280 AATGAATTATTGGTTATACG
1 AATGAATTACTAGTTATACG
* * *
80887300 GATGAACTACTAGTTATATG
1 AATGAATTACTAGTTATACG
80887320 AATGAATTAC
1 AATGAATTAC
80887330 AATTTATACA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (20 bp):
AATGAATTACTAGTTATACG
Found at i:80893908 original size:11 final size:12
Alignment explanation
Indices: 80893892--80893928 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
80893882 CCATTTTCTC
80893892 AAAAAGAA-AAG
1 AAAAAGAACAAG
80893903 AAAAAGAACAAG
1 AAAAAGAACAAG
80893915 AAAAA-AACTAAG
1 AAAAAGAAC-AAG
80893927 AA
1 AA
80893929 GGAGGAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 13 0.54
ACGTcount: A:0.78, C:0.05, G:0.14, T:0.03
Consensus pattern (12 bp):
AAAAAGAACAAG
Found at i:80896317 original size:40 final size:40
Alignment explanation
Indices: 80896260--80896450 Score: 231
Period size: 40 Copynumber: 4.8 Consensus size: 40
80896250 ATTGAATGAT
* * ** * *
80896260 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
* * * * *
80896300 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTAATTAA
**
80896340 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
**
80896380 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
80896420 ATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCA
80896451 CGTGGTTATA
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 129 0.96
41 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
Found at i:80904333 original size:40 final size:40
Alignment explanation
Indices: 80904276--80904466 Score: 231
Period size: 40 Copynumber: 4.8 Consensus size: 40
80904266 ATTGAATGAT
* * ** * *
80904276 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
* * * * *
80904316 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTAATTAA
**
80904356 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
**
80904396 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
80904436 ATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCA
80904467 CGTGGTTATA
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 129 0.96
41 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAA
Found at i:80908635 original size:5 final size:5
Alignment explanation
Indices: 80908625--80908656 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
80908615 GAAAGTGTGA
80908625 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
80908657 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:80908650 original size:9 final size:9
Alignment explanation
Indices: 80908626--80908656 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
80908616 AAAGTGTGAA
80908626 AAATAAAAT
1 AAATAAAAT
80908635 AAAATAAAAT
1 -AAATAAAAT
80908645 AAATAAAAT
1 AAATAAAAT
80908654 AAA
1 AAA
80908657 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:80913085 original size:5 final size:5
Alignment explanation
Indices: 80913075--80913106 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
80913065 CAATTTGTGA
80913075 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
80913107 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:80913095 original size:14 final size:14
Alignment explanation
Indices: 80913076--80913106 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
80913066 AATTTGTGAA
80913076 AAATAAAATAAAAT
1 AAATAAAATAAAAT
80913090 AAATAAAATAAAAT
1 AAATAAAATAAAAT
80913104 AAA
1 AAA
80913107 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:80914705 original size:97 final size:98
Alignment explanation
Indices: 80914604--80914813 Score: 217
Period size: 98 Copynumber: 2.2 Consensus size: 98
80914594 TACAAATTTT
* * * * * *
80914604 AAATATAAATTATTGTCGTCATTTATTCATATGTAGTTCTCAATATTACACG-ATTTTGTGAAGA
1 AAATAAAAATTATTATCGTCATTTATTCATATGCAATTCTCAATATCACACGCATTTTGCGAAGA
*
80914668 TCAATCGTATAATTGATTTAATTTTTA-GAGTTC
66 TCAATCGTATAATTGATTTAATTTATAGGA-TTC
* ** * * * * * * *
80914701 AAATACAAACCATCATCTTCATTTATTCTTTTGCAATTCTTAATATCACACGCGTTTTGCGAATA
1 AAATAAAAATTATTATCGTCATTTATTCATATGCAATTCTCAATATCACACGCATTTTGCGAAGA
* * *
80914766 TCAATCTTATAGTTTATTTAATTTATAGGATTC
66 TCAATCGTATAATTGATTTAATTTATAGGATTC
80914799 AAATAAAAATTATTA
1 AAATAAAAATTATTA
80914814 ACAACATGAA
Statistics
Matches: 88, Mismatches: 23, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
97 40 0.45
98 46 0.52
99 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.43
Consensus pattern (98 bp):
AAATAAAAATTATTATCGTCATTTATTCATATGCAATTCTCAATATCACACGCATTTTGCGAAGA
TCAATCGTATAATTGATTTAATTTATAGGATTC
Found at i:80914800 original size:98 final size:97
Alignment explanation
Indices: 80914622--80914803 Score: 222
Period size: 98 Copynumber: 1.9 Consensus size: 97
80914612 ATTATTGTCG
* * * *
80914622 TCATTTATTCATATGTAGTTCTCAATATTACACGATTTTGTGAAGATCAATCGTATAATTGATTT
1 TCATTTATTCATATGCAATTCTCAATATCACACGATTTTGCGAAGATCAATCGTATAATTGATTT
*
80914687 AATTTTTAGAGTTCAAATACAAACCATCATCT
66 AATTTATAGAGTTCAAATACAAACCATCATCT
* * * * * * * *
80914719 TCATTTATTCTTTTGCAATTCTTAATATCACACGCGTTTTGCGAATATCAATCTTATAGTTTATT
1 TCATTTATTCATATGCAATTCTCAATATCACACG-ATTTTGCGAAGATCAATCGTATAATTGATT
80914784 TAATTTATAG-GATTCAAATA
65 TAATTTATAGAG-TTCAAATA
80914804 AAAATTATTA
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
97 29 0.41
98 41 0.59
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.43
Consensus pattern (97 bp):
TCATTTATTCATATGCAATTCTCAATATCACACGATTTTGCGAAGATCAATCGTATAATTGATTT
AATTTATAGAGTTCAAATACAAACCATCATCT
Found at i:80917203 original size:26 final size:26
Alignment explanation
Indices: 80917174--80917269 Score: 104
Period size: 26 Copynumber: 3.7 Consensus size: 26
80917164 TTAATTAGTT
**
80917174 TAATAATATAATAATGGTAATAATAA
1 TAATAATATAATAATAATAATAATAA
* *
80917200 TAATAATAGAATAATAAT-AGAATAAA
1 TAATAATATAATAATAATAATAAT-AA
* *
80917226 TAATAATACATTAATAATAATAATAA
1 TAATAATATAATAATAATAATAATAA
*
80917252 TAATAAATTTAATAATAA
1 TAAT-AATATAATAATAA
80917270 AGTAGCCAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
25 4 0.07
26 39 0.68
27 14 0.25
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (26 bp):
TAATAATATAATAATAATAATAATAA
Found at i:80917214 original size:11 final size:11
Alignment explanation
Indices: 80917198--80917230 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
80917188 TGGTAATAAT
80917198 AATAATAATAG
1 AATAATAATAG
80917209 AATAATAATAG
1 AATAATAATAG
80917220 AATAAATAATA
1 AAT-AATAATA
80917231 ATACATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (11 bp):
AATAATAATAG
Found at i:80917269 original size:3 final size:3
Alignment explanation
Indices: 80917048--80917257 Score: 173
Period size: 3 Copynumber: 70.7 Consensus size: 3
80917038 TCTAAAAAGA
80917048 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** * * * *
80917096 AAT AAT AAT AAT AAT AAT AAT AAGT AAG CGT AAA AAG AAG AAG AA-
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
* * * * * *
80917141 AAT GAT -GT AAT AAT AAT ATT AA- ATT AATT AGT -TT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
** * *
80917183 AAT AAT GGT AAT AAT AAT AAT AAT -AG AAT AAT AAT -AG AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
80917227 AAT AAT ACATT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT A-A-T AAT AAT AAT AAT AAT AAT AA
80917258 ATTTAATAAT
Statistics
Matches: 169, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
2 9 0.05
3 148 0.88
4 10 0.06
5 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:80917954 original size:23 final size:23
Alignment explanation
Indices: 80917923--80917969 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
80917913 CTTAGTTTTG
*
80917923 AAAAGAAAAGAA-AATAAAATAA
1 AAAAGAAAAGAATAAAAAAATAA
80917945 AAAAGGAAAAGAATAAAAAAATAA
1 AAAA-GAAAAGAATAAAAAAATAA
80917969 A
1 A
80917970 TAAACCTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 8 0.36
24 10 0.45
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.09
Consensus pattern (23 bp):
AAAAGAAAAGAATAAAAAAATAA
Found at i:80918838 original size:44 final size:44
Alignment explanation
Indices: 80918741--80919126 Score: 233
Period size: 44 Copynumber: 8.7 Consensus size: 44
80918731 TTTTAATCCA
* * * * * *
80918741 CTCCACTACAACTTCAGGGAGATAGGATTAGCTGTCTTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTAG-TGGCTTCAATCTG
* *
80918786 CTCCACTGCAACTTCAGGAAGATAAGACTAGTGGCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGTGGCTTCAATCTG
* * * * * * * *
80918830 CTCTACTGCAACTTTAGGGAGATAAG-GT-TTGCCAT-GATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGTGGCTTCAATCTG
* ** * *
80918871 CTCTACTGCAACTTCAGAAAGATAAGATCTATAATTATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-C--T-A--GTGGCTTCAATCTG
* * * ** * *
80918921 TTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGTGGCTTCAATCTG
* * * *
80918965 CTCCACTGCAACTTCAGGGAGATAAGGCTTA-TAGCTTTAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGAC-TAGTGGCTTCAATCTG
* * * * * ** * *
80919009 CTCTACTACAACTTCAGAGAGATAAGATTTGCTGTTTTCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAG-TGGCTTCAATCTG
* *
80919054 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGCTTTAATATG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTAGTGGCTTCAATCTG
* * *
80919098 CTCCATTACAACTTTAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
80919127 TGCCACAATG
Statistics
Matches: 257, Mismatches: 71, Indels: 28
0.72 0.20 0.08
Matches are distributed among these distances:
41 26 0.10
42 4 0.02
43 4 0.02
44 131 0.51
45 60 0.23
46 1 0.00
47 1 0.00
49 4 0.02
50 26 0.10
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGTGGCTTCAATCTG
Found at i:80918944 original size:135 final size:138
Alignment explanation
Indices: 80918787--80919036 Score: 344
Period size: 135 Copynumber: 1.8 Consensus size: 138
80918777 TTCAGTTTGC
** * *
80918787 TCCACTGCAACTTCAGGAAGATAAGACTAGTGGCTTCAACCTGCTCTACTGCAACTTTAGGGAGA
1 TCCACTGCAACTTCAGGAAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
* *
80918852 TAAGG-TT-T-GCCATGATCCGCTCTACTGCAACTTCAGAAAGATAAGATCTATAATTATAGCTT
66 TAAGGCTTATAGCCATAATCCGCTCTACTACAACTTCAGAAAGATAAGATCTATAATTATAGCTT
80918914 CAATCTGT
131 CAATCTGT
* * * *
80918922 TCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCTGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGAAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
** ** *
80918987 TAAGGCTTATAGCTTTAATTTGCTCTACTACAACTTCAGAGAGATAAGAT
66 TAAGGCTTATAGCCATAATCCGCTCTACTACAACTTCAGAAAGATAAGAT
80919037 TTGCTGTTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
135 62 0.64
136 2 0.02
137 1 0.01
138 32 0.33
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (138 bp):
TCCACTGCAACTTCAGGAAGATAAGACTAGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
TAAGGCTTATAGCCATAATCCGCTCTACTACAACTTCAGAAAGATAAGATCTATAATTATAGCTT
CAATCTGT
Found at i:80919091 original size:89 final size:89
Alignment explanation
Indices: 80918965--80919129 Score: 233
Period size: 89 Copynumber: 1.9 Consensus size: 89
80918955 CTTTAACCTG
* *
80918965 CTCCACTGCAACTTCAGGGAGATAAGGCTTATAGCTTTAATTTGCTCTACTACAACTTCAGAGAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTTATAGCTTTAATATGCTCCACTACAACTTCAGAGAG
*
80919030 ATAAGATTTGCTGTTTTCGATCTA
66 ATAAGACTTGCTGTTTTCGATCTA
* * * * * *
80919054 CTCCACTGCAACTTCAGGGAGATAA-GATCTGTGGCTTTAATATGCTCCATTACAACTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGGCT-TATAGCTTTAATATGCTCCACTACAACTTCAGAGA
80919118 GATAAGACTTGC
65 GATAAGACTTGC
80919130 CACAATGACT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
88 2 0.03
89 64 0.97
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (89 bp):
CTCCACTGCAACTTCAGGGAGATAAGGCTTATAGCTTTAATATGCTCCACTACAACTTCAGAGAG
ATAAGACTTGCTGTTTTCGATCTA
Found at i:80929878 original size:43 final size:43
Alignment explanation
Indices: 80929809--80929898 Score: 146
Period size: 43 Copynumber: 2.1 Consensus size: 43
80929799 AAGATTGTAA
*
80929809 CAAA-AATGGATGAAATACAACAAGAGGATCGTAAATTTAAAC
1 CAAATAATGGATGAAATACAACAAGAGGATCATAAATTTAAAC
**
80929851 CAAATAATGGATGAAATACAATGAGAGGATCATAAATTTAAAC
1 CAAATAATGGATGAAATACAACAAGAGGATCATAAATTTAAAC
80929894 CAAAT
1 CAAAT
80929899 TTTCAACTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 4 0.09
43 40 0.91
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.21
Consensus pattern (43 bp):
CAAATAATGGATGAAATACAACAAGAGGATCATAAATTTAAAC
Found at i:80930915 original size:3 final size:3
Alignment explanation
Indices: 80930907--80931033 Score: 211
Period size: 3 Copynumber: 42.7 Consensus size: 3
80930897 AAATAGTATA
80930907 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
80930955 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
80931003 GAT AAT AAT AAT GAT AAT AAT ATT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
80931034 ATGATAAGTA
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
2 2 0.02
3 113 0.98
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:80931198 original size:3 final size:3
Alignment explanation
Indices: 80931185--80931262 Score: 63
Period size: 3 Copynumber: 26.0 Consensus size: 3
80931175 TTAATTAGTT
* * * *
80931185 TAA TAA T-A TAA TAA TGA TGA TAA TAA T-A CAA TAA TAA T-A GAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
*
80931231 GAA TAA TAA TACA TTAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA
80931263 ATTTAATAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
2 4 0.07
3 51 0.84
4 4 0.07
5 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:80931218 original size:11 final size:10
Alignment explanation
Indices: 80931185--80931262 Score: 54
Period size: 11 Copynumber: 7.6 Consensus size: 10
80931175 TTAATTAGTT
80931185 TAATAATATAA
1 TAATAATA-AA
* *
80931196 TAATGAT-GA
1 TAATAATAAA
80931205 TAATAATACAA
1 TAATAATA-AA
80931216 TAATAATAGAA
1 TAATAATA-AA
*
80931227 TAAAGAAT-AA
1 T-AATAATAAA
*
80931237 TAATACATTAA
1 TAATA-ATAAA
80931248 TAATAAT-AA
1 TAATAATAAA
80931257 TAATAA
1 TAATAA
80931263 ATTTAATAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
9 18 0.33
10 7 0.13
11 25 0.45
12 5 0.09
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (10 bp):
TAATAATAAA
Found at i:80931257 original size:20 final size:21
Alignment explanation
Indices: 80931232--80931271 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
80931222 TAGAATAAAG
*
80931232 AATAATAATACA-TTAATAAT
1 AATAATAATAAATTTAATAAT
80931252 AATAATAATAAATTTAATAA
1 AATAATAATAAATTTAATAA
80931272 GAAAGTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAATAATAAATTTAATAAT
Found at i:80931270 original size:29 final size:30
Alignment explanation
Indices: 80931184--80931261 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 30
80931174 ATTAATTAGT
80931184 TTAATAATATAATAAT-GATGATAATAATACA
1 TTAATAATATAATAATAGA--ATAATAATACA
* *
80931215 ATAATAATAGAATAA-AGAATAATAATACA
1 TTAATAATATAATAATAGAATAATAATACA
80931244 TTAATAATAATAATAATA
1 TTAATAAT-ATAATAATA
80931262 AATTTAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 18 0.45
30 6 0.15
31 16 0.40
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (30 bp):
TTAATAATATAATAATAGAATAATAATACA
Found at i:80931417 original size:3 final size:3
Alignment explanation
Indices: 80931404--80931455 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
80931394 TTAATTAGTT
* *
80931404 TAA TAA T-A TAA TAA TGA TAA TAA TAA T-A CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
80931450 TAA TAA
1 TAA TAA
80931456 ATTTAATAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:80931427 original size:20 final size:20
Alignment explanation
Indices: 80931404--80931451 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
80931394 TTAATTAGTT
* *
80931404 TAATAATATAATAATGATAA
1 TAATAATACAATAATAATAA
80931424 TAATAATACAATAATAATAA
1 TAATAATACAATAATAATAA
80931444 TAATAATA
1 TAATAATA
80931452 ATAAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
TAATAATACAATAATAATAA
Found at i:80933038 original size:26 final size:26
Alignment explanation
Indices: 80933009--80933058 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
80932999 TGAGTTGTCT
* *
80933009 AAAATCACATATATGGTTATGAATCC
1 AAAATCAAATATATAGTTATGAATCC
*
80933035 AAAATCAAATATTTAGTTATGAAT
1 AAAATCAAATATATAGTTATGAAT
80933059 ATGTCCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (26 bp):
AAAATCAAATATATAGTTATGAATCC
Found at i:80933198 original size:36 final size:38
Alignment explanation
Indices: 80933151--80933226 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
80933141 ATTTTTATTG
80933151 TTTTGAAGGAG-T-ATTTGTACTATATATTAGTTTGTA
1 TTTTGAAGGAGTTAATTTGTACTATATATTAGTTTGTA
*
80933187 TTTTGAAGGAGTTAATTTGTACTATATATTAGTTTTTA
1 TTTTGAAGGAGTTAATTTGTACTATATATTAGTTTGTA
80933225 TT
1 TT
80933227 CCCGTGTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
36 11 0.30
37 1 0.03
38 25 0.68
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.53
Consensus pattern (38 bp):
TTTTGAAGGAGTTAATTTGTACTATATATTAGTTTGTA
Found at i:80936695 original size:40 final size:40
Alignment explanation
Indices: 80936651--80936831 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
80936641 CAAGCACAAT
* * *** *
80936651 TGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATAAA
*
80936691 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATAAA
80936731 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCA-AGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATA-AA
*
80936771 TGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCATAAA
* *
80936811 TGCCTTCGAGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
80936832 GTATCAATCA
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 125 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATAAA
Found at i:80944941 original size:40 final size:40
Alignment explanation
Indices: 80944896--80945083 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
80944886 ATAACCACAA
* * * *** *
80944896 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGTTAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
80944936 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
80944976 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
** *
80945016 GCATGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
80945056 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
80945084 GTATCAATCA
Statistics
Matches: 135, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 134 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:80948550 original size:14 final size:15
Alignment explanation
Indices: 80948531--80948565 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
80948521 TTAAGTAAAA
80948531 TATTTAAAAT-AATT
1 TATTTAAAATAAATT
80948545 TATTTAAAATCAAATT
1 TATTTAAAAT-AAATT
80948561 TATTT
1 TATTT
80948566 TTATTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.53
16 9 0.47
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTAAAATAAATT
Found at i:80950755 original size:29 final size:29
Alignment explanation
Indices: 80950719--80950780 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
80950709 TGGCCAGGCC
80950719 GTGTGAGTCACATGGGCAAGGACATGGCA
1 GTGTGAGTCACATGGGCAAGGACATGGCA
*
80950748 GTGTGAGTCACATGGGCAAGGACATGGCC
1 GTGTGAGTCACATGGGCAAGGACATGGCA
80950777 GTGT
1 GTGT
80950781 CCTTGCCATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.24, C:0.18, G:0.39, T:0.19
Consensus pattern (29 bp):
GTGTGAGTCACATGGGCAAGGACATGGCA
Found at i:80952420 original size:2 final size:2
Alignment explanation
Indices: 80952413--80952443 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
80952403 TGTAGGTTAT
80952413 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
80952444 TGTTTTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:80952661 original size:14 final size:14
Alignment explanation
Indices: 80952630--80952673 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
80952620 AACTTAACAA
80952630 TTTAATATTCATTAAT
1 TTTAATATT-A-TAAT
80952646 TTTAATATTATAAT
1 TTTAATATTATAAT
*
80952660 TTTAAAATT-TAAT
1 TTTAATATTATAAT
80952673 T
1 T
80952674 CAATTAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 12 0.44
15 1 0.04
16 9 0.33
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATATTATAAT
Found at i:80955857 original size:35 final size:35
Alignment explanation
Indices: 80955806--80955875 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
80955796 TTTCACTAAG
80955806 TAAAAGACTCTGAAATCACTTAATTTGGTTTCCAA
1 TAAAAGACTCTGAAATCACTTAATTTGGTTTCCAA
*
80955841 TAAACGACTCTGAAATCACTTAATTTGGTTTCCAA
1 TAAAAGACTCTGAAATCACTTAATTTGGTTTCCAA
80955876 ACTCATGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (35 bp):
TAAAAGACTCTGAAATCACTTAATTTGGTTTCCAA
Found at i:80961486 original size:13 final size:13
Alignment explanation
Indices: 80961470--80961495 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80961460 TTGGCCACTT
80961470 GAATTGGAAAATA
1 GAATTGGAAAATA
80961483 GAATTGGAAAATA
1 GAATTGGAAAATA
80961496 AAGCTCACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
GAATTGGAAAATA
Found at i:80987958 original size:48 final size:48
Alignment explanation
Indices: 80987900--80988335 Score: 757
Period size: 48 Copynumber: 9.0 Consensus size: 48
80987890 TTGATGCATA
80987900 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
80987948 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
80987996 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
80988044 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTTAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
80988092 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
80988140 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG----TATG
80988192 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
80988240 AGATATGCATATGTGGTAAAGTCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATG
*
80988290 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
80988336 GGCGATGTGT
Statistics
Matches: 371, Mismatches: 9, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
47 1 0.00
48 277 0.75
49 4 0.01
50 40 0.11
51 1 0.00
52 48 0.13
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:80988590 original size:37 final size:37
Alignment explanation
Indices: 80988482--80988590 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
80988472 GGAAATATAT
*
80988482 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
80988519 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
80988556 TCCGGGTAAGACCCGATAACTTCGTGTGAAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
80988591 CATCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:80993513 original size:22 final size:22
Alignment explanation
Indices: 80993487--80993557 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
80993477 TAATTTCTCC
*
80993487 TTTCTTTCTTTCTCTTTTTCTT
1 TTTCTTTCTTTCTCTCTTTCTT
80993509 TTTCTTTCTTTC-C-CTTTCTGT
1 TTTCTTTCTTTCTCTCTTTCT-T
* *
80993530 TTTCGTTTCTATCTCTGTTTCTT
1 TTTC-TTTCTTTCTCTCTTTCTT
80993553 TTTCT
1 TTTCT
80993558 ATTTCTTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 5 0.12
21 6 0.14
22 20 0.48
23 6 0.14
24 5 0.12
ACGTcount: A:0.01, C:0.24, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTCTTTCTTTCTCTCTTTCTT
Found at i:81000648 original size:52 final size:51
Alignment explanation
Indices: 81000528--81000705 Score: 236
Period size: 51 Copynumber: 3.5 Consensus size: 51
81000518 CGGATACCCG
* * * * *
81000528 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCCATCTTCTTCACAAA
*
81000579 GTGGCCTTCACATAGTACCACCCTTGTGACCAAAGCCATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCCATC-TTCTTCACAAA
* *
81000631 GTGGCCTTCACAAAGTACCACACTTGTGACC-AAGCCATCTT-TTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCCATCTTCTTCACAAA
*
81000680 TTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
81000706 AGTCACTAAT
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
49 31 0.27
50 2 0.02
51 42 0.36
52 41 0.35
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCCATCTTCTTCACAAA
Found at i:81013986 original size:34 final size:34
Alignment explanation
Indices: 81013939--81014003 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
81013929 TCAAACAGTC
* *
81013939 TTGGGCCTAAGCCCCTTTCAGTATCAGTAACTTT
1 TTGGGCCTAAGCCCATCTCAGTATCAGTAACTTT
*
81013973 TTGGGCCTTAGCCCATCTCAGTATCAGTAAC
1 TTGGGCCTAAGCCCATCTCAGTATCAGTAAC
81014004 AGTCATGCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (34 bp):
TTGGGCCTAAGCCCATCTCAGTATCAGTAACTTT
Found at i:81024785 original size:50 final size:49
Alignment explanation
Indices: 81024613--81024795 Score: 165
Period size: 50 Copynumber: 3.6 Consensus size: 49
81024603 CCACATTATG
* * ** *
81024613 AGAGCTAGTGTCAGACCATGTCTAGGACATGGCATCGGCATTAAGACG--
1 AGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGATGTA
* * *
81024661 AGAGCTAGTGTAAGA-CATGTCTGGGACATGTATCAGCCTCGAGATGTAACA
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGATGT---A
* * *
81024712 AGATGTGTCAGTGTAAGACCATGTCTGGGACATGACATCGGCATGGATATGTA
1 AGA-G-CT-AGTGTAAGACCATGTCTGGGACATG-CATCGGCATCGAGATGTA
*
81024765 AGAGCTAGTGTAAGACCATGTCTGGAACATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATG
81024796 GCGTCAGCCT
Statistics
Matches: 109, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
46 11 0.10
47 13 0.12
48 14 0.13
50 24 0.22
51 4 0.04
52 2 0.02
53 5 0.05
54 9 0.08
55 15 0.14
56 12 0.11
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (49 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGATGTA
Found at i:81024844 original size:49 final size:48
Alignment explanation
Indices: 81024718--81024848 Score: 147
Period size: 50 Copynumber: 2.7 Consensus size: 48
81024708 AACAAGATGT
* * *
81024718 GTCAGTGTAAGACCATGTCTGGGACATGACATCGGCATGGATATGTAA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGATATGTAA
* * * * *
81024766 GAGCTAGTGTAAGACCATGTCTGGAACATGGCGTCAGCCTCGATTTCG-ATA
1 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGATAT-GTA-A
81024817 GTCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCAT
81024849 TGACTTGATG
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 28 0.41
50 36 0.53
51 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGATATGTAA
Found at i:81026373 original size:17 final size:16
Alignment explanation
Indices: 81026341--81026371 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
81026331 TAGATTTTAT
81026341 TCTTTTTCAAAATTTC
1 TCTTTTTCAAAATTTC
81026357 TCTTTTTCAAAATTT
1 TCTTTTTCAAAATTT
81026372 TCCCAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (16 bp):
TCTTTTTCAAAATTTC
Found at i:81026976 original size:17 final size:17
Alignment explanation
Indices: 81026950--81026999 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
81026940 AGGGTGTGGT
81026950 CGTGTGGGCCACACGGG
1 CGTGTGGGCCACACGGG
* * *
81026967 TGTGTAGGCCACATGGG
1 CGTGTGGGCCACACGGG
81026984 CGTGTGGGCCCACACG
1 CGTGTGGG-CCACACG
81027000 AGTACCCACA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.14, C:0.28, G:0.42, T:0.16
Consensus pattern (17 bp):
CGTGTGGGCCACACGGG
Found at i:81029635 original size:29 final size:29
Alignment explanation
Indices: 81029596--81029670 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
81029586 GGTTGAGAGA
* *
81029596 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
81029625 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
81029654 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
81029671 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:81029711 original size:2 final size:2
Alignment explanation
Indices: 81029706--81029736 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
81029696 GGGAACCCAC
*
81029706 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
81029737 TTTCTATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:81039348 original size:13 final size:14
Alignment explanation
Indices: 81039321--81039364 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
81039311 CAAAATTTAT
81039321 TTTATAAAATAATAA
1 TTTA-AAAATAATAA
81039336 TTTAAAAAT-ATAA
1 TTTAAAAATAATAA
81039349 TTTAAAAGATAATAA
1 TTTAAAA-ATAATAA
81039364 T
1 T
81039365 AATAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.41
14 7 0.26
15 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
TTTAAAAATAATAA
Found at i:81042228 original size:33 final size:32
Alignment explanation
Indices: 81042198--81042322 Score: 117
Period size: 32 Copynumber: 3.9 Consensus size: 32
81042188 ATGGTACAAT
*
81042198 TTGAAAAGGTTATGTACACTTTATGTGTACAC
1 TTGAAAAGGTTAGGTACACTTTATGTGTACAC
* ** *
81042230 TTGAAAAGGTTATGTACACTTTGCGTGTTCAC
1 TTGAAAAGGTTAGGTACACTTTATGTGTACAC
* * * *
81042262 TTGGAAAGGTTAGGTATACTTTGTGTATAC-C
1 TTGAAAAGGTTAGGTACACTTTATGTGTACAC
** *
81042293 ATATGAAAAGGAAAGGTATACTTTATGTGT
1 -T-TGAAAAGGTTAGGTACACTTTATGTGT
81042323 TCCACTAAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
31 1 0.01
32 54 0.70
33 22 0.29
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (32 bp):
TTGAAAAGGTTAGGTACACTTTATGTGTACAC
Found at i:81042284 original size:32 final size:32
Alignment explanation
Indices: 81042198--81042284 Score: 120
Period size: 32 Copynumber: 2.7 Consensus size: 32
81042188 ATGGTACAAT
**
81042198 TTGAAAAGGTTATGTACACTTTATGTGTACAC
1 TTGAAAAGGTTATGTACACTTTGCGTGTACAC
*
81042230 TTGAAAAGGTTATGTACACTTTGCGTGTTCAC
1 TTGAAAAGGTTATGTACACTTTGCGTGTACAC
* * *
81042262 TTGGAAAGGTTAGGTATACTTTG
1 TTGAAAAGGTTATGTACACTTTG
81042285 TGTATACCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (32 bp):
TTGAAAAGGTTATGTACACTTTGCGTGTACAC
Found at i:81042445 original size:12 final size:12
Alignment explanation
Indices: 81042428--81042455 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
81042418 ATATAAAGAA
81042428 AAACGGCATGAT
1 AAACGGCATGAT
81042440 AAACGGCATGAT
1 AAACGGCATGAT
81042452 AAAC
1 AAAC
81042456 TTATCTATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (12 bp):
AAACGGCATGAT
Found at i:81049049 original size:42 final size:42
Alignment explanation
Indices: 81048990--81049098 Score: 130
Period size: 43 Copynumber: 2.6 Consensus size: 42
81048980 TAGCGTCAGT
*
81048990 TGAGATTACGTGTAAGACCATATCTAGGATA-TGGCATCGATA
1 TGAGATTACGTGTAAGACCATAT-TAGGATATTGGCATCAATA
* * *
81049032 TGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGCATCAATA
1 TGAGATTACGTGTAAGACCATA-TTAGGATATTGGCATCAATA
** *
81049075 TGAGATCCCATGTAAGACCATATT
1 TGAGATTACGTGTAAGACCATATT
81049099 TGAGATATAG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 28 0.48
43 30 0.52
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATTAGGATATTGGCATCAATA
Found at i:81058066 original size:29 final size:29
Alignment explanation
Indices: 81058034--81058167 Score: 130
Period size: 29 Copynumber: 4.6 Consensus size: 29
81058024 ATACCCTCCG
** * *
81058034 AGCTCGCACACCCAGTGCTGTATTTTTCC
1 AGCTCGCACACTTAGTGCTATATATTTCC
* * *
81058063 AGCTTGCACACATAGTG-TCATATTTTTCC
1 AGCTCGCACACTTAGTGCT-ATATATTTCC
81058092 AGCAT-GCACACTTAGTGCCT-TATATTTCC
1 AGC-TCGCACACTTAGTG-CTATATATTTCC
* *
81058121 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCTATATATTTCC
*
81058150 AGCACGCACACTTAGTGC
1 AGCTCGCACACTTAGTGC
81058168 CGATCTCGTC
Statistics
Matches: 91, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
28 2 0.02
29 87 0.96
30 1 0.01
31 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.31
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCTATATATTTCC
Found at i:81058101 original size:58 final size:58
Alignment explanation
Indices: 81058038--81058160 Score: 149
Period size: 58 Copynumber: 2.1 Consensus size: 58
81058028 CCTCCGAGCT
* ** * *
81058038 CGCACACCCAGTG-CTGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACCCAGTGCCT-TATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* ** *
81058096 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACCCAGTGCCTTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
81058154 CGCACAC
1 CGCACAC
81058161 TTAGTGCCGA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 52 0.96
59 2 0.04
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (58 bp):
CGCACACCCAGTGCCTTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:81058168 original size:29 final size:29
Alignment explanation
Indices: 81058058--81058168 Score: 159
Period size: 29 Copynumber: 3.8 Consensus size: 29
81058048 GTGCTGTATT
** * * *
81058058 TTTCCAGCTTGCACACATAGTGTCATATT
1 TTTCCAGCACGCACACTTAGTGCCATATA
* *
81058087 TTTCCAGCATGCACACTTAGTGCCTTATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
81058116 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
81058145 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCACGCACACTTAGTGCC
81058169 GATCTCGTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:81066041 original size:29 final size:29
Alignment explanation
Indices: 81066009--81066143 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
81065999 ATACCCTCCG
** * *
81066009 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
81066038 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
81066067 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
81066096 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
81066125 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
81066144 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:81066076 original size:58 final size:58
Alignment explanation
Indices: 81065955--81066144 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
81065945 TACTCGATTT
* * * *** *
81065955 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
81066013 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
81066071 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
81066129 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
81066145 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:81067372 original size:16 final size:16
Alignment explanation
Indices: 81067351--81067389 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
81067341 GAATGAAGCC
81067351 TTTTTTTT-TTTTCTA
1 TTTTTTTTCTTTTCTA
81067366 TTTTTTTTCTTTTCTA
1 TTTTTTTTCTTTTCTA
*
81067382 TTTCTTTT
1 TTTTTTTT
81067390 ATTATTTCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTTCTTTTCTA
Found at i:81070374 original size:46 final size:45
Alignment explanation
Indices: 81070324--81070580 Score: 157
Period size: 46 Copynumber: 5.5 Consensus size: 45
81070314 ATTGTGGGCT
*
81070324 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATTAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGA-TAGAGCC
** * * * * *
81070370 AGTGTAAGACCATGTCCAGGATATGGCAT-TG--ACATTAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-T-GA-TAGAGCC
* * *
81070417 AGTGTAAGACATGTATGGGACATGCATCGGCCTCGA-GACGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGA--TAGAGCC
* * * * * *
81070463 AGTGTAAGACATGTTTGGGACATGCATCAGCTACAAGAT-GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATAGAGCC
* ** *
81070507 AATGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC-ACATGAT-AGAGCC
81070556 AGTGTAAGACTATGTCTGGGACATG
1 AGTGTAAGAC-ATGTCTGGGACATG
81070581 GCATTGGCAA
Statistics
Matches: 158, Mismatches: 36, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
44 10 0.06
45 21 0.13
46 65 0.41
47 31 0.20
48 7 0.04
49 24 0.15
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATAGAGCC
Found at i:81074604 original size:135 final size:135
Alignment explanation
Indices: 81074362--81074641 Score: 551
Period size: 135 Copynumber: 2.1 Consensus size: 135
81074352 AACATGTTGG
81074362 TAAATATGCAATGTGCTTTTATAATCGATTGATAAGTTTGAAATGAATGTGAGTGAAATGTTATG
1 TAAATATGCAATGTGCTTTTATAATCGATTGATAAGTTTGAAATGAATGTGAGTGAAATGTTATG
81074427 CATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTATTTGAGATGTGTTAATAT
66 CATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTATTTGAGATGTGTTAATAT
81074492 ATGAT
131 ATGAT
*
81074497 TAAATATGCAATGTGCTTTTATAATCGATTGATAAGTTTGAAATGAATGTGGGTGAAATGTTATG
1 TAAATATGCAATGTGCTTTTATAATCGATTGATAAGTTTGAAATGAATGTGAGTGAAATGTTATG
81074562 CATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTATTTGAGATGTGTTAATAT
66 CATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTATTTGAGATGTGTTAATAT
81074627 ATGAT
131 ATGAT
81074632 TAAATATGCA
1 TAAATATGCA
81074642 TGATATTTGA
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 144 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (135 bp):
TAAATATGCAATGTGCTTTTATAATCGATTGATAAGTTTGAAATGAATGTGAGTGAAATGTTATG
CATAAGCTATCAAATGCTAAGTGTGAAAATGAGATGAAAGAAAAGTATTTGAGATGTGTTAATAT
ATGAT
Found at i:81074719 original size:38 final size:38
Alignment explanation
Indices: 81074656--81075013 Score: 432
Period size: 38 Copynumber: 9.6 Consensus size: 38
81074646 ATTTGATGTG
*
81074656 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
* * *
81074696 TATCCGGGTTAAATCTCGCAGGCTTCTTACTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
81074734 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
81074772 TATCCGGGCTTAAAGACCTGCAGGCTTTGTGCTGGTATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
* *
81074812 TATCC--G----A-----CAGGCTTTGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
81074839 TATCTGAGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
81074877 TATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
81074915 TATCCAGGTTAAATCTCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
81074953 TATCCGGGTTAAATCCCGTAGGCTTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
81074991 TATCCGAGTTAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
81075014 CTAGTATTGG
Statistics
Matches: 280, Mismatches: 25, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
27 24 0.09
29 1 0.00
33 2 0.01
38 209 0.75
39 10 0.04
40 34 0.12
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:81075025 original size:114 final size:114
Alignment explanation
Indices: 81074819--81075036 Score: 319
Period size: 114 Copynumber: 1.9 Consensus size: 114
81074809 TTATATCCGA
* * * *
81074819 CAGGCTTTGTGCTGGTATTATATCTGAGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGA
1 CAGGCTTCGTGCTGGTAATATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATCCGA
* * *
81074884 GTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCTCG
66 GTTAAATCCCGCAGGCCTAGTACTGGTAATATATCCAGGTTAAATCTCG
* * *
81074933 CAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGTAGGCTTAGTGCTGGTATTATATCCGA
1 CAGGCTTCGTGCTGGTAATATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATCCGA
* * *
81074998 GTTAAATCCCGCAGGCCTAGTATTGGTATTATATTCAGG
66 GTTAAATCCCGCAGGCCTAGTACTGGTAATATATCCAGG
81075037 CCTTTGAGCC
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 91 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (114 bp):
CAGGCTTCGTGCTGGTAATATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGGTAATATATCCGA
GTTAAATCCCGCAGGCCTAGTACTGGTAATATATCCAGGTTAAATCTCG
Found at i:81075084 original size:45 final size:45
Alignment explanation
Indices: 81075028--81075159 Score: 139
Period size: 45 Copynumber: 3.0 Consensus size: 45
81075018 TATTGGTATT
* * *
81075028 ATATTCAGGCCTTTGAGCCTAGCAGGCTATTATACCGGTGAGAT-
1 ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGACATG
* **
81075072 ACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGTCGGTGACATG
1 A-TATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGACATG
* * *
81075118 ATA-TCGAGCC-TTGAGCCTAGCAGGCGA-AATGCCGGTGA-ATG
1 ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGACATG
81075159 A
1 A
81075160 ATAAAAGTCT
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
41 4 0.05
42 10 0.13
43 15 0.20
44 7 0.09
45 39 0.51
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (45 bp):
ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGACATG
Found at i:81077716 original size:36 final size:36
Alignment explanation
Indices: 81077669--81077741 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
81077659 ATGTGATGAA
81077669 GATATCAATTCTAGGGTTACTAAGGCCATTTTATAG
1 GATATCAATTCTAGGGTTACTAAGGCCATTTTATAG
81077705 GATATCAATTCTAGGGTTACTAAGGCCATTTTATAG
1 GATATCAATTCTAGGGTTACTAAGGCCATTTTATAG
81077741 G
1 G
81077742 TTGAAACTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (36 bp):
GATATCAATTCTAGGGTTACTAAGGCCATTTTATAG
Found at i:81080489 original size:36 final size:37
Alignment explanation
Indices: 81080436--81080514 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 37
81080426 TTTGACTTGA
* *
81080436 ATTTAAATTAAATAATAA-AAGA-ATTTATGTTTATAT
1 ATTTTAATTAAATAATAATAA-ATATTTATATTTATAT
81080472 ATTTTAATTATAA-AATAATTAAATATTTATATTTATAT
1 ATTTTAATTA-AATAATAA-TAAATATTTATATTTATAT
81080510 ATTTT
1 ATTTT
81080515 TTAAAACCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
36 14 0.38
37 3 0.08
38 20 0.54
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (37 bp):
ATTTTAATTAAATAATAATAAATATTTATATTTATAT
Found at i:81081071 original size:13 final size:13
Alignment explanation
Indices: 81081053--81081078 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81081043 CTGACATTTG
81081053 TGTTTGGTTGGAA
1 TGTTTGGTTGGAA
81081066 TGTTTGGTTGGAA
1 TGTTTGGTTGGAA
81081079 AAATACTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (13 bp):
TGTTTGGTTGGAA
Found at i:81085996 original size:10 final size:9
Alignment explanation
Indices: 81085972--81086007 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
81085962 GCCATAAAAC
81085972 TAATAATT-
1 TAATAATTA
81085980 TAATAATTA
1 TAATAATTA
81085989 TAAATAATTA
1 T-AATAATTA
81085999 TAATAATTA
1 TAATAATTA
81086008 ACTAAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.31
9 9 0.35
10 9 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATAATTA
Found at i:81089394 original size:131 final size:131
Alignment explanation
Indices: 81089284--81089577 Score: 394
Period size: 131 Copynumber: 2.2 Consensus size: 131
81089274 TCTTCGATCT
* * *
81089284 GCTCCACTACTGCTTAGGGAGATAAGGTTAGTGGC-TAAATCTACTCCATTGCCGCTACATGGAG
1 GCTCCACTACTACTTAGGGAGATAAGGGTAGTGGCTTAAATCTACTCCATTACC-CTACATGGAG
* * * * **
81089348 ATAAGATTCACTGTCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTTAGC
65 ATAAGATTCACCGTCTTCAATCCGCTCCACTACTACTTAGGAAGATAAGAGCTGCAATTTCGAGC
81089413 CC
130 CC
* *
81089415 GTTCCACTACTACTTAGGGAGATAAGGGTAGTGGCTTAAATCTGCTCCATTACCCTACATGGAGA
1 GCTCCACTACTACTTAGGGAGATAAGGGTAGTGGCTTAAATCTACTCCATTACCCTACATGGAGA
**
81089480 TAAGATTCACCGTCTTCAATCCGCTCCACTACTACTTAGGAAGATAAGATATGCAATTTTC-AGC
66 TAAGATTCACCGTCTTCAATCCGCTCCACTACTACTTAGGAAGATAAGAGCTGCAA-TTTCGAGC
*
81089544 CT
130 CC
* * * *
81089546 GTTCCACTACTGCTTAGGGGGATAAGGATAGT
1 GCTCCACTACTACTTAGGGAGATAAGGGTAGT
81089578 CAAAATTTGT
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
131 128 0.87
132 19 0.13
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (131 bp):
GCTCCACTACTACTTAGGGAGATAAGGGTAGTGGCTTAAATCTACTCCATTACCCTACATGGAGA
TAAGATTCACCGTCTTCAATCCGCTCCACTACTACTTAGGAAGATAAGAGCTGCAATTTCGAGCC
C
Found at i:81089397 original size:44 final size:44
Alignment explanation
Indices: 81089274--81089529 Score: 157
Period size: 44 Copynumber: 5.9 Consensus size: 44
81089264 AGGCTCACCA
* * * *
81089274 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGGTT-AGTG
1 TCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTCACTG
* * * * * ** * *
81089317 GC-TAAATCTACTCCATTGCCGCTACATGGAGATAAGATTCACTG
1 TCTTCAATCTGCTCCACTACTACT-TAGGGAGATAAGATTCACTG
*
81089361 TCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAAT-
1 TCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGAT-T-CACTG
* ** * * ** *
81089406 T-TTTAGCCCGTTCCACTACTACTTAGGGAGATAAGGGT-AGTG
1 TCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTCACTG
* * * * *
81089448 GCTTAAATCTGCTCCATTACCCTAC--ATGGAGATAAGATTCACCG
1 TCTTCAATCTGCTCCACTA--CTACTTAGGGAGATAAGATTCACTG
* *
81089492 TCTTCAATCCGCTCCACTACTACTTAGGAAGATAAGAT
1 TCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGAT
81089530 ATGCAATTTT
Statistics
Matches: 154, Mismatches: 47, Indels: 23
0.69 0.21 0.10
Matches are distributed among these distances:
41 2 0.01
42 19 0.12
43 36 0.23
44 73 0.47
45 21 0.14
46 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
TCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATTCACTG
Found at i:81094288 original size:13 final size:13
Alignment explanation
Indices: 81094270--81094296 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
81094260 AACAAAAATA
81094270 GACACGACCGTGC
1 GACACGACCGTGC
81094283 GACACGACCGTGC
1 GACACGACCGTGC
81094296 G
1 G
81094297 CACCAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.37, G:0.33, T:0.07
Consensus pattern (13 bp):
GACACGACCGTGC
Done.