Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 120 of 325
Found at i:38501854 original size:24 final size:24
Alignment explanation
Indices: 38501827--38501949 Score: 221
Period size: 24 Copynumber: 5.1 Consensus size: 24
38501817 GAGGAAGTGC
38501827 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38501851 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38501875 AAAAAGGGCTTATGCCCCAATTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
38501900 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38501924 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38501947 AAA
1 AAA
38501950 GAGGCTCGGC
Statistics
Matches: 96, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
23 16 0.17
24 57 0.59
25 23 0.24
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:38501899 original size:49 final size:48
Alignment explanation
Indices: 38501827--38501949 Score: 221
Period size: 49 Copynumber: 2.6 Consensus size: 48
38501817 GAGGAAGTGC
38501827 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
38501875 AAAAAGGGCTTATGCCCCAATTATTAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
38501924 AAAAGGGCTT-TGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
38501950 GAGGCTCGGC
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
47 15 0.21
48 10 0.14
49 47 0.65
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:38503203 original size:25 final size:27
Alignment explanation
Indices: 38503173--38503266 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 27
38503163 AATATAATCA
*
38503173 GCACACAGCCATGGGTAAATATGAT-C
1 GCACACAGCCATAGGTAAATATGATAC
* * *
38503199 G-ACACAGGGTCATCGATAAATATGATAC
1 GCACACA--GCCATAGGTAAATATGATAC
* * **
38503227 GCACATAGCCATAGGTAAATACGATTG
1 GCACACAGCCATAGGTAAATATGATAC
*
38503254 GCACAAAGCCATA
1 GCACACAGCCATA
38503267 ATCAAGATAG
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
25 5 0.09
26 1 0.02
27 41 0.77
28 2 0.04
29 4 0.08
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (27 bp):
GCACACAGCCATAGGTAAATATGATAC
Found at i:38503712 original size:27 final size:27
Alignment explanation
Indices: 38503682--38503751 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
38503672 CCTATAGGGA
*
38503682 TATTTCGATAATTTTGCACTACAAAGG
1 TATTTCGATAATTTTACACTACAAAGG
** * *
38503709 TATTTCGGCAATTTTACACTATAAGGG
1 TATTTCGATAATTTTACACTACAAAGG
38503736 TATTTCGATAATTTTA
1 TATTTCGATAATTTTA
38503752 TAAACTGGGG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (27 bp):
TATTTCGATAATTTTACACTACAAAGG
Found at i:38506263 original size:12 final size:12
Alignment explanation
Indices: 38506246--38506275 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
38506236 CAAAATTGTA
38506246 AAAATATTCATC
1 AAAATATTCATC
38506258 AAAATATTCATC
1 AAAATATTCATC
38506270 AAAATA
1 AAAATA
38506276 AAAAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATATTCATC
Found at i:38510130 original size:33 final size:33
Alignment explanation
Indices: 38510093--38510206 Score: 104
Period size: 33 Copynumber: 3.4 Consensus size: 33
38510083 TCACCAGGAT
* *
38510093 AGTAAACACGAAATAGAGTAAGTTTGCTGGGAC
1 AGTAAACACGAAATAGAGTAAGTCTACTGGGAC
* * * * *
38510126 AGTAAACACAAAACAGATATAAGTCCACTGGGAA
1 AGTAAACACGAAATAGA-GTAAGTCTACTGGGAC
* * *
38510160 AGTAAACACGGAATAGGGTAAGTCCTCCT-GGAC
1 AGTAAACACGAAATAGAGTAAGT-CTACTGGGAC
*
38510193 AATAAACACGAAAT
1 AGTAAACACGAAAT
38510207 TAAGTCTGCT
Statistics
Matches: 62, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
33 35 0.56
34 27 0.44
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.18
Consensus pattern (33 bp):
AGTAAACACGAAATAGAGTAAGTCTACTGGGAC
Found at i:38510181 original size:67 final size:68
Alignment explanation
Indices: 38510055--38510182 Score: 170
Period size: 67 Copynumber: 1.9 Consensus size: 68
38510045 AGTCCATCAA
* * *
38510055 GACAGTAAACACGAAACAGTGATAAAGTTCACCAGGATAGTAAACACGAAATAGAGTAAGTTTGC
1 GACAGTAAACACAAAACAGTGATAAAGTCCACCAGGAAAGTAAACACGAAATAGAGTAAGTTTGC
38510120 TGG
66 TGG
** * *
38510123 GACAGTAAACACAAAACA--GATATAAGTCCACTGGGAAAGTAAACACGGAATAGGGTAAGT
1 GACAGTAAACACAAAACAGTGATA-AAGTCCACCAGGAAAGTAAACACGAAATAGAGTAAGT
38510183 CCTCCTGGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
66 4 0.08
67 31 0.60
68 17 0.33
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (68 bp):
GACAGTAAACACAAAACAGTGATAAAGTCCACCAGGAAAGTAAACACGAAATAGAGTAAGTTTGC
TGG
Found at i:38510193 original size:67 final size:68
Alignment explanation
Indices: 38510055--38510201 Score: 165
Period size: 67 Copynumber: 2.2 Consensus size: 68
38510045 AGTCCATCAA
* * * * *
38510055 GACAGTAAACACGAAACAGTGATAAAGTTCACCAGGATAGTAAACACGAAATAGAGTAAGTTTGC
1 GACAGTAAACACAAAACAGTGATAAAGTCCACCAGGAAAGTAAACACGAAATAGAGTAAGTCTCC
38510120 TGG
66 TGG
** * *
38510123 GACAGTAAACACAAAACA--GATATAAGTCCACTGGGAAAGTAAACACGGAATAGGGTAAGTCCT
1 GACAGTAAACACAAAACAGTGATA-AAGTCCACCAGGAAAGTAAACACGAAATAGAGTAAGT-CT
38510186 CCT-G
64 CCTGG
*
38510190 GACAATAAACAC
1 GACAGTAAACAC
38510202 GAAATTAAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
66 4 0.06
67 43 0.64
68 20 0.30
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.17
Consensus pattern (68 bp):
GACAGTAAACACAAAACAGTGATAAAGTCCACCAGGAAAGTAAACACGAAATAGAGTAAGTCTCC
TGG
Found at i:38511251 original size:46 final size:45
Alignment explanation
Indices: 38511193--38511365 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 45
38511183 TGGTTGAGCA
* *
38511193 TCCGGACTCGTTGAGTTGAGTGCGAGTTCACTTATGGGTGCGAATG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
* *
38511239 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAA-T--G
* *
38511284 CATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAG-TCGAGTTCACTTATGGATGCGAATG
*
38511332 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTC-GAGTTCACTTA
38511366 GGGGCGGATT
Statistics
Matches: 104, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 6 0.06
46 55 0.53
47 27 0.26
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATG
Found at i:38511349 original size:93 final size:93
Alignment explanation
Indices: 38511190--38511361 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
38511180 GGATGGTTGA
* * *
38511190 GCATCCGGACTCGTTGAGTTGAGTGCGAGTTCACTTATGGGTGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTGCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
38511255 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
** *
38511283 GCATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTGCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
38511347 TTGAGTCTGAGTTCA
65 TTGAGTCCGAGTTCA
38511362 CTTAGGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTGCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:38516421 original size:37 final size:37
Alignment explanation
Indices: 38516368--38516470 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
38516358 CGAATAGTCC
*
38516368 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
38516405 CCGCACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
38516442 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
38516471 ATACATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:38516579 original size:48 final size:48
Alignment explanation
Indices: 38516515--38516791 Score: 401
Period size: 48 Copynumber: 5.8 Consensus size: 48
38516505 TGTTACTACA
* *
38516515 TTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
38516563 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
38516611 TTCACATTAGCCATTCGGCTTTACCACATAAACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
38516659 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * * *
38516707 TTCACATTCGCCATTCGGCTTTACCGCATACACATATCGCACATATAC
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
38516755 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
38516792 ATTTATCTTG
Statistics
Matches: 208, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 208 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:38523723 original size:29 final size:29
Alignment explanation
Indices: 38523653--38523743 Score: 139
Period size: 29 Copynumber: 3.2 Consensus size: 29
38523643 AAGTCTACAT
*
38523653 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
38523681 TCATTCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
38523710 ACATTCATACGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
38523739 ACATT
1 ACATT
38523744 TGTATACATG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 22 0.39
29 35 0.61
ACGTcount: A:0.30, C:0.34, G:0.14, T:0.22
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:38527952 original size:40 final size:40
Alignment explanation
Indices: 38527768--38527952 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
38527758 GCTACTCGTT
* * *
38527768 CAAAGGCCTTCGGGACATAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
* * * *
38527808 CAAATGCCTTCGGGACTCAACCCGAATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
* * *
38527848 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCT
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCACA
* * * *
38527887 CAAATGCCTTC-CGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCA-CA
38527928 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38527953 CATCATTCGA
Statistics
Matches: 116, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
38 1 0.01
39 28 0.24
40 79 0.68
41 8 0.07
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
Found at i:38537413 original size:38 final size:40
Alignment explanation
Indices: 38537333--38537421 Score: 132
Period size: 38 Copynumber: 2.3 Consensus size: 40
38537323 GCTACTCGTT
*
38537333 CAAATG-CTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
38537372 CAAATGCCTTCGGGAC-TAACCCGGATT-TAG-AACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
38537410 CAAATGCCTTCG
1 CAAATGCCTTCG
38537422 ATCTTAGTCC
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
38 20 0.43
39 16 0.34
40 11 0.23
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
Found at i:38564109 original size:31 final size:30
Alignment explanation
Indices: 38564043--38564117 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
38564033 AAAAATTTAA
**
38564043 GAGAGAATTTGAGAGATTTTTGAGAGTTGATT
1 GAGA-AATTTGAGAGATTTAAGAGAGTTGA-T
38564075 GAGAAATTTGAGAGATTTAAGAGAGAATTG-T
1 GAGAAATTTGAGAGATTTAAGAGAG--TTGAT
*
38564106 GAGAAATGTGAG
1 GAGAAATTTGAG
38564118 TGAGAAAGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
31 31 0.82
32 4 0.11
33 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (30 bp):
GAGAAATTTGAGAGATTTAAGAGAGTTGAT
Found at i:38564805 original size:29 final size:30
Alignment explanation
Indices: 38564754--38564815 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
38564744 ACTTATTTTA
38564754 TTGTTAATTTTGTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTGTTATTATTTTATAA-GCAT
38564784 TTGTTAATTTT-TTATTATTTTATAAGCAT
1 TTGTTAATTTTGTTATTATTTTATAAGCAT
38564813 TTG
1 TTG
38564816 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTATAAGCAT
Found at i:38570915 original size:20 final size:20
Alignment explanation
Indices: 38570890--38570928 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38570880 AGTTGAATGA
38570890 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
38570910 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
38570929 AATAGCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:38577575 original size:20 final size:20
Alignment explanation
Indices: 38577550--38577588 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38577540 AAAATTTCAA
38577550 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
38577570 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
38577589 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:38578753 original size:3 final size:3
Alignment explanation
Indices: 38578745--38578781 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
38578735 TCACAACACA
38578745 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
38578782 CTAAGACCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:38579887 original size:30 final size:30
Alignment explanation
Indices: 38579853--38579911 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
38579843 CTTATTTTAT
38579853 TGTTAATTTTGTTACTATTTTAAAGGCATC
1 TGTTAATTTTGTTACTATTTTAAAGGCATC
* *
38579883 TGTTAATTTTTTTATTATTTTAAAGGCAT
1 TGTTAATTTTGTTACTATTTTAAAGGCAT
38579912 TTTCTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTTAATTTTGTTACTATTTTAAAGGCATC
Found at i:38584695 original size:47 final size:47
Alignment explanation
Indices: 38584586--38584751 Score: 219
Period size: 47 Copynumber: 3.5 Consensus size: 47
38584576 TATTTGAATA
38584586 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
38584635 AATGTGAAA--GTATATATGTGATAAGGCCTAATGCCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
38584680 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
38584727 GATGTGAAAGTGTATAAATGTGATA
1 AATGTGAAAGTGTATATATGTGATA
38584752 TGTCCCGAAG
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
45 43 0.41
47 52 0.50
49 9 0.09
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:38585656 original size:21 final size:22
Alignment explanation
Indices: 38585632--38585673 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
38585622 AGGAGTTGTT
38585632 TATTAAACTAATT-AACTAAAC
1 TATTAAACTAATTAAACTAAAC
*
38585653 TATTTAACTAATTAAACTAAA
1 TATTAAACTAATTAAACTAAA
38585674 GCAAAGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (22 bp):
TATTAAACTAATTAAACTAAAC
Found at i:38600662 original size:15 final size:15
Alignment explanation
Indices: 38600642--38600672 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38600632 AGTAAATTAT
*
38600642 TAAATAAAACTAAAA
1 TAAATAAAACCAAAA
38600657 TAAATAAAACCAAAA
1 TAAATAAAACCAAAA
38600672 T
1 T
38600673 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (15 bp):
TAAATAAAACCAAAA
Found at i:38602581 original size:25 final size:25
Alignment explanation
Indices: 38602552--38602599 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38602542 CTTATATATG
* * *
38602552 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38602577 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38602600 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38602650 original size:9 final size:9
Alignment explanation
Indices: 38602638--38602694 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
38602628 TTTGATAAAC
38602638 ATGATATGT
1 ATGATATGT
*
38602647 ATGATATGCAC
1 ATGATATG--T
*
38602658 ATGACATGT
1 ATGATATGT
*
38602667 ATGATATGCAC
1 ATGATATG--T
38602678 ATGATATGT
1 ATGATATGT
38602687 ATGATATG
1 ATGATATG
38602695 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:38602661 original size:20 final size:20
Alignment explanation
Indices: 38602636--38602698 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
38602626 ATTTTGATAA
38602636 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38602656 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
38602676 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38602696 ACA
1 ACA
38602699 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38602782 original size:23 final size:23
Alignment explanation
Indices: 38602752--38602892 Score: 214
Period size: 23 Copynumber: 6.0 Consensus size: 23
38602742 GAGGAAGTGC
38602752 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
38602775 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
38602798 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
38602821 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
38602845 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
38602868 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
38602892 A
1 A
38602893 TGATAAAGCA
Statistics
Matches: 111, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 86 0.77
24 18 0.16
25 7 0.06
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:38603119 original size:31 final size:31
Alignment explanation
Indices: 38603084--38603147 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
38603074 CGTTTACAGT
38603084 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
38603115 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38603146 AA
1 AA
38603148 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38610665 original size:25 final size:25
Alignment explanation
Indices: 38610636--38610683 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38610626 TTATAACATG
* * *
38610636 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38610661 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38610684 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38610734 original size:9 final size:9
Alignment explanation
Indices: 38610722--38610778 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
38610712 TTTGATAGAC
38610722 ATGATATGT
1 ATGATATGT
*
38610731 ATGATATGCAC
1 ATGATATG--T
*
38610742 ATGAAATGT
1 ATGATATGT
*
38610751 ATGATATGCAC
1 ATGATATG--T
38610762 ATGATATGT
1 ATGATATGT
38610771 ATGATATG
1 ATGATATG
38610779 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:38610745 original size:20 final size:20
Alignment explanation
Indices: 38610720--38610782 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
38610710 ATTTTGATAG
38610720 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38610740 ACATGAAATGTATGATATGC
1 ACATGATATGTATGATATGC
38610760 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38610780 ACA
1 ACA
38610783 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38610862 original size:24 final size:24
Alignment explanation
Indices: 38610835--38610954 Score: 163
Period size: 24 Copynumber: 5.0 Consensus size: 24
38610825 GGAGGAAGTG
38610835 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
38610859 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
38610883 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
38610906 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
38610930 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
38610955 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 22 0.25
24 55 0.62
25 11 0.12
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:38610911 original size:47 final size:47
Alignment explanation
Indices: 38610837--38610933 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
38610827 AGGAAGTGCA
38610837 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
38610884 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
38610931 AAA
1 AAA
38610934 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:38611183 original size:31 final size:31
Alignment explanation
Indices: 38611148--38611211 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
38611138 CGATTACAGT
38611148 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
38611179 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38611210 AA
1 AA
38611212 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38612002 original size:21 final size:20
Alignment explanation
Indices: 38611978--38612017 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
38611968 CATGTATTTT
*
38611978 AATGATTGATGATAGATTATG
1 AATGATTAATGATAG-TTATG
*
38611999 AATGTTTAATGATAGTTAT
1 AATGATTAATGATAGTTAT
38612018 TCAAGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
AATGATTAATGATAGTTATG
Found at i:38614304 original size:50 final size:49
Alignment explanation
Indices: 38614182--38614420 Score: 239
Period size: 50 Copynumber: 4.8 Consensus size: 49
38614172 CGAAGCTATC
* * * * *
38614182 TGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAAT
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT
* * * *
38614230 TCGGTACACGTAGTAGCCTACACTTAGTACTACATACGTGACCTCACCAT
1 T-GATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT
* * * *
38614280 CTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT
1 -TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCAT
* * * * *
38614331 TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-CAGT
1 TGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-T
*
38614381 ATGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 -TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
38614421 TACTCACAAT
Statistics
Matches: 154, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 36 0.23
50 77 0.50
51 40 0.26
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT
Found at i:38614394 original size:101 final size:99
Alignment explanation
Indices: 38614182--38614420 Score: 268
Period size: 101 Copynumber: 2.4 Consensus size: 99
38614172 CGAAGCTATC
* * * * *
38614182 TGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATTCGGTACACGTAGTAGC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATTCGGTACACATAGTAGC
* * * *
38614247 CTACACTTAGTACTACATACGTGACCTCACCATC
66 CTACACTTAGTACTACACACGCGACCTCAACATA
* * *
38614281 TGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-ATT-GAGTACGCATAG
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--CAATTCG-GTACACATAG
* * *
38614344 TAGCCTGCACTTAGTACTACACATGCGA-CTTAACAGTA
62 TAGCCTACACTTAGTACTACACACGCGACCTCAACA-TA
*
38614382 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
38614421 TACTCACAAT
Statistics
Matches: 118, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
99 35 0.30
100 9 0.08
101 73 0.62
102 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATTCGGTACACATAGTAGC
CTACACTTAGTACTACACACGCGACCTCAACATA
Found at i:38618808 original size:47 final size:47
Alignment explanation
Indices: 38618691--38618885 Score: 228
Period size: 47 Copynumber: 4.3 Consensus size: 47
38618681 TGAAAAATTT
* * * *
38618691 TGGTGCTAAGTGGATATACAACGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAACG
*
38618739 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACG
*
38618786 TGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------TAACG
1 TGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACG
* * * *
38618824 TGATGCTAAGTGGATATGCCACGGTTACATATATTAATTCATTAACA
1 TGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACG
38618871 TGGTGCTAAGTGGAT
1 TGGTGCTAAGTGGAT
38618886 GTACTGTAAC
Statistics
Matches: 125, Mismatches: 13, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
38 30 0.24
39 1 0.01
40 2 0.02
41 1 0.01
44 2 0.02
45 2 0.02
46 1 0.01
47 49 0.39
48 37 0.30
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (47 bp):
TGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACG
Found at i:38618875 original size:85 final size:85
Alignment explanation
Indices: 38618729--38618885 Score: 287
Period size: 85 Copynumber: 1.8 Consensus size: 85
38618719 ACATATTGAT
* * *
38618729 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTAATTCATTAACATGGTGCTA
38618794 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
38618814 ACATGTAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTAATTCATTAACATGGTGCTA
1 ACATGTAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTAATTCATTAACATGGTGCTA
38618879 AGTGGAT
66 AGTGGAT
38618886 GTACTGTAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGATGCTAAGTGGATATGCCACGGTTACATATATTAATTCATTAACATGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:38629750 original size:48 final size:48
Alignment explanation
Indices: 38629301--38629749 Score: 758
Period size: 48 Copynumber: 9.4 Consensus size: 48
38629291 ATATACACAC
*
38629301 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38629349 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
38629397 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCAC--ACACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38629443 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
** *
38629491 ATCTCATGTATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
** *
38629539 ATCTCATGTATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38629587 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
38629635 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
** *
38629683 ATCTCATGTATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38629731 ATCTCATACATATTTCACA
1 ATCTCATACATATTTCACA
38629750 TGTAACACCC
Statistics
Matches: 379, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 43 0.11
48 336 0.89
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:38630825 original size:47 final size:47
Alignment explanation
Indices: 38630747--38631290 Score: 882
Period size: 47 Copynumber: 11.6 Consensus size: 47
38630737 CCTTCGAGAA
* * * * *
38630747 TTATCACATTTATACACTTTCACA-TCTATCACGTTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTC-ATCACATCGGCCATTAGGCC
* *
38630794 CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
38630841 TTATCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
38630886 TTATCACATATATATACACTTTCACATTCATCACATCGACTATTTA--CC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCC
38630934 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
38630981 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
38631028 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
38631075 TTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
38631124 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
38631171 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
38631218 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTATGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
38631265 TTATCACATATATACACTTTCACATT
1 TTATCACATATATACACTTTCACATT
38631291 TATTCAAATA
Statistics
Matches: 467, Mismatches: 20, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
45 42 0.09
46 31 0.07
47 311 0.67
48 11 0.02
49 69 0.15
50 3 0.01
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:38631191 original size:190 final size:189
Alignment explanation
Indices: 38630747--38631290 Score: 929
Period size: 190 Copynumber: 2.9 Consensus size: 189
38630737 CCTTCGAGAA
* * * * * * *
38630747 TTATCACATTTATACACTTTCACA-TCTATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 TTATCACATATATACACTTTCACATTC-ATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
38630811 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--ACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
38630874 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGACTATTTACC
130 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGACTATTTACC
38630934 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
38630999 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
38631064 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTA-TTAGGCC
131 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGACTATTTA--CC
38631124 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
38631189 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
*
38631254 GCCATTATGCCTTATCAC--ATATATACACTTTCACATT
131 GCCATTAGGCCTTATCACATATATATACACTTTCACATT
38631291 TATTCAAATA
Statistics
Matches: 342, Mismatches: 10, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
187 96 0.28
188 24 0.07
189 73 0.21
190 149 0.44
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.34
Consensus pattern (189 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGACTATTTACC
Found at i:38632822 original size:13 final size:13
Alignment explanation
Indices: 38632804--38632828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38632794 TACTAAATTT
38632804 TCATGGATTCAAA
1 TCATGGATTCAAA
38632817 TCATGGATTCAA
1 TCATGGATTCAA
38632829 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:38633743 original size:46 final size:46
Alignment explanation
Indices: 38633664--38633921 Score: 400
Period size: 46 Copynumber: 5.6 Consensus size: 46
38633654 AGGCATCACA
38633664 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT--ATATT
38633712 TCACACTAGCCATTC-G-TTTACCACATATACATATCTCATACATATT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT--ATATT
*
38633758 TCACACTAGCCATTCGGCTTTACC-C--ACACATATCTCATATATT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATT
*
38633801 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATGTATATT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCA--TATATT
38633849 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATT
*
38633895 TCACATTAGCCATTCGGCTTTACCACA
1 TCACACTAGCCATTCGGCTTTACCACA
38633922 CACATATATA
Statistics
Matches: 198, Mismatches: 5, Indels: 16
0.90 0.02 0.07
Matches are distributed among these distances:
43 28 0.14
44 1 0.01
45 12 0.06
46 88 0.44
47 3 0.02
48 66 0.33
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (46 bp):
TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATT
Found at i:38633910 original size:137 final size:137
Alignment explanation
Indices: 38633664--38633928 Score: 453
Period size: 137 Copynumber: 1.9 Consensus size: 137
38633654 AGGCATCACA
38633664 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGT
38633729 TTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACC-CACACATATCT
66 TTACCACATATACATATCTCATA-ATATTTCACACTAGCCATTCGGCTTTACCACACACATATCT
38633793 CATATATT
130 CATATATT
* **
38633801 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATGTATATTTCACACTAGCCATTCGG
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTC-G
*
38633866 CTTTACCACATATACATATCTCAT-ATATTTCACATTAGCCATTCGGCTTTACCACACACATAT
65 -TTTACCACATATACATATCTCATAATATTTCACACTAGCCATTCGGCTTTACCACACACATAT
38633929 ATATTATCTT
Statistics
Matches: 121, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
137 88 0.73
138 10 0.08
139 23 0.19
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (137 bp):
TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGT
TTACCACATATACATATCTCATAATATTTCACACTAGCCATTCGGCTTTACCACACACATATCTC
ATATATT
Found at i:38648464 original size:40 final size:40
Alignment explanation
Indices: 38648359--38648504 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
38648349 GCTACTCGTT
*
38648359 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38648399 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38648439 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38648480 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38648505 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.83
41 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38652717 original size:50 final size:49
Alignment explanation
Indices: 38652577--38652768 Score: 206
Period size: 50 Copynumber: 3.9 Consensus size: 49
38652567 AGCCGAAGCT
* * * * *
38652577 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACC
* * * *
38652626 ATCCGGTACACGTAGTAGCCTGCACTTAGTACTACATACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AACC
* * * *
38652676 ATCTGATACATGTAGTAGCCTTCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CC
* *
38652727 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACACGTG
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
38652769 TACTCACAAT
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
49 38 0.32
50 44 0.37
51 36 0.31
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAACC
Found at i:38658581 original size:40 final size:40
Alignment explanation
Indices: 38658342--38658567 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
38658332 TCGAATGATG
* * * *
38658342 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
38658382 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38658422 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38658462 TCCGGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38658502 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38658543 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38658568 AACGAGTAGC
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 156 0.93
41 11 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38660351 original size:47 final size:47
Alignment explanation
Indices: 38660238--38660395 Score: 244
Period size: 47 Copynumber: 3.3 Consensus size: 47
38660228 ATGAAAAAAT
* * * * *
38660238 GTGGTGCTAAGTGGATATACAACGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAAC
38660286 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
*
38660333 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAGC
1 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
*
38660380 ATGGTGCTAAGTGGAT
1 GTGGTGCTAAGTGGAT
38660396 GTACTGTAAC
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
47 65 0.63
48 38 0.37
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
Found at i:38663116 original size:30 final size:30
Alignment explanation
Indices: 38663082--38663142 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38663072 TCCTTAACTC
38663082 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
38663112 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
38663142 A
1 A
38663143 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:38671243 original size:48 final size:48
Alignment explanation
Indices: 38670795--38671242 Score: 749
Period size: 48 Copynumber: 9.4 Consensus size: 48
38670785 ATATACACAC
*
38670795 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38670843 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
38670891 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCAC--ACACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38670937 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC-TATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
** *
38670984 ATCTCATGTATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
** *
38671032 ATCTCATGTATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38671080 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
38671128 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
** *
38671176 ATCTCATGTATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
38671224 ATCTCATACATATTTCACA
1 ATCTCATACATATTTCACA
38671243 TGTAACACCC
Statistics
Matches: 378, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 43 0.11
47 42 0.11
48 293 0.78
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:38672440 original size:47 final size:47
Alignment explanation
Indices: 38672225--38672766 Score: 844
Period size: 47 Copynumber: 11.6 Consensus size: 47
38672215 GCCCTTCGGA
* * * * * *
38672225 CTTATCACAT-TATATAC-TTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * ** *
38672270 CCTGTCACATATATACAC-TTCACATTCATCACATC-GATATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672315 CTTATCACATATATACACTTTCACATTCATCA-ATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38672361 CTTATCACATATATATACACTTTCACATTCATCACATCGACTATTAGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672410 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38672457 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672504 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38672551 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672599 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38672646 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38672693 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTATGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672740 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
38672767 TATTCAAATA
Statistics
Matches: 459, Mismatches: 29, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
45 32 0.07
46 83 0.18
47 256 0.56
48 34 0.07
49 54 0.12
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38672624 original size:189 final size:190
Alignment explanation
Indices: 38672225--38672766 Score: 920
Period size: 189 Copynumber: 2.9 Consensus size: 190
38672215 GCCCTTCGGA
* * * * * * * *
38672225 CTTATCACAT-TATATAC-TTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
38672288 -TTCACATTCATCACATC-GATATTAGACCTTATCACATATATACACTTTCACATTCATCA-ATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
38672350 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGACTATTAGAC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGACTATTAGAC
38672410 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38672475 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
38672540 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAG-C
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGACTATTAGAC
38672599 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38672664 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
38672729 GGCCATTATGCCTTATCAC--ATATATACACTTTCACATT
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATT
38672767 TATTCAAATA
Statistics
Matches: 340, Mismatches: 12, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
185 10 0.03
186 6 0.02
187 58 0.17
188 17 0.05
189 189 0.56
190 60 0.18
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGACTATTAGAC
Found at i:38674292 original size:13 final size:13
Alignment explanation
Indices: 38674274--38674298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38674264 TACTAAATTT
38674274 TCATGGATTCAAA
1 TCATGGATTCAAA
38674287 TCATGGATTCAA
1 TCATGGATTCAA
38674299 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:38675196 original size:48 final size:48
Alignment explanation
Indices: 38675143--38675407 Score: 444
Period size: 48 Copynumber: 5.6 Consensus size: 48
38675133 GGCTGTCACA
*
38675143 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATT
* *
38675191 TCACACTAGCCATTCGTCTTTACCACATATACATATCTCATACATATT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATT
* *
38675239 TCACACTAGCCATTCGGCTTTACCGC--ACACATATCTCATATATATT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATT
* *
38675285 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATGTATATT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATT
38675333 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATT
*
38675381 TCACATTAGCCATTCGGCTTTACCACA
1 TCACACTAGCCATTCGGCTTTACCACA
38675408 CACATATATA
Statistics
Matches: 203, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
46 42 0.21
48 161 0.79
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATT
Found at i:38675306 original size:94 final size:95
Alignment explanation
Indices: 38675143--38675407 Score: 442
Period size: 94 Copynumber: 2.8 Consensus size: 95
38675133 GGCTGTCACA
* * *
38675143 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGT
1 TCACACTAGCCATTCGGCTTTACCACA-ATACATATCTCATATATATTTCACATTAGCCATTCGG
38675208 CTTTACCACATATACATATCTCATACATATT
65 CTTTACCACATATACATATCTCATACATATT
* *
38675239 TCACACTAGCCATTCGGCTTTACCGC-ACACATATCTCATATATATTTCACATTAGCCATTCGGC
1 TCACACTAGCCATTCGGCTTTACCACAATACATATCTCATATATATTTCACATTAGCCATTCGGC
**
38675303 TTTACCACATATACATATCTCATGTATATT
66 TTTACCACATATACATATCTCATACATATT
38675333 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGG
1 TCACACTAGCCATTCGGCTTTACCACA-ATACATATCTCATATATATTTCACATTAGCCATTCGG
38675398 CTTTACCACA
65 CTTTACCACA
38675408 CACATATATA
Statistics
Matches: 158, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
94 87 0.55
96 71 0.45
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (95 bp):
TCACACTAGCCATTCGGCTTTACCACAATACATATCTCATATATATTTCACATTAGCCATTCGGC
TTTACCACATATACATATCTCATACATATT
Found at i:38675399 original size:142 final size:142
Alignment explanation
Indices: 38675143--38675414 Score: 481
Period size: 142 Copynumber: 1.9 Consensus size: 142
38675133 GGCTGTCACA
*
38675143 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGT
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG
*
38675208 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCGCACACATAT
66 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACACATAT
38675273 CTCATATATATT
131 CTCATATATATT
* **
38675285 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATGTATATTTCACACTAGCCATTCGG
1 TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG
* *
38675350 CTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACACATAT
66 CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACACATAT
38675415 ATATTTATCT
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 123 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (142 bp):
TCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGG
CTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACACATAT
CTCATATATATT
Found at i:38681474 original size:68 final size:66
Alignment explanation
Indices: 38681402--38681573 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
38681392 CATCATGTGT
* * * *
38681402 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
38681465 TGTAG
62 TGTAG
** * *
38681470 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
38681535 AG
65 AG
* * * *
38681537 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
38681574 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:38681507 original size:64 final size:64
Alignment explanation
Indices: 38681426--38681609 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
38681416 AGACATTATG
* * *
38681426 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
38681490 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
38681555 AA
63 AA
* * *
38681557 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
38681610 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:38685909 original size:68 final size:66
Alignment explanation
Indices: 38685837--38686008 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
38685827 CATCATGTGT
* * * *
38685837 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
38685900 TGTAG
62 TGTAG
** * *
38685905 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
38685970 AG
65 AG
* * * *
38685972 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
38686009 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:38685942 original size:64 final size:64
Alignment explanation
Indices: 38685861--38686044 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
38685851 AGACATTATG
* * *
38685861 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
38685925 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
38685990 AA
63 AA
* * *
38685992 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
38686045 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:38691330 original size:27 final size:28
Alignment explanation
Indices: 38691300--38691359 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
38691290 GCATCTAATA
* *
38691300 CTGATTC-TATATTGGTCTTAGGCCCAC
1 CTGATTCTTATATTGGGCTAAGGCCCAC
* *
38691327 CTGATTCTTTTATTGGGCTAAGGCCCAT
1 CTGATTCTTATATTGGGCTAAGGCCCAC
38691355 CTGAT
1 CTGAT
38691360 ACTGTTTCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.38
Consensus pattern (28 bp):
CTGATTCTTATATTGGGCTAAGGCCCAC
Found at i:38697733 original size:27 final size:27
Alignment explanation
Indices: 38697689--38697741 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
38697679 GACATTAGTT
38697689 TGTAAAATCACCAAAATACCCTTGTAG
1 TGTAAAATCACCAAAATACCCTTGTAG
* **
38697716 TGTAAAATGACCGTAATACCCTTGTA
1 TGTAAAATCACCAAAATACCCTTGTA
38697742 TGGTAGAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (27 bp):
TGTAAAATCACCAAAATACCCTTGTAG
Found at i:38698199 original size:27 final size:28
Alignment explanation
Indices: 38698169--38698222 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
38698159 CATCTGATAC
* *
38698169 TGATTTTG-TATTGGGCTTAGGCCCACG
1 TGATTCTGTTATTGGGCTAAGGCCCACG
38698196 TGATTCTGTTATTGGGCTAAGGCCCAC
1 TGATTCTGTTATTGGGCTAAGGCCCAC
38698223 CAGATACTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (28 bp):
TGATTCTGTTATTGGGCTAAGGCCCACG
Found at i:38698232 original size:28 final size:28
Alignment explanation
Indices: 38698177--38698233 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
38698167 ACTGATTTTG
* ** *
38698177 TATTGGGCTTAGGCCCACGTGATTCTGT
1 TATTGGGCTAAGGCCCACCAGATACTGT
38698205 TATTGGGCTAAGGCCCACCAGATACTGT
1 TATTGGGCTAAGGCCCACCAGATACTGT
38698233 T
1 T
38698234 TCTATGATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (28 bp):
TATTGGGCTAAGGCCCACCAGATACTGT
Found at i:38706411 original size:40 final size:38
Alignment explanation
Indices: 38706321--38706500 Score: 173
Period size: 40 Copynumber: 4.5 Consensus size: 38
38706311 TCGAATGATG
* * * *
38706321 TCCGGGCTAAGTCTCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTC-CGAAGGCATTGTGC-GAGTTACTAAA
* * *
38706361 TCCAGACTAAGATCCGAAGGCATGTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCAT-TGTGCGAGTTACTAAA
*
38706401 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATT-GTGCGAGTTACTAAA
* *
38706440 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCA-TTGTGCGAGTTACTA-AA
*
38706481 -CCGGGCTATGTCCCGAAGGC
1 TCCGGGCTAAGT-CCGAAGGC
38706501 CTTTGAACGA
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 34 0.29
40 72 0.61
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (38 bp):
TCCGGGCTAAGTCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:38706527 original size:79 final size:79
Alignment explanation
Indices: 38706374--38706528 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
38706364 AGACTAAGAT
* **
38706374 CCGAAGGCATGTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATGTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
38706439 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * * *
38706453 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCCTTTGAACGAG-TAGC
1 CCGAAGGCATGTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
38706516 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
38706529 ATTTCGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.61
80 23 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATGTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:38710589 original size:29 final size:29
Alignment explanation
Indices: 38710547--38710637 Score: 139
Period size: 29 Copynumber: 3.2 Consensus size: 29
38710537 CATGTATACA
* *
38710547 AATGTGATTTGGGCCTAATGGGCCGTATG
1 AATGTGATTTGGGCCTAGTGGGCCATATG
38710576 AATGTGATTTGGGCCTAGTGGGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCATATG
*
38710605 AATGAGA-TTGGGCCTAGTGGGCCATATG
1 AATGTGATTTGGGCCTAGTGGGCCATATG
*
38710633 CATGT
1 AATGT
38710638 ATGTAGACTT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 24 0.42
29 33 0.58
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.30
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAGTGGGCCATATG
Found at i:38718940 original size:65 final size:65
Alignment explanation
Indices: 38718864--38718994 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
38718854 TAATTAAACC
38718864 ATGATTTATTTAGTTACACTAAGTTAATAATTACAGTATAAATAGGTGAAGATAGTGGAATTCAT
1 ATGATTTATTTAGTTACACTAAGTTAATAATTACAGTATAAATAGGTGAAGATAGTGGAATTCAT
38718929 ATGATTTATTTAGTTACACTAAGTTAATAATTACAGTATAAATAGGTGAAGATAGTGGAATTCAT
1 ATGATTTATTTAGTTACACTAAGTTAATAATTACAGTATAAATAGGTGAAGATAGTGGAATTCAT
38718994 A
1 A
38718995 ATCTTTCTCC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (65 bp):
ATGATTTATTTAGTTACACTAAGTTAATAATTACAGTATAAATAGGTGAAGATAGTGGAATTCAT
Found at i:38721663 original size:39 final size:37
Alignment explanation
Indices: 38721589--38721663 Score: 98
Period size: 39 Copynumber: 2.0 Consensus size: 37
38721579 TCCCAGACAG
* *
38721589 GGTCTTACACAAAATCAAATACGATGCCGATGTCCAT
1 GGTCTTACACAAAATCAAATACGATGCCAACGTCCAT
38721626 GGTCTTACACATAAATCATAAGT-CGATGCCAACGTCCA
1 GGTCTTACACA-AAATCA-AA-TACGATGCCAACGTCCA
38721664 AGATGTGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 11 0.33
38 6 0.18
39 15 0.45
40 1 0.03
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (37 bp):
GGTCTTACACAAAATCAAATACGATGCCAACGTCCAT
Found at i:38728957 original size:47 final size:47
Alignment explanation
Indices: 38728904--38729097 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
38728894 TTAGGATTTT
** * *
38728904 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38728951 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
38728998 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
38729045 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38729092 ATGTGA
1 ATGTGA
38729098 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:38729004 original size:22 final size:22
Alignment explanation
Indices: 38728933--38729004 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
38728923 GTATATATGA
38728933 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
38728955 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
38728980 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
38729002 GAT
1 GAT
38729005 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:38729053 original size:25 final size:25
Alignment explanation
Indices: 38728978--38729053 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
38728968 ATGCATATAT
38728978 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
38729003 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
38729025 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
38729050 GTGA
1 GTGA
38729054 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:38729226 original size:98 final size:96
Alignment explanation
Indices: 38729068--38729251 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
38729058 GAACATGCAT
*
38729068 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
38729133 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
38729164 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGAAATGTATATGTGGTAAAGC
*
38729228 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
38729252 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.02
98 52 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:38729267 original size:50 final size:48
Alignment explanation
Indices: 38729067--38729251 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
38729057 TGAACATGCA
*
38729067 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
38729115 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
38729163 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
38729213 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
38729252 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:38729541 original size:37 final size:37
Alignment explanation
Indices: 38729398--38729540 Score: 259
Period size: 37 Copynumber: 3.9 Consensus size: 37
38729388 GAAATATATT
38729398 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
38729435 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
*
38729472 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
* *
38729509 CGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATT
38729541 TCGTCTGAGC
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
Found at i:38730863 original size:40 final size:40
Alignment explanation
Indices: 38730808--38731476 Score: 847
Period size: 40 Copynumber: 16.7 Consensus size: 40
38730798 GAGAATTGAG
* ** *
38730808 AGTGATATATCCGGGCTAAGTCCTAAAGGGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
38730848 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
38730888 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
38730928 AGTGATATATCCGAGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * **
38730968 AGTGATGTATCCAGACTAGGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
38731008 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
38731048 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
38731088 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
38731128 AGTGATGTATCTGGACTAGGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
38731168 AGTGATATATCCAGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
38731208 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
38731248 AGTGATATATCTGGGCTATA-CCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTA-AGTCCCGAAGAGCATTCGTGCT
* *
38731288 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
38731328 AGTGATGTATCCGGACTAAGTCCCGAAGTGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
38731368 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTTG-T
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCG-TGCT
* * **
38731408 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
38731448 GGTGTTATATCCGGGCTAGGTCCCAAAGA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGA
38731477 ACAATCATGC
Statistics
Matches: 542, Mismatches: 83, Indels: 8
0.86 0.13 0.01
Matches are distributed among these distances:
39 3 0.01
40 536 0.99
41 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:38730946 original size:80 final size:80
Alignment explanation
Indices: 38730808--38731461 Score: 999
Period size: 80 Copynumber: 8.2 Consensus size: 80
38730798 GAGAATTGAG
* * * * *
38730808 AGTGATATATCCGGGCTAAG-TCCTAAAGGGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCC
1 AGTGATGTATCCGGACTAAGTTCC-GAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
*
38730872 GAAGAGCATTCGTGCT
65 GAAGAGCATTCATGCT
*
38730888 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGAGCTAAGTCCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
38730953 AAGAGCATTCATGCT
66 AAGAGCATTCATGCT
* * *
38730968 AGTGATGTATCCAGACTAGGTTTCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
38731033 AAGAGCATTCATGCT
66 AAGAGCATTCATGCT
*
38731048 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
38731113 AAGAGCATTCATGCT
66 AAGAGCATTCATGCT
* * *
38731128 AGTGATGTATCTGGACTAGGTTCCGAAGAGCATTCGTGCTAGTGATATATCCAGGCTAAGTCCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
38731193 AAGAGCATTCATGCT
66 AAGAGCATTCATGCT
* *
38731208 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCTGGGCTATA-CCCC
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTA-AGTCCC
38731272 GAAGAGCATTCATGCT
65 GAAGAGCATTCATGCT
* * * *
38731288 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTCCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
*
38731353 AAGTGCATTCATGCT
66 AAGAGCATTCATGCT
* * **
38731368 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTTG-TAGTGATATATCCGTGCTAAACCCC
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCG-TGCTAGTGATATATCCGGGCTAAGTCCC
*
38731432 GAAGAGCATTCGTGCT
65 GAAGAGCATTCATGCT
* * *
38731448 GGTGTTATATCCGG
1 AGTGATGTATCCGG
38731462 GCTAGGTCCC
Statistics
Matches: 528, Mismatches: 42, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
79 1 0.00
80 521 0.99
81 6 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AAGAGCATTCATGCT
Found at i:38735393 original size:47 final size:47
Alignment explanation
Indices: 38735339--38735532 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
38735329 TTAGGATTTT
** * *
38735339 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38735386 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
38735433 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
38735480 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38735527 ATGTGA
1 ATGTGA
38735533 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:38735439 original size:22 final size:22
Alignment explanation
Indices: 38735368--38735439 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
38735358 GTATATATGA
38735368 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
38735390 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
38735415 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
38735437 GAT
1 GAT
38735440 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:38735488 original size:25 final size:25
Alignment explanation
Indices: 38735413--38735488 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
38735403 ATGCATATAT
38735413 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
38735438 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
38735460 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
38735485 GTGA
1 GTGA
38735489 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:38735660 original size:50 final size:48
Alignment explanation
Indices: 38735502--38735684 Score: 287
Period size: 48 Copynumber: 3.8 Consensus size: 48
38735492 TGAACATGCA
*
38735502 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
38735550 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
38735598 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
38735648 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
38735685 AAGGCGATGT
Statistics
Matches: 123, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 77 0.63
49 4 0.03
50 40 0.33
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:38735661 original size:98 final size:96
Alignment explanation
Indices: 38735503--38735684 Score: 294
Period size: 98 Copynumber: 1.9 Consensus size: 96
38735493 GAACATGCAT
*
38735503 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
38735568 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
38735599 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGAAATGTATATGTGGTAAAGC
*
38735663 CGAATGGCTAGTGTGAAATATG
63 CGAATGGCTAATGTGAAATATG
38735685 AAGGCGATGT
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
95 1 0.01
96 26 0.33
97 2 0.03
98 50 0.63
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:38735873 original size:37 final size:37
Alignment explanation
Indices: 38735821--38735922 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
38735811 ACATGAAACT
38735821 TGGAAATATAT-TCCGGGTAAGACCCGATGACTACATG
1 TGGAAAT-TATGTCCGGGTAAGACCCGATGACTACATG
*
38735858 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATTATGTCCGGGTAAGACCCGATGACTACATG
* *
38735895 TGGAGATTTTGTCCGGGTAAGACCCGAT
1 TGGAAATTATGTCCGGGTAAGACCCGAT
38735923 AACTTCGTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 3 0.05
37 58 0.95
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (37 bp):
TGGAAATTATGTCCGGGTAAGACCCGATGACTACATG
Found at i:38735932 original size:37 final size:37
Alignment explanation
Indices: 38735832--38735940 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
38735822 GGAAATATAT
* * *
38735832 TCCGGGTAAGACCCGATGACTACATGTGGAAATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
38735869 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
38735906 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
38735941 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:38740635 original size:29 final size:30
Alignment explanation
Indices: 38740602--38740661 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
38740592 TCCTTAACTC
38740602 AAACTTTGGCAAAATTACA-ATTTTCCCCT
1 AAACTTTGGCAAAATTACACATTTTCCCCT
* * * *
38740631 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACACATTTTCCCCT
38740661 A
1 A
38740662 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACATTTTCCCCT
Found at i:38742375 original size:44 final size:41
Alignment explanation
Indices: 38742262--38742384 Score: 140
Period size: 44 Copynumber: 2.9 Consensus size: 41
38742252 GTAATTAAAT
*
38742262 ATCGATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAA
1 ATCGATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAA
* * *
38742303 ATACAATGCCGATGTCCCAGACATGGTCTTACACGTAAATCATA
1 AT-CGATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCA-A
* *
38742347 AGTCGATGCCAAAGTCCTAGACGTGGTCTTACACGAAA
1 A-TCGATGCCAATGTCCCAGACGTGGTCTTACACGAAA
38742385 ATTGTAACAC
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.03
42 27 0.40
43 9 0.13
44 29 0.43
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (41 bp):
ATCGATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAA
Found at i:38748226 original size:27 final size:27
Alignment explanation
Indices: 38748194--38748354 Score: 198
Period size: 27 Copynumber: 6.0 Consensus size: 27
38748184 ACAAAATGAT
*
38748194 TGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAAAATTAC
*
38748221 TAAAATACCCCTGTAGGGTAAAATTAC
1 TGAAATACCCCTGTAGGGTAAAATTAC
* * *
38748248 CGAAATACCCTTGTAGGGTATAATTAC
1 TGAAATACCCCTGTAGGGTAAAATTAC
* * *
38748275 TGAAATACCACTGTAGGATAGAATTAC
1 TGAAATACCCCTGTAGGGTAAAATTAC
38748302 TGAAATACCCCTGTAGGGTAAAATTAC
1 TGAAATACCCCTGTAGGGTAAAATTAC
* * * *
38748329 -CAAGATACCCTTGTTGGCTAAAATTA
1 TGAA-ATACCCCTGTAGGGTAAAATTA
38748355 TCGTTTTGCC
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
26 2 0.02
27 113 0.98
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
TGAAATACCCCTGTAGGGTAAAATTAC
Found at i:38748340 original size:81 final size:81
Alignment explanation
Indices: 38748194--38748342 Score: 255
Period size: 81 Copynumber: 1.8 Consensus size: 81
38748184 ACAAAATGAT
* *
38748194 TGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAAAATTACCGAAATACCCT
1 TGAAATACCACTGTAGGATAGAATTACTAAAATACCCCTGTAGGGTAAAATTACCGAAATACCCT
38748259 TGTAGGGTATAATTAC
66 TGTAGGGTATAATTAC
*
38748275 TGAAATACCACTGTAGGATAGAATTACTGAAATACCCCTGTAGGGTAAAATTACC-AAGATACCC
1 TGAAATACCACTGTAGGATAGAATTACTAAAATACCCCTGTAGGGTAAAATTACCGAA-ATACCC
38748339 TTGT
65 TTGT
38748343 TGGCTAAAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
80 2 0.03
81 62 0.97
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (81 bp):
TGAAATACCACTGTAGGATAGAATTACTAAAATACCCCTGTAGGGTAAAATTACCGAAATACCCT
TGTAGGGTATAATTAC
Found at i:38748796 original size:22 final size:22
Alignment explanation
Indices: 38748744--38748808 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
38748734 GCCAATTATT
* *
38748744 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
38748766 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
38748788 CTGATTATGGATGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
38748809 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:38748997 original size:27 final size:27
Alignment explanation
Indices: 38748967--38749067 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
38748957 ATTCTGTTAA
* *
38748967 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
38748994 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
38749021 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
38749048 GTGACTCTGTCACAATATCT
1 GTGGCTATGCCACAATATCT
38749068 TTCTGGCAGC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.80
28 6 0.09
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:38749025 original size:54 final size:52
Alignment explanation
Indices: 38748967--38749073 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 52
38748957 ATTCTGTTAA
* * * *
38748967 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTATTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCAC-AATATCT-TTCTG
* *
38749021 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTTTCTG
38749073 G
1 G
38749074 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 6 0.13
53 7 0.15
54 34 0.72
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (52 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGACTATGCCACAATATCTTTCTG
Found at i:38756542 original size:11 final size:9
Alignment explanation
Indices: 38756501--38756535 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
38756491 TTTTATTGAA
*
38756501 TTTTGTCTT
1 TTTTGACTT
*
38756510 TTTTGATTT
1 TTTTGACTT
38756519 TTTTGACTT
1 TTTTGACTT
38756528 TTTTGACT
1 TTTTGACT
38756536 GATTTTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.09, C:0.09, G:0.11, T:0.71
Consensus pattern (9 bp):
TTTTGACTT
Found at i:38758789 original size:40 final size:40
Alignment explanation
Indices: 38758667--38758791 Score: 169
Period size: 40 Copynumber: 3.1 Consensus size: 40
38758657 CGGGCTTTAA
** *
38758667 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** ** * *
38758707 CTAGATATAGTAGTTTGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
38758747 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
38758787 CCGGA
1 CCGGA
38758792 ATTATCATCC
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38761924 original size:40 final size:39
Alignment explanation
Indices: 38761847--38762021 Score: 208
Period size: 40 Copynumber: 4.4 Consensus size: 39
38761837 AAACCAAGTA
* * ** *
38761847 CCTTCGGG-CTTTAACCGGATATAGCCACTCGCTCAAATG
1 CCTTCGGGAC-TTAGCCAGATATAGTAACTCGCACAAATG
** *
38761886 CCTTCGGGACTTAGCCTAGATATAGTAGTTTGCACAAATG
1 CCTTCGGGACTTAGCC-AGATATAGTAACTCGCACAAATG
* *
38761926 TCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCAGATATAGTAACTCGCACAAATG
*
38761966 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCAG-ATATAGTAACTCGCACAAATG
38762006 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
38762022 CGGAATTATC
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 16 0.14
40 99 0.85
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCAGATATAGTAACTCGCACAAATG
Found at i:38762022 original size:40 final size:40
Alignment explanation
Indices: 38761873--38762023 Score: 223
Period size: 40 Copynumber: 3.8 Consensus size: 40
38761863 GGATATAGCC
* *
38761873 ACTCGCTCAAATGCCTTCGGGACTTAG-CCTAGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGA-ATATAGTA
** * * *
38761913 GTTTGCACAAATGTCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTA
38761953 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTA
38761993 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG
38762024 GAATTATCAT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
40 96 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTA
Found at i:38763607 original size:26 final size:26
Alignment explanation
Indices: 38763571--38763622 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
38763561 ACCGTTTCCG
38763571 GAGTCGAACGCGAGGTGCTAACAGAC
1 GAGTCGAACGCGAGGTGCTAACAGAC
38763597 GAGTCGAACGCGAGGTGCTAACAGAC
1 GAGTCGAACGCGAGGTGCTAACAGAC
38763623 TTAATTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.35, T:0.12
Consensus pattern (26 bp):
GAGTCGAACGCGAGGTGCTAACAGAC
Found at i:38765013 original size:40 final size:40
Alignment explanation
Indices: 38764968--38765119 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
38764958 ATAACCACAA
* * *
38764968 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
38765008 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
38765048 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
38765088 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
38765120 CATTCAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:38766963 original size:173 final size:176
Alignment explanation
Indices: 38766669--38767002 Score: 509
Period size: 173 Copynumber: 1.9 Consensus size: 176
38766659 AATTTTTCTC
*
38766669 ACATAAGTCCTATCAACTAAATTCACATGCAATTAACTAAATCGAAGCTTAAAACTTTCACACAT
1 ACATAAGTCCTATCAACTAAATTCACATGCAATTAACAAAATCGAAGCTTAAAACTTTCACACAT
* *
38766734 TTATATTCACATATTTTAGGCAATAATTATCACATTCAAATAATTTGGTGACTCGGTCTAGCGGT
66 TCATATTCACATATTTTAGACAATAATTATCACATTCAAATAATTTGGTGACTCGGTCTAGCGGT
* *
38766799 CCCGAGACCGCTTTCCGACTAGGGTCACTTTAGTTTTAGGAACTGTCA
131 CCCGAAACCAC-TTCC-ACTAGGGTCACTTTAGTTTTAGGAACTGTCA
**
38766847 ACATAAGTCC-ATTGACTAAATT-ACATGC-ATTAACAAAATCGAAGCTT-AAACTTTCACACAT
1 ACATAAGTCCTATCAACTAAATTCACATGCAATTAACAAAATCGAAGCTTAAAACTTTCACACAT
* * *
38766908 TCATATTCATAT-TTTTAGACAATAATTAATCATA-TCAAATAATTTGGTGACTCGGTTTAGCGG
66 TCATATTCACATATTTTAGACAATAATT-ATCACATTCAAATAATTTGGTGACTCGGTCTAGCGG
38766971 TCCCGAAACCACTTCCACTAGGGTCACTTTAG
130 TCCCGAAACCACTTCCACTAGGGTCACTTTAG
38767003 GGTTGTCACA
Statistics
Matches: 145, Mismatches: 10, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
171 16 0.11
172 4 0.03
173 52 0.36
174 29 0.20
175 18 0.12
176 6 0.04
177 10 0.07
178 10 0.07
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (176 bp):
ACATAAGTCCTATCAACTAAATTCACATGCAATTAACAAAATCGAAGCTTAAAACTTTCACACAT
TCATATTCACATATTTTAGACAATAATTATCACATTCAAATAATTTGGTGACTCGGTCTAGCGGT
CCCGAAACCACTTCCACTAGGGTCACTTTAGTTTTAGGAACTGTCA
Found at i:38773673 original size:27 final size:27
Alignment explanation
Indices: 38773643--38773846 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
38773633 ATATTAAGTC
* * *
38773643 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
38773670 CGCACACTTAGTGC-ACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
38773697 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
38773724 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
38773751 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
38773778 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
*
38773805 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
38773832 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38773847 GTACAATTTA
Statistics
Matches: 158, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
26 7 0.04
27 143 0.91
28 8 0.05
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:38777728 original size:48 final size:47
Alignment explanation
Indices: 38777566--38777878 Score: 234
Period size: 46 Copynumber: 6.6 Consensus size: 47
38777556 GAATAGTGTT
* * * * * *
38777566 GATGCAATGTCCCAAACATGGTCTTACACTGGCACATCCATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACATCTATCATGCC
* *
38777613 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACAT--C-TAT-CATGCC
* * * * *
38777663 GATACAATGTCCTAGACATGGTCTTACACTAACACCTCTATACATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACATCTAT-CATGCC
* *
38777711 GATGCCATGTCCCAGACATGGTCTTACA-TTGACACATC--TCATAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CACATCTATCAT-GCC
* * *
38777757 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC--TCAAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC--ACATCTATC-ATGCC
* * *
38777803 GATG-CATGTCCCAGACAT-ATCTTACACTAGCTC-TCATTTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACATC-TATC-ATGCC
* *
38777849 GATGCCATGTCCCAAACATGGTTTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
38777879 GGCTCTAATA
Statistics
Matches: 218, Mismatches: 32, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.01
44 10 0.05
45 19 0.09
46 57 0.26
47 46 0.21
48 47 0.22
49 3 0.01
50 33 0.15
51 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACATCTATCATGCC
Found at i:38777797 original size:46 final size:47
Alignment explanation
Indices: 38777565--38777926 Score: 223
Period size: 46 Copynumber: 7.6 Consensus size: 47
38777555 GGAATAGTGT
* *
38777565 TGATGCAATGTCCCAAACATGGTCTTACACTGGC-ACATC-CATCAAG-
1 TGATGC-ATGTCCCAGACATGGTCTTACACTGGCTACATCTCAT-ATGC
* *
38777611 TCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-C-TCACATATCCGTGC
1 T-GATG-CATGTCCCAGACATGGTCTTACACTGGCTACATCTCATA----TGC
* * * ** *
38777662 CGATACAATGTCCTAGACATGGTCTTACACTAAC-ACCTCT-ATACATGC
1 TGATGC-ATGTCCCAGACATGGTCTTACACTGGCTACATCTCAT--ATGC
* * *
38777710 CGATGCCATGTCCCAGACATGGTCTTACATTGAC-ACATCTCATA-GC
1 TGATG-CATGTCCCAGACATGGTCTTACACTGGCTACATCTCATATGC
*
38777756 TGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCA-AGGC
1 TGATGCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCATATGC
* * * *
38777802 TGATGCATGTCCCAGACAT-ATCTTACACTAGCTCTCATTTCA-ATGC
1 TGATGCATGTCCCAGACATGGTCTTACACTGGCT-ACATCTCATATGC
* * * * * * *
38777848 CGATGCCATGTCCCAAACATGGTTTTACACTGGCT-C-TAATAATGTGG
1 TGATG-CATGTCCCAGACATGGTCTTACACTGGCTACAT-CTCATATGC
*
38777895 TCGATGCATGTCCCAGACATGTCTCTTACACT
1 T-GATGCATGTCCCAGACATG-GTCTTACACT
38777927 AGCACACAAA
Statistics
Matches: 256, Mismatches: 34, Indels: 50
0.75 0.10 0.15
Matches are distributed among these distances:
44 11 0.04
45 17 0.07
46 66 0.26
47 63 0.25
48 60 0.23
49 4 0.02
50 32 0.12
51 2 0.01
52 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (47 bp):
TGATGCATGTCCCAGACATGGTCTTACACTGGCTACATCTCATATGC
Found at i:38777860 original size:138 final size:144
Alignment explanation
Indices: 38777566--38777879 Score: 362
Period size: 138 Copynumber: 2.2 Consensus size: 144
38777556 GAATAGTGTT
* *
38777566 GATGCAATGTCCCAAACATGGTCTTACACTGGCACATCCATCAAGTCGATGCCATGTCCCAGACA
1 GATGCCATGTCCCAAACATGGTCTTACACTGACACATCCAT-AAGTCGATGCCATGTCCCAGACA
* * *
38777631 TGGTCTTACACTAGCTCTCACATATCCGTGCCGATACAATGTCCTAGACATGGTCTTACACTAAC
65 TGGTCTTACACTAGCTCTCACATATCAGTGCCGATACAATGTCCCAGACATGATCTTACACTAAC
38777696 ACCTCTATACATGCC
130 ACCTCTATACATGCC
* *
38777711 GATGCCATGTCCCAGACATGGTCTTACATTGACACATCTCAT-AG-CTGATG-CATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGACACATC-CATAAGTC-GATGCCATGTCCCAGAC
* * * *
38777773 AT-GTCTTACACTGGCT-T-ACATCTCAAG-GCTGATGC-ATGTCCCAGACAT-ATCTTACACTA
64 ATGGTCTTACACTAGCTCTCACATATC-AGTGCCGATACAATGTCCCAGACATGATCTTACACTA
* * *
38777832 GC-TCTC-ATTTCAATGCC
128 ACACCTCTA-TAC-ATGCC
*
38777849 GATGCCATGTCCCAAACATGGTTTTACACTG
1 GATGCCATGTCCCAAACATGGTCTTACACTG
38777880 GCTCTAATAA
Statistics
Matches: 147, Mismatches: 17, Indels: 17
0.81 0.09 0.09
Matches are distributed among these distances:
136 1 0.01
137 5 0.03
138 44 0.30
139 12 0.08
140 12 0.08
141 2 0.01
142 13 0.09
143 15 0.10
144 6 0.04
145 34 0.23
146 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (144 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGACACATCCATAAGTCGATGCCATGTCCCAGACAT
GGTCTTACACTAGCTCTCACATATCAGTGCCGATACAATGTCCCAGACATGATCTTACACTAACA
CCTCTATACATGCC
Found at i:38777884 original size:48 final size:49
Alignment explanation
Indices: 38777566--38777929 Score: 257
Period size: 48 Copynumber: 7.7 Consensus size: 49
38777556 GAATAGTGTT
* * * *
38777566 GATGCAATGTCCCAAACATGGTCTTACACT-G-GC-ACATCCATCAA-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACAT--ATCAATGCC
**
38777613 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATATCAATGCC
* * * * *
38777663 GATACAATGTCCTAGACATGGTCTTACACTAACACCT-C-TAT-ACATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTACATATCA-ATGCC
* * * *
38777711 GATGCCATGTCCCAGACATGGTCTTACA-TTG-AC-ACATCTC-ATAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAAT-GCC
* * * *
38777757 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCAAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGCC
* *
38777803 GATG-CATGTCCCAGACAT-ATCTTACACTAGCTCT-CATTTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGCC
* * * * *
38777849 GATGCCATGTCCCAAACATGGTTTTACACTGGCTCTA-ATA--ATGTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCA-AT-GCC
*
38777897 GATG-CATGTCCCAGACATGTCTCTTACACTAGC
1 GATGCCATGTCCCAGACATG-GTCTTACACTAGC
38777930 ACACAAATAA
Statistics
Matches: 255, Mismatches: 40, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
44 8 0.03
45 20 0.08
46 62 0.24
47 59 0.23
48 64 0.25
49 5 0.02
50 31 0.12
51 6 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGCC
Found at i:38782059 original size:16 final size:17
Alignment explanation
Indices: 38782029--38782061 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38782019 AGTTACTTAA
38782029 TACTTGATAACCTCAAT
1 TACTTGATAACCTCAAT
*
38782046 TACTT-ATAATCTCAAT
1 TACTTGATAACCTCAAT
38782062 ATTAAATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.39
Consensus pattern (17 bp):
TACTTGATAACCTCAAT
Found at i:38782303 original size:55 final size:53
Alignment explanation
Indices: 38782183--38782572 Score: 300
Period size: 55 Copynumber: 7.4 Consensus size: 53
38782173 ATTGCAATGT
* * * *
38782183 CTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTGACCAATGCCATGC
1 CTTGACATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATCAATGCCATGC
* * *
38782236 CTTGGCATGGTCTTATATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGT
1 CTTGACATGGTCTTACATGGGACC-TTGCCTTATAG-AACTCATCAATGCCATGC
*** * *
38782291 CTTGACATGGTCTTACATGATCTCCTTGCCTCATAGAACTTATCAATGCCATGC
1 CTTGACATGGTCTTACATG-GGACCTTGCCTTATAGAACTCATCAATGCCATGC
* * *** *
38782345 CTTGGCATGGTCTTACAT--GA--TAT-CTTTATCTTAC-CA--AATGCCTTGTTC
1 CTTGACATGGTCTTACATGGGACCT-TGCCTTATAGAACTCATCAATGCCATG--C
** * ** *
38782393 C-AAACATGGTCTTACATGGCATCCTTGTTTTAT-GAACTCACCAATGCCATGC
1 CTTGACATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATCAATGCCATGC
* * *
38782445 CTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATGT
1 CTTGACATGGTCTTACATGGGACC-TTGCCTTATAG-AACTCATCAATGCCATGC
*** *
38782500 CTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATTG-CATGC
1 CTTGACATGGTCTTACATG-GGACCTTGCCTTATAGAACTCATCAA-TGCCATGC
*
38782554 CTTGGCATGGTCTTACATG
1 CTTGACATGGTCTTACATG
38782573 ATATCCTTAT
Statistics
Matches: 265, Mismatches: 50, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
46 8 0.03
47 13 0.05
48 3 0.01
49 8 0.03
50 1 0.00
51 3 0.01
52 14 0.05
53 49 0.18
54 74 0.28
55 88 0.33
56 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTGACATGGTCTTACATGGGACCTTGCCTTATAGAACTCATCAATGCCATGC
Found at i:38782454 original size:100 final size:101
Alignment explanation
Indices: 38782187--38782618 Score: 372
Period size: 109 Copynumber: 4.1 Consensus size: 101
38782177 CAATGTCTTG
* ** *
38782187 ACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTGACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGACATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGCATGGTCTTA
* * * * ***
38782251 TATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATG-TCTTG
66 CAT--GA--TAT-CCTTAT-CTTAC-CA--AATGCCATGTTCCAA
* * *
38782295 ACATGGTCTTACATGATC-TCCTTGCCTCATAGAACTTATCAATGCCATGCCTTGGCATGGTCTT
1 ACATGGTCTTACATGA-CATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGCATGGTCTT
* *
38782359 ACATGATATCTTTATCTTACCAAATGCCTTGTTCCAA
65 ACATGATATCCTTATCTTACCAAATGCCATGTTCCAA
* **
38782396 ACATGGTCTTACATGGCATCCTTGTTTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGACATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGCATGGTCTTA
* * * ***
38782460 CATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATG-TCTTG
66 CAT--GA---TATCCTTAT-CTTAC-CA--AATGCCATGTTCCAA
** * *
38782504 ACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATTG-CATGCCTTGGCATGGTCTT
1 ACATGGTCTTACATGACATCCTTGCCTTATAGAACTCACCAA-TGCCATGCCTTGGCATGGTCTT
*
38782568 ACATGATATCCTTATCCTACCAAATGCCATGTTCCAA
65 ACATGATATCCTTATCTTACCAAATGCCATGTTCCAA
38782605 ACATGGTCTTACAT
1 ACATGGTCTTACAT
38782619 ATAAATTATA
Statistics
Matches: 265, Mismatches: 43, Indels: 39
0.76 0.12 0.11
Matches are distributed among these distances:
100 53 0.20
101 42 0.16
102 6 0.02
103 5 0.02
104 13 0.05
105 9 0.03
106 3 0.01
107 6 0.02
108 52 0.20
109 74 0.28
110 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (101 bp):
ACATGGTCTTACATGACATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGCATGGTCTTA
CATGATATCCTTATCTTACCAAATGCCATGTTCCAA
Found at i:38782555 original size:209 final size:209
Alignment explanation
Indices: 38782187--38782618 Score: 740
Period size: 209 Copynumber: 2.1 Consensus size: 209
38782177 CAATGTCTTG
* * * *
38782187 ACATGGTCTTACGTGGTATCCTTGCCTTATGAACTGACCAATGCCATGCCTTGGCATGGTCTTAT
1 ACATGGTCTTACATGGCATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
38782252 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATCTCCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATCTCCT
* *
38782317 TGCCTCATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCTTTATCTTACCAA
131 TGCCTCATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCCTACCAA
*
38782382 ATGCCTTGTTCCAA
196 ATGCCATGTTCCAA
**
38782396 ACATGGTCTTACATGGCATCCTTGTTTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGCATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
* *
38782461 ATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATCTCCT
*
38782526 TGCCTTATAGAACTTATCAATTG-CATGCCTTGGCATGGTCTTACATGATATCCTTATCCTACCA
131 TGCCTCATAGAACTTATCAA-TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCCTACCA
38782590 AATGCCATGTTCCAA
195 AATGCCATGTTCCAA
38782605 ACATGGTCTTACAT
1 ACATGGTCTTACAT
38782619 ATAAATTATA
Statistics
Matches: 210, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
209 208 0.99
210 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (209 bp):
ACATGGTCTTACATGGCATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATCTCCT
TGCCTCATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCCTACCAA
ATGCCATGTTCCAA
Found at i:38788384 original size:51 final size:51
Alignment explanation
Indices: 38788316--38788448 Score: 175
Period size: 49 Copynumber: 2.6 Consensus size: 51
38788306 TGTGAGGTCG
*
38788316 CATGTGTAGTACTAAGTGCAGGCTACTATGCGT-TCCCGAAAACTG-TGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTGTACC--AAACTGTTGATCA
* * * *
38788367 CGTGTGTAGTACTAAGTGCAGGCTACTA--CGTGTACCAGACTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTGTACCAAACTGTTGATCA
38788416 CATGTGTAGTACTAAGTGCAGGCTACTATGCGT
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGT
38788449 ACCAGATAGC
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
48 5 0.07
49 34 0.47
50 3 0.04
51 30 0.42
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (51 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTGTACCAAACTGTTGATCA
Found at i:38795523 original size:49 final size:47
Alignment explanation
Indices: 38795415--38795794 Score: 538
Period size: 47 Copynumber: 8.1 Consensus size: 47
38795405 GAAATGATAG
*
38795415 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38795462 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
38795511 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38795560 TAAGGCCTAATGGCCGATGTGATGAA--T----GTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38795601 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38795648 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38795697 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
38795744 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTACAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38795791 TAAG
1 TAAG
38795795 TCCCGAAGGG
Statistics
Matches: 305, Mismatches: 18, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
41 36 0.12
43 4 0.01
47 135 0.44
49 130 0.43
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38795969 original size:37 final size:37
Alignment explanation
Indices: 38795913--38795991 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
38795903 CCGATCTCTA
* * *
38795913 AAGACCCAATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
* *
38795950 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
38795987 AAGAC
1 AAGAC
38795992 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38800880 original size:17 final size:18
Alignment explanation
Indices: 38800858--38800891 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38800848 TTACATTGAA
38800858 GTGTTTT-AGTGAAAACT
1 GTGTTTTCAGTGAAAACT
*
38800875 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
38800892 CCTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACT
Found at i:38801988 original size:29 final size:30
Alignment explanation
Indices: 38801922--38802040 Score: 142
Period size: 29 Copynumber: 4.2 Consensus size: 30
38801912 TACATACATG
*
38801922 CATATGGCCCA-CTAGGCCCAA-TCTTATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
38801950 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
38801979 CTTATGGCCCA-CTAGGCCCAATTCACATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
38802008 CATATGGCCCAT-TAGGCCCAAATCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
38802037 -ATAT
1 CATAT
38802041 TTATGCTCAC
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
28 22 0.29
29 55 0.71
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Found at i:38804418 original size:27 final size:26
Alignment explanation
Indices: 38804331--38804439 Score: 114
Period size: 27 Copynumber: 4.2 Consensus size: 26
38804321 AGCATTGCTG
* *
38804331 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
38804357 CCAGAACAGATAATTGTGGC--AGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
* *
38804382 CTAGGACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
38804409 CCAGATCAGATAAATATGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
38804436 CCAG
1 CCAG
38804440 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
25 20 0.29
26 14 0.20
27 34 0.49
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:38805867 original size:24 final size:24
Alignment explanation
Indices: 38805839--38805938 Score: 155
Period size: 24 Copynumber: 4.2 Consensus size: 24
38805829 CCAACACTGT
* *
38805839 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
38805863 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
38805887 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
38805911 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
38805935 TCTC
1 TCTC
38805939 TTGACAGACT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.25, C:0.40, G:0.02, T:0.33
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:38809069 original size:93 final size:93
Alignment explanation
Indices: 38808906--38809077 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
38808896 CGCCCATCAG
* * * * * *
38808906 CGAACTTGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATGAGTGAACTCGGGCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGATATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
38808971 TCGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
* * *
38808999 CGAACTCGGACTCAATTCAACGAGTTCGGATATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGATATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
38809064 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
38809078 TCAACCATCC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGATATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:38811292 original size:46 final size:48
Alignment explanation
Indices: 38811188--38811301 Score: 142
Period size: 48 Copynumber: 2.4 Consensus size: 48
38811178 TGTCTTCGAC
** * * *
38811188 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATACT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAGACT
* * *
38811236 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGTCATATATCT-GA-T
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAGACT
38811282 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
38811302 TCTTTCCTGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 20 0.35
47 1 0.02
48 36 0.63
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAGACT
Found at i:38815632 original size:46 final size:47
Alignment explanation
Indices: 38815520--38815638 Score: 159
Period size: 47 Copynumber: 2.6 Consensus size: 47
38815510 TGTCTTCGAC
** * * *
38815520 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAGAT
* *
38815567 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCT-GAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAGAT
*
38815613 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
38815639 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
46 26 0.41
47 37 0.59
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAGAT
Found at i:38819973 original size:46 final size:46
Alignment explanation
Indices: 38819855--38819973 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 46
38819845 TGTCTTCGAC
** * *
38819855 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATA-CT
* *
38819902 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTGA-T
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATAT-ACT
*
38819948 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
38819974 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
46 25 0.40
47 37 0.59
48 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATACT
Done.