Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 120 of 216
Found at i:38229708 original size:23 final size:26
Alignment explanation
Indices: 38229677--38229724 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 26
38229667 GTGAAAACAG
*
38229677 GCCTCAACTACTAGT-CA-AATTTCT
1 GCCTCAACTACGAGTACACAATTTCT
38229701 GCCT-AACTACGAGTACACAATTTC
1 GCCTCAACTACGAGTACACAATTTC
38229725 GATCCAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 6 0.29
25 6 0.29
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.29
Consensus pattern (26 bp):
GCCTCAACTACGAGTACACAATTTCT
Found at i:38231500 original size:20 final size:20
Alignment explanation
Indices: 38231475--38231515 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
38231465 CCTTAAATTG
38231475 TTTTATTTATAAGGTTATTA
1 TTTTATTTATAAGGTTATTA
38231495 TTTTATTTATAAGGTTATTA
1 TTTTATTTATAAGGTTATTA
38231515 T
1 T
38231516 GTTAATAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (20 bp):
TTTTATTTATAAGGTTATTA
Found at i:38231523 original size:17 final size:18
Alignment explanation
Indices: 38231482--38231523 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
38231472 TTGTTTTATT
*
38231482 TATAAGGTTATTATTTTA
1 TATAAGGTTATTATGTTA
38231500 TTTATAAGGTTATTATGTTA
1 --TATAAGGTTATTATGTTA
38231520 -ATAA
1 TATAA
38231524 ACAAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
20 17 0.81
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (18 bp):
TATAAGGTTATTATGTTA
Found at i:38231574 original size:21 final size:21
Alignment explanation
Indices: 38231550--38231590 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38231540 AAATTGCTAA
*
38231550 AAATATATTAATTTATTTTTT
1 AAATATATTAATGTATTTTTT
* *
38231571 AAATATTTTTATGTATTTTT
1 AAATATATTAATGTATTTTT
38231591 ATTGAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
AAATATATTAATGTATTTTTT
Found at i:38235048 original size:78 final size:78
Alignment explanation
Indices: 38234954--38235142 Score: 213
Period size: 80 Copynumber: 2.4 Consensus size: 78
38234944 AGTTTCGCTA
*
38234954 CTTCAGTGAAGGAAATAATGGTATTTGAGTTAAAGA-AAAAA-AAA-AAAGCAAAAGAAACTTAA
1 CTTCAGTGAAGTAAATAATGGTATTTGAGTTAAA-ATAAAAATAAATAAA-CAAAAGAAACTTAA
38235016 AAAGTTAGCTGCACCG
64 AAAGTT-GCTGCACCG
* * * * *
38235032 CTTCAGTGAAGTAAATAACGATGTTTGAGTTTTAAAATAAAAATAAATAAATAAAGGAAACTTAA
1 CTTCAGTGAAGTAAATAATGGTATTTGAG--TTAAAATAAAAATAAATAAACAAAAGAAACTTAA
* * *
38235097 ATAGTTGCTTCACTG
64 AAAGTTGCTGCACCG
* *
38235112 CGTCAGTGAAATAAATAATGGTATTTGAGTT
1 CTTCAGTGAAGTAAATAATGGTATTTGAGTT
38235143 TTAGACAAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
78 27 0.29
79 1 0.01
80 41 0.45
81 20 0.22
82 3 0.03
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.28
Consensus pattern (78 bp):
CTTCAGTGAAGTAAATAATGGTATTTGAGTTAAAATAAAAATAAATAAACAAAAGAAACTTAAAA
AGTTGCTGCACCG
Found at i:38242265 original size:18 final size:17
Alignment explanation
Indices: 38242238--38242271 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
38242228 TTCAATTGAT
38242238 AATGAAACCATTAAGTC
1 AATGAAACCATTAAGTC
38242255 AATGTAAACCATTAAGT
1 AATG-AAACCATTAAGT
38242272 TAATCTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (17 bp):
AATGAAACCATTAAGTC
Found at i:38246558 original size:88 final size:87
Alignment explanation
Indices: 38246387--38246650 Score: 331
Period size: 88 Copynumber: 3.0 Consensus size: 87
38246377 TTAAGTGTGT
* ** *
38246387 AAAAA-ACCCTCAAATTTTTTTTAAAAAAGCAATTAAGCCCTTGCTTTTTTTTTTGCACTCAATT
1 AAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCCC-TGC---CTTTTTTGCACTCAATT
*
38246451 GGGTACTTGAACTTTCAAAATGCATC
62 GGGTACTTGAACTATCAAAATGCATC
*
38246477 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGTCCCTGCCTTTTTTGCACTCAATTGGG
1 AAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAG-CCCTGCCTTTTTTGCACTCAATTGGG
38246542 TACTTGAACTATCAAAATGCATC
65 TACTTGAACTATCAAAATGCATC
* * *
38246565 AAAAAG-CCCTCAAAC-TTTTAAAAAAAAACAATTAAGCCCCT-ACTTTTTTCTCACTCAATTGG
1 AAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAG-CCCTGCCTTTTTT-GCACTCAATTGG
* *
38246627 GTACTTGAATTGTC-AAATGCATC
64 GTACTTGAACTATCAAAATGCATC
38246650 A
1 A
38246651 TCAGAAAGGC
Statistics
Matches: 159, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
85 17 0.11
86 46 0.29
87 9 0.06
88 47 0.30
90 5 0.03
91 32 0.20
92 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (87 bp):
AAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCCCTGCCTTTTTTGCACTCAATTGGGT
ACTTGAACTATCAAAATGCATC
Found at i:38246643 original size:86 final size:86
Alignment explanation
Indices: 38246387--38246650 Score: 320
Period size: 86 Copynumber: 3.0 Consensus size: 86
38246377 TTAAGTGTGT
* ** **
38246387 AAAAA-ACCCTCAAATTTTTTTTAAAAAAGCAATTAAGCCCTTGCTTTTTTTTTTGCACTCAATT
1 AAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCCC---CTACTTTTTTT-CACTCAATT
38246451 GGGTACTTGAACTTTCAAAATGCATC
62 GGGTACTTGAA-TTTCAAAATGCATC
* * * *
38246477 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGTCCCTGCCTTTTTTGCACTCAATTGGG
1 AAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCCCCT-ACTTTTTTTCACTCAATTGGG
*
38246542 TACTTGAACTATCAAAATGCATC
65 TACTTGAA-TTTCAAAATGCATC
*
38246565 AAAAAG-CCCTCAAAC-TTTTAAAAAAAAACAATTAAGCCCCTACTTTTTTCTCACTCAATTGGG
1 AAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCCCCTACTTTTTT-TCACTCAATTGGG
38246628 TACTTGAATTGTC-AAATGCATC
65 TACTTGAATT-TCAAAATGCATC
38246650 A
1 A
38246651 TCAGAAAGGC
Statistics
Matches: 156, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
85 18 0.12
86 45 0.29
87 9 0.06
88 42 0.27
89 6 0.04
90 5 0.03
91 31 0.20
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (86 bp):
AAAAAGACCCTCAAACTTTTTAAAAAAAAGCAATTAAGCCCCTACTTTTTTTCACTCAATTGGGT
ACTTGAATTTCAAAATGCATC
Found at i:38246858 original size:28 final size:28
Alignment explanation
Indices: 38246787--38246858 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
38246777 ATAAAAATAT
* *
38246787 ATAAAAGTTATAAAATTTATTAAATTTTA
1 ATAAAAATTA-AAAATATATTAAATTTTA
38246816 ATAAAAATGTAAAAATAT-TTAAATTTTA
1 ATAAAAAT-TAAAAATATATTAAATTTTA
*
38246844 CTAAAAATTAGAAAA
1 ATAAAAATTA-AAAA
38246859 AAATATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 2 0.05
28 21 0.55
29 13 0.34
30 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (28 bp):
ATAAAAATTAAAAATATATTAAATTTTA
Found at i:38246898 original size:29 final size:29
Alignment explanation
Indices: 38246846--38246938 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
38246836 AAATTTTACT
* * * *
38246846 AAAAATTAGAAAAAAATATAAAAATCGTAA
1 AAAAATAATAAAAAATTAT-AAAATCATAA
* * * * **
38246876 AAATATTATAAATAATTGTAAAATTTTAA
1 AAAAATAATAAAAAATTATAAAATCATAA
38246905 AAAAATAATAAAAAATTATAAAATGCATAA
1 AAAAATAATAAAAAATTATAAAAT-CATAA
38246935 AAAA
1 AAAA
38246939 GGCCCTTTAA
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
29 28 0.57
30 21 0.43
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (29 bp):
AAAAATAATAAAAAATTATAAAATCATAA
Found at i:38246899 original size:48 final size:48
Alignment explanation
Indices: 38246758--38246918 Score: 127
Period size: 48 Copynumber: 3.4 Consensus size: 48
38246748 ACGTGACATG
* * * *
38246758 TAGAAAAAAATTATAAAAA-ATAAAAATATATAAA-AGTTA-TAAAATT
1 TAGAAAAAAATAATAAAAATGTAAAAATATTTAAATA-TTACTAAAAAT
** *** *
38246804 TATTAAATTTTAATAAAAATGTAAAAATATTTAAATTTTACTAAAAAT
1 TAGAAAAAAATAATAAAAATGTAAAAATATTTAAATATTACTAAAAAT
*
38246852 TAGAAAAAAAT-ATAAAAATCGTAAAAATATTATAAATAATT-GT-AAAAT
1 TAGAAAAAAATAATAAAAAT-GTAAAAATATT-TAAAT-ATTACTAAAAAT
**
38246900 TTTAAAAAAATAATAAAAA
1 TAGAAAAAAATAATAAAAA
38246919 ATTATAAAAT
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
46 13 0.15
47 24 0.27
48 37 0.42
49 13 0.15
50 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (48 bp):
TAGAAAAAAATAATAAAAATGTAAAAATATTTAAATATTACTAAAAAT
Found at i:38246927 original size:9 final size:9
Alignment explanation
Indices: 38246763--38246927 Score: 70
Period size: 10 Copynumber: 17.4 Consensus size: 9
38246753 ACATGTAGAA
38246763 AAAAATTAT
1 AAAAATTAT
38246772 AAAAA--AT
1 AAAAATTAT
38246779 AAAAATATAT
1 AAAAAT-TAT
*
38246789 AAAAGTTAT
1 AAAAATTAT
*
38246798 AAAATTTATT
1 AAAAATTA-T
**
38246808 AAATTTTAAT
1 AAAAATT-AT
38246818 AAAAATGTA-
1 AAAAAT-TAT
38246827 AAAATATT-T
1 AAAA-ATTAT
**
38246836 AAATTTTACT
1 AAAAATTA-T
*
38246846 AAAAATTAGA
1 AAAAATTA-T
*
38246856 AAAAAATAT
1 AAAAATTAT
38246865 AAAAATCGTA-
1 AAAAAT--TAT
38246875 AAAATATTAT
1 AAAA-ATTAT
*
38246885 AAATAATTGT
1 AAA-AATTAT
* *
38246895 AAAATTTTAA
1 AAAA-ATTAT
*
38246905 AAAAATAAT
1 AAAAATTAT
38246914 AAAAAATTAT
1 -AAAAATTAT
38246924 AAAA
1 AAAA
38246928 TGCATAAAAA
Statistics
Matches: 117, Mismatches: 22, Indels: 34
0.68 0.13 0.20
Matches are distributed among these distances:
7 7 0.06
8 2 0.02
9 37 0.32
10 64 0.55
11 7 0.06
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:38246927 original size:19 final size:19
Alignment explanation
Indices: 38246762--38246927 Score: 74
Period size: 19 Copynumber: 8.7 Consensus size: 19
38246752 GACATGTAGA
38246762 AAAAAATTATAAAAA--AT
1 AAAAAATTATAAAAATTAT
*
38246779 -AAAAATATATAAAAGTTAT
1 AAAAAAT-TATAAAAATTAT
* * *
38246798 -AAAATTTAT-TAAATTTT
1 AAAAAATTATAAAAATTAT
* *
38246815 AATAAAAATGTAAAAA-TATT
1 AA-AAAATTATAAAAATTA-T
* ** *
38246835 TAAATTTTACTAAAAATTAG
1 AAAAAATTA-TAAAAATTAT
* **
38246855 AAAAAAATATAAAAATCGT
1 AAAAAATTATAAAAATTAT
*
38246874 AAAAATATTATAAATAATTGT
1 AAAAA-ATTATAAA-AATTAT
** * *
38246895 AAAATTTTAAAAAAATAAT
1 AAAAAATTATAAAAATTAT
38246914 AAAAAATTATAAAA
1 AAAAAATTATAAAA
38246928 TGCATAAAAA
Statistics
Matches: 105, Mismatches: 33, Indels: 20
0.66 0.21 0.13
Matches are distributed among these distances:
16 6 0.06
17 12 0.11
18 4 0.04
19 43 0.41
20 29 0.28
21 11 0.10
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAAATTATAAAAATTAT
Found at i:38247195 original size:9 final size:9
Alignment explanation
Indices: 38247183--38247225 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
38247173 GTTTTTATAT
*
38247183 ATTTTTACA
1 ATTTTTAAA
38247192 ATTTTTATAA
1 ATTTTTA-AA
*
38247202 AATTTTAAA
1 ATTTTTAAA
*
38247211 ATTTTTAAT
1 ATTTTTAAA
38247220 ATTTTT
1 ATTTTT
38247226 TATTAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:38247198 original size:19 final size:19
Alignment explanation
Indices: 38247174--38247225 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
38247164 TTTCTATATG
*
38247174 TTTTTATATATTTTTACAA
1 TTTTTATATATTTTTAAAA
* *
38247193 TTTTTATAAAATTTTAAAA
1 TTTTTATATATTTTTAAAA
38247212 TTTTTA-ATATTTTT
1 TTTTTATATATTTTT
38247226 TATTAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTATATATTTTTAAAA
Found at i:38247235 original size:30 final size:30
Alignment explanation
Indices: 38247193--38247256 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
38247183 ATTTTTACAA
38247193 TTTTTATAAAATTTTAA-AATTTTTA-ATAT
1 TTTTTATAAAA-TTTAATAATTTTTATATAT
*
38247222 TTTTTATTAAAATTTAATAATTTTTATTTAT
1 TTTTTA-TAAAATTTAATAATTTTTATATAT
38247253 TTTT
1 TTTT
38247257 ATTTTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 11 0.35
30 13 0.42
31 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTTATAAAATTTAATAATTTTTATATAT
Found at i:38247247 original size:10 final size:10
Alignment explanation
Indices: 38247174--38247257 Score: 50
Period size: 10 Copynumber: 8.6 Consensus size: 10
38247164 TTTCTATATG
38247174 TTTTT-ATATA
1 TTTTTAATA-A
*
38247184 TTTTT-ACAA
1 TTTTTAATAA
38247193 TTTTT-ATAAA
1 TTTTTAAT-AA
*
38247203 ATTTTAA-AA
1 TTTTTAATAA
*
38247212 TTTTTAATAT
1 TTTTTAATAA
*
38247222 TTTTTATTAA
1 TTTTTAATAA
**
38247232 AATTTAATAA
1 TTTTTAATAA
* *
38247242 TTTTTATTTA
1 TTTTTAATAA
38247252 TTTTTA
1 TTTTTA
38247258 TTTTTATTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
9 15 0.26
10 41 0.72
11 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:38247257 original size:20 final size:20
Alignment explanation
Indices: 38247210--38247257 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
38247200 AAAATTTTAA
*
38247210 AATTTTTAATATTTTTTATT
1 AATTTTTAATAATTTTTATT
**
38247230 AAAATTTAATAATTTTTATT
1 AATTTTTAATAATTTTTATT
*
38247250 TATTTTTA
1 AATTTTTA
38247258 TTTTTATTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
AATTTTTAATAATTTTTATT
Found at i:38247257 original size:30 final size:29
Alignment explanation
Indices: 38247183--38247259 Score: 52
Period size: 29 Copynumber: 2.6 Consensus size: 29
38247173 GTTTTTATAT
* * *
38247183 ATTTTTACA-ATTTTTATAAAATTTTAAAA
1 ATTTTTA-ATATTTTTATTAAAATTTTAAA
*
38247212 TTTTT-AATATTTTTTATTAAAA-TTTAATA
1 ATTTTTAATA-TTTTTATTAAAATTTTAA-A
*
38247241 ATTTTTATTTATTTTTATT
1 ATTTTTA-ATATTTTTATT
38247260 TTTATTTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
27 1 0.03
28 6 0.16
29 19 0.51
30 9 0.24
31 2 0.05
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (29 bp):
ATTTTTAATATTTTTATTAAAATTTTAAA
Found at i:38250397 original size:50 final size:50
Alignment explanation
Indices: 38250284--38250529 Score: 267
Period size: 50 Copynumber: 4.8 Consensus size: 50
38250274 ATTTTGGTAA
* *
38250284 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* * *
38250340 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCATCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
38250390 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** * * * * *
38250440 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGAACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** * * *
38250490 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
38250530 TAGTATATAA
Statistics
Matches: 164, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 120 0.73
52 1 0.01
53 4 0.02
55 1 0.01
56 38 0.23
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:38252395 original size:30 final size:30
Alignment explanation
Indices: 38252361--38252423 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
38252351 ACTTATTTTA
38252361 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
38252391 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
38252421 TTG
1 TTG
38252424 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:38260684 original size:26 final size:27
Alignment explanation
Indices: 38260635--38260695 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
38260625 TATACTGGTG
* *
38260635 GCTTTGCCACATACACTGTTACTGGCA
1 GCTTTGCTACATACACTATTACTGGCA
*
38260662 GTTTTGCTACAT-CACTATTACTGGCA
1 GCTTTGCTACATACACTATTACTGGCA
38260688 GCTTTGCT
1 GCTTTGCT
38260696 GCGATATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (27 bp):
GCTTTGCTACATACACTATTACTGGCA
Found at i:38260861 original size:28 final size:28
Alignment explanation
Indices: 38260808--38260861 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
38260798 CATTGTATTG
* **
38260808 ATTACTGTATTGGGCTAAGGTTCACATT
1 ATTACTGTAATGGGCTAAGGCCCACATT
38260836 ATTACTGTAATGGGCTAAGGCCCACA
1 ATTACTGTAATGGGCTAAGGCCCACA
38260862 CTGTACTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (28 bp):
ATTACTGTAATGGGCTAAGGCCCACATT
Found at i:38265612 original size:9 final size:9
Alignment explanation
Indices: 38265598--38265624 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
38265588 ACCTTGTGTG
38265598 GGTGTCGTA
1 GGTGTCGTA
38265607 GGTGTCGTA
1 GGTGTCGTA
38265616 GGTGTCGTA
1 GGTGTCGTA
38265625 CTCCTACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.44, T:0.33
Consensus pattern (9 bp):
GGTGTCGTA
Found at i:38266446 original size:27 final size:26
Alignment explanation
Indices: 38266415--38266602 Score: 200
Period size: 27 Copynumber: 7.0 Consensus size: 26
38266405 GGCAAATAAC
**
38266415 CGAATTACCCTCGAAGGGTAAAATGTT
1 CGAATTACCC-CGAAGGGTAAAATGAA
*
38266442 CGAATTACCCCTGAAGGGTAAAATGAC
1 CGAATTACCCC-GAAGGGTAAAATGAA
* *
38266469 CGAATTACTCCTGAAGGGTAAAATCAA
1 CGAATTAC-CCCGAAGGGTAAAATGAA
38266496 CGAATTAACCCCGAAGGGTAAAATG-A
1 CGAATT-ACCCCGAAGGGTAAAATGAA
38266522 CTGAATTACCCCTGAAGGGTAAAAT-AA
1 C-GAATTACCCC-GAAGGGTAAAATGAA
*
38266549 CTGAATTACCCTCGAAGGGTAAAATGAC
1 C-GAATTACCC-CGAAGGGTAAAATGAA
* * *
38266577 CAAAATACCCCCATAGGGTAAAATGA
1 CGAATTACCCCGA-AGGGTAAAATGA
38266603 CTGTTATACC
Statistics
Matches: 141, Mismatches: 11, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.07
27 124 0.88
28 7 0.05
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
CGAATTACCCCGAAGGGTAAAATGAA
Found at i:38266476 original size:54 final size:53
Alignment explanation
Indices: 38266408--38266602 Score: 225
Period size: 54 Copynumber: 3.6 Consensus size: 53
38266398 AATCATAGGC
* **
38266408 AAATAACCGAATTACCCTCGAAGGGTAAAATGTTCGAATTACCCCTGAAGGGTA
1 AAATGACCGAATTACCC-CGAAGGGTAAAATGAACGAATTACCCCTGAAGGGTA
* *
38266462 AAATGACCGAATTACTCCTGAAGGGTAAAATCAACGAATTAACCCC-GAAGGGTA
1 AAATGACCGAATTAC-CCCGAAGGGTAAAATGAACGAATT-ACCCCTGAAGGGTA
*
38266516 AAATGACTGAATTACCCCTGAAGGGTAAAAT-AACTGAATTA-CCCTCGAAGGGTA
1 AAATGACCGAATTACCCC-GAAGGGTAAAATGAAC-GAATTACCCCT-GAAGGGTA
* * *
38266570 AAATGACCAAAATACCCCCATAGGGTAAAATGA
1 AAATGACCGAATTACCCCGA-AGGGTAAAATGA
38266603 CTGTTATACC
Statistics
Matches: 122, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
52 3 0.02
53 7 0.06
54 104 0.85
55 8 0.07
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (53 bp):
AAATGACCGAATTACCCCGAAGGGTAAAATGAACGAATTACCCCTGAAGGGTA
Found at i:38266555 original size:81 final size:80
Alignment explanation
Indices: 38266415--38266605 Score: 251
Period size: 81 Copynumber: 2.4 Consensus size: 80
38266405 GGCAAATAAC
* *
38266415 CGAATTACCCTCGAAGGGTAAAATG-TTCGAATTACCCCTGAAGGGTAAAATGACCGAATTACTC
1 CGAATTACCC-CGAAGGGTAAAATGACT-GAATTACCCCTGAAGGGTAAAATAACCGAATTAC-C
38266479 CT-GAAGGGTAAAATCAA
63 CTCGAAGGGTAAAATCAA
*
38266496 CGAATTAACCCCGAAGGGTAAAATGACTGAATTACCCCTGAAGGGTAAAATAACTGAATTACCCT
1 CGAATT-ACCCCGAAGGGTAAAATGACTGAATTACCCCTGAAGGGTAAAATAACCGAATTACCCT
* *
38266561 CGAAGGGTAAAATGAC
65 CGAAGGGTAAAATCAA
* * *
38266577 CAAAATACCCCCATAGGGTAAAATGACTG
1 CGAATTACCCCGA-AGGGTAAAATGACTG
38266606 TTATACCCTT
Statistics
Matches: 98, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
80 9 0.09
81 84 0.86
82 5 0.05
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (80 bp):
CGAATTACCCCGAAGGGTAAAATGACTGAATTACCCCTGAAGGGTAAAATAACCGAATTACCCTC
GAAGGGTAAAATCAA
Found at i:38266807 original size:26 final size:26
Alignment explanation
Indices: 38266767--38266851 Score: 107
Period size: 26 Copynumber: 3.2 Consensus size: 26
38266757 GTACTGGTGG
* *
38266767 TTTGCCACATATACTGTTACTGGCAGG
1 TTTGCTACAT-TACTGTTACTGGCAGC
*
38266794 TTTGCTGCATTACTGTTACTGGCAGC
1 TTTGCTACATTACTGTTACTGGCAGC
* * *
38266820 TTTGCTACATCACTATTACTGGTAGC
1 TTTGCTACATTACTGTTACTGGCAGC
38266846 TTTGCT
1 TTTGCT
38266852 GCGATATTAG
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 43 0.84
27 8 0.16
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (26 bp):
TTTGCTACATTACTGTTACTGGCAGC
Found at i:38280327 original size:39 final size:39
Alignment explanation
Indices: 38280269--38280394 Score: 209
Period size: 39 Copynumber: 3.3 Consensus size: 39
38280259 AGTTTGAGTC
* *
38280269 TTAATTATGTCTTAGTTTGAACATCATGAATATGTGACT
1 TTAATTATGTCTTATTTTGAACATCATTAATATGTGACT
38280308 TTAATTATGTCTTATTTTGAACATCATTAATATGTGACT
1 TTAATTATGTCTTATTTTGAACATCATTAATATGTGACT
* *
38280347 TTAATTATGTCTTATTTTGAACACCATTAATATGTG-TT
1 TTAATTATGTCTTATTTTGAACATCATTAATATGTGACT
38280385 TTAATTATGT
1 TTAATTATGT
38280395 GTCTTAATTC
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 11 0.13
39 72 0.87
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (39 bp):
TTAATTATGTCTTATTTTGAACATCATTAATATGTGACT
Found at i:38299477 original size:24 final size:24
Alignment explanation
Indices: 38299446--38299503 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
38299436 TGATGTTGCC
38299446 GAAGAGCCCACTCAA-ACTGCTGTT
1 GAAGAGCCCACTCAACA-TGCTGTT
* *
38299470 GAGGAGCCTACTCAACATGCTGTT
1 GAAGAGCCCACTCAACATGCTGTT
38299494 GAAGAGCCCA
1 GAAGAGCCCA
38299504 AAAAGATGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (24 bp):
GAAGAGCCCACTCAACATGCTGTT
Found at i:38312463 original size:33 final size:33
Alignment explanation
Indices: 38312426--38312492 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
38312416 GAATGATTTA
38312426 TGCTATGTTTATGTTAATGTATGACATGTATGT
1 TGCTATGTTTATGTTAATGTATGACATGTATGT
*
38312459 TGCTATGTTTATGTTAATGTATGAGATGTATGT
1 TGCTATGTTTATGTTAATGTATGACATGTATGT
38312492 T
1 T
38312493 TCAAAGTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.49
Consensus pattern (33 bp):
TGCTATGTTTATGTTAATGTATGACATGTATGT
Found at i:38315882 original size:27 final size:27
Alignment explanation
Indices: 38315852--38315967 Score: 83
Period size: 27 Copynumber: 4.3 Consensus size: 27
38315842 CTTTTAAGGT
38315852 AAACTCTAAAAGAAAAGTCATTGTGGC
1 AAACTCTAAAAGAAAAGTCATTGTGGC
** **
38315879 AAACT-TTGAAGAAAGAAACATTGTGGC
1 AAACTCTAAAAGAAA-AGTCATTGTGGC
* * * * *
38315906 GAACTC-AGAAGGAAGAGCCTTTGTGGC
1 AAACTCTA-AAAGAAAAGTCATTGTGGC
* * * *
38315933 AAACTCTAAAGGAAGAGTCTTTGTGGA
1 AAACTCTAAAAGAAAAGTCATTGTGGC
38315960 AAACTCTA
1 AAACTCTA
38315968 GATGGACTGT
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
26 7 0.10
27 58 0.83
28 5 0.07
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (27 bp):
AAACTCTAAAAGAAAAGTCATTGTGGC
Found at i:38318365 original size:16 final size:16
Alignment explanation
Indices: 38318344--38318375 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38318334 CATTCTTTTA
38318344 AATTTCCAAAAAGCCT
1 AATTTCCAAAAAGCCT
*
38318360 AATTTCCAAAAGGCCT
1 AATTTCCAAAAAGCCT
38318376 TTGATCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (16 bp):
AATTTCCAAAAAGCCT
Found at i:38319450 original size:21 final size:21
Alignment explanation
Indices: 38319426--38319466 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38319416 TATTCTTTTT
38319426 AATTTT-ATCTCAATTTCATCA
1 AATTTTGATCTC-ATTTCATCA
*
38319447 AATTTTGATTTCATTTCATC
1 AATTTTGATCTCATTTCATC
38319467 TATTTCGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTTGATCTCATTTCATCA
Found at i:38319476 original size:20 final size:21
Alignment explanation
Indices: 38319438--38319477 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
38319428 TTTTATCTCA
*
38319438 ATTTCATCAAATTTTGATTTC
1 ATTTCATCAAATTTCGATTTC
*
38319459 ATTTCATC-TATTTCGATTT
1 ATTTCATCAAATTTCGATTT
38319478 GGTAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.25, C:0.15, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTCATCAAATTTCGATTTC
Found at i:38321204 original size:19 final size:19
Alignment explanation
Indices: 38321182--38321219 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38321172 TCATCGTCAC
*
38321182 CCACCGTAATCAAATTTGT
1 CCACCATAATCAAATTTGT
*
38321201 CCACTATAATCAAATTTGT
1 CCACCATAATCAAATTTGT
38321220 TATTGACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (19 bp):
CCACCATAATCAAATTTGT
Found at i:38321836 original size:30 final size:31
Alignment explanation
Indices: 38321783--38321845 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
38321773 GGGATGGGAG
38321783 GGGAGCAAAAGTTATGGAGGGAAAATG-AGA
1 GGGAGCAAAAGTTATGGAGGGAAAATGAAGA
* * *
38321813 GGGAGTAAAAGTTTTGG-GAGGAAAGTGAAGA
1 GGGAGCAAAAGTTATGGAG-GGAAAATGAAGA
38321844 GG
1 GG
38321846 TTTAGGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.04
30 22 0.79
31 5 0.18
ACGTcount: A:0.40, C:0.02, G:0.43, T:0.16
Consensus pattern (31 bp):
GGGAGCAAAAGTTATGGAGGGAAAATGAAGA
Found at i:38321911 original size:18 final size:18
Alignment explanation
Indices: 38321888--38321924 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38321878 TATAGTTTGA
*
38321888 TATTCGATTTATTCAAAT
1 TATTCGAGTTATTCAAAT
*
38321906 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCAAAT
38321924 T
1 T
38321925 CGAAAACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
TATTCGAGTTATTCAAAT
Found at i:38325012 original size:48 final size:48
Alignment explanation
Indices: 38324948--38325084 Score: 213
Period size: 48 Copynumber: 2.9 Consensus size: 48
38324938 AGAAATGAAA
*
38324948 GAAAAAGAAAACAAAATTGAAAAAGAGATTGAGAGTGAAAAAGAATGT
1 GAAAAAGAAAAGAAAATTGAAAAAGAGATTGAGAGTGAAAAAGAATGT
*
38324996 GAAAAACAAAAGAAAATTGAAAAAGAGATTGAGAGTGAAAAAGAATGT
1 GAAAAAGAAAAGAAAATTGAAAAAGAGATTGAGAGTGAAAAAGAATGT
* * * *
38325044 GAGAAAGAAAAGAAAATTGAAAAGGAAATTGAG-GTAAAAAA
1 GAAAAAGAAAAGAAAATTGAAAAAGAGATTGAGAGTGAAAAA
38325085 TGGAGTAAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 7 0.09
48 75 0.91
ACGTcount: A:0.61, C:0.01, G:0.23, T:0.14
Consensus pattern (48 bp):
GAAAAAGAAAAGAAAATTGAAAAAGAGATTGAGAGTGAAAAAGAATGT
Found at i:38331416 original size:424 final size:423
Alignment explanation
Indices: 38330619--38331879 Score: 1982
Period size: 424 Copynumber: 3.0 Consensus size: 423
38330609 TAGATCAAGA
* * * *
38330619 TTGAATTCATCAAGAGAAGATCGTGGGAAAGGAAAAGTTGTTGAGTAGACTCTATTGTGGCGAAT
1 TTGAATCCTTCAAGAGAAGATCGT-GGAAAGGAAAAGTTTTTGAGTAGACTCTATTGTGGCGAGT
*
38330684 TATCATTTTGCTAGGTAAGTATATACAATATGAACATTATTTAACTTTCTTTCCTTTTTGTTCTT
65 TATCATTTTGCCAGGTAAGTATATACAATATGAACATTATTTAACTTTCTTTCCTTTTTGTTCTT
*
38330749 AAATTCTATAATTGAAAATTTGGTAAGTTAGATTTGGGTTGTTAAATATATAGAGGAGAGAAATG
130 AAATTCTATAATTGAAAATTTGGTAAGTTAGATTTGGGTTGTTAAATATATAGAGGAGAGAAATA
* * *
38330814 TTGAACTATATTACGAAGGAATATGAGTAAAATTACAAAAA-GAAAGTGTCTTGATAAACTTAGT
195 CTGAACTATATTACGAAGGAATGTGAGTAAAATTA-AAAAATGAAAGTGTCTCGATAAACTTAGT
* * *
38330878 AAAAGACTCAAACAATGGTTACATGTTATTTCCTGATGATTCTGAGATCCAACATTTGTTGCAGA
259 AAAAGACTCAAATAATGGTTACATGTTATTTCATGATGATTCTGAGATCCAGCATTTGTTGCAGA
38330943 CTCAAAGATACATGTGGCACAGATTTAGCCTGGACTGGTAATTCGATGCTGTTTTAAAGGTTTAG
324 CTCAAAGATACATGTGGCACAGATTTAGCCTGGACTGGTAATTCGATGCTGTTTTAAAGGTTTAG
*
38331008 TCTGGACTAGTAACCTTACATGTATATATTGCCAT
389 TCTGGACTAGTAACCTTACATGTATATATAGCCAT
38331043 TTGAATCCTTCAAGAGAAGATCGTAGGAAAGGAAAAGTTTTTGAGTAGACTCTATTGTGGCGAGT
1 TTGAATCCTTCAAGAGAAGATCGT-GGAAAGGAAAAGTTTTTGAGTAGACTCTATTGTGGCGAGT
38331108 TATCATTTTGCCAGGTAAGTATATACAATATGAACATTATTTAACTTTCTTTCCTTTTTGTTCTT
65 TATCATTTTGCCAGGTAAGTATATACAATATGAACATTATTTAACTTTCTTTCCTTTTTGTTCTT
38331173 AAATTCTATAATTGAAAATTTGGTAAGTTAGATTTGGGTTGTTAAATATATAGAGGAGAGAAATA
130 AAATTCTATAATTGAAAATTTGGTAAGTTAGATTTGGGTTGTTAAATATATAGAGGAGAGAAATA
* * *
38331238 CTAAACTATATTACAAAGGAATGTGAGTAAAATTAAAAAATGAAAGTGTCTCGATAAACTCAGTA
195 CTGAACTATATTACGAAGGAATGTGAGTAAAATTAAAAAATGAAAGTGTCTCGATAAACTTAGTA
* *
38331303 AATGACTCAAATAATGGTTACATGTTATTTCATGATGATTCTGAGATCCAGCATTTGTTG-TGAA
260 AAAGACTCAAATAATGGTTACATGTTATTTCATGATGATTCTGAGATCCAGCATTTGTTGCAG-A
38331367 CTCAAAGATACATGTGGCACAGATTTAGCCTGGACTGGTAATTCGATGCTGTTTTAAAGGTTTAG
324 CTCAAAGATACATGTGGCACAGATTTAGCCTGGACTGGTAATTCGATGCTGTTTTAAAGGTTTAG
*
38331432 TCTGGACTAATAACCTTACATGTATATATAGCCAT
389 TCTGGACTAGTAACCTTACATGTATATATAGCCAT
* *
38331467 TTGAATCATTCAAGAGAAGATCGTGGAAAAGGAAAAGTTTTTGAGTAGACTCTATTGTGGTGAGT
1 TTGAATCCTTCAAGAGAAGATCGTGG-AAAGGAAAAGTTTTTGAGTAGACTCTATTGTGGCGAGT
* * * * *
38331532 TATCATTTTTCCAAGTAAGTATATACAATATGAAAATTATTTAACTTTCTTTCCTTTATGCTCTT
65 TATCATTTTGCCAGGTAAGTATATACAATATGAACATTATTTAACTTTCTTTCCTTTTTGTTCTT
* * * *
38331597 AAATTGTATAATTGAAAATTTGGCAAGTTAGATTTGGGTTGTTAAATATATA-A-AAGAAAAATA
130 AAATTCTATAATTGAAAATTTGGTAAGTTAGATTTGGGTTGTTAAATATATAGAGGAGAGAAATA
* * * * *
38331660 CTGAACTATATTACGAAGGAATGTGACTAAAATT-AAAACT-ATAGTGTCCCAATAAACTTAGTA
195 CTGAACTATATTACGAAGGAATGTGAGTAAAATTAAAAAATGAAAGTGTCTCGATAAACTTAGTA
* * *
38331723 AAAGACTCAAATAATGGTTACATGTTATTTCTTGATGATT-TCGAGATCCAGTATTTGTTACAGA
260 AAAGACTCAAATAATGGTTACATGTTATTTCATGATGATTCT-GAGATCCAGCATTTGTTGCAGA
* * * * * *
38331787 CTCAAAGATACATGTTGCATAAATTTAGCCTGGACTGGTAA-TCTGATGCTATTTGAATGGTTTA
324 CTCAAAGATACATGTGGCACAGATTTAGCCTGGACTGGTAATTC-GATGCTGTTTTAAAGGTTTA
*
38331851 G-CATGGACTAGTAACCTTACATATATATA
388 GTC-TGGACTAGTAACCTTACATGTATATA
38331880 GACCTGACCA
Statistics
Matches: 778, Mismatches: 52, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
419 4 0.01
420 154 0.20
421 6 0.01
422 39 0.05
423 9 0.01
424 566 0.73
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (423 bp):
TTGAATCCTTCAAGAGAAGATCGTGGAAAGGAAAAGTTTTTGAGTAGACTCTATTGTGGCGAGTT
ATCATTTTGCCAGGTAAGTATATACAATATGAACATTATTTAACTTTCTTTCCTTTTTGTTCTTA
AATTCTATAATTGAAAATTTGGTAAGTTAGATTTGGGTTGTTAAATATATAGAGGAGAGAAATAC
TGAACTATATTACGAAGGAATGTGAGTAAAATTAAAAAATGAAAGTGTCTCGATAAACTTAGTAA
AAGACTCAAATAATGGTTACATGTTATTTCATGATGATTCTGAGATCCAGCATTTGTTGCAGACT
CAAAGATACATGTGGCACAGATTTAGCCTGGACTGGTAATTCGATGCTGTTTTAAAGGTTTAGTC
TGGACTAGTAACCTTACATGTATATATAGCCAT
Found at i:38338001 original size:27 final size:27
Alignment explanation
Indices: 38337959--38338010 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
38337949 AAATGTGAAA
*
38337959 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
38337986 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
38338011 GGTTCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:38338017 original size:104 final size:103
Alignment explanation
Indices: 38337882--38338146 Score: 426
Period size: 104 Copynumber: 2.6 Consensus size: 103
38337872 TTGTATATAA
** *
38337882 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
38337947 TGAAATGTGAAAAGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGTTGCTATGTGCTGATT-CCCCG
*
38337986 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
*
38338050 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAAGGGGTTGCTATGTGCTGATTCCCCG
** *
38338089 A-GGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
38338147 ATAACGGTTA
Statistics
Matches: 150, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
102 52 0.35
103 6 0.04
104 91 0.61
105 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGTTGCTATGTGCTGATTCCCCG
Found at i:38338098 original size:25 final size:25
Alignment explanation
Indices: 38338065--38338114 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
38338055 ATGTGAAAGG
*
38338065 GGGTTGCTATGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
38338090 GGGTTGCTAAGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
38338115 TTCAGCGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (25 bp):
GGGTTGCTAAGTGCTGATTCCCCGA
Found at i:38345474 original size:100 final size:102
Alignment explanation
Indices: 38345288--38345547 Score: 386
Period size: 101 Copynumber: 2.6 Consensus size: 102
38345278 TTGTATATAA
** * *
38345288 AGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGC-ATGTGCGTGAT-CACCATATCTTT
1 AGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGT-ATCCACCATATCTTT
38345351 GAAATGTGAAAAGGGGTTGCTATGTGCTGATTCCCCCG
65 GAAATGTGAAAAGGGGTTGCTATGTGCTGATTCCCCCG
38345389 AGGGTTGCTAAGTGCTGATTCCCCG-TTCA-TGGTGGTGCTAAGTGCGTATCCACCATATCTTT-
1 AGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGTATCCACCATATCTTTG
*
38345451 AAATGTGAAAGGGGGTTGCCTATGTGCTGATTCCCCCG
66 AAATGTGAAAAGGGGTTG-CTATGTGCTGATTCCCCCG
* *
38345489 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 A-GGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCG-TATCCACCA
38345548 ATAACGGTTA
Statistics
Matches: 146, Mismatches: 6, Indels: 11
0.90 0.04 0.07
Matches are distributed among these distances:
99 28 0.19
100 43 0.29
101 47 0.32
102 4 0.03
103 16 0.11
104 8 0.05
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.30
Consensus pattern (102 bp):
AGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGTATCCACCATATCTTTG
AAATGTGAAAAGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:38348359 original size:20 final size:20
Alignment explanation
Indices: 38348318--38348403 Score: 79
Period size: 20 Copynumber: 4.4 Consensus size: 20
38348308 CTTGTACGAG
* *
38348318 GTTT-CACTTCGGTCCCTTT
1 GTTTGCACTTCGGTGCCTCT
*
38348337 GTTTGCACTTCGATGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* *
38348357 GTTTGTACTTTGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
*
38348377 GATTGCACATT--GTGCCTCT
1 GTTTGCAC-TTCGGTGCCTCT
*
38348396 ATTTGCAC
1 GTTTGCAC
38348404 CTCAGTTCTT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 18 0.33
20 35 0.64
21 2 0.04
ACGTcount: A:0.10, C:0.27, G:0.20, T:0.43
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:38348401 original size:19 final size:20
Alignment explanation
Indices: 38348350--38348403 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
38348340 TGCACTTCGA
* * *
38348350 TGCCTCTGTTTGTACTTTGG
1 TGCCTCTATTTGCACATTGG
38348370 TGCCTCTGA-TTGCACATT-G
1 TGCCTCT-ATTTGCACATTGG
38348389 TGCCTCTATTTGCAC
1 TGCCTCTATTTGCAC
38348404 CTCAGTTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.03
19 14 0.48
20 14 0.48
ACGTcount: A:0.11, C:0.26, G:0.20, T:0.43
Consensus pattern (20 bp):
TGCCTCTATTTGCACATTGG
Found at i:38349030 original size:20 final size:20
Alignment explanation
Indices: 38349001--38349042 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
38348991 GATTTTGGAT
*
38349001 GTATGGTTGCCTTAATTTTG
1 GTATGCTTGCCTTAATTTTG
38349021 GTATGCTTGCCTTAATTTTG
1 GTATGCTTGCCTTAATTTTG
38349041 GT
1 GT
38349043 TAGGTTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.12, G:0.24, T:0.50
Consensus pattern (20 bp):
GTATGCTTGCCTTAATTTTG
Found at i:38360463 original size:43 final size:42
Alignment explanation
Indices: 38360402--38360538 Score: 139
Period size: 43 Copynumber: 3.2 Consensus size: 42
38360392 GCGTTTTCCC
* * *
38360402 ACAAACGTCGCTATAGAACATGCTCTTTAGCGGTGCTTTTACT
1 ACAAACGTCACTAAAGAACATGATCTTTAGCGGTG-TTTTACT
* * *
38360445 ACAAACGTCACTACAGAACATGATATTTAGTGGTGTCTTTACT
1 ACAAACGTCACTAAAGAACATGATCTTTAGCGGTGT-TTTACT
* * * * *
38360488 ACAAACGCCACTAAAGAACATGGTCTTTTGCGGCGATTTTAGTT
1 ACAAACGTCACTAAAGAACATGATCTTTAGCGGTG-TTTTA-CT
38360532 ACAAACG
1 ACAAACG
38360539 CACAACATGC
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 68 0.87
44 9 0.12
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (42 bp):
ACAAACGTCACTAAAGAACATGATCTTTAGCGGTGTTTTACT
Found at i:38380065 original size:14 final size:14
Alignment explanation
Indices: 38380042--38380077 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
38380032 TTCTCCCTTG
38380042 CTTT-TTTTTCTTT
1 CTTTCTTTTTCTTT
38380055 CTTTCTTTTTCTTT
1 CTTTCTTTTTCTTT
38380069 CTTTTCTTT
1 C-TTTCTTT
38380078 GATTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.19
14 10 0.48
15 7 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTCTTTTTCTTT
Found at i:38382485 original size:16 final size:16
Alignment explanation
Indices: 38382464--38382496 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38382454 TTCGTTGTAT
38382464 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
38382480 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
38382496 T
1 T
38382497 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:38382750 original size:18 final size:17
Alignment explanation
Indices: 38382729--38382763 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38382719 TTATTATTAA
*
38382729 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38382747 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38382764 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38382870 original size:18 final size:17
Alignment explanation
Indices: 38382849--38382883 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38382839 TTATTATTAA
*
38382849 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38382867 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38382884 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38382973 original size:43 final size:40
Alignment explanation
Indices: 38382804--38383123 Score: 125
Period size: 43 Copynumber: 7.9 Consensus size: 40
38382794 AATCAAATCA
* *
38382804 TAATATATGATACTATAAAATATATTTTAACATAATTATTAT
1 TAATATAT-ATACT-TAAAATATAATTTAATATAATTATTAT
* * * * *
38382846 TAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1 T-AATATA-TATACTT-AAA-ATATAATTTAATATAATTATTAT
* * * *
38382890 TAATCA-ATATTCTT---ATATGAATTTACT-CAA--ATCA-
1 TAAT-ATATATACTTAAAATAT-AATTTAATATAATTATTAT
38382924 TAATATATGATACTATAAAATATAATTTAATATAATTATTAT
1 TAATATAT-ATACT-TAAAATATAATTTAATATAATTATTAT
* * * * *
38382966 TAAATATATTTAATTAAAATATATGATTTAATAAAATTCTTAA
1 T-AATATATATACTTAAAATATA--ATTTAATATAATTATTAT
* * *
38383009 TAATCA-ATATTCTT---ATATGAATTTACTA-AA--ATCA-
1 TAAT-ATATATACTTAAAATAT-AATTTAATATAATTATTAT
38383043 TAATATATGATACTATAAAATATAATTTGAA-ATAATTATTAT
1 TAATATAT-ATACT-TAAAATATAATTT-AATATAATTATTAT
* * *
38383085 TAAATATATTTTAATTAAAATATATTATTTAATAAAATT
1 T-AATATA-TATACTTAAAATATA--ATTTAATATAATT
38383124 TAAAATAATT
Statistics
Matches: 206, Mismatches: 35, Indels: 72
0.66 0.11 0.23
Matches are distributed among these distances:
33 2 0.01
34 12 0.06
35 12 0.06
36 2 0.01
37 8 0.04
38 27 0.13
39 17 0.08
40 1 0.00
41 15 0.07
42 28 0.14
43 51 0.25
44 31 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (40 bp):
TAATATATATACTTAAAATATAATTTAATATAATTATTAT
Found at i:38382989 original size:17 final size:17
Alignment explanation
Indices: 38382969--38383002 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
38382959 TTATTATTAA
38382969 ATAT-ATTTAATTAAAAT
1 ATATGATTTAA-TAAAAT
38382986 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
38383003 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:38383034 original size:119 final size:120
Alignment explanation
Indices: 38382709--38383123 Score: 753
Period size: 120 Copynumber: 3.5 Consensus size: 120
38382699 TTAATCATAT
38382709 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
38382774 CAATATTCTTATATGAATTTAATCAAATCATAATATATGATACTATAAAATATAT
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
38382829 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
38382894 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
* *
38382949 TTTAATATAATTATTATTAAATATA-TTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
38383013 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
*
38383068 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATTATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
38383124 TAAAATAATT
Statistics
Matches: 287, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
119 114 0.40
120 173 0.60
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
Found at i:38383109 original size:18 final size:17
Alignment explanation
Indices: 38383086--38383122 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
38383076 AATTATTATT
38383086 AAATATA-T-TTTAATTA
1 AAATATATTATTTAA-TA
38383102 AAATATATTATTTAATA
1 AAATATATTATTTAATA
38383119 AAAT
1 AAAT
38383123 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATATATTATTTAATA
Found at i:38383148 original size:24 final size:24
Alignment explanation
Indices: 38383099--38383145 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
38383089 TATATTTTAA
38383099 TTAAAATATATTATTTAATAAAAT
1 TTAAAATATATTATTTAATAAAAT
38383123 TTAAAATA-ATTATTAGTAATAAA
1 TTAAAATATATTATT--TAATAAA
38383146 TTTTCTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 8 0.38
25 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTAAAATATATTATTTAATAAAAT
Found at i:38383230 original size:75 final size:77
Alignment explanation
Indices: 38383143--38383297 Score: 251
Period size: 75 Copynumber: 2.0 Consensus size: 77
38383133 TATTAGTAAT
* * *
38383143 AAATTTTCTTATATGAATTTGTATAATTTAATATAATTATTATTAAATATAATTTAATAAT-ATA
1 AAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
38383207 TAT-TTTCATAA
66 TATATTTCATAA
*
38383218 AAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTATATATAATTTAATAATGATA
1 AAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
38383283 TATAATTTCATAA
66 TAT-ATTTCATAA
38383296 AA
1 AA
38383298 TTCTCGATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
75 57 0.78
76 6 0.08
78 10 0.14
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (77 bp):
AAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
TATATTTCATAA
Found at i:38383284 original size:91 final size:91
Alignment explanation
Indices: 38383188--38383420 Score: 339
Period size: 91 Copynumber: 2.5 Consensus size: 91
38383178 ATTATTATTA
*
38383188 AATATAATTTAATAATATATATTTTCATAA-AAATTTTCTTATATGAATTTATATAATTTAAAAT
1 AATATAATTTCATAA-A-ATATTTTCATAATAAATTTTCTTATATGAATTTATATAATTTAAAAT
*
38383252 AATTAATATTATATATAATTTAATAATG
64 AATTAATATTAAATATAATTTAATAATG
*
38383280 ATATATAATTTCAT-AAA-ATTCTCGATAATAAATTTTCTTATATGAATTTATATAATTTAAAAT
1 A-ATATAATTTCATAAAATATTTTC-ATAATAAATTTTCTTATATGAATTTATATAATTTAAAAT
38383343 AATTAATATTAAATATAATTTAATAATG
64 AATTAATATTAAATATAATTTAATAATG
* * *
38383371 ATATATAATTTCATAAAAT-TCTTAATAATAAATATTCTTATATGAATTTA
1 A-ATATAATTTCATAAAATATTTTCATAATAAATTTTCTTATATGAATTTA
38383421 CTAAAATCAT
Statistics
Matches: 129, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
89 5 0.04
90 5 0.04
91 101 0.78
92 7 0.05
93 11 0.09
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
AATATAATTTCATAAAATATTTTCATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAA
TTAATATTAAATATAATTTAATAATG
Found at i:38383285 original size:18 final size:18
Alignment explanation
Indices: 38383250--38383295 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
38383240 ATAATTTAAA
*
38383250 ATAA-TTAAT-ATTATAT
1 ATAATTTAATAATGATAT
38383266 ATAATTTAATAATGATAT
1 ATAATTTAATAATGATAT
*
38383284 ATAATTTCATAA
1 ATAATTTAATAA
38383296 AATTCTCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 4 0.15
17 5 0.19
18 17 0.65
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
ATAATTTAATAATGATAT
Found at i:38383332 original size:47 final size:46
Alignment explanation
Indices: 38383214--38383420 Score: 134
Period size: 44 Copynumber: 4.6 Consensus size: 46
38383204 ATATATTTTC
*
38383214 ATAA-AAATTTTCTTATATGAATTTATATAATTT-A-AAATAAT-TA
1 ATAATAAATTTTCTTATATGAATTTATATAATTTCATAAA-ATTCTA
* ** * *
38383257 ATATTATATATAAT-TTA-AT-AATGATATATAATTTCATAAAATTCTCG
1 ATA--ATAAATTTTCTTATATGAAT-TTATATAATTTCATAAAATTCT-A
*
38383304 ATAATAAATTTTCTTATATGAATTTATATAATTT-A-AAATAAT-TA
1 ATAATAAATTTTCTTATATGAATTTATATAATTTCATAAA-ATTCTA
* * *
38383348 ATATTAAATATAAT-TTA-AT-AATGATATATAATTTCATAAAATTCTTA
1 ATAATAAAT-T-TTCTTATATGAAT-TTATATAATTTCATAAAATTC-TA
*
38383395 ATAATAAATATTCTTATATGAATTTA
1 ATAATAAATTTTCTTATATGAATTTA
38383421 CTAAAATCAT
Statistics
Matches: 122, Mismatches: 20, Indels: 40
0.67 0.11 0.22
Matches are distributed among these distances:
43 9 0.07
44 32 0.26
45 25 0.20
46 21 0.17
47 29 0.24
48 6 0.05
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (46 bp):
ATAATAAATTTTCTTATATGAATTTATATAATTTCATAAAATTCTA
Found at i:38383376 original size:44 final size:44
Alignment explanation
Indices: 38383237--38383381 Score: 145
Period size: 44 Copynumber: 3.2 Consensus size: 44
38383227 TATATGAATT
*
38383237 TATATAATTTAAAATAATTAATATTATATATAATTTAATAATGA
1 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
* * * * *
38383281 TATATAATTTCATAAA-ATTCTCGATAATAAAT-T-TTCTTATATGAAT-T
1 TATATAATTT-A-AAATAAT-T-AATATTAAATATAAT-TTA-AT-AATGA
38383328 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
1 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
38383372 TATATAATTT
1 TATATAATTT
38383382 CATAAAATTC
Statistics
Matches: 79, Mismatches: 11, Indels: 22
0.71 0.10 0.20
Matches are distributed among these distances:
43 3 0.04
44 30 0.38
45 12 0.15
46 12 0.15
47 19 0.24
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (44 bp):
TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
Found at i:38387464 original size:23 final size:24
Alignment explanation
Indices: 38387407--38387465 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
38387397 ACTCACTAAC
* *
38387407 AAATCAAGAACAATTTCCAGCAGA
1 AAATCAAGAACAAGTTCCAGCAAA
**
38387431 CTATCAA-AACAAGTTCCAG-AAA
1 AAATCAAGAACAAGTTCCAGCAAA
38387453 AAATCAAGAACAA
1 AAATCAAGAACAA
38387466 TATCAAAACA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 7 0.25
23 16 0.57
24 5 0.18
ACGTcount: A:0.54, C:0.20, G:0.10, T:0.15
Consensus pattern (24 bp):
AAATCAAGAACAAGTTCCAGCAAA
Found at i:38387497 original size:107 final size:107
Alignment explanation
Indices: 38387376--38387605 Score: 406
Period size: 107 Copynumber: 2.1 Consensus size: 107
38387366 ACTATACTTG
38387376 CAATTTCCAATTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
1 CAATTTCCAATTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
38387441 AAGTTCCAGAAAAAATCAAGAACAATATCAAAACAAATGCAA
66 AAGTTCCAGAAAAAATCAAGAACAATATCAAAACAAATGCAA
* *
38387483 CAATTTCCATTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCTAGCAGACTATCAAAAC
1 CAATTTCCAATTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
* *
38387548 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
66 AAGTTCCAGAAAAAATCAAGAACAATATCAAAACAAATGCAA
* *
38387590 CAATTCCCAGTTTCAT
1 CAATTTCCAATTTCAT
38387606 TGAAAACAAC
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 117 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (107 bp):
CAATTTCCAATTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
AAGTTCCAGAAAAAATCAAGAACAATATCAAAACAAATGCAA
Found at i:38387571 original size:23 final size:24
Alignment explanation
Indices: 38387511--38387573 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
38387501 TCTACTCACT
*
38387511 AACAAATCAAGAACAATTTCTAGC
1 AACAAATCAAGAACAATTTCCAGC
*
38387535 AGAC-TATCAA-AACAATTTCCAG-
1 A-ACAAATCAAGAACAATTTCCAGC
38387557 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
38387574 ATCAAAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 17 0.52
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.21, G:0.08, T:0.19
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCAGC
Found at i:38387582 original size:22 final size:22
Alignment explanation
Indices: 38387540--38387585 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
38387530 CTAGCAGACT
* *
38387540 ATCAAAACAATTTCCAGAACAA
1 ATCAAAACAATATCCAAAACAA
38387562 ATCAAGAACAATAT-CAAAACAA
1 ATCAA-AACAATATCCAAAACAA
38387584 AT
1 AT
38387586 GCAACAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (22 bp):
ATCAAAACAATATCCAAAACAA
Found at i:38387681 original size:23 final size:23
Alignment explanation
Indices: 38387603--38387681 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
38387593 TTCCCAGTTT
*
38387603 CATTGAAAACAACAGACAATTTC
1 CATTGAAAACATCAGACAATTTC
* * * *
38387626 CATTGCAACAATATCAAAAAACTGTCTG
1 CATTG-AA-AACATCAGACAA-T-T-TC
*
38387654 AATTGAAAACATCAGACAATTTC
1 CATTGAAAACATCAGACAATTTC
38387677 CATTG
1 CATTG
38387682 CTCACTGTAT
Statistics
Matches: 40, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
23 10 0.25
24 3 0.08
25 9 0.22
26 10 0.25
27 3 0.08
28 5 0.12
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.25
Consensus pattern (23 bp):
CATTGAAAACATCAGACAATTTC
Found at i:38393814 original size:17 final size:17
Alignment explanation
Indices: 38393794--38393891 Score: 71
Period size: 17 Copynumber: 5.8 Consensus size: 17
38393784 ATTTTAATAG
38393794 ATTTAATATTAAATTTA
1 ATTTAATATTAAATTTA
**
38393811 ATTTAAT-TTTTATCTTA
1 ATTTAATATTAAAT-TTA
* **
38393828 A--TAGTATTTTA-TTA
1 ATTTAATATTAAATTTA
38393842 ATTTAATATTAAAGTGATT-
1 ATTTAATATTAAA-T--TTA
38393861 ATCTTAATATTAAATTTA
1 AT-TTAATATTAAATTTA
38393879 ATTTAATATTAAA
1 ATTTAATATTAAA
38393892 GTGATTAAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 4 0.06
15 3 0.05
16 16 0.25
17 24 0.37
18 2 0.03
19 3 0.05
20 13 0.20
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAATATTAAATTTA
Found at i:38393867 original size:20 final size:19
Alignment explanation
Indices: 38393842--38393898 Score: 75
Period size: 17 Copynumber: 3.1 Consensus size: 19
38393832 TATTTTATTA
38393842 ATTTAATATTAAAGTGATT
1 ATTTAATATTAAAGTGATT
38393861 ATCTTAATATTAAA-T--TT
1 AT-TTAATATTAAAGTGATT
38393878 AATTTAATATTAAAGTGATT
1 -ATTTAATATTAAAGTGATT
38393898 A
1 A
38393899 AGTTTAATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 13 0.39
18 3 0.09
19 4 0.12
20 13 0.39
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (19 bp):
ATTTAATATTAAAGTGATT
Found at i:38395672 original size:46 final size:46
Alignment explanation
Indices: 38395621--38395714 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
38395611 ATAGTGTAGC
38395621 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
38395667 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
38395713 GT
1 GT
38395715 CTTTTAAACC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:38396122 original size:16 final size:15
Alignment explanation
Indices: 38396101--38396144 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
38396091 ATCAAGTTGT
38396101 AAAAAAAATTCGTGA
1 AAAAAAAATTCGTGA
*
38396116 AAAAAAAATTCTTGA
1 AAAAAAAATTCGTGA
38396131 AAAAAAAAGTTCGT
1 AAAAAAAA-TTCGT
38396145 TTTGAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.23
Consensus pattern (15 bp):
AAAAAAAATTCGTGA
Found at i:38400131 original size:46 final size:46
Alignment explanation
Indices: 38400080--38400173 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
38400070 ATAGTGTGGC
* * *
38400080 GTTCATCATATACTAAGGTTCCTATCATCCTTGATAGTGGGTTGAG
1 GTTCATCATATACCAAGGTTCATATCATCCTTGATAGTGGGTCGAG
* *
38400126 GTTCATCATATACCAATGTTCATATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCATATCATCCTTGATAGTGGGTCGAG
38400172 GT
1 GT
38400174 CTTTTAAACT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCATATCATCCTTGATAGTGGGTCGAG
Found at i:38404822 original size:30 final size:30
Alignment explanation
Indices: 38404786--38404842 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
38404776 GAGGCTCGAA
**
38404786 TTGGTTTACTGGTTTAACAATCATGGTGGG
1 TTGGTTTACTGGTACAACAATCATGGTGGG
38404816 TTGGTTTACTGGTACAACAATCATGGT
1 TTGGTTTACTGGTACAACAATCATGGT
38404843 TTCATTCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (30 bp):
TTGGTTTACTGGTACAACAATCATGGTGGG
Found at i:38409436 original size:30 final size:30
Alignment explanation
Indices: 38409402--38409458 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
38409392 GAGGCTTGGT
*
38409402 TTGGTTTGCTAGTTCAATAATCATGGTGGG
1 TTGGTTTCCTAGTTCAATAATCATGGTGGG
*
38409432 TTGGTTTCCTAGTTCAATAGTCATGGT
1 TTGGTTTCCTAGTTCAATAATCATGGT
38409459 TTCATTCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.26, T:0.42
Consensus pattern (30 bp):
TTGGTTTCCTAGTTCAATAATCATGGTGGG
Found at i:38419460 original size:20 final size:21
Alignment explanation
Indices: 38419435--38419474 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
38419425 TTTGAACTAC
38419435 TATAATAATAAACA-ATAATA
1 TATAATAATAAACATATAATA
*
38419455 TATAATAATTAACATATAAT
1 TATAATAATAAACATATAAT
38419475 GTACTACTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TATAATAATAAACATATAATA
Found at i:38422201 original size:2 final size:2
Alignment explanation
Indices: 38422194--38422220 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38422184 CTTATCAAAG
38422194 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
38422221 TATATATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:38422940 original size:41 final size:41
Alignment explanation
Indices: 38422880--38423025 Score: 240
Period size: 41 Copynumber: 3.6 Consensus size: 41
38422870 TTTAAACAGA
*
38422880 TTCACTGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAG
* *
38422921 TTCACCGACACTTAGCCTGCTAGGCTTATAGCCCGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
*
38422962 TTCACCGGCACTTAGCCTGTTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
38423003 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
38423026 ACGTAAAGTC
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 96 0.99
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
Found at i:38423048 original size:82 final size:82
Alignment explanation
Indices: 38422873--38423053 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 82
38422863 CACTTAATTT
*
38422873 AAACAGATTCACTGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCC
1 AAACAG-TTCACCGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCC
* * * *
38422938 TGCTAGGCTTATAGCCCG
65 TGCTAGACGTAAAGCCCA
** * *
38422956 ATTCAGTTCACCGGCACTT-AGCCTGTTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCC
1 AAACAGTTCACCGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCC
*
38423020 TGCTAGACGTAAAGTCCA
65 TGCTAGACGTAAAGCCCA
*
38423038 AAACATTTCACCGGCA
1 AAACAGTTCACCGGCA
38423054 ATTAATCTGA
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 1 0.01
82 79 0.94
83 4 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (82 bp):
AAACAGTTCACCGGCACTTCACCTGCTAGGCTTATAGCCTGATTCAGTTCACCGACACTTAGCCT
GCTAGACGTAAAGCCCA
Found at i:38426943 original size:18 final size:18
Alignment explanation
Indices: 38426901--38426960 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
38426891 ATATATCACA
*
38426901 AATTCTTAATAAA-TTTA-
1 AATTTTTAA-AAATTTTAT
38426918 AATTTTTAAAAATTTTAT
1 AATTTTTAAAAATTTTAT
* *
38426936 AGTTTTTAATAATTTTAT
1 AATTTTTAAAAATTTTAT
38426954 AATTTTT
1 AATTTTT
38426961 TTAATTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
16 3 0.08
17 12 0.32
18 22 0.59
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
AATTTTTAAAAATTTTAT
Found at i:38426960 original size:9 final size:9
Alignment explanation
Indices: 38426914--38426969 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
38426904 TCTTAATAAA
38426914 TTTA-AATT
1 TTTATAATT
* *
38426922 TTTAAAAAT
1 TTTATAATT
*
38426931 TTTATAGTT
1 TTTATAATT
38426940 TTTAATAA-T
1 TTT-ATAATT
38426949 TTTATAATT
1 TTTATAATT
*
38426958 TTTTTAATT
1 TTTATAATT
38426967 TTT
1 TTT
38426970 TAAAAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 8 0.21
9 28 0.72
10 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:38428973 original size:29 final size:31
Alignment explanation
Indices: 38428914--38428982 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 31
38428904 ATTTTTATTA
*
38428914 TGGTACTTGTATTTTTATAAAATGTCCAATG
1 TGGTACTTGTATCTTTATAAAATGTCCAATG
* *
38428945 TGGTACTTGTA-CTTT-TAAATTGTTCAATG
1 TGGTACTTGTATCTTTATAAAATGTCCAATG
38428974 TGGTACTTG
1 TGGTACTTG
38428983 AACTATCGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 21 0.60
30 3 0.09
31 11 0.31
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.46
Consensus pattern (31 bp):
TGGTACTTGTATCTTTATAAAATGTCCAATG
Found at i:38429847 original size:20 final size:20
Alignment explanation
Indices: 38429803--38429841 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38429793 TTAACAATAT
38429803 ATTTAG-TTAATTTATTTTTA
1 ATTTAGTTTAATTT-TTTTTA
38429823 ATTTAGTTTAATTTTTTTT
1 ATTTAGTTTAATTTTTTTT
38429842 GTTTTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
ATTTAGTTTAATTTTTTTTA
Found at i:38430704 original size:25 final size:25
Alignment explanation
Indices: 38430647--38430698 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
38430637 CCCAAGTAAG
*
38430647 TTCATATGAAATTTACTATATTCTA
1 TTCATATGAAACTTACTATATTCTA
38430672 TTCATATGAAACTTACTATATTCTA
1 TTCATATGAAACTTACTATATTCTA
38430697 TT
1 TT
38430699 ATTATGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (25 bp):
TTCATATGAAACTTACTATATTCTA
Found at i:38435142 original size:33 final size:33
Alignment explanation
Indices: 38435094--38435207 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 33
38435084 GATACATGTG
* *
38435094 TAAGATCATAGCTGGGCTATGGCATTCTGATGA
1 TAAGACCATAACTGGGCTATGGCATTCTGATGA
* * *
38435127 TAAGACCATAACTGGGTTATGGCACTAC-AAGTG-
1 TAAGACCATAACTGGGCTATGGCA-TTCTGA-TGA
* **
38435160 TAAGATCATGGCTGGGCTATGGCATTCTGATGA
1 TAAGACCATAACTGGGCTATGGCATTCTGATGA
38435193 TAAGACCATAACTGG
1 TAAGACCATAACTGG
38435208 TTTACGACAC
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
32 4 0.06
33 55 0.87
34 4 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (33 bp):
TAAGACCATAACTGGGCTATGGCATTCTGATGA
Found at i:38435174 original size:66 final size:66
Alignment explanation
Indices: 38435086--38435249 Score: 240
Period size: 66 Copynumber: 2.5 Consensus size: 66
38435076 GCAGTATAGA
* * * *
38435086 TACATGTGTAAGATCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCA
1 TACAAGTGTAAGATCATGGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTACGACA
38435151 C
66 C
*
38435152 TACAAGTGTAAGATCATGGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGTTTACGACA
1 TACAAGTGTAAGATCATGGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTACGACA
38435217 C
66 C
* * *
38435218 TACAAATGTAAGACCATGG-TAGGGCCATGGCA
1 TACAAGTGTAAGATCATGGCT-GGGCTATGGCA
38435250 ATGCATGTGT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
65 1 0.01
66 88 0.99
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (66 bp):
TACAAGTGTAAGATCATGGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTACGACA
C
Found at i:38435182 original size:105 final size:105
Alignment explanation
Indices: 38434987--38435183 Score: 243
Period size: 105 Copynumber: 1.9 Consensus size: 105
38434977 AATTTTCAAA
* **
38434987 TGTAAGACCATAGCTAGGCTATGGCATTTTAATGAAAAGACCATAACTGGATTATGACACATTGA
1 TGTAAGACCATAGCTAGGCTATGGCATTCTAATGAAAAGACCATAACTGGATTATGACACATACA
*
38435052 ACATAAGACCATGGTTGGACCATGGCAGTATAGATACATG
66 ACATAAGACCATGGCTGGACCATGGCAGTATAGATACATG
* * * * * *
38435092 TGTAAGATCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCAC-TACA
1 TGTAAGACCATAGCTAGGCTATGGCATTCTAATGAAAAGACCATAACTGGATTATGACACATACA
** * * *
38435156 AGTGTAAGATCATGGCTGGGCTATGGCA
66 A-CATAAGACCATGGCTGGACCATGGCA
38435184 TTCTGATGAT
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
104 3 0.04
105 73 0.96
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (105 bp):
TGTAAGACCATAGCTAGGCTATGGCATTCTAATGAAAAGACCATAACTGGATTATGACACATACA
ACATAAGACCATGGCTGGACCATGGCAGTATAGATACATG
Found at i:38435263 original size:66 final size:66
Alignment explanation
Indices: 38435092--38435268 Score: 207
Period size: 66 Copynumber: 2.7 Consensus size: 66
38435082 TAGATACATG
* * * * * *
38435092 TGTAAGATCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCACTACAA
1 TGTAAGACCATGGCTGGGCCATGGCATGCTGATGATAAGACCATAACTGGGTTACGACACTACAA
*
38435157 G
66 A
* * * *
38435158 TGTAAGATCATGGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGTTTACGACACTACAA
1 TGTAAGACCATGGCTGGGCCATGGCATGCTGATGATAAGACCATAACTGGGTTACGACACTACAA
38435223 A
66 A
38435224 TGTAAGACCATGG-TAGGGCCATGGCAATGCATG-TG-TAAGACCATA
1 TGTAAGACCATGGCT-GGGCCATGGC-ATGC-TGATGATAAGACCATA
38435269 GTTGAACTAT
Statistics
Matches: 100, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 92 0.92
67 5 0.05
68 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (66 bp):
TGTAAGACCATGGCTGGGCCATGGCATGCTGATGATAAGACCATAACTGGGTTACGACACTACAA
A
Found at i:38436836 original size:40 final size:40
Alignment explanation
Indices: 38436787--38436903 Score: 207
Period size: 40 Copynumber: 2.9 Consensus size: 40
38436777 CGTGTGGAGC
* **
38436787 AAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTAATT
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
38436827 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
38436867 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
1 AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTA
38436904 TAGATAACGC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.21
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAAGG
Found at i:38437239 original size:223 final size:224
Alignment explanation
Indices: 38436851--38437775 Score: 1588
Period size: 223 Copynumber: 4.1 Consensus size: 224
38436841 AGAGTGAGCA
** *
38436851 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
38436916 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGACTTAGTGGCGTTTATTGTA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTA
*
38436980 AGGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGAC
131 AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGAC
38437045 GGTGCCGTTTTGTGGCCTTTGGGGGGGAC
196 GGTGCCGTTTTGTGGCCTTTGGGGGGGAC
38437074 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
*
38437139 CAAATAATACACCCAGACGGTGTCGTTTTGTGGCCTTT-GGGGGGACTTAGTGGCGTTTATTGTA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTA
* *
38437203 AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAATGCCGCAAATAATACACCTAGAC
131 AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGAC
38437268 GGTGCCGTTTTGTGGCCTTT-GGGGGGAC
196 GGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* *
38437296 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
* *
38437361 CAAATAATACACCCAGACGGTGCCGTTTTTTCTGGCCTTTGGGGGGGACTTAGTGGTGTTTATTG
66 CAAATAATACACCCAGACGGTGCCG--TTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTG
*
38437426 CAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAG
129 TAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAG
38437491 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
194 ACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
38437522 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
38437587 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTA
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTA
* ** * * * * *
38437652 AAGCGCCGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAAATGCCGCAAATAATACTCCCAGA
131 AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAT-AGATAACGCCGCAAATAATACACCCAGA
* *
38437717 CGGTGCCGTTTTGTGTCCTTTGGGGGGCA-
195 CGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
38437746 TTAGTGGCGTTTTTTGTAAAGCGCCGCTAA
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAA
38437776 TCTAGGTGTT
Statistics
Matches: 666, Mismatches: 31, Indels: 9
0.94 0.04 0.01
Matches are distributed among these distances:
222 95 0.14
223 207 0.31
224 110 0.17
225 158 0.24
226 96 0.14
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (224 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGACTTAGTGGCGTTTATTGTA
AAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCGCAAATAATACACCCAGAC
GGTGCCGTTTTGTGGCCTTTGGGGGGGAC
Found at i:38437815 original size:112 final size:112
Alignment explanation
Indices: 38436851--38437775 Score: 1588
Period size: 112 Copynumber: 8.3 Consensus size: 112
38436841 AGAGTGAGCA
** *
38436851 TTAGTGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
38436916 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
38436962 TTAGTGGCGTTTATTGTAAGGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
38437027 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
38437074 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
*
38437139 CAAATAATACACCCAGACGGTGTCGTTTTGTGGCCTTT-GGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
38437185 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAATGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
*
38437250 CAAATAATACACCTAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* *
38437296 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGCGGCGTTTATAAATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
*
38437361 CAAATAATACACCCAGACGGTGCCGTTTTTTCTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCG--TTTTGTGGCCTTTGGGGGGGAC
* *
38437410 TTAGTGGTGTTTATTGCAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
38437475 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
38437522 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
38437587 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
66 CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
* ** * * * *
38437634 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGCTTATAAAAAAATGCC
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTAT-AGATAACGCC
* * *
38437699 GCAAATAATACTCCCAGACGGTGCCGTTTTGTGTCCTTTGGGGGGCA-
65 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
*
38437746 TTAGTGGCGTTTTTTGTAAAGCGCCGCTAA
1 TTAGTGGCGTTTATTGTAAAGCGCCGCTAA
38437776 TCTAGGTGTT
Statistics
Matches: 777, Mismatches: 32, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
111 301 0.39
112 319 0.41
113 63 0.08
114 94 0.12
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (112 bp):
TTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAGCATTAGTGGCGTTTATAGATAACGCCG
CAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGAC
Found at i:38439563 original size:84 final size:84
Alignment explanation
Indices: 38439452--38439652 Score: 330
Period size: 84 Copynumber: 2.4 Consensus size: 84
38439442 TAGTTAAACT
* *** * *
38439452 TTTAGTGCCGTTTTTAGGAAAATGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTT
1 TTTAGTGGCGTTTTTCCAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
38439517 TCTGTTCACAGCTGTAATA
66 TCTGTTCACAGCTGTAATA
*
38439536 TTTAGTGGCGTTTTTCTAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
1 TTTAGTGGCGTTTTTCCAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
38439601 TCTGTTCACAGCTGTAATA
66 TCTGTTCACAGCTGTAATA
38439620 TTTAGTGGCGTTTTTACCAAAAACGCCACAAAA
1 TTTAGTGGCGTTTTT-CCAAAAACGCCACAAAA
38439653 CGGTGTTAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 93 0.85
85 16 0.15
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (84 bp):
TTTAGTGGCGTTTTTCCAAAAACGCCACAAAAAATGCAATTCCAGACCACGAAAACGGTGTCGTT
TCTGTTCACAGCTGTAATA
Found at i:38440872 original size:11 final size:11
Alignment explanation
Indices: 38440852--38440891 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
38440842 GAATATCTCA
38440852 AACT-ATGGGT
1 AACTAATGGGT
38440862 AACTAATGGGT
1 AACTAATGGGT
38440873 AACTAATGGGT
1 AACTAATGGGT
38440884 AACTAATG
1 AACTAATG
38440892 TATTATCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 4 0.14
11 25 0.86
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:38442255 original size:17 final size:17
Alignment explanation
Indices: 38442233--38442532 Score: 163
Period size: 17 Copynumber: 16.6 Consensus size: 17
38442223 GTTAAATTTA
38442233 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
38442250 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
38442267 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
38442290 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
38442307 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
38442324 TTACATAAAATTTGTTTAAATTTA-
1 TTAC-TAAAA------TACA-TTAC
*
38442348 TTTCTAAAATACATTAC
1 TTACTAAAATACATTAC
*
38442365 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
38442388 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
38442405 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
38442422 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
38442435 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
38442449 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
*
38442466 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
38442489 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
38442506 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
38442523 TTACTAAAAT
1 TTACTAAAAT
38442533 TTGTTTAAAT
Statistics
Matches: 227, Mismatches: 16, Indels: 80
0.70 0.05 0.25
Matches are distributed among these distances:
10 4 0.02
11 1 0.00
13 4 0.02
14 4 0.02
16 13 0.06
17 136 0.60
18 5 0.02
23 42 0.19
24 15 0.07
25 3 0.01
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:38442312 original size:57 final size:58
Alignment explanation
Indices: 38442224--38442374 Score: 277
Period size: 57 Copynumber: 2.6 Consensus size: 58
38442214 CGATTGAATG
38442224 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAC-TAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAAATTTGT
*
38442281 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACATAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAAATTTGT
*
38442339 TTAAATTTATTTCTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
38442375 TTGTTTAAAT
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
57 46 0.51
58 45 0.49
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.42
Consensus pattern (58 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAAATTTGT
Found at i:38442384 original size:40 final size:40
Alignment explanation
Indices: 38442307--38442414 Score: 198
Period size: 40 Copynumber: 2.7 Consensus size: 40
38442297 AATACATTAC
38442307 TTACTAAAATACATTACTTACATAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTAC-TAAAATTTGTTTAAATTTA
*
38442348 TTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
38442388 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
38442415 ACATTACTTA
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
40 45 0.69
41 20 0.31
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.44
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:38442431 original size:57 final size:60
Alignment explanation
Indices: 38442351--38442475 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 60
38442341 AAATTTATTT
38442351 CTAAAATACATTACTTACTAAAATTTGTTTAAA-T-TT-ATTACTAAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
*
38442408 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAA-TTATTAATTACTAAAATACATTACTTA
38442469 CTAAAAT
1 CTAAAAT
38442476 TTGTTTAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
57 33 0.52
59 1 0.02
60 2 0.03
61 27 0.43
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (60 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
Found at i:38442492 original size:40 final size:43
Alignment explanation
Indices: 38442400--38442515 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 43
38442390 ACTAAAATAC
*
38442400 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAA-TT
*
38442444 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAA-T
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
38442486 -TT-ATTACTAAAATACATTACTTACTAAAAT
1 ATTAATTACTAAAATACATTACTTACTAAAAT
38442516 ACATTACTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 27 0.39
41 2 0.03
42 1 0.01
44 39 0.57
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (43 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
Found at i:38442519 original size:57 final size:60
Alignment explanation
Indices: 38442444--38442576 Score: 209
Period size: 57 Copynumber: 2.2 Consensus size: 60
38442434 GTTTAAATTT
* *
38442444 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAA-T-TT-ATTACTAAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATAC
*
38442501 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAA-TTATTAATTACTAAAATAC
38442562 ATTACTTACTAAAAT
1 ATTACTTACTAAAAT
38442577 TTGTTTAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
57 39 0.57
59 1 0.01
60 2 0.03
61 27 0.39
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.44
Consensus pattern (60 bp):
ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATAC
Found at i:38442520 original size:101 final size:101
Alignment explanation
Indices: 38442245--38442609 Score: 630
Period size: 101 Copynumber: 3.6 Consensus size: 101
38442235 ACTAAAATAC
* *
38442245 ATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
38442310 CTAAAATACATTACTTACATAAAATTTGTTTAAATTT
66 CTAAAATACATTACTTAC-TAAAATTTGTTTAAATTT
38442347 A-T--TT-CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
38442408 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
66 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
*
38442444 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
38442509 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
66 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
* * **
38442545 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATATGTTACTTA
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
38442610 AATTTATTAC
Statistics
Matches: 254, Mismatches: 5, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
97 19 0.07
98 75 0.30
99 2 0.01
100 2 0.01
101 155 0.61
102 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (101 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
Found at i:38442560 original size:44 final size:44
Alignment explanation
Indices: 38442501--38442592 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
38442491 ACTAAAATAC
*
38442501 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
*
38442545 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
38442589 ATTA
1 ATTA
38442593 CTTAAATATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (44 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
Found at i:38442567 original size:13 final size:13
Alignment explanation
Indices: 38442549--38442630 Score: 69
Period size: 13 Copynumber: 6.3 Consensus size: 13
38442539 AAATTTATTA
*
38442549 ATTACTTAAATAC
1 ATTACTTAAATAT
*
38442562 ATTACTTACTAAAAT
1 ATTACTTA--AATAT
** *
38442577 -TTGTTTAAATTT
1 ATTACTTAAATAT
38442589 ATTACTTAAATAT
1 ATTACTTAAATAT
* *
38442602 GTTACTTAAATTT
1 ATTACTTAAATAT
38442615 ATTACTTAAATA-
1 ATTACTTAAATAT
38442627 ATTA
1 ATTA
38442631 TAAATAAGAT
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
12 7 0.13
13 38 0.72
14 5 0.09
15 3 0.06
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:38442855 original size:73 final size:73
Alignment explanation
Indices: 38442772--38442921 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
38442762 TAAAATAAAA
38442772 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
38442837 TTAATAAT
66 TTAATAAT
38442845 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
38442910 TTAATAAT
66 TTAATAAT
38442918 TATA
1 TATA
38442922 TTAGTAATGT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (73 bp):
TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
TTAATAAT
Found at i:38442888 original size:38 final size:38
Alignment explanation
Indices: 38442773--38442889 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
38442763 AAAATAAAAT
38442773 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
*** * * * *
38442811 ATAAAATGTTAT-T---TTATTAAATATT-ATTAATAATT
1 ATAAAAAAATATGTGGAATATTAAA-ATTGACTATTAA-A
38442846 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
38442884 ATAAAA
1 ATAAAA
38442890 TGTTATTTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 13 0.22
35 12 0.21
36 1 0.02
37 1 0.02
38 18 0.31
39 13 0.22
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (38 bp):
ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
Found at i:38443000 original size:18 final size:18
Alignment explanation
Indices: 38442977--38443582 Score: 160
Period size: 18 Copynumber: 33.6 Consensus size: 18
38442967 AATAACTTAC
38442977 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
38442995 AACTTACATTACTTACA--T
1 AACTTACA-TA-ATACATTT
*
38443013 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
38443030 AACTTACATAATACATTTAACTT
1 AACTTACATAATACA--T---TT
38443053 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
38443073 AACTTACATAATACATTTAACTT
1 AACTTACATAATACA--T---TT
38443096 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
38443116 AACTTACATAATACATTT
1 AACTTACATAATACATTT
* *
38443134 AACTTACA-ACTTACA--C
1 AACTTACATA-ATACATTT
*
38443150 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
*
38443167 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
* *
38443186 AACTTACA-ACTTACA--C
1 AACTTACATA-ATACATTT
* *
38443202 AA--TACAT-TTA-ACTTAC
1 AACTTACATAATACA-TT-T
38443218 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
38443236 AACTTACATTACTTACA--T
1 AACTTACA-TA-ATACATTT
*
38443254 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
38443271 AACTTACATAATACATTTAACTT
1 AACTTACATAATACA--T---TT
38443294 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
*
38443314 AACTTACA-ACTTACA--T
1 AACTTACATA-ATACATTT
* *
38443330 AA--TACAT-TTA-ACTTAC
1 AACTTACATAATACA-TT-T
38443346 AACTTACATAATACATTT
1 AACTTACATAATACATTT
38443364 AACTTACATAATACATTT
1 AACTTACATAATACATTT
* *
38443382 AACTTACA-ACTTACA--C
1 AACTTACATA-ATACATTT
*
38443398 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
*
38443415 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
38443434 AACTTACA-ACTTACA--T
1 AACTTACATA-ATACATTT
*
38443450 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
38443467 AACTTACATAATACATTT
1 AACTTACATAATACATTT
* *
38443485 AACTTACA-ACTTACA--C
1 AACTTACATA-ATACATTT
* *
38443501 AA--TACAT-TTA-ACTTAC
1 AACTTACATAATACA-TT-T
*
38443517 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
38443536 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
38443554 AACTTACATAATACATTT
1 AACTTACATAATACATTT
38443572 AACTTACATAA
1 AACTTACATAA
38443583 CTTACATAAC
Statistics
Matches: 449, Mismatches: 40, Indels: 198
0.65 0.06 0.29
Matches are distributed among these distances:
12 3 0.01
13 14 0.03
14 34 0.08
15 7 0.02
16 30 0.07
17 16 0.04
18 166 0.37
19 102 0.23
20 23 0.05
21 2 0.00
23 5 0.01
24 2 0.00
25 45 0.10
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:38443002 original size:25 final size:25
Alignment explanation
Indices: 38442958--38443551 Score: 807
Period size: 25 Copynumber: 24.1 Consensus size: 25
38442948 ATTTTATTAA
*
38442958 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
38442984 ATAATACATTTAACTTACATTACTTAC
1 ATAATACATTTAACTTACA--ACTTAC
*
38443011 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
38443037 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
38443062 ATAATACA--T---TT--AACTTAC
1 ATAATACATTTAACTTACAACTTAC
38443080 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
38443105 ATAATACA--T---TT--AACTTAC
1 ATAATACATTTAACTTACAACTTAC
38443123 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
* *
38443148 ACAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
*
38443174 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
*
38443200 ACAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
38443225 ATAATACATTTAACTTACATTACTTAC
1 ATAATACATTTAACTTACA--ACTTAC
*
38443252 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
38443278 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
38443303 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
38443328 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
38443353 ATAATACA--T---TT--AACTTAC
1 ATAATACATTTAACTTACAACTTAC
38443371 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
* *
38443396 ACAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
*
38443422 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
*
38443448 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
38443474 ATAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
38443499 ACAATACATTTAACTTACAACTTAC
1 ATAATACATTTAACTTACAACTTAC
*
38443524 ATAATACATAATAACTTACAACTTAC
1 ATAATACAT-TTAACTTACAACTTAC
38443550 AT
1 AT
38443552 TTAACTTACA
Statistics
Matches: 520, Mismatches: 18, Indels: 60
0.87 0.03 0.10
Matches are distributed among these distances:
18 45 0.09
20 9 0.02
23 9 0.02
25 230 0.44
26 179 0.34
27 30 0.06
28 18 0.03
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (25 bp):
ATAATACATTTAACTTACAACTTAC
Found at i:38443408 original size:248 final size:242
Alignment explanation
Indices: 38442960--38443591 Score: 1052
Period size: 248 Copynumber: 2.6 Consensus size: 242
38442950 TTTATTAAAT
38442960 AATACATAATAACTTACAACTTACATAATACATTTAACTTACATTACTTACATAATACATAATAA
1 AATACATAATAACTTACAACTTACATAATACATTTAACTTACATTACTTACATAATACATAATAA
38443025 CTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAACTTACATAATACATT
66 CTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAACTTACATAATACATT
38443090 TAACTTACAACTTACATAATACATTTAACTTACATAATACATTTAACTTACAACTTACACAATAC
131 TAACTTACAACTTACATAATACATTTAACTTACATAATACATTTAACTTACAACTTACACAATAC
38443155 ATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACAC
196 ATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACAC
*
38443202 AATACAT-TTAACTTACAACTTACATAATACATTTAACTTACATTACTTACATAATACATAATAA
1 AATACATAATAACTTACAACTTACATAATACATTTAACTTACATTACTTACATAATACATAATAA
38443266 CTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAACTTACAACTTACATA
66 CTTACAACTTACATAATACATTTAACTTACAACTTACATAATACA--T---TT--AACTTACATA
38443331 ATACATTTAACTTACAACTTACATAATACATTTAACTTACATAATACATTTAACTTACAACTTAC
124 ATACATTTAACTTACAACTTACATAATACATTTAACTTACATAATACATTTAACTTACAACTTAC
*
38443396 ACAATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
189 ACAATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACAC
* *
38443450 AATACATAATAACTTACAACTTACATAATACATTTAACTTACA--ACTTACACAATACAT-TTAA
1 AATACATAATAACTTACAACTTACATAATACATTTAACTTACATTACTTACATAATACATAATAA
*
38443512 CTTACAACTTACATAATACA--TAA--T--AACTTACA-ACTTACATTTAACTTACATAATACAT
66 CTTACAACTTACATAATACATTTAACTTACAACTTACATA-ATACATTTAACTTACATAATACAT
38443570 TTAACTTACATAACTTACATAA
130 TTAACTTAC--AACTTACATAA
38443592 CTTACCATTG
Statistics
Matches: 373, Mismatches: 6, Indels: 29
0.91 0.01 0.07
Matches are distributed among these distances:
233 25 0.07
235 13 0.03
238 1 0.00
239 1 0.00
240 12 0.03
241 101 0.27
242 8 0.02
243 1 0.00
244 3 0.01
246 25 0.07
247 14 0.04
248 135 0.36
249 34 0.09
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (242 bp):
AATACATAATAACTTACAACTTACATAATACATTTAACTTACATTACTTACATAATACATAATAA
CTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATTTAACTTACATAATACATT
TAACTTACAACTTACATAATACATTTAACTTACATAATACATTTAACTTACAACTTACACAATAC
ATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACAC
Found at i:38443559 original size:11 final size:10
Alignment explanation
Indices: 38443543--38443596 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
38443533 AATAACTTAC
38443543 AACTTACATTT
1 AACTTACA-TT
38443554 AACTTACA-T
1 AACTTACATT
38443563 AA--TACATTT
1 AACTTACA-TT
38443572 AACTTACA-T
1 AACTTACATT
38443581 AACTTACA-T
1 AACTTACATT
38443590 AACTTAC
1 AACTTAC
38443597 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:38449074 original size:21 final size:21
Alignment explanation
Indices: 38449048--38449118 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
38449038 CTACAACTTA
* *
38449048 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
38449069 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
38449090 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
38449111 AAGCAGAG
1 AAGCAGAG
38449119 CAGAGCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.48, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:38449493 original size:41 final size:42
Alignment explanation
Indices: 38449440--38449603 Score: 168
Period size: 42 Copynumber: 3.9 Consensus size: 42
38449430 GTTTTTGTAT
* * *
38449440 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTG-TA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* *
38449481 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAAA
* * ****
38449524 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * *
38449566 TTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTT
38449604 TTTTCTAAGC
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
41 32 0.31
42 39 0.38
43 33 0.32
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
Found at i:38449541 original size:43 final size:41
Alignment explanation
Indices: 38449440--38449560 Score: 161
Period size: 43 Copynumber: 2.9 Consensus size: 41
38449430 GTTTTTGTAT
* * * *
38449440 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTAGAA
*
38449481 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTAG-AA
* *
38449524 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTT
38449561 TTTCCTTAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 32 0.46
42 5 0.07
43 33 0.47
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (41 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTAGAA
Found at i:38449593 original size:42 final size:42
Alignment explanation
Indices: 38449529--38449647 Score: 195
Period size: 42 Copynumber: 2.8 Consensus size: 42
38449519 AGAAAAAAAA
*
38449529 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTC-CTTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTC-TAAG
*
38449571 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAG
*
38449613 CGCCGCTAAAGAACATGGTCTTTAGCGTCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
38449648 GTTTGTAAAC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
42 72 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAG
Found at i:38451422 original size:27 final size:27
Alignment explanation
Indices: 38451381--38451433 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
38451371 AAAGTTGAAG
* *
38451381 GCCAAAGTAATAAAAAATAAA-ATTAGA
1 GCCAAAATAACAAAAAA-AAACATTAGA
38451408 GCCAAAATAACAAAAAAAAACATTAG
1 GCCAAAATAACAAAAAAAAACATTAG
38451434 GGGCTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.15
Consensus pattern (27 bp):
GCCAAAATAACAAAAAAAAACATTAGA
Found at i:38452182 original size:51 final size:51
Alignment explanation
Indices: 38452070--38452182 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
38452060 CATGAAAATT
** *
38452070 AAATTCTAAATATAGGAAGAATAAAAGGACTTGAAATATTTGTAATTTTTA
1 AAATTCTACTTATAGGAAGAAGAAAAGGACTTGAAATATTTGTAATTTTTA
*
38452121 AAATTCTACTTATAGGAAGAAGACAAGGACTTGAAATATTTGTAATTTTTA
1 AAATTCTACTTATAGGAAGAAGAAAAGGACTTGAAATATTTGTAATTTTTA
*
38452172 AAATTGTACTT
1 AAATTCTACTT
38452183 TATAATTTAG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.36
Consensus pattern (51 bp):
AAATTCTACTTATAGGAAGAAGAAAAGGACTTGAAATATTTGTAATTTTTA
Found at i:38455916 original size:41 final size:41
Alignment explanation
Indices: 38455830--38456025 Score: 155
Period size: 41 Copynumber: 4.8 Consensus size: 41
38455820 TTTTGGAGCC
* * *
38455830 TTTAGCGGCGTTTTTTA-CTAAGCGTCGCTAAAGCT-TGGAA
1 TTTAGCGGCG-TTTTTAGCTAAGCGCCGCTAATGCTCTGGCA
** *
38455870 CTTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGCTCGGGCA
1 -TTTAGCGGCGTTTTTAGCTAAGCGCCGCTAATGCTCTGGCA
* * * * *
38455912 TTTAGTGGCATTTTTGGTTAAGCGCCGCTAATGCTCTGGCC
1 TTTAGCGGCGTTTTTAGCTAAGCGCCGCTAATGCTCTGGCA
* * * ** * * ** *
38455953 TTTAGAGGTGCTTTCGGGTAAGCACCGCTAATGCTCTTACC
1 TTTAGCGGCGTTTTTAGCTAAGCGCCGCTAATGCTCTGGCA
38455994 TTTAGCGGCGTTTTT-GACTAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTAG-CTAAGCGCCGCTAAT
38456026 AGTAACAAAA
Statistics
Matches: 126, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
40 7 0.06
41 116 0.92
42 3 0.02
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTAGCTAAGCGCCGCTAATGCTCTGGCA
Found at i:38457009 original size:28 final size:28
Alignment explanation
Indices: 38456978--38457032 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
38456968 AATAAACAAA
*
38456978 TAAATAATTACG-CAATTAATTATTTAAG
1 TAAATAAATACGTC-ATTAATTATTTAAG
*
38457006 TAAATAAATAGGTCATTAATTATTTAA
1 TAAATAAATACGTCATTAATTATTTAA
38457033 ATGTAAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (28 bp):
TAAATAAATACGTCATTAATTATTTAAG
Found at i:38458293 original size:10 final size:10
Alignment explanation
Indices: 38458278--38458305 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
38458268 TTTTTGATAT
38458278 ATATATATGG
1 ATATATATGG
38458288 ATATATATGG
1 ATATATATGG
38458298 ATATATAT
1 ATATATAT
38458306 ATAGTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
ATATATATGG
Found at i:38458293 original size:12 final size:12
Alignment explanation
Indices: 38458276--38458307 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
38458266 TATTTTTGAT
38458276 ATATATATATGG
1 ATATATATATGG
38458288 --ATATATATGG
1 ATATATATATGG
38458298 ATATATATAT
1 ATATATATAT
38458308 AGTTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (12 bp):
ATATATATATGG
Found at i:38458412 original size:27 final size:27
Alignment explanation
Indices: 38458374--38458425 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
38458364 AATAAACAAA
* *
38458374 TAAATAAGTAGGTAATTATTTATTTGT
1 TAAATAAATAGGTAATTAATTATTTGT
38458401 TAAATAAATAGGTAATTAATTATTT
1 TAAATAAATAGGTAATTAATTATTT
38458426 AAATGTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (27 bp):
TAAATAAATAGGTAATTAATTATTTGT
Found at i:38463531 original size:66 final size:65
Alignment explanation
Indices: 38463411--38463575 Score: 206
Period size: 66 Copynumber: 2.5 Consensus size: 65
38463401 GAGCAAATTA
* * * *
38463411 CACAAATTAAAGCAGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAG
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAG
* *
38463476 TTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCC
1 -CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCC
38463540 AG
64 AG
* * * *
38463542 CAGCAGCTTAAAGTAGATGCGGCAGTGAGAGAAG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAG
38463576 TAGAGGCTGC
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 81 0.94
67 4 0.05
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.15
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAG
Found at i:38463576 original size:21 final size:21
Alignment explanation
Indices: 38463552--38463617 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
38463542 CAGCAGCTTA
* *
38463552 AAGTAGATGCGGCAGTGAGAG
1 AAGTAGAGGCGGCAGCGAGAG
* *
38463573 AAGTAGAGGCTGCAGCGAGGG
1 AAGTAGAGGCGGCAGCGAGAG
* * *
38463594 AAGTAGAGGCTGCAACGAGGG
1 AAGTAGAGGCGGCAGCGAGAG
38463615 AAG
1 AAG
38463618 CAGAACAGCG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.33, C:0.12, G:0.44, T:0.11
Consensus pattern (21 bp):
AAGTAGAGGCGGCAGCGAGAG
Done.