Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 150 of 378
Found at i:43115877 original size:27 final size:27
Alignment explanation
Indices: 43115783--43115951 Score: 159
Period size: 27 Copynumber: 6.3 Consensus size: 27
43115773 GGGTACTTTA
* *
43115783 GTAATTTTACAAGTCGAA-GGTATTTCG
1 GTAATTTTACAA-ACTAAGGGTATTTCG
* * *
43115810 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGGGTATTTCG
*
43115837 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGGGTATTTCG
* *
43115864 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAAGGGTATTTCG
* * *
43115891 ATAATTTTACAAAC-CAGTGGTATTTTG
1 GTAATTTTACAAACTAAG-GGTATTTCG
*
43115918 GTAATTTTACAAAGC--AGGGTATTTTG
1 GTAATTTTACAAA-CTAAGGGTATTTCG
43115944 GTAATTTT
1 GTAATTTT
43115952 GTAAACCAAA
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
26 19 0.16
27 100 0.83
28 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGGGTATTTCG
Found at i:43115886 original size:81 final size:80
Alignment explanation
Indices: 43115801--43115951 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 80
43115791 ACAAGTCGAA
* * *
43115801 GGTATTTCGGTAAATTTACAAATCGAG-GGTATTTCAGTATTTTTACAAA-CTAAGGGTATTTCG
1 GGTATTTCGATAAATTTACAAA-CCAGTGGTATTTCAGTAATTTTACAAAGC--AGGGTATTTCG
43115864 GTAATTTTACAAACTAGG
63 GTAATTTTACAAACTAGG
* * ** *
43115882 GGTATTTTGATAATTTTACAAACCAGTGGTATTTTGGTAATTTTACAAAGCAGGGTATTTTGGTA
1 GGTATTTCGATAAATTTACAAACCAGTGGTATTTCAGTAATTTTACAAAGCAGGGTATTTCGGTA
43115947 ATTTT
66 ATTTT
43115952 GTAAACCAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
80 21 0.35
81 38 0.63
82 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
GGTATTTCGATAAATTTACAAACCAGTGGTATTTCAGTAATTTTACAAAGCAGGGTATTTCGGTA
ATTTTACAAACTAGG
Found at i:43115965 original size:26 final size:26
Alignment explanation
Indices: 43115774--43115968 Score: 147
Period size: 27 Copynumber: 7.3 Consensus size: 26
43115764 GTAAATCAAG
* * * *
43115774 GGTACTTTAGTAATTTTACAAGTCGAA
1 GGTATTTTGGTAATTTTACAA-ACCAA
* * * *
43115801 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTTGGTAATTTTACAAA-CCAA
** * *
43115828 GGTATTTCAGTATTTTTACAAACTAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
43115854 GGGTATTTCGGTAATTTTACAAACTAGG
1 -GGTATTTTGGTAATTTTACAAACCA-A
* *
43115882 GGTATTTTGATAATTTTACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
43115909 GGTATTTTGGTAATTTTACAAAGCAG
1 GGTATTTTGGTAATTTTACAAACCAA
**
43115935 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
43115961 AGTATTTT
1 GGTATTTT
43115969 AAACAGGGAT
Statistics
Matches: 139, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
26 31 0.22
27 108 0.78
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:43121360 original size:40 final size:39
Alignment explanation
Indices: 43121277--43121428 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
43121267 TCGAATGATG
* * * * *
43121277 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* * *
43121317 TCCGGACTAGGATCCAAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
43121357 TCCGGGCTAAG-CTCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTC-CGAAGGCATTCGTGCGAGTTAATAAA
* *
43121396 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
43121429 CACTATAATC
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
39 31 0.35
40 49 0.55
41 8 0.09
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:43121377 original size:39 final size:40
Alignment explanation
Indices: 43121333--43121428 Score: 131
Period size: 39 Copynumber: 2.4 Consensus size: 40
43121323 CTAGGATCCA
* *
43121333 AAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-CTCG
1 AAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTCCCG
* * * *
43121372 AAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTCCCG
43121412 AAGGCATTCGTGCGAGT
1 AAGGCATTCGTGCGAGT
43121429 CACTATAATC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 30 0.62
40 18 0.38
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
AAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTCCCG
Found at i:43121450 original size:40 final size:39
Alignment explanation
Indices: 43121333--43121469 Score: 116
Period size: 40 Copynumber: 3.5 Consensus size: 39
43121323 CTAGGATCCA
* * * *
43121333 AAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-CTCG
1 AAGGCATTCGTGCGAGTCACTAAAT-CGGGCTTAGTCCCG
* * * *
43121372 AAGGCATTTGTGCAAGTTACTAAACCCGGG-TTAAGTCCCG
1 AAGGCATTCGTGCGAGTCACTAAA-TCGGGCTT-AGTCCCG
*
43121412 AAGGCATTCGTGCGAGTCACTATAATCGGGCTTCGTCCCG
1 AAGGCATTCGTGCGAGTCACTA-AATCGGGCTTAGTCCCG
* * *
43121452 AGGGCATTTGAGCGAGTC
1 AAGGCATTCGTGCGAGTC
43121470 GTTATATCCG
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 27 0.34
40 47 0.59
41 4 0.05
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
AAGGCATTCGTGCGAGTCACTAAATCGGGCTTAGTCCCG
Found at i:43122949 original size:43 final size:43
Alignment explanation
Indices: 43122853--43123000 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
43122843 TACCAAGATG
* * *
43122853 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATGG
1 TGATTACATGTAAGACCATGTCTGAGACATTGGCATCGTATGA
43122896 TGATTACATGTAAGACCATGTCTGAGACATTGGCATCGTTAT-A
1 TGATTACATGTAAGACCATGTCTGAGACATTGGCATCG-TATGA
* * * * * * * * *
43122939 TGGTTTCATGTAAGTCCCTCTTTGGGGCAGTGGCATCGATATG-
1 TGATTACATGTAAGACCATGTCTGAGACATTGGCATCG-TATGA
*
43122982 TGATAACATGTAAGACCAT
1 TGATTACATGTAAGACCAT
43123001 ATCCGGGATA
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
43 82 0.96
44 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGAGACATTGGCATCGTATGA
Found at i:43124047 original size:36 final size:36
Alignment explanation
Indices: 43124000--43124072 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
43123990 CGTGTGGCTC
* *
43124000 GACCGTGTGTGACGCATGGCCTTGGTATACGGCTGT
1 GACCGTGTGTGACACATCGCCTTGGTATACGGCTGT
43124036 GACCGTGTGTGACACATCGCCTTGGTATACGGCTGT
1 GACCGTGTGTGACACATCGCCTTGGTATACGGCTGT
43124072 G
1 G
43124073 TGTCCCCTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.27
Consensus pattern (36 bp):
GACCGTGTGTGACACATCGCCTTGGTATACGGCTGT
Found at i:43127428 original size:28 final size:29
Alignment explanation
Indices: 43127397--43127456 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
43127387 TAAATGATTT
43127397 TTGACAAAAATGTCAA-TT-AGGGATTAAA
1 TTGACAAAAATGT-AATTTGAGGGATTAAA
* * *
43127425 TTGAGAAAAGTGTAATTTGAGGGGTTAAA
1 TTGACAAAAATGTAATTTGAGGGATTAAA
43127454 TTG
1 TTG
43127457 TGAAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.07
28 13 0.48
29 12 0.44
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (29 bp):
TTGACAAAAATGTAATTTGAGGGATTAAA
Found at i:43130283 original size:17 final size:18
Alignment explanation
Indices: 43130241--43130289 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43130231 AGTTGAAAAG
43130241 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43130260 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43130277 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43130290 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43131178 original size:40 final size:40
Alignment explanation
Indices: 43131112--43131278 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43131102 AAATTGAATG
* * *
43131112 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
43131151 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43131191 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43131231 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43131271 ATATCCGG
1 ATATCCGG
43131279 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43132777 original size:27 final size:28
Alignment explanation
Indices: 43132739--43132791 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
43132729 AGTGTAAACA
*
43132739 CAATTTGGGCCTAAGCCC-TTTCAGTCT
1 CAATTAGGGCCTAAGCCCATTTCAGTCT
*
43132766 CAATTAGGGCCTTAGCCCATTTCAGT
1 CAATTAGGGCCTAAGCCCATTTCAGT
43132792 AACAGTAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (28 bp):
CAATTAGGGCCTAAGCCCATTTCAGTCT
Found at i:43132850 original size:33 final size:34
Alignment explanation
Indices: 43132772--43132853 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
43132762 GTCTCAATTA
* *
43132772 GGGCCTTAGCCCATTTCAGTAACAGTAGCAGTCT
1 GGGCCTAAGCCCATTTCAGTAACAGTAGCAGTCG
* * * *
43132806 GGGCCTGAGCCCATTTTAGTAATAGTATCAGT-G
1 GGGCCTAAGCCCATTTCAGTAACAGTAGCAGTCG
43132839 GGGCCTAAGCCCATT
1 GGGCCTAAGCCCATT
43132854 ACTGTATGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 14 0.33
34 28 0.67
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGTAACAGTAGCAGTCG
Found at i:43135016 original size:27 final size:27
Alignment explanation
Indices: 43134986--43135047 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
43134976 ATTTACTAAA
43134986 ATACCCCTAAGTATG-AAAATTACAATT
1 ATACCCCTAAG-ATGCAAAATTACAATT
* * *
43135013 ATACGCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACAATT
43135039 ATACCCCTA
1 ATACCCCTA
43135048 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACAATT
Found at i:43135224 original size:28 final size:28
Alignment explanation
Indices: 43135153--43135258 Score: 146
Period size: 27 Copynumber: 3.9 Consensus size: 28
43135143 GAGGAAGCGT
*
43135153 TCTGGTGGCTCTGCCACAAATATTTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
43135180 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
43135208 TCTGGTGGCTCTACCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
43135235 TCTGGTGACTCTGTCAC-AATATCT
1 TCTGGTGGCTCTGCCACAAATATCT
43135259 ATTCTGGCAA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
27 55 0.77
28 16 0.23
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:43135238 original size:55 final size:54
Alignment explanation
Indices: 43135152--43135258 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 54
43135142 GGAGGAAGCG
* * *
43135152 TTCTGGTGGCTCTGCCACAAATATTTGATCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTACCACAAATATCTGATCTGGTGACTCTGCCAC-AATATCTGT
*
43135207 TTCTGGTGGCTCTACCAC-AATATCTGTATCTGGTGACTCTGTCACAATATCT
1 TTCTGGTGGCTCTACCACAAATATCTG-ATCTGGTGACTCTGCCACAATATCT
43135259 ATTCTGGCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
54 14 0.30
55 33 0.70
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (54 bp):
TTCTGGTGGCTCTACCACAAATATCTGATCTGGTGACTCTGCCACAATATCTGT
Found at i:43139854 original size:25 final size:25
Alignment explanation
Indices: 43139820--43139870 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
43139810 GTTTTCAAAG
43139820 ATAGATCTGAGATCGGGTTACTATC
1 ATAGATCTGAGATCGGGTTACTATC
*
43139845 ATAGATCTGAGATTGGGTTACTATC
1 ATAGATCTGAGATCGGGTTACTATC
43139870 A
1 A
43139871 GTTGCGAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (25 bp):
ATAGATCTGAGATCGGGTTACTATC
Found at i:43143728 original size:27 final size:28
Alignment explanation
Indices: 43143671--43143740 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
43143661 AAATTTGTAC
**
43143671 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
43143699 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
43143726 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43143741 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:43143749 original size:27 final size:27
Alignment explanation
Indices: 43143671--43143752 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
43143661 AAATTTGTAC
* *
43143671 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
43143699 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
43143726 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
43143753 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:43151645 original size:27 final size:28
Alignment explanation
Indices: 43151588--43151657 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
43151578 AAATTTGTAC
**
43151588 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
43151616 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
43151643 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43151658 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:43151666 original size:27 final size:27
Alignment explanation
Indices: 43151588--43151669 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
43151578 AAATTTGTAC
* *
43151588 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
43151616 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
43151643 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
43151670 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:43154739 original size:27 final size:28
Alignment explanation
Indices: 43154682--43154751 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
43154672 AAATTTGTAC
**
43154682 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
43154710 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
43154737 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43154752 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:43154760 original size:27 final size:27
Alignment explanation
Indices: 43154682--43154763 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
43154672 AAATTTGTAC
* *
43154682 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
43154710 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
43154737 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
43154764 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:43162662 original size:27 final size:28
Alignment explanation
Indices: 43162605--43162674 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
43162595 AAATTTGTAC
**
43162605 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
43162633 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
43162660 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43162675 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:43162683 original size:27 final size:27
Alignment explanation
Indices: 43162605--43162686 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
43162595 AAATTTGTAC
* *
43162605 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
43162633 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
43162660 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
43162687 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:43164818 original size:56 final size:56
Alignment explanation
Indices: 43164726--43164833 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
43164716 AAAAAAAAAA
43164726 AAAAGAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGGAAAG
1 AAAAGAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGGAAAG
** ***
43164782 AAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAAGAAAAAAATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
43164834 GAAAAGGGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
55 2 0.04
56 40 0.89
57 3 0.07
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (56 bp):
AAAAGAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGGAAAG
Found at i:43165282 original size:40 final size:40
Alignment explanation
Indices: 43165216--43165382 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
43165206 AAATTGAATG
* * *
43165216 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
43165255 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43165295 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43165335 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43165375 ATATCCGG
1 ATATCCGG
43165383 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43172483 original size:40 final size:40
Alignment explanation
Indices: 43172417--43172583 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
43172407 AAATTGAATG
* * *
43172417 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
43172456 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43172496 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43172536 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43172576 ATATCCGG
1 ATATCCGG
43172584 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43175337 original size:42 final size:43
Alignment explanation
Indices: 43175223--43175361 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 43
43175213 TAAAATATCG
* * * * *
43175223 TGTAAGACCATGTCTGGTACACAGGCCTCGAT-TTGAGATTTACA
1 TGTAAGACCATGTCTGGGACAGAAGCATTGATATT-AGATTT-CA
*
43175267 TGTAAGACCATGTCTGGGACATAAGCATTG-TATCT-GATTTCA
1 TGTAAGACCATGTCTGGGACAGAAGCATTGATAT-TAGATTTCA
* * * * *
43175309 TGTAAGACCCTGTCTGGGATAGAGGCATTGATATTAAATTACA
1 TGTAAGACCATGTCTGGGACAGAAGCATTGATATTAGATTTCA
43175352 TGTAAGACCA
1 TGTAAGACCA
43175362 CATCCGAGAT
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
42 29 0.37
43 23 0.29
44 26 0.33
45 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAAGCATTGATATTAGATTTCA
Found at i:43176616 original size:13 final size:13
Alignment explanation
Indices: 43176598--43176625 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43176588 GTCACCGAAT
43176598 TAGGGTTACGAGG
1 TAGGGTTACGAGG
43176611 TAGGGTTACGAGG
1 TAGGGTTACGAGG
43176624 TA
1 TA
43176626 TCACTGTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.43, T:0.25
Consensus pattern (13 bp):
TAGGGTTACGAGG
Found at i:43178278 original size:40 final size:40
Alignment explanation
Indices: 43178178--43178378 Score: 266
Period size: 40 Copynumber: 5.1 Consensus size: 40
43178168 CGGAATTTAG
* * *
43178178 CCGGATATAACCACAAGCACAATTGCCTTC-GGTCTTAAC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
43178217 CCGG-TATAGCAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
*
43178256 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
* *
43178296 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
* *
43178336 CCGGATATAATC-ACTAGCATAAATGCCTTCGGG-CTTAGC
1 CCGGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAAC
43178375 CCGG
1 CCGG
43178379 GTATCATTCA
Statistics
Matches: 145, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 20 0.14
39 25 0.17
40 99 0.68
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:43186330 original size:40 final size:40
Alignment explanation
Indices: 43186285--43186471 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
43186275 ATAACCACAA
* *
43186285 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
43186325 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
43186365 GCACAAATGCCTTCGGGTCTTAACCCGGATATGGCAACAC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
43186405 TCACAAATGCCTTCGGGTCTTAACCC-G-TATAGAATCACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCA--ACTC
* * *
43186445 GCATAAATGCCTTCGGGGCTTAGCCCG
1 GCACAAATGCCTTCGGGTCTTAACCCG
43186472 AGTATCATTC
Statistics
Matches: 127, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
38 5 0.04
39 1 0.01
40 121 0.95
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:43186369 original size:80 final size:79
Alignment explanation
Indices: 43186265--43186476 Score: 264
Period size: 80 Copynumber: 2.7 Consensus size: 79
43186255 TCTTCGGAAT
* * *
43186265 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACACGCAC
43186329 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * * *
43186344 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATGGCAACACTCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACACGCAC
43186409 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * * * * * *
43186424 TTAACCCGTATAGAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGAGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
43186477 CATTCAATTG
Statistics
Matches: 114, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 5 0.04
80 108 0.95
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACACGCACA
AATGCCTTCGGGTC
Found at i:43187640 original size:21 final size:20
Alignment explanation
Indices: 43187607--43187663 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 20
43187597 TAGATGCATG
43187607 AACCT-AAACATGCATCTTC
1 AACCTAAAACATGCATCTTC
43187626 AACCTAAATACATGCATCTTC
1 AACCTAAA-ACATGCATCTTC
43187647 AACCTAAAAACATGCAT
1 AACCT-AAAACATGCAT
43187664 GAACCTCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 25 0.71
22 3 0.09
ACGTcount: A:0.42, C:0.28, G:0.05, T:0.25
Consensus pattern (20 bp):
AACCTAAAACATGCATCTTC
Found at i:43190210 original size:43 final size:43
Alignment explanation
Indices: 43190129--43190213 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
43190119 AAATCATACA
* **
43190129 ATGCCAACGTCCCAGACATGGTCTTACATGTAGTCACATATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACATGTAAACACATATCG
*
43190172 ATGCC-ACTGTCCCAGATAGGGTCTTAC-TCGTAAACACATATC
1 ATGCCAAC-GTCCCAGACAGGGTCTTACAT-GTAAACACATATC
43190214 AGAATCACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACATGTAAACACATATCG
Found at i:43190254 original size:56 final size:56
Alignment explanation
Indices: 43190194--43190345 Score: 198
Period size: 56 Copynumber: 2.7 Consensus size: 56
43190184 CAGATAGGGT
* * * * *
43190194 CTTACTCGTAAACACATATCAGAATCACATATCGATGCCAACGTATGAAATGTGGA
1 CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACCTATGAAACGTGGA
* * *
43190250 CTTACTCGCACACATATATCGGAATCACATATCGATGCCAACCTATTAAACGTGGT
1 CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACCTATGAAACGTGGA
* *
43190306 CTTACTCGCCCACATATATCA-AAGTCACATATTGATGCCA
1 CTTACTCGCACACATATATCAGAA-TCACATATCGATGCCA
43190346 CATATTCTTC
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
55 2 0.02
56 82 0.98
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (56 bp):
CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACCTATGAAACGTGGA
Found at i:43191393 original size:17 final size:17
Alignment explanation
Indices: 43191371--43191414 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
43191361 CATGGCTTAT
* *
43191371 TATTATTTTATGATATA
1 TATTATTTTATAACATA
*
43191388 TATTATATTATAACATA
1 TATTATTTTATAACATA
*
43191405 TATTAATTTA
1 TATTATTTTA
43191415 ATGTTTAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TATTATTTTATAACATA
Found at i:43192191 original size:45 final size:45
Alignment explanation
Indices: 43192129--43192218 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
43192119 CATCAATATC
43192129 ATCATTACTTTCTAGATTTCTATCTCTTCCAATTGACCATTTCAT
1 ATCATTACTTTCTAGATTTCTATCTCTTCCAATTGACCATTTCAT
*
43192174 ATCATTACTTTCTAGATTTCTCTCTCTTCCAATTGACCATTTCAT
1 ATCATTACTTTCTAGATTTCTATCTCTTCCAATTGACCATTTCAT
43192219 CCTTTGTGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.23, C:0.26, G:0.04, T:0.47
Consensus pattern (45 bp):
ATCATTACTTTCTAGATTTCTATCTCTTCCAATTGACCATTTCAT
Found at i:43192398 original size:30 final size:30
Alignment explanation
Indices: 43192362--43192419 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
43192352 CACCCTTAAA
* *
43192362 ATATTTACACTATT-GTCCTTCAACTTTTTC
1 ATATTTACACT-TTAGCCCTTCAAATTTTTC
43192392 ATATTTACACTTTAGCCCTTCAAATTTT
1 ATATTTACACTTTAGCCCTTCAAATTTT
43192420 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.26, C:0.22, G:0.03, T:0.48
Consensus pattern (30 bp):
ATATTTACACTTTAGCCCTTCAAATTTTTC
Found at i:43192427 original size:30 final size:30
Alignment explanation
Indices: 43192362--43192429 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
43192352 CACCCTTAAA
* *
43192362 ATATTTACACTATTGTCCTTCAACTTTTTC
1 ATATTTACACTATTGCCCTTCAACATTTTC
*
43192392 ATATTTACACT-TTAGCCCTTCAA-ATTTTG
1 ATATTTACACTATT-GCCCTTCAACATTTTC
43192421 AGTATTTAC
1 A-TATTTAC
43192430 TCTTGTGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTGCCCTTCAACATTTTC
Found at i:43193105 original size:2 final size:2
Alignment explanation
Indices: 43193100--43193141 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
43193090 TATATATATA
*
43193100 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
43193142 ATTCTATTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:43196165 original size:27 final size:28
Alignment explanation
Indices: 43196129--43196229 Score: 125
Period size: 27 Copynumber: 3.7 Consensus size: 28
43196119 CGTCACAATA
* *
43196129 TTGTGACAGAGTCACCAGATACAGATA-
1 TTGTGGCAGAGCCACCAGATACAGATAT
* * * * *
43196156 TTGTGGCAGAGACAGCAGAAATAAATAT
1 TTGTGGCAGAGCCACCAGATACAGATAT
43196184 TTGTGGCAGAGCCACCAGAT-CAGATAT
1 TTGTGGCAGAGCCACCAGATACAGATAT
43196211 TTGTGGCAGAGCCACCAGA
1 TTGTGGCAGAGCCACCAGA
43196230 ACGTTTCCTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
27 45 0.73
28 17 0.27
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (28 bp):
TTGTGGCAGAGCCACCAGATACAGATAT
Found at i:43196215 original size:55 final size:54
Alignment explanation
Indices: 43196125--43196230 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 54
43196115 TACACGTCAC
* *
43196125 AATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGACAGCAGAAATA
1 AATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGACACCAGAAATA
* *
43196179 AATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCACCAGAA
1 AATA-TTGTGACAGAGCCACCAGATACAGATA-TTGTGGCAGAGACACCAGAA
43196231 CGTTTCCTCC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
54 10 0.22
55 36 0.78
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGACACCAGAAATA
Found at i:43198165 original size:40 final size:40
Alignment explanation
Indices: 43198131--43198314 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
43198121 AGCCCAGTTA
* * * *
43198131 TAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGTTT
* *
43198171 TAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGTTT
1 TAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGTTT
* *
43198211 TGGTAACTCG--CAAATGCCTTCGGGACTTAACCCGGTTT
1 TAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGTTT
* * *
43198249 TGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGTTT
* * *
43198289 TAGTCACTTAGCACAAAAGCCTTCGG
1 TAGTAAC-TCGCACAAATGCCTTCGG
43198315 ACTTAGCCCG
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
38 38 0.30
40 72 0.57
41 16 0.13
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGTTT
Found at i:43198255 original size:78 final size:80
Alignment explanation
Indices: 43198110--43198285 Score: 221
Period size: 78 Copynumber: 2.2 Consensus size: 80
43198100 GCTCGATTGT
* * * * *
43198110 CTTCGGGACATAGCCCAGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAATTAACCCGGATTTAGT
43198175 AACTCACACAAATGC
66 AACTCACACAAATGC
* * * * *
43198190 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCA-AA-TGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAATTAACCCGGATTTAGT
*
43198253 AACTCGCACAAATGC
66 AACTCACACAAATGC
* *
43198268 CTTCGGGAATTGACCCGG
1 CTTCGGGACTTAACCCGG
43198286 ATTTAGTCAC
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 54 0.65
79 2 0.02
80 27 0.33
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (80 bp):
CTTCGGGACTTAACCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAATTAACCCGGATTTAGT
AACTCACACAAATGC
Found at i:43198285 original size:118 final size:118
Alignment explanation
Indices: 43198110--43198325 Score: 301
Period size: 118 Copynumber: 1.8 Consensus size: 118
43198100 GCTCGATTGT
* * *
43198110 CTTCGGGACATAGCCCAGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACATAACCCAGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGT
*
43198175 AACTCA-CACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCAAATGC
66 AACTCAGCACAAAAGCCTTC-GGACTTAACCCGGTTTTGGTAACTCGCAAATGC
* * * *
43198228 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATT-GACCCGGATTTAG
1 CTTCGGGACATAACCCAGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAG-CCCGGATTTAG
* * *
43198292 TCACTTAGCACAAAAGCCTTCGGACTTAGCCCGG
65 TAACTCAGCACAAAAGCCTTCGGACTTAACCCGG
43198326 ACATCATTCG
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
117 1 0.01
118 72 0.85
119 12 0.14
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (118 bp):
CTTCGGGACATAACCCAGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGT
AACTCAGCACAAAAGCCTTCGGACTTAACCCGGTTTTGGTAACTCGCAAATGC
Found at i:43204939 original size:40 final size:39
Alignment explanation
Indices: 43204884--43205102 Score: 217
Period size: 40 Copynumber: 5.5 Consensus size: 39
43204874 GCTCGATTGT
* *
43204884 CTTCGGGACA-TAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGTT-TAGTAACTCGCACAAATGC
*
43204924 CTTCGGGAATTAGCCCGGATTTAGTAACTCGTACAAATGC
1 CTTCGGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
43204964 CTTCGGGACTTAACCCGGTTTTGGTAACTCCCACAAATGC
1 CTTCGGGAATTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
43205004 CTTCGGGACTTAACCCAGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCC-GGTTTAGTAACTCGCACAAATGC
* * *
43205044 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
43205085 CTTCGGGACTTAGCCCGG
1 CTTCGGGAATTAGCCCGG
43205103 ACATCATTCG
Statistics
Matches: 153, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.01
40 122 0.80
41 28 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CTTCGGGAATTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:43204982 original size:80 final size:79
Alignment explanation
Indices: 43204884--43205103 Score: 251
Period size: 80 Copynumber: 2.7 Consensus size: 79
43204874 GCTCGATTGT
* * * *
43204884 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
*
43204949 AACTCGTACAAATGC
65 AACTCGCACAAATGC
* * * * * * *
43204964 CTTCGGGACTTAACCCGGTTTTGGTAACTCCCACAAATGCCTTCGGGACTTAACCCAGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
43205029 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
43205044 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
43205104 CATCATTCGA
Statistics
Matches: 114, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
80 86 0.75
81 28 0.25
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:43205061 original size:120 final size:121
Alignment explanation
Indices: 43204884--43205102 Score: 307
Period size: 120 Copynumber: 1.8 Consensus size: 121
43204874 GCTCGATTGT
* * * *
43204884 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACATAACCCAGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGT
* * *
43204949 AAC-TCGTACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCCCACAAATGC
66 AACTTAGCACAAAAGCCTTCGGGACTTAACCCGGTTTTGGTAACTCCCACAAATGC
* * *
43205004 CTTCGGGACTTAACCCAGTTTTGGTAACTCGCACAAATGCCTTCGGGAATT-GACCCGGATTTAG
1 CTTCGGGACATAACCCAGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAG-CCCGGATTTAG
* *
43205068 TCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
65 TAACTTAGCACAAAAGCCTTCGGGACTTAACCCGG
43205103 ACATCATTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
119 1 0.01
120 58 0.68
121 26 0.31
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (121 bp):
CTTCGGGACATAACCCAGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGT
AACTTAGCACAAAAGCCTTCGGGACTTAACCCGGTTTTGGTAACTCCCACAAATGC
Found at i:43207618 original size:18 final size:17
Alignment explanation
Indices: 43207567--43207621 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
43207557 ATTCGGCTAT
43207567 AGAG-GAAAAGAAGAAG
1 AGAGAGAAAAGAAGAAG
*
43207583 A-AGAGACAATAGATGAAG
1 AGAGAGA-AA-AGAAGAAG
43207601 AGAGGAGAAAAGAAGAAG
1 AGA-GAGAAAAGAAGAAG
43207619 AGA
1 AGA
43207622 AAAGAATGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 2 0.06
16 3 0.09
17 2 0.06
18 18 0.56
19 3 0.09
20 4 0.12
ACGTcount: A:0.60, C:0.02, G:0.35, T:0.04
Consensus pattern (17 bp):
AGAGAGAAAAGAAGAAG
Found at i:43207627 original size:18 final size:18
Alignment explanation
Indices: 43207571--43207627 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
43207561 GGCTATAGAG
43207571 GAAAAGAAG-A-AGAAGA
1 GAAAAGAAGAAGAGAAGA
* *
43207587 GACAATAGATGAAGAGAGGA
1 GA-AA-AGAAGAAGAGAAGA
*
43207607 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAAGA
43207625 GAA
1 GAA
43207628 TGTCAGAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 18 0.56
19 3 0.09
20 7 0.22
ACGTcount: A:0.63, C:0.02, G:0.32, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAAGA
Found at i:43208637 original size:13 final size:13
Alignment explanation
Indices: 43208619--43208646 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
43208609 TAAACCTACA
43208619 AAATAATAATAAT
1 AAATAATAATAAT
43208632 AAATAATAATAAT
1 AAATAATAATAAT
43208645 AA
1 AA
43208647 CAATAACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:43213936 original size:29 final size:29
Alignment explanation
Indices: 43213894--43214126 Score: 142
Period size: 29 Copynumber: 8.1 Consensus size: 29
43213884 TATGCTAAAT
*
43213894 GATGGTC-ATAACCATTCCTTTTCATATTC
1 GATGGTCGA-AACCATCCCTTTTCATATTC
43213923 GATGGTCGAAACCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
**
43213952 GATGGTCGTCACCATCCCTTTTCATAGTT-
1 GATGGTCGAAACCATCCCTTTTCATA-TTC
* * * *
43213981 TATAGTC-ATCACCATCCCTTTTCATAATC
1 GATGGTCGA-AACCATCCCTTTTCATATTC
* * * * * * *
43214010 GATAGCCGAAGCTAT-CCGTTACATAATC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* * *
43214038 GATAG-CAAAAGCTATCCCTTTTCATATTC
1 GATGGTCGAAA-CCATCCCTTTTCATATTC
*
43214067 GATGGTC-ATCACCA-CCCTTTTCATAGTT-
1 GATGGTCGA-AACCATCCCTTTTCATA-TTC
* * * *
43214095 AATGGTCGTCAA-CATCCCTTTTAATAATC
1 GATGGTCG-AAACCATCCCTTTTCATATTC
43214124 GAT
1 GAT
43214127 AGCCCAAGCT
Statistics
Matches: 162, Mismatches: 28, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
27 3 0.02
28 41 0.25
29 112 0.69
30 6 0.04
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATATTC
Found at i:43214089 original size:28 final size:29
Alignment explanation
Indices: 43214051--43214126 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
43214041 AGCAAAAGCT
*
43214051 ATCCCTTTTCATATTCGATGGTCATCACC
1 ATCCCTTTTCATATTCGATGGTCATCAAC
* *
43214080 A-CCCTTTTCATAGTT-AATGGTCGTCAAC
1 ATCCCTTTTCATA-TTCGATGGTCATCAAC
* *
43214108 ATCCCTTTTAATAATCGAT
1 ATCCCTTTTCATATTCGAT
43214127 AGCCCAAGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATGGTCATCAAC
Found at i:43228448 original size:42 final size:42
Alignment explanation
Indices: 43228368--43228448 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
43228358 AATTAAGAAG
* * * *
43228368 TCCGAACTCATTGAGTGGTCTGGGTTCGTGATATATGTGGCA
1 TCCGAACTCATTGAGTGGTCTGAGTTCATAATAGATGTGGCA
* * *
43228410 TCCGAGCTCGTTGAGTGGTCTGAGTTCATAATGGATGTG
1 TCCGAACTCATTGAGTGGTCTGAGTTCATAATAGATGTG
43228449 ATGCATGTGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.33
Consensus pattern (42 bp):
TCCGAACTCATTGAGTGGTCTGAGTTCATAATAGATGTGGCA
Found at i:43234408 original size:19 final size:19
Alignment explanation
Indices: 43234377--43234413 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
43234367 GATTAAATGA
43234377 AAAAAGTTTTAGCTTGGAC
1 AAAAAGTTTTAGCTTGGAC
43234396 AAAAA-TTTATAGCTTGGA
1 AAAAAGTTT-TAGCTTGGA
43234414 AATGTATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (19 bp):
AAAAAGTTTTAGCTTGGAC
Found at i:43237993 original size:93 final size:93
Alignment explanation
Indices: 43237881--43238052 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43237871 GCCCATAAGT
* *
43237881 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43237946 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43237974 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43238039 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43238053 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43238048 original size:46 final size:46
Alignment explanation
Indices: 43237873--43238048 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43237863 TGTAACCCGC
* * *
43237873 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43237919 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43237969 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43238012 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43238049 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43244215 original size:19 final size:21
Alignment explanation
Indices: 43244169--43244215 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
43244159 TGTAATTATA
*
43244169 TGAATATATGAGTTGTGATGT
1 TGAATATATGAGTTGTGATGG
* *
43244190 TGGATATATGA-TTGT-CTGG
1 TGAATATATGAGTTGTGATGG
43244209 TGAATAT
1 TGAATAT
43244216 TGTGATTTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.43
Consensus pattern (21 bp):
TGAATATATGAGTTGTGATGG
Found at i:43256631 original size:16 final size:18
Alignment explanation
Indices: 43256610--43256642 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
43256600 CATACAAGAT
43256610 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
43256626 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
43256643 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:43257215 original size:42 final size:43
Alignment explanation
Indices: 43257128--43257377 Score: 247
Period size: 45 Copynumber: 5.7 Consensus size: 43
43257118 TTTTATCAAA
* * * * *
43257128 TCACTGGCATT-TAGCCTGCTAGGTTTAAAAACCCGA-ATTCAT-
1 TCACCGGCATTATAGCCTGCTAGG-CTCAAAGCCCGATAGT-ATC
* * * * *
43257170 TCACTGGCATT-TTGCCTGCTAGGCTCGAAGCCCGATATTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGATAGTATC
* * *
43257212 TCACCGGTATTATAGCCCGCTAGGCTCGAAAGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCC-GATAGTATC
43257257 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCG-ATAGTATC
* *
43257302 TCACCGGCATTATAGCCTGCTAGGCTCAATGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAA-AGCCC-GATAGTATC
* *
43257347 TCACCGGCATTATAGCCTACTAAGCTCAAAG
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAG
43257378 GCCGGAATAG
Statistics
Matches: 178, Mismatches: 21, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
41 10 0.06
42 34 0.19
43 13 0.07
44 10 0.06
45 111 0.62
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGATAGTATC
Found at i:43257387 original size:45 final size:45
Alignment explanation
Indices: 43257170--43257390 Score: 279
Period size: 45 Copynumber: 5.0 Consensus size: 45
43257160 CCGAATTCAT
* * * * * *
43257170 TCACTGGCATT-TTGCCTGCTAGGCTCGAA-GCCC-GATATTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
* *
43257212 TCACCGGTATTATAGCCCGCTAGGCTCGAAA-GCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCAAATAGTATC
*
43257257 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
*
43257302 TCACCGGCATTATAGCCTGCTAGGCTCAATGGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
* * **
43257347 TCACCGGCATTATAGCCTACTAAGCTCAAAGGCCGGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTAT
43257391 TGTGCGATAT
Statistics
Matches: 157, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
42 9 0.06
43 13 0.08
44 9 0.06
45 126 0.80
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
Found at i:43257390 original size:135 final size:129
Alignment explanation
Indices: 43257128--43257377 Score: 281
Period size: 135 Copynumber: 1.9 Consensus size: 129
43257118 TTTTATCAAA
* * * * *
43257128 TCACTGGCATTTAGCCTGCTAGGTTTAAAAACCCGAATTCATTCACTGGCATTTTGCCTGCTAGG
1 TCACCGGCATTTAGCCTGCTAGGCTCAAAAACCCGAATTCATTCACCGGCATTTAGCCTGCTAGG
* * * * * *
43257193 CTCGAAGCCCGATATTATTTCACCGGTATTATAGCCCGCTAGGCTCGAAAGCCCAAATAGTATC
66 CTCGAAGCCCAATAGTATCTCACCGGCATTATAGCCCACTAAGCTCGAAAGCCCAAATAGTATC
**
43257257 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATTATAGCCTG
1 TCACCGGCATT-TAGCCTGCTAGGCTCAAAAACCCGAAT--TCAT-TCACCGGCATT-TAGCCTG
*
43257321 CTAGGCTC-AATGGCCCAAATAGTATCTCACCGGCATTATAGCCTACTAAGCTC-AAAG
61 CTAGGCTCGAA--GCCC-AATAGTATCTCACCGGCATTATAGCCCACTAAGCTCGAAAG
43257378 GCCGGAATAG
Statistics
Matches: 99, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
129 10 0.10
130 23 0.23
131 2 0.02
132 13 0.13
133 14 0.14
134 8 0.08
135 29 0.29
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (129 bp):
TCACCGGCATTTAGCCTGCTAGGCTCAAAAACCCGAATTCATTCACCGGCATTTAGCCTGCTAGG
CTCGAAGCCCAATAGTATCTCACCGGCATTATAGCCCACTAAGCTCGAAAGCCCAAATAGTATC
Found at i:43257919 original size:2 final size:2
Alignment explanation
Indices: 43257912--43257943 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
43257902 TCATATTTTC
43257912 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43257944 CTTTACCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43258289 original size:47 final size:47
Alignment explanation
Indices: 43258191--43258331 Score: 232
Period size: 47 Copynumber: 3.0 Consensus size: 47
43258181 AAAATTTTCT
* * *
43258191 TTAACTAGGTAACTTATCCGGAAATAATAAG-GGAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
43258237 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
*
43258284 TTAACTAAGTAACTTATCCAGAAATATTAAGAGC-AATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
43258330 TT
1 TT
43258332 TAAATTCAAC
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
46 43 0.48
47 47 0.52
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:43265823 original size:40 final size:40
Alignment explanation
Indices: 43265722--43265906 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
43265712 TATTCGAATG
* * * *
43265722 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AGTGACT
* * * *
43265763 ATATCCGGACTAAGATCCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
43265803 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
*
43265843 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
*
43265882 CATATCCGGGCTAAGACCGGAAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
43265907 CTTGTGCGAG
Statistics
Matches: 120, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 93 0.77
41 26 0.22
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:43265866 original size:80 final size:81
Alignment explanation
Indices: 43265722--43265906 Score: 241
Period size: 80 Copynumber: 2.3 Consensus size: 81
43265712 TATTCGAATG
* * * *
43265722 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
*
43265787 ATTTATGCGAGTTA-C
66 ATTTATGCGAGTGATC
* * *
43265802 TATATCCGGGCCAAAACCCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAG-TCCCGAAG
1 -ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGAT-CCGAAG
*
43265865 GCATTTATGCTAGTGATC
64 GCATTTATGCGAGTGATC
*
43265883 ATATCCGGGCTAAGACCGGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
43265907 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 60 0.67
81 29 0.32
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGC
ATTTATGCGAGTGATC
Found at i:43273911 original size:40 final size:40
Alignment explanation
Indices: 43273851--43274034 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
43273841 TATTCGAATG
* *
43273851 ATATCCGGGCTAAG-TCCCGAAGGC-TTTTTGTTAAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCT-AGTGACT
* * *
43273891 ATATCCGGACTAAGATCCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* * * * *
43273931 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
43273971 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
43274010 CATATCCGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGATCCGAAGGC
43274035 CTTGTGCGAG
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 113 0.94
41 6 0.05
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:43273984 original size:80 final size:80
Alignment explanation
Indices: 43273851--43274041 Score: 244
Period size: 80 Copynumber: 2.4 Consensus size: 80
43273841 TATTCGAATG
* * * *
43273851 ATATCCGGGCTAAGTCCCGAAGGCTTTTTGTTAAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAAGCGACTATATCCGGACTAAG-TCCCGAAGGC
*
43273915 ATTTATGCGAGTTA-C
65 ATTTATGCGAGTGATC
* * *
43273930 TATATCCGGGCCAAAACCCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGG
1 -ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAAGCGACTATATCCGGACTAAGTCCCGAAGG
*
43273994 CATTTATGCTAGTGATC
64 CATTTATGCGAGTGATC
*
43274011 ATATCCGGGCTAAGACCCGAAGGCCTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGC
43274042 GAGTGGTTAT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
79 7 0.07
80 82 0.85
81 7 0.07
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGATC
Found at i:43281236 original size:78 final size:78
Alignment explanation
Indices: 43281134--43281333 Score: 303
Period size: 78 Copynumber: 2.5 Consensus size: 78
43281124 TCTTCGGAAT
* *
43281134 TTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTCGCACA
1 TTAGCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACA
43281198 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
*
43281212 TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACA
1 TTAGCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACA
43281277 AATGCCTTCGGGTC
65 AATGCCTTCGGGTC
* * *
43281291 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTA
1 TT-AGCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTA
43281334 GGGGTATCAT
Statistics
Matches: 111, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
77 1 0.01
78 43 0.39
79 32 0.29
80 34 0.31
81 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (78 bp):
TTAGCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAA
ATGCCTTCGGGTC
Found at i:43281271 original size:40 final size:40
Alignment explanation
Indices: 43281154--43281333 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
43281144 ATAACCACAA
*
43281154 GCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
43281193 GCACAAATGCCTTCGGGTCTT-AGCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
43281232 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
43281272 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* *
43281312 GCATAAATGCCTTCGGGGCTTA
1 GCACAAATGCCTTCGGGTCTTA
43281334 GGGGTATCAT
Statistics
Matches: 129, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
38 5 0.04
39 51 0.40
40 71 0.55
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:43285043 original size:27 final size:27
Alignment explanation
Indices: 43285005--43285117 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 27
43284995 TAAGTTGTAG
*
43285005 AATTACCGAAATACCCCTGTAGGATAA
1 AATTACCGAAATACCCCTGTAGGGTAA
*
43285032 AATTACCGAAATACCCTTGTAGGGTAGA
1 AATTACCGAAATACCCCTGTAGGGTA-A
*
43285060 AA-TATCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAA
* * * *
43285086 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAA
43285113 AATTA
1 AATTA
43285118 TAATTTTGCC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.04
27 69 0.92
28 3 0.04
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAA
Found at i:43285076 original size:54 final size:54
Alignment explanation
Indices: 43285001--43285115 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
43284991 TGGATAAGTT
*
43285001 GTAGAATTACCGAAATACCCCTGTAGGATAAAATTACCGAAATACCCTTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGGATAAAATTACCGAAATACCCTTGTAGG
* * * * *
43285055 GTAGAAATATCGAAATACCCCTGTAGGGTAAAATTACTGAGATACCCTTGTGGG
1 GTAGAAATACCGAAATACCCCTGTAGGATAAAATTACCGAAATACCCTTGTAGG
43285109 GTA-AAAT
1 GTAGAAAT
43285116 TATAATTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
53 4 0.07
54 51 0.93
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (54 bp):
GTAGAAATACCGAAATACCCCTGTAGGATAAAATTACCGAAATACCCTTGTAGG
Found at i:43285802 original size:27 final size:26
Alignment explanation
Indices: 43285758--43285808 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
43285748 TTCGCTGCGA
*
43285758 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
43285785 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
43285809 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:43289118 original size:27 final size:27
Alignment explanation
Indices: 43289088--43289141 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
43289078 TCCTTCAATC
43289088 CTACAACTGAAGAATAACAAGTCAACT
1 CTACAACTGAAGAATAACAAGTCAACT
43289115 CTACAACTGAAGAATAACAAGTCAACT
1 CTACAACTGAAGAATAACAAGTCAACT
43289142 ATGTGGGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.22, G:0.11, T:0.19
Consensus pattern (27 bp):
CTACAACTGAAGAATAACAAGTCAACT
Found at i:43300616 original size:20 final size:20
Alignment explanation
Indices: 43300587--43300631 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
43300577 AGCATATGTA
*
43300587 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAATTT
*
43300607 TTCATCAAATTTTACAATTT
1 TTCATAAAATTTTACAATTT
43300627 TTCAT
1 TTCAT
43300632 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTACAATTT
Found at i:43301086 original size:17 final size:17
Alignment explanation
Indices: 43301057--43301090 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
43301047 GACCTCTAGT
43301057 TTTGAATTCTATAGCTA
1 TTTGAATTCTATAGCTA
43301074 TTTG-ATTCTTATAGCTA
1 TTTGAATTC-TATAGCTA
43301091 CTAGAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (17 bp):
TTTGAATTCTATAGCTA
Found at i:43303451 original size:14 final size:16
Alignment explanation
Indices: 43303423--43303456 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
43303413 TGAAAATCGT
43303423 AAAAACAAAATTAAAG
1 AAAAACAAAATTAAAG
43303439 AAAAAC-AAA-TAAAG
1 AAAAACAAAATTAAAG
43303453 AAAA
1 AAAA
43303457 TAAAGACAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 3 0.17
16 6 0.33
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.09
Consensus pattern (16 bp):
AAAAACAAAATTAAAG
Found at i:43308631 original size:40 final size:40
Alignment explanation
Indices: 43308547--43308731 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
43308537 TCGAATGATG
* *
43308547 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
43308586 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
43308627 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
43308666 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
43308705 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
43308732 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:43308683 original size:79 final size:81
Alignment explanation
Indices: 43308547--43308729 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
43308537 TCGAATGATG
* *
43308547 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
43308611 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
43308626 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
43308688 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
43308706 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
43308730 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:43308753 original size:79 final size:78
Alignment explanation
Indices: 43308548--43308764 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
43308538 CGAATGATGT
* *
43308548 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
43308611 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
43308628 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
43308691 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
43308707 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
43308765 TACGTGATTC
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:43323806 original size:40 final size:40
Alignment explanation
Indices: 43323761--43323926 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
43323751 CGGAATATAA
43323761 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
43323801 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
43323841 CCGGA-ATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43323880 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43323919 CCGGATAT
1 CCGGATAT
43323927 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 45 0.43
40 60 0.57
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43323883 original size:39 final size:39
Alignment explanation
Indices: 43323777--43323884 Score: 130
Period size: 39 Copynumber: 2.7 Consensus size: 39
43323767 ATAATCACGT
* *
43323777 GCACAAATGCCTTCGGGTCTTAGCCCGG-ATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAATAG-ACAACTA
*
43323817 GCACGAATGCCTTCGGGTCTTAGCCCGGAATAG-CCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAATAGACAACTA
*
43323856 GCACAATTGCCTTCGGGTCTTAACCCGGA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGA
43323885 TATAATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.03
39 28 0.46
40 27 0.44
41 4 0.07
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGAATAGACAACTA
Found at i:43326040 original size:40 final size:40
Alignment explanation
Indices: 43325950--43326153 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
43325940 TCGAATGATG
*
43325950 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* *
43325990 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
43326029 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
43326069 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
43326109 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
43326149 TCCGG
1 TCCGG
43326154 TTAAATTTCG
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
39 37 0.26
40 97 0.68
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:43326089 original size:79 final size:81
Alignment explanation
Indices: 43325950--43326132 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
43325940 TCGAATGATG
* *
43325950 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACTATATCCAGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTGACTAAATCCAGACTAAGATCCGAAGGCATT
43326014 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
43326029 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTGACTAAATCCAGACTAAGAT-CCGAAGGCA
43326091 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
43326109 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
43326133 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTGACTAAATCCAGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:43326156 original size:79 final size:80
Alignment explanation
Indices: 43325951--43326157 Score: 239
Period size: 79 Copynumber: 2.6 Consensus size: 80
43325941 CGAATGATGT
**
43325951 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGT-GACTATATCCAGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCAGGTTAAGATCCGAAGGCATT
*
43326014 TGTGCGAGTTACTAATT
64 TGTGCGAGTTACTAATA
* * *
43326031 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCCAGGTTAAGAT-CCGAAGGCATT
43326093 TGTGCGAGTTACT-ATAA
64 TGTGCGAGTTACTAAT-A
* **
43326110 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCAGGTTAA
43326158 ATTTCGAAGG
Statistics
Matches: 109, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
78 3 0.03
79 65 0.60
80 41 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCAGGTTAAGATCCGAAGGCATTTG
TGCGAGTTACTAATA
Found at i:43330780 original size:6 final size:5
Alignment explanation
Indices: 43330751--43330811 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
43330741 CATGTCTTCA
* * *
43330751 AAAAT -AAAT AAAAT AAAAT AAAATT AAAAT TAAA- AAAAT AGTAAT AATAAA
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT A-AAAT AA-AAT
43330802 AAAAT AAAAT
1 AAAAT AAAAT
43330812 GACTCAAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
4 7 0.16
5 25 0.56
6 13 0.29
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:43333248 original size:47 final size:47
Alignment explanation
Indices: 43333178--43333350 Score: 274
Period size: 47 Copynumber: 3.7 Consensus size: 47
43333168 CCCTTCGGGA
* *
43333178 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* *
43333225 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
* * *
43333272 CTTATCACATGTATACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
43333319 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATCCATCA
43333351 ATTTCATCAT
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:43333325 original size:22 final size:22
Alignment explanation
Indices: 43333253--43333328 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
43333243 CTTCACATCC
*
43333253 ATCACATCGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
43333275 ATCACATGTATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
43333299 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
43333322 ATCACAT
1 ATCACAT
43333329 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:43341358 original size:30 final size:31
Alignment explanation
Indices: 43341322--43341396 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
43341312 TCCTCCTATA
43341322 TTATTTTTTTATTTTTTA-TTTATTCTGATT
1 TTATTTTTTTATTTTTTATTTTATTCTGATT
* * *
43341352 TTATTTTATT-TTATTTATTTTATTCTTATT
1 TTATTTTTTTATTTTTTATTTTATTCTGATT
* *
43341382 TT-TCTTTTGATTTTT
1 TTATTTTTTTATTTTT
43341397 ATCTTGCAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (31 bp):
TTATTTTTTTATTTTTTATTTTATTCTGATT
Found at i:43341359 original size:5 final size:5
Alignment explanation
Indices: 43341328--43341383 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 5
43341318 TATATTATTT
* *
43341328 TTTTA TTTTT TATTTA TTCTGA TTTTA TTTTA TTTTA -TTTA TTTTA TTCTTA
1 TTTTA TTTTA T-TTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA
43341380 TTTT
1 TTTT
43341384 TCTTTTGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
4 4 0.09
5 26 0.60
6 13 0.30
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:43341380 original size:25 final size:25
Alignment explanation
Indices: 43341335--43341383 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
43341325 TTTTTTTATT
43341335 TTTTATTTATTCTGATTTTATTTTA
1 TTTTATTTATTCTGATTTTATTTTA
*
43341360 TTTTATTTATT-TTATTCTTATTTT
1 TTTTATTTATTCTGATT-TTATTTT
43341384 TCTTTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (25 bp):
TTTTATTTATTCTGATTTTATTTTA
Found at i:43343407 original size:22 final size:22
Alignment explanation
Indices: 43343379--43343431 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
43343369 TTACACGACT
43343379 CACACGGCCTGGCCATTGAGCC
1 CACACGGCCTGGCCATTGAGCC
43343401 CACACGGCCTGGCCATTGAGCC
1 CACACGGCCTGGCCATTGAGCC
43343423 CACACGGCC
1 CACACGGCC
43343432 GTGACAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.19, C:0.43, G:0.26, T:0.11
Consensus pattern (22 bp):
CACACGGCCTGGCCATTGAGCC
Found at i:43344345 original size:13 final size:13
Alignment explanation
Indices: 43344329--43344361 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
43344319 TTTAATTGAA
*
43344329 TTAGTTAATTAGT
1 TTAGATAATTAGT
43344342 TTAGATAATTAGT
1 TTAGATAATTAGT
43344355 TTA-ATAA
1 TTAGATAA
43344362 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:43345536 original size:3 final size:3
Alignment explanation
Indices: 43345523--43345566 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
43345513 AATAGAGGAA
* * * *
43345523 AAT ACT AAT AAT AAT CAT AAT AAT AAT AAA AAT AAT AAC AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
43345567 CATAAATAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:43347394 original size:39 final size:39
Alignment explanation
Indices: 43347312--43347474 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
43347302 TATGGTAACC
* *
43347312 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
43347352 CGCACAATTGCCTTCGGGCTTAGCCCAGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
43347391 CGCACCATTGCCTTCGGGCATAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
43347430 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
43347469 CGCACA
1 CGCACA
43347475 TTCATACACA
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 93 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:43355464 original size:16 final size:16
Alignment explanation
Indices: 43355445--43355475 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43355435 CCACCTTCCA
43355445 ACTTTTCAGCCTTTCG
1 ACTTTTCAGCCTTTCG
*
43355461 ACTTTTTAGCCTTTC
1 ACTTTTCAGCCTTTC
43355476 CAATTTCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.29, G:0.10, T:0.48
Consensus pattern (16 bp):
ACTTTTCAGCCTTTCG
Found at i:43362495 original size:40 final size:40
Alignment explanation
Indices: 43362450--43362615 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
43362440 CGGAATATAA
43362450 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
43362490 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
43362530 CCGGATATAGCCACTAGCAC-ATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
43362569 CCGGATACAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43362608 CCGGATAT
1 CCGGATAT
43362616 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
39 43 0.41
40 61 0.59
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43363464 original size:17 final size:19
Alignment explanation
Indices: 43363441--43363486 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
43363431 AAGAAGCATG
43363441 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
43363459 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
43363477 AATCATGCTC
1 AATCATGCTC
43363487 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:43368458 original size:40 final size:40
Alignment explanation
Indices: 43368350--43368559 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
43368340 CGGGATTTAA
* * * * *
43368350 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
43368390 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43368430 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43368470 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43368510 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
43368550 CCGGATATAT
1 CCGGATATAT
43368560 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:43370610 original size:10 final size:10
Alignment explanation
Indices: 43370595--43370625 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
43370585 AGTCGAAGTC
43370595 TGGTACTCTT
1 TGGTACTCTT
43370605 TGGTACTCTT
1 TGGTACTCTT
43370615 TGGTACTCTT
1 TGGTACTCTT
43370625 T
1 T
43370626 AGTTGAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.10, C:0.19, G:0.19, T:0.52
Consensus pattern (10 bp):
TGGTACTCTT
Found at i:43377181 original size:39 final size:42
Alignment explanation
Indices: 43377123--43377215 Score: 131
Period size: 39 Copynumber: 2.3 Consensus size: 42
43377113 CCATGGTATN
* *
43377123 CCGAAGGCA-TTGTGCGAGTTACTA-A-ATCGGGTTAAGT-C
1 CCGAAGGCATTTGTGCGAGTTACTATATACCGGGCTAAGTCC
*
43377161 CCGAAGGCATTTGTGCGAGTTACTATATACCGGGCTATGTCC
1 CCGAAGGCATTTGTGCGAGTTACTATATACCGGGCTAAGTCC
43377203 CCGAAGGCATTTG
1 CCGAAGGCATTTG
43377216 AACGAGTAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
38 9 0.19
39 15 0.31
40 1 0.02
41 9 0.19
42 14 0.29
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (42 bp):
CCGAAGGCATTTGTGCGAGTTACTATATACCGGGCTAAGTCC
Found at i:43385214 original size:40 final size:39
Alignment explanation
Indices: 43385124--43385385 Score: 266
Period size: 39 Copynumber: 6.6 Consensus size: 39
43385114 TCGAATGATG
* *
43385124 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT
*
43385163 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
43385204 TTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTGAA-
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT-AAT
** * *
43385243 TCTAGACTAAGATCTGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* *
43385283 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTTAA-
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTAC-TAAT
* *
43385322 TCCGGGTTAAGTCCGAAGGC-TTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AT
*
43385361 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
43385386 AACGAGTAGC
Statistics
Matches: 186, Mismatches: 25, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
37 2 0.01
38 22 0.12
39 80 0.43
40 72 0.39
41 10 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:43385262 original size:79 final size:79
Alignment explanation
Indices: 43385126--43385383 Score: 319
Period size: 79 Copynumber: 3.3 Consensus size: 79
43385116 GAATGATGTC
* * * *
43385126 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGACTAAGATCCGAAGGCATTT
1 CGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTGA-ATCCAGACTAAGATCCGAAGGCATTT
43385189 GTGCGAGTTACTAATTT
63 GTGCGAGTTACTAATTT
* *
43385206 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTGAATCTAGACTAAGATCTGAAGGCATTTGTG
1 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTGAATCCAGACTAAGATCCGAAGGCATTTGTG
*
43385271 CGAGTTACTAATTC
66 CGAGTTACTAATTT
* * **
43385285 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTTAATCCGGGTTAAG-TCCGAAGGC-TTTGTG
1 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTGAATCCAGACTAAGATCCGAAGGCATTTGTG
*
43385348 CGAGTTACT-ATAAT
66 CGAGTTACTAAT-TT
*
43385362 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAG-CCCGAAGGCATT
43385384 TGAACGAGTA
Statistics
Matches: 158, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
76 2 0.01
77 23 0.15
78 20 0.13
79 97 0.61
80 16 0.10
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTGAATCCAGACTAAGATCCGAAGGCATTTGTG
CGAGTTACTAATTT
Found at i:43386854 original size:85 final size:85
Alignment explanation
Indices: 43386711--43386881 Score: 333
Period size: 85 Copynumber: 2.0 Consensus size: 85
43386701 GATTAAGCCC
43386711 GTTAACCCCTCGTGTCCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTACAGTTTAACTCCTTC
1 GTTAACCCCTCGTGTCCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTACAGTTTAACTCCTTC
43386776 TGAGTCAACATATACTTTAG
66 TGAGTCAACATATACTTTAG
*
43386796 GTTAACCCCTCGTGTCTGACTCCGGCAACGGTCTCGGGTACGGGGTGTTACAGTTTAACTCCTTC
1 GTTAACCCCTCGTGTCCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTACAGTTTAACTCCTTC
43386861 TGAGTCAACATATACTTTAG
66 TGAGTCAACATATACTTTAG
43386881 G
1 G
43386882 CTCTTATGGT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (85 bp):
GTTAACCCCTCGTGTCCGACTCCGGCAACGGTCTCGGGTACGGGGTGTTACAGTTTAACTCCTTC
TGAGTCAACATATACTTTAG
Found at i:43391410 original size:27 final size:26
Alignment explanation
Indices: 43391354--43391410 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
43391344 CAACCTTAAC
* *
43391354 CCTAAGGGTATATCAGTAATTTTACT
1 CCTAAGGGTAAATCAGTAATTTTACA
* * *
43391380 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAAGGGTAAATCAGT-AATTTTACA
43391407 CCTA
1 CCTA
43391411 TAAAGGTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (26 bp):
CCTAAGGGTAAATCAGTAATTTTACA
Found at i:43396289 original size:27 final size:27
Alignment explanation
Indices: 43396255--43396315 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
43396245 CAAAATGGTA
**
43396255 ATTT-TACCCTACATGGGTATTTCGGC
1 ATTTCTACCCTACAAAGGTATTTCGGC
* *
43396281 ATTTCTACCCTGCAAAGGTATTTCGGT
1 ATTTCTACCCTACAAAGGTATTTCGGC
*
43396308 AATTCTAC
1 ATTTCTAC
43396316 AACTTATCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (27 bp):
ATTTCTACCCTACAAAGGTATTTCGGC
Found at i:43404588 original size:93 final size:93
Alignment explanation
Indices: 43404476--43404647 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43404466 GCCCATAAGT
* *
43404476 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43404541 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43404569 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43404634 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43404648 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43404643 original size:46 final size:46
Alignment explanation
Indices: 43404468--43404643 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43404458 TGTAACCCGC
* * *
43404468 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43404514 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43404564 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43404607 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43404644 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43407062 original size:29 final size:29
Alignment explanation
Indices: 43407023--43407110 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
43407013 CAAAGATAAC
*
43407023 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
43407052 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
43407081 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
43407111 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:43407081 original size:15 final size:15
Alignment explanation
Indices: 43407023--43407101 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
43407013 CAAAGATAAC
*
43407023 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
43407037 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
43407052 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
43407066 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
43407081 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
43407096 AAGAAA
1 AAGAAA
43407102 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:43407110 original size:15 final size:15
Alignment explanation
Indices: 43407034--43407110 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
43407024 AGAAAACCGA
43407034 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
43407049 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
43407063 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
43407077 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
43407093 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
43407108 ATA
1 ATA
43407111 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43410173 original size:93 final size:93
Alignment explanation
Indices: 43410061--43410232 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43410051 GCCCATAAGT
* *
43410061 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43410126 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
43410154 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43410219 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
43410233 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:43410228 original size:46 final size:46
Alignment explanation
Indices: 43410053--43410228 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
43410043 TGTAACCCGC
* * *
43410053 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
43410099 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43410149 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
43410192 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
43410229 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43418482 original size:40 final size:40
Alignment explanation
Indices: 43418445--43418624 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
43418435 GCTACTCGTT
*
43418445 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
43418485 CAAATGCCTTCAGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
43418525 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
43418564 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
43418605 CAAA-GCCTTTGGGACTTAGC
1 CAAATGCCTTCGGGACTTAGC
43418625 TCGGACATCA
Statistics
Matches: 118, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 71 0.60
41 14 0.12
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43418613 original size:79 final size:81
Alignment explanation
Indices: 43418445--43418629 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
43418435 GCTACTCGTT
* *
43418445 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCG
* *
43418509 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* **
43418526 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCG
*
43418588 GATATAGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
* *
43418605 CAAAGCCTTTGGGACTTAGCTCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
43418630 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:43430123 original size:20 final size:20
Alignment explanation
Indices: 43430109--43430147 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43430099 TGAAAAGTTG
43430109 TAAAATTTGATGAAACATTC
1 TAAAATTTGATGAAACATTC
*
43430129 TAAAATTTTATGAATACAT
1 TAAAATTTGATGAA-ACAT
43430148 GTGCTGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
TAAAATTTGATGAAACATTC
Found at i:43431518 original size:37 final size:37
Alignment explanation
Indices: 43431468--43431540 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
43431458 CAATTAAAAG
43431468 TAAATCCCACAAATGGTCTTATTACAAACCAGAAATA
1 TAAATCCCACAAATGGTCTTATTACAAACCAGAAATA
43431505 TAAATCCCACAAATGGTCTTATTACAAACCAGAAAT
1 TAAATCCCACAAATGGTCTTATTACAAACCAGAAAT
43431541 CCAAAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (37 bp):
TAAATCCCACAAATGGTCTTATTACAAACCAGAAATA
Found at i:43432206 original size:27 final size:28
Alignment explanation
Indices: 43432133--43432208 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 28
43432123 TAACATAATC
*
43432133 GGCACACAGCC-CTAGGTAAATATGATC
1 GGCACACAGCCACTAGGTAAATATGATA
* * * * *
43432160 GACACAGAGTCA-TCGATAAATATGATA
1 GGCACACAGCCACTAGGTAAATATGATA
*
43432187 GGCACATAGCCACT-GGTAAATA
1 GGCACACAGCCACTAGGTAAATA
43432209 CGATTTGCAC
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (28 bp):
GGCACACAGCCACTAGGTAAATATGATA
Found at i:43432246 original size:22 final size:22
Alignment explanation
Indices: 43432215--43432293 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 22
43432205 AATACGATTT
*
43432215 GCACAAAGCCATAATCAACATA
1 GCACAGAGCCATAATCAACATA
* * *** *
43432237 GCACAGAGCCATATTTAGGTTG
1 GCACAGAGCCATAATCAACATA
* *
43432259 GTAGAGAGCCATAATCAACATA
1 GCACAGAGCCATAATCAACATA
*
43432281 GCACGGAGCCATA
1 GCACAGAGCCATA
43432294 TTTAGGTTGG
Statistics
Matches: 39, Mismatches: 18, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (22 bp):
GCACAGAGCCATAATCAACATA
Done.