Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 397 of 770
Found at i:122049736 original size:28 final size:28
Alignment explanation
Indices: 122049692--122049808 Score: 98
Period size: 28 Copynumber: 4.1 Consensus size: 28
122049682 CACATACTTA
* *
122049692 TATATGGCCTA-CTAGGCCCAATCTC-TT
1 TATATGGCCCATC-AGGCCCAATCACATT
*
122049719 TCATATGGCCCATCAGGCCCATTCACATT
1 T-ATATGGCCCATCAGGCCCAATCACATT
* *
122049748 TATGTGGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATCAGGCCC-AATCACATT
* *
122049777 CATGTGG-CCA-CTAGGCCCAAATCACATT
1 TATATGGCCCATC-AGGCCC-AATCACATT
122049805 TATA
1 TATA
122049809 GTCATGCTCA
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
27 1 0.01
28 56 0.75
29 18 0.24
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
TATATGGCCCATCAGGCCCAATCACATT
Found at i:122049783 original size:29 final size:28
Alignment explanation
Indices: 122049704--122049804 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 28
122049694 TATGGCCTAC
* * *
122049704 TAGGCCCAATCTCTTTCATATGGCCCAT
1 TAGGCCCAATCACATTCATGTGGCCCAT
* * *
122049732 CAGGCCCATTCACATTTATGTGGCCCAT
1 TAGGCCCAATCACATTCATGTGGCCCAT
*
122049760 TAGGCCCAAATCACATTCATGTGG-CCAC
1 TAGGCCC-AATCACATTCATGTGGCCCAT
122049788 TAGGCCCAAATCACATT
1 TAGGCCC-AATCACATT
122049805 TATAGTCATG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
28 48 0.77
29 14 0.23
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27
Consensus pattern (28 bp):
TAGGCCCAATCACATTCATGTGGCCCAT
Found at i:122050040 original size:16 final size:16
Alignment explanation
Indices: 122050019--122050069 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
122050009 GCAGCCAAAC
122050019 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTTGGCA
*
122050035 TTTCGGTTTTTTGGCA
1 TTTCGGCTTTTTGGCA
* *
122050051 TTTCGACTTTTTGGGA
1 TTTCGGCTTTTTGGCA
122050067 TTT
1 TTT
122050070 ATCGATCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.08, C:0.14, G:0.24, T:0.55
Consensus pattern (16 bp):
TTTCGGCTTTTTGGCA
Found at i:122050215 original size:28 final size:28
Alignment explanation
Indices: 122050183--122050238 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
122050173 GCATGCTTAA
122050183 TACATATCTCTACCAAAATCGAAACCTC
1 TACATATCTCTACCAAAATCGAAACCTC
*
122050211 TACATATCTCTACCGAAATCGAAACCTC
1 TACATATCTCTACCAAAATCGAAACCTC
122050239 ACCTTTCACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.32, G:0.05, T:0.25
Consensus pattern (28 bp):
TACATATCTCTACCAAAATCGAAACCTC
Found at i:122054139 original size:29 final size:29
Alignment explanation
Indices: 122054099--122054230 Score: 203
Period size: 29 Copynumber: 4.6 Consensus size: 29
122054089 ATTGAGAGAT
*
122054099 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
*
122054128 TGGCACTAAGTGTGCAAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
122054157 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
122054186 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
122054215 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
122054231 CGGCTGATTA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 5 0.05
29 91 0.95
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:122061016 original size:28 final size:28
Alignment explanation
Indices: 122060912--122061023 Score: 118
Period size: 28 Copynumber: 4.0 Consensus size: 28
122060902 ACATACCTAT
* *
122060912 ATATGGCCCACTAGGCCCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* * * *
122060940 ATATGGCCCATTAGGCCCATTTACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
122060968 ATGTGGCCCATTAGGCCCAAATCACACTC
1 ATATGGCCCACTAGGCCC-AATCACATTC
122060997 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
122061024 TACAGTCATG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
28 58 0.84
29 11 0.16
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:122062788 original size:2 final size:2
Alignment explanation
Indices: 122062781--122062805 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
122062771 GAGACTAGTC
122062781 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
122062806 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122065785 original size:2 final size:2
Alignment explanation
Indices: 122065778--122065802 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
122065768 ACTAGTCATA
122065778 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
122065803 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122067770 original size:2 final size:2
Alignment explanation
Indices: 122067763--122067801 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
122067753 GAGACTAGTC
122067763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122067802 GTCATGATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:122069798 original size:2 final size:2
Alignment explanation
Indices: 122069791--122069825 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
122069781 TAGACTAGTC
122069791 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
122069826 CATGTCATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:122070825 original size:2 final size:2
Alignment explanation
Indices: 122070818--122070844 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
122070808 GAGACTAGTC
122070818 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
122070845 CATGTCATGA
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122072886 original size:30 final size:30
Alignment explanation
Indices: 122072852--122072912 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
122072842 TCCTTAACTC
122072852 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
122072882 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
122072912 A
1 A
122072913 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:122082606 original size:17 final size:18
Alignment explanation
Indices: 122082564--122082612 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
122082554 AGTTGAAAAG
122082564 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
122082583 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
122082600 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
122082613 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:122083501 original size:40 final size:40
Alignment explanation
Indices: 122083435--122083601 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
122083425 AAATTGAATG
* * *
122083435 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
122083474 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
122083514 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
122083554 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
122083594 ATATCCGG
1 ATATCCGG
122083602 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:122090613 original size:17 final size:18
Alignment explanation
Indices: 122090571--122090619 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
122090561 AGTTGAAAAG
122090571 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
122090590 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
122090607 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
122090620 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:122091565 original size:40 final size:37
Alignment explanation
Indices: 122091478--122091586 Score: 128
Period size: 38 Copynumber: 2.8 Consensus size: 37
122091468 CTGGAAATTA
* * *
122091478 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTAGT
* *
122091516 TATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTATT
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCGAG-TAGT
122091555 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 -TATCCGGGCTAAGACCCGAAGGCA-TTGTGC
122091587 ACGTGATTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
37 3 0.05
38 27 0.44
39 2 0.03
40 27 0.44
41 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (37 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTAGT
Found at i:122091600 original size:40 final size:40
Alignment explanation
Indices: 122091438--122091602 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
122091428 AAATTGAATG
* * **
122091438 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * *
122091477 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG-GT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
* *
122091516 -TATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
122091555 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
122091595 ATATCCGG
1 ATATCCGG
122091603 TTATATTCCG
Statistics
Matches: 103, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
37 3 0.03
38 28 0.27
39 16 0.16
40 54 0.52
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:122098485 original size:40 final size:39
Alignment explanation
Indices: 122098440--122098569 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
122098430 CGGAATATAA
122098440 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
122098480 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
122098520 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
122098560 CCGGATATAA
1 CCGGATATAA
122098570 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:122098584 original size:40 final size:40
Alignment explanation
Indices: 122098456--122098607 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
122098446 ATAACCATGT
* * *
122098456 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
122098496 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
122098536 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
122098576 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
122098608 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:122098590 original size:80 final size:80
Alignment explanation
Indices: 122098456--122098605 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
122098446 ATAACCATGT
*
122098456 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
122098520 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
122098536 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
122098599 CCCGGAT
64 CCCGGAT
122098606 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:122109244 original size:79 final size:79
Alignment explanation
Indices: 122109151--122109360 Score: 316
Period size: 79 Copynumber: 2.7 Consensus size: 79
122109141 TCTTCGGAAT
* * *
122109151 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTA-CCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTCGCAC
122109214 AAATGCCTTCGGGTC
66 -AATGCCTTCGGGTC
* * *
122109229 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTCGCAC
122109294 AATGCCTTCGGGTC
66 AATGCCTTCGGGTC
* * *
122109308 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGTAT
122109361 CATTCAAATG
Statistics
Matches: 118, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
78 4 0.03
79 95 0.81
80 19 0.16
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGTATAACAACTCGCAC
AATGCCTTCGGGTC
Found at i:122109248 original size:40 final size:40
Alignment explanation
Indices: 122109151--122109356 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
122109141 TCTTCGGAAT
* ** *
122109151 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
122109190 TTA-CCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
122109229 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
122109269 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
122109308 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
122109348 TTAGCCCGG
1 TTAGCCCGG
122109357 GTATCATTCA
Statistics
Matches: 152, Mismatches: 11, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
39 70 0.46
40 82 0.54
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:122117228 original size:40 final size:40
Alignment explanation
Indices: 122117163--122117370 Score: 276
Period size: 40 Copynumber: 5.2 Consensus size: 40
122117153 TCTTCGGAAT
* ** *
122117163 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
122117202 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCAGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
122117242 TTAGCCTGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
122117282 TTAGCCCGGATATAACAACTCGCACCAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
122117322 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
122117362 TTAGCCCGG
1 TTAGCCCGG
122117371 GTATCATTCA
Statistics
Matches: 148, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 3 0.02
40 144 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:122124931 original size:46 final size:46
Alignment explanation
Indices: 122124881--122125002 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
122124871 TGAGCATCCA
* * *
122124881 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCG
* * *
122124927 AACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCG
*
122124973 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
122125003 GGGGCGGGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCG
Found at i:122125909 original size:20 final size:20
Alignment explanation
Indices: 122125872--122125914 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
122125862 CTGTTATAAC
* *
122125872 TTTAAAAATTCATAATAAAT
1 TTTAAAAAATAATAATAAAT
* *
122125892 TTTAAAAAATAATTATAAGT
1 TTTAAAAAATAATAATAAAT
122125912 TTT
1 TTT
122125915 TCTTTATATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAAAAAATAATAATAAAT
Found at i:122131030 original size:15 final size:15
Alignment explanation
Indices: 122131010--122131039 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
122131000 TTGTAAGCGG
122131010 ACTGTTAAACTAGTT
1 ACTGTTAAACTAGTT
122131025 ACTGTTAAACTAGTT
1 ACTGTTAAACTAGTT
122131040 CTTTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
ACTGTTAAACTAGTT
Found at i:122138631 original size:46 final size:47
Alignment explanation
Indices: 122138483--122138748 Score: 231
Period size: 46 Copynumber: 5.7 Consensus size: 47
122138473 TTTGTGAGCT
* * *
122138483 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAT--ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCC-TCGA-GATAAAAGCC
* * * * ** * *
122138529 AGTGTAAGACCATGTTTGGGACATGGCATTGGCATTGAGACCAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGATAAAAGCC
*
122138577 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACAAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATAAAAGCC
* * * *
122138623 AGTGTAAGACATGTCTGGGACAT-GCATCGG-TTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCT-CGAGATAAAAGCC
* * * * *
122138669 AGTGTAAGACTGTGTCTGGGACATGGCATC-GACTTGATATATAAGCC
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGCCTCGAGATAAAAGCC
*
122138716 AGTGTAAGACCGTGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
122138749 ACCTTACCCA
Statistics
Matches: 182, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
45 1 0.01
46 75 0.41
47 75 0.41
48 30 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATAAAAGCC
Found at i:122138715 original size:93 final size:94
Alignment explanation
Indices: 122138483--122138747 Score: 260
Period size: 94 Copynumber: 2.8 Consensus size: 94
122138473 TTTGTGAGCT
* * * *
122138483 AGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ATATTATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGA-CA--AAAGCCAGTGTAAGACCATGTC
* ** *
122138545 TGGGACATGGCATTGGCATT--GAGACCAGAG-C
63 TGGGACATGGCATCGG--TTACGAGATGATAGTC
*
122138576 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAAAAGCCAGTGTAAGA-CATGTCTG
1 -AGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACAAAAGCCAGTGTAAGACCATGTCTG
122138640 GGACAT-GCATCGGTTACGAGATGATAGTC
65 GGACATGGCATCGGTTACGAGATGATAGTC
* * * * * *
122138669 AGTGTAAGACTGTGTCTGGGACATGGCATC-GACTTGATATATAAGCCAGTGTAAGACCGTGTCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGACTCGAGACAAAAGCCAGTGTAAGACCATGTCT
122138733 GGGACATGGCATCGG
64 GGGACATGGCATCGG
122138748 CACCTTACCC
Statistics
Matches: 146, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
90 2 0.01
92 23 0.16
93 47 0.32
94 62 0.42
95 8 0.05
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACAAAAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGTTACGAGATGATAGTC
Found at i:122138735 original size:140 final size:141
Alignment explanation
Indices: 122138483--122138748 Score: 333
Period size: 140 Copynumber: 1.9 Consensus size: 141
122138473 TTTGTGAGCT
* * *
122138483 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * * *
122138548 GACATGGCATTGGCATTGAGACCAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGCATCGACATTGAGACCAAAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
122138612 AGACAAAAGCC
131 AGACAAAAGCC
** * * **
122138623 AGTGTAAGACATGTCTGGGACATGCATCGGTTACGA-GATGATAGTCAGTGTAAGACTGTGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-GATGATGAGAGCCAGTGTAAGACCATGTCTG
* * *
122138687 GGACATGGCATCGAC-TTGATA-TATAAGCCAGTGTAAGACCGTGTCTGGGACATGGCATCGGC
65 GGACATGGCATCGACATTGAGACCA-AAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
122138749 ACCTTACCCA
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 17 0.16
140 79 0.75
141 9 0.08
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAGACCAAAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG
AGACAAAAGCC
Found at i:122146377 original size:40 final size:40
Alignment explanation
Indices: 122146340--122146525 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
122146330 GCTACTCGTT
*
122146340 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
122146380 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
122146420 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
122146460 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
122146501 CAAA-GCCTTCGGGACTGAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
122146526 CATCATTCGA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.89
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:122148417 original size:21 final size:21
Alignment explanation
Indices: 122148388--122148429 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
122148378 ACTTCTTTGA
122148388 ATTCATTTACCTATTATTATT
1 ATTCATTTACCTATTATTATT
* *
122148409 ATTCGTTTATCTATTATTATT
1 ATTCATTTACCTATTATTATT
122148430 CTTTATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTCATTTACCTATTATTATT
Found at i:122148425 original size:18 final size:17
Alignment explanation
Indices: 122148402--122148435 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
122148392 ATTTACCTAT
122148402 TATTATTATTCGTTTATC
1 TATTATTATTC-TTTATC
122148420 TATTATTATTCTTTAT
1 TATTATTATTCTTTAT
122148436 ATTACAGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.65
Consensus pattern (17 bp):
TATTATTATTCTTTATC
Found at i:122148438 original size:15 final size:17
Alignment explanation
Indices: 122148402--122148439 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
122148392 ATTTACCTAT
122148402 TATTATTATTCGTTTATC
1 TATTATTATTCGTTTA-C
122148420 TATTATTATTC-TTTA-
1 TATTATTATTCGTTTAC
122148435 TATTA
1 TATTA
122148440 CAGGCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
17 4 0.20
18 11 0.55
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (17 bp):
TATTATTATTCGTTTAC
Found at i:122149133 original size:66 final size:66
Alignment explanation
Indices: 122149024--122149155 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 66
122149014 CCACCAATAT
* * *
122149024 TGAGGTACCTACACGCCATTTTAGCTCACACGATTACAGGGAGGTGAGAGAGCACTGGCGTCGTC
1 TGAGGTACCTACAAGCCATTTTAGCTCACACGATTACAAGGAGGTGAGAGAGCACTAGCGTCGTC
122149089 A
66 A
*
122149090 TGAGGTACCTACAAGCCATTTTAGCTCACACGATTACAAGGAGGTGAGAGAGTACTAGCGTCGTC
1 TGAGGTACCTACAAGCCATTTTAGCTCACACGATTACAAGGAGGTGAGAGAGCACTAGCGTCGTC
122149155 A
66 A
122149156 ACACTCACGA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (66 bp):
TGAGGTACCTACAAGCCATTTTAGCTCACACGATTACAAGGAGGTGAGAGAGCACTAGCGTCGTC
A
Found at i:122151623 original size:20 final size:21
Alignment explanation
Indices: 122151600--122151644 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
122151590 CATTGGAGAG
122151600 CAAAGGAAC-GAG-AAACAGGC
1 CAAA-GAACGGAGAAAACAGGC
*
122151620 CAAA-AACGGAGAAAATAGGC
1 CAAAGAACGGAGAAAACAGGC
122151640 CAAAG
1 CAAAG
122151645 TACGAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 3 0.14
19 3 0.14
20 15 0.71
ACGTcount: A:0.53, C:0.18, G:0.27, T:0.02
Consensus pattern (21 bp):
CAAAGAACGGAGAAAACAGGC
Found at i:122155505 original size:40 final size:40
Alignment explanation
Indices: 122155450--122155659 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
122155440 AACATTGGAA
122155450 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
122155490 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
122155530 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
122155570 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
122155609 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
122155650 CTATATCCGG
1 ATATATCCGG
122155660 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:122168915 original size:40 final size:39
Alignment explanation
Indices: 122168870--122168999 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
122168860 CGGAATATAA
122168870 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
122168910 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
122168950 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
122168990 CCGGATATAA
1 CCGGATATAA
122169000 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:122169014 original size:40 final size:40
Alignment explanation
Indices: 122168886--122169037 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
122168876 ATAACCATGT
* * *
122168886 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
122168926 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
122168966 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
122169006 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
122169038 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:122169020 original size:80 final size:80
Alignment explanation
Indices: 122168886--122169035 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
122168876 ATAACCATGT
*
122168886 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
122168950 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
122168966 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
122169029 CCCGGAT
64 CCCGGAT
122169036 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:122172618 original size:37 final size:40
Alignment explanation
Indices: 122172494--122172698 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
122172484 TGAATGATAC
*
122172494 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
122172534 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
122172574 CCGGGCTAAGACCCGAAGGCA-TT-CG-T-GTGAGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGA-TTATAT
* * * ** *
122172611 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * * *
122172651 CCGGGTTAAGACCTGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
122172691 CC-GGCTAA
1 CCGGGCTAA
122172699 ATTCCGAAGA
Statistics
Matches: 141, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
36 4 0.03
37 28 0.20
38 3 0.02
39 8 0.06
40 95 0.67
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:122172627 original size:77 final size:80
Alignment explanation
Indices: 122172494--122172698 Score: 222
Period size: 77 Copynumber: 2.6 Consensus size: 80
122172484 TGAATGATAC
* * *
122172494 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTACGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTA
* * ** *
122172559 TGCTAGTGATTATAT
66 TGCAAGTCACCAAAT
122172574 CCGGGCTAAGACCCGAAGGCA-TT-CG-T-GTGAGTTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTACGCTAGTGA-TTATATCCGGGCTAAGACCCGAAGGCATTT
*
122172635 GTGCAAGTCACCAAAT
65 ATGCAAGTCACCAAAT
* * * ** * *
122172651 CCGGGTTAAGACCTGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCATTTACGCTAGTGATTATATCCGGGCTAA
122172699 ATTCCGAAGA
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
76 4 0.04
77 59 0.55
78 3 0.03
79 9 0.08
80 29 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTACGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCAAGTCACCAAAT
Found at i:122180679 original size:40 final size:40
Alignment explanation
Indices: 122180624--122180825 Score: 244
Period size: 40 Copynumber: 5.0 Consensus size: 40
122180614 TGAATGATAC
* *
122180624 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
122180664 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
122180704 TCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
122180744 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
122180784 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
122180824 CC
1 CC
122180826 AGCTAAATTC
Statistics
Matches: 139, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 136 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:122183606 original size:28 final size:28
Alignment explanation
Indices: 122183561--122183666 Score: 88
Period size: 29 Copynumber: 3.7 Consensus size: 28
122183551 ATATACACTT
***
122183561 ATATGGCCCACTTGGCCCAATCTCATTC
1 ATATGGCCCACCAAGCCCAATCTCATTC
*
122183589 ATATGGCCCACCAAGCCCAATTCACATTC
1 ATATGGCCCACCAAGCCCAA-TCTCATTC
* * * *
122183618 TTATAGCCCACCAAACCC-ATTTCATATTC
1 ATATGGCCCACCAAGCCCAATCTC--ATTC
**
122183647 ATATGGCCCATTAAGCCCAA
1 ATATGGCCCACCAAGCCCAA
122183667 ATCACATGCA
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
27 2 0.03
28 18 0.30
29 39 0.65
30 1 0.02
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.25
Consensus pattern (28 bp):
ATATGGCCCACCAAGCCCAATCTCATTC
Found at i:122183626 original size:29 final size:29
Alignment explanation
Indices: 122183609--122183679 Score: 61
Period size: 29 Copynumber: 2.4 Consensus size: 29
122183599 CCAAGCCCAA
* * * *
122183609 TTCACATTCTTATAGCCCACCAAACCCAT
1 TTCACATTCATATGGCCCACCAAGCCCAA
* **
122183638 TTCATATTCATATGGCCCATTAAGCCCAA
1 TTCACATTCATATGGCCCACCAAGCCCAA
* *
122183667 ATCACATGCATAT
1 TTCACATTCATAT
122183680 TCATGCTTGC
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.32, C:0.31, G:0.07, T:0.30
Consensus pattern (29 bp):
TTCACATTCATATGGCCCACCAAGCCCAA
Found at i:122186955 original size:6 final size:6
Alignment explanation
Indices: 122186937--122187011 Score: 80
Period size: 6 Copynumber: 12.3 Consensus size: 6
122186927 AAGAAACATT
*
122186937 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGT
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
122186985 ATTAGA TAACAGA ATTAAA ATCAGA AT
1 ATCAGA -ATCAGA ATCAGA ATCAGA AT
122187012 GGGAATGCAA
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
5 1 0.02
6 50 0.89
7 5 0.09
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:122187175 original size:27 final size:27
Alignment explanation
Indices: 122187136--122187219 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
122187126 CATTGCTGCT
*
122187136 CAGATATCAGATATTGTGACAGAGTCAC
1 CAGATA-CAGATATTGTGACAGAGCCAC
*
122187164 CAGATACAGATATTGTGGCAGAGCCAC
1 CAGATACAGATATTGTGACAGAGCCAC
* *
122187191 CAGA-ACAGATATTTGTGGCATAGCCAC
1 CAGATACAGATA-TTGTGACAGAGCCAC
122187218 CA
1 CA
122187220 AAAACAAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 7 0.13
27 39 0.75
28 6 0.12
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATACAGATATTGTGACAGAGCCAC
Found at i:122187234 original size:27 final size:27
Alignment explanation
Indices: 122187173--122187244 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
122187163 CCAGATACAG
* * *
122187173 ATAT-TGTGGCAGAGCCACCAGAACAG
1 ATATATGTGGCAAAGCCACCAAAACAA
* *
122187199 ATATTTGTGGCATAGCCACCAAAAACAA
1 ATATATGTGGCAAAGCCACC-AAAACAA
122187227 ATA-ATGTGGCAAAGCCAC
1 ATATATGTGGCAAAGCCAC
122187245 TTAACAGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.10
27 27 0.69
28 8 0.21
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (27 bp):
ATATATGTGGCAAAGCCACCAAAACAA
Found at i:122187430 original size:22 final size:22
Alignment explanation
Indices: 122187402--122187465 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
122187392 GCAAATACGT
*
122187402 TTGGCACACAGCCATAATCAAG
1 TTGGCACAAAGCCATAATCAAG
* *
122187424 TTGGCACAAAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAAG
*
122187446 TTGACACAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
122187466 GAAGGCTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAAG
Found at i:122187950 original size:27 final size:27
Alignment explanation
Indices: 122187892--122188311 Score: 484
Period size: 27 Copynumber: 15.3 Consensus size: 27
122187882 AGGGCAAAAT
* * * *
122187892 GGTAATTTTACCCGACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
122187918 GATAATTCCACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
122187945 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
122187972 GGTAATTCTACCCTATAGGGGTATTGCGATAATTGC
1 GGTAATTCTACCCTACAGGGG---T---AT--TT-C
*
122188008 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
122188035 GATAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
122188062 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
122188089 GGTAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
122188116 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
122188143 GATAATTCTACCCTACAGCGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
122188170 GGTAATTCTACCCTACAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
122188197 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
122188224 GGTAATTCTACCATACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
122188251 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * ** *
122188278 GATAATTTTA-CAAACCAGGGGTATTTT
1 GGTAATTCTACCCTA-CAGGGGTATTTC
122188305 GGTAATT
1 GGTAATT
122188312 TTATAAACAA
Statistics
Matches: 342, Mismatches: 41, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
26 15 0.04
27 297 0.87
28 2 0.01
30 3 0.01
33 3 0.01
35 2 0.01
36 20 0.06
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:122188312 original size:27 final size:27
Alignment explanation
Indices: 122188050--122188365 Score: 144
Period size: 27 Copynumber: 11.7 Consensus size: 27
122188040 TTCCACCCTA
* * **
122188050 CAGGGGTATTTCGATAATTCTACCCTA-
1 CAGGGGTATTTCGGTAATTTTA-CAAAC
** **
122188077 CAGGGGTATTTCGGTAATTCCACCCTA-
1 CAGGGGTATTTCGGTAATTTTA-CAAAC
* **
122188104 CAGGGGTATTTCGGTAATTCTACCCTA-
1 CAGGGGTATTTCGGTAATTTTA-CAAAC
* * * **
122188131 CAGGGGTATTGCGATAATTCTACCCTA-
1 CAGGGGTATTTCGGTAATTTTA-CAAAC
* * **
122188158 CAGCGGTATTTCGGTAATTCTACCCTA-
1 CAGGGGTATTTCGGTAATTTTA-CAAAC
* * * **
122188185 CAAGGGTATTCCGGTAATTCTACCCTA-
1 CAGGGGTATTTCGGTAATTTTA-CAAAC
* *
122188212 CAGGGGTATTTCGGTAATTCTACCATA-
1 CAGGGGTATTTCGGTAATTTTA-CAAAC
* * **
122188239 CAGGGGTATTCCGGTAATTCTACCCTA-
1 CAGGGGTATTTCGGTAATTTTA-CAAAC
*
122188266 CAGGGGTATTTCGATAATTTTACAAAC
1 CAGGGGTATTTCGGTAATTTTACAAAC
* *
122188293 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTCGGTAATTTTACAAAC
* * ***
122188320 AAAGGGTATTTTAATAATTTTACAAAC
1 CAGGGGTATTTCGGTAATTTTACAAAC
*
122188347 CAGGGGTATTTTGGTAATT
1 CAGGGGTATTTCGGTAATT
122188366 CTATCCTACA
Statistics
Matches: 255, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 2 0.01
27 253 0.99
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAAAC
Found at i:122188327 original size:81 final size:81
Alignment explanation
Indices: 122188010--122188392 Score: 423
Period size: 81 Copynumber: 4.7 Consensus size: 81
122188000 ATAATTGCGA
* *
122188010 TAATTCTACCCTACAGGGGTATTTCGATAATTCCACCCTACAGGGGTATTTCGATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCA
*
122188075 TACAGGGGTATTTCGG
66 TACAAGGGTATTTCGG
* * * *
122188091 TAATTCCACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCA
122188156 TAC-AGCGGTATTTCGG
66 TACAAG-GGTATTTCGG
* * * *
122188172 TAATTCTACCCTACAAGGGTATTCCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCA
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCA
* *
122188237 TACAGGGGTATTCCGG
66 TACAAGGGTATTTCGG
* ** * * * *
122188253 TAATTCTACCCTACAGGGGTATTTCGATAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTA-T
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTA-CAGGGGTATTTCGATAATTCTACC
* ***
122188316 AAACAAAGGGTATTTTAA
65 ATAC-AAGGGTATTTCGG
* ** * * * *
122188334 TAATTTTA-CAAACCAGGGGTATTTTGGTAATTCTATCCTACAGGGGTATTTCAATAATT
1 TAATTCTACCCTA-CAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATT
122188393 TCACAATCAA
Statistics
Matches: 257, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
80 8 0.03
81 246 0.96
82 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCA
TACAAGGGTATTTCGG
Found at i:122188393 original size:54 final size:54
Alignment explanation
Indices: 122188007--122188392 Score: 445
Period size: 54 Copynumber: 7.1 Consensus size: 54
122187997 GCGATAATTG
* * *
122188007 CGATAATTCTACCCTACAGGGGTATTTCGATAATTCCACCCTACAGGGGTATTT
1 CGATAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* *
122188061 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCCACCCTACAGGGGTATTT
1 CGATAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * * * *
122188115 CGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGCGGTATTT
1 CGATAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * * *
122188169 CGGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTACCCTACAGGGGTATTT
1 CGATAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* *
122188223 CGGTAATTCTACCATACAGGGGTATTCCGGTAATTCTACCCTACAGGGGTATTT
1 CGATAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * * * *** *
122188277 CGATAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTA-TAAACAAAGGGTATTT
1 CGATAATTCTACCATA-CAGGGGTATTTCGGTAATTCTACCCTAC-AGGGGTATTT
** * * * *
122188331 TAATAATTTTA-CAAACCAGGGGTATTTTGGTAATTCTATCCTACAGGGGTATTT
1 CGATAATTCTACCATA-CAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
*
122188385 CAATAATT
1 CGATAATT
122188393 TCACAATCAA
Statistics
Matches: 299, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.02
54 292 0.98
55 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (54 bp):
CGATAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
Found at i:122188531 original size:54 final size:54
Alignment explanation
Indices: 122188397--122188571 Score: 262
Period size: 54 Copynumber: 3.3 Consensus size: 54
122188387 ATAATTTCAC
* * *
122188397 AATCAAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
*
122188450 AATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
* * * *
122188504 AATCGATGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
*
122188558 AATCAAGGGTAAAA
1 AATCGAGGGTAAAA
122188572 TGATAATTCT
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 46 0.42
54 64 0.58
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
Found at i:122188560 original size:81 final size:80
Alignment explanation
Indices: 122188397--122188593 Score: 270
Period size: 81 Copynumber: 2.5 Consensus size: 80
122188387 ATAATTTCAC
* * * *
122188397 AATCAAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTGTAAATCGAGGGTA
1 AATCAAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGGTAATTTGTAAATCGAGGGTA
*
122188461 AAACGGTAATTCTGTA
65 AAACGGTAATTCTATA
** * *
122188477 AATTGAGGGTAAAATGGTAATTCTATAAATCGATGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAA-TTTGTAAATCGAGGGTA
122188542 AAACGGTAATTCTATA
65 AAACGGTAATTCTATA
* *
122188558 AATCAAGGGTAAAATGATAATTCTACAAATCGAGGG
1 AATCAAGGGTAAAATGGTAATTCTATAAATCGAGGG
122188594 CATTTCAGTA
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
80 38 0.38
81 63 0.62
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (80 bp):
AATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTGTAAATCGAGGGTAA
AACGGTAATTCTATA
Found at i:122188578 original size:27 final size:27
Alignment explanation
Indices: 122188397--122188593 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
122188387 ATAATTTCAC
* *
122188397 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
122188424 AA-CTGAGGGTAAAATGGTAATT-TGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
122188450 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
122188477 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
122188504 AATCGATGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
122188531 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * **
122188558 AATCAAGGGTAAAATGATAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
122188585 AATCGAGGG
1 AATCGAGGG
122188594 CATTTCAGTA
Statistics
Matches: 146, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
26 24 0.16
27 122 0.84
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:122188605 original size:81 final size:81
Alignment explanation
Indices: 122188440--122188613 Score: 233
Period size: 81 Copynumber: 2.2 Consensus size: 81
122188430 GGGTAAAATG
* ** * *
122188440 GTAA-TTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTACA
* * *
122188504 AATCGATGGTAAAACG
66 AATCGAGGGCAAAACA
*
122188520 GTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTACA
***
122188585 AATCGAGGGCATTTCA
66 AATCGAGGGCAAAACA
122188601 GTAATTTTGTAAA
1 GTAATTTTGTAAA
122188614 CCAATGGTCT
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 4 0.05
81 77 0.95
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.31
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTACA
AATCGAGGGCAAAACA
Found at i:122188661 original size:29 final size:28
Alignment explanation
Indices: 122188584--122188691 Score: 98
Period size: 27 Copynumber: 3.9 Consensus size: 28
122188574 ATAATTCTAC
* * *
122188584 AAATCGAGGGCATTTCAGTAA-TTTTGT
1 AAATCAAGGGTATTTCTGTAATTTTTGT
* * * *
122188611 AAACCAATGGTCTTTCTATAATTTTTAG-
1 AAATCAAGGGTATTTCTGTAATTTTT-GT
122188639 AAAGTCAAGGGTATTTCTGTAA-TTTTGT
1 AAA-TCAAGGGTATTTCTGTAATTTTTGT
122188667 AAATCAAGGGTATTT-TGGTAATTTT
1 AAATCAAGGGTATTTCT-GTAATTTT
122188692 ACAAATTGAG
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
26 1 0.02
27 31 0.48
28 17 0.27
29 15 0.23
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (28 bp):
AAATCAAGGGTATTTCTGTAATTTTTGT
Found at i:122188689 original size:110 final size:108
Alignment explanation
Indices: 122188546--122188851 Score: 264
Period size: 110 Copynumber: 2.8 Consensus size: 108
122188536 AGGGTGAAAC
* *** * * ***
122188546 GGTAATTCTATAAATCAAGGGTAAAATGATAATTCTACAAATCGAGGGCATTTCAGTAATTTTGT
1 GGTAATTTTATAAATCAAGGGTATTTTGGTAATTCTACAAATCGAGGGCATTTCAATAATTTCAC
* * *
122188611 AAACCAA-TGGTCTTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCT
66 AAA-CAAGTGGTATTT-TGATAA-TTTTACAAACT-AAGGGTATTT-T
* * * *
122188657 -GTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAATAATTTCAC
1 GGTAATTTTATAAATCAAGGGTATTTTGGTAATTCTACAAATCGAGGGCATTTCAATAATTTCAC
122188721 AAACAAGTGGTATTTTGATAATTTTACAAACTAAGGGTATTTT
66 AAACAAGTGGTATTTTGATAATTTTACAAACTAAGGGTATTTT
* * * * * * * *
122188764 GGTAATTTTACAAA-CCAGGAGTATTTTGGTAATTTTATAAA-CAAAGGTATTTTC-ATAATTTT
1 GGTAATTTTATAAATCAAGG-GTATTTTGGTAATTCTACAAATCGAGGGCA-TTTCAATAATTTC
* * *
122188826 ACAAACCAGGGGTATTTTGGTAATTT
64 ACAAACAAGTGGTATTTTGATAATTT
122188852 GGTAAACTAA
Statistics
Matches: 163, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
107 40 0.25
108 45 0.28
109 13 0.08
110 65 0.40
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (108 bp):
GGTAATTTTATAAATCAAGGGTATTTTGGTAATTCTACAAATCGAGGGCATTTCAATAATTTCAC
AAACAAGTGGTATTTTGATAATTTTACAAACTAAGGGTATTTT
Found at i:122188822 original size:26 final size:26
Alignment explanation
Indices: 122188644--122188851 Score: 202
Period size: 27 Copynumber: 7.8 Consensus size: 26
122188634 TTTAGAAAGT
**
122188644 CAAGGGTATTTCTG-TAATTTTGTAAA
1 CAAGGGTATTT-TGATAATTTTACAAA
*
122188670 TCAAGGGTATTTTGGTAATTTTACAAA
1 -CAAGGGTATTTTGATAATTTTACAAA
** ** *
122188697 TTGAGGGTATTTCAATAATTTCACAAA
1 -CAAGGGTATTTTGATAATTTTACAAA
122188724 CAAGTGGTATTTTGATAATTTTACAAA
1 CAAG-GGTATTTTGATAATTTTACAAA
*
122188751 CTAAGGGTATTTTGGTAATTTTACAAA
1 C-AAGGGTATTTTGATAATTTTACAAA
* * *
122188778 CCAGGAGTATTTTGGTAATTTTATAAA
1 CAAGG-GTATTTTGATAATTTTACAAA
* *
122188805 CAAAGGTATTTTCATAATTTTACAAA
1 CAAGGGTATTTTGATAATTTTACAAA
* *
122188831 CCAGGGGTATTTTGGTAATTT
1 -CAAGGGTATTTTGATAATTT
122188852 GGTAAACTAA
Statistics
Matches: 151, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
26 25 0.17
27 123 0.81
28 3 0.02
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (26 bp):
CAAGGGTATTTTGATAATTTTACAAA
Found at i:122188858 original size:53 final size:54
Alignment explanation
Indices: 122188674--122188867 Score: 223
Period size: 54 Copynumber: 3.6 Consensus size: 54
122188664 TGTAAATCAA
* * * * * *
122188674 GGGTATTTTGGTAATTTTACAAATTGAGGGTA-TTTCAATAATTTCACAAACAAG
1 GGGTATTTTGGTAATTTTATAAACTAAAGGTATTTTC-ATAATTTTACAAACCAG
* * * * **
122188728 TGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACTAAAGGTATTTTCATAATTTTACAAACCAG
*
122188782 GAGTATTTTGGTAATTTTATAAAC-AAAGGTATTTTCATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACTAAAGGTATTTTCATAATTTTACAAACCAG
**
122188835 GGGTATTTTGGTAATTTGGTAAACTAAA-GTATT
1 GGGTATTTTGGTAATTTTATAAACTAAAGGTATT
122188868 CTAAACAGGG
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
53 52 0.43
54 65 0.54
55 3 0.03
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACTAAAGGTATTTTCATAATTTTACAAACCAG
Found at i:122195739 original size:17 final size:17
Alignment explanation
Indices: 122195717--122195765 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
122195707 CATACTTTTC
122195717 TCATACATTCAATCATT
1 TCATACATTCAATCATT
*
122195734 TCATACAATC-ATCA-T
1 TCATACATTCAATCATT
122195749 TCA-A-ATTCAATCTATT
1 TCATACATTCAATC-ATT
122195765 T
1 T
122195766 ATCCCTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 3 0.11
14 4 0.15
15 5 0.19
16 6 0.22
17 9 0.33
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCATACATTCAATCATT
Found at i:122197141 original size:29 final size:29
Alignment explanation
Indices: 122197108--122197187 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
122197098 ATTTGATTCC
122197108 CCGATGCCATAGTCCAACTATAG-TATTTT
1 CCGATGCCATAGTCCAACTAT-GTTATTTT
* *
122197137 CCGATGCCATAGCCCAACTATGTTGTTTT
1 CCGATGCCATAGTCCAACTATGTTATTTT
122197166 CCGATGCCATAGTCCAACTATG
1 CCGATGCCATAGTCCAACTATG
122197188 GTCTTACACA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 1 0.02
29 46 0.98
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (29 bp):
CCGATGCCATAGTCCAACTATGTTATTTT
Found at i:122205839 original size:22 final size:22
Alignment explanation
Indices: 122205812--122205941 Score: 152
Period size: 22 Copynumber: 5.8 Consensus size: 22
122205802 AGCTTCTTCA
122205812 AGCTGAACAGTAAGCTCTATTG
1 AGCTGAACAGTAAGCTCTATTG
* *
122205834 AACTGAAACTGTAAGCTCTATTG
1 AGCTG-AACAGTAAGCTCTATTG
*
122205857 AGTTGAACAGTAAGCTCTATTG
1 AGCTGAACAGTAAGCTCTATTG
* * *
122205879 AGCTGAACGGTAAGCTCAAATG
1 AGCTGAACAGTAAGCTCTATTG
* * *
122205901 AGCTGAACGGTAAGCTCCAATG
1 AGCTGAACAGTAAGCTCTATTG
*
122205923 AGCTAAAACAGTAAGCTCT
1 AGCT-GAACAGTAAGCTCT
122205942 TACGAGCTAT
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
22 63 0.68
23 30 0.32
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (22 bp):
AGCTGAACAGTAAGCTCTATTG
Found at i:122205907 original size:67 final size:67
Alignment explanation
Indices: 122205812--122205941 Score: 163
Period size: 67 Copynumber: 1.9 Consensus size: 67
122205802 AGCTTCTTCA
* * * * * **
122205812 AGCTGAACAGTAAGCTCTATTGAACTGAAACTGTAAGCTCTATTGAG-TTGAACAGTAAGCTCTA
1 AGCTGAACAGTAAGCTCAAATGAACTG-AACGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTA
122205876 TTG
65 TTG
* *
122205879 AGCTGAACGGTAAGCTCAAATGAGCTGAACGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCT
1 AGCTGAACAGTAAGCTCAAATGAACTGAACGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCT
122205942 TACGAGCTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 16 0.30
67 37 0.70
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (67 bp):
AGCTGAACAGTAAGCTCAAATGAACTGAACGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTAT
TG
Found at i:122205949 original size:67 final size:67
Alignment explanation
Indices: 122205799--122205949 Score: 155
Period size: 67 Copynumber: 2.3 Consensus size: 67
122205789 GTCATGGTCG
* * * * * * **
122205799 GTAAGCTTCTT-CAAGCTGAACAGTAAGCTCTATTGAACTGAAACTGTAAGCTCTATTGAGTTGA
1 GTAAGC-TCTTACGAGCTGAACAGTAAGCTCAAATGAACTGAAACGGTAAGCTCCAATGAGTAAA
122205863 ACA
65 ACA
* * *
122205866 GTAAGCTC-TATTGAGCTGAACGGTAAGCTCAAATGAGCTG-AACGGTAAGCTCCAATGAGCTAA
1 GTAAGCTCTTA-CGAGCTGAACAGTAAGCTCAAATGAACTGAAACGGTAAGCTCCAATGAG-TAA
122205929 AACA
64 AACA
122205933 GTAAGCTCTTACGAGCT
1 GTAAGCTCTTACGAGCT
122205950 ATGGTGAGTC
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
65 1 0.01
66 18 0.26
67 47 0.69
68 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (67 bp):
GTAAGCTCTTACGAGCTGAACAGTAAGCTCAAATGAACTGAAACGGTAAGCTCCAATGAGTAAAA
CA
Found at i:122210703 original size:41 final size:41
Alignment explanation
Indices: 122210657--122210781 Score: 130
Period size: 41 Copynumber: 3.0 Consensus size: 41
122210647 TTTGTGCGTT
* *
122210657 TTGAGATAGATTCGGCTATATATAGCACTTAGTGTGCGAGG
1 TTGAGATAGCTTCGGCTATATATAGCACTTAGTGTGCGAGA
* *
122210698 TTGAGATAGCTTCGGCTATGA-A-AGACACTTAGTGTGCAAAA
1 TTGAGATAGCTTCGGCTAT-ATATAG-CACTTAGTGTGCGAGA
* * *
122210739 TT-ATAATAGCTTCGGCTAATCTTTAGCACTTAGTGTGCGAGA
1 TTGA-GATAGCTTCGGCT-ATATATAGCACTTAGTGTGCGAGA
122210781 T
1 T
122210782 ATCGAGTATT
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
40 3 0.04
41 46 0.67
42 18 0.26
43 2 0.03
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (41 bp):
TTGAGATAGCTTCGGCTATATATAGCACTTAGTGTGCGAGA
Found at i:122212973 original size:83 final size:80
Alignment explanation
Indices: 122212828--122213021 Score: 273
Period size: 83 Copynumber: 2.4 Consensus size: 80
122212818 TATTCGGATG
*
122212828 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCCAGGCTAAGTCCCGAAGGCA
122212893 TTTGTGCTAGTGACT
66 TTTGTGCTAGTGACT
* * * * *
122212908 ATATCCAGGCGAAGTCTCGAAAGCATTTGTGCGAGTAGTTG-CTATACCCGGGCTAAGTCCCGAA
1 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGC---TAG-TGACTATACCCAGGCTAAGTCCCGAA
122212972 GGCATTTGTGCTAGTGACT
62 GGCATTTGTGCTAGTGACT
* *
122212991 ATATCCGGGCTAAGACCCGAAGGCATTTGTG
1 ATATCCGGGCCAAGTCCCGAAGGCATTTGTG
122213022 TGAATTGCTA
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 28 0.28
83 69 0.70
84 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCCAGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:122213038 original size:40 final size:40
Alignment explanation
Indices: 122212828--122213021 Score: 273
Period size: 40 Copynumber: 4.8 Consensus size: 40
122212818 TATTCGGATG
*
122212828 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
122212868 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
122212908 ATATCCAGGCGAAGTCTCGAAAGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
122212951 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
122212991 ATATCCGGGCTAAGACCCGAAGGCATTTGTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG
122213022 TGAATTGCTA
Statistics
Matches: 137, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.01
40 101 0.74
43 32 0.23
44 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:122221425 original size:42 final size:42
Alignment explanation
Indices: 122221366--122221445 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
122221356 CCAAGATTCA
* *
122221366 TCACACTATCCCAGTTCATAAATATGGCATGTATAGCTAGAC
1 TCACACTATACCAGTTCATAAATATGCCATGTATAGCTAGAC
*
122221408 TCACACTATAGCAGTTCATAAATATGCCATGTATAGCT
1 TCACACTATACCAGTTCATAAATATGCCATGTATAGCT
122221446 CTGATACCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (42 bp):
TCACACTATACCAGTTCATAAATATGCCATGTATAGCTAGAC
Found at i:122223094 original size:40 final size:40
Alignment explanation
Indices: 122222986--122223195 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
122222976 CGGGATTTAA
* * * * *
122222986 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
122223026 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
122223066 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
122223106 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
122223146 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
122223186 CCGGATATAT
1 CCGGATATAT
122223196 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:122231486 original size:40 final size:40
Alignment explanation
Indices: 122231427--122231595 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
122231417 CGGGACTTTA
* * *
122231427 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
122231467 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
122231507 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
122231547 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
122231587 CCCGGATAT
1 CCCGGATAT
122231596 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:122241104 original size:29 final size:27
Alignment explanation
Indices: 122241070--122241172 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
122241060 TACTCAATCA
*
122241070 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
122241099 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
122241128 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
122241157 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
122241173 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:122244082 original size:21 final size:22
Alignment explanation
Indices: 122244049--122244089 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
122244039 TTCATTTATG
*
122244049 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
122244070 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
122244090 AAATGCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:122244523 original size:26 final size:26
Alignment explanation
Indices: 122244494--122244553 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 26
122244484 ACCCTTTGAA
* *
122244494 TCATTCGATATTTCGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
122244520 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
122244548 TCATTC
1 TCATTC
122244554 TTAATATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 23 0.77
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:122244537 original size:28 final size:28
Alignment explanation
Indices: 122244501--122244575 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
122244491 GAATCATTCG
122244501 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
122244529 ATATCTCGCACACTAAGTGTCATTCTTA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
122244557 ATATTTCGTACACTGAGTG
1 ATATTTCGCACACTAAGTG
122244576 CCATATTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:122246342 original size:18 final size:17
Alignment explanation
Indices: 122246285--122246342 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
122246275 CCCACTCACT
122246285 TTTTCAATTT-TCTTTTC
1 TTTTCAATTTCT-TTTTC
*
122246302 TTGATCAATTTCTTTTTC
1 TT-TTCAATTTCTTTTTC
122246320 TTTTTCAATTTCGTTTTTC
1 -TTTTCAATTTC-TTTTTC
122246339 TTTT
1 TTTT
122246343 TCTCACTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 2 0.06
18 24 0.69
19 9 0.26
ACGTcount: A:0.12, C:0.16, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTCAATTTCTTTTTC
Found at i:122247296 original size:15 final size:15
Alignment explanation
Indices: 122247264--122247292 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
122247254 AAAGACTTCA
122247264 ATATTTCACTTTTTT
1 ATATTTCACTTTTTT
122247279 ATATTT-ACTTTTTT
1 ATATTTCACTTTTTT
122247293 TATAATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (15 bp):
ATATTTCACTTTTTT
Found at i:122249492 original size:17 final size:18
Alignment explanation
Indices: 122249462--122249495 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
122249452 AATAACTCAT
122249462 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
122249480 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
122249496 ACTCAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:122249506 original size:19 final size:19
Alignment explanation
Indices: 122249482--122249533 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
122249472 AAGATGAGTT
122249482 ATTAACTAAGATGAACTCA
1 ATTAACTAAGATGAACTCA
* * *
122249501 ATTAACTAAAAAGAACTCG
1 ATTAACTAAGATGAACTCA
* *
122249520 ACTAGCTAAGATGA
1 ATTAACTAAGATGA
122249534 GTAATTTATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.23
Consensus pattern (19 bp):
ATTAACTAAGATGAACTCA
Found at i:122260403 original size:40 final size:40
Alignment explanation
Indices: 122260358--122260525 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
122260348 CGGAATATAA
122260358 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
122260398 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
122260438 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
122260478 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
122260518 CCGGATAT
1 CCGGATAT
122260526 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:122260508 original size:80 final size:80
Alignment explanation
Indices: 122260374--122260523 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
122260364 ATAACCACGT
* *
122260374 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
122260439 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
122260454 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
122260517 CCCGGAT
64 CCCGGAT
122260524 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:122266737 original size:19 final size:19
Alignment explanation
Indices: 122266705--122266756 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
122266695 AAGATAAGTT
*
122266705 ATTAACTAAGATGAACTCA
1 ATTAACTAAAATGAACTCA
*
122266724 ATTAAGTAAAATGAACTCA
1 ATTAACTAAAATGAACTCA
*
122266743 ATTAACTAAGATGA
1 ATTAACTAAAATGA
122266757 GTAATTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (19 bp):
ATTAACTAAAATGAACTCA
Found at i:122269717 original size:23 final size:23
Alignment explanation
Indices: 122269685--122269738 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
122269675 AGACAAATTA
*
122269685 AATTCGGCATCCATAATATGCTC
1 AATTCAGCATCCATAATATGCTC
122269708 AATTCAGCATCCATAATATGCTC
1 AATTCAGCATCCATAATATGCTC
122269731 AATTCAGC
1 AATTCAGC
122269739 TGGGACAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (23 bp):
AATTCAGCATCCATAATATGCTC
Found at i:122271857 original size:20 final size:19
Alignment explanation
Indices: 122271834--122271893 Score: 83
Period size: 20 Copynumber: 3.3 Consensus size: 19
122271824 TAAACATGGT
122271834 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
122271853 CATGTATGATATGCACATG-
1 -ATGTATGATATGCACATGA
122271872 A--TATGATATGCACATG-
1 ATGTATGATATGCACATGA
122271888 ATGTAT
1 ATGTAT
122271894 TCATAAATGC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
16 16 0.42
18 4 0.11
20 18 0.47
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (19 bp):
ATGTATGATATGCACATGA
Found at i:122271878 original size:16 final size:16
Alignment explanation
Indices: 122271838--122271889 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
122271828 CATGGTATGT
*
122271838 ATGATATGCACATG-AC
1 ATGATATG-ATATGCAC
122271854 ATG-TATGATATGCAC
1 ATGATATGATATGCAC
122271869 ATGATATGATATGCAC
1 ATGATATGATATGCAC
122271885 ATGAT
1 ATGAT
122271890 GTATTCATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
14 4 0.12
15 9 0.27
16 20 0.61
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGATATGATATGCAC
Found at i:122271965 original size:24 final size:24
Alignment explanation
Indices: 122271938--122272010 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
122271928 GGAGGAAGTG
122271938 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
122271962 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
122271986 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
122272011 ATGATAAAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 34 0.76
25 11 0.24
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:122282635 original size:25 final size:25
Alignment explanation
Indices: 122282607--122282654 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
122282597 TTATAATATG
* * *
122282607 AAAACGACCGTTTTGCCCCTAGGTA
1 AAAACGACCATTATACCCCTAGGTA
*
122282632 AAAATGACCATTATACCCCTAGG
1 AAAACGACCATTATACCCCTAGG
122282655 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (25 bp):
AAAACGACCATTATACCCCTAGGTA
Found at i:122282721 original size:20 final size:19
Alignment explanation
Indices: 122282698--122282757 Score: 83
Period size: 20 Copynumber: 3.3 Consensus size: 19
122282688 TAAACATGGT
122282698 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
122282717 CATGTATGATATGCACATG-
1 -ATGTATGATATGCACATGA
122282736 A--TATGATATGCACATG-
1 ATGTATGATATGCACATGA
122282752 ATGTAT
1 ATGTAT
122282758 TCATAAATGC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
16 16 0.42
18 4 0.11
20 18 0.47
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (19 bp):
ATGTATGATATGCACATGA
Found at i:122282742 original size:16 final size:16
Alignment explanation
Indices: 122282702--122282753 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
122282692 CATGGTATGT
*
122282702 ATGATATGCACATG-AC
1 ATGATATG-ATATGCAC
122282718 ATG-TATGATATGCAC
1 ATGATATGATATGCAC
122282733 ATGATATGATATGCAC
1 ATGATATGATATGCAC
122282749 ATGAT
1 ATGAT
122282754 GTATTCATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
14 4 0.12
15 9 0.27
16 20 0.61
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGATATGATATGCAC
Found at i:122282922 original size:73 final size:73
Alignment explanation
Indices: 122282803--122282951 Score: 271
Period size: 73 Copynumber: 2.0 Consensus size: 73
122282793 GAGGAAGTGC
*
122282803 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
122282868 AGTTATTA
66 AGTTATTA
* *
122282876 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTTGCCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
122282941 AGTTATTA
66 AGTTATTA
122282949 AAA
1 AAA
122282952 GAGGCTAGGC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (73 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTATTA
Found at i:122282970 original size:73 final size:73
Alignment explanation
Indices: 122282803--122282972 Score: 254
Period size: 73 Copynumber: 2.3 Consensus size: 73
122282793 GAGGAAGTGC
* *
122282803 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCC
1 AAAAGGGCTTAGGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
122282868 AGTTATTA
66 AGTTATTA
* * *
122282876 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTTGCCCC
1 AAAAGGGCTTAGGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
122282941 AGTTATT-
66 AGTTATTA
*
122282948 AAAAGAGGC-TAGGCCTCTAGTTATC
1 AAAAG-GGCTTAGGCC-CCAGTTATC
122282973 TGATAAAGCA
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
72 10 0.11
73 79 0.89
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (73 bp):
AAAAGGGCTTAGGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTATTA
Found at i:122282971 original size:25 final size:24
Alignment explanation
Indices: 122282803--122282957 Score: 265
Period size: 24 Copynumber: 6.4 Consensus size: 24
122282793 GAGGAAGTGC
*
122282803 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
122282827 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
122282851 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
122282875 AAAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
122282900 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
122282924 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
122282948 AAAAGAGGCT
1 AAAAG-GGCT
122282958 AGGCCTCTAG
Statistics
Matches: 125, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
24 97 0.78
25 28 0.22
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:122288923 original size:66 final size:68
Alignment explanation
Indices: 122288847--122289033 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
122288837 TAGTACCACT
*
122288847 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
122288909 CACG
65 CACG
122288913 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
122288978 ATCACG
63 ATCACG
122288984 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
122289034 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:122288958 original size:71 final size:71
Alignment explanation
Indices: 122288870--122289033 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
122288860 CGATTTGTCT
122288870 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
122288935 CTTTCA
66 CTTTCA
122288941 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
122289006 CTTTCA
66 CTTTCA
122289012 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
122289034 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:122289071 original size:71 final size:70
Alignment explanation
Indices: 122288870--122289067 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
122288860 CGATTTGTCT
* * *
122288870 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
122288935 CTTTCA
65 CTTTCA
* * *
122288941 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
122289006 CTTTCA
65 CTTTCA
* *
122289012 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
122289068 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:122296490 original size:66 final size:68
Alignment explanation
Indices: 122296414--122296600 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
122296404 TAGTACCACT
*
122296414 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
122296476 CACG
65 CACG
122296480 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
122296545 ATCACG
63 ATCACG
122296551 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
122296601 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:122296525 original size:71 final size:71
Alignment explanation
Indices: 122296437--122296600 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
122296427 CGATTTGTCT
122296437 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
122296502 CTTTCA
66 CTTTCA
122296508 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
122296573 CTTTCA
66 CTTTCA
122296579 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
122296601 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:122296638 original size:71 final size:70
Alignment explanation
Indices: 122296437--122296634 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
122296427 CGATTTGTCT
* * *
122296437 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
122296502 CTTTCA
65 CTTTCA
* * *
122296508 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
122296573 CTTTCA
65 CTTTCA
* *
122296579 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
122296635 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:122307806 original size:93 final size:93
Alignment explanation
Indices: 122307694--122307865 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
122307684 CGCCCATAAG
* *
122307694 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
122307759 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
122307787 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
122307852 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
122307866 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:122307862 original size:46 final size:46
Alignment explanation
Indices: 122307687--122307862 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
122307677 TGTAACCCGC
* * *
122307687 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
122307733 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
122307783 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
122307826 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
122307863 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:122311731 original size:40 final size:40
Alignment explanation
Indices: 122311674--122311859 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
122311664 TCGAATGATG
* * * *
122311674 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
122311714 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
122311754 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
122311794 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
122311835 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
122311860 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:122311866 original size:80 final size:79
Alignment explanation
Indices: 122311727--122311882 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
122311717 GGACTAAGAT
* **
122311727 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
122311791 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
122311807 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
122311870 TATATCCGGTTAA
64 TAAATCCGGTTAA
122311883 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:122317312 original size:56 final size:56
Alignment explanation
Indices: 122317252--122317382 Score: 181
Period size: 56 Copynumber: 2.3 Consensus size: 56
122317242 CAGATAGGGT
* *
122317252 CTTACTCGTACATATATATCGGAATCACATATCGATGCCAACGTATAAAACATGGC
1 CTTACTCGTACACATATATCGAAATCACATATCGATGCCAACGTATAAAACATGGC
** * * ** *
122317308 CTTACTCGTACACATATATCGAAATCATGTATTGATGCCAACGTTTAAAATGTGGT
1 CTTACTCGTACACATATATCGAAATCACATATCGATGCCAACGTATAAAACATGGC
122317364 CTTACTCGTACACATATAT
1 CTTACTCGTACACATATAT
122317383 TGATGCCATG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (56 bp):
CTTACTCGTACACATATATCGAAATCACATATCGATGCCAACGTATAAAACATGGC
Found at i:122318610 original size:28 final size:28
Alignment explanation
Indices: 122318578--122318643 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
122318568 TGGGAAGTAG
* *
122318578 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAACGAGA
* *
122318606 TTGGGCCTGATGGGCTATATGAACGAGA
1 TTGGGCCTAATGGGCCATATGAACGAGA
122318634 TTGGGCCTAA
1 TTGGGCCTAA
122318644 AATGGCCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAACGAGA
Found at i:122319471 original size:27 final size:27
Alignment explanation
Indices: 122318958--122319460 Score: 435
Period size: 27 Copynumber: 18.7 Consensus size: 27
122318948 TAATAAAAAG
* * * *
122318958 AAATTATCGAAACACCCCCGGTTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
122318985 AAATTATCGAAATACCATCGATTTGCA
1 AAATTACCGAAATACCCTCGATTTGTA
** * *
122319012 AAATTATTGAAATACCCTCAAATTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
122319039 ATATTACCGAAATATCCTCGA-TTCTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
122319065 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * * *
122319092 AAATTTTCG-AACACCCTCAATTTTTA
1 AAATTACCGAAATACCCTCGATTTGTA
* **
122319118 AAATTACCAAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
122319145 AAATTACTGAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
***
122319172 AAATTATTAAAATACCCTC-AGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTA
** ** *
122319199 AAATTATTGAAATACCCTTAATTTTTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
122319226 AAATTACCGAAATACCATCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
122319252 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
122319279 AAATTACCAAAACACCTTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
122319306 GAATTATCGAAACACCATCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
122319333 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
122319360 AAATTACTGAAATACCTTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
122319387 AAATTACCGAAACATCCC-CGATTTGTA
1 AAATTACCGAAATA-CCCTCGATTTGTA
* * * * *
122319414 AAATCATCGAAATACCTTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
*
122319441 AAATTACCAAAATACCCTCG
1 AAATTACCGAAATACCCTCG
122319461 TAGTGTAAAA
Statistics
Matches: 385, Mismatches: 81, Indels: 20
0.79 0.17 0.04
Matches are distributed among these distances:
26 69 0.18
27 312 0.81
28 4 0.01
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:122319484 original size:27 final size:27
Alignment explanation
Indices: 122319423--122319474 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
122319413 AAAATCATCG
* * *
122319423 AAATACCTTTGTAGTGTAAAATTACCA
1 AAATACCCTCGTAGTGTAAAATGACCA
122319450 AAATACCCTCGTAGTGTAAAATGAC
1 AAATACCCTCGTAGTGTAAAATGAC
122319475 GGACATACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (27 bp):
AAATACCCTCGTAGTGTAAAATGACCA
Found at i:122323621 original size:27 final size:26
Alignment explanation
Indices: 122323585--122323715 Score: 111
Period size: 27 Copynumber: 4.8 Consensus size: 26
122323575 ATAGCCCCAG
*
122323585 TTGTAAAATTACCAAAGTACCCTCGGT
1 TTGTAAAATTACCAAA-TACCCTCGAT
* * *
122323612 TTATAAAATTACCCAAATATCTTCGAT
1 TTGTAAAATTA-CCAAATACCCTCGAT
*
122323639 TTGTAAAATTATCGAAATACCCTC-AGT
1 TTGTAAAATTA-CCAAATACCCTCGA-T
* * *
122323666 TTGCAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAT
* *
122323693 ATGTAAAATTATCAAAGTACCCT
1 TTGTAAAATTACCAAA-TACCCT
122323716 AGAATTACAA
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
26 5 0.06
27 73 0.87
28 6 0.07
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAT
Found at i:122323661 original size:54 final size:54
Alignment explanation
Indices: 122323585--122323730 Score: 161
Period size: 54 Copynumber: 2.7 Consensus size: 54
122323575 ATAGCCCCAG
* * * * * *
122323585 TTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATTACCCAAATATCTTCGAT
1 TTGTAAAATTATCAAAGTACCCTCAGTTTACAAAATTACCCAAATACCCTCGAC
* **
122323639 TTGTAAAATTATCGAAA-TACCCTCAGTTTGCAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTATC-AAAGTACCCTCAGTTTACAAAATTACCCAAATACCCTCGAC
* *
122323693 ATGTAAAATTATCAAAGTACCCT-AGAATTACAAAATTA
1 TTGTAAAATTATCAAAGTACCCTCAG-TTTACAAAATTA
122323731 ATGTTTTACC
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
53 5 0.06
54 69 0.90
55 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
TTGTAAAATTATCAAAGTACCCTCAGTTTACAAAATTACCCAAATACCCTCGAC
Found at i:122323795 original size:81 final size:80
Alignment explanation
Indices: 122323710--122323904 Score: 248
Period size: 81 Copynumber: 2.4 Consensus size: 80
122323700 ATTATCAAAG
* * * * *
122323710 TACCCTAGAATTACAAAATTAATGTTTTACCCTCAATTTATAGAATTA-CTATTTTACCCTTGAT
1 TACCCT-GAATTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCT-TTTTACCCTCGAT
122323774 TTACAAAATTACCGTTT
64 TTACAAAATTACCGTTT
* ** *
122323791 TACCCTCAATTGACAGAATTACCATTTTACCCTCGATTTACAAAATTACCTTTTTACCCTCGATT
1 TACCCTGAATT-ACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCTTTTTACCCTCGATT
*
122323856 TAGAAAATTACCGTTT
65 TACAAAATTACCGTTT
*
122323872 TACCCTTGATTTACAGAATTACTGTTTTACCCT
1 TACCC-TGAATTACAGAATTACTGTTTTACCCT
122323905 TAGGGTGTTA
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
80 4 0.04
81 87 0.90
82 6 0.06
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (80 bp):
TACCCTGAATTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCTTTTTACCCTCGATTT
ACAAAATTACCGTTT
Found at i:122323905 original size:27 final size:27
Alignment explanation
Indices: 122323710--122323904 Score: 212
Period size: 27 Copynumber: 7.2 Consensus size: 27
122323700 ATTATCAAAG
* * *
122323710 TACCCTAGAATTACAAAATTAATGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * *
122323737 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
122323764 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * * **
122323791 TACCCTCAATTGACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
122323818 TACCCTCGATTTACAAAATTACCT-TTT
1 TACCCTCGATTTACAAAATTA-CTGTTT
* *
122323845 TACCCTCGATTTAGAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
122323872 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
122323899 TACCCT
1 TACCCT
122323905 TAGGGTGTTA
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 136 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:122324259 original size:26 final size:27
Alignment explanation
Indices: 122324230--122324289 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
122324220 CCACATCTAT
*
122324230 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
122324256 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
122324283 ATATCTG
1 ATATCTG
122324290 GCAGCCTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:122324443 original size:31 final size:31
Alignment explanation
Indices: 122324408--122324517 Score: 118
Period size: 31 Copynumber: 3.5 Consensus size: 31
122324398 TTGCATTCAC
*
122324408 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * * *
122324439 ATTCTGATTCTAATTCTATCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
122324470 ATTCTGATTCTGATTCTGATT--CTG-TCACCTG
1 ATTCTGATTCTGATTCTG-TTACCTGAT-A-CTG
122324501 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
122324518 CATTTTGATT
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
29 1 0.02
30 2 0.03
31 61 0.94
32 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:122324447 original size:6 final size:6
Alignment explanation
Indices: 122324408--122324538 Score: 99
Period size: 6 Copynumber: 21.3 Consensus size: 6
122324398 TTGCATTCAC
* * *
122324408 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
122324456 ATCACCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
122324507 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
122324539 AATGTTTCTT
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
5 6 0.06
6 81 0.81
7 9 0.09
8 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:122324527 original size:37 final size:37
Alignment explanation
Indices: 122324408--122324529 Score: 148
Period size: 37 Copynumber: 3.5 Consensus size: 37
122324398 TTGCATTCAC
* *
122324408 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
* *
122324445 ATTCT-A-----ATTCTATCACCTAATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
122324476 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
*
122324513 ATTCTCATTTTGATTCT
1 ATTCTGATTTTGATTCT
122324530 AGTTCTGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
31 26 0.37
32 1 0.01
36 1 0.01
37 43 0.61
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (37 bp):
ATTCTGATTTTGATTCTGTCACCTGATTCTGATTCTG
Found at i:122325339 original size:81 final size:80
Alignment explanation
Indices: 122325166--122325650 Score: 496
Period size: 81 Copynumber: 6.0 Consensus size: 80
122325156 CGAAATACTA
* * * * ** ** *
122325166 TCAATTTGCAAAATTA-CTGAAATACCCTTGATTTGTAATATTACCGAAATATCCTCGA-TTCTA
1 TCAATTTGTAAAATTATC-GAAACACCCTCGATTTGTAAAATTACTAAAATA-CCTTTATTTGTA
*
122325229 AAATTACTAAAATACCC
64 AAATTACCAAAATACCC
* * *
122325246 TCAATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAGTTACTAAAATACCTTTACTTTGTAA
1 TCAATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTAAAATACCTTTA-TTTGTAA
**
122325311 AATTACTGAAATACCC
65 AATTACCAAAATACCC
* * * * * * *
122325327 CCAATTTATAAAATTA-CTAAAATACCCTCGATTTGTAAAATTATTGAAATACCCTTAATTTGTA
1 TCAATTTGTAAAATTATC-GAAACACCCTCGATTTGTAAAATTACTAAAATA-CCTTTATTTGTA
*
122325391 AAATTACCGAAATACCC
64 AAATTACCAAAATACCC
** * * * *
122325408 TCAA-TTGTAAAATTATTAAAATACCCTTGATTTGTAAAATTACTAAAACACCCTCTATTTGTAA
1 TCAATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTAAAATA-CCTTTATTTGTAA
*
122325472 AATTACCAAAACACCC
65 AATTACCAAAATACCC
* *
122325488 TCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTAAAATACCCTTGATTTGTAA
1 TCAATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTAAAATA-CCTTTATTTGTAA
*
122325553 AATTACCGAAATACCC
65 AATTACCAAAATACCC
* * * *
122325569 TCGATTTGTAAAATTATCGAAACATCCCT-AATTTGTAAAATTA-TCAAAATACCTTTGTAGTGT
1 TCAATTTGTAAAATTATCGAAACA-CCCTCGATTTGTAAAATTACT-AAAATACCTTTAT-TTGT
*
122325632 AAAATTACTAAAATACCC
63 AAAATTACCAAAATACCC
122325650 T
1 T
122325651 TGTAGTGTAA
Statistics
Matches: 346, Mismatches: 49, Indels: 19
0.84 0.12 0.05
Matches are distributed among these distances:
79 4 0.01
80 116 0.34
81 217 0.63
82 9 0.03
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (80 bp):
TCAATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTAAAATACCTTTATTTGTAAA
ATTACCAAAATACCC
Found at i:122325663 original size:27 final size:27
Alignment explanation
Indices: 122325169--122325652 Score: 437
Period size: 27 Copynumber: 18.0 Consensus size: 27
122325159 AATACTATCA
* *
122325169 ATTTGCAAAATTACTGAAATACCCTTG
1 ATTTGTAAAATTACTAAAATACCCTTG
* ** * *
122325196 ATTTGTAATATTACCGAAATATCCTCG
1 ATTTGTAAAATTACTAAAATACCCTTG
* **
122325223 A-TTCTAAAATTACTAAAATACCCTCA
1 ATTTGTAAAATTACTAAAATACCCTTG
** * **
122325249 ATTTGTAAAATTACCGAAACACCCTCA
1 ATTTGTAAAATTACTAAAATACCCTTG
* *
122325276 ATTTGTAAAGTTACTAAAATA-CCTTT
1 ATTTGTAAAATTACTAAAATACCCTTG
* ***
122325302 ACTTTGTAAAATTACTGAAATACCCCCA
1 A-TTTGTAAAATTACTAAAATACCCTTG
* *
122325330 ATTTATAAAATTACTAAAATACCCTCG
1 ATTTGTAAAATTACTAAAATACCCTTG
* * *
122325357 ATTTGTAAAATTATTGAAATACCCTTA
1 ATTTGTAAAATTACTAAAATACCCTTG
** *
122325384 ATTTGTAAAATTACCGAAATACCC-TC
1 ATTTGTAAAATTACTAAAATACCCTTG
* *
122325410 AATTGTAAAATTATTAAAATACCCTTG
1 ATTTGTAAAATTACTAAAATACCCTTG
*
122325437 ATTTGTAAAATTACTAAAACACCCTCT-
1 ATTTGTAAAATTACTAAAATACCCT-TG
* * *
122325464 ATTTGTAAAATTACCAAAACACCCTCG
1 ATTTGTAAAATTACTAAAATACCCTTG
* * *
122325491 ATTTGTAAAATTA-TCGAAACACCCTCG
1 ATTTGTAAAATTACT-AAAATACCCTTG
122325518 ATTTGTAAAATTACTAAAATACCCTTG
1 ATTTGTAAAATTACTAAAATACCCTTG
** *
122325545 ATTTGTAAAATTACCGAAATACCCTCG
1 ATTTGTAAAATTACTAAAATACCCTTG
* *
122325572 ATTTGTAAAATTATCGAAACAT-CCC-TA
1 ATTTGTAAAATTA-CTAAA-ATACCCTTG
*
122325599 ATTTGTAAAATTA-TCAAAATACCTTTG
1 ATTTGTAAAATTACT-AAAATACCCTTG
*
122325626 -TAGTGTAAAATTACTAAAATACCCTTG
1 AT-TTGTAAAATTACTAAAATACCCTTG
122325653 TAGTGTAAAA
Statistics
Matches: 377, Mismatches: 65, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
25 2 0.01
26 51 0.14
27 310 0.82
28 12 0.03
29 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
ATTTGTAAAATTACTAAAATACCCTTG
Found at i:122325674 original size:27 final size:27
Alignment explanation
Indices: 122325602--122325693 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
122325592 ATCCCTAATT
* * *
122325602 TGTAAAATTATCAAAATACCTTTGTAG
1 TGTAAAATGACCAAAATACCCTTGTAG
* *
122325629 TGTAAAATTACTAAAATACCCTTGTAG
1 TGTAAAATGACCAAAATACCCTTGTAG
* * * *
122325656 TGTAAAATGACCGACATACCCCTATAG
1 TGTAAAATGACCAAAATACCCTTGTAG
*
122325683 GGTAAAATGAC
1 TGTAAAATGAC
122325694 TGTTTTGCCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.29
Consensus pattern (27 bp):
TGTAAAATGACCAAAATACCCTTGTAG
Found at i:122342169 original size:18 final size:18
Alignment explanation
Indices: 122342146--122342194 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
122342136 CTTGGCCCAT
122342146 TGCAGTAACAATAGA-CAG
1 TGCAGTAACAATA-ATCAG
* *
122342164 TGCAGTAATAGTAATCAG
1 TGCAGTAACAATAATCAG
122342182 TGCAGTAACAATA
1 TGCAGTAACAATA
122342195 TACAAGTCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.22
Consensus pattern (18 bp):
TGCAGTAACAATAATCAG
Found at i:122342744 original size:27 final size:27
Alignment explanation
Indices: 122342504--122342736 Score: 333
Period size: 27 Copynumber: 8.6 Consensus size: 27
122342494 ACACACACAT
**
122342504 CACATAAGGGCAAAATAGTCAACTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
122342531 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
122342558 CACATAAGGGCAGAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
122342585 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
122342612 CACATAGGGGAAAAAGAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
122342639 CACAAAAGGGCAAAACA-TCCATTTTAC
1 CACATAAGGGCAAAATAGT-CATTTTAC
*
122342666 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
122342693 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
122342720 CACATAATGACAAAATA
1 CACATAAGGGCAAAATA
122342737 ATAATTTTGA
Statistics
Matches: 185, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 183 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:122345277 original size:27 final size:27
Alignment explanation
Indices: 122345235--122345417 Score: 251
Period size: 27 Copynumber: 6.8 Consensus size: 27
122345225 ACACAAGAGA
* *
122345235 AAAATAGTCATCTTACCATATAAGGGC
1 AAAATAGTCATTTTACCACATAAGGGC
* *
122345262 AAAATAGTCATTTTACCATATAAGGGA
1 AAAATAGTCATTTTACCACATAAGGGC
122345289 AAAATAGTCATTTTACCACATAAGGGC
1 AAAATAGTCATTTTACCACATAAGGGC
* * *
122345316 AAAACAGTCATTTTATCATATAAGGGC
1 AAAATAGTCATTTTACCACATAAGGGC
*
122345343 AAAACT-GTCATTTTACCACATAAGAGC
1 AAAA-TAGTCATTTTACCACATAAGGGC
* *
122345370 AAAACAGTCATTTTACCACATAAGGGA
1 AAAATAGTCATTTTACCACATAAGGGC
*
122345397 AAAACAGTCATTTTACCACAT
1 AAAATAGTCATTTTACCACAT
122345418 CAGGCTAAGA
Statistics
Matches: 140, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (27 bp):
AAAATAGTCATTTTACCACATAAGGGC
Done.