Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 76 of 290
Found at i:25190596 original size:40 final size:40
Alignment explanation
Indices: 25190379--25190596 Score: 223
Period size: 40 Copynumber: 5.5 Consensus size: 40
25190369 AAATCACGTA
* * **
25190379 CCTTCGGAACTTA-ACCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
25190418 CCTTCGGGACATAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
25190458 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
25190498 CCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * * *
25190537 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACAAATG
25190577 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
25190597 CATCATTCGA
Statistics
Matches: 148, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 43 0.29
40 91 0.61
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:25198731 original size:39 final size:39
Alignment explanation
Indices: 25198606--25198788 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 39
25198596 GCTACTCGTT
* *
25198606 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
* *
25198646 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCTCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* * *
25198686 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-ATTTAGTAACTCGCA
* * * * * *
25198725 CAAATGCCTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCA
25198766 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
25198789 GACATCATTC
Statistics
Matches: 116, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
38 2 0.02
39 32 0.28
40 66 0.57
41 16 0.14
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:25202022 original size:214 final size:214
Alignment explanation
Indices: 25201653--25202080 Score: 856
Period size: 214 Copynumber: 2.0 Consensus size: 214
25201643 CGCCTGTGTT
25201653 CTTTTTGACAATGTCGATCACGGGTGAATGACACGGACTATCGCACGCCCGTGTTAAATTCTGAA
1 CTTTTTGACAATGTCGATCACGGGTGAATGACACGGACTATCGCACGCCCGTGTTAAATTCTGAA
25201718 TTTTAACCACGGCTTCAAGGCACGGGTGTGTCTCACACCTATGTTATTTTGGCAGTTTTGCCCAT
66 TTTTAACCACGGCTTCAAGGCACGGGTGTGTCTCACACCTATGTTATTTTGGCAGTTTTGCCCAT
25201783 GTCCATGTCGCATGGCCGTGGCAACTTATCGCATCTTGTGTTGTGGAAAAACTTTTGCCCTGTTT
131 GTCCATGTCGCATGGCCGTGGCAACTTATCGCATCTTGTGTTGTGGAAAAACTTTTGCCCTGTTT
25201848 TTACACGGCCGTATCGCAC
196 TTACACGGCCGTATCGCAC
25201867 CTTTTTGACAATGTCGATCACGGGTGAATGACACGGACTATCGCACGCCCGTGTTAAATTCTGAA
1 CTTTTTGACAATGTCGATCACGGGTGAATGACACGGACTATCGCACGCCCGTGTTAAATTCTGAA
25201932 TTTTAACCACGGCTTCAAGGCACGGGTGTGTCTCACACCTATGTTATTTTGGCAGTTTTGCCCAT
66 TTTTAACCACGGCTTCAAGGCACGGGTGTGTCTCACACCTATGTTATTTTGGCAGTTTTGCCCAT
25201997 GTCCATGTCGCATGGCCGTGGCAACTTATCGCATCTTGTGTTGTGGAAAAACTTTTGCCCTGTTT
131 GTCCATGTCGCATGGCCGTGGCAACTTATCGCATCTTGTGTTGTGGAAAAACTTTTGCCCTGTTT
25202062 TTACACGGCCGTATCGCAC
196 TTACACGGCCGTATCGCAC
25202081 GGTCGTGTCT
Statistics
Matches: 214, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 214 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (214 bp):
CTTTTTGACAATGTCGATCACGGGTGAATGACACGGACTATCGCACGCCCGTGTTAAATTCTGAA
TTTTAACCACGGCTTCAAGGCACGGGTGTGTCTCACACCTATGTTATTTTGGCAGTTTTGCCCAT
GTCCATGTCGCATGGCCGTGGCAACTTATCGCATCTTGTGTTGTGGAAAAACTTTTGCCCTGTTT
TTACACGGCCGTATCGCAC
Found at i:25214052 original size:5 final size:5
Alignment explanation
Indices: 25214042--25214122 Score: 69
Period size: 6 Copynumber: 15.6 Consensus size: 5
25214032 TATGTATTTC
*
25214042 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT -AAAAT
*
25214090 AAAAT AAAAT AAAAT AAAA- ATAAT AATAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAA
25214123 TAGGAGGAGT
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
3 3 0.05
4 3 0.05
5 29 0.45
6 30 0.46
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:25214071 original size:6 final size:6
Alignment explanation
Indices: 25214062--25214124 Score: 78
Period size: 6 Copynumber: 10.8 Consensus size: 6
25214052 AATAAAATTG
*
25214062 AAATGA AAATAA AAATAA AAATAA AAAT-A AAAT-A AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
25214107 AAATAA TAATAA TAAATA
1 AAATAA AAATAA -AAATA
25214125 GGAGGAGTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
5 15 0.29
6 33 0.63
7 4 0.08
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:25231845 original size:68 final size:68
Alignment explanation
Indices: 25231765--25231916 Score: 177
Period size: 67 Copynumber: 2.2 Consensus size: 68
25231755 CATCCTGTGT
* * * *
25231765 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTGATACTA-T-ATGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATATAGCTAGGTCGCATGGGTGATACTAGTGAAGGACACCA
25231828 TGTAG
64 TGTAG
* * * *
25231833 ACAAGAGAGCTACG-G-GATATATATAGCTAGGTCGCATGTGTGGTTCTAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATATAGCTAGGTCGCATGGGTGATACTA-GTGAAGGACACCAT
25231896 GTAG
65 GTAG
25231900 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
25231917 TAAATTGGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 23 0.32
65 3 0.04
66 2 0.03
67 28 0.39
68 15 0.21
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATATAGCTAGGTCGCATGGGTGATACTAGTGAAGGACACCATG
TAG
Found at i:25236591 original size:40 final size:39
Alignment explanation
Indices: 25236493--25236755 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
25236483 TCCTCGTTCA
* * * *
25236493 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
25236532 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
25236571 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
25236611 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
25236651 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
25236691 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
25236732 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
25236756 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:25236715 original size:120 final size:119
Alignment explanation
Indices: 25236493--25236755 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
25236483 TCCTCGTTCA
* * *
25236493 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
25236558 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
25236611 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
25236676 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
25236732 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
25236756 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:25236764 original size:41 final size:41
Alignment explanation
Indices: 25236687--25236764 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
25236677 TTTGTATCTC
* * *
25236687 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
25236728 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
25236765 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:25244107 original size:39 final size:39
Alignment explanation
Indices: 25244053--25244147 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
25244043 AAACCAAGTA
* * * *
25244053 CCTTCGGAATTTAGCCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATG
*
25244092 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
25244132 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
25244148 CGGTTATCAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 15 0.31
40 34 0.69
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:25245362 original size:52 final size:52
Alignment explanation
Indices: 25245283--25245406 Score: 194
Period size: 52 Copynumber: 2.4 Consensus size: 52
25245273 CTCAAAGCTC
* * * *
25245283 TTTTTCCTTCCTTTTCTTTCTTTTATTCGGCCAAGAACAACATGGGAGCTTT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTT
25245335 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTT
1 TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTT
*
25245387 TTTTTTCTTTCTTTTCCTTT
1 TTTTTTC-TTCTTTTTCTTT
25245407 TTTCATCATT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
52 55 0.83
53 11 0.17
ACGTcount: A:0.15, C:0.22, G:0.10, T:0.52
Consensus pattern (52 bp):
TTTTTTCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTT
Found at i:25254291 original size:16 final size:17
Alignment explanation
Indices: 25254265--25254301 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
25254255 ATATCCCCAC
25254265 ATGGTGTGTTG-GTTGG
1 ATGGTGTGTTGTGTTGG
25254281 TATGG-GTGTTGTGTTGG
1 -ATGGTGTGTTGTGTTGG
25254298 ATGG
1 ATGG
25254302 CTTTGGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.08, C:0.00, G:0.49, T:0.43
Consensus pattern (17 bp):
ATGGTGTGTTGTGTTGG
Found at i:25267175 original size:5 final size:5
Alignment explanation
Indices: 25267160--25267220 Score: 56
Period size: 5 Copynumber: 12.4 Consensus size: 5
25267150 TGTTGGTTAA
* * *
25267160 ATATT AAATT ATA-T -TATT ATATC ATATT TTGAATT ATATT A-ATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT AT--ATT ATATT ATATT ATATT
25267209 ATATT ATATT AT
1 ATATT ATATT AT
25267221 TATAAATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
3 2 0.04
4 6 0.13
5 33 0.73
7 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:25267175 original size:10 final size:9
Alignment explanation
Indices: 25267160--25267224 Score: 57
Period size: 8 Copynumber: 7.3 Consensus size: 9
25267150 TGTTGGTTAA
25267160 ATATTAAATT
1 ATATT-AATT
25267170 ATATT-ATT
1 ATATTAATT
*
25267178 ATATCATATT
1 ATATTA-ATT
*
25267188 -T-TGAATT
1 ATATTAATT
25267195 ATATTAATT
1 ATATTAATT
25267204 ATATTATATT
1 ATATTA-ATT
25267214 ATATT-ATT
1 ATATTAATT
25267222 ATA
1 ATA
25267225 AATAAACTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
7 3 0.06
8 16 0.34
9 12 0.26
10 16 0.34
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (9 bp):
ATATTAATT
Found at i:25267765 original size:12 final size:13
Alignment explanation
Indices: 25267750--25267781 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
25267740 AAATAGACAT
25267750 TTATTATAAT-TA
1 TTATTATAATGTA
25267762 TTATTATAATGTA
1 TTATTATAATGTA
25267775 TTATTAT
1 TTATTAT
25267782 TAACTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTATTATAATGTA
Found at i:25268225 original size:22 final size:22
Alignment explanation
Indices: 25268195--25268293 Score: 137
Period size: 22 Copynumber: 4.5 Consensus size: 22
25268185 CATGACACAA
25268195 GGGC-ACACGCCCGCGTGGGAG
1 GGGCAACACGCCCGCGTGGGAG
**
25268216 GGGCAACACGCTTGCGTGGGAG
1 GGGCAACACGCCCGCGTGGGAG
* *
25268238 GGGCAAAACGCTCGCGTGGGAG
1 GGGCAACACGCCCGCGTGGGAG
**
25268260 GGGCAACACGCCCATGTGGGAG
1 GGGCAACACGCCCGCGTGGGAG
25268282 GGGCAACACGCC
1 GGGCAACACGCC
25268294 TGTGTGACCA
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
21 4 0.06
22 65 0.94
ACGTcount: A:0.20, C:0.28, G:0.43, T:0.08
Consensus pattern (22 bp):
GGGCAACACGCCCGCGTGGGAG
Found at i:25271636 original size:49 final size:49
Alignment explanation
Indices: 25271564--25271661 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
25271554 ACACAACACC
*
25271564 GCAACATGTCCTCTAAGATCTGAATCACTCTTTCCGACTGACCGTCGGT
1 GCAACATGTCCTCTAAAATCTGAATCACTCTTTCCGACTGACCGTCGGT
*
25271613 GCAACATGTCTTCTAAAATCTGAATCACTCTTTCCGACTGACCGTCGGT
1 GCAACATGTCCTCTAAAATCTGAATCACTCTTTCCGACTGACCGTCGGT
25271662 TTGCAGGTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (49 bp):
GCAACATGTCCTCTAAAATCTGAATCACTCTTTCCGACTGACCGTCGGT
Found at i:25277128 original size:46 final size:46
Alignment explanation
Indices: 25277064--25277225 Score: 134
Period size: 46 Copynumber: 3.5 Consensus size: 46
25277054 TGGAAGCCAC
* *
25277064 GTCCCAGACAATGTCTTACACTGAC-TATCATCTCGTA-GCTGATGCAT
1 GTCCCAAAC-ATGTCTTACACTGACTTA-CATCTCG-AGGCCGATGCAT
* * *
25277111 GTCCTAAACATGTCTTACACTGGCTTACGTCTCGAGGCCGATGCAT
1 GTCCCAAACATGTCTTACACTGACTTACATCTCGAGGCCGATGCAT
* * * * *
25277157 GTCCCAGACACGTCTTACACTAGCACTT--GTCTCAATGCCGATGCCAT
1 GTCCCAAACATGTCTTACACT-G-ACTTACATCTCGAGGCCGATG-CAT
*
25277204 GTCCCAGACATGGTCTTACACT
1 GTCCCAAACAT-GTCTTACACT
25277226 AGCTCTCACA
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
45 1 0.01
46 60 0.62
47 23 0.24
48 13 0.13
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GTCCCAAACATGTCTTACACTGACTTACATCTCGAGGCCGATGCAT
Found at i:25279872 original size:27 final size:27
Alignment explanation
Indices: 25279842--25279958 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
25279832 TACTGAAATG
*
25279842 CCCTCGATTTGTAGAATTACAATTTTA
1 CCCTCGATTTATAGAATTACAATTTTA
*
25279869 CCCTCGATTTATAGAATTA-ACGTTTTA
1 CCCTCGATTTATAGAATTACA-ATTTTA
* * *
25279896 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACAATTTTA
* * * **
25279923 CCCT-TAGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACAATTTTA
25279950 CCCTCGATT
1 CCCTCGATT
25279959 GTGAAATTAC
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
26 2 0.03
27 74 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACAATTTTA
Found at i:25279914 original size:54 final size:54
Alignment explanation
Indices: 25279842--25279958 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
25279832 TACTGAAATG
** * * *
25279842 CCCTCGATTTGTAGAATTACAATTTTACCCTCGA-TTTATAGAATTAACGTTTTA
1 CCCTCGATTTACAAAATTACAATTTTACCCT-GAGTTTACAAAATTAACGTTTTA
* * *
25279896 CCCTCGATTTACAAAATTACCATTTTACCCTTAGTTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACAATTTTACCCTGAGTTTACAAAATTAACGTTTTA
25279950 CCCTCGATT
1 CCCTCGATT
25279959 GTGAAATTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 53 0.98
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACAATTTTACCCTGAGTTTACAAAATTAACGTTTTA
Found at i:25280023 original size:27 final size:27
Alignment explanation
Indices: 25279990--25280140 Score: 162
Period size: 27 Copynumber: 5.6 Consensus size: 27
25279980 TATAGGATAG
25279990 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
25280017 AACTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
25280044 AATTATCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * **
25280071 AATTATCGAAATA-CCCTCAACTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
25280098 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
25280125 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
25280141 TTGACTTTCT
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.05
27 95 0.91
28 4 0.04
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:25280191 original size:27 final size:27
Alignment explanation
Indices: 25280118--25280203 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 27
25280108 ATACCCCTAA
*
25280118 TTTACAAAATTACA-GAAATACCCTTGAC
1 TTTACAAAATTA-ATGAAATACCCTTG-G
*
25280146 TTT-CTAAAAATT-ATAGAAATACCATTGG
1 TTTAC--AAAATTAAT-GAAATACCCTTGG
25280174 TTTACAAAATTAATGAAATACCCTTGG
1 TTTACAAAATTAATGAAATACCCTTGG
25280201 TTT
1 TTT
25280204 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
27 23 0.47
28 8 0.16
29 18 0.37
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTAATGAAATACCCTTGG
Found at i:25281169 original size:25 final size:24
Alignment explanation
Indices: 25281131--25281200 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
25281121 AGGAAGTGCT
*
25281131 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
25281155 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
25281180 AGAAAGGGCTTTACCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
25281201 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:25281213 original size:24 final size:24
Alignment explanation
Indices: 25281131--25281213 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
25281121 AGGAAGTGCT
* * *
25281131 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTACCCCAGTTTATC
*
25281155 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTACCCCAGTTTATC
*
25281180 AGAAAGGGCTTTACCCCAG-TTATT
1 A-AAAGGGCTTTACCCCAGTTTATC
25281204 AAAAGAGGCT
1 AAAAG-GGCT
25281214 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTACCCCAGTTTATC
Found at i:25281469 original size:31 final size:31
Alignment explanation
Indices: 25281420--25281501 Score: 150
Period size: 31 Copynumber: 2.7 Consensus size: 31
25281410 TGCTTACAGT
25281420 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
25281450 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
25281481 AAAGGCTTCGGCCCAGT-ATAT
1 AAAGGCTTCGGCCCAGTGATAT
25281502 ATCGAGACTA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 15 0.29
31 36 0.71
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:25286588 original size:17 final size:17
Alignment explanation
Indices: 25286562--25286595 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25286552 TATATATTTG
*
25286562 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
*
25286579 AAATAAGTTATGATATA
1 AAATAAGTTATAATATA
25286596 TTAAGTAGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:25287945 original size:24 final size:24
Alignment explanation
Indices: 25287913--25288046 Score: 162
Period size: 24 Copynumber: 5.6 Consensus size: 24
25287903 GAAATGACAT
*
25287913 TGGCACTATGTGTACGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
25287937 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
25287961 TGGCACTATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
** * *
25287985 TGGCACTACATGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATTTG-AA
* * * *
25288010 -AGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
25288033 TGGCACTATGTGTG
1 TGGCACTATGTGTG
25288047 TGAATTTCCT
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 1 0.01
24 93 0.97
25 2 0.02
ACGTcount: A:0.22, C:0.13, G:0.32, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:25290105 original size:14 final size:14
Alignment explanation
Indices: 25290088--25290117 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25290078 TTAAATCACG
*
25290088 AAAAGTTCACACAT
1 AAAAATTCACACAT
25290102 AAAAATTCACACAT
1 AAAAATTCACACAT
25290116 AA
1 AA
25290118 TAAACACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (14 bp):
AAAAATTCACACAT
Found at i:25305102 original size:40 final size:40
Alignment explanation
Indices: 25305047--25305264 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
25305037 CAGATGATAA
25305047 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25305087 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
25305127 CTGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
25305167 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
25305207 CCGGGCTAAGTCCCGAAGGCATTTGAGCGTG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
25305247 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
25305265 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 17 0.10
40 148 0.90
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:25306719 original size:5 final size:5
Alignment explanation
Indices: 25306711--25306750 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
25306701 TTAGTTTAGG
* *
25306711 TTTTC TTTTC TTTTC TTTTC TATTC TTTTTC TATTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTT
25306751 TATTTTTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:25306726 original size:10 final size:10
Alignment explanation
Indices: 25306713--25306754 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
25306703 AGTTTAGGTT
*
25306713 TTCTTTTCTT
1 TTCTTTTCTA
25306723 TTCTTTTCTA
1 TTCTTTTCTA
25306733 TTCTTTTTCTA
1 TTC-TTTTCTA
25306744 TTCTTTT-TA
1 TTCTTTTCTA
25306753 TT
1 TT
25306755 TTTGTTGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 4 0.13
10 16 0.53
11 10 0.33
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (10 bp):
TTCTTTTCTA
Found at i:25306742 original size:11 final size:11
Alignment explanation
Indices: 25306716--25306751 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
25306706 TTAGGTTTTC
*
25306716 TTTTCTTTTC-
1 TTTTCTATTCT
25306726 TTTTCTATTCT
1 TTTTCTATTCT
25306737 TTTTCTATTCT
1 TTTTCTATTCT
25306748 TTTT
1 TTTT
25306752 ATTTTTGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTATTCT
Found at i:25307497 original size:19 final size:20
Alignment explanation
Indices: 25307474--25307533 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 20
25307464 ACAAAAAATA
25307474 CAAAATAATTTTCAAAATTT
1 CAAAATAATTTTCAAAATTT
*
25307494 -AAAAT-ATTTATAAAAATTT
1 CAAAATAATTT-TCAAAATTT
25307513 CAAAATTTATATTTTCAAAAT
1 CAAAA--TA-ATTTTCAAAAT
25307534 AATTATAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 4 0.12
22 1 0.03
23 6 0.19
24 4 0.12
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.42
Consensus pattern (20 bp):
CAAAATAATTTTCAAAATTT
Found at i:25314516 original size:33 final size:33
Alignment explanation
Indices: 25314474--25314539 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
25314464 TGTCATCATT
25314474 ATTTATTTTGAGGCACACGGACAAGGCACACAC
1 ATTTATTTTGAGGCACACGGACAAGGCACACAC
*
25314507 ATTTATTTTGAGGCACACGGCCAAGGCACACAC
1 ATTTATTTTGAGGCACACGGACAAGGCACACAC
25314540 CCGTGTGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (33 bp):
ATTTATTTTGAGGCACACGGACAAGGCACACAC
Found at i:25320544 original size:46 final size:47
Alignment explanation
Indices: 25320402--25320660 Score: 228
Period size: 46 Copynumber: 5.5 Consensus size: 47
25320392 TTTGTGCGCC
* * ** *
25320402 AGTGTAAGACATGTCTGGAACATGCATCGGCCACATTACG-AGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
* ** *
25320448 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT-AAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGTAGAGCT
*
25320496 AGTGTAAGACATGTCTGGGACATGTATCGGCCTCAAGATGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
*
25320542 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGT---GTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTAGAGCT
** ** * *
25320586 AGTACAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCAAGATGT-AGAGCT
*
25320636 AGTGTAAGACCATGTCCGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
25320661 GCGTTGGCGT
Statistics
Matches: 175, Mismatches: 25, Indels: 23
0.78 0.11 0.10
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 74 0.42
47 28 0.16
48 25 0.14
49 1 0.01
50 22 0.13
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTAGAGCT
Found at i:25320706 original size:49 final size:50
Alignment explanation
Indices: 25320399--25320716 Score: 203
Period size: 46 Copynumber: 6.7 Consensus size: 50
25320389 TTATTTGTGC
* **
25320399 GCCAGTGTAAGA-CATGTCTGGAACAT-GCATCGGCCAC--AT-TACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGGATATGTGAGA
* ** * *
25320445 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--TAAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
* * ** *
25320493 GCTAGTGTAAGA-CATGTCTGGGACAT-GTATCGGC-CTCAAGATGT-A-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGA
* * *
25320539 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-AAGATGT----
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGATATGTGAGA
** **
25320583 GTTAGTACAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
* * * * *
25320633 GCCAGTGTAAGACCATGTCCGGGACATGGCGTTGGCGTC-GAT-TTTG-GTA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGGATATGTGAG-A
*
25320682 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
25320717 TATTATACCC
Statistics
Matches: 224, Mismatches: 29, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
44 9 0.04
45 16 0.07
46 75 0.33
47 30 0.13
48 25 0.11
49 36 0.16
50 32 0.14
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (50 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
Found at i:25324753 original size:40 final size:40
Alignment explanation
Indices: 25324696--25324979 Score: 328
Period size: 40 Copynumber: 7.1 Consensus size: 40
25324686 TCAAATGATG
* * * *
25324696 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
25324736 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
**
25324776 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
25324816 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
25324855 TTCCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
**
25324895 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * **
25324935 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
25324975 TCCGG
1 TCCGG
25324980 TTAAATTCCG
Statistics
Matches: 215, Mismatches: 21, Indels: 16
0.85 0.08 0.06
Matches are distributed among these distances:
39 40 0.19
40 166 0.77
41 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:25324829 original size:80 final size:80
Alignment explanation
Indices: 25324696--25324979 Score: 389
Period size: 80 Copynumber: 3.6 Consensus size: 80
25324686 TCAAATGATG
* * *
25324696 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGACTAAGATCCGAAGGCATT
25324760 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
*
25324776 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTT
*
25324841 GTGCGAGTTACTAAT
66 GTGCGAGTTACTAAA
* * **
25324856 TCCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGAT-CCGAAGGCATT
25324919 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
* **
25324936 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
25324980 TTAAATTCCG
Statistics
Matches: 183, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 71 0.39
80 104 0.57
81 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:25324908 original size:119 final size:120
Alignment explanation
Indices: 25324697--25324960 Score: 392
Period size: 119 Copynumber: 2.2 Consensus size: 120
25324687 CAAATGATGT
* * * *
25324697 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCCGGACTAAGATCCGAAGGCATT
1 CCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCCGGACTAAGATCCGAAGGCATT
* *
25324760 TGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
64 GGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25324817 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-TCCGAAGGCATTG
1 CCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGACTAAGATCCGAAGGCATTG
25324880 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
65 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
25324936 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGACTAAGTCCCGAAGGCATTTG
25324961 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
118 1 0.01
119 88 0.67
120 32 0.24
121 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGACTAAGATCCGAAGGCATTGG
TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:25332847 original size:40 final size:39
Alignment explanation
Indices: 25332660--25332840 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 39
25332650 ATGATGTCCA
* * * *
25332660 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AACCG
* *
25332700 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-ACCG
*
25332740 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-CCG
*
25332779 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACCG
* *
25332819 GGCTATGTCCCAAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
25332841 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCG
Found at i:25332862 original size:79 final size:79
Alignment explanation
Indices: 25332709--25332873 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
25332699 GGACTAAGAT
* * **
25332709 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
* *
25332774 ATCCGGGTTAAGTC
66 ATCCAGGTTAAATC
* *
25332788 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
* *
25332851 TATAT-CAGGTTAAATT
63 TAAATCCAGGTTAAATC
25332867 CCGAAGG
1 CCGAAGG
25332874 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 50 0.68
80 21 0.29
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCCAGGTTAAATC
Found at i:25338533 original size:20 final size:18
Alignment explanation
Indices: 25338505--25338543 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
25338495 TGCTTATTAT
*
25338505 TTAATAAATAATAATTATAA
1 TTAAAAAAT-ATAA-TATAA
25338525 TTAAAAAATATAATATAA
1 TTAAAAAATATAATATAA
25338543 T
1 T
25338544 ATAATAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAAAAATATAATATAA
Found at i:25338568 original size:17 final size:19
Alignment explanation
Indices: 25338541--25338591 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
25338531 AATATAATAT
*
25338541 AATATAATAAAGAAAGTAA
1 AATAGAATAAAGAAAGTAA
25338560 AA-A-AATAAAAGAAA-TAA
1 AATAGAAT-AAAGAAAGTAA
25338577 AATAGAA-AAAGAAAG
1 AATAGAATAAAGAAAG
25338592 AACAGAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 15 0.54
18 9 0.32
19 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (19 bp):
AATAGAATAAAGAAAGTAA
Found at i:25342505 original size:25 final size:25
Alignment explanation
Indices: 25342448--25342505 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
25342438 TTCTCAATAT
* *
25342448 TTAAAAATTATTAATGATTCAATAAA
1 TTAAAAATTA-TAATAATTAAATAAA
25342474 TTGAAAAATTA-AATAATTAAATAAAA
1 TT-AAAAATTATAATAATTAAAT-AAA
25342500 TTAAAA
1 TTAAAA
25342506 TTTAGGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 13 0.46
26 7 0.25
27 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (25 bp):
TTAAAAATTATAATAATTAAATAAA
Found at i:25346648 original size:17 final size:18
Alignment explanation
Indices: 25346621--25346654 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25346611 AATTAAATAT
25346621 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
25346639 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
25346655 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:25346955 original size:30 final size:30
Alignment explanation
Indices: 25346900--25346956 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
25346890 CTTTTGAAAA
* **
25346900 TATTTACAAAAAGAGGCACCTAATTTTTAT
1 TATTTACAAAAAGAGGAACAAAATTTTTAT
*
25346930 TATTTACAAAAAGAGTAACAAAATTTT
1 TATTTACAAAAAGAGGAACAAAATTTT
25346957 AAAAATAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (30 bp):
TATTTACAAAAAGAGGAACAAAATTTTTAT
Found at i:25349896 original size:49 final size:49
Alignment explanation
Indices: 25349840--25349939 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
25349830 AAGGCTAGCC
*
25349840 TATACATGCCATAATTTAATTTTAACTTATTAAGTACCGAAATAGTAGA
1 TATACATGCCATAATTTAAGTTTAACTTATTAAGTACCGAAATAGTAGA
25349889 TATACATGCCATAATTTAAGTTTAACTTATTAAGTACCGAAATAGTAGA
1 TATACATGCCATAATTTAAGTTTAACTTATTAAGTACCGAAATAGTAGA
25349938 TA
1 TA
25349940 GTGGGATGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (49 bp):
TATACATGCCATAATTTAAGTTTAACTTATTAAGTACCGAAATAGTAGA
Found at i:25355486 original size:42 final size:43
Alignment explanation
Indices: 25355417--25355508 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 43
25355407 GAGATTTATG
* ** * *
25355417 TGTAAGACCATGTCTGGGACATTGGCATTG-TATCTG-ATTTCA
1 TGTAAGACCATGTCTAGGACAGAGGCATCGATA-CTGAATTACA
*
25355459 TGTAAGACCCTGTCTAGGACAGAGGCATCGATACTGAATTACA
1 TGTAAGACCATGTCTAGGACAGAGGCATCGATACTGAATTACA
25355502 TGTAAGA
1 TGTAAGA
25355509 ACACATTCGG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 28 0.67
43 14 0.33
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGAGGCATCGATACTGAATTACA
Found at i:25365404 original size:42 final size:42
Alignment explanation
Indices: 25365357--25365460 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
25365347 TATCGGGATG
* * *
25365357 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
*
25365399 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
25365441 TGAGATTCGTGTAAGACCAT
1 TGAGATTCGTGTAAGACCAT
25365461 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
Found at i:25365474 original size:42 final size:42
Alignment explanation
Indices: 25365357--25365482 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
25365347 TATCGGGATG
* * ** *
25365357 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
*
25365399 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
25365441 TGAGATTCGTGTAAGACCATAG-CTAAG-CTATTGG-ATCGATA
1 TGAGATTCGTGTAAGACCAT-GTCTAAGAC-ATTGGCATCGATA
25365482 T
1 T
25365483 ACTATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
41 9 0.12
42 67 0.87
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
Found at i:25366395 original size:21 final size:21
Alignment explanation
Indices: 25366369--25366425 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
25366359 ATGGTATAAG
25366369 GTTGATGAATTGGTACATTTT
1 GTTGATGAATTGGTACATTTT
*
25366390 GTTGATGATGAATTGGTATATTTT
1 G-T--TGATGAATTGGTACATTTT
*
25366414 GTGGCATGAATT
1 GTTG-ATGAATT
25366426 ATATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 1 0.03
24 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTGATGAATTGGTACATTTT
Found at i:25372714 original size:29 final size:28
Alignment explanation
Indices: 25372678--25372755 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
25372668 TCATGAGATT
25372678 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
25372708 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
25372735 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
25372756 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:25372973 original size:174 final size:174
Alignment explanation
Indices: 25372708--25373035 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
25372698 AAATTGTACA
*
25372708 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
25372773 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25372838 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
25372882 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
25372947 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
25373012 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
25373036 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:25376357 original size:33 final size:33
Alignment explanation
Indices: 25376315--25376381 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
25376305 ATTTAATACA
*
25376315 TACATTCATCAAAACATCATTTAATACGAACTT
1 TACATTCATCAAAACATCATCTAATACGAACTT
25376348 TACATTCATCAAAACATCATCTAATACGAACTT
1 TACATTCATCAAAACATCATCTAATACGAACTT
25376381 T
1 T
25376382 GGCAAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.03, T:0.33
Consensus pattern (33 bp):
TACATTCATCAAAACATCATCTAATACGAACTT
Found at i:25376421 original size:30 final size:30
Alignment explanation
Indices: 25376376--25376435 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
25376366 ATCTAATACG
*
25376376 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
25376406 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
25376436 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:25381201 original size:55 final size:53
Alignment explanation
Indices: 25381095--25381201 Score: 133
Period size: 55 Copynumber: 2.0 Consensus size: 53
25381085 GGAAATCCTG
* * **
25381095 CCAAATCAACACGAGCGTGCGATACCCGTGTCTATAAGCCATGGTTGAAACTA
1 CCAAAACAACACGAGCGTGCGATACCCGTGTCTAGAAGCCATGGTCAAAACTA
* * *
25381148 CCAAAACAACACGGGCGTGCGACATGCCCGTGTCTAGAAGCCTTGGTCAAAACT
1 CCAAAACAACACGAGCGTGCG--ATACCCGTGTCTAGAAGCCATGGTCAAAACT
25381202 GAGAAATTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 19 0.42
55 26 0.58
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (53 bp):
CCAAAACAACACGAGCGTGCGATACCCGTGTCTAGAAGCCATGGTCAAAACTA
Found at i:25398806 original size:50 final size:49
Alignment explanation
Indices: 25398685--25398870 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 49
25398675 TGAGGTCGCA
* * * *
25398685 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
25398736 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
25398786 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
25398835 TGTGTAGTACTAAGTGCA-GCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
25398871 TAGTTTCGGC
Statistics
Matches: 118, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
47 1 0.01
48 20 0.17
49 23 0.19
50 43 0.36
51 31 0.26
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:25398890 original size:101 final size:100
Alignment explanation
Indices: 25398685--25398871 Score: 236
Period size: 101 Copynumber: 1.9 Consensus size: 100
25398675 TGAGGTCGCA
* *
25398685 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCC-AAAACTGTGATCACATGTGTAGTACTAAG
* ** *
25398750 TGCAGGCTACTACGTGTATTAGATGGTGAGGTCACG
65 TGCAGGCTACTACGCGTACCAGATGGTGAGGTCAAG
* * * *
25398786 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGACTGTTGGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTG-TGATCACATGTGTAGTACTAAG
*
25398849 TGCA-GCTACTATGCGTACCAGAT
65 TGCAGGCTACTACGCGTACCAGAT
25398872 AGTTTCGGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
98 20 0.27
99 23 0.31
100 2 0.03
101 30 0.40
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTGTGATCACATGTGTAGTACTAAGT
GCAGGCTACTACGCGTACCAGATGGTGAGGTCAAG
Found at i:25403235 original size:55 final size:55
Alignment explanation
Indices: 25403151--25403260 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
25403141 AGGAAGAGAA
25403151 AGAGCTTGGAGAAAATCGGCTATGGTGGTTCACTAGATTAAGGTATGTTTAATGT
1 AGAGCTTGGAGAAAATCGGCTATGGTGGTTCACTAGATTAAGGTATGTTTAATGT
*
25403206 AGAGCTTGGAGAAAATCTGCTATGGTGGTTCACTAGATTAAGGTATGTTTAATGT
1 AGAGCTTGGAGAAAATCGGCTATGGTGGTTCACTAGATTAAGGTATGTTTAATGT
25403261 TGCTTTGAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.29, C:0.09, G:0.28, T:0.34
Consensus pattern (55 bp):
AGAGCTTGGAGAAAATCGGCTATGGTGGTTCACTAGATTAAGGTATGTTTAATGT
Found at i:25404659 original size:40 final size:40
Alignment explanation
Indices: 25404542--25404668 Score: 156
Period size: 39 Copynumber: 3.2 Consensus size: 40
25404532 CGATTGATAC
25404542 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAG-CTATA-T
* * *
25404582 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TAGCTATAT
*
25404621 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATAT
25404661 CC-GGCTAA
1 CCGGGCTAA
25404669 ACTCCGAAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
39 39 0.52
40 36 0.48
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATAT
Found at i:25412647 original size:40 final size:40
Alignment explanation
Indices: 25412495--25412640 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
25412485 TCGAATGATG
* * * *
25412495 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
25412535 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25412575 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
25412616 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25412641 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 80 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25412647 original size:80 final size:80
Alignment explanation
Indices: 25412495--25412673 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
25412485 TCGAATGATG
* * *
25412495 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATTCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
25412560 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
25412575 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
25412638 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
25412655 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
25412674 TACGTGATTC
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 59 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:25417369 original size:86 final size:86
Alignment explanation
Indices: 25417273--25417446 Score: 330
Period size: 86 Copynumber: 2.0 Consensus size: 86
25417263 TTGATGTTGG
*
25417273 TCCATGAGATTCATGCATATTTTTTATGTTAGTTTGAGTTCTAGCTAGCCCATGGTTTAAATCTT
1 TCCATGAGATTCATGCATATTTTTTATGTTAGTTTGAGTTCTACCTAGCCCATGGTTTAAATCTT
25417338 ACTATGTGATGAAGATGATAC
66 ACTATGTGATGAAGATGATAC
25417359 TCCATGAGATTCATGCATATTTTTTATGTTAGTTTGAGTTCTACCTAGCCCATGGTTTAAATCTT
1 TCCATGAGATTCATGCATATTTTTTATGTTAGTTTGAGTTCTACCTAGCCCATGGTTTAAATCTT
*
25417424 GCTATGTGATGAAGATGATAC
66 ACTATGTGATGAAGATGATAC
25417445 TC
1 TC
25417447 GGCCATGGGT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (86 bp):
TCCATGAGATTCATGCATATTTTTTATGTTAGTTTGAGTTCTACCTAGCCCATGGTTTAAATCTT
ACTATGTGATGAAGATGATAC
Found at i:25417928 original size:66 final size:66
Alignment explanation
Indices: 25417835--25418230 Score: 792
Period size: 66 Copynumber: 6.0 Consensus size: 66
25417825 AGCCAAGTTT
25417835 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
1 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
25417900 G
66 G
25417901 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
1 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
25417966 G
66 G
25417967 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
1 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
25418032 G
66 G
25418033 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
1 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
25418098 G
66 G
25418099 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
1 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
25418164 G
66 G
25418165 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
1 GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
25418230 G
66 G
25418231 CAATCGGCCT
Statistics
Matches: 330, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 330 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (66 bp):
GTCACTTGAAACAAAATGGTATTTGGTCAATACAAGTGACCATACTTGTAGAATGTATTAAGTAT
G
Found at i:25418704 original size:198 final size:198
Alignment explanation
Indices: 25418366--25418756 Score: 764
Period size: 198 Copynumber: 2.0 Consensus size: 198
25418356 GAATTTGTTA
25418366 AGTGCTTAGTTAATTGATATTAGGTTAATGATGTGTGTATTTGGTCATAAAGGTGCACATGAGGA
1 AGTGCTTAGTTAATTGATATTAGGTTAATGATGTGTGTATTTGGTCATAAAGGTGCACATGAGGA
25418431 AATGTTTGATTAATTGTACTAAATTGCTCAATGTGATTAAAAATGCCTATGACCATTTTGTATTT
66 AATGTTTGATTAATTGTACTAAATTGCTCAATGTGATTAAAAATGCCTATGACCATTTTGTATTT
*
25418496 AAGCTAAAGGTGGCCATATGACCTATCAAACTCCTTGTCATATTCGGCCATAAGTAAGCATAACT
131 AAGCTAAAGGTGGCCATATGACCTATCAAACTCCTTGTCATATTCGGCCATAAGCAAGCATAACT
25418561 GTG
196 GTG
25418564 AGTGCTTAGTTAATTGATATTAGGTTAATGATGTGTGTATTTGGTCATAAAGGTGCACATGAGGA
1 AGTGCTTAGTTAATTGATATTAGGTTAATGATGTGTGTATTTGGTCATAAAGGTGCACATGAGGA
25418629 AATGTTTGATTAATTGTACTAAATTGCTCAATGTGATTAAAAATGCCTATGACCATTTTGTATTT
66 AATGTTTGATTAATTGTACTAAATTGCTCAATGTGATTAAAAATGCCTATGACCATTTTGTATTT
*
25418694 GAGCTAAAGGTGGCCATATGACCTATCAAACTCCTTGTCATATTCGGCCATAAGCAAGCATAA
131 AAGCTAAAGGTGGCCATATGACCTATCAAACTCCTTGTCATATTCGGCCATAAGCAAGCATAA
25418757 TGAGACTTTA
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
198 191 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (198 bp):
AGTGCTTAGTTAATTGATATTAGGTTAATGATGTGTGTATTTGGTCATAAAGGTGCACATGAGGA
AATGTTTGATTAATTGTACTAAATTGCTCAATGTGATTAAAAATGCCTATGACCATTTTGTATTT
AAGCTAAAGGTGGCCATATGACCTATCAAACTCCTTGTCATATTCGGCCATAAGCAAGCATAACT
GTG
Found at i:25419134 original size:40 final size:40
Alignment explanation
Indices: 25419074--25419277 Score: 223
Period size: 40 Copynumber: 5.1 Consensus size: 40
25419064 CGGATGATAA
* * *
25419074 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
25419114 CCGGGCTAAGCCCCGGAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
25419154 CCGGGCTATGTCCCGAAGGCATTCGTGCGATTTACTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
25419194 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACCATAA
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
25419234 CCGGGCTATGTTCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTA-CTATAT
25419274 CCGG
1 CCGG
25419278 TTAAATTCTG
Statistics
Matches: 136, Mismatches: 26, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 2 0.01
40 133 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:25419203 original size:80 final size:79
Alignment explanation
Indices: 25419070--25419277 Score: 283
Period size: 80 Copynumber: 2.6 Consensus size: 79
25419060 TATTCGGATG
* * * * *
25419070 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCCGGAGGC
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGA-TTACTATA-TCCGGGCTAAGCCCCGAAGGC
*
25419134 ATTTGTACGAGTTACT
64 ATTTGTACGAGTTACC
25419150 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGATTTACTATATCCGGGCTAAGCCCCGAAGGCA
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGA-TTACTATATCCGGGCTAAGCCCCGAAGGCA
*
25419215 TTTGTGCGAGTTACC
65 TTTGTACGAGTTACC
* * *
25419230 ATAACCGGGCTATGTTCCGAAGGCATTCGAGCGAGTAGCTATATCCGG
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGATTA-CTATATCCGG
25419278 TTAAATTCTG
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
79 2 0.02
80 112 0.97
81 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGATTACTATATCCGGGCTAAGCCCCGAAGGCAT
TTGTACGAGTTACC
Found at i:25427187 original size:40 final size:40
Alignment explanation
Indices: 25427132--25427313 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
25427122 TGGATGATAA
* *
25427132 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTTACTATA-T
*
25427172 CCGGGCTAAGCCCCGAAGGCATTTGTG-TGAGTTACTATAA
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCT-AGTTACTATAT
* * * *
25427212 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTTACTATAT
* * *
25427252 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACCATAA
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTTACTATAT
* * *
25427292 CCGGGCTATGGCCAGAAGGCAT
1 CCGGGCTAAGCCCCGAAGGCAT
25427314 ACGAGCGAGT
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 121 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:25427261 original size:80 final size:80
Alignment explanation
Indices: 25427128--25427335 Score: 294
Period size: 80 Copynumber: 2.6 Consensus size: 80
25427118 TATTTGGATG
* * * *
25427128 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCCGAAGGC
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCGGGCTAAGCCCCGAAGGC
* *
25427192 ATTTGTGTGAGTTACT
65 ATTTGTGCGAGTTACC
25427208 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
25427273 TTTGTGCGAGTTACC
66 TTTGTGCGAGTTACC
* * * *
25427288 ATAACCGGGCTATGGCCAGAAGGCATACGAGCGAG-TAGCTATATCCGG
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCCGG
25427336 TTAAATTCTG
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 2 0.02
80 113 0.97
81 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCCGAAGGCA
TTTGTGCGAGTTACC
Found at i:25434799 original size:39 final size:39
Alignment explanation
Indices: 25434704--25435031 Score: 332
Period size: 39 Copynumber: 8.6 Consensus size: 39
25434694 TTGAATGATG
*
25434704 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
25434742 ATCCGGACTAAGATCCGAAGGCATTTATGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
25434783 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
25434822 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25434861 T-----CT--G---G--GGCATTTGTGTGAGATACTAAG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25434888 TCCGGGCTAAGCCCGACGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25434927 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
25434966 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
25435005 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
25435032 AACGAGGAGC
Statistics
Matches: 247, Mismatches: 23, Indels: 37
0.80 0.07 0.12
Matches are distributed among these distances:
27 21 0.09
29 1 0.00
32 3 0.01
34 3 0.01
37 1 0.00
39 149 0.60
40 58 0.23
41 10 0.04
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:25434883 original size:66 final size:66
Alignment explanation
Indices: 25434800--25434928 Score: 222
Period size: 66 Copynumber: 2.0 Consensus size: 66
25434790 TAAGCCCGAA
*
25434800 GGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCTG
1 GGCATTTGTGCGAGATACTAAGTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCTG
25434865 G
66 G
* * *
25434866 GGCATTTGTGTGAGATACTAAGTCCGGGCTAAGCCCGACGGTATTTGTGCGAGATACTAATTC
1 GGCATTTGTGCGAGATACTAAGTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTC
25434929 CGGGCTAAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (66 bp):
GGCATTTGTGCGAGATACTAAGTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCTG
G
Found at i:25434943 original size:105 final size:105
Alignment explanation
Indices: 25434761--25434964 Score: 354
Period size: 105 Copynumber: 1.9 Consensus size: 105
25434751 AAGATCCGAA
*
25434761 GGCATTTATGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCATTTATGCGAGATACTAAGTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCG
25434826 GGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCTGG
66 GGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCTGG
* * * *
25434866 GGCATTTGTGTGAGATACTAAGTCCGGGCTAAGCCCGACGGTATTTGTGCGAGATACTAATTCCG
1 GGCATTTATGCGAGATACTAAGTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCG
*
25434931 GGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
66 GGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
25434965 ATCCGGGTTA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 93 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (105 bp):
GGCATTTATGCGAGATACTAAGTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCG
GGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCTGG
Found at i:25440527 original size:80 final size:80
Alignment explanation
Indices: 25440389--25440548 Score: 257
Period size: 80 Copynumber: 2.0 Consensus size: 80
25440379 GCTTTTCATC
*
25440389 CCCAAACCGATGGTCAATCTGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATC
1 CCCAAACCGATGGTCAATCTGAGCGGATAATTCAGATACTCGAGGATATGTTGAGATGTTGCATC
25440454 CTCGAGTTCAGTGGT
66 CTCGAGTTCAGTGGT
* * * *
25440469 CCCAGACCGATGGTCAATCTGAGTGGATAATTTAGATACTCGAGGATATGTTGAGATGTTGCATT
1 CCCAAACCGATGGTCAATCTGAGCGGATAATTCAGATACTCGAGGATATGTTGAGATGTTGCATC
* *
25440534 CTTGAGTTTAGTGGT
66 CTCGAGTTCAGTGGT
25440549 TCATGGGAAC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (80 bp):
CCCAAACCGATGGTCAATCTGAGCGGATAATTCAGATACTCGAGGATATGTTGAGATGTTGCATC
CTCGAGTTCAGTGGT
Found at i:25442979 original size:39 final size:41
Alignment explanation
Indices: 25442884--25443067 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
25442874 TTGAATGATG
*
25442884 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
25442923 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
25442963 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
25443002 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
25443042 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25443068 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:25443019 original size:79 final size:81
Alignment explanation
Indices: 25442884--25443067 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
25442874 TTGAATGATG
25442884 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
25442947 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
25442962 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
25443023 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
25443042 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25443068 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:25443089 original size:79 final size:79
Alignment explanation
Indices: 25442936--25443100 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
25442926 GGACTAAGAT
* ** *
25442936 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
25443001 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
25443015 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
25443077 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
25443094 CCGAAGG
1 CCGAAGG
25443101 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:25449587 original size:13 final size:13
Alignment explanation
Indices: 25449569--25449593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25449559 CCGAAACTAG
25449569 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
25449582 AAAGAAAAAAAA
1 AAAGAAAAAAAA
25449594 ATGCTCATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:25450767 original size:39 final size:39
Alignment explanation
Indices: 25450672--25450933 Score: 311
Period size: 39 Copynumber: 6.6 Consensus size: 39
25450662 TTGAATGATG
*
25450672 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
25450710 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
25450751 TCCGGGGTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
25450790 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
25450829 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25450868 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-AT
*
25450909 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
25450934 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 128 0.64
40 57 0.28
41 14 0.07
42 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:25458563 original size:90 final size:90
Alignment explanation
Indices: 25458410--25458584 Score: 341
Period size: 90 Copynumber: 1.9 Consensus size: 90
25458400 TAAAATCTAG
25458410 GGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGTTTTTAACTGACATTTTCTGTCAATGATTAG
1 GGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGTTTTTAACTGACATTTTCTGTCAATGATTAG
25458475 TGTCTTCGTAAGTGTTGGATCCTAA
66 TGTCTTCGTAAGTGTTGGATCCTAA
25458500 GGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGTTTTTAACTGACATTTTCTGTCAATGATTAG
1 GGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGTTTTTAACTGACATTTTCTGTCAATGATTAG
*
25458565 TGTCTTCTTAAGTGTTGGAT
66 TGTCTTCGTAAGTGTTGGAT
25458585 TGAAGGCGTG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.39
Consensus pattern (90 bp):
GGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGTTTTTAACTGACATTTTCTGTCAATGATTAG
TGTCTTCGTAAGTGTTGGATCCTAA
Found at i:25458780 original size:43 final size:43
Alignment explanation
Indices: 25458719--25458804 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
25458709 GATTATGGTT
*
25458719 TGAAAATAAGAACTATGCTAATCAATTGCAGGACATCGGAAGA
1 TGAAAATAAGAACTATGCTAATCAATTGCAGGACATCGAAAGA
*
25458762 TGAAAATAAGAACTATGCTAATCAATTGTAGGACATCGAAAGA
1 TGAAAATAAGAACTATGCTAATCAATTGCAGGACATCGAAAGA
25458805 GATCTCAGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (43 bp):
TGAAAATAAGAACTATGCTAATCAATTGCAGGACATCGAAAGA
Found at i:25459999 original size:70 final size:70
Alignment explanation
Indices: 25459908--25460054 Score: 285
Period size: 70 Copynumber: 2.1 Consensus size: 70
25459898 CGTTTTATAA
*
25459908 AAAAAAACTACTTATTTTTAAAAGATCACGATGACGCGCAAAGTTTTCGCAAAGTAAATGTTTTT
1 AAAATAACTACTTATTTTTAAAAGATCACGATGACGCGCAAAGTTTTCGCAAAGTAAATGTTTTT
25459973 CCAAG
66 CCAAG
25459978 AAAATAACTACTTATTTTTAAAAGATCACGATGACGCGCAAAGTTTTCGCAAAGTAAATGTTTTT
1 AAAATAACTACTTATTTTTAAAAGATCACGATGACGCGCAAAGTTTTCGCAAAGTAAATGTTTTT
25460043 CCAAG
66 CCAAG
25460048 AAAATAA
1 AAAATAA
25460055 ATATTTTAAG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 76 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (70 bp):
AAAATAACTACTTATTTTTAAAAGATCACGATGACGCGCAAAGTTTTCGCAAAGTAAATGTTTTT
CCAAG
Found at i:25466002 original size:218 final size:218
Alignment explanation
Indices: 25465624--25466058 Score: 843
Period size: 218 Copynumber: 2.0 Consensus size: 218
25465614 CTTTCTAAAC
*
25465624 TCTAGAGACCTGTCGGCAATTCTACATCCAGGTTATAGTCTCACATTGTCATCTCCTTCATCACC
1 TCTAGAGACCTGGCGGCAATTCTACATCCAGGTTATAGTCTCACATTGTCATCTCCTTCATCACC
25465689 CAAAAGCCGAAAAGCCATAGATTTGGGGGCTTATAGCCAAAACTTCAAAACTCCGGGAGTCGAGT
66 CAAAAGCCGAAAAGCCATAGATTTGGGGGCTTATAGCCAAAACTTCAAAACTCCGGGAGTCGAGT
25465754 TCTACCATCGTTTGAAAGATAAATCTGCACCAGATTGCGTGGAGATCAAAAAGGAGTAAGGGGTA
131 TCTACCATCGTTTGAAAGATAAATCTGCACCAGATTGCGTGGAGATCAAAAAGGAGTAAGGGGTA
25465819 AGTGTTCATCATCTCAGATCTGT
196 AGTGTTCATCATCTCAGATCTGT
* *
25465842 TCTAGAGACCTGGCGGCAATTCTACATCCAGGTTATAGTTTCATATTGTCATCTCCTTCATCACC
1 TCTAGAGACCTGGCGGCAATTCTACATCCAGGTTATAGTCTCACATTGTCATCTCCTTCATCACC
25465907 CAAAAGCCGAAAAGCCATAGATTTGGGGGCTTATAGCCAAAACTTCAAAACTCCGGGAGTCGAGT
66 CAAAAGCCGAAAAGCCATAGATTTGGGGGCTTATAGCCAAAACTTCAAAACTCCGGGAGTCGAGT
25465972 TCTACCATCGTTTGAAAGATAAATCTGCACCAGATTGCGTGGAGATCAAAAAGGAGTAAGGGGTA
131 TCTACCATCGTTTGAAAGATAAATCTGCACCAGATTGCGTGGAGATCAAAAAGGAGTAAGGGGTA
25466037 AGTGTTCATCATCTCAGATCTG
196 AGTGTTCATCATCTCAGATCTG
25466059 GTCCTATTTT
Statistics
Matches: 214, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
218 214 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (218 bp):
TCTAGAGACCTGGCGGCAATTCTACATCCAGGTTATAGTCTCACATTGTCATCTCCTTCATCACC
CAAAAGCCGAAAAGCCATAGATTTGGGGGCTTATAGCCAAAACTTCAAAACTCCGGGAGTCGAGT
TCTACCATCGTTTGAAAGATAAATCTGCACCAGATTGCGTGGAGATCAAAAAGGAGTAAGGGGTA
AGTGTTCATCATCTCAGATCTGT
Found at i:25466206 original size:73 final size:73
Alignment explanation
Indices: 25466087--25466230 Score: 263
Period size: 73 Copynumber: 2.0 Consensus size: 73
25466077 AGGAAAAGCC
25466087 GAAGTCCCTAAAATCTAGGGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGTTTTTAACTA-AC
1 GAAGTCCCTAAAATCTAGGGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGTTTTTAAC-AGAC
25466151 GTTTTCTGT
65 GTTTTCTGT
*
25466160 GAAGTCCCTAAAATCTCGGGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGTTTTTAACAGACG
1 GAAGTCCCTAAAATCTAGGGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGTTTTTAACAGACG
25466225 TTTTCT
66 TTTTCT
25466231 ATCAACGATT
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
72 1 0.01
73 68 0.99
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (73 bp):
GAAGTCCCTAAAATCTAGGGAGGCTGTCGATTTGGGCATGTGGCTCTAAGGGTTTTTAACAGACG
TTTTCTGT
Found at i:25471171 original size:64 final size:63
Alignment explanation
Indices: 25471090--25471273 Score: 174
Period size: 67 Copynumber: 2.8 Consensus size: 63
25471080 AGACATTATG
* *
25471090 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGCAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG-AGACAAGAGAGCTACGAGATAA
* * * * * *
25471154 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATG-AGACAAGAGAGCTACGAGAT
25471219 AA
62 AA
* * * * *
25471221 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGAG-ACAAGAGAGC
25471274 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGAGACAAGAGAGCTACGAGATAA
Found at i:25483624 original size:366 final size:366
Alignment explanation
Indices: 25482952--25483682 Score: 1372
Period size: 366 Copynumber: 2.0 Consensus size: 366
25482942 GTGTCTAGCA
*
25482952 GTGTGAAAACCTCTATAGGTGTAAATTAGAAATTAATTACACACGGGTGTGGGACACGGGCGTGT
1 GTGTGAAAACCTCTATAGGTGTAAATTAGAAATTAATTACACACGGGTGTGGGACAAGGGCGTGT
*
25483017 CCCAGTGTGCTTAGGTCATGTAAGCCACACGAGCCATTGGCACGACCATGTCGAAATGGTCACAC
66 CCCAGTGTGCTTAGGTCATGTAAGCCACACGAGCCATTGGCACGACCATGTCAAAATGGTCACAC
* *
25483082 GGGCGTGTTACCCTTCCATATGGGCATGTGCCCTGTTTTAAAGGTAATTTCTTAAGGTTGGTTTA
131 GGGCGTGTTACCCTTCCATACGGGCATGTGCCCTGTTTTAAAGGTAATTTCTTAAGGTTGGTTCA
*
25483147 AGGACCAAGAATGGTTCCGAATTGTTATCAACGATCGATTTGGGACTCGTAAGTCCATAATAAGA
196 AGGACCAAGAATGGTTCCGAATAGTTATCAACGATCGATTTGGGACTCGTAAGTCCATAATAAGA
25483212 AGATTAAAGTAGAATTGAAAAAGTTTTAATTTGGATCGAGTCTCGGTAATTTGAGATTGGGTGTA
261 AGATTAAAGTAGAATTGAAAAAGTTTTAATTTGGATCGAGTCTCGGTAATTTGAGATTGGGTGTA
25483277 TGCATGAGATCAAGTTAGGTAATGCCTTGTAATCTACCCCC
326 TGCATGAGATCAAGTTAGGTAATGCCTTGTAATCTACCCCC
*
25483318 GTGTGAAAACCTCTATAGGTGTAAATTAGAAATTAATTATACACGGGTGTGGGACAAGGGCGTGT
1 GTGTGAAAACCTCTATAGGTGTAAATTAGAAATTAATTACACACGGGTGTGGGACAAGGGCGTGT
* *
25483383 CCCAGTGTGCTTAGGTCATGTGAGCCACACGGGCCATTGGCACGACCATGTCAAAATGGTCACAC
66 CCCAGTGTGCTTAGGTCATGTAAGCCACACGAGCCATTGGCACGACCATGTCAAAATGGTCACAC
25483448 GGGCGTGTTACCCTTCCATACGGGCATGTGCCCTGTTTTAAAGGTAATTTCTTAAGGTTGGTTCA
131 GGGCGTGTTACCCTTCCATACGGGCATGTGCCCTGTTTTAAAGGTAATTTCTTAAGGTTGGTTCA
* *
25483513 AGGACCAAGAATGGTTCTGAATAGTTATCAATGATCGATTTGGGACTCGTAAGTCCATAATAAGA
196 AGGACCAAGAATGGTTCCGAATAGTTATCAACGATCGATTTGGGACTCGTAAGTCCATAATAAGA
25483578 AGATTAAAGTAGAATTGAAAAAGTTTTAATTTGGATCGAGTCTCGGTAATTTGAGATTGGGTGTA
261 AGATTAAAGTAGAATTGAAAAAGTTTTAATTTGGATCGAGTCTCGGTAATTTGAGATTGGGTGTA
25483643 TGCATGAGATCAAGTTAGGTAATGCCTTGTAATCTACCCC
326 TGCATGAGATCAAGTTAGGTAATGCCTTGTAATCTACCCC
25483683 GGTGCGGGTT
Statistics
Matches: 355, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
366 355 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (366 bp):
GTGTGAAAACCTCTATAGGTGTAAATTAGAAATTAATTACACACGGGTGTGGGACAAGGGCGTGT
CCCAGTGTGCTTAGGTCATGTAAGCCACACGAGCCATTGGCACGACCATGTCAAAATGGTCACAC
GGGCGTGTTACCCTTCCATACGGGCATGTGCCCTGTTTTAAAGGTAATTTCTTAAGGTTGGTTCA
AGGACCAAGAATGGTTCCGAATAGTTATCAACGATCGATTTGGGACTCGTAAGTCCATAATAAGA
AGATTAAAGTAGAATTGAAAAAGTTTTAATTTGGATCGAGTCTCGGTAATTTGAGATTGGGTGTA
TGCATGAGATCAAGTTAGGTAATGCCTTGTAATCTACCCCC
Found at i:25484056 original size:9 final size:9
Alignment explanation
Indices: 25484028--25484057 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25484018 AATCCGAACA
25484028 CTCCACCTC
1 CTCCACCTC
*
25484037 CCCCACCTC
1 CTCCACCTC
25484046 CTCCACCTC
1 CTCCACCTC
25484055 CTC
1 CTC
25484058 TGATTCCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.10, C:0.70, G:0.00, T:0.20
Consensus pattern (9 bp):
CTCCACCTC
Found at i:25494358 original size:21 final size:20
Alignment explanation
Indices: 25494320--25494365 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
25494310 GCCGTGAAGT
*
25494320 CGTGGACCATAATACACGGG
1 CGTGGACCATAACACACGGG
* *
25494340 CGTGGTACCTTAACACACGGT
1 CGTGG-ACCATAACACACGGG
25494361 CGTGG
1 CGTGG
25494366 GAGAAGTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.24, C:0.26, G:0.30, T:0.20
Consensus pattern (20 bp):
CGTGGACCATAACACACGGG
Found at i:25495022 original size:13 final size:13
Alignment explanation
Indices: 25495004--25495029 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25494994 TTCAAACTAC
25495004 TTTTTATTTTTTA
1 TTTTTATTTTTTA
25495017 TTTTTATTTTTTA
1 TTTTTATTTTTTA
25495030 GCAGATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:25500821 original size:28 final size:28
Alignment explanation
Indices: 25500759--25500855 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
25500749 TATTAAGTCT
*
25500759 GCACACTCAGTGCTATATAATC-AACTC
1 GCACACTTAGTGCTATATAATCAAACTC
25500786 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
* * * *
25500814 GCACACTTAGTGCTGTACAATTTAAACCC
1 GCACACTTAGTGCTATATAA-TCAAACTC
25500843 GCACACTTAGTGC
1 GCACACTTAGTGC
25500856 CAATCTCATG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTC
Found at i:25501319 original size:12 final size:12
Alignment explanation
Indices: 25501302--25501328 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25501292 TGGGCATACT
25501302 TATGTATATATA
1 TATGTATATATA
25501314 TATGTATATATA
1 TATGTATATATA
25501326 TAT
1 TAT
25501329 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:25510782 original size:20 final size:20
Alignment explanation
Indices: 25510757--25510795 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25510747 TCTAATTAAT
*
25510757 TTTGAAATTT-TTATTTTTAG
1 TTTG-AATTTCTTATGTTTAG
25510777 TTTGAATTTCTTATGTTTA
1 TTTGAATTTCTTATGTTTA
25510796 ATAAGGGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TTTGAATTTCTTATGTTTAG
Found at i:25512898 original size:43 final size:43
Alignment explanation
Indices: 25512818--25512899 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
25512808 TGTGATTACA
*
25512818 TGTAAGACCATGTCTGGGACATTGGCATTGTATTATGATAATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATAATG
*
25512861 TGTAAGACCATTTCTGGGACATTGGCATCGT-TATATGAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT-TATGAT
25512900 TTCGTATAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATAATG
Found at i:25512910 original size:43 final size:43
Alignment explanation
Indices: 25512820--25512931 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
25512810 TGATTACATG
* *
25512820 TAAGACCATGTCTGGGACATTGGCATTGTATTATGATAATGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATTATGATAATGTA
* *
25512863 TAAGACCATTTCTGGGACATTGGCATCGT-TATATGAT-TTCGTA
1 TAAGACCATGTCTGGGACATTGGCATCGTAT-TATGATAAT-GTA
* * * *
25512906 TAAGACCCTGTTTGGGATAGTGGCAT
1 TAAGACCATGTCTGGGACATTGGCAT
25512932 TGATATGTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
42 2 0.03
43 56 0.97
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATTATGATAATGTA
Found at i:25519285 original size:37 final size:37
Alignment explanation
Indices: 25519226--25519334 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
25519216 AGCTCAGATG
* *
25519226 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
25519263 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
25519300 TAATCTCCACAAGTAGTCATCGGGACTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
25519335 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:25519533 original size:48 final size:48
Alignment explanation
Indices: 25519475--25519805 Score: 455
Period size: 48 Copynumber: 6.7 Consensus size: 48
25519465 ATATACACAC
* * *
25519475 ATCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
25519523 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
25519571 ATCCCATACATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATAC--ATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
25519621 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAATATACACAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC-----ATAT--ACAT
* * *
25519676 ATCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
25519724 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
25519772 ATCTCATACATATTTCACATTAGCCATTCGGCTT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTT
25519806 ATCTCATACA
Statistics
Matches: 252, Mismatches: 22, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
48 160 0.63
50 48 0.19
53 4 0.02
55 40 0.16
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:25519814 original size:34 final size:34
Alignment explanation
Indices: 25519771--25520417 Score: 1183
Period size: 34 Copynumber: 19.0 Consensus size: 34
25519761 CACATATACA
25519771 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25519805 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25519839 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25519873 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25519907 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25519941 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25519975 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25520009 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25520043 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25520077 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25520111 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25520145 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25520179 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25520213 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25520247 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25520281 TATCTCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
* * * * *
25520315 TATCTCATACATA-TTCGGCTTTACCACATAT--ACA
1 TATCTCATACATATTTC-ACATTAGC-CAT-TCGGCT
*
25520349 TATCCCATACATATTTCACATTAGCCATTCGGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
*
25520383 TATCTCATACATATTTCACATTAGCCATTCAGCT
1 TATCTCATACATATTTCACATTAGCCATTCGGCT
25520417 T
1 T
25520418 TACCACATAT
Statistics
Matches: 594, Mismatches: 13, Indels: 12
0.96 0.02 0.02
Matches are distributed among these distances:
32 1 0.00
33 6 0.01
34 580 0.98
35 6 0.01
36 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.38
Consensus pattern (34 bp):
TATCTCATACATATTTCACATTAGCCATTCGGCT
Found at i:25520438 original size:48 final size:48
Alignment explanation
Indices: 25520383--25520719 Score: 615
Period size: 48 Copynumber: 7.1 Consensus size: 48
25520373 CCATTCGGCT
*
25520383 TATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
25520431 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
25520479 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
* *
25520527 TATCTCATACA-ATTTCACATTAACCGTTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
25520574 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
* *
25520622 TATCTCATACA-ATTTCACATTAACCGTTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
25520669 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
25520717 TAT
1 TAT
25520720 ATTTATCTTG
Statistics
Matches: 278, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 90 0.32
48 188 0.68
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACA
Found at i:25520580 original size:143 final size:143
Alignment explanation
Indices: 25520383--25520719 Score: 613
Period size: 143 Copynumber: 2.4 Consensus size: 143
25520373 CCATTCGGCT
*
25520383 TATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTC
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
*
25520448 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
66 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA-ATTTCACATTAACCATTCGGCT
25520513 TTACCACATATACA
130 TTACCACATATACA
* *
25520527 TATCTCATACA-ATTTCACATTAACCGTTCGGCTTTACCACATATACATATCTCATACATATTTC
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
*
25520591 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAATTTCACATTAACCGTTCGGCTT
66 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAATTTCACATTAACCATTCGGCTT
25520656 TACCACATATACA
131 TACCACATATACA
25520669 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
25520720 ATTTATCTTG
Statistics
Matches: 185, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
142 45 0.24
143 129 0.70
144 11 0.06
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (143 bp):
TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAATTTCACATTAACCATTCGGCTT
TACCACATATACA
Found at i:25520599 original size:95 final size:95
Alignment explanation
Indices: 25520383--25520719 Score: 638
Period size: 95 Copynumber: 3.5 Consensus size: 95
25520373 CCATTCGGCT
*
25520383 TATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTC
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA-ATTTC
* *
25520448 ACATTAGCCATTCGGCTTTACCACATATACA
65 ACATTAACCGTTCGGCTTTACCACATATACA
25520479 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAATTTCA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAATTTCA
25520544 CATTAACCGTTCGGCTTTACCACATATACA
66 CATTAACCGTTCGGCTTTACCACATATACA
25520574 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAATTTCA
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAATTTCA
25520639 CATTAACCGTTCGGCTTTACCACATATACA
66 CATTAACCGTTCGGCTTTACCACATATACA
25520669 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
25520720 ATTTATCTTG
Statistics
Matches: 238, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
95 180 0.76
96 58 0.24
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (95 bp):
TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAATTTCA
CATTAACCGTTCGGCTTTACCACATATACA
Found at i:25523699 original size:27 final size:27
Alignment explanation
Indices: 25523669--25523744 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
25523659 TACCTCACAT
* *
25523669 AGGGCCAAACAGTCAATTTACCATGCA
1 AGGGCCAAACAGTCATTTTACCATACA
** * *
25523696 AGGG-CATTTCAGTTATTTTACCATATA
1 AGGGCCA-AACAGTCATTTTACCATACA
*
25523723 AGGGCAAAACAGTCATTTTACC
1 AGGGCCAAACAGTCATTTTACC
25523745 TCATAAAGGC
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
26 2 0.05
27 34 0.92
28 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (27 bp):
AGGGCCAAACAGTCATTTTACCATACA
Found at i:25523750 original size:27 final size:27
Alignment explanation
Indices: 25523705--25523758 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
25523695 AAGGGCATTT
* *
25523705 CAGTTATTTTACCATATAAGGGCAAAA
1 CAGTCATTTTACCATATAAAGGCAAAA
25523732 CAGTCATTTTACC-TCATAAAGGCAAAA
1 CAGTCATTTTACCAT-ATAAAGGCAAAA
25523759 TAAACTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.28
Consensus pattern (27 bp):
CAGTCATTTTACCATATAAAGGCAAAA
Found at i:25525095 original size:15 final size:16
Alignment explanation
Indices: 25525070--25525100 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
25525060 AAGTAGAGAG
25525070 AAAACTCTCAAAACTA
1 AAAACTCTCAAAACTA
25525086 AAAACT-TCAAAACTA
1 AAAACTCTCAAAACTA
25525101 GGAGGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAACTCTCAAAACTA
Found at i:25527670 original size:57 final size:57
Alignment explanation
Indices: 25527582--25527700 Score: 220
Period size: 57 Copynumber: 2.1 Consensus size: 57
25527572 TTTAGTTATT
*
25527582 AAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCCTTAGGCC
1 AAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCC
25527639 AAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCC
1 AAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCC
*
25527696 GAAAT
1 AAAAT
25527701 TTCAAGGGTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (57 bp):
AAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCC
Found at i:25528629 original size:46 final size:46
Alignment explanation
Indices: 25528579--25528754 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
25528569 TGATTGAGCA
* *
25528579 TCCGAAATCGTTGAGTTGTGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25528625 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
25528670 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
25528718 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25528755 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25528735 original size:93 final size:93
Alignment explanation
Indices: 25528576--25528747 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
25528566 GGATGATTGA
* * *
25528576 GCATCCGAAATCGTTGAGTTGTGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
25528641 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
25528669 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCGTTGAG
25528733 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
25528748 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25531177 original size:37 final size:37
Alignment explanation
Indices: 25531122--25531203 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
25531112 TAAGAAGCAA
25531122 AATGT-GGGTCCTAAATCTCAGAATACTTCTGCAGCC
1 AATGTAGGGTCCTAAATCTCAGAATACTTCTGCAGCC
*
25531158 AGTGTAGGGTCCTAAATCTCAGAATACTTCTGCAGCC
1 AATGTAGGGTCCTAAATCTCAGAATACTTCTGCAGCC
25531195 AATGTAGGG
1 AATGTAGGG
25531204 AACTCGAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
36 4 0.09
37 39 0.91
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (37 bp):
AATGTAGGGTCCTAAATCTCAGAATACTTCTGCAGCC
Found at i:25535338 original size:59 final size:59
Alignment explanation
Indices: 25535246--25535362 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
25535236 ATTTAGTTAT
*
25535246 TAAAATGGATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCCG
1 TAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCCG
*
25535305 TAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCCTTAGGCC
1 TAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCC
25535363 AAAATTTCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (59 bp):
TAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCCATCTTCTTCATTAGGCCG
Found at i:25535923 original size:53 final size:53
Alignment explanation
Indices: 25535843--25535949 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
25535833 AAGGATTAAT
*
25535843 TTGATAATGTGAGTATTACATAAGCTAAATATGTTATTTTAGATCAAGAAAGA
1 TTGATAATGTGAGTATTAAATAAGCTAAATATGTTATTTTAGATCAAGAAAGA
*
25535896 TTGATAATGTGAGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGA
1 TTGATAATGTGAGTATTAAATAAGCTAAATATGTTATTTTAGATCAAGAAAGA
25535949 T
1 T
25535950 GTGGAATCGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (53 bp):
TTGATAATGTGAGTATTAAATAAGCTAAATATGTTATTTTAGATCAAGAAAGA
Found at i:25536353 original size:46 final size:46
Alignment explanation
Indices: 25536303--25536474 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
25536293 TGAGCATCCA
25536303 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
25536349 AACTCGTTGAGTAGAGTCCGAGTTCA-TGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * *
25536396 AACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-G
* *
25536442 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25536475 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.54
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:25536459 original size:93 final size:93
Alignment explanation
Indices: 25536296--25536466 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
25536286 GGATGATTGA
* *
25536296 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
25536361 AGAGTCCGAGTTCATGAGATGTAACTAG
66 AGAGTCCGAGTTCATGAGATGTAACTAG
* * *
25536389 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCGTTGAG
*
25536453 TTGAGTCCGAGTTC
65 TAGAGTCCGAGTTC
25536467 GCTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
AGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:25547727 original size:46 final size:46
Alignment explanation
Indices: 25547674--25547764 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
25547664 ACGGCATGAC
25547674 CACAAACTCATAATGTCCATATCGAGTTCAGAATGCTGTCTTATGG
1 CACAAACTCATAATGTCCATATCGAGTTCAGAATGCTGTCTTATGG
* *
25547720 CACAAACTCATAATGTCCATATCGAGTTCGGAATGTTGTCTTATG
1 CACAAACTCATAATGTCCATATCGAGTTCAGAATGCTGTCTTATG
25547765 AATATCCCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (46 bp):
CACAAACTCATAATGTCCATATCGAGTTCAGAATGCTGTCTTATGG
Found at i:25551040 original size:79 final size:79
Alignment explanation
Indices: 25550909--25551065 Score: 278
Period size: 79 Copynumber: 2.0 Consensus size: 79
25550899 TTAAATCCGG
*
25550909 CAATCAATCTTCATGGCCACTCTGAATCCCACCCAGCTTCAAGTCCACCAACTAGGGCTCACCGG
1 CAATCAATCTTCATGGCCACTCTGAATCCCACCCAGCTCCAAGTCCACCAACTAGGGCTCACCGG
*
25550974 CAATGATGGAATAT
66 CAAGGATGGAATAT
* *
25550988 CAATCAATCTTCATGGCCACTCTGAATCCCGCCCAGCTCCAAGTCCACCAACTAGGGCTCACCTG
1 CAATCAATCTTCATGGCCACTCTGAATCCCACCCAGCTCCAAGTCCACCAACTAGGGCTCACCGG
25551053 CAAGGATGGAATA
66 CAAGGATGGAATA
25551066 GGAAGGGGTG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (79 bp):
CAATCAATCTTCATGGCCACTCTGAATCCCACCCAGCTCCAAGTCCACCAACTAGGGCTCACCGG
CAAGGATGGAATAT
Found at i:25553283 original size:40 final size:40
Alignment explanation
Indices: 25553228--25553308 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
25553218 ACAACTCGAA
*
25553228 AATCAGTTTTGTAATTTTTCCCTGAAACTAGACTCATATG
1 AATCAGTTTCGTAATTTTTCCCTGAAACTAGACTCATATG
25553268 AATCAGTTTCGTAATTTTTCCCTGAAACTAGACTCATATG
1 AATCAGTTTCGTAATTTTTCCCTGAAACTAGACTCATATG
25553308 A
1 A
25553309 CCATCTACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (40 bp):
AATCAGTTTCGTAATTTTTCCCTGAAACTAGACTCATATG
Found at i:25553327 original size:40 final size:40
Alignment explanation
Indices: 25553239--25553325 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
25553229 ATCAGTTTTG
* * *
25553239 TAATTTTTCCCTGAAACTAGACTCATATGAATCAGTTTCG
1 TAATTTTTCCCTGAAACTAGACTCATATGAACCAGTTACA
25553279 TAATTTTTCCCTGAAACTAGACTCATATG-ACCA-TCTACA
1 TAATTTTTCCCTGAAACTAGACTCATATGAACCAGT-TACA
*
25553318 TATTTTTT
1 TAATTTTT
25553326 TCTAGAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.02
39 12 0.29
40 29 0.69
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (40 bp):
TAATTTTTCCCTGAAACTAGACTCATATGAACCAGTTACA
Found at i:25556190 original size:30 final size:30
Alignment explanation
Indices: 25556155--25556212 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
25556145 TGTGTCCTTC
*
25556155 ACATGG-CTGAGACATACAGCC-GTGTGTCAT
1 ACATGGCCT-AGACACACA-CCTGTGTGTCAT
25556185 ACATGGCCTAGACACACACCTGTGTGTC
1 ACATGGCCTAGACACACACCTGTGTGTC
25556213 TACCCGTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 21 0.84
31 2 0.08
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (30 bp):
ACATGGCCTAGACACACACCTGTGTGTCAT
Found at i:25565820 original size:31 final size:31
Alignment explanation
Indices: 25565780--25565981 Score: 323
Period size: 31 Copynumber: 6.5 Consensus size: 31
25565770 TTTAACGGTT
*
25565780 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
25565811 ACTAGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
* * *
25565842 ACTGGGCTGAATCCTTATCATAGATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
25565873 ACTGGGCCGAATCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
* *
25565904 ACTAGGCCGAAGGCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
25565935 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
25565966 TCTGGGCCGAAGCCTT
1 ACTGGGCCGAAGCCTT
25565982 TACTGTAAAT
Statistics
Matches: 157, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 157 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTATCATAAATCATATC
Found at i:25566256 original size:49 final size:48
Alignment explanation
Indices: 25566188--25566295 Score: 128
Period size: 50 Copynumber: 2.2 Consensus size: 48
25566178 CTGGAGGCCT
*
25566188 AGCCTCTTTTAATAACTGGGGCATAGCCCATTT-GATAAACTGGGGCAA
1 AGCC-CTTTTAATAACTGGGGCAAAGCCCATTTCGATAAACTGGGGCAA
* * * * *
25566236 AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTCGGTAAACTGTGGTAT
1 AGCCCTTTT-AAT-AACTGGGGCAAAGCCCATTTCGATAAACTGGGGCAA
25566286 AGCCCTTTTA
1 AGCCCTTTTA
25566296 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 5 0.10
48 7 0.14
49 19 0.37
50 20 0.39
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCAAAGCCCATTTCGATAAACTGGGGCAA
Found at i:25566270 original size:25 final size:24
Alignment explanation
Indices: 25566188--25566269 Score: 112
Period size: 25 Copynumber: 3.4 Consensus size: 24
25566178 CTGGAGGCCT
*
25566188 AGCCTCTTTTAAT-AACTGGGGCAT
1 AGCC-CTTTTAATAAACTGGGGCAA
* *
25566212 AGCCCATTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTGGGGCAA
25566236 AGCCCTTTTCAATAAACTGGGGCAA
1 AGCCCTTTT-AATAAACTGGGGCAA
25566261 AGCCCTTTT
1 AGCCCTTTT
25566270 CGGTAAACTG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
23 6 0.12
24 22 0.43
25 23 0.45
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:25566276 original size:25 final size:25
Alignment explanation
Indices: 25566201--25566294 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 25
25566191 CTCTTTTAAT
* *
25566201 AACTGGGGCATAGCCCATTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
25566225 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
25566250 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* * *
25566275 AACTGTGGTATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
25566295 AGCACTTCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
24 18 0.30
25 43 0.70
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:25567165 original size:27 final size:27
Alignment explanation
Indices: 25567103--25567199 Score: 81
Period size: 27 Copynumber: 3.6 Consensus size: 27
25567093 GGGCATATTC
25567103 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACA
* * *
25567130 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACA
* * **
25567157 GTCTTTTTACC-TAATAGGGGTATTTTA
1 GTCATTTTACCAT-ACAGGGGTATTACA
* *
25567184 GTCATTTCACCCTACA
1 GTCATTTTACCATACA
25567200 AGGATGTTTT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
26 2 0.04
27 50 0.93
28 2 0.04
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Done.