Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007916.1 Hibiscus syriacus cultivar Beakdansim tig00110319_pilon, whole genome shotgun sequence
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: 3725575
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 16
Found at i:1896466 original size:14 final size:15
Alignment explanation
Indices: 1896447--1896481 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
1896437 CCAAGACTAC
1896447 TCGAACTGTTGTTA-
1 TCGAACTGTTGTTAG
1896461 TCGAACTGTTGTTAG
1 TCGAACTGTTGTTAG
1896476 TCGAAC
1 TCGAAC
1896482 CAGAGGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (15 bp):
TCGAACTGTTGTTAG
Found at i:1900347 original size:23 final size:23
Alignment explanation
Indices: 1900321--1900364 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
1900311 TTTTTTTTTA
1900321 GTTTTGGGTTCTGGGTGTTGATT
1 GTTTTGGGTTCTGGGTGTTGATT
1900344 GTTTTGGGTTCTGGGTGTTGA
1 GTTTTGGGTTCTGGGTGTTGA
1900365 ACTGAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.05, C:0.05, G:0.41, T:0.50
Consensus pattern (23 bp):
GTTTTGGGTTCTGGGTGTTGATT
Found at i:1901556 original size:2 final size:2
Alignment explanation
Indices: 1901549--1901580 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1901539 TTTATTTTAG
1901549 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1901581 TATTTATCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1904937 original size:45 final size:47
Alignment explanation
Indices: 1904885--1904972 Score: 144
Period size: 45 Copynumber: 1.9 Consensus size: 47
1904875 TCCGGTAGAG
*
1904885 CGCTACCTAAAATATTA-TTTTTT-TACCGGAAATATTAATATTGGA
1 CGCTACCTAAAATATTATTTTTTTCTACCAGAAATATTAATATTGGA
*
1904930 CGCTACCTAAAATATTATTTTTTTCTACCAGAAATTTTAATAT
1 CGCTACCTAAAATATTATTTTTTTCTACCAGAAATATTAATAT
1904973 AAAAAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 17 0.44
46 6 0.15
47 16 0.41
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (47 bp):
CGCTACCTAAAATATTATTTTTTTCTACCAGAAATATTAATATTGGA
Found at i:1905000 original size:21 final size:21
Alignment explanation
Indices: 1904975--1905037 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
1904965 TTTAATATAA
*
1904975 AAAATATTCATTTTAGGTAGC
1 AAAATATACATTTTAGGTAGC
* * *
1904996 GAAAT-TAACATTTTTGGTAGA
1 AAAATAT-ACATTTTAGGTAGC
1905017 AAAATA-ACATTTTAGGTAGC
1 AAAATATACATTTTAGGTAGC
1905037 A
1 A
1905038 CTCTATCGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (21 bp):
AAAATATACATTTTAGGTAGC
Found at i:1916546 original size:90 final size:90
Alignment explanation
Indices: 1916439--1916612 Score: 303
Period size: 90 Copynumber: 1.9 Consensus size: 90
1916429 AAAAGTATTT
*
1916439 ATACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTT
1 ATACGTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTT
1916504 ATACCTGTTATATTGTAAAGGATCG
66 ATACCTGTTATATTGTAAAGGATCG
* * *
1916529 ATACGTTCAACATATCAGGTAAATTTTACCGTTTTTGTTATAATGAAACTGGTTTTGTCATTTTT
1 ATACGTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTT
*
1916594 TTACCTGTTATATTGTAAA
66 ATACCTGTTATATTGTAAA
1916613 ATATTTATAA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (90 bp):
ATACGTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTT
ATACCTGTTATATTGTAAAGGATCG
Found at i:1916666 original size:111 final size:111
Alignment explanation
Indices: 1916519--1916754 Score: 348
Period size: 111 Copynumber: 2.1 Consensus size: 111
1916509 TGTTATATTG
* *
1916519 TAAAGGATCGATACGTTCAACATATCAGGTAAATTTTACCGTTTTTGTTATAATGAAACTGGTTT
1 TAAAGGATCGATACGTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGATTT
* **
1916584 TGTCATTTTTTTACCTGTTATATTGTAAAATATTTATA-ATTTTTA
66 TGTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTA
** * * * *
1916629 TAAAAGGATCGATATTTTCAATATATCATGTACATTTTACCGTTTTTGTCATAATGAAATTGATT
1 T-AAAGGATCGATACGTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGATT
1916694 TTGTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTA
65 TTGTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTA
*
1916741 TAAAGTATCGATAC
1 TAAAGGATCGATAC
1916755 TTTATAGGCG
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
110 1 0.01
111 102 0.92
112 8 0.07
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (111 bp):
TAAAGGATCGATACGTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGATTT
TGTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTA
Found at i:1917527 original size:111 final size:111
Alignment explanation
Indices: 1917405--1917841 Score: 664
Period size: 111 Copynumber: 3.9 Consensus size: 111
1917395 TGTATATTAT
*
1917405 TACTTTCAACATATCAGGTAAATTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTCATATTTT
1 TACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTT
* * * *
1917470 TACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAAAGATCGA
66 TACATGTTATATTGTAAAATATCGATCCTTTTTATAAAAAGATCGA
* *
1917516 TACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAATTGATTTTGTCATATTTT
1 TACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTT
* * * ** *
1917581 TACCTGTTATATTATAAAGTATTTATCCTTTTTAT-AAAAGAATCAA
66 TACATGTTATATTGTAAAATATCGATCCTTTTTATAAAAAG-ATCGA
* *
1917627 CACTTTCAACATATCAAGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTT
1 TACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTT
1917692 TACATGTTATATTGTAAAATATCGATCCTTTTTATAAAAAGGATCGA
66 TACATGTTATATTGTAAAATATCGATCCTTTTTATAAAAA-GATCGA
* *
1917739 TACTTTCAACATATCAGGTAAA-TTTACCGATTTTGTCATAATGAAATTGGTTTTGTCATATTTT
1 TACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTT
*
1917803 TACATGTTATATTG-AAAATATCGATACTTTTTTATAAAA
66 TACATGTTATATTGTAAAATATCGAT-CCTTTTTATAAAA
1917842 TATTGATACT
Statistics
Matches: 300, Mismatches: 22, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
110 16 0.05
111 255 0.85
112 28 0.09
113 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (111 bp):
TACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTT
TACATGTTATATTGTAAAATATCGATCCTTTTTATAAAAAGATCGA
Found at i:1918532 original size:111 final size:111
Alignment explanation
Indices: 1918338--1918738 Score: 628
Period size: 111 Copynumber: 3.6 Consensus size: 111
1918328 AAATTTTACC
* *
1918338 GGTTTTGTCACATTTTTACCTGTTATATTGTAAATTATCTATCATTTTTATAAAATGATCGATAC
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAATGATCGATAC
1918403 TTTCAACATATCAGGTAAATTTTACTGTTTTTGTCATAATGAAATT
66 TTTCAACATATCAGGTAAATTTTACTGTTTTTGTCATAATGAAATT
* *
1918449 GGTTTTGTCATATTTTTACTTGTTATTTTGTAAAGTATCTATCATTTTTATAAAATGATCGATAC
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAATGATCGATAC
*
1918514 TTTCAACATATCAGGTAAATTTTA-TCGTTTTTGTCATAATGAAACT
66 TTTCAACATATCAGGTAAATTTTACT-GTTTTTGTCATAATGAAATT
** *
1918560 AATTTTGTCATATTTTTACATGTTATATTGTAAAGTATCTATCATTTTTATAAAA-GAATCGATA
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAATG-ATCGATA
* * *
1918624 CTTTCAACATATCAAGTAAATTTTACCGGTTTTGTCATAATGAAATT
65 CTTTCAACATATCAGGTAAATTTTACTGTTTTTGTCATAATGAAATT
* * *
1918671 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTATAAAGT-ATCGATA
1 GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTAT-CATTTTTATAAAATGATCGATA
1918735 CTTT
65 CTTT
1918739 ATAGGCACTA
Statistics
Matches: 266, Mismatches: 19, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
110 2 0.01
111 252 0.95
112 12 0.05
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (111 bp):
GGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAATGATCGATAC
TTTCAACATATCAGGTAAATTTTACTGTTTTTGTCATAATGAAATT
Found at i:1919092 original size:87 final size:87
Alignment explanation
Indices: 1918946--1919288 Score: 497
Period size: 87 Copynumber: 3.9 Consensus size: 87
1918936 ATAACAAATT
* * *
1918946 AAGTAATTAACCTATTTTAATATATAAACGTTATCTATTACGTTATATAAGCGCTACCTAATATG
1 AAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATG
*
1919011 TTATTGTGTTTGATAATGTTTC
66 TTATTGTGCTTGATAATGTTTC
* * *
1919033 AAGTAATTAACCTATTTTAATATATAAACGTTATCTATTACGTTATATAAGCGCTACCTAATATG
1 AAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATG
*
1919098 TTATTGTGTTTGATAATGTTTC
66 TTATTGTGCTTGATAATGTTTC
* * *
1919120 AAGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATG
1 AAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATG
* *
1919185 TTATTGTGCATGATAATATTTC
66 TTATTGTGCTTGATAATGTTTC
* ** * * * *
1919207 CAGTAATTAATATATTTTATTATATAAGCGCTACCTATTATATTATATAAGCGGTACCTAATATG
1 AAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATG
*
1919272 TTATTGTACTTGATAAT
66 TTATTGTGCTTGATAAT
1919289 ATTTTTGATT
Statistics
Matches: 241, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 241 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (87 bp):
AAGTAATTAACCTATTTTAATATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATG
TTATTGTGCTTGATAATGTTTC
Found at i:1919164 original size:23 final size:23
Alignment explanation
Indices: 1919129--1919179 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1919119 CAAGTAATTA
**
1919129 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
1919152 ACCTATTACATTATATAAGCGGT
1 ACCTATTACATTATATAAGCGCT
1919175 ACCTA
1 ACCTA
1919180 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:1919245 original size:23 final size:23
Alignment explanation
Indices: 1919219--1919275 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1919209 GTAATTAATA
*
1919219 TATTTTATTATATAAGCGCTACC
1 TATTATATTATATAAGCGCTACC
*
1919242 TATTATATTATATAAGCGGTACC
1 TATTATATTATATAAGCGCTACC
* *
1919265 TAATATGTTAT
1 TATTATATTAT
1919276 TGTACTTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (23 bp):
TATTATATTATATAAGCGCTACC
Found at i:1921898 original size:14 final size:14
Alignment explanation
Indices: 1921879--1921919 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
1921869 GATTGGGCTA
*
1921879 AACATAAACGAATG
1 AACATAAACGAACG
1921893 AACATAAACGAACG
1 AACATAAACGAACG
1921907 AACATAAACGAAC
1 AACATAAACGAAC
1921920 AAATTACCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:1928372 original size:15 final size:15
Alignment explanation
Indices: 1928352--1928381 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1928342 ACTCTCTATA
1928352 ATAAAAATATTTTAT
1 ATAAAAATATTTTAT
1928367 ATAAAAATATTTTAT
1 ATAAAAATATTTTAT
1928382 CTTATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAAAAATATTTTAT
Found at i:1929112 original size:2 final size:2
Alignment explanation
Indices: 1929105--1929131 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1929095 AATAAATAAG
1929105 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1929132 CATTTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1929803 original size:3 final size:3
Alignment explanation
Indices: 1929795--1929837 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
1929785 CTGTCACTGG
*
1929795 ATA ATA ATA ATA ATA ATA ATA ATGA ATA AT- ATA ACA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
1929838 ATGACTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:1935730 original size:30 final size:30
Alignment explanation
Indices: 1935696--1935792 Score: 185
Period size: 30 Copynumber: 3.2 Consensus size: 30
1935686 CCCGAAGGAC
1935696 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1935726 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1935756 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1935786 CTGTCCA
1 CTATCCA
1935793 TATGTTCCTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1935823 original size:31 final size:30
Alignment explanation
Indices: 1935781--1935878 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 30
1935771 AAAGATCCTC
*
1935781 GGTAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATATGTTCCATAGAACATA
* *
1935811 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTA-ACTGTCCATATGT-TCCATAGAACATA
*
1935842 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT--AACTGTCCATATGTTCCATAGAACATA
1935874 GGTAA
1 GGTAA
1935879 ACCCTCGACT
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
30 6 0.11
31 25 0.44
32 25 0.44
33 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (30 bp):
GGTAACTGTCCATATGTTCCATAGAACATA
Found at i:1937397 original size:21 final size:21
Alignment explanation
Indices: 1937373--1937417 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1937363 TTTTGTTCGT
* *
1937373 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1937394 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1937415 TTG
1 TTG
1937418 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1949840 original size:30 final size:30
Alignment explanation
Indices: 1949806--1949867 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
1949796 ATTGAAAAAC
* *
1949806 TGGCTTACATTATTTTCATGATGCAGCAGT
1 TGGCTTACACTATTTTCATAATGCAGCAGT
1949836 TGGCTTACACTATTTTCATAATGCAGCAGT
1 TGGCTTACACTATTTTCATAATGCAGCAGT
1949866 TG
1 TG
1949868 AGCATTGATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (30 bp):
TGGCTTACACTATTTTCATAATGCAGCAGT
Found at i:1951453 original size:13 final size:13
Alignment explanation
Indices: 1951435--1951464 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1951425 TCACTTAATG
1951435 AATTTTGTATTTC
1 AATTTTGTATTTC
1951448 AATTTTGTATTTC
1 AATTTTGTATTTC
1951461 AATT
1 AATT
1951465 ATTAAATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (13 bp):
AATTTTGTATTTC
Found at i:1955258 original size:18 final size:19
Alignment explanation
Indices: 1955223--1955259 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1955213 CATGGAATGT
1955223 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1955243 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1955260 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1955480 original size:32 final size:31
Alignment explanation
Indices: 1955395--1955480 Score: 84
Period size: 37 Copynumber: 2.6 Consensus size: 31
1955385 TTGTATAATA
1955395 TTAC-AAATTATAAAATATTTATATATTTTCT
1 TTACAAAATTA-AAAATATTTATATATTTTCT
* *
1955426 TTAAAAAATTAAATTCATAATATTTATATAATTTTTT
1 TTACAAAATT-AA---A-AATATTTATAT-ATTTTCT
1955463 TTACAAAATTAAAAATAT
1 TTACAAAATTAAAAATAT
1955481 AAAAAAGGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
31 3 0.07
32 11 0.24
33 2 0.04
35 1 0.02
36 13 0.29
37 15 0.33
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (31 bp):
TTACAAAATTAAAAATATTTATATATTTTCT
Found at i:1959417 original size:11 final size:12
Alignment explanation
Indices: 1959387--1959440 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
1959377 GTTATTTAAA
1959387 CGGGTATTGGGT
1 CGGGTATTGGGT
1959399 CGGGTATTGGGT
1 CGGGTATTGGGT
*
1959411 C-GGTATTGGGC
1 CGGGTATTGGGT
* * *
1959422 CGGGAATCGGGC
1 CGGGTATTGGGT
1959434 CGGGTAT
1 CGGGTAT
1959441 ATATATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.27
12 27 0.73
ACGTcount: A:0.11, C:0.15, G:0.48, T:0.26
Consensus pattern (12 bp):
CGGGTATTGGGT
Found at i:1959487 original size:2 final size:2
Alignment explanation
Indices: 1959438--1959472 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1959428 TCGGGCCGGG
1959438 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1959473 TTAAATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1959487 original size:15 final size:15
Alignment explanation
Indices: 1959467--1959498 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1959457 ATATATATAT
1959467 ATATATTTAAATTAA
1 ATATATTTAAATTAA
1959482 ATATATTTAAATTAA
1 ATATATTTAAATTAA
1959497 AT
1 AT
1959499 TATCGGGGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATTTAAATTAA
Found at i:1959544 original size:13 final size:13
Alignment explanation
Indices: 1959500--1959531 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1959490 AAATTAAATT
1959500 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
1959513 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
1959526 ATCGGG
1 ATCGGG
1959532 TAATCGGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.53, T:0.16
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:1971512 original size:104 final size:104
Alignment explanation
Indices: 1971321--1971524 Score: 293
Period size: 104 Copynumber: 2.0 Consensus size: 104
1971311 TAAGCAACAT
* * * * * *
1971321 TGATATGTGAATACACGAGCCACATTAATGGTAGGAGTTAAGGCGTTATTCCAGGCGAGAAGACT
1 TGATATGTAAATACAAGAGCCACATTAATAGCAGGAGTTAAAGAGTTATTCCAGGCGAGAAGACT
* *
1971386 GCACACATTTCCTTGCTGTATAATGCATGAATCCAATAG
66 GCACACATTTCCTTACTGTATAATACATGAATCCAATAG
*
1971425 TGATGTGTAAATACAAGAGCCACATTAATAGCAGGAGTTAAAGAGTTGA-TCCAGGCGAGAAGAC
1 TGATATGTAAATACAAGAGCCACATTAATAGCAGGAGTTAAAGAGTT-ATTCCAGGCGAGAAGAC
* *
1971489 TGCACACATTTTCTTACTTTATAATACATGAATCCA
65 TGCACACATTTCCTTACTGTATAATACATGAATCCA
1971525 GCTCTATATT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
104 87 0.99
105 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (104 bp):
TGATATGTAAATACAAGAGCCACATTAATAGCAGGAGTTAAAGAGTTATTCCAGGCGAGAAGACT
GCACACATTTCCTTACTGTATAATACATGAATCCAATAG
Found at i:1974581 original size:20 final size:19
Alignment explanation
Indices: 1974551--1974604 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
1974541 GTTAGTAATA
*
1974551 ATAATTATAATACATAAAG
1 ATAATTATAATAAATAAAG
*
1974570 ATAATGTATAATAAATAAAT
1 ATAAT-TATAATAAATAAAG
1974590 AT-A-TA-AATAAATAAA
1 ATAATTATAATAAATAAA
1974605 AAGACAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 10 0.31
17 2 0.06
19 6 0.19
20 14 0.44
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
ATAATTATAATAAATAAAG
Found at i:1974587 original size:33 final size:32
Alignment explanation
Indices: 1974529--1974605 Score: 77
Period size: 33 Copynumber: 2.3 Consensus size: 32
1974519 AACTAATGAA
*
1974529 ACATAAAAAAATGTTAGTAATAATAATTATAAT
1 ACATAAAAAAATGTTAGTAATAATAAATAT-AT
*
1974562 ACATAAAGATAATG-TA-TAATAAATAAATATAT
1 ACATAAA-AAAATGTTAGTAAT-AATAAATATAT
*
1974594 AAATAAATAAAA
1 ACATAAA-AAAA
1974606 AGACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
32 15 0.41
33 17 0.46
34 5 0.14
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (32 bp):
ACATAAAAAAATGTTAGTAATAATAAATATAT
Found at i:1974685 original size:22 final size:22
Alignment explanation
Indices: 1974642--1974686 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1974632 ACCTGGGTCT
**
1974642 AAATACCAATAAAAGTTATAAA
1 AAATACCAATAAAAGGCATAAA
* *
1974664 AAATACCAATAAGAGGCCTAAA
1 AAATACCAATAAAAGGCATAAA
1974686 A
1 A
1974687 TAGTTGACGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.13, G:0.09, T:0.18
Consensus pattern (22 bp):
AAATACCAATAAAAGGCATAAA
Found at i:1978757 original size:30 final size:30
Alignment explanation
Indices: 1978687--1978768 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
1978677 CCGAAGGACT
*
1978687 TATCCAGAGGTCACAAAGAGCC-CGACAAC
1 TATCCAGAGGTCACAAAGAACCTCGACAAC
* *
1978716 TATCCAGAGGTCATAAAGAACCTCGTCAAC
1 TATCCAGAGGTCACAAAGAACCTCGACAAC
* * *
1978746 TGTCCATAGGTCCCAAAGAACCT
1 TATCCAGAGGTCACAAAGAACCT
1978769 AGGTAAATTG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 20 0.44
30 25 0.56
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.17
Consensus pattern (30 bp):
TATCCAGAGGTCACAAAGAACCTCGACAAC
Found at i:1979486 original size:24 final size:24
Alignment explanation
Indices: 1979454--1979513 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
1979444 AATGAAGGTA
*
1979454 TGCATCGATGTATCCCTTGTTGGG
1 TGCATCGATGCATCCCTTGTTGGG
1979478 TGCATCGATGCATCCCTTGTTGGG
1 TGCATCGATGCATCCCTTGTTGGG
1979502 TGCATCGATGCA
1 TGCATCGATGCA
1979514 CTGTCTATGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.33
Consensus pattern (24 bp):
TGCATCGATGCATCCCTTGTTGGG
Found at i:1980612 original size:16 final size:16
Alignment explanation
Indices: 1980587--1980617 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1980577 TCAATCCCTT
*
1980587 TTATTTCTTTATTTCC
1 TTATTCCTTTATTTCC
1980603 TTATTCCTTTATTTC
1 TTATTCCTTTATTTC
1980618 AAACTCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTCCTTTATTTCC
Found at i:1981813 original size:15 final size:15
Alignment explanation
Indices: 1981793--1981831 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
1981783 ATTTTTCATA
1981793 ACATATCACTCCTAC
1 ACATATCACTCCTAC
1981808 ACATATCACTCCTAC
1 ACATATCACTCCTAC
1981823 ACATATCAC
1 ACATATCAC
1981832 GTACAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (15 bp):
ACATATCACTCCTAC
Found at i:1982723 original size:12 final size:12
Alignment explanation
Indices: 1982706--1982732 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1982696 TAATACATTG
1982706 ATACTAATCAAT
1 ATACTAATCAAT
1982718 ATACTAATCAAT
1 ATACTAATCAAT
1982730 ATA
1 ATA
1982733 TTTTAAAACT
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:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
ATACTAATCAAT
Found at i:1988876 original size:59 final size:59
Alignment explanation
Indices: 1988763--1988903 Score: 169
Period size: 59 Copynumber: 2.4 Consensus size: 59
1988753 ATATATTTCT
* * * *
1988763 AACTATGACTCTCATTCTAAATTAATCTTTAAACTTTTGACTATTTCAATTTCATTCCA
1 AACTATGACTCTCATTCTAAATTAATCCTCAAAATTTTGACTATTTCAAATTCATTCCA
* *
1988822 AACTATTACTCT-AGTTCTAAATTAATCCTCAAAATTTTAGAC-ATTTTAAATTCATTCCA
1 AACTATGACTCTCA-TTCTAAATTAATCCTCAAAATTTT-GACTATTTCAAATTCATTCCA
* *
1988881 GAAGTATGACCCTCATTCTAAAT
1 -AACTATGACTCTCATTCTAAAT
1988904 AAGTTCCCCA
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
58 1 0.01
59 47 0.68
60 20 0.29
61 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (59 bp):
AACTATGACTCTCATTCTAAATTAATCCTCAAAATTTTGACTATTTCAAATTCATTCCA
Found at i:1990715 original size:20 final size:20
Alignment explanation
Indices: 1990690--1990762 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
1990680 CTATCGCAAA
1990690 TTCGCGTTGCGATTTTTCAT
1 TTCGCGTTGCGATTTTTCAT
*
1990710 TTCGCGTTGCGATTTTTCAG
1 TTCGCGTTGCGATTTTTCAT
* *
1990730 TTCGCGTTGTGATTTTCCAT
1 TTCGCGTTGCGATTTTTCAT
1990750 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
1990763 AGTTGAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.47
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTTCAT
Found at i:1990777 original size:21 final size:21
Alignment explanation
Indices: 1990751--1990796 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
1990741 ATTTTCCATT
1990751 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
1990772 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
1990793 TCGC
1 TCGC
1990797 AAAATCGCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:1991880 original size:30 final size:30
Alignment explanation
Indices: 1991821--1991923 Score: 145
Period size: 30 Copynumber: 3.4 Consensus size: 30
1991811 CCCGAAGGAC
* *
1991821 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1991850 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1991880 CTGTCCAGAGGTCATAAAGATCCTCGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGT-AA
* *
1991911 CTGTCCATAGGTC
1 CTATCCAGAGGTC
1991924 CGAAGAACCT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 19 0.28
30 35 0.51
31 14 0.21
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1991941 original size:30 final size:31
Alignment explanation
Indices: 1991878--1991971 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 31
1991868 GATCCTCGGT
* ** * *
1991878 AACTGTCCAGAGGTCATAAAGATCCTCGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
1991909 AACTGTCCATAGGTC-CGAAGAACCTAGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
** * *
1991939 AACTGTCCATATATCTCGAAG-ACATAGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
1991969 AAC
1 AAC
1991972 CCTCGACTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
30 35 0.65
31 19 0.35
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCACGAAGAACCTAGGTA
Found at i:1996556 original size:30 final size:30
Alignment explanation
Indices: 1996488--1996587 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
1996478 GAAGGACCTA
* * * *
1996488 TCCAGAGGTCACAAAGA-CCCCGATAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1996517 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
1996547 TCCAAAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
*
1996578 TCCATAGGTC
1 TCCAGAGGTC
1996588 CCGAAGAACC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 16 0.25
30 33 0.52
31 14 0.22
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:1996580 original size:31 final size:31
Alignment explanation
Indices: 1996512--1996612 Score: 123
Period size: 31 Copynumber: 3.3 Consensus size: 31
1996502 AGACCCCGAT
* *
1996512 AACTATCCAGAGGTCATAAAGATCCTCGGT-
1 AACTGTCCAAAGGTCATAAAGATCCTCGGTA
1996542 AACTGTCCAAAGGTCATAAAGATCCTCGGTA
1 AACTGTCCAAAGGTCATAAAGATCCTCGGTA
* *** * *
1996573 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCAAAGGTCATAAAGATCCTCGGTA
1996604 AACTGTCCA
1 AACTGTCCA
1996613 TATATCTCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
30 28 0.45
31 34 0.55
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.22
Consensus pattern (31 bp):
AACTGTCCAAAGGTCATAAAGATCCTCGGTA
Found at i:1996633 original size:31 final size:31
Alignment explanation
Indices: 1996569--1996637 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
1996559 AAAGATCCTC
* *
1996569 GGTAAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAAACTGTCCATAGATCCCGAAGAACATA
* *
1996600 GGTAAACTGTCCATATATCTCGAA-AGACATA
1 GGTAAACTGTCCATAGATCCCGAAGA-ACATA
1996631 GGTAAAC
1 GGTAAAC
1996638 CCTCGACTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 32 0.97
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (31 bp):
GGTAAACTGTCCATAGATCCCGAAGAACATA
Found at i:1997298 original size:2 final size:2
Alignment explanation
Indices: 1997291--1997326 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1997281 ATACAATTCC
1997291 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1997327 AAAACTCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1997911 original size:21 final size:21
Alignment explanation
Indices: 1997881--1997925 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1997871 ATTCTGTCGT
* *
1997881 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1997902 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1997923 TTG
1 TTG
1997926 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1999128 original size:22 final size:22
Alignment explanation
Indices: 1999100--1999152 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
1999090 AATTTGGAAA
1999100 ATCGCAACGACAACTATAGACT
1 ATCGCAACGACAACTATAGACT
* *
1999122 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTATAGACT
1999144 ATCGCAACG
1 ATCGCAACG
1999153 CGAAATGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.28, G:0.15, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTATAGACT
Found at i:1999169 original size:20 final size:20
Alignment explanation
Indices: 1999144--1999209 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
1999134 ACTGTAGACT
1999144 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** ** *
1999164 ATCGCAACTCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
1999185 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
1999205 ATCGC
1 ATCGC
1999210 GTTGCGATTT
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1999190 original size:41 final size:41
Alignment explanation
Indices: 1999141--1999241 Score: 159
Period size: 41 Copynumber: 2.5 Consensus size: 41
1999131 ACAACTGTAG
1999141 ACTATCGCAACGCGAAATGGAAAATCGCAACT-CGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGC-ACTGCGATTTTCA
**
1999182 ACTATCGCAACGCGAAATGGAAAATCGCGTTGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCACTGCGATTTTCA
*
1999223 ACTATCGCAACGCAAAATG
1 ACTATCGCAACGCGAAATG
1999242 CAACGCGAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 1 0.02
41 55 0.98
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCACTGCGATTTTCA
Found at i:2003071 original size:17 final size:16
Alignment explanation
Indices: 2003033--2003089 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
2003023 ATTAGAGTGC
2003033 AAAAAGAAAGAAAAAG
1 AAAAAGAAAGAAAAAG
*
2003049 ACAAAAGAAGAGAAAAAT
1 A-AAAAGAA-AGAAAAAG
2003067 AAAAA-AAA-ATAAAAG
1 AAAAAGAAAGA-AAAAG
2003082 -AAAAGAAA
1 AAAAAGAAA
2003090 TTCAAAAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 5 0.14
15 8 0.23
16 3 0.09
17 11 0.31
18 8 0.23
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.04
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAG
Found at i:2003072 original size:18 final size:17
Alignment explanation
Indices: 2003033--2003085 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 17
2003023 ATTAGAGTGC
2003033 AAAAAGAAAGAAAAAGA
1 AAAAAGAAAGAAAAAGA
* *
2003050 CAAAAGAAGAGAAAAATA
1 AAAAAGAA-AGAAAAAGA
*
2003068 AAAAA-AAA-TAAAAGA
1 AAAAAGAAAGAAAAAGA
2003083 AAA
1 AAA
2003086 GAAATTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 8 0.27
16 1 0.03
17 9 0.30
18 12 0.40
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (17 bp):
AAAAAGAAAGAAAAAGA
Found at i:2005998 original size:23 final size:23
Alignment explanation
Indices: 2005953--2005998 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2005943 TTATACCTAT
* *
2005953 AGATGCTTATTTCATATGTTATA
1 AGATACTTATTTCATATGATATA
2005976 AGATACTTATTTTCATAT-ATATA
1 AGATACTTA-TTTCATATGATATA
2005999 TATTATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (23 bp):
AGATACTTATTTCATATGATATA
Found at i:2008287 original size:35 final size:35
Alignment explanation
Indices: 2008241--2008309 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
2008231 AGGTGGAGTA
2008241 ATTCTAGTTAGCAAAATTACAAGACTAAAAGAAAC
1 ATTCTAGTTAGCAAAATTACAAGACTAAAAGAAAC
*
2008276 ATTCTAGTTAGCAAAATTACAAGATTAAAAGAAA
1 ATTCTAGTTAGCAAAATTACAAGACTAAAAGAAA
2008310 AAGTTCAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.25
Consensus pattern (35 bp):
ATTCTAGTTAGCAAAATTACAAGACTAAAAGAAAC
Found at i:2011436 original size:13 final size:13
Alignment explanation
Indices: 2011418--2011457 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
2011408 CTTTGAGTAC
2011418 ATCGATTATTAAA
1 ATCGATTATTAAA
2011431 ATCGATTATTAAA
1 ATCGATTATTAAA
*
2011444 ATTGATTATTAAA
1 ATCGATTATTAAA
2011457 A
1 A
2011458 GTTATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (13 bp):
ATCGATTATTAAA
Found at i:2013102 original size:2 final size:2
Alignment explanation
Indices: 2013095--2013127 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2013085 TCTTAGATGC
2013095 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2013128 TTTTAATAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2017974 original size:19 final size:19
Alignment explanation
Indices: 2017950--2018007 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
2017940 AAAATATTTT
2017950 TATGAATAGTACTGTACTA
1 TATGAATAGTACTGTACTA
*
2017969 TATG-A-A-T--TGTACTG
1 TATGAATAGTACTGTACTA
*
2017983 TATGAATAGTACTATACTA
1 TATGAATAGTACTGTACTA
2018002 TATGAA
1 TATGAA
2018008 CAGTGCCGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
14 10 0.32
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 15 0.48
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
TATGAATAGTACTGTACTA
Found at i:2017981 original size:14 final size:14
Alignment explanation
Indices: 2017962--2017998 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2017952 TGAATAGTAC
2017962 TGTACTATATGAAT
1 TGTACTATATGAAT
*
2017976 TGTACTGTATGAAT
1 TGTACTATATGAAT
*
2017990 AGTACTATA
1 TGTACTATA
2017999 CTATATGAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (14 bp):
TGTACTATATGAAT
Found at i:2018075 original size:21 final size:22
Alignment explanation
Indices: 2018035--2018087 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
2018025 TTTTCCATAA
* *
2018035 TGCTACAGGGGTATCGATACCC-
1 TGCTACA-GTGTACCGATACCCT
2018057 TGCTACAGTGTACCGATACCCT
1 TGCTACAGTGTACCGATACCCT
2018079 TGCTACAGT
1 TGCTACAGT
2018088 AATTTCGAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (22 bp):
TGCTACAGTGTACCGATACCCT
Found at i:2018723 original size:46 final size:46
Alignment explanation
Indices: 2018645--2018733 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
2018635 CAAAATGCCA
* *
2018645 TGTAGAATTGCACCGAAGTGCCACGTAGAATTGCACCGAAGTGTCG
1 TGTAGAATTGCACCGAAGTACCACGTAAAATTGCACCGAAGTGTCG
* *
2018691 TGTAGAATTGCACCGAAGTACCGCGTAAAATTGCACCGTAGTG
1 TGTAGAATTGCACCGAAGTACCACGTAAAATTGCACCGAAGTG
2018734 CCATATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (46 bp):
TGTAGAATTGCACCGAAGTACCACGTAAAATTGCACCGAAGTGTCG
Found at i:2018745 original size:23 final size:23
Alignment explanation
Indices: 2018640--2018737 Score: 124
Period size: 23 Copynumber: 4.3 Consensus size: 23
2018630 TACACCAAAA
2018640 TGCCATGTAGAATTGCACCGAAG
1 TGCCATGTAGAATTGCACCGAAG
*
2018663 TGCCACGTAGAATTGCACCGAAG
1 TGCCATGTAGAATTGCACCGAAG
* *
2018686 TGTCGTGTAGAATTGCACCGAAG
1 TGCCATGTAGAATTGCACCGAAG
* ** * *
2018709 TACCGCGTAAAATTGCACCGTAG
1 TGCCATGTAGAATTGCACCGAAG
2018732 TGCCAT
1 TGCCAT
2018738 ATAAAATTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (23 bp):
TGCCATGTAGAATTGCACCGAAG
Found at i:2019104 original size:25 final size:24
Alignment explanation
Indices: 2019060--2019107 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
2019050 CATAATGCAT
2019060 ATAATATGAATTAATGTCATGTATC
1 ATAATATGAATTAA-GTCATGTATC
2019085 ATAATATGGAATATAA-TCATGTA
1 ATAATAT-GAAT-TAAGTCATGTA
2019108 CCAATGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 14 0.67
26 4 0.19
27 3 0.14
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (24 bp):
ATAATATGAATTAAGTCATGTATC
Found at i:2021395 original size:20 final size:20
Alignment explanation
Indices: 2021367--2021417 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
2021357 CAATTTTAAA
2021367 GGTGCATCGATACATTAAGG
1 GGTGCATCGATACATTAAGG
*
2021387 GGTGTATCGATACATTAAGG
1 GGTGCATCGATACATTAAGG
2021407 GGTGCATCGAT
1 GGTGCATCGAT
2021418 GCATAGGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.27
Consensus pattern (20 bp):
GGTGCATCGATACATTAAGG
Found at i:2022257 original size:18 final size:18
Alignment explanation
Indices: 2022234--2022268 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2022224 AGGGATTTTC
2022234 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
2022252 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
2022269 AATATTCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:2027290 original size:2 final size:2
Alignment explanation
Indices: 2027283--2027375 Score: 186
Period size: 2 Copynumber: 46.5 Consensus size: 2
2027273 TGTTAAACTA
2027283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2027325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2027367 AT AT AT AT A
1 AT AT AT AT A
2027376 ACAGCTGCCG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2030485 original size:60 final size:60
Alignment explanation
Indices: 2030415--2030544 Score: 172
Period size: 60 Copynumber: 2.1 Consensus size: 60
2030405 CCAGATGACA
* * *
2030415 ATTTTGTAACTTTTAATAGTCAG-AGGACTCAACAAAACAACATCCTATAGTCGATAGATC
1 ATTTTGTAACTTTTAATAGT-AGAAGAACTCAACAAAACAACATCCTATAGTCGAGAAATC
* * **
2030475 ATTTTTTAACTTTTAATAGTTGAAGAACTCAACAAAACAATGTCCTATAGTCGAGAAATC
1 ATTTTGTAACTTTTAATAGTAGAAGAACTCAACAAAACAACATCCTATAGTCGAGAAATC
2030535 ATTTATGTAA
1 ATTT-TGTAA
2030545 TTTACCCTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
59 1 0.02
60 55 0.92
61 4 0.07
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (60 bp):
ATTTTGTAACTTTTAATAGTAGAAGAACTCAACAAAACAACATCCTATAGTCGAGAAATC
Found at i:2034814 original size:2 final size:2
Alignment explanation
Indices: 2034807--2034846 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2034797 ACAAAAGAGA
2034807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2034847 TATTGCTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2041032 original size:26 final size:25
Alignment explanation
Indices: 2041003--2041052 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
2040993 AATTTTCAGC
* *
2041003 ATTATTTATTTTTCATTATTTGTTTA
1 ATTACTTATTTTT-AATATTTGTTTA
2041029 ATTACTTATTTTTAATATTTGTTT
1 ATTACTTATTTTTAATATTTGTTT
2041053 TTTTATTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.68
Consensus pattern (25 bp):
ATTACTTATTTTTAATATTTGTTTA
Found at i:2041453 original size:3 final size:3
Alignment explanation
Indices: 2041445--2041483 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
2041435 TGTACGATTA
2041445 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2041484 TATAGTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2042263 original size:22 final size:22
Alignment explanation
Indices: 2042237--2042279 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2042227 TACCAATTAT
2042237 TTTTAAAATAATATTAATATTC
1 TTTTAAAATAATATTAATATTC
* *
2042259 TTTTAAAGTGATATTAATATT
1 TTTTAAAATAATATTAATATT
2042280 TTTATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (22 bp):
TTTTAAAATAATATTAATATTC
Found at i:2051683 original size:2 final size:2
Alignment explanation
Indices: 2051676--2051712 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2051666 TATCCATAAT
2051676 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2051713 AAACTCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2051887 original size:27 final size:27
Alignment explanation
Indices: 2051855--2051908 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
2051845 CTAATAATCC
2051855 TAAATCTATGTAAAACTAAAAGATTTT
1 TAAATCTATGTAAAACTAAAAGATTTT
2051882 TAAATCTATGTAAAACTAAAAGATTTT
1 TAAATCTATGTAAAACTAAAAGATTTT
2051909 ATGTTGTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (27 bp):
TAAATCTATGTAAAACTAAAAGATTTT
Found at i:2059318 original size:29 final size:28
Alignment explanation
Indices: 2059230--2059318 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 28
2059220 TTATTAAGGT
* *
2059230 ATATTTTATTATATTTAGTTTTTTT-TAG
1 ATATTTTATT-TAATTATTTTTTTTGTAG
* **
2059258 -TAATTTATTTAATTATTTTAATTGCTTA-
1 ATATTTTATTTAATTATTTTTTTTG--TAG
2059286 ATATTTTATTTAATTAATTTTTTTTGTAG
1 ATATTTTATTTAATT-ATTTTTTTTGTAG
2059315 ATAT
1 ATAT
2059319 AAAATGGAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
26 10 0.21
27 8 0.17
28 2 0.04
29 19 0.40
30 8 0.17
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (28 bp):
ATATTTTATTTAATTATTTTTTTTGTAG
Found at i:2061613 original size:21 final size:21
Alignment explanation
Indices: 2061587--2061633 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2061577 TACCATTTAA
2061587 TATCAGTTATTGTAATTTGGT
1 TATCAGTTATTGTAATTTGGT
2061608 TATCAGTTATTGTAATTTGGT
1 TATCAGTTATTGTAATTTGGT
2061629 TATCA
1 TATCA
2061634 TTTACCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.51
Consensus pattern (21 bp):
TATCAGTTATTGTAATTTGGT
Found at i:2063045 original size:21 final size:21
Alignment explanation
Indices: 2063019--2063063 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2063009 GATTTCTGGG
* *
2063019 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2063040 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2063061 CAA
1 CAA
2063064 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2064926 original size:23 final size:23
Alignment explanation
Indices: 2064882--2064926 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
2064872 ATCATTATAT
*
2064882 GGCACTACGATGCAATTCTACGC
1 GGCACTACGATGCAATTATACGC
* * *
2064905 GGCACTTCGGTGCATTTATACG
1 GGCACTACGATGCAATTATACG
2064927 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
GGCACTACGATGCAATTATACGC
Found at i:2068082 original size:21 final size:21
Alignment explanation
Indices: 2068056--2068100 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2068046 GATTTCTGGG
* *
2068056 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2068077 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2068098 CAA
1 CAA
2068101 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2070200 original size:22 final size:22
Alignment explanation
Indices: 2070183--2070249 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
2070173 CTCGTATAAA
2070183 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
2070205 TGCATCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
2070227 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
2070249 T
1 T
2070250 ATGTCCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:2071020 original size:69 final size:70
Alignment explanation
Indices: 2070872--2071026 Score: 199
Period size: 70 Copynumber: 2.2 Consensus size: 70
2070862 TTTTTCTCAT
* * * *
2070872 AGGGGAATCGGTT-CCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAGTCTGGAATTTCATATAC
1 AGGGGTATCGGTTCCCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAGTCTGGAAATTCATATAC
2070936 GATGA
66 GATGA
* * * * *
2070941 GGGGGTATCGGTTCCCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTC
1 AGGGGTATCGGTTCCCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAGTCTGGAAATTCATATAC
2071005 -ATTGA
66 GA-TGA
2071010 AGGGGTATCGGTTCCCC
1 AGGGGTATCGGTTCCCC
2071027 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
68 1 0.01
69 32 0.43
70 41 0.55
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.27
Consensus pattern (70 bp):
AGGGGTATCGGTTCCCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAGTCTGGAAATTCATATAC
GATGA
Found at i:2071036 original size:21 final size:21
Alignment explanation
Indices: 2071006--2071048 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2070996 ATTCATTTCA
* *
2071006 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2071027 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2071048 T
1 T
2071049 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2072131 original size:23 final size:23
Alignment explanation
Indices: 2072087--2072131 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2072077 ATCATTATAT
*
2072087 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
2072110 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
2072132 AGTTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:2075263 original size:27 final size:21
Alignment explanation
Indices: 2075206--2075250 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
2075196 TGATATTTTA
2075206 ACACGCTCATTTGATACGAAT
1 ACACGCTCATTTGATACGAAT
2075227 ACACGCTCATTTGATACGAAT
1 ACACGCTCATTTGATACGAAT
2075248 ACA
1 ACA
2075251 ACGCCAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (21 bp):
ACACGCTCATTTGATACGAAT
Found at i:2077098 original size:40 final size:40
Alignment explanation
Indices: 2077053--2077137 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
2077043 TTTATTAAAC
*
2077053 TAAAAAGTAAATAAAT-TTATTTATTTTATTTTCACATAGA
1 TAAAAAGTAAATAAATAAT-TTTATTTTATTTTCACATAGA
2077093 TAAAAAGTAAATAAATAATTTTATTTTATTTTCACATAGA
1 TAAAAAGTAAATAAATAATTTTATTTTATTTTCACATAGA
2077133 TAAAA
1 TAAAA
2077138 GGGTAAACTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (40 bp):
TAAAAAGTAAATAAATAATTTTATTTTATTTTCACATAGA
Found at i:2077318 original size:17 final size:17
Alignment explanation
Indices: 2077287--2077319 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2077277 ATTTTTATTA
2077287 TTAAATATAAAAATAAT
1 TTAAATATAAAAATAAT
2077304 TTAAA-ATAAATAATAA
1 TTAAATATAAA-AATAA
2077320 AATAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAATATAAAAATAAT
Found at i:2078732 original size:2 final size:2
Alignment explanation
Indices: 2078725--2078755 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2078715 ACTGAATTGG
2078725 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2078756 CCAACTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2079040 original size:14 final size:14
Alignment explanation
Indices: 2079021--2079050 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2079011 TGTCCAGAAG
2079021 TGGTGAATTGAATT
1 TGGTGAATTGAATT
2079035 TGGTGAATTGAATT
1 TGGTGAATTGAATT
2079049 TG
1 TG
2079051 AAAACAATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (14 bp):
TGGTGAATTGAATT
Found at i:2086020 original size:21 final size:22
Alignment explanation
Indices: 2085971--2086021 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
2085961 TTTTGAAAAA
2085971 TTACTCCCCCTTACTTTAACAC
1 TTACTCCCCCTTACTTTAACAC
2085993 TTACTCCCCCTTACTTTAACAC
1 TTACTCCCCCTTACTTTAACAC
2086015 TT-CTCCC
1 TTACTCCC
2086022 ATTTAAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.37
Consensus pattern (22 bp):
TTACTCCCCCTTACTTTAACAC
Found at i:2088382 original size:20 final size:20
Alignment explanation
Indices: 2088353--2088390 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2088343 CCCCTTCAAA
*
2088353 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
2088373 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
2088391 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:2095377 original size:44 final size:45
Alignment explanation
Indices: 2095280--2095377 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
2095270 TTGTGCATAA
* * *
2095280 TGCATCGATACACTATTAAGGTGCATCGATGCATCCCTTTGAATG
1 TGCATCGATACACTATGAAGATGCACCGATGCATCCCTTTGAATG
*
2095325 TGCCTCGATACA-TCATGAAGATGCACCGATGCA-CTCC-TTGAATG
1 TGCATCGATACACT-ATGAAGATGCACCGATGCATC-CCTTTGAATG
2095369 TGCATCGAT
1 TGCATCGAT
2095378 GCACAAGGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 17 0.37
45 29 0.63
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
TGCATCGATACACTATGAAGATGCACCGATGCATCCCTTTGAATG
Found at i:2097603 original size:17 final size:17
Alignment explanation
Indices: 2097581--2097618 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
2097571 GATTTAACAA
*
2097581 AAAGGGGGAGAAGTGTT
1 AAAGGGCGAGAAGTGTT
2097598 AAAGGGCGAGAAGTGTT
1 AAAGGGCGAGAAGTGTT
2097615 AAAG
1 AAAG
2097619 TAACAAGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.03, G:0.42, T:0.16
Consensus pattern (17 bp):
AAAGGGCGAGAAGTGTT
Found at i:2103350 original size:41 final size:41
Alignment explanation
Indices: 2103305--2103803 Score: 361
Period size: 41 Copynumber: 12.3 Consensus size: 41
2103295 TGTTTTTTCA
* * * *
2103305 ACAAACGCCGCAAAAGAGTAGTACTTTAGTGGTGCTTTTAT
1 ACAAACGCCGCTAAAGAATAGTACTTTAGTGGCGTTTTTAT
* * * *
2103346 ACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGAATAGTACTTTAGTGGCGTTTTTAT
* *
2103387 ACAAACGCCGCTATAGAATTGTACTTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTAAAGAATAGTACTTTAGTGGCGTTTTTAT
* * * * * * *
2103428 ACAAACGTCGTTATACACAT-GTACTATAGCGGCG--TTTGT
1 ACAAACGCCGCTAAAGA-ATAGTACTTTAGTGGCGTTTTTAT
* *
2103467 ----A--CCGCTAAAGACTCA-TAATTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTAAAGAAT-AGTACTTTAGTGGCGTTTTTAT
* *
2103502 ACAAACGCCGCTAAAGACTAATACTTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTAAAGAATAGTACTTTAGTGGCGTTTTTAT
* * *** *
2103543 ACAAACTCCACTAAAGACGCGTACTTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGAATAGTACTTTAGTGGCGTTTTTAT
* * * * * * * * *
2103584 TCAAAAGCCGTTATACACTTGTACTATAGTGGCGTTTGTGTTT
1 ACAAACGCCGCTAAAGAATAGTACTTTAGTGGCGTTT-T-TAT
* * * * *
2103627 ACAAACGTCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGAATAGTACTTTAGTGGCGTTTTTAT
* * * * *
2103668 ACAAACGCCGCTAAAGACTCGTACTTTATTGACATTTTTAT
1 ACAAACGCCGCTAAAGAATAGTACTTTAGTGGCGTTTTTAT
** * *
2103709 ACAAACGCTTCTAAAGACTCGTACTTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTAAAGAATAGTACTTTAGTGGCGTTTTTAT
* * * * * * *
2103750 TCAAACGCCGCTATACACTTGTACTATAGTGGCGTTTGTGTTT
1 ACAAACGCCGCTAAAGAATAGTACTTTAGTGGCGTTT-T-TAT
2103793 ACAAACGCCGC
1 ACAAACGCCGC
2103804 AAGTTTACAA
Statistics
Matches: 367, Mismatches: 75, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
32 1 0.00
33 16 0.04
35 5 0.01
39 5 0.01
40 1 0.00
41 293 0.80
42 5 0.01
43 41 0.11
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (41 bp):
ACAAACGCCGCTAAAGAATAGTACTTTAGTGGCGTTTTTAT
Found at i:2103384 original size:82 final size:82
Alignment explanation
Indices: 2103305--2103803 Score: 467
Period size: 82 Copynumber: 6.1 Consensus size: 82
2103295 TGTTTTTTCA
* * * * * *
2103305 ACAAACGCCGCAAAAGAGTAGTACTTTAGTGGTGCTTTTATACAAACGCCGCTAAAGACTCGTAA
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
*
2103370 TTTAGTGGCATTTTTAT
66 TTTAGTGGCGTTTTTAT
* * * * * * *
2103387 ACAAACGCCGCTATAGAATTGTACTTTAGTGGCGTTTTTATACAAACGTCGTTATACACAT-GTA
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGAC-TCGTA
* * *
2103451 CTATAGCGGCG--TTTGT
65 CTTTAGTGGCGTTTTTAT
* * **
2103467 ----A--CCGCTAAAGACTCATAATTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAATAC
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
2103526 TTTAGTGGCGTTTTTAT
66 TTTAGTGGCGTTTTTAT
* * * * * * * * * *
2103543 ACAAACTCCACTAAAGACGCGTACTTTAGTGGCATTTTTATTCAAAAGCCGTTATACACTTGTAC
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* *
2103608 TATAGTGGCGTTTGTGTTT
66 TTTAGTGGCGTTT-T-TAT
* * *
2103627 ACAAACGTCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTAC
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* * *
2103692 TTTATTGACATTTTTAT
66 TTTAGTGGCGTTTTTAT
** * * * *
2103709 ACAAACGCTTCTAAAGACTCGTACTTTAGTGGCGTTTTTATTCAAACGCCGCTATACACTTGTAC
1 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
* *
2103774 TATAGTGGCGTTTGTGTTT
66 TTTAGTGGCGTTT-T-TAT
2103793 ACAAACGCCGC
1 ACAAACGCCGC
2103804 AAGTTTACAA
Statistics
Matches: 329, Mismatches: 74, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
73 1 0.00
74 54 0.16
76 5 0.02
80 5 0.02
82 184 0.56
83 4 0.01
84 76 0.23
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (82 bp):
ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAC
TTTAGTGGCGTTTTTAT
Found at i:2103567 original size:115 final size:115
Alignment explanation
Indices: 2103353--2103567 Score: 306
Period size: 115 Copynumber: 1.9 Consensus size: 115
2103343 TATACAAACG
* * **
2103353 CCGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTATAGAATTGTACTTTAGTG
1 CCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGAATAATACTTTAGTG
** * *
2103418 GCGTTTTTATACAAACGTCGTTATACACATGTACTATAGCGGCGTTTGTA
66 GCGTTTTTATACAAACGTCACTAAACACACGTACTATAGCGGCGTTTGTA
* *
2103468 CCGCTAAAGACTCATAATTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAATACTTTAGTG
1 CCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGAATAATACTTTAGTG
* *
2103533 GCGTTTTTATACAAAC-TCCACTAAAGACGCGTACT
66 GCGTTTTTATACAAACGT-CACTAAACACACGTACT
2103568 TTAGTGGCAT
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
114 1 0.01
115 86 0.99
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (115 bp):
CCGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGAATAATACTTTAGTG
GCGTTTTTATACAAACGTCACTAAACACACGTACTATAGCGGCGTTTGTA
Found at i:2103733 original size:125 final size:124
Alignment explanation
Indices: 2103471--2103762 Score: 363
Period size: 125 Copynumber: 2.4 Consensus size: 124
2103461 GTTTGTACCG
* * * *
2103471 CTAAAGACTCATAATTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAATACTTTAGTGGCG
1 CTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAATAATTTAGTGGCA
* * *
2103536 TTTTTATACAAACTCCACTAAAGACGCGTACTTTAGTGGCATTTTTATTCAAAAGCCGT
66 TTTTTATACAAACGCCACTAAAGACGCGTACTTTAGTGACATTTTTATACAAAAGCCGT
* * * * * * **
2103595 -TATACACTTGTACTATAGTGGCGTTTGTGTTTACAAACGTCGCTAAAGACTCGTAATTTAGTGG
1 CTAAAGACTCGTACTTTAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTAATAATTTAGTGG
* * * * *
2103659 CATTTTTATACAAACGCCGCTAAAGACTCGTACTTTATTGACATTTTTATACAAACG-CTT
64 CATTTTTATACAAACGCCACTAAAGACGCGTACTTTAGTGACATTTTTATACAAAAGCCGT
*
2103719 CTAAAGACTCGTACTTTAGTGGCGTTTTTATTCAAACGCCGCTA
1 CTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTA
2103763 TACACTTGTA
Statistics
Matches: 138, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
123 33 0.24
124 4 0.03
125 101 0.73
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (124 bp):
CTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAATAATTTAGTGGCA
TTTTTATACAAACGCCACTAAAGACGCGTACTTTAGTGACATTTTTATACAAAAGCCGT
Found at i:2103749 original size:166 final size:166
Alignment explanation
Indices: 2103469--2103799 Score: 536
Period size: 166 Copynumber: 2.0 Consensus size: 166
2103459 GCGTTTGTAC
* *
2103469 CGCTAAAGACTCATAATTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAATACTTTAGTGG
1 CGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTAATACTTTAGTGA
* * *
2103534 CGTTTTTATACAAACTCCACTAAAGACGCGTACTTTAGTGGCATTTTTATTCAAAAGCCGTTATA
66 CATTTTTATACAAACGCCACTAAAGACGCGTACTTTAGTGGCATTTTTATTCAAAAGCCGCTATA
2103599 CACTTGTACTATAGTGGCGTTTGTGTTTACAAACGT
131 CACTTGTACTATAGTGGCGTTTGTGTTTACAAACGT
* ** *
2103635 CGCTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTACTTTATTGA
1 CGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTAATACTTTAGTGA
** * * *
2103700 CATTTTTATACAAACGCTTCTAAAGACTCGTACTTTAGTGGCGTTTTTATTCAAACGCCGCTATA
66 CATTTTTATACAAACGCCACTAAAGACGCGTACTTTAGTGGCATTTTTATTCAAAAGCCGCTATA
2103765 CACTTGTACTATAGTGGCGTTTGTGTTTACAAACG
131 CACTTGTACTATAGTGGCGTTTGTGTTTACAAACG
2103800 CCGCAAGTTT
Statistics
Matches: 151, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
166 151 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (166 bp):
CGCTAAAGACTCATAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTAATACTTTAGTGA
CATTTTTATACAAACGCCACTAAAGACGCGTACTTTAGTGGCATTTTTATTCAAAAGCCGCTATA
CACTTGTACTATAGTGGCGTTTGTGTTTACAAACGT
Found at i:2106956 original size:43 final size:43
Alignment explanation
Indices: 2106895--2107130 Score: 271
Period size: 43 Copynumber: 5.5 Consensus size: 43
2106885 AAGGTAATTA
* *
2106895 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
* * *
2106938 GCGGCGTTTGTGTTCAAAAACGCCGTTATAGGTCTGACATTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
* *
2106981 GCGGCATTTGTGTCCAAAAACGCCACTATAGGTCTGACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
* * * * * *
2107024 ACGGCATTTGT-TCTAAAAATGCCAG-TATAGGTCTTATCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCC-GCTATAGGTCTGACCTTTT
* * * *
2107066 GTGGCGTTTGTATCCAAAAACGCCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCT-GACCTTTT
*
2107110 GCGGCGTTTGT-TCAAAAAACG
1 GCGGCGTTTGTGTCCAAAAACG
2107131 ACGTAATAGA
Statistics
Matches: 163, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 34 0.21
43 113 0.69
44 16 0.10
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
Found at i:2107142 original size:43 final size:44
Alignment explanation
Indices: 2106895--2107157 Score: 148
Period size: 43 Copynumber: 6.1 Consensus size: 44
2106885 AAGGTAATTA
* * * * *
2106895 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCT-GACTTTTT
1 GCGGCGTTTGTATCAAAAAACGACGCTATAGATATCGACCTTTT
* * * * * *
2106938 GCGGCGTTTGTGTTC-AAAAACGCCGTTATAGGTCT-GACATTTT
1 GCGGCGTTTGT-ATCAAAAAACGACGCTATAGATATCGACCTTTT
* * * * * * *
2106981 GCGGCATTTGTGTCCAAAAACGCCACTATAGGTCT-GACCTTTT
1 GCGGCGTTTGTATCAAAAAACGACGCTATAGATATCGACCTTTT
* * * * * * * * *
2107024 ACGGCATTTGT-TCTAAAAATGCCAG-TATAGGTCT-TATCTTTT
1 GCGGCGTTTGTATCAAAAAACGAC-GCTATAGATATCGACCTTTT
* * *
2107066 GTGGCGTTTGTATCCAAAAACGCCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTATCAAAAAACGACGCTATAGATATCGACCTTTT
* *
2107110 GCGGCGTTTGT-TCAAAAAACGACG-TAATAGATATTGACCTATT
1 GCGGCGTTTGTATCAAAAAACGACGCT-ATAGATATCGACCTTTT
2107153 GCGGC
1 GCGGC
2107158 ATTTTTTGTT
Statistics
Matches: 185, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
42 37 0.20
43 130 0.70
44 18 0.10
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (44 bp):
GCGGCGTTTGTATCAAAAAACGACGCTATAGATATCGACCTTTT
Found at i:2107840 original size:60 final size:60
Alignment explanation
Indices: 2107753--2107867 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
2107743 TCATGTGATG
* * * * *
2107753 ATTTTTAACTTTTAATGGTCGAGAGACTTAA-TAAAACAACACTCTATAGTTGGACAACC
1 ATTTTTAACTTTTAATAGTCAAAAGACTCAACAAAAACAACACTCTATAGTTGGACAACC
* * *
2107812 ATTTTATAACTTTTGATAGTCAAAAGACTCAACAAAAACAACATTGTATAGTTGGA
1 ATTTT-TAACTTTTAATAGTCAAAAGACTCAACAAAAACAACACTCTATAGTTGGA
2107868 GGATCATTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 5 0.11
60 21 0.46
61 20 0.43
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (60 bp):
ATTTTTAACTTTTAATAGTCAAAAGACTCAACAAAAACAACACTCTATAGTTGGACAACC
Found at i:2110936 original size:17 final size:17
Alignment explanation
Indices: 2110914--2110951 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2110904 CTTAGATTTG
* *
2110914 CATTTTGATTCCTTTTT
1 CATTTTAATGCCTTTTT
2110931 CATTTTAATGCCTTTTT
1 CATTTTAATGCCTTTTT
2110948 -ATTT
1 CATTT
2110952 CCCTTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.16, C:0.16, G:0.05, T:0.63
Consensus pattern (17 bp):
CATTTTAATGCCTTTTT
Found at i:2119319 original size:2 final size:2
Alignment explanation
Indices: 2119312--2119342 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2119302 TCTTTTCTTC
2119312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2119343 AGGTTAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2119685 original size:19 final size:19
Alignment explanation
Indices: 2119661--2119719 Score: 118
Period size: 19 Copynumber: 3.1 Consensus size: 19
2119651 AATCTTACTC
2119661 GTTAAATTCATTTAATCTA
1 GTTAAATTCATTTAATCTA
2119680 GTTAAATTCATTTAATCTA
1 GTTAAATTCATTTAATCTA
2119699 GTTAAATTCATTTAATCTA
1 GTTAAATTCATTTAATCTA
2119718 GT
1 GT
2119720 CAAAATGCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (19 bp):
GTTAAATTCATTTAATCTA
Found at i:2122711 original size:13 final size:13
Alignment explanation
Indices: 2122693--2122719 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2122683 AGATACATTT
2122693 GTTTCTCTCTCTA
1 GTTTCTCTCTCTA
2122706 GTTTCTCTCTCTA
1 GTTTCTCTCTCTA
2122719 G
1 G
2122720 AGCCACCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.30, G:0.11, T:0.52
Consensus pattern (13 bp):
GTTTCTCTCTCTA
Found at i:2126834 original size:28 final size:28
Alignment explanation
Indices: 2126802--2126877 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
2126792 GAGTACTTAT
*
2126802 ATTTATTTATTTTTA-ATTTAGTCCCTAA
1 ATTTATTT-TCTTTAGATTTAGTCCCTAA
* *
2126830 ATTTAGGTTTCTTTAGATTTAGTCCTTAA
1 ATTTA-TTTTCTTTAGATTTAGTCCCTAA
*
2126859 ATTTATTTGTCGTTAGATT
1 ATTTATTT-TCTTTAGATT
2126878 AACCCTAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 12 0.30
29 28 0.70
ACGTcount: A:0.25, C:0.09, G:0.11, T:0.55
Consensus pattern (28 bp):
ATTTATTTTCTTTAGATTTAGTCCCTAA
Found at i:2142580 original size:90 final size:90
Alignment explanation
Indices: 2142459--2142644 Score: 295
Period size: 90 Copynumber: 2.1 Consensus size: 90
2142449 AGTAGATAAA
* * * *
2142459 TTTTAAAAAATAAAGACAAAATCATTGTCTATATTTTTTATTACATGATATCGATCACTTGTAA-
1 TTTTTAAAAATAAAGACAAAATCATTATCTATATTTTTTATTACATCATATCGATCACTTATAAC
2142523 TTTTTGAAAAAAATAATAATTTGAA-T
66 TTTTT--AAAAAATAATAATTTGAACT
2142549 TTTTTAAAAATAAAGACAAAATCATTATCTATATTTTTTATTACATCATATCGATCACTTATAAC
1 TTTTTAAAAATAAAGACAAAATCATTATCTATATTTTTTATTACATCATATCGATCACTTATAAC
*
2142614 TTTTTAAGAAATAATAATTTGAACT
66 TTTTTAAAAAATAATAATTTGAACT
2142639 TTTTTA
1 TTTTTA
2142645 TTGAAAAATA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
89 17 0.19
90 67 0.75
91 5 0.06
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (90 bp):
TTTTTAAAAATAAAGACAAAATCATTATCTATATTTTTTATTACATCATATCGATCACTTATAAC
TTTTTAAAAAATAATAATTTGAACT
Found at i:2145404 original size:20 final size:19
Alignment explanation
Indices: 2145369--2145408 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
2145359 ATTTTTTTTG
*
2145369 AAAATTTTCAACAAGTCTTC
1 AAAATTTTCAAAAAGT-TTC
*
2145389 AAAATTTTTAAAAAGTTTC
1 AAAATTTTCAAAAAGTTTC
2145408 A
1 A
2145409 TTAATATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAATTTTCAAAAAGTTTC
Found at i:2151975 original size:16 final size:17
Alignment explanation
Indices: 2151944--2151976 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2151934 ATCGCCGACA
*
2151944 AAATTTCACTATTCACG
1 AAATTTCACCATTCACG
2151961 AAATTT-ACCATTCACG
1 AAATTTCACCATTCACG
2151977 TGAACAGTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (17 bp):
AAATTTCACCATTCACG
Found at i:2153016 original size:30 final size:30
Alignment explanation
Indices: 2152980--2153044 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
2152970 TGACGAAGGC
*
2152980 GAAGCGGACATCGAACGGGTGGAGGACGGA
1 GAAGCGGACATCGAACGAGTGGAGGACGGA
2153010 GAAGCGGACATCGAACGAGTGGAGGACGGA
1 GAAGCGGACATCGAACGAGTGGAGGACGGA
2153040 GAAGC
1 GAAGC
2153045 AAAGAGGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.45, T:0.06
Consensus pattern (30 bp):
GAAGCGGACATCGAACGAGTGGAGGACGGA
Found at i:2157475 original size:42 final size:42
Alignment explanation
Indices: 2157409--2157505 Score: 167
Period size: 42 Copynumber: 2.3 Consensus size: 42
2157399 AATCCTCCCC
* * *
2157409 CATATAAATATATAAATAATAATAATTAAAACATGATTTTAA
1 CATATAAATATATAAAAAAAAATAATTAAAACATGAGTTTAA
2157451 CATATAAATATATAAAAAAAAATAATTAAAACATGAGTTTAA
1 CATATAAATATATAAAAAAAAATAATTAAAACATGAGTTTAA
2157493 CATATAAATATAT
1 CATATAAATATAT
2157506 TAAGTGATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (42 bp):
CATATAAATATATAAAAAAAAATAATTAAAACATGAGTTTAA
Found at i:2158238 original size:14 final size:13
Alignment explanation
Indices: 2158216--2158249 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2158206 CACGTGCCAC
2158216 ATTTATATTTTTAA
1 ATTTATA-TTTTAA
*
2158230 ATTTTTATTTTAA
1 ATTTATATTTTAA
2158243 ATTTATA
1 ATTTATA
2158250 AAAAGAAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTTATATTTTAA
Found at i:2160598 original size:18 final size:18
Alignment explanation
Indices: 2160575--2160617 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2160565 AATAGCTACT
2160575 AGATAAACTTAACAAAT-A
1 AGATAAAC-TAACAAATAA
*
2160593 AGATAAACTAATAAATAA
1 AGATAAACTAACAAATAA
2160611 AGATAAA
1 AGATAAA
2160618 AAATCAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (18 bp):
AGATAAACTAACAAATAA
Found at i:2162830 original size:40 final size:39
Alignment explanation
Indices: 2162756--2162831 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
2162746 TATGCGGTAA
* *
2162756 TAATTTAAGATTAAAAACAATAATTATGGGGTGCAAATC
1 TAATTTAAGATTAAAAACAATAATTATAGAGTGCAAATC
2162795 TAATTTAAGATTAAAAA-ATGATAATTATAGAGTGCAA
1 TAATTTAAGATTAAAAACA--ATAATTATAGAGTGCAA
2162832 TTGAATATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 1 0.03
39 17 0.52
40 15 0.45
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (39 bp):
TAATTTAAGATTAAAAACAATAATTATAGAGTGCAAATC
Found at i:2163985 original size:2 final size:2
Alignment explanation
Indices: 2163978--2164024 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
2163968 GAAAATTTAA
*
2163978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2164020 AT AT A
1 AT AT A
2164025 ACATATCATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2164229 original size:30 final size:30
Alignment explanation
Indices: 2164195--2164258 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
2164185 CATGTAGGTT
2164195 CTTAAAATTGGGTGACGAAATGTAATCATA
1 CTTAAAATTGGGTGACGAAATGTAATCATA
2164225 CTTAAAATTGGGTGACGAAATGTAATCATA
1 CTTAAAATTGGGTGACGAAATGTAATCATA
2164255 CTTA
1 CTTA
2164259 CAAGGTTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (30 bp):
CTTAAAATTGGGTGACGAAATGTAATCATA
Found at i:2164432 original size:7 final size:7
Alignment explanation
Indices: 2164420--2164446 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2164410 GTTAAACCCA
2164420 AACTCCC
1 AACTCCC
2164427 AACTCCC
1 AACTCCC
2164434 AACTCCC
1 AACTCCC
2164441 AACTCC
1 AACTCC
2164447 AGATTACTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
AACTCCC
Found at i:2168918 original size:3 final size:3
Alignment explanation
Indices: 2168912--2168948 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
2168902 AATATGTAAT
* *
2168912 TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2168949 TTTGTAGACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2172865 original size:42 final size:41
Alignment explanation
Indices: 2172819--2172919 Score: 121
Period size: 41 Copynumber: 2.4 Consensus size: 41
2172809 AACAAAGATG
**
2172819 TAATTTAGCGGCGTTTATCAAACAAACGCCGCTGTAGAGTAA
1 TAATTTAGCGGCGTTTATCAAA-AAACGCCGCAATAGAGTAA
* * ** *
2172861 TAATTTAGTGGCGTTTGTGTAAAAATGCCGCAATAGAGTAA
1 TAATTTAGCGGCGTTTATCAAAAAACGCCGCAATAGAGTAA
*
2172902 TAATTTAGCAGCGTTTAT
1 TAATTTAGCGGCGTTTAT
2172920 AGTACAAACG
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
41 31 0.63
42 18 0.37
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.32
Consensus pattern (41 bp):
TAATTTAGCGGCGTTTATCAAAAAACGCCGCAATAGAGTAA
Found at i:2173410 original size:22 final size:22
Alignment explanation
Indices: 2173380--2173427 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
2173370 TTGTTTTTCT
*
2173380 GCTTTCGAATA-GAAGAATAATA
1 GCTTCCGAATAGGAA-AATAATA
2173402 GCTTCCGAATAGGAAAATAATA
1 GCTTCCGAATAGGAAAATAATA
2173424 GCTT
1 GCTT
2173428 TTGAAACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (22 bp):
GCTTCCGAATAGGAAAATAATA
Found at i:2182852 original size:33 final size:33
Alignment explanation
Indices: 2182810--2182874 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
2182800 GAAAAAAGCT
*
2182810 AGAGCAGCAGCGGAAGCAGAGAAAGAAACAGCC
1 AGAGCAGCAGCGAAAGCAGAGAAAGAAACAGCC
* *
2182843 AGAGCAGCAGTGAAAGCAGAGAAAGAAGCAGC
1 AGAGCAGCAGCGAAAGCAGAGAAAGAAACAGC
2182875 GGCAGCATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.46, C:0.18, G:0.34, T:0.02
Consensus pattern (33 bp):
AGAGCAGCAGCGAAAGCAGAGAAAGAAACAGCC
Found at i:2183465 original size:42 final size:42
Alignment explanation
Indices: 2183388--2183539 Score: 110
Period size: 42 Copynumber: 3.6 Consensus size: 42
2183378 TTTTCGATAC
* * *
2183388 AAACGCCGCTAAATC-TGAAAACCTACTAC-GACGTTTGTGGGA
1 AAACGCCGCTAAA-CATCAACACCTACTGCAG-CGTTTGTGGGA
* ** * * *
2183430 AAACGCCGCTAAACATCATCACCTTTTGTAGCGTTTATGGAA
1 AAACGCCGCTAAACATCAACACCTACTGCAGCGTTTGTGGGA
* * * ** *
2183472 AAATGCTGCAAAATGTCAACACCTACTGCGGCGTTTGTAGGGA
1 AAACGCCGCTAAACATCAACACCTACTGCAGCGTTTGT-GGGA
* *
2183515 AAACGTCGCTAAACACCAACACCTA
1 AAACGCCGCTAAACATCAACACCTA
2183540 TTGCGGCATT
Statistics
Matches: 79, Mismatches: 28, Indels: 5
0.71 0.25 0.04
Matches are distributed among these distances:
41 1 0.01
42 56 0.71
43 22 0.28
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (42 bp):
AAACGCCGCTAAACATCAACACCTACTGCAGCGTTTGTGGGA
Found at i:2183569 original size:43 final size:43
Alignment explanation
Indices: 2183488--2183662 Score: 208
Period size: 43 Copynumber: 4.1 Consensus size: 43
2183478 TGCAAAATGT
* * * * * * *
2183488 CAACACCTACTGCGGCGTTTGTAGGGA-AAACGTCGCTAAACAC
1 CAACACCTATTGCGGCATTT-TTGTGACAAACGCCGCTAAATAA
* *
2183531 CAACACCTATTGCGGCATTTTTGTGACAAGCGCAGCTAAATAA
1 CAACACCTATTGCGGCATTTTTGTGACAAACGCCGCTAAATAA
* *
2183574 CAACACCTATTGCGGCATTTTTTTGACAAATGCCGCTAAATAA
1 CAACACCTATTGCGGCATTTTTGTGACAAACGCCGCTAAATAA
* * *
2183617 CAACACCTATTACGGCGTTTTAGTGACAAACGCCGCTAAATAA
1 CAACACCTATTGCGGCATTTTTGTGACAAACGCCGCTAAATAA
2183660 CAA
1 CAA
2183663 AAACTTTAGC
Statistics
Matches: 113, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
42 4 0.04
43 109 0.96
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
CAACACCTATTGCGGCATTTTTGTGACAAACGCCGCTAAATAA
Found at i:2184598 original size:20 final size:20
Alignment explanation
Indices: 2184573--2184639 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
2184563 AATTCGTAAT
2184573 GCGAATAAGTAAATCGCAAC
1 GCGAATAAGTAAATCGCAAC
** * *
2184593 GCGAATTGGGAAAATCGCAAT
1 GCGAA-TAAGTAAATCGCAAC
2184614 GCGAATAAGTAAATCGCAAC
1 GCGAATAAGTAAATCGCAAC
2184634 GCGAAT
1 GCGAAT
2184640 TGGGAAAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (20 bp):
GCGAATAAGTAAATCGCAAC
Done.