Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_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: 5469637
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 25
Found at i:1871197 original size:18 final size:19
Alignment explanation
Indices: 1871157--1871197 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
1871147 TAAAGTTTGT
*
1871157 TTTCACTTATTCCACTAAG
1 TTTCACTTATTCAACTAAG
*
1871176 -TTCA-TTATTCAACTGAG
1 TTTCACTTATTCAACTAAG
1871193 TTTCA
1 TTTCA
1871198 ATTTATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (19 bp):
TTTCACTTATTCAACTAAG
Found at i:1877797 original size:187 final size:186
Alignment explanation
Indices: 1877484--1877862 Score: 636
Period size: 187 Copynumber: 2.0 Consensus size: 186
1877474 ATAAAAATTA
*
1877484 AATA-TTTTTTAATTCAAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
* *
1877548 ATTTTATATAAAATTTTTAATTAATTAATATTGATTTAAGTTTAGAAGTTATTGGATCTTAAATT
66 ATTTTATATAAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGAATCTTAAATT
* *
1877613 ATTAATTG-GATTTTAAATGGTTTGGGCTTAGCCCATATGTTATATACAATATATTT
131 ATTAATTGAG-TTTTAAATGGTTTGGACTAAGCCCATATGTTATATACAATATATTT
1877669 AATATTTTTTTAATTCAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAA
1 AATATTTTTTTAATTCAAAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAATAAA
** * *
1877734 AATTTTATATAATTTTTTTAATTAATTAATATTGTTTTAGGTTTAAAAGTTATTGAATCTTAAAT
65 AATTTTATATAAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGAATCTTAAAT
*
1877799 TATTAATTGAGTTTTAAATGGTTTGGACTAAGCCCATATGTTATATATAATATATTT
130 TATTAATTGAGTTTTAAATGGTTTGGACTAAGCCCATATGTTATATACAATATATTT
1877856 AATATTT
1 AATATTT
1877863 AAAATTTAAT
Statistics
Matches: 181, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
185 4 0.02
186 18 0.10
187 158 0.87
188 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (186 bp):
AATATTTTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
ATTTTATATAAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGAATCTTAAATT
ATTAATTGAGTTTTAAATGGTTTGGACTAAGCCCATATGTTATATACAATATATTT
Found at i:1878906 original size:2 final size:2
Alignment explanation
Indices: 1878899--1878924 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1878889 AATTCAATGA
1878899 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
1878925 TAAAATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1879593 original size:14 final size:14
Alignment explanation
Indices: 1879576--1879609 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
1879566 TCTCGATTTA
1879576 ATCTTCTACTTTT-C
1 ATCTTCTA-TTTTCC
1879590 ATCTTCTATTTTCC
1 ATCTTCTATTTTCC
1879604 ATCTTC
1 ATCTTC
1879610 CTTTGTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.15, C:0.29, G:0.00, T:0.56
Consensus pattern (14 bp):
ATCTTCTATTTTCC
Found at i:1879671 original size:29 final size:29
Alignment explanation
Indices: 1879629--1879687 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1879619 TCTATTTCTT
1879629 TTATTTTTTAACCATTTTTTCATTGAATC
1 TTATTTTTTAACCATTTTTTCATTGAATC
1879658 TTATTTTTTAACCATTTTTTCATTGAATC
1 TTATTTTTTAACCATTTTTTCATTGAATC
1879687 T
1 T
1879688 GAAATTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.03, T:0.59
Consensus pattern (29 bp):
TTATTTTTTAACCATTTTTTCATTGAATC
Found at i:1881174 original size:45 final size:45
Alignment explanation
Indices: 1881110--1881201 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
1881100 CCGAGGAGAC
1881110 CTCCGGTGGCGCGCGTCGAAGGCTTATTCTCACTTCCCTTTGCTT
1 CTCCGGTGGCGCGCGTCGAAGGCTTATTCTCACTTCCCTTTGCTT
1881155 CTCCGGTGGCGCGCGTCGAAGGCTTATTCTCACTTCCCTTTGCTT
1 CTCCGGTGGCGCGCGTCGAAGGCTTATTCTCACTTCCCTTTGCTT
1881200 CT
1 CT
1881202 ACTTTTTTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.09, C:0.34, G:0.24, T:0.34
Consensus pattern (45 bp):
CTCCGGTGGCGCGCGTCGAAGGCTTATTCTCACTTCCCTTTGCTT
Found at i:1885905 original size:11 final size:11
Alignment explanation
Indices: 1885889--1885931 Score: 68
Period size: 11 Copynumber: 3.8 Consensus size: 11
1885879 CGATTCCCGG
1885889 CCCAATACCGA
1 CCCAATACCGA
1885900 CCCAATACCGA
1 CCCAATACCGA
*
1885911 CCCAATACCCGG
1 CCCAATA-CCGA
1885923 CCCAATACC
1 CCCAATACC
1885932 CGTTTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.33, C:0.49, G:0.09, T:0.09
Consensus pattern (11 bp):
CCCAATACCGA
Found at i:1885928 original size:12 final size:12
Alignment explanation
Indices: 1885869--1885933 Score: 80
Period size: 12 Copynumber: 5.6 Consensus size: 12
1885859 ATATATATAT
*
1885869 ATACCCGGCCCG
1 ATACCCGGCCCA
*
1885881 ATTCCCGGCCCA
1 ATACCCGGCCCA
*
1885893 ATA-CCGACCCA
1 ATACCCGGCCCA
*
1885904 ATA-CCGACCCA
1 ATACCCGGCCCA
1885915 ATACCCGGCCCA
1 ATACCCGGCCCA
1885927 ATACCCG
1 ATACCCG
1885934 TTTAAATATC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
11 21 0.45
12 26 0.55
ACGTcount: A:0.26, C:0.48, G:0.15, T:0.11
Consensus pattern (12 bp):
ATACCCGGCCCA
Found at i:1887593 original size:15 final size:17
Alignment explanation
Indices: 1887573--1887604 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1887563 ATGGGTTATA
1887573 GTATTT-TCAA-AGGGT
1 GTATTTATCAATAGGGT
1887588 GTATTTATCAATAGGGT
1 GTATTTATCAATAGGGT
1887605 AGGCTGACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (17 bp):
GTATTTATCAATAGGGT
Found at i:1890152 original size:23 final size:23
Alignment explanation
Indices: 1890093--1890153 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
1890083 CTCGTATAAA
* * *
1890093 TGCACCGAAGTGCAACGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
1890116 TGCACCGTAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
1890139 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
1890154 TATAATAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:1890344 original size:31 final size:29
Alignment explanation
Indices: 1890309--1890368 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 29
1890299 ATGCCAACTA
1890309 TACCCCTAGCTCTCATGACACATAATATGGG
1 TACCCCTAGCTCTCATG--ACATAATATGGG
1890340 TACCCCTAGCTCTCATGACATAATATGGG
1 TACCCCTAGCTCTCATGACATAATATGGG
1890369 CATTCATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 12 0.41
31 17 0.59
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (29 bp):
TACCCCTAGCTCTCATGACATAATATGGG
Found at i:1895356 original size:23 final size:23
Alignment explanation
Indices: 1895330--1895389 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
1895320 CTCGTATAAA
*
1895330 TGCACCGAAGTGCAACGTAGAAT
1 TGCACCGTAGTGCAACGTAGAAT
*
1895353 TGCACCGTAGTGCCACGTAGAAT
1 TGCACCGTAGTGCAACGTAGAAT
*
1895376 TGCACAGTAGTGCA
1 TGCACCGTAGTGCA
1895390 TATAATAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCAACGTAGAAT
Found at i:1900130 original size:18 final size:17
Alignment explanation
Indices: 1900093--1900134 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1900083 ACTTTCTTAG
1900093 CATTATCA-TATATAAT
1 CATTATCATTATATAAT
*
1900109 -ATTATCATTATTTATAT
1 CATTATCATTATATA-AT
1900126 CATTATCAT
1 CATTATCAT
1900135 CAAATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 5 0.23
17 2 0.09
18 8 0.36
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
CATTATCATTATATAAT
Found at i:1900414 original size:23 final size:23
Alignment explanation
Indices: 1900388--1900455 Score: 136
Period size: 23 Copynumber: 3.0 Consensus size: 23
1900378 ACCACAGCTT
1900388 GTAGAATTGCACCGTAGTGCCAC
1 GTAGAATTGCACCGTAGTGCCAC
1900411 GTAGAATTGCACCGTAGTGCCAC
1 GTAGAATTGCACCGTAGTGCCAC
1900434 GTAGAATTGCACCGTAGTGCCA
1 GTAGAATTGCACCGTAGTGCCA
1900456 TATAATAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.22
Consensus pattern (23 bp):
GTAGAATTGCACCGTAGTGCCAC
Found at i:1902960 original size:14 final size:14
Alignment explanation
Indices: 1902936--1902974 Score: 69
Period size: 14 Copynumber: 2.7 Consensus size: 14
1902926 GATTGCTGTA
1902936 ACCACCTGCTATGGG
1 ACCA-CTGCTATGGG
1902951 ACCACTGCTATGGG
1 ACCACTGCTATGGG
1902965 ACCACTGCTA
1 ACCACTGCTA
1902975 CCTGGATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.21
Consensus pattern (14 bp):
ACCACTGCTATGGG
Found at i:1903042 original size:13 final size:13
Alignment explanation
Indices: 1903024--1903049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1903014 GGTATGACGG
1903024 GTATTTTACACCC
1 GTATTTTACACCC
1903037 GTATTTTACACCC
1 GTATTTTACACCC
1903050 AACAATATCC
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:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (13 bp):
GTATTTTACACCC
Found at i:1905351 original size:281 final size:281
Alignment explanation
Indices: 1904848--1905409 Score: 919
Period size: 281 Copynumber: 2.0 Consensus size: 281
1904838 CCATTGCATC
* * *
1904848 GAGAGGTGAGTGGCATTGTGTGAGCACTGCATCCAGATGTGAGTGCCATTGTTGGAGCATCAGTG
1 GAGAGGTGAGTGGCATTGTGTGAGCACTGCATCCAAATGTGAGTGCCATTGTCGGAGCATCAATG
* * *
1904913 ACTACGAGGGTAACTTTTTAGTATAGAGAGATCTAGCTGACTGATTGTTGTAGCATACTTAGTAA
66 ACTACGAGAGCAACTTTTTAGTATAGAGAGATCTAGCTGACTGATTGTTGTAGCATACCTAGTAA
* *
1904978 ATTTGCATAAAGGGGTATAGAGATATAGCGCTGCTGTGAGTTTTTGGGTGGAGTCATCGAGAGAG
131 ATTTGCATAAAGGGATATAGAGATATAACGCTGCTGTGAGTTTTTGGGTGGAGTCATCGAGAGAG
*
1905043 AAAAACTTGCTAAGTTAATGCTAGACTTATTGTTATGGCATCGTTAATTACCTGATTGAGTTTAA
196 AAAAACCTGCTAAGTTAATGCTAGACTTATTGTTATGGCATCGTTAATTACCTGATTGAGTTTAA
1905108 CAAAACCATAATCTTTAGCTT
261 CAAAACCATAATCTTTAGCTT
* ***
1905129 GAGAGGTGAGTGTCATTGTGTGAGTGTTGCATCCAAATGTGAGTGCCATTGTCGGAGCATCAATG
1 GAGAGGTGAGTGGCATTGTGTGAGCACTGCATCCAAATGTGAGTGCCATTGTCGGAGCATCAATG
* *
1905194 GCTACGAGAGCAACTTTTTAGTATAGAGAGATCTAGTTGACTGATTGTTGTAGCATACCTAGTAA
66 ACTACGAGAGCAACTTTTTAGTATAGAGAGATCTAGCTGACTGATTGTTGTAGCATACCTAGTAA
*
1905259 ATTTGCAT-AAGTGGATATAGAGATATAACGCTGTTGTGAGTTTTTGGGTGGAGTCATCGAGAGA
131 ATTTGCATAAAG-GGATATAGAGATATAACGCTGCTGTGAGTTTTTGGGTGGAGTCATCGAGAGA
* *** *
1905323 GAAAAACCTGCTAAGTTAATGCTAGACTTATTGTTATGGCATTGTTAATTGTTTGATTGAGTTTT
195 GAAAAACCTGCTAAGTTAATGCTAGACTTATTGTTATGGCATCGTTAATTACCTGATTGAGTTTA
1905388 ACAAAACCATAATCTTTAGCTT
260 ACAAAACCATAATCTTTAGCTT
1905410 TAGTCGATCC
Statistics
Matches: 259, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
280 3 0.01
281 256 0.99
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (281 bp):
GAGAGGTGAGTGGCATTGTGTGAGCACTGCATCCAAATGTGAGTGCCATTGTCGGAGCATCAATG
ACTACGAGAGCAACTTTTTAGTATAGAGAGATCTAGCTGACTGATTGTTGTAGCATACCTAGTAA
ATTTGCATAAAGGGATATAGAGATATAACGCTGCTGTGAGTTTTTGGGTGGAGTCATCGAGAGAG
AAAAACCTGCTAAGTTAATGCTAGACTTATTGTTATGGCATCGTTAATTACCTGATTGAGTTTAA
CAAAACCATAATCTTTAGCTT
Found at i:1905950 original size:26 final size:26
Alignment explanation
Indices: 1905911--1905960 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
1905901 TTGAAGAAAC
*
1905911 AGCTATTATGATCATAAATCATTGTG
1 AGCTATTATAATCATAAATCATTGTG
1905937 AGCTATTATAATCATAAATCATTG
1 AGCTATTATAATCATAAATCATTG
1905961 CGATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (26 bp):
AGCTATTATAATCATAAATCATTGTG
Found at i:1919716 original size:102 final size:102
Alignment explanation
Indices: 1919540--1919746 Score: 387
Period size: 102 Copynumber: 2.0 Consensus size: 102
1919530 CTGCCTTACT
*
1919540 CTTGTCACGGTTGCTCCAACGACTACCGTGAACCCCGAGGCCCTAGTTCCTCCGTACCTCAACAG
1 CTTGTCACGGTTGCTCCAACGACTACCGTGAACCCCGACGCCCTAGTTCCTCCGTACCTCAACAG
1919605 ACTGCACCACCCAAAACCTTGCCTGTCCCAAACGAGG
66 ACTGCACCACCCAAAACCTTGCCTGTCCCAAACGAGG
* *
1919642 CTTGTCACGGTTGCTCCAACTACTACCGTGAACCCCGACGCCCTAGTTCCTCCGTACCTCAACCG
1 CTTGTCACGGTTGCTCCAACGACTACCGTGAACCCCGACGCCCTAGTTCCTCCGTACCTCAACAG
1919707 ACTGCACCACCCAAAACCTTGCCTGTCCCAAACGAGG
66 ACTGCACCACCCAAAACCTTGCCTGTCCCAAACGAGG
1919744 CTT
1 CTT
1919747 TTGGAGCTTG
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.23, C:0.40, G:0.17, T:0.20
Consensus pattern (102 bp):
CTTGTCACGGTTGCTCCAACGACTACCGTGAACCCCGACGCCCTAGTTCCTCCGTACCTCAACAG
ACTGCACCACCCAAAACCTTGCCTGTCCCAAACGAGG
Found at i:1921301 original size:18 final size:16
Alignment explanation
Indices: 1921269--1921299 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1921259 AATATTGAAA
1921269 CTTGAACTCAAAAAAG
1 CTTGAACTCAAAAAAG
1921285 CTTGAACTCAAAAAA
1 CTTGAACTCAAAAAA
1921300 AATTAGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
CTTGAACTCAAAAAAG
Found at i:1921785 original size:23 final size:21
Alignment explanation
Indices: 1921758--1921800 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
1921748 ATATAAAAAA
1921758 TTAT-TTTTTATTAAATATTTT
1 TTATATTTTTATTAAAT-TTTT
*
1921779 TTATATTTTTATTTAATTTTT
1 TTATATTTTTATTAAATTTTT
1921800 T
1 T
1921801 AAATAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
TTATATTTTTATTAAATTTTT
Found at i:1923378 original size:2 final size:2
Alignment explanation
Indices: 1923373--1923429 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1923363 TTTTTGGATT
1923373 TA TA TA 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 TA TA TA
1923415 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
1923430 GCATGTATAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1941674 original size:23 final size:23
Alignment explanation
Indices: 1941625--1941704 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 23
1941615 CAAACAACAT
* * *
1941625 AAAACATGCCA-AAAGGCATAAG
1 AAAACATGTCATAAAAGCAGAAG
1941647 AAAACATGTCATAAAAGCAGAAG
1 AAAACATGTCATAAAAGCAGAAG
* * * *
1941670 AAAACATATCAT-AGAGATAGATG
1 AAAACATGTCATAAAAG-CAGAAG
1941693 AAAACATGTCAT
1 AAAACATGTCAT
1941705 GTAACACCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 13 0.27
23 35 0.73
ACGTcount: A:0.54, C:0.14, G:0.16, T:0.16
Consensus pattern (23 bp):
AAAACATGTCATAAAAGCAGAAG
Found at i:1949906 original size:14 final size:14
Alignment explanation
Indices: 1949887--1949913 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1949877 AATTTACATC
1949887 AAAATTTAAATTTT
1 AAAATTTAAATTTT
1949901 AAAATTTAAATTT
1 AAAATTTAAATTT
1949914 AAGCACGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATTTAAATTTT
Found at i:1957852 original size:20 final size:20
Alignment explanation
Indices: 1957808--1957998 Score: 186
Period size: 20 Copynumber: 9.4 Consensus size: 20
1957798 GATTCTGACT
*
1957808 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
1957829 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
1957849 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
* *
1957870 ATCACAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
**
1957890 ATCGCAACGCGTATCTATAA
1 ATCGCAACGCGTATCCGTAA
* * *
1957910 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* *
1957930 ATCGCAATGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
1957950 ATCGCAATGCGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
1957970 ATCGCAATGCGAATCTGTAA
1 ATCGCAACGCGTATCCGTAA
1957990 ATCGCAACG
1 ATCGCAACG
1957999 AGATTCTGAC
Statistics
Matches: 140, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
20 108 0.77
21 32 0.23
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:1957971 original size:60 final size:59
Alignment explanation
Indices: 1957808--1957996 Score: 227
Period size: 60 Copynumber: 3.1 Consensus size: 59
1957798 GATTCTGACT
* * *
1957808 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAA
1 ATCGCAATGCGTATCCGT-AAATCGCAACGCGTAT-CGTAAATCGCAACGAGAATACGT-AA
* *
1957870 ATCACAATGCGTATCCGTAAATCGCAACGCGTATCTATAAATCGCAACGAGAATACGTAA
1 ATCGCAATGCGTATCCGTAAATCGCAACGCGTATC-GTAAATCGCAACGAGAATACGTAA
* * * * *
1957930 ATCGCAATGCGTATCTGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAAT-CTGTAA
1 ATCGCAATGCGTATCCGTAAATCGCAACGCGTAT-CGTAAATCGCAACGAGAATAC-GTAA
1957990 ATCGCAA
1 ATCGCAA
1957997 CGAGATTCTG
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
59 1 0.01
60 59 0.53
61 37 0.33
62 15 0.13
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (59 bp):
ATCGCAATGCGTATCCGTAAATCGCAACGCGTATCGTAAATCGCAACGAGAATACGTAA
Found at i:1958006 original size:20 final size:20
Alignment explanation
Indices: 1957767--1958006 Score: 138
Period size: 20 Copynumber: 11.9 Consensus size: 20
1957757 CAGTTCTCAT
* *
1957767 AATCGCAACGCGATTATGAA
1 AATCGCAACGCGATTCTGTA
1957787 AATCGCAACGCGATTCTG-A
1 AATCGCAACGCGATTCTGTA
* * *
1957806 CTATCGCAACGAG-TATCCGTAA
1 -AATCGCAACGCGAT-TCTGT-A
*
1957828 AATCGCAACGCG-TATCCGTA
1 AATCGCAACGCGAT-TCTGTA
* *
1957848 AATCGCAACGACAATAC-GTAA
1 AATCGCAACG-CGATTCTGT-A
* * *
1957869 AATCACAATGCG-TATCCGTA
1 AATCGCAACGCGAT-TCTGTA
*
1957889 AATCGCAACGCG-TATCTATA
1 AATCGCAACGCGAT-TCTGTA
* *
1957909 AATCGCAACGAGAATAC-GTA
1 AATCGCAACGCG-ATTCTGTA
*
1957929 AATCGCAATGCG-TATCTGTA
1 AATCGCAACGCGAT-TCTGTA
* *
1957949 AATCGCAATGCGAATAC-GTA
1 AATCGCAACGCG-ATTCTGTA
* *
1957969 AATCGCAATGCGAATCTGTA
1 AATCGCAACGCGATTCTGTA
*
1957989 AATCGCAACGAGATTCTG
1 AATCGCAACGCGATTCTG
1958007 ACTATCGCAA
Statistics
Matches: 176, Mismatches: 28, Indels: 32
0.75 0.12 0.14
Matches are distributed among these distances:
18 1 0.01
19 6 0.03
20 133 0.76
21 32 0.18
22 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (20 bp):
AATCGCAACGCGATTCTGTA
Found at i:1958885 original size:24 final size:24
Alignment explanation
Indices: 1958858--1958910 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
1958848 GTATTCAAAA
1958858 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
1958882 TTTGATCTTGGTTAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1958906 TTTGA
1 TTTGA
1958911 CGATTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1961489 original size:14 final size:14
Alignment explanation
Indices: 1961470--1961497 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1961460 CAATACGAAA
1961470 TGAAAATCGCAACG
1 TGAAAATCGCAACG
1961484 TGAAAATCGCAACG
1 TGAAAATCGCAACG
1961498 CGGAAATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
TGAAAATCGCAACG
Found at i:1961504 original size:14 final size:14
Alignment explanation
Indices: 1961471--1961504 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1961461 AATACGAAAT
*
1961471 GAAAATCGCAACGT
1 GAAAATCGCAACGC
1961485 GAAAATCGCAACGC
1 GAAAATCGCAACGC
*
1961499 GGAAAT
1 GAAAAT
1961505 GACTATCGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAACGC
Found at i:1961513 original size:34 final size:34
Alignment explanation
Indices: 1961422--1961515 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 34
1961412 CTTAATGTCT
* * * *
1961422 ATCGCAACGCGAAAATTACTATCGCAATGAGAGA
1 ATCGCAACGCGGAAATGACTATCGCAACGAGAAA
** ** *
1961456 ATCGCAATAC-GAAATGAAAATCGCAACGTGAAA
1 ATCGCAACGCGGAAATGACTATCGCAACGAGAAA
1961489 ATCGCAACGCGGAAATGACTATCGCAA
1 ATCGCAACGCGGAAATGACTATCGCAA
1961516 TGCGAAATGA
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
33 24 0.52
34 22 0.48
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (34 bp):
ATCGCAACGCGGAAATGACTATCGCAACGAGAAA
Found at i:1961513 original size:53 final size:52
Alignment explanation
Indices: 1961455--1961567 Score: 163
Period size: 53 Copynumber: 2.2 Consensus size: 52
1961445 GCAATGAGAG
* *
1961455 AATCGCAATACGAAATGAAAATCGCAACGTGAAAATCGCAACGCGGAAATGAC
1 AATCGCAATACGAAATGAAAATCGCAACGAGAAAATCGCAACGC-GAAATGAA
* * * *
1961508 TATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATACGAAATGAAAATCGCAACGAGAAAATCGCAACGCGAAATGAA
1961560 AATCGCAA
1 AATCGCAA
1961568 CGAGGGAATC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
52 14 0.26
53 39 0.74
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.14
Consensus pattern (52 bp):
AATCGCAATACGAAATGAAAATCGCAACGAGAAAATCGCAACGCGAAATGAA
Found at i:1961548 original size:33 final size:33
Alignment explanation
Indices: 1961509--1961602 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
1961499 GGAAATGACT
1961509 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1961542 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1961575 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1961603 CGAATTGCGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1961566 original size:86 final size:85
Alignment explanation
Indices: 1961415--1961606 Score: 249
Period size: 86 Copynumber: 2.2 Consensus size: 85
1961405 CAATCATCTT
* * ** *
1961415 AATGTCTATCGCAACGCGAAAATTACTATCGCAATGAGAGAATCGCAATACGAAATGAAAATCGC
1 AATGACTATCGCAACGCG-AAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGC
*
1961480 AACGTGAAAATCGCAACGCGGA
65 AACGAGAAAATCGCAACGC-GA
* *
1961502 AATGACTATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 AATGACTATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCA
** *
1961567 ACGAGGGAATCGCAATGCGA
66 ACGAGAAAATCGCAACGCGA
**
1961587 AATGAAAATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
1961607 TTGCGATAGT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 19 0.21
86 56 0.62
87 16 0.18
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (85 bp):
AATGACTATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGAAAATCGCA
ACGAGAAAATCGCAACGCGA
Found at i:1961605 original size:19 final size:19
Alignment explanation
Indices: 1961455--1961606 Score: 118
Period size: 19 Copynumber: 8.7 Consensus size: 19
1961445 GCAATGAGAG
*
1961455 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
1961474 AATCGCAA--CG---TGAA
1 AATCGCAATGCGAAATGAA
* *
1961488 AATCGCAACGCGGAAATGAC
1 AATCGCAATGC-GAAATGAA
*
1961508 TATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1961527 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1961541 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
**
1961560 AATCGCAA--CG--A-GGG
1 AATCGCAATGCGAAATGAA
1961574 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1961593 AATCGCAACGCGAA
1 AATCGCAATGCGAA
1961607 TTGCGATAGT
Statistics
Matches: 105, Mismatches: 12, Indels: 32
0.70 0.08 0.21
Matches are distributed among these distances:
14 31 0.30
15 2 0.02
16 5 0.05
17 7 0.07
18 2 0.02
19 46 0.44
20 12 0.11
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1961739 original size:14 final size:14
Alignment explanation
Indices: 1961720--1961756 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1961710 CATTAATTAA
1961720 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1961734 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1961748 ACAAATCAA
1 ACAAATCAA
1961757 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1963665 original size:19 final size:19
Alignment explanation
Indices: 1963625--1963731 Score: 116
Period size: 19 Copynumber: 5.8 Consensus size: 19
1963615 TCTGGAACTT
*
1963625 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
1963646 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
1963665 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
1963684 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* *
1963698 AGAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
1963717 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
1963732 TTATAGTTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 46 0.63
21 11 0.15
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:1963750 original size:19 final size:19
Alignment explanation
Indices: 1963728--1963790 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
1963718 AAATCGCAAC
*
1963728 GCGATTATAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
1963747 GCGATTTTGGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
1963766 GCGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
1963785 GCGATT
1 GCGATT
1963791 CTCGTTGCGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.11, C:0.17, G:0.27, T:0.44
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:1963811 original size:30 final size:31
Alignment explanation
Indices: 1963762--1963819 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
1963752 TTTGGTTTCG
*
1963762 CGTTGCGATTTTCATTTCGCGTTGCGATTCT
1 CGTTGCGAATTTCATTTCGCGTTGCGATTCT
1963793 CGTTGCGAATTT-ATTTCGCGTTGCGAT
1 CGTTGCGAATTTCATTTCGCGTTGCGAT
1963820 AGTCATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.12, C:0.21, G:0.24, T:0.43
Consensus pattern (31 bp):
CGTTGCGAATTTCATTTCGCGTTGCGATTCT
Found at i:1963837 original size:50 final size:50
Alignment explanation
Indices: 1963743--1963840 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
1963733 TATAGTTTCG
* * ** *
1963743 CGTTGCGATTTTGGTTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTCT
1 CGTTGCGAATTTGATTTCGCGTTGCGATAGTCATTTCACGTTGCGATTCT
1963793 CGTTGCGAATTT-ATTTCGCGTTGCGATAGTCATTTTCACGTTGCGATT
1 CGTTGCGAATTTGATTTCGCGTTGCGATAGTCA-TTTCACGTTGCGATT
1963841 TTAAGTTTCG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 17 0.40
50 25 0.60
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.44
Consensus pattern (50 bp):
CGTTGCGAATTTGATTTCGCGTTGCGATAGTCATTTCACGTTGCGATTCT
Found at i:1964052 original size:94 final size:94
Alignment explanation
Indices: 1963906--1964285 Score: 611
Period size: 94 Copynumber: 4.1 Consensus size: 94
1963896 ATGGATTGCA
* *
1963906 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
1963970 TTAGCAGAATTGACAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
1963999 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
1964064 TTAGCATAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
1964093 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* * *
1964158 TTAGTAGAATTGGCAGCAATCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* * *
1964187 TTAC-TTAAACCAAAAGACAAAACAAAAGATAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * * *
1964251 TTTAGCAGTATTGGCAACAATCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
1964281 TTACT
1 TTACT
1964286 AAGCAATCTA
Statistics
Matches: 270, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
93 22 0.08
94 248 0.92
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1965985 original size:19 final size:19
Alignment explanation
Indices: 1965941--1966000 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
1965931 TCTTTTGGTT
1965941 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
1965960 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
*
1965980 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1965999 GA
1 GA
1966001 TTTTGGTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1966029 original size:19 final size:20
Alignment explanation
Indices: 1966007--1966082 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 20
1965997 GCGATTTTGG
1966007 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTCAT
**
1966026 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATTTTCAT
* * *
1966046 TTTCGTGTTACGATTTTTAT
1 TTTCGCGTTGCGATTTTCAT
**
1966066 TTTCATGTTGCGATTTT
1 TTTCGCGTTGCGATTTT
1966083 AAGTTTAGAA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 17 0.36
20 30 0.64
ACGTcount: A:0.13, C:0.16, G:0.20, T:0.51
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:1966668 original size:20 final size:20
Alignment explanation
Indices: 1966643--1966775 Score: 151
Period size: 20 Copynumber: 6.5 Consensus size: 20
1966633 CTTTAAAAAT
1966643 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1966663 CGCGTTGCGATTTTATGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
1966683 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * * *
1966704 CACATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
1966724 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
1966744 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
1966765 CTCGTTGCGAT
1 CGCGTTGCGAT
1966776 AGTCAGAATC
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
20 59 0.63
21 34 0.37
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1966793 original size:81 final size:81
Alignment explanation
Indices: 1966642--1966836 Score: 214
Period size: 81 Copynumber: 2.4 Consensus size: 81
1966632 GCTTTAAAAA
* * ** * *
1966642 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTGTCGTTGCGATTTACGGATACAC
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATTCACGAATACAC
*
1966707 ATTGCGATTTACGTAT
66 ATTGCGATTTACATAT
*
1966723 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAAT-C
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGAT--TCACGAATAC
* * * *
1966786 GCGTTGCGATTTATATGT
64 ACATTGCGATTTACATAT
* ** *
1966804 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATT
1966837 CTGGAAAACC
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
81 90 0.95
82 3 0.03
83 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (81 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATTCACGAATACAC
ATTGCGATTTACATAT
Found at i:1966807 original size:20 final size:20
Alignment explanation
Indices: 1966784--1966836 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1966774 ATAGTCAGAA
*
1966784 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
1966804 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
1966824 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1966837 CTGGAAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:1966809 original size:61 final size:61
Alignment explanation
Indices: 1966663--1966818 Score: 151
Period size: 61 Copynumber: 2.6 Consensus size: 61
1966653 TTTACGGATA
* * *
1966663 CGCGTTGCGATTT-TATGTATTGTCGTTGCGA-TTTACGGATACACATTGCGATTTACGTATT
1 CGCGTTGCGATTTATATGT-TCG-CGTTGCGATTTTACGGATACACATTGCGATTCACGTAAT
* ** * * *
1966724 CTCGTTGCGATTTA-CGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-G-AAT
1 CGCGTTGCGATTTATATG-TTCGCGTTGCGATTTTACGGATACACATTGCGAT--TCACGTAAT
1966785 CGCGTTGCGATTTATATGTTCGCGTTGCGATTTT
1 CGCGTTGCGATTTATATGTTCGCGTTGCGATTTT
1966819 CATATTCGCG
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
60 8 0.11
61 63 0.83
62 3 0.04
63 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (61 bp):
CGCGTTGCGATTTATATGTTCGCGTTGCGATTTTACGGATACACATTGCGATTCACGTAAT
Found at i:1966935 original size:20 final size:19
Alignment explanation
Indices: 1966886--1966939 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1966876 ATTCTTCATA
1966886 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
1966905 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
1966926 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
1966940 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:1971531 original size:10 final size:11
Alignment explanation
Indices: 1971515--1971543 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1971505 TTAAAAAAAA
1971515 TATTATTAAAT
1 TATTATTAAAT
1971526 TA-TATTAAAT
1 TATTATTAAAT
1971536 TATTATTA
1 TATTATTA
1971544 TTAATTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTATTAAAT
Found at i:1972834 original size:17 final size:17
Alignment explanation
Indices: 1972812--1972845 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1972802 ATTTTAATCC
*
1972812 TATATGTATTAATATTT
1 TATATGTATAAATATTT
*
1972829 TATATGTCTAAATATTT
1 TATATGTATAAATATTT
1972846 AGATTTTAAT
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:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
TATATGTATAAATATTT
Found at i:1973250 original size:15 final size:13
Alignment explanation
Indices: 1973219--1973261 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 13
1973209 TTTTAGACCC
1973219 TTAATTTTCTATTT
1 TTAATTTT-TATTT
1973233 TTAATGTTTTAGTTT
1 TTAAT-TTTTA-TTT
1973248 TTAATTTTTATTT
1 TTAATTTTTATTT
1973261 T
1 T
1973262 ATATTTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.15
14 12 0.44
15 11 0.41
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (13 bp):
TTAATTTTTATTT
Found at i:1973276 original size:55 final size:57
Alignment explanation
Indices: 1973210--1973318 Score: 134
Period size: 55 Copynumber: 1.9 Consensus size: 57
1973200 TTTTTGCTAT
* * * *
1973210 TTTAGACCCTT-AATTTTCTATTTTTAATGTTTTAGT-TTTT-AATTTTTATTTTATA
1 TTTAGAACCTTAAATTTT-TATTTGTAATATTTTAGTATTTTAAATTTATATTTTATA
* *
1973265 TTTAGAACCTTAAATTTTTGTTTGTAATATTTTGGTATTTTAAATTTATATTTT
1 TTTAGAACCTTAAATTTTTATTTGTAATATTTTAGTATTTTAAATTTATATTTT
1973319 TGTTATTCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
55 24 0.53
56 10 0.22
57 11 0.24
ACGTcount: A:0.26, C:0.06, G:0.07, T:0.61
Consensus pattern (57 bp):
TTTAGAACCTTAAATTTTTATTTGTAATATTTTAGTATTTTAAATTTATATTTTATA
Found at i:1984734 original size:15 final size:14
Alignment explanation
Indices: 1984716--1984774 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 14
1984706 AAAGGGGAAC
1984716 AAATAAAAAGATGAA
1 AAATAAAAA-ATGAA
1984731 AAATGAAAAAATGAAAA
1 AAAT-AAAAAATG--AA
*
1984748 AGAAAAAAAAATGAA
1 A-AATAAAAAATGAA
1984763 AAATGAAAAAAT
1 AAAT-AAAAAAT
1984775 AAATGAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 2 0.05
15 17 0.46
16 5 0.14
17 11 0.30
18 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
AAATAAAAAATGAA
Found at i:1984738 original size:7 final size:7
Alignment explanation
Indices: 1984716--1984784 Score: 60
Period size: 7 Copynumber: 10.4 Consensus size: 7
1984706 AAAGGGGAAC
*
1984716 AAATAAA
1 AAATGAA
1984723 AAGATGAA
1 AA-ATGAA
1984731 AAATGAAA
1 AAATG-AA
1984739 AAATGAA
1 AAATGAA
1984746 AAA-G-A
1 AAATGAA
1984751 AAA--AA
1 AAATGAA
1984756 AAATGAA
1 AAATGAA
1984763 AAATGAA
1 AAATGAA
*
1984770 AAA--AT
1 AAATGAA
1984775 AAATGAA
1 AAATGAA
1984782 AAA
1 AAA
1984785 ATTAAAAGAG
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
5 12 0.23
6 1 0.02
7 26 0.50
8 13 0.25
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAATGAA
Found at i:1984772 original size:19 final size:17
Alignment explanation
Indices: 1984736--1984784 Score: 80
Period size: 17 Copynumber: 2.8 Consensus size: 17
1984726 ATGAAAAATG
1984736 AAAAAATGAAAAAGAAA
1 AAAAAATGAAAAAGAAA
1984753 AAAAAATGAAAAATGAAA
1 AAAAAATGAAAAA-GAAA
1984771 AAATAAATGAAAAA
1 AAA-AAATGAAAAA
1984785 ATTAAAAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.43
18 7 0.23
19 10 0.33
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (17 bp):
AAAAAATGAAAAAGAAA
Found at i:1984791 original size:8 final size:8
Alignment explanation
Indices: 1984716--1984774 Score: 61
Period size: 8 Copynumber: 7.5 Consensus size: 8
1984706 AAAGGGGAAC
1984716 AAAT-AAA
1 AAATGAAA
1984723 AAGATG-AA
1 AA-ATGAAA
1984731 AAATGAAA
1 AAATGAAA
1984739 AAATGAAA
1 AAATGAAA
**
1984747 AAGAAAAAA
1 AA-ATGAAA
1984756 AAATG-AA
1 AAATGAAA
1984763 AAATGAAA
1 AAATGAAA
1984771 AAAT
1 AAAT
1984775 AAATGAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
7 12 0.28
8 25 0.58
9 6 0.14
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATGAAA
Found at i:1985918 original size:136 final size:136
Alignment explanation
Indices: 1985672--1986021 Score: 576
Period size: 136 Copynumber: 2.6 Consensus size: 136
1985662 GGTGAACCAG
1985672 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
* * * *
1985737 AGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTTGAATCAGTGACACCTTGCTTGAAG
66 AGAAGAACTTGTTCGACCTATCACTCGATTCACAACATTTCGAATCAGTGACACCTCGCTTGAAG
1985802 GATCAA
131 GATCAA
*
1985808 TATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
* * *
1985873 AGAAGACCTTGTTCGACCTATCACTCGATTCATAACATTTCGAATCAGTGACACCTCGCTTGAGG
66 AGAAGAACTTGTTCGACCTATCACTCGATTCACAACATTTCGAATCAGTGACACCTCGCTTGAAG
1985938 GATCAA
131 GATCAA
* * ** *
1985944 CATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCAAAC-GAGGAAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
1986008 AGAAGAACTTGTTC
66 AGAAGAACTTGTTC
1986022 AACTTCGCAT
Statistics
Matches: 200, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
135 34 0.17
136 166 0.83
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (136 bp):
CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
AGAAGAACTTGTTCGACCTATCACTCGATTCACAACATTTCGAATCAGTGACACCTCGCTTGAAG
GATCAA
Found at i:1986058 original size:91 final size:92
Alignment explanation
Indices: 1985939--1986113 Score: 255
Period size: 91 Copynumber: 1.9 Consensus size: 92
1985929 CGCTTGAGGG
* *
1985939 ATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCAT-C-AAACGAGGAAGAAGAAGTTC
1 ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCGAAA-GAGGAAGAAGAAGTTC
1986002 ATAATGAGAAGAACTTGTTCAACTTCGC
65 ATAATGAGAAGAACTTGTTCAACTTCGC
* * * * *
1986030 ATCAACATTTTCAATGGAGAGCTCATAATGAGAATAACTCGTCCGAAAGAGGGAGAAGAAGTTCA
1 ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCGAAAGAGGAAGAAGAAGTTCA
*
1986095 TAATGAGAAGAGCTTGTTC
66 TAATGAGAAGAACTTGTTC
1986114 GACCTATCAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
91 36 0.49
92 35 0.47
93 3 0.04
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (92 bp):
ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCGAAAGAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACTTCGC
Found at i:1986386 original size:91 final size:92
Alignment explanation
Indices: 1986271--1986437 Score: 266
Period size: 91 Copynumber: 1.8 Consensus size: 92
1986261 AAAGAGATGG
1986271 ATCAACATTTCCAATGGAGAGTTCATAAT-AAGAAGAACTCATCCAAT-GAGAGAGAAGAAGTTC
1 ATCAACATTTCCAATGGAGAGTTCATAATGAA-AAGAACTCATCCAATAGAGAGAGAAGAAGTTC
1986334 ATAATGACAAGAACTTGTTCAACTTCGC
65 ATAATGACAAGAACTTGTTCAACTTCGC
* * * *
1986362 ATCAATATTTTCAATGGAGAGTTCATAATGAAAAGAACTCATCCGATAGAGGGAGAAGAAGTTCA
1 ATCAACATTTCCAATGGAGAGTTCATAATGAAAAGAACTCATCCAATAGAGAGAGAAGAAGTTCA
*
1986427 TAATGAGAAGA
66 TAATGACAAGA
1986438 GCTTTTTTGA
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
91 41 0.59
92 28 0.41
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (92 bp):
ATCAACATTTCCAATGGAGAGTTCATAATGAAAAGAACTCATCCAATAGAGAGAGAAGAAGTTCA
TAATGACAAGAACTTGTTCAACTTCGC
Found at i:1986626 original size:332 final size:331
Alignment explanation
Indices: 1985941--1986642 Score: 1057
Period size: 332 Copynumber: 2.1 Consensus size: 331
1985931 CTTGAGGGAT
1985941 CAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCAAACGAGGAAGAAGAAGTTCATAA
1 CAACATTTCCA-TGAAGAGTTCATAATGAGAAGAACTCATCAAACGAGGAAGAAGAAGTTCATAA
* * * *
1986006 TGAGAAGAACTTGTTCAACTTCGCATCAACATTTTCAATGGAGAGCTCATAATGAGAATAACTCG
65 TGACAAGAACTTGTTCAACTTCGCATCAACATTTTCAATGGAGAGCTCATAATGAAAAGAACTCA
*
1986071 TCCGAAAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGAC
130 TCCGAAAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGAC
* * * *
1986136 ATTTCGAATTAGTGACACCTAGCTTGAGGGATTGATATTTTCAGAAGAGTTCATAATGAGAAGAA
195 ATTTCGAATCAGTGACACCTAGCTTGAGGGATCGACATTTCCAGAAGAGTTCATAATGAGAAGAA
* * * *
1986201 CTCATCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTTCTTTCAAGTCCATCACAGAAAGA
260 CTCATCATAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCACAGAAAGA
* *
1986266 GATGGAT
325 GATGAAC
* * * *
1986273 CAACATTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCAATGA-GAGAGAAGAAGTTCATA
1 CAACATTTCC-ATGAAGAGTTCATAATGAGAAGAACTCATCAAACGAGGA-AGAAGAAGTTCATA
* *
1986337 ATGACAAGAACTTGTTCAACTTCGCATCAATATTTTCAATGGAGAGTTCATAATGAAAAGAACTC
64 ATGACAAGAACTTGTTCAACTTCGCATCAACATTTTCAATGGAGAGCTCATAATGAAAAGAACTC
* * * *
1986402 ATCCGATAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTTTTTGACCTATCACTTGATTCACGA
129 ATCCGAAAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGA
** *
1986467 CATTTCGAATCAGTGATGCCTCGCTTGAGGGATCGACATTTCCAATGAAGAGTTCATAATGAGAA
194 CATTTCGAATCAGTGACACCTAGCTTGAGGGATCGACATTTCC-A-GAAGAGTTCATAATGAGAA
* *
1986532 GAACTCATCATAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATTCACCACAGAT
257 GAACTCATCATAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCACAGAA
* *
1986597 GGAGGTGAAC
322 AGAGATGAAC
1986607 CAACATTTCC-TGAAGAGTTCATAATGAGAAGAACTC
1 CAACATTTCCATGAAGAGTTCATAATGAGAAGAACTC
1986643 GTCCTAAAGG
Statistics
Matches: 332, Mismatches: 34, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
331 2 0.01
332 234 0.70
333 2 0.01
334 94 0.28
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (331 bp):
CAACATTTCCATGAAGAGTTCATAATGAGAAGAACTCATCAAACGAGGAAGAAGAAGTTCATAAT
GACAAGAACTTGTTCAACTTCGCATCAACATTTTCAATGGAGAGCTCATAATGAAAAGAACTCAT
CCGAAAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACA
TTTCGAATCAGTGACACCTAGCTTGAGGGATCGACATTTCCAGAAGAGTTCATAATGAGAAGAAC
TCATCATAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCACAGAAAGAG
ATGAAC
Found at i:1988140 original size:17 final size:17
Alignment explanation
Indices: 1988118--1988151 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1988108 ATTTTAATCC
*
1988118 TATATGTATTAATATTT
1 TATATGTATAAATATTT
*
1988135 TATATGTCTAAATATTT
1 TATATGTATAAATATTT
1988152 AGATTTTAAT
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:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (17 bp):
TATATGTATAAATATTT
Found at i:1994513 original size:44 final size:43
Alignment explanation
Indices: 1994462--1994560 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 43
1994452 AAATTTTCTC
* *
1994462 AAATTTATAAATTTTAATATTTCTAAACATATAACAAA-TCATTT
1 AAATTTATAAAGTTT-ATATTTC-AAACATATAACAAACTAATTT
* * *
1994506 AATTTTATAGTAAGTTTATTTTTCAAATATATAACAAACTAATTT
1 AAATTTATA--AAGTTTATATTTCAAACATATAACAAACTAATTT
1994551 AAATTTATAA
1 AAATTTATAA
1994561 CGACTTTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.02
44 21 0.46
45 19 0.41
46 5 0.11
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (43 bp):
AAATTTATAAAGTTTATATTTCAAACATATAACAAACTAATTT
Found at i:2019633 original size:13 final size:13
Alignment explanation
Indices: 2019615--2019641 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2019605 AATTGTTATT
2019615 TTTTTTACTGTTC
1 TTTTTTACTGTTC
2019628 TTTTTTACTGTTC
1 TTTTTTACTGTTC
2019641 T
1 T
2019642 GGAGCCTGGA
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:0.15, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTTTACTGTTC
Found at i:2028501 original size:18 final size:18
Alignment explanation
Indices: 2028474--2028509 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2028464 AGGAATGATC
2028474 CCTAAAAATCAGTAACTT
1 CCTAAAAATCAGTAACTT
* *
2028492 CCTAAGAATCGGTAACTT
1 CCTAAAAATCAGTAACTT
2028510 TAGATTATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (18 bp):
CCTAAAAATCAGTAACTT
Found at i:2040363 original size:236 final size:235
Alignment explanation
Indices: 2039940--2040404 Score: 849
Period size: 236 Copynumber: 2.0 Consensus size: 235
2039930 ATACCCATGC
*
2039940 AGACCAAGCTGACGTTAGTGCCACGCACATGAAAATAATACACGATCCCCCTTCATCGTCTTCAA
1 AGACCAAGCAGACGTTAGTGCCACGCACATGAAAATAATACACGATCCCCCTTCATCGTCTTCAA
2040005 CCACTCATGGTGCTCAAAATACCTTGGATGTCGTTCCTAAAGAAGTAAATCCATCGACTCCAAGG
66 CCACTCATGGTGCTCAAAATACCTTGGATGTCGTTCCTAAAGAAGTAAATCCATCGACTCCAAGG
*
2040070 AATATGATGCAAGTTTCGACCCAGGTAAACCTTAATGGAGAATTCTTTAATTCAAAAATTAATCA
131 AATATGATGCAAGCTTCGACCCAGGTAAACCTTAATGGAGAATTCTTTAATTCAAAAATTAATCA
* *
2040135 TATGTTCGATAATACGCTAGGGATGGAAGGTACTTTGGTG
196 TATGTTCGATAATAAGCTAGGGATGAAAGGTACTTTGGTG
* * * *
2040175 AGACCAAGCAAGACGTTAGTGCTACGTACATGCAAATCATACACGATCCCCCTTCATCGTCTTCA
1 AGACCAAGC-AGACGTTAGTGCCACGCACATGAAAATAATACACGATCCCCCTTCATCGTCTTCA
2040240 ACCACTCATGGTGCTCAAAATACCTTGGATGTCGTTCCTAAAGAAGTAAATCCATCGACTCCAAG
65 ACCACTCATGGTGCTCAAAATACCTTGGATGTCGTTCCTAAAGAAGTAAATCCATCGACTCCAAG
2040305 GAATATGATGCAAGCTTCGACCCAGGTAAACCTTAATGGAGAATTCTTTAATTCAAAAATTAATC
130 GAATATGATGCAAGCTTCGACCCAGGTAAACCTTAATGGAGAATTCTTTAATTCAAAAATTAATC
2040370 ATATGTTCGATAATAAGCTAGGGATGAAAGGTACT
195 ATATGTTCGATAATAAGCTAGGGATGAAAGGTACT
2040405 CTGTTTTGAA
Statistics
Matches: 221, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
235 9 0.04
236 212 0.96
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (235 bp):
AGACCAAGCAGACGTTAGTGCCACGCACATGAAAATAATACACGATCCCCCTTCATCGTCTTCAA
CCACTCATGGTGCTCAAAATACCTTGGATGTCGTTCCTAAAGAAGTAAATCCATCGACTCCAAGG
AATATGATGCAAGCTTCGACCCAGGTAAACCTTAATGGAGAATTCTTTAATTCAAAAATTAATCA
TATGTTCGATAATAAGCTAGGGATGAAAGGTACTTTGGTG
Found at i:2055518 original size:39 final size:37
Alignment explanation
Indices: 2055448--2055532 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 37
2055438 CACCCTAAAC
2055448 CCGACCCGACCCGACCCGAACAATATATTTAAAAAAAAT
1 CCGACCCGACCCGACCCGAACAATATATTT--AAAAAAT
** * *
2055487 CCGACCCGACCCGAACCCGAA-TTTTTTTTTAAAAAAT
1 CCGACCCGACCCG-ACCCGAACAATATATTTAAAAAAT
2055524 CCGACCCGA
1 CCGACCCGA
2055533 TCGGGTCGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 16 0.39
39 18 0.44
40 7 0.17
ACGTcount: A:0.36, C:0.33, G:0.12, T:0.19
Consensus pattern (37 bp):
CCGACCCGACCCGACCCGAACAATATATTTAAAAAAT
Found at i:2062040 original size:40 final size:40
Alignment explanation
Indices: 2061995--2062074 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
2061985 TTGGAAGCCT
2061995 CGAGTGAGGAAGCAACAATGCACACTTCTATATCTGCCCC
1 CGAGTGAGGAAGCAACAATGCACACTTCTATATCTGCCCC
2062035 CGAGTGAGGAAGCAACAATGCACACTTCTATATCTGCCCC
1 CGAGTGAGGAAGCAACAATGCACACTTCTATATCTGCCCC
2062075 AGATATGTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (40 bp):
CGAGTGAGGAAGCAACAATGCACACTTCTATATCTGCCCC
Found at i:2066762 original size:24 final size:24
Alignment explanation
Indices: 2066735--2066810 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
2066725 TATATCAAAA
* *
2066735 ATCAAAACATAAATCATGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
* *
2066759 ATCATATCAGAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
* * * *
2066783 AACAGATCAG-AATCCAAGTCAAGT
1 ATCAAAACAGAAAT-CAGGTCAAGT
2066807 ATCA
1 ATCA
2066811 GATCAGAATC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
23 3 0.07
24 40 0.93
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAAATCAGGTCAAGT
Found at i:2066812 original size:24 final size:24
Alignment explanation
Indices: 2066749--2066867 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
2066739 AAACATAAAT
*
2066749 CATGTCAAGTATCATATCAGAAAT-
1 CATGTCAAGTATCAGATCAG-AATC
* *
2066773 CAGGTCAAGTAACAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
*
2066797 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
2066821 CATGTC-AGATATCAGATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
2066845 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
2066868 TCAAATCGAA
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
23 5 0.06
24 79 0.92
25 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:2066883 original size:48 final size:47
Alignment explanation
Indices: 2066749--2066885 Score: 159
Period size: 48 Copynumber: 2.9 Consensus size: 47
2066739 AAACATAAAT
* * *
2066749 CATGTCAAGTATCATATCAGAAATCAGGTCAAGTAA-CAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATTCAAGTCAA--AATCAGATCAGAATC
* * * *
2066797 CAAGTCAAGTATCAGATCAGAATCCATGTCAGATATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATTCAAGTCA-AAATCAGATCAGAATC
*
2066845 CATGTCAAGTATCAGATCAGAATTCAAATCGAAAATCAGAT
1 CATGTCAAGTATCAGATCAGAATTCAAGTC-AAAATCAGAT
2066886 AAAATATTCA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 72 0.96
49 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (47 bp):
CATGTCAAGTATCAGATCAGAATTCAAGTCAAAATCAGATCAGAATC
Found at i:2066883 original size:72 final size:72
Alignment explanation
Indices: 2066749--2066885 Score: 172
Period size: 72 Copynumber: 1.9 Consensus size: 72
2066739 AAACATAAAT
* * *
2066749 CATGTCAAGTATCATATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAATCAAGAATCAGAT
2066814 CAGAATC
66 CAGAATC
* * *
2066821 CATGTC-AGATATCAGATCAG-AATCCATGTCAAGTATCAGATCAGAATTCAAATCGAA-AATCA
1 CATGTCAAG-TATCAGATCAGAAAT-CAGGTCAAGTAACAGATCAGAATCCAAATC-AAGAATCA
2066883 GAT
63 GAT
2066886 AAAATATTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
71 5 0.09
72 49 0.88
73 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (72 bp):
CATGTCAAGTATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAATCAAGAATCAGAT
CAGAATC
Found at i:2068085 original size:18 final size:18
Alignment explanation
Indices: 2068062--2068096 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2068052 TGCCATCCGG
*
2068062 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
2068080 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
2068097 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:2070382 original size:18 final size:18
Alignment explanation
Indices: 2070359--2070403 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
2070349 ACGAGTCAAG
*
2070359 GGGTCGGGTCAACAGGTC
1 GGGTCGGGTAAACAGGTC
*
2070377 GGGTCGGGTAAACGGGTC
1 GGGTCGGGTAAACAGGTC
*
2070395 GGGTTGGGT
1 GGGTCGGGT
2070404 TATGACCGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.51, T:0.20
Consensus pattern (18 bp):
GGGTCGGGTAAACAGGTC
Found at i:2072907 original size:111 final size:112
Alignment explanation
Indices: 2072697--2072925 Score: 451
Period size: 111 Copynumber: 2.1 Consensus size: 112
2072687 TTCGAGTACA
2072697 ATTATACCCTTAAAATTTTTAAATTCTTATATAGTTTAAATAATTTTTTTTAAAAATTTGAATCT
1 ATTATACCCTTAAAATTTTTAAATTCTTATATAGTTTAAATAATTTTTTTTAAAAATTTGAATCT
2072762 CCTTGCATAAACTCTTTGCCCACAGTTTAAAAATCTTGTGTTGGATG
66 CCTTGCATAAACTCTTTGCCCACAGTTTAAAAATCTTGTGTTGGATG
2072809 ATTATACCCTTAAAATTTTTAAATTCTTATATAGTTTAAATAATTTTTTTT-AAAATTTGAATCT
1 ATTATACCCTTAAAATTTTTAAATTCTTATATAGTTTAAATAATTTTTTTTAAAAATTTGAATCT
2072873 CCTTGCATAAACTCTTTGCCCACAGTTTAAAAATCTTGTGTTGGATG
66 CCTTGCATAAACTCTTTGCCCACAGTTTAAAAATCTTGTGTTGGATG
2072920 ATTATA
1 ATTATA
2072926 GGTTGTTCCA
Statistics
Matches: 117, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
111 66 0.56
112 51 0.44
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (112 bp):
ATTATACCCTTAAAATTTTTAAATTCTTATATAGTTTAAATAATTTTTTTTAAAAATTTGAATCT
CCTTGCATAAACTCTTTGCCCACAGTTTAAAAATCTTGTGTTGGATG
Found at i:2075385 original size:32 final size:33
Alignment explanation
Indices: 2075319--2075385 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
2075309 TACATCAATG
*
2075319 ACTAAGAAGATAATGTAGAAACACTTGATAGCT
1 ACTAAGAAGATAAGGTAGAAACACTTGATAGCT
*
2075352 ACTACGAAGATAAGGTAG-AACA-TATGATAGCT
1 ACTAAGAAGATAAGGTAGAAACACT-TGATAGCT
2075384 AC
1 AC
2075386 CTCATAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 1 0.03
32 14 0.45
33 16 0.52
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.22
Consensus pattern (33 bp):
ACTAAGAAGATAAGGTAGAAACACTTGATAGCT
Found at i:2082492 original size:188 final size:192
Alignment explanation
Indices: 2082114--2082478 Score: 526
Period size: 190 Copynumber: 1.9 Consensus size: 192
2082104 AATAAATAGT
*
2082114 CCTTTTGACTATTGCAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGATAATTACTCTTT
1 CCTTTTGACCATTGCAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGATAATTACTCTTT
* * * * *
2082179 TAATAAGTTATTTTAAAAATGTATTGGTTATACTTTTAATTATGAATATTAAAAGATAATTTTAT
66 GAATAAGTCAATTTAAAAATATATTGGTTATACTTTTAATTATGAATATTAAAAGATAATTATAT
* * *
2082244 ACTTTTGTATATTTTAAATTAAAAATAATATTTGTTTAAGTTTGAATAGCAAAGGGAGTTTA
131 ACTTTTGTATATTTCAAATTAAAAATAATATCTATTTAAGTTTGAATAGCAAAGGGAGTTTA
*
2082306 CCTTTTGACCATTGCAAATT-AAATAT-ATTATTTAATTTGAATATTAGTAGGATAATT-CTCTT
1 CCTTTTGACCATTGCAAATTAAAAGATAATT-TTTAATTTGAATATTAGTAGGATAATTACTCTT
** * * *
2082368 TGAATTTGTCAATTTAAAAATATATTTGTTATATTTTTAACTT-TGAATATT-AAATATAATTAT
65 TGAATAAGTCAATTTAAAAATATATTGGTTATACTTTTAA-TTATGAATATTAAAAGATAATTAT
*
2082431 ATATTTTTGTATATTTCAAATT-AAAATAATATCTATTTAAGTTTGAAT
129 ATACTTTTGTATATTTCAAATTAAAAATAATATCTATTTAAGTTTGAAT
2082479 GGTAGAAGGA
Statistics
Matches: 155, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
188 24 0.15
189 30 0.19
190 48 0.31
191 34 0.22
192 19 0.12
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (192 bp):
CCTTTTGACCATTGCAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGATAATTACTCTTT
GAATAAGTCAATTTAAAAATATATTGGTTATACTTTTAATTATGAATATTAAAAGATAATTATAT
ACTTTTGTATATTTCAAATTAAAAATAATATCTATTTAAGTTTGAATAGCAAAGGGAGTTTA
Found at i:2082517 original size:189 final size:189
Alignment explanation
Indices: 2082114--2082521 Score: 520
Period size: 189 Copynumber: 2.1 Consensus size: 189
2082104 AATAAATAGT
2082114 CCTTTTGACTATTGCAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGATAATTACTCTTT
1 CCTTTTGACTATTGCAAATT-AAA-AT-ATTTTTAATTTGAATATTAGTAGGATAATTACTCTTT
* * * * *
2082179 TAATAAGTTATTTTAAAAATGTATTGGTTATACTTTTAATTATGAATATTAAAAGATAATTTTAT
63 GAATAAGTCAATTTAAAAATATATTGGTTATACTTTTAATTATGAATATTAAAAGATAATTATAT
* * *
2082244 ACTTTTGTATATTTTAAATTAAAAATAATATTTGTTTAAGTTTGAATAGCAAAGGGAGTTTA
128 ACTTTTGTATATTTCAAATTAAAAATAATATCTATTTAAGTTTGAATAGCAAAGGGAGTTTA
*
2082306 CCTTTTGACCATTGCAAATTAAATATATTATTTAATTTGAATATTAGTAGGATAATT-CTCTTTG
1 CCTTTTGACTATTGCAAATTAAA-ATATT-TTTAATTTGAATATTAGTAGGATAATTACTCTTTG
** * * *
2082370 AATTTGTCAATTTAAAAATATATTTGTTATATTTTTAACTT-TGAATATT-AAATATAATTATAT
64 AATAAGTCAATTTAAAAATATATTGGTTATACTTTTAA-TTATGAATATTAAAAGATAATTATAT
* * *
2082433 ATTTTTGTATATTTCAAATT-AAAATAATATCTATTTAAGTTTGAATGGTAGAA-GGAGTTTTA
128 ACTTTTGTATATTTCAAATTAAAAATAATATCTATTTAAGTTTGAATAGCA-AAGGGAG-TTTA
** * *
2082495 TTTTTTGAATATTTCAAATTAAAATAT
1 CCTTTTGACTATTGCAAATTAAAATAT
2082522 GTTGTTATAT
Statistics
Matches: 189, Mismatches: 23, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
188 34 0.18
189 54 0.29
190 48 0.25
191 34 0.18
192 19 0.10
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (189 bp):
CCTTTTGACTATTGCAAATTAAAATATTTTTAATTTGAATATTAGTAGGATAATTACTCTTTGAA
TAAGTCAATTTAAAAATATATTGGTTATACTTTTAATTATGAATATTAAAAGATAATTATATACT
TTTGTATATTTCAAATTAAAAATAATATCTATTTAAGTTTGAATAGCAAAGGGAGTTTA
Found at i:2088269 original size:28 final size:28
Alignment explanation
Indices: 2088229--2088286 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
2088219 AAAATAGCTG
2088229 TATTCTAAATGCATGCATGGACACTTTT
1 TATTCTAAATGCATGCATGGACACTTTT
2088257 TATTCTAAATGCATGCATGGACACTTTT
1 TATTCTAAATGCATGCATGGACACTTTT
2088285 TA
1 TA
2088287 AAACATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (28 bp):
TATTCTAAATGCATGCATGGACACTTTT
Found at i:2099588 original size:20 final size:20
Alignment explanation
Indices: 2099494--2099862 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
2099484 GATTTTCCAT
* ** *
2099494 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2099514 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2099534 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2099554 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2099574 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2099594 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2099614 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2099634 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2099654 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2099674 AATCGCAACGCGTATACGTA
1 AATCGCAACGCGTATCCGTA
*
2099694 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2099714 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2099734 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2099754 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2099774 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2099794 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2099814 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2099834 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2099854 AATCACAAC
1 AATCGCAAC
2099863 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2100584 original size:24 final size:24
Alignment explanation
Indices: 2100545--2100591 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2100535 AAATTTGGTC
2100545 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
2100569 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
2100592 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:2100783 original size:12 final size:12
Alignment explanation
Indices: 2100766--2100790 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2100756 ATATAATCCT
2100766 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2100778 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2100790 G
1 G
2100791 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2103146 original size:14 final size:14
Alignment explanation
Indices: 2103127--2103214 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
2103117 CGGAAATGAA
2103127 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2103141 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2103160 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2103174 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
2103193 AATCGCAACGACAG
1 AATCGCAACGAGAG
2103207 AATCGCAA
1 AATCGCAA
2103215 TGCGAAATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 27 0.46
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.34
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2103161 original size:33 final size:34
Alignment explanation
Indices: 2103074--2103359 Score: 269
Period size: 33 Copynumber: 8.5 Consensus size: 34
2103064 CGGAAAATAC
* * *
2103074 AATCGCAACGTGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
2103107 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
*
2103141 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
* *
2103174 AATCGCAATGCGAAATGAAAATCGCAACGA-CAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
2103207 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
2103245 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
2103278 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
2103311 AATCGCAATGCGAAATGAAAATCGCAACGA-GAT
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
2103344 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
2103360 TATAAACGCA
Statistics
Matches: 231, Mismatches: 10, Indels: 24
0.87 0.04 0.09
Matches are distributed among these distances:
33 167 0.72
34 30 0.13
35 8 0.03
36 8 0.03
37 1 0.00
38 17 0.07
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:2103248 original size:85 final size:85
Alignment explanation
Indices: 2103141--2103359 Score: 402
Period size: 85 Copynumber: 2.6 Consensus size: 85
2103131 GCAACGAGAG
*
2103141 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGACA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAAA
*
2103206 GAATCGCAATGCGAAATTAA
66 GAATCGCAATGCGAAATGAA
*
2103226 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACGAAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAAA
2103291 GAATCGCAATGCGAAATGAA
66 GAATCGCAATGCGAAATGAA
*
2103311 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
2103360 TATAAACGCA
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 129 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (85 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAAA
GAATCGCAATGCGAAATGAA
Found at i:2103283 original size:118 final size:119
Alignment explanation
Indices: 2103105--2103318 Score: 403
Period size: 118 Copynumber: 1.8 Consensus size: 119
2103095 TCCCAACATG
*
2103105 AAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACG
1 AAAATCGCAATGCGGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACG
*
2103170 AGAGAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATT
66 AAAGAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATT
2103224 AAAATCGCAATGC-GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACG
1 AAAATCGCAATGCGGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACG
2103288 AAAGAATCGCAATGCGAAATGAAAATCGCAA
66 AAAGAATCGCAATGCGAAATGAAAATCGCAA
2103319 TGCGAAATGA
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
118 80 0.86
119 13 0.14
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (119 bp):
AAAATCGCAATGCGGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACG
AAAGAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAAATT
Found at i:2103375 original size:52 final size:52
Alignment explanation
Indices: 2103102--2103359 Score: 258
Period size: 52 Copynumber: 5.0 Consensus size: 52
2103092 AAATCCCAAC
*
2103102 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
* *
2103155 ATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAA--CGAC
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAA
*
2103205 A-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAA
2103257 A-G--AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
* *
2103306 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
2103358 AT
1 AT
2103360 TATAAACGCA
Statistics
Matches: 181, Mismatches: 9, Indels: 31
0.82 0.04 0.14
Matches are distributed among these distances:
47 26 0.14
48 1 0.01
49 13 0.07
50 12 0.07
51 2 0.01
52 114 0.63
53 13 0.07
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
Found at i:2103475 original size:19 final size:19
Alignment explanation
Indices: 2103366--2103467 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
2103356 AAATTATAAA
2103366 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2103385 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
2103405 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
2103421 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
*
2103438 CACATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2103457 CGCATTGCGAT
1 CGCATTGCGAT
2103468 AGTCATTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 6 0.08
19 35 0.48
20 19 0.26
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2103593 original size:14 final size:14
Alignment explanation
Indices: 2103574--2103610 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2103564 CATCAATTAC
2103574 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2103588 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2103602 ACAAATCAA
1 ACAAATCAA
2103611 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2105610 original size:14 final size:14
Alignment explanation
Indices: 2105591--2105647 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2105581 GCGAAATGAA
*
2105591 AATCGCAACGACAG
1 AATCGCAACGAAAG
2105605 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2105622 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2105638 AATCGCAACG
1 AATCGCAACG
2105648 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2105618 original size:33 final size:33
Alignment explanation
Indices: 2105572--2105664 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
2105562 GCGAAACCAA
*
2105572 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2105605 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2105638 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2105665 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2105629 original size:19 final size:19
Alignment explanation
Indices: 2105535--2105669 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
2105525 TAGTTTACTT
* *
2105535 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2105555 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2105574 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2105593 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2105607 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2105626 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
2105640 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2105659 TCGCAATGCGA
1 TCGCAACGCGA
2105670 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2105687 original size:19 final size:19
Alignment explanation
Indices: 2105665--2105793 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2105655 AAAATCGCAA
2105665 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2105684 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2105698 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2105717 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2105731 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2105750 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2105769 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2105789 TGCGA
1 TGCGA
2105794 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2105707 original size:33 final size:33
Alignment explanation
Indices: 2105665--2105756 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2105655 AAAATCGCAA
2105665 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2105698 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2105731 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2105757 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:2106112 original size:92 final size:93
Alignment explanation
Indices: 2105825--2106290 Score: 891
Period size: 93 Copynumber: 5.0 Consensus size: 93
2105815 GCAAATTGAA
2105825 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
2105890 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
2105918 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
2105983 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
2106011 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
2106075 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
2106103 ACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
2106167 GCAGAATTGGAAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
*
2106195 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCATAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
2106260 GCAGAATTGGCAGCAACCGAATAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
2106288 ACT
1 ACT
2106291 AAGCAATCTA
Statistics
Matches: 367, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
91 2 0.01
92 177 0.48
93 188 0.51
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTT
Found at i:2108011 original size:14 final size:14
Alignment explanation
Indices: 2107992--2108081 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2107982 TTGAAATGAA
2107992 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2108006 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2108023 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2108039 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2108058 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2108072 AATCGCAACG
1 AATCGCAACG
2108082 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2108029 original size:33 final size:33
Alignment explanation
Indices: 2107984--2108098 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2107974 TCTTTTGGTT
2107984 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2108017 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2108050 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2108083 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2108099 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2108030 original size:19 final size:18
Alignment explanation
Indices: 2107991--2108103 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
2107981 GTTGAAATGA
2107991 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2108006 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2108023 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2108039 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2108056 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
2108072 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
2108089 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
2108104 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:2108134 original size:14 final size:14
Alignment explanation
Indices: 2108115--2108169 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2108105 TTTGGTTTCG
2108115 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2108129 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2108148 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2108162 CGTTGCGA
1 CGTTGCGA
2108170 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2108147 original size:33 final size:33
Alignment explanation
Indices: 2108099--2108169 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2108089 AAAATCGCAA
**
2108099 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2108132 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2108165 TGCGA
1 TGCGA
2108170 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:2108177 original size:33 final size:33
Alignment explanation
Indices: 2108110--2108191 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
2108100 GCGATTTTGG
***
2108110 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
2108143 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
2108176 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
2108192 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:2108196 original size:20 final size:20
Alignment explanation
Indices: 2108122--2108210 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
2108112 TCGCGTTGCG
2108122 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2108142 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
2108155 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
2108175 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
2108195 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
2108211 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:2108332 original size:33 final size:33
Alignment explanation
Indices: 2108290--2108360 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2108280 AATACTAACT
*
2108290 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2108323 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2108356 TGAAA
1 TGAAA
2108361 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2108594 original size:22 final size:22
Alignment explanation
Indices: 2108542--2108596 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2108532 TGGTTGTGAG
**
2108542 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2108564 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2108586 GGATTTCTTCG
1 GGATTTCTTCG
2108597 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2108767 original size:20 final size:20
Alignment explanation
Indices: 2108742--2108934 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
2108732 CTTTAAATAT
2108742 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2108762 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2108784 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2108803 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2108823 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2108843 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2108863 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2108883 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2108903 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2108923 CGCGTTGCGATT
1 CGCGTTGCGATT
2108935 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2108929 original size:60 final size:60
Alignment explanation
Indices: 2108742--2108934 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
2108732 CTTTAAATAT
**
2108742 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2108803 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2108863 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2108923 CGCGTTGCGATT
1 CGCGTTGCGATT
2108935 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2109015 original size:20 final size:20
Alignment explanation
Indices: 2108990--2109041 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2108980 AAGAATCGCG
*
2108990 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2109010 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2109030 TTGCGATTCTGG
1 TTGCGATTCTGG
2109042 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2111223 original size:55 final size:55
Alignment explanation
Indices: 2111153--2111261 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 55
2111143 GATACGCTTG
* * *
2111153 TCTTAGTGTACCAGTCCCTGTATTTAAAAGTATTCTATTTGAAATATTTGATTTA
1 TCTTAGTGTACCAGTCCCTGTATTTAAAAATATCCTATTCGAAATATTTGATTTA
* *
2111208 TCTTAGTGTATCAGTCGCTGTATTTAAAAATATCCTATTCGAAATATTTGATTT
1 TCTTAGTGTACCAGTCCCTGTATTTAAAAATATCCTATTCGAAATATTTGATTT
2111262 GTTGACCTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (55 bp):
TCTTAGTGTACCAGTCCCTGTATTTAAAAATATCCTATTCGAAATATTTGATTTA
Found at i:2114575 original size:58 final size:58
Alignment explanation
Indices: 2114502--2114612 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 58
2114492 TATATTGAGG
* * *
2114502 TCCCTTAAACAAAGGCTAGAG-GTTCGAATCTTGACGTTTGCGAATGGAGCAAATTGGA
1 TCCCTTAAACAAAGGCCAG-GTATTCGAATCCTGACGTTTGCGAATGGAGCAAATTGGA
*
2114560 TCCCTTAAACAAAGGCCAGGTATTCGAATCCTGATGTTTGCGAATGGAGCAAA
1 TCCCTTAAACAAAGGCCAGGTATTCGAATCCTGACGTTTGCGAATGGAGCAAA
2114613 CTGTGTTGGG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 1 0.02
58 47 0.98
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (58 bp):
TCCCTTAAACAAAGGCCAGGTATTCGAATCCTGACGTTTGCGAATGGAGCAAATTGGA
Found at i:2116477 original size:3 final size:3
Alignment explanation
Indices: 2116469--2116522 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
2116459 TGTTTATTTC
* * * *
2116469 TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TTT TCT TTT TCT TTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
2116517 TCT TCT
1 TCT TCT
2116523 ACCGTGAGTG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TCT
Found at i:2121094 original size:45 final size:45
Alignment explanation
Indices: 2121022--2121165 Score: 191
Period size: 45 Copynumber: 3.1 Consensus size: 45
2121012 ATTTATTTTC
*
2121022 ATTTTTCGAATAAATGCTTGCGAACTAGATATCATGCGGTTAGGTTT
1 ATTTTTCGAA-AAA-GCATGCGAACTAGATATCATGCGGTTAGGTTT
*
2121069 ATTTTTCGAACAAGCATGCGAACTAGATATCATGCGGTTAGGTTT
1 ATTTTTCGAAAAAGCATGCGAACTAGATATCATGCGGTTAGGTTT
* * *
2121114 A-TTTTCTGAATAAGCATGCGAATTAGATATCATGAGGTTAGGATTT
1 ATTTTTC-GAAAAAGCATGCGAACTAGATATCATGCGGTTAGG-TTT
*
2121160 CTTTTT
1 ATTTTT
2121166 GTGGATAACA
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
44 5 0.06
45 64 0.73
46 5 0.06
47 14 0.16
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.38
Consensus pattern (45 bp):
ATTTTTCGAAAAAGCATGCGAACTAGATATCATGCGGTTAGGTTT
Found at i:2129910 original size:7 final size:7
Alignment explanation
Indices: 2129900--2130009 Score: 103
Period size: 7 Copynumber: 16.9 Consensus size: 7
2129890 AGAAAAATGA
2129900 GAAAAAT
1 GAAAAAT
*
2129907 GAAAAAA
1 GAAAAAT
2129914 GAAAAAT
1 GAAAAAT
2129921 GAAAAA-
1 GAAAAAT
*
2129927 -AAAAAA
1 GAAAAAT
*
2129933 AAAAAAT
1 GAAAAAT
2129940 GAAAAAT
1 GAAAAAT
2129947 GAAAAAT
1 GAAAAAT
*
2129954 G-AAGA-
1 GAAAAAT
2129959 -AAAAAT
1 GAAAAAT
2129965 GAAAAAT
1 GAAAAAT
*
2129972 GAAAAAAA
1 G-AAAAAT
2129980 GAAAAAT
1 GAAAAAT
2129987 G-AAAA-
1 GAAAAAT
2129992 -AAAAA-
1 GAAAAAT
2129997 GAAAAAT
1 GAAAAAT
2130004 GAAAAA
1 GAAAAA
2130010 AAGAGAGTAA
Statistics
Matches: 86, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
5 12 0.14
6 12 0.14
7 56 0.65
8 6 0.07
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (7 bp):
GAAAAAT
Found at i:2129938 original size:33 final size:32
Alignment explanation
Indices: 2129899--2130010 Score: 163
Period size: 33 Copynumber: 3.5 Consensus size: 32
2129889 GAGAAAAATG
2129899 AGAAAAATGAAAAAAGAAAAATGAAAAAAAAAA
1 AGAAAAATGAAAAAAGAAAAATG-AAAAAAAAA
* * *
2129932 AAAAAAATGAAAAATGAAAAATGAAGAAAAAA
1 AGAAAAATGAAAAAAGAAAAATGAAAAAAAAA
*
2129964 TGAAAAATGAAAAAAAGAAAAATG-AAAAAAAA
1 AGAAAAATG-AAAAAAGAAAAATGAAAAAAAAA
2129996 AGAAAAATGAAAAAA
1 AGAAAAATGAAAAAA
2130011 AGAGAGTAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
31 6 0.09
32 30 0.43
33 34 0.49
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.08
Consensus pattern (32 bp):
AGAAAAATGAAAAAAGAAAAATGAAAAAAAAA
Found at i:2129944 original size:40 final size:41
Alignment explanation
Indices: 2129885--2130011 Score: 138
Period size: 39 Copynumber: 3.0 Consensus size: 41
2129875 AAGAAGAAAT
*
2129885 AAAAGAGAAAAATGAGAAAAATGAAAAAAGAAAAATGAAAAAA
1 AAAAAAGAAAAAT--GAAAAATGAAAAAAGAAAAATGAAAAAA
2129928 AAAAAA-AAAAATGAAAAATGAAAAATGAAGAAAAAATGAAAAATGA
1 AAAAAAGAAAAATGAAAAATG-AAAA--AAG-AAAAATGAAAAA--A
2129974 AAAAAAGAAAAATG--AAA--AAAAAAGAAAAATGAAAAAA
1 AAAAAAGAAAAATGAAAAATGAAAAAAGAAAAATGAAAAAA
2130011 A
1 A
2130012 GAGAGTAATA
Statistics
Matches: 76, Mismatches: 1, Indels: 20
0.78 0.01 0.21
Matches are distributed among these distances:
37 2 0.03
39 12 0.16
40 11 0.14
41 4 0.05
42 10 0.13
43 8 0.11
44 12 0.16
45 3 0.04
46 7 0.09
47 7 0.09
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (41 bp):
AAAAAAGAAAAATGAAAAATGAAAAAAGAAAAATGAAAAAA
Found at i:2130011 original size:33 final size:32
Alignment explanation
Indices: 2129899--2130013 Score: 162
Period size: 32 Copynumber: 3.6 Consensus size: 32
2129889 GAGAAAAATG
2129899 AGAAAAATG-AAAAAAGAAAAATGAAAAAAAAAA
1 AGAAAAATGAAAAAAAGAAAAATG--AAAAAAAA
* *
2129932 AAAAAAATG-AAAAATGAAAAATGAAGAAAAAA
1 AGAAAAATGAAAAAAAGAAAAATGAA-AAAAAA
*
2129964 TGAAAAATGAAAAAAAGAAAAATGAAAAAAAA
1 AGAAAAATGAAAAAAAGAAAAATGAAAAAAAA
2129996 AGAAAAATGAAAAAAAGA
1 AGAAAAATGAAAAAAAGA
2130014 GAGTAATAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
31 2 0.03
32 36 0.49
33 36 0.49
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (32 bp):
AGAAAAATGAAAAAAAGAAAAATGAAAAAAAA
Found at i:2131596 original size:51 final size:51
Alignment explanation
Indices: 2131287--2131590 Score: 439
Period size: 51 Copynumber: 5.9 Consensus size: 51
2131277 AAACTCGTTT
* *
2131287 GTTGAAGATTGAGTCCTATACTCTTTGAATGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
2131338 ATTGAAAATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
*
2131389 GTTGAAAATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
2131440 GTTGAAAATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
2131491 GTTGAAGATTGTTTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTT
1 GTTGAAGA----TTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* * * *
2131546 ATTGAAGATCGAGTCTTATACTCCCTGAACGG-ATAGGGAGCGGAC
1 GTTGAAGATTGAGTCCTATACTCTCTGAA-GGAATAGGGAGCGGAC
2131591 CCGTTTTATG
Statistics
Matches: 234, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
51 185 0.79
52 2 0.01
55 47 0.20
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (51 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
Found at i:2131769 original size:53 final size:53
Alignment explanation
Indices: 2131600--2131752 Score: 245
Period size: 53 Copynumber: 2.9 Consensus size: 53
2131590 CCCGTTTTAT
*
2131600 GAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGTGAACCCATAGGAA
1 GAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCATAGGAA
* * * *
2131653 GAAGATAT-TTTGAGTTCTATTCCTTGAAGCAAGAGGGAGCGAACCCATAAGCA
1 GAAGAT-TGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCATAGGAA
2131706 GAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCA
1 GAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCA
2131753 CTGGTTGAAT
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 89 0.98
54 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (53 bp):
GAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCATAGGAA
Found at i:2132646 original size:28 final size:27
Alignment explanation
Indices: 2132599--2132653 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
2132589 TTTATGCTTG
2132599 TTTTTATTTAAGTCATTGTTTTAATTTT
1 TTTTTATTTAAGTCATTG-TTTAATTTT
2132627 TTTTTATTTATTAGT-A-TGTTTAATTTT
1 TTTTTATTTA--AGTCATTGTTTAATTTT
2132654 ATGTACGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 9 0.36
28 12 0.48
29 1 0.04
30 3 0.12
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (27 bp):
TTTTTATTTAAGTCATTGTTTAATTTT
Found at i:2134024 original size:21 final size:21
Alignment explanation
Indices: 2134000--2134090 Score: 69
Period size: 21 Copynumber: 4.3 Consensus size: 21
2133990 GGTTCTACGC
2134000 GATCCTTC-GAGACATATATGT
1 GATCCTTCGGA-ACATATATGT
*
2134021 GATCCTTTGGAACATATATGT
1 GATCCTTCGGAACATATATGT
** * *
2134042 -AGTAATTCGGGACATATATTT
1 GA-TCCTTCGGAACATATATGT
* * *
2134063 GGTCATTTGGAACATATATGT
1 GATCCTTCGGAACATATATGT
*
2134084 GGTCCTT
1 GATCCTT
2134091 AGGGACAATT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
20 1 0.02
21 52 0.95
22 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (21 bp):
GATCCTTCGGAACATATATGT
Found at i:2134096 original size:42 final size:42
Alignment explanation
Indices: 2134010--2134097 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
2134000 GATCCTTCGA
* *
2134010 GACATATATGTGATCCTTTGGAACATATATGTAGTAATTCGG
1 GACATATATGTGATCATTTGGAACATATATGTAGTAATTAGG
* * * **
2134052 GACATATATTTGGTCATTTGGAACATATATGTGGTCCTTAGG
1 GACATATATGTGATCATTTGGAACATATATGTAGTAATTAGG
2134094 GACA
1 GACA
2134098 ATTCTATGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (42 bp):
GACATATATGTGATCATTTGGAACATATATGTAGTAATTAGG
Found at i:2135381 original size:18 final size:18
Alignment explanation
Indices: 2135358--2135393 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2135348 AAGTAAGCCT
2135358 TCATAGAAGTACTAGAGA
1 TCATAGAAGTACTAGAGA
2135376 TCATAGAAGTACTAGAGA
1 TCATAGAAGTACTAGAGA
2135394 AGAGTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (18 bp):
TCATAGAAGTACTAGAGA
Done.