Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008893.1 Hibiscus syriacus cultivar Beakdansim tig00112159_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: 2797279
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 13
Found at i:1876672 original size:6 final size:6
Alignment explanation
Indices: 1876661--1876691 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1876651 GGTCCCCCAA
*
1876661 CAGTGC CAGTGC CAGTGC CAGTGC CACTGC C
1 CAGTGC CAGTGC CAGTGC CAGTGC CAGTGC C
1876692 CCTGCCCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.39, G:0.29, T:0.16
Consensus pattern (6 bp):
CAGTGC
Found at i:1886834 original size:60 final size:60
Alignment explanation
Indices: 1886755--1886867 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
1886745 AAATAGTCCC
1886755 CTGACTATAGGATGCTACTTTATTAAGTCCCTCAACTATTAAAAGCTACAAAACGATCCT
1 CTGACTATAGGATGCTACTTTATTAAGTCCCTCAACTATTAAAAGCTACAAAACGATCCT
* * * * *
1886815 CTGACTATA-GAGTGCTACTTTGTTGAGTCTCTCGACTATTAAAAGTTACAAAA
1 CTGACTATAGGA-TGCTACTTTATTAAGTCCCTCAACTATTAAAAGCTACAAAA
1886868 TGGTCACACA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 2 0.04
60 45 0.96
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (60 bp):
CTGACTATAGGATGCTACTTTATTAAGTCCCTCAACTATTAAAAGCTACAAAACGATCCT
Found at i:1887190 original size:60 final size:60
Alignment explanation
Indices: 1887078--1887215 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 60
1887068 AATATAATGA
* * * *
1887078 ATAGTCAAAGGACCATTTCGTAACTTTTAATAGTCAATGGACTTAACGAAGCAACATTCT
1 ATAGTCAAAGGACCATTTCATAACTTTTAATAATCAAAGGACTTAACAAAGCAACATTCT
** * * * * *
1887138 ATAGTCAAAGGACTGTTTTATAACTTTTAATAATTAAAGGACTTAATAAAGCAATA-CCAT
1 ATAGTCAAAGGACCATTTCATAACTTTTAATAATCAAAGGACTTAACAAAGCAACATTC-T
*
1887198 ATAGTCAGAGGACCATTT
1 ATAGTCAAAGGACCATTT
1887216 GTGTACTTTT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
59 1 0.02
60 62 0.98
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (60 bp):
ATAGTCAAAGGACCATTTCATAACTTTTAATAATCAAAGGACTTAACAAAGCAACATTCT
Found at i:1888608 original size:23 final size:23
Alignment explanation
Indices: 1888582--1888628 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
1888572 CTTCAAAAAA
1888582 AAAAACTAACCAAATTCAAATTC
1 AAAAACTAACCAAATTCAAATTC
*
1888605 AAAATCTAACCAAATTCAAATTC
1 AAAAACTAACCAAATTCAAATTC
1888628 A
1 A
1888629 GTCTTTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAAACTAACCAAATTCAAATTC
Found at i:1888796 original size:20 final size:16
Alignment explanation
Indices: 1888758--1888791 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1888748 TTAATCTTTG
1888758 TATTTAATAAAATATA
1 TATTTAATAAAATATA
*
1888774 TATTTAATTAAATATA
1 TATTTAATAAAATATA
1888790 TA
1 TA
1888792 GATATAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTTAATAAAATATA
Found at i:1894244 original size:17 final size:18
Alignment explanation
Indices: 1894224--1894258 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1894214 AATATAATTT
*
1894224 ATTAATTTGAT-TCTTAA
1 ATTAATTTAATATCTTAA
1894241 ATTAATTTAATATCTTAA
1 ATTAATTTAATATCTTAA
1894259 TATAAGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTAATTTAATATCTTAA
Found at i:1894562 original size:20 final size:21
Alignment explanation
Indices: 1894537--1894593 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
1894527 ATTCCTCTAT
1894537 ATATTATTTTTTATAAT-AAA
1 ATATTATTTTTTATAATAAAA
*
1894557 ATATTATTTTTATTTAATAAAA
1 ATATTATTTTT-TATAATAAAA
*
1894579 ATAATATTTTATTAT
1 ATATTATTTT-TTAT
1894594 TATTTCGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 11 0.35
21 5 0.16
22 14 0.45
23 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTATTTTTTATAATAAAA
Found at i:1894589 original size:21 final size:21
Alignment explanation
Indices: 1894541--1894593 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
1894531 CTCTATATAT
*
1894541 TATTTT-TTATAATAAAATAT
1 TATTTTATTATAATAAAATAA
1894561 TATTTTTATT-TAATAAAAATAA
1 TA-TTTTATTATAAT-AAAATAA
1894583 TATTTTATTAT
1 TATTTTATTAT
1894594 TATTTCGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.07
21 15 0.54
22 11 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTATTATAATAAAATAA
Found at i:1896890 original size:2 final size:2
Alignment explanation
Indices: 1896883--1896943 Score: 108
Period size: 2 Copynumber: 31.5 Consensus size: 2
1896873 TTATACATAC
1896883 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1896923 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
1896944 ATTACGTATA
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 55 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1896912 original size:21 final size:21
Alignment explanation
Indices: 1896886--1896947 Score: 103
Period size: 19 Copynumber: 3.1 Consensus size: 21
1896876 TACATACATA
1896886 TATATATATATATATATATAT
1 TATATATATATATATATATAT
1896907 TATATATATATATATA-ATA-
1 TATATATATATATATATATAT
1896926 TATATATATATATATATA-AT
1 TATATATATATATATATATAT
1896946 TA
1 TA
1896948 CGTATAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 17 0.44
20 6 0.15
21 16 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATATATATATATATATATAT
Found at i:1899246 original size:19 final size:19
Alignment explanation
Indices: 1899222--1899266 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
1899212 CAATTTTCTT
1899222 TTTGAAGGTTTTCCATGTA
1 TTTGAAGGTTTTCCATGTA
1899241 TTTGAAGGTTTTCCATGTA
1 TTTGAAGGTTTTCCATGTA
1899260 TTTGAAG
1 TTTGAAG
1899267 TCTCTCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.47
Consensus pattern (19 bp):
TTTGAAGGTTTTCCATGTA
Found at i:1900749 original size:37 final size:37
Alignment explanation
Indices: 1900693--1900767 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
1900683 GTACATACAG
*
1900693 ATAGCTGAACCACACGATTTCAACTAACAAATATGTA
1 ATAGCTGAACCACAAGATTTCAACTAACAAATATGTA
* *
1900730 ATAGTTGAACCACAAGATTTCAACTTACAAATATGTA
1 ATAGCTGAACCACAAGATTTCAACTAACAAATATGTA
1900767 A
1 A
1900768 AAACTGAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.27
Consensus pattern (37 bp):
ATAGCTGAACCACAAGATTTCAACTAACAAATATGTA
Found at i:1903462 original size:31 final size:31
Alignment explanation
Indices: 1903427--1903515 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
1903417 GATTAAATTT
*
1903427 TAATTTGACCCCTAAATTTTAGATAAAATAC
1 TAATTTGACCCCTAAATTTTATATAAAATAC
* * *
1903458 TAATTTGA-TCTTAAATTTTATAAAAAATAC
1 TAATTTGACCCCTAAATTTTATATAAAATAC
* * *
1903488 TTATGTAACCCCTAAATTTTATATAAAA
1 TAATTTGACCCCTAAATTTTATATAAAA
1903516 ATATCAATTT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
30 23 0.49
31 24 0.51
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.39
Consensus pattern (31 bp):
TAATTTGACCCCTAAATTTTATATAAAATAC
Found at i:1903913 original size:23 final size:23
Alignment explanation
Indices: 1903863--1903915 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
1903853 TGATATACCC
* *
1903863 TTTTTTATTAATATATTTTATAT
1 TTTTTTATTAATATATCTCATAT
1903886 TTTTTTATTAATATA-CTCATAT
1 TTTTTTATTAATATATCTCATAT
*
1903908 TCTTTTAT
1 TTTTTTAT
1903916 CAACTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTTTATTAATATATCTCATAT
Found at i:1903981 original size:27 final size:26
Alignment explanation
Indices: 1903951--1904001 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
1903941 TTATTACTTA
*
1903951 TAACTAGA-AAAAATTGATATGAAATAT
1 TAACTAAATAAAAATT-ATAT-AAATAT
1903978 TAACTAAATAAAAATTATATAAAT
1 TAACTAAATAAAAATTATATAAAT
1904002 TTCTAGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 4 0.18
27 11 0.50
28 7 0.32
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
TAACTAAATAAAAATTATATAAATAT
Found at i:1907672 original size:14 final size:14
Alignment explanation
Indices: 1907653--1907682 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1907643 TATACTTATC
*
1907653 AATAATGTATTTTT
1 AATAATGTAATTTT
1907667 AATAATGTAATTTT
1 AATAATGTAATTTT
1907681 AA
1 AA
1907683 AAAATTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:1907990 original size:35 final size:35
Alignment explanation
Indices: 1907944--1908015 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
1907934 CGACCTGTCG
1907944 ATACCCTGAACGAATTTTTTAAACATTTATTATTA
1 ATACCCTGAACGAATTTTTTAAACATTTATTATTA
1907979 ATACCCTGAACGAATTTTTTAAACATTTATTATTA
1 ATACCCTGAACGAATTTTTTAAACATTTATTATTA
1908014 AT
1 AT
1908016 TTTGGATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.43
Consensus pattern (35 bp):
ATACCCTGAACGAATTTTTTAAACATTTATTATTA
Found at i:1916782 original size:20 final size:20
Alignment explanation
Indices: 1916757--1916801 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1916747 TATCTGGAAA
*
1916757 AAAAATCCGGTATGGGGTTT
1 AAAAATCCGGTATGGGATTT
*
1916777 AAAAATCCGGTCTGGGATTT
1 AAAAATCCGGTATGGGATTT
1916797 AAAAA
1 AAAAA
1916802 ATTGAATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (20 bp):
AAAAATCCGGTATGGGATTT
Found at i:1930202 original size:15 final size:16
Alignment explanation
Indices: 1930182--1930213 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1930172 ATTATGTCAT
1930182 CGACATAA-ACTAACA
1 CGACATAATACTAACA
1930197 CGACATAATACTAACA
1 CGACATAATACTAACA
1930213 C
1 C
1930214 ATACATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.16
Consensus pattern (16 bp):
CGACATAATACTAACA
Found at i:1952236 original size:182 final size:182
Alignment explanation
Indices: 1950532--1952760 Score: 3501
Period size: 182 Copynumber: 12.5 Consensus size: 182
1950522 TTTTACCTTT
* * *
1950532 TTTAAAAGAGAAGAAGTTATATCGTCAATAAAGTGTCGATAATTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
1950597 AACAAAATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAT
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
1950662 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
1950714 TTTAAAAGAGAAG-AGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
1950778 AAC-A-ATAACATGTAAAAATATGAC-AAACCGGTCTCAAAATGAC-AAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
1950839 CGGTTATGTTGAAAGTGTCGATAA-TTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
1950888 -TTAATA-AGAAGAAGTTATAGCGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
1950951 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGAAAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* * *
1951016 CGGTTATGTTGAAAGTGTCGATAATTTATTATCAGTTTCGACACTTTTAGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
1951068 TTTAAAAGAG-AGAAGTTATAGCGCCAATAAAGTGTCGATATTTTTATAAAAATGTATCGATCCA
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATA-CTTTATAAAAATGTATCGATCCA
*
1951132 TAACAATAT-ACAGGT-AAAA-ATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
*
1951194 CCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
1951247 -TTAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
1951311 AACAATATAACAGGT-AAAATATGACAAAATC--TCTC-----GACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
1951368 CGGTTATGTT-AAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
1951419 TTTAAAAAAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTGTAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * * *
1951483 AACAATATAATATGTAAAAATATGACAAAACTGGTATCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
1951548 C-GTTATGTTGAAAGTGTCGATAA--T-TTAT-A-TATCG--AC-TTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * *
1951591 -TTAATAAGAGAAGAAGTTATAGCGTCAATAACG-GTCGATACTTTATAAAAATGTATCAATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
*
1951654 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
*
1951719 CCGGTTATGTTGAAAGTGTCGATAATTTATTAT-AGTTTCGACAC-TTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
1951770 TTT-AAA-AG-AGAAGTTATAGCGCCAATAAAGTGTCGATACTTTAT-AAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * * *
1951831 AACAATATGACAGGTAATAATATGACAAAACCGGTCTCGTAATGACAAAACAGCTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
1951896 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTTTCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * *
1951948 TTT--AA-AG-AGAAGTTATAGCGCC-A-AAAGTGTCGATACTTTATAAAATTATCTCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
1952007 AACAATATGACAGGTAATAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
1952072 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTGTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
1952124 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * * * *
1952189 AACAATATAACAGGTAAAAATATGACAAAATCGGTATCGTAATGACAAAACAGCTAAAGCTCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
1952254 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTTTCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * *
1952306 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACCTTATAAAAATATCTCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
1952371 AACAATATGACAGGTAATAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
1952436 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTGTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
1952488 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * * *
1952553 AACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGTAATGACAAAACAGCTAAAGCTCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
1952618 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTTTCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
1952670 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
1952735 AACAATATGACAGGTAATAATATGAC
66 AACAATATAACAGGTAAAAATATGAC
1952761 CAATTTTAAT
Statistics
Matches: 1898, Mismatches: 105, Indels: 88
0.91 0.05 0.04
Matches are distributed among these distances:
171 4 0.00
172 213 0.11
173 154 0.08
174 11 0.01
175 47 0.02
176 294 0.15
177 136 0.07
178 90 0.05
179 168 0.09
180 78 0.04
181 92 0.05
182 611 0.32
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:1954425 original size:56 final size:57
Alignment explanation
Indices: 1954315--1954432 Score: 136
Period size: 56 Copynumber: 2.1 Consensus size: 57
1954305 GGGTAACCAT
* *
1954315 TTTGTAACTTTTAATAGTCGGGGACTCAAAAAAATGACATTCTATAGTCAAGGACTA
1 TTTGTAACTTTTAATAGTCGGGAACTCAAAAAAATGACATTCTATAGTCAAGGACAA
* * *
1954372 TTTGTAAC-TTTAATAGTCGAGGAACT-TAATAAA-G-CAGTTCTATGGTCAGAGGACAA
1 TTTGTAACTTTTAATAGTCG-GGAACTCAAAAAAATGACA-TTCTATAGTCA-AGGACAA
1954428 TTTGT
1 TTTGT
1954433 GTGATTTTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
54 2 0.04
55 11 0.21
56 27 0.51
57 13 0.25
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (57 bp):
TTTGTAACTTTTAATAGTCGGGAACTCAAAAAAATGACATTCTATAGTCAAGGACAA
Found at i:1956219 original size:19 final size:19
Alignment explanation
Indices: 1956168--1956219 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
1956158 CATACTAATT
*
1956168 TTTTTTTATAATTTTTCGGA
1 TTTTTTTAT-ATTTTTCGAA
1956188 TTTTTTGTA-ATTTTT-GTAA
1 TTTTTT-TATATTTTTCG-AA
1956207 TTTTTTTATATTT
1 TTTTTTTATATTT
1956220 GTAAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.11
19 17 0.61
20 6 0.21
21 2 0.07
ACGTcount: A:0.19, C:0.02, G:0.08, T:0.71
Consensus pattern (19 bp):
TTTTTTTATATTTTTCGAA
Found at i:1958092 original size:153 final size:153
Alignment explanation
Indices: 1957815--1958122 Score: 518
Period size: 153 Copynumber: 2.0 Consensus size: 153
1957805 AAGCAGAGGG
1957815 TGGTGCTAAGGTTGAAGCAATTCATTAGAAAGATTCTCCCCTCTTACTTCTTGATTTTTAAGGTT
1 TGGTGCTAAGGTT--AGCAATTCATTAGAAAGATTCTCCCCTCTTACTTCTTGATTTTTAAGGTT
1957880 GAAGCAATGTCCTTGTACTTTTATAAAAATTATCTCTTAACGTGACCCTTCAACTT-AAAAAAT-
64 GAAGCAATGTCCTTGTACTTTTATAAAAATTATCTCTTAACGTGACCCTTCAACTTAAAAAAATA
1957943 A-CTTAACTTGACCCTTTGATCAAC
129 AGCTTAACTTGACCCTTTGATCAAC
1957967 TGGTGCTAAGGTT-GCAATTCATTTAGAAAGAATTCT-CCCTCAATTACTTCTTGATTTTTAAGG
1 TGGTGCTAAGGTTAGCAATTCA-TTAGAAAG-ATTCTCCCCTC--TTACTTCTTGATTTTTAAGG
1958030 TTGAAGCAAATGTCCTTGTACTTTTATAAAAATTATCTCTTAACGTGACCCTTCAACTTAAAAAA
62 TTGAAGC-AATGTCCTTGTACTTTTATAAAAATTATCTCTTAACGTGACCCTTCAACTTAAAAAA
1958095 ATAAGCTTAACTTGACCCTTTGATCAAC
126 ATAAGCTTAACTTGACCCTTTGATCAAC
1958123 GTTTTTTATC
Statistics
Matches: 148, Mismatches: 0, Indels: 12
0.93 0.00 0.08
Matches are distributed among these distances:
149 8 0.05
150 13 0.09
151 5 0.03
152 40 0.27
153 51 0.34
154 7 0.05
155 1 0.01
156 23 0.16
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (153 bp):
TGGTGCTAAGGTTAGCAATTCATTAGAAAGATTCTCCCCTCTTACTTCTTGATTTTTAAGGTTGA
AGCAATGTCCTTGTACTTTTATAAAAATTATCTCTTAACGTGACCCTTCAACTTAAAAAAATAAG
CTTAACTTGACCCTTTGATCAAC
Found at i:1966927 original size:30 final size:29
Alignment explanation
Indices: 1966852--1966928 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 29
1966842 GAAATGAATA
* * *
1966852 AAAAAAAGAAAAAACGAGGGGAATACAAA-
1 AAAAAAA-AAAAAAGGAGAGAAATACAAAT
* *
1966881 AAAAAAAAGAACAGGAGAGAAATACAAAT
1 AAAAAAAAAAAAAGGAGAGAAATACAAAT
1966910 AAAAAAAACAAAAAGGAGA
1 AAAAAAAA-AAAAAGGAGA
1966929 TTGAAACCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 16 0.41
29 15 0.38
30 8 0.21
ACGTcount: A:0.71, C:0.06, G:0.18, T:0.04
Consensus pattern (29 bp):
AAAAAAAAAAAAAGGAGAGAAATACAAAT
Found at i:1968634 original size:23 final size:23
Alignment explanation
Indices: 1968608--1968679 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
1968598 AAATATTTTA
1968608 ATTTTTTATTAATATAATTGAAT
1 ATTTTTTATTAATATAATTGAAT
* * *
1968631 ATTTTTATATT-TTCTAA-TCAA-
1 ATTTTT-TATTAATATAATTGAAT
1968652 ATTTTTTATTAATATAATTGAAT
1 ATTTTTTATTAATATAATTGAAT
1968675 ATTTT
1 ATTTT
1968680 CTAATCAGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.10
21 10 0.26
22 6 0.15
23 15 0.38
24 4 0.10
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (23 bp):
ATTTTTTATTAATATAATTGAAT
Found at i:1968844 original size:22 final size:23
Alignment explanation
Indices: 1968801--1968862 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
1968791 TACTCTTTTT
* *
1968801 AAATTTTCATATA-AT-TTATTA
1 AAATTTTAATATATATATTGTTA
1968822 ATAA-TTTAATAT-TATATTGTTA
1 A-AATTTTAATATATATATTGTTA
1968844 AAATTTTAATATATATATT
1 AAATTTTAATATATATATT
1968863 TTTTATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 12 0.35
22 16 0.47
23 6 0.18
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
AAATTTTAATATATATATTGTTA
Found at i:1975977 original size:2 final size:2
Alignment explanation
Indices: 1975970--1975999 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1975960 ACATACATAC
1975970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1976000 GTAAGAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1976667 original size:30 final size:31
Alignment explanation
Indices: 1976627--1976708 Score: 123
Period size: 30 Copynumber: 2.7 Consensus size: 31
1976617 TAGAAAATAA
1976627 TTTACGTAAAATGAATTA-ACTGAAAATT-GT
1 TTTACGTAAAATGAATTATA-TGAAAATTAGT
* *
1976657 TTTACATAAAATGAATTATATGAAAATTATT
1 TTTACGTAAAATGAATTATATGAAAATTAGT
1976688 TTTACGTAAAATGAATTATAT
1 TTTACGTAAAATGAATTATAT
1976709 TTTTTGGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
30 25 0.53
31 22 0.47
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (31 bp):
TTTACGTAAAATGAATTATATGAAAATTAGT
Found at i:1980441 original size:27 final size:27
Alignment explanation
Indices: 1980411--1980464 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1980401 CACATTTACA
1980411 TATACAACAAGCAAGCGTTTTATCAGG
1 TATACAACAAGCAAGCGTTTTATCAGG
1980438 TATACAACAAGCAAGCGTTTTATCAGG
1 TATACAACAAGCAAGCGTTTTATCAGG
1980465 AAAAGAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
TATACAACAAGCAAGCGTTTTATCAGG
Found at i:1984621 original size:29 final size:29
Alignment explanation
Indices: 1984560--1984621 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
1984550 TCTGTTTTCG
* * * **
1984560 CCCCTTAAAATTTTATAAGTTCAAATTTG
1 CCCCCTAAAATTTTAAAAATTCAAATTCA
*
1984589 CCCCCTAAAATTTTAAAAATTCAAGTTCA
1 CCCCCTAAAATTTTAAAAATTCAAATTCA
1984618 CCCC
1 CCCC
1984622 TTAATATAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (29 bp):
CCCCCTAAAATTTTAAAAATTCAAATTCA
Found at i:1985232 original size:2 final size:2
Alignment explanation
Indices: 1985225--1985249 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1985215 CTATTTCGAC
1985225 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
1985250 GTCGAGCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1987190 original size:6 final size:6
Alignment explanation
Indices: 1987179--1987210 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
1987169 GCAGCTATTG
1987179 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CA
1 CAGCAA CAGCAA CAGCAA CAGCAA CAGCAA CA
1987211 TGCTATGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.34, G:0.16, T:0.00
Consensus pattern (6 bp):
CAGCAA
Found at i:1994764 original size:72 final size:72
Alignment explanation
Indices: 1994646--1994794 Score: 226
Period size: 72 Copynumber: 2.1 Consensus size: 72
1994636 TCTTAAGACC
* * * *
1994646 CCTAAAAATTCATGTTCAGGGACTTATTTGGGAAGTGTTTCCAAGTTCGAGGACTCAACATCATA
1 CCTAAAAATTCATGTTCAGGGACCTATTTGAGAAGTGGTTCCAAGTTCAAGGACTCAACATCATA
*
1994711 AAACAAA
66 AAAAAAA
* * *
1994718 TCTAAAAATTCATGTTCATGGACCTATTTGAGAGGTGGTTCCAAGTTCAAGGACTCAACATCATA
1 CCTAAAAATTCATGTTCAGGGACCTATTTGAGAAGTGGTTCCAAGTTCAAGGACTCAACATCATA
1994783 AAAAAAA
66 AAAAAAA
1994790 CCTAA
1 CCTAA
1994795 TATTTAGTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (72 bp):
CCTAAAAATTCATGTTCAGGGACCTATTTGAGAAGTGGTTCCAAGTTCAAGGACTCAACATCATA
AAAAAAA
Found at i:1996750 original size:30 final size:30
Alignment explanation
Indices: 1996714--1996841 Score: 195
Period size: 30 Copynumber: 4.3 Consensus size: 30
1996704 CAAACCAGGA
1996714 TTCAGCCGGATTCTGAAAAACGAAACTGGT
1 TTCAGCCGGATTCTGAAAAACGAAACTGGT
* **
1996744 TTCAGCCAGATTCT-AAAAAAAAGAACTGGT
1 TTCAGCCGGATTCTGAAAAACGA-AACTGGT
1996774 TTCAGCCGGATTCTGAAAAACGAAACTGGT
1 TTCAGCCGGATTCTGAAAAACGAAACTGGT
**
1996804 TTCAGCCAAATTCTGAAAAACGAAACTGGT
1 TTCAGCCGGATTCTGAAAAACGAAACTGGT
1996834 TTCAGCCG
1 TTCAGCCG
1996842 AAATCTCAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
29 6 0.07
30 75 0.86
31 6 0.07
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (30 bp):
TTCAGCCGGATTCTGAAAAACGAAACTGGT
Found at i:2000709 original size:18 final size:18
Alignment explanation
Indices: 2000686--2000721 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
2000676 ATACCTAATC
2000686 ATATGAATCAA-CACACCT
1 ATATGAAT-AATCACACCT
2000704 ATATGAATAATCACACCT
1 ATATGAATAATCACACCT
2000722 CTTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 15 0.88
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (18 bp):
ATATGAATAATCACACCT
Found at i:2001545 original size:26 final size:26
Alignment explanation
Indices: 2001496--2001545 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
2001486 TTTACTCTTC
*
2001496 AAATTCAAGCACCTTCATATATTTAT
1 AAATTCAAGCACCTTCATAGATTTAT
2001522 AAATTCAAGCACCTTTCA-AGATTT
1 AAATTCAAGCACC-TTCATAGATTT
2001546 TCGAGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (26 bp):
AAATTCAAGCACCTTCATAGATTTAT
Found at i:2002831 original size:2 final size:2
Alignment explanation
Indices: 2002824--2002852 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2002814 CCTAAACTAA
2002824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2002853 GTTTGAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2006057 original size:16 final size:18
Alignment explanation
Indices: 2006028--2006060 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2006018 TTATCTATTT
2006028 TTTTTTGAAGTATTTTAG
1 TTTTTTGAAGTATTTTAG
2006046 TTTTTT-AA-TATTTTA
1 TTTTTTGAAGTATTTTA
2006061 TTTAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (18 bp):
TTTTTTGAAGTATTTTAG
Found at i:2006162 original size:12 final size:12
Alignment explanation
Indices: 2006139--2006173 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
2006129 TGTCACATCA
*
2006139 TAAAAATATTTT
1 TAAATATATTTT
2006151 TAAAT-TATTTT
1 TAAATATATTTT
2006162 TAAATATATTTT
1 TAAATATATTTT
2006174 GTTAAGTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TAAATATATTTT
Found at i:2007036 original size:19 final size:19
Alignment explanation
Indices: 2007012--2007050 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2007002 TCGAATGCAT
*
2007012 TCCATGCACCGATGCACTC
1 TCCATGCACCGACGCACTC
*
2007031 TCCATGCATCGACGCACTC
1 TCCATGCACCGACGCACTC
2007050 T
1 T
2007051 GATTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.41, G:0.15, T:0.23
Consensus pattern (19 bp):
TCCATGCACCGACGCACTC
Found at i:2007074 original size:64 final size:64
Alignment explanation
Indices: 2006992--2007159 Score: 191
Period size: 64 Copynumber: 2.6 Consensus size: 64
2006982 TCAATGAATA
* * *
2006992 AATTGAAACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGACGCACTC-TG-ATT
1 AATTAAAACATCGAATGCATT-CATGCATCGATGCACTCTCCATGCATCGACGCAC-CAGGCATT
2007055 T
64 T
* ** *
2007056 AATTAAAACATCGAATGCATTTGATGCATCGATGCACAATCCATGCATCGATGCACCAGGCTATT
1 AATTAAAACATCGAATGCA-TTCATGCATCGATGCACTCTCCATGCATCGACGCACCAGGC-ATT
2007121 T
64 T
*
2007122 --TTCAAACATCGAATGCACTTCATGCATCGATGCACTCT
1 AATTAAAACATCGAATGCA-TTCATGCATCGATGCACTCT
2007160 TAGTGCACCG
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
63 1 0.01
64 81 0.92
65 2 0.02
66 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (64 bp):
AATTAAAACATCGAATGCATTCATGCATCGATGCACTCTCCATGCATCGACGCACCAGGCATTT
Found at i:2007156 original size:17 final size:19
Alignment explanation
Indices: 2007128--2007176 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
2007118 ATTTTTCAAA
2007128 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
2007146 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
2007165 CACCGATGCACT
1 CATCGATGCACT
2007177 AGGAATCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:2016240 original size:19 final size:19
Alignment explanation
Indices: 2016197--2016249 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
2016187 AAATGATCAA
* * *
2016197 CAAATTCGCAACGCGATCT
1 CAAATTCACAACACGAACT
2016216 CAAATTCACAACACGAACT
1 CAAATTCACAACACGAACT
*
2016235 CCAATTTCACAACAC
1 -CAAATTCACAACAC
2016250 AGTTTCCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.40, C:0.34, G:0.08, T:0.19
Consensus pattern (19 bp):
CAAATTCACAACACGAACT
Found at i:2016286 original size:20 final size:20
Alignment explanation
Indices: 2016261--2016299 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2016251 GTTTCCAAAT
*
2016261 TCGCAATGCAAATATGTAAA
1 TCGCAACGCAAATATGTAAA
*
2016281 TCGCAACGCAAATTTGTAA
1 TCGCAACGCAAATATGTAA
2016300 TTCGTAACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (20 bp):
TCGCAACGCAAATATGTAAA
Found at i:2016384 original size:20 final size:19
Alignment explanation
Indices: 2016359--2016406 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
2016349 CTGAATTTCA
*
2016359 AATTCGCAACTCGATTTTT
1 AATTCGCAACTCGAATTTT
2016378 GAATTCGCAACTCGAATTTT
1 -AATTCGCAACTCGAATTTT
2016398 AATTTCGCA
1 AA-TTCGCA
2016407 GCAGGTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (19 bp):
AATTCGCAACTCGAATTTT
Found at i:2017370 original size:24 final size:24
Alignment explanation
Indices: 2017343--2017425 Score: 148
Period size: 24 Copynumber: 3.5 Consensus size: 24
2017333 GTATTCGAAA
*
2017343 TTTGATCTTGGTCAATACCTGGAC
1 TTTGATCTTGGTCAATACCCGGAC
2017367 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
*
2017391 TTTGATCTTGGTCAATACCCGAAC
1 TTTGATCTTGGTCAATACCCGGAC
2017415 TTTGATCTTGG
1 TTTGATCTTGG
2017426 ACAGACCCTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:2021487 original size:21 final size:20
Alignment explanation
Indices: 2021461--2021536 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 20
2021451 GTGAATCGGG
*
2021461 CTCTTGAACAATGGGAGGGAC
1 CTCTTGAACGATGGGAGGG-C
**
2021482 CTCTTGAACGATGACATGGGC
1 CTCTTGAACGATGGGA-GGGC
* *
2021503 CTCTTGAATGGTGGGAGGGGC
1 CTCTTGAACGATGGGA-GGGC
2021524 CTCTTGAACGATG
1 CTCTTGAACGATG
2021537 ACTGGTAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
21 41 0.93
22 3 0.07
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (20 bp):
CTCTTGAACGATGGGAGGGC
Found at i:2021713 original size:4 final size:4
Alignment explanation
Indices: 2021681--2021734 Score: 72
Period size: 4 Copynumber: 13.5 Consensus size: 4
2021671 AGGCCGCTAA
* * * *
2021681 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
2021729 AAAT AA
1 AAAT AA
2021735 TTCCGAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:2023559 original size:20 final size:20
Alignment explanation
Indices: 2023534--2023572 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2023524 TCGCGTTGCG
2023534 ATTTTTGTGTTGCGAATTTT
1 ATTTTTGTGTTGCGAATTTT
2023554 ATTTTTGTGTTGCGAATTT
1 ATTTTTGTGTTGCGAATTT
2023573 AAGTTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.21, T:0.59
Consensus pattern (20 bp):
ATTTTTGTGTTGCGAATTTT
Found at i:2023937 original size:22 final size:22
Alignment explanation
Indices: 2023907--2023964 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
2023897 GATGGAGATA
*
2023907 GACGAATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
2023929 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
2023951 GACAGATGTCGCCG
1 GACGGATTTCGCCG
2023965 TAGAGAGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.22, C:0.21, G:0.40, T:0.17
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2024090 original size:19 final size:20
Alignment explanation
Indices: 2024068--2024105 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2024058 AATATTGTGT
2024068 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
*
2024087 TTCGCATTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
2024106 TGCGCTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:2024115 original size:19 final size:20
Alignment explanation
Indices: 2024076--2024115 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2024066 GTTTCGAATT
*
2024076 CGAAAATAAAATTCGCATTG
1 CGAAAATAAAATGCGCATTG
*
2024096 CGAAAAT-AAATGCGCTTTG
1 CGAAAATAAAATGCGCATTG
2024115 C
1 C
2024116 AAATTTGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (20 bp):
CGAAAATAAAATGCGCATTG
Found at i:2024140 original size:20 final size:20
Alignment explanation
Indices: 2024112--2024181 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
2024102 TAAATGCGCT
***
2024112 TTGCAAATTTGACTTCTGTG
1 TTGCAAATTTGAAAACTGTG
*
2024132 TTGCTAATTTGAAAACTGTG
1 TTGCAAATTTGAAAACTGTG
* *
2024152 TTGCGAATTTGGAAACTGTG
1 TTGCAAATTTGAAAACTGTG
2024172 TTGCGAAATT
1 TTGC-AAATT
2024182 GGAGTTCGCG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 38 0.90
21 4 0.10
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (20 bp):
TTGCAAATTTGAAAACTGTG
Found at i:2024183 original size:20 final size:20
Alignment explanation
Indices: 2024127--2024184 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
2024117 AATTTGACTT
* *
2024127 CTGTGTTGCTAATTTGAAAA
1 CTGTGTTGCGAATTTGGAAA
2024147 CTGTGTTGCGAATTTGGAAA
1 CTGTGTTGCGAATTTGGAAA
*
2024167 CTGTGTTGCGAAATTGGA
1 CTGTGTTGCGAATTTGGA
2024185 GTTCGCGTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (20 bp):
CTGTGTTGCGAATTTGGAAA
Found at i:2024960 original size:2 final size:2
Alignment explanation
Indices: 2024953--2024977 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2024943 TGACTTTGTA
2024953 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2024978 ATGTCATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2027387 original size:17 final size:18
Alignment explanation
Indices: 2027355--2027388 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2027345 CCCTGCTTGA
*
2027355 TTAAATATTTAATATTTT
1 TTAAATATTAAATATTTT
2027373 TTAAAT-TTAAATATTT
1 TTAAATATTAAATATTT
2027389 ATTTTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATATTAAATATTTT
Found at i:2028179 original size:31 final size:31
Alignment explanation
Indices: 2028144--2028219 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
2028134 TTAAAAAAAC
*
2028144 ATAAGATGTGATCACTCTCGTTTTTATTTAA
1 ATAAGATGTGATCACTCTCATTTTTATTTAA
* * * *
2028175 ATAAGATATGGTCACTTTTATTTTTATTTAA
1 ATAAGATGTGATCACTCTCATTTTTATTTAA
* *
2028206 TTAAGACGTGATCA
1 ATAAGATGTGATCA
2028220 TCACAGGTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (31 bp):
ATAAGATGTGATCACTCTCATTTTTATTTAA
Found at i:2029408 original size:18 final size:18
Alignment explanation
Indices: 2029351--2029412 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
2029341 CTTGGGATTA
2029351 TCTTTAGGTATTTTATTT
1 TCTTTAGGTATTTTATTT
* * * *
2029369 T-TATAGGTCTTTTAATC
1 TCTTTAGGTATTTTATTT
* *
2029386 CCTTTAGCTATTTTATTT
1 TCTTTAGGTATTTTATTT
2029404 TCTTTAGGT
1 TCTTTAGGT
2029413 TTTCTAAGTT
Statistics
Matches: 31, Mismatches: 12, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.60
Consensus pattern (18 bp):
TCTTTAGGTATTTTATTT
Found at i:2029877 original size:21 final size:21
Alignment explanation
Indices: 2029826--2029878 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
2029816 ATTATGACTA
2029826 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
2029847 TCGCGTTGCGATTTTCCCAATT
1 TCGCAATGCGATTTT-CCAATT
2029869 T-GCAATGCGA
1 TCGCAATGCGA
2029879 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:2029895 original size:20 final size:20
Alignment explanation
Indices: 2029870--2030002 Score: 151
Period size: 20 Copynumber: 6.5 Consensus size: 20
2029860 TTCCCAATTT
2029870 GCAATGCGAATAAGTAAATC
1 GCAATGCGAATAAGTAAATC
* * *
2029890 GCAATGTGATACTCA-TAATTC
1 GCAATGCGA-A-TAAGTAAATC
*
2029911 GCAATGCGAATACGTAAATC
1 GCAATGCGAATAAGTAAATC
* *
2029931 GCAACGCGATTAAGTAAATC
1 GCAATGCGAATAAGTAAATC
* *
2029951 GCAATGCGAATTAGGAAAATC
1 GCAATGCGAA-TAAGTAAATC
*
2029972 GCAATGCGAATACGTAAATC
1 GCAATGCGAATAAGTAAATC
2029992 GCAATGCGAAT
1 GCAATGCGAAT
2030003 CTTACTATAG
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.01
20 58 0.62
21 32 0.34
22 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (20 bp):
GCAATGCGAATAAGTAAATC
Found at i:2029919 original size:41 final size:40
Alignment explanation
Indices: 2029865--2030002 Score: 131
Period size: 41 Copynumber: 3.4 Consensus size: 40
2029855 CGATTTTCCC
* *
2029865 AATTTGCAATGCGAATAAGTAAATCGCAATGTGATACTCAT
1 AATTCGCAATGCGAATAAGTAAATCGCAATGCGATACT-AT
* *
2029906 AATTCGCAATGCGAATACGTAAATCGCAACGCGAT--TAAGT
1 AATTCGCAATGCGAATAAGTAAATCGCAATGCGATACT-A-T
* * *
2029946 AAATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACGTA-
1 AATTCGCAATGCGAA-TAAGTAAATCGCAATGCG-ATAC-TAT
2029988 AA-TCGCAATGCGAAT
1 AATTCGCAATGCGAAT
2030003 CTTACTATAG
Statistics
Matches: 82, Mismatches: 9, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
39 2 0.02
40 16 0.20
41 58 0.71
42 4 0.05
44 1 0.01
45 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (40 bp):
AATTCGCAATGCGAATAAGTAAATCGCAATGCGATACTAT
Found at i:2030618 original size:19 final size:19
Alignment explanation
Indices: 2030579--2030623 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
2030569 GCAACGAGAT
**
2030579 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
*
2030598 AATCTCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
2030617 AATCGCA
1 AATCGCA
2030624 TTGCGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.47, C:0.27, G:0.16, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:2030641 original size:19 final size:19
Alignment explanation
Indices: 2030619--2030778 Score: 98
Period size: 19 Copynumber: 9.1 Consensus size: 19
2030609 GAAACCAAAA
*
2030619 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2030638 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2030652 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2030671 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
2030685 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
2030704 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
2030718 TCTCGTTGCAATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
2030737 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
2030757 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2030777 TC
1 TC
2030779 AACTAAAAGA
Statistics
Matches: 108, Mismatches: 16, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
14 29 0.27
16 7 0.06
17 8 0.07
19 33 0.31
20 30 0.28
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2030660 original size:14 final size:14
Alignment explanation
Indices: 2030641--2030726 Score: 64
Period size: 14 Copynumber: 5.4 Consensus size: 14
2030631 TTTCATTTCG
2030641 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2030655 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2030674 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2030688 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
2030707 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2030721 CGTTGC
1 CGTTGC
2030727 AATAGTCATT
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 27 0.47
16 5 0.09
17 5 0.09
19 21 0.36
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2030666 original size:33 final size:33
Alignment explanation
Indices: 2030624--2030753 Score: 206
Period size: 33 Copynumber: 3.9 Consensus size: 33
2030614 CAAAATCGCA
**
2030624 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
**
2030657 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
2030690 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
*
2030723 TTGCAATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTT-CGCGTTGCGATTCTC
2030754 ATTATCTCGT
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
33 78 0.84
34 15 0.16
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.42
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:2032947 original size:21 final size:21
Alignment explanation
Indices: 2032923--2032989 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2032913 TCATTCCTCG
2032923 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
2032944 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
2032965 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
2032986 AGAG
1 AGAG
2032990 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2032947 original size:42 final size:42
Alignment explanation
Indices: 2032871--2032989 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
2032861 GACTCGCCTG
* * * * * * *
2032871 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
2032913 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
2032955 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
2032990 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:2034361 original size:14 final size:14
Alignment explanation
Indices: 2034342--2034377 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2034332 ATTGTTTAAT
2034342 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
2034356 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
2034370 TGATTTGT
1 TGATTTGT
2034378 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:2034508 original size:19 final size:19
Alignment explanation
Indices: 2034484--2034542 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
2034474 AAAAAGTACT
2034484 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2034503 ATCGCAAT--G--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
2034517 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2034536 ATCGCAA
1 ATCGCAA
2034543 CGACAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 10 0.31
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 18 0.56
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2034529 original size:33 final size:33
Alignment explanation
Indices: 2034484--2034563 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
2034474 AAAAAGTACT
* * * *
2034484 ATCGCAATGCGAAATGAAAATCGCAATGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2034517 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2034550 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
2034564 CTAAATTCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:2034591 original size:19 final size:19
Alignment explanation
Indices: 2034569--2034719 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
2034559 CGAAACTAAA
2034569 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
2034588 TTCGCATTGCGA--TTC-C
1 TTCGCGTTGCGATTTTCAT
2034604 TT--CGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
2034621 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
2034635 TTCACGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
**
2034654 TTCGTATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
2034669 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
2034687 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
2034706 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
2034720 AGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 26 0.27
16 8 0.08
17 8 0.08
19 43 0.45
20 10 0.11
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:2034615 original size:33 final size:32
Alignment explanation
Indices: 2034573--2034699 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
2034563 ACTAAATTCG
2034573 CGTTGCGATTTTCATTTCGCATTGCGATTCCTT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CTT
*
2034606 CGTTGCGATTTTCATTTCGCATTGCGAAATTC-A
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCTT
*
2034639 CGTTGCGATTTTCATTTCGTATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCT-T
2034672 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
2034700 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 4 0.05
33 78 0.91
34 1 0.01
35 3 0.03
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTT
Found at i:2034648 original size:66 final size:66
Alignment explanation
Indices: 2034566--2034698 Score: 232
Period size: 66 Copynumber: 2.0 Consensus size: 66
2034556 ACGCGAAACT
*
2034566 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTC-CTTCGTTGCGATTTTCATTTCGCATTG
1 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTG
2034630 CG
65 CG
*
2034632 AAATTCACGTTGCGATTTTCATTTCGTATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
2034697 G
66 G
2034698 A
1 A
2034699 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 63 0.98
67 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.43
Consensus pattern (66 bp):
AAATTCACGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:2036185 original size:20 final size:19
Alignment explanation
Indices: 2036160--2036227 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
2036150 CAAGGGGGAA
2036160 ATCGCAACGCAAAAATGGCT
1 ATCGCAACGC-AAAATGGCT
** * ***
2036180 ATCGCAATACGAAATGAAAA
1 ATCGCAACGCAAAATG-GCT
2036200 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGC-AAAATGGCT
2036220 ATCGCAAC
1 ATCGCAAC
2036228 TAGAAAATCG
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
19 5 0.15
20 24 0.71
21 5 0.15
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCAAAATGGCT
Found at i:2036240 original size:34 final size:34
Alignment explanation
Indices: 2036158--2036281 Score: 149
Period size: 34 Copynumber: 3.5 Consensus size: 34
2036148 CGCAAGGGGG
* *
2036158 AAATCGCAACGCAAAAATGGCTATCGCAATACGAAATGAA
1 AAATCGCAACGCGAAAATGGCTATCGC-A-AC--TA-G-A
2036198 AAATCGCAACGCGAAAATGGCTATCGCAACTAGA
1 AAATCGCAACGCGAAAATGGCTATCGCAACTAGA
* *
2036232 AAATCGCAATGCGAAATTGGCTATCGCAACTAGA
1 AAATCGCAACGCGAAAATGGCTATCGCAACTAGA
*
2036266 AAATCGCAATGCGAAA
1 AAATCGCAACGCGAAA
2036282 TGAAAATCGC
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
34 49 0.61
35 1 0.01
36 1 0.01
38 2 0.03
39 1 0.01
40 26 0.32
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (34 bp):
AAATCGCAACGCGAAAATGGCTATCGCAACTAGA
Found at i:2036282 original size:34 final size:34
Alignment explanation
Indices: 2036197--2036282 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 34
2036187 TACGAAATGA
* *
2036197 AAAATCGCAACGCGAAAATGGCTATCGCAACTAG
1 AAAATCGCAATGCGAAATTGGCTATCGCAACTAG
2036231 AAAATCGCAATGCGAAATTGGCTATCGCAACTAG
1 AAAATCGCAATGCGAAATTGGCTATCGCAACTAG
2036265 AAAATCGCAATGCGAAAT
1 AAAATCGCAATGCGAAAT
2036283 GAAAATCGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (34 bp):
AAAATCGCAATGCGAAATTGGCTATCGCAACTAG
Found at i:2036312 original size:14 final size:14
Alignment explanation
Indices: 2036293--2036346 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
2036283 GAAAATCGCA
2036293 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
2036307 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
2036324 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
2036340 TTGCGAT
1 TTGCGAT
2036347 AGTCAGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:2036312 original size:33 final size:33
Alignment explanation
Indices: 2036275--2036345 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
2036265 AAAATCGCAA
2036275 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
2036308 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
2036341 TGCGA
1 TGCGA
2036346 TAGTCAGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:2036484 original size:14 final size:14
Alignment explanation
Indices: 2036465--2036501 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2036455 CATCAATTAA
2036465 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
2036479 ACAAATCATCTTTT
1 ACAAATCAACATTT
2036493 ACAAATCAA
1 ACAAATCAA
2036502 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:2038323 original size:20 final size:20
Alignment explanation
Indices: 2038300--2038367 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
2038290 GAAACTTAAA
2038300 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
2038320 ATCGTAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACT
* **
2038340 ATCGCAATGCG-AAATGAAA
1 ATCGCAACGCGAAAATGACT
2038359 ATCGCAACG
1 ATCGCAACG
2038368 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:2038375 original size:14 final size:14
Alignment explanation
Indices: 2038356--2038414 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
2038346 ATGCGAAATG
2038356 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2038370 AAAATCGCAACGCGAAATG
1 AAAATCGCAA--CG--A-C
2038389 AAAATCGCAACGAC
1 AAAATCGCAACGAC
2038403 AAAATCGCAACG
1 AAAATCGCAACG
2038415 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.25, G:0.17, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2038428 original size:19 final size:18
Alignment explanation
Indices: 2038340--2038430 Score: 72
Period size: 19 Copynumber: 5.3 Consensus size: 18
2038330 GAAAATGGCT
* *
2038340 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAA-CAAA
2038359 ATCGCAA--CG--ACAAA
1 ATCGCAACGCGAAACAAA
*
2038373 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAA-CAAA
2038392 ATCGCAA--CG--ACAAA
1 ATCGCAACGCGAAACAAA
2038406 ATCGCAACGCGAAACACAA
1 ATCGCAACGCGAAACA-AA
2038425 ATCGCA
1 ATCGCA
2038431 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 20 0.34
15 2 0.03
16 4 0.07
17 4 0.07
18 4 0.07
19 25 0.42
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.10
Consensus pattern (18 bp):
ATCGCAACGCGAAACAAA
Found at i:2038430 original size:33 final size:33
Alignment explanation
Indices: 2038340--2038419 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
2038330 GAAAATGGCT
*
2038340 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2038373 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2038406 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
2038420 CACAAATCGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:2038448 original size:19 final size:17
Alignment explanation
Indices: 2038426--2038545 Score: 78
Period size: 19 Copynumber: 7.1 Consensus size: 17
2038416 GAAACACAAA
2038426 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTT-ATT
*
2038445 TCGCGTTGCGA-TTT-TG
1 TCGC-TTGCGATTTTATT
2038461 TCG-TTGCGATTTTTATT
1 TCGCTTGCGA-TTTTATT
*
2038478 TCGCGTTGCGA-TTT-TG
1 TCGC-TTGCGATTTTATT
2038494 TCG-TTGCGATTTTTATT
1 TCGCTTGCGA-TTTTATT
*
2038511 TCGCATTGCGA-TTT-TG
1 TCGC-TTGCGATTTTATT
2038527 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTT-ATT
2038544 TC
1 TC
2038546 TCATTCCGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 28
0.70 0.06 0.24
Matches are distributed among these distances:
14 18 0.22
15 3 0.04
16 18 0.22
17 17 0.21
18 3 0.04
19 22 0.27
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.50
Consensus pattern (17 bp):
TCGCTTGCGATTTTATT
Found at i:2038467 original size:14 final size:14
Alignment explanation
Indices: 2038448--2038539 Score: 76
Period size: 14 Copynumber: 5.9 Consensus size: 14
2038438 TTTCATTTCG
2038448 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2038462 CGTTGCGATTTTTATTT
1 CGTTGCGA--TTT-TGT
2038479 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
2038495 CGTTGCGATTTTTATTT
1 CGTTGCGA--TTT-TGT
2038512 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
2038528 CGTTGCGATTTT
1 CGTTGCGATTTT
2038540 CATTTCTCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
14 26 0.41
16 12 0.19
17 12 0.19
19 14 0.22
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2038473 original size:33 final size:33
Alignment explanation
Indices: 2038431--2038545 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
2038421 ACAAATCGCA
2038431 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
2038464 TTGCGATTTTTATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
* *
2038497 TTGCGATTTTTATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
2038530 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2038546 TCATTCCGAT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.51
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:2038577 original size:20 final size:20
Alignment explanation
Indices: 2038552--2038594 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2038542 TTTCTCATTC
2038552 CGATAGCCATTTCCGCGTTG
1 CGATAGCCATTTCCGCGTTG
* * *
2038572 CGATAGTCATTTTCGTGTTG
1 CGATAGCCATTTCCGCGTTG
2038592 CGA
1 CGA
2038595 AAGTAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (20 bp):
CGATAGCCATTTCCGCGTTG
Found at i:2038680 original size:18 final size:19
Alignment explanation
Indices: 2038648--2038685 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
2038638 GCATTACTTC
2038648 AACCAAAAGACAAAAACAA
1 AACCAAAAGACAAAAACAA
2038667 AACCAAAA-ACAAAAACAA
1 AACCAAAAGACAAAAACAA
2038685 A
1 A
2038686 TACTAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.76, C:0.21, G:0.03, T:0.00
Consensus pattern (19 bp):
AACCAAAAGACAAAAACAA
Found at i:2038699 original size:6 final size:6
Alignment explanation
Indices: 2038651--2038685 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
2038641 TTACTTCAAC
*
2038651 CAAAAGA CAAAAA CAAAAC CAAAAA CAAAAA CAAA
1 CAAAA-A CAAAAA CAAAAA CAAAAA CAAAAA CAAA
2038686 TACTAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.77, C:0.20, G:0.03, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:2039170 original size:18 final size:18
Alignment explanation
Indices: 2039144--2039188 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2039134 GTCGATCAGA
*
2039144 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
2039162 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
2039180 TGATGGCTC
1 TGATGGCTC
2039189 CCGAAGTGGA
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:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:2040555 original size:20 final size:20
Alignment explanation
Indices: 2040507--2040565 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2040497 AATAGTTTCT
** *
2040507 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
2040527 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
2040547 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
2040566 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:2040855 original size:22 final size:22
Alignment explanation
Indices: 2040828--2040871 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2040818 GATGGAGATA
*
2040828 GACGGATTTTGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
2040850 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
2040872 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2041085 original size:20 final size:20
Alignment explanation
Indices: 2041060--2041111 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
2041050 ATTATGTATT
2041060 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
2041080 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
2041100 ATCTCGTTGCGA
1 ATCGCGTTGCGA
2041112 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:2041145 original size:20 final size:20
Alignment explanation
Indices: 2041039--2041150 Score: 84
Period size: 20 Copynumber: 5.5 Consensus size: 20
2041029 CGCTTTGAAA
*
2041039 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
2041060 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
2041080 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
2041100 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
2041121 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
2041141 ATCGCATTGC
1 ATCGCATTGC
2041151 AATTTTCCCA
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.07
20 44 0.59
21 23 0.31
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:2041265 original size:21 final size:21
Alignment explanation
Indices: 2041225--2041265 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2041215 ACTGTAGACC
** *
2041225 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
2041246 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
2041266 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:2044538 original size:2 final size:2
Alignment explanation
Indices: 2044531--2044565 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2044521 GGTCATATCC
2044531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2044566 AGGCATAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2044995 original size:32 final size:32
Alignment explanation
Indices: 2044923--2044995 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
2044913 AGTACATATA
*
2044923 ACATCATTACTTTGAGTGACATGACACATACC
1 ACATCATCACTTTGAGTGACATGACACATACC
* * * * *
2044955 ACACCATCACTTTGGGTGATATGCCATATACC
1 ACATCATCACTTTGAGTGACATGACACATACC
*
2044987 ACGTCATCA
1 ACATCATCA
2044996 ATTGATCATA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (32 bp):
ACATCATCACTTTGAGTGACATGACACATACC
Found at i:2046069 original size:30 final size:30
Alignment explanation
Indices: 2046043--2046338 Score: 531
Period size: 30 Copynumber: 9.9 Consensus size: 30
2046033 TTCAACCCCA
*
2046043 TTCCAGCAATCCATATGAGATTCAACCGAG
1 TTCCAGCTATCCATATGAGATTCAACCGAG
2046073 TTCCAGCTATCCATATGAGATTCAACCGAG
1 TTCCAGCTATCCATATGAGATTCAACCGAG
*
2046103 TTCCAGCAATCCATATGAGATTCAACCGAG
1 TTCCAGCTATCCATATGAGATTCAACCGAG
2046133 TTCCAGCTATCCATATGAGATTCAACCGAG
1 TTCCAGCTATCCATATGAGATTCAACCGAG
2046163 TTCCAGCTATCCATATGAGATTCAACCGAG
1 TTCCAGCTATCCATATGAGATTCAACCGAG
2046193 TTCCAGCTAT-CATATGAGATTCAACCGAG
1 TTCCAGCTATCCATATGAGATTCAACCGAG
* *
2046222 TTCCAGCTATCCATATGAGGTTCAACCTAG
1 TTCCAGCTATCCATATGAGATTCAACCGAG
*
2046252 TTCCAGCAATCCATATGAGATTCAACCGAG
1 TTCCAGCTATCCATATGAGATTCAACCGAG
*
2046282 TTCCAGCTATCCATACGAGATTCAACCGAG
1 TTCCAGCTATCCATATGAGATTCAACCGAG
2046312 TTCCAGCTATCCATATGAGATTCAACC
1 TTCCAGCTATCCATATGAGATTCAACC
2046339 CAACTCAACC
Statistics
Matches: 254, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
29 29 0.11
30 225 0.89
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (30 bp):
TTCCAGCTATCCATATGAGATTCAACCGAG
Found at i:2046324 original size:149 final size:150
Alignment explanation
Indices: 2046043--2046338 Score: 549
Period size: 149 Copynumber: 2.0 Consensus size: 150
2046033 TTCAACCCCA
2046043 TTCCAGCAATCCATATGAGATTCAACCGAGTTCCAGCTATCCATATGAGATTCAACCGAGTTCCA
1 TTCCAGCAATCCATATGAGATTCAACCGAGTTCCAGCTATCCATATGAGATTCAACCGAGTTCCA
*
2046108 GCAATCCATATGAGATTCAACCGAGTTCCAGCTATCCATATGAGATTCAACCGAGTTCCAGCTAT
66 GCAATCCATATGAGATTCAACCGAGTTCCAGCTATCCATACGAGATTCAACCGAGTTCCAGCTAT
2046173 CCATATGAGATTCAACCGAG
131 CCATATGAGATTCAACCGAG
* * *
2046193 TTCCAGCTAT-CATATGAGATTCAACCGAGTTCCAGCTATCCATATGAGGTTCAACCTAGTTCCA
1 TTCCAGCAATCCATATGAGATTCAACCGAGTTCCAGCTATCCATATGAGATTCAACCGAGTTCCA
2046257 GCAATCCATATGAGATTCAACCGAGTTCCAGCTATCCATACGAGATTCAACCGAGTTCCAGCTAT
66 GCAATCCATATGAGATTCAACCGAGTTCCAGCTATCCATACGAGATTCAACCGAGTTCCAGCTAT
2046322 CCATATGAGATTCAACC
131 CCATATGAGATTCAACC
2046339 CAACTCAACC
Statistics
Matches: 142, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
149 133 0.94
150 9 0.06
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (150 bp):
TTCCAGCAATCCATATGAGATTCAACCGAGTTCCAGCTATCCATATGAGATTCAACCGAGTTCCA
GCAATCCATATGAGATTCAACCGAGTTCCAGCTATCCATACGAGATTCAACCGAGTTCCAGCTAT
CCATATGAGATTCAACCGAG
Found at i:2048327 original size:20 final size:21
Alignment explanation
Indices: 2048304--2048347 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
2048294 AAAATCTGTG
*
2048304 AATA-TTAATCAAATATTTAA
1 AATAGTTAATCAAATATATAA
*
2048324 AATATGTTGATCAAATATATAA
1 AATA-GTTAATCAAATATATAA
2048346 AA
1 AA
2048348 ACTTATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
22 16 0.80
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (21 bp):
AATAGTTAATCAAATATATAA
Found at i:2048634 original size:21 final size:19
Alignment explanation
Indices: 2048585--2048631 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
2048575 ATAGTTTGTG
2048585 TCAATTTTTATAGATTAAA
1 TCAATTTTTATAGATTAAA
2048604 TCAATTTTTATAGATTAAA
1 TCAATTTTTATAGATTAAA
2048623 TCAATTTTT
1 TCAATTTTT
2048632 TTAATTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.51
Consensus pattern (19 bp):
TCAATTTTTATAGATTAAA
Found at i:2055930 original size:15 final size:15
Alignment explanation
Indices: 2055910--2055941 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2055900 TCAATACCTT
2055910 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
2055925 TTTTGCATACATTCA
1 TTTTGCATACATGCA
2055940 TT
1 TT
2055942 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:2060146 original size:42 final size:41
Alignment explanation
Indices: 2060095--2060220 Score: 113
Period size: 42 Copynumber: 3.1 Consensus size: 41
2060085 TCCAATCAAT
2060095 CCAGAATATAAACCGTCCAACAAAAGCTCAGACAAATGAGG
1 CCAGAATATAAACCGTCCAACAAAAGCTCAGACAAATGAGG
* * * * **
2060136 CCAGAAATATATA--GT-GATACACAAGCTTC---C-AATCAAT
1 CCAG-AATATAAACCGTCCA-ACAAAAGC-TCAGACAAATGAGG
2060173 CCAGAATATAAACCGGTCCAACAAAAGCTCAGACAAATGAGG
1 CCAGAATATAAACC-GTCCAACAAAAGCTCAGACAAATGAGG
2060215 CCAGAA
1 CCAGAA
2060221 ATGTTGTTGC
Statistics
Matches: 62, Mismatches: 12, Indels: 21
0.65 0.13 0.22
Matches are distributed among these distances:
36 7 0.11
37 8 0.13
38 3 0.05
39 10 0.16
40 10 0.16
41 7 0.11
42 17 0.27
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.15
Consensus pattern (41 bp):
CCAGAATATAAACCGTCCAACAAAAGCTCAGACAAATGAGG
Found at i:2060182 original size:36 final size:36
Alignment explanation
Indices: 2060066--2060182 Score: 94
Period size: 36 Copynumber: 3.1 Consensus size: 36
2060056 TTAAGCACAG
2060066 ATATAGTGATACACAAGCTTCCAATCAATCCAGAAT
1 ATATAGTGATACACAAGCTTCCAATCAATCCAGAAT
* * * * **
2060102 ATAAACCGTCCA-ACAAAAGC-TCAGACAAATGAGGCCAGAAAT
1 ATATA--GT-GATACACAAGCTTC---C-AATCAATCCAG-AAT
2060144 ATATAGTGATACACAAGCTTCCAATCAATCCAGAAT
1 ATATAGTGATACACAAGCTTCCAATCAATCCAGAAT
2060180 ATA
1 ATA
2060183 AACCGGTCCA
Statistics
Matches: 59, Mismatches: 12, Indels: 20
0.65 0.13 0.22
Matches are distributed among these distances:
36 10 0.17
37 10 0.17
38 10 0.17
39 2 0.03
40 10 0.17
41 10 0.17
42 7 0.12
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.21
Consensus pattern (36 bp):
ATATAGTGATACACAAGCTTCCAATCAATCCAGAAT
Found at i:2063286 original size:4 final size:4
Alignment explanation
Indices: 2063272--2063334 Score: 74
Period size: 4 Copynumber: 15.5 Consensus size: 4
2063262 ATTATGCTTG
* * *
2063272 AAGA GAGA AAGA AAGA AAGA AAGA AAGA AAGA AAAA AAGAA AAAA AAGAA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG-A AAGA AAG-A
2063322 AAGA AA-A AAGA AA
1 AAGA AAGA AAGA AA
2063335 AAAAAAGGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
3 3 0.06
4 40 0.80
5 7 0.14
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:2063317 original size:9 final size:9
Alignment explanation
Indices: 2063299--2063350 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
2063289 AGAAAGAAAG
2063299 AAAG-AAAA
1 AAAGAAAAA
2063307 AAAGAAAAA
1 AAAGAAAAA
2063316 AAAGAAAAGAAA
1 AAAG--AA-AAA
2063328 AAAGAAAAAA
1 AAAG-AAAAA
*
2063338 AAAGGAAAA
1 AAAGAAAAA
2063347 AAAG
1 AAAG
2063351 GGGGTCAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
8 4 0.10
9 16 0.41
10 7 0.18
11 5 0.13
12 7 0.18
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:2063347 original size:12 final size:11
Alignment explanation
Indices: 2063283--2063349 Score: 75
Period size: 12 Copynumber: 6.0 Consensus size: 11
2063273 AGAGAGAAAG
*
2063283 AAAGAAAGAAAG
1 AAAGAAA-AAAA
2063295 AAAGAAAGAAAA
1 AAAGAAA-AAAA
2063307 AAAG--AAAAA
1 AAAGAAAAAAA
2063316 AAAGAAAAGAAA
1 AAAGAAAA-AAA
2063328 AAAGAAAAAAA
1 AAAGAAAAAAA
*
2063339 AAGGAAAAAAA
1 AAAGAAAAAAA
2063350 GGGGGTCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
9 8 0.16
10 1 0.02
11 15 0.30
12 26 0.52
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:2063347 original size:29 final size:29
Alignment explanation
Indices: 2063279--2063338 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
2063269 TTGAAGAGAG
*
2063279 AAAG-AAAGAAAGAAAGAAAGAAAGAAAA
1 AAAGAAAAAAAAGAAAGAAAGAAAGAAAA
2063307 AAAGAAAAAAAAGAAAAGAAA-AAAGAAAA
1 AAAGAAAAAAAAG-AAAGAAAGAAAGAAAA
2063336 AAA
1 AAA
2063339 AAGGAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 4 0.14
29 18 0.62
30 7 0.24
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (29 bp):
AAAGAAAAAAAAGAAAGAAAGAAAGAAAA
Found at i:2063351 original size:9 final size:8
Alignment explanation
Indices: 2063277--2063350 Score: 71
Period size: 8 Copynumber: 9.2 Consensus size: 8
2063267 GCTTGAAGAG
*
2063277 AGAAAGAA
1 AGAAAAAA
*
2063285 AGAAAGAA
1 AGAAAAAA
*
2063293 AGAAAGAA
1 AGAAAAAA
2063301 AGAAAAAA
1 AGAAAAAA
2063309 AGAAAAAAA
1 AG-AAAAAA
2063318 AGAAAAGAA
1 AGAAAA-AA
*
2063327 A-AAAGAA
1 AGAAAAAA
2063334 A-AAAAAA
1 AGAAAAAA
*
2063341 GGAAAAAA
1 AGAAAAAA
2063349 AG
1 AG
2063351 GGGGTCAAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
7 8 0.14
8 39 0.67
9 11 0.19
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:2064843 original size:83 final size:83
Alignment explanation
Indices: 2064704--2065518 Score: 1348
Period size: 83 Copynumber: 9.7 Consensus size: 83
2064694 TAGCTGGAAA
2064704 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
1 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
2064769 CAATCATTGAATTTGAAG
66 CAATCATTGAATTTGAAG
2064787 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
1 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
2064852 CAATCATTGAATTTGAAG
66 CAATCATTGAATTTGAAG
2064870 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
1 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
2064935 CAATCATTGAATTTGAAG
66 CAATCATTGAATTTGAAG
*
2064953 GATGAATGTGCTCATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
1 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
* *
2065018 CAGTTATTGAATTTGGAA-
66 CAATCATTGAATTT-GAAG
* *
2065036 GAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
1 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
2065101 CAATCATTGAATTTGAAG
66 CAATCATTGAATTTGAAG
2065119 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
1 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
2065184 CAATCATTGAATTTGAAG
66 CAATCATTGAATTTGAAG
* *
2065202 GATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTAAAAC
1 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
* *
2065267 CAGTTATTGAATTTGGAA-
66 CAATCATTGAATTT-GAAG
* *
2065285 GAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAA
1 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG----G--
*
2065350 ACAACAGAACCAATCATTGAATTTGAAG
60 --TA-A-AACCAATCATTGAATTTGAAG
2065378 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
1 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
* *
2065443 CAGTTATTGAATTTGGAA-
66 CAATCATTGAATTT-GAAG
* *
2065461 GAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
2065519 ATATGAAACC
Statistics
Matches: 689, Mismatches: 28, Indels: 30
0.92 0.04 0.04
Matches are distributed among these distances:
82 3 0.00
83 597 0.87
84 10 0.01
85 1 0.00
87 1 0.00
89 1 0.00
91 1 0.00
92 4 0.01
93 71 0.10
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (83 bp):
GATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAAC
CAATCATTGAATTTGAAG
Found at i:2065423 original size:93 final size:92
Alignment explanation
Indices: 2065272--2065570 Score: 420
Period size: 93 Copynumber: 3.3 Consensus size: 92
2065262 AAAACCAGTT
2065272 ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
2065337 GGTTTGATATGAAACAACAGAACCAATC
66 GGTTTGATATGAAAC-ACAGAACCAATC
* *
2065365 ATTGAATTT-GAAGGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 ATTGAATTTGGAA-GAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
2065429 TGGTTTGGTA--AAAC-CAG------TT
65 TGGTTTGATATGAAACACAGAACCAATC
2065448 ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
2065513 GGTTTGATATGAAACCACAGAACCAATC
66 GGTTTGATATGAAA-CACAGAACCAATC
* * * * *
2065541 ATTAAATTTGAAAGATGAATTTGCTCATAG
1 ATTGAATTTGGAAGAGGAATGTGCTAATAG
2065571 TAGAAATAAG
Statistics
Matches: 181, Mismatches: 13, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
83 68 0.38
84 3 0.02
85 3 0.02
86 1 0.01
87 3 0.02
89 3 0.02
91 4 0.02
92 3 0.02
93 93 0.51
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (92 bp):
ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
GGTTTGATATGAAACACAGAACCAATC
Found at i:2065475 original size:176 final size:176
Alignment explanation
Indices: 2065181--2065570 Score: 726
Period size: 176 Copynumber: 2.2 Consensus size: 176
2065171 GGTTTGGTAA
2065181 AACCAATCATTGAATTTGAAGGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 AACCAATCATTGAATTTGAAGGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
2065246 TCTAATCTGGTTTGGTAAAACCAGTTATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTG
66 TCTAATCTGGTTTGGTAAAACCAGTTATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTG
2065311 GAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACAACAG
131 GAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACAACAG
*
2065357 AACCAATCATTGAATTTGAAGGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 AACCAATCATTGAATTTGAAGGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
*
2065422 TCTGATCTGGTTTGGTAAAACCAGTTATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTG
66 TCTAATCTGGTTTGGTAAAACCAGTTATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTG
*
2065487 GAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACCACAG
131 GAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACAACAG
* * *
2065533 AACCAATCATTAAATTTGAAAGATGAATTTGCTCATAG
1 AACCAATCATTGAATTTGAAGGATGAATATGCTCATAG
2065571 TAGAAATAAG
Statistics
Matches: 208, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 208 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (176 bp):
AACCAATCATTGAATTTGAAGGATGAATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
TCTAATCTGGTTTGGTAAAACCAGTTATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAAACAACAG
Found at i:2066216 original size:95 final size:95
Alignment explanation
Indices: 2066053--2066250 Score: 369
Period size: 95 Copynumber: 2.1 Consensus size: 95
2066043 TATTCTCCTC
2066053 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATATGTGAAATCATCTTG
1 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATATGTGAAATCATCTTG
*
2066118 AAAGATCACTTCATAATCAGATGAGTTGTT
66 AAAGATCACCTCATAATCAGATGAGTTGTT
* *
2066148 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATTGATATCTGTGAAATCATCTTG
1 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATATGTGAAATCATCTTG
2066213 AAAGATCACCTCATAATCAGATGAGTTGTT
66 AAAGATCACCTCATAATCAGATGAGTTGTT
2066243 ATCAGAAT
1 ATCAGAAT
2066251 TAACATGTTG
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 100 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (95 bp):
ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATATGTGAAATCATCTTG
AAAGATCACCTCATAATCAGATGAGTTGTT
Found at i:2066891 original size:112 final size:112
Alignment explanation
Indices: 2066548--2067440 Score: 1544
Period size: 112 Copynumber: 8.0 Consensus size: 112
2066538 GCAAAGATTT
*
2066548 AAATCCATCACTTGATGGATCAACTTTTCCAGAAGAAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAG-AGAAGTTCATAATAAGAAGAACTCATCTGAAG
2066613 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
*
2066661 AAATCCATCACTTGATGGATCAGCTTTTCCAGAAGAAGTTCATAATAAGAAAAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAG-AGAAGTTCATAATAAGAAGAACTCATCTGAAG
2066726 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
*
2066774 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAGGA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
* *
2066839 AGGAAGAAGAAATTCATAATGAGAAGAGCATGTTCAACCTTTTGCTC
66 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
2066886 AAATCCATCACTTGATGGATCAGCTTTTCCAGAAGAAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAG-AGAAGTTCATAATAAGAAGAACTCATCTGAAG
2066951 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
2066999 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
*
2067064 AGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
66 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
*
2067111 AAATCCATCACTTGATGGATCATCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
2067176 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
66 AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
* *
2067223 AAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATAAGAAGAACTCATCTGAAG
*
2067288 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGTTC
65 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
* * * * * *
2067335 AAATTCATCACTTAATGGATCAACCTTTACAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATAAGAAGAACTCATCTGAAG
* *
2067400 AA-G-AG-A-AAGTTCATAATAAGAAGAGCTTATTCAACCTTTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
2067441 AATGACTCTA
Statistics
Matches: 753, Mismatches: 24, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
108 28 0.04
109 5 0.01
110 2 0.00
111 1 0.00
112 396 0.53
113 321 0.43
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (112 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
Found at i:2066944 original size:225 final size:224
Alignment explanation
Indices: 2066548--2067440 Score: 1544
Period size: 225 Copynumber: 4.0 Consensus size: 224
2066538 GCAAAGATTT
*
2066548 AAATCCATCACTTGATGGATCAACTTTTCCAGAAGAAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAG-AGAAGTTCATAATAAGAAGAACTCATCTGAAG
*
2066613 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATG
65 AAGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATG
*
2066678 GATCAGCTTTTCCAGAAGAAGTTCATAATAAGAAAAACTCATCTGAAGAAGGAAGAAGAAGTTCA
130 GATCAGCTTTTCCAG-AGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
2066743 TAATGAGAAGAGCTTGTTCAACCTTTTGCTC
194 TAATGAGAAGAGCTTGTTCAACCTTTTGCTC
*
2066774 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAGGA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
*
2066839 AGGAAGAAGAAATTCATAATGAGAAGAGCATGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
66 AGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
2066904 ATCAGCTTTTCCAGAAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
131 ATCAGCTTTTCCAG-AGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
2066969 AATGAGAAGAGCTTGTTCAACCTTTTGCTC
195 AATGAGAAGAGCTTGTTCAACCTTTTGCTC
2066999 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
2067064 AGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
66 AGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
*
2067129 ATCATCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
131 ATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
2067194 ATGAGAAGAGCTTGTTCAACCTTTTGCTC
196 ATGAGAAGAGCTTGTTCAACCTTTTGCTC
* *
2067223 AAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATAAGAAGAACTCATCTGAAG
* * * *
2067288 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGTTCAAATTCATCACTTAATG
65 AAGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATG
* * * *
2067352 GATCAACCTTTACAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-G-AG-A-AAGTTCA
130 GATCAGCTTTTCCAGAG-AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* *
2067413 TAATAAGAAGAGCTTATTCAACCTTTTG
194 TAATGAGAAGAGCTTGTTCAACCTTTTG
2067441 AATGACTCTA
Statistics
Matches: 645, Mismatches: 20, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
221 33 0.05
222 1 0.00
223 2 0.00
224 149 0.23
225 429 0.67
226 31 0.05
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (224 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGA
AGGAAGAAGAAATTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
ATCAGCTTTTCCAGAGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAGCTTGTTCAACCTTTTGCTC
Found at i:2067685 original size:3 final size:3
Alignment explanation
Indices: 2067679--2067727 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
2067669 TTATATAATA
* * * *
2067679 ATT ATT ATT ATT ATA ATT ATA ATA ATT ATT ATT ATT AAT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
2067725 ATT
1 ATT
2067728 TAATATTACA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:2067697 original size:9 final size:9
Alignment explanation
Indices: 2067672--2067735 Score: 60
Period size: 9 Copynumber: 7.2 Consensus size: 9
2067662 ATGTTATTTA
*
2067672 TATAATAAT
1 TATAATTAT
*
2067681 TATTATTAT
1 TATAATTAT
2067690 TATAATTAT
1 TATAATTAT
*
2067699 AATAATTAT
1 TATAATTAT
* *
2067708 TATTATTAA
1 TATAATTAT
2067717 TATATATTAT
1 TATA-ATTAT
2067727 T-TAA-TAT
1 TATAATTAT
2067734 TA
1 TA
2067736 CAAAACCCAA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
7 4 0.09
8 1 0.02
9 34 0.77
10 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TATAATTAT
Found at i:2068199 original size:18 final size:19
Alignment explanation
Indices: 2068158--2068193 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2068148 AGAGAGAGAC
2068158 AAACAGAGCAAAAACAACA
1 AAACAGAGCAAAAACAACA
*
2068177 AAACAGAG-AACAACAAC
1 AAACAGAGCAAAAACAAC
2068194 CCAACAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.22, G:0.11, T:0.00
Consensus pattern (19 bp):
AAACAGAGCAAAAACAACA
Found at i:2069608 original size:17 final size:17
Alignment explanation
Indices: 2069586--2069644 Score: 100
Period size: 17 Copynumber: 3.5 Consensus size: 17
2069576 TATTCACATC
*
2069586 AATTTTTTCGCCAAATA
1 AATTTTTCCGCCAAATA
*
2069603 AATTTTTCCACCAAATA
1 AATTTTTCCGCCAAATA
2069620 AATTTTTCCGCCAAATA
1 AATTTTTCCGCCAAATA
2069637 AATTTTTC
1 AATTTTTC
2069645 GTATCCGGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (17 bp):
AATTTTTCCGCCAAATA
Found at i:2070019 original size:2 final size:2
Alignment explanation
Indices: 2070012--2070069 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
2070002 TCCAAGGTAA
2070012 TC TC TC TC -C TC TC TC TC TC TC T- TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2070052 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
2070070 GAATTTCATT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 52 0.96
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Done.