Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_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: 3739947
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 20
Found at i:1785071 original size:120 final size:118
Alignment explanation
Indices: 1784834--1785065 Score: 299
Period size: 120 Copynumber: 2.0 Consensus size: 118
1784824 TATATTAATT
* * * *
1784834 TATATATTTTATAAATAAATATTTATTTATTTAGAAATATTAGAAAATGACTTCTAGGTGCCTTA
1 TATATAATTTATAAATAAATATTTATTTATTTAAAAATATTAGAAAATGACATCCAGGTGCCTTA
* *
1784899 AGACAGCTCTTTTCCTCGATATTAAAAAATAAATAAATAATTAAAACAATTAA
66 AGACAGCTCCTTTCCTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
* * **
1784952 TATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATTAGAAAATGGACATCCAGTTGTT
1 TATATAATTTAT-AAATA-AATATTTATTTATTTAAAAATATTAGAAAAT-GACATCCAGGTGCC
* * *
1785017 TTAAGACTGC-CCTTT-CTTAATATTGAAAAATAAATAAAT-ATTAAAACAA
63 TTAAGACAGCTCCTTTCCTCAATATTAAAAAATAAATAAATAATTAAAACAA
1785066 GATTAAAATA
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
118 21 0.21
119 26 0.27
120 33 0.34
121 18 0.18
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (118 bp):
TATATAATTTATAAATAAATATTTATTTATTTAAAAATATTAGAAAATGACATCCAGGTGCCTTA
AGACAGCTCCTTTCCTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
Found at i:1785152 original size:3 final size:3
Alignment explanation
Indices: 1785144--1785170 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1785134 TTTATGGCTA
1785144 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1785171 TAAAAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1786587 original size:3 final size:3
Alignment explanation
Indices: 1786579--1786659 Score: 103
Period size: 3 Copynumber: 26.7 Consensus size: 3
1786569 GGCCTGTTTG
**
1786579 TAA TAA TAA TAA TTT TAA TAA TAA TAAA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
1786624 TATA TAA -AA TAA TAA TAA TAA TAAA TAA TAA TAA TA
1 TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
1786660 GAAAATGTAG
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
2 4 0.06
3 56 0.81
4 9 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1786605 original size:21 final size:21
Alignment explanation
Indices: 1786594--1786659 Score: 114
Period size: 21 Copynumber: 3.1 Consensus size: 21
1786584 ATAATAATTT
1786594 TAATAATAATAAATAAAATAA
1 TAATAATAATAAATAAAATAA
*
1786615 TAATAATAATATATAAAATAA
1 TAATAATAATAAATAAAATAA
1786636 TAATAATAATAAATAATAATAA
1 TAATAATAATAAATAA-AATAA
1786658 TA
1 TA
1786660 GAAAATGTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
21 35 0.83
22 7 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATAATAATAAATAAAATAA
Found at i:1798343 original size:18 final size:18
Alignment explanation
Indices: 1798320--1798356 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1798310 AAAACTAAAT
1798320 TTGATGAAAATTTAACAG
1 TTGATGAAAATTTAACAG
1798338 TTGATGAAAATTTAACAG
1 TTGATGAAAATTTAACAG
1798356 T
1 T
1798357 CCCTATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.35
Consensus pattern (18 bp):
TTGATGAAAATTTAACAG
Found at i:1805833 original size:22 final size:22
Alignment explanation
Indices: 1805808--1805855 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1805798 AATCATCCCA
* *
1805808 AAAACATCTTAATTACATCAAG
1 AAAACATCATAATCACATCAAG
* *
1805830 AAAACCTCATAATCACCTCAAG
1 AAAACATCATAATCACATCAAG
1805852 AAAA
1 AAAA
1805856 TTAAATCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.52, C:0.23, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAACATCATAATCACATCAAG
Found at i:1806122 original size:21 final size:22
Alignment explanation
Indices: 1806098--1806153 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
1806088 ATCTTGATTG
1806098 AAGAGAGGAAAATCAA-AAT-AA
1 AAGAGAGGAAAA-CAACAATCAA
*
1806119 AAGAGATGAGAAACAACAATCAA
1 AAGAGAGGA-AAACAACAATCAA
*
1806142 ATGAGAGGAAAA
1 AAGAGAGGAAAA
1806154 ATAAAGAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 11 0.38
22 9 0.31
23 9 0.31
ACGTcount: A:0.62, C:0.07, G:0.21, T:0.09
Consensus pattern (22 bp):
AAGAGAGGAAAACAACAATCAA
Found at i:1812235 original size:16 final size:16
Alignment explanation
Indices: 1812214--1812245 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1812204 TGTATGTTAA
1812214 CTCATAATCAACACAC
1 CTCATAATCAACACAC
1812230 CTCATAATCAACACAC
1 CTCATAATCAACACAC
1812246 TTTACTACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (16 bp):
CTCATAATCAACACAC
Found at i:1814632 original size:24 final size:23
Alignment explanation
Indices: 1814590--1814658 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
1814580 ATGATGAACG
*
1814590 AACACAAATGAATGAACATAAACA
1 AACAC-AATAAATGAACATAAACA
* * * *
1814614 AATAGATGTAAATGAACATAAACG
1 AACACA-ATAAATGAACATAAACA
1814638 AACACAATAAATGAACATAAA
1 AACACAATAAATGAACATAAA
1814659 TGAAAAAAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 15 0.42
24 21 0.58
ACGTcount: A:0.61, C:0.13, G:0.10, T:0.16
Consensus pattern (23 bp):
AACACAATAAATGAACATAAACA
Found at i:1814652 original size:23 final size:23
Alignment explanation
Indices: 1814586--1814682 Score: 86
Period size: 23 Copynumber: 4.1 Consensus size: 23
1814576 TTAAATGATG
*
1814586 AACGAACACAAATGAATGAACATA
1 AACGAACAC-AATAAATGAACATA
* * * *
1814610 AACAAATAGATGTAAATGAACATA
1 AACGAACACA-ATAAATGAACATA
1814634 AACGAACACAATAAATGAACATA
1 AACGAACACAATAAATGAACATA
* * * * *
1814657 AATGAAAAAAACAAATGAATATA
1 AACGAACACAATAAATGAACATA
1814680 AAC
1 AAC
1814683 CACAACAACA
Statistics
Matches: 57, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
23 33 0.58
24 24 0.42
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.15
Consensus pattern (23 bp):
AACGAACACAATAAATGAACATA
Found at i:1814886 original size:14 final size:14
Alignment explanation
Indices: 1814867--1814933 Score: 72
Period size: 14 Copynumber: 5.1 Consensus size: 14
1814857 AGATTGGGCT
1814867 AAACATAAATGAAC
1 AAACATAAATGAAC
*
1814881 AAACATAAACGAAC
1 AAACATAAATGAAC
1814895 AAA-AGT--A--AAC
1 AAACA-TAAATGAAC
*
1814905 GAACATAAATGAAC
1 AAACATAAATGAAC
1814919 AAACATAAATGAAC
1 AAACATAAATGAAC
1814933 A
1 A
1814934 TATTATCGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 6 0.14
11 1 0.02
12 2 0.05
13 1 0.02
14 34 0.77
ACGTcount: A:0.64, C:0.15, G:0.09, T:0.12
Consensus pattern (14 bp):
AAACATAAATGAAC
Found at i:1814909 original size:24 final size:24
Alignment explanation
Indices: 1814882--1814935 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
1814872 TAAATGAACA
1814882 AACATAAACGAACAAA-AGTAAACG
1 AACATAAACGAACAAACA-TAAACG
* *
1814906 AACATAAATGAACAAACATAAATG
1 AACATAAACGAACAAACATAAACG
1814930 AACATA
1 AACATA
1814936 TTATCGAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.63, C:0.15, G:0.09, T:0.13
Consensus pattern (24 bp):
AACATAAACGAACAAACATAAACG
Found at i:1854595 original size:90 final size:90
Alignment explanation
Indices: 1854442--1854620 Score: 313
Period size: 90 Copynumber: 2.0 Consensus size: 90
1854432 ACCTAACATG
*
1854442 TCCTTTTATATCCGAGTTACCCTAATCACATTAGGGATTTTATTATTTCAAATTAATTAAATCTA
1 TCCTTTTATATCCAAGTTACCCTAATCACATTAGGGATTTTATTATTTCAAATTAATTAAATCTA
*
1854507 TATTTAATTAATTAGAATTTAATAA
66 TATTTAATTAATTAGAATTAAATAA
* *
1854532 TCCTTTTATATCCAAGTTACTCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTA
1 TCCTTTTATATCCAAGTTACCCTAATCACATTAGGGATTTTATTATTTCAAATTAATTAAATCTA
*
1854597 TATTTAATTAATTGGAATTAAATA
66 TATTTAATTAATTAGAATTAAATA
1854621 TATAGGATTA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (90 bp):
TCCTTTTATATCCAAGTTACCCTAATCACATTAGGGATTTTATTATTTCAAATTAATTAAATCTA
TATTTAATTAATTAGAATTAAATAA
Found at i:1856901 original size:24 final size:24
Alignment explanation
Indices: 1856869--1856914 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1856859 TCTTACTGAT
*
1856869 GATGTATAAAACATCTATGTACAC
1 GATGAATAAAACATCTATGTACAC
*
1856893 GATGAATAAAATATCTATGTAC
1 GATGAATAAAACATCTATGTAC
1856915 CATGTCATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (24 bp):
GATGAATAAAACATCTATGTACAC
Found at i:1868947 original size:153 final size:153
Alignment explanation
Indices: 1868663--1868968 Score: 558
Period size: 153 Copynumber: 2.0 Consensus size: 153
1868653 CAAATAAATG
* * * *
1868663 TGATGTATACTCGCCGCCTCTATCATATCTGAGTATCTTTAAATATTGATCACTTTTCTTTTCCA
1 TGATGTATAATCGCCACCTCTATCAGATCTGAGTATCTTTAAATATTGATCACTTTGCTTTTCCA
**
1868728 TCATTCCTTTGAATTCTTTCAATTTCTCCAGTGCTTCTGATATTTATTTTAAAATATAAATTCAA
66 TCATTCCTTTGAATTCTTTCAATTTCTCCAGTGCTTCTGATATTTATTTTAAAATATAAACCCAA
1868793 CTTTTTTAACTAAAATCATCAAT
131 CTTTTTTAACTAAAATCATCAAT
1868816 TGATGTATAATCGCCACCTCTATCAGATCTGAGTATCTTTAAATATTGATCACTTTGCTTTTCCA
1 TGATGTATAATCGCCACCTCTATCAGATCTGAGTATCTTTAAATATTGATCACTTTGCTTTTCCA
1868881 TCATTCCTTTGAATTCTTTCAATTTCTCCAGTGCTTCTGATATTTATTTTAAAATATAAACCCAA
66 TCATTCCTTTGAATTCTTTCAATTTCTCCAGTGCTTCTGATATTTATTTTAAAATATAAACCCAA
1868946 CTTTTTTAACTAAAATCATCAAT
131 CTTTTTTAACTAAAATCATCAAT
1868969 AAAGATTAGG
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
153 147 1.00
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.44
Consensus pattern (153 bp):
TGATGTATAATCGCCACCTCTATCAGATCTGAGTATCTTTAAATATTGATCACTTTGCTTTTCCA
TCATTCCTTTGAATTCTTTCAATTTCTCCAGTGCTTCTGATATTTATTTTAAAATATAAACCCAA
CTTTTTTAACTAAAATCATCAAT
Found at i:1870839 original size:65 final size:64
Alignment explanation
Indices: 1870770--1870926 Score: 174
Period size: 65 Copynumber: 2.4 Consensus size: 64
1870760 ATTTAAATTG
* * * *
1870770 AACATCAAATGCATTTCATGCATCGATGCA-CATACCATGCACCAATGCACTGAGGAT-TTTATG
1 AACATCGAATGCACTTAATGCATCGATGCACCA-ACCATGCACCAATGCACTCAGGATATTT-TG
1870833 AA
64 -A
* * * * * *
1870835 AACATCGAATACACTTAATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCACTTAATGCATCGATGCACCAACCATGCACCAATGCACTCAGGATATTTTGA
*
1870899 AACATCGAATGCACTTGATGCATCGATG
1 AACATCGAATGCACTTAATGCATCGATG
1870927 AACTCTTAGT
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 27 0.35
65 46 0.59
66 5 0.06
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (64 bp):
AACATCGAATGCACTTAATGCATCGATGCACCAACCATGCACCAATGCACTCAGGATATTTTGA
Found at i:1879511 original size:65 final size:64
Alignment explanation
Indices: 1879375--1879573 Score: 210
Period size: 65 Copynumber: 3.1 Consensus size: 64
1879365 TTTCAGAGTG
* * *
1879375 ATGCACCGATGCACCAACCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCACCAACCATGCACCGATGCACTCAGGATATT---TTGAAACATCGAATGCATT
*
1879437 TC
63 TA
*
1879439 ATGCATCGATGCA-CATACCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATT
1 ATGCATCGATGCACCA-ACCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCATT
1879502 TA
63 TA
* * * * * *
1879504 ATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTG
1 ATGCATCGATGCACCAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTA
1879568 ATGCAT
1 ATGCAT
1879574 TGTGCACTCT
Statistics
Matches: 115, Mismatches: 12, Indels: 16
0.80 0.08 0.11
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 50 0.43
65 55 0.48
66 5 0.04
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (64 bp):
ATGCATCGATGCACCAACCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTA
Found at i:1886542 original size:18 final size:19
Alignment explanation
Indices: 1886521--1886574 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
1886511 AATCTAATTT
1886521 GGGTATCGATACCT-ATAG
1 GGGTATCGATACCTAATAG
*
1886539 GGGTATCGGTACCTTAGCATAG
1 GGGTATCGATACC-TA--ATAG
1886561 GGGTATCGATACCT
1 GGGTATCGATACCT
1886575 GAGTGCCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 12 0.40
19 1 0.03
21 1 0.03
22 16 0.53
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (19 bp):
GGGTATCGATACCTAATAG
Found at i:1887089 original size:79 final size:79
Alignment explanation
Indices: 1886946--1887100 Score: 204
Period size: 79 Copynumber: 2.0 Consensus size: 79
1886936 AAAATGCAGA
* ** *
1886946 ATAAAAGAATAATGCATATGGGTGCATTACTGGCATGAAATGATGCCTTAGCTGATATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTACTGGCATGAAAGGATGCCAGAGCTGATATGCATATG
1887011 GGTACATTATCGGC
66 GGTACATTATCGGC
* * * * *
1887025 ATAACAGAATAATGCATATGGGTGCATTATTGGTATGAAAGGATGGCAGAGTTG-TGATGCATAT
1 ATAAAAGAATAATGCATATGGGTGCATTACTGGCATGAAAGGATGCCAGAGCTGAT-ATGCATAT
*
1887089 GGGTGCATTATC
65 GGGTACATTATC
1887101 AATAGAAAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 1 0.02
79 64 0.98
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTACTGGCATGAAAGGATGCCAGAGCTGATATGCATATG
GGTACATTATCGGC
Found at i:1887130 original size:45 final size:45
Alignment explanation
Indices: 1887072--1887192 Score: 179
Period size: 45 Copynumber: 2.7 Consensus size: 45
1887062 AAAGGATGGC
**
1887072 AGAGTTGTGATGCATATGGGTGCATTATCAATAGAAAAGTATACT
1 AGAGTTGAAATGCATATGGGTGCATTATCAATAGAAAAGTATACT
* *
1887117 AGATTTGAAATGCATATGGGTGCATTATCAATAGAAAAGTATGCT
1 AGAGTTGAAATGCATATGGGTGCATTATCAATAGAAAAGTATACT
* * *
1887162 AGAGTTGAAATGTATATGAGTACATTATCAA
1 AGAGTTGAAATGCATATGGGTGCATTATCAA
1887193 CATAAAATTA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.31
Consensus pattern (45 bp):
AGAGTTGAAATGCATATGGGTGCATTATCAATAGAAAAGTATACT
Found at i:1888741 original size:2 final size:2
Alignment explanation
Indices: 1888734--1888774 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1888724 AAATGATGTC
1888734 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1888775 GCTTTTATAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1891584 original size:79 final size:79
Alignment explanation
Indices: 1891447--1891601 Score: 220
Period size: 79 Copynumber: 2.0 Consensus size: 79
1891437 AAACTAATGA
* * ** * *
1891447 ATAAAAGAATAATGCATATGGGTTCATTAGTGGCATAAAAGGATTCCTTAGTTGATATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTAGTGGCATAAAAGGATGCCAGAGTTAATATGCATATG
1891512 GGTACATTATCGGC
66 GGTACATTATCGGC
* * *
1891526 ATAACAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGAGTTAATATGCATATG
1 ATAAAAGAATAATGCATATGGGTGCATTAGTGGCATAAAAGGATGCCAGAGTTAATATGCATATG
*
1891591 GGTGCATTATC
66 GGTACATTATC
1891602 AATAGAAAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 66 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTAGTGGCATAAAAGGATGCCAGAGTTAATATGCATATG
GGTACATTATCGGC
Found at i:1891691 original size:45 final size:45
Alignment explanation
Indices: 1891536--1891815 Score: 282
Period size: 45 Copynumber: 6.2 Consensus size: 45
1891526 ATAACAGAAT
*** * * *
1891536 AATGCATATGGGTGCATTATTGGCATG-AAAGGATGCCAGAGTT-A
1 AATGCATATGGGTGCATTATCAACA-GAAAAGTATACTAGAGTTGA
*
1891580 ATATGCATATGGGTGCATTATCAATAGAAAAGTATACTAGCTAGTTGA
1 A-ATGCATATGGGTGCATTATCAACAGAAAAGTATACTAG--AGTTGA
*
1891628 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
* * *
1891673 AATGTATATGGGTACATTATCAACAGAAAAGTATATTATG-GTT-A
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTA-GAGTTGA
* * * *
1891717 AGATGTATATGGGTACATTATCAACATAAAAGTATACTATAGTTGA
1 A-ATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
* * ** *
1891763 AATGCATATGGTTGCATTATCAACATAAAAG-ATGTTAGAGTTTAA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAG-TTGA
1891808 AATGCATA
1 AATGCATA
1891816 ATGATGTATT
Statistics
Matches: 203, Mismatches: 23, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
44 10 0.05
45 148 0.73
46 3 0.01
47 40 0.20
48 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.31
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATACTAGAGTTGA
Found at i:1891827 original size:135 final size:135
Alignment explanation
Indices: 1891576--1891832 Score: 340
Period size: 135 Copynumber: 1.9 Consensus size: 135
1891566 GGATGCCAGA
* * *
1891576 GTTAATATGCATATGGGTGCATTATCAATAGAAAAGTATACTAGCTAGTTGAAATGCATATGGGT
1 GTTAAGATGCATATGGGTACATTATCAACAGAAAAGTATACTA-CTAGTTGAAATGCATATGGGT
* * *
1891641 GCATTATCAACAGAAAAGTATGCTAGAGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTA
65 GCATTATCAACAGAAAAGTATGCTAGAGTTAAAATGCATATGGGTA-ATTATAAACAGAAAAGTA
1891706 TATTATG
129 TATTATG
* * *
1891713 GTTAAGATGTATATGGGTACATTATCAACATAAAAGTATACTA-TAGTTGAAATGCATATGGTTG
1 GTTAAGATGCATATGGGTACATTATCAACAGAAAAGTATACTACTAGTTGAAATGCATATGGGTG
* * *
1891777 CATTATCAACATAAAAG-ATGTTAGAGTTTAAAATGCATAATGATGT-ATTATAAACA
66 CATTATCAACAGAAAAGTATGCTAGAG-TTAAAATGCAT-ATG-GGTAATTATAAACA
1891833 TAAATGGAGG
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
134 8 0.08
135 54 0.51
136 3 0.03
137 40 0.38
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (135 bp):
GTTAAGATGCATATGGGTACATTATCAACAGAAAAGTATACTACTAGTTGAAATGCATATGGGTG
CATTATCAACAGAAAAGTATGCTAGAGTTAAAATGCATATGGGTAATTATAAACAGAAAAGTATA
TTATG
Found at i:1900311 original size:36 final size:36
Alignment explanation
Indices: 1900264--1900523 Score: 359
Period size: 36 Copynumber: 7.2 Consensus size: 36
1900254 AAGGATGAAC
*
1900264 ACTTGAATCGGAAGTGCCAATGCTTCCTCCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
*
1900300 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTC-
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
* *
1900335 ACTTGAATCGGAAGTGCCGATGCTTCATTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
*
1900371 ATTTGAATCGGAAGTGCCGATGCTTTCCT-CCGTTCG
1 ACTTGAATCGGAAGTGCCGATGC-TTCCTCCCGTTCG
* *
1900407 ATTTGAATCGGAACTGCCGATGCTTCC-CTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTC-CCGTTCG
*
1900443 ACTTGAATCGGAACTGCCGATGCTTCC-CTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTC-CCGTTCG
* *
1900479 AATTGAATCGGAACTGCCGATGCTTCC-CTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCTC-CCGTTCG
1900515 ACTTGAATC
1 ACTTGAATC
1900524 AACGCAAACT
Statistics
Matches: 211, Mismatches: 9, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
35 38 0.18
36 169 0.80
37 4 0.02
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (36 bp):
ACTTGAATCGGAAGTGCCGATGCTTCCTCCCGTTCG
Found at i:1900485 original size:108 final size:107
Alignment explanation
Indices: 1900266--1900523 Score: 401
Period size: 108 Copynumber: 2.4 Consensus size: 107
1900256 GGATGAACAC
* * *
1900266 TTGAATCGGAAGTGCCAATGC-TTCCTCCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCCTTC
1 TTGAATCGGAAGTGCCGATGCTTTCCT-CCGTTCGACTTGAATCGGAACTGCCGATGCTTCCCTC
* * *
1900330 CGTTCACTTGAATCGGAAGTGCCGATGCTTCATTCCGTTCGAT
65 CGTTCACTTGAATCGGAACTGCCGATGCTTCACTCCGTTCGAA
*
1900373 TTGAATCGGAAGTGCCGATGCTTTCCTCCGTTCGATTTGAATCGGAACTGCCGATGCTTCCCTCC
1 TTGAATCGGAAGTGCCGATGCTTTCCTCCGTTCGACTTGAATCGGAACTGCCGATGCTTCCCTCC
*
1900438 GTTCGACTTGAATCGGAACTGCCGATGCTTCCCTCCGTTCGAA
66 GTTC-ACTTGAATCGGAACTGCCGATGCTTCACTCCGTTCGAA
* *
1900481 TTGAATCGGAACTGCCGATGCTTCCCTCCGTTCGACTTGAATC
1 TTGAATCGGAAGTGCCGATGCTTTCCTCCGTTCGACTTGAATC
1900524 AACGCAAACT
Statistics
Matches: 138, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
107 59 0.43
108 79 0.57
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (107 bp):
TTGAATCGGAAGTGCCGATGCTTTCCTCCGTTCGACTTGAATCGGAACTGCCGATGCTTCCCTCC
GTTCACTTGAATCGGAACTGCCGATGCTTCACTCCGTTCGAA
Found at i:1905648 original size:17 final size:17
Alignment explanation
Indices: 1905626--1905660 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1905616 AATGATCAGG
*
1905626 TGAATCATTTGTCATTC
1 TGAATCAATTGTCATTC
1905643 TGAATCAATTGTCATTC
1 TGAATCAATTGTCATTC
1905660 T
1 T
1905661 TTTAACTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (17 bp):
TGAATCAATTGTCATTC
Found at i:1910943 original size:16 final size:16
Alignment explanation
Indices: 1910919--1910952 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1910909 AATCATACCT
*
1910919 CCAACTTTGTAATTTA
1 CCAAATTTGTAATTTA
1910935 CCAAATTTGTAATTTA
1 CCAAATTTGTAATTTA
1910951 CC
1 CC
1910953 CTTAAAGAAA
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:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (16 bp):
CCAAATTTGTAATTTA
Found at i:1919340 original size:2 final size:2
Alignment explanation
Indices: 1919333--1919403 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
1919323 AACAAATGAA
1919333 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1919375 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
1919404 CGACAATGAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1921024 original size:5 final size:5
Alignment explanation
Indices: 1921014--1921117 Score: 208
Period size: 5 Copynumber: 20.8 Consensus size: 5
1921004 ATTGGGCTAG
1921014 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1921064 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1921114 TTAT
1 TTAT
1921118 TGGTTACGCG
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 99 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:1924075 original size:3 final size:3
Alignment explanation
Indices: 1924067--1924109 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
1924057 AAAATGTATA
* *
1924067 AAT AAT AAT AAT ATT AAT AAT ATT AAT AAT AAT ATAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT A
1924110 CAATAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:1925457 original size:143 final size:141
Alignment explanation
Indices: 1925270--1925689 Score: 458
Period size: 143 Copynumber: 3.0 Consensus size: 141
1925260 CAGAAATACA
* * *
1925270 TTTTATTTAATATAACTATAATTATTATTTTTATATATTTCTGTTGTATTATTTAAAAAATTGTT
1 TTTTATTTAATATAA-TAAAATTATTATTTTTATATATTTCTGTTTTATTATTT-AAAAATTATT
* * *
1925335 AGCAATAATTCTTTCTTGACGAGAAAGATACAATACAAGTTATTTTAATTTTATATAAAAGAAGT
64 AGTAATAATTTTTTCTTGACGAGAAAGATACAATATAAGTTATTTTAATTTTATATAAAA-AA-T
*
1925400 ATTAAGATAAA-AACC
127 ATTAAAATAAATAA-C
* * * * * *
1925415 TTTTATTTAATATAA-AAAATTACTATTTTTATATGTTTCTGTTTTATCATTTAACATTTAATAG
1 TTTTATTTAATATAATAAAATTATTATTTTTATATATTTCTGTTTTATTATTTAAAAATTATTAG
* * *
1925479 TAATAATTTTTTTCTTGACGAGGAAGATACAATATAAGTTATTTTAATTTGATAT-ATAAATATT
66 TAATAA-TTTTTTCTTGACGAGAAAGATACAATATAAGTTATTTTAATTTTATATAAAAAATATT
*
1925543 AAAATAAATAAT
130 AAAATAAATAAC
* * * * * *
1925555 TTTTATTTAACATAATTAAAATTATTATTTCTATATATTTATGTTTTAATCTTTAAAAATCTTTT
1 TTTTATTTAATATAA-TAAAATTATTATTTTTATATATTTCTGTTTTATTATTTAAAAAT-TATT
* * * * *
1925620 AGTAATATTTTTTTCTTGA-GTAGAAATACACATTATAAATTATTTTAA-TTT-TAT-AAAAATA
64 AGTAATAATTTTTTCTTGACG-AGAAAGATACAATATAAGTTATTTTAATTTTATATAAAAAATA
1925681 TTAAAATAA
128 TTAAAATAA
1925690 CTATTGTTTT
Statistics
Matches: 232, Mismatches: 37, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
140 43 0.19
141 7 0.03
142 82 0.35
143 85 0.37
145 15 0.06
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (141 bp):
TTTTATTTAATATAATAAAATTATTATTTTTATATATTTCTGTTTTATTATTTAAAAATTATTAG
TAATAATTTTTTCTTGACGAGAAAGATACAATATAAGTTATTTTAATTTTATATAAAAAATATTA
AAATAAATAAC
Found at i:1926388 original size:2 final size:2
Alignment explanation
Indices: 1926381--1926412 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1926371 GATGTTTCAA
1926381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1926413 GCAATGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1928291 original size:50 final size:50
Alignment explanation
Indices: 1928216--1928316 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
1928206 ACTACACCTA
*
1928216 TGACCATTTAACTATGAGAGATTTTAATTTGACCATCGATCTTCTAATTT
1 TGACCATTTAACTATGAGAGATTTTAATTTGACCATCGACCTTCTAATTT
1928266 TGACCATTTAACTATGAGAGATTTTAATTTGACCATCGACCTTCTAATTT
1 TGACCATTTAACTATGAGAGATTTTAATTTGACCATCGACCTTCTAATTT
1928316 T
1 T
1928317 TCTAATTAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (50 bp):
TGACCATTTAACTATGAGAGATTTTAATTTGACCATCGACCTTCTAATTT
Found at i:1930505 original size:22 final size:21
Alignment explanation
Indices: 1930475--1930523 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
1930465 AACATTGTTA
*
1930475 TATATTAAT-TCAAATTTTAAT
1 TATAATAATATCAAATTTT-AT
*
1930496 TGATAATAATATTAAATTTTAT
1 T-ATAATAATATCAAATTTTAT
1930518 TATAAT
1 TATAAT
1930524 TCTAATAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.25
22 10 0.42
23 8 0.33
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TATAATAATATCAAATTTTAT
Found at i:1934782 original size:17 final size:17
Alignment explanation
Indices: 1934760--1934792 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1934750 TAAGAGTTAA
1934760 TTTAATAAATGAACTAG
1 TTTAATAAATGAACTAG
*
1934777 TTTAATTAATGAACTA
1 TTTAATAAATGAACTA
1934793 CTTCCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
TTTAATAAATGAACTAG
Found at i:1934822 original size:18 final size:18
Alignment explanation
Indices: 1934799--1934849 Score: 77
Period size: 18 Copynumber: 2.8 Consensus size: 18
1934789 ACTACTTCCC
1934799 TAAATG-AACTACATGATT
1 TAAATGCAA-TACATGATT
1934817 TAAATGCAATACATGATT
1 TAAATGCAATACATGATT
*
1934835 TAAATGCAATGCATG
1 TAAATGCAATACATG
1934850 CTTGAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 29 0.94
19 2 0.06
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (18 bp):
TAAATGCAATACATGATT
Found at i:1936473 original size:23 final size:23
Alignment explanation
Indices: 1936447--1936496 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1936437 AACATCTCTA
*
1936447 TTCATGAAAAATAGTTAAGTCTT
1 TTCATGAAAAATAGTTAAGTCAT
*
1936470 TTCATGAAAAATAGTTAATTCAT
1 TTCATGAAAAATAGTTAAGTCAT
1936493 TTCA
1 TTCA
1936497 CCCAAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (23 bp):
TTCATGAAAAATAGTTAAGTCAT
Found at i:1936503 original size:24 final size:23
Alignment explanation
Indices: 1936453--1936504 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
1936443 TCTATTCATG
* **
1936453 AAAAATAGTTAAGTCTTTTCATG
1 AAAAATAGTTAAGTCATTTCACC
*
1936476 AAAAATAGTTAATTCATTTCACCC
1 AAAAATAGTTAAGTCATTTCA-CC
1936500 AAAAA
1 AAAAA
1936505 GTCAGGTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (23 bp):
AAAAATAGTTAAGTCATTTCACC
Found at i:1940350 original size:20 final size:22
Alignment explanation
Indices: 1940327--1940370 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
1940317 AAATAATAGT
*
1940327 AATTAT-AAAA-TTAGAATATA
1 AATTATAAAAAGTAAGAATATA
*
1940347 AATTCTAAAAAGTAAGAATATA
1 AATTATAAAAAGTAAGAATATA
1940369 AA
1 AA
1940371 AAATAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 4 0.20
22 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (22 bp):
AATTATAAAAAGTAAGAATATA
Found at i:1947783 original size:16 final size:16
Alignment explanation
Indices: 1947749--1947783 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1947739 TAAATTAGAA
* *
1947749 TTAAAAAATTGTTATT
1 TTAAAAAATTATTAAT
1947765 TTAAAAAATTATTAAT
1 TTAAAAAATTATTAAT
1947781 TTA
1 TTA
1947784 TTCAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (16 bp):
TTAAAAAATTATTAAT
Found at i:1949921 original size:171 final size:170
Alignment explanation
Indices: 1949417--1949921 Score: 620
Period size: 172 Copynumber: 2.9 Consensus size: 170
1949407 TTATCGTTAT
* * * * * *
1949417 ATAATTTAGTGAGACATGCAAATAAAATCTA-AGAAAAAGGAATGACTCGTTCTAGGGGAAACAC
1 ATAATTTAGTGAGGCATGCAAATAAAATC-AGACAAAAAGGAAAGGCTCGTTCTAAGGGAAGCAC
* ** * *
1949481 TTTTCCTTTTTTCAGAGAATCTCTACCATGTCATAGTGTCTCATCCTATCAAACATAAATTGGGT
65 TTTTCCTTTTCTCAGAGAATCTCTGTCATGTCATAGTGTCTCACCCTATCAAACATAAATTTGGT
* *
1949546 TTACGGGAATAGTTCCCTAACTGCCAACATCATAACTTCAAC
130 TGAC-GGAATAGTTCCCTAACTACCAACATCATAACTTCAAC
* * * * *
1949588 ATAATTTAGTGAGGCATGCAGATAAAATCTGACAAAAAGGAAAAGCTCGTT-TCAAGGGATGCGT
1 ATAATTTAGTGAGGCATGCAAATAAAATCAGACAAAAAGGAAAGGCTCGTTCT-AAGGGAAGC-A
* ** * * * *
1949652 TTTTTTATTTTCTTAGAGAATCTATGTCATGTCATTGTGTATCATCCC-ATCAAACATAAATTTG
64 CTTTTCCTTTTCTCAGAGAATCTCTGTCATGTCATAGTGTCTCA-CCCTATCAAACATAAATTTG
* *
1949716 GTTGACGGAAATAGTTGCCTGACTACCAACATCATAACTTCAAC
128 GTTGACGG-AATAGTTCCCTAACTACCAACATCATAACTTCAAC
* *
1949760 ATAATTTAGTGAGGCGTGCAAATAAAATCAGACAAAAAGGAAAGGCTTGTTCTAAGGGAAGCACT
1 ATAATTTAGTGAGGCATGCAAATAAAATCAGACAAAAAGGAAAGGCTCGTTCTAAGGGAAGCACT
* *
1949825 TTTCCTTTTCTCAGAGAATCTCTGTCATGTCATAGTGTCTTACCCTATCAAACATAAATTTTGTT
66 TTTCCTTTTCTCAGAGAATCTCTGTCATGTCATAGTGTCTCACCCTATCAAACATAAATTTGGTT
* * *
1949890 GACGAGAATAGTTCCCCAACTATCGACATCAT
131 GACG-GAATAGTTCCCTAACTACCAACATCAT
1949922 TTCTTCTTTT
Statistics
Matches: 278, Mismatches: 48, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
170 4 0.01
171 130 0.47
172 141 0.51
173 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (170 bp):
ATAATTTAGTGAGGCATGCAAATAAAATCAGACAAAAAGGAAAGGCTCGTTCTAAGGGAAGCACT
TTTCCTTTTCTCAGAGAATCTCTGTCATGTCATAGTGTCTCACCCTATCAAACATAAATTTGGTT
GACGGAATAGTTCCCTAACTACCAACATCATAACTTCAAC
Found at i:1950024 original size:8 final size:8
Alignment explanation
Indices: 1949966--1950029 Score: 58
Period size: 8 Copynumber: 8.0 Consensus size: 8
1949956 AACACTATAT
*
1949966 CTCTTAAA
1 CTCTCAAA
1949974 CTCTCAAA
1 CTCTCAAA
*
1949982 TTCTCAAA
1 CTCTCAAA
*
1949990 C-CTGCTAA
1 CTCT-CAAA
*
1949998 CTCTCAAT
1 CTCTCAAA
* *
1950006 CTTTAAAA
1 CTCTCAAA
1950014 CTCTCAAA
1 CTCTCAAA
1950022 CTCTCAAA
1 CTCTCAAA
1950030 ATGGGGCGTA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
7 2 0.05
8 39 0.91
9 2 0.05
ACGTcount: A:0.36, C:0.31, G:0.02, T:0.31
Consensus pattern (8 bp):
CTCTCAAA
Found at i:1962129 original size:2 final size:2
Alignment explanation
Indices: 1962124--1962172 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
1962114 TATATATATA
*
1962124 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TT
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1962166 TG TG TG T
1 TG TG TG T
1962173 ATAATTTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:1962322 original size:39 final size:38
Alignment explanation
Indices: 1962253--1962364 Score: 104
Period size: 39 Copynumber: 2.9 Consensus size: 38
1962243 ATCTAACCCC
** * *
1962253 TAAACCATTAAAAAAACTTTAATACAATTTTAGAA-ACTCT
1 TAAACCATT-AAAAAACCATAAAACCATTTTA-AATAC-CT
1962293 T-AACCGATTTAAAAAACCAT-AAACCATTTTAAATACCT
1 TAAACC-A-TTAAAAAACCATAAAACCATTTTAAATACCT
*
1962331 TAAACCATTAAAAAACCCTAAAACCACTTTTAAA
1 TAAACCATTAAAAAACCATAAAACCA-TTTTAAA
1962365 CCCTAAAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
37 11 0.18
38 12 0.20
39 26 0.43
40 10 0.16
41 2 0.03
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.29
Consensus pattern (38 bp):
TAAACCATTAAAAAACCATAAAACCATTTTAAATACCT
Found at i:1962354 original size:19 final size:19
Alignment explanation
Indices: 1962250--1962395 Score: 75
Period size: 19 Copynumber: 7.6 Consensus size: 19
1962240 TTTATCTAAC
*
1962250 CCCTAAACCATTAAAAAAA
1 CCCTAAACCATTTAAAAAA
** * * *
1962269 CTTTAATACAATTTTAGAAA
1 CCCTAA-ACCATTTAAAAAA
* *
1962289 CTCTTAACCGATTTAAAAAA
1 CCCTAAACC-ATTTAAAAAA
* * *
1962309 CCATAAACCATTTTAAATA
1 CCCTAAACCATTTAAAAAA
*
1962328 CCTTAAACCA-TTAAAAAA
1 CCCTAAACCATTTAAAAAA
*
1962346 CCCTAAAACCACTTT--TAAA
1 CCCT-AAACCA-TTTAAAAAA
** *
1962365 CCCTAAAATACTTT-CAAAA
1 CCCTAAACCA-TTTAAAAAA
1962384 CCCTAAACCATT
1 CCCTAAACCATT
1962396 CTAACATAAA
Statistics
Matches: 95, Mismatches: 26, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
18 19 0.20
19 47 0.49
20 27 0.28
21 2 0.02
ACGTcount: A:0.47, C:0.24, G:0.01, T:0.27
Consensus pattern (19 bp):
CCCTAAACCATTTAAAAAA
Found at i:1962451 original size:15 final size:15
Alignment explanation
Indices: 1962431--1962466 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
1962421 AAATCACTTT
1962431 TAAACCAAAAAACCC
1 TAAACCAAAAAACCC
*
1962446 TAAACC-AAAAACCT
1 TAAACCAAAAAACCC
1962460 TAAACCA
1 TAAACCA
1962467 TAAGTGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.58, C:0.31, G:0.00, T:0.11
Consensus pattern (15 bp):
TAAACCAAAAAACCC
Found at i:1968204 original size:46 final size:46
Alignment explanation
Indices: 1968126--1968448 Score: 396
Period size: 46 Copynumber: 7.0 Consensus size: 46
1968116 ATACCATGAG
* * * * * *
1968126 TGGCA-CCTTTTATGCCGTTAATACACTGTTATGTATTTTTATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* ** * **
1968171 TGACATCCTTTCATGCCGATTTTGCACCTTTATGCATTTTTGTTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* *
1968217 TGGCATCCTTTCATGCCGATAATGCACTGTTATGCATTTTTATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* *
1968263 TGGCATCATTTCATGCCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
** *
1968309 TGGCATCCTTTCATGCCGATAACACACCGTTATGCATTTTCATGTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* *
1968355 TGGCATCCTTTCATACCGATAATGCACCATTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
** * * *
1968401 TAACATCCTTTCATGCCAATAATGCATCATTATGCATTTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCA-TTTTCATTTA
1968448 T
1 T
1968449 TCATTCATTT
Statistics
Matches: 241, Mismatches: 35, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
45 4 0.02
46 226 0.94
47 11 0.05
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.42
Consensus pattern (46 bp):
TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
Found at i:1971673 original size:22 final size:21
Alignment explanation
Indices: 1971646--1971704 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
1971636 TTAACTGACG
1971646 TTGACCACCGTTGACCAGAACT-
1 TTGACCACCGTTGACC-G-ACTA
**
1971668 TTGACCGGCGTTGACCGACTA
1 TTGACCACCGTTGACCGACTA
*
1971689 TTGAACGACCGTTGAC
1 TTG-ACCACCGTTGAC
1971705 TTTTTTTGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 3 0.10
21 4 0.13
22 23 0.77
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (21 bp):
TTGACCACCGTTGACCGACTA
Found at i:1973836 original size:24 final size:24
Alignment explanation
Indices: 1973809--1973924 Score: 187
Period size: 24 Copynumber: 4.8 Consensus size: 24
1973799 TTTTATTTGA
* * *
1973809 ATTCTAATATGATACTTGACATAG
1 ATTCTGATCTGATACTTGACATGG
*
1973833 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
*
1973857 AGTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
1973881 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
1973905 ATTCTGATCTGATACTTGAC
1 ATTCTGATCTGATACTTGAC
1973925 CTCAATTATG
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 85 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:1976015 original size:10 final size:10
Alignment explanation
Indices: 1975997--1976038 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
1975987 TTGACTGTTG
1975997 ACTGTTGACC
1 ACTGTTGACC
1976007 GAC-GTTGACC
1 -ACTGTTGACC
1976017 ACTGTTGACC
1 ACTGTTGACC
*
1976027 ACCCGTTGACC
1 A-CTGTTGACC
1976038 A
1 A
1976039 GAACTTTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 2 0.07
10 15 0.54
11 11 0.39
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.24
Consensus pattern (10 bp):
ACTGTTGACC
Found at i:1978211 original size:24 final size:24
Alignment explanation
Indices: 1978184--1978269 Score: 109
Period size: 24 Copynumber: 3.6 Consensus size: 24
1978174 TTCTATTTGA
*
1978184 ATTCTGATCTGATAATTGAGATGG
1 ATTCTGATCTGATAATTGACATGG
* *
1978208 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATAATTGACATGG
* **
1978232 ATTCTGATATGATGTTTGACATGG
1 ATTCTGATCTGATAATTGACATGG
*
1978256 ATTATGATCTGATA
1 ATTCTGATCTGATA
1978270 CTTGGCCTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.40
Consensus pattern (24 bp):
ATTCTGATCTGATAATTGACATGG
Found at i:1982444 original size:46 final size:46
Alignment explanation
Indices: 1982343--1982710 Score: 470
Period size: 46 Copynumber: 8.0 Consensus size: 46
1982333 ATACCGTGAG
* * * * * *
1982343 TGGCA-CCTTTTATGTCGTTAATACACCGTTATGTATTTTCATTTG
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* ** ** *
1982388 TGG-AACCATTTCATGCCGATTTTGCATTGTTATGCATTTTCGTTTA
1 TGGCATCC-TTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* * * * *
1982434 TGACATCATTTCATGTCAATAATGCACCGTTATGCATTTTCTTTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
*
1982480 TGGCATCCTTTCATGCCGATAATGTACCGTTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* *
1982526 TGGCATCCTTTCATGTCGATAATGCATCGTTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* *
1982572 TGGCATCCTTTCATGCCAATAATGCACCATTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* **
1982618 TGGCATCCTTTCATGCCGATAATGCACCATTATGTGTTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
* *
1982664 TGGCATCCTTTCATGCCAATAAAGCACCGTTATGCATTTTCATTTA
1 TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
1982710 T
1 T
1982711 TCAATCATTT
Statistics
Matches: 278, Mismatches: 42, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
44 1 0.00
45 5 0.02
46 270 0.97
47 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (46 bp):
TGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTA
Found at i:1986300 original size:18 final size:18
Alignment explanation
Indices: 1986277--1986318 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1986267 CATACTTTAA
*
1986277 AATTAATATTTTTAATTT
1 AATTAATAATTTTAATTT
*
1986295 AATTAATAATTTTACTTT
1 AATTAATAATTTTAATTT
*
1986313 TATTAA
1 AATTAA
1986319 AAAAATATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTAATAATTTTAATTT
Found at i:1986806 original size:31 final size:30
Alignment explanation
Indices: 1986741--1986821 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 30
1986731 TTAAATTGTG
* * *
1986741 AAATATATAAATATAAAAAAATATTGAAATA
1 AAATAAATAAAAAT-AAAAAATATTGAAAAA
1986772 AAATAAATAAAAATAAAAAAT-TTGAGTAAAA
1 AAATAAATAAAAATAAAAAATATTGA--AAAA
1986803 AAATTAAA-ATAAAATAAAA
1 AAA-TAAATA-AAAATAAAA
1986822 TTAAAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 4 0.09
30 7 0.16
31 19 0.44
32 13 0.30
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (30 bp):
AAATAAATAAAAATAAAAAATATTGAAAAA
Found at i:1986816 original size:13 final size:14
Alignment explanation
Indices: 1986756--1986846 Score: 60
Period size: 14 Copynumber: 6.4 Consensus size: 14
1986746 TATAAATATA
*
1986756 AAAAAATATTGAAAT
1 AAAAAA-ATTAAAAT
*
1986771 AAAATAAATAAAAAT
1 AAAA-AAATTAAAAT
** *
1986786 -AAAAAATTTGAGT
1 AAAAAAATTAAAAT
1986799 AAAAAAATTAAAAT
1 AAAAAAATTAAAAT
1986813 AAAATAAAATTAAAAT
1 -AAA-AAAATTAAAAT
** *
1986829 TTAAAAA-TGAAAT
1 AAAAAAATTAAAAT
1986842 AAAAA
1 AAAAA
1986847 GAAAAAATGT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
13 14 0.24
14 17 0.29
15 14 0.24
16 13 0.22
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (14 bp):
AAAAAAATTAAAAT
Found at i:1986845 original size:43 final size:42
Alignment explanation
Indices: 1986756--1986846 Score: 96
Period size: 43 Copynumber: 2.1 Consensus size: 42
1986746 TATAAATATA
* *
1986756 AAAAAATATTGAAATAAAATAAATAAAAATAAAAAATTTGAGT
1 AAAAAATATTAAAATAAAATAAATAAAAATAAAAAA-TTGAAT
* *
1986799 AAAAAA-ATTAAAATAAAATAAAATTAAAATTTAAAAA-TGAAAT
1 AAAAAATATTAAAATAAAAT-AAA-TAAAAATAAAAAATTG-AAT
1986842 AAAAA
1 AAAAA
1986847 GAAAAAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
42 14 0.34
43 16 0.39
44 11 0.27
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (42 bp):
AAAAAATATTAAAATAAAATAAATAAAAATAAAAAATTGAAT
Found at i:1988424 original size:37 final size:36
Alignment explanation
Indices: 1988327--1988428 Score: 186
Period size: 36 Copynumber: 2.8 Consensus size: 36
1988317 AACTATATAA
1988327 AAAATGTTCTCAAAACTATATATTATATAAGTTTTC
1 AAAATGTTCTCAAAACTATATATTATATAAGTTTTC
1988363 AAAATGTTCTCAAAACTATATATTATATAAGTTTTC
1 AAAATGTTCTCAAAACTATATATTATATAAGTTTTC
*
1988399 AAAATGTTTTCAAAAACTATATATTATATA
1 AAAATGTTCTC-AAAACTATATATTATATA
1988429 TATTTCAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
36 46 0.72
37 18 0.28
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (36 bp):
AAAATGTTCTCAAAACTATATATTATATAAGTTTTC
Found at i:1989313 original size:167 final size:166
Alignment explanation
Indices: 1989095--1989460 Score: 499
Period size: 167 Copynumber: 2.2 Consensus size: 166
1989085 TTCACTGTCA
* *
1989095 TTGAGCTGAATGGAATCTAACTCGAAGGTTTTTGTTGACATATAACCCTTCTCACCTTGAGCTAT
1 TTGAGCTGAATGTAATCAAACTCGAAGG--TTTGTTGACATATAACCCTTCTCACCTTGAGCTAT
1989160 GCTGTAAATTTGATATGACC-TTGAG-TGGAATAG-AATCGAACTCGAAGGTTTTTATTGACAGA
64 GCTGTAAATTTGATA-GACCGTTGAGCT-GAAT-GTAATCGAACTCGAAGG--TTTATTGACAGA
1989222 TAGA-CCTTCTCGCC-TAAGCTATGCTGTAAATTTGATAGGCCC
124 TA-ACCCTTCTCGCCTTAAGCTATGCTGTAAATTTGATAGGCCC
* * * *
1989264 TTGATCTGAATGTAATCGAACTCGAAGGTTTGTTGACATATAGCCCTTCTCGCCTTGAGCTATGC
1 TTGAGCTGAATGTAATCAAACTCGAAGGTTTGTTGACATATAACCCTTCTCACCTTGAGCTATGC
* * *
1989329 TGTAAATTTGATAGGCCGTTGAGCTGAATGTAATCGAACTCGAAGGTTTGTTGATAGATAACCCT
66 TGTAAATTTGATAGACCGTTGAGCTGAATGTAATCGAACTCGAAGGTTTATTGACAGATAACCCT
* * **
1989394 TCTCGCCTTGAGCTATGCTGTAAATTTGATATGCGT
131 TCTCGCCTTAAGCTATGCTGTAAATTTGATAGGCCC
*
1989430 TTGAGCTGAATGTAATCAAACTAGAAGGTTT
1 TTGAGCTGAATGTAATCAAACTCGAAGGTTT
1989461 TCATTGACAG
Statistics
Matches: 177, Mismatches: 15, Indels: 13
0.86 0.07 0.06
Matches are distributed among these distances:
164 1 0.01
165 22 0.12
166 56 0.32
167 72 0.41
168 1 0.01
169 25 0.14
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (166 bp):
TTGAGCTGAATGTAATCAAACTCGAAGGTTTGTTGACATATAACCCTTCTCACCTTGAGCTATGC
TGTAAATTTGATAGACCGTTGAGCTGAATGTAATCGAACTCGAAGGTTTATTGACAGATAACCCT
TCTCGCCTTAAGCTATGCTGTAAATTTGATAGGCCC
Found at i:1989344 original size:83 final size:83
Alignment explanation
Indices: 1989095--1989460 Score: 479
Period size: 83 Copynumber: 4.4 Consensus size: 83
1989085 TTCACTGTCA
* * * *
1989095 TTGAGCTGAATGGAATCTAACTCGAAGGTTTTTGTTGACATATAACCCTTCTCACCTTGAGCTAT
1 TTGAGCTGAATGTAATCGAACTCGAAGG--TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
* *
1989160 GCTGTAAATTTGATATGACC
64 GCTGTAAATTTGATAGGCCC
* *
1989180 TTGAG-TGGAATAG-AATCGAACTCGAAGGTTTTTATTGACAGATAGA-CCTTCTCGCC-TAAGC
1 TTGAGCT-GAAT-GTAATCGAACTCGAAGG--TTTGTTGACAGATA-ACCCTTCTCGCCTTGAGC
1989241 TATGCTGTAAATTTGATAGGCCC
61 TATGCTGTAAATTTGATAGGCCC
* * *
1989264 TTGATCTGAATGTAATCGAACTCGAAGGTTTGTTGACATATAGCCCTTCTCGCCTTGAGCTATGC
1 TTGAGCTGAATGTAATCGAACTCGAAGGTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
*
1989329 TGTAAATTTGATAGGCCG
66 TGTAAATTTGATAGGCCC
*
1989347 TTGAGCTGAATGTAATCGAACTCGAAGGTTTGTTGATAGATAACCCTTCTCGCCTTGAGCTATGC
1 TTGAGCTGAATGTAATCGAACTCGAAGGTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
* **
1989412 TGTAAATTTGATATGCGT
66 TGTAAATTTGATAGGCCC
* *
1989430 TTGAGCTGAATGTAATCAAACTAGAAGGTTT
1 TTGAGCTGAATGTAATCGAACTCGAAGGTTT
1989461 TCATTGACAG
Statistics
Matches: 252, Mismatches: 22, Indels: 16
0.87 0.08 0.06
Matches are distributed among these distances:
82 22 0.09
83 132 0.52
84 49 0.19
85 47 0.19
86 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (83 bp):
TTGAGCTGAATGTAATCGAACTCGAAGGTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATAGGCCC
Found at i:1995154 original size:19 final size:19
Alignment explanation
Indices: 1995130--1995166 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1995120 AAATTGCGAA
1995130 ATATA-TAAATATAAAAAAT
1 ATATATTAAA-ATAAAAAAT
1995149 ATATATTAAAATAAAAAA
1 ATATATTAAAATAAAAAA
1995167 AATTGAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
ATATATTAAAATAAAAAAT
Found at i:1995195 original size:13 final size:13
Alignment explanation
Indices: 1995175--1995217 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
1995165 AAAATTGAGT
1995175 AAAA-AATAAAAA
1 AAAATAATAAAAA
*
1995187 AAAATAATAAAAG
1 AAAATAATAAAAA
1995200 AAAATAA-AAAGAA
1 AAAATAATAAA-AA
1995213 AAAAT
1 AAAAT
1995218 GTTAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 7 0.26
13 20 0.74
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.12
Consensus pattern (13 bp):
AAAATAATAAAAA
Found at i:1995197 original size:20 final size:20
Alignment explanation
Indices: 1995142--1995198 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
1995132 ATATAAATAT
*
1995142 AAAAAATATATATTAAAATAAA
1 AAAAAATA-ATA-AAAAATAAA
* *
1995164 AAAAATTGAGTAAAAAATAAA
1 AAAAAAT-AATAAAAAATAAA
1995185 AAAAAATAATAAAA
1 AAAAAATAATAAAA
1995199 GAAAATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 6 0.21
21 14 0.48
22 8 0.28
23 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (20 bp):
AAAAAATAATAAAAAATAAA
Found at i:1997930 original size:11 final size:11
Alignment explanation
Indices: 1997914--1997949 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1997904 TCGGGTTAGT
1997914 AAAAAATAAAA
1 AAAAAATAAAA
*
1997925 AAAAAATCAAA
1 AAAAAATAAAA
*
1997936 AACAAATAAAA
1 AAAAAATAAAA
1997947 AAA
1 AAA
1997950 CAAAAGAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:1997946 original size:18 final size:18
Alignment explanation
Indices: 1997915--1997954 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1997905 CGGGTTAGTA
* *
1997915 AAAAATAAAAAAAAAATC
1 AAAAACAAAAAAAAAAAC
*
1997933 AAAAACAAATAAAAAAAC
1 AAAAACAAAAAAAAAAAC
1997951 AAAA
1 AAAA
1997955 GAAAGAAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (18 bp):
AAAAACAAAAAAAAAAAC
Found at i:1997950 original size:12 final size:12
Alignment explanation
Indices: 1997917--1997953 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1997907 GGTTAGTAAA
1997917 AAATAAAAAAA-
1 AAATAAAAAAAC
*
1997928 AAAT-CAAAAAC
1 AAATAAAAAAAC
1997939 AAATAAAAAAAC
1 AAATAAAAAAAC
1997951 AAA
1 AAA
1997954 AGAAAGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
10 5 0.23
11 8 0.36
12 9 0.41
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (12 bp):
AAATAAAAAAAC
Found at i:1998234 original size:26 final size:26
Alignment explanation
Indices: 1998197--1998255 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
1998187 AAGAACGAGT
* *
1998197 GGTAAAAGGCAAGAGTGGTCATTAAG
1 GGTAAAACGCAAGAGTGATCATTAAG
1998223 GGTAAAACGCAAGAGTGATCATTAAG
1 GGTAAAACGCAAGAGTGATCATTAAG
1998249 GGTAAAA
1 GGTAAAA
1998256 GCCATCCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.31, T:0.19
Consensus pattern (26 bp):
GGTAAAACGCAAGAGTGATCATTAAG
Found at i:1998324 original size:14 final size:15
Alignment explanation
Indices: 1998305--1998333 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1998295 GGAGTGTTTG
1998305 GTGAGGTT-TTTTTT
1 GTGAGGTTATTTTTT
1998319 GTGAGGTTATTTTTT
1 GTGAGGTTATTTTTT
1998334 TTATTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.10, C:0.00, G:0.28, T:0.62
Consensus pattern (15 bp):
GTGAGGTTATTTTTT
Found at i:2004460 original size:36 final size:36
Alignment explanation
Indices: 2004395--2004708 Score: 369
Period size: 36 Copynumber: 8.8 Consensus size: 36
2004385 AAACTATATA
**
2004395 AAAATGTTTAAAAAACTATATATTATATATATGTTTTC
1 AAAATGTTTTCAAAACTATATATTATATA-A-GTTTTC
* *
2004433 AAAATGTTTTCAAAACTATATATTATATATGTTTTTT
1 AAAATGTTTTCAAAACTATATATTATATAAG-TTTTC
****
2004470 AAAAAAAATTCAAAACTATATATTATATAAGTTTTC
1 AAAATGTTTTCAAAACTATATATTATATAAGTTTTC
*
2004506 AAAATGTTTTCAAAACTATATATTATATAAGCTTTC
1 AAAATGTTTTCAAAACTATATATTATATAAGTTTTC
* *
2004542 AAAATGTTTTCAAAACTATATATTATATATGTTTTTTAA
1 AAAATGTTTTCAAAACTATATATTATATAAG--TTTT-C
2004581 AAAATGTTTTCAAAACTATATATTATATAAGTTTTC
1 AAAATGTTTTCAAAACTATATATTATATAAGTTTTC
*
2004617 AAAATGTTTTCAAAACTATATATCATATAAGTTTTC
1 AAAATGTTTTCAAAACTATATATTATATAAGTTTTC
2004653 ---A-------AAAACTATATATTATATAAGTTTTC
1 AAAATGTTTTCAAAACTATATATTATATAAGTTTTC
* *
2004679 AAAATGTTTTCAAAATTTTTATATTATATA
1 AAAATGTTTTCAAAA-CTATATATTATATA
2004709 TATTTCAAAA
Statistics
Matches: 237, Mismatches: 24, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
26 24 0.10
29 1 0.00
33 1 0.00
36 105 0.44
37 46 0.19
38 30 0.13
39 30 0.13
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (36 bp):
AAAATGTTTTCAAAACTATATATTATATAAGTTTTC
Found at i:2004533 original size:111 final size:110
Alignment explanation
Indices: 2004395--2004656 Score: 436
Period size: 111 Copynumber: 2.4 Consensus size: 110
2004385 AAACTATATA
**
2004395 AAAATGTTTAAAAAACTATATATTATATATATGTTTTCAAAATGTTTTCAAAACTATATATTATA
1 AAAATGTTTTCAAAACTATATATTATATA-A-GTTTTCAAAATGTTTTCAAAACTATATATTATA
2004460 TATGTTTTTTAAAAAA-AATTCAAAACTATATATTATATAAGTTTTC
64 TATGTTTTTTAAAAAAGAATTCAAAACTATATATTATATAAGTTTTC
*
2004506 AAAATGTTTTCAAAACTATATATTATATAAGCTTTCAAAATGTTTTCAAAACTATATATTATATA
1 AAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAATGTTTTCAAAACTATATATTATATA
**
2004571 TGTTTTTTAAAAAATGTTTTCAAAACTATATATTATATAAGTTTTC
66 TGTTTTTTAAAAAA-GAATTCAAAACTATATATTATATAAGTTTTC
*
2004617 AAAATGTTTTCAAAACTATATATCATATAAGTTTTCAAAA
1 AAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAA
2004657 ACTATATATT
Statistics
Matches: 142, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
109 48 0.34
110 1 0.01
111 93 0.65
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (110 bp):
AAAATGTTTTCAAAACTATATATTATATAAGTTTTCAAAATGTTTTCAAAACTATATATTATATA
TGTTTTTTAAAAAAGAATTCAAAACTATATATTATATAAGTTTTC
Found at i:2004601 original size:75 final size:74
Alignment explanation
Indices: 2004395--2004708 Score: 352
Period size: 75 Copynumber: 4.4 Consensus size: 74
2004385 AAACTATATA
** *
2004395 AAAATGTTTAAAAAACTATATATTATATATA-TGTTTTCAAAATGTTTTCAAAACTATATATTAT
1 AAAATGTTTTCAAAACTATATATTATATA-AGTTTTTTCAAAATGTTTTCAAAACTATATATTAT
* *
2004459 ATATGTTTTTT
65 ATAAG-TTTTC
****
2004470 AAAAAAAATTCAAAACTATATATTATATAAG--TTTTCAAAATGTTTTCAAAACTATATATTATA
1 AAAATGTTTTCAAAACTATATATTATATAAGTTTTTTCAAAATGTTTTCAAAACTATATATTATA
*
2004533 TAAGCTTTC
66 TAAGTTTTC
* *
2004542 AAAATGTTTTCAAAACTATATATTATATATGTTTTTTAAAAAATGTTTTCAAAACTATATATTAT
1 AAAATGTTTTCAAAACTATATATTATATAAGTTTTTT-CAAAATGTTTTCAAAACTATATATTAT
2004607 ATAAGTTTTC
65 ATAAGTTTTC
*
2004617 AAAATGTTTTCAAAACTATATATCATATAAG--TTTTC---A-------AAAACTATATATTATA
1 AAAATGTTTTCAAAACTATATATTATATAAGTTTTTTCAAAATGTTTTCAAAACTATATATTATA
2004670 TAAGTTTTC
66 TAAGTTTTC
* *
2004679 AAAATGTTTTCAAAATTTTTATATTATATA
1 AAAATGTTTTCAAAA-CTATATATTATATA
2004709 TATTTCAAAA
Statistics
Matches: 212, Mismatches: 22, Indels: 22
0.83 0.09 0.09
Matches are distributed among these distances:
62 40 0.19
63 11 0.05
69 1 0.00
72 29 0.14
73 39 0.18
74 5 0.02
75 87 0.41
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (74 bp):
AAAATGTTTTCAAAACTATATATTATATAAGTTTTTTCAAAATGTTTTCAAAACTATATATTATA
TAAGTTTTC
Found at i:2004663 original size:26 final size:26
Alignment explanation
Indices: 2004622--2004682 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
2004612 TTTTCAAAAT
2004622 GTTTTC-AAAACTATATATCATATAA
1 GTTTTCAAAAACTATATATCATATAA
*
2004647 GTTTTCAAAAACTATATATTATATAA
1 GTTTTCAAAAACTATATATCATATAA
2004673 GTTTTCAAAA
1 GTTTTCAAAA
2004683 TGTTTTCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 6 0.18
26 28 0.82
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (26 bp):
GTTTTCAAAAACTATATATCATATAA
Found at i:2004715 original size:62 final size:61
Alignment explanation
Indices: 2004588--2004720 Score: 198
Period size: 62 Copynumber: 2.2 Consensus size: 61
2004578 TAAAAAATGT
2004588 TTTC-AAAACTATATATTATATAAGTTTTCAAAATGTTTTCAAAACTATATATCATATAAG
1 TTTCAAAAACTATATATTATATAAGTTTTCAAAATGTTTTCAAAACTATATATCATATAAG
* * *
2004648 TTTTCAAAAACTATATATTATATAAGTTTTCAAAATGTTTTCAAAATTTTTATATTATATATA-
1 -TTTCAAAAACTATATATTATATAAGTTTTCAAAATGTTTTCAAAA-CTATATATCATATA-AG
2004711 TTTCAAAAAC
1 TTTCAAAAAC
2004721 CAATTTTTAA
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
61 4 0.06
62 50 0.76
63 11 0.17
64 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (61 bp):
TTTCAAAAACTATATATTATATAAGTTTTCAAAATGTTTTCAAAACTATATATCATATAAG
Found at i:2006330 original size:26 final size:26
Alignment explanation
Indices: 2006301--2006383 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
2006291 TTATTTTTGT
*
2006301 TATAATTTAAATTGATATAATTTATA
1 TATAATTTAAATTAATATAATTTATA
* *
2006327 TATAATAATAATTTTTAATA-AATTTAT-
1 TATAAT-TTAA--ATTAATATAATTTATA
* *
2006354 TATAGTTTAAATTAATATGATTTATA
1 TATAATTTAAATTAATATAATTTATA
2006380 TATA
1 TATA
2006384 TTGTAAAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
24 6 0.13
25 6 0.13
26 13 0.29
27 8 0.18
28 7 0.16
29 5 0.11
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TATAATTTAAATTAATATAATTTATA
Found at i:2007321 original size:223 final size:223
Alignment explanation
Indices: 2007010--2007556 Score: 799
Period size: 223 Copynumber: 2.4 Consensus size: 223
2007000 TTGTCGGTTT
* * ** *
2007010 GTGTCGATACTTTATTAAAATATATTAATCCATAACAATATAACAAGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
* **
2007075 CGGTTTATAAATGACAAAACAGGTAAAGCGCTACTGGACATATTGAAAGTGTCGA-TACTTTATA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGACATATTGAAAGTGTC-ATTACTTTATA
* * * * *
2007139 AAAATGTATCTATCCATAATAATATAACTGGTAAAAAATGACAAAACCGGTCTATAAATGACAAA
129 AAAATGTATCGATCAATAACAATAAAACAGGTAAAAAATGACAAAACCGGTCTATAAATGACAAA
2007204 ACAAGTAAAGCGCTACCGGATATATTGAAA
194 ACAAGTAAAGCGCTACCGGATATATTGAAA
* * *
2007234 GTGTCGATAATTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * *
2007299 GGTCTATAAATGACAAAACAGGTAAATCGCTACCAGATATATTGAAAGTGTCATTTCTTTATAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGACATATTGAAAGTGTCATTACTTTATAAA
*
2007364 AATGTATCGATCAATAACAATAAAACAGGTAAAAAATGACAAAACCGGTTTATAAATGACAAAAC
131 AATGTATCGATCAATAACAATAAAACAGGTAAAAAATGACAAAACCGGTCTATAAATGACAAAAC
* *
2007429 AGGTAAAGCGCTACCGGATATGTTGAAA
196 AAGTAAAGCGCTACCGGATATATTGAAA
* *
2007457 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* ** * * *
2007522 GATCTCGAAATGACAAAACCGGTGAAGAGCTACCA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCA
2007557 AATATGTTGA
Statistics
Matches: 288, Mismatches: 34, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
222 1 0.00
223 246 0.85
224 41 0.14
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (223 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGACATATTGAAAGTGTCATTACTTTATAAA
AATGTATCGATCAATAACAATAAAACAGGTAAAAAATGACAAAACCGGTCTATAAATGACAAAAC
AAGTAAAGCGCTACCGGATATATTGAAA
Found at i:2007344 original size:112 final size:112
Alignment explanation
Indices: 2007010--2007583 Score: 794
Period size: 111 Copynumber: 5.1 Consensus size: 112
2007000 TTGTCGGTTT
* * ** *
2007010 GTGTCGATACTTTATTAAAATATATTAATCCATAACAATATAACAAGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
* * *
2007075 CGGTTTATAAATGACAAAACAGGTAAAGCGCTACTGGACATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
2007123 GTGTCGATACTTTATAAAAATGTATCTATCCATAATAATATAACTGGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
2007187 GGTCTATAAATGACAAAACAAGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
2007234 GTGTCGATAATTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
2007299 GGTCTATAAATGACAAAACAGGTAAATCGCTACCAGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
2007346 GTGTC-ATTTCTTTATAAAAATGTATCGATCAATAACAATAAAACAGGT-AAAAAATGACAAAAC
1 GTGTCGA-TACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
* *
2007409 CGGTTTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
2007457 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* ** * * * ** * *
2007522 GATCTCGAAATGACAAAACCGGTGAAGAGCTACCAAATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
2007569 GTGTCGATATTTTAT
1 GTGTCGATACTTTAT
2007584 TATAAGTATC
Statistics
Matches: 411, Mismatches: 46, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
111 204 0.50
112 166 0.40
113 41 0.10
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:2007767 original size:182 final size:182
Alignment explanation
Indices: 2007454--2008636 Score: 1976
Period size: 182 Copynumber: 6.5 Consensus size: 182
2007444 GGATATGTTG
2007454 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * ** *
2007519 ACCGATCTCGAAATGACAAAACCGGTGAAGAGCTACCAAATATGTTGATAGTGTCGATATTTTAT
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
* *
2007584 TATAAGTATCGACACTTTTAGAATTTAAAAGAGAAGAAGTTAAAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
*
2007636 AAAGTGTCGATATTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * **
2007701 ATCGGTCTCGAAATAACAAAACCCGTAAAGAGCTACCAAATATGTTGATAGTGTCGATACTTTAT
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
*
2007766 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
* * *
2007818 AAAGTATTGATACTTTATAAAAATGTATCGATCCATAACAATATAACGGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
*
2007883 ATCGGTCTCGAAATGATAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
*
2007948 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGTTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
2008000 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* *
2008064 ACCGGTCTCGAAATGACAAAATCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
* * *
2008129 TACAAGTTTCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCGAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
*
2008181 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * * *
2008246 ACCGGTCTCAAAATGACAAAACTGGTAAAGAGCTAACGGATATGTTGATAGTGTCGATATTTTAT
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
*
2008311 TATAAGTATCGACACTTTTGGAATTTAAAAGA-ATAGAAGTTATAGCGCCAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGA-AGAAGTTATAGCGCTAAT
* *
2008363 AAAGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACATGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* *
2008428 ATCGATCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGCGTCGATACTTTAT
66 ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
* *
2008493 TATAAGTATCGACATTTTTGGAATTTAAAAGA-ATAGAAGTTATAGCGCCAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGA-AGAAGTTATAGCGCTAAT
*
2008545 AAAGTGTCGATGCTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
*
2008610 ATCGATCTCGAAATGACAAAACCGGTA
66 ATCGGTCTCGAAATGACAAAACCGGTA
2008637 GTAAAAAAGT
Statistics
Matches: 947, Mismatches: 52, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
181 174 0.18
182 773 0.82
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
ATCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
Found at i:2008535 original size:545 final size:546
Alignment explanation
Indices: 2007454--2008636 Score: 1994
Period size: 545 Copynumber: 2.2 Consensus size: 546
2007444 GGATATGTTG
2007454 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* *
2007519 ACCGATCTCGAAATGACAAAACCGGTGAAGAGCTACCAAATATGTTGATAGTGTCGATATTTTAT
66 ACCGATCTCGAAATGACAAAACCGGTAAAGAGCTACCAAATATGTTGATAGTGTCGATACTTTAT
* * *
2007584 TATAAGTATCGACACTTTTAGAATTTAAAAGAGAAGAAGTTAAAGCGCTAATAAAGTGTCGATAT
131 TACAAGTATCGACACTTTTAGAATTTAAAAGAGAAGAAGTTAAAGCGCGAATAAAGTGTCGATAC
* *
2007649 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCGAAA
196 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAA
*
2007714 TAACAAAACCCGTAAAGAGCTACCAAATATGTTGATAGTGTCGATACTTTATTATAAGTATCGAC
261 TAACAAAACCCGTAAAGAGCTAACAAATATGTTGATAGTGTCGATACTTTATTATAAGTATCGAC
* * *
2007779 ACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCTAATAAAGTATTGATACTTTATAAAAATGT
326 ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTATCGATACTTTATAAAAATGT
* * *
2007844 ATCGATCCATAACAATATAACGGGTAAAAATATGATAAAATCGGTCTCGAAATGATAAAACCGGT
391 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGATCTCGAAATGACAAAACCGGT
*
2007909 AAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTT
456 AAAGAGCTACCGGATATGTTGATAGCGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTT
**
2007974 AAAAGAGAAGAAGTTATAGCGTTAAT
521 AAAAGAGAAGAAGTTATAGCGCCAAT
2008000 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * **
2008064 ACCGGTCTCGAAATGACAAAATCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
66 ACCGATCTCGAAATGACAAAACCGGTAAAGAGCTACCAAATATGTTGATAGTGTCGATACTTTAT
* * *
2008129 TACAAGTTTCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCGAATAAAGTGTCGATAC
131 TACAAGTATCGACACTTTTAGAATTTAAAAGAGAAGAAGTTAAAGCGCGAATAAAGTGTCGATAC
*
2008194 TTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAACCGGTCTCAAAA
196 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAA
* ** ** *
2008259 TGACAAAACTGGTAAAGAGCTAACGGATATGTTGATAGTGTCGATATTTTATTATAAGTATCGAC
261 TAACAAAACCCGTAAAGAGCTAACAAATATGTTGATAGTGTCGATACTTTATTATAAGTATCGAC
*
2008324 ACTTTTGGAATTTAAAAGA-ATAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG
326 ACTTTTGGAATTTAAAAGAGA-AGAAGTTATAGCGCCAATAAAGTATCGATACTTTATAAAAATG
* *
2008388 TATCGATCTATAACAATATAACATGTAAAAATATGATAAAATCGATCTCGAAATGACAAAACCGG
390 TATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGATCTCGAAATGACAAAACCGG
*
2008453 TAAAGAGCTACCGGATATGTTGATAGCGTCGATACTTTATTATAAGTATCGACATTTTTGGAATT
455 TAAAGAGCTACCGGATATGTTGATAGCGTCGATACTTTATTATAAGTATCGACACTTTTGGAATT
2008518 TAAAAGA-ATAGAAGTTATAGCGCCAAT
520 TAAAAGAGA-AGAAGTTATAGCGCCAAT
*
2008545 AAAGTGTCGATGCTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
*
2008610 ATCGATCTCGAAATGACAAAACCGGTA
66 ACCGATCTCGAAATGACAAAACCGGTA
2008637 GTAAAAAAGT
Statistics
Matches: 595, Mismatches: 39, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
544 2 0.00
545 505 0.85
546 88 0.15
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (546 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
ACCGATCTCGAAATGACAAAACCGGTAAAGAGCTACCAAATATGTTGATAGTGTCGATACTTTAT
TACAAGTATCGACACTTTTAGAATTTAAAAGAGAAGAAGTTAAAGCGCGAATAAAGTGTCGATAC
TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAA
TAACAAAACCCGTAAAGAGCTAACAAATATGTTGATAGTGTCGATACTTTATTATAAGTATCGAC
ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTATCGATACTTTATAAAAATGT
ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATCGATCTCGAAATGACAAAACCGGT
AAAGAGCTACCGGATATGTTGATAGCGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTT
AAAAGAGAAGAAGTTATAGCGCCAAT
Found at i:2009070 original size:23 final size:23
Alignment explanation
Indices: 2009015--2009071 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
2009005 TTAGTTAGAA
* *
2009015 AATAAATTACTATAAGTGCTACCT
1 AATAAATTA-TATAAGCGCTACAT
* *
2009039 ATTACATTATATAAGCGCTACAT
1 AATAAATTATATAAGCGCTACAT
*
2009062 AATATATTAT
1 AATAAATTAT
2009072 TGTACTTAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (23 bp):
AATAAATTATATAAGCGCTACAT
Found at i:2011862 original size:13 final size:12
Alignment explanation
Indices: 2011825--2011861 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
2011815 TTAAACAAAC
2011825 AAAAGTATTTTT
1 AAAAGTATTTTT
*
2011837 AAAAGCCATTTTT
1 AAAAG-TATTTTT
2011850 AAAAGTATTTTT
1 AAAAGTATTTTT
2011862 TCACTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (12 bp):
AAAAGTATTTTT
Found at i:2013226 original size:2 final size:2
Alignment explanation
Indices: 2013214--2013252 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
2013204 CGCGAAAAGA
*
2013214 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2013253 GGTTAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:2014437 original size:2 final size:2
Alignment explanation
Indices: 2014432--2014470 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
2014422 TTTGTGTGTG
* *
2014432 TA TA TA TT TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2014471 TAAAGTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:2014671 original size:2 final size:2
Alignment explanation
Indices: 2014666--2014705 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2014656 ATAATTTAAA
*
2014666 CT CT CT CT CT CT CT CT CT CT CT CT CA CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2014706 ATATATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:2014710 original size:2 final size:2
Alignment explanation
Indices: 2014705--2014745 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2014695 TCTCTCTCTC
2014705 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2014746 TAAAACTACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2014982 original size:13 final size:12
Alignment explanation
Indices: 2014943--2014993 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
2014933 ATCTCTTTCA
2014943 TCTCA-TTCTTC
1 TCTCATTTCTTC
* *
2014954 TCTTCAATTCCT-
1 TC-TCATTTCTTC
2014966 TCTCATTTCCTTC
1 TCTCATTT-CTTC
2014979 TCTCATTTCTTC
1 TCTCATTTCTTC
2014991 TCT
1 TCT
2014994 AAGTTTCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 7 0.21
12 14 0.42
13 12 0.36
ACGTcount: A:0.10, C:0.35, G:0.00, T:0.55
Consensus pattern (12 bp):
TCTCATTTCTTC
Found at i:2014990 original size:23 final size:21
Alignment explanation
Indices: 2014934--2014992 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
2014924 CTAGTTTTTA
*
2014934 TCTC-TTTCATCTCATTCTTC
1 TCTCATTTCTTCTCATTCTTC
*
2014954 TCTTCAATTCCTTCTCATTTCCTTC
1 TC-TC-ATTTCTTCTCA-TT-CTTC
2014979 TCTCATTTCTTCTC
1 TCTCATTTCTTCTC
2014993 TAAGTTTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
23 17 0.55
24 4 0.13
25 6 0.19
ACGTcount: A:0.10, C:0.36, G:0.00, T:0.54
Consensus pattern (21 bp):
TCTCATTTCTTCTCATTCTTC
Found at i:2016744 original size:32 final size:32
Alignment explanation
Indices: 2016702--2016779 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
2016692 CAGTGTGTTA
*
2016702 CATTCAGATAATGCACAACAGTGTCAGTA-TTG
1 CATTCAGATAATGCACAACAATGTCAG-AGTTG
* * *
2016734 TATTTAGATAATGCACAATAATGTCAGAGTTG
1 CATTCAGATAATGCACAACAATGTCAGAGTTG
2016766 CATTCAGATAATGC
1 CATTCAGATAATGC
2016780 GTAGCAGTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 1 0.03
32 38 0.97
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (32 bp):
CATTCAGATAATGCACAACAATGTCAGAGTTG
Found at i:2024557 original size:23 final size:23
Alignment explanation
Indices: 2024531--2024611 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
2024521 TATTATATGG
* **
2024531 CACTTCGGTGTATTTCTACGCGA
1 CACTTCGGTGCAAATCTACGCGA
* *
2024554 CACTTCGGTGCAAATCTACGTGG
1 CACTTCGGTGCAAATCTACGCGA
*
2024577 CACTTCGGTGCAAATCTACGTGGA
1 CACTTCGGTGCAAATCTACG-CGA
2024601 -ACTTCGGTGCA
1 CACTTCGGTGCA
2024612 TTTATACGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 49 0.98
24 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
CACTTCGGTGCAAATCTACGCGA
Found at i:2024619 original size:23 final size:23
Alignment explanation
Indices: 2024555--2024611 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
2024545 TCTACGCGAC
*
2024555 ACTTCGGTGCAAATCTACGTGGC
1 ACTTCGGTGCAAATCTACGTGGA
2024578 ACTTCGGTGCAAATCTACGTGGA
1 ACTTCGGTGCAAATCTACGTGGA
2024601 ACTTCGGTGCA
1 ACTTCGGTGCA
2024612 TTTATACGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (23 bp):
ACTTCGGTGCAAATCTACGTGGA
Found at i:2030525 original size:20 final size:20
Alignment explanation
Indices: 2030500--2030554 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2030490 GAACAACTTT
*
2030500 GAGGTGTATCAATACATTCA
1 GAGGTGTACCAATACATTCA
*
2030520 GAGGTGTACCGATACATTCA
1 GAGGTGTACCAATACATTCA
*
2030540 GAGGTGTACCGATAC
1 GAGGTGTACCAATAC
2030555 CTGTGTATCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (20 bp):
GAGGTGTACCAATACATTCA
Found at i:2031282 original size:23 final size:23
Alignment explanation
Indices: 2031251--2031313 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
2031241 TATATGGCAC
*
2031251 TTCGATGCATTTCTACG-CGACAA
1 TTCGGTGCATTTCTACGTCGA-AA
** * *
2031274 TTCGGTGCAAATCTACGTGGAAC
1 TTCGGTGCATTTCTACGTCGAAA
*
2031297 TTCGGTGCATTTATACG
1 TTCGGTGCATTTCTACG
2031314 AGCTGTGGTG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
23 29 0.94
24 2 0.06
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (23 bp):
TTCGGTGCATTTCTACGTCGAAA
Found at i:2033948 original size:17 final size:17
Alignment explanation
Indices: 2033913--2033948 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2033903 CTTTTAAATT
*
2033913 ATAAAATATTTAATAAA
1 ATAAAATATTAAATAAA
*
2033930 ATAAAATATTAAATTAA
1 ATAAAATATTAAATAAA
2033947 AT
1 AT
2033949 TTGGATAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAAATATTAAATAAA
Found at i:2035035 original size:39 final size:39
Alignment explanation
Indices: 2034986--2035064 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 39
2034976 TTTTATTTAC
2034986 TTTTAAATG-ATTAA-AATAAATTATTAAGTAATAAAATAT
1 TTTTAAATGAATTAATAATAAATTATTAA--AATAAAATAT
* *
2035025 TTTTTAATGATATTAATATTAAATTATTAAAATAAAATAT
1 TTTTAAATGA-ATTAATAATAAATTATTAAAATAAAATAT
2035065 AAATACATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 8 0.23
40 10 0.29
41 5 0.14
42 12 0.34
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (39 bp):
TTTTAAATGAATTAATAATAAATTATTAAAATAAAATAT
Found at i:2036519 original size:2 final size:2
Alignment explanation
Indices: 2036512--2036549 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2036502 TAATAATCAG
2036512 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2036550 GCAGTAGCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2037844 original size:19 final size:19
Alignment explanation
Indices: 2037820--2037857 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
2037810 AAACTAAAAA
2037820 TCTT-AATAAAATAACTAAT
1 TCTTAAATAAAATAA-TAAT
2037839 TCTTAAATAAAATAATAAT
1 TCTTAAATAAAATAATAAT
2037858 AGAATAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
TCTTAAATAAAATAATAAT
Found at i:2038528 original size:26 final size:26
Alignment explanation
Indices: 2038499--2038555 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
2038489 TTCAAGCACT
2038499 TATTTT-TTTCTCTTTTTCTTTTTTGA
1 TATTTTGTTTCTCTTTTT-TTTTTTGA
*
2038525 TATTTTGTTTTTCTTTTTTTTTTTGA
1 TATTTTGTTTCTCTTTTTTTTTTTGA
*
2038551 AATTT
1 TATTT
2038556 CTTACTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.77
Consensus pattern (26 bp):
TATTTTGTTTCTCTTTTTTTTTTTGA
Found at i:2039158 original size:26 final size:27
Alignment explanation
Indices: 2039108--2039160 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
2039098 ATACGTAGTG
2039108 TACCTAAAAAATATAAAGAAAAATAAA
1 TACCTAAAAAATATAAAGAAAAATAAA
*
2039135 TACC-AAAAAATA-AAATAAATAATAAA
1 TACCTAAAAAATATAAAGAAA-AATAAA
2039161 ACAGGTTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 6 0.25
26 14 0.58
27 4 0.17
ACGTcount: A:0.72, C:0.08, G:0.02, T:0.19
Consensus pattern (27 bp):
TACCTAAAAAATATAAAGAAAAATAAA
Found at i:2044608 original size:12 final size:12
Alignment explanation
Indices: 2044566--2044616 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
2044556 AATGGGGATT
2044566 TAAAATTAATGAA
1 TAAAA-TAATGAA
*
2044579 TAAAATAAATAAA
1 TAAAAT-AATGAA
*
2044592 T-AAATATTGAA
1 TAAAATAATGAA
2044603 TAAAATAAT-AA
1 TAAAATAATGAA
2044614 TAA
1 TAA
2044617 TGAGAACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 10 0.31
12 11 0.34
13 11 0.34
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
TAAAATAATGAA
Found at i:2045219 original size:13 final size:13
Alignment explanation
Indices: 2045201--2045233 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2045191 AGCATTGTGA
*
2045201 AAAGAAAATAATG
1 AAAGAAAATAAAG
2045214 AAAGAAAATAAAG
1 AAAGAAAATAAAG
2045227 AAAGAAA
1 AAAGAAA
2045234 GAAAGATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (13 bp):
AAAGAAAATAAAG
Found at i:2045424 original size:19 final size:19
Alignment explanation
Indices: 2045392--2045437 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2045382 TAAAAATATT
*
2045392 AATAA-AATTTCT-AATAA
1 AATAATAATTCCTAAATAA
2045409 AATAACTAATTCCTAAATAA
1 AATAA-TAATTCCTAAATAA
2045429 AATAATAAT
1 AATAATAAT
2045438 AGAATAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
19 10 0.40
20 10 0.40
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAATAATTCCTAAATAA
Found at i:2045726 original size:16 final size:17
Alignment explanation
Indices: 2045693--2045731 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
2045683 CTTAGTAGTA
2045693 AATAAAAGATAAATAAT
1 AATAAAAGATAAATAAT
*
2045710 AATAAAA-ATATATAAT
1 AATAAAAGATAAATAAT
*
2045726 ATTAAA
1 AATAAA
2045732 CTCTCATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
AATAAAAGATAAATAAT
Found at i:2047530 original size:59 final size:60
Alignment explanation
Indices: 2047357--2047530 Score: 172
Period size: 60 Copynumber: 2.9 Consensus size: 60
2047347 GTATATACGT
* * * *
2047357 ATAGTTTGGGATGAAATTGGAACACTCAACAAGTTTAGGGACTAATTTAGAAT-AAAGATC
1 ATAGTTTAGGATGAAATTGAAATATTCAA-AAGTTTAGGGACTAATTTAGAATGAAAGATC
* * * * * * * * *
2047417 ATAGTTTTGGAATGAAAATGAGATGTTCAAGAGTTTAAGGACTATTTTAGAATGATA-TTC
1 ATAGTTTAGG-ATGAAATTGAAATATTCAAAAGTTTAGGGACTAATTTAGAATGAAAGATC
* * *
2047477 ATAGTTTAGGATGAAATTGAAATATTTAAAAGTTTAGGGACCAATTTAAAATGA
1 ATAGTTTAGGATGAAATTGAAATATTCAAAAGTTTAGGGACTAATTTAGAATGA
2047531 GGATCAAACT
Statistics
Matches: 90, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
59 35 0.39
60 40 0.44
61 15 0.17
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (60 bp):
ATAGTTTAGGATGAAATTGAAATATTCAAAAGTTTAGGGACTAATTTAGAATGAAAGATC
Found at i:2049805 original size:30 final size:30
Alignment explanation
Indices: 2049746--2049814 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
2049736 GATCGTTTTC
* *
2049746 AAAAGTTAAATTAATATTTTATCTAAAATT
1 AAAAATTAAATTAATATTTCATCTAAAATT
* *
2049776 CAAGATTAAATTAATATTTCATC-ACAAATT
1 AAAAATTAAATTAATATTTCATCTA-AAATT
2049806 AAAAATTAA
1 AAAAATTAA
2049815 TTGTTTTACT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAAATTAAATTAATATTTCATCTAAAATT
Found at i:2050756 original size:14 final size:14
Alignment explanation
Indices: 2050737--2050793 Score: 114
Period size: 14 Copynumber: 4.1 Consensus size: 14
2050727 TCACATCGTG
2050737 TATTCTTGGCATCA
1 TATTCTTGGCATCA
2050751 TATTCTTGGCATCA
1 TATTCTTGGCATCA
2050765 TATTCTTGGCATCA
1 TATTCTTGGCATCA
2050779 TATTCTTGGCATCA
1 TATTCTTGGCATCA
2050793 T
1 T
2050794 GGTTGATTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 43 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (14 bp):
TATTCTTGGCATCA
Found at i:2055254 original size:84 final size:84
Alignment explanation
Indices: 2055059--2055978 Score: 852
Period size: 84 Copynumber: 10.9 Consensus size: 84
2055049 TCTGTTAGCC
* * * * * *
2055059 AAGACCTTCAAGTTTGATTACACTCAGCTTCGAGGGCACATCATTGGCAGCATAACTAAAGGCTA
1 AAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
*
2055124 GAAGGGTTATCTTCCAA-CA
65 GAAGGGTTATCTGCCAACCA
* ** * * * *
2055143 AAGACCTTCGAGTTCGACTACGTTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAG
* * * *
2055208 AAGGGCTATTTTCTAACCA
66 AAGGGTTATCTGCCAACCA
* *
2055227 AAGACCTTCGAGTTCGATTACACTCAGCTTAGAGGGCACATCATTTGCAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCA-AAGGCACATCATTTGCAGCATAACTCAAGGCTA
2055292 GAAGGGTTATCTGCCAA-CA
65 GAAGGGTTATCTGCCAACCA
* ** * ** *
2055311 AAGACCTTCGAGTTCGACTATGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTAAAATCGAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAG
* * *
2055376 AATGGCTATCTGCCAACTA
66 AAGGGTTATCTGCCAACCA
** * *
2055395 AAGACCTTCGAG-TCTGATTACACTCAGCTTCAGGGGCATATCATTTGTAGCATAACTCAAGGCT
1 AAGACCTTCGAGTTC-GATTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAACTCAAGGCT
2055459 AGAAGGGTTATCTGCCAACCAACA
64 AGAAGGGTTATCTGCCAA-C--CA
* * * * * ** * * * *
2055483 AAGACTTTCGAGTTCGACTACGCTCAGCTCAAAGGTATATCATTTATAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAG
* *
2055548 AAGGGCTATCTGCTAACCA
66 AAGGGTTATCTGCCAACCA
** *
2055567 AAGACCTTCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTGCAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAACTCAAGGCTA
*
2055632 GAAGGGTTATCTGCCAA-TA
65 GAAGGGTTATCTGCCAACCA
* * * * * * * * * * *
2055651 AACACCTTCGAGTTCGACTACGCACAGTTCAAAGGCACATCATTTGCAGAATAGCTTAAGTCGAT
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAG
* *
2055716 AAGGGCTATCTACCAACCA
66 AAGGGTTATCTGCCAACCA
* * * * * * * * *
2055735 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAGTATAGCTTAAGTCAAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAG
* *
2055800 AAGGGATATCTG----TCA
66 AAGGGTTATCTGCCAACCA
* * * *
2055815 AAGTCCTTCGAGTTCGATTACACTCAGCTTC-GAGTGCACATTATTTACAGCATAACTCAAGGCT
1 AAGACCTTCGAGTTCGATTACACTCAGC-TCAAAG-GCACATCATTTGCAGCATAACTCAAGGCT
**
2055879 AGAAGGGTTATCTATC-ACCAA
64 AGAAGGGTTATCTGCCAACC-A
* * * * * * *
2055900 AAGACCTTCGAGTTCGATTACACTCAGCTCAGAGGCAAACCAAATTTACAGAATAGCTCAAGGCA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAACTCAAGGCT
*
2055965 ATAAGGGTTATCTG
64 AGAAGGGTTATCTG
2055979 TCAATAAATT
Statistics
Matches: 680, Mismatches: 136, Indels: 38
0.80 0.16 0.04
Matches are distributed among these distances:
80 29 0.04
81 35 0.05
83 130 0.19
84 230 0.34
85 155 0.23
86 33 0.05
87 43 0.06
88 23 0.03
89 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (84 bp):
AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCTAG
AAGGGTTATCTGCCAACCA
Found at i:2055340 original size:168 final size:168
Alignment explanation
Indices: 2055059--2055978 Score: 1086
Period size: 168 Copynumber: 5.5 Consensus size: 168
2055049 TCTGTTAGCC
* * * * *
2055059 AAGACCTTCAAGTTTGATTACACTCAGCTTCGAGGGCACATCATTGGCAGCATAACTAAAGGCTA
1 AAGACCTTCGAGTTCGATTACACTCAGCTTAGAGGGCACATCATTTGCAGCATAACTCAAGGCTA
* *
2055124 GAAGGGTTATCTTCCAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCAAAGGCACATCATTTG
66 GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTG
* * *
2055189 CAGCATAGCTTAAGTCGAGAAGGGCTATTTTCTAACCA
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCA
2055227 AAGACCTTCGAGTTCGATTACACTCAGCTTAGAGGGCACATCATTTGCAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGATTACACTCAGCTTAGAGGGCACATCATTTGCAGCATAACTCAAGGCTA
*
2055292 GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTATGCTCAGCTCAAAGGCACATCATTTG
66 GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTG
* * * * *
2055357 CAGCATAACTAAAATCGAGAATGGCTATCTGCCAACTA
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCA
* *
2055395 AAGACCTTCGAG-TCTGATTACACTCAGCTTCAG-GGGCATATCATTTGTAGCATAACTCAAGGC
1 AAGACCTTCGAGTTC-GATTACACTCAGCTT-AGAGGGCACATCATTTGCAGCATAACTCAAGGC
* * *
2055458 TAGAAGGGTTATCTGCCAACCAACAAAGACTTTCGAGTTCGACTACGCTCAGCTCAAAGGTATAT
64 TAGAAGGGTTATCTG----CCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACAT
** *
2055523 CATTTATAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAACCA
125 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCA
*
2055567 AAGACCTTCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTGCAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGATTACACTCAGCTTAGAGGGCACATCATTTGCAGCATAACTCAAGGCTA
* * * *
2055632 GAAGGGTTATCTGCCAATAAACACCTTCGAGTTCGACTACGCACAGTTCAAAGGCACATCATTTG
66 GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTG
* * *
2055697 CAGAATAGCTTAAGTCGATAAGGGCTATCTACCAACCA
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCA
* * * * * * * * *
2055735 AAGACCTTCGAGTTCGACTACGCTCAGCTCCA-A-GGTACATCATTTGCAGTATAGCTTAAGTCA
1 AAGACCTTCGAGTTCGATTACACTCAGCT-TAGAGGGCACATCATTTGCAGCATAACTCAAGGCT
* * * * * * *
2055798 AGAAGGGATATCTG---TCAAAGTCCTTCGAGTTCGATTACACTCAGCTTC-GAGTGCACATTAT
65 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAG-GCACATCAT
* * * * * * **
2055859 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTATC-ACCAA
128 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACC-A
* * * * * *
2055900 AAGACCTTCGAGTTCGATTACACTCAGCTCAGA-GGCAAACCAAATTTACAGAATAGCTCAAGGC
1 AAGACCTTCGAGTTCGATTACACTCAGCTTAGAGGGCACATC--ATTTGCAGCATAACTCAAGGC
* *
2055964 AATAAGGGTTATCTG
64 TAGAAGGGTTATCTG
2055979 TCAATAAATT
Statistics
Matches: 650, Mismatches: 87, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
164 30 0.05
165 71 0.11
167 69 0.11
168 327 0.50
169 2 0.00
171 1 0.00
172 148 0.23
173 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (168 bp):
AAGACCTTCGAGTTCGATTACACTCAGCTTAGAGGGCACATCATTTGCAGCATAACTCAAGGCTA
GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTG
CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCA
Found at i:2055685 original size:340 final size:336
Alignment explanation
Indices: 2055059--2055978 Score: 1111
Period size: 340 Copynumber: 2.7 Consensus size: 336
2055049 TCTGTTAGCC
* *
2055059 AAGACCTTCAAGTTTGATTACACTCAGCTTCGAGGGCACATCATTGGCAGCATAACTAAAGGCTA
1 AAGACCTTCGAGTCTGATTACACTCAGCTTCGAGGGCACATCATTGGCAGCATAACTAAAGGCTA
* * *
2055124 GAAGGGTTATCTTCCAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCAAAGGCACATCATTTG
66 GAAGGGTTATCTACCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTA
* *
2055189 CAGCATAGCTTAAGTCGAGAAGGGCTATTTTCTAACCAAAGACCTTCGAGTTCGATTACACTCAG
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAACCAAAGACCTTCGAGTTCGATTACACTCAG
*
2055254 CTTAGAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTT
196 CTTAGAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAACACCTT
* * * *
2055319 CGAGTTCGACTATGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTAAAATCGAGAATGGCTA
261 CGAGTTCGACTACGCACAGCTCAAAGGCACATCATTTGCAGAATAACTAAAATCGAGAAGGGCTA
* *
2055384 TCTGCCAACTA
326 TCTACCAACCA
* * * *
2055395 AAGACCTTCGAGTCTGATTACACTCAGCTTC-AGGGGCATATCATTTGTAGCATAACTCAAGGCT
1 AAGACCTTCGAGTCTGATTACACTCAGCTTCGA-GGGCACATCATTGGCAGCATAACTAAAGGCT
* * *
2055459 AGAAGGGTTATCTGCCAACCAACAAAGACTTTCGAGTTCGACTACGCTCAGCTCAAAGGTATATC
65 AGAAGGGTTATCT----ACCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATC
*
2055524 ATTTATAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAACCAAAGACCTTCGAGTTCGATTACA
126 ATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAACCAAAGACCTTCGAGTTCGATTACA
* *
2055589 CTCAGCTTTGAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAATAAAC
191 CTCAGCTTAGAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAC
* * * * *
2055654 ACCTTCGAGTTCGACTACGCACAGTTCAAAGGCACATCATTTGCAGAATAGCTTAAGTCGATAAG
256 ACCTTCGAGTTCGACTACGCACAGCTCAAAGGCACATCATTTGCAGAATAACTAAAATCGAGAAG
2055719 GGCTATCTACCAACCA
321 GGCTATCTACCAACCA
* * * * * * * * * * *
2055735 AAGACCTTCGAGT-TCGACTACGCTCAGC-TCCAAGGTACATCATTTGCAGTATAGCTTAAGTCA
1 AAGACCTTCGAGTCT-GATTACACTCAGCTTCGAGGGCACATCATTGGCAGCATAACTAAAGGCT
* ** * * * * *
2055798 AGAAGGGATATCT---GTCAAAGTCCTTCGAGTTCGATTACACTCAGCTTC-GAGTGCACATTAT
65 AGAAGGGTTATCTACCAACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAG-GCACATCAT
* * * * * * *
2055859 TTACAGCATAACTCAAGGCTAGAAGGGTTATCT-ATCACCAAAAGACCTTCGAGTTCGATTACAC
128 TTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAACC-AAAGACCTTCGAGTTCGATTACAC
* * * * * * * *
2055923 TCAGCTCAGA-GGCAAACCAAATTTACAGAATAGCTCAAGGCAATAAGGGTTATCTG
192 TCAGCTTAGAGGGCACATC--ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTG
2055979 TCAATAAATT
Statistics
Matches: 504, Mismatches: 68, Indels: 26
0.84 0.11 0.04
Matches are distributed among these distances:
332 38 0.08
333 67 0.13
334 31 0.06
335 1 0.00
336 69 0.14
339 37 0.07
340 261 0.52
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (336 bp):
AAGACCTTCGAGTCTGATTACACTCAGCTTCGAGGGCACATCATTGGCAGCATAACTAAAGGCTA
GAAGGGTTATCTACCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTA
CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAACCAAAGACCTTCGAGTTCGATTACACTCAG
CTTAGAGGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAACACCTT
CGAGTTCGACTACGCACAGCTCAAAGGCACATCATTTGCAGAATAACTAAAATCGAGAAGGGCTA
TCTACCAACCA
Found at i:2056442 original size:16 final size:17
Alignment explanation
Indices: 2056421--2056455 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2056411 TTTTCGTTCC
2056421 ACGAAAAAT-GACAAAG
1 ACGAAAAATAGACAAAG
2056437 ACGAAAAATAGGACAAAG
1 ACGAAAAATA-GACAAAG
2056455 A
1 A
2056456 GGGGCAGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
18 8 0.47
ACGTcount: A:0.63, C:0.11, G:0.20, T:0.06
Consensus pattern (17 bp):
ACGAAAAATAGACAAAG
Found at i:2056611 original size:38 final size:37
Alignment explanation
Indices: 2056555--2056757 Score: 198
Period size: 38 Copynumber: 5.3 Consensus size: 37
2056545 TTGCAAACGG
*
2056555 TTTTTGAAAATATATATATAATATATGGTTTTTAAAAAACA
1 TTTTTG-AAA-AT-TATATAATATATAGTTTTT-AAAAACA
*
2056596 -TTTTGAAAATGTATATAATATATAGTTTTTAAAATGC-
1 TTTTTGAAAAT-TATATAATATATAGTTTTTAAAA-ACA
* *
2056633 -CTTTGAAAACTATATAATATATAGTTTTT-AAAACA
1 TTTTTGAAAATTATATAATATATAGTTTTTAAAAACA
* *
2056668 TTTTTAGAAAGTATATATAATATATAGTTTTTAAAATCA
1 TTTTT-GAAAAT-TATATAATATATAGTTTTTAAAAACA
* *
2056707 TTTTTGAAAACTTATATAATATGTAGTTTTTGAAAATATA
1 TTTTTGAAAA-TTATATAATATATAGTTTTT-AAAA-ACA
2056747 GTTTTTGAAAA
1 -TTTTTGAAAA
2056758 CATTTTTGAA
Statistics
Matches: 138, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
34 1 0.01
35 3 0.02
36 22 0.16
37 16 0.12
38 62 0.45
39 18 0.13
40 6 0.04
41 10 0.07
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (37 bp):
TTTTTGAAAATTATATAATATATAGTTTTTAAAAACA
Found at i:2056654 original size:74 final size:76
Alignment explanation
Indices: 2056569--2056742 Score: 232
Period size: 74 Copynumber: 2.3 Consensus size: 76
2056559 TGAAAATATA
* *
2056569 TATATAATATATGGTTTTTAAAAAACA-TTTT-GAAAATGTATATAATATATAGTTTTTAAAATG
1 TATATAATATATAGTTTTT-AAAAACATTTTTAGAAAATATATATAATATATAGTTTTTAAAAT-
2056632 C-CTTTGAAAAC-
64 CACTTTGAAAACT
*
2056643 TATATAATATATAGTTTTT-AAAACATTTTTAGAAAGTATATATAATATATAGTTTTTAAAATCA
1 TATATAATATATAGTTTTTAAAAACATTTTTAGAAAATATATATAATATATAGTTTTTAAAATCA
*
2056707 TTTTTGAAAACT
66 -CTTTGAAAACT
* *
2056719 TATATAATATGTAGTTTTTGAAAA
1 TATATAATATATAGTTTTTAAAAA
2056743 TATAGTTTTT
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
72 6 0.07
73 5 0.06
74 47 0.53
75 9 0.10
76 18 0.20
77 4 0.04
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (76 bp):
TATATAATATATAGTTTTTAAAAACATTTTTAGAAAATATATATAATATATAGTTTTTAAAATCA
CTTTGAAAACT
Found at i:2056792 original size:55 final size:52
Alignment explanation
Indices: 2056689--2056796 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 52
2056679 TATATATAAT
* *
2056689 ATATAGTTTTTAAAATCATTTTTGAAAACTTATATAATATGTAGTTTTTGAAA
1 ATATAGTTTTTAAAATCATTTTTGAAAACTTATATAATATATAATTTTT-AAA
2056742 ATATAGTTTTTGAAAA-CATTTTTGAAAACTTATATATAATATATAATTTTTAAA
1 ATATAGTTTTT-AAAATCATTTTTGAAAAC-T-TATATAATATATAATTTTTAAA
2056796 A
1 A
2056797 CATTATTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
53 24 0.48
54 9 0.18
55 17 0.34
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (52 bp):
ATATAGTTTTTAAAATCATTTTTGAAAACTTATATAATATATAATTTTTAAA
Found at i:2056840 original size:28 final size:28
Alignment explanation
Indices: 2056781--2056858 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
2056771 TTATATATAA
* **
2056781 TATATAATTTTTAAAACATTATTGAAAAT
1 TATATAGTTTTTAAAA-AAAATTGAAAAT
2056810 TATATAGTTTTTAAAAAAAATT-AAATAT
1 TATATAGTTTTTAAAAAAAATTGAAA-AT
*
2056838 TATATAGTTTTTTAAAAAAAT
1 TATATAGTTTTTAAAAAAAAT
2056859 ATTTTTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 3 0.07
28 26 0.59
29 15 0.34
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (28 bp):
TATATAGTTTTTAAAAAAAATTGAAAAT
Found at i:2056918 original size:3 final size:3
Alignment explanation
Indices: 2056910--2056954 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
2056900 TTTTTTATAT
*
2056910 TTA TTA TTA TTA TTA TTA CTTA TTA TTA CTTA TTT TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TT
2056955 TTTTGTTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2056932 original size:10 final size:10
Alignment explanation
Indices: 2056910--2056943 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
2056900 TTTTTTATAT
2056910 TTATTATTA-
1 TTATTATTAC
2056919 TTATTATTAC
1 TTATTATTAC
2056929 TTATTATTAC
1 TTATTATTAC
2056939 TTATT
1 TTATT
2056944 TTTATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATTATTAC
Found at i:2058194 original size:3 final size:3
Alignment explanation
Indices: 2058181--2058229 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
2058171 TCCTCAGCCC
2058181 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2058228 TT
1 TT
2058230 TATTCTTTCC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2059022 original size:28 final size:27
Alignment explanation
Indices: 2058973--2059033 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 27
2058963 TTATTTTGGT
*
2058973 TATATATATATATAGTTTTGAAATATA
1 TATATATATATATAGTTTTGAAAAATA
2059000 TATATATATAGTATAGTTTTGAAAAATA
1 TATATATATA-TATAGTTTTGAAAAATA
*
2059028 AATATA
1 TATATA
2059034 GTTTTGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (27 bp):
TATATATATATATAGTTTTGAAAAATA
Found at i:2059047 original size:2 final size:2
Alignment explanation
Indices: 2059040--2059075 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2059030 TATAGTTTTG
2059040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2059076 GTTTGAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2059093 original size:19 final size:20
Alignment explanation
Indices: 2059071--2059112 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2059061 TATATATATA
*
2059071 ATATAGT-TTGAAAATAAAT
1 ATATAGTATTAAAAATAAAT
*
2059090 ATATAGTATTAAAAATATAT
1 ATATAGTATTAAAAATAAAT
2059110 ATA
1 ATA
2059113 GATATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
ATATAGTATTAAAAATAAAT
Found at i:2059203 original size:3 final size:3
Alignment explanation
Indices: 2059195--2059272 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
2059185 TATGTTTTCG
2059195 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2059243 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2059273 ATGTTTATTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2067793 original size:38 final size:38
Alignment explanation
Indices: 2067738--2068166 Score: 509
Period size: 38 Copynumber: 10.8 Consensus size: 38
2067728 GAAACTTCAA
* **
2067738 CTTGACTTCCCCGTGAAGAGGGGT-AAGTCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAA-TCTTTGTTATT
*
2067776 CTTTACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * *
2067814 CTTGACTCCCTCGTGAAGAGGAGTCAATCTTTTTTTATTT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATC-TTTGTTA-TT
2067854 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
2067892 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
*
2067930 CTTGACTTCCTCGTGAAGAGAAATCAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * *
2067968 ATTGACTTCCTCGTGAAGAGAAGTCAATCCTTATTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
** *
2068006 AGTGAATCTTTCTTATTCTTGAATTCTTCATGAAGAGAAGTCAATCTTTGTTATT
1 CTTG-A-C-TTC-----C-T--------CGTGAAGAGAAGTCAATCTTTGTTATT
*
2068061 ATTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
*
2068099 CTTGACTTCCTCTTGAAGAGAAGTCAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* *
2068137 CTTGACTTCCTCATAAAGAGAAGTCAATCT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCT
2068167 CTCGGTATTG
Statistics
Matches: 345, Mismatches: 26, Indels: 40
0.84 0.06 0.10
Matches are distributed among these distances:
38 261 0.76
39 15 0.04
40 30 0.09
41 3 0.01
46 2 0.01
47 2 0.01
52 3 0.01
53 1 0.00
54 1 0.00
55 27 0.08
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (38 bp):
CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
Done.